Query 000255
Match_columns 1778
No_of_seqs 310 out of 1574
Neff 3.4
Searched_HMMs 46136
Date Fri Mar 29 01:31:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000255.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000255hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1080 Histone H3 (Lys4) meth 100.0 2.2E-70 4.8E-75 679.8 19.2 911 125-1373 71-1004(1005)
2 KOG4442 Clathrin coat binding 100.0 4.5E-39 9.8E-44 383.1 13.0 170 1184-1380 94-266 (729)
3 KOG1082 Histone H3 (Lys9) meth 100.0 2.9E-29 6.4E-34 289.5 12.9 268 1060-1373 55-353 (364)
4 KOG1079 Transcriptional repres 99.8 4.7E-21 1E-25 229.2 10.1 160 1167-1353 537-714 (739)
5 smart00317 SET SET (Su(var)3-9 99.8 2.7E-20 5.9E-25 175.7 12.1 113 1218-1347 4-116 (116)
6 KOG1083 Putative transcription 99.8 1E-21 2.3E-26 240.8 2.5 123 1213-1353 1177-1299(1306)
7 KOG1141 Predicted histone meth 99.8 2.1E-19 4.6E-24 216.1 10.6 188 1184-1374 981-1262(1262)
8 KOG1085 Predicted methyltransf 99.6 1.5E-15 3.4E-20 169.2 8.3 115 1222-1350 264-379 (392)
9 COG2940 Proteins containing SE 99.5 8.5E-15 1.8E-19 175.3 3.8 142 1215-1373 333-479 (480)
10 PF00856 SET: SET domain; Int 99.3 7.9E-13 1.7E-17 129.2 5.8 54 1295-1348 109-162 (162)
11 KOG1081 Transcription factor N 98.8 8.8E-10 1.9E-14 132.8 1.2 121 1229-1376 319-439 (463)
12 KOG2589 Histone tail methylase 98.7 1.4E-08 3.1E-13 117.5 4.8 120 1223-1371 136-255 (453)
13 PF14237 DUF4339: Domain of un 97.6 5.5E-05 1.2E-09 65.2 3.4 45 378-423 1-45 (45)
14 KOG1141 Predicted histone meth 97.3 8.1E-05 1.8E-09 93.1 0.9 136 1099-1252 693-835 (1262)
15 KOG2461 Transcription factor B 96.8 0.001 2.2E-08 80.2 4.4 104 1223-1352 39-147 (396)
16 PF12937 F-box-like: F-box-lik 96.3 0.0024 5.1E-08 54.8 2.3 36 588-625 1-36 (47)
17 PF02213 GYF: GYF domain; Int 96.0 0.004 8.7E-08 56.4 2.2 48 378-425 2-53 (57)
18 cd00072 GYF GYF domain: contai 95.8 0.011 2.4E-07 54.2 4.1 50 378-427 3-53 (57)
19 cd00072 GYF GYF domain: contai 92.6 0.098 2.1E-06 48.1 2.9 48 24-71 3-51 (57)
20 smart00508 PostSET Cysteine-ri 92.6 0.063 1.4E-06 43.0 1.4 16 1359-1374 2-17 (26)
21 smart00256 FBOX A Receptor for 91.7 0.16 3.4E-06 41.3 2.9 34 591-626 1-34 (41)
22 PF14237 DUF4339: Domain of un 91.5 0.14 3E-06 44.5 2.5 44 24-68 1-44 (45)
23 PF02213 GYF: GYF domain; Int 90.1 0.19 4.2E-06 45.7 2.1 43 24-66 2-44 (57)
24 smart00444 GYF Contains conser 89.9 0.35 7.5E-06 44.5 3.6 38 378-415 2-39 (56)
25 PF00646 F-box: F-box domain; 89.2 0.23 5E-06 42.4 1.8 38 587-626 2-39 (48)
26 KOG4341 F-box protein containi 88.9 0.42 9.1E-06 58.7 4.4 110 581-696 66-176 (483)
27 cd05512 Bromo_brd1_like Bromod 88.1 1.2 2.6E-05 44.8 6.3 59 814-874 2-78 (98)
28 PF00439 Bromodomain: Bromodom 87.7 0.69 1.5E-05 43.6 4.2 55 821-877 4-76 (84)
29 KOG2997 F-box protein FBX9 [Ge 87.4 0.53 1.2E-05 56.2 3.9 43 583-625 102-147 (366)
30 cd05529 Bromo_WDR9_I_like Brom 87.1 1.6 3.5E-05 45.8 6.8 61 814-876 25-107 (128)
31 PF05033 Pre-SET: Pre-SET moti 87.1 0.54 1.2E-05 46.4 3.2 34 1098-1131 16-53 (103)
32 smart00468 PreSET N-terminal t 86.2 0.7 1.5E-05 45.7 3.4 50 1068-1131 2-56 (98)
33 cd05513 Bromo_brd7_like Bromod 85.1 1.6 3.5E-05 44.0 5.4 58 815-874 3-78 (98)
34 cd05507 Bromo_brd8_like Bromod 82.7 2.2 4.8E-05 43.2 5.3 61 812-874 2-80 (104)
35 smart00297 BROMO bromo domain. 82.7 2.3 5.1E-05 41.8 5.3 63 810-874 4-84 (107)
36 KOG2084 Predicted histone tail 80.5 2.7 5.9E-05 50.2 5.8 43 1307-1353 208-251 (482)
37 cd05528 Bromo_AAA Bromodomain; 79.3 6.4 0.00014 40.7 7.3 62 813-876 3-82 (112)
38 cd05511 Bromo_TFIID Bromodomai 77.9 4.5 9.8E-05 41.6 5.7 56 817-874 4-77 (112)
39 cd05508 Bromo_RACK7 Bromodomai 76.3 7.9 0.00017 39.3 6.8 57 817-875 7-80 (99)
40 KOG1947 Leucine rich repeat pr 74.5 3.6 7.8E-05 48.6 4.5 65 632-699 246-310 (482)
41 smart00444 GYF Contains conser 73.9 3 6.5E-05 38.5 2.9 42 24-65 2-43 (56)
42 cd04369 Bromodomain Bromodomai 73.4 7.5 0.00016 36.6 5.6 36 839-876 46-81 (99)
43 cd05503 Bromo_BAZ2A_B_like Bro 71.6 9.1 0.0002 38.3 5.9 57 816-874 3-77 (97)
44 cd05510 Bromo_SPT7_like Bromod 69.2 14 0.00031 38.3 6.9 57 816-874 10-85 (112)
45 cd05504 Bromo_Acf1_like Bromod 68.9 10 0.00023 39.3 5.9 60 815-876 14-91 (115)
46 cd05505 Bromo_WSTF_like Bromod 68.3 13 0.00028 37.6 6.2 60 816-877 3-80 (97)
47 cd05491 Bromo_TBP7_like Bromod 66.6 4.8 0.0001 42.6 2.9 44 829-874 57-101 (119)
48 cd05497 Bromo_Brdt_I_like Brom 66.2 17 0.00037 37.3 6.7 61 814-876 6-86 (107)
49 cd05500 Bromo_BDF1_2_I Bromodo 65.9 18 0.00038 36.6 6.6 60 814-875 5-84 (103)
50 cd05495 Bromo_cbp_like Bromodo 61.4 20 0.00042 36.9 6.1 57 816-874 6-83 (108)
51 KOG1337 N-methyltransferase [G 60.9 5.7 0.00012 49.4 2.6 40 1307-1349 239-278 (472)
52 cd05509 Bromo_gcn5_like Bromod 56.7 29 0.00064 34.7 6.3 57 816-874 4-78 (101)
53 cd05496 Bromo_WDR9_II Bromodom 54.2 25 0.00055 37.0 5.6 57 815-873 7-81 (119)
54 cd05506 Bromo_plant1 Bromodoma 51.6 38 0.00082 33.8 6.1 55 818-874 5-79 (99)
55 cd05525 Bromo_ASH1 Bromodomain 50.9 21 0.00046 36.7 4.4 36 839-876 52-87 (106)
56 cd05499 Bromo_BDF1_2_II Bromod 46.6 54 0.0012 33.0 6.4 59 816-876 3-84 (102)
57 cd05498 Bromo_Brdt_II_like Bro 41.4 38 0.00081 34.0 4.4 35 839-875 49-83 (102)
58 cd05501 Bromo_SP100C_like Brom 41.4 51 0.0011 34.1 5.4 52 821-874 10-77 (102)
59 KOG1947 Leucine rich repeat pr 40.1 48 0.001 39.5 5.7 111 585-696 165-281 (482)
60 cd05515 Bromo_polybromo_V Brom 40.0 39 0.00086 34.5 4.3 36 838-875 49-84 (105)
61 PF12799 LRR_4: Leucine Rich r 39.1 29 0.00062 30.4 2.8 39 659-701 2-40 (44)
62 KOG4341 F-box protein containi 37.5 26 0.00056 44.1 3.0 42 660-701 296-337 (483)
63 cd05518 Bromo_polybromo_IV Bro 36.7 48 0.001 34.0 4.3 35 839-875 50-84 (103)
64 PF00560 LRR_1: Leucine Rich R 36.4 25 0.00053 26.7 1.7 21 685-706 1-21 (22)
65 PF01473 CW_binding_1: Putativ 35.7 22 0.00048 26.3 1.3 11 377-387 8-18 (19)
66 cd05502 Bromo_tif1_like Bromod 34.1 1.2E+02 0.0027 31.0 6.8 55 820-876 11-85 (109)
67 cd05520 Bromo_polybromo_III Br 32.8 61 0.0013 33.2 4.4 35 839-875 50-84 (103)
68 KOG3864 Uncharacterized conser 30.2 43 0.00092 38.9 3.1 45 655-699 122-166 (221)
69 cd00116 LRR_RI Leucine-rich re 28.4 1E+02 0.0022 35.1 5.6 64 630-696 222-290 (319)
70 smart00367 LRR_CC Leucine-rich 28.3 43 0.00094 26.1 1.9 22 659-680 3-24 (26)
71 cd05524 Bromo_polybromo_I Brom 28.1 78 0.0017 32.9 4.3 36 839-876 52-87 (113)
72 cd05516 Bromo_SNF2L2 Bromodoma 27.9 84 0.0018 32.3 4.4 35 839-875 51-85 (107)
73 KOG1338 Uncharacterized conser 25.8 92 0.002 39.2 4.9 44 1304-1353 218-264 (466)
74 cd05519 Bromo_SNF2 Bromodomain 25.5 98 0.0021 31.4 4.4 34 839-874 50-83 (103)
75 PF14878 DLD: Death-like domai 25.2 80 0.0017 33.7 3.8 90 1431-1531 15-108 (115)
76 KOG1862 GYF domain containing 25.1 83 0.0018 41.6 4.7 57 21-77 202-261 (673)
77 PF13855 LRR_8: Leucine rich r 24.1 42 0.00092 30.1 1.4 49 684-733 1-54 (61)
78 KOG1081 Transcription factor N 23.7 27 0.00059 44.1 0.1 129 1228-1375 130-265 (463)
79 cd05522 Bromo_Rsc1_2_II Bromod 23.2 81 0.0017 32.3 3.3 34 839-874 51-84 (104)
80 KOG1789 Endocytosis protein RM 21.2 59 0.0013 44.7 2.3 35 376-410 955-989 (2235)
No 1
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2.2e-70 Score=679.82 Aligned_cols=911 Identities=27% Similarity=0.285 Sum_probs=691.0
Q ss_pred ccCCCc-ccccccccccchhHHHHhhhccccccCCCchhhccccccCC------------ccCccc-----ccCCCCccc
Q 000255 125 CCPDGS-AAAAESSEDLHIDVRVGALLDGFTVIPGKEIETLGELKSGD------------KDHWVV-----CFDSDEWFS 186 (1778)
Q Consensus 125 ~~~~~~-~~~~e~~e~~~id~rv~~l~~~~~~~~g~e~e~~~~~~~~~------------~~~~~~-----~~~~~~w~~ 186 (1778)
+|..-. .++....+++.++.|+..+..+....++.|.++.++..... .+++-. +.-...--+
T Consensus 71 v~~~t~~~~s~~~~~~~~s~~~~~~~~~~~~~~~~ke~~~~~~~~~~~~~~~k~~~s~~~~~~~~~~~s~~~~~~~~~~s 150 (1005)
T KOG1080|consen 71 VCSDTSKKSSRGRVRAVPSRFRDSNVGTWRSSTPSKEFETEGEILKVNSEFEEVKVSSGSSKLHPSKDSKVFPRKDNPDS 150 (1005)
T ss_pred eeecCCCccccCCcccccccccccccccCCcccccccccCcceeeecccccCCceeccCccccCcccccccCCcCCCCcc
Confidence 344444 78888999999999999999999999999999888877210 011110 000001111
Q ss_pred ccccccCCCcccCChhhhccccccceeecCCCccccCCCCCCCCCCCCCCCCccccCCCCCCCCCCcccccCCccCCCCC
Q 000255 187 GRWSCKGGDWKRNDEAAQDRCSRKKQVLNDGFPLCQMPKSGYEDPRWNQKDDLYYPSHSRRLDLPPWAYACPDERNDGSG 266 (1778)
Q Consensus 187 ~~w~~kggdw~~~~~~~qd~~~~~k~vln~g~~lc~~~~~~~edpr~~~~d~~y~~~~~~~~~lp~wa~~~~~e~~~~~~ 266 (1778)
--|+| ++-++.+|+|+. .+|+|+|+|+|.+++..++.+.|+.+.+++++..+.+...+.||+...++++
T Consensus 151 s~~~~-----~~~~~~s~~~~~--~i~~~~~~p~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~a~~~d~~~~---- 219 (1005)
T KOG1080|consen 151 SEVSC-----IDYWEASQDRYD--EIVANDGMPLKSDASSKGVYKPEEFTVGDLVWAKSGRNEPPWPAIVIDPIRQ---- 219 (1005)
T ss_pred cccch-----hhhhhcccCccc--ceeeccCCcCcccccccccccCcccccchhhhcccccCCcccccceeehhhc----
Confidence 12888 888889999998 9999999999999999999999999999999999999999999998755542
Q ss_pred CCCcccccccccccccceeeeeEeeeeeeecCCCCccccCccccccCcCCCCCccCccccccccccCccccccccccccC
Q 000255 267 GSRSTQSKLAAVRGVKGTMLPVVRINACVVNDHGSFVSEPRSKVRAKERHSSRSARSYSSANDVRRSSAESDSHSKARNN 346 (1778)
Q Consensus 267 ~~~~~~~~~~~~~~~~g~~~~~~r~~~~~~~~~~~~~~~~~~k~~~~~r~~~~~~r~~~~~~~~~r~s~~~~~~~~~~~~ 346 (1778)
.+|||+-+-+|+|.-+..|.+.+...-.....+.++..|++++..+.+.-..+.++......+++-+..-
T Consensus 220 ----------~~~~v~as~~~~~~~~~~~~~s~~~~~~~~~~~r~~m~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 289 (1005)
T KOG1080|consen 220 ----------APRGVLASCLPVAACVMFFGNSGVPTERDYAWVRRGMERPFSRPVRPFQDQTELKREKARSFEQALEEAG 289 (1005)
T ss_pred ----------chhhhhccCcchhhhheeeeccCCccccchhhhhhccccccchhhhhccccccccccCccchhHHHHHhh
Confidence 6689999988888888888888877777888999999999999999999999988888888888888888
Q ss_pred CCCCCcccccccccCCCCcccccccccccccceEEecCCCCccCCCCHHHHHHHhhhcccccccccccccCceeeecccc
Q 000255 347 QDSQGSWKSIACINTPKDRLCTVDDLQLQLGEWYYLDGAGHERGPSSFSELQVLVDQGCIQKHTSVFRKFDKVWVPLTFA 426 (1778)
Q Consensus 347 ~~~~~~~~~~~~~~~p~d~~c~~~~l~l~~g~w~yldg~g~e~gp~s~selq~~v~~g~i~~~ssvfrk~d~~w~p~~~~ 426 (1778)
+..|++|+-. +++++++.|+|.+-|+++.+.||+++++++.++..|.+..+++||++.|+.|+|++.+
T Consensus 290 ~~e~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~s~~~v~~~~~~~~~~~~~~ 357 (1005)
T KOG1080|consen 290 LAEQGNWKKD------------VDDAHLITGDSSATDSALSEGGPSSFSELQKLHEKGFIKSHSSVFRKSDKIHVPSTSI 357 (1005)
T ss_pred cccccccccc------------ccchhhhcCCCccchhhhhccccccccccccccccCCccccccccCCCcccccccccc
Confidence 8999999977 8999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccccCCCcccCCCCCCCCCCCCCccccccccccccCCCcccccccceeeecchhhHHHHHHHhcchHHHHHHHh
Q 000255 427 TETSASTVRNHGEKIMPSGDSSGLPPTQSQDAVLGESNNNVNSNAFHTMHPQFIGYTRGKLHELVMKSYKNREFAAAINE 506 (1778)
Q Consensus 427 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~f~~~~pqf~g~t~gklhe~vmk~~k~r~~~~~~n~ 506 (1778)
.....-..+.......+.+. .++.....+.-.... ...+-..++.-|+++.+| +++.
T Consensus 358 ~~~~~p~~~~~~~~~~~~~~-~~l~~k~~~~~~~s~--~~~g~~~~~~~~~~~~d~--------------------~~~~ 414 (1005)
T KOG1080|consen 358 TKSPPPIAKSAKKTKALPPA-QGLLCKECSDETKSN--QTCGICKRIWHSSDSGDW--------------------VRCD 414 (1005)
T ss_pred ccCCCCchhhccccCccccc-chhhhhhhhchhhcc--ccccccceecccccccce--------------------eeec
Confidence 88865555544444444443 332222222222222 235566799999999999 7899
Q ss_pred hhccccccCCCchhhhhh-hhcCCCCcccccceeeccccCCCCcchhhhhh-cc-CCCcchhhccCCCcccCCCcccccc
Q 000255 507 VLDPWINAKQPKKETEHV-YRKSEGDTRAGKRARLLVRESDGDEETEEELQ-TI-QDESTFEDLCGDASFPGEESASSAI 583 (1778)
Q Consensus 507 ~ld~wi~~~~p~~e~e~~-~~~s~~d~~~~kr~r~~~~~s~~~~~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~~~~~ 583 (1778)
+-|+||.+.+++.+-+.. +..+.. +-+..+. .-.+.-...+ -+ +..++|++++++.+
T Consensus 415 ~c~~~~~~~~~~~~~~~~~~~s~~~------~~~~~~~---~~~~~~~~~~~~~~~~~l~~d~~s~~~~----------- 474 (1005)
T KOG1080|consen 415 GCDVWIHARCDKISSEKFKYSSSGM------HNYQTLN---FPQEYTALNLSYCPKCKLTFDDLSTDLS----------- 474 (1005)
T ss_pred ccccceeeccCcccccccccccccc------ccccccc---chhhhhhhhccccchhheecccccccCC-----------
Confidence 999999999988766522 111100 0000000 0011111111 22 66777777777655
Q ss_pred ccCccccCcchHHHHHHHHhhhchhHHHHhhhcchhHHHHHHHhcccceeeecCCCCCCchhHHHHHHHhhcccccccee
Q 000255 584 ESGGWGLLDGHTLAHVFHFLRSDMKSLAFASLTCRHWRAAVRFYKGISRQVDLSSVGPNCTDSLIRKTLNAFDKEKLNSI 663 (1778)
Q Consensus 584 ~~~~w~~l~g~~l~rvfh~lr~d~ksl~~~~~tc~~w~~~~~~~~~~~~~vdls~~g~~ctd~~~~~~~~~y~~~~~~~~ 663 (1778)
+++|++|||.++.++|...+.+++||||.++.+-++..++..|....++.|+++....+|++|...+..++
T Consensus 475 ---------~~~~~~~~~~~~~~~~~k~~~~e~~k~~~~~~~~~k~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~p~s~ 545 (1005)
T KOG1080|consen 475 ---------PAALARVFHMLRYSVKKKKFLSEWERHTGATAKIWKDSSRVKDELLPLPKWVESRGRSIMNTYNSEKPKSI 545 (1005)
T ss_pred ---------cchheeeecccCcchhhhhcccchhhhhcccccccccccccccccccchhhhhhccccccccccccCCcch
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EecccccCChhHHHHHHHhCCCccEEeeccccccccccccCCcccccccccccCcccCcccccccchhhhcccCCCCcCc
Q 000255 664 LLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQFGELALKFPNINWVKSQKSRGAKFNDSRSKIRSLKQITEKSSSAPKS 743 (1778)
Q Consensus 664 ~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q~~~l~~~~~~v~w~~~~~~~~~~~~~~~~k~~sl~~~~~~~~~~~~~ 743 (1778)
++.+|+++...++.......|.+.-.++.+|.++.++.+...||.|+.++-.+..
