Query 033134
Match_columns 126
No_of_seqs 110 out of 195
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 10:14:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033134.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033134hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1915 Cell cycle control pro 100.0 3.4E-34 7.4E-39 249.6 8.5 110 12-124 566-676 (677)
2 PF05843 Suf: Suppressor of fo 97.9 9E-06 2E-10 65.7 3.9 62 7-73 75-136 (280)
3 KOG1070 rRNA processing protei 97.6 9.8E-05 2.1E-09 71.9 5.2 60 6-70 1638-1697(1710)
4 KOG1070 rRNA processing protei 96.2 0.011 2.4E-07 58.2 6.4 61 7-70 1463-1523(1710)
5 KOG1914 mRNA cleavage and poly 92.4 0.18 3.8E-06 46.1 4.2 56 15-75 448-503 (656)
6 KOG2047 mRNA splicing factor [ 91.4 0.39 8.6E-06 44.8 5.3 23 45-67 695-717 (835)
7 KOG1915 Cell cycle control pro 87.4 1.2 2.6E-05 40.6 5.2 56 8-66 213-302 (677)
8 KOG0128 RNA-binding protein SA 86.8 1.3 2.8E-05 42.1 5.2 64 6-74 501-565 (881)
9 smart00386 HAT HAT (Half-A-TPR 85.9 0.65 1.4E-05 24.2 1.8 17 17-33 2-18 (33)
10 PF02184 HAT: HAT (Half-A-TPR) 83.7 1.1 2.4E-05 26.0 2.2 15 17-31 2-16 (32)
11 PF05843 Suf: Suppressor of fo 83.2 4 8.7E-05 32.9 6.1 46 16-69 50-95 (280)
12 COG5107 RNA14 Pre-mRNA 3'-end 75.8 5.5 0.00012 36.4 5.0 58 9-72 473-530 (660)
13 KOG0495 HAT repeat protein [RN 60.5 19 0.00041 34.3 5.2 48 15-70 830-877 (913)
14 KOG0495 HAT repeat protein [RN 48.9 44 0.00096 31.9 5.7 47 16-70 530-576 (913)
15 KOG1258 mRNA processing protei 39.3 1E+02 0.0022 28.5 6.4 69 8-97 85-161 (577)
16 PF08171 Mad3_BUB1_II: Mad3/BU 37.8 8.5 0.00019 25.9 -0.5 23 94-116 33-56 (68)
17 KOG4032 Uncharacterized conser 34.7 76 0.0017 25.2 4.3 41 17-71 5-49 (184)
18 TIGR01619 hyp_HI0040 conserved 26.5 15 0.00033 30.2 -0.9 26 88-113 121-149 (249)
19 cd08316 Death_FAS_TNFRSF6 Deat 25.0 1.1E+02 0.0024 21.5 3.4 32 38-69 47-78 (97)
20 PF08470 NTNH_C: Nontoxic nonh 24.8 37 0.00081 26.4 1.0 13 90-102 24-36 (165)
21 KOG2983 Uncharacterized conser 23.1 49 0.0011 28.2 1.5 70 45-124 257-330 (334)
22 KOG2047 mRNA splicing factor [ 21.3 1.5E+02 0.0033 28.3 4.4 49 8-57 483-531 (835)
23 KOG3871 Cell adhesion complex 21.3 73 0.0016 28.2 2.2 41 61-115 24-64 (449)
24 PF07719 TPR_2: Tetratricopept 21.1 1.1E+02 0.0024 15.6 2.2 18 15-32 14-31 (34)
No 1
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=100.00 E-value=3.4e-34 Score=249.55 Aligned_cols=110 Identities=58% Similarity=0.940 Sum_probs=102.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhCChhhhhhccccCCCCCCCcee
Q 033134 12 EQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKLPKKLKKRRQTQSDDGLSAGYE 91 (126)
Q Consensus 12 e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~Pr~VKkrR~~~~~dg~~~~~E 91 (126)
+++++++.+||+||+||+.++|.+ +.||+|++|||+|++||..||+..+++.|+++||++|||||++..+|| +.+||
T Consensus 566 e~~~~~~~~AR~iferAn~~~k~~--~~KeeR~~LLEaw~~~E~~~G~~~d~~~V~s~mPk~vKKrr~~~~edG-~~~~E 642 (677)
T KOG1915|consen 566 EITDENIKRARKIFERANTYLKES--TPKEERLMLLEAWKNMEETFGTEGDVERVQSKMPKKVKKRRKIQREDG-DTEYE 642 (677)
T ss_pred hcchhHHHHHHHHHHHHHHHHHhc--CcHHHHHHHHHHHHHHHHhcCchhhHHHHHHhccHHHHhhhhhhcccC-chhHH
Confidence 678889999999999999999975 679999999999999999999999999999999999999999988898 68999
Q ss_pred EeEeeecCCCCC-CcHHHHHHHHHHHHHhhcccc
Q 033134 92 EYIDYLFPEESQ-TTNLKILEAAYKWKKQKIVSD 124 (126)
Q Consensus 92 EY~DYiFPdD~~-~~~~KlL~~AkkWK~~~~~~~ 124 (126)
||+|||||+|.. ++++|||++|++||+++..+.
