Query 033853
Match_columns 110
No_of_seqs 27 out of 29
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 07:02:19 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033853.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033853hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF13893 RRM_5: RNA recognitio 97.2 0.00036 7.8E-09 41.8 2.6 25 2-26 32-56 (56)
2 PLN03134 glycine-rich RNA-bind 95.5 0.013 2.7E-07 42.6 2.9 28 2-29 87-114 (144)
3 TIGR01628 PABP-1234 polyadenyl 94.9 0.024 5.1E-07 47.6 3.1 28 2-29 337-364 (562)
4 TIGR01661 ELAV_HUD_SF ELAV/HuD 94.7 0.027 5.9E-07 43.5 2.7 28 2-29 56-83 (352)
5 smart00361 RRM_1 RNA recogniti 94.6 0.028 6E-07 35.4 2.2 23 2-24 48-70 (70)
6 TIGR01659 sex-lethal sex-letha 94.2 0.041 8.8E-07 45.4 3.0 28 2-29 246-275 (346)
7 KOG0127 Nucleolar protein fibr 93.7 0.044 9.6E-07 50.0 2.4 28 2-29 169-196 (678)
8 TIGR01622 SF-CC1 splicing fact 93.0 0.21 4.5E-06 40.4 5.0 28 2-29 239-266 (457)
9 TIGR01622 SF-CC1 splicing fact 92.9 0.082 1.8E-06 42.7 2.5 28 2-29 421-448 (457)
10 cd00590 RRM RRM (RNA recogniti 92.3 0.16 3.5E-06 28.8 2.6 24 2-25 51-74 (74)
11 TIGR01648 hnRNP-R-Q heterogene 92.3 0.12 2.6E-06 46.1 2.9 28 2-29 280-307 (578)
12 TIGR01659 sex-lethal sex-letha 91.4 0.15 3.4E-06 42.1 2.6 28 2-29 160-187 (346)
13 TIGR01661 ELAV_HUD_SF ELAV/HuD 91.1 0.22 4.8E-06 38.5 3.0 28 2-29 142-171 (352)
14 COG0724 RNA-binding proteins ( 90.8 0.24 5.3E-06 33.7 2.6 26 2-27 168-193 (306)
15 smart00360 RRM RNA recognition 90.6 0.26 5.6E-06 27.6 2.2 23 2-24 49-71 (71)
16 smart00362 RRM_2 RNA recogniti 90.5 0.24 5.2E-06 27.9 2.0 23 2-24 50-72 (72)
17 TIGR01642 U2AF_lg U2 snRNP aux 90.3 0.26 5.6E-06 40.3 2.9 28 2-29 348-375 (509)
18 KOG0144 RNA-binding protein CU 88.0 0.5 1.1E-05 42.3 3.2 32 2-33 176-210 (510)
19 TIGR01628 PABP-1234 polyadenyl 87.6 0.47 1E-05 39.9 2.7 27 2-28 53-79 (562)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 87.3 0.59 1.3E-05 39.3 3.1 28 2-29 324-351 (481)
21 KOG0148 Apoptosis-promoting RN 87.1 0.44 9.5E-06 40.6 2.2 29 2-30 115-143 (321)
22 KOG0125 Ataxin 2-binding prote 86.3 0.54 1.2E-05 40.8 2.3 28 2-29 147-174 (376)
23 TIGR01649 hnRNP-L_PTB hnRNP-L/ 84.0 0.99 2.1E-05 38.0 2.9 28 2-29 145-174 (481)
24 TIGR01645 half-pint poly-U bin 82.4 1 2.2E-05 40.7 2.5 27 2-28 160-186 (612)
25 PF11608 Limkain-b1: Limkain b 82.4 1.4 3.1E-05 31.7 2.8 28 2-29 50-77 (90)
26 KOG0131 Splicing factor 3b, su 82.0 1.2 2.7E-05 35.9 2.6 28 2-29 150-177 (203)
27 KOG0123 Polyadenylate-binding 81.7 0.56 1.2E-05 39.4 0.6 28 2-29 322-349 (369)
28 KOG4207 Predicted splicing fac 80.7 1 2.2E-05 37.4 1.7 28 2-29 66-93 (256)
29 KOG0130 RNA-binding protein RB 78.7 1.5 3.3E-05 34.5 2.1 26 2-27 125-150 (170)
30 KOG0123 Polyadenylate-binding 78.0 2.2 4.7E-05 35.9 2.9 28 2-29 126-153 (369)
31 KOG0124 Polypyrimidine tract-b 73.5 2.1 4.5E-05 38.3 1.8 25 2-26 166-190 (544)
32 PF03880 DbpA: DbpA RNA bindin 70.1 4.3 9.3E-05 26.2 2.2 25 2-26 50-74 (74)
33 TIGR01645 half-pint poly-U bin 69.2 4.5 9.7E-05 36.7 2.9 27 2-28 257-283 (612)
34 PLN03120 nucleic acid binding 68.1 5.4 0.00012 32.9 2.9 27 2-29 54-80 (260)
35 PF08394 Arc_trans_TRASH: Arch 65.5 4.8 0.0001 24.5 1.6 19 13-31 5-23 (37)
36 TIGR01642 U2AF_lg U2 snRNP aux 65.5 4 8.6E-05 33.5 1.7 27 1-28 233-259 (509)
37 KOG0114 Predicted RNA-binding 65.0 6.7 0.00014 29.7 2.7 24 2-25 68-91 (124)
38 PF14193 DUF4315: Domain of un 61.8 8.3 0.00018 26.8 2.5 17 61-77 14-30 (83)
39 KOG0145 RNA-binding protein EL 57.7 9.9 0.00022 32.8 2.8 28 2-29 180-209 (360)
40 COG3132 Uncharacterized protei 55.8 41 0.0009 27.5 5.9 73 1-77 128-207 (215)
41 KOG0108 mRNA cleavage and poly 52.3 13 0.00027 32.6 2.6 29 1-29 70-98 (435)
42 PF04380 BMFP: Membrane fusoge 49.7 18 0.00038 24.3 2.5 16 61-76 63-78 (79)
43 TIGR01648 hnRNP-R-Q heterogene 48.3 13 0.00027 33.6 2.0 28 2-29 110-138 (578)
44 KOG2202 U2 snRNP splicing fact 47.3 14 0.00031 30.8 2.1 27 2-28 121-147 (260)
45 PRK13677 hypothetical protein; 41.0 19 0.0004 27.4 1.7 15 60-74 111-125 (125)
46 PLN03213 repressor of silencin 40.9 24 0.00052 32.9 2.7 32 3-34 62-93 (759)
47 PF07955 DUF1687: Protein of u 39.1 8.1 0.00017 28.5 -0.5 16 12-29 106-121 (133)
48 KOG1548 Transcription elongati 38.8 22 0.00048 31.2 2.0 23 2-24 325-347 (382)
49 KOG0110 RNA-binding protein (R 38.8 18 0.0004 34.0 1.6 28 2-29 666-693 (725)
50 PF15348 GEMIN8: Gemini of Caj 38.0 30 0.00064 27.6 2.5 27 59-85 174-200 (209)
51 PLN00019 photosystem I reactio 33.2 17 0.00038 29.8 0.5 42 64-108 86-135 (223)
52 KOG0110 RNA-binding protein (R 33.1 41 0.00089 31.8 2.9 26 2-27 571-596 (725)
53 PF11944 DUF3461: Protein of u 33.0 30 0.00065 26.2 1.7 15 60-74 111-125 (125)
54 PF05172 Nup35_RRM: Nup53/35/4 32.3 38 0.00082 23.9 2.0 26 2-28 65-91 (100)
55 PF11471 Sugarporin_N: Maltopo 31.9 63 0.0014 21.1 2.9 32 53-84 23-54 (60)
56 KOG0124 Polypyrimidine tract-b 31.4 31 0.00068 31.1 1.8 23 3-25 509-531 (544)
57 CHL00132 psaF photosystem I su 31.4 20 0.00044 28.7 0.6 42 64-108 46-95 (185)
58 KOG0115 RNA-binding protein p5 30.5 44 0.00095 28.3 2.4 98 3-100 6-121 (275)
59 KOG4212 RNA-binding protein hn 29.3 44 0.00094 30.8 2.4 26 2-27 97-122 (608)
60 KOG0111 Cyclophilin-type pepti 29.1 35 0.00076 28.9 1.6 32 2-33 63-94 (298)
61 KOG0147 Transcriptional coacti 28.4 1.1E+02 0.0024 28.2 4.7 29 2-30 331-359 (549)
62 PRK00315 potassium-transportin 27.3 71 0.0015 25.4 3.0 66 12-80 47-112 (193)
63 KOG0106 Alternative splicing f 27.2 26 0.00055 28.2 0.5 28 2-29 46-73 (216)
64 PF08461 HTH_12: Ribonuclease 26.8 59 0.0013 21.0 2.1 21 65-85 33-53 (66)