T Consensus 546 ~~~~~~s~~~~~~~~~~~~~~~l~~~~t~~c~~~~~~~~~~~n~~~~~~~~~~~~------------------------- 600 (1005)
T KOG1080|consen 546 VLMGKTSVQRMLLELIEKREPRLSKWTTERCAVCRDDEDWEKNVSIICDRCTRSV------------------------- 600 (1005)
T ss_pred hhhccchhhhhcCcccccchhhhcCCCcccccccccccccccceeeeeccccccC-------------------------
Confidence 9999999999999999999999999999999999999999999999988744111
Q ss_pred CCCCCCCCCcccchhhhhccccccchhhhhhhhhhccchhhhccccccccchhHHHHHhhhhhcchhhHHHHHHHHHHHH
Q 000255 744 KGLGDDMDDFGDLKDYFESVDKRDSANQSFRRSLYQRSKVFDARKSSSILSRDARMRRWSIKKSENGYKRMEEFLASSLK 823 (1778)
Q Consensus 744 ~~~~~~~~~~~~l~~~f~~v~~r~~~~~~~~~~~y~rs~~~da~~ss~~~~~~~~~~~~~~~~~e~~y~~~~~~~~~~l~ 823 (1778)
..+.+|+++.|+..++.+++++++ .|+|.+.+...++.++.++| +.|.|.+..+. .+||+++++-.|
T Consensus 601 -----~s~~~g~~~~~~~~~~~~~~~~~~----~~~r~~~l~~~~g~al~p~d-~gr~~~~e~a~---~~~e~~~~~~~~ 667 (1005)
T KOG1080|consen 601 -----HSECYGNLKSYDGTSWVCDSCETL----DIKRSCCLCPVKGGALKPTD-EGRWVHVECAW---FRPEVCLASPER 667 (1005)
T ss_pred -----CCcccccCCCCCCCcchhhccccc----cCCchhhhccccCcccCCCC-ccchhhhhchh---ccccccCCCccC
Confidence 147889999999999999998887 99999999999999999999 99999999999 999999999999
Q ss_pred HHHhhcccceeccchhHHHhhhccccccccCCcchhhhHHH--HHHHHHHhccCCCCCcchhHHHHHHHHHHHhhhcccc
Q 000255 824 EIMRVNTFEFFVPKVAEIEGRMKKGYYISHGLGSVKDDISR--MCRDAIKAKNRGSAGDMNRITTLFIQLATRLEQGAKS 901 (1778)
Q Consensus 824 ~im~~~~~d~f~~k~~~ie~~~k~gyy~~~g~~~~k~di~~--~~r~a~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 901 (1778)
-.|..+.+.|+--++.+|=.- ||+..--..+.. .|+.|++ ..+ ++.+.+|+.-
T Consensus 668 ~~p~~~~~~~p~~~~~~~~~~--------~~~~~~~~~~~~~~~~~~a~~--------------~~~-~~~~~~l~~~-- 722 (1005)
T KOG1080|consen 668 MEPAVGTFKIPALSFLKICFI--------HGSCRQCCKCETGSHAMCASR--------------AGY-IMEAVSLEEV-- 722 (1005)
T ss_pred CCCcccccccCccchhhhccc--------cccccccchhhhcceehhhcC--------------ccC-hhhhhhhhhh--
Confidence 999999999988776664221 444332222111 2334433 233 4444444442
Q ss_pred chhhHHHHhhhccCCCCCcccccchhhhhhhhhhhhhhhhcccCCCCcccCCCCCcccccchHHHHHHhhhhcccccCCC
Q 000255 902 SYYEREEMMKSWKDESPAGLYSATSKYKKKLSKMVSERKYMNRSNGTSLANGDFDYGEYASDREIRKRLSKLNRKSLDSG 981 (1778)
Q Consensus 902 ~~~~r~~~~~~~~~~~~~~~~~~~~k~k~k~~k~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~ei~r~lskl~~~~~~s~ 981 (1778)
++.+-...+. +.+... .-++.-+..+|-.+.+...++..++..+++-+++++++.++||++|+..+|+.++.|+
T Consensus 723 -~~~~~~~~~~--~~~~~d---~~l~~~~~~~~~~~~~~~~~k~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 796 (1005)
T KOG1080|consen 723 -SQQTTSYVKE--DGPGPD---SVLKVNTPSGKFGAENLSQNKKSRTDGVRLVLTYKEYAPLREIKSRAEPLNRIDFSSE 796 (1005)
T ss_pred -hhhhhhhhhh--ccCCcc---cceeecCccccccccchhhhhhccccccccccccccccccccchhcccCCcccCcccc
Confidence 1111111110 111100 1112222222222334444444455556999999999999999999999999998887
Q ss_pred CCCCcCCCCCCCCCCCCCccccccCccccccccCccccccCCCCCccCCCCCCccCccccccccccccCCCcccceeeeE
Q 000255 982 SETSDDLDGSSEDGKSDSESTVSDTDSDMDFRSDGRARESRGAGDFTTDEGLDFSDDREWGARMTKASLVPPVTRKYEVI 1061 (1778)
Q Consensus 982 setsd~~d~~~e~~~~~~~~~~s~~~s~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~ga~mtk~~l~p~~trky~vI 1061 (1778)
.-.. .+ ..++++...+.++|+.+..+.+..+......+++ +.||. |+..++. .
T Consensus 797 ~~~~------~~-~r~~~~~~~~~~~s~~~~~s~~~s~~~s~~~rl~-------------q~rl~-a~~~~~~----~-- 849 (1005)
T KOG1080|consen 797 ARCR------SE-SRSDNSKSPLAEESESDITSGGSSHDLSAEERLN-------------QFRLS-ASFTASF----I-- 849 (1005)
T ss_pred cccc------ch-hhcccccccccccccccccccccccchhHHhhhH-------------HHHhh-hhccccc----c--
Confidence 4332 22 2788888888888888888877766655543333 12222 1111111 1
Q ss_pred EeeeeccChHHHHHhcccccchhHHHhhhhccCCCccccCCccccccccccccCCCCcccccccccccccccccccCCCc
Q 000255 1062 DQYVIVADEEDVRRKMRVSLPEDYAEKLNAQKNGSEELDMELPEVKDYKPRKQLGDQVFEQEVYGIDPYTHNLLLDSMPD 1141 (1778)
Q Consensus 1062 ~~y~iv~D~~ev~~km~v~l~~dy~ekl~~~k~gt~~~d~e~P~~~~Y~prkvlG~DV~Eqe~yGcDCyTrn~L~d~~P~ 1141 (1778)
.|+.|+++.|++...++| +
T Consensus 850 ------~~~~~~~~~~~~~~rkk~-----------------------------------------------------~-- 868 (1005)
T KOG1080|consen 850 ------LDEAEVLRYNQLKFRKKY-----------------------------------------------------V-- 868 (1005)
T ss_pred ------cchHHHHHHHHHhhhhhh-----------------------------------------------------h--
Confidence 788888888876666332 0
Q ss_pred ccchhhhhhhhhhHHHHHHHHhhhccccCCCCCCCCCCCCCcccccCCCccccCCCchhhhcccccccccccCCCccccc
Q 000255 1142 ELDWNLLEKHLFIEDVLLRTLNKQVRHFTGTGNTPMMYPLQPVIEEIEKEAVDDCDVRTMKMCRGILKAMDSRPDDKYVA 1221 (1778)
Q Consensus 1142 el~W~~~~K~kFIek~LLktLNkqvr~~~G~g~tP~~c~ckpv~EC~e~cC~edC~NRvvQ~Cq~ilk~I~k~pleVFrT 1221 (1778)
.| -++
T Consensus 869 ----------~F-----------------------------------------------------------------~~s 873 (1005)
T KOG1080|consen 869 ----------KF-----------------------------------------------------------------GRS 873 (1005)
T ss_pred ----------cc-----------------------------------------------------------------ccc
Confidence 00 012
Q ss_pred cCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccC
Q 000255 1222 YRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHK 1301 (1778)
Q Consensus 1222 ~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrk 1301 (1778)
..+||||||.. +|.+|++|+||+||+|.+.-...++ ..|...+...-|.+-++. .++|||+++
T Consensus 874 ~iH~wglfa~~--~i~~~dmViEY~Ge~vR~~iad~RE------~~Y~~~gi~~sYlfrid~---------~~ViDAtk~ 936 (1005)
T KOG1080|consen 874 GIHGWGLFAME--NIAAGDMVIEYRGELVRSSIADLRE------ARYERMGIGDSYLFRIDD---------EVVVDATKK 936 (1005)
T ss_pred cccccceeecc--CccccceEEEeeceehhhhHHHHHH------HHHhccCcccceeeeccc---------ceEEecccc
Confidence 35799999995 6999999999999999763211111 122233444555443332 389999999
Q ss_pred CCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcccccccCceEEcCCCCcccee
Q 000255 1302 ANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTESKEEYEASVCLCGSQVCRGSY 1373 (1778)
Q Consensus 1302 GNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es~kE~e~~~ClCGS~NCRG~i 1373 (1778)
||+||||||||+|||++.++.|+|+.+|+|||.|+|.+||||||||.|..+.. +.+|+|||+||||++
T Consensus 937 gniAr~InHsC~PNCyakvi~V~g~~~IvIyakr~I~~~EElTYDYkF~~e~~----kipClCgap~Crg~~ 1004 (1005)
T KOG1080|consen 937 GNIARFINHSCNPNCYAKVITVEGDKRIVIYSKRDIAAGEELTYDYKFPTEDD----KIPCLCGAPNCRGFL 1004 (1005)
T ss_pred CchhheeecccCCCceeeEEEecCeeEEEEEEecccccCceeeeecccccccc----ccccccCCCcccccc
Confidence 99999999999999999999999999999999999999999999999998754 589999999999953
No 2
>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]
Probab=100.00 E-value=4.5e-39 Score=383.09 Aligned_cols=170 Identities=26% Similarity=0.453 Sum_probs=146.2
Q ss_pred ccccCC--Cc-cccCCCchhhhcccccccccccCCCccccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhh
Q 000255 1184 VIEEIE--KE-AVDDCDVRTMKMCRGILKAMDSRPDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQD 1260 (1778)
Q Consensus 1184 v~EC~e--~c-C~edC~NRvvQ~Cq~ilk~I~k~pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~Erqd 1260 (1778)
.+||.. |. |+..|.|+-.|.++.. +.++|.|..|||||+|..+ |++|+||+||+||||+..++
T Consensus 94 ~iECs~~~C~~cg~~C~NQRFQkkqyA-------~vevF~Te~KG~GLRA~~d--I~~g~FI~EY~GEVI~~~Ef----- 159 (729)
T KOG4442|consen 94 SIECSDRECPRCGVYCKNQRFQKKQYA-------KVEVFLTEKKGCGLRAEED--IPKGQFILEYIGEVIEEKEF----- 159 (729)
T ss_pred hcccCCccCCCccccccchhhhhhccC-------ceeEEEecCcccceeeccc--cCCCcEEeeeccccccHHHH-----
Confidence 477855 44 7788888877765433 6789999999999999986 99999999999999986443
Q ss_pred hhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccCCCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCC
Q 000255 1261 GIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHKANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYG 1340 (1778)
Q Consensus 1261 aiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrkGNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaG 1340 (1778)
-++...|..+...|||+|+|... .+|||+.+||.||||||||+|||++++|.|+|+.||||||.|.|.+|
T Consensus 160 -~kR~~~Y~~d~~kh~Yfm~L~~~---------e~IDAT~KGnlaRFiNHSC~PNa~~~KWtV~~~lRvGiFakk~I~~G 229 (729)
T KOG4442|consen 160 -EKRVKRYAKDGIKHYYFMALQGG---------EYIDATKKGNLARFINHSCDPNAEVQKWTVPDELRVGIFAKKVIKPG 229 (729)
T ss_pred -HHHHHHHHhcCCceEEEEEecCC---------ceecccccCcHHHhhcCCCCCCceeeeeeeCCeeEEEEeEecccCCC
Confidence 34555667788999999999753 79999999999999999999999999999999999999999999999
Q ss_pred CeEEEecCCCCcccccccCceEEcCCCCccceeccCCCCc
Q 000255 1341 EEITFDYNSVTESKEEYEASVCLCGSQVCRGSYLNLTGEG 1380 (1778)
Q Consensus 1341 EELTfDYg~~~es~kE~e~~~ClCGS~NCRG~iL~~~~e~ 1380 (1778)
|||||||++..++. .++.|+||+++|||||++.....
T Consensus 230 EEITFDYqf~rYGr---~AQ~CyCgeanC~G~IGgk~q~d 266 (729)
T KOG4442|consen 230 EEITFDYQFDRYGR---DAQPCYCGEANCRGWIGGKPQTD 266 (729)
T ss_pred ceeeEecccccccc---cccccccCCcccccccCCCCccc
Confidence 99999999998764 56899999999999887765443
No 3
>KOG1082 consensus Histone H3 (Lys9) methyltransferase SUV39H1/Clr4, required for transcriptional silencing [Chromatin structure and dynamics; Transcription]
Probab=99.96 E-value=2.9e-29 Score=289.53 Aligned_cols=268 Identities=22% Similarity=0.242 Sum_probs=182.8
Q ss_pred eEEeeeeccChHHHHHhcccccchhHHHhhhhccCCCccccCCccccccccccccCCC-Ccc-ccccccccccccccccc
Q 000255 1060 VIDQYVIVADEEDVRRKMRVSLPEDYAEKLNAQKNGSEELDMELPEVKDYKPRKQLGD-QVF-EQEVYGIDPYTHNLLLD 1137 (1778)
Q Consensus 1060 vI~~y~iv~D~~ev~~km~v~l~~dy~ekl~~~k~gt~~~d~e~P~~~~Y~prkvlG~-DV~-Eqe~yGcDCyTrn~L~d 1137 (1778)
+...+.+..|+...+..|.|++. | ++|.+-|..|+|++..++.+ .+. .....||+|........
T Consensus 55 ~~~~~~~~~d~~~~~e~~~v~~~-----------n---~id~~~~~~f~y~~~~~~~~~~~~~~~~~~~c~C~~~~~~~~ 120 (364)
T KOG1082|consen 55 KLEAKSELEDIALGSENLPVPLV-----------N---RIDEDAPLYFQYIATEIVDPGELSDCENSTGCRCCSSCSSVL 120 (364)
T ss_pred ccccccccccccCccccCceeee-----------e---eccCCccccceeccccccCccccccCccccCCCccCCCCCCC
Confidence 44556677888888888877777 2 56666666699999999888 333 56778999986654433
Q ss_pred C--CCcccchhhhhhhhhhHHHHHHHHhhhccccCCCCCC-CCCCCCCcccccCC-CccccCCCchhhhccccccccccc
Q 000255 1138 S--MPDELDWNLLEKHLFIEDVLLRTLNKQVRHFTGTGNT-PMMYPLQPVIEEIE-KEAVDDCDVRTMKMCRGILKAMDS 1213 (1778)
Q Consensus 1138 ~--~P~el~W~~~~K~kFIek~LLktLNkqvr~~~G~g~t-P~~c~ckpv~EC~e-~cC~edC~NRvvQ~Cq~ilk~I~k 1213 (1778)
. |+|. .. +.....+..++.. ........++||.. |.|...|.||++|.+ .+
T Consensus 121 ~~~C~C~---~~---------------n~~~~~~~~~~~~~~~~~~~~~i~EC~~~C~C~~~C~nRv~q~g-------~~ 175 (364)
T KOG1082|consen 121 PLTCLCE---RH---------------NGGLVAYTCDGDCGTLGKFKEPVFECSVACGCHPDCANRVVQKG-------LQ 175 (364)
T ss_pred CccccCh---Hh---------------hCCccccccCCccccccccCccccccccCCCCCCcCcchhhccc-------cc
Confidence 2 4441 11 1111111111111 12233346799977 669999999999977 44
Q ss_pred CCCccccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCC-------
Q 000255 1214 RPDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKG------- 1286 (1778)
Q Consensus 1214 ~pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kg------- 1286 (1778)
.+++||++..+||||++... |++|+||+||+||+++..++..+..... +..+ ....|...+.....
T Consensus 176 ~~leIfrt~~kGwgvRs~~~--I~~G~fvcEyaGe~~t~~e~~~~~~~~~----~~~~-~~~~~~~~~~~~~~~~~~~~~ 248 (364)
T KOG1082|consen 176 FHLEVFRTPEKGWGVRTLDP--IPAGEFVCEYAGEVLTSEEAQRRTHLRE----YLDD-DCDAYSIADREWVDESPVGNT 248 (364)
T ss_pred cceEEEecCCceeeeccccc--ccCCCeeEEEeeEecChHHhhhcccccc----cccc-ccccchhhhcccccccccccc
Confidence 57899999999999999975 9999999999999999865433211100 0000 01112111111000
Q ss_pred ------CCCCCceEEEcCccCCCcccccCCCCCCCeEEEEEEECC----EEEEEEEEeccCCCCCeEEEecCCCCc----
Q 000255 1287 ------DADGYDLVVVDAMHKANYASRICHSCRPNCEAKVTAVDG----HYQIGIYTVRGIHYGEEITFDYNSVTE---- 1352 (1778)
Q Consensus 1287 ------D~dG~d~l~IDAtrkGNiARFINHSCdPNCeaq~v~VdG----epRIgfFAlRDIkaGEELTfDYg~~~e---- 1352 (1778)
.......++|||...||+||||||||.||+..+.+..++ .++|+|||+++|.|||||||||+..+.
