Query 010598
Match_columns 506
No_of_seqs 134 out of 558
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 02:23:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010598.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010598hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0144 RNA-binding protein CU 100.0 3.4E-35 7.4E-40 300.7 7.7 315 1-406 177-494 (510)
2 smart00456 WW Domain with 2 co 98.5 5.8E-08 1.3E-12 66.2 3.0 30 365-394 3-32 (32)
3 PF00397 WW: WW domain; Inter 98.5 4.4E-08 9.5E-13 68.0 2.1 27 366-392 4-31 (31)
4 cd00201 WW Two conserved trypt 98.5 8.9E-08 1.9E-12 64.2 3.0 30 365-394 2-31 (31)
5 COG5104 PRP40 Splicing factor 98.2 2.5E-07 5.5E-12 97.5 -0.8 39 363-401 13-52 (590)
6 COG5104 PRP40 Splicing factor 97.8 3.6E-06 7.8E-11 89.1 -1.1 36 362-397 53-88 (590)
7 KOG3259 Peptidyl-prolyl cis-tr 97.7 1.2E-05 2.7E-10 75.1 1.4 31 365-395 9-40 (163)
8 KOG0146 RNA-binding protein ET 96.9 0.00045 9.7E-09 70.3 1.9 33 2-34 73-105 (371)
9 KOG0155 Transcription factor C 96.7 0.0008 1.7E-08 72.8 2.0 34 365-398 12-45 (617)
10 KOG0155 Transcription factor C 96.5 0.0017 3.7E-08 70.4 2.8 36 363-398 112-147 (617)
11 KOG0150 Spliceosomal protein F 95.7 0.0045 9.8E-08 63.7 1.5 34 362-395 148-181 (336)
12 KOG0144 RNA-binding protein CU 95.1 0.011 2.5E-07 63.1 2.0 42 2-45 89-130 (510)
13 TIGR01659 sex-lethal sex-letha 93.4 0.2 4.3E-06 51.4 6.8 33 2-35 248-280 (346)
14 TIGR01661 ELAV_HUD_SF ELAV/HuD 86.0 1.6 3.4E-05 42.6 5.6 29 2-31 144-172 (352)
15 PLN03134 glycine-rich RNA-bind 82.0 2.4 5.3E-05 38.3 4.7 34 2-38 89-122 (144)
16 KOG0145 RNA-binding protein EL 80.8 1.3 2.8E-05 45.9 2.9 31 2-33 182-212 (360)
17 TIGR01628 PABP-1234 polyadenyl 76.8 13 0.00028 39.5 8.8 29 2-33 339-367 (562)
18 KOG0152 Spliceosomal protein F 71.4 0.5 1.1E-05 50.8 -3.0 34 363-396 124-157 (463)
19 PF13893 RRM_5: RNA recognitio 57.5 10 0.00022 28.0 2.5 23 2-27 34-56 (56)
20 TIGR01649 hnRNP-L_PTB hnRNP-L/ 50.9 13 0.00027 39.4 2.8 27 2-29 147-173 (481)
21 PF12905 Glyco_hydro_101: Endo 43.2 5.8 0.00012 42.9 -1.0 25 373-397 381-405 (425)
22 smart00564 PQQ beta-propeller 40.2 15 0.00032 24.4 0.9 21 371-391 12-32 (33)
23 TIGR01622 SF-CC1 splicing fact 37.2 30 0.00065 35.4 3.0 29 2-33 241-269 (457)
24 TIGR01661 ELAV_HUD_SF ELAV/HuD 35.4 36 0.00078 33.3 3.1 27 2-31 58-84 (352)
25 KOG1891 Proline binding protei 32.0 19 0.00041 36.9 0.6 26 366-391 97-122 (271)
26 TIGR01648 hnRNP-R-Q heterogene 28.3 88 0.0019 35.1 5.0 28 2-32 282-309 (578)
27 PF01011 PQQ: PQQ enzyme repea 21.6 45 0.00097 23.7 0.8 23 372-394 7-29 (38)
28 TIGR01659 sex-lethal sex-letha 21.5 74 0.0016 33.1 2.7 28 2-32 162-189 (346)
29 KOG1891 Proline binding protei 20.7 81 0.0018 32.5 2.7 31 364-394 130-160 (271)
30 KOG4286 Dystrophin-like protei 20.6 38 0.00083 39.6 0.5 28 366-393 353-380 (966)
31 KOG3673 FtsJ-like RNA methyltr 20.3 42 0.0009 38.4 0.7 32 363-394 756-790 (845)
No 1
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=100.00 E-value=3.4e-35 Score=300.74 Aligned_cols=315 Identities=23% Similarity=0.151 Sum_probs=262.4
Q ss_pred ChHHHHHhhcCceeecCCCCCeEEEecCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 010598 1 MALAAINALNGIYTMRGCDQPLTVRFADPKRPRPGDSRSGPTFGGPGFGPRFQPPSPRPPPNFGDPITDQIPQNAWHPMS 80 (506)
Q Consensus 1 ~AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr~gesrg~~~~~g~g~gp~~~ap~~rp~~n~~d~~g~~~~pnawrP~~ 80 (506)
||++||++|||+||||||++||||||||+||+|.|+. .-.-|+|+...