65 KOG1783 Small nuclear ribonucl 26.4 40 0.00088 23.8 1.3 17 16-32 14-31 (77)
66 KOG0226 RNA-binding proteins [ 23.4 36 0.00079 28.9 0.8 24 2-25 243-266 (290)
67 PHA02337 putative high light i 23.2 23 0.00049 21.6 -0.4 9 8-16 5-13 (35)
68 KOG0121 Nuclear cap-binding pr 22.6 76 0.0016 24.9 2.3 25 2-26 89-113 (153)
69 PRK11239 hypothetical protein; 22.2 1.8E+02 0.0038 23.8 4.4 25 2-29 131-156 (215)
70 KOG0151 Predicted splicing reg 21.1 83 0.0018 30.4 2.7 32 2-33 230-261 (877)
71 TIGR00681 kdpC K+-transporting 21.0 1.2E+02 0.0026 24.1 3.2 64 12-78 45-108 (187)
No 1
>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=97.17 E-value=0.00036 Score=41.76 Aligned_cols=25 Identities=44% Similarity=0.640 Sum_probs=24.1
Q ss_pred hHHHHHHHhhcceeccCCceEEEec
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLA 26 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A 26 (110)
++|+.|++.|||....|++|-|.||
T Consensus 32 ~~A~~a~~~l~~~~~~g~~l~V~~a 56 (56)
T PF13893_consen 32 EDAQKAIEQLNGRQFNGRPLKVSYA 56 (56)
T ss_dssp HHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred HHHHHHHHHhCCCEECCcEEEEEEC
Confidence 7899999999999999999999997
No 2
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=95.52 E-value=0.013 Score=42.60 Aligned_cols=28 Identities=29% Similarity=0.374 Sum_probs=26.3
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||..+.||+|.|.||.++
T Consensus 87 e~A~~Al~~lng~~i~Gr~l~V~~a~~~ 114 (144)
T PLN03134 87 GAATAAISEMDGKELNGRHIRVNPANDR 114 (144)
T ss_pred HHHHHHHHHcCCCEECCEEEEEEeCCcC
Confidence 6899999999999999999999999865
No 3
>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=94.90 E-value=0.024 Score=47.58 Aligned_cols=28 Identities=50% Similarity=0.739 Sum_probs=26.8
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||+.+.||||.|.||..+
T Consensus 337 ~~A~~A~~~~~g~~~~gk~l~V~~a~~k 364 (562)
T TIGR01628 337 EEANRAVTEMHGRMLGGKPLYVALAQRK 364 (562)
T ss_pred HHHHHHHHHhcCCeeCCceeEEEeccCc
Confidence 6899999999999999999999999976
No 4
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=94.70 E-value=0.027 Score=43.54 Aligned_cols=28 Identities=18% Similarity=0.234 Sum_probs=26.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||+.++|++|-|+||...
T Consensus 56 ~~A~~Ai~~l~g~~l~g~~i~v~~a~~~ 83 (352)
T TIGR01661 56 EDAEKAVNSLNGLRLQNKTIKVSYARPS 83 (352)
T ss_pred HHHHHHHhhcccEEECCeeEEEEeeccc
Confidence 7999999999999999999999999755
No 5
>smart00361 RRM_1 RNA recognition motif.
Probab=94.61 E-value=0.028 Score=35.42 Aligned_cols=23 Identities=26% Similarity=0.362 Sum_probs=21.3
Q ss_pred hHHHHHHHhhcceeccCCceEEE
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVR 24 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR 24 (110)
++|+.|++.|||+...||+|.|+
T Consensus 48 ~dA~~A~~~l~g~~~~gr~l~~~ 70 (70)
T smart00361 48 EDAARAIVDLNGRYFDGRTVKAE 70 (70)
T ss_pred HHHHHHHHHhCCCEECCEEEEeC
Confidence 68999999999999999999875
No 6
>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=94.24 E-value=0.041 Score=45.43 Aligned_cols=28 Identities=39% Similarity=0.567 Sum_probs=25.7
Q ss_pred hHHHHHHHhhcceeccC--CceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACG--RPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~g--RpLVVR~A~ek 29 (110)
++|+.|++.|||.+..+ +||.|+||.+.
T Consensus 246 e~A~~Ai~~lng~~~~g~~~~l~V~~a~~~ 275 (346)
T TIGR01659 246 EEAQEAISALNNVIPEGGSQPLTVRLAEEH 275 (346)
T ss_pred HHHHHHHHHhCCCccCCCceeEEEEECCcc
Confidence 78999999999999866 79999999987
No 7
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=93.74 E-value=0.044 Score=50.04 Aligned_cols=28 Identities=36% Similarity=0.482 Sum_probs=26.5
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
-+|+.|++.|||.-+.||||.|.||=.+
T Consensus 169 ~dA~~Al~~~N~~~i~gR~VAVDWAV~K 196 (678)
T KOG0127|consen 169 KDAEKALEFFNGNKIDGRPVAVDWAVDK 196 (678)
T ss_pred HHHHHHHHhccCceecCceeEEeeeccc
Confidence 3799999999999999999999999888
No 8
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=92.99 E-value=0.21 Score=40.37 Aligned_cols=28 Identities=43% Similarity=0.519 Sum_probs=26.0
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||..+.|++|.|.||...
T Consensus 239 e~A~~A~~~l~g~~i~g~~i~v~~a~~~ 266 (457)
T TIGR01622 239 EEAKEALEVMNGFELAGRPIKVGYAQDS 266 (457)
T ss_pred HHHHHHHHhcCCcEECCEEEEEEEccCC
Confidence 6899999999999999999999999854
No 9
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=92.88 E-value=0.082 Score=42.68 Aligned_cols=28 Identities=18% Similarity=0.277 Sum_probs=26.9
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||+...||+|+|.+..+.
T Consensus 421 e~A~~A~~~lnGr~f~gr~i~~~~~~~~ 448 (457)
T TIGR01622 421 DAALAAFQALNGRYFGGKMITAAFVVND 448 (457)
T ss_pred HHHHHHHHHhcCcccCCeEEEEEEEcHH
Confidence 6899999999999999999999999888
No 10
>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=92.33 E-value=0.16 Score=28.75 Aligned_cols=24 Identities=38% Similarity=0.603 Sum_probs=22.4
Q ss_pred hHHHHHHHhhcceeccCCceEEEe
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRL 25 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~ 25 (110)
++|..|++.++|...-|+++.|+|
T Consensus 51 ~~a~~a~~~~~~~~~~~~~~~v~~ 74 (74)
T cd00590 51 EDAEKALEALNGKELGGRPLRVEF 74 (74)
T ss_pred HHHHHHHHHhCCCeECCeEEEEeC
Confidence 689999999999999999999986
No 11
>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=92.25 E-value=0.12 Score=46.13 Aligned_cols=28 Identities=25% Similarity=0.341 Sum_probs=26.6
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||+.+.|++|.|.||+..
