Query psy2137
Match_columns 382
No_of_seqs 301 out of 456
Neff 5.2
Searched_HMMs 46136
Date Fri Aug 16 16:58:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2137.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2137hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3554|consensus 100.0 1.1E-85 2.4E-90 657.9 9.1 259 34-298 94-427 (693)
2 KOG3554|consensus 100.0 7.2E-32 1.6E-36 271.3 3.5 88 282-371 141-228 (693)
3 KOG4329|consensus 99.9 1.4E-24 2.9E-29 214.2 8.5 99 113-215 236-334 (445)
4 cd04709 BAH_MTA BAH, or Bromo 99.9 1.4E-22 3.1E-27 183.6 4.9 42 286-327 121-162 (164)
5 KOG1194|consensus 99.8 5.4E-21 1.2E-25 192.9 6.5 119 77-211 119-239 (534)
6 KOG4167|consensus 99.8 5E-19 1.1E-23 186.3 7.2 114 84-209 536-669 (907)
7 PF01448 ELM2: ELM2 domain; I 99.6 1.7E-16 3.7E-21 119.0 4.6 54 308-363 1-54 (55)
8 KOG2133|consensus 98.9 3.4E-09 7.4E-14 115.4 6.9 216 113-371 123-347 (1229)
9 cd04710 BAH_fungalPHD BAH, or 98.7 6.6E-09 1.4E-13 91.8 2.1 53 43-95 76-130 (135)
10 KOG1194|consensus 98.4 1.2E-07 2.7E-12 97.0 3.1 60 301-363 95-154 (534)
11 PF00249 Myb_DNA-binding: Myb- 98.2 8.4E-07 1.8E-11 64.4 2.4 45 159-204 2-48 (48)
12 smart00717 SANT SANT SWI3, AD 98.2 1.9E-06 4.1E-11 60.3 3.7 46 159-205 2-48 (49)
13 cd04711 BAH_Dnmt1_II BAH, or B 97.9 5.5E-06 1.2E-10 73.4 2.0 47 43-89 73-121 (137)
14 cd00167 SANT 'SWI3, ADA2, N-Co 97.9 1.5E-05 3.2E-10 55.0 3.4 44 160-204 1-45 (45)
15 PF01426 BAH: BAH domain; Int 97.8 4.7E-06 1E-10 69.8 0.9 54 40-93 54-110 (119)
16 cd04708 BAH_plantDCM_II BAH, o 97.5 5.4E-05 1.2E-09 71.3 2.7 54 41-94 83-138 (202)
17 cd04716 BAH_plantDCM_I BAH, or 97.5 5.3E-05 1.1E-09 66.1 1.7 57 37-93 52-112 (122)
18 cd04370 BAH BAH, or Bromo Adja 97.2 0.00021 4.6E-09 59.5 2.3 52 42-93 59-114 (123)
19 KOG2133|consensus 97.1 0.00018 3.9E-09 79.6 1.4 176 31-208 206-450 (1229)
20 cd04714 BAH_BAHCC1 BAH, or Bro 97.1 0.00018 4E-09 62.2 1.0 53 43-95 58-116 (121)
21 KOG1878|consensus 97.0 0.00015 3.3E-09 82.9 -0.7 56 155-211 222-277 (1672)
22 cd04713 BAH_plant_3 BAH, or Br 96.6 0.0014 3.1E-08 58.5 2.7 49 44-93 78-128 (146)
23 smart00439 BAH Bromo adjacent 96.5 0.0016 3.5E-08 54.4 2.3 51 43-93 57-111 (120)
24 KOG4329|consensus 96.4 0.0022 4.8E-08 65.0 3.0 51 305-358 171-221 (445)
25 PF13921 Myb_DNA-bind_6: Myb-l 96.2 0.0048 1E-07 46.2 3.0 41 161-202 1-41 (60)
26 cd04717 BAH_polybromo BAH, or 95.5 0.0083 1.8E-07 51.5 2.3 52 42-93 57-111 (121)
27 TIGR01557 myb_SHAQKYF myb-like 94.9 0.034 7.4E-07 42.4 3.7 39 159-197 4-47 (57)
28 cd04718 BAH_plant_2 BAH, or Br 94.3 0.016 3.4E-07 52.4 0.8 43 44-88 90-132 (148)
29 cd04760 BAH_Dnmt1_I BAH, or Br 93.9 0.04 8.7E-07 48.4 2.5 52 43-94 56-119 (124)
30 COG5118 BDP1 Transcription ini 93.2 0.093 2E-06 53.8 3.9 44 156-200 363-406 (507)
31 cd04721 BAH_plant_1 BAH, or Br 92.4 0.055 1.2E-06 47.6 1.1 37 43-79 61-97 (130)
32 cd04712 BAH_DCM_I BAH, or Brom 91.2 0.17 3.7E-06 44.5 2.8 56 30-93 59-120 (130)
33 smart00401 ZnF_GATA zinc finge 90.9 0.06 1.3E-06 40.2 -0.3 36 254-295 4-39 (52)
34 cd00202 ZnF_GATA Zinc finger D 90.8 0.045 9.8E-07 41.3 -1.1 35 255-295 1-35 (54)
35 COG5259 RSC8 RSC chromatin rem 89.5 0.26 5.7E-06 51.8 2.9 51 159-210 280-330 (531)
36 cd04720 BAH_Orc1p_Yeast BAH, o 88.8 0.22 4.8E-06 46.1 1.6 49 45-93 118-169 (179)
37 KOG4468|consensus 88.8 0.27 5.9E-06 53.0 2.5 43 159-202 89-141 (782)
38 KOG0457|consensus 87.1 0.59 1.3E-05 48.7 3.6 53 145-202 63-116 (438)
39 PF00320 GATA: GATA zinc finge 86.8 0.21 4.5E-06 34.5 0.1 24 256-280 1-24 (36)
40 cd04719 BAH_Orc1p_animal BAH, 86.1 0.57 1.2E-05 41.4 2.5 50 44-93 65-120 (128)
41 KOG4167|consensus 85.2 0.6 1.3E-05 51.5 2.7 73 286-365 494-570 (907)
42 cd04715 BAH_Orc1p_like BAH, or 81.5 0.63 1.4E-05 42.5 0.9 31 45-75 88-123 (159)
43 KOG1279|consensus 80.7 1.6 3.4E-05 46.8 3.6 45 157-202 252-296 (506)
44 PLN03212 Transcription repress 78.5 2.1 4.7E-05 41.8 3.5 43 159-202 79-121 (249)
45 KOG0049|consensus 74.3 3 6.5E-05 45.9 3.5 42 159-201 361-403 (939)
46 PLN03091 hypothetical protein; 73.7 3.9 8.4E-05 43.1 4.1 43 159-202 68-110 (459)
47 cd04760 BAH_Dnmt1_I BAH, or Br 63.2 6.7 0.00015 34.6 2.8 39 261-300 84-122 (124)
48 KOG0048|consensus 57.8 20 0.00044 34.3 5.3 46 150-199 57-102 (238)
49 PF00627 UBA: UBA/TS-N domain; 57.6 13 0.00027 25.4 2.8 21 125-145 17-37 (37)
50 KOG1886|consensus 55.3 7.7 0.00017 41.2 2.1 45 34-78 99-144 (464)
51 smart00165 UBA Ubiquitin assoc 53.5 19 0.00041 24.1 3.2 22 124-145 15-36 (37)
52 KOG2009|consensus 52.6 10 0.00022 41.3 2.6 39 157-196 408-446 (584)
53 cd00194 UBA Ubiquitin Associat 48.2 21 0.00045 24.0 2.7 23 124-146 15-37 (38)
54 PF14555 UBA_4: UBA-like domai 46.9 25 0.00055 24.8 3.1 22 125-146 16-37 (43)
55 PLN03212 Transcription repress 43.5 29 0.00062 34.2 3.8 42 159-201 26-69 (249)
56 PLN03142 Probable chromatin-re 40.9 23 0.0005 41.3 3.2 50 156-206 822-873 (1033)
57 PF01426 BAH: BAH domain; Int 37.7 26 0.00056 28.9 2.3 42 256-304 77-118 (119)
58 PF05891 Methyltransf_PK: AdoM 36.7 12 0.00026 36.0 0.1 65 288-363 78-150 (218)
59 cd04710 BAH_fungalPHD BAH, or 36.3 26 0.00055 31.1 2.1 26 276-301 108-133 (135)
60 PLN03091 hypothetical protein; 36.2 42 0.00091 35.7 3.9 43 159-201 15-58 (459)
61 PF02845 CUE: CUE domain; Int 33.6 58 0.0013 22.7 3.2 23 124-146 17-39 (42)
62 smart00546 CUE Domain that may 32.8 54 0.0012 22.9 2.9 24 124-147 18-41 (43)
63 PF03474 DMA: DMRTA motif; In 31.9 39 0.00085 24.1 2.1 17 129-145 22-38 (39)
64 smart00439 BAH Bromo adjacent 21.4 1.1E+02 0.0023 25.1 3.2 43 254-302 75-117 (120)
65 PF06972 DUF1296: Protein of u 21.0 89 0.0019 24.4 2.4 24 125-148 22-45 (60)
No 1
>KOG3554|consensus
Probab=100.00 E-value=1.1e-85 Score=657.95 Aligned_cols=259 Identities=68% Similarity=1.032 Sum_probs=244.8
Q ss_pred ccChhhhhhhccccccccccccccccccccCceeeeecccchhhhhccCCCCcee-------------------------
Q psy2137 34 ELTNKQKHQLKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLNKEPRSF------------------------- 88 (382)
Q Consensus 34 ~l~~~~~~~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~keDtFf------------------------- 88 (382)
.||++|||||+|||||+|||.|++|++||||||+|++++|.|++.+|+++||+||
T Consensus 94 dlt~~qrhqLrhrElFlsRQ~EsLPAthIRGKCsV~LLnete~~~~YL~~eDtFfySLVyDP~~kTLLADkGeIRVG~kY 173 (693)
T KOG3554|consen 94 DLTEKQRHQLRHRELFLSRQSESLPATHIRGKCSVTLLNETESLQSYLEKEDTFFYSLVYDPNQKTLLADKGEIRVGEKY 173 (693)
T ss_pred CCCHHHHHHHHHHHHHHhhhhccCchhhhccceeEEEecChHHHHhhccccceeEEEeeeccchhhhhccCcceeecccc
Confidence 5999999999999999999999999999999999999999999999999999999
Q ss_pred -----------------------eeecC-------------------cchhhhhccCCCcccCccccccccccccchHHH
Q psy2137 89 -----------------------VVSLP-------------------STFARALDCSSSVKQPSLHMSAAAASRDITLFH 126 (382)
Q Consensus 89 -----------------------LlW~P-------------------g~~~rald~~s~~~~~~l~m~~~~asrd~~l~~ 126 (382)
+||+| |+|+|||||+|+++||+|||++|+||||+||+|
T Consensus 174 QA~i~e~l~EgEeD~req~klEv~VW~ph~pLTDrqIDQflvVARsVGtFARAlDcsSsvrqPsLhmsAAaASRDiTlFH 253 (693)
T KOG3554|consen 174 QADIPEWLEEGEEDDREQSKLEVKVWDPHNPLTDRQIDQFLVVARSVGTFARALDCSSSVRQPSLHMSAAAASRDITLFH 253 (693)
T ss_pred cccchHHHHhccccccccccceeEeecCCCCcchhcchhhehhhhhhhHHHHhhcccccccCcchhhhhhhhcccchhhh
Confidence 78888 899999999999999999999999999999999
Q ss_pred HHHHHHhcCCCHHHHHHhcCCCCCCccccccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccccccC
Q psy2137 127 AMDTLDKHKYSLAEAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTT 206 (382)
Q Consensus 127 AL~~L~~~~ydv~~AL~~L~~~~~p~l~~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~WKKt 206 (382)
||++||+++||+.+|+..|++.++|+||+|+|++||..|..+||+|+.+|||||+.||++|||||++.+||+||||||.|
T Consensus 254 AmdtLhr~~YDl~~Ais~LVPlGGPvLCRDemEEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKtt 333 (693)
T KOG3554|consen 254 AMDTLHRNNYDLSKAISYLVPLGGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTT 333 (693)
T ss_pred HHHHHHHccccHHHHHHHhhcCCCceeehhhhhhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred chHHHHHHHHHHHHhhhcccccCCCCCCCCCCCC----CCCccccCCCC---CCCCccceecccccCccccCCCCCc-cc
Q psy2137 207 DRYVQQKRVKAVEAESKLKQVYIPNYNKPPQGSA----ATPGVVNNNKL---STSGVVVLEIERSFDDYKFGHAFST-RL 278 (382)
Q Consensus 207 ~ry~~~kr~k~~~~~sKlk~v~i~~~~kp~p~~~----~~~~~~~~~~~---~~~~C~~C~t~~S~qWy~~gp~~~~-~~ 278 (382)
+||.||||+|++++++|++|||||+||||||||. ++++ +||..- .+..|++|+|++|.|||+|||+||+ ||
T Consensus 334 dRYvqqKrlKaaeadsKlkqvYIP~ynKPnpnqI~~~n~k~g-~~gtt~~~~~g~~CEsC~ttqs~qWYsWGppnmqcrL 412 (693)
T KOG3554|consen 334 DRYVQQKRLKAAEADSKLKQVYIPTYNKPNPNQISPYNTKPG-MNGTTFQNQDGRACESCYTTQSLQWYSWGPPNMQCRL 412 (693)
T ss_pred hHHHHHHhhhhhhhhhhhheeeccCCCCCCcceecccCCCcC-cccccccCCCCCcccccccccccceeccCCCCccchh
Confidence 9999999999999999999999999999999993 3333 333221 2558999999999999999999999 88
Q ss_pred cccCCCCceeEEEEEEcccc
Q psy2137 279 AMPRDELDTFFYCLVFDPAQ 298 (382)
Q Consensus 279 ~~~~~~~d~f~y~l~ydp~~ 298 (382)
|- .||.||..|.--.