T Consensus 177 ~A~~Aika~ng~~tmeGcs~PLVVkFADtqkdk~~~~--------------------------------lqq~~~~~~qq 224 (510)
T KOG0144|consen 177 MAVAAIKALNGTQTMEGCSQPLVVKFADTQKDKDGKR--------------------------------LQQLNPALLQQ 224 (510)
T ss_pred HHHHHHHhhccceeeccCCCceEEEecccCCCchHHH--------------------------------HHhhhHHHHHH
Confidence 7999999999999999999999999999999999998 22478999999
Q ss_pred CCCCCCCCCCcccCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCccccccchhhhcccCCCCCCCCCCCCcCCCCCCCCC
Q 010598 81 PRNMGPLSNPGIRGFGNQLPPRSGDLGMPLNPGGPADV--PLPGLAVSSTSSALQQNFCQPESQAPSLGQQISPLQKPLQ 158 (506)
Q Consensus 81 p~~~~p~~n~g~~g~Gs~~~~~~G~~~~~~~~~gp~~g--~~~~~~~~~~s~~sqq~~n~~~~q~~~~gqqi~plqKp~~ 158 (506)
-.+.++..|.++.|++++-....+.-.++++.+|+..| .|.++ . ++..+ |...++.+|.|+||+..
T Consensus 225 l~~~~~~~n~~~~~~l~~~~~~~~Qq~~~sqn~g~l~g~~~L~~l----~-a~~~q-------q~~~~~~~~ta~q~~~~ 292 (510)
T KOG0144|consen 225 LGNGQNPQNLASLGALSNGYQGPQQQTQQSQNVGTLGGLPPLGPL----N-ATQLQ-------QAAALAAAATAAQKTAS 292 (510)
T ss_pred hcCCCCccchhhhhccCcccCchhhhccccCCCcccccccCCCCc----c-hhHHH-------HHHHhhhhcccccCCCC
Confidence 99999999999999999888889999999999988774 55554 2 34433 78889999999999999
Q ss_pred CCCCCCCCcCCCCCCCCcccccccccccccCCCCCcc-cCCCccccccCCCCCCCCCCcchhhcccccccCCCCCCCCCC
Q 010598 159 SPQHMPPLQLHPQVPSSYSHTQNSHLRQLQIPGQTSF-SQALPSQHLLGMSGNLPASQPQGQQIASSSTALPTPLNIKPQ 237 (506)
Q Consensus 159 spQ~~p~lq~~pq~~~~~~~~~~l~~~~~~~~~~~~f-~~~~p~q~~~~~sgql~~sQp~~qq~a~~~~~~q~~l~~~~q 237 (506)
|++.+|. + ++ +|| |..-|.++.++++.++++|+-..+++.+..+++.+++|+| .
T Consensus 293 s~q~~pl-~--~q---------------------ts~~~~~~~~~~~~~~ss~~~~s~~~~aq~~~~q~~p~t~~~~n-~ 347 (510)
T KOG0144|consen 293 STQGLPL-R--TQ---------------------TSFPGSQTSPQSASAPSSSLSTSQNPLAQLGARQTFPGTPANYN-L 347 (510)
T ss_pred CcccCcc-c--cc---------------------cCCccccCCCccccCccccCcccccchhhhhHhhcCCCCchhcc-c
Confidence 9999844 2 22 666 6677788899999999999999999999999999999999 6
Q ss_pred CCCCCCCCCCccCCcccccccCCCccCCchHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHcCCCccCCCCccCCCCc
Q 010598 238 SSSLPGGTNQQQLPAPVQQQLHQPYQQSPSQLAQMLSQQTQTLQATFQSSQQAFSQLQQQLQLMQPSNQNLPLQQGSQGT 317 (506)
Q Consensus 238 s~~~~~~~~qqq~p~~vqqq~~qp~qq~Psql~Qll~QQtqtlQasfqSsQQa~sqlqqQlq~mq~~~Q~l~~q~~~~~~ 317 (506)
.+.| ....-..|.....+.++++...|+. ++++++++|++|..|+|++.|+..|..|.+.|++.+.+...+.....+
T Consensus 348 ~~~~--a~a~~~sp~aa~~~~lq~~~ltp~~-~~~~~~~tQa~q~~~q~a~~a~~~l~~q~~~~qq~~~~~~~q~eGpeG 424 (510)
T KOG0144|consen 348 AGGM--AGAGTTSPVAASLANLQQIGLTPFA-GAAALDHTQAMQQYAQSANLAAPGLVGQQATTQQAQMVGNGQVEGPEG 424 (510)
T ss_pred cccc--ccccccCcccccccccccccCCChh-hhhhHhHHHhhhHhhhhhhhcccchhhhhHhhhhhhcccCccccCCCc
Confidence 7777 3456677888888899999999999 999999999999999999999999999999999999998888776655
Q ss_pred ccccccCCCCCcccccCCCCCCCCCCCCCCCCCCCCCCCcccCCCCCCCceEEeCCCCCcccccCCCCceeccCCccCCH
Q 010598 318 KQQSQWAGIAPQTVASAPASAPAADLPVSTSIGPAAPVSSQTVAPAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEELTL 397 (506)
Q Consensus 318 k~Q~qw~G~~~q~v~s~~~~APaA~v~Ss~s~~savP~~~q~~~~~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeElk~ 397 (506)
+.= .-++. |--... ..++..-+..-...+.|+++...+|-.|||+-+|.|+.|++++++..