T Consensus 280 e~A~kAi~~lnG~~i~Gr~I~V~~Akp~ 307 (578)
T TIGR01648 280 EDAVKAMDELNGKELEGSEIEVTLAKPV 307 (578)
T ss_pred HHHHHHHHHhCCCEECCEEEEEEEccCC
Confidence 6899999999999999999999999875
No 12
>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=91.44 E-value=0.15 Score=42.06 Aligned_cols=28 Identities=18% Similarity=0.220 Sum_probs=25.9
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||..+.+++|.|.||...
T Consensus 160 e~A~~Ai~~LnG~~l~gr~i~V~~a~p~ 187 (346)
T TIGR01659 160 ADSQRAIKNLNGITVRNKRLKVSYARPG 187 (346)
T ss_pred HHHHHHHHHcCCCccCCceeeeeccccc
Confidence 6899999999999999999999999753
No 13
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=91.12 E-value=0.22 Score=38.51 Aligned_cols=28 Identities=29% Similarity=0.541 Sum_probs=24.8
Q ss_pred hHHHHHHHhhcceeccC--CceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACG--RPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~g--RpLVVR~A~ek 29 (110)
++|+.|++.|||...-| +||.|+||...
T Consensus 142 ~~A~~ai~~l~g~~~~g~~~~i~v~~a~~~ 171 (352)
T TIGR01661 142 DEADRAIKTLNGTTPSGCTEPITVKFANNP 171 (352)
T ss_pred HHHHHHHHHhCCCccCCCceeEEEEECCCC
Confidence 68999999999998866 79999999755
No 14
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=90.77 E-value=0.24 Score=33.71 Aligned_cols=26 Identities=38% Similarity=0.528 Sum_probs=24.4
Q ss_pred hHHHHHHHhhcceeccCCceEEEecc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLAS 27 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ 27 (110)
+.|+.|++.|||....||+|.|.++.
T Consensus 168 ~~~~~a~~~~~~~~~~~~~~~v~~~~ 193 (306)
T COG0724 168 ESAEKAIEELNGKELEGRPLRVQKAQ 193 (306)
T ss_pred HHHHHHHHHcCCCeECCceeEeeccc
Confidence 57999999999999999999999975
No 15
>smart00360 RRM RNA recognition motif.
Probab=90.60 E-value=0.26 Score=27.59 Aligned_cols=23 Identities=39% Similarity=0.621 Sum_probs=20.8
Q ss_pred hHHHHHHHhhcceeccCCceEEE
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVR 24 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR 24 (110)
++|+.|++.|||..+.|++|.|+
T Consensus 49 ~~a~~a~~~~~~~~~~~~~~~v~ 71 (71)
T smart00360 49 EDAEKALEALNGKELDGRPLKVK 71 (71)
T ss_pred HHHHHHHHHcCCCeeCCcEEEeC
Confidence 68999999999999999998874
No 16
>smart00362 RRM_2 RNA recognition motif.
Probab=90.51 E-value=0.24 Score=27.92 Aligned_cols=23 Identities=39% Similarity=0.569 Sum_probs=20.7
Q ss_pred hHHHHHHHhhcceeccCCceEEE
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVR 24 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR 24 (110)
++|+.|++.|||..+-|++|.|+
T Consensus 50 ~~a~~a~~~~~~~~~~~~~i~v~ 72 (72)
T smart00362 50 EDAEKAIEALNGTKLGGRPLRVE 72 (72)
T ss_pred HHHHHHHHHhCCcEECCEEEeeC
Confidence 58999999999999999999874
No 17
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=90.35 E-value=0.26 Score=40.29 Aligned_cols=28 Identities=18% Similarity=0.157 Sum_probs=25.8
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
+.|+.|++.|||..+.|++|.|+||...
T Consensus 348 ~~a~~A~~~l~g~~~~~~~l~v~~a~~~ 375 (509)
T TIGR01642 348 SVTDVAIAALNGKDTGDNKLHVQRACVG 375 (509)
T ss_pred HHHHHHHHHcCCCEECCeEEEEEECccC
Confidence 5799999999999999999999999754
No 18
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=88.05 E-value=0.5 Score=42.29 Aligned_cols=32 Identities=31% Similarity=0.525 Sum_probs=26.8
Q ss_pred hHHHHHHHhhcceec---cCCceEEEecccccchH
Q 033853 2 QEAKLAKEKMHGRLA---CGRPLVVRLASEKYLED 33 (110)
Q Consensus 2 eEAElAkekmnGKLa---~gRpLVVR~A~ek~~~~ 33 (110)
|-|..||+-|||.-- |+-|||||||.-+.+.+
T Consensus 176 e~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~ 210 (510)
T KOG0144|consen 176 EMAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKD 210 (510)
T ss_pred HHHHHHHHhhccceeeccCCCceEEEecccCCCch
Confidence 458899999999874 99999999999885544
No 19
>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=87.61 E-value=0.47 Score=39.90 Aligned_cols=27 Identities=22% Similarity=0.318 Sum_probs=25.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASE 28 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~e 28 (110)
++|+.|++.||++.+.||+|-|.|+..
T Consensus 53 ~~A~~Al~~ln~~~i~gk~i~i~~s~~ 79 (562)
T TIGR01628 53 ADAERALETMNFKRLGGKPIRIMWSQR 79 (562)
T ss_pred HHHHHHHHHhCCCEECCeeEEeecccc
Confidence 689999999999999999999999864
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=87.26 E-value=0.59 Score=39.31 Aligned_cols=28 Identities=29% Similarity=0.423 Sum_probs=26.3
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|++.|||..+.|++|-|.+++..
T Consensus 324 ~~A~~Ai~~lng~~l~g~~l~v~~s~~~ 351 (481)
T TIGR01649 324 YQAQLALTHLNGVKLFGKPLRVCPSKQQ 351 (481)
T ss_pred HHHHHHHHHhCCCEECCceEEEEEcccc
Confidence 6899999999999999999999999776
No 21
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=87.09 E-value=0.44 Score=40.59 Aligned_cols=29 Identities=24% Similarity=0.310 Sum_probs=27.3
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEKY 30 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek~ 30 (110)
+|||.||+-|||.-.++|.|---||-.|.
T Consensus 115 ~dAEnAI~~MnGqWlG~R~IRTNWATRKp 143 (321)
T KOG0148|consen 115 EDAENAIQQMNGQWLGRRTIRTNWATRKP 143 (321)
T ss_pred HHHHHHHHHhCCeeeccceeeccccccCc
Confidence 79999999999999999999999998874
No 22
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=86.26 E-value=0.54 Score=40.80 Aligned_cols=28 Identities=29% Similarity=0.507 Sum_probs=26.6
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|++|-++|||.+|-||.|=|+.|-..
T Consensus 147 ~dadRARa~LHgt~VEGRkIEVn~ATar 174 (376)
T KOG0125|consen 147 ADADRARAELHGTVVEGRKIEVNNATAR 174 (376)
T ss_pred hhHHHHHHHhhcceeeceEEEEeccchh
Confidence 6899999999999999999999999877
No 23
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=83.98 E-value=0.99 Score=38.01 Aligned_cols=28 Identities=21% Similarity=0.242 Sum_probs=24.3
Q ss_pred hHHHHHHHhhcceeccCC--ceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGR--PLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gR--pLVVR~A~ek 29 (110)
++|+.|++.|||+.+.++ +|.|.||+..