T Consensus 413 Ca-----sCWiyWKKygGLk 427 (693)
T KOG3554|consen 413 CA-----SCWIYWKKYGGLK 427 (693)
T ss_pred hH-----HHHHHHHHhcCcC
Confidence 87 9999999997643
No 2
>KOG3554|consensus
Probab=99.97 E-value=7.2e-32 Score=271.34 Aligned_cols=88 Identities=60% Similarity=0.989 Sum_probs=83.6
Q ss_pred CCCCceeEEEEEEccccccccccccccccCCcccccCCCCcCCCCCCCCCcccCcCcceeeeCCCCCCchhHHHHHHHHh
Q psy2137 282 RDELDTFFYCLVFDPAQKTLLADKGEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHHSLTDKQIDQFLVISR 361 (382)
Q Consensus 282 ~~~~d~f~y~l~ydp~~~tL~ad~GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~P~~~l~D~~ld~yl~~Ar 361 (382)
.+++|||||+|||||+||||||||||||||++|||+|||++.+++.|. ++...+|++||.|+|.|+|+||||||+|||
T Consensus 141 L~~eDtFfySLVyDP~~kTLLADkGeIRVG~kYQA~i~e~l~EgEeD~--req~klEv~VW~ph~pLTDrqIDQflvVAR 218 (693)
T KOG3554|consen 141 LEKEDTFFYSLVYDPNQKTLLADKGEIRVGEKYQADIPEWLEEGEEDD--REQSKLEVKVWDPHNPLTDRQIDQFLVVAR 218 (693)
T ss_pred ccccceeEEEeeeccchhhhhccCcceeecccccccchHHHHhccccc--cccccceeEeecCCCCcchhcchhhehhhh
Confidence 466699999999999999999999999999999999999999998875 788999999999999999999999999999
Q ss_pred hhhhhcccCc
Q psy2137 362 SVGKFQESDR 371 (382)
Q Consensus 362 s~~~fa~~~~ 371 (382)
|||||||+-+
T Consensus 219 sVGtFARAlD 228 (693)
T KOG3554|consen 219 SVGTFARALD 228 (693)
T ss_pred hhhHHHHhhc
Confidence 9999999865
No 3
>KOG4329|consensus
Probab=99.91 E-value=1.4e-24 Score=214.19 Aligned_cols=99 Identities=33% Similarity=0.593 Sum_probs=90.9
Q ss_pred cccccccccchHHHHHHHHHhcCCCHHHHHHhcCCCCCCccccccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcC
Q psy2137 113 MSAAAASRDITLFHAMDTLDKHKYSLAEAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKT 192 (382)
Q Consensus 113 m~~~~asrd~~l~~AL~~L~~~~ydv~~AL~~L~~~~~p~l~~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ks 192 (382)
.+.+.+++|.+ +||+.|.+||||+++||.++..+.+++ ++.+-.||++|++.||+||..||||||+||++.|++|+
T Consensus 236 ~P~gt~vkDnE--qAL~~LvkcnfDteeAlrr~rfnvk~~--rd~l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRs 311 (445)
T KOG4329|consen 236 PPEGTEVKDNE--QALYELVKCNFDTEEALRRLRFNVKTV--RDDLSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRS 311 (445)
T ss_pred CCccccccccH--HHHHHHHHcCCcHHHHHHhcCCcceec--ccccccCCHHHHHHHHHHHHHhcccHHHHHhcccccch
Confidence 45666799999 999999999999999999998775554 78899999999999999999999999999999999999
Q ss_pred hhhhhhhccccccCchHHHHHHH
Q psy2137 193 LKNIIEYYYMWKTTDRYVQQKRV 215 (382)
Q Consensus 193 v~eiVefYY~WKKt~ry~~~kr~ 215 (382)
|++||+|||+|||+.||+++..+
T Consensus 312 vgElVeyYYlWKkSeryd~~~qq 334 (445)
T KOG4329|consen 312 VGELVEYYYLWKKSERYDVFAQQ 334 (445)
T ss_pred HHHHHHHHHHhhcCcchhhHhhh
Confidence 99999999999999999886654
No 4
>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=99.86 E-value=1.4e-22 Score=183.56 Aligned_cols=42 Identities=60% Similarity=0.931 Sum_probs=39.9
Q ss_pred ceeEEEEEEccccccccccccccccCCcccccCCCCcCCCCC
Q psy2137 286 DTFFYCLVFDPAQKTLLADKGEIRVGSKYQSDITPYLGEASK 327 (382)
Q Consensus 286 d~f~y~l~ydp~~~tL~ad~GeIRVG~~yQA~iP~~~~~~~~ 327 (382)
|+|||.++|||++|||+|||||||||++|||+||+|+++++.
T Consensus 121 d~Ff~~~~YDP~~k~l~~~~geirvg~~~qa~~p~~~~~~~~ 162 (164)
T cd04709 121 DTFFYSLVYDPEQKTLLADQGEIRVGPSYQAKLPDLQPFPSP 162 (164)
T ss_pred CEEEEEEEECCCCCeecccceeEEecCcccccCCcccCCCCC
Confidence 899999999999999999999999999999999999997654
No 5
>KOG1194|consensus
Probab=99.82 E-value=5.4e-21 Score=192.86 Aligned_cols=119 Identities=29% Similarity=0.494 Sum_probs=98.8
Q ss_pred hhhccCCCCceeeeecC-cchhh-hhccCCCcccCccccccccccccchHHHHHHHHHhcCCCHHHHHHhcCCCCCCccc
Q psy2137 77 LLSYLNKEPRSFVVSLP-STFAR-ALDCSSSVKQPSLHMSAAAASRDITLFHAMDTLDKHKYSLAEAISSLVPSTGPVLC 154 (382)
Q Consensus 77 l~~yl~keDtFfLlW~P-g~~~r-ald~~s~~~~~~l~m~~~~asrd~~l~~AL~~L~~~~ydv~~AL~~L~~~~~p~l~ 154 (382)
...+..+++...|||.| ..+.+ .|+. .++.|+.-+++++++||++|++|+||++.|+..|..+ +++
T Consensus 119 ~~~~q~rd~~~~liWsp~~~i~D~kL~E---------YI~~A~~rY~i~ieqAL~iL~~h~~d~d~A~~~l~rr-~~~-- 186 (534)
T KOG1194|consen 119 LRKEQQRDHQASLIWSPPLEIQDDKLEE---------YISEAKERYGIPIEQALFILFWHKHDFDLAHADLARR-TEF-- 186 (534)
T ss_pred hhchhhhhhccceeecCcccCcHHHHHH---------HHHHHHHhcCCcHHHHHHHHHhhcccchHHHHHHhhc-CCC--
Confidence 44466677788899999 33332 2332 1455556678889999999999999999999999875 453
Q ss_pred cccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccccccCchHHH
Q psy2137 155 RDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRYVQ 211 (382)
Q Consensus 155 ~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~WKKt~ry~~ 211 (382)
. +.||.+|+.+|+++|.+|||+|++||+ .||+|++++||+|||.|||+..|.-
T Consensus 187 ~---d~WT~Ed~vlFe~aF~~~GK~F~kIrq-~LP~rsLaSlvqyYy~~KK~~~~~s 239 (534)
T KOG1194|consen 187 P---DEWTAEDIVLFEQAFQFFGKDFHKIRQ-ALPHRSLASLVQYYYSWKKTREYDS 239 (534)
T ss_pred c---ccchHHHHHHHHHHHHHhcccHHHHHH-HccCccHHHHHHHHHHHHHHhhHHH
Confidence 2 889999999999999999999999999 8999999999999999999999833
No 6
>KOG4167|consensus
Probab=99.76 E-value=5e-19 Score=186.34 Aligned_cols=114 Identities=27% Similarity=0.442 Sum_probs=92.1
Q ss_pred CCceeeeecC----c---chh-----hhhccCCCcccCccccccccccccchHHHHHHHHHhcCCCHHHHHHhcCCCCC-
Q psy2137 84 EPRSFVVSLP----S---TFA-----RALDCSSSVKQPSLHMSAAAASRDITLFHAMDTLDKHKYSLAEAISSLVPSTG- 150 (382)
Q Consensus 84 eDtFfLlW~P----g---~~~-----rald~~s~~~~~~l~m~~~~asrd~~l~~AL~~L~~~~ydv~~AL~~L~~~~~- 150 (382)
+|..-|||.| + +-. ..|.|++ ++..++||.| .|||+||++++||..||+.|+.++.
T Consensus 536 ~h~a~lvwkpw~~~ei~~~q~rvt~l~nlaCSs---------a~PggGtN~E--lALH~L~EakGnv~vAlE~LLlr~p~ 604 (907)
T KOG4167|consen 536 THKATLVWKPWPELEIHDLQQRVTNLLNLACSS---------ALPGGGTNSE--LALHSLFEAKGNVMVALEMLLLRKPV 604 (907)
T ss_pred chhhhhcccccchhhccccHHHHHHHHHHHhhh---------cCCCCCccHH--HHHHHHHHhcccHHHHHHHHHhcCCC
Confidence 3444499999 1 111 2356765 5556677776 9999999999999999999986521
Q ss_pred -----Cc--cccccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccccccCchH
Q psy2137 151 -----PV--LCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRY 209 (382)
Q Consensus 151 -----p~--l~~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~WKKt~ry 209 (382)
++ ......+.||+.|+++|.+||..|-|||..|++ +|++|||++||+|||.|||..+.