T Consensus 643 Ey~DYiFPed~~~~~~~K~LeaA~kWK~q~~~~~ 676 (677)
T KOG1915|consen 643 EYFDYIFPEDASATKNLKILEAAKKWKKQKAKAE 676 (677)
T ss_pred HHHHhcCccccccCcchHHHHHHHHHHHHHHhcc
Confidence 999999999976 888999999999999887643
No 2
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=97.93 E-value=9e-06 Score=65.72 Aligned_cols=62 Identities=23% Similarity=0.359 Sum_probs=47.9
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhCChh
Q 033134 7 QEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKLPKK 73 (126)
Q Consensus 7 ~~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~Pr~ 73 (126)
.|++..+.-.++++||.|||||+..+- .......|...|..||..|||.+++.+|.+|+-..
T Consensus 75 ~Y~~~l~~~~d~~~aR~lfer~i~~l~-----~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~ 136 (280)
T PF05843_consen 75 EYLDFLIKLNDINNARALFERAISSLP-----KEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL 136 (280)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHCCTSS-----CHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHhCcHHHHHHHHHHHHHhcC-----chhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence 578888888999999999999976431 12224578999999999999999999999885433
No 3
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=97.57 E-value=9.8e-05 Score=71.85 Aligned_cols=60 Identities=28% Similarity=0.436 Sum_probs=53.0
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhC
Q 033134 6 FQEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKL 70 (126)
Q Consensus 6 ~~~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~ 70 (126)
..|++.++.-.++..+|.+|||++.. +...+.|| -++.-|++||+.|||+..++.|+.|.
T Consensus 1638 ~VYid~eik~~~~~~vR~lfeRvi~l-~l~~kkmK----fffKkwLeyEk~~Gde~~vE~VKarA 1697 (1710)
T KOG1070|consen 1638 SVYIDMEIKHGDIKYVRDLFERVIEL-KLSIKKMK----FFFKKWLEYEKSHGDEKNVEYVKARA 1697 (1710)
T ss_pred HHHHHHHHccCCHHHHHHHHHHHHhc-CCChhHhH----HHHHHHHHHHHhcCchhhHHHHHHHH
Confidence 47999999999999999999999954 66556777 69999999999999999999998774
No 4
>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]
Probab=96.22 E-value=0.011 Score=58.22 Aligned_cols=61 Identities=20% Similarity=0.323 Sum_probs=50.8
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhC
Q 033134 7 QEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKL 70 (126)
Q Consensus 7 ~~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~ 70 (126)
.|.+..+.-..++.||+|+|||+....- -..+|-.-|--|++.+|..||+++++.+|-.|.
T Consensus 1463 ~YMaf~LelsEiekAR~iaerAL~tIN~---REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRA 1523 (1710)
T KOG1070|consen 1463 RYMAFHLELSEIEKARKIAERALKTINF---REEEEKLNIWIAYLNLENAYGTEESLKKVFERA 1523 (1710)
T ss_pred HHHHHHhhhhhhHHHHHHHHHHhhhCCc---chhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHH
Confidence 5788888889999999999999876533 235677788888899999999999999998774
No 5
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=92.38 E-value=0.18 Score=46.11 Aligned_cols=56 Identities=18% Similarity=0.271 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhCChhhh
Q 033134 15 KQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKLPKKLK 75 (126)
Q Consensus 15 ~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~Pr~VK 75 (126)
-.+=.+||.+|||++.. ... -.+-.-|-..|++||..+||-.++-+|.+|+-...+
T Consensus 448 lNdd~N~R~LFEr~l~s-~l~----~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~ 503 (656)
T KOG1914|consen 448 LNDDNNARALFERVLTS-VLS----ADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFP 503 (656)
T ss_pred hCcchhHHHHHHHHHhc-cCC----hhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcc
Confidence 34447899999999865 222 122335889999999999999999999887654444
No 6
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=91.40 E-value=0.39 Score=44.79 Aligned_cols=23 Identities=13% Similarity=0.289 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhcCChhhHHHHH
Q 033134 45 MLLEEWLNMESSFGELGDVSLVQ 67 (126)
Q Consensus 45 ~LLeaWk~fE~~~G~~~~~~~V~ 67 (126)
.+-.+|+.||-.||+++++....
