Query 011389
Match_columns 487
No_of_seqs 314 out of 929
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 00:48:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011389.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011389hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1886 BAH domain proteins [T 100.0 1E-43 2.3E-48 370.9 11.4 337 89-485 8-348 (464)
2 cd04713 BAH_plant_3 BAH, or Br 100.0 7.7E-36 1.7E-40 273.5 16.1 146 111-257 1-146 (146)
3 cd04716 BAH_plantDCM_I BAH, or 99.9 6.7E-27 1.5E-31 208.9 13.0 118 128-248 1-121 (122)
4 cd04715 BAH_Orc1p_like BAH, or 99.9 2.4E-26 5.2E-31 213.8 14.0 138 100-245 4-152 (159)
5 cd04717 BAH_polybromo BAH, or 99.9 1.6E-26 3.4E-31 204.7 12.1 117 128-247 1-119 (121)
6 cd04714 BAH_BAHCC1 BAH, or Bro 99.9 2.1E-26 4.6E-31 204.8 10.7 112 128-242 1-117 (121)
7 cd04370 BAH BAH, or Bromo Adja 99.9 9.9E-26 2.1E-30 194.8 12.5 117 128-247 1-122 (123)
8 smart00439 BAH Bromo adjacent 99.9 1.1E-25 2.3E-30 195.2 11.9 116 130-248 1-120 (120)
9 cd04710 BAH_fungalPHD BAH, or 99.9 1.2E-25 2.7E-30 204.0 11.2 118 124-246 5-135 (135)
10 PF01426 BAH: BAH domain; Int 99.9 1.5E-25 3.3E-30 194.3 10.3 115 129-248 1-119 (119)
11 cd04721 BAH_plant_1 BAH, or Br 99.9 8.6E-25 1.9E-29 197.2 10.4 120 124-247 1-124 (130)
12 cd04709 BAH_MTA BAH, or Bromo 99.9 1.7E-24 3.7E-29 202.3 11.8 117 128-245 1-137 (164)
13 cd04708 BAH_plantDCM_II BAH, o 99.9 4.1E-23 8.9E-28 198.1 11.6 124 124-250 1-148 (202)
14 cd04712 BAH_DCM_I BAH, or Brom 99.9 9.6E-23 2.1E-27 183.9 13.1 114 127-248 2-129 (130)
15 smart00510 TFS2M Domain in the 99.9 3.2E-23 6.9E-28 180.0 9.2 92 349-482 1-94 (102)
16 cd04760 BAH_Dnmt1_I BAH, or Br 99.9 8E-23 1.7E-27 182.9 10.9 112 128-244 1-123 (124)
17 PF07500 TFIIS_M: Transcriptio 99.9 1.3E-21 2.8E-26 172.2 8.3 99 347-487 1-101 (115)
18 TIGR01385 TFSII transcription 99.8 1.9E-21 4E-26 197.1 9.3 95 346-482 133-229 (299)
19 cd04720 BAH_Orc1p_Yeast BAH, o 99.8 5.8E-20 1.3E-24 174.0 13.1 119 127-246 49-176 (179)
20 cd04719 BAH_Orc1p_animal BAH, 99.8 7.3E-20 1.6E-24 164.9 9.6 113 129-244 2-125 (128)
21 cd04718 BAH_plant_2 BAH, or Br 99.8 1.9E-20 4E-25 171.7 1.9 98 145-247 50-147 (148)
22 KOG1105 Transcription elongati 99.8 1.1E-18 2.4E-23 175.6 8.4 96 345-482 129-226 (296)
23 cd04711 BAH_Dnmt1_II BAH, or B 99.8 1.6E-18 3.4E-23 156.8 7.7 114 134-248 13-136 (137)
24 KOG1827 Chromatin remodeling c 99.5 1.2E-14 2.6E-19 158.3 6.8 118 124-244 184-303 (629)
25 KOG1634 Predicted transcriptio 99.0 7.8E-11 1.7E-15 130.8 2.0 77 408-487 262-341 (778)
26 KOG3554 Histone deacetylase co 98.8 6.5E-10 1.4E-14 116.9 -2.0 136 129-267 4-184 (693)
27 COG5076 Transcription factor i 92.3 0.019 4.1E-07 60.4 -2.4 96 122-220 268-363 (371)
28 PTZ00112 origin recognition co 78.8 2.1 4.6E-05 50.6 4.1 133 119-251 441-614 (1164)
29 PF09926 DUF2158: Uncharacteri 77.7 3.2 6.8E-05 32.6 3.6 39 131-173 1-39 (53)
30 cd05834 HDGF_related The PWWP 62.3 10 0.00023 31.9 3.7 43 130-174 2-44 (83)
31 cd06080 MUM1_like Mutated mela 55.6 18 0.00039 30.7 4.0 39 131-174 1-39 (80)
32 PF02172 KIX: KIX domain; Int 55.5 62 0.0013 27.5 7.2 65 348-451 11-75 (81)
33 cd05835 Dnmt3b_related The PWW 51.8 17 0.00037 30.8 3.3 40 131-172 1-43 (87)
34 cd05162 PWWP The PWWP domain, 47.1 25 0.00055 29.2 3.6 40 131-172 1-46 (87)
35 PF10383 Clr2: Transcription-s 44.2 99 0.0021 28.5 7.3 41 119-159 1-51 (139)
36 PF11302 DUF3104: Protein of u 38.7 67 0.0015 27.1 4.8 29 130-158 5-38 (75)
37 PF11717 Tudor-knot: RNA bindi 38.2 58 0.0013 25.1 4.1 37 131-170 1-37 (55)
38 cd05840 SPBC215_ISWI_like The 38.0 33 0.0007 29.6 3.0 40 131-172 1-49 (93)
39 smart00293 PWWP domain with co 36.7 40 0.00087 26.6 3.1 40 131-172 1-47 (63)
40 PRK10708 hypothetical protein; 35.2 84 0.0018 25.3 4.6 43 132-176 2-51 (62)
41 PF08940 DUF1918: Domain of un 35.1 49 0.0011 26.6 3.3 40 132-172 4-43 (58)
42 PF00855 PWWP: PWWP domain; I 34.8 27 0.0006 28.4 2.0 40 131-172 1-43 (86)
43 PRK13251 transcription attenua 33.6 93 0.002 26.1 4.7 48 166-216 19-66 (75)
44 KOG1827 Chromatin remodeling c 33.2 30 0.00064 39.6 2.5 89 130-241 375-465 (629)
45 PF02459 Adeno_terminal: Adeno 31.9 22 0.00048 39.7 1.2 7 66-72 294-300 (548)
46 PF10781 DSRB: Dextransucrase 31.2 1.2E+02 0.0026 24.5 4.8 44 132-177 2-52 (62)
47 KOG0343 RNA Helicase [RNA proc 30.5 27 0.00059 39.6 1.6 40 73-112 672-715 (758)
48 PF00467 KOW: KOW motif; Inte 27.9 1E+02 0.0023 21.1 3.6 25 133-159 1-25 (32)
49 COG5475 Uncharacterized small 27.1 1.2E+02 0.0026 24.4 4.2 38 128-175 2-40 (60)
50 COG4014 Uncharacterized protei 26.8 1.3E+02 0.0028 26.3 4.7 41 132-177 10-53 (97)
51 PF02081 TrpBP: Tryptophan RNA 25.4 87 0.0019 26.3 3.3 48 166-216 19-66 (75)
52 smart00739 KOW KOW (Kyprides, 24.2 1.1E+02 0.0023 19.5 3.0 25 131-157 2-26 (28)
53 PF04322 DUF473: Protein of un 22.4 1.3E+02 0.0027 27.5 4.1 40 118-157 19-70 (119)
54 PF13943 WPP: WPP domain 22.3 1.4E+02 0.0031 26.4 4.2 67 348-451 8-86 (99)
55 PF09871 DUF2098: Uncharacteri 21.3 1.9E+02 0.0041 25.2 4.7 43 130-178 2-47 (91)
56 cd05837 MSH6_like The PWWP dom 21.3 96 0.0021 27.4 3.1 43 130-174 2-53 (110)
57 PRK11445 putative oxidoreducta 20.9 1.2E+02 0.0025 31.4 4.1 34 434-467 303-345 (351)
No 1
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=100.00 E-value=1e-43 Score=370.95 Aligned_cols=337 Identities=40% Similarity=0.663 Sum_probs=302.1
Q ss_pred hhhhhccCCCCCccccccceeecCCCCCcceeeeEEEEcCeEEee-CCeEEEcCCCCCCCCeEEEEeEEeeCCC-CceEE
Q 011389 89 EEEEEEEQPQEDAKPVGELVRFSGKGRGRRSHYEAFEFDGNKYEL-EDPVLLTPEDTNQKPYVAIIKEITQSKD-GSMMV 166 (487)
Q Consensus 89 ~~~~~~~~~~~~a~~iG~pvk~~gKG~~~R~~Y~sf~~dG~~YrV-GD~VyV~~e~~~~~pyIArI~~I~e~~d-G~~~V 166 (487)
...+.++++.++|.|+|...++.|+|+.+++||.+|.+.|..|.. ||+|++.+++++.+||||+|++||.+.. +.+.+
T Consensus 8 ~~~~~~~~~~~~a~~~g~a~~~qGv~~~k~~h~~t~~~~~g~~~~~~d~vllvped~~~pPyvaii~~i~a~~~g~~~k~ 87 (464)
T KOG1886|consen 8 PKLKSELRPRDEASSMGDANKEQGVGGVKSLHFETFIYRGGRYINYGDSVLLVPEDPGKPPYVAIIEDIYAQERGGNVKV 87 (464)
T ss_pred ccccccCCccchhhhhhhhhhhccccccccccccceeeccCcccccCcceeecCCCCCCCCeeEEEeeeeccccCCCcce
Confidence 345567899999999999999999999999999999999988888 9999999999999999999999998765 68999
Q ss_pred EEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccceecEEEEcCccccCCCCCCCCceEEeeeeecCCcEEee
Q 011389 167 TGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFVPIHKQLPNRKQHPGFIVQKVYDTVERKLWK 246 (487)
Q Consensus 167 rVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp~~~~~~~F~Cr~vYD~~~kkl~~ 246 (487)
+|+|||||+|+.....+.|....++|||+|+|+|++++++|.++|.|+|++.|.+++.+..+++|+|+++||..+.++|.
T Consensus 88 ev~W~YrPee~~~~~~~~~~a~~~relF~SfH~De~~A~ti~~rC~V~fvp~~kqlp~~~~~~~f~~r~vYd~~~~~~~~ 167 (464)
T KOG1886|consen 88 EVQWFYRPEESEGGGSGKWGAKQPRELFLSFHEDEAFAETILHRCKVHFVPAYKQLPNRVGHESFICRRVYDAVTSKLRK 167 (464)
T ss_pred ecccccCCCccCCCCCCCcccCCCccccccccccchhhhhhcccceeeeccccccccccCCCCCcccccccccccccccC
Confidence 99999999999988788888889999999999999999999999999999999999988889999999999999999999
Q ss_pred cCCcchhcccchhhhHHHHHHhhhcCCCCCCCccccccchhhhhhhcccccccCCCCCCcccccccccCcccccccccCC
Q 011389 247 LTDKDYEDNKQHEIDLLVQKTQARLGDLPDIEPEETAAREQEDQLKAKRSLRKKNISPLDVSREEDSTTRSDQYVKAETP 326 (487)
Q Consensus 247 L~dkdy~~~~q~Evd~ll~kt~~riG~l~d~~~~e~~~~~~~~~~~~k~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 326 (487)
+++.+|....+.++|.++.++..++|++++.....+. ..++++++.++++++ .++|.
T Consensus 168 ~~~~~~~~~~k~e~d~~~~kt~~~~~~~~~p~~~~t~-----~~~~~~~~~~~s~~~--~~~r~---------------- 224 (464)
T KOG1886|consen 168 LRDGDFGDGQKLEIDMLVPKTGPRRGTLPDPKKVQTL-----NAAASKRSQQKSEIS--SLSRA---------------- 224 (464)
T ss_pred ccccchhcccccCCccchhhhcccCCCCCCccccccc-----cccccceeccccccc--ccccc----------------
Confidence 9999999999999999999999999999999999833 577888999988887 22222
Q ss_pred CccCCCCchhHHHHhhcccccChhHHHHHHHHHHHHH-hhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccc
Q 011389 327 GSCTSNASEYYNILSKFKALTGETHRDKWLERLLQGL-QYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKG 405 (487)
Q Consensus 327 ~~~~~~~~~~~~~l~~~~~~tgd~~RDk~le~L~~~l-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 405 (487)
..+.++.||..|..+||++.|||+++.||+++ +..|.++.....