T Consensus 249 ~~~~~~~~~~~~~~~ida~~~GNv~RfinHSC~PN~~~~~v~~~~~~~~~~~i~ffa~~~I~p~~ELT~dYg~~~~~~~~ 328 (364)
T KOG1082|consen 249 FVAPSLPGGPGRELLIDAKPHGNVARFINHSCSPNLLYQAVFQDEFVLLYLRIGFFALRDISPGEELTLDYGKAYKLLVQ 328 (364)
T ss_pred ccccccccCCCcceEEchhhcccccccccCCCCccceeeeeeecCCccchheeeeeeccccCCCcccchhhccccccccc
Confidence 011123599999999999999999999999999888875 489999999999999999999996642
Q ss_pred ccc----cccCceEEcCCCCcccee
Q 000255 1353 SKE----EYEASVCLCGSQVCRGSY 1373 (1778)
Q Consensus 1353 s~k----E~e~~~ClCGS~NCRG~i 1373 (1778)
... ......|.||+.+||+.+
T Consensus 329 ~~~~~~~~~~~~~c~c~~~~cr~~~ 353 (364)
T KOG1082|consen 329 DGANIYTPVMKKNCNCGLEKCRGLL 353 (364)
T ss_pred ccccccccccchhhcCCCHHhCccc
Confidence 111 234679999999999954
No 4
>KOG1079 consensus Transcriptional repressor EZH1 [Transcription]
Probab=99.83 E-value=4.7e-21 Score=229.18 Aligned_cols=160 Identities=25% Similarity=0.313 Sum_probs=115.8
Q ss_pred cccCCCCCCCCCCCCC------cccccCCC---ccc---------cCCCchhhhcccccccccccCCCccccccCcccEE
Q 000255 1167 RHFTGTGNTPMMYPLQ------PVIEEIEK---EAV---------DDCDVRTMKMCRGILKAMDSRPDDKYVAYRKGLGV 1228 (1778)
Q Consensus 1167 r~~~G~g~tP~~c~ck------pv~EC~e~---cC~---------edC~NRvvQ~Cq~ilk~I~k~pleVFrT~~KGwGV 1228 (1778)
..|+||.| +..|..+ ...||.+. +|+ ..|.|-.++++++. ++.+-.+..-|||+
T Consensus 537 nrF~GC~C-k~QC~tkqCpC~~A~rECdPd~Cl~cg~~~~~d~~~~~C~N~~l~~~~qk-------r~llapSdVaGwGl 608 (739)
T KOG1079|consen 537 NRFPGCRC-KAQCNTKQCPCYLAVRECDPDVCLMCGNVDHFDSSKISCKNTNLQRGEQK-------RVLLAPSDVAGWGL 608 (739)
T ss_pred hcCCCCCc-ccccccCcCchhhhccccCchHHhccCcccccccCccccccchhhhhhhc-------ceeechhhccccce
Confidence 46788877 5554443 23677642 233 25666666654322 22222344569999
Q ss_pred EeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccCCCccccc
Q 000255 1229 VCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHKANYASRI 1308 (1778)
Q Consensus 1229 FAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrkGNiARFI 1308 (1778)
|+.. ++.+++||.||+||+|+..|. .++-.-+ ..+...+|+....+ ++|||+++||.+||+
T Consensus 609 FlKe--~v~KnefisEY~GE~IS~dEA------DrRGkiY-----Dr~~cSflFnln~d------yviDs~rkGnk~rFA 669 (739)
T KOG1079|consen 609 FLKE--SVSKNEFISEYTGEIISHDEA------DRRGKIY-----DRYMCSFLFNLNND------YVIDSTRKGNKIRFA 669 (739)
T ss_pred eecc--ccCCCceeeeecceeccchhh------hhccccc-----ccccceeeeecccc------ceEeeeeecchhhhc
Confidence 9995 599999999999999998542 2221111 11223455554333 899999999999999
Q ss_pred CCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcc
Q 000255 1309 CHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTES 1353 (1778)
Q Consensus 1309 NHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es 1353 (1778)
|||-+|||++.++.|+|..||||||.|.|++||||||||.+....
T Consensus 670 NHS~nPNCYAkvm~V~GdhRIGifAkRaIeagEELffDYrYs~~~ 714 (739)
T KOG1079|consen 670 NHSFNPNCYAKVMMVAGDHRIGIFAKRAIEAGEELFFDYRYSPEH 714 (739)
T ss_pred cCCCCCCcEEEEEEecCCcceeeeehhhcccCceeeeeeccCccc
Confidence 999999999999999999999999999999999999999987654
No 5
>smart00317 SET SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain. Putative methyl transferase, based on outlier plant homologues
Probab=99.83 E-value=2.7e-20 Score=175.70 Aligned_cols=113 Identities=33% Similarity=0.561 Sum_probs=88.0
Q ss_pred cccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEc
Q 000255 1218 KYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVD 1297 (1778)
Q Consensus 1218 VFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~ID 1297 (1778)
++.+..+|+||||+++ |++|++|++|.|.++...+..+.....+. . .....|.+.... .++||
T Consensus 4 ~~~~~~~G~gl~a~~~--i~~g~~i~~~~g~~~~~~~~~~~~~~~~~---~---~~~~~~~~~~~~---------~~~id 66 (116)
T smart00317 4 VFKSPGKGWGVRATED--IPKGEFIGEYVGEIITSEEAEERSKAYDT---D---GADSFYLFEIDS---------DLCID 66 (116)
T ss_pred EEecCCCcEEEEECCc--cCCCCEEEEEEeEEECHHHHHHHHHHHHh---c---CCCCEEEEECCC---------CEEEe
Confidence 4555689999999986 99999999999999986543332211111 1 111233332221 27999
Q ss_pred CccCCCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEec
Q 000255 1298 AMHKANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDY 1347 (1778)
Q Consensus 1298 AtrkGNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDY 1347 (1778)
+...||++|||||||.|||.......++..++.|+|+|||++|||||+||
T Consensus 67 ~~~~~~~~~~iNHsc~pN~~~~~~~~~~~~~~~~~a~r~I~~GeEi~i~Y 116 (116)
T smart00317 67 ARRKGNIARFINHSCEPNCELLFVEVNGDSRIVIFALRDIKPGEELTIDY 116 (116)
T ss_pred CCccCcHHHeeCCCCCCCEEEEEEEECCCcEEEEEECCCcCCCCEEeecC
Confidence 99999999999999999999999988888899999999999999999999
No 6
>KOG1083 consensus Putative transcription factor ASH1/LIN-59 [Transcription]
Probab=99.83 E-value=1e-21 Score=240.82 Aligned_cols=123 Identities=28% Similarity=0.543 Sum_probs=99.9
Q ss_pred cCCCccccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCc
Q 000255 1213 SRPDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYD 1292 (1778)
Q Consensus 1213 k~pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d 1292 (1778)
..++++|+...+||||.+.. +|++|+||+||+||||...++.+++ +.- + -...+.|.+.+.-+
T Consensus 1177 cp~L~v~~gp~~G~~v~tk~--PikagtfI~EYvGeVit~ke~e~~m--mtl---~--~~d~~~~cL~I~p~-------- 1239 (1306)
T KOG1083|consen 1177 CPPLEVFRGPKKGWGVRTKE--PIKAGTFIMEYVGEVITEKEFEPRM--MTL---Y--HNDDDHYCLVIDPG-------- 1239 (1306)
T ss_pred CCCcceeccCCCCccccccc--cccccchHHHHHHHHHHHHhhcccc--ccc---C--CCCCcccccccCcc--------
Confidence 34688999999999999995 6999999999999999864432220 111 1 12234455544422
Q ss_pred eEEEcCccCCCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcc
Q 000255 1293 LVVVDAMHKANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTES 1353 (1778)
Q Consensus 1293 ~l~IDAtrkGNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es 1353 (1778)
+|||+.++||.+||+||||.|||++++|.|||.+||++||+|||.+||||||||++..+.
T Consensus 1240 -l~id~~R~~n~~RfinhscKPNc~~qkwSVNG~~Rv~L~A~rDi~kGEELtYDYN~ks~~ 1299 (1306)
T KOG1083|consen 1240 -LFIDIPRMGNGARFINHSCKPNCEMQKWSVNGEYRVGLFALRDLPKGEELTYDYNFKSFN 1299 (1306)
T ss_pred -ccCChhhccccccccccccCCCCccccccccceeeeeeeecCCCCCCceEEEeccccccC
Confidence 799999999999999999999999999999999999999999999999999999986553
No 7
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=99.79 E-value=2.1e-19 Score=216.11 Aligned_cols=188 Identities=23% Similarity=0.357 Sum_probs=128.0
Q ss_pred ccccCC-CccccCCCchhhhccccccccc-ccCCCccccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhh
Q 000255 1184 VIEEIE-KEAVDDCDVRTMKMCRGILKAM-DSRPDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDG 1261 (1778)
Q Consensus 1184 v~EC~e-~cC~edC~NRvvQ~Cq~ilk~I-~k~pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~Erqda 1261 (1778)
.+||+. +.|...|.|+.++......-.+ .-..+.+|.+...|||+....+ |+.-+||++|+|...+..-..+...+
T Consensus 981 f~e~~~hss~~~~e~~~~v~~~~~~~me~~s~~~l~i~~~~~~~~~~~edtD--~~~~~~~~~~~~~ppt~~l~~~~r~a 1058 (1262)
T KOG1141|consen 981 FFECNDHSSCHRKEYNRVVQNNIKYPMEVSSFNDLQIFKTAQSGWGVREDTD--IPQSTFICTYVGAPPTDDLADELRNA 1058 (1262)
T ss_pred ceeccccchhcccccchhhhcCCccceeeeeccccccccccccccccccccc--CCCCcccccccCCCCchhhHHHHhhh
Confidence 478865 5688889999998655543222 2234788999999999999986 99999999999988765211000000
Q ss_pred hHhhhccC-------------CCCCCcc------ee--------------------------------------------
Q 000255 1262 IRSLQKNN-------------EDPAPEF------YN-------------------------------------------- 1278 (1778)
Q Consensus 1262 iRrlq~~~-------------kd~~~dF------Y~-------------------------------------------- 1278 (1778)
....+.+. .+...+| |.
T Consensus 1059 qad~~sn~~D~~~~~~l~es~~~~~T~~r~~t~~~~~~~~~d~dd~q~I~k~ve~qd~~~~~~~T~~~~RQ~~~~s~k~~ 1138 (1262)
T KOG1141|consen 1059 QADQYSNDLDLKDTVELEESREDHETDFRGDTSDYDDEEGSDGDDGQDIMKMVERQDSSESGEETKRLTRQKRKQSKKSG 1138 (1262)
T ss_pred hhccccCccchhhhhhhhhcccccccccCCCCCCCcccccccCccHHHHHHHhhcccccccccccchhhhhhhhhhhhcc
Confidence 00000000 0000000 00
Q ss_pred -------------eeccCCCCC--------CC----CCceEEEcCccCCCcccccCCCCCCCeEEEEEEECCE----EEE
Q 000255 1279 -------------IYLERPKGD--------AD----GYDLVVVDAMHKANYASRICHSCRPNCEAKVTAVDGH----YQI 1329 (1778)
Q Consensus 1279 -------------i~L~r~kgD--------~d----G~d~l~IDAtrkGNiARFINHSCdPNCeaq~v~VdGe----pRI 1329 (1778)
-+....++. .+ ....++|||...||++||+||||.||+.++.++|+.+ |.+
T Consensus 1139 ~~~s~~~~~~ts~~~~~~dkges~~~~~~~~~~y~~~~~~yvIDAk~eGNlGRfLNHSC~PNl~VQnVfvdTHdlrfPwV 1218 (1262)
T KOG1141|consen 1139 KGGSVEKDDTTSRDSMEKDKGESKDEPVFNWDKYFEPFPLYVIDAKQEGNLGRFLNHSCDPNLHVQNVFVDTHDLRFPWV 1218 (1262)
T ss_pred cCccccccccCccchhhhccCccCcccccchhhccCCCceEEEecccccchhhhhccCCCccceeeeeeeeccccCCchh
Confidence 000000110 00 0123899999999999999999999999999999974 899
Q ss_pred EEEEeccCCCCCeEEEecCCCCcccccccCceEEcCCCCccceec
Q 000255 1330 GIYTVRGIHYGEEITFDYNSVTESKEEYEASVCLCGSQVCRGSYL 1374 (1778)
Q Consensus 1330 gfFAlRDIkaGEELTfDYg~~~es~kE~e~~~ClCGS~NCRG~iL 1374 (1778)
+|||.|-|++|+||||||++......+ ....|.||+.+|||.+|
T Consensus 1219 AFFt~kyVkAgtELTWDY~Ye~g~v~~-keL~C~CGa~~CrgrLL 1262 (1262)
T KOG1141|consen 1219 AFFTRKYVKAGTELTWDYQYEQGQVAT-KELTCHCGAENCRGRLL 1262 (1262)
T ss_pred hhhhhhhhccCceeeeecccccccccc-ceEEEecChhhhhcccC
Confidence 999999999999999999987664432 34799999999999865
No 8
>KOG1085 consensus Predicted methyltransferase (contains a SET domain) [General function prediction only]
Probab=99.59 E-value=1.5e-15 Score=169.16 Aligned_cols=115 Identities=29% Similarity=0.430 Sum_probs=92.1
Q ss_pred cCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccC
Q 000255 1222 YRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHK 1301 (1778)
Q Consensus 1222 ~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrk 1301 (1778)
..||.||+|+.. +++|+||.||.|.+|...+..+++ ..|..+.....|+.|+. +... .++|||+.-
T Consensus 264 dgKGRGv~a~~~--F~rgdFVVEY~Gdliei~eAk~rE------~~Ya~De~~GcYMYyF~-h~sk-----~yCiDAT~e 329 (392)
T KOG1085|consen 264 DGKGRGVRAKVN--FERGDFVVEYRGDLIEISEAKVRE------EQYANDEEIGCYMYYFE-HNSK-----KYCIDATKE 329 (392)
T ss_pred ccccceeEeecc--cccCceEEEEecceeeechHHHHH------HHhccCcccceEEEeee-ccCe-----eeeeecccc
Confidence 459999999985 999999999999999765443333 23344555556644433 3222 389999774
Q ss_pred -CCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCC
Q 000255 1302 -ANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSV 1350 (1778)
Q Consensus 1302 -GNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~ 1350 (1778)
+-.+|.||||-.+||.+..+.++|.|++.++|.|||.+||||+||||.-
T Consensus 330 t~~lGRLINHS~~gNl~TKvv~Idg~pHLiLvA~rdIa~GEELlYDYGDR 379 (392)
T KOG1085|consen 330 TPWLGRLINHSVRGNLKTKVVEIDGSPHLILVARRDIAQGEELLYDYGDR 379 (392)
T ss_pred cccchhhhcccccCcceeeEEEecCCceEEEEeccccccchhhhhhcccc
Confidence 5569999999999999999999999999999999999999999999964
No 9
>COG2940 Proteins containing SET domain [General function prediction only]
Probab=99.49 E-value=8.5e-15 Score=175.33 Aligned_cols=142 Identities=29% Similarity=0.487 Sum_probs=105.7
Q ss_pred CCccccccCcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceE
Q 000255 1215 PDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLV 1294 (1778)
Q Consensus 1215 pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l 1294 (1778)
+..+..+..+|+||||... |++|++|.+|.|+++...+ ...+.... . .....+.+.+.... ..
T Consensus 333 ~~~~~~~~~~~~g~fa~~~--i~~~e~i~~~~~~~~~~~~------~~~~~~~~-~-~~~~~~~~~~~~~~-------~~ 395 (480)
T COG2940 333 PNVVQESEIKGYGVFALES--IKKGEFIIEYHGEIIRRKE------AREREENY-D-LLGNEFSFGLLEDK-------DK 395 (480)
T ss_pred hhhhhhhcccccceeehhh--ccchHHHHHhcCcccchHH------HHhhhccc-c-ccccccchhhcccc-------ch
Confidence 3444556678999999975 9999999999999987522 11111111 1 11111112222111 26
Q ss_pred EEcCccCCCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcccc-----cccCceEEcCCCCc
Q 000255 1295 VVDAMHKANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTESKE-----EYEASVCLCGSQVC 1369 (1778)
Q Consensus 1295 ~IDAtrkGNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es~k-----E~e~~~ClCGS~NC 1369 (1778)
++|+...|+++|||||||.|||++....++|..++.++|.|||.+|||||+||+...+... .-....|.||+..|
T Consensus 396 ~~d~~~~g~~~r~~nHS~~pN~~~~~~~~~g~~~~~~~~~rDI~~geEl~~dy~~~~~~~~~~~~~~~~~~~~~~~~~~~ 475 (480)
T COG2940 396 VRDSQKAGDVARFINHSCTPNCEASPIEVNGIFKISIYAIRDIKAGEELTYDYGPSLEDNRELKKLLEKRWGCACGEDRC 475 (480)
T ss_pred hhhhhhcccccceeecCCCCCcceecccccccceeeecccccchhhhhhccccccccccchhhhhhhhhhhccccCCCcc
Confidence 8999999999999999999999999888888889999999999999999999998877532 11357999999999
Q ss_pred ccee
Q 000255 1370 RGSY 1373 (1778)
Q Consensus 1370 RG~i 1373 (1778)
++++
T Consensus 476 ~~~~ 479 (480)
T COG2940 476 SHTM 479 (480)
T ss_pred CCCC
Confidence 9965
No 10
>PF00856 SET: SET domain; InterPro: IPR001214 The SET domain appears generally as one part of a larger multidomain protein, and recently there were described three structures of very different proteins with distinct domain compositions: Neurospora crassa DIM-5, a member of the Su(var) family of HKMTs which methylate histone H3 on lysine 9,human SET7 (also called SET9), which methylates H3 on lysine 4 and garden pea Rubisco LSMT, an enzyme that does not modify histones, but instead methylates lysine 14 in the flexible tail of the large subunit of the enzyme Rubisco. The SET domain itself turned out to be an uncommon structure. Although in all three studies, electron density maps revealed the location of the AdoMet or AdoHcy cofactor, the SET domain bears no similarity at all to the canonical/AdoMet-dependent methyltransferase fold. Strictly conserved in the C-terminal motif of the SET domain tyrosine could be involved in abstracting a proton from the protonated amino group of the substrate lysine, promoting its nucleophilic attack on the sulphonium methyl group of the AdoMet cofactor. In contrast to the AdoMet-dependent protein methyltranferases of the classical type, which tend to bind their polypeptide substrates on top of the cofactor, it is noted from the Rubisco LSMT structure that the AdoMet seems to bind in a separate cleft, suggesting how a polypeptide substrate could be subjected to multiple rounds of methylation without having to be released from the enzyme. In contrast, SET7/9 is able to add only a single methyl group to its substrate. It has been demonstrated that association of SET domain and myotubularin-related proteins modulates growth control []. The SET domain-containing Drosophila melanogaster (Fruit fly) protein, enhancer of zeste, has a function in segment determination and the mammalian homologue may be involved in the regulation of gene transcription and chromatin structure. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity [], []. ; GO: 0005515 protein binding; PDB: 3TG5_A 3S7F_A 3RIB_B 3TG4_A 3S7J_A 3S7D_A 3S7B_A 3H6L_A 3SMT_A 3K5K_A ....