T Consensus 695 ~fW~twk~FEvrHGnedT~keML 717 (835)
T KOG2047|consen 695 EFWDTWKEFEVRHGNEDTYKEML 717 (835)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHH
Confidence 35688999999999998887654
No 7
>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]
Probab=87.41 E-value=1.2 Score=40.64 Aligned_cols=56 Identities=25% Similarity=0.443 Sum_probs=37.4
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHH-----------------HH-----------------HHHHHHHHHH
Q 033134 8 EHLYEQKKQCIQRARRVFEKAINYYRTSAPELKE-----------------ER-----------------AMLLEEWLNM 53 (126)
Q Consensus 8 ~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kE-----------------eR-----------------~~LLeaWk~f 53 (126)
|.-.+..-+++..||+||+||++.|.. ++-. || -.|...+..|
T Consensus 213 yarFE~k~g~~~~aR~VyerAie~~~~---d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~f 289 (677)
T KOG1915|consen 213 YARFEEKHGNVALARSVYERAIEFLGD---DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAF 289 (677)
T ss_pred HHHHHHhcCcHHHHHHHHHHHHHHhhh---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHH
Confidence 444556667888999999999877643 1111 11 1344566778
Q ss_pred HHhcCChhhHHHH
Q 033134 54 ESSFGELGDVSLV 66 (126)
Q Consensus 54 E~~~G~~~~~~~V 66 (126)
|+.|||-..|+.+
T Consensus 290 EKqfGd~~gIEd~ 302 (677)
T KOG1915|consen 290 EKQFGDKEGIEDA 302 (677)
T ss_pred HHHhcchhhhHHH
Confidence 8889998888775
No 8
>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]
Probab=86.84 E-value=1.3 Score=42.13 Aligned_cols=64 Identities=22% Similarity=0.221 Sum_probs=49.5
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhH-HHHHhhCChhh
Q 033134 6 FQEHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDV-SLVQAKLPKKL 74 (126)
Q Consensus 6 ~~~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~-~~V~k~~Pr~V 74 (126)
++|+..+..-.+...||.++.+|+.- ....+.=+.+|+.|+.||..+||-+++ ..+++++||.-
T Consensus 501 le~~~lE~~~g~~~~~R~~~R~ay~~-----~~~~~~~~ev~~~~~r~Ere~gtl~~~~~~~~~~~pr~~ 565 (881)
T KOG0128|consen 501 LEAINLEREYGDGPSARKVLRKAYSQ-----VVDPEDALEVLEFFRRFEREYGTLESFDLCPEKVLPRVY 565 (881)
T ss_pred HHHHhHHHHhCCchhHHHHHHHHHhc-----CcCchhHHHHHHHHHHHHhccccHHHHhhhHHhhcchhh
Confidence 45666766667889999999999643 345666788999999999999997664 55667799755
No 9
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=85.87 E-value=0.65 Score=24.18 Aligned_cols=17 Identities=35% Similarity=0.778 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHhh
Q 033134 17 CIQRARRVFEKAINYYR 33 (126)
Q Consensus 17 ~~~~AR~Vfera~~~~k 33 (126)
+.++||.||++|+..+.