T Consensus 145 ~~A~~A~~~Lng~~i~~~~~~l~v~~sk~~ 174 (481)
T TIGR01649 145 NSAQHAKAALNGADIYNGCCTLKIEYAKPT 174 (481)
T ss_pred HHHHHHHHHhcCCcccCCceEEEEEEecCC
Confidence 689999999999999764 7888898875
No 24
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=82.40 E-value=1 Score=40.75 Aligned_cols=27 Identities=37% Similarity=0.535 Sum_probs=24.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASE 28 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~e 28 (110)
++|++|++.|||+.+.||+|-|++...
T Consensus 160 e~A~~Ai~~lnG~~i~GR~IkV~rp~~ 186 (612)
T TIGR01645 160 EAAQLALEQMNGQMLGGRNIKVGRPSN 186 (612)
T ss_pred HHHHHHHHhcCCeEEecceeeeccccc
Confidence 689999999999999999999998654
No 25
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=82.39 E-value=1.4 Score=31.66 Aligned_cols=28 Identities=21% Similarity=0.368 Sum_probs=20.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
+-|++|..+|+|..|.|+.|.|++....
T Consensus 50 ~~A~RA~KRmegEdVfG~kI~v~~~~~~ 77 (90)
T PF11608_consen 50 EFAERAQKRMEGEDVFGNKISVSFSPKN 77 (90)
T ss_dssp HHHHHHHHHHTT--SSSS--EEESS--S
T ss_pred HHHHHHHHhhcccccccceEEEEEcCCc
Confidence 4699999999999999999999998555
No 26
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=82.00 E-value=1.2 Score=35.91 Aligned_cols=28 Identities=32% Similarity=0.576 Sum_probs=24.9
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
|-|-.|++.|||.+.|.||++|-.|..+
T Consensus 150 easd~ai~s~ngq~l~nr~itv~ya~k~ 177 (203)
T KOG0131|consen 150 EASDAAIGSMNGQYLCNRPITVSYAFKK 177 (203)
T ss_pred HHHHHHHHHhccchhcCCceEEEEEEec
Confidence 4577899999999999999999998765
No 27
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=81.74 E-value=0.56 Score=39.36 Aligned_cols=28 Identities=50% Similarity=0.708 Sum_probs=26.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
+||..|...|||+++.++||.|-||...
T Consensus 322 eeA~~A~~~~n~~~i~~k~l~vav~qr~ 349 (369)
T KOG0123|consen 322 EEAKKAMTEMNGRLIGGKPLYVAVAQRK 349 (369)
T ss_pred HHHHHHHHhhChhhhcCCchhhhHHhhh
Confidence 6899999999999999999999998855
No 28
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=80.66 E-value=1 Score=37.43 Aligned_cols=28 Identities=32% Similarity=0.399 Sum_probs=25.0
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
.+||-|.+.|+|+++-||-|-|-+|.--
T Consensus 66 ~daedA~damDG~~ldgRelrVq~aryg 93 (256)
T KOG4207|consen 66 RDAEDALDAMDGAVLDGRELRVQMARYG 93 (256)
T ss_pred chHHHHHHhhcceeeccceeeehhhhcC
Confidence 3799999999999999999988888644
No 29
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=78.65 E-value=1.5 Score=34.45 Aligned_cols=26 Identities=23% Similarity=0.296 Sum_probs=24.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEecc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLAS 27 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ 27 (110)
+||+.|++-|||--.+|.+|-|.||=
T Consensus 125 keAq~A~~~~Ng~~ll~q~v~VDw~F 150 (170)
T KOG0130|consen 125 KEAQAAIDALNGAELLGQNVSVDWCF 150 (170)
T ss_pred HHHHHHHHhccchhhhCCceeEEEEE
Confidence 69999999999999999999999984
No 30
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=77.96 E-value=2.2 Score=35.89 Aligned_cols=28 Identities=39% Similarity=0.485 Sum_probs=24.6
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|..|++.|||.|..+++|.|=.+..+
T Consensus 126 ~~a~~ai~~~ng~ll~~kki~vg~~~~~ 153 (369)
T KOG0123|consen 126 ESAKKAIEKLNGMLLNGKKIYVGLFERK 153 (369)
T ss_pred HHHHHHHHHhcCcccCCCeeEEeeccch
Confidence 6899999999999999999999665544
No 31
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=73.52 E-value=2.1 Score=38.33 Aligned_cols=25 Identities=36% Similarity=0.537 Sum_probs=22.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEec
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLA 26 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A 26 (110)
|-|++|.|.|||-+.+||.|-|-.-
T Consensus 166 EaAqLAlEqMNg~mlGGRNiKVgrP 190 (544)
T KOG0124|consen 166 EAAQLALEQMNGQMLGGRNIKVGRP 190 (544)
T ss_pred HHHHHHHHHhccccccCccccccCC
Confidence 6799999999999999999988763
No 32
>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins [].; PDB: 2G0C_A 3MOJ_B.
Probab=70.06 E-value=4.3 Score=26.23 Aligned_cols=25 Identities=24% Similarity=0.303 Sum_probs=15.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEec
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLA 26 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A 26 (110)
+.|+.+++.|+|.=+.||+|.|+.|
T Consensus 50 ~~a~~v~~~l~~~~~~gk~v~ve~A 74 (74)
T PF03880_consen 50 EVAEKVLEALNGKKIKGKKVRVERA 74 (74)
T ss_dssp T-HHHHHHHHTT--SSS----EEE-
T ss_pred HHHHHHHHHhcCCCCCCeeEEEEEC
Confidence 4689999999999999999999987
No 33
>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=69.20 E-value=4.5 Score=36.74 Aligned_cols=27 Identities=22% Similarity=-0.024 Sum_probs=25.0
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASE 28 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~e 28 (110)
++|+.|++.|||.-+.|++|-|.||-.
T Consensus 257 e~A~kAI~amNg~elgGr~LrV~kAi~ 283 (612)
T TIGR01645 257 QSQSEAIASMNLFDLGGQYLRVGKCVT 283 (612)
T ss_pred HHHHHHHHHhCCCeeCCeEEEEEecCC
Confidence 689999999999999999999998874
No 34
>PLN03120 nucleic acid binding protein; Provisional
Probab=68.07 E-value=5.4 Score=32.90 Aligned_cols=27 Identities=19% Similarity=0.197 Sum_probs=24.0
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
++|+.|+. |||...+||+|.|.||..-
T Consensus 54 eaAe~All-LnG~~l~gr~V~Vt~a~~~ 80 (260)
T PLN03120 54 QGAETALL-LSGATIVDQSVTITPAEDY 80 (260)
T ss_pred HHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence 57899994 9999999999999998754
No 35
>PF08394 Arc_trans_TRASH: Archaeal TRASH domain; InterPro: IPR013603 This region is found in the C terminus of a number of archaeal transcriptional regulators. It is thought to function as a metal-sensing regulatory module [].
Probab=65.52 E-value=4.8 Score=24.52 Aligned_cols=19 Identities=32% Similarity=0.700 Sum_probs=16.0
Q ss_pred ceeccCCceEEEecccccc
Q 033853 13 GRLACGRPLVVRLASEKYL 31 (110)
Q Consensus 13 GKLa~gRpLVVR~A~ek~~ 31 (110)
|+-+-|.|+||+++...|.