T Consensus 605 ~~~~h~la~Y~Y~gSd~WTp~E~~lF~kA~y~~~KDF~~v~k-m~~~KtVaqCVeyYYtWKK~~~~ 669 (907)
T KOG4167|consen 605 RLKCHPLANYHYAGSDKWTPLERKLFNKALYTYSKDFIFVQK-MVKSKTVAQCVEYYYTWKKIMRL 669 (907)
T ss_pred CccccccceeeecCcccccHHHHHHHHHHHHHhcccHHHHHH-HhccccHHHHHHHHHHHHHhccc
Confidence 11 133667999999999999999999999999999 89999999999999999999775
No 7
>PF01448 ELM2: ELM2 domain; InterPro: IPR000949 The ELM2 (Egl-27 and MTA1 homology 2) domain is a small domain of unknown function. It is found in the MTA1 protein that is part of the NuRD complex []. The domain is usually found to the N terminus of a myb-like DNA binding domain and a GATA binding domain. ELM2, in some instances, is also found associated with the ARID DNA binding domain IPR001606 from INTERPRO. This suggests that ELM2 may also be involved in DNA binding, or perhaps is a protein-protein interaction domain.
Probab=99.64 E-value=1.7e-16 Score=119.01 Aligned_cols=54 Identities=35% Similarity=0.797 Sum_probs=46.9
Q ss_pred cccCCcccccCCCCcCCCCCCCCCcccCcCcceeeeCCCCCCchhHHHHHHHHhhh
Q psy2137 308 IRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHHSLTDKQIDQFLVISRSV 363 (382)
Q Consensus 308 IRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~P~~~l~D~~ld~yl~~Ars~ 363 (382)
||||++|||+||++.+....+. ...+++++|||.|++.++|++|++||.+|||+
T Consensus 1 IrVG~~yQA~IP~~~~~~~~~~--~~~~~~e~lvW~P~~~~~d~~l~~yl~~A~s~ 54 (55)
T PF01448_consen 1 IRVGPEYQAEIPELLPDSERDE--DQEEDEEELVWSPNNPLSDRKLEEYLKVAKSS 54 (55)
T ss_pred CCcCCccCCcCCCCcccccccc--ccccccceEeECCCCCCCHHHHHHHHHHHHhc
Confidence 8999999999999998765442 23345999999999999999999999999986
No 8
>KOG2133|consensus
Probab=98.85 E-value=3.4e-09 Score=115.42 Aligned_cols=216 Identities=16% Similarity=0.077 Sum_probs=153.4
Q ss_pred cccccccccchHHHHHHHHHhcCCCHHHHHHhcCCCCCCccccccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcC
Q psy2137 113 MSAAAASRDITLFHAMDTLDKHKYSLAEAISSLVPSTGPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKT 192 (382)
Q Consensus 113 m~~~~asrd~~l~~AL~~L~~~~ydv~~AL~~L~~~~~p~l~~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ks 192 (382)
-.+..+.|+.|-+.++..+++..||+.++|...+....|.+.. ..|+..+++. . ..+++|.|..++.+-+| .
T Consensus 123 ~g~v~a~rqdT~ls~~~s~~e~~y~~~~~l~~~v~~~~p~lia---~~~~~~~~Kr-~--~~~~~k~s~~~r~~d~P--e 194 (1229)
T KOG2133|consen 123 RGIVYAYRQDTDLSGFQSHDETLYDLRDSLFVEVSQPEPYLIA---AICGFKYTKR-D--DRQVVKLSFYFRADDIP--E 194 (1229)
T ss_pred ccchhhhhccccchhhccccchhhhhhhhhhhhhccCCccccc---cccCcccccc-c--cccccccccccccccCc--c
Confidence 4566678888888899999999999999999998776666555 7899999887 2 89999999999998778 2
Q ss_pred hhhhhhhccccccCchHHHHHHHHHHHHhhhcccccCCCCCCCCCCC----CCCCccccCCCCCCCCc--cceecccccC
Q psy2137 193 LKNIIEYYYMWKTTDRYVQQKRVKAVEAESKLKQVYIPNYNKPPQGS----AATPGVVNNNKLSTSGV--VVLEIERSFD 266 (382)
Q Consensus 193 v~eiVefYY~WKKt~ry~~~kr~k~~~~~sKlk~v~i~~~~kp~p~~----~~~~~~~~~~~~~~~~C--~~C~t~~S~q 266 (382)
++ |+|+|+..-- ++. |..-+.|.+-+ +.+...+.+ -..| +-|....|..
T Consensus 195 t~------y~~~m~pe~A--------------r~e-~~P~~~pq~~sq~l~~s~l~~i~q----ppscp~gk~~~~~skd 249 (1229)
T KOG2133|consen 195 TG------YLNLMKPERA--------------RLE-INPHLCPQPLSQELFNSELQGITQ----PPSCPRGKGIAEYSKD 249 (1229)
T ss_pred cc------cccccCchhh--------------hhc-cCCccCCCcchhhhhcccccCCCC----CCcCCCCCceEEeecc
Confidence 22 8888876522 111 22222332221 112222222 2334 3455558999
Q ss_pred ccccCCCCCccccccCCCCceeEEEEEEccccccccc-cccccccCCcccccCCCCcCCCCCCCCCcccCcCcceeee--
Q psy2137 267 DYKFGHAFSTRLAMPRDELDTFFYCLVFDPAQKTLLA-DKGEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWT-- 343 (382)
Q Consensus 267 Wy~~gp~~~~~~~~~~~~~d~f~y~l~ydp~~~tL~a-d~GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~-- 343 (382)
|..-|..|. ......|+||+++.|.|-.+.++. +.+.|++|..+||-+|.+......+ ..++-.+.+.
T Consensus 250 ~~h~~~~n~----p~~ld~~i~fk~agglpps~k~a~P~~~~~l~gap~~aglph~~~~~~g~-----~s~rp~~~yras 320 (1229)
T KOG2133|consen 250 VRHGGNTNA----PFSLDNDIFFKCAGGLPPSTKPASPTHYAILPGAPFQAGLPHMAECSVGD-----DSDRPLLLYRAS 320 (1229)
T ss_pred cccCCccCC----CCcccceeeeecccCCCCCCCCCCCccccccCCCCccCCCCccccCCCCC-----cccccccccccC
Confidence 988443433 333455899999999999999998 9999999999999999888764433 2334444444
Q ss_pred CCCCCCchhHHHHHHHHhhhhhhcccCc
Q psy2137 344 PHHSLTDKQIDQFLVISRSVGKFQESDR 371 (382)
Q Consensus 344 P~~~l~D~~ld~yl~~Ars~~~fa~~~~ 371 (382)
|+- |--.-+-.||..++++++.|.+.+
T Consensus 321 P~g-~g~~p~p~~i~s~~a~~pga~stp 347 (1229)
T KOG2133|consen 321 PNG-IGSGPEPDYIKSARAYRPGALSTP 347 (1229)
T ss_pred CCc-CCCCCCCcccccccccCCCCCCCC
Confidence 885 555668889999999999998765
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=98.69 E-value=6.6e-09 Score=91.81 Aligned_cols=53 Identities=21% Similarity=0.324 Sum_probs=49.9
Q ss_pred hccccccccccccccccccccCceeeeecccchhhhhccCCCCcee--eeecCcc
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLNKEPRSF--VVSLPST 95 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~keDtFf--LlW~Pg~ 95 (382)
...||||+|.+.|++|+.+|||||+|.+.+|++++..|..++|+|| .+++|.+
T Consensus 76 ~d~relf~S~h~d~~p~~si~gKC~V~~~~di~~l~~~~~~~~~Fyf~~lyD~~~ 130 (135)
T cd04710 76 ADSRLLYASMHSDICPIGSVRGKCTVRHRDQIPDLEEYKKRPNHFYFDQLFDRYI 130 (135)
T ss_pred CCceEEEEEeeEeeechHHEEeEEEEEEecccchhhhhccCCCEEEEEeeeCcch
Confidence 5789999999999999999999999999999999999999999999 8889854
No 10
>KOG1194|consensus
Probab=98.42 E-value=1.2e-07 Score=97.02 Aligned_cols=60 Identities=22% Similarity=0.509 Sum_probs=52.6
Q ss_pred ccccccccccCCcccccCCCCcCCCCCCCCCcccCcCcceeeeCCCCCCchhHHHHHHHHhhh
Q psy2137 301 LLADKGEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHHSLTDKQIDQFLVISRSV 363 (382)
Q Consensus 301 L~ad~GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~P~~~l~D~~ld~yl~~Ars~ 363 (382)
|-...+.||||..|||.||++.|. +.+. .+.+++++|||+|...|.|..|++||.+|++-
T Consensus 95 ~s~~~~~i~vg~eyQA~i~~~~p~-~~~~--q~rd~~~~liWsp~~~i~D~kL~EYI~~A~~r 154 (534)
T KOG1194|consen 95 LSNVDNLIRVGTEYQAVIPPLAPQ-LRKE--QQRDHQASLIWSPPLEIQDDKLEEYISEAKER 154 (534)
T ss_pred hhccCCceeechhhhccCCCCChh-hhch--hhhhhccceeecCcccCcHHHHHHHHHHHHHh
Confidence 456788999999999999999987 4443 67788999999999999999999999999864
No 11
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=98.20 E-value=8.4e-07 Score=64.40 Aligned_cols=45 Identities=31% Similarity=0.494 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHhCCC-chhhhcccCC-CcChhhhhhhccccc
Q psy2137 159 EEWSASEANLFEEALEKYGKD-FNDIRNDFLP-WKTLKNIIEYYYMWK 204 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGKd-F~~I~k~~lp-~Ksv~eiVefYY~WK 204 (382)
..||++|..+|.+++.+||++ |..|.+ .+| +||..+|..+|+.++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~-~~~~~Rt~~qc~~~~~~~~ 48 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAK-RMPGGRTAKQCRSRYQNLL 48 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHH-HHSSSSTHHHHHHHHHHHT
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHH-HcCCCCCHHHHHHHHHhhC
Confidence 469999999999999999999 999999 688 999999999998764
No 12
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.17 E-value=1.9e-06 Score=60.35 Aligned_cols=46 Identities=28% Similarity=0.487 Sum_probs=43.3
Q ss_pred CCCCHHHHHHHHHHHHHhC-CCchhhhcccCCCcChhhhhhhcccccc
Q psy2137 159 EEWSASEANLFEEALEKYG-KDFNDIRNDFLPWKTLKNIIEYYYMWKT 205 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yG-KdF~~I~k~~lp~Ksv~eiVefYY~WKK 205 (382)
..||++|..+|..++.+|| ++|..|.. .+|+|+..+|..+|+.+++
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~-~~~~rt~~~~~~~~~~~~~ 48 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAK-ELPGRTAEQCRERWNNLLK 48 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHH-HcCCCCHHHHHHHHHHHcC
Confidence 4699999999999999999 99999999 7999999999999998765
No 13
>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=97.89 E-value=5.5e-06 Score=73.40 Aligned_cols=47 Identities=19% Similarity=0.348 Sum_probs=42.2
Q ss_pred hccccccccccccccccccccCceeeeecccch-hhhhccC-CCCceee
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNETE-SLLSYLN-KEPRSFV 89 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e-~l~~yl~-keDtFfL 89 (382)
-.-||||.|.+.+++|++.|+|||+|.+..++. ++.+|.. .+|+||.