T Consensus 2 ~~~~~r~i~e~~l~~~~ 18 (33)
T smart00386 2 DIERARKIYERALEKFP 18 (33)
T ss_pred cHHHHHHHHHHHHHHCC
Confidence 46789999999998753
No 10
>PF02184 HAT: HAT (Half-A-TPR) repeat; InterPro: IPR003107 The HAT (Half A TPR) repeat has a repetitive pattern characterised by three aromatic residues with a conserved spacing. They are structurally and sequentially similar to TPRs (tetratricopeptide repeats), though they lack the highly conserved alanine and glycine residues found in TPRs. The number of HAT repeats found in different proteins varies between 9 and 12. HAT-repeat-containing proteins appear to be components of macromolecular complexes that are required for RNA processing []. The repeats may be involved in protein-protein interactions. The HAT motif has striking structural similarities to HEAT repeats (IPR000357 from INTERPRO), being of a similar length and consisting of two short helices connected by a loop domain, as in HEAT repeats.; GO: 0006396 RNA processing, 0005622 intracellular
Probab=83.70 E-value=1.1 Score=26.04 Aligned_cols=15 Identities=27% Similarity=0.483 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHH
Q 033134 17 CIQRARRVFEKAINY 31 (126)
Q Consensus 17 ~~~~AR~Vfera~~~ 31 (126)
.+++||+||||.+..
T Consensus 2 E~dRAR~IyeR~v~~ 16 (32)
T PF02184_consen 2 EFDRARSIYERFVLV 16 (32)
T ss_pred hHHHHHHHHHHHHHh
Confidence 468999999999754
No 11
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=83.22 E-value=4 Score=32.93 Aligned_cols=46 Identities=15% Similarity=0.410 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhh
Q 033134 16 QCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAK 69 (126)
Q Consensus 16 ~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~ 69 (126)
.+...|++|||+|++.|.. + ..++-.+..|+-..|+...+..|-.+
T Consensus 50 ~d~~~A~~Ife~glk~f~~---~-----~~~~~~Y~~~l~~~~d~~~aR~lfer 95 (280)
T PF05843_consen 50 KDPKRARKIFERGLKKFPS---D-----PDFWLEYLDFLIKLNDINNARALFER 95 (280)
T ss_dssp S-HHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCCC---C-----HHHHHHHHHHHHHhCcHHHHHHHHHH
Confidence 5567799999999988743 1 24667888999999998777666555
No 12
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=75.84 E-value=5.5 Score=36.35 Aligned_cols=58 Identities=21% Similarity=0.375 Sum_probs=40.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhCCh
Q 033134 9 HLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKLPK 72 (126)
Q Consensus 9 ~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~Pr 72 (126)
.+.-+...+-++||+.||.++.-+-. .+.| -|-..|.+||..+|+.-.+=.+.++|--
T Consensus 473 l~fLi~inde~naraLFetsv~r~~~--~q~k----~iy~kmi~YEs~~G~lN~v~sLe~rf~e 530 (660)
T COG5107 473 LLFLIRINDEENARALFETSVERLEK--TQLK----RIYDKMIEYESMVGSLNNVYSLEERFRE 530 (660)
T ss_pred HHHHHHhCcHHHHHHHHHHhHHHHHH--hhhh----HHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence 33344445568899999999875432 2334 5889999999999998766666666543
No 13
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=60.49 E-value=19 Score=34.29 Aligned_cols=48 Identities=23% Similarity=0.209 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhC
Q 033134 15 KQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKL 70 (126)
Q Consensus 15 ~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~ 70 (126)
+..++.||+-|+||.+.. ...++ ..--+..||-.||+++++..|.++.
T Consensus 830 e~k~~kar~Wf~Ravk~d--~d~GD------~wa~fykfel~hG~eed~kev~~~c 877 (913)
T KOG0495|consen 830 EKKIEKAREWFERAVKKD--PDNGD------AWAWFYKFELRHGTEEDQKEVLKKC 877 (913)
T ss_pred HHHHHHHHHHHHHHHccC--Cccch------HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 456799999999998653 22232 2223356899999999999998874
No 14
>KOG0495 consensus HAT repeat protein [RNA processing and modification]
Probab=48.86 E-value=44 Score=31.93 Aligned_cols=47 Identities=23% Similarity=0.270 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhcCChhhHHHHHhhC
Q 033134 16 QCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSFGELGDVSLVQAKL 70 (126)
Q Consensus 16 ~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~~ 70 (126)
.+++-||+||--|+..|-.+ + .|--.-..||+.||+.+++..+..+.