T Consensus 5 G~~I~~eP~~~k~~~~~y~ 23 (37)
T PF08394_consen 5 GGEITGEPIVVKIGNKVYY 23 (37)
T ss_pred CCcccCCEEEEEECCeEEE
Confidence 7788999999999887743
No 36
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=65.50 E-value=4 Score=33.49 Aligned_cols=27 Identities=19% Similarity=0.239 Sum_probs=23.2
Q ss_pred ChHHHHHHHhhcceeccCCceEEEeccc
Q 033853 1 MQEAKLAKEKMHGRLACGRPLVVRLASE 28 (110)
Q Consensus 1 meEAElAkekmnGKLa~gRpLVVR~A~e 28 (110)
.|+|+.|+ .|||....|++|.|++.+.
T Consensus 233 ~e~A~~Al-~l~g~~~~g~~l~v~r~~~ 259 (509)
T TIGR01642 233 VEEATFAM-ALDSIIYSNVFLKIRRPHD 259 (509)
T ss_pred HHHHhhhh-cCCCeEeeCceeEecCccc
Confidence 37999999 5999999999999987543
No 37
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=65.03 E-value=6.7 Score=29.68 Aligned_cols=24 Identities=33% Similarity=0.257 Sum_probs=22.8
Q ss_pred hHHHHHHHhhcceeccCCceEEEe
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRL 25 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~ 25 (110)
++|..|-+.|+|--+++|+|||.+
T Consensus 68 ~dAk~A~dhlsg~n~~~ryl~vly 91 (124)
T KOG0114|consen 68 FDAKKACDHLSGYNVDNRYLVVLY 91 (124)
T ss_pred hhHHHHHHHhcccccCCceEEEEe
Confidence 689999999999999999999987
No 38
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=61.76 E-value=8.3 Score=26.80 Aligned_cols=17 Identities=41% Similarity=0.645 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHh
Q 033853 61 SAKIAAIKNKLKALEEE 77 (110)
Q Consensus 61 saKIaAIenKLK~LEe~ 77 (110)
-+||+.+.+|||.||..
T Consensus 14 k~Kiae~Q~rlK~Le~q 30 (83)
T PF14193_consen 14 KEKIAELQARLKELEAQ 30 (83)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 47999999999999874
No 39
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=57.72 E-value=9.9 Score=32.80 Aligned_cols=28 Identities=29% Similarity=0.552 Sum_probs=24.8
Q ss_pred hHHHHHHHhhccee--ccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRL--ACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKL--a~gRpLVVR~A~ek 29 (110)
.|||.||.-+||.- -|.-||+|.+|.+-
T Consensus 180 ~EAe~AIk~lNG~~P~g~tepItVKFannP 209 (360)
T KOG0145|consen 180 IEAEEAIKGLNGQKPSGCTEPITVKFANNP 209 (360)
T ss_pred hHHHHHHHhccCCCCCCCCCCeEEEecCCc
Confidence 69999999999975 57899999999876
No 40
>COG3132 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=55.85 E-value=41 Score=27.48 Aligned_cols=73 Identities=23% Similarity=0.320 Sum_probs=36.7
Q ss_pred ChHHHHHHHhhcceeccCCceEEEecccc-cchH-----H-hhcchhhhccccccCCCCCCccccCHHHHHHHHHHHHHH
Q 033853 1 MQEAKLAKEKMHGRLACGRPLVVRLASEK-YLED-----A-AQNSSKAVGEANKTGFVGGTSGQMNRSAKIAAIKNKLKA 73 (110)
Q Consensus 1 meEAElAkekmnGKLa~gRpLVVR~A~ek-~~~~-----~-~~~s~k~l~~~~~a~~sg~~~g~~SrsaKIaAIenKLK~ 73 (110)
|+|-|.-+|.+-|| ..-|+|||+|.+- .+++ + ++-..-++..+.. ...+..-..+-.+.|+|+|..+-.
T Consensus 128 v~e~e~~Le~La~R--~~gplvv~l~RepGkREsRymhLf~g~vd~aa~a~~~~--~~a~a~~s~dlearv~aLe~eva~ 203 (215)
T COG3132 128 VAEVEHTLERLANR--EDGPLVVRLAREPGKRESRYMHLFSGEVDDAAVAQPAE--TDAPAAASSDLEARVEALEQEVAE 203 (215)
T ss_pred HHHHHHHHHHHhcC--CCCceeeecCCCCCcchhhhhhhhcchhhhhhhcCccc--ccCcccccchHHHHHHHHHHHHHH
Confidence 35566667766655 2348999999886 3332 1 0000011111111 111222222356777777777766
Q ss_pred HHHh
Q 033853 74 LEEE 77 (110)
Q Consensus 74 LEe~ 77 (110)
|+.+
T Consensus 204 L~~r 207 (215)
T COG3132 204 LRAR 207 (215)
T ss_pred HHHH
Confidence 6553
No 41
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=52.28 E-value=13 Score=32.60 Aligned_cols=29 Identities=31% Similarity=0.349 Sum_probs=27.5
Q ss_pred ChHHHHHHHhhcceeccCCceEEEecccc
Q 033853 1 MQEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 1 meEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
+|+|++|++-|||.=..||+|-|-||.+.
T Consensus 70 ~~~~~~a~~~lNg~~~~gr~l~v~~~~~~ 98 (435)
T KOG0108|consen 70 EETAERAIRNLNGAEFNGRKLRVNYASNR 98 (435)
T ss_pred hhhHHHHHHhcCCcccCCceEEeeccccc
Confidence 58999999999999999999999999887
No 42
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=49.70 E-value=18 Score=24.31 Aligned_cols=16 Identities=38% Similarity=0.588 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 033853 61 SAKIAAIKNKLKALEE 76 (110)
Q Consensus 61 saKIaAIenKLK~LEe 76 (110)
..||.|+|++|..||.
T Consensus 63 r~kl~~LEarl~~LE~ 78 (79)
T PF04380_consen 63 REKLEALEARLAALEA 78 (79)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 5799999999999986
No 43
>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=48.26 E-value=13 Score=33.56 Aligned_cols=28 Identities=29% Similarity=0.264 Sum_probs=24.0
Q ss_pred hHHHHHHHhhcceecc-CCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLAC-GRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~-gRpLVVR~A~ek 29 (110)
|+|+.|++.|||..+. ||.|.|+++.+.
T Consensus 110 e~A~~Ai~~lng~~i~~Gr~l~V~~S~~~ 138 (578)
T TIGR01648 110 EEAKEAVKLLNNYEIRPGRLLGVCISVDN 138 (578)
T ss_pred HHHHHHHHHcCCCeecCCccccccccccC
Confidence 6899999999998885 899999988654
No 44
>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]
Probab=47.28 E-value=14 Score=30.80 Aligned_cols=27 Identities=30% Similarity=0.487 Sum_probs=23.5
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASE 28 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~e 28 (110)
|+||.|++-|||+-..|+||+--+.-.
T Consensus 121 e~ae~a~~~lnnRw~~G~pi~ae~~pv 147 (260)
T KOG2202|consen 121 EDAEAALEDLNNRWYNGRPIHAELSPV 147 (260)
T ss_pred HHHHHHHHHHcCccccCCcceeeecCc
Confidence 689999999999999999998766433
No 45
>PRK13677 hypothetical protein; Provisional
Probab=41.04 E-value=19 Score=27.37 Aligned_cols=15 Identities=33% Similarity=0.474 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHH
Q 033853 60 RSAKIAAIKNKLKAL 74 (110)
Q Consensus 60 rsaKIaAIenKLK~L 74 (110)
.+.||+.||++|..|
T Consensus 111 v~~KIaEIe~dLekL 125 (125)
T PRK13677 111 VANKISEIEADLEKL 125 (125)
T ss_pred HHHHHHHHHHHHhcC
Confidence 478999999999754
No 46
>PLN03213 repressor of silencing 3; Provisional
Probab=40.94 E-value=24 Score=32.94 Aligned_cols=32 Identities=22% Similarity=0.183 Sum_probs=29.8
Q ss_pred HHHHHHHhhcceeccCCceEEEecccccchHH
Q 033853 3 EAKLAKEKMHGRLACGRPLVVRLASEKYLEDA 34 (110)
Q Consensus 3 EAElAkekmnGKLa~gRpLVVR~A~ek~~~~~ 34 (110)
+++.||+.|||.-.-||.|-|--|++.|++-.