T Consensus 73 sDirevy~Sd~~~~~~~~~I~GKC~V~~~~di~~s~~~y~~~gpd~Fyf 121 (137)
T cd04711 73 ADINMLYWSDEEATVDFSAVQGRCTVEYGEDLPESVQEYSGGGPDRFYF 121 (137)
T ss_pred cceeeEEeecceeecChhhccceEEEEeccccchhHHHHhcCCCcceEE
Confidence 456999999999999999999999999999997 7999984 4899983
No 14
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=97.86 E-value=1.5e-05 Score=54.98 Aligned_cols=44 Identities=32% Similarity=0.514 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHHhC-CCchhhhcccCCCcChhhhhhhccccc
Q psy2137 160 EWSASEANLFEEALEKYG-KDFNDIRNDFLPWKTLKNIIEYYYMWK 204 (382)
Q Consensus 160 ~WS~eE~~~Fe~al~~yG-KdF~~I~k~~lp~Ksv~eiVefYY~WK 204 (382)
.||++|...|..++.+|| ++|..|.+ .++.|+..+|..+|+..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~-~~~~rs~~~~~~~~~~~~ 45 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAK-ELPGRTPKQCRERWRNLL 45 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHh-HcCCCCHHHHHHHHHHhC
Confidence 499999999999999999 99999999 799999999999998653
No 15
>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=97.84 E-value=4.7e-06 Score=69.80 Aligned_cols=54 Identities=33% Similarity=0.539 Sum_probs=46.4
Q ss_pred hhhhccccccccccccccccccccCceeeeecccchhhhhccC-CCCcee--eeecC
Q psy2137 40 KHQLKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLN-KEPRSF--VVSLP 93 (382)
Q Consensus 40 ~~~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~-keDtFf--LlW~P 93 (382)
++...+||||+|.+.++.|+.+|+|||.|.+.++.+....... .+|+|| ..|+|
T Consensus 54 ~~~~~~~Elf~s~~~~~~~~~~I~gkc~V~~~~~~~~~~~~~~~~~~~F~cr~~yd~ 110 (119)
T PF01426_consen 54 GKTFSPRELFLSDHCDDIPVESIRGKCNVLHLEDYEQARPYGKEEPDTFFCRYAYDP 110 (119)
T ss_dssp GGHSCTTEEEEEEEEEEEEGGGEEEEEEEEEHHHHTTGCCHCHHTTTEEEEEEEEET
T ss_pred cccCCCCEEEEECcEeEEehhhEEeeeEEEECCccccccccccCCCCEEEEEEEEeC
Confidence 3445569999999999999999999999999998888777664 889999 77777
No 16
>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=97.51 E-value=5.4e-05 Score=71.28 Aligned_cols=54 Identities=22% Similarity=0.286 Sum_probs=49.3
Q ss_pred hhhccccccccccccccccccccCceeeeecccchhhhhccCCCCcee--eeecCc
Q psy2137 41 HQLKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLNKEPRSF--VVSLPS 94 (382)
Q Consensus 41 ~~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~keDtFf--LlW~Pg 94 (382)
.....||||+|.+.++.|+.+|.|||.|++.++++++..|...+|+|| ..++|.
T Consensus 83 y~sd~rely~Sde~~~~~~~~I~GKC~V~~~~d~~~~~~~~~~~~~Ffc~~~Yd~~ 138 (202)
T cd04708 83 YASDIREVYYSEDTLTVPVEAVEGKCEVRKKSDLPDSDAPVIFEHVFFCELLYDPA 138 (202)
T ss_pred eecCceeEEEeccceeechhHcceEEEEEecCcchhhhccccCCCceEEEEEEcCC
Confidence 445789999999999999999999999999999999888999999999 788883
No 17
>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=97.45 E-value=5.3e-05 Score=66.05 Aligned_cols=57 Identities=9% Similarity=0.074 Sum_probs=45.1
Q ss_pred hhhhhhhccccccccccccccccccccCceeeeecccchhh--hhccCCCCcee--eeecC
Q psy2137 37 NKQKHQLKQRELFLSRQVETLPATHIRGKCSVTLLNETESL--LSYLNKEPRSF--VVSLP 93 (382)
Q Consensus 37 ~~~~~~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l--~~yl~keDtFf--LlW~P 93 (382)
.++++....||||+|.+.|..|+..|+|||.|.++++.+.+ ..-...++.|| .-|+.
T Consensus 52 ~r~~~~~~~rEvFlS~~~D~~pl~~I~~Kc~V~~~~~~~~~~~~~~~~~~~df~c~~~Y~~ 112 (122)
T cd04716 52 ERQATNHDKKRVFYSEIKNDNPLDCLISKVKILQVPPNVGTKRKKPNSEKCDYYYDMEYCV 112 (122)
T ss_pred ccccccCCCceEEEecccCccchhheeeeeEEEEeCCCCCcccccccCCCceEEEeeEecc
Confidence 44567778999999999999999999999999999988776 33444567776 45543
No 18
>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=97.18 E-value=0.00021 Score=59.53 Aligned_cols=52 Identities=33% Similarity=0.482 Sum_probs=44.2
Q ss_pred hhccccccccccccccccccccCceeeeecccchhhh--hccCCCCcee--eeecC
Q psy2137 42 QLKQRELFLSRQVETLPATHIRGKCSVTLLNETESLL--SYLNKEPRSF--VVSLP 93 (382)
Q Consensus 42 ~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~--~yl~keDtFf--LlW~P 93 (382)
....||||+|.+.++.|+..|+|||.|....+..... .....++.|| ..|+|
T Consensus 59 ~~~~~Elf~s~~~~~i~v~~I~gkc~V~~~~~~~~~~~~~~~~~~~~f~~r~~yd~ 114 (123)
T cd04370 59 FALRRELFLSDHLDEIPVESIIGKCKVLFVSEFEGLKQRPNKIDTDDFFCRLAYDP 114 (123)
T ss_pred ccccceeEEecCccccCHHHhccccEEEechHhhccccccccCCCCeEEEEEEECc
Confidence 3467999999999999999999999999999877663 4666788888 77777
No 19
>KOG2133|consensus
Probab=97.11 E-value=0.00018 Score=79.61 Aligned_cols=176 Identities=22% Similarity=0.306 Sum_probs=112.4
Q ss_pred CccccChhhhhhhccccccccccc-cccccccccCceeeeecccch----hhhhccCCCCcee-----------------
Q psy2137 31 TSKELTNKQKHQLKQRELFLSRQV-ETLPATHIRGKCSVTLLNETE----SLLSYLNKEPRSF----------------- 88 (382)
Q Consensus 31 ~~~~l~~~~~~~~~~ReLf~S~~~-e~~P~t~iRGkC~v~~~~e~e----~l~~yl~keDtFf----------------- 88 (382)
.+.++|+.+..+-..++||.|.-. -+.|.+..||||.+....|.. ....+..+-|+||
T Consensus 206 Ar~e~~P~~~pq~~sq~l~~s~l~~i~qppscp~gk~~~~~skd~~h~~~~n~p~~ld~~i~fk~agglpps~k~a~P~~ 285 (1229)
T KOG2133|consen 206 ARLEINPHLCPQPLSQELFNSELQGITQPPSCPRGKGIAEYSKDVRHGGNTNAPFSLDNDIFFKCAGGLPPSTKPASPTH 285 (1229)
T ss_pred hhhccCCccCCCcchhhhhcccccCCCCCCcCCCCCceEEeecccccCCccCCCCcccceeeeecccCCCCCCCCCCCcc
Confidence 345677877778888999999776 778899999999987555542 2233555677777
Q ss_pred -----------------------------eeec--C-cc----hhhhhccCCCccc--Ccc-cc------ccccccccch
Q psy2137 89 -----------------------------VVSL--P-ST----FARALDCSSSVKQ--PSL-HM------SAAAASRDIT 123 (382)
Q Consensus 89 -----------------------------LlW~--P-g~----~~rald~~s~~~~--~~l-~m------~~~~asrd~~ 123 (382)
++++ | |. ....|...-..+. +++ +| .+.+...+..
T Consensus 286 ~~~l~gap~~aglph~~~~~~g~~s~rp~~~yrasP~g~g~~p~p~~i~s~~a~~pga~stp~~~~~~~t~k~sp~slk~ 365 (1229)
T KOG2133|consen 286 YAILPGAPFQAGLPHMAECSVGDDSDRPLLLYRASPNGIGSGPEPDYIKSARAYRPGALSTPHMLDKQKTAKSSPVSLKL 365 (1229)
T ss_pred ccccCCCCccCCCCccccCCCCCcccccccccccCCCcCCCCCCCcccccccccCCCCCCCCCCCCcccccccccccccC
Confidence 1222 2 00 0000000000000 000 00 1111222333
Q ss_pred HHHHHHHHHhcCCCHHHHHHhcCCCCCCccccccCCCCC--HHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhcc
Q psy2137 124 LFHAMDTLDKHKYSLAEAISSLVPSTGPVLCRDEMEEWS--ASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYY 201 (382)
Q Consensus 124 l~~AL~~L~~~~ydv~~AL~~L~~~~~p~l~~d~~~~WS--~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY 201 (382)
.+.+.--+++.+|.+..|+..+...+.- | .......| .++.+.|-.+...+||+|..|.++.++..+-.+++-|||
T Consensus 366 ~~~spl~~~k~~~e~~aa~se~aaa~~~-l-st~~q~~SP~pd~~~gf~~~phsvg~p~s~~hk~q~p~~tqpqlpS~y~ 443 (1229)
T KOG2133|consen 366 MDSSPLQLHKRGYEIDAALSELAAADSS-L-STDVQNMSPIPDDAKGFASGPHSVGKPFSRIHKEQLPHHTQPQLPSYYY 443 (1229)
T ss_pred CCccccchhhccccchhhhhhhhhcccc-c-ccccCCCCCCcccccccccCccccCCccccchhccCccccCCCCchhhh
Confidence 3445556778889998888888654322 1 12234445 889999999999999999999998899999999999999
Q ss_pred ccccCch
Q psy2137 202 MWKTTDR 208 (382)
Q Consensus 202 ~WKKt~r 208 (382)
+||+|+-
T Consensus 444 lw~QtPp 450 (1229)
T KOG2133|consen 444 LWKQTPP 450 (1229)
T ss_pred hhccCCC
Confidence 9999975
No 20
>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=97.08 E-value=0.00018 Score=62.20 Aligned_cols=53 Identities=25% Similarity=0.253 Sum_probs=42.8
Q ss_pred hccccccccccccccccccccCceeeeecccchhhhhcc----CCCCcee--eeecCcc
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYL----NKEPRSF--VVSLPST 95 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl----~keDtFf--LlW~Pg~ 95 (382)
...+|||+|.+.|+.|+..|.|||.|.++.+...+..+. ..+|.|+ .-|+|.+
T Consensus 58 ~~~~EvF~S~~~d~~~~~~I~gkc~V~~~~ey~~~~~~~~~~~~~~d~~~Ce~~yn~~~ 116 (121)
T cd04714 58 HGEKELFASDHQDENSVQTIEHKCYVLTFAEYERLARVKKKPQDGVDFYYCAGTYNPDT 116 (121)
T ss_pred CCCCceEecCCcccccHHHhCcccEEEehhHheecccccCCCCcCCCEEEEeccCCCCc
Confidence 567999999999999999999999999999887766554 4455555 6677754
No 21
>KOG1878|consensus
Probab=96.96 E-value=0.00015 Score=82.89 Aligned_cols=56 Identities=32% Similarity=0.655 Sum_probs=52.8
Q ss_pred cccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccccccCchHHH
Q psy2137 155 RDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRYVQ 211 (382)
Q Consensus 155 ~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~WKKt~ry~~ 211 (382)
++.|+.|+++|++.|..-|.+|-|+|+.|.. |+.-||+.+||-|||+-||+..|+.