Probab=99.35 E-value=7.9e-13 Score=129.20 Aligned_cols=54 Identities=30% Similarity=0.442 Sum_probs=45.8
Q ss_pred EEcCccCCCcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecC
Q 000255 1295 VVDAMHKANYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYN 1348 (1778)
Q Consensus 1295 ~IDAtrkGNiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg 1348 (1778)
..++.....++.|+||||.|||.+......+...+.|.|.|+|++|||||++||
T Consensus 109 ~~~~~~l~p~~d~~NHsc~pn~~~~~~~~~~~~~~~~~a~r~I~~GeEi~isYG 162 (162)
T PF00856_consen 109 DRDGIALYPFADMLNHSCDPNCEVSFDFDGDGGCLVVRATRDIKKGEEIFISYG 162 (162)
T ss_dssp EEEEEEEETGGGGSEEESSTSEEEEEEEETTTTEEEEEESS-B-TTSBEEEEST
T ss_pred cccccccCcHhHheccccccccceeeEeecccceEEEEECCccCCCCEEEEEEC
Confidence 455666778999999999999999887666777999999999999999999997
No 11
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=98.82 E-value=8.8e-10 Score=132.77 Aligned_cols=121 Identities=30% Similarity=0.555 Sum_probs=95.0
Q ss_pred EeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccCCCccccc
Q 000255 1229 VCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHKANYASRI 1308 (1778)
Q Consensus 1229 FAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrkGNiARFI 1308 (1778)
+|..+ |.+| +|++++..++.-+. .........++|..+++.+ ..||+..+||++||+
T Consensus 319 ~~~~~--~~k~------vg~~i~~~e~~~~~------~~~~~~~~~~~~~~~~e~~---------~~id~~~~~n~sr~~ 375 (463)
T KOG1081|consen 319 TAKAD--IRKG------VGEVIDDKECKARL------QRVKESDLVDFYMVFIQKD---------RIIDAGPKGNYSRFL 375 (463)
T ss_pred hhHHh--hhcc------cCcccchhhheeeh------hhhhccchhhhhhhhhhcc---------cccccccccchhhhh
Confidence 55554 7777 89999875443222 2222344566665555532 379999999999999
Q ss_pred CCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcccccccCceEEcCCCCccceeccC
Q 000255 1309 CHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTESKEEYEASVCLCGSQVCRGSYLNL 1376 (1778)
Q Consensus 1309 NHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es~kE~e~~~ClCGS~NCRG~iL~~ 1376 (1778)
||||+|||+.+.+.+.+..+++++|.+.|++||||||+|+..-.. ....|.||+.+|.++....
T Consensus 376 nh~~~~~v~~~k~~~~~~t~~~~~a~~~i~~g~e~t~~~n~~~~~----~~~~~~~~~e~~~~~~~k~ 439 (463)
T KOG1081|consen 376 NHSCQPNVETEKWQVIGDTRVGLFAPRQIEAGEELTFNYNGNCEG----NEKRCCCGSENCTETKGKK 439 (463)
T ss_pred cccCCCceeechhheecccccccccccccccchhhhheeeccccC----CcceEeecccccccCCccc
Confidence 999999999999999999999999999999999999999987553 4578999999999965433
No 12
>KOG2589 consensus Histone tail methylase [Chromatin structure and dynamics]
Probab=98.67 E-value=1.4e-08 Score=117.50 Aligned_cols=120 Identities=26% Similarity=0.416 Sum_probs=84.9
Q ss_pred CcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCccCC
Q 000255 1223 RKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAMHKA 1302 (1778)
Q Consensus 1223 ~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAtrkG 1302 (1778)
..|=-|++++. +.+|+-|--.+|-|+.-.+ +.++ .+. .....+|-.||-.+... . .+++
T Consensus 136 ~~gAkivst~~--w~~ndkIe~LvGcIaeLse---~eE~--~ll---~~g~nDFSvmyStRk~c----a-qLwL------ 194 (453)
T KOG2589|consen 136 QNGAKIVSTKS--WSRNDKIELLVGCIAELSE---AEER--SLL---RGGGNDFSVMYSTRKRC----A-QLWL------ 194 (453)
T ss_pred CCCceEEeecc--ccCCccHHHhhhhhhhcCh---hhhH--HHH---hccCCceeeeeecccch----h-hhee------
Confidence 45888999975 9999999999998865432 2222 011 12345676666544211 1 1333
Q ss_pred CcccccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcccccccCceEEcCCCCccc
Q 000255 1303 NYASRICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTESKEEYEASVCLCGSQVCRG 1371 (1778)
Q Consensus 1303 NiARFINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es~kE~e~~~ClCGS~NCRG 1371 (1778)
..|+||||-|.|||+++. .|.-++.+-++|||+||||||.-|+..++... ...|.|- .|-.
T Consensus 195 GPaafINHDCrpnCkFvs---~g~~tacvkvlRDIePGeEITcFYgs~fFG~~---N~~CeC~--TCER 255 (453)
T KOG2589|consen 195 GPAAFINHDCRPNCKFVS---TGRDTACVKVLRDIEPGEEITCFYGSGFFGEN---NEECECV--TCER 255 (453)
T ss_pred ccHHhhcCCCCCCceeec---CCCceeeeehhhcCCCCceeEEeecccccCCC---CceeEEe--eccc
Confidence 678999999999999865 47678999999999999999999999998653 3456664 4754
No 13
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=97.58 E-value=5.5e-05 Score=65.23 Aligned_cols=45 Identities=40% Similarity=0.789 Sum_probs=43.1
Q ss_pred ceEEecCCCCccCCCCHHHHHHHhhhcccccccccccccCceeeec
Q 000255 378 EWYYLDGAGHERGPSSFSELQVLVDQGCIQKHTSVFRKFDKVWVPL 423 (1778)
Q Consensus 378 ~w~yldg~g~e~gp~s~selq~~v~~g~i~~~ssvfrk~d~~w~p~ 423 (1778)
.|||.+ .|..+||||+.||..|+.+|.|.+.+-|.++--.-|+|+
T Consensus 1 ~Wy~~~-~g~~~GP~s~~el~~l~~~g~i~~~tlvw~~g~~~W~pl 45 (45)
T PF14237_consen 1 EWYYAR-NGQQQGPFSLEELRQLISSGEIDPDTLVWKEGMSDWKPL 45 (45)
T ss_pred CEEEeC-CCeEECCcCHHHHHHHHHcCCCCCCCeEeCCChhhceEC
Confidence 599999 899999999999999999999999999999999999996
No 14
>KOG1141 consensus Predicted histone methyl transferase [Chromatin structure and dynamics]
Probab=97.26 E-value=8.1e-05 Score=93.06 Aligned_cols=136 Identities=17% Similarity=0.133 Sum_probs=83.5
Q ss_pred ccCCccccccccccccCCCCcc----cccccccccccccccccCCCcccchhhhhhhhhhHHHHHHHHhhhccccCCCCC
Q 000255 1099 LDMELPEVKDYKPRKQLGDQVF----EQEVYGIDPYTHNLLLDSMPDELDWNLLEKHLFIEDVLLRTLNKQVRHFTGTGN 1174 (1778)
Q Consensus 1099 ~d~e~P~~~~Y~prkvlG~DV~----Eqe~yGcDCyTrn~L~d~~P~el~W~~~~K~kFIek~LLktLNkqvr~~~G~g~ 1174 (1778)
.|--.|+++-|...-+.|..++ -.-+-||||-+... +.++|- .. +...+.....-+..+....|.+.
T Consensus 693 ids~~lpq~ay~K~~ip~~~nl~n~~~~fl~scdc~~gci--d~~kca-ch------Qltvk~~~t~p~~~v~~t~gyky 763 (1262)
T KOG1141|consen 693 IDSHRLPQAAYKKHMIPTNNNLSNRRKDFLQSCDCPTGCI--DSMKCA-CH------QLTVKKKTTGPNQNVASTNGYKY 763 (1262)
T ss_pred ccCcCCccchhheeeccCCCcccccChhhhhcCCCCcchh--hhhhhh-HH------HHHHHhhccCCCcccccCcchhh
Confidence 3444577777877777776555 33457999987642 344542 11 12111111111222222122110
Q ss_pred CC-CCCCCCcccccCC--CccccCCCchhhhcccccccccccCCCccccccCcccEEEeCccCCcCCCCEEEEEecEEec
Q 000255 1175 TP-MMYPLQPVIEEIE--KEAVDDCDVRTMKMCRGILKAMDSRPDDKYVAYRKGLGVVCNKEGGFGEDDFVVEFLGEVYP 1251 (1778)
Q Consensus 1175 tP-~~c~ckpv~EC~e--~cC~edC~NRvvQ~Cq~ilk~I~k~pleVFrT~~KGwGVFAtrdE~I~KGEFI~EYvGEVIt 1251 (1778)
.- ..|.-..++||+. .||+..|.||++|.+-+. .+.+|.+..||||++|..+ |.+|.|||-|.|.+++
T Consensus 764 KRl~e~~ptg~yEc~k~ckc~~~~C~nrmvqhg~qv-------Rlq~fkt~~kGWg~rcldd--i~~g~fVciy~g~~l~ 834 (1262)
T KOG1141|consen 764 KRLIEIRPTGPYECLKACKCCGPDCLNRMVQHGYQV-------RLQRFKTIHKGWGRRCLDD--ITGGNFVCIYPGGALL 834 (1262)
T ss_pred HHHHHhcCCCHHHHHHhhccCcHHHHHHHhhcCcee-------EeeeccccccccceEeeee--cCCceEEEEecchhhh
Confidence 00 0122234688965 457999999999987655 4566888889999999987 9999999999999987
Q ss_pred c
Q 000255 1252 V 1252 (1778)
Q Consensus 1252 ~ 1252 (1778)
.
T Consensus 835 ~ 835 (1262)
T KOG1141|consen 835 H 835 (1262)
T ss_pred h
Confidence 5
No 15
>KOG2461 consensus Transcription factor BLIMP-1/PRDI-BF1, contains C2H2-type Zn-finger and SET domains [Transcription]
Probab=96.80 E-value=0.001 Score=80.16 Aligned_cols=104 Identities=21% Similarity=0.155 Sum_probs=74.9
Q ss_pred CcccEEEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCCCCcceeeeccCCCCCCCCCceEEEcCc--c
Q 000255 1223 RKGLGVVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDPAPEFYNIYLERPKGDADGYDLVVVDAM--H 1300 (1778)
Q Consensus 1223 ~KGwGVFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~~~dFY~i~L~r~kgD~dG~d~l~IDAt--r 1300 (1778)
..|.||++..- |.+|+-.+-|.|+++... ........|.-.+...+ ....+||++ .
T Consensus 39 ~~~lgV~s~~~--i~~G~~FGP~~G~~~~~~---------------~~~~~n~~y~W~I~~~d-----~~~~~iDg~d~~ 96 (396)
T KOG2461|consen 39 VTGLGVWSNAS--ILPGTSFGPFEGEIIASI---------------DSKSANNRYMWEIFSSD-----NGYEYIDGTDEE 96 (396)
T ss_pred Ccccccccccc--ccCcccccCccCcccccc---------------ccccccCcceEEEEeCC-----CceEEeccCChh
Confidence 45799999975 999999999999982210 01112234544455432 123899995 5
Q ss_pred CCCcccccCCCCC---CCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCc
Q 000255 1301 KANYASRICHSCR---PNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTE 1352 (1778)
Q Consensus 1301 kGNiARFINHSCd---PNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~e 1352 (1778)
..||.||+|=.++ -|+.+. ...-.|.+.|+|+|++||||-+.|+.++-
T Consensus 97 ~sNWmRYV~~Ar~~eeQNL~A~----Q~~~~Ifyrt~r~I~p~eELlVWY~~e~~ 147 (396)
T KOG2461|consen 97 HSNWMRYVNSARSEEEQNLLAF----QIGENIFYRTIRDIRPNEELLVWYGSEYA 147 (396)
T ss_pred hcceeeeecccCChhhhhHHHH----hccCceEEEecccCCCCCeEEEEeccchH
Confidence 7899999998885 576552 23347999999999999999999997764
No 16
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=96.32 E-value=0.0024 Score=54.81 Aligned_cols=36 Identities=33% Similarity=0.618 Sum_probs=31.8
Q ss_pred cccCcchHHHHHHHHhhhchhHHHHhhhcchhHHHHHH
Q 000255 588 WGLLDGHTLAHVFHFLRSDMKSLAFASLTCRHWRAAVR 625 (1778)
Q Consensus 588 w~~l~g~~l~rvfh~lr~d~ksl~~~~~tc~~w~~~~~ 625 (1778)
|.-|+..+|.+||.|| |.++|+-++.|||+|+.++.
T Consensus 1 i~~LP~Eil~~If~~L--~~~dl~~~~~vcr~w~~~~~ 36 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYL--DPRDLLRLSLVCRRWRRIAN 36 (47)
T ss_dssp CCCS-HHHHHHHHTTS---HHHHHHHTTSSHHHHHHHT
T ss_pred ChHhHHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHC
Confidence 6679999999999999 99999999999999999984
No 17
>PF02213 GYF: GYF domain; InterPro: IPR003169 The glycine-tyrosine-phenylalanine (GYF) domain is an around 60-amino acid domain which contains a conserved GP[YF]xxxx[MV]xxWxxx[GN]YF motif. It was identified in the human intracellular protein termed CD2 binding protein 2 (CD2BP2), which binds to a site containing two tandem PPPGHR segments within the cytoplasmic region of CD2. Binding experiments and mutational analyses have demonstrated the critical importance of the GYF tripeptide in ligand binding. A GYF domain is also found in several other eukaryotic proteins of unknown function []. It has been proposed that the GYF domain found in these proteins could also be involved in proline-rich sequence recognition []. Resolution of the structure of the CD2BP2 GYF domain by NMR spectroscopy revealed a compact domain with a beta-beta-alpha-beta-beta topology, where the single alpha-helix is tilted away from the twisted, anti-parallel beta-sheet. The conserved residues of the GYF domain create a contiguous patch of predominantly hydrophobic nature which forms an integral part of the ligand-binding site []. There is limited homology within the C-terminal 20-30 amino acids of various GYF domains, supporting the idea that this part of the domain is structurally but not functionally important [].; GO: 0005515 protein binding; PDB: 1SYX_F 1L2Z_A 1GYF_A 1WH2_A 3FMA_C 3K3V_A.
Probab=95.98 E-value=0.004 Score=56.42 Aligned_cols=48 Identities=29% Similarity=0.445 Sum_probs=38.0
Q ss_pred ceEEecCCCCccCCCCHHHHHHHhhhcccccccccccccC----ceeeeccc
Q 000255 378 EWYYLDGAGHERGPSSFSELQVLVDQGCIQKHTSVFRKFD----KVWVPLTF 425 (1778)
Q Consensus 378 ~w~yldg~g~e~gp~s~selq~~v~~g~i~~~ssvfrk~d----~~w~p~~~ 425 (1778)
.|||+|..|..+|||+-.++|.-.++|......-|.|..+ ..|+++..
T Consensus 2 ~W~Y~d~~g~~qGPf~~~~M~~W~~~gyF~~~l~vr~~~~~~~~~~~~~~~~ 53 (57)
T PF02213_consen 2 MWYYKDPDGNIQGPFSSEQMQAWYKQGYFPDDLQVRRVDDTQFIDPFGSIDR 53 (57)
T ss_dssp EEEEESTTS-EEEEEEHHHHHHHHHTTSSTTT-EEEETTSTTT--SSCECCG
T ss_pred EeEEECCCCCcCCCcCHHHHHHHHHCCCCCCCcEEEEecCCCCcccchhhhh
Confidence 4999999999999999999999999999998777777644 44555543
No 18
>cd00072 GYF GYF domain: contains conserved Gly-Tyr-Phe residues; Proline-binding domain in CD2-binding and other proteins. Involved in signaling lymphocyte activity. Also present in other unrelated proteins (mainly unknown) derived from diverse eukaryotic species.
Probab=95.78 E-value=0.011 Score=54.17 Aligned_cols=50 Identities=24% Similarity=0.333 Sum_probs=42.6
Q ss_pred ceEEecCCCCccCCCCHHHHHHHhhhcccccccccccc-cCceeeeccccc
Q 000255 378 EWYYLDGAGHERGPSSFSELQVLVDQGCIQKHTSVFRK-FDKVWVPLTFAT 427 (1778)
Q Consensus 378 ~w~yldg~g~e~gp~s~selq~~v~~g~i~~~ssvfrk-~d~~w~p~~~~~ 427 (1778)
-|+|+|-.|..||||+-++++.-..+|.....--|=|. .|.-|+|+....
T Consensus 3 ~W~Y~d~~g~vqGPF~~~~M~~W~~~gyF~~~l~vr~~~~~~~f~~l~~~~ 53 (57)
T cd00072 3 QWFYKDPQGEIQGPFSASQMLQWYQAGYFPDGLQVRRLDNGGEFYTLGDIL 53 (57)
T ss_pred EEEEECCCCCCcCCcCHHHHHHHHHCCCCCCCeEEEECCCCCCcEEHHHHH
Confidence 39999999999999999999999999999876555555 567899987654
No 19
>cd00072 GYF GYF domain: contains conserved Gly-Tyr-Phe residues; Proline-binding domain in CD2-binding and other proteins. Involved in signaling lymphocyte activity. Also present in other unrelated proteins (mainly unknown) derived from diverse eukaryotic species.
Probab=92.59 E-value=0.098 Score=48.10 Aligned_cols=48 Identities=21% Similarity=0.438 Sum_probs=44.6
Q ss_pred ceEEEccCCcccCchhhhhhhhhhhcCcccccchhhcc-CCCcceeeec
Q 000255 24 KWFYLDHCGMECGPSRLCDLKTLVEEGVLVSDHFIKHL-DSNRWETVEN 71 (1778)
Q Consensus 24 ~w~yl~~~g~e~gp~~l~~~k~l~~~~~l~~dh~i~~~-~~~~w~t~e~ 71 (1778)
.|+|+|..|..|||=--..+..-.+.|++-.+..|+.. +..+|+++..
T Consensus 3 ~W~Y~d~~g~vqGPF~~~~M~~W~~~gyF~~~l~vr~~~~~~~f~~l~~ 51 (57)
T cd00072 3 QWFYKDPQGEIQGPFSASQMLQWYQAGYFPDGLQVRRLDNGGEFYTLGD 51 (57)
T ss_pred EEEEECCCCCCcCCcCHHHHHHHHHCCCCCCCeEEEECCCCCCcEEHHH
Confidence 69999999999999999999999999999999999999 6679998754
No 20
>smart00508 PostSET Cysteine-rich motif following a subset of SET domains.
Probab=92.57 E-value=0.063 Score=43.04 Aligned_cols=16 Identities=44% Similarity=0.955 Sum_probs=13.7
Q ss_pred CceEEcCCCCccceec
Q 000255 1359 ASVCLCGSQVCRGSYL 1374 (1778)
Q Consensus 1359 ~~~ClCGS~NCRG~iL 1374 (1778)
.+.|+|||++|||++.
T Consensus 2 ~~~C~CGs~~CRG~l~ 17 (26)
T smart00508 2 KQPCLCGAPNCRGFLG 17 (26)
T ss_pred CeeeeCCCccccceec
Confidence 3789999999999763
No 21
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=91.71 E-value=0.16 Score=41.33 Aligned_cols=34 Identities=24% Similarity=0.336 Sum_probs=29.5
Q ss_pred CcchHHHHHHHHhhhchhHHHHhhhcchhHHHHHHH
Q 000255 591 LDGHTLAHVFHFLRSDMKSLAFASLTCRHWRAAVRF 626 (1778)
Q Consensus 591 l~g~~l~rvfh~lr~d~ksl~~~~~tc~~w~~~~~~ 626 (1778)
|+..++.+||-+| |.+.++.++.+|+.|+++++.
T Consensus 1 lP~~ll~~I~~~l--~~~d~~~~~~vc~~~~~~~~~ 34 (41)
T smart00256 1 LPDEILEEILSKL--PPKDLLRLRKVSRRWRSLIDS 34 (41)
T ss_pred CCHHHHHHHHHcC--CHHHHHHHHHHHHHHHHHhcC
Confidence 5678899999988 569999999999999999853
No 22
>PF14237 DUF4339: Domain of unknown function (DUF4339)
Probab=91.53 E-value=0.14 Score=44.52 Aligned_cols=44 Identities=25% Similarity=0.626 Sum_probs=41.4
Q ss_pred ceEEEccCCcccCchhhhhhhhhhhcCcccccchhhccCCCccee
Q 000255 24 KWFYLDHCGMECGPSRLCDLKTLVEEGVLVSDHFIKHLDSNRWET 68 (1778)
Q Consensus 24 ~w~yl~~~g~e~gp~~l~~~k~l~~~~~l~~dh~i~~~~~~~w~t 68 (1778)
.|||.+ .|-..||-.+.+|+.|...|.+-.+-||=+-+-..|..