T Consensus 225 -----ss~~~~~~~e~~~~~t~~~~~~k~~g~~~~~v~~~~~~~s~~~~~------------------------------ 269 (464)
T KOG1886|consen 225 -----SSSVDGEILESFDLLTGRSDRDKVLGKLLEVVWQNSCSTSEAKPA------------------------------ 269 (464)
T ss_pred -----ccccccccccCCCCCCCcccccccccccchhhccccccccccCCC------------------------------
Confidence 34467788999999999999999999999999 777766633221
Q ss_pred cCCCCCCCChhHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhccCCHHHHhhhhcC-CCCccccccCChhhcCCCCC
Q 011389 406 QKNGKSFIWPDTAIAAVTALEKASHDTLSLDFQKYNQKLRQLLFNLKSTALLARRLLNG-ELEPSKILNMSPNELKVLYC 484 (487)
Q Consensus 406 ~~~~~~~~wp~~v~~~a~~iE~a~~~~~~~~~~~Yk~K~Rsl~fNLK~Np~Lr~rvl~G-ei~p~~l~~Mt~~Ema~~~~ 484 (487)
.+.+-.||+.++..+.+||.+.|+.+..+..+|.++++.|+++||+-..|+.+.++| ++.|+-.+.|.+-++.++.+
T Consensus 270 --~~~~~~~p~~~v~~~~~le~~s~~s~a~d~~~~~~~~~~l~~~~k~~~~l~~~~ln~~~~~~e~~~~l~~p~~p~~~~ 347 (464)
T KOG1886|consen 270 --GDQGSLWPNPSVSPCGALEQPSHASLAKDLESYLGLRETLVLLLKGQALLKPEPLNPGETKPEPKQELHPPSFPDGQS 347 (464)
T ss_pred --cccccCCCCcccchhhhhhhhhhhhHhhhhhhhhhhhhHHHhhhcchhhhccccCCCcccCchhhhhccCCCCCCCcc
Confidence 233338999999999999999999999888999999999999999999999999999 59999999999998888776
Q ss_pred C
Q 011389 485 P 485 (487)
Q Consensus 485 ~ 485 (487)
+
T Consensus 348 ~ 348 (464)
T KOG1886|consen 348 S 348 (464)
T ss_pred C
Confidence 4
No 2
>cd04713 BAH_plant_3 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=100.00 E-value=7.7e-36 Score=273.52 Aligned_cols=146 Identities=64% Similarity=1.163 Sum_probs=134.1
Q ss_pred cCCCCCcceeeeEEEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCC
Q 011389 111 SGKGRGRRSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDT 190 (487)
Q Consensus 111 ~gKG~~~R~~Y~sf~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~ 190 (487)
+|||.++|+||++|.++|++|+|||+|||.+++ +.+||||+|++||++.+|.++|+|+|||||+||.....+.+..+++
T Consensus 1 ~~~~~~~~~~y~s~~~dg~~y~vgD~Vlv~~~~-~~~pyI~~I~~i~~~~~~~~~v~V~WFyRpeEi~~~~~~~~~~~~~ 79 (146)
T cd04713 1 TGKGKKKKCHYTSFEKDGNKYRLEDCVLLVPED-DQKPYIAIIKDIYKQEEGSLKLEVQWLYRPEEIEKKKGGNWKAEDP 79 (146)
T ss_pred CCCCccceeeeeeEEECCEEEECCCEEEEeCCC-CCCCEEEEEEEEEEcCCCCEEEEEEeeECHHHhccccccccccCCC
Confidence 489999999999999999999999999999876 4899999999999998899999999999999998655555555679
Q ss_pred CeeEeeCCcccccccccceecEEEEcCccccCCCCCCCCceEEeeeeecCCcEEeecCCcchhcccc
Q 011389 191 RELFYSFHRDEVPAESVMHKCVVHFVPIHKQLPNRKQHPGFIVQKVYDTVERKLWKLTDKDYEDNKQ 257 (487)
Q Consensus 191 nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp~~~~~~~F~Cr~vYD~~~kkl~~L~dkdy~~~~q 257 (487)
||||+|.|.|.+|+++|+|||+|++.+++.++|.....++|||++.||...++||+|+++||++++|
T Consensus 80 ~ElF~S~~~d~~~~~~I~gkc~V~~~~~~~~~~~~~~~~~F~cr~~yD~~~~~~~~~~~~~~~~~~~ 146 (146)
T cd04713 80 RELFYSFHRDEVPAESVLHPCKVAFVPKGKQIPLRKGHSGFIVRRVYDNVNKKLWKLTDQDYEDERQ 146 (146)
T ss_pred CeEEEeCCCCcCCHHHCcceeEEEECCccccCCccCCCCeEEEEEEEcCCCCcEeeccccccccccC
Confidence 9999999999999999999999999999999887666789999999999999999999999997754
No 3
>cd04716 BAH_plantDCM_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=6.7e-27 Score=208.91 Aligned_cols=118 Identities=22% Similarity=0.406 Sum_probs=104.5
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccccccc
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESV 207 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI 207 (487)
|+.|++||+|||.+++ +.++|||+|.+||++.+|..+|+|+|||||+||..... ...++++|||+|+|+|++|++||
T Consensus 1 g~~~~lgD~V~v~~~~-~~~~yi~rI~~i~e~~~g~~~~~v~WyyRpeet~~~r~--~~~~~~rEvFlS~~~D~~pl~~I 77 (122)
T cd04716 1 GITYNLGDDAYVQGGE-GEEPFICKITEFFEGTDGKTYFTAQWFYRAEDTVIERQ--ATNHDKKRVFYSEIKNDNPLDCL 77 (122)
T ss_pred CcEEEcCCEEEEECCC-CCCCEEEEEEEEEEcCCCceEEEEEEEEcHHHhccccc--cccCCCceEEEecccCccchhhe
Confidence 6789999999999986 59999999999999999999999999999999986322 24579999999999999999999
Q ss_pred ceecEEEEcCccccCC---CCCCCCceEEeeeeecCCcEEeecC
Q 011389 208 MHKCVVHFVPIHKQLP---NRKQHPGFIVQKVYDTVERKLWKLT 248 (487)
Q Consensus 208 ~GKC~V~~~~ey~~lp---~~~~~~~F~Cr~vYD~~~kkl~~L~ 248 (487)
+|||+|++++++..++ ....+..|||++.|+..-.+|..|+
T Consensus 78 ~~Kc~V~~~~~~~~~~~~~~~~~~~df~c~~~Y~~~~~tF~~~~ 121 (122)
T cd04716 78 ISKVKILQVPPNVGTKRKKPNSEKCDYYYDMEYCVPYSTFQTLR 121 (122)
T ss_pred eeeeEEEEeCCCCCcccccccCCCceEEEeeEeccchhheEeCC
Confidence 9999999999998874 2334789999999999888887775
No 4
>cd04715 BAH_Orc1p_like BAH, or Bromo Adjacent Homology domain, as present in the Schizosaccharomyces pombe homolog of Saccharomyces cerevisiae Orc1p and similar proteins. Orc1 is part of the Yeast Sir1-origin recognition complex, the Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=2.4e-26 Score=213.78 Aligned_cols=138 Identities=25% Similarity=0.385 Sum_probs=114.5
Q ss_pred CccccccceeecCCCCCcceeeeEEEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCC--CceEEEEEEeeccccc
Q 011389 100 DAKPVGELVRFSGKGRGRRSHYEAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKD--GSMMVTGQWFYRPEEA 177 (487)
Q Consensus 100 ~a~~iG~pvk~~gKG~~~R~~Y~sf~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~d--G~~~VrVqWFYRPeEt 177 (487)
-++|.|.|.+..+ ++||.++.++|..|++||+|||.+++ .+||||+|.+||+..+ |..+++|+|||||+||
T Consensus 4 ~~~~~g~~~~~~~-----~~~Y~s~~~~g~~y~lGD~Vlv~s~~--~~~yIgkI~~iwe~~~~~g~~~~~v~WfyRp~E~ 76 (159)
T cd04715 4 WGVKRGEGGKKKD-----GQFYRSFTYDGVEYRLYDDVYVHNGD--SEPYIGKIIKIYETAIDSGKKKVKVIWFFRPSEI 76 (159)
T ss_pred cceecccccccCC-----ceEEEEEEECCEEEeCCCEEEEeCCC--CCCEEEEEEEEEEcCCcCCceEEEEEeeeCHHHh
Confidence 3578888888765 67999999999999999999999854 8999999999999865 8899999999999999
Q ss_pred CCCCCCCCCCCCCCeeEeeCCc-----ccccccccceecEEEEcCccccCCCC--C--CCCceEEeeeeecCCcEEe
Q 011389 178 DRKGGGNWLSRDTRELFYSFHR-----DEVPAESVMHKCVVHFVPIHKQLPNR--K--QHPGFIVQKVYDTVERKLW 245 (487)
Q Consensus 178 ~~~~~g~~~~~~~nELFlS~h~-----D~iplesI~GKC~V~~~~ey~~lp~~--~--~~~~F~Cr~vYD~~~kkl~ 245 (487)
.+...+. +.+.+||||+|.|. +++|+++|+|||.|+++++|...+.. . ....|++.+.||...++..
T Consensus 77 ~~~~~~~-~~~~~nEvFlS~~~d~~~~~~n~l~sI~gKC~Vl~~~ey~~~~~~s~~~~~~~~~~f~~~f~~~~~~~~ 152 (159)
T cd04715 77 RMELKGE-PKRHINEVFLACGRGEGLANINLLESIIGKCNVVCISEDFRNPQPSDGIPTSADFLFPCNFDVGRCVIV 152 (159)
T ss_pred ccccccC-cccCCCcEEEecCcCccccccCcHHHccceeEEEEehHhhhCCCCcCCccccCcceeeeEEEecCceec
Confidence 8644333 34689999999986 66899999999999999999875421 2 3456788888888776654
No 5
>cd04717 BAH_polybromo BAH, or Bromo Adjacent Homology domain, as present in polybromo and yeast RSC1/2. The human polybromo protein (BAF180) is a component of the SWI/SNF chromatin-remodeling complex PBAF. It is thought that polybromo participates in transcriptional regulation. Saccharomyces cerevisiae RSC1 and RSC2 are part of the 15-subunit nucleosome remodeling RSC complex. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.94 E-value=1.6e-26 Score=204.67 Aligned_cols=117 Identities=25% Similarity=0.401 Sum_probs=103.1
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccccccc
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESV 207 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI 207 (487)
|..|++||+|||.+++.+.++|||+|.+||++.+|..+|+|+|||||+||.+...+. .++||||+|.+.+++|+++|
T Consensus 1 g~~~~vGD~V~v~~~~~~~~~~i~~I~~i~~~~~g~~~~~~~Wf~rP~et~~~~~~~---~~~~Evfls~~~d~~~~~~I 77 (121)
T cd04717 1 GLQYRVGDCVYVANPEDPSKPIIFRIERLWKDEDGEKFFFGCWFYRPEETFHEPTRK---FYKNEVFKSPLYETVPVEEI 77 (121)
T ss_pred CCEEECCCEEEEeCCCCCCCCEEEEEeEEEECCCCCEEEEEEEEeChHHccCCCccc---cccCceEEcCccccccHHHh
Confidence 678999999999998755889999999999998899999999999999998765543 48999999999999999999
Q ss_pred ceecEEEEcCccccCC-C-CCCCCceEEeeeeecCCcEEeec
Q 011389 208 MHKCVVHFVPIHKQLP-N-RKQHPGFIVQKVYDTVERKLWKL 247 (487)
Q Consensus 208 ~GKC~V~~~~ey~~lp-~-~~~~~~F~Cr~vYD~~~kkl~~L 247 (487)
+|||.|++..+|.+.. . ....+.|+|++.||...+.|..+
T Consensus 78 ~~kc~Vl~~~~y~~~~p~~~~~~dvy~ce~~y~~~~~~~~~~ 119 (121)
T cd04717 78 VGKCAVMDVKDYIKGRPTEISEEDVYVCESRYNESAKSFKKI 119 (121)
T ss_pred cCeeEEEehHHHhcCCCCCCCCCCEEEEeEEECcccccEecc
Confidence 9999999999998864 2 22458899999999988877654
No 6
>cd04714 BAH_BAHCC1 BAH, or Bromo Adjacent Homology domain, as present in mammalian BAHCC1 and similar proteins. BAHCC1 stands for BAH domain and coiled-coil containing 1. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.93 E-value=2.1e-26 Score=204.84 Aligned_cols=112 Identities=27% Similarity=0.439 Sum_probs=99.3
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccccccc
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESV 207 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI 207 (487)
|.+|++||+|||.+++.+.+||||+|.+||++.+|.++|+|+|||||+||.++.. ..+++||||+|+|.|++|+++|
T Consensus 1 ~~~~~vGD~V~v~~~~~~~~pyIgrI~~i~e~~~g~~~~~v~WfyrPeEt~~~~~---~~~~~~EvF~S~~~d~~~~~~I 77 (121)
T cd04714 1 KEIIRVGDCVLFKSPGRPSLPYVARIESLWEDPEGNMVVRVKWYYRPEETKGGRK---PNHGEKELFASDHQDENSVQTI 77 (121)
T ss_pred CCEEEcCCEEEEeCCCCCCCCEEEEEEEEEEcCCCCEEEEEEEEEcHHHccCccc---ccCCCCceEecCCcccccHHHh
Confidence 5789999999999987568899999999999988999999999999999986433 3479999999999999999999
Q ss_pred ceecEEEEcCccccCCC-----CCCCCceEEeeeeecCCc
Q 011389 208 MHKCVVHFVPIHKQLPN-----RKQHPGFIVQKVYDTVER 242 (487)
Q Consensus 208 ~GKC~V~~~~ey~~lp~-----~~~~~~F~Cr~vYD~~~k 242 (487)
+|||.|+++++|.++.. ....+.|+|+..||+...
T Consensus 78 ~gkc~V~~~~ey~~~~~~~~~~~~~~d~~~Ce~~yn~~~~ 117 (121)
T cd04714 78 EHKCYVLTFAEYERLARVKKKPQDGVDFYYCAGTYNPDTG 117 (121)
T ss_pred CcccEEEehhHheecccccCCCCcCCCEEEEeccCCCCcC
Confidence 99999999999988652 235789999999998754
No 7
>cd04370 BAH BAH, or Bromo Adjacent Homology domain (also called ELM1 and BAM for Bromo Adjacent Motif). BAH domains have first been described as domains found in the polybromo protein and Yeast Rsc1/Rsc2 (Remodeling of the Structure of Chromatin). They also occur in mammalian DNA methyltransferases and the MTA1 subunits of histone deacetylase complexes. A BAH domain is also found in Yeast Sir3p and in the origin receptor complex protein 1 (Orc1p), where it was found to interact with the N-terminal lobe of the silence information regulator 1 protein (Sir1p), confirming the initial hypothesis that BAH plays a role in protein-protein interactions.
Probab=99.93 E-value=9.9e-26 Score=194.82 Aligned_cols=117 Identities=38% Similarity=0.646 Sum_probs=103.4
Q ss_pred CeEEeeCCeEEEcCCCC--CCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccccc
Q 011389 128 GNKYELEDPVLLTPEDT--NQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAE 205 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~--~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iple 205 (487)
|.+|++||+|||.+++. ..++|||+|.+||++.+|.++|+|+|||||+||.+...+ .+.+||||+|+++++++++
T Consensus 1 g~~y~vgd~V~v~~~~~~~~~~~~i~~I~~i~~~~~~~~~~~v~wf~rp~e~~~~~~~---~~~~~Elf~s~~~~~i~v~ 77 (123)
T cd04370 1 GITYEVGDSVYVEPDDSIKSDPPYIARIEELWEDTNGSKQVKVRWFYRPEETPKGLSP---FALRRELFLSDHLDEIPVE 77 (123)
T ss_pred CCEEecCCEEEEecCCcCCCCCCEEEEEeeeeECCCCCEEEEEEEEEchhHhcccccc---ccccceeEEecCccccCHH
Confidence 67999999999999874 478999999999999999999999999999999964432 4699999999999999999
Q ss_pred ccceecEEEEcCccccCC---CCCCCCceEEeeeeecCCcEEeec
Q 011389 206 SVMHKCVVHFVPIHKQLP---NRKQHPGFIVQKVYDTVERKLWKL 247 (487)
Q Consensus 206 sI~GKC~V~~~~ey~~lp---~~~~~~~F~Cr~vYD~~~kkl~~L 247 (487)
+|.|||.|++..++.+.. ....++.|||++.||..+.+|..+
T Consensus 78 ~I~gkc~V~~~~~~~~~~~~~~~~~~~~f~~r~~yd~~~~~fk~~ 122 (123)
T cd04370 78 SIIGKCKVLFVSEFEGLKQRPNKIDTDDFFCRLAYDPTTKEFKAL 122 (123)
T ss_pred HhccccEEEechHhhccccccccCCCCeEEEEEEECcCcceEEeC
Confidence 999999999999988763 444678999999999988877654
No 8
>smart00439 BAH Bromo adjacent homology domain.