T Consensus 530 ~~~~carAVya~alqvfp~k----~----slWlra~~~ek~hgt~Esl~Allqka 576 (913)
T KOG0495|consen 530 PAIECARAVYAHALQVFPCK----K----SLWLRAAMFEKSHGTRESLEALLQKA 576 (913)
T ss_pred chHHHHHHHHHHHHhhccch----h----HHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence 56788999999999987432 2 35445567999999999998887764
No 15
>KOG1258 consensus mRNA processing protein [RNA processing and modification]
Probab=39.27 E-value=1e+02 Score=28.50 Aligned_cols=69 Identities=19% Similarity=0.304 Sum_probs=44.1
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHh----cCChhhHHHHHhhCChhhhhhccccCC
Q 033134 8 EHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESS----FGELGDVSLVQAKLPKKLKKRRQTQSD 83 (126)
Q Consensus 8 ~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~----~G~~~~~~~V~k~~Pr~VKkrR~~~~~ 83 (126)
|.+.+..-.++++|-+|||||+..+- +-+.-|.+|..- +|+++++...-.+ -+. -
T Consensus 85 fA~~E~klg~~~~s~~Vfergv~aip-----------~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~---A~~-------~ 143 (577)
T KOG1258|consen 85 FADYEYKLGNAENSVKVFERGVQAIP-----------LSVDLWLSYLAFLKNNNGDPETLRDLFER---AKS-------Y 143 (577)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHhhh-----------hHHHHHHHHHHHHhccCCCHHHHHHHHHH---HHH-------h
Confidence 45566667888999999999987653 234668888765 6777775443332 111 1
Q ss_pred CCCC----CceeEeEeee
Q 033134 84 DGLS----AGYEEYIDYL 97 (126)
Q Consensus 84 dg~~----~~~EEY~DYi 97 (126)
-|.+ .-|..||.|.
T Consensus 144 vG~dF~S~~lWdkyie~e 161 (577)
T KOG1258|consen 144 VGLDFLSDPLWDKYIEFE 161 (577)
T ss_pred cccchhccHHHHHHHHHH
Confidence 2322 3578888886
No 16
>PF08171 Mad3_BUB1_II: Mad3/BUB1 homology region 2; InterPro: IPR012572 This domain is required for cell cycle arrest induced by spindle assembly checkpoint (SPC) activation. It is also involved in the nuclear accumulation and kinetochore targeting of proteins Bub1p, Bub3p and Mad3p [].; GO: 0000075 cell cycle checkpoint, 0005634 nucleus; PDB: 2I3T_D 2I3S_F.
Probab=37.77 E-value=8.5 Score=25.90 Aligned_cols=23 Identities=22% Similarity=0.427 Sum_probs=17.3
Q ss_pred EeeecCCCCC-CcHHHHHHHHHHH
Q 033134 94 IDYLFPEESQ-TTNLKILEAAYKW 116 (126)
Q Consensus 94 ~DYiFPdD~~-~~~~KlL~~AkkW 116 (126)
+|.|||++.+ -...-||++.+.|
T Consensus 33 ~dLlYp~~~eE~s~eEiLA~sR~~ 56 (68)
T PF08171_consen 33 FDLLYPDDEEEYSLEEILAISRNV 56 (68)
T ss_dssp HHHHCTTSSSB--HHHHHHHHTT-
T ss_pred eEeEecCCCceecHHHHHHHHhhc
Confidence 5789999875 6777999999998
No 17
>KOG4032 consensus Uncharacterized conserved protein [Function unknown]
Probab=34.71 E-value=76 Score=25.22 Aligned_cols=41 Identities=15% Similarity=0.244 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHH----HHhcCChhhHHHHHhhCC
Q 033134 17 CIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNM----ESSFGELGDVSLVQAKLP 71 (126)
Q Consensus 17 ~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~f----E~~~G~~~~~~~V~k~~P 71 (126)
+-..+|.+|+-|.. ++|.+|-.+ |...|+..|.+++.-.+-
T Consensus 5 ~~s~~~~~fr~~vg--------------~il~~W~al~~AVEng~GG~dsqek~~w~~~ 49 (184)
T KOG4032|consen 5 DQSEAQDNFRVGVG--------------KILNSWPALRLAVENGWGGRDSQEKAKWITG 49 (184)
T ss_pred hHHHHHHHHHHHHH--------------HHHHccHHHHHHHHhccCCccHHHHHHHHHh
Confidence 34568899988852 588999775 889999999998876654
No 18
>TIGR01619 hyp_HI0040 conserved hypothetical protein, TIGR01619. This model represents a hypothetical equivalog of gamma proteobacteria, includes HI0040. These sequences do not have any similarity to known proteins by PSI-BLAST.