T Consensus 1 ~Wy~~~-~g~~~GP~s~~el~~l~~~g~i~~~tlvw~~g~~~W~p 44 (45)
T PF14237_consen 1 EWYYAR-NGQQQGPFSLEELRQLISSGEIDPDTLVWKEGMSDWKP 44 (45)
T ss_pred CEEEeC-CCeEECCcCHHHHHHHHHcCCCCCCCeEeCCChhhceE
Confidence 599999 99999999999999999999999999999999888875
No 23
>PF02213 GYF: GYF domain; InterPro: IPR003169 The glycine-tyrosine-phenylalanine (GYF) domain is an around 60-amino acid domain which contains a conserved GP[YF]xxxx[MV]xxWxxx[GN]YF motif. It was identified in the human intracellular protein termed CD2 binding protein 2 (CD2BP2), which binds to a site containing two tandem PPPGHR segments within the cytoplasmic region of CD2. Binding experiments and mutational analyses have demonstrated the critical importance of the GYF tripeptide in ligand binding. A GYF domain is also found in several other eukaryotic proteins of unknown function []. It has been proposed that the GYF domain found in these proteins could also be involved in proline-rich sequence recognition []. Resolution of the structure of the CD2BP2 GYF domain by NMR spectroscopy revealed a compact domain with a beta-beta-alpha-beta-beta topology, where the single alpha-helix is tilted away from the twisted, anti-parallel beta-sheet. The conserved residues of the GYF domain create a contiguous patch of predominantly hydrophobic nature which forms an integral part of the ligand-binding site []. There is limited homology within the C-terminal 20-30 amino acids of various GYF domains, supporting the idea that this part of the domain is structurally but not functionally important [].; GO: 0005515 protein binding; PDB: 1SYX_F 1L2Z_A 1GYF_A 1WH2_A 3FMA_C 3K3V_A.
Probab=90.05 E-value=0.19 Score=45.71 Aligned_cols=43 Identities=21% Similarity=0.479 Sum_probs=37.7
Q ss_pred ceEEEccCCcccCchhhhhhhhhhhcCcccccchhhccCCCcc
Q 000255 24 KWFYLDHCGMECGPSRLCDLKTLVEEGVLVSDHFIKHLDSNRW 66 (1778)
Q Consensus 24 ~w~yl~~~g~e~gp~~l~~~k~l~~~~~l~~dh~i~~~~~~~w 66 (1778)
.|+|+|.-|..+||=....+..-.+.|++-.+..|++.+...+
T Consensus 2 ~W~Y~d~~g~~qGPf~~~~M~~W~~~gyF~~~l~vr~~~~~~~ 44 (57)
T PF02213_consen 2 MWYYKDPDGNIQGPFSSEQMQAWYKQGYFPDDLQVRRVDDTQF 44 (57)
T ss_dssp EEEEESTTS-EEEEEEHHHHHHHHHTTSSTTT-EEEETTSTTT
T ss_pred EeEEECCCCCcCCCcCHHHHHHHHHCCCCCCCcEEEEecCCCC
Confidence 5999999999999999999999999999999999999976433
No 24
>smart00444 GYF Contains conserved Gly-Tyr-Phe residues. Proline-binding domain in CD2-binding protein. Contains conserved Gly-Tyr-Phe residues.
Probab=89.93 E-value=0.35 Score=44.45 Aligned_cols=38 Identities=24% Similarity=0.432 Sum_probs=32.1
Q ss_pred ceEEecCCCCccCCCCHHHHHHHhhhcccccccccccc
Q 000255 378 EWYYLDGAGHERGPSSFSELQVLVDQGCIQKHTSVFRK 415 (1778)
Q Consensus 378 ~w~yldg~g~e~gp~s~selq~~v~~g~i~~~ssvfrk 415 (1778)
-|+|+|-.|..+||||-+++|.-.++|.....--|=|.
T Consensus 2 ~W~Y~d~~~~iqGPf~~~~M~~W~~~gyF~~~l~vr~~ 39 (56)
T smart00444 2 LWLYKDPDGEIQGPFTASQMSQWYQAGYFPDSLQIKRL 39 (56)
T ss_pred EEEEECCCCCEeCCcCHHHHHHHHHCCCCCCCeEEEEc
Confidence 39999999999999999999999999999754433333
No 25
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=89.19 E-value=0.23 Score=42.35 Aligned_cols=38 Identities=29% Similarity=0.427 Sum_probs=30.8
Q ss_pred ccccCcchHHHHHHHHhhhchhHHHHhhhcchhHHHHHHH
Q 000255 587 GWGLLDGHTLAHVFHFLRSDMKSLAFASLTCRHWRAAVRF 626 (1778)
Q Consensus 587 ~w~~l~g~~l~rvfh~lr~d~ksl~~~~~tc~~w~~~~~~ 626 (1778)
+|.-|+-.++..||.+| |+++++..+.||++|+.+++.
T Consensus 2 ~~~~LP~~il~~Il~~l--~~~~~~~l~~vsk~~~~~~~~ 39 (48)
T PF00646_consen 2 PLSDLPDEILQEILSYL--DPKDLLRLSLVSKRWRSLVDS 39 (48)
T ss_dssp HHHHS-HHHHHHHHHTS---HHHHHHHCTT-HHHHHHHTT
T ss_pred CHHHCCHHHHHHHHHHC--cHHHHHHHHHHhhHHHHHHcC
Confidence 35668889999999987 789999999999999999864
No 26
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=88.92 E-value=0.42 Score=58.73 Aligned_cols=110 Identities=22% Similarity=0.401 Sum_probs=72.2
Q ss_pred cccccCccccCcchHHHHHHHHhhhchhHHHHhhhcchhHHHHHHHhcccc-eeeecCCCCCCchhHHHHHHHhhccccc
Q 000255 581 SAIESGGWGLLDGHTLAHVFHFLRSDMKSLAFASLTCRHWRAAVRFYKGIS-RQVDLSSVGPNCTDSLIRKTLNAFDKEK 659 (1778)
Q Consensus 581 ~~~~~~~w~~l~g~~l~rvfh~lr~d~ksl~~~~~tc~~w~~~~~~~~~~~-~~vdls~~g~~ctd~~~~~~~~~y~~~~ 659 (1778)
++-++.+|. |++.+|-|||-|| |.|||-=++.-|+.|+-.|-= ..+ -++||-..---=--.|+.+|++.-+ +.
T Consensus 66 ~~~~~~~~~-LPpEl~lkvFS~L--Dtksl~r~a~~c~~~n~~AlD--~~~~q~idL~t~~rDv~g~VV~~~~~Rcg-g~ 139 (483)
T KOG4341|consen 66 ADNNSISRS-LPPELLLKVFSML--DTKSLCRAAQCCTMWNKLALD--GSCWQHIDLFTFQRDVDGGVVENMISRCG-GF 139 (483)
T ss_pred hhccccccc-CCHHHHHHHHHHH--hHHHHHHHHHHHHHhhhhhhc--cccceeeehhcchhcCCCcceehHhhhhc-cc
Confidence 345567786 5678999999999 999999999999999987631 111 1344433222222345666665444 56
Q ss_pred cceeEecccccCChhHHHHHHHhCCCccEEeeccccc
Q 000255 660 LNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQ 696 (1778)
Q Consensus 660 ~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q 696 (1778)
++.+-|.||-++--..|.-+..-+|.|..+.|.||-.
T Consensus 140 lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~ 176 (483)
T KOG4341|consen 140 LKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKK 176 (483)
T ss_pred cccccccccccCCcchhhHHhhhCCchhhhhhhccee
Confidence 6666666666666666666666666666666666653
No 27
>cd05512 Bromo_brd1_like Bromodomain; brd1_like subfamily. BRD1 is a mammalian gene which encodes for a nuclear protein assumed to be a transcriptional regulator. BRD1 has been implicated with brain development and susceptibility to schizophrenia and bipolar affective disorder. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=88.14 E-value=1.2 Score=44.76 Aligned_cols=59 Identities=15% Similarity=0.330 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHhhcccceeccc------------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 814 MEEFLASSLKEIMRVNTFEFFVPK------------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 814 ~~~~~~~~l~~im~~~~~d~f~~k------------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
++++|...|..||+......|.-- ...|+.|+++|+|.+ +..+..|+..|+.+|+.+-.
T Consensus 2 ~~~~l~~il~~l~~~~~~~~F~~pVd~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s--~~ef~~D~~li~~Na~~yN~ 78 (98)
T cd05512 2 LEVLLRKTLDQLQEKDTAEIFSEPVDLSEVPDYLDHIKQPMDFSTMRKKLESQRYRT--LEDFEADFNLIINNCLAYNA 78 (98)
T ss_pred HHHHHHHHHHHHHhCCCchhhcCCCCccccCCHHHHhcCCcCHHHHHHHHhCCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 578899999999999888888752 248999999999987 78899999999999998744
No 28
>PF00439 Bromodomain: Bromodomain; InterPro: IPR001487 Bromodomains are found in a variety of mammalian, invertebrate and yeast DNA-binding proteins []. Bromodomains can interact with acetylated lysine []. In some proteins, the classical bromodomain has diverged to such an extent that parts of the region are either missing or contain an insertion (e.g., mammalian protein HRX, Caenorhabditis elegans hypothetical protein ZK783.4, yeast protein YTA7). The bromodomain may occur as a single copy, or in duplicate. The precise function of the domain is unclear, but it may be involved in protein-protein interactions and may play a role in assembly or activity of multi-component complexes involved in transcriptional activation [].; GO: 0005515 protein binding; PDB: 3P1C_A 4A9K_B 3SVH_A 3P1E_B 3P1F_A 1JSP_B 2L85_A 3P1D_B 3DWY_B 2D82_A ....
Probab=87.72 E-value=0.69 Score=43.57 Aligned_cols=55 Identities=20% Similarity=0.332 Sum_probs=43.1
Q ss_pred HHHHHHhhcccceecc------------------chhHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCCC
Q 000255 821 SLKEIMRVNTFEFFVP------------------KVAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRGS 877 (1778)
Q Consensus 821 ~l~~im~~~~~d~f~~------------------k~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~~ 877 (1778)
-|.++|+....-+|.- -+..|+.|+++|+|.+ +..+..|+.+|+++|+++-..++
T Consensus 4 il~~l~~~~~~~~F~~~~~~~~~p~y~~~i~~P~dL~~I~~kl~~~~Y~s--~~~f~~Dv~~i~~Na~~yn~~~s 76 (84)
T PF00439_consen 4 ILEELMKHPISSPFSKPVDPKEYPDYYEIIKNPMDLSTIRKKLENGKYKS--IEEFEADVRLIFQNARRYNPPDS 76 (84)
T ss_dssp HHHHHHTSTTGGGGSSSTHTTTSTTHHHHSSSS--HHHHHHHHHTTSSSS--HHHHHHHHHHHHHHHHHHSCTTS
T ss_pred HHHHHHcCCCchhhcCCCChhhCCCHHHHHhhccchhhhhHHhhccchhh--HHHHHHHHHHHHHHHHHHCCCcC
Confidence 4567777777666642 2348999999999986 88999999999999999866443
No 29
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=87.40 E-value=0.53 Score=56.16 Aligned_cols=43 Identities=30% Similarity=0.462 Sum_probs=36.6
Q ss_pred cccCccccCcchHHHHHHHHhhh---chhHHHHhhhcchhHHHHHH
Q 000255 583 IESGGWGLLDGHTLAHVFHFLRS---DMKSLAFASLTCRHWRAAVR 625 (1778)
Q Consensus 583 ~~~~~w~~l~g~~l~rvfh~lr~---d~ksl~~~~~tc~~w~~~~~ 625 (1778)
+...+-.-|+..+|.|||..+-+ |+.||.-+||||++|.-+++
T Consensus 102 p~~~~~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R 147 (366)
T KOG2997|consen 102 PELISISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCAR 147 (366)
T ss_pred hhhhhhhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHc
Confidence 33334567999999999999876 88999999999999999885
No 30
>cd05529 Bromo_WDR9_I_like Bromodomain; WDR9 repeat I_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=87.14 E-value=1.6 Score=45.78 Aligned_cols=61 Identities=23% Similarity=0.377 Sum_probs=48.5
Q ss_pred HHHHHHHHHHHHH---hhcccceecc---ch----------------hHHHhhhccccccccCCcchhhhHHHHHHHHHH
Q 000255 814 MEEFLASSLKEIM---RVNTFEFFVP---KV----------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIK 871 (1778)
Q Consensus 814 ~~~~~~~~l~~im---~~~~~d~f~~---k~----------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~ 871 (1778)
+-+.+...|+.|| +.....+|.- +. ..|+.|+++|||.+ +..+..|+..|+++|..
T Consensus 25 ~~~~i~~~l~~l~~~~~~~~~~~F~~pv~~~~~~p~Y~~iI~~PmdL~tI~~kl~~~~Y~s--~~~f~~Dv~Li~~Na~~ 102 (128)
T cd05529 25 ERERLISGLDKLLLSLQLEIAEYFEYPVDLRAWYPDYWNRVPVPMDLETIRSRLENRYYRS--LEALRHDVRLILSNAET 102 (128)
T ss_pred HHHHHHHHHHHHHhcccCcccccccCCCCccccCCcHHHHcCCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHH
Confidence 4477888999999 6666666652 22 37999999999988 77999999999999988
Q ss_pred hccCC
Q 000255 872 AKNRG 876 (1778)
Q Consensus 872 ~~~~~ 876 (1778)
+-..+
T Consensus 103 yN~~~ 107 (128)
T cd05529 103 FNEPN 107 (128)
T ss_pred HCCCC
Confidence 75543
No 31
>PF05033 Pre-SET: Pre-SET motif; InterPro: IPR007728 This region is found in a number of histone lysine methyltransferases (HMTase), N-terminal to the SET domain; it is generally described as the pre-SET domain. Histone lysine methylation is part of the histone code that regulated chromatin function and epigenetic control of gene function. Histone lysine methyltransferases (HMTase) differ both in their substrate specificity for the various acceptor lysines as well as in their product specificity for the number of methyl groups (one, two, or three) they transfer. With just one exception [], the HMTases belong to SET family that can be classified according to the sequences surrounding the SET domain [, ]. Structural studies on the human SET7/9, a mono-methylase, have revealed the molecular basis for the specificity of the enzyme for the histone-target and the roles of the invariant residues in the SET domain in determining the methylation specificities []. The pre-SET domain, as found in the SUV39 SET family, contains nine invariant cysteine residues that are grouped into two segments separated by a region of variable length. These 9 cysteines coordinate 3 zinc ions to form a triangular cluster, where each of the zinc ions is coordinated by 4 four cysteines to give a tetrahedral configuration. The function of this domain is structural, holding together 2 long segments of random coils and stabilising the SET domain. The C-terminal region including the post-SET domain is disordered when not interacting with a histone tail and in the absence of zinc. The three conserved cysteines in the post-SET domain form a zinc-binding site [] when coupled to a fourth conserved cysteine in the knot-like structure close to the SET domain active site []. The structured post-SET region brings in the C-terminal residues that participate in S-adenosylmethine-binding and histone tail interactions. The three conserved cysteine residues are essential for HMTase activity, as replacement with serine abolishes HMTase activity []. ; GO: 0008270 zinc ion binding, 0018024 histone-lysine N-methyltransferase activity, 0034968 histone lysine methylation, 0005634 nucleus; PDB: 3K5K_A 2O8J_D 3RJW_B 1ML9_A 1PEG_B 1MVH_A 1MVX_A 3BO5_A 2RFI_B 3MO5_B ....
Probab=87.14 E-value=0.54 Score=46.43 Aligned_cols=34 Identities=26% Similarity=0.326 Sum_probs=19.2
Q ss_pred cccCCcc-ccccccccccCCCCc---cccccccccccc
Q 000255 1098 ELDMELP-EVKDYKPRKQLGDQV---FEQEVYGIDPYT 1131 (1778)
Q Consensus 1098 ~~d~e~P-~~~~Y~prkvlG~DV---~Eqe~yGcDCyT 1131 (1778)
++|.+.| .-|+|+++.++++.+ ......||+|..
T Consensus 16 ~vd~~~~p~~F~Yi~~~~~~~~~~~~~~~~~~~C~C~~ 53 (103)
T PF05033_consen 16 DVDDEPPPPNFEYIPENIYGEGVPDIDPEFLQGCDCSG 53 (103)
T ss_dssp SSSS--SSTSSEE-SS-EESTTSS-TBGGGTS----SS
T ss_pred CCCCCCCCCCeEEeeeEEcCCCccccccccCccCccCC
Confidence 3455655 679999999999864 578888999943
No 32
>smart00468 PreSET N-terminal to some SET domains. A Cys-rich putative Zn2+-binding domain that occurs N-terminal to some SET domains. Function is unknown. Unpublished.
Probab=86.15 E-value=0.7 Score=45.70 Aligned_cols=50 Identities=22% Similarity=0.240 Sum_probs=38.4
Q ss_pred cChHHHHHhcccccchhHHHhhhhccCCCccccCCc-cccccccccccCCCCc----cccccccccccc
Q 000255 1068 ADEEDVRRKMRVSLPEDYAEKLNAQKNGSEELDMEL-PEVKDYKPRKQLGDQV----FEQEVYGIDPYT 1131 (1778)
Q Consensus 1068 ~D~~ev~~km~v~l~~dy~ekl~~~k~gt~~~d~e~-P~~~~Y~prkvlG~DV----~Eqe~yGcDCyT 1131 (1778)
.|....++.++|.+. | ++|.+. |+-|+|+++.+.|++| ......||+|..
T Consensus 2 ~Dis~G~E~~pI~~v-----------N---~vD~~~~p~~F~Yi~~~~~~~gv~~~~~~~~~~gC~C~~ 56 (98)
T smart00468 2 LDISNGKENVPVPLV-----------N---EVDEDPPPPDFEYISEYIYGQGVPIDRSPSPLVGCSCSG 56 (98)
T ss_pred ccccCCccCCCcceE-----------e---cCCCCCCCCCcEECcceEcCCCcccccCCCCCCCCcCCC
Confidence 456666777777777 4 456664 4779999999999965 588889999976
No 33
>cd05513 Bromo_brd7_like Bromodomain, brd7_like subgroup. The BRD7 gene encodes a nuclear protein that has been shown to inhibit cell growth and the progression of the cell cycle by regulating cell-cycle genes at the transcriptional level. BRD7 has been identified as a gene involved in nasopharyngeal carcinoma. The protein interacts with acetylated histone H3 via its bromodomain. Bromodomains are 110 amino acid long domains that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=85.10 E-value=1.6 Score=44.04 Aligned_cols=58 Identities=26% Similarity=0.505 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 815 EEFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 815 ~~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
.+.|..-|..+|+.....+|.--| ..|+.|+++|+|.+ +..+.+|+..|+.+|.++-.