T Consensus 222 ~~~~n~Ws~~Ek~~fk~rf~~H~knf~~~as-~~erkSv~d~vlfyy~nkkte~yk~ 277 (1672)
T KOG1878|consen 222 RQRMNEWSPEEKELFKSRFAQHVKNFGLIAS-FFERKSVSDCVLFYYLNKKTENYKK 277 (1672)
T ss_pred HHHhhhccccccccccchhhhcCcchhhhhh-hhcccchhhceeeeeecccchhHHh
Confidence 3578999999999999999999999999999 9999999999999999999999844
No 22
>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=96.59 E-value=0.0014 Score=58.53 Aligned_cols=49 Identities=20% Similarity=0.272 Sum_probs=40.0
Q ss_pred ccccccccccccccccccccCceeeeecccchhhhhccCCCCcee--eeecC
Q psy2137 44 KQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLNKEPRSF--VVSLP 93 (382)
Q Consensus 44 ~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~keDtFf--LlW~P 93 (382)
..||||+|.+.+..|+..|.|||.|..+++-..++.. ...++|| ..|++
T Consensus 78 ~~~ElF~S~~~d~~~~~~I~gkc~V~~~~~~~~~~~~-~~~~~F~cr~~yD~ 128 (146)
T cd04713 78 DPRELFYSFHRDEVPAESVLHPCKVAFVPKGKQIPLR-KGHSGFIVRRVYDN 128 (146)
T ss_pred CCCeEEEeCCCCcCCHHHCcceeEEEECCccccCCcc-CCCCeEEEEEEEcC
Confidence 3599999999999999999999999987765444432 3567888 89998
No 23
>smart00439 BAH Bromo adjacent homology domain.
Probab=96.48 E-value=0.0016 Score=54.36 Aligned_cols=51 Identities=27% Similarity=0.409 Sum_probs=41.7
Q ss_pred hccccccccccccccccccccCceeeeecccchhhhhccC--CCCcee--eeecC
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLN--KEPRSF--VVSLP 93 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~--keDtFf--LlW~P 93 (382)
...+|||+|.+.++.|+..|.|||.|....+......... .+++|| ..|++
T Consensus 57 ~~~~Elf~s~~~~~i~~~~I~~kc~V~~~~~~~~~~~~~~~~~~~~f~cr~~yd~ 111 (120)
T smart00439 57 FDKNEVFLSDEYDTVPLSDIIGKCNVLSKSDYPGLRPEGKIGEPDVFFCESLYDP 111 (120)
T ss_pred CCCcceEEEccCccCChHHeeeEEEEEEcchhcccccccCCCCCCeEEEEEEEcc
Confidence 4679999999999999999999999999888765554332 578888 67776
No 24
>KOG4329|consensus
Probab=96.40 E-value=0.0022 Score=65.03 Aligned_cols=51 Identities=27% Similarity=0.526 Sum_probs=37.9
Q ss_pred ccccccCCcccccCCCCcCCCCCCCCCcccCcCcceeeeCCCCCCchhHHHHHH
Q psy2137 305 KGEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHHSLTDKQIDQFLV 358 (382)
Q Consensus 305 ~GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~P~~~l~D~~ld~yl~ 358 (382)
+-+|+||+.|||+||.+.-..-.+. --.++-..|+|.|.+ |..+++..||.
T Consensus 171 Kk~ImVg~~fQAdip~~~~~~~e~~--~~yenedqllwDps~-lpedEVie~l~ 221 (445)
T KOG4329|consen 171 KKEIMVGVLFQADIPLGNEATVEEE--KRYENEDQLLWDPSN-LPEDEVIEFLL 221 (445)
T ss_pred hhheeeccchhccccchhhhhhhhc--ccccccceeeecccc-CchHHHHHHHH
Confidence 5699999999999999875311111 123566789999998 78888888864
No 25
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=96.16 E-value=0.0048 Score=46.24 Aligned_cols=41 Identities=29% Similarity=0.503 Sum_probs=35.4
Q ss_pred CCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccc
Q psy2137 161 WSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 161 WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~ 202 (382)
||++|..+..+++..||.++..|.+ +|++|+..+|...|+.
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~-~l~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAE-HLGNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHH-HSTTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHH-HHCcCCHHHHHHHHHH
Confidence 9999999999999999999999999 6898999999887776
No 26
>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=95.53 E-value=0.0083 Score=51.49 Aligned_cols=52 Identities=23% Similarity=0.219 Sum_probs=39.6
Q ss_pred hhccccccccccccccccccccCceeeeecccchhhhhcc-CCCCcee--eeecC
Q psy2137 42 QLKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYL-NKEPRSF--VVSLP 93 (382)
Q Consensus 42 ~~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl-~keDtFf--LlW~P 93 (382)
.+..+|||+|.+.|+.|+..|.|||.|..+.+......-. +.+|.|+ ..|+|
T Consensus 57 ~~~~~Evfls~~~d~~~~~~I~~kc~Vl~~~~y~~~~p~~~~~~dvy~ce~~y~~ 111 (121)
T cd04717 57 KFYKNEVFKSPLYETVPVEEIVGKCAVMDVKDYIKGRPTEISEEDVYVCESRYNE 111 (121)
T ss_pred ccccCceEEcCccccccHHHhcCeeEEEehHHHhcCCCCCCCCCCEEEEeEEECc
Confidence 4567999999999999999999999999988765443221 2346676 66666
No 27
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=94.91 E-value=0.034 Score=42.41 Aligned_cols=39 Identities=21% Similarity=0.308 Sum_probs=31.2
Q ss_pred CCCCHHHHHHHHHHHHHhCC-Cc---hhhhcccCCCc-Chhhhh
Q psy2137 159 EEWSASEANLFEEALEKYGK-DF---NDIRNDFLPWK-TLKNII 197 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGK-dF---~~I~k~~lp~K-sv~eiV 197 (382)
-.||++|..+|.+|+..+|. +. ..|...+..++ |..+|-
T Consensus 4 ~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~ 47 (57)
T TIGR01557 4 VVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVA 47 (57)
T ss_pred CCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHH
Confidence 57999999999999999998 88 88877444455 665553
No 28
>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=94.33 E-value=0.016 Score=52.41 Aligned_cols=43 Identities=21% Similarity=0.278 Sum_probs=34.0
Q ss_pred ccccccccccccccccccccCceeeeecccchhhhhccCCCCcee
Q psy2137 44 KQRELFLSRQVETLPATHIRGKCSVTLLNETESLLSYLNKEPRSF 88 (382)
Q Consensus 44 ~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~yl~keDtFf 88 (382)
-.||||+|.+.|+.|+..|-|||.|...+|...+. ...+|.|+
T Consensus 90 ~~kEvFlS~~~d~~~~~~I~gkC~V~~~keY~k~e--~~g~Dvy~ 132 (148)
T cd04718 90 LRRELYLTNDFADIEMECILRHCSVKCPKEFRDAS--NDGDDVFL 132 (148)
T ss_pred ccceeeeccccccccHHHHhcccEEcCHHHccccc--CCCCceEE
Confidence 36999999999999999999999999877754322 22456666
No 29
>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=93.95 E-value=0.04 Score=48.42 Aligned_cols=52 Identities=23% Similarity=0.251 Sum_probs=40.5
Q ss_pred hccccccccccccccccccccCceeeeecccc----------hhhhhccCCCCcee--eeecCc
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNET----------ESLLSYLNKEPRSF--VVSLPS 94 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~----------e~l~~yl~keDtFf--LlW~Pg 94 (382)
...||||+|+.-+.+|+..|-|||+|.+...- ++.....+.-+||| +.|+|.
T Consensus 56 ~~~kEvFlsd~c~d~~l~~I~~Kv~V~~~~p~~~w~~~~g~~~~~~~~~ddg~tffyq~~yd~~ 119 (124)
T cd04760 56 SDPLELFLVDECEDMALSSIHGKVNVIYKAPSENWSMEGGMDEEDEIFEDDGKTFFYQKWYDPE 119 (124)
T ss_pred CCCcEEEeecccCCcchHHheeeeEEEEeCCCcchhhhcCCCCccccccCCCCeEEEEEeeChh
Confidence 46799999999999999999999999986632 22233555667888 788883
No 30
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=93.16 E-value=0.093 Score=53.81 Aligned_cols=44 Identities=30% Similarity=0.498 Sum_probs=38.6
Q ss_pred ccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhc
Q psy2137 156 DEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYY 200 (382)
Q Consensus 156 d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefY 200 (382)
.....||..|+..|-+||.++|-||.+|.+ ++|+|+-.+|--=|
T Consensus 363 ~~~~~Ws~~e~ekFYKALs~wGtdF~LIs~-lfP~R~RkqIKaKf 406 (507)
T COG5118 363 KGALRWSKKEIEKFYKALSIWGTDFSLISS-LFPNRERKQIKAKF 406 (507)
T ss_pred CCCCcccHHHHHHHHHHHHHhcchHHHHHH-hcCchhHHHHHHHH
Confidence 345889999999999999999999999999 89999988874433
No 31
>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=92.43 E-value=0.055 Score=47.62 Aligned_cols=37 Identities=27% Similarity=0.419 Sum_probs=31.7
Q ss_pred hccccccccccccccccccccCceeeeecccchhhhh
Q psy2137 43 LKQRELFLSRQVETLPATHIRGKCSVTLLNETESLLS 79 (382)
Q Consensus 43 ~~~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~ 79 (382)
...+|||+|.+.+..|+..|-|||.|....+.+.+..
T Consensus 61 ~~~~EvFlS~~~d~i~~~~I~gk~~Vls~~~y~k~~~ 97 (130)
T cd04721 61 VNPREIFLSPNLQVISVECIDGLATVLTREHYEKFQS 97 (130)
T ss_pred CCCCeEEEcCCccccchHHeeeeeEECCHHHHhhhhc
Confidence 3568999999999999999999999998777665553
No 32
>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=91.24 E-value=0.17 Score=44.54 Aligned_cols=56 Identities=23% Similarity=0.238 Sum_probs=39.1
Q ss_pred CCccccChhhhhhhccccccccccccccccc----cccCceeeeecccchhhhhccCCCCcee--eeecC
Q psy2137 30 GTSKELTNKQKHQLKQRELFLSRQVETLPAT----HIRGKCSVTLLNETESLLSYLNKEPRSF--VVSLP 93 (382)
Q Consensus 30 ~~~~~l~~~~~~~~~~ReLf~S~~~e~~P~t----~iRGkC~v~~~~e~e~l~~yl~keDtFf--LlW~P 93 (382)
|.|+.|.. ....||||+|++-+..|+. .|.|||.|.....-+. ...+|-|+ -++.|
T Consensus 59 p~eTv~g~----~~~~~ElFLSd~c~~~~~~~~~~~I~~k~~V~~~~~~~~----~~~~~~F~r~syy~~ 120 (130)
T cd04712 59 GCDTVLGN----YANERELFLTNECTCLELDLLSTEIKGVHKVDWSGTPWG----KGLPEFFVRQSYYWP 120 (130)
T ss_pred chhccccc----cCCCceEEEeccccccccccccceeEEEEEEEEecCcCC----cCCCCEEEEEEEECc
Confidence 55544433 4467999999999999999 9999999997654332 23445444 55555
No 33
>smart00401 ZnF_GATA zinc finger binding to DNA consensus sequence [AT]GATA[AG].
Probab=90.87 E-value=0.06 Score=40.22 Aligned_cols=36 Identities=8% Similarity=-0.110 Sum_probs=28.5
Q ss_pred CCccceecccccCccccCCCCCccccccCCCCceeEEEEEEc
Q psy2137 254 SGVVVLEIERSFDDYKFGHAFSTRLAMPRDELDTFFYCLVFD 295 (382)
Q Consensus 254 ~~C~~C~t~~S~qWy~~gp~~~~~~~~~~~~~d~f~y~l~yd 295 (382)
..|.+|.++.+++|++ ||.+...||- .|..|+..+.