T Consensus 425 anl--fiyhl-----------Pqefgd------q~l~~~f~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~a 485 (510)
T KOG0144|consen 425 ANL--FIYHL-----------PQEFGD------QDLIATFQPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISA 485 (510)
T ss_pred cce--eeeeC-----------chhhhh------HHHHHHhccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHH
Confidence 431 22222 322222 23444444445567789999999999999999999999999999988
Q ss_pred HHHHHHhcC
Q 010598 398 FEQQQQQQK 406 (506)
Q Consensus 398 ~Erq~qqq~ 406 (506)
++..+...|
T Consensus 486 mngfQig~K 494 (510)
T KOG0144|consen 486 MNGFQIGSK 494 (510)
T ss_pred hcchhhccc
Confidence 876554333
No 2
>smart00456 WW Domain with 2 conserved Trp (W) residues. Also known as the WWP or rsp5 domain. Binds proline-rich polypeptides.
Probab=98.54 E-value=5.8e-08 Score=66.20 Aligned_cols=30 Identities=50% Similarity=1.058 Sum_probs=28.0
Q ss_pred CCceEEeCCCCCcccccCCCCceeccCCcc
Q 010598 365 SSWTEHTSPDGYKYYYNCVTGVSKWEKPEE 394 (506)
Q Consensus 365 s~WtEh~SpDGr~YYYNt~TkEStWEKPeE 394 (506)
..|+++.+++|+.||||..|++|+||+|.+
T Consensus 3 ~gW~~~~~~~g~~yy~n~~t~~s~W~~P~~ 32 (32)
T smart00456 3 PGWEERKDPDGRPYYYNHETKETQWEKPRE 32 (32)
T ss_pred CCCEEEECCCCCEEEEECCCCCEEcCCCCC
Confidence 479999999999999999999999999963
No 3
>PF00397 WW: WW domain; InterPro: IPR001202 Synonym(s): Rsp5 or WWP domain The WW domain is a short conserved region in a number of unrelated proteins, which folds as a stable, triple stranded beta-sheet. This short domain of approximately 40 amino acids, may be repeated up to four times in some proteins [, , , ]. The name WW or WWP derives from the presence of two signature tryptophan residues that are spaced 20-23 amino acids apart and are present in most WW domains known to date, as well as that of a conserved Pro. The WW domain binds to proteins with particular proline-motifs, [AP]-P-P-[AP]-Y, and/or phosphoserine- phosphothreonine-containing motifs [, ]. It is frequently associated with other domains typical for proteins in signal transduction processes. A large variety of proteins containing the WW domain are known. These include; dystrophin, a multidomain cytoskeletal protein; utrophin, a dystrophin-like protein of unknown function; vertebrate YAP protein, substrate of an unknown serine kinase; Mus musculus (Mouse) NEDD-4, involved in the embryonic development and differentiation of the central nervous system; Saccharomyces cerevisiae (Baker's yeast) RSP5, similar to NEDD-4 in its molecular organisation; Rattus norvegicus (Rat) FE65, a transcription-factor activator expressed preferentially in liver; Nicotiana tabacum (Common tobacco) DB10 protein, amongst others.; GO: 0005515 protein binding; PDB: 2JXW_A 2DK1_A 2JOC_A 2JO9_A 1YIU_A 1O6W_A 2JMF_A 1TK7_A 2KYK_A 2L5F_A ....