T Consensus 3 ~~~l~~il~~l~~~~~~~~F~~PV~~~~~pdY~~vIk~PmDL~tI~~kl~~~~Y~s--~~~f~~D~~li~~Na~~yN~ 78 (98)
T cd05513 3 QKALEQLIRQLQRKDPHGFFAFPVTDFIAPGYSSIIKHPMDFSTMKEKIKNNDYQS--IEEFKDDFKLMCENAMKYNK 78 (98)
T ss_pred HHHHHHHHHHHHcCCccccccCcCCccccccHHHHHcCccCHHHHHHHHhCCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 456777889999998888886322 48999999999986 88999999999999999754
No 34
>cd05507 Bromo_brd8_like Bromodomain, brd8_like subgroup. In mammals, brd8 (bromodomain containing 8) interacts with the thyroid hormone receptor in a ligand-dependent fashion and enhances thyroid hormone-dependent activation from thyroid response elements. Brd8 is thought to be a nuclear receptor coactivator. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=82.72 E-value=2.2 Score=43.18 Aligned_cols=61 Identities=15% Similarity=0.216 Sum_probs=50.4
Q ss_pred HHHHHHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhc
Q 000255 812 KRMEEFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAK 873 (1778)
Q Consensus 812 ~~~~~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~ 873 (1778)
+-+.+.+.+-|..||+......|.-.| ..|+.|+++|+|.+ +..++.|+..|+.+|..+-
T Consensus 2 ~~~~~~~~~il~~l~~~~~a~~F~~pV~~~~~p~Y~~iIk~PmDL~tI~~kl~~~~Y~s--~~ef~~D~~li~~Na~~yN 79 (104)
T cd05507 2 RAWKKAILLVYRTLASHRYASVFLKPVTEDIAPGYHSVVYRPMDLSTIKKNIENGTIRS--TAEFQRDVLLMFQNAIMYN 79 (104)
T ss_pred hHHHHHHHHHHHHHHcCCCCHhhcCCCCccccCCHHHHhCCCcCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHHC
Confidence 456788999999999988877776433 37999999999964 7889999999999998875
Q ss_pred c
Q 000255 874 N 874 (1778)
Q Consensus 874 ~ 874 (1778)
+
T Consensus 80 ~ 80 (104)
T cd05507 80 S 80 (104)
T ss_pred C
Confidence 4
No 35
>smart00297 BROMO bromo domain.
Probab=82.69 E-value=2.3 Score=41.80 Aligned_cols=63 Identities=17% Similarity=0.247 Sum_probs=49.2
Q ss_pred hhHHHHHHHHHHHHHHHhhcccceeccc------------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHH
Q 000255 810 GYKRMEEFLASSLKEIMRVNTFEFFVPK------------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIK 871 (1778)
Q Consensus 810 ~y~~~~~~~~~~l~~im~~~~~d~f~~k------------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~ 871 (1778)
..++|...+..-+..+++.-....|.-. ...|+.|+++|+|.+ +..+..|+..|..+|+.
T Consensus 4 ~~~~~~~~~~~i~~~~~~~~~~~~F~~~~~~~~~p~Y~~~i~~P~dl~~I~~kl~~~~Y~s--~~ef~~D~~li~~Na~~ 81 (107)
T smart00297 4 LQKKLQSLLKAVLDKLDSHRLSWPFLKPVDRKEAPDYYDIIKKPMDLSTIKKKLENGKYSS--VEEFVADVQLMFSNAKT 81 (107)
T ss_pred hHHHHHHHHHHHHHHHHhCccchhhccCCChhhccCHHHHhcCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHH
Confidence 3577788888888888876555556521 238999999999965 77899999999999999
Q ss_pred hcc
Q 000255 872 AKN 874 (1778)
Q Consensus 872 ~~~ 874 (1778)
+-.
T Consensus 82 ~n~ 84 (107)
T smart00297 82 YNG 84 (107)
T ss_pred HCC
Confidence 755
No 36
>KOG2084 consensus Predicted histone tail methylase containing SET domain [Chromatin structure and dynamics]
Probab=80.45 E-value=2.7 Score=50.19 Aligned_cols=43 Identities=35% Similarity=0.562 Sum_probs=32.2
Q ss_pred ccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCC-eEEEecCCCCcc
Q 000255 1307 RICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGE-EITFDYNSVTES 1353 (1778)
Q Consensus 1307 FINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGE-ELTfDYg~~~es 1353 (1778)
++||||.||+. ...++. ...+++...+.+++ ||+..|.....+
T Consensus 208 ~~~hsC~pn~~---~~~~~~-~~~~~~~~~~~~~~~~l~~~y~~~~~~ 251 (482)
T KOG2084|consen 208 LFNHSCFPNIS---VIFDGR-GLALLVPAGIDAGEEELTISYTDPLLS 251 (482)
T ss_pred hcccCCCCCeE---EEECCc-eeEEEeecccCCCCCEEEEeecccccC
Confidence 89999999998 333443 34566677777776 999999977664
No 37
>cd05528 Bromo_AAA Bromodomain; sub-family co-occurring with AAA domains. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine. The structure(2DKW) in this alignment is an uncharacterized protein predicted from analysis of cDNA clones from human fetal liver
Probab=79.29 E-value=6.4 Score=40.73 Aligned_cols=62 Identities=19% Similarity=0.317 Sum_probs=49.8
Q ss_pred HHHHHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 813 RMEEFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 813 ~~~~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
.|--+|..-|..||+...+..|.--| ..|+.|+++|+|.+ +..+..|+..|+.+|..+-.
T Consensus 3 ~lr~~L~~il~~l~~~~~~~~F~~pv~~~~~pdY~~vI~~PmdL~tI~~kl~~~~Y~s--~~ef~~Dv~li~~Na~~yN~ 80 (112)
T cd05528 3 ELRLFLRDVLKRLASDKRFNAFTKPVDEEEVPDYYEIIKQPMDLQTILQKLDTHQYLT--AKDFLKDIDLIVTNALEYNP 80 (112)
T ss_pred HHHHHHHHHHHHHHhCCCchhhcCCCCccccCcHHHHHcCCCCHHHHHHHHcCCCcCC--HHHHHHHHHHHHHHHHHHCC
Confidence 34567888889999887777776544 37999999999976 66899999999999998854
Q ss_pred CC
Q 000255 875 RG 876 (1778)
Q Consensus 875 ~~ 876 (1778)
.+
T Consensus 81 ~~ 82 (112)
T cd05528 81 DR 82 (112)
T ss_pred CC
Confidence 43
No 38
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=77.87 E-value=4.5 Score=41.61 Aligned_cols=56 Identities=18% Similarity=0.211 Sum_probs=43.9
Q ss_pred HHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 817 FLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 817 ~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
+|..-+.+||+...+..|+-.| ..|+.|+++|+|.+ +..+..|+..|+.+|..+-+
T Consensus 4 ~l~~ii~~l~~~~~s~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~s--~~ef~~Dv~li~~Na~~yN~ 77 (112)
T cd05511 4 ILDEIVNELKNLPDSWPFHTPVNKKKVPDYYKIIKRPMDLQTIRKKISKHKYQS--REEFLEDIELIVDNSVLYNG 77 (112)
T ss_pred HHHHHHHHHHhCCCchhhcCCCChhhcccHHHHhcCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 4555677777776666665433 38999999999976 68899999999999988744
No 39
>cd05508 Bromo_RACK7 Bromodomain, RACK7_like subfamily. RACK7 (also called human protein kinase C-binding protein) was identified as a potential tumor suppressor genes, it shares domain architecture with BS69/ZMYND11; both have been implicated in the regulation of cellular proliferation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=76.27 E-value=7.9 Score=39.32 Aligned_cols=57 Identities=19% Similarity=0.274 Sum_probs=41.6
Q ss_pred HHHHHHHHHHhhcccceecc-----------------chhHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 817 FLASSLKEIMRVNTFEFFVP-----------------KVAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 817 ~~~~~l~~im~~~~~d~f~~-----------------k~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
.|...|..++...+..|.-| -...|+.|+++|+|.+ +..+++|+..|+.+|..+-+.
T Consensus 7 ~L~~~~~~~~~~~s~~F~~PV~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s--~~ef~~Dv~LI~~Na~~YN~~ 80 (99)
T cd05508 7 LLKFALERMKQPGAEPFLKPVDLEQFPDYAQYVFKPMDLSTLEKNVRKKAYGS--TDAFLADAKWILHNAIIYNGG 80 (99)
T ss_pred HHHHHHHHHhCcCcchhcCCCChhhCCCHHHHcCCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHHCCC
Confidence 33444444444566666655 1248999999999977 789999999999999887543
No 40
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=74.50 E-value=3.6 Score=48.65 Aligned_cols=65 Identities=28% Similarity=0.484 Sum_probs=51.7
Q ss_pred eeeecCCCCCCchhHHHHHHHhhccccccceeEecccccCChhHHHHHHHhCCCccEEeecccccccc
Q 000255 632 RQVDLSSVGPNCTDSLIRKTLNAFDKEKLNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQFGE 699 (1778)
Q Consensus 632 ~~vdls~~g~~ctd~~~~~~~~~y~~~~~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q~~~ 699 (1778)
..+||+.-+. .||..+..+.+. =.+++.+-|.+|.++|...|..|...+|.|++++|++|.++.+
T Consensus 246 ~~l~l~~~~~-isd~~l~~l~~~--c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d 310 (482)
T KOG1947|consen 246 KSLDLSGCGL-VTDIGLSALASR--CPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTD 310 (482)
T ss_pred Cccchhhhhc-cCchhHHHHHhh--CCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchH
Confidence 3456654333 788888887755 2378888899999999999999999999999999999999743
No 41
>smart00444 GYF Contains conserved Gly-Tyr-Phe residues. Proline-binding domain in CD2-binding protein. Contains conserved Gly-Tyr-Phe residues.
Probab=73.90 E-value=3 Score=38.51 Aligned_cols=42 Identities=24% Similarity=0.383 Sum_probs=39.6
Q ss_pred ceEEEccCCcccCchhhhhhhhhhhcCcccccchhhccCCCc
Q 000255 24 KWFYLDHCGMECGPSRLCDLKTLVEEGVLVSDHFIKHLDSNR 65 (1778)
Q Consensus 24 ~w~yl~~~g~e~gp~~l~~~k~l~~~~~l~~dh~i~~~~~~~ 65 (1778)
.|+|.|..|..|||=--..+..--++|++-.+..|++.+...
T Consensus 2 ~W~Y~d~~~~iqGPf~~~~M~~W~~~gyF~~~l~vr~~~~~~ 43 (56)
T smart00444 2 LWLYKDPDGEIQGPFTASQMSQWYQAGYFPDSLQIKRLNEPP 43 (56)
T ss_pred EEEEECCCCCEeCCcCHHHHHHHHHCCCCCCCeEEEEcCCCC
Confidence 599999999999999999999999999999999999998773
No 42
>cd04369 Bromodomain Bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=73.40 E-value=7.5 Score=36.62 Aligned_cols=36 Identities=22% Similarity=0.401 Sum_probs=31.5
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRG 876 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~ 876 (1778)
..|+.|+++|+|. .+..+.+|+..|+.+|++..+.+
T Consensus 46 ~~I~~kl~~~~Y~--s~~~f~~D~~li~~Na~~~n~~~ 81 (99)
T cd04369 46 STIKKKLKNGEYK--SLEEFEADVRLIFSNAKTYNGPG 81 (99)
T ss_pred HHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHHHCCCC
Confidence 4899999999995 67889999999999999986644
No 43
>cd05503 Bromo_BAZ2A_B_like Bromodomain, BAZ2A/BAZ2B_like subfamily. Bromo adjacent to zinc finger 2A (BAZ2A) and 2B (BAZ2B) were identified as a novel human bromodomain gene by cDNA library screening. BAZ2A is also known as Tip5 (Transcription termination factor I-interacting protein 5) and hWALp3. The proteins may play roles in transcriptional regulation. Human Tip5 is part of a complex termed NoRC (nucleolar remodeling complex), which induces nucleosome sliding and may play a role in the regulation of the rDNA locus. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=71.61 E-value=9.1 Score=38.32 Aligned_cols=57 Identities=14% Similarity=0.231 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHhhcccceeccc------------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 816 EFLASSLKEIMRVNTFEFFVPK------------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 816 ~~~~~~l~~im~~~~~d~f~~k------------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
.+...-|.++|+......|+-- ...|+.|+++|+|.+ +..+.+|+..|..+|.++-+
T Consensus 3 ~~c~~il~~l~~~~~~~~F~~pv~~~~~p~Y~~iIk~PmdL~tI~~kl~~~~Y~s--~~ef~~D~~li~~Na~~yN~ 77 (97)
T cd05503 3 ALCETILDEMEAHEDAWPFLEPVNTKLVPGYRKIIKKPMDFSTIREKLESGQYKT--LEEFAEDVRLVFDNCETFNE 77 (97)
T ss_pred HHHHHHHHHHHcCCCchhhcCCCCccccCCHHHHhCCCCCHHHHHHHHccCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 3567788899998888877632 248999999999955 57899999999999998755
No 44
>cd05510 Bromo_SPT7_like Bromodomain; SPT7_like subfamily. SPT7 is a yeast protein that functions as a component of the transcription regulatory histone acetylation (HAT) complexes SAGA, SALSA, and SLIK. SAGA is involved in the RNA polymerase II-dependent transcriptional regulation of about 10% of all yeast genes. The SPT7 bromodomain has been shown to weakly interact with acetylated histone H3, but not H4. The human representative of this subfamily is cat eye syndrome critical region protein 2 (CECR2). Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=69.22 E-value=14 Score=38.28 Aligned_cols=57 Identities=18% Similarity=0.271 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHhh-cc-cceecc-----------------chhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 816 EFLASSLKEIMRV-NT-FEFFVP-----------------KVAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 816 ~~~~~~l~~im~~-~~-~d~f~~-----------------k~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
+.+..-|.++|+- .. .-|.-| =...|+.|+++|.|.+ +..+.+|+..|+.+|..+-+
T Consensus 10 ~~~~~il~~l~~~~~~s~~F~~pv~~~~~pdY~~iIk~PmdL~tI~~kl~~~~Y~s--~~ef~~D~~Li~~N~~~yN~ 85 (112)
T cd05510 10 ESLDKVLNELKTYTEHSTPFLTKVSKREAPDYYDIIKKPMDLGTMLKKLKNLQYKS--KAEFVDDLNLIWKNCLLYNS 85 (112)
T ss_pred HHHHHHHHHHHhcCccccchhcCCChhhcCCHHHHhcCccCHHHHHHHHhCCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 3455666777775 33 334433 1248999999999987 78999999999999988744
No 45
>cd05504 Bromo_Acf1_like Bromodomain; Acf1_like or BAZ1A_like subfamily. Bromo adjacent to zinc finger 1A (BAZ1A) was identified as a novel human bromodomain gene by cDNA library screening. The Drosophila homologue, Acf1, is part of the CHRAC (chromatin accessibility complex) and regulates ISWI-induced nucleosome remodeling. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=68.92 E-value=10 Score=39.25 Aligned_cols=60 Identities=18% Similarity=0.166 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCC
Q 000255 815 EEFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRG 876 (1778)
Q Consensus 815 ~~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~ 876 (1778)
-+++..-|.+||+......|.-.| ..|+.|+++|+|.+ +..+..|+..|..+|..+-..+
T Consensus 14 ~~~c~~il~~l~~~~~s~~F~~pvd~~~~pdY~~vI~~PmDL~tI~~kL~~~~Y~s--~~~f~~Dv~LI~~Na~~yN~~~ 91 (115)
T cd05504 14 LSALEQLLVEIVKHKDSWPFLRPVSKIEVPDYYDIIKKPMDLGTIKEKLNMGEYKL--AEEFLSDIQLVFSNCFLYNPEH 91 (115)
T ss_pred HHHHHHHHHHHHhCCCchhhcCCCCccccccHHHHhcCcccHHHHHHHHccCCCCC--HHHHHHHHHHHHHHHHHHCCCC
Confidence 467778888899877666664322 38999999999977 6689999999999999875543
No 46
>cd05505 Bromo_WSTF_like Bromodomain; Williams syndrome transcription factor-like subfamily (WSTF-like). The Williams-Beuren syndrome deletion transcript 9 is a putative transcriptional regulator. WSTF was found to play a role in vitamin D-mediated transcription as part of two chromatin remodeling complexes, WINAC and WICH. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=68.30 E-value=13 Score=37.64 Aligned_cols=60 Identities=22% Similarity=0.216 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCCC
Q 000255 816 EFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRGS 877 (1778)
Q Consensus 816 ~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~~ 877 (1778)
++...-|.+||+-.....|.-.| ..|+.|+++|.|.+ +..+.+|+..|..+|.++-+.+.
T Consensus 3 ~~c~~il~~l~~~~~s~~F~~pv~~~~~pdY~~iIk~PmDL~tI~~kl~~~~Y~s--~~ef~~D~~li~~Na~~yN~~~s 80 (97)
T cd05505 3 QKCEEILSKILKYRFSWPFREPVTADEAEDYKKVITNPMDLQTMQTKCSCGSYSS--VQEFLDDMKLVFSNAEKYYENGS 80 (97)
T ss_pred HHHHHHHHHHHhCCCcccccCCCChhhcccHHHHcCCcCCHHHHHHHHcCCCCCC--HHHHHHHHHHHHHHHHHHCCCCC
Confidence 34566788888866555555333 37999999999977 47899999999999998855433
No 47
>cd05491 Bromo_TBP7_like Bromodomain; TBP7_like subfamily, limited to fungi. TBP7, or TAT-binding protein homolog 7, is a yeast protein of unknown function that contains AAA-superfamily ATP-ase domains and a bromodomain. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=66.57 E-value=4.8 Score=42.62 Aligned_cols=44 Identities=30% Similarity=0.433 Sum_probs=37.4
Q ss_pred cccceecc-chhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 829 NTFEFFVP-KVAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 829 ~~~d~f~~-k~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
-|--||+| -...||.|+.||||.. ...+..||.+|..||..+-+
T Consensus 57 ~tgk~~y~MDL~tIe~RL~ng~Y~t--p~~F~~DiklI~~Nc~~ynd 101 (119)
T cd05491 57 ASGKKFYNMDLDTIEERLWNGYYAT--PKDFLKDIKRIVRDAKTIGD 101 (119)
T ss_pred cCCCeEeccCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHhCC
Confidence 46678888 7889999999999986 56788999999999988643
No 48
>cd05497 Bromo_Brdt_I_like Bromodomain, Brdt_like subfamily, repeat I. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=66.19 E-value=17 Score=37.31 Aligned_cols=61 Identities=20% Similarity=0.286 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHhhcccceecc----c----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhc
Q 000255 814 MEEFLASSLKEIMRVNTFEFFVP----K----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAK 873 (1778)
Q Consensus 814 ~~~~~~~~l~~im~~~~~d~f~~----k----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~ 873 (1778)
|.-++..-|..+|+......|.- + ...|+.|+++|+|.+ +..+..|+..|+.+|..+-
T Consensus 6 ~~~~~~~il~~l~~~~~s~~F~~PVd~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s--~~ef~~D~~li~~Na~~yN 83 (107)
T cd05497 6 LQYLLKVVLKALWKHKFAWPFQQPVDAVKLNLPDYHKIIKTPMDLGTIKKRLENNYYWS--ASECIQDFNTMFTNCYIYN 83 (107)
T ss_pred HHHHHHHHHHHHHhCCcCccccCCCCcccccCCcHHHHHcCcccHHHHHHHHcCCCCCC--HHHHHHHHHHHHHHHHHHC
Confidence 44455566888998777666652 1 248999999999975 4589999999999999985
Q ss_pred cCC
Q 000255 874 NRG 876 (1778)
Q Consensus 874 ~~~ 876 (1778)
..+
T Consensus 84 ~~~ 86 (107)
T cd05497 84 KPG 86 (107)
T ss_pred CCC
Confidence 533
No 49
>cd05500 Bromo_BDF1_2_I Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat I. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=65.88 E-value=18 Score=36.62 Aligned_cols=60 Identities=20% Similarity=0.370 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHhhcccceecc----c----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhc
Q 000255 814 MEEFLASSLKEIMRVNTFEFFVP----K----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAK 873 (1778)
Q Consensus 814 ~~~~~~~~l~~im~~~~~d~f~~----k----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~ 873 (1778)
+-+++...|+.||+.-....|.- . ...|+.|+++|.|. -+..+..|+..|+.+|..+-
T Consensus 5 ~~~~~~~ii~~l~~~~~a~~F~~pv~~~~~~~p~Y~~~I~~P~dL~tI~~kl~~~~Y~--s~~~f~~D~~li~~Na~~yN 82 (103)
T cd05500 5 QHKFLLSSIRSLKRLKDARPFLVPVDPVKLNIPHYPTIIKKPMDLGTIERKLKSNVYT--SVEEFTADFNLMVDNCLTFN 82 (103)
T ss_pred HHHHHHHHHHHHHcCCCChhhcCCCCcccccCCCHHHHhcCCCCHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHHHC
Confidence 34778888999999876666652 1 24899999999995 56789999999999999875
Q ss_pred cC
Q 000255 874 NR 875 (1778)
Q Consensus 874 ~~ 875 (1778)
+.