Probab=99.93 E-value=1.1e-25 Score=195.18 Aligned_cols=116 Identities=31% Similarity=0.464 Sum_probs=102.2
Q ss_pred EEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCc-eEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccc
Q 011389 130 KYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGS-MMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVM 208 (487)
Q Consensus 130 ~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~-~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~ 208 (487)
.|++||+|||.+++...++|||+|.+||++.+|. ++++|+|||||+||.+...+ ..++||||+|++++++++++|+
T Consensus 1 ~~~vgd~V~v~~~~~~~~~~i~~I~~i~~~~~~~~~~~~v~Wf~rp~e~~~~~~~---~~~~~Elf~s~~~~~i~~~~I~ 77 (120)
T smart00439 1 TIRVGDFVLVEPDDADEPYYIGRIEEIFETKKNSEKMVRVRWFYRPEETVLEKAA---LFDKNEVFLSDEYDTVPLSDII 77 (120)
T ss_pred CcccCCEEEEeCCCCCCCCEEEEEEEEEECCCCCEEEEEEEEEEChhhccccccc---cCCCcceEEEccCccCChHHee
Confidence 4799999999998766899999999999998888 89999999999999875443 3589999999999999999999
Q ss_pred eecEEEEcCccccCCCCC---CCCceEEeeeeecCCcEEeecC
Q 011389 209 HKCVVHFVPIHKQLPNRK---QHPGFIVQKVYDTVERKLWKLT 248 (487)
Q Consensus 209 GKC~V~~~~ey~~lp~~~---~~~~F~Cr~vYD~~~kkl~~L~ 248 (487)
|||.|++.++|.+.+... ..+.|||++.||...++|.+++
T Consensus 78 ~kc~V~~~~~~~~~~~~~~~~~~~~f~cr~~yd~~~~~f~~~~ 120 (120)
T smart00439 78 GKCNVLSKSDYPGLRPEGKIGEPDVFFCESLYDPEKGAFKKLP 120 (120)
T ss_pred eEEEEEEcchhcccccccCCCCCCeEEEEEEEccccCcccCCC
Confidence 999999999998865322 4689999999999988887663
No 9
>cd04710 BAH_fungalPHD BAH, or Bromo Adjacent Homology domain, as present in fungal proteins containing PHD domains. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.93 E-value=1.2e-25 Score=203.98 Aligned_cols=118 Identities=24% Similarity=0.441 Sum_probs=101.6
Q ss_pred EEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCC------------CceEEEEEEeecccccCCCCCCCCCCCCCC
Q 011389 124 FEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKD------------GSMMVTGQWFYRPEEADRKGGGNWLSRDTR 191 (487)
Q Consensus 124 f~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~d------------G~~~VrVqWFYRPeEt~~~~~g~~~~~~~n 191 (487)
+..+|..|++||+|||.++++++|+|||+|++|+...+ +..+|+|+|||||+||.... .++++
T Consensus 5 ~~~~g~~~~vgD~Vyv~~~~~~ePyyIgrI~e~~~~~~~~~~~~~~~~~~~~~~vrV~wfYRp~Di~~~~-----~~d~r 79 (135)
T cd04710 5 VLKNGELLKVNDHIYMSSEPPGEPYYIGRIMEFVPKHEFPSGIHARVFPASYFQVRLNWYYRPRDISRRV-----VADSR 79 (135)
T ss_pred EccCCeEEeCCCEEEEecCCCCCCCEEEEEEEEEecCCCCccccccccCCCcEEEEEEEEeCHHHcCCcc-----cCCce
Confidence 35689999999999999998889999999999998542 34689999999999986321 46999
Q ss_pred eeEeeCCcccccccccceecEEEEcCccccCC-CCCCCCceEEeeeeecCCcEEee
Q 011389 192 ELFYSFHRDEVPAESVMHKCVVHFVPIHKQLP-NRKQHPGFIVQKVYDTVERKLWK 246 (487)
Q Consensus 192 ELFlS~h~D~iplesI~GKC~V~~~~ey~~lp-~~~~~~~F~Cr~vYD~~~kkl~~ 246 (487)
|||+|+|.|++|+++|.|||+|++..++..+. ....+++|||.++||+.++|+++
T Consensus 80 elf~S~h~d~~p~~si~gKC~V~~~~di~~l~~~~~~~~~Fyf~~lyD~~~~r~~~ 135 (135)
T cd04710 80 LLYASMHSDICPIGSVRGKCTVRHRDQIPDLEEYKKRPNHFYFDQLFDRYILRYYD 135 (135)
T ss_pred EEEEEeeEeeechHHEEeEEEEEEecccchhhhhccCCCEEEEEeeeCcchhhccC
Confidence 99999999999999999999999999887654 23357999999999999998863
No 10
>PF01426 BAH: BAH domain; InterPro: IPR001025 The BAH (bromo-adjacent homology) family contains proteins such as eukaryotic DNA (cytosine-5) methyltransferases IPR001525 from INTERPRO, the origin recognition complex 1 (Orc1) proteins, as well as several proteins involved in transcriptional regulation. The BAH domain appears to act as a protein-protein interaction module specialised in gene silencing, as suggested for example by its interaction within yeast Orc1p with the silent information regulator Sir1p. The BAH module might therefore play an important role by linking DNA methylation, replication and transcriptional regulation [].; GO: 0003677 DNA binding; PDB: 4DA4_A 3PT6_B 3AV6_A 3AV5_A 3AV4_A 3PT9_A 3SWR_A 3PTA_A 1M4Z_A 1ZBX_A ....
Probab=99.92 E-value=1.5e-25 Score=194.30 Aligned_cols=115 Identities=37% Similarity=0.622 Sum_probs=100.3
Q ss_pred eEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCc--eEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccc
Q 011389 129 NKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGS--MMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAES 206 (487)
Q Consensus 129 ~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~--~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iples 206 (487)
++|++||||||.+++...++|||+|.+||++.++. ++|+|+|||||+||.. +. ...+||||+|++++++|+++
T Consensus 1 ~~~~vGD~V~v~~~~~~~~~~v~~I~~i~~~~~~~~~~~~~v~Wf~rp~d~~~---~~--~~~~~Elf~s~~~~~~~~~~ 75 (119)
T PF01426_consen 1 VTYKVGDFVYVKPDDPPEPPYVARIEEIWEDKDGNKEKMVKVRWFYRPEDTSL---GK--TFSPRELFLSDHCDDIPVES 75 (119)
T ss_dssp EEEETTSEEEEECTSTTSEEEEEEEEEEEEETTTSEEEEEEEEEEEEGGGSTT---GG--HSCTTEEEEEEEEEEEEGGG
T ss_pred CEEeCCCEEEEeCCCCCCCCEEEEEEEEEcCCCCCEEEEEEEEEeECcccccc---cc--cCCCCEEEEECcEeEEehhh
Confidence 58999999999999878999999999999998877 9999999999999932 11 23569999999999999999
Q ss_pred cceecEEEEcCccccCCCCC--CCCceEEeeeeecCCcEEeecC
Q 011389 207 VMHKCVVHFVPIHKQLPNRK--QHPGFIVQKVYDTVERKLWKLT 248 (487)
Q Consensus 207 I~GKC~V~~~~ey~~lp~~~--~~~~F~Cr~vYD~~~kkl~~L~ 248 (487)
|.|||.|++..++.+..... .++.|||++.||...++|..++
T Consensus 76 I~gkc~V~~~~~~~~~~~~~~~~~~~F~cr~~yd~~~~~f~~~~ 119 (119)
T PF01426_consen 76 IRGKCNVLHLEDYEQARPYGKEEPDTFFCRYAYDPQKKRFKKLP 119 (119)
T ss_dssp EEEEEEEEEHHHHTTGCCHCHHTTTEEEEEEEEETTTTEEEE-S
T ss_pred EEeeeEEEECCccccccccccCCCCEEEEEEEEeCCcCEEeCCC
Confidence 99999999999988865332 6799999999999999998764
No 11
>cd04721 BAH_plant_1 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.91 E-value=8.6e-25 Score=197.21 Aligned_cols=120 Identities=22% Similarity=0.329 Sum_probs=103.1
Q ss_pred EEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccc
Q 011389 124 FEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVP 203 (487)
Q Consensus 124 f~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~ip 203 (487)
|..||.+|++||||||.+++ .++|||+|.+||++.+|.++|+|+||+||+|+.+..... .+.+||||+|++.+++|
T Consensus 1 ~~r~~~~i~vGD~V~v~~~~--~~~~va~Ie~i~ed~~g~~~v~v~WF~~p~E~~~~~~~~--~~~~~EvFlS~~~d~i~ 76 (130)
T cd04721 1 FCRNGVTISVHDFVYVLSEE--EDRYVAYIEDLYEDKKGSKMVKVRWFHTTDEVGAALSPD--SVNPREIFLSPNLQVIS 76 (130)
T ss_pred CccCCEEEECCCEEEEeCCC--CCcEEEEEEEEEEcCCCCEEEEEEEecCHHHhccccCCC--CCCCCeEEEcCCccccc
Confidence 46799999999999999875 778999999999998999999999999999998743332 26999999999999999
Q ss_pred ccccceecEEEEcCccccCCC----CCCCCceEEeeeeecCCcEEeec
Q 011389 204 AESVMHKCVVHFVPIHKQLPN----RKQHPGFIVQKVYDTVERKLWKL 247 (487)
Q Consensus 204 lesI~GKC~V~~~~ey~~lp~----~~~~~~F~Cr~vYD~~~kkl~~L 247 (487)
+++|.|||+||+..+|.++.. ......|+|++.||....+.+++
T Consensus 77 ~~~I~gk~~Vls~~~y~k~~~~~~~~~~~~~f~C~~~~d~~~~~~fd~ 124 (130)
T cd04721 77 VECIDGLATVLTREHYEKFQSVPKNSSELQAYFCYRQIDNNKVKPFDI 124 (130)
T ss_pred hHHeeeeeEECCHHHHhhhhccccCccccccEEEEEEecCCCCceeee
Confidence 999999999999999988642 12357999999999876655544
No 12
>cd04709 BAH_MTA BAH, or Bromo Adjacent Homology domain, as present in MTA1 and similar proteins. The Metastasis-associated protein MTA1 is part of the NURD (nucleosome remodeling and deacetylating) complex and plays a role in cellular transformation and metastasis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.91 E-value=1.7e-24 Score=202.25 Aligned_cols=117 Identities=21% Similarity=0.326 Sum_probs=100.6
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCC----CC---------------CCCCC
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKG----GG---------------NWLSR 188 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~----~g---------------~~~~~ 188 (487)
++.|+|||||||.++. +.|++||+|++||++.+|.++|+|+|||||+||+... .+ .....
T Consensus 1 ~~~yrvGD~Vy~~~~~-~~Py~I~rI~e~~~~~~~~~~vkV~wfYRp~DI~~~~~~l~~~~r~~~~~~~~~~~~~~~~~~ 79 (164)
T cd04709 1 ANMYRVGDYVYFESSP-NNPYLIRRIEELNKTARGHVEAKVVCYYRRRDIPDSLYQLADQHRRELEEKSDDLTPKQRHQL 79 (164)
T ss_pred CcEEecCCEEEEECCC-CCCCEEEEEEEEEeCCCCCEEEEEEEEEChhHccchhhhhcccccccccccccccchhhhhcc
Confidence 3689999999999884 7788999999999999999999999999999986411 11 11335
Q ss_pred CCCeeEeeCCcccccccccceecEEEEcCccccCCC-CCCCCceEEeeeeecCCcEEe
Q 011389 189 DTRELFYSFHRDEVPAESVMHKCVVHFVPIHKQLPN-RKQHPGFIVQKVYDTVERKLW 245 (487)
Q Consensus 189 ~~nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp~-~~~~~~F~Cr~vYD~~~kkl~ 245 (487)
+.+|||+|.|.+.+|+++|+|||.|++..+|..+.. ....++|||+.+||+.+++|.
T Consensus 80 ~~rELF~S~~~d~~p~~~IrGKC~V~~~~d~~~l~~~~~~~d~Ff~~~~YDP~~k~l~ 137 (164)
T cd04709 80 RHRELFLSRQVETLPATHIRGKCSVTLLNDTESARSYLAREDTFFYSLVYDPEQKTLL 137 (164)
T ss_pred CcceeEEecccccccHHHeeeeEEEEEehhhhhhhhccCCCCEEEEEEEECCCCCeec
Confidence 899999999999999999999999999999988753 335799999999999999995
No 13
>cd04708 BAH_plantDCM_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases (DCM) from plants. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.89 E-value=4.1e-23 Score=198.10 Aligned_cols=124 Identities=27% Similarity=0.382 Sum_probs=104.7
Q ss_pred EEEcCeEEeeCCeEEEcCCC-----------------CCCCCeEEEEeEEeeCCCC------ceEEEEEEeecccccCCC
Q 011389 124 FEFDGNKYELEDPVLLTPED-----------------TNQKPYVAIIKEITQSKDG------SMMVTGQWFYRPEEADRK 180 (487)
Q Consensus 124 f~~dG~~YrVGD~VyV~~e~-----------------~~~~pyIArI~~I~e~~dG------~~~VrVqWFYRPeEt~~~ 180 (487)
|.++|++|++||+|||.|+. ...+++||+|.+|+..+++ ..+|+|+|||||+||..
T Consensus 1 f~~~Gv~Y~vgD~VYv~p~~f~~~~~~~~~~~~G~N~~~~p~~I~qI~ei~~~k~~~~~~~~~~~vrVrwFYRPEdt~~- 79 (202)
T cd04708 1 FVYDGVTYSVGDFLYVSPDAFAEEERERATFKAGRNVGLKAFVVCQVLEIVVEKESKQADVASTQVKVRRFYRPEDVSP- 79 (202)
T ss_pred CcCCCEEEecCCeEEECcccccccccccccccccccCCCCCcEEEEEEEEEecccCCCCCCcceEEEEEEEechhhcCc-
Confidence 57899999999999999981 1357889999999986544 68999999999999853
Q ss_pred CCCCCCCCCCCeeEeeCCcccccccccceecEEEEcCccccCC-CCCCCCceEEeeeeecCCcEEeecCCc
Q 011389 181 GGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFVPIHKQLP-NRKQHPGFIVQKVYDTVERKLWKLTDK 250 (487)
Q Consensus 181 ~~g~~~~~~~nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp-~~~~~~~F~Cr~vYD~~~kkl~~L~dk 250 (487)
....+++.+|||+|++.+++|+.+|.|||.|++..++..+. ....++.|||+..||+.++.|-+||..