Probab=98.52 E-value=4.4e-08 Score=68.01 Aligned_cols=27 Identities=56% Similarity=1.155 Sum_probs=25.5
Q ss_pred CceEEeCCC-CCcccccCCCCceeccCC
Q 010598 366 SWTEHTSPD-GYKYYYNCVTGVSKWEKP 392 (506)
Q Consensus 366 ~WtEh~SpD-Gr~YYYNt~TkEStWEKP 392 (506)
.|+++.+++ |+.||||.+|++|+||+|
T Consensus 4 gW~~~~~~~~g~~YY~N~~t~~s~W~~P 31 (31)
T PF00397_consen 4 GWEEYFDPDSGRPYYYNHETGESQWERP 31 (31)
T ss_dssp TEEEEEETTTSEEEEEETTTTEEESSST
T ss_pred CCEEEEcCCCCCEEEEeCCCCCEEeCCC
Confidence 599999886 999999999999999998
No 4
>cd00201 WW Two conserved tryptophans domain; also known as the WWP or rsp5 domain; around 40 amino acids; functions as an interaction module in a diverse set of signalling proteins; binds specific proline-rich sequences but at low affinities compared to other peptide recognition proteins such as antibodies and receptors; WW domains have a single groove formed by a conserved Trp and Tyr which recognizes a pair of residues of the sequence X-Pro; variable loops and neighboring domains confer specificity in this domain; there are five distinct groups based on binding: 1) PPXY motifs 2) the PPLP motif; 3) PGM motifs; 4) PSP or PTP motifs; 5) PR motifs.
Probab=98.50 E-value=8.9e-08 Score=64.24 Aligned_cols=30 Identities=47% Similarity=0.973 Sum_probs=27.9
Q ss_pred CCceEEeCCCCCcccccCCCCceeccCCcc
Q 010598 365 SSWTEHTSPDGYKYYYNCVTGVSKWEKPEE 394 (506)
Q Consensus 365 s~WtEh~SpDGr~YYYNt~TkEStWEKPeE 394 (506)
..|+++.+.+|+.||||..|++|+||+|..
T Consensus 2 ~~W~~~~~~~g~~yy~n~~t~~s~W~~P~~ 31 (31)
T cd00201 2 PGWEERWDPDGRVYYYNHNTKETQWEDPRE 31 (31)
T ss_pred CCCEEEECCCCCEEEEECCCCCEeCCCCCC
Confidence 469999999999999999999999999963
No 5
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=98.18 E-value=2.5e-07 Score=97.55 Aligned_cols=39 Identities=54% Similarity=0.923 Sum_probs=33.8
Q ss_pred CCCCceEEeCCCCCcccccCCCCceeccCCccC-CHHHHH
Q 010598 363 AKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL-TLFEQQ 401 (506)
Q Consensus 363 ~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeEl-k~~Erq 401 (506)
..++|.|.+++|||.||||+.||+|+||||+|| ..+|+.
T Consensus 13 ~~s~w~e~k~~dgRiYYYN~~T~kS~weKPkell~~~e~~ 52 (590)
T COG5104 13 ARSEWEELKAPDGRIYYYNKRTGKSSWEKPKELLKGSEED 52 (590)
T ss_pred HHHHHHHhhCCCCceEEEecccccccccChHHHhcchHhh
Confidence 456899999999999999999999999999886 555544
No 6
>COG5104 PRP40 Splicing factor [RNA processing and modification]
Probab=97.78 E-value=3.6e-06 Score=89.11 Aligned_cols=36 Identities=36% Similarity=0.713 Sum_probs=32.7
Q ss_pred CCCCCceEEeCCCCCcccccCCCCceeccCCccCCH
Q 010598 362 PAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEELTL 397 (506)
Q Consensus 362 ~~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeElk~ 397 (506)
.....|+|+.+.||++||||..|+||+|+.|++.+.
T Consensus 53 l~~~~Wke~~TadGkvyyyN~~TREs~W~iP~e~Kk 88 (590)
T COG5104 53 LDVDPWKECRTADGKVYYYNSITRESRWKIPPERKK 88 (590)
T ss_pred hchhhHHHHhhcCCceEEecCccccccccCChhhhc
Confidence 456789999999999999999999999999999754
No 7
>KOG3259 consensus Peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=97.71 E-value=1.2e-05 Score=75.06 Aligned_cols=31 Identities=35% Similarity=0.807 Sum_probs=28.6
Q ss_pred CCceEEeCC-CCCcccccCCCCceeccCCccC
Q 010598 365 SSWTEHTSP-DGYKYYYNCVTGVSKWEKPEEL 395 (506)
Q Consensus 365 s~WtEh~Sp-DGr~YYYNt~TkEStWEKPeEl 395 (506)
..|+..++. .|+.||||++|++|+||+|++-
T Consensus 9 ~~Wekr~Srs~gr~YyfN~~T~~SqWe~P~~t 40 (163)
T KOG3259|consen 9 PGWEKRMSRSSGRPYYFNTETNESQWERPSGT 40 (163)
T ss_pred chhheeccccCCCcceeccccchhhccCCCcc
Confidence 369999999 8999999999999999999973
No 8
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=96.88 E-value=0.00045 Score=70.35 Aligned_cols=33 Identities=52% Similarity=0.707 Sum_probs=31.5
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPRP 34 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr~ 34 (506)
|.+||++|||.-||.|.+.-|||||||++|-|.