T Consensus 4 ~~C~~C~~~~T~~WR~-g~~g~~~LCn-----aCgl~~~k~~ 39 (52)
T smart00401 4 RSCSNCGTTETPLWRR-GPSGNKTLCN-----ACGLYYKKHG 39 (52)
T ss_pred CCcCCCCCCCCCcccc-CCCCCCcEee-----cccHHHHHcC
Confidence 5799999999999988 7766666665 8888776643
No 34
>cd00202 ZnF_GATA Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
Probab=90.78 E-value=0.045 Score=41.27 Aligned_cols=35 Identities=9% Similarity=-0.112 Sum_probs=27.9
Q ss_pred CccceecccccCccccCCCCCccccccCCCCceeEEEEEEc
Q psy2137 255 GVVVLEIERSFDDYKFGHAFSTRLAMPRDELDTFFYCLVFD 295 (382)
Q Consensus 255 ~C~~C~t~~S~qWy~~gp~~~~~~~~~~~~~d~f~y~l~yd 295 (382)
.|.+|.++++++|++ ||..-..||- .|+-|+..|.
T Consensus 1 ~C~~C~~~~Tp~WR~-g~~~~~~LCN-----aCgl~~~k~~ 35 (54)
T cd00202 1 ACSNCGTTTTPLWRR-GPSGGSTLCN-----ACGLYWKKHG 35 (54)
T ss_pred CCCCCCCCCCccccc-CCCCcchHHH-----HHHHHHHhcC
Confidence 489999999999999 6644456766 8888887765
No 35
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=89.47 E-value=0.26 Score=51.76 Aligned_cols=51 Identities=27% Similarity=0.492 Sum_probs=44.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccccccCchHH
Q psy2137 159 EEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYMWKTTDRYV 210 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~WKKt~ry~ 210 (382)
..||.+|.-+..+||..||.++.+|.. .|.+|+.-+||.-|-.-=..+.|.
T Consensus 280 k~WS~qE~~LLLEGIe~ygDdW~kVA~-HVgtKt~EqCIl~FL~LPieD~~l 330 (531)
T COG5259 280 KNWSRQELLLLLEGIEMYGDDWDKVAR-HVGTKTKEQCILHFLQLPIEDNYL 330 (531)
T ss_pred ccccHHHHHHHHHHHHHhhhhHHHHHH-HhCCCCHHHHHHHHHcCCcchhhh
Confidence 589999999999999999999999999 599999999998776555445553
No 36
>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=88.84 E-value=0.22 Score=46.12 Aligned_cols=49 Identities=24% Similarity=0.297 Sum_probs=37.8
Q ss_pred cccccccccccccccccccCceeeeecccchhhhhc-cCCCCcee--eeecC
Q psy2137 45 QRELFLSRQVETLPATHIRGKCSVTLLNETESLLSY-LNKEPRSF--VVSLP 93 (382)
Q Consensus 45 ~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~~y-l~keDtFf--LlW~P 93 (382)
.-|||+|.+.+..|+..|-|||.|....+...+..- ...+.+|| ..|+|
T Consensus 118 ~nElflT~~~d~i~l~~Ii~k~~Vls~~ef~~~~~~~~~~~~~F~cR~~~d~ 169 (179)
T cd04720 118 KNELYLTAELSEIKLKDIIDKANVLSESEFNDLSTDDKNGERTFFCRYACEP 169 (179)
T ss_pred CceEEEecccceEEhhheeeeEEEecHHHhhhhcccccCCCceEEEEEEEeC
Confidence 469999999999999999999999877765543322 13456777 78887
No 37
>KOG4468|consensus
Probab=88.80 E-value=0.27 Score=53.02 Aligned_cols=43 Identities=33% Similarity=0.619 Sum_probs=35.8
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhh----------hcccCCCcChhhhhhhccc
Q psy2137 159 EEWSASEANLFEEALEKYGKDFNDI----------RNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGKdF~~I----------~k~~lp~Ksv~eiVefYY~ 202 (382)
..||-.|...|..||.++||||-.| .. -+..|+--++-.|||-
T Consensus 89 taWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s-~~~~Ktkdqvr~~yY~ 141 (782)
T KOG4468|consen 89 TAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATS-RVQSKTKDQVRHYYYR 141 (782)
T ss_pred cccchhhHHHHHHHHHHhcccHHHHHHHHHHhccccc-chhhhhhHHHHHHHHH
Confidence 6799999999999999999999988 22 2566777777788874
No 38
>KOG0457|consensus
Probab=87.15 E-value=0.59 Score=48.73 Aligned_cols=53 Identities=32% Similarity=0.488 Sum_probs=45.0
Q ss_pred cCCCCCCccccccCCCCCHHHHHHHHHHHHHhC-CCchhhhcccCCCcChhhhhhhccc
Q psy2137 145 LVPSTGPVLCRDEMEEWSASEANLFEEALEKYG-KDFNDIRNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 145 L~~~~~p~l~~d~~~~WS~eE~~~Fe~al~~yG-KdF~~I~k~~lp~Ksv~eiVefYY~ 202 (382)
+.+..-|+++ +.||++|--++.+|+.+|| .|+..|.. .|.+|+-.+|.++|+-
T Consensus 63 m~~~s~~i~~----~~WtadEEilLLea~~t~G~GNW~dIA~-hIGtKtkeeck~hy~k 116 (438)
T KOG0457|consen 63 MDTNSFPILD----PSWTADEEILLLEAAETYGFGNWQDIAD-HIGTKTKEECKEHYLK 116 (438)
T ss_pred ecCCCCCCCC----CCCChHHHHHHHHHHHHhCCCcHHHHHH-HHcccchHHHHHHHHH
Confidence 3333445544 7899999999999999999 89999999 6999999999999974
No 39
>PF00320 GATA: GATA zinc finger; InterPro: IPR000679 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents GATA-type zinc fingers (Znf). A number of transcription factors (including erythroid-specific transcription factor and nitrogen regulatory proteins), specifically bind the DNA sequence (A/T)GATA(A/G) [] in the regulatory regions of genes. They are consequently termed GATA-binding transcription factors. The interactions occur via highly-conserved Znf domains in which the zinc ion is coordinated by 4 cysteine residues [, ]. NMR studies have shown the core of the Znf to comprise 2 irregular anti-parallel beta-sheets and an alpha-helix, followed by a long loop to the C-terminal end of the finger. The N-terminal part, which includes the helix, is similar in structure, but not sequence, to the N-terminal zinc module of the glucocorticoid receptor DNA-binding domain. The helix and the loop connecting the 2 beta-sheets interact with the major groove of the DNA, while the C-terminal tail wraps around into the minor groove. It is this tail that is the essential determinant of specific binding. Interactions between the Znf and DNA are mainly hydrophobic, explaining the preponderance of thymines in the binding site; a large number of interactions with the phosphate backbone have also been observed []. Two GATA zinc fingers are found in the GATA transcription factors. However there are several proteins which only contains a single copy of the domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0008270 zinc ion binding, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 3GAT_A 2GAT_A 1GAU_A 1GAT_A 1Y0J_A 1GNF_A 2L6Z_A 2L6Y_A 3DFV_D 3DFX_B ....
Probab=86.79 E-value=0.21 Score=34.53 Aligned_cols=24 Identities=8% Similarity=-0.118 Sum_probs=13.3
Q ss_pred ccceecccccCccccCCCCCccccc
Q psy2137 256 VVVLEIERSFDDYKFGHAFSTRLAM 280 (382)
Q Consensus 256 C~~C~t~~S~qWy~~gp~~~~~~~~ 280 (382)
|.+|.|++|.+|++ ||..-..||-
T Consensus 1 C~~C~tt~t~~WR~-~~~g~~~LCn 24 (36)
T PF00320_consen 1 CSNCGTTETPQWRR-GPNGNRTLCN 24 (36)
T ss_dssp -TTT--ST-SSEEE-ETTSEE-EEH
T ss_pred CcCCcCCCCchhhc-CCCCCCHHHH
Confidence 78999999999999 5533223553
No 40
>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=86.12 E-value=0.57 Score=41.39 Aligned_cols=50 Identities=18% Similarity=0.165 Sum_probs=39.5
Q ss_pred cccccccccccc---ccccccccCceeeeecccchhhhhcc-CCCCcee--eeecC
Q psy2137 44 KQRELFLSRQVE---TLPATHIRGKCSVTLLNETESLLSYL-NKEPRSF--VVSLP 93 (382)
Q Consensus 44 ~~ReLf~S~~~e---~~P~t~iRGkC~v~~~~e~e~l~~yl-~keDtFf--LlW~P 93 (382)
..+|||.+.+.+ .++|..|=|||.|..+++.+.+.... ..+.++| +-|+-
T Consensus 65 ~~~EvF~~~~~~~~~~i~~etI~gkc~V~~~~~y~~l~~~~~~~~~~~F~r~~~~~ 120 (128)
T cd04719 65 HSQEVFFYSRSSCDNDIDAETIIGKVRVEPVEPKTDLPETKKKTGGPLFVKRYWDT 120 (128)
T ss_pred CCcEEEEecCccccCcEeHHHcccEEEEEEcCCccchhhhccccCceEEEEEEecc
Confidence 468999999986 79999999999999999988887532 2356666 66664
No 41
>KOG4167|consensus
Probab=85.23 E-value=0.6 Score=51.53 Aligned_cols=73 Identities=15% Similarity=0.240 Sum_probs=52.6
Q ss_pred ceeEEEEEEccccccccccccccccCCcccccCCCCcCCCCCCCCCcccCcCcceeeeCCC----CCCchhHHHHHHHHh
Q psy2137 286 DTFFYCLVFDPAQKTLLADKGEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVWTPHH----SLTDKQIDQFLVISR 361 (382)
Q Consensus 286 d~f~y~l~ydp~~~tL~ad~GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW~P~~----~l~D~~ld~yl~~Ar 361 (382)
+.|+|+.+=++.+... .--|-+|.+|||+||++...... ..+++..+|||.|-- .+....|..|+-+|-
T Consensus 494 S~~~~~~~~g~~~~d~---ePhINiG~rfQAeipelqdrs~~----~~d~h~a~lvwkpw~~~ei~~~q~rvt~l~nlaC 566 (907)
T KOG4167|consen 494 SNVTVTPGPGEQTVDV---EPHINIGLRFQAEIPELQDRSAL----AQDTHKATLVWKPWPELEIHDLQQRVTNLLNLAC 566 (907)
T ss_pred ccceEeecCCCcccCC---CcccccchhhhhhhhHHHhhhhc----cccchhhhhcccccchhhccccHHHHHHHHHHHh
Confidence 5688888877765443 44699999999999999864321 345778899999752 234455778998887
Q ss_pred hhhh
Q psy2137 362 SVGK 365 (382)
Q Consensus 362 s~~~ 365 (382)
|-+.
T Consensus 567 Ssa~ 570 (907)
T KOG4167|consen 567 SSAL 570 (907)
T ss_pred hhcC
Confidence 7543
No 42
>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=81.46 E-value=0.63 Score=42.48 Aligned_cols=31 Identities=29% Similarity=0.382 Sum_probs=26.3
Q ss_pred ccccccccc-----ccccccccccCceeeeecccch
Q psy2137 45 QRELFLSRQ-----VETLPATHIRGKCSVTLLNETE 75 (382)
Q Consensus 45 ~ReLf~S~~-----~e~~P~t~iRGkC~v~~~~e~e 75 (382)
..|||+|.+ .++.|+..|-|||.|..+.+..
T Consensus 88 ~nEvFlS~~~d~~~~~~n~l~sI~gKC~Vl~~~ey~ 123 (159)
T cd04715 88 INEVFLACGRGEGLANINLLESIIGKCNVVCISEDF 123 (159)
T ss_pred CCcEEEecCcCccccccCcHHHccceeEEEEehHhh
Confidence 579999976 4778999999999999987653
No 43
>KOG1279|consensus
Probab=80.65 E-value=1.6 Score=46.79 Aligned_cols=45 Identities=27% Similarity=0.484 Sum_probs=40.5
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccc
Q psy2137 157 EMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 157 ~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~ 202 (382)
.-..||++|.-+..+|+.+||.++.+|.. .+.+||..+||.-+-.