T Consensus 80 --~~~y~sd~rely~Sde~~~~~~~~I~GKC~V~~~~d~~~~~~~~~~~~~Ffc~~~Yd~~tg~f~~lP~~ 148 (202)
T cd04708 80 --EKAYASDIREVYYSEDTLTVPVEAVEGKCEVRKKSDLPDSDAPVIFEHVFFCELLYDPAKGSLKQLPPN 148 (202)
T ss_pred --ccceecCceeEEEeccceeechhHcceEEEEEecCcchhhhccccCCCceEEEEEEcCCCCccCCCCch
Confidence 22345699999999999999999999999999998876543 123479999999999999999888776
No 14
>cd04712 BAH_DCM_I BAH, or Bromo Adjacent Homology domain, as present in DNA (Cytosine-5)-methyltransferases (DCM) 1. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.89 E-value=9.6e-23 Score=183.93 Aligned_cols=114 Identities=20% Similarity=0.263 Sum_probs=99.0
Q ss_pred cCeEEeeCCeEEEcCCCCC----------CCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEee
Q 011389 127 DGNKYELEDPVLLTPEDTN----------QKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYS 196 (487)
Q Consensus 127 dG~~YrVGD~VyV~~e~~~----------~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS 196 (487)
.|..|+|||+|+|.++++. .++||++|..||++.+|.++|+|+|||||+||.+.. .+++||||||
T Consensus 2 ~~~~i~vGD~V~v~~d~~~~~~~~~~~~~~~~~i~~V~~~~e~~~g~~~~h~~W~yrp~eTv~g~-----~~~~~ElFLS 76 (130)
T cd04712 2 HGLTIRVGDVVSVERDDADSTTKWNDDHRWLPLVQFVEYMKKGSDGSKMFHGRWLYRGCDTVLGN-----YANERELFLT 76 (130)
T ss_pred CCCEEeCCCEEEEcCCCCCccccccccccccceEEEEEEeeecCCCceEEEEEEEEcchhccccc-----cCCCceEEEe
Confidence 5788999999999998755 489999999999999999999999999999999643 4799999999
Q ss_pred CCccccccc----ccceecEEEEcCccccCCCCCCCCceEEeeeeecCCcEEeecC
Q 011389 197 FHRDEVPAE----SVMHKCVVHFVPIHKQLPNRKQHPGFIVQKVYDTVERKLWKLT 248 (487)
Q Consensus 197 ~h~D~iple----sI~GKC~V~~~~ey~~lp~~~~~~~F~Cr~vYD~~~kkl~~L~ 248 (487)
+||+++++. .|++||.|++...+... ..+..|+|+..|++..+.|..|+
T Consensus 77 d~c~~~~~~~~~~~I~~k~~V~~~~~~~~~---~~~~~F~r~syy~~e~~~F~~l~ 129 (130)
T cd04712 77 NECTCLELDLLSTEIKGVHKVDWSGTPWGK---GLPEFFVRQSYYWPERGAFTSLK 129 (130)
T ss_pred ccccccccccccceeEEEEEEEEecCcCCc---CCCCEEEEEEEECccCCceEcCC
Confidence 999999999 99999999998766531 24566777777787999998875
No 15
>smart00510 TFS2M Domain in the central regions of transcription elongation factor S-II (and elsewhere).
Probab=99.89 E-value=3.2e-23 Score=179.96 Aligned_cols=92 Identities=32% Similarity=0.448 Sum_probs=81.4
Q ss_pred hhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHHHHHH
Q 011389 349 ETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTALEKA 428 (487)
Q Consensus 349 d~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~iE~a 428 (487)
|.+||+|+++||++|+..+..+... ..+..+|.+||.+
T Consensus 1 d~~R~~~~~~L~~al~~~~~~~~~~------------------------------------------~~~~~lA~~IE~~ 38 (102)
T smart00510 1 DKVRDKCQEMLYKALQKISDPEEIE------------------------------------------LDPTELAVQIEAE 38 (102)
T ss_pred ChHHHHHHHHHHHHHHhcCCCCccc------------------------------------------ccHHHHHHHHHHH
Confidence 5799999999999999887655110 1344789999999
Q ss_pred HHHhcCCChHHHHHHHHHHHHhcc--CCHHHHhhhhcCCCCccccccCChhhcCCC
Q 011389 429 SHDTLSLDFQKYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVL 482 (487)
Q Consensus 429 ~~~~~~~~~~~Yk~K~Rsl~fNLK--~Np~Lr~rvl~Gei~p~~l~~Mt~~Ema~~ 482 (487)
+|..++...++|++|+|||+|||| +||+||++||+|+|+|++||+||++|||+.
T Consensus 39 lf~~~~~~~~~Yk~k~Rsl~fNLkd~kN~~Lr~~vl~G~i~p~~lv~Ms~~ElAs~ 94 (102)
T smart00510 39 MFSEFGTTDKKYKNKYRSLYFNLKDKKNPDLRRKVLNGEITPEKLATMTAEELASA 94 (102)
T ss_pred HHHHcCCCcHHHHHHHHHHHHHhcCCCCHHHHHHHHcCCCCHHHHhcCCHHHcCCH
Confidence 999998878899999999999999 899999999999999999999999999974
No 16
>cd04760 BAH_Dnmt1_I BAH, or Bromo Adjacent Homology domain, first copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.88 E-value=8e-23 Score=182.95 Aligned_cols=112 Identities=22% Similarity=0.327 Sum_probs=96.4
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccccccc
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESV 207 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI 207 (487)
|..|.+||+|+|.+++++.++|||+|..||++.+|.+||+|+|||||+||.++.. ++++|||||++|+++++.+|
T Consensus 1 g~~i~vGD~V~v~~~~~~~p~~I~rV~~mfe~~~g~k~~h~rWf~Rg~dTVlG~~-----~~~kEvFlsd~c~d~~l~~I 75 (124)
T cd04760 1 GEELEAGDCVSVKPDDPTKPLYIARVTYMWKDSIGGKMFHAHWFCRGSDTVLGET-----SDPLELFLVDECEDMALSSI 75 (124)
T ss_pred CCEEecCCEEEEecCCCCCCcEEEEEhhheecCCCCcEEEEEEEEECCccccccc-----CCCcEEEeecccCCcchHHh
Confidence 5789999999999988789999999999999999999999999999999996442 69999999999999999999
Q ss_pred ceecEEEEcCcc--------ccCCC---CCCCCceEEeeeeecCCcEE
Q 011389 208 MHKCVVHFVPIH--------KQLPN---RKQHPGFIVQKVYDTVERKL 244 (487)
Q Consensus 208 ~GKC~V~~~~ey--------~~lp~---~~~~~~F~Cr~vYD~~~kkl 244 (487)
.+||+|+..++- ...+. .....+|||++.||+...+|
T Consensus 76 ~~Kv~V~~~~p~~~w~~~~g~~~~~~~~~ddg~tffyq~~yd~~~arf 123 (124)
T cd04760 76 HGKVNVIYKAPSENWSMEGGMDEEDEIFEDDGKTFFYQKWYDPECARF 123 (124)
T ss_pred eeeeEEEEeCCCcchhhhcCCCCccccccCCCCeEEEEEeeChhhhcc
Confidence 999999998765 22221 12357899999999866554
No 17
>PF07500 TFIIS_M: Transcription factor S-II (TFIIS), central domain; InterPro: IPR003618 Transcription factor S-II (TFIIS) is a eukaryotic protein which induces mRNA cleavage by enhancing the intrinsic nuclease activity of RNA polymerase (Pol) II, past template-encoded pause sites. TFIIS shows DNA-binding activity only in the presence of RNA polymerase II []. It is widely distributed being found in mammals, Drosophila, yeast and in the archaebacteria Sulfolobus acidocaldarius []. S-II proteins have a relatively conserved C-terminal region but variable N-terminal region, and some members of this family are expressed in a tissue-specific manner [, ]. TFIIS is a modular factor that comprises an N-terminal domain I, a central domain II, and a C-terminal domain III []. The weakly conserved domain I forms a four-helix bundle and is not required for TFIIS activity. Domain II forms a three-helix bundle, and domain III adopts a zinc-ribbon fold with a thin protruding beta-hairpin. Domain II and the linker between domains II and III are required for Pol II binding, whereas domain III is essential for stimulation of RNA cleavage. TFIIS extends from the polymerase surface via a pore to the internal active site, spanning a distance of 100 Angstroms. Two essential and invariant acidic residues in a TFIIS loop complement the Pol II active site and could position a metal ion and a water molecule for hydrolytic RNA cleavage. TFIIS also induces extensive structural changes in Pol II that would realign nucleic acids in the active centre. This domain is found in the central region of transcription elongation factor S-II and in several hypothetical proteins.; GO: 0006351 transcription, DNA-dependent; PDB: 3PO3_S 1ENW_A 3GTM_S 1Y1V_S 3NDQ_A 2DME_A.
Probab=99.85 E-value=1.3e-21 Score=172.17 Aligned_cols=99 Identities=35% Similarity=0.506 Sum_probs=87.8
Q ss_pred cChhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHHHH
Q 011389 347 TGETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTALE 426 (487)
Q Consensus 347 tgd~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~iE 426 (487)
|++++|++|+++|+++|....... . . +..+..+|.+||
T Consensus 1 ~~~~~R~k~~~~L~~~l~~~~~~~-~---~--------------------------------------~~~~~~lA~~IE 38 (115)
T PF07500_consen 1 TNDKVRDKARKLLYKALQKRSDEQ-D---D--------------------------------------PEDAKELAKEIE 38 (115)
T ss_dssp -TCHHHHHHHHHHHHHHHHCCCCC-C---C--------------------------------------TCCHHHHHHHHH
T ss_pred CCcHHHHHHHHHHHHHHHhcCccc-c---c--------------------------------------hhHHHHHHHHHH
Confidence 789999999999999998875442 1 0 457889999999
Q ss_pred HHHHHhcCCChHHHHHHHHHHHHhcc--CCHHHHhhhhcCCCCccccccCChhhcCCCCCCCC
Q 011389 427 KASHDTLSLDFQKYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVLYCPSW 487 (487)
Q Consensus 427 ~a~~~~~~~~~~~Yk~K~Rsl~fNLK--~Np~Lr~rvl~Gei~p~~l~~Mt~~Ema~~~~~~~ 487 (487)
.++|..|+.+..+|++|+|||+|||| +||.||.+|++|+|+|.+||+||++|||+.-...|
T Consensus 39 ~~lf~~~~~~~~~Y~~k~Rsl~~NLkd~~N~~L~~~il~g~i~p~~lv~ms~~Elas~e~k~~ 101 (115)
T PF07500_consen 39 EALFDKFGSTSKKYKQKFRSLMFNLKDPKNPDLRRRILSGEISPEELVTMSPEELASEELKEE 101 (115)
T ss_dssp HHHHHHHTSTSHHHHHHHHHHHHHHCSSTTCCHHHHHHHSSSTTCHHHHCTTTTTTTSCCCCC
T ss_pred HHHHHHHccCcHHHHHHHHHHHHHhccCCcHHHHHHHHcCCCCHHHHhcCCHHHhCCHHHHHH
Confidence 99999997778899999999999999 89999999999999999999999999999876643
No 18
>TIGR01385 TFSII transcription elongation factor S-II. This model represents eukaryotic transcription elongation factor S-II. This protein allows stalled RNA transcription complexes to perform a cleavage of the nascent RNA and restart at the newly generated 3-prime end.
Probab=99.85 E-value=1.9e-21 Score=197.12 Aligned_cols=95 Identities=23% Similarity=0.332 Sum_probs=83.7
Q ss_pred ccChhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHHH
Q 011389 346 LTGETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTAL 425 (487)
Q Consensus 346 ~tgd~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~i 425 (487)
+|||++||+|+++||+||+..++.+... .++..+|.+|
T Consensus 133 ~t~d~~Rdk~r~~L~~aL~~~~~~~~~~------------------------------------------~~~~~lA~~i 170 (299)
T TIGR01385 133 VTNDKVRDKCRELLYDALAKDSDHPPQS------------------------------------------IDPEAKAIQI 170 (299)
T ss_pred cCCcHHHHHHHHHHHHHHhhcCCCCccc------------------------------------------cCHHHHHHHH
Confidence 6999999999999999999876543110 0233689999
Q ss_pred HHHHHHhcCCChHHHHHHHHHHHHhcc--CCHHHHhhhhcCCCCccccccCChhhcCCC
Q 011389 426 EKASHDTLSLDFQKYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVL 482 (487)
Q Consensus 426 E~a~~~~~~~~~~~Yk~K~Rsl~fNLK--~Np~Lr~rvl~Gei~p~~l~~Mt~~Ema~~ 482 (487)
|.+||..++.++.+|++|||||+|||| +||+||++||+|+|+|++||+||++|||+.
T Consensus 171 E~~~f~~~~~~~~~Yk~k~Rsl~~NLKd~kNp~Lr~~vl~G~i~p~~lv~Ms~eEmas~ 229 (299)
T TIGR01385 171 EELKFNNLGTTEAAYKARYRSIYSNLRDKNNPDLRHNVLTGEITPEKLATMTAEEMASA 229 (299)
T ss_pred HHHHHHHcCCCcHHHHHHHHHHHHHccCCCCHHHHHHHHcCCCCHHHHhcCCHHHcCCH
Confidence 999999999888899999999999998 799999999999999999999999999974
No 19
>cd04720 BAH_Orc1p_Yeast BAH, or Bromo Adjacent Homology domain, as present in Orc1p, which again is part of the Saccharomyces cerevisiae Sir1-origin recognition complex, and as present in Sir3p. The Orc1p BAH doman functions in epigenetic silencing. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.82 E-value=5.8e-20 Score=174.04 Aligned_cols=119 Identities=17% Similarity=0.235 Sum_probs=98.8
Q ss_pred cCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCC-CceEEEEEEeecccccCCCCC-CCCC-----CCCCCeeEeeCCc
Q 011389 127 DGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKD-GSMMVTGQWFYRPEEADRKGG-GNWL-----SRDTRELFYSFHR 199 (487)
Q Consensus 127 dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~d-G~~~VrVqWFYRPeEt~~~~~-g~~~-----~~~~nELFlS~h~ 199 (487)
+|.+|++||+|+|.++. ..++|||+|.+|+.+.. +.+.+.|+|||||.|+..... +.+. ...+||||+|.|.
T Consensus 49 d~~~~~vGD~Vlik~~~-~~~~~V~iI~ei~~~~~~~~v~i~v~Wy~r~~Ei~~~~~~~~~~~~~~~~~~~nElflT~~~ 127 (179)
T cd04720 49 DGLELSVGDTILVKDDV-ANSPSVYLIHEIRLNTLNNEVELWVMWFLRWFEINPARYYKQFDPEFRSESNKNELYLTAEL 127 (179)
T ss_pred CCeEEeCCCEEEEeCCC-CCCCEEEEEEEEEeCCCCCEEEEEEEEcCCHHHcccccccccccchhcccCCCceEEEeccc
Confidence 89999999999999986 48999999999998765 568999999999999964221 1110 2348999999999
Q ss_pred ccccccccceecEEEEcCccccCCC--CCCCCceEEeeeeecCCcEEee
Q 011389 200 DEVPAESVMHKCVVHFVPIHKQLPN--RKQHPGFIVQKVYDTVERKLWK 246 (487)
Q Consensus 200 D~iplesI~GKC~V~~~~ey~~lp~--~~~~~~F~Cr~vYD~~~kkl~~ 246 (487)
+.+++.+|+|||+||+..+|.++.. .....+||||++||+....|..