Probab=26.48 E-value=15 Score=30.20 Aligned_cols=26 Identities=15% Similarity=0.411 Sum_probs=19.1
Q ss_pred CceeEeEeeecCCCCC---CcHHHHHHHH
Q 033134 88 AGYEEYIDYLFPEESQ---TTNLKILEAA 113 (126)
Q Consensus 88 ~~~EEY~DYiFPdD~~---~~~~KlL~~A 113 (126)
..|.-|++|.||++.. ..+.++|.+-
T Consensus 121 p~Wd~Yf~fLyPs~~e~q~i~n~~Vl~~L 149 (249)
T TIGR01619 121 LHWDIYFDFLLASPLEIKIHATEELLDLL 149 (249)
T ss_pred CCHHHHHHhhCCCHHHHHHHHHHHHHHHH
Confidence 5799999999999865 3444565543
No 19
>cd08316 Death_FAS_TNFRSF6 Death domain of FAS or TNF receptor superfamily member 6. Death Domain (DD) found in the FS7-associated cell surface antigen (FAS). FAS, also known as TNFRSF6 (TNF receptor superfamily member 6), APT1, CD95, FAS1, or APO-1, together with FADD (Fas-associating via Death Domain) and caspase 8, is an integral part of the death inducing signalling complex (DISC), which plays an important role in the induction of apoptosis and is activated by binding of the ligand FasL to FAS. FAS also plays a critical role in self-tolerance by eliminating cell types (autoreactive T and B cells) that contribute to autoimmunity. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including CARD (Caspase activation and recruitment domain), DED (Death Effector Domain), and PYRIN. They serve as adaptors in sign
Probab=24.99 E-value=1.1e+02 Score=21.48 Aligned_cols=32 Identities=19% Similarity=0.347 Sum_probs=23.7
Q ss_pred CcHHHHHHHHHHHHHHHHhcCChhhHHHHHhh
Q 033134 38 ELKEERAMLLEEWLNMESSFGELGDVSLVQAK 69 (126)
Q Consensus 38 ~~kEeR~~LLeaWk~fE~~~G~~~~~~~V~k~ 69 (126)
+..|.-+.||.+|+.-+-..|+..++=++...
T Consensus 47 d~~Eq~~qmL~~W~~~~G~~a~~~~Li~aLr~ 78 (97)
T cd08316 47 DTAEQKVQLLRAWYQSHGKTGAYRTLIKTLRK 78 (97)
T ss_pred ChHHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence 55788899999999988777776555444433
No 20
>PF08470 NTNH_C: Nontoxic nonhaemagglutinin C-terminal; InterPro: IPR013677 Bacteria of the Clostridium genus produce protein neurotoxins, which are complexes consisting of neurotoxin (NT), haemagglutinin (HA), nontoxic nonhaemagglutinin (NTNH), and RNA [, ]. The domain described here is found at the C terminus of the NTNH component. ; PDB: 3V0B_B 3V0A_B.
Probab=24.85 E-value=37 Score=26.35 Aligned_cols=13 Identities=31% Similarity=0.710 Sum_probs=9.9
Q ss_pred eeEeEeeecCCCC
Q 033134 90 YEEYIDYLFPEES 102 (126)
Q Consensus 90 ~EEY~DYiFPdD~ 102 (126)
.-+.|.||||++.
T Consensus 24 ~y~lynYvF~~~~ 36 (165)
T PF08470_consen 24 TYQLYNYVFPENP 36 (165)
T ss_dssp EEEEEESSSTT-B
T ss_pred eEEEEEEEcCCCc
Confidence 3578999999984
No 21
>KOG2983 consensus Uncharacterized conserved protein [Function unknown]
Probab=23.08 E-value=49 Score=28.25 Aligned_cols=70 Identities=24% Similarity=0.349 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhcCChhhHHHHHhh-CChhhhhhccccCCCCCCCceeEeEeeecCCCCC--CcH-HHHHHHHHHHHHhh
Q 033134 45 MLLEEWLNMESSFGELGDVSLVQAK-LPKKLKKRRQTQSDDGLSAGYEEYIDYLFPEESQ--TTN-LKILEAAYKWKKQK 120 (126)
Q Consensus 45 ~LLeaWk~fE~~~G~~~~~~~V~k~-~Pr~VKkrR~~~~~dg~~~~~EEY~DYiFPdD~~--~~~-~KlL~~AkkWK~~~ 120 (126)
.||=.|-++|..+|-.-++..-+-| .||- - .| ..+--+|+.|--|-|=. ..+ -.+|..+++||+..
