Query 000745
Match_columns 1306
No_of_seqs 372 out of 1262
Neff 4.0
Searched_HMMs 46136
Date Mon Apr 1 23:03:06 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000745.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000745hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1473 Nucleosome remodeling 100