T Consensus 128 d~i~l~~Ii~k~~Vls~~ef~~~~~~~~~~~~~F~cR~~~d~~~~~F~~ 176 (179)
T cd04720 128 SEIKLKDIIDKANVLSESEFNDLSTDDKNGERTFFCRYACEPDGEEFVW 176 (179)
T ss_pred ceEEhhheeeeEEEecHHHhhhhcccccCCCceEEEEEEEeCCCCeEcc
Confidence 9999999999999999999987642 2346899999999998886644
No 20
>cd04719 BAH_Orc1p_animal BAH, or Bromo Adjacent Homology domain, as present in animal homologs of Saccharomyces cerevisiae Orc1p. Orc1 is part of the Yeast Sir1-origin recognition complex. The Orc1p BAH doman functions in epigenetic silencing. In vertebrates, a similar ORC protein complex exists, which has been shown essential for DNA replication in Xenopus laevis. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.81 E-value=7.3e-20 Score=164.94 Aligned_cols=113 Identities=27% Similarity=0.406 Sum_probs=93.7
Q ss_pred eEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCC---ceEEEEEEeecccccCCCC---CCCCCCCCCCeeEeeCCc---
Q 011389 129 NKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDG---SMMVTGQWFYRPEEADRKG---GGNWLSRDTRELFYSFHR--- 199 (487)
Q Consensus 129 ~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG---~~~VrVqWFYRPeEt~~~~---~g~~~~~~~nELFlS~h~--- 199 (487)
.+|+|||||+|.+++. .++|||+|++|+++.+| ...++|||||||+|+++.. .|+ ..+++|||+++|.
T Consensus 2 ~~i~vGd~VlI~~~d~-~~~yVAkI~~i~e~~~~~~~~~~~~VqWy~R~~Ev~~~~~~~~~~--~~~~~EvF~~~~~~~~ 78 (128)
T cd04719 2 LTIEVGDFVLIEGEDA-DGPDVARILHLYEDGNEDDDPKRAIVQWFSRPSEVPKNKRKLLGR--EPHSQEVFFYSRSSCD 78 (128)
T ss_pred eEEecCCEEEEECCCC-CCCcEeeehhhhccccCCcccceEEEEcccChHHccccchhhccC--CCCCcEEEEecCcccc
Confidence 4799999999999874 88999999999998765 5699999999999997422 222 2489999999987
Q ss_pred ccccccccceecEEEEcCccccCCC--CCCCCceEEeeeeecCCcEE
Q 011389 200 DEVPAESVMHKCVVHFVPIHKQLPN--RKQHPGFIVQKVYDTVERKL 244 (487)
Q Consensus 200 D~iplesI~GKC~V~~~~ey~~lp~--~~~~~~F~Cr~vYD~~~kkl 244 (487)
+++++++|.|+|.|+...+|.+++. ......||+++.+|.+..+.
T Consensus 79 ~~i~~etI~gkc~V~~~~~y~~l~~~~~~~~~~~F~r~~~~~k~~~~ 125 (128)
T cd04719 79 NDIDAETIIGKVRVEPVEPKTDLPETKKKTGGPLFVKRYWDTKTFRS 125 (128)
T ss_pred CcEeHHHcccEEEEEEcCCccchhhhccccCceEEEEEEeccccccc
Confidence 4899999999999999999999883 23456788889988766543
No 21
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.79 E-value=1.9e-20 Score=171.74 Aligned_cols=98 Identities=18% Similarity=0.340 Sum_probs=86.7
Q ss_pred CCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccceecEEEEcCccccCCC
Q 011389 145 NQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFVPIHKQLPN 224 (487)
Q Consensus 145 ~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp~ 224 (487)
...+|||+|.+||++. |..+|+|+|||||+||.++.. ..++.+|||+|+|.|++++++|+|||.||++.+|.++..
T Consensus 50 ~~~~~vArIekiW~~~-G~~~~~grWy~rPEET~~gr~---~~~~~kEvFlS~~~d~~~~~~I~gkC~V~~~keY~k~e~ 125 (148)
T cd04718 50 SGDLWLARIEKLWEEN-GTYWYAARWYTLPEETHMGRQ---PHNLRRELYLTNDFADIEMECILRHCSVKCPKEFRDASN 125 (148)
T ss_pred cCchHHHHHHHHHhcc-CceEEEEEEEeCchhccCccc---cccccceeeeccccccccHHHHhcccEEcCHHHcccccC
Confidence 3678999999999986 999999999999999997443 456999999999999999999999999999999988653
Q ss_pred CCCCCceEEeeeeecCCcEEeec
Q 011389 225 RKQHPGFIVQKVYDTVERKLWKL 247 (487)
Q Consensus 225 ~~~~~~F~Cr~vYD~~~kkl~~L 247 (487)
. ..++|+|+..||...+.|..+
T Consensus 126 ~-g~Dvy~Ce~~Yd~~~~~Fkr~ 147 (148)
T cd04718 126 D-GDDVFLCEYEYDVHWQSFKRL 147 (148)
T ss_pred C-CCceEEEEEEEhhhcCceeec
Confidence 3 568999999999999888654
No 22
>KOG1105 consensus Transcription elongation factor TFIIS/Cofactor of enhancer-binding protein Sp1 [Transcription]
Probab=99.76 E-value=1.1e-18 Score=175.65 Aligned_cols=96 Identities=26% Similarity=0.365 Sum_probs=83.2
Q ss_pred cccChhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHH
Q 011389 345 ALTGETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTA 424 (487)
Q Consensus 345 ~~tgd~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~ 424 (487)
.+++|+.|++|+++||.||....... . . ...+..+|.+
T Consensus 129 ~~~~d~~r~k~~e~l~~al~~~~~~~-~--------------------------~---------------~~~~~~~a~~ 166 (296)
T KOG1105|consen 129 PITNDPVRDKCRELLYAALTTEDDSR-V--------------------------T---------------GADPLELAVQ 166 (296)
T ss_pred CCCCchHHHHHHHHHHHHhccccccc-c--------------------------c---------------CCCHHHHHHH
Confidence 46899999999999999998322111 0 0 2356799999
Q ss_pred HHHHHHHhcCCChHHHHHHHHHHHHhcc--CCHHHHhhhhcCCCCccccccCChhhcCCC
Q 011389 425 LEKASHDTLSLDFQKYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVL 482 (487)
Q Consensus 425 iE~a~~~~~~~~~~~Yk~K~Rsl~fNLK--~Np~Lr~rvl~Gei~p~~l~~Mt~~Ema~~ 482 (487)
||.+||..++.+..+|+++|||++|||| |||+||++||.|+|+|++|++||++|||+-
T Consensus 167 iE~~~~~~~g~~~~kyK~r~RS~~~NLkd~~Np~LR~~vl~G~i~pe~la~mt~eEMaS~ 226 (296)
T KOG1105|consen 167 IEEAIFEKLGNTDSKYKNRYRSRVSNLKDKNNPDLRRNVLTGEISPERLATMTSEEMASE 226 (296)
T ss_pred HHHHHHHHhCCCcHHHHHHHHHHhhccCCCCCHHHHHHHhcCCCCHHHhccCChhhhccH
Confidence 9999999999999999999999999996 799999999999999999999999999973
No 23
>cd04711 BAH_Dnmt1_II BAH, or Bromo Adjacent Homology domain, second copy present in DNA (Cytosine-5)-methyltransferases from Bilateria, Dnmt1 and similar proteins. DNA methylation, or the covalent addition of a methyl group to cytosine within the context of the CpG dinucleotide, has profound effects on the genome. These effects include transcriptional repression via inhibition of transcription factor binding, the recruitment of methyl-binding proteins and their associated chromatin remodeling factors, X chromosome inactivation, imprinting, and the suppression of parasitic DNA sequences. DNA methylation is also essential for proper embryonic development and is an important player in both DNA repair and genome stability. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=99.75 E-value=1.6e-18 Score=156.81 Aligned_cols=114 Identities=18% Similarity=0.216 Sum_probs=88.1
Q ss_pred CCeEEEcCCCCCCCCeEEEEeEEeeCCCC-------ceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccc
Q 011389 134 EDPVLLTPEDTNQKPYVAIIKEITQSKDG-------SMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAES 206 (487)
Q Consensus 134 GD~VyV~~e~~~~~pyIArI~~I~e~~dG-------~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iples 206 (487)
+|+|-=.+-+.+.|++||||++|...+++ .++|+|+|||||+||..+... ..+.+.||||+|+|.+++|+.+
T Consensus 13 ~~~~~~~~~d~~ePy~VgrI~eI~~~k~~~~k~~~~~ikvrV~~fYRPEdi~~g~~~-ayhsDirevy~Sd~~~~~~~~~ 91 (137)
T cd04711 13 SDYIKGSNLDAPEPFRIGRIKEIFCAKRSNGKPNESDIKLRINKFYRPENTHKGFKA-TYHADINMLYWSDEEATVDFSA 91 (137)
T ss_pred ccccccccCCCCCCcEEEEEEEEecCCCCCCCCCccceEEEEEEEeccccccccccc-ccccceeeEEeecceeecChhh
Confidence 34444445556789999999999875432 578999999999999853221 1356789999999999999999
Q ss_pred cceecEEEEcCcccc-CC--CCCCCCceEEeeeeecCCcEEeecC
Q 011389 207 VMHKCVVHFVPIHKQ-LP--NRKQHPGFIVQKVYDTVERKLWKLT 248 (487)
Q Consensus 207 I~GKC~V~~~~ey~~-lp--~~~~~~~F~Cr~vYD~~~kkl~~L~ 248 (487)
|.|||.|++..+... +. ....++.|||+.+||..++.|.++|
T Consensus 92 I~GKC~V~~~~di~~s~~~y~~~gpd~Fyf~~~Y~a~t~~F~d~p 136 (137)
T cd04711 92 VQGRCTVEYGEDLPESVQEYSGGGPDRFYFLEAYNAKTKSFEDPP 136 (137)
T ss_pred ccceEEEEeccccchhHHHHhcCCCcceEEhhhhccccCcccCCC
Confidence 999999997654432 21 2346899999999999999887654
No 24
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=99.52 E-value=1.2e-14 Score=158.28 Aligned_cols=118 Identities=27% Similarity=0.401 Sum_probs=107.6
Q ss_pred EEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccccc
Q 011389 124 FEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVP 203 (487)
Q Consensus 124 f~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~ip 203 (487)
+.++|..|.+||+||+.+..++.++.|++|..+|+..+|..++.+||||||++|.|..++.| ..+|||.+..+.+++
T Consensus 184 ~~i~~~~~~~gd~vlv~~~~d~~~p~v~~Ier~w~~~dg~k~~~~~w~~rP~~T~H~a~r~F---~k~Evfkt~~~~~~~ 260 (629)
T KOG1827|consen 184 VEIDGTKYIVGDYVLVQNPADNLKPIVAQIERLWKLPDGEKWPQGCWIYRPEETVHRADRKF---YKQEVFKTSLYRDDL 260 (629)
T ss_pred ccccCcccccCceeeecCcccccCCceeeecccccCcccccccceeEeeCCccCccccccch---hcccceecccccccH
Confidence 78899999999999999988779999999999999999999999999999999999998888 999999999999999
Q ss_pred ccccceecEEEEcCccccCC--CCCCCCceEEeeeeecCCcEE
Q 011389 204 AESVMHKCVVHFVPIHKQLP--NRKQHPGFIVQKVYDTVERKL 244 (487)
Q Consensus 204 lesI~GKC~V~~~~ey~~lp--~~~~~~~F~Cr~vYD~~~kkl 244 (487)
++-|+|+|.|+++..|.... .....+.|+|++.|+...+.|
T Consensus 261 ~q~l~g~c~v~~~~~yi~~~p~~ls~~dv~lcesRyn~~~K~f 303 (629)
T KOG1827|consen 261 VQRLLGKCYVMKPTEYISGDPENLSEEDVFLCESRYNEQLKKF 303 (629)
T ss_pred HHHhhcceEEeehhHhhhcCcccccccceeeEEeeeccchhhh
Confidence 99999999999999997753 334578999999998765443
No 25
>KOG1634 consensus Predicted transcription factor DATF1, contains PHD and TFS2M domains [Transcription]
Probab=99.02 E-value=7.8e-11 Score=130.80 Aligned_cols=77 Identities=31% Similarity=0.480 Sum_probs=69.3
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHHhcC-CChHHHHHHHHHHHHhcc--CCHHHHhhhhcCCCCccccccCChhhcCCCCC
Q 011389 408 NGKSFIWPDTAIAAVTALEKASHDTLS-LDFQKYNQKLRQLLFNLK--STALLARRLLNGELEPSKILNMSPNELKVLYC 484 (487)
Q Consensus 408 ~~~~~~wp~~v~~~a~~iE~a~~~~~~-~~~~~Yk~K~Rsl~fNLK--~Np~Lr~rvl~Gei~p~~l~~Mt~~Ema~~~~ 484 (487)
+.+.+.||..++. .||..+|..|+ +-+.+|++|+|||+|||| +||.||.+|+.|+|+|++|++|+++|||..-.
T Consensus 262 g~k~~~d~~ll~~---~ie~el~~~fG~gvnkkY~ek~RsL~fNlKDkkN~~lre~v~~~ei~~e~Lv~msaeelAs~eL 338 (778)
T KOG1634|consen 262 GEKQLQDPNLLLE---KIEHELFVLFGLGVNKKYPEKLRSLLFNLKDKKNPELRERVMSGEISAERLVNMSAEELASPEL 338 (778)
T ss_pred ccccccchhhHhh---hhhhhceeccCCcccccchhhhhhhhhccccccchHHHHHHhhcccCHhhhccCCchhhcCchH
Confidence 4667888986544 99999999999 556799999999999996 69999999999999999999999999999988
Q ss_pred CCC
Q 011389 485 PSW 487 (487)
Q Consensus 485 ~~~ 487 (487)
|.|
T Consensus 339 ~~~ 341 (778)
T KOG1634|consen 339 AEW 341 (778)
T ss_pred HHH
Confidence 877
No 26
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=98.77 E-value=6.5e-10 Score=116.93 Aligned_cols=136 Identities=21% Similarity=0.325 Sum_probs=106.6
Q ss_pred eEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCC-------CCC-----------------C
Q 011389 129 NKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRK-------GGG-----------------N 184 (487)
Q Consensus 129 ~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~-------~~g-----------------~ 184 (487)
..|+|||+|||.... ..|+.|-+|+++.++.+|.+..+|..|||..||... ..+ .
T Consensus 4 n~y~vgd~vYf~~ss-s~PYliRrIEELnKTa~GnVeAkvVc~~RRRDIs~~L~~lAD~~ar~~~~y~a~~~a~~~~e~e 82 (693)
T KOG3554|consen 4 NMYRVGDYVYFENSS-SNPYLIRRIEELNKTANGNVEAKVVCYLRRRDISSHLLKLADKHARRFDNYAAPEAAPEATEAE 82 (693)
T ss_pred ccceecceEEEecCC-CChHHHHHHHHHhccccCCcceEEEEEEEccchHHHHHHHHHHHhhhcccccCcccCcccchhh
Confidence 379999999999887 556679999999999999999999999999998630 001 0
Q ss_pred C-----------------CCCCCCeeEeeCCcccccccccceecEEEEcCccccCC-CCCCCCceEEeeeeecCCcEEee
Q 011389 185 W-----------------LSRDTRELFYSFHRDEVPAESVMHKCVVHFVPIHKQLP-NRKQHPGFIVQKVYDTVERKLWK 246 (487)
Q Consensus 185 ~-----------------~~~~~nELFlS~h~D~iplesI~GKC~V~~~~ey~~lp-~~~~~~~F~Cr~vYD~~~kkl~~ 246 (487)
+ +..-.+|||+|-+....|+..|.|||.|....+...+- .....++||+..|||+..++|.