T Consensus 73 AqaAI~aLHgSqTmpGASSSLVVK~ADTdkER~ 105 (371)
T KOG0146|consen 73 AQAAINALHGSQTMPGASSSLVVKFADTDKERT 105 (371)
T ss_pred HHHHHHHhcccccCCCCccceEEEeccchHHHH
Confidence 789999999999999999999999999999875
No 9
>KOG0155 consensus Transcription factor CA150 [Transcription]
Probab=96.67 E-value=0.0008 Score=72.80 Aligned_cols=34 Identities=50% Similarity=0.837 Sum_probs=31.2
Q ss_pred CCceEEeCCCCCcccccCCCCceeccCCccCCHH
Q 010598 365 SSWTEHTSPDGYKYYYNCVTGVSKWEKPEELTLF 398 (506)
Q Consensus 365 s~WtEh~SpDGr~YYYNt~TkEStWEKPeElk~~ 398 (506)
..|+|+..++|++||||..|.+++|++|..+...
T Consensus 12 s~wtef~ap~G~pyy~ns~t~~st~ekP~~l~~~ 45 (617)
T KOG0155|consen 12 SGWTEFKAPDGIPYYWNSETLESTWEKPSFLEKN 45 (617)
T ss_pred CCCccCCCCCCcceecccccccchhhCchhhhhc
Confidence 6799999999999999999999999999986544
No 10
>KOG0155 consensus Transcription factor CA150 [Transcription]
Probab=96.47 E-value=0.0017 Score=70.36 Aligned_cols=36 Identities=28% Similarity=0.503 Sum_probs=32.1
Q ss_pred CCCCceEEeCCCCCcccccCCCCceeccCCccCCHH
Q 010598 363 AKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEELTLF 398 (506)
Q Consensus 363 ~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeElk~~ 398 (506)
..++|...-+.|||.||||..|++|.||+|.|++..
T Consensus 112 pgtdWcVVwTgD~RvFFyNpktk~S~We~P~dlk~r 147 (617)
T KOG0155|consen 112 PGTDWCVVWTGDNRVFFYNPKTKLSVWERPLDLKGR 147 (617)
T ss_pred CCCCeEEEEeCCCceEEeCCccccccccCchhhccc
Confidence 455699999999999999999999999999998543
No 11
>KOG0150 consensus Spliceosomal protein FBP21 [RNA processing and modification]
Probab=95.70 E-value=0.0045 Score=63.66 Aligned_cols=34 Identities=29% Similarity=0.529 Sum_probs=30.9
Q ss_pred CCCCCceEEeCCCCCcccccCCCCceeccCCccC
Q 010598 362 PAKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEEL 395 (506)
Q Consensus 362 ~~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeEl 395 (506)
.....|++.++++|.+||||+.|++|+|++|...
T Consensus 148 ~~~k~wv~~Knes~~~yy~n~~t~esvwk~P~~~ 181 (336)
T KOG0150|consen 148 AETKEWVEGKNESGPTYYSNKRTNESVWKPPRIS 181 (336)
T ss_pred hhhhhcccccCCCCCCcceecCCCccccCCCCcc
Confidence 4466899999999999999999999999999864
No 12
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=95.07 E-value=0.011 Score=63.15 Aligned_cols=42 Identities=40% Similarity=0.561 Sum_probs=38.2
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCCCCCCCCCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPRPGDSRSGPTFGG 45 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr~gesrg~~~~~g 45 (506)
|++||++||.++|+.|-..||-|||||.+|-|.-|.| -.|.|
T Consensus 89 a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~~~e~--KLFvg 130 (510)
T KOG0144|consen 89 ADEAINALHNQKTLPGMHHPVQVKYADGERERIVEER--KLFVG 130 (510)
T ss_pred HHHHHHHhhcccccCCCCcceeecccchhhhccccch--hhhhh
Confidence 7899999999999999999999999999999987777 46655
No 13
>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=93.44 E-value=0.2 Score=51.40 Aligned_cols=33 Identities=42% Similarity=0.547 Sum_probs=27.6
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPRPG 35 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr~g 35 (506)
|.+||++|||+ .++|+.++|.||||+.++....