T Consensus 83 ~~ 84 (103)
T cd05500 83 GP 84 (103)
T ss_pred CC
Confidence 43
No 50
>cd05495 Bromo_cbp_like Bromodomain, cbp_like subfamily. Cbp (CREB binding protein or CREBBP) is an acetyltransferase acting on histone, which gives a specific tag for transcriptional activation and also acetylates non-histone proteins. CREBBP binds specifically to phosphorylated CREB protein and augments the activity of phosphorylated CREB to activate transcription of cAMP-responsive genes. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=61.42 E-value=20 Score=36.89 Aligned_cols=57 Identities=21% Similarity=0.263 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhh-cccceec-c---c----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 816 EFLASSLKEIMRV-NTFEFFV-P---K----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 816 ~~~~~~l~~im~~-~~~d~f~-~---k----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
..+..-|..+|+. .....|. | + ...|+.|+++|.|.+ +..+..|+..|+.+|..+-.
T Consensus 6 ~~~~~il~~l~~~~~~s~~F~~PV~~~~~~~pdY~~iIk~PmDL~tI~~kL~~~~Y~s--~~ef~~D~~li~~Na~~yN~ 83 (108)
T cd05495 6 QALMPTLEKLYKQDPESLPFRQPVDPKLLGIPDYFDIVKNPMDLSTIRRKLDTGQYQD--PWQYVDDVWLMFDNAWLYNR 83 (108)
T ss_pred HHHHHHHHHHHHcCcccchhcCCCCccccCCCcHHHHhCCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 4566677778877 4434343 2 1 248999999999986 78899999999999999855
No 51
>KOG1337 consensus N-methyltransferase [General function prediction only]
Probab=60.93 E-value=5.7 Score=49.44 Aligned_cols=40 Identities=20% Similarity=0.280 Sum_probs=30.7
Q ss_pred ccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCC
Q 000255 1307 RICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNS 1349 (1778)
Q Consensus 1307 FINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~ 1349 (1778)
+.||+|++ +..-.... ...+-+++.++|.+||||.++||.
T Consensus 239 ~~NH~~~~-~~~~~~~~--d~~~~l~~~~~v~~geevfi~YG~ 278 (472)
T KOG1337|consen 239 LLNHSPEV-IKAGYNQE--DEAVELVAERDVSAGEEVFINYGP 278 (472)
T ss_pred hhccCchh-ccccccCC--CCcEEEEEeeeecCCCeEEEecCC
Confidence 78999999 21111111 238999999999999999999997
No 52
>cd05509 Bromo_gcn5_like Bromodomain; Gcn5_like subfamily. Gcn5p is a histone acetyltransferase (HAT) which mediates acetylation of histones at lysine residues; such acetylation is generally correlated with the activation of transcription. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=56.74 E-value=29 Score=34.69 Aligned_cols=57 Identities=16% Similarity=0.296 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhhcccceecc------------------chhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 816 EFLASSLKEIMRVNTFEFFVP------------------KVAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 816 ~~~~~~l~~im~~~~~d~f~~------------------k~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
.++..-|..+|+......|.- =...|+.|+++|+|. -+..+..|+..|+.+|..+-+
T Consensus 4 ~~~~~il~~l~~~~~a~~F~~pv~~~~~p~Y~~~I~~PmdL~tI~~kl~~~~Y~--s~~~f~~Dv~li~~Na~~yN~ 78 (101)
T cd05509 4 TQLKKVLDSLKNHKSAWPFLEPVDKEEAPDYYDVIKKPMDLSTMEEKLENGYYV--TLEEFVADLKLIFDNCRLYNG 78 (101)
T ss_pred HHHHHHHHHHHhCCCchhhcCCCChhhcCCHHHHhcCCCCHHHHHHHHhcCCCC--CHHHHHHHHHHHHHHHHHHCC
Confidence 355566777777776666642 123899999999996 467889999999999988744
No 53
>cd05496 Bromo_WDR9_II Bromodomain; WDR9 repeat II_like subfamily. WDR9 is a human gene located in the Down Syndrome critical region-2 of chromosome 21. It encodes for a nuclear protein containing WD40 repeats and two bromodomains, which may function as a transcriptional regulator involved in chromatin remodeling and play a role in embryonic development. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=54.15 E-value=25 Score=36.95 Aligned_cols=57 Identities=11% Similarity=0.090 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHhhcccceeccch------------------hHHHhhhccccccccCCcchhhhHHHHHHHHHHhc
Q 000255 815 EEFLASSLKEIMRVNTFEFFVPKV------------------AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAK 873 (1778)
Q Consensus 815 ~~~~~~~l~~im~~~~~d~f~~k~------------------~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~ 873 (1778)
...+..-|..+|+......|.--| ..|+.|+++|+|.. +..+..|+..|..+|..+-
T Consensus 7 ~~~c~~il~~l~~~~~s~~F~~PVd~~~~pdY~~iIk~PmDL~tIk~kL~~~~Y~~--~~ef~~D~~lif~Na~~yN 81 (119)
T cd05496 7 KKQCKELVNLMWDCEDSEPFRQPVDLLKYPDYRDIIDTPMDLGTVKETLFGGNYDD--PMEFAKDVRLIFSNSKSYT 81 (119)
T ss_pred HHHHHHHHHHHHhCCccccccCCCChhhcCcHHHHhCCcccHHHHHHHHhCCCCCC--HHHHHHHHHHHHHHHHHHC
Confidence 355666778888876665554322 48999999999974 6789999999999999984
No 54
>cd05506 Bromo_plant1 Bromodomain, uncharacterized subfamily specific to plants. Might function as a global transcription factor. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=51.63 E-value=38 Score=33.77 Aligned_cols=55 Identities=16% Similarity=0.245 Sum_probs=42.9
Q ss_pred HHHHHHHHHhhcccceecc----c----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 818 LASSLKEIMRVNTFEFFVP----K----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 818 ~~~~l~~im~~~~~d~f~~----k----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
...-|..+|+......|.- . ...|+.|+++|.|.+ +..+.+|+..|..+|..+-.
T Consensus 5 c~~il~~l~~~~~~~~F~~pv~~~~~~~p~Y~~~I~~P~dl~tI~~kL~~~~Y~s--~~ef~~D~~li~~Na~~yn~ 79 (99)
T cd05506 5 CGTLLRKLMKHKWGWVFNAPVDVVALGLPDYFDIIKKPMDLGTVKKKLEKGEYSS--PEEFAADVRLTFANAMRYNP 79 (99)
T ss_pred HHHHHHHHHhCCCCccccCCCCccccCCCCHHHHHcCCCCHHHHHHHHhcCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 3456778888777666652 1 138999999999987 77899999999999988744
No 55
>cd05525 Bromo_ASH1 Bromodomain; ASH1_like sub-family. ASH1 (absent, small, or homeotic 1) is a member of the trithorax-group in Drosophila melanogaster, an epigenetic transcriptional regulator of HOX genes. Drosophila ASH1 has been shown to methylate specific lysines in histones H3 and H4. Mammalian ASH1 has been shown to methylate histone H3. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=50.87 E-value=21 Score=36.68 Aligned_cols=36 Identities=28% Similarity=0.448 Sum_probs=31.6
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRG 876 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~ 876 (1778)
..|+.|+++|.|.+ +..+..|+..|+.+|.++-..+
T Consensus 52 ~tI~~kl~~~~Y~s--~~ef~~D~~l~f~Na~~yn~~~ 87 (106)
T cd05525 52 STIEKQILTGYYKT--PEAFDSDMLKVFRNAEKYYGRK 87 (106)
T ss_pred HHHHHHHcCCCCCC--HHHHHHHHHHHHHHHHHHCCCC
Confidence 48999999999987 8899999999999999875543
No 56
>cd05499 Bromo_BDF1_2_II Bromodomain. BDF1/BDF2 like subfamily, restricted to fungi, repeat II. BDF1 and BDF2 are yeast transcription factors involved in the expression of a wide range of genes, including snRNAs; they are required for sporulation and DNA repair and protect histone H4 from deacetylation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=46.56 E-value=54 Score=33.05 Aligned_cols=59 Identities=20% Similarity=0.464 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHhhc----ccceecc--c-----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHh
Q 000255 816 EFLASSLKEIMRVN----TFEFFVP--K-----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKA 872 (1778)
Q Consensus 816 ~~~~~~l~~im~~~----~~d~f~~--k-----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~ 872 (1778)
++...-|.++|+.- +..|.-| + ...|+.|+++|.|. -+..+..|+..|..+|..+
T Consensus 3 ~~c~~Il~~l~~~~~~~~s~~F~~pvd~~~~~~pdY~~~I~~P~dL~~I~~kl~~~~Y~--s~~ef~~D~~li~~N~~~y 80 (102)
T cd05499 3 KFCEEVLKELMKPKHSAYNWPFLDPVDPVALNIPNYFSIIKKPMDLGTISKKLQNGQYQ--SAKEFERDVRLIFKNCYTF 80 (102)
T ss_pred HHHHHHHHHHHcccCCcccchhcCCCCccccCCCCHHHHhcCCCCHHHHHHHHcCCCCC--CHHHHHHHHHHHHHHHHHH
Confidence 35666788888832 2334333 1 24899999999996 4668999999999999887
Q ss_pred ccCC
Q 000255 873 KNRG 876 (1778)
Q Consensus 873 ~~~~ 876 (1778)
-+.+
T Consensus 81 n~~~ 84 (102)
T cd05499 81 NPEG 84 (102)
T ss_pred CCCC
Confidence 5543
No 57
>cd05498 Bromo_Brdt_II_like Bromodomain, Brdt_like subfamily, repeat II. Human Brdt is a testis-specific member of the BET subfamily of bromodomain proteins; the first bromodomain in Brdt has been shown to be essential for male germ cell differentiation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=41.44 E-value=38 Score=34.02 Aligned_cols=35 Identities=14% Similarity=0.225 Sum_probs=30.7
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
..|+.|+++|.|. .+..+..|+..|+.+|..+-..
T Consensus 49 ~~I~~kl~~~~Y~--s~~ef~~D~~li~~Na~~yn~~ 83 (102)
T cd05498 49 STIKKKLDNREYA--DAQEFAADVRLMFSNCYKYNPP 83 (102)
T ss_pred HHHHHHHccCCCC--CHHHHHHHHHHHHHHHHHHCCC
Confidence 4899999999996 6789999999999999987553
No 58
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=41.36 E-value=51 Score=34.15 Aligned_cols=52 Identities=13% Similarity=0.273 Sum_probs=40.6
Q ss_pred HHHHHHhhcccceeccc----------------hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 821 SLKEIMRVNTFEFFVPK----------------VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 821 ~l~~im~~~~~d~f~~k----------------~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
-|.++++.....+|.+. ...|+.|+++|.|.+ +..+.+|+..|..+|..+-+
T Consensus 10 il~~l~~~~~s~~f~~~p~~~pdY~~iIk~PMDL~tI~~kL~~~~Y~s--~~ef~~D~~Lif~N~~~yN~ 77 (102)
T cd05501 10 LLLKVYCMSKSGFFISKPYYIRDYCQGIKEPMWLNKVKERLNERVYHT--VEGFVRDMRLIFHNHKLFYK 77 (102)
T ss_pred HHHHHHhCcccccccCCCCCCCchHHHcCCCCCHHHHHHHHcCCCCCC--HHHHHHHHHHHHHHHHHHcC
Confidence 46677776666666541 238999999999975 67899999999999999743
No 59
>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]
Probab=40.13 E-value=48 Score=39.51 Aligned_cols=111 Identities=23% Similarity=0.202 Sum_probs=70.8
Q ss_pred cCccccCcchHHHHHHHHhhhchhHHHHhhhc-c----hhHHHHHHHhcccceeeecCC-CCCCchhHHHHHHHhhcccc
Q 000255 585 SGGWGLLDGHTLAHVFHFLRSDMKSLAFASLT-C----RHWRAAVRFYKGISRQVDLSS-VGPNCTDSLIRKTLNAFDKE 658 (1778)
Q Consensus 585 ~~~w~~l~g~~l~rvfh~lr~d~ksl~~~~~t-c----~~w~~~~~~~~~~~~~vdls~-~g~~ctd~~~~~~~~~y~~~ 658 (1778)
.-.|....+.+...+.+.+-.....|-.-.+. | ..|..++-....-.+.+|+++ ....+......-.+ +-.-.
T Consensus 165 ~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~-~~~~~ 243 (482)
T KOG1947|consen 165 SLSLSCCGSLLLDKILLRLLSSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLL-LSICR 243 (482)
T ss_pred eeeeecccccccHHHHHHHHhhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhh-hhhcC
Confidence 33455555555555555555443333322111 2 223455556666667788876 33333333222223 23337
Q ss_pred ccceeEecccccCChhHHHHHHHhCCCccEEeeccccc
Q 000255 659 KLNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQ 696 (1778)
Q Consensus 659 ~~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q 696 (1778)
+++.+-|.+|.++|..+|+.+...+|.+.++.+.+|.+
T Consensus 244 ~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~ 281 (482)
T KOG1947|consen 244 KLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSN 281 (482)
T ss_pred CcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCc
Confidence 89999999999999999999999999999999999997
No 60
>cd05515 Bromo_polybromo_V Bromodomain, polybromo repeat V. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=40.04 E-value=39 Score=34.47 Aligned_cols=36 Identities=22% Similarity=0.332 Sum_probs=31.2
Q ss_pred hhHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 838 VAEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 838 ~~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
...|+.|+++|+|.+ +..+..|+..|..+|..+-..
T Consensus 49 L~tI~~kl~~~~Y~s--~~ef~~D~~l~~~Na~~yN~~ 84 (105)
T cd05515 49 MEKIRSKIEGNQYQS--LDDMVSDFVLMFDNACKYNEP 84 (105)
T ss_pred HHHHHHHHccCCCCC--HHHHHHHHHHHHHHHHHHCCC
Confidence 458999999999966 789999999999999987543
No 61
>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B ....
Probab=39.15 E-value=29 Score=30.43 Aligned_cols=39 Identities=21% Similarity=0.428 Sum_probs=28.8
Q ss_pred ccceeEecccccCChhHHHHHHHhCCCccEEeecccccccccc
Q 000255 659 KLNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQFGELA 701 (1778)
Q Consensus 659 ~~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q~~~l~ 701 (1778)
+++.+.|.++ +|+. |...|..+|.|.+++++|| ++.++.
T Consensus 2 ~L~~L~l~~N-~i~~--l~~~l~~l~~L~~L~l~~N-~i~~i~ 40 (44)
T PF12799_consen 2 NLEELDLSNN-QITD--LPPELSNLPNLETLNLSNN-PISDIS 40 (44)
T ss_dssp T-SEEEETSS-S-SS--HGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred cceEEEccCC-CCcc--cCchHhCCCCCCEEEecCC-CCCCCc
Confidence 5677778777 6663 6666899999999999999 666553
No 62
>KOG4341 consensus F-box protein containing LRR [General function prediction only]
Probab=37.48 E-value=26 Score=44.06 Aligned_cols=42 Identities=29% Similarity=0.539 Sum_probs=37.4
Q ss_pred cceeEecccccCChhHHHHHHHhCCCccEEeecccccccccc
Q 000255 660 LNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQFGELA 701 (1778)
Q Consensus 660 ~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q~~~l~ 701 (1778)
+..+-..+|++++-..|.++-...|.|..+-+.||.||++.-
T Consensus 296 lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ 337 (483)
T KOG4341|consen 296 LQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRG 337 (483)
T ss_pred hhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhh
Confidence 345667889999999999999999999999999999999864
No 63
>cd05518 Bromo_polybromo_IV Bromodomain, polybromo repeat IV. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=36.75 E-value=48 Score=33.99 Aligned_cols=35 Identities=23% Similarity=0.332 Sum_probs=30.5
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
..|+.|+++|.|.+ +..+..|+..|+.+|..+-..
T Consensus 50 ~tI~~kl~~~~Y~s--~~ef~~D~~li~~Na~~yN~~ 84 (103)
T cd05518 50 KTIEHNIRNDKYAT--EEELMDDFKLMFRNARHYNEE 84 (103)
T ss_pred HHHHHHHCCCCCCC--HHHHHHHHHHHHHHHHHHCCC
Confidence 48999999999976 578999999999999997553
No 64
>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []. LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....
Probab=36.43 E-value=25 Score=26.71 Aligned_cols=21 Identities=24% Similarity=0.517 Sum_probs=17.0
Q ss_pred CccEEeeccccccccccccCCc
Q 000255 685 HLSSIDIRGCGQFGELALKFPN 706 (1778)
Q Consensus 685 ~~~~~~i~gc~q~~~l~~~~~~ 706 (1778)
.|.++||+|| +|.++...|.+
T Consensus 1 ~L~~Ldls~n-~l~~ip~~~~~ 21 (22)
T PF00560_consen 1 NLEYLDLSGN-NLTSIPSSFSN 21 (22)
T ss_dssp TESEEEETSS-EESEEGTTTTT
T ss_pred CccEEECCCC-cCEeCChhhcC
Confidence 4789999999 98888777654
No 65
>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2.4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....
Probab=35.74 E-value=22 Score=26.29 Aligned_cols=11 Identities=55% Similarity=1.467 Sum_probs=9.9
Q ss_pred cceEEecCCCC
Q 000255 377 GEWYYLDGAGH 387 (1778)
Q Consensus 377 g~w~yldg~g~ 387 (1778)
|.|||++..|.