T Consensus 83 ~EEe~e~p~~vdlt~~qrhqLrhrElFlsRQ~EsLPAthIRGKCsV~LLnete~~~~YL~~eDtFfySLVyDP~~kTLL- 161 (693)
T KOG3554|consen 83 IEEESECPAPVDLTEKQRHQLRHRELFLSRQSESLPATHIRGKCSVTLLNETESLQSYLEKEDTFFYSLVYDPNQKTLL- 161 (693)
T ss_pred hhhhccCCCcCCCCHHHHHHHHHHHHHHhhhhccCchhhhccceeEEEecChHHHHhhccccceeEEEeeeccchhhhh-
Confidence 0 11246899999999999999999999999987655432 2335689999999999998884
Q ss_pred cCCcchh---cccchhhhHHHHHH
Q 011389 247 LTDKDYE---DNKQHEIDLLVQKT 267 (487)
Q Consensus 247 L~dkdy~---~~~q~Evd~ll~kt 267 (487)
.|+..+ +..|.+|+..|...
T Consensus 162 -ADkGeIRVG~kYQA~i~e~l~Eg 184 (693)
T KOG3554|consen 162 -ADKGEIRVGEKYQADIPEWLEEG 184 (693)
T ss_pred -ccCcceeecccccccchHHHHhc
Confidence 566543 55677788887644
No 27
>COG5076 Transcription factor involved in chromatin remodeling, contains bromodomain [Chromatin structure and dynamics / Transcription]
Probab=92.28 E-value=0.019 Score=60.42 Aligned_cols=96 Identities=11% Similarity=-0.004 Sum_probs=81.5
Q ss_pred eEEEEcCeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCccc
Q 011389 122 EAFEFDGNKYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDE 201 (487)
Q Consensus 122 ~sf~~dG~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~ 201 (487)
....+.+....+|+++++.+......|.++.+..+|.+.++..+.-++|||||.++.+..... ...+++.+....+.
T Consensus 268 ~~~~i~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~ 344 (371)
T COG5076 268 ESVLITNSQAHVGAWPFLRPVSDEEVPDYYKDIRDPMDLSTKELKLRNNYYRPEETFVRDAKL---FFDNCVMYNGEVTD 344 (371)
T ss_pred hhhcccccccccccccccccCCcccccchhhhhhcccccccchhhhhcccCCCccccccccch---hhhcccccchhhhh
Confidence 344566779999999999998888999999999999988888888999999999777654433 48899999999999
Q ss_pred ccccccceecEEEEcCccc
Q 011389 202 VPAESVMHKCVVHFVPIHK 220 (487)
Q Consensus 202 iplesI~GKC~V~~~~ey~ 220 (487)
+......+.|.|.....+.
T Consensus 345 ~~~~~~~~~~~~~~~~~~~ 363 (371)
T COG5076 345 YYKNANVLEDFVIKKTRLI 363 (371)
T ss_pred hhhhccchhhhHhhhhhhh
Confidence 9999999999998876554
No 28
>PTZ00112 origin recognition complex 1 protein; Provisional
Probab=78.77 E-value=2.1 Score=50.60 Aligned_cols=133 Identities=14% Similarity=0.236 Sum_probs=84.5
Q ss_pred eeeeEEEEcCeEEeeCCeEEEcCCCCC-------------------CCCe---EEEEeEEeeCCC-CceEEEEEEeeccc
Q 011389 119 SHYEAFEFDGNKYELEDPVLLTPEDTN-------------------QKPY---VAIIKEITQSKD-GSMMVTGQWFYRPE 175 (487)
Q Consensus 119 ~~Y~sf~~dG~~YrVGD~VyV~~e~~~-------------------~~py---IArI~~I~e~~d-G~~~VrVqWFYRPe 175 (487)
..|.++.++++.|.+||-|+|..+..+ ...| =|+|-.|+++.. ..+.+.||.||-..
T Consensus 441 ~iye~~~in~~~ys~g~dv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~l~kg~is~fy~~~~~~~~~~e~c~y~d~~ 520 (1164)
T PTZ00112 441 VIYESIQINDVEYSIGDDVLIFCTGNGNTYNGKSGTKKNQNNKNIKENIYQLRKGKISSFYKNTNSNQVEAEVCIYYDQH 520 (1164)
T ss_pred eEEEEEEEcceeeccCCcEEEEEcCCCCccccccCccccccccchhhhhheecccccchhhhcCCCceeeEEEEEEEccc
Confidence 579999999999999999999765422 1112 488999988754 56899999999988
Q ss_pred ccCC---CC----CC----C---CCCCCCCeeEeeC--CcccccccccceecEEEEcCccccCC--CCCCCCceEEeeee
Q 011389 176 EADR---KG----GG----N---WLSRDTRELFYSF--HRDEVPAESVMHKCVVHFVPIHKQLP--NRKQHPGFIVQKVY 237 (487)
Q Consensus 176 Et~~---~~----~g----~---~~~~~~nELFlS~--h~D~iplesI~GKC~V~~~~ey~~lp--~~~~~~~F~Cr~vY 237 (487)
|..- +. .+ . |.....++.||-. |.-.+.+.-|..|..|.....-.... .....+-|.|-+..
T Consensus 521 d~~~i~~~~~~~~~rr~~~~f~~~~d~~~~~~~llgni~f~~~~~~~i~kki~~~ne~~~~~~d~~~~~g~~kflc~~~~ 600 (1164)
T PTZ00112 521 DAQYIKELEEKQKSRRCKADFEVFLDDDTKNFYLLGNIHFKILDAKMILKKIYVYNEKELYDEDKTAKQGKDKFLCTHYL 600 (1164)
T ss_pred cHHHHHHHHHHHHhhhhhhhhhHhcccccceeEEecceeEEEechHhhhhhheeecchhhcccchhhhcccchhhhhHhh
Confidence 7541 10 00 1 1112344545444 33445666788888887643322111 12235779998777
Q ss_pred ecCCcEEeecCCcc
Q 011389 238 DTVERKLWKLTDKD 251 (487)
Q Consensus 238 D~~~kkl~~L~dkd 251 (487)
-....++..+.+.+
T Consensus 601 k~~~~~~~~~~~~~ 614 (1164)
T PTZ00112 601 KEREERICFIQNSE 614 (1164)
T ss_pred hcchhheeeccchh
Confidence 66666676666543
No 29
>PF09926 DUF2158: Uncharacterized small protein (DUF2158); InterPro: IPR019226 This entry represents a family of predominantly prokaryotic proteins with no known function.
Probab=77.71 E-value=3.2 Score=32.55 Aligned_cols=39 Identities=21% Similarity=0.279 Sum_probs=26.6
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeec
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYR 173 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYR 173 (487)
|++||.|.++++. ...-|..|..- ......++.++||--
T Consensus 1 f~~GDvV~LKSGG--p~MTV~~v~~~--~~~~~~~v~C~WFd~ 39 (53)
T PF09926_consen 1 FKIGDVVQLKSGG--PRMTVTEVGPN--AGASGGWVECQWFDG 39 (53)
T ss_pred CCCCCEEEEccCC--CCeEEEEcccc--ccCCCCeEEEEeCCC
Confidence 5799999999976 34445444332 123457999999963
No 30
>cd05834 HDGF_related The PWWP domain is an essential part of the Hepatoma Derived Growth Factor (HDGF) family of proteins, and is necessary for DNA binding by HDGF. This family of endogenous nuclear-targeted mitogens includes HRP (HDGF-related proteins 1, 2, 3, 4, or HPR1, HPR2, HPR3, HPR4, respectively) and lens epithelium-derived growth factor, LEDGF. Members of the HDGF family have been linked to human diseases, and HDGF is a prognostic factor in several types of cancer. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=62.33 E-value=10 Score=31.94 Aligned_cols=43 Identities=14% Similarity=0.091 Sum_probs=34.3
Q ss_pred EEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecc
Q 011389 130 KYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRP 174 (487)
Q Consensus 130 ~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRP 174 (487)
.|.+||.|+-.- .+-|+|-|+|.+.-........+.|+||-..
T Consensus 2 ~f~~GdlVwaK~--kGyp~WPa~I~~~~~~~~~~~~~~V~FfGt~ 44 (83)
T cd05834 2 QFKAGDLVFAKV--KGYPAWPARVDEPEDWKPPGKKYPVYFFGTH 44 (83)
T ss_pred CCCCCCEEEEec--CCCCCCCEEEecccccCCCCCEEEEEEeCCC
Confidence 478999999986 3589999999998754344577999999854
No 31
>cd06080 MUM1_like Mutated melanoma-associated antigen 1 (MUM-1) is a melanoma-associated antigen (MAA). MUM-1 belongs to the mutated or aberrantly expressed type of MAAs, along with antigens such as CDK4, beta-catenin, gp100-in4, p15, and N-acetylglucosaminyltransferase V. It is highly expressed in several types of human cancers. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=55.63 E-value=18 Score=30.65 Aligned_cols=39 Identities=18% Similarity=0.166 Sum_probs=31.3
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecc
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRP 174 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRP 174 (487)
|.+||.|.-.-- +-|+|.|+|.++.. +...+.|.||=-.
T Consensus 1 f~~gdlVWaK~~--g~P~WPa~I~~~~~---~~~k~~V~FfG~~ 39 (80)
T cd06080 1 FEKNDLVWAKIQ--GYPWWPAVIKSISR---KKQKARVNFIGDN 39 (80)
T ss_pred CCCCCEEEEeCC--CCCCCCEEEeeecC---CCCEEEEEEeCCC
Confidence 568999998864 48999999999863 3678899988665
No 32
>PF02172 KIX: KIX domain; InterPro: IPR003101 The nuclear factor CREB activates transcription of target genes in part through direct interactions with the KIX domain of the coactivator CBP in a phosphorylation-dependent manner []. This provides a model for activator:coactivator interactions. The KIX domain of CBP also binds to transactivation domains of other nuclear factors including Myb and Jun.; GO: 0003712 transcription cofactor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2KWF_A 1KDX_A 2LQH_A 2LQI_A 1SB0_A 2AGH_B.
Probab=55.50 E-value=62 Score=27.55 Aligned_cols=65 Identities=14% Similarity=0.191 Sum_probs=44.1
Q ss_pred ChhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHHHHH
Q 011389 348 GETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTALEK 427 (487)
Q Consensus 348 gd~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~iE~ 427 (487)
....|+..+++|+++|--..+........ ...+++.|..||.
T Consensus 11 t~~lR~hlV~KLv~aI~P~pdp~a~~d~r--------------------------------------m~~l~~yarkvE~ 52 (81)
T PF02172_consen 11 TPDLRNHLVHKLVQAIFPTPDPNAMNDPR--------------------------------------MKNLIEYARKVEK 52 (81)
T ss_dssp -HHHHHHHHHHHHHHHS-SSSCCCCCSHH--------------------------------------HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHhhCCCCChhhhhhHH--------------------------------------HHHHHHHHHHHHH
Confidence 36789999999999996543222110000 3578999999999
Q ss_pred HHHHhcCCChHHHHHHHHHHHHhc
Q 011389 428 ASHDTLSLDFQKYNQKLRQLLFNL 451 (487)
Q Consensus 428 a~~~~~~~~~~~Yk~K~Rsl~fNL 451 (487)
.||... .+...|=+-+--.++++
T Consensus 53 ~~fe~A-~sreeYY~llA~kiy~i 75 (81)
T PF02172_consen 53 DMFETA-QSREEYYHLLAEKIYKI 75 (81)
T ss_dssp HHHHC--SSHHHHHHHHHHHHHHH
T ss_pred HHHHHh-ccHHHHHHHHHHHHHHH
Confidence 999875 34557877777766666
No 33
>cd05835 Dnmt3b_related The PWWP domain is an essential component of DNA methyltransferase 3 B (Dnmt3b) which is responsible for establishing DNA methylation patterns during embryogenesis and gametogenesis. In tumorigenesis, DNA methylation by Dnmt3b is known to play a role in the inactivation of tumor suppressor genes. In addition, a point mutation in the PWWP domain of Dnmt3b has been identified in patients with ICF syndrome (immunodeficiency, centromeric instability, and facial anomalies), a rare autosomal recessive disorder characterized by hypomethylation of classical satellite DNA. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=51.77 E-value=17 Score=30.75 Aligned_cols=40 Identities=18% Similarity=0.097 Sum_probs=31.0
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCC---CCceEEEEEEee
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSK---DGSMMVTGQWFY 172 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~---dG~~~VrVqWFY 172 (487)
|.+||.|..+-. +-++|-|+|.+..... ....++.|+||-
T Consensus 1 f~vGDlVWaK~k--g~pwWP~~V~~~~~~~~~~~~~~~~~V~fFG 43 (87)
T cd05835 1 FNVGDLVWGKIK--GFPWWPGRVVSITVTSKRPPVVGMRWVTWFG 43 (87)
T ss_pred CCCCCEEEEecC--CCCCCCeEEechhhcccccCCCCeEEEEEeC
Confidence 578999999864 5899999999986543 124578899986
No 34
>cd05162 PWWP The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes. The function of the PWWP domain is still not known precisely; however, based on the fact that other regions of PWWP-domain proteins are responsible for nuclear localization and DNA-binding, is likely that the PWWP domain acts as a site for protein-protein binding interactions, influencing chromatin remodeling and thereby regulating transcriptional processes. Some PWWP-domain proteins have been linked to cancer or other diseases; some are known to function as growth factors.
Probab=47.07 E-value=25 Score=29.16 Aligned_cols=40 Identities=13% Similarity=0.062 Sum_probs=30.7
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCC------CCceEEEEEEee
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSK------DGSMMVTGQWFY 172 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~------dG~~~VrVqWFY 172 (487)
|++||.|...-. +-+.|-|+|....... .....+.|++|-
T Consensus 1 f~~GdlVwaK~~--g~pwWPa~V~~~~~~~~~~~~~~~~~~~~V~Ffg 46 (87)
T cd05162 1 FRPGDLVWAKMK--GYPWWPALVVDPPKDSKKAKKKAKEGKVLVLFFG 46 (87)
T ss_pred CCCCCEEEEeCC--CCCCCCEEEccccccchhhhccCCCCEEEEEEeC
Confidence 578999999875 4789999999987642 223577888885
No 35
>PF10383 Clr2: Transcription-silencing protein Clr2 ; InterPro: IPR018839 Clr2 (cryptic loci regulator) is a chromatin silencing protein, one of a quartet of proteins forming the core of SHREC, a multienzyme effector complex that mediates hetero-chromatic transcriptional gene silencing in fission yeast []. Clr2 does not have any obvious well-conserved domains but, along with the other core proteins, binds to the histone deacetylase Clr3, and on its own might also have a role in chromatin organisation at the cnt domain, the site of kinetochore assembly.