T Consensus 62 EeeKAISaLNGAEWKGR~LKVNKAKP~YLeRL 93 (759)
T PLN03213 62 SLTKLFSTYNGCVWKGGRLRLEKAKEHYLARL 93 (759)
T ss_pred HHHHHHHHhcCCeecCceeEEeeccHHHHHHH
Confidence 68899999999999999999999999998855
No 47
>PF07955 DUF1687: Protein of unknown function (DUF1687) ; InterPro: IPR012882 This is a family of uncharacterised fungal proteins. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process, 0005739 mitochondrion; PDB: 1WPI_A.
Probab=39.06 E-value=8.1 Score=28.48 Aligned_cols=16 Identities=44% Similarity=0.650 Sum_probs=8.3
Q ss_pred cceeccCCceEEEecccc
Q 033853 12 HGRLACGRPLVVRLASEK 29 (110)
Q Consensus 12 nGKLa~gRpLVVR~A~ek 29 (110)
.|.+. |||||.|-..+
T Consensus 106 ~~~f~--~PlvVDW~~g~ 121 (133)
T PF07955_consen 106 SGIFQ--RPLVVDWENGK 121 (133)
T ss_dssp TSS------EEEESSS--
T ss_pred ccccc--CCEEEECCCCe
Confidence 55555 99999998877
No 48
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=38.79 E-value=22 Score=31.20 Aligned_cols=23 Identities=35% Similarity=0.459 Sum_probs=20.8
Q ss_pred hHHHHHHHhhcceeccCCceEEE
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVR 24 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR 24 (110)
+||..+++-|+||...||.|.--
T Consensus 325 eeA~~ciq~m~GR~fdgRql~A~ 347 (382)
T KOG1548|consen 325 EEADQCIQTMDGRWFDGRQLTAS 347 (382)
T ss_pred HHHHHHHHHhcCeeecceEEEEE
Confidence 79999999999999999998643
No 49
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=38.75 E-value=18 Score=34.00 Aligned_cols=28 Identities=32% Similarity=0.354 Sum_probs=26.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
+||..|++-|++.=..||-||.-||+..
T Consensus 666 ~ea~nA~~al~STHlyGRrLVLEwA~~d 693 (725)
T KOG0110|consen 666 REAKNAFDALGSTHLYGRRLVLEWAKSD 693 (725)
T ss_pred HHHHHHHHhhcccceechhhheehhccc
Confidence 6899999999999999999999999987
No 50
>PF15348 GEMIN8: Gemini of Cajal bodies-associated protein 8
Probab=38.00 E-value=30 Score=27.57 Aligned_cols=27 Identities=26% Similarity=0.330 Sum_probs=24.3
Q ss_pred CHHHHHHHHHHHHHHHHHhccchhhhh
Q 033853 59 NRSAKIAAIKNKLKALEEESSSAKKQK 85 (110)
Q Consensus 59 SrsaKIaAIenKLK~LEe~s~~~kk~k 85 (110)
..++||.|.|+-|++-=+.-|+.|+|+
T Consensus 174 ~~a~kI~aMEaalql~fd~~~D~~~P~ 200 (209)
T PF15348_consen 174 DSAAKILAMEAALQLSFDKHCDRKQPK 200 (209)
T ss_pred cchHHHHHHHHHHHHHHHhhhcccCCC
Confidence 456799999999999988999999998
No 51
>PLN00019 photosystem I reaction center subunit III; Provisional
Probab=33.20 E-value=17 Score=29.80 Aligned_cols=42 Identities=36% Similarity=0.562 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhccch--------hhhhccCCCCCCCccccccCccccccc
Q 033853 64 IAAIKNKLKALEEESSSA--------KKQKQADNSSCNGSLNCLSGKDGLNNL 108 (110)
Q Consensus 64 IaAIenKLK~LEe~s~~~--------kk~k~~~~~~~~~~~~~~~~~~~~~~~ 108 (110)
|..+|+.||--|.++... +-++|++.-+-.| -|-|.|||-.|
T Consensus 86 ~k~Le~rlkkY~~~s~palAl~~~i~~tk~RFe~Y~~ag---LLCG~DGLPHL 135 (223)
T PLN00019 86 IKKLESRLKLYAPDSAPALALNATIEKTKRRFDNYGKAG---LLCGADGLPHL 135 (223)
T ss_pred HHHHHHhhhccCCCCchhhhhhhchHHHHHHHHHhhhhc---cccCCCCCcee
Confidence 667888888888876665 5555553322111 24589999766
No 52
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=33.09 E-value=41 Score=31.78 Aligned_cols=26 Identities=19% Similarity=0.396 Sum_probs=24.9
Q ss_pred hHHHHHHHhhcceeccCCceEEEecc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLAS 27 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ 27 (110)
+.|+.|++.|+|+++-|.+|-|++++
T Consensus 571 e~A~~a~k~lqgtvldGH~l~lk~S~ 596 (725)
T KOG0110|consen 571 ESAQAALKALQGTVLDGHKLELKISE 596 (725)
T ss_pred HHHHHHHHHhcCceecCceEEEEecc
Confidence 57999999999999999999999998
No 53
>PF11944 DUF3461: Protein of unknown function (DUF3461); InterPro: IPR020911 This entry describes proteins of unknown function.