T Consensus 252 ~~~~WT~qE~lLLLE~ie~y~ddW~kVa~-hVg~ks~eqCI~kFL~ 296 (506)
T KOG1279|consen 252 ARPNWTEQETLLLLEAIEMYGDDWNKVAD-HVGTKSQEQCILKFLR 296 (506)
T ss_pred CCCCccHHHHHHHHHHHHHhcccHHHHHh-ccCCCCHHHHHHHHHh
Confidence 34899999999999999999999999999 5999999999975543
No 44
>PLN03212 Transcription repressor MYB5; Provisional
Probab=78.54 E-value=2.1 Score=41.80 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=39.1
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccc
Q psy2137 159 EEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~ 202 (382)
..||.+|-.+-.+.+..||+.+..|.+ +||.+|-.+|=.+||.
T Consensus 79 gpWT~EED~lLlel~~~~GnKWs~IAk-~LpGRTDnqIKNRWns 121 (249)
T PLN03212 79 GGITSDEEDLILRLHRLLGNRWSLIAG-RIPGRTDNEIKNYWNT 121 (249)
T ss_pred CCCChHHHHHHHHHHHhccccHHHHHh-hcCCCCHHHHHHHHHH
Confidence 789999999999999999999999999 7999999888766654
No 45
>KOG0049|consensus
Probab=74.26 E-value=3 Score=45.86 Aligned_cols=42 Identities=29% Similarity=0.539 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHhC-CCchhhhcccCCCcChhhhhhhcc
Q psy2137 159 EEWSASEANLFEEALEKYG-KDFNDIRNDFLPWKTLKNIIEYYY 201 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yG-KdF~~I~k~~lp~Ksv~eiVefYY 201 (382)
..||.+|=.+...|+.+|| |++.+||+ .+|+++.++|-+-|-
T Consensus 361 g~wt~~ED~~L~~AV~~Yg~kdw~k~R~-~vPnRSdsQcR~RY~ 403 (939)
T KOG0049|consen 361 GRWTDQEDVLLVCAVSRYGAKDWAKVRQ-AVPNRSDSQCRERYT 403 (939)
T ss_pred CCCCCHHHHHHHHHHHHhCccchhhHHH-hcCCccHHHHHHHHH
Confidence 7899999999999999999 55679999 799999999987773
No 46
>PLN03091 hypothetical protein; Provisional
Probab=73.69 E-value=3.9 Score=43.11 Aligned_cols=43 Identities=26% Similarity=0.319 Sum_probs=40.2
Q ss_pred CCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhhccc
Q psy2137 159 EEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEYYYM 202 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVefYY~ 202 (382)
..||.+|-.+..+.+.+||+.+..|.+ +||.|+-.+|=..||.
T Consensus 68 gpWT~EED~lLLeL~k~~GnKWskIAk-~LPGRTDnqIKNRWns 110 (459)
T PLN03091 68 GTFSQQEENLIIELHAVLGNRWSQIAA-QLPGRTDNEIKNLWNS 110 (459)
T ss_pred CCCCHHHHHHHHHHHHHhCcchHHHHH-hcCCCCHHHHHHHHHH
Confidence 789999999999999999999999999 8999999999777774
No 47
>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=63.16 E-value=6.7 Score=34.58 Aligned_cols=39 Identities=23% Similarity=0.141 Sum_probs=28.3
Q ss_pred cccccCccccCCCCCccccccCCCCceeEEEEEEcccccc
Q psy2137 261 IERSFDDYKFGHAFSTRLAMPRDELDTFFYCLVFDPAQKT 300 (382)
Q Consensus 261 t~~S~qWy~~gp~~~~~~~~~~~~~d~f~y~l~ydp~~~t 300 (382)
-..|..|+-.|+...... ...+...+|||.+-|||..-+
T Consensus 84 ~~p~~~w~~~~g~~~~~~-~~~ddg~tffyq~~yd~~~ar 122 (124)
T cd04760 84 KAPSENWSMEGGMDEEDE-IFEDDGKTFFYQKWYDPECAR 122 (124)
T ss_pred eCCCcchhhhcCCCCccc-cccCCCCeEEEEEeeChhhhc
Confidence 347889999888754422 234556899999999997544
No 48
>KOG0048|consensus
Probab=57.79 E-value=20 Score=34.34 Aligned_cols=46 Identities=24% Similarity=0.276 Sum_probs=41.0
Q ss_pred CCccccccCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhhhhh
Q psy2137 150 GPVLCRDEMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNIIEY 199 (382)
Q Consensus 150 ~p~l~~d~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~eiVef 199 (382)
.|.+.+ ..||++|-.+-.++-..+|.-...|.+ +||.+|=-+|=.|
T Consensus 57 rP~ikr---g~fT~eEe~~Ii~lH~~~GNrWs~IA~-~LPGRTDNeIKN~ 102 (238)
T KOG0048|consen 57 RPDLKR---GNFSDEEEDLIIKLHALLGNRWSLIAG-RLPGRTDNEVKNH 102 (238)
T ss_pred CCCccC---CCCCHHHHHHHHHHHHHHCcHHHHHHh-hCCCcCHHHHHHH
Confidence 355555 789999999999999999999999999 7999999999665
No 49
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=57.65 E-value=13 Score=25.38 Aligned_cols=21 Identities=19% Similarity=0.159 Sum_probs=18.3
Q ss_pred HHHHHHHHhcCCCHHHHHHhc
Q psy2137 125 FHAMDTLDKHKYSLAEAISSL 145 (382)
Q Consensus 125 ~~AL~~L~~~~ydv~~AL~~L 145 (382)
+.|...|..+++|++.|+..|
T Consensus 17 ~~~~~AL~~~~~nve~A~~~L 37 (37)
T PF00627_consen 17 EQAREALRACNGNVERAVDWL 37 (37)
T ss_dssp HHHHHHHHHTTTSHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHhC
Confidence 489999999999999998764
No 50
>KOG1886|consensus
Probab=55.34 E-value=7.7 Score=41.17 Aligned_cols=45 Identities=31% Similarity=0.327 Sum_probs=35.2
Q ss_pred ccChhhhhhhc-cccccccccccccccccccCceeeeecccchhhh
Q psy2137 34 ELTNKQKHQLK-QRELFLSRQVETLPATHIRGKCSVTLLNETESLL 78 (382)
Q Consensus 34 ~l~~~~~~~~~-~ReLf~S~~~e~~P~t~iRGkC~v~~~~e~e~l~ 78 (382)
+....+.+..+ +||||+|.+.|-.+|-.|.++|-|.++....-++
T Consensus 99 ~~~~~~~~~a~~~relF~SfH~De~~A~ti~~rC~V~fvp~~kqlp 144 (464)
T KOG1886|consen 99 EGGGSGKWGAKQPRELFLSFHEDEAFAETILHRCKVHFVPAYKQLP 144 (464)
T ss_pred CCCCCCCcccCCCccccccccccchhhhhhcccceeeecccccccc
Confidence 44444444444 7999999999999999999999999988655444
No 51
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=53.55 E-value=19 Score=24.11 Aligned_cols=22 Identities=18% Similarity=0.107 Sum_probs=18.9
Q ss_pred HHHHHHHHHhcCCCHHHHHHhc
Q psy2137 124 LFHAMDTLDKHKYSLAEAISSL 145 (382)
Q Consensus 124 l~~AL~~L~~~~ydv~~AL~~L 145 (382)
.+.|...|+.+++|+++|+..|
T Consensus 15 ~~~a~~aL~~~~~d~~~A~~~L 36 (37)
T smart00165 15 REEALKALRAANGNVERAAEYL 36 (37)
T ss_pred HHHHHHHHHHhCCCHHHHHHHH
Confidence 3489999999999999998765
No 52
>KOG2009|consensus
Probab=52.60 E-value=10 Score=41.33 Aligned_cols=39 Identities=44% Similarity=0.761 Sum_probs=35.2
Q ss_pred cCCCCCHHHHHHHHHHHHHhCCCchhhhcccCCCcChhhh
Q psy2137 157 EMEEWSASEANLFEEALEKYGKDFNDIRNDFLPWKTLKNI 196 (382)
Q Consensus 157 ~~~~WS~eE~~~Fe~al~~yGKdF~~I~k~~lp~Ksv~ei 196 (382)
....|+.+|..+|.+++...|.+|..|.. ..|.+..+.|
T Consensus 408 ~~~~w~~se~e~fyka~~~~gs~~slis~-l~p~R~rk~i 446 (584)
T KOG2009|consen 408 ETDKWDASETELFYKALSERGSDFSLISN-LFPLRDRKQI 446 (584)
T ss_pred ccCcccchhhHHhhhHHhhhccccccccc-ccccccHHHH
Confidence 34889999999999999999999999999 6888887776
No 53
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=48.25 E-value=21 Score=24.00 Aligned_cols=23 Identities=17% Similarity=0.144 Sum_probs=19.6
Q ss_pred HHHHHHHHHhcCCCHHHHHHhcC
Q psy2137 124 LFHAMDTLDKHKYSLAEAISSLV 146 (382)
Q Consensus 124 l~~AL~~L~~~~ydv~~AL~~L~ 146 (382)
.+.|...|..+++|+++|+..|.
T Consensus 15 ~~~~~~AL~~~~~d~~~A~~~L~ 37 (38)
T cd00194 15 REEARKALRATNNNVERAVEWLL 37 (38)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHh
Confidence 35899999999999999988763
No 54
>PF14555 UBA_4: UBA-like domain; PDB: 2DAL_A 3BQ3_A 2L4E_A 2L4F_A 2DZL_A 2L2D_A 2DAM_A 1V92_A 3E21_A.
Probab=46.89 E-value=25 Score=24.77 Aligned_cols=22 Identities=18% Similarity=0.333 Sum_probs=19.0
Q ss_pred HHHHHHHHhcCCCHHHHHHhcC
Q psy2137 125 FHAMDTLDKHKYSLAEAISSLV 146 (382)
Q Consensus 125 ~~AL~~L~~~~ydv~~AL~~L~ 146 (382)
+.|...|..+++|++.|+....
T Consensus 16 ~~A~~~L~~~~wdle~Av~~y~ 37 (43)
T PF14555_consen 16 DVAIQYLEANNWDLEAAVNAYF 37 (43)
T ss_dssp HHHHHHHHHTTT-HHHHHHHHH
T ss_pred HHHHHHHHHcCCCHHHHHHHHH
Confidence 5899999999999999998764
No 55
>PLN03212 Transcription repressor MYB5; Provisional
Probab=43.54 E-value=29 Score=34.17 Aligned_cols=42 Identities=12% Similarity=0.215 Sum_probs=37.2
Q ss_pred CCCCHHHHHHHHHHHHHhC-CCchhhhcccC-CCcChhhhhhhcc
Q psy2137 159 EEWSASEANLFEEALEKYG-KDFNDIRNDFL-PWKTLKNIIEYYY 201 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yG-KdF~~I~k~~l-p~Ksv~eiVefYY 201 (382)
..||++|=.+..+++.+|| .++..|.+ .+ +.|+-.+|-+-|.