T Consensus 257 sLlftWeEl~si~~~e~D~ed~elrlv~~~---s------~~-sv~~~~y~~n~vP~D~vdaS~g~e~~~kl~qk~k~~~ 326 (334)
T KOG2983|consen 257 SLLFTWEELESINGPENDVEDYELRLVPRH---S------RL-SVLPGEYLKNRVPYDYVDASAGSEQVLKLVQKWKQKD 326 (334)
T ss_pred cceeeHHHHHhhcCCcccccchhheecccC---C------cc-ccccchhhhccCCHHHHhhccCHHHHHHHHHHHHHHh
Confidence 4888999999999966665443333 3411 0 11 02346888888888743 223 37999999999865
Q ss_pred cccc
Q 033134 121 IVSD 124 (126)
Q Consensus 121 ~~~~ 124 (126)
....
T Consensus 327 nqq~ 330 (334)
T KOG2983|consen 327 NQQS 330 (334)
T ss_pred cccc
Confidence 5533
No 22
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=21.30 E-value=1.5e+02 Score=28.32 Aligned_cols=49 Identities=27% Similarity=0.417 Sum_probs=37.7
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHHHHhc
Q 033134 8 EHLYEQKKQCIQRARRVFEKAINYYRTSAPELKEERAMLLEEWLNMESSF 57 (126)
Q Consensus 8 ~~~~e~~~~~~~~AR~Vfera~~~~k~~~~~~kEeR~~LLeaWk~fE~~~ 57 (126)
|++.+.+-.-++.+|+||+|-+.. +...+..-..=+++||-=+-||+.|
T Consensus 483 y~DleEs~gtfestk~vYdriidL-riaTPqii~NyAmfLEeh~yfeesF 531 (835)
T KOG2047|consen 483 YADLEESLGTFESTKAVYDRIIDL-RIATPQIIINYAMFLEEHKYFEESF 531 (835)
T ss_pred HHHHHHHhccHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHhhHHHHHHH
Confidence 566666667789999999999965 6666777777788888777777765
No 23
>KOG3871 consensus Cell adhesion complex protein bystin [Extracellular structures]
Probab=21.28 E-value=73 Score=28.25 Aligned_cols=41 Identities=32% Similarity=0.475 Sum_probs=27.6
Q ss_pred hhHHHHHhhCChhhhhhccccCCCCCCCceeEeEeeecCCCCCCcHHHHHHHHHH
Q 033134 61 GDVSLVQAKLPKKLKKRRQTQSDDGLSAGYEEYIDYLFPEESQTTNLKILEAAYK 115 (126)
Q Consensus 61 ~~~~~V~k~~Pr~VKkrR~~~~~dg~~~~~EEY~DYiFPdD~~~~~~KlL~~Akk 115 (126)
.++++..+..|.+||+++.-..+|| |||- ....|||+.|+.
T Consensus 24 ~~va~~k~~~r~k~k~~~e~~e~d~-------~ida-------~~S~KIL~~Ak~ 64 (449)
T KOG3871|consen 24 GQVAKKKKLARSKVKKHDEANEEDG-------FIDA-------KASRKILQLAKE 64 (449)
T ss_pred Hhhhhhhhhhhhhhhhhhhhccccc-------cccc-------hhhHHHHHHHHH
Confidence 3477788888999999875433333 3332 334499999987
No 24
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=21.09 E-value=1.1e+02 Score=15.59 Aligned_cols=18 Identities=28% Similarity=0.241 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 033134 15 KQCIQRARRVFEKAINYY 32 (126)
Q Consensus 15 ~~~~~~AR~Vfera~~~~ 32 (126)
..+...|+..|++|+...
T Consensus 14 ~~~~~~A~~~~~~al~l~ 31 (34)
T PF07719_consen 14 LGNYEEAIEYFEKALELD 31 (34)
T ss_dssp TT-HHHHHHHHHHHHHHS
T ss_pred hCCHHHHHHHHHHHHHHC
Confidence 367788999999998763
Done!