T Consensus 248 A~~Ai~~lng~-~~~g~~~~l~V~~a~~~~~~~~ 280 (346)
T TIGR01659 248 AQEAISALNNV-IPEGGSQPLTVRLAEEHGKAKA 280 (346)
T ss_pred HHHHHHHhCCC-ccCCCceeEEEEECCccccccc
Confidence 78999999986 5688899999999998765443
No 14
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=85.98 E-value=1.6 Score=42.60 Aligned_cols=29 Identities=48% Similarity=0.781 Sum_probs=25.9
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKR 31 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~ 31 (506)
|.+||+.|||+ .+.||..+|.|+||+.++
T Consensus 144 A~~ai~~l~g~-~~~g~~~~i~v~~a~~~~ 172 (352)
T TIGR01661 144 ADRAIKTLNGT-TPSGCTEPITVKFANNPS 172 (352)
T ss_pred HHHHHHHhCCC-ccCCCceeEEEEECCCCC
Confidence 67899999995 789999999999998765
No 15
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=81.95 E-value=2.4 Score=38.31 Aligned_cols=34 Identities=26% Similarity=0.410 Sum_probs=25.4
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPRPGDSR 38 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr~gesr 38 (506)
|.+||+.|||+ .|+| ++|.|++|..|.......+
T Consensus 89 A~~Al~~lng~-~i~G--r~l~V~~a~~~~~~~~~~~ 122 (144)
T PLN03134 89 ATAAISEMDGK-ELNG--RHIRVNPANDRPSAPRAYG 122 (144)
T ss_pred HHHHHHHcCCC-EECC--EEEEEEeCCcCCCCCCCCC
Confidence 67899999987 4665 6899999987765544433
No 16
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=80.77 E-value=1.3 Score=45.89 Aligned_cols=31 Identities=42% Similarity=0.713 Sum_probs=26.3
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPR 33 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr 33 (506)
|-.||+.|||.. =.||..|+.||||.+-.-+
T Consensus 182 Ae~AIk~lNG~~-P~g~tepItVKFannPsq~ 212 (360)
T KOG0145|consen 182 AEEAIKGLNGQK-PSGCTEPITVKFANNPSQK 212 (360)
T ss_pred HHHHHHhccCCC-CCCCCCCeEEEecCCcccc
Confidence 678999999974 5799999999999876433
No 17
>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=76.76 E-value=13 Score=39.52 Aligned_cols=29 Identities=34% Similarity=0.551 Sum_probs=24.1
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPR 33 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr 33 (506)
|.+||++||| +.+.| ++|.|++|+.|..|
T Consensus 339 A~~A~~~~~g-~~~~g--k~l~V~~a~~k~~~ 367 (562)
T TIGR01628 339 ANRAVTEMHG-RMLGG--KPLYVALAQRKEQR 367 (562)
T ss_pred HHHHHHHhcC-CeeCC--ceeEEEeccCcHHH
Confidence 7899999999 44554 89999999998755
No 18
>KOG0152 consensus Spliceosomal protein FBP11/Splicing factor PRP40 [RNA processing and modification]
Probab=71.42 E-value=0.5 Score=50.84 Aligned_cols=34 Identities=44% Similarity=0.797 Sum_probs=30.5
Q ss_pred CCCCceEEeCCCCCcccccCCCCceeccCCccCC
Q 010598 363 AKSSWTEHTSPDGYKYYYNCVTGVSKWEKPEELT 396 (506)
Q Consensus 363 ~~s~WtEh~SpDGr~YYYNt~TkEStWEKPeElk 396 (506)
....|.++...+|+.||||++|..+.||+++++.
T Consensus 124 ~~p~~~~~~~~~~r~~~~nci~el~~~ek~k~~~ 157 (463)
T KOG0152|consen 124 GDPRWSEHISEDGRKIYENCITELSQREKEKKLE 157 (463)
T ss_pred cccchhhccchhhHHHHHHHHHHHHHhhhHHHHH
Confidence 4557999999999999999999999999998753
No 19
>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=57.53 E-value=10 Score=28.04 Aligned_cols=23 Identities=48% Similarity=0.728 Sum_probs=19.1
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEec
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFA 27 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfA 27 (506)
|..||+.|||.. +.| ++|-|.||
T Consensus 34 A~~a~~~l~~~~-~~g--~~l~V~~a 56 (56)
T PF13893_consen 34 AQKAIEQLNGRQ-FNG--RPLKVSYA 56 (56)
T ss_dssp HHHHHHHHTTSE-ETT--EEEEEEEE
T ss_pred HHHHHHHhCCCE-ECC--cEEEEEEC
Confidence 678999999998 544 68999986
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=50.91 E-value=13 Score=39.41 Aligned_cols=27 Identities=41% Similarity=0.639 Sum_probs=20.4
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADP 29 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~ 29 (506)
|.+||+.|||+..+.|| ..|.|.||.+
T Consensus 147 A~~A~~~Lng~~i~~~~-~~l~v~~sk~ 173 (481)
T TIGR01649 147 AQHAKAALNGADIYNGC-CTLKIEYAKP 173 (481)
T ss_pred HHHHHHHhcCCcccCCc-eEEEEEEecC
Confidence 78999999999999887 3455555443
No 21
>PF12905 Glyco_hydro_101: Endo-alpha-N-acetylgalactosaminidase; PDB: 3ECQ_B 2ZXQ_A.