Probab=33.03 E-value=30 Score=26.24 Aligned_cols=15 Identities=40% Similarity=0.543 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHH
Q 033853 60 RSAKIAAIKNKLKAL 74 (110)
Q Consensus 60 rsaKIaAIenKLK~L 74 (110)
.+.||+.||++|..|
T Consensus 111 v~~KIaEIe~dlekL 125 (125)
T PF11944_consen 111 VNSKIAEIERDLEKL 125 (125)
T ss_pred HHHHHHHHHHHHhcC
Confidence 468999999998754
No 54
>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=32.28 E-value=38 Score=23.94 Aligned_cols=26 Identities=27% Similarity=0.364 Sum_probs=19.3
Q ss_pred hHHHHHHHhhcceeccCCceE-EEeccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLV-VRLASE 28 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLV-VR~A~e 28 (110)
.+|++|+.+ ||+++.|--|| |.|..+
T Consensus 65 ~~A~rAL~~-NG~i~~g~~mvGV~~~~~ 91 (100)
T PF05172_consen 65 LSAQRALQK-NGTIFSGSLMVGVKPCDP 91 (100)
T ss_dssp HHHHHHHTT-TTEEETTCEEEEEEE-HH
T ss_pred HHHHHHHHh-CCeEEcCcEEEEEEEcHH
Confidence 368888865 99999987666 888743
No 55
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=31.94 E-value=63 Score=21.08 Aligned_cols=32 Identities=19% Similarity=0.418 Sum_probs=24.9
Q ss_pred CCccccCHHHHHHHHHHHHHHHHHhccchhhh
Q 033853 53 GTSGQMNRSAKIAAIKNKLKALEEESSSAKKQ 84 (110)
Q Consensus 53 ~~~g~~SrsaKIaAIenKLK~LEe~s~~~kk~ 84 (110)
.....+|..+.++++|.+|+.-|.+-..++.+
T Consensus 23 a~a~~ltiEqRLa~LE~rL~~ae~ra~~ae~~ 54 (60)
T PF11471_consen 23 AQAAPLTIEQRLAALEQRLQAAEQRAQAAEAR 54 (60)
T ss_pred hccccCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34457889999999999999999885555443
No 56
>KOG0124 consensus Polypyrimidine tract-binding protein PUF60 (RRM superfamily) [RNA processing and modification]
Probab=31.43 E-value=31 Score=31.14 Aligned_cols=23 Identities=35% Similarity=0.579 Sum_probs=20.1
Q ss_pred HHHHHHHhhcceeccCCceEEEe
Q 033853 3 EAKLAKEKMHGRLACGRPLVVRL 25 (110)
Q Consensus 3 EAElAkekmnGKLa~gRpLVVR~ 25 (110)
|+-+||+-||||+.+||.+|-.+
T Consensus 509 e~~rak~ALdGRfFgGr~VvAE~ 531 (544)
T KOG0124|consen 509 ETHRAKQALDGRFFGGRKVVAEV 531 (544)
T ss_pred HHHHHHHhhccceecCceeehhh
Confidence 67899999999999999988544
No 57
>CHL00132 psaF photosystem I subunit III; Validated
Probab=31.35 E-value=20 Score=28.67 Aligned_cols=42 Identities=31% Similarity=0.489 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhccch--------hhhhccCCCCCCCccccccCccccccc
Q 033853 64 IAAIKNKLKALEEESSSA--------KKQKQADNSSCNGSLNCLSGKDGLNNL 108 (110)
Q Consensus 64 IaAIenKLK~LEe~s~~~--------kk~k~~~~~~~~~~~~~~~~~~~~~~~ 108 (110)
|..+|+.||--|.++... +-++|++.-+-. .-|-|.|||-.|
T Consensus 46 ~k~Le~rlk~Y~~~s~p~lal~~qi~~tk~RFe~Y~~~---~lLCG~DGLPHL 95 (185)
T CHL00132 46 VKKLENRLAKYEANSPPALALQQQIDKTKARFDKYGRS---GLLCGTDGLPHL 95 (185)
T ss_pred HHHHHhhhhccCCCCChHHHHHHHHHHHHHHHHHhccc---ccccCCCCCcee
Confidence 567888888888877663 444445332211 124588999766
No 58
>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]
Probab=30.48 E-value=44 Score=28.26 Aligned_cols=98 Identities=18% Similarity=0.139 Sum_probs=53.6
Q ss_pred HHHHHHHhhcceeccCCceEEEecccc--cc---------hHHhhcchhhhccccc-----cCCCCCCccccCHHHHHHH
Q 033853 3 EAKLAKEKMHGRLACGRPLVVRLASEK--YL---------EDAAQNSSKAVGEANK-----TGFVGGTSGQMNRSAKIAA 66 (110)
Q Consensus 3 EAElAkekmnGKLa~gRpLVVR~A~ek--~~---------~~~~~~s~k~l~~~~~-----a~~sg~~~g~~SrsaKIaA 66 (110)
-||.|+--|+|++--||.|-||+|-+. |+ |...+++....++... -.+.++--+-.-.+.|-.|
T Consensus 6 ~ae~ak~eLd~~~~~~~~lr~rfa~~a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a 85 (275)
T KOG0115|consen 6 LAEIAKRELDGRFPKGRSLRVRFAMHAELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNA 85 (275)
T ss_pred HHHHHHHhcCCCCCCCCceEEEeeccceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhH
Confidence 489999999999999999999998765 21 1111222323333221 1134444555566677777
Q ss_pred HHHHHHHHHHh--ccchhhhhccCCCCCCCcccccc
Q 033853 67 IKNKLKALEEE--SSSAKKQKQADNSSCNGSLNCLS 100 (110)
Q Consensus 67 IenKLK~LEe~--s~~~kk~k~~~~~~~~~~~~~~~ 100 (110)
.+++=.--|.- .....+|+-.+|-.-..--+|++
T Consensus 86 ~~a~rr~~~~g~~~~~~~~p~~VeP~eq~~d~~G~~ 121 (275)
T KOG0115|consen 86 RKAARRCREGGFGGTTGGRPVGVEPMEQPDDNDGGP 121 (275)
T ss_pred HHHHHHhccCccccCCCCCccCCChhhccCCCCcch
Confidence 66643332332 34555665333333333334443
No 59
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=29.34 E-value=44 Score=30.78 Aligned_cols=26 Identities=31% Similarity=0.345 Sum_probs=22.6
Q ss_pred hHHHHHHHhhcceeccCCceEEEecc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLAS 27 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ 27 (110)
|-++.|.|+||=--+-||||||.=-+
T Consensus 97 E~~qKa~E~lnk~~~~GR~l~vKEd~ 122 (608)
T KOG4212|consen 97 ENVQKALEKLNKYEVNGRELVVKEDH 122 (608)
T ss_pred HHHHHHHHHhhhccccCceEEEeccC
Confidence 56899999999999999999996543
No 60
>KOG0111 consensus Cyclophilin-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=29.15 E-value=35 Score=28.94 Aligned_cols=32 Identities=25% Similarity=0.380 Sum_probs=28.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccccchH
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEKYLED 33 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek~~~~ 33 (110)
|+|--||.-||+-=.+||.|-|-+|+.....+
T Consensus 63 EDAaaAiDNMnesEL~GrtirVN~AkP~kike 94 (298)
T KOG0111|consen 63 EDAAAAIDNMNESELFGRTIRVNLAKPEKIKE 94 (298)
T ss_pred chhHHHhhcCchhhhcceeEEEeecCCccccC
Confidence 67889999999999999999999999875444
No 61
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=28.37 E-value=1.1e+02 Score=28.16 Aligned_cols=29 Identities=28% Similarity=0.445 Sum_probs=25.0
Q ss_pred hHHHHHHHhhcceeccCCceEEEeccccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEKY 30 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek~ 30 (110)
+.|..|.|.|||=-+-||+|+|-...+..
T Consensus 331 ~~ar~a~e~lngfelAGr~ikV~~v~~r~ 359 (549)
T KOG0147|consen 331 EDARKALEQLNGFELAGRLIKVSVVTERV 359 (549)
T ss_pred HHHHHHHHHhccceecCceEEEEEeeeec
Confidence 57999999999977889999998876663
No 62
>PRK00315 potassium-transporting ATPase subunit C; Reviewed
Probab=27.32 E-value=71 Score=25.43 Aligned_cols=66 Identities=17% Similarity=0.206 Sum_probs=41.5
Q ss_pred cceeccCCceEEEecccccchHHhhcchhhhccccccCCCCCCccccCHHHHHHHHHHHHHHHHHhccc
Q 033853 12 HGRLACGRPLVVRLASEKYLEDAAQNSSKAVGEANKTGFVGGTSGQMNRSAKIAAIKNKLKALEEESSS 80 (110)
Q Consensus 12 nGKLa~gRpLVVR~A~ek~~~~~~~~s~k~l~~~~~a~~sg~~~g~~SrsaKIaAIenKLK~LEe~s~~ 80 (110)
||+.++++=|-=.|.+++|+.. |..-+-..+..+..+|+++-..|-.+=++.++.....+-.+...
T Consensus 47 ~G~vvGS~LIgQ~F~~~~yF~~---RPSa~~~~~y~~~~SggSNl~psnp~l~~~v~~r~~~~~~~~~~ 112 (193)
T PRK00315 47 DGKVVGSALIGQNFTGPGYFHG---RPSATAPMPYNPQASGGSNLAPSNPALDDAIKARVAALRAANPG 112 (193)
T ss_pred CCEEeeehhcCCCCCCCCCcCC---CCCcCCCCCCCcccccccCCCCCCHHHHHHHHHHHHHHHHhCCC
Confidence 7887788777777777777665 42222133455556666655555566677788888876555433
No 63
>KOG0106 consensus Alternative splicing factor SRp55/B52/SRp75 (RRM superfamily) [RNA processing and modification]
Probab=27.16 E-value=26 Score=28.24 Aligned_cols=28 Identities=36% Similarity=0.533 Sum_probs=25.1
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek 29 (110)
.+|+-|+.-+||+-.||-.+||-||...