Probab=44.19 E-value=99 Score=28.51 Aligned_cols=41 Identities=22% Similarity=0.241 Sum_probs=31.7
Q ss_pred eeeeEEEEcCeEEeeCCeEEEcCCC----------CCCCCeEEEEeEEeeC
Q 011389 119 SHYEAFEFDGNKYELEDPVLLTPED----------TNQKPYVAIIKEITQS 159 (487)
Q Consensus 119 ~~Y~sf~~dG~~YrVGD~VyV~~e~----------~~~~pyIArI~~I~e~ 159 (487)
.||..+.++-+.+.+||.|=|++.. ......|-.|.+|...
T Consensus 1 i~y~GiflGAE~I~vGD~VRl~~~~~~~~~~~~~~~~~~tdvMvI~~I~~~ 51 (139)
T PF10383_consen 1 IYYRGIFLGAEMIWVGDAVRLKPLNASPSPNQSDGNPDVTDVMVIDEIQLR 51 (139)
T ss_pred CeECeEEEeeEEEEeCCEEEECccCCCcccccccCCCCceeEEEEeEEEEe
Confidence 3899999999999999999995432 2344578888888754
No 36
>PF11302 DUF3104: Protein of unknown function (DUF3104); InterPro: IPR021453 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=38.74 E-value=67 Score=27.12 Aligned_cols=29 Identities=10% Similarity=0.190 Sum_probs=22.8
Q ss_pred EEeeCCeEEEcCCC-----CCCCCeEEEEeEEee
Q 011389 130 KYELEDPVLLTPED-----TNQKPYVAIIKEITQ 158 (487)
Q Consensus 130 ~YrVGD~VyV~~e~-----~~~~pyIArI~~I~e 158 (487)
-++.||+|.|..+. .+...|+|.|+.+-.
T Consensus 5 ~Vk~Gd~ViV~~~~~~~~~~~~dWWmg~Vi~~~g 38 (75)
T PF11302_consen 5 SVKPGDTVIVQDEQEVGQKQDKDWWMGQVIHCEG 38 (75)
T ss_pred ccCCCCEEEEecCccccccCCCCcEEEEEEEEec
Confidence 36899999999765 235678999998864
No 37
>PF11717 Tudor-knot: RNA binding activity-knot of a chromodomain ; PDB: 2EKO_A 2RO0_A 2RNZ_A 1WGS_A 3E9G_A 3E9F_A 2K3X_A 2K3Y_A 2EFI_A 2F5K_F ....
Probab=38.21 E-value=58 Score=25.12 Aligned_cols=37 Identities=22% Similarity=0.304 Sum_probs=26.1
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEE
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQW 170 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqW 170 (487)
+.+|+.|++.-. ...+|-|+|+++... .|...+.|.+
T Consensus 1 ~~vG~~v~~~~~--~~~~y~A~I~~~r~~-~~~~~YyVHY 37 (55)
T PF11717_consen 1 FEVGEKVLCKYK--DGQWYEAKILDIREK-NGEPEYYVHY 37 (55)
T ss_dssp --TTEEEEEEET--TTEEEEEEEEEEEEC-TTCEEEEEEE
T ss_pred CCcCCEEEEEEC--CCcEEEEEEEEEEec-CCCEEEEEEc
Confidence 468999999872 478999999999884 4444444544
No 38
>cd05840 SPBC215_ISWI_like The PWWP domain is a component of the S. pombe hypothetical protein SPBC215, as well as ISWI complex protein 4. The ISWI (imitation switch) proteins are ATPases responsible for chromatin remodeling in eukaryotes, and SPBC215 is proposed to also bind chromatin. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain proteins seem to be nuclear, often DNA-binding, proteins that function as transcription factors regulating a variety of developmental processes.
Probab=38.03 E-value=33 Score=29.60 Aligned_cols=40 Identities=18% Similarity=0.195 Sum_probs=29.5
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEe---------eCCCCceEEEEEEee
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEIT---------QSKDGSMMVTGQWFY 172 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~---------e~~dG~~~VrVqWFY 172 (487)
|++||.|+..-. +-++|-|+|..=- ....+...+.|+||-
T Consensus 1 f~~GDlVwaK~~--GyPwWPA~V~~~~~~p~~~l~~~~~~~~~~~~V~FFg 49 (93)
T cd05840 1 FQPGDRVLAKVK--GFPAWPAIVVPEEMLPDSVLKGKKKKNKRTYPVMFFP 49 (93)
T ss_pred CCCCCEEEEeCC--CCCCCCEEECChHHCCHHHHhcccCCCCCeEEEEEeC
Confidence 578999999875 4899999998621 122345778888883
No 39
>smart00293 PWWP domain with conserved PWWP motif. conservation of Pro-Trp-Trp-Pro residues
Probab=36.75 E-value=40 Score=26.62 Aligned_cols=40 Identities=10% Similarity=0.031 Sum_probs=29.8
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeCC-------CCceEEEEEEee
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQSK-------DGSMMVTGQWFY 172 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~~-------dG~~~VrVqWFY 172 (487)
|++||.|..+-. +-+.|-|+|..-.... .....+.|++|-
T Consensus 1 f~~GdlVwaK~~--G~p~WPa~V~~~~~~~~~~~~~~~~~~~~~V~Ffg 47 (63)
T smart00293 1 FKPGDLVWAKMK--GFPWWPALVVSPKETPDNIRKRKRFENLYPVLFFG 47 (63)
T ss_pred CCCCCEEEEECC--CCCCCCeEEcCcccCChhHhhccCCCCEEEEEEeC
Confidence 578999999875 4889999999876432 224567777775
No 40
>PRK10708 hypothetical protein; Provisional
Probab=35.22 E-value=84 Score=25.31 Aligned_cols=43 Identities=16% Similarity=0.470 Sum_probs=31.4
Q ss_pred eeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEE-------EEEEeecccc
Q 011389 132 ELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMV-------TGQWFYRPEE 176 (487)
Q Consensus 132 rVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~V-------rVqWFYRPeE 176 (487)
++.|.|.|+.+. .+...|.|..|-.=.+|.+++ .+.||+--.+
T Consensus 2 kvnD~VtVKTDG--~~rR~G~iLavE~F~EG~MyLvaL~dYP~GiWFFNE~~ 51 (62)
T PRK10708 2 KVNDRVTVKTDG--GPRRPGVVLAVEEFSEGTMYLVSLEDYPLGIWFFNEAG 51 (62)
T ss_pred ccccEEEEecCC--CccccceEEEEeeccCcEEEEEEcCcCCCceEEEeccC
Confidence 578999999875 677788888886555676554 4678886544
No 41
>PF08940 DUF1918: Domain of unknown function (DUF1918); InterPro: IPR015035 This domain is found in various hypothetical bacterial proteins, and has no known function. ; PDB: 2A7Y_A.
Probab=35.10 E-value=49 Score=26.62 Aligned_cols=40 Identities=20% Similarity=0.196 Sum_probs=27.1
Q ss_pred eeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEee
Q 011389 132 ELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFY 172 (487)
Q Consensus 132 rVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFY 172 (487)
++||.+.+....-..+...|.|.++.- .+|..=+.|+|--
T Consensus 4 ~vGD~lvv~g~~vg~~~r~GeIveV~g-~dG~PPY~VRw~D 43 (58)
T PF08940_consen 4 SVGDRLVVHGRTVGQPDRHGEIVEVRG-PDGSPPYLVRWDD 43 (58)
T ss_dssp -TTEEEEES-TTTS--EEEEEEEE-S--SSS-S-EEEEETT
T ss_pred CCCCEEEEcCCcCCCCCcEeEEEEEEC-CCCCCCEEEEecC
Confidence 689999999877678889999999975 4777888899964
No 42
>PF00855 PWWP: PWWP domain; InterPro: IPR000313 Upon characterisation of WHSC1, a gene mapping to the Wolf-Hirschhornsyndrome critical region and at its C terminus similar to the Drosophila melanogaster ASH1/trithorax group proteins, a novel protein domain designated PWWP domain was identified []. The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif. It is present in proteins of nuclear origin and plays a role in cell growth and differentiation. Due to its position, the composition of amino acids close to the PWWP motif and the pattern of other domains present it has been suggested that the domain is involved in protein-protein interactions [].; PDB: 3LYI_B 2L89_A 2NLU_A 1RI0_A 1KHC_A 3QKJ_C 2DAQ_A 1N27_A 3PFS_B 3QJ6_A ....
Probab=34.78 E-value=27 Score=28.40 Aligned_cols=40 Identities=15% Similarity=0.063 Sum_probs=28.1
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEeeC---CCCceEEEEEEee
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEITQS---KDGSMMVTGQWFY 172 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~e~---~dG~~~VrVqWFY 172 (487)
|.+||.|...-. +-+.|-|+|...... ......+.|.||-
T Consensus 1 f~~GdlVWaK~~--g~pwWPa~V~~~~~~~~~~~~~~~~~V~Ffg 43 (86)
T PF00855_consen 1 FRPGDLVWAKLK--GYPWWPARVCDPDEKSKKKRKDGHVLVRFFG 43 (86)
T ss_dssp -STTEEEEEEET--TSEEEEEEEEECCHCTSCSSSSTEEEEEETT
T ss_pred CCCCCEEEEEeC--CCCCCceEEeecccccccCCCCCEEEEEecC
Confidence 678999999874 478999999988642 2234566666664
No 43
>PRK13251 transcription attenuation protein MtrB; Provisional
Probab=33.62 E-value=93 Score=26.08 Aligned_cols=48 Identities=13% Similarity=0.063 Sum_probs=36.7
Q ss_pred EEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccceecEEEEc
Q 011389 166 VTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFV 216 (487)
Q Consensus 166 VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~GKC~V~~~ 216 (487)
|.|.=+-|..||.-...- ..+..||......+-.++-.|+||+.|+..
T Consensus 19 V~vIgltrg~dtkfhhtE---kLDkGEVmiaqftehtsaiKirGkA~I~t~ 66 (75)
T PRK13251 19 VNVIGLTRGKDTKFHHTE---KLDKGEVMIAQFTEHTSAIKIRGKAEIQTK 66 (75)
T ss_pred eEEEEEecCCCccchhhh---hcCCCcEEEEEeecceeEEEEeceEEEEee
Confidence 556667788887421221 248999999999999999999999999864
No 44
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=33.17 E-value=30 Score=39.56 Aligned_cols=89 Identities=18% Similarity=0.270 Sum_probs=57.1
Q ss_pred EEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccce
Q 011389 130 KYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVMH 209 (487)
Q Consensus 130 ~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~G 209 (487)
.+..|||+++.+.+ .-+-+| |.-.|-..+|..++...|+.++.++.+.... .|+. .+
T Consensus 375 ~~~~~d~~~~an~~-~~~~~i--~~p~~~~~eg~~~~~t~~~~~~t~t~~s~~~---------~~~~-----------~~ 431 (629)
T KOG1827|consen 375 KLETGDFLLVANSP-LCPRYI--IRPNTPEPEGKNDFSTGWIITSTETTPSEPR---------KFFK-----------YN 431 (629)
T ss_pred cccccceeeecCCC-CCccee--eccCCCCcccccccccceeccCCCCccCCCc---------cccc-----------cc
Confidence 78899999998844 222232 2233444589999999999999999863332 2222 56
Q ss_pred ecEEEEcCccccCCC--CCCCCceEEeeeeecCC
Q 011389 210 KCVVHFVPIHKQLPN--RKQHPGFIVQKVYDTVE 241 (487)
Q Consensus 210 KC~V~~~~ey~~lp~--~~~~~~F~Cr~vYD~~~ 241 (487)
.|.++....+..-+. -...+.+.|...||...
T Consensus 432 ~~~~~~~~~~~~s~~~~~~~~~~~~~~~~p~~~s 465 (629)
T KOG1827|consen 432 RCSSFVKEAFINSPPHTPLSKPLSPIQQIPDLLS 465 (629)
T ss_pred chHHHHHHHhhcCCCCcccCCCcccccccchHhH
Confidence 666666555443321 12357888999997543
No 45
>PF02459 Adeno_terminal: Adenoviral DNA terminal protein; InterPro: IPR003391 The genome of adenovirus contains a protein covalently bound to the 5' end of each strand of the linear DNA molecule []. Since adenovirus DNA replication is initiated at the termini of the DNA molecule it has been proposed that the terminal protein serves as the primer for initiation of replication. However, the priming function now appears to reside in the precursor form of the terminal protein (pTP) found on the 5' ends of nascent DNA strands replicated in vitro [, ] and as a component of DNA-protein complexes isolated from virions of the protease-deficient adenovirus serotype 2 (Ad2) mutant tsl. The pTP is encoded by the leftward-transcribed strand of the viral genome and comprises part of a transcription unit that also encodes the single-strand DNA binding protein [].; GO: 0003677 DNA binding, 0006260 DNA replication
Probab=31.92 E-value=22 Score=39.73 Aligned_cols=7 Identities=29% Similarity=0.506 Sum_probs=3.6
Q ss_pred hhhccCc
Q 011389 66 ERRDKGK 72 (487)
Q Consensus 66 ~~~~~~~ 72 (487)
|||||+.
T Consensus 294 rRrRR~p 300 (548)
T PF02459_consen 294 RRRRRRP 300 (548)
T ss_pred cccCCCC
Confidence 5555554
No 46
>PF10781 DSRB: Dextransucrase DSRB; InterPro: IPR019717 DSRB is a novel dextransucrase which produces a dextran different from the typical dextran, as it contains (1-6) and (1-2) linkages, when this strain is grown in the presence of sucrose [].
Probab=31.17 E-value=1.2e+02 Score=24.46 Aligned_cols=44 Identities=18% Similarity=0.514 Sum_probs=31.6
Q ss_pred eeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEE-------EEEEeeccccc
Q 011389 132 ELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMV-------TGQWFYRPEEA 177 (487)
Q Consensus 132 rVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~V-------rVqWFYRPeEt 177 (487)
++.|.|+|+.+. .+..-|.|..+-.=.+|.+++ .+.||+--.+-
T Consensus 2 kvnD~VtVKTDG--~~rR~G~ilavE~F~EG~MYLvaL~dYP~GiWFFNE~~~ 52 (62)
T PF10781_consen 2 KVNDRVTVKTDG--GPRREGVILAVEPFNEGTMYLVALEDYPAGIWFFNEKDS 52 (62)
T ss_pred ccccEEEEecCC--cccccceEEEEeeccCcEEEEEEcCcCCcceEEEecCCC
Confidence 578999999875 677778888776555675554 46788865543
No 47
>KOG0343 consensus RNA Helicase [RNA processing and modification]
Probab=30.52 E-value=27 Score=39.58 Aligned_cols=40 Identities=18% Similarity=0.165 Sum_probs=19.2
Q ss_pred cccccCCCCCC-CcchhhhhhhccCCCC---CccccccceeecC
Q 011389 73 VREAEKPRNDG-VEDEEEEEEEEEQPQE---DAKPVGELVRFSG 112 (487)
Q Consensus 73 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~---~a~~iG~pvk~~g 112 (487)
.|++++.++++ +++++++.-..|.-.+ +.-|.++|-++..