Probab=43.21 E-value=5.8 Score=42.92 Aligned_cols=25 Identities=28% Similarity=0.454 Sum_probs=17.9
Q ss_pred CCCCcccccCCCCceeccCCccCCH
Q 010598 373 PDGYKYYYNCVTGVSKWEKPEELTL 397 (506)
Q Consensus 373 pDGr~YYYNt~TkEStWEKPeElk~ 397 (506)
.+.|.|+||..-++|+|+-|+.++.
T Consensus 381 ~~eKLYHyN~~GGtSTW~LP~~w~~ 405 (425)
T PF12905_consen 381 DEEKLYHYNPDGGTSTWTLPDSWAG 405 (425)
T ss_dssp GG-EEEEEESS-CEEEEE--HHHCT
T ss_pred CcceeEEEcCCCCeeeeeCCccccC
Confidence 3569999999999999999987643
No 22
>smart00564 PQQ beta-propeller repeat. Beta-propeller repeat occurring in enzymes with pyrrolo-quinoline quinone (PQQ) as cofactor, in Ire1p-like Ser/Thr kinases, and in prokaryotic dehydrogenases.
Probab=40.21 E-value=15 Score=24.41 Aligned_cols=21 Identities=33% Similarity=0.484 Sum_probs=18.3
Q ss_pred eCCCCCcccccCCCCceeccC
Q 010598 371 TSPDGYKYYYNCVTGVSKWEK 391 (506)
Q Consensus 371 ~SpDGr~YYYNt~TkEStWEK 391 (506)
-+.+|+.|-+|..|++..|+.
T Consensus 12 ~~~~g~l~a~d~~~G~~~W~~ 32 (33)
T smart00564 12 GSTDGTLYALDAKTGEILWTY 32 (33)
T ss_pred EcCCCEEEEEEcccCcEEEEc
Confidence 355899999999999999985
No 23
>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=37.16 E-value=30 Score=35.39 Aligned_cols=29 Identities=28% Similarity=0.578 Sum_probs=22.7
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRPR 33 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~pr 33 (506)
|..||+.||| +++.| ++|.|.||+....+
T Consensus 241 A~~A~~~l~g-~~i~g--~~i~v~~a~~~~~~ 269 (457)
T TIGR01622 241 AKEALEVMNG-FELAG--RPIKVGYAQDSTYL 269 (457)
T ss_pred HHHHHHhcCC-cEECC--EEEEEEEccCCCcc
Confidence 6789999999 66665 79999999844433
No 24
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=35.41 E-value=36 Score=33.32 Aligned_cols=27 Identities=33% Similarity=0.685 Sum_probs=21.3
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKR 31 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~ 31 (506)
|.+||+.|||+ .+. .++|.|+||.++.
T Consensus 58 A~~Ai~~l~g~-~l~--g~~i~v~~a~~~~ 84 (352)
T TIGR01661 58 AEKAVNSLNGL-RLQ--NKTIKVSYARPSS 84 (352)
T ss_pred HHHHHhhcccE-EEC--CeeEEEEeecccc
Confidence 67899999994 454 5789999997654
No 25
>KOG1891 consensus Proline binding protein WW45 [General function prediction only]
Probab=32.01 E-value=19 Score=36.85 Aligned_cols=26 Identities=23% Similarity=0.666 Sum_probs=13.9
Q ss_pred CceEEeCCCCCcccccCCCCceeccC
Q 010598 366 SWTEHTSPDGYKYYYNCVTGVSKWEK 391 (506)
Q Consensus 366 ~WtEh~SpDGr~YYYNt~TkEStWEK 391 (506)
.|..-.+-+||+||-+-.++.+-|--
T Consensus 97 gWav~~T~~grkYYIDHn~~tTHW~H 122 (271)
T KOG1891|consen 97 GWAVEFTTEGRKYYIDHNNRTTHWVH 122 (271)
T ss_pred CcceeeEecCceeEeecCCCcccccC
Confidence 45555555566666555555555443
No 26
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=28.28 E-value=88 Score=35.13 Aligned_cols=28 Identities=32% Similarity=0.546 Sum_probs=22.9
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRP 32 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~p 32 (506)
|.+||++|||+. ++| +.|.|.||.++..
T Consensus 282 A~kAi~~lnG~~-i~G--r~I~V~~Akp~~~ 309 (578)
T TIGR01648 282 AVKAMDELNGKE-LEG--SEIEVTLAKPVDK 309 (578)
T ss_pred HHHHHHHhCCCE-ECC--EEEEEEEccCCCc
Confidence 789999999985 555 7999999987643
No 27
>PF01011 PQQ: PQQ enzyme repeat family.; InterPro: IPR002372 Pyrrolo-quinoline quinone (PQQ) is a redox coenzyme, which serves as a cofactor for a number of enzymes (quinoproteins) and particularly for some bacterial dehydrogenases [, ]. A number of bacterial quinoproteins belong to this family. Enzymes in this group have repeats of a beta propeller.; PDB: 1H4I_C 1H4J_E 1W6S_A 2YH3_A 3PRW_A 3P1L_A 3Q7M_A 3Q7O_A 3Q7N_A 1G72_A ....