T Consensus 8 ~~wYy~~~~G~ 18 (19)
T PF01473_consen 8 GNWYYFDSDGY 18 (19)
T ss_dssp TEEEEETTTSB
T ss_pred CEEEEeCCCcc
Confidence 89999999885
No 66
>cd05502 Bromo_tif1_like Bromodomain; tif1_like subfamily. Tif1 (transcription intermediary factor 1) is a member of the tripartite motif (TRIM) protein family, which is characterized by a particular domain architecture. It functions by recruiting coactivators and/or corepressors to modulate transcription. Vertebrate Tif1-gamma, also labeled E3 ubiquitin-protein ligase TRIM33, plays a role in the control of hematopoiesis. Its homologue in Xenopus laevis, Ectodermin, has been shown to function in germ-layer specification and control of cell growth during embryogenesis. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=34.13 E-value=1.2e+02 Score=30.98 Aligned_cols=55 Identities=16% Similarity=0.182 Sum_probs=39.6
Q ss_pred HHHHHHHhhcccceec-c----------------chhHHHhhhcc---ccccccCCcchhhhHHHHHHHHHHhccCC
Q 000255 820 SSLKEIMRVNTFEFFV-P----------------KVAEIEGRMKK---GYYISHGLGSVKDDISRMCRDAIKAKNRG 876 (1778)
Q Consensus 820 ~~l~~im~~~~~d~f~-~----------------k~~~ie~~~k~---gyy~~~g~~~~k~di~~~~r~a~~~~~~~ 876 (1778)
.-|.++|+......|. | =...|+.|+++ |+|. .+..+..|+..|..+|..+-+.+
T Consensus 11 ~il~~l~~~~~s~~F~~pv~~~~p~Y~~iI~~PmdL~tI~~kL~~~~~~~Y~--s~~~f~~D~~li~~Na~~yN~~~ 85 (109)
T cd05502 11 RLLLELYCHELSLPFHEPVSPSVPNYYKIIKTPMDLSLIRKKLQPKSPQHYS--SPEEFVADVRLMFKNCYKFNEED 85 (109)
T ss_pred HHHHHHHhCCCChhhcCCCCCCCCCHHHHCCCCccHHHHHHHHhcCCCCCCC--CHHHHHHHHHHHHHHHHHHCCCC
Confidence 4456677755444443 3 12389999998 5775 67789999999999999885544
No 67
>cd05520 Bromo_polybromo_III Bromodomain, polybromo repeat III. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=32.79 E-value=61 Score=33.20 Aligned_cols=35 Identities=23% Similarity=0.398 Sum_probs=30.3
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
..|+.|+++|+|.+ +..+..|+..|+.+|..+-..
T Consensus 50 ~tI~~kl~~~~Y~s--~~~f~~D~~lm~~Na~~yN~~ 84 (103)
T cd05520 50 QQIRTKLKNGEYET--LEELEADLNLMFENAKRYNVP 84 (103)
T ss_pred HHHHHHHccCCCCC--HHHHHHHHHHHHHHHHHHCCC
Confidence 48999999999976 567899999999999998553
No 68
>KOG3864 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.25 E-value=43 Score=38.94 Aligned_cols=45 Identities=24% Similarity=0.456 Sum_probs=40.8
Q ss_pred ccccccceeEecccccCChhHHHHHHHhCCCccEEeecccccccc
Q 000255 655 FDKEKLNSILLVGCTNITSGMLEEILQSFPHLSSIDIRGCGQFGE 699 (1778)
Q Consensus 655 y~~~~~~~~~l~~c~n~~~~~l~~~l~~~p~~~~~~i~gc~q~~~ 699 (1778)
=+-..|+++.|.-|.++-...|+.+-.-.|+|..+||+||-+..+
T Consensus 122 ~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~ 166 (221)
T KOG3864|consen 122 RDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITD 166 (221)
T ss_pred hccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeech
Confidence 356789999999999999999999999999999999999998544
No 69
>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).
Probab=28.38 E-value=1e+02 Score=35.06 Aligned_cols=64 Identities=25% Similarity=0.214 Sum_probs=40.2
Q ss_pred cceeeecCCCCCCchhHHHHHHHhhccc--cccceeEecccccCC---hhHHHHHHHhCCCccEEeeccccc
Q 000255 630 ISRQVDLSSVGPNCTDSLIRKTLNAFDK--EKLNSILLVGCTNIT---SGMLEEILQSFPHLSSIDIRGCGQ 696 (1778)
Q Consensus 630 ~~~~vdls~~g~~ctd~~~~~~~~~y~~--~~~~~~~l~~c~n~~---~~~l~~~l~~~p~~~~~~i~gc~q 696 (1778)
.-+.+|||. -..+|..+..+..+..+ .+++.+-|.|| .++ ...+.+.+..+|.|.++++++|.-
T Consensus 222 ~L~~L~ls~--n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n-~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l 290 (319)
T cd00116 222 SLEVLNLGD--NNLTDAGAAALASALLSPNISLLTLSLSCN-DITDDGAKDLAEVLAEKESLLELDLRGNKF 290 (319)
T ss_pred CCCEEecCC--CcCchHHHHHHHHHHhccCCCceEEEccCC-CCCcHHHHHHHHHHhcCCCccEEECCCCCC
Confidence 346677765 34566555555555443 67777778777 343 345556666677788888877643
No 70
>smart00367 LRR_CC Leucine-rich repeat - CC (cysteine-containing) subfamily.
Probab=28.32 E-value=43 Score=26.15 Aligned_cols=22 Identities=41% Similarity=0.629 Sum_probs=19.2
Q ss_pred ccceeEecccccCChhHHHHHH
Q 000255 659 KLNSILLVGCTNITSGMLEEIL 680 (1778)
Q Consensus 659 ~~~~~~l~~c~n~~~~~l~~~l 680 (1778)
+++.+-|.+|.+||...|..|-
T Consensus 3 ~L~~L~l~~C~~itD~gl~~l~ 24 (26)
T smart00367 3 NLRELDLSGCTNITDEGLQALA 24 (26)
T ss_pred CCCEeCCCCCCCcCHHHHHHHh
Confidence 6788999999999999998764
No 71
>cd05524 Bromo_polybromo_I Bromodomain, polybromo repeat I. Polybromo is a nuclear protein of unknown function, which contains 6 bromodomains. The human ortholog BAF180 is part of a SWI/SNF chromatin-remodeling complex, and it may carry out the functions of Yeast Rsc-1 and Rsc-2. It was shown that polybromo bromodomains bind to histone H3 at specific acetyl-lysine positions. Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine, but not all the bromodomains in polybromo may bind to acetyl-lysine.
Probab=28.10 E-value=78 Score=32.93 Aligned_cols=36 Identities=14% Similarity=0.206 Sum_probs=30.1
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccCC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNRG 876 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~~ 876 (1778)
..|+.|+++|.|.+ +..+..|+..|+.+|..+-..+
T Consensus 52 ~tI~~kl~~~~Y~s--~~~f~~D~~lm~~Na~~yN~~~ 87 (113)
T cd05524 52 LKIQQKLKTEEYDD--VDDLTADFELLINNAKAYYKPD 87 (113)
T ss_pred HHHHHHhCcCCCCC--HHHHHHHHHHHHHHHHHHCCCC
Confidence 48999999999974 6679999999999998875433
No 72
>cd05516 Bromo_SNF2L2 Bromodomain, SNF2L2-like subfamily, specific to animals. SNF2L2 (SNF2-alpha) or SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2 is a global transcriptional activator, which cooperates with nuclear hormone receptors to boost transcriptional activation. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=27.89 E-value=84 Score=32.32 Aligned_cols=35 Identities=20% Similarity=0.421 Sum_probs=30.2
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhccC
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKNR 875 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~~ 875 (1778)
..|+.|+++|.|. -+..+..|+..|+.+|..+-..
T Consensus 51 ~tI~~kl~~~~Y~--s~~ef~~D~~li~~Na~~yN~~ 85 (107)
T cd05516 51 KKIKERIRNHKYR--SLEDLEKDVMLLCQNAQTFNLE 85 (107)
T ss_pred HHHHHHHccCCCC--CHHHHHHHHHHHHHHHHHHCCC
Confidence 4899999999995 5778999999999999887553
No 73
>KOG1338 consensus Uncharacterized conserved protein [Function unknown]
Probab=25.83 E-value=92 Score=39.18 Aligned_cols=44 Identities=16% Similarity=0.136 Sum_probs=33.1
Q ss_pred cccccCC---CCCCCeEEEEEEECCEEEEEEEEeccCCCCCeEEEecCCCCcc
Q 000255 1304 YASRICH---SCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEEITFDYNSVTES 1353 (1778)
Q Consensus 1304 iARFINH---SCdPNCeaq~v~VdGepRIgfFAlRDIkaGEELTfDYg~~~es 1353 (1778)
.|-|+|| +|+.|... +...+-+.|.|+|++|+|+.-.|+-...+
T Consensus 218 ~ad~lNhd~~k~nanl~y------~~NcL~mva~r~iekgdev~n~dg~~p~~ 264 (466)
T KOG1338|consen 218 IADFLNHDGLKANANLRY------EDNCLEMVADRNIEKGDEVDNSDGLKPMG 264 (466)
T ss_pred hhhhhccchhhcccceec------cCcceeeeecCCCCCccccccccccCcch
Confidence 4668999 47777653 33456889999999999999999855543
No 74
>cd05519 Bromo_SNF2 Bromodomain, SNF2-like subfamily, specific to fungi. SNF2 is a yeast protein involved in transcriptional activation, it is the catalytic component of the SWI/SNF ATP-dependent chromatin remodeling complex. The protein is essential for the regulation of gene expression (both positive and negative) of a large number of genes. The SWI/SNF complex changes chromatin structure by altering DNA-histone contacts within the nucleosome, which results in a re-positioning of the nucleosome and facilitates or represses the binding of gene-specific transcription factors. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=25.49 E-value=98 Score=31.43 Aligned_cols=34 Identities=24% Similarity=0.291 Sum_probs=29.5
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
..|+.|+++|.|.+ +..+..|+..|..+|..+-.
T Consensus 50 ~~I~~kl~~~~Y~s--~~~f~~D~~li~~Na~~yn~ 83 (103)
T cd05519 50 DQIKRRIEGRAYKS--LEEFLEDFHLMFANARTYNQ 83 (103)
T ss_pred HHHHHHHccCCCCC--HHHHHHHHHHHHHHHHHHCC
Confidence 48999999999976 67789999999999988744
No 75
>PF14878 DLD: Death-like domain of SPT6; PDB: 3PSI_A 3PSF_A.
Probab=25.24 E-value=80 Score=33.65 Aligned_cols=90 Identities=21% Similarity=0.309 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHH---HHhhCcHHHHhhhHH-hhhhhhccchhhhccchHHHHHhhhhhccceeeeeeehhHHHHHh
Q 000255 1431 NWVVAYSARLVRFINL---ERTKLPEEILRHNLE-EKRKYFSDICLEVEKSDAEVQAEGVYNQRLQNLAVTLDKVRYVMR 1506 (1778)
Q Consensus 1431 ~WL~kwaA~ilryI~~---Er~~Lp~ell~~~~~-ek~k~~~~~~l~~e~~dAe~eA~gv~~~RiQNlaiTLDKVR~vL~ 1506 (1778)
+|..|-|+.++++-.. |... |...+.+-++ .....+.++.|+ .=|..+-.+.-+|--.||--||--|+
T Consensus 15 ~lArkmA~DAle~deed~~~~~~-~~~av~~~~~~~~p~kL~~LdLd-------~yA~~Le~~~~~~K~~TL~~Ir~EL~ 86 (115)
T PF14878_consen 15 DLARKMAADALEYDEEDIAEDED-PSGAVEEIMEDDRPEKLNDLDLD-------EYAEELERQGGGNKRATLYDIRSELQ 86 (115)
T ss_dssp HHHHHHHHHHTT--HHHHHHHHH--HT-TTHHHHTTHHHHHTTS-HH-------HHHHHHHHHHS---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcChhhhcchhh-HHHHHHHHHccccHHHHhhcCHH-------HHHHHHHHhcCCcHHHHHHHHHHHHh
Confidence 4777888888876543 1111 1111222222 111224445443 23444555667788899999999999
Q ss_pred hccCCCCCCCCCccCCChHHHHHHH
Q 000255 1507 CVFGDPKKAPPPVERLSPEETVSFL 1531 (1778)
Q Consensus 1507 ~~~gdp~~a~PPL~~Lt~~evv~~L 1531 (1778)
+.|.+.. +||..+|++|+|.-|
T Consensus 87 ~pf~d~R---~~f~~pt~de~F~ml 108 (115)
T PF14878_consen 87 HPFEDLR---KPFREPTPDEIFTML 108 (115)
T ss_dssp STT---S---B----B-HHHHHHHH
T ss_pred Ccccccc---cCCCCCCHHHhhhHh
Confidence 9875555 799999999998754
No 76
>KOG1862 consensus GYF domain containing proteins [General function prediction only]
Probab=25.08 E-value=83 Score=41.56 Aligned_cols=57 Identities=21% Similarity=0.320 Sum_probs=48.2
Q ss_pred CCCceEEEccCCcccCchhhhhhhhhhhcCcccccchhhccCCCc---ceeeeccCCCcc
Q 000255 21 SVGKWFYLDHCGMECGPSRLCDLKTLVEEGVLVSDHFIKHLDSNR---WETVENAVSPLV 77 (1778)
Q Consensus 21 ~~~~w~yl~~~g~e~gp~~l~~~k~l~~~~~l~~dh~i~~~~~~~---w~t~e~a~sp~~ 77 (1778)
..=.|||.|.-|.=+||-...++-.--..||...||.|+-.+... ..|+.=....+.
T Consensus 202 ~d~~~~Y~DP~g~iqGPf~~~~v~~W~~~GyF~~~l~vr~~e~~~~~~f~tl~~~~~~l~ 261 (673)
T KOG1862|consen 202 EELSWLYKDPQGQIQGPFSASDVLQWYEAGYFPDDLQVRLGENPERSIFQTLGEVMQLLK 261 (673)
T ss_pred cceeEEeeCCCCcccCCchHHHHHHHHhcCccCCCceeeeccCCccccceehhhhhhhcc
Confidence 445899999999999999999999999999999998888888887 777655544444
No 77
>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A ....
Probab=24.11 E-value=42 Score=30.10 Aligned_cols=49 Identities=16% Similarity=0.353 Sum_probs=22.0
Q ss_pred CCccEEeeccccccccccc----cCCcccccccccccCcccCcccc-cccchhhh
Q 000255 684 PHLSSIDIRGCGQFGELAL----KFPNINWVKSQKSRGAKFNDSRS-KIRSLKQI 733 (1778)
Q Consensus 684 p~~~~~~i~gc~q~~~l~~----~~~~v~w~~~~~~~~~~~~~~~~-k~~sl~~~ 733 (1778)
|+|.+++|++| ++.++.. .+|++.+|.=+.+....++.+.- .+.+|+.+
T Consensus 1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L 54 (61)
T PF13855_consen 1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYL 54 (61)
T ss_dssp TTESEEEETSS-TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEE
T ss_pred CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEE
Confidence 45555555555 4444442 23444444444444444444432 44444433
No 78
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=23.71 E-value=27 Score=44.13 Aligned_cols=129 Identities=12% Similarity=-0.037 Sum_probs=84.0
Q ss_pred EEeCccCCcCCCCEEEEEecEEecccchhhhhhhhHhhhccCCCC-CCcceeeeccCCCCCCCCCceEEEcCccCCCccc
Q 000255 1228 VVCNKEGGFGEDDFVVEFLGEVYPVWKWFEKQDGIRSLQKNNEDP-APEFYNIYLERPKGDADGYDLVVVDAMHKANYAS 1306 (1778)
Q Consensus 1228 VFAtrdE~I~KGEFI~EYvGEVIt~eEw~ErqdaiRrlq~~~kd~-~~dFY~i~L~r~kgD~dG~d~l~IDAtrkGNiAR 1306 (1778)
..+.+. +..|++|+.++|+..-.. .+--........... ...||.. ..+...+.++...|+..+
T Consensus 130 ~~~~~~--~~~~~~vw~~vg~~~~~~----c~vc~~~~~~~~~~~~~~~f~~~---------~~~~~~~~~~~~~g~~~~ 194 (463)
T KOG1081|consen 130 CRAFKK--REVGDLVWSKVGEYPWWP----CMVCHDPLLPKGMKHDHVNFFGC---------YAWTHEKRVFPYEGQSSK 194 (463)
T ss_pred eeeecc--ccceeEEeEEcCcccccc----cceecCcccchhhccccceeccc---------hhhHHHhhhhhccchHHH
Confidence 555544 899999999999985321 000000000000000 1122211 122334555656999999
Q ss_pred ccCCCCCCCeEEEEEEECCEEEEEEEEeccCCCCCe------EEEecCCCCcccccccCceEEcCCCCccceecc
Q 000255 1307 RICHSCRPNCEAKVTAVDGHYQIGIYTVRGIHYGEE------ITFDYNSVTESKEEYEASVCLCGSQVCRGSYLN 1375 (1778)
Q Consensus 1307 FINHSCdPNCeaq~v~VdGepRIgfFAlRDIkaGEE------LTfDYg~~~es~kE~e~~~ClCGS~NCRG~iL~ 1375 (1778)
+++|+|.|+-.+..+......|+..++.+.++.++- .+-+|.....- ..+.|.|.+..|...++.
T Consensus 195 ~l~~~~~~~s~~~~~~~~~~~r~~~~~~q~~~~~~~~e~k~~~~~~~~~~~~~----~~~~~~~~~~~~~~k~~~ 265 (463)
T KOG1081|consen 195 LIPHSKKPASTMSEKIKEAKARFGKLKAQWEAGIKQKELKPEEYKRIKVVCPI----GDQQIYSAAVSCIKKLLA 265 (463)
T ss_pred hhhhccccchhhhhhhhcccchhhhcccchhhccchhhcccccccccccccCc----Ccccccchhhhhhhhccc
Confidence 999999999999999999999999999999988887 66666654432 234588888888876554
No 79
>cd05522 Bromo_Rsc1_2_II Bromodomain, repeat II in Rsc1/2_like subfamily, specific to fungi. Rsc1 and Rsc2 are components of the RSC complex (remodeling the structure of chromatin), are essential for transcriptional control, and have a specific domain architecture including two bromodomains. The RSC complex has also been linked to homologous recombination and nonhomologous end-joining repair of DNA double strand breaks. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=23.16 E-value=81 Score=32.30 Aligned_cols=34 Identities=18% Similarity=0.344 Sum_probs=30.0
Q ss_pred hHHHhhhccccccccCCcchhhhHHHHHHHHHHhcc
Q 000255 839 AEIEGRMKKGYYISHGLGSVKDDISRMCRDAIKAKN 874 (1778)
Q Consensus 839 ~~ie~~~k~gyy~~~g~~~~k~di~~~~r~a~~~~~ 874 (1778)
..|+.|+++|.| +-+..+..|+..|..+|..+-.
T Consensus 51 ~tI~~kl~~~~Y--~s~~~f~~D~~li~~Na~~yn~ 84 (104)
T cd05522 51 DDIKKKVKRRKY--KSFDQFLNDLNLMFENAKLYNE 84 (104)
T ss_pred HHHHHHHccCCC--CCHHHHHHHHHHHHHHHHHHCC
Confidence 489999999999 5677899999999999999755
No 80
>KOG1789 consensus Endocytosis protein RME-8, contains DnaJ domain [Intracellular trafficking, secretion, and vesicular transport; Posttranslational modification, protein turnover, chaperones]
Probab=21.18 E-value=59 Score=44.73 Aligned_cols=35 Identities=31% Similarity=0.626 Sum_probs=31.2
Q ss_pred ccceEEecCCCCccCCCCHHHHHHHhhhccccccc
Q 000255 376 LGEWYYLDGAGHERGPSSFSELQVLVDQGCIQKHT 410 (1778)
Q Consensus 376 ~g~w~yldg~g~e~gp~s~selq~~v~~g~i~~~s 410 (1778)
--+|||.|-.|.|-||.+|.-+..|-.+..|-..|
T Consensus 955 ~~ew~y~dk~~~~vgp~~~~~~~sl~s~k~i~~~s 989 (2235)
T KOG1789|consen 955 EEEWYYHDKDAKQVGPLSFEKMKSLYTEKTIFEKS 989 (2235)
T ss_pred chhheeecCCccccCchhHHHHHHHhcccchhHHH
Confidence 35899999999999999999999999888886655
Done!