T Consensus 46 rda~Dav~~l~~~~l~~e~~vve~~r~~ 73 (216)
T KOG0106|consen 46 RDADDAVHDLDGKELCGERLVVEHARGK 73 (216)
T ss_pred hhhhcccchhcCceecceeeeeeccccc
Confidence 4788999999999999999999999853
No 64
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=26.75 E-value=59 Score=20.96 Aligned_cols=21 Identities=24% Similarity=0.512 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHhccchhhhh
Q 033853 65 AAIKNKLKALEEESSSAKKQK 85 (110)
Q Consensus 65 aAIenKLK~LEe~s~~~kk~k 85 (110)
+|+--.|+.||+++...|+-+
T Consensus 33 ~avRrrLr~me~~Glt~~~g~ 53 (66)
T PF08461_consen 33 EAVRRRLRAMERDGLTRKVGR 53 (66)
T ss_pred HHHHHHHHHHHHCCCccccCC
Confidence 899999999999996655444
No 65
>KOG1783 consensus Small nuclear ribonucleoprotein F [RNA processing and modification]
Probab=26.36 E-value=40 Score=23.75 Aligned_cols=17 Identities=41% Similarity=0.569 Sum_probs=13.6
Q ss_pred ccCCceEEEecccc-cch
Q 033853 16 ACGRPLVVRLASEK-YLE 32 (110)
Q Consensus 16 a~gRpLVVR~A~ek-~~~ 32 (110)
+-|||++|+|++-. |..
T Consensus 14 iiGr~V~VKl~sgvdyrG 31 (77)
T KOG1783|consen 14 IIGRTVVVKLNSGVDYRG 31 (77)
T ss_pred HhCCeEEEEecCCccccc
Confidence 46899999999877 544
No 66
>KOG0226 consensus RNA-binding proteins [General function prediction only]
Probab=23.36 E-value=36 Score=28.94 Aligned_cols=24 Identities=25% Similarity=0.419 Sum_probs=21.2
Q ss_pred hHHHHHHHhhcceeccCCceEEEe
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRL 25 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~ 25 (110)
.++-.|..-||||-|++|||-.|=
T Consensus 243 ad~~rAmrem~gkyVgsrpiklRk 266 (290)
T KOG0226|consen 243 ADYVRAMREMNGKYVGSRPIKLRK 266 (290)
T ss_pred HHHHHHHHhhcccccccchhHhhh
Confidence 467789999999999999998884
No 67
>PHA02337 putative high light inducible protein
Probab=23.16 E-value=23 Score=21.56 Aligned_cols=9 Identities=44% Similarity=0.567 Sum_probs=7.1
Q ss_pred HHhhcceec
Q 033853 8 KEKMHGRLA 16 (110)
Q Consensus 8 kekmnGKLa 16 (110)
-|++|||||
T Consensus 5 aE~~NGRlA 13 (35)
T PHA02337 5 AEIFNGWLA 13 (35)
T ss_pred HHHHhhHHH
Confidence 478899886
No 68
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=22.61 E-value=76 Score=24.85 Aligned_cols=25 Identities=20% Similarity=0.254 Sum_probs=23.4
Q ss_pred hHHHHHHHhhcceeccCCceEEEec
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLA 26 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A 26 (110)
++|+.|..-+||.-.-.|||-|.|-
T Consensus 89 ~dA~~AlryisgtrLddr~ir~D~D 113 (153)
T KOG0121|consen 89 DDAEDALRYISGTRLDDRPIRIDWD 113 (153)
T ss_pred hhHHHHHHHhccCcccccceeeecc
Confidence 6899999999999999999999993
No 69
>PRK11239 hypothetical protein; Provisional
Probab=22.17 E-value=1.8e+02 Score=23.82 Aligned_cols=25 Identities=40% Similarity=0.567 Sum_probs=16.7
Q ss_pred hHHHHHHHhhcceeccCC-ceEEEecccc
Q 033853 2 QEAKLAKEKMHGRLACGR-PLVVRLASEK 29 (110)
Q Consensus 2 eEAElAkekmnGKLa~gR-pLVVR~A~ek 29 (110)
.|.|.+++.|-.+ +. |+||+|+++-
T Consensus 131 ~~Ve~~L~~L~~r---~~~plV~~LpR~p 156 (215)
T PRK11239 131 AEVESTLEQLANR---EDGPFVVRLAREP 156 (215)
T ss_pred HHHHHHHHHHHhc---cCCceeeecCCCC
Confidence 3455666665544 22 8999998876
No 70
>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]
Probab=21.12 E-value=83 Score=30.36 Aligned_cols=32 Identities=9% Similarity=0.160 Sum_probs=28.7
Q ss_pred hHHHHHHHhhcceeccCCceEEEecccccchH
Q 033853 2 QEAKLAKEKMHGRLACGRPLVVRLASEKYLED 33 (110)
Q Consensus 2 eEAElAkekmnGKLa~gRpLVVR~A~ek~~~~ 33 (110)
.+||.|+..|+|.++-+.++=.=|++.+.+..
T Consensus 230 ~D~era~k~lqg~iv~~~e~K~gWgk~V~ip~ 261 (877)
T KOG0151|consen 230 ADAERALKELQGIIVMEYEMKLGWGKAVPIPN 261 (877)
T ss_pred hhHHHHHHHhcceeeeeeeeeeccccccccCC
Confidence 36899999999999999999999999986654
No 71
>TIGR00681 kdpC K+-transporting ATPase, C subunit. This chain has a single predicted transmembrane region near the amino end. It is part of a K+-transport ATPase that contains two other membrane-bound subunits, KdpA and KdpB, and a small subunit KdpF. KdpA is the K+-translocating subunit, KdpB the ATP-hydrolyzing subunit. During assembly of the complex, KdpA and KdpC bind to each other. This interaction is thought to stabilize the complex [PubMed:9858692]. Data indicates that KdpC might connect the KdpA, the K+-transporting subunit, to KdpB, the ATP-hydrolyzing (energy providing) subunit [PubMed:9858692].
Probab=21.03 E-value=1.2e+02 Score=24.06 Aligned_cols=64 Identities=17% Similarity=0.218 Sum_probs=37.8
Q ss_pred cceeccCCceEEEecccccchHHhhcchhhhccccccCCCCCCccccCHHHHHHHHHHHHHHHHHhc
Q 033853 12 HGRLACGRPLVVRLASEKYLEDAAQNSSKAVGEANKTGFVGGTSGQMNRSAKIAAIKNKLKALEEES 78 (110)
Q Consensus 12 nGKLa~gRpLVVR~A~ek~~~~~~~~s~k~l~~~~~a~~sg~~~g~~SrsaKIaAIenKLK~LEe~s 78 (110)
||+.++++=|--.|.++.|+.. |..-+-..+..+..+|+++-..|-.+=++.|+.....+-.+.
T Consensus 45 ~G~~vGS~LIgQ~F~~~~yF~~---RpSa~~~~~y~~~~SggSNl~psnp~l~~~v~~r~~~~~~~~ 108 (187)
T TIGR00681 45 SGQVVGSALIGQTFTEEGYFHS---RPSAINYSEYPTGASGGSNLAPSNPDLLSRIAARVEAQRLEN 108 (187)
T ss_pred CCEEEeeeeecCCCCCCCCcCC---CCcccCCCCCCcccccccCCCCCCHHHHHHHHHHHHHHHHhC
Confidence 7777777777677777777665 422222334555555555544455555666777666654443
Done!