Probab=21.58 E-value=45 Score=23.68 Aligned_cols=23 Identities=35% Similarity=0.696 Sum_probs=20.0
Q ss_pred CCCCCcccccCCCCceeccCCcc
Q 010598 372 SPDGYKYYYNCVTGVSKWEKPEE 394 (506)
Q Consensus 372 SpDGr~YYYNt~TkEStWEKPeE 394 (506)
+.+|+.|=+|.+|++-.|+...+
T Consensus 7 ~~~g~l~AlD~~TG~~~W~~~~~ 29 (38)
T PF01011_consen 7 TPDGYLYALDAKTGKVLWKFQTG 29 (38)
T ss_dssp TTTSEEEEEETTTTSEEEEEESS
T ss_pred CCCCEEEEEECCCCCEEEeeeCC
Confidence 67999999999999999986543
No 28
>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=21.52 E-value=74 Score=33.08 Aligned_cols=28 Identities=36% Similarity=0.506 Sum_probs=22.5
Q ss_pred hHHHHHhhcCceeecCCCCCeEEEecCCCCC
Q 010598 2 ALAAINALNGIYTMRGCDQPLTVRFADPKRP 32 (506)
Q Consensus 2 AlaAI~~Lng~~tm~Gc~~PL~VrfAd~k~p 32 (506)
|.+||+.|||+.. ++++|.|+||+++..
T Consensus 162 A~~Ai~~LnG~~l---~gr~i~V~~a~p~~~ 189 (346)
T TIGR01659 162 SQRAIKNLNGITV---RNKRLKVSYARPGGE 189 (346)
T ss_pred HHHHHHHcCCCcc---CCceeeeeccccccc
Confidence 7789999999665 368999999987543
No 29
>KOG1891 consensus Proline binding protein WW45 [General function prediction only]
Probab=20.73 E-value=81 Score=32.50 Aligned_cols=31 Identities=26% Similarity=0.510 Sum_probs=27.8
Q ss_pred CCCceEEeCCCCCcccccCCCCceeccCCcc
Q 010598 364 KSSWTEHTSPDGYKYYYNCVTGVSKWEKPEE 394 (506)
Q Consensus 364 ~s~WtEh~SpDGr~YYYNt~TkEStWEKPeE 394 (506)
...|+...+++--+||||-.+|.++.+-|-.
T Consensus 130 ppGW~rv~s~e~GtyY~~~~~k~tQy~HPc~ 160 (271)
T KOG1891|consen 130 PPGWKRVFSPEKGTYYYHEEMKRTQYEHPCI 160 (271)
T ss_pred CcchhhccccccceeeeecccchhhhcCCCC
Confidence 3469999999999999999999999999865
No 30
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=20.59 E-value=38 Score=39.63 Aligned_cols=28 Identities=32% Similarity=0.770 Sum_probs=26.8
Q ss_pred CceEEeCCCCCcccccCCCCceeccCCc
Q 010598 366 SWTEHTSPDGYKYYYNCVTGVSKWEKPE 393 (506)
Q Consensus 366 ~WtEh~SpDGr~YYYNt~TkEStWEKPe 393 (506)
.|...++++--+||-|-.|-.++||+|.
T Consensus 353 pw~rais~nkvpyyinh~~q~t~wdhp~ 380 (966)
T KOG4286|consen 353 PWERAISPNKVPYYINHETQTTCWDHPK 380 (966)
T ss_pred cchhccCccccchhhcccchhhhccchH
Confidence 5999999999999999999999999996
No 31
>KOG3673 consensus FtsJ-like RNA methyltransferase [RNA processing and modification]
Probab=20.32 E-value=42 Score=38.39 Aligned_cols=32 Identities=22% Similarity=0.314 Sum_probs=25.8
Q ss_pred CCCCceEEeCC-CCCcccccCCCCceecc--CCcc
Q 010598 363 AKSSWTEHTSP-DGYKYYYNCVTGVSKWE--KPEE 394 (506)
Q Consensus 363 ~~s~WtEh~Sp-DGr~YYYNt~TkEStWE--KPeE 394 (506)
.+..|+-..+. -+++||||.+|++|++. -|.+
T Consensus 756 i~~~w~mg~SkS~~k~y~~n~k~k~S~f~d~lp~~ 790 (845)
T KOG3673|consen 756 IKQEWRMGWSKSQQKPYLWNEKSKYSSFWDCLPKD 790 (845)
T ss_pred eccchhhhcchhcCCcceeeeccccchhhhhcCcc
Confidence 35578888887 78999999999999987 5543
Done!