T Consensus 26 g~WT~EEDe~L~~lV~kyG~~nW~~IAk-~~g~gRT~KQCReRW~ 69 (249)
T PLN03212 26 GPWTVEEDEILVSFIKKEGEGRWRSLPK-RAGLLRCGKSCRLRWM 69 (249)
T ss_pred CCCCHHHHHHHHHHHHHhCcccHHHHHH-hhhcCCCcchHHHHHH
Confidence 7799999999999999999 57999998 45 6899999988765
No 56
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=40.94 E-value=23 Score=41.31 Aligned_cols=50 Identities=30% Similarity=0.545 Sum_probs=43.7
Q ss_pred ccCCCCCHHHHHHHHHHHHHhCC-CchhhhcccCCCcChhhhhhhccc-cccC
Q psy2137 156 DEMEEWSASEANLFEEALEKYGK-DFNDIRNDFLPWKTLKNIIEYYYM-WKTT 206 (382)
Q Consensus 156 d~~~~WS~eE~~~Fe~al~~yGK-dF~~I~k~~lp~Ksv~eiVefYY~-WKKt 206 (382)
.....||..|-..|..|..+||. ++..|.. .|..|+..|+-+|.=. |++-
T Consensus 822 ~gf~~w~~~~f~~f~~~~~~~gr~~~~~i~~-~~~~k~~~ev~~y~~~f~~~~ 873 (1033)
T PLN03142 822 EGFSTWSRRDFNAFIRACEKYGRNDIKSIAS-EMEGKTEEEVERYAKVFWERY 873 (1033)
T ss_pred cCcCcccHHHHHHHHHHHHHhCHhHHHHHHH-HhcCCCHHHHHHHHHHHHHhh
Confidence 45688999999999999999995 5999999 5999999999999866 7654
No 57
>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=37.74 E-value=26 Score=28.87 Aligned_cols=42 Identities=21% Similarity=0.112 Sum_probs=30.1
Q ss_pred ccceecccccCccccCCCCCccccccCCCCceeEEEEEEcccccccccc
Q psy2137 256 VVVLEIERSFDDYKFGHAFSTRLAMPRDELDTFFYCLVFDPAQKTLLAD 304 (382)
Q Consensus 256 C~~C~t~~S~qWy~~gp~~~~~~~~~~~~~d~f~y~l~ydp~~~tL~ad 304 (382)
.+.|.......+-.+.+... . .+|+||+-..|||.++++...
T Consensus 77 ~gkc~V~~~~~~~~~~~~~~------~-~~~~F~cr~~yd~~~~~f~~~ 118 (119)
T PF01426_consen 77 RGKCNVLHLEDYEQARPYGK------E-EPDTFFCRYAYDPQKKRFKKL 118 (119)
T ss_dssp EEEEEEEEHHHHTTGCCHCH------H-TTTEEEEEEEEETTTTEEEE-
T ss_pred EeeeEEEECCcccccccccc------C-CCCEEEEEEEEeCCcCEEeCC
Confidence 35788777776666433222 2 569999999999999998764
No 58
>PF05891 Methyltransf_PK: AdoMet dependent proline di-methyltransferase; InterPro: IPR008576 This family consists of several eukaryotic proteins of unknown function that are S-adenosyl-L-methionine-dependent methyltransferase-like.; GO: 0008168 methyltransferase activity; PDB: 1XTP_A 2EX4_B.
Probab=36.67 E-value=12 Score=36.04 Aligned_cols=65 Identities=28% Similarity=0.409 Sum_probs=39.9
Q ss_pred eEEEEEEccccccccccc-----cccccCCcccccCCCCcCCCCCCCCCcccCcCcceee---eCCCCCCchhHHHHHHH
Q psy2137 288 FFYCLVFDPAQKTLLADK-----GEIRVGSKYQSDITPYLGEASKDPNCRESKDFETLVW---TPHHSLTDKQIDQFLVI 359 (382)
Q Consensus 288 f~y~l~ydp~~~tL~ad~-----GeIRVG~~yQA~iP~~~~~~~~~~~~~~~~~~e~LvW---~P~~~l~D~~ld~yl~~ 359 (382)
|-.+=.=+|..+=|..-+ +..|||.-|+.-+.++.|+. ..+ -++| .-.| |||.|+-.||.=
T Consensus 78 f~~VDlVEp~~~Fl~~a~~~l~~~~~~v~~~~~~gLQ~f~P~~-~~Y---------DlIW~QW~lgh-LTD~dlv~fL~R 146 (218)
T PF05891_consen 78 FDEVDLVEPVEKFLEQAKEYLGKDNPRVGEFYCVGLQDFTPEE-GKY---------DLIWIQWCLGH-LTDEDLVAFLKR 146 (218)
T ss_dssp -SEEEEEES-HHHHHHHHHHTCCGGCCEEEEEES-GGG----T-T-E---------EEEEEES-GGG-S-HHHHHHHHHH
T ss_pred cCEeEEeccCHHHHHHHHHHhcccCCCcceEEecCHhhccCCC-CcE---------eEEEehHhhcc-CCHHHHHHHHHH
Confidence 445556677776555444 67899999999999999862 222 1665 5778 999999999886
Q ss_pred Hhhh
Q psy2137 360 SRSV 363 (382)
Q Consensus 360 Ars~ 363 (382)
+|.-
T Consensus 147 Ck~~ 150 (218)
T PF05891_consen 147 CKQA 150 (218)
T ss_dssp HHHH
T ss_pred HHHh
Confidence 6653
No 59
>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=36.34 E-value=26 Score=31.15 Aligned_cols=26 Identities=15% Similarity=0.264 Sum_probs=19.0
Q ss_pred ccccccCCCCceeEEEEEEccccccc
Q psy2137 276 TRLAMPRDELDTFFYCLVFDPAQKTL 301 (382)
Q Consensus 276 ~~~~~~~~~~d~f~y~l~ydp~~~tL 301 (382)
..+-.+...+|+|||...|||.+++.
T Consensus 108 ~~l~~~~~~~~~Fyf~~lyD~~~~r~ 133 (135)
T cd04710 108 PDLEEYKKRPNHFYFDQLFDRYILRY 133 (135)
T ss_pred chhhhhccCCCEEEEEeeeCcchhhc
Confidence 33333445579999999999998763
No 60
>PLN03091 hypothetical protein; Provisional
Probab=36.20 E-value=42 Score=35.66 Aligned_cols=43 Identities=16% Similarity=0.206 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHHHHHhCC-CchhhhcccCCCcChhhhhhhcc
Q psy2137 159 EEWSASEANLFEEALEKYGK-DFNDIRNDFLPWKTLKNIIEYYY 201 (382)
Q Consensus 159 ~~WS~eE~~~Fe~al~~yGK-dF~~I~k~~lp~Ksv~eiVefYY 201 (382)
..||++|=++..+++.+||. ++..|.+.+.+.|+-.+|-+-|+
T Consensus 15 g~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~ 58 (459)
T PLN03091 15 GLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWI 58 (459)
T ss_pred CCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHH
Confidence 67999999999999999995 79999984336899999987766
No 61
>PF02845 CUE: CUE domain; InterPro: IPR003892 This domain may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two proteins of the IL-1 signal transduction pathway, tollip and TAB2.; GO: 0005515 protein binding; PDB: 2EKF_A 1OTR_A 1P3Q_Q 1MN3_A 1WGL_A 2EJS_A 2DAE_A 2DHY_A 2DI0_A.
Probab=33.57 E-value=58 Score=22.69 Aligned_cols=23 Identities=17% Similarity=0.109 Sum_probs=19.3
Q ss_pred HHHHHHHHHhcCCCHHHHHHhcC
Q psy2137 124 LFHAMDTLDKHKYSLAEAISSLV 146 (382)
Q Consensus 124 l~~AL~~L~~~~ydv~~AL~~L~ 146 (382)
.+..-.+|..+++|++.|+..|.
T Consensus 17 ~~~I~~~L~~~~~~ve~ai~~LL 39 (42)
T PF02845_consen 17 REVIEAVLQANNGDVEAAIDALL 39 (42)
T ss_dssp HHHHHHHHHHTTTTHHHHHHHHH
T ss_pred HHHHHHHHHHcCCCHHHHHHHHH
Confidence 34677889999999999998874
No 62
>smart00546 CUE Domain that may be involved in binding ubiquitin-conjugating enzymes (UBCs). CUE domains also occur in two protein of the IL-1 signal transduction pathway, tollip and TAB2. Ponting (Biochem. J.) "Proteins of the Endoplasmic reticulum" (in press)
Probab=32.80 E-value=54 Score=22.89 Aligned_cols=24 Identities=13% Similarity=0.106 Sum_probs=20.2
Q ss_pred HHHHHHHHHhcCCCHHHHHHhcCC
Q psy2137 124 LFHAMDTLDKHKYSLAEAISSLVP 147 (382)
Q Consensus 124 l~~AL~~L~~~~ydv~~AL~~L~~ 147 (382)
.+.+-.+|..+++|++.|+..|..
T Consensus 18 ~~~I~~~L~~~~g~ve~~i~~LL~ 41 (43)
T smart00546 18 EEVIKAVLEANNGNVEATINNLLE 41 (43)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHHc
Confidence 347888999999999999988853
No 63
>PF03474 DMA: DMRTA motif; InterPro: IPR005173 This region is found to the C terminus of the DM DNA-binding domain IPR001275 from INTERPRO []. DM-domain proteins with this motif are known as DMRTA proteins. The function of this region is unknown.
Probab=31.95 E-value=39 Score=24.14 Aligned_cols=17 Identities=18% Similarity=0.225 Sum_probs=14.4
Q ss_pred HHHHhcCCCHHHHHHhc
Q psy2137 129 DTLDKHKYSLAEAISSL 145 (382)
Q Consensus 129 ~~L~~~~ydv~~AL~~L 145 (382)
-+|..|++|+.+|++.+
T Consensus 22 ~iL~~C~GDvv~AIE~~ 38 (39)
T PF03474_consen 22 LILQRCNGDVVQAIEQF 38 (39)
T ss_pred HHHHHcCCcHHHHHHHh
Confidence 35779999999999875
No 64
>smart00439 BAH Bromo adjacent homology domain.
Probab=21.42 E-value=1.1e+02 Score=25.13 Aligned_cols=43 Identities=16% Similarity=0.137 Sum_probs=31.3
Q ss_pred CCccceecccccCccccCCCCCccccccCCCCceeEEEEEEcccccccc
Q psy2137 254 SGVVVLEIERSFDDYKFGHAFSTRLAMPRDELDTFFYCLVFDPAQKTLL 302 (382)
Q Consensus 254 ~~C~~C~t~~S~qWy~~gp~~~~~~~~~~~~~d~f~y~l~ydp~~~tL~ 302 (382)
...+.|..+....+....+.... ..+++||+-..||+.++++.
T Consensus 75 ~I~~kc~V~~~~~~~~~~~~~~~------~~~~~f~cr~~yd~~~~~f~ 117 (120)
T smart00439 75 DIIGKCNVLSKSDYPGLRPEGKI------GEPDVFFCESLYDPEKGAFK 117 (120)
T ss_pred HeeeEEEEEEcchhcccccccCC------CCCCeEEEEEEEccccCccc
Confidence 34468988888888774443221 35699999999999988874
No 65
>PF06972 DUF1296: Protein of unknown function (DUF1296); InterPro: IPR009719 This family represents a conserved region approximately 60 residues long within a number of plant proteins of unknown function.
Probab=21.00 E-value=89 Score=24.38 Aligned_cols=24 Identities=17% Similarity=0.182 Sum_probs=21.4
Q ss_pred HHHHHHHHhcCCCHHHHHHhcCCC
Q psy2137 125 FHAMDTLDKHKYSLAEAISSLVPS 148 (382)
Q Consensus 125 ~~AL~~L~~~~ydv~~AL~~L~~~ 148 (382)
+....+|.+|+.|+.+|.+.|...
T Consensus 22 ~eIya~L~ecnMDpnea~qrLL~q 45 (60)
T PF06972_consen 22 EEIYAMLKECNMDPNEAVQRLLSQ 45 (60)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHhc
Confidence 368899999999999999999864
Done!