T Consensus 672 rr~aeea~~~e~e~~e~d~~~~~~~gs~dD~d~s~lPd~dk~~k 715 (758)
T KOG0343|consen 672 RRRAEEANEEEAEAEEEDGDFVDWSGSEDDPDISWLPDPDKVRK 715 (758)
T ss_pred HHHHHhcccccccchhccCchhcccCCcccCCcccCCChhhhhh
Confidence 46666655544 2222222222333222 4567788777654
No 48
>PF00467 KOW: KOW motif; InterPro: IPR005824 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The KOW (Kyprides, Ouzounis, Woese) motif is found in a variety of ribosomal proteins and the bacterial transcription antitermination proteins NusG []. ; PDB: 3BBO_W 2HGJ_X 2HGQ_X 2HGU_X 1NPP_B 1M1G_D 1NPR_A 2XHC_A 2KVQ_G 2JVV_A ....
Probab=27.88 E-value=1e+02 Score=21.13 Aligned_cols=25 Identities=28% Similarity=0.258 Sum_probs=20.9
Q ss_pred eCCeEEEcCCCCCCCCeEEEEeEEeeC
Q 011389 133 LEDPVLLTPEDTNQKPYVAIIKEITQS 159 (487)
Q Consensus 133 VGD~VyV~~e~~~~~pyIArI~~I~e~ 159 (487)
+||.|.|..+. ..-.+|.|.+|...
T Consensus 1 ~Gd~V~V~~G~--~~G~~G~I~~i~~~ 25 (32)
T PF00467_consen 1 VGDTVKVISGP--FKGKIGKIVEIDRS 25 (32)
T ss_dssp TTSEEEESSST--TTTEEEEEEEEETT
T ss_pred CCCEEEEeEcC--CCCceEEEEEEECC
Confidence 59999999875 66699999999855
No 49
>COG5475 Uncharacterized small protein [Function unknown]
Probab=27.13 E-value=1.2e+02 Score=24.38 Aligned_cols=38 Identities=21% Similarity=0.249 Sum_probs=25.7
Q ss_pred CeEEeeCCeEEEcCCCCCCCCeEEEEeEEeeCC-CCceEEEEEEeeccc
Q 011389 128 GNKYELEDPVLLTPEDTNQKPYVAIIKEITQSK-DGSMMVTGQWFYRPE 175 (487)
Q Consensus 128 G~~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~-dG~~~VrVqWFYRPe 175 (487)
+..|++||.|.|+.+.+ .|.-+. ...-++.++||-+-.
T Consensus 2 ~~~FstgdvV~lKsGGP----------~Mtvs~~ss~Gmy~C~Wf~g~g 40 (60)
T COG5475 2 EMSFSTGDVVTLKSGGP----------RMTVSGYSSDGMYECRWFDGYG 40 (60)
T ss_pred CceeecCcEEEeecCCc----------eEEEeccccCCeEEEEEecCCC
Confidence 35789999999998762 222111 122589999998765
No 50
>COG4014 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.80 E-value=1.3e+02 Score=26.33 Aligned_cols=41 Identities=22% Similarity=0.352 Sum_probs=29.5
Q ss_pred eeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEEE---Eeeccccc
Q 011389 132 ELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTGQ---WFYRPEEA 177 (487)
Q Consensus 132 rVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrVq---WFYRPeEt 177 (487)
.|||.|--.+.+ -+|+|.+|.++.+|..||..- -+||+.=+
T Consensus 10 ~VG~avrYvnTg-----TvgrV~dIkkdEdG~~WV~LdstdLwYre~~l 53 (97)
T COG4014 10 KVGDAVRYVNTG-----TVGRVVDIKKDEDGDIWVVLDSTDLWYREHYL 53 (97)
T ss_pred hhcceEEEeecC-----ceeeEEEEEeecCCceEEEEecCCceecccce
Confidence 388876444433 589999999999999998763 35666543
No 51
>PF02081 TrpBP: Tryptophan RNA-binding attenuator protein; InterPro: IPR023558 The tryptophan RNA-binding attenuation protein (TRAP) regulates expression of the tryptophan biosynthetic genes in Bacillus sp. by binding to the leader region of the nascent trp operon mRNA []. The crystal structure of the Trp RNA-binding attenuation protein of Bacillus subtilis has been solved []. TRAP forms an oligomeric ring consisting of 11 single-domain subunits, where each subunit adopts a double-stranded beta-helix structure with the appearance of a beta-sandwich of distinct architecture and jelly-roll fold. The 11 subunits are stabilised by 11 inter-subunit strands, forming a beta-wheel with a large central hole. TRAP is activated by binding to tryptophan in clefts between adjacent beta-strands, which induces conformational changes in the protein. Activated TRAP binds an mRNA target sequence consisting of 11 (G/U)AG repeats, separated by 2-3 spacer nucleotides. The spacer nucleotides do not make direct contact with the TRAP protein, but they do influence the conformation of the RNA, which might influence the specificity of TRAP []. This entry represents the structural domain in the TRAP family of proteins.; PDB: 3ZTE_U 1GTN_H 1UTD_D 1GTF_D 1UTF_F 2ZP9_K 1C9S_Q 2EXT_A 3AQD_T 1QAW_C ....
Probab=25.39 E-value=87 Score=26.28 Aligned_cols=48 Identities=15% Similarity=0.046 Sum_probs=33.6
Q ss_pred EEEEEeecccccCCCCCCCCCCCCCCeeEeeCCcccccccccceecEEEEc
Q 011389 166 VTGQWFYRPEEADRKGGGNWLSRDTRELFYSFHRDEVPAESVMHKCVVHFV 216 (487)
Q Consensus 166 VrVqWFYRPeEt~~~~~g~~~~~~~nELFlS~h~D~iplesI~GKC~V~~~ 216 (487)
|.|.=+-|..||.-...- ..+..||......+-.++-.|+|++.|+..
T Consensus 19 V~ViGlTRG~dtkfhHtE---kLDkGEVmIaQFTehtsaiKiRGkA~I~t~ 66 (75)
T PF02081_consen 19 VTVIGLTRGTDTKFHHTE---KLDKGEVMIAQFTEHTSAIKIRGKAEILTK 66 (75)
T ss_dssp EEEEEEESSSSSSEEEEE---EE-TT-EEEEE-BSSEEEEEEESSEEEEET
T ss_pred eEEEEEecCCcccchhhh---ccCCCcEEEEEeecceEEEEEeeeEEEEec
Confidence 556666777776521111 238899999999999999999999999874
No 52
>smart00739 KOW KOW (Kyprides, Ouzounis, Woese) motif. Motif in ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Probab=24.20 E-value=1.1e+02 Score=19.55 Aligned_cols=25 Identities=24% Similarity=0.296 Sum_probs=19.7
Q ss_pred EeeCCeEEEcCCCCCCCCeEEEEeEEe
Q 011389 131 YELEDPVLLTPEDTNQKPYVAIIKEIT 157 (487)
Q Consensus 131 YrVGD~VyV~~e~~~~~pyIArI~~I~ 157 (487)
+.+||.|.|..+. ..-.+|.|.++.
T Consensus 2 ~~~G~~V~I~~G~--~~g~~g~i~~i~ 26 (28)
T smart00739 2 FEVGDTVRVIAGP--FKGKVGKVLEVD 26 (28)
T ss_pred CCCCCEEEEeECC--CCCcEEEEEEEc
Confidence 5689999999864 556788888875
No 53
>PF04322 DUF473: Protein of unknown function (DUF473); InterPro: IPR007417 This is a family of uncharacterised archaeal proteins.
Probab=22.43 E-value=1.3e+02 Score=27.55 Aligned_cols=40 Identities=23% Similarity=0.372 Sum_probs=28.9
Q ss_pred ceeeeEEEEcC-------eEEeeCCeEEEcCCC-----CCCCCeEEEEeEEe
Q 011389 118 RSHYEAFEFDG-------NKYELEDPVLLTPED-----TNQKPYVAIIKEIT 157 (487)
Q Consensus 118 R~~Y~sf~~dG-------~~YrVGD~VyV~~e~-----~~~~pyIArI~~I~ 157 (487)
+.+|..|.+.. ....+||+|++.+.. ++..-.||+|.++-
T Consensus 19 ~~~~RTiEirSa~N~~~~~~~~~Gd~VFlT~~~~~Dl~~Gt~GiIa~V~~~~ 70 (119)
T PF04322_consen 19 KNHIRTIEIRSAHNVIALESLDPGDRVFLTSVSLEDLTPGTEGIIAEVKKIE 70 (119)
T ss_pred hCCceEEEEEcchheeeeecCCCCCEEEEecCCHHHCCCCCCeEEEEEEEEE
Confidence 45677776543 257899999999875 34556888888874
No 54
>PF13943 WPP: WPP domain
Probab=22.27 E-value=1.4e+02 Score=26.41 Aligned_cols=67 Identities=21% Similarity=0.293 Sum_probs=43.4
Q ss_pred ChhHHHHHHHHHHHHHhhhhcCCcccccccCCCCCCCCCCCCCcccccCccCCccccccCCCCCCCChhHHHHHHHHHHH
Q 011389 348 GETHRDKWLERLLQGLQYICNSADSIHADQNGKGGCKGVDHESEDKSVGTENGSREKGQKNGKSFIWPDTAIAAVTALEK 427 (487)
Q Consensus 348 gd~~RDk~le~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~wp~~v~~~a~~iE~ 427 (487)
...+||..+++|.+.|...|--.... +... ++.+-..|..||.
T Consensus 8 sq~tR~~vv~Rm~~nLss~s~~s~ry----------------------g~l~---------------~eeA~~~Ak~IEe 50 (99)
T PF13943_consen 8 SQRTRDAVVERMTENLSSPSILSKRY----------------------GTLP---------------KEEAEEAAKRIEE 50 (99)
T ss_pred CchHHHHHHHHHHHhhhhhHHHHHHc----------------------CCCC---------------HHHHHHHHHHHHH
Confidence 36789999999999997655222111 1111 6688899999999
Q ss_pred HHHHhcC------C--Ch----HHHHHHHHHHHHhc
Q 011389 428 ASHDTLS------L--DF----QKYNQKLRQLLFNL 451 (487)
Q Consensus 428 a~~~~~~------~--~~----~~Yk~K~Rsl~fNL 451 (487)
.+|..-. + +. +-|-.++=-||.-+
T Consensus 51 ~AF~~A~~~~~~~~d~dg~e~vq~YaKE~SklmLE~ 86 (99)
T PF13943_consen 51 EAFAAANQHYETEPDGDGIEAVQLYAKEISKLMLEV 86 (99)
T ss_pred HHHHHHHhhccCCCCCchHHHHHHHHHHHHHHHHHH
Confidence 9996421 1 11 35777766555443
No 55
>PF09871 DUF2098: Uncharacterized protein conserved in archaea (DUF2098); InterPro: IPR019209 This family of proteins have no known function.
Probab=21.34 E-value=1.9e+02 Score=25.23 Aligned_cols=43 Identities=21% Similarity=0.338 Sum_probs=31.9
Q ss_pred EEeeCCeEEEcCCCCCCCCeEEEEeEEeeCCCCceEEEE---EEeecccccC
Q 011389 130 KYELEDPVLLTPEDTNQKPYVAIIKEITQSKDGSMMVTG---QWFYRPEEAD 178 (487)
Q Consensus 130 ~YrVGD~VyV~~e~~~~~pyIArI~~I~e~~dG~~~VrV---qWFYRPeEt~ 178 (487)
.+.+|.+|--.+.+ -+|.|.+| +..+|..|+.+ .-||||+-+.
T Consensus 2 ~I~vGs~VRY~~TG-----T~G~V~di-K~ed~~~wv~LD~t~L~Yr~~~Le 47 (91)
T PF09871_consen 2 PIKVGSYVRYINTG-----TVGKVVDI-KEEDGETWVLLDSTDLYYRPDYLE 47 (91)
T ss_pred cceeCCEEEECCCC-----eEEEEEEE-EEeCCCeEEEEccCCceeecceeE
Confidence 47889998655544 58999999 44577888877 6778887654
No 56
>cd05837 MSH6_like The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been linked to increased cancer susceptibility, particularly in hereditary nonpolyposis colorectal cancer in humans. The role of the PWWP domain in MSH6 is not clear; MSH6 orthologs found in S. cerevisiae, Caenorhabditis elegans and Arabidopsis thaliana lack the PWWP domain. Histone methyltransferases (HMTases) induce the posttranslational methylation of lysine residues in histones and play a role in apoptosis. In the HMTase Whistle, the PWWP domain is necessary for HMTase activity. The PWWP domain, named for a conserved Pro-Trp-Trp-Pro motif, is a small domain consisting of 100-150 amino acids. The PWWP domain is found in numerous proteins that are involved in cell division, growth and differentiation. Most PWWP-domain pro
Probab=21.29 E-value=96 Score=27.38 Aligned_cols=43 Identities=16% Similarity=0.107 Sum_probs=30.7
Q ss_pred EEeeCCeEEEcCCCCCCCCeEEEEeEEee---------CCCCceEEEEEEeecc
Q 011389 130 KYELEDPVLLTPEDTNQKPYVAIIKEITQ---------SKDGSMMVTGQWFYRP 174 (487)
Q Consensus 130 ~YrVGD~VyV~~e~~~~~pyIArI~~I~e---------~~dG~~~VrVqWFYRP 174 (487)
.|.+||.|...-. +-|.|-|.|..--. .......+.|+||.-.
T Consensus 2 ~~~~GdlVWaK~~--g~PwWPa~V~~~~~~~~~~~~~~~~~~~~~~~V~FFG~~ 53 (110)
T cd05837 2 KYQVGDLVWAKVS--GYPWWPCMVCSDPLLGTYTKTKRNKRKPRQYHVQFFGDN 53 (110)
T ss_pred CCCCCCEEEEeCC--CCCCCCEEEecccccchhhhhhhccCCCCeEEEEEcCCC
Confidence 5889999999875 47899999985211 1233567888888754
No 57
>PRK11445 putative oxidoreductase; Provisional
Probab=20.95 E-value=1.2e+02 Score=31.35 Aligned_cols=34 Identities=24% Similarity=0.270 Sum_probs=26.0
Q ss_pred CCChHHHHHHHHHHHHhc--cC-------CHHHHhhhhcCCCC
Q 011389 434 SLDFQKYNQKLRQLLFNL--KS-------TALLARRLLNGELE 467 (487)
Q Consensus 434 ~~~~~~Yk~K~Rsl~fNL--K~-------Np~Lr~rvl~Gei~ 467 (487)
......|..++|.|..+| |. ||.||+-||.--|.
T Consensus 303 ~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 345 (351)
T PRK11445 303 EKLNTAYWRKTRKLRLKLFGKILKSPFMYNPALRKLIMRSGLA 345 (351)
T ss_pred cchHHHHHHHHHHHHHHHHHHHhcChhhhhHHHHHHHHHhccc
Confidence 334568999999999988 42 99999998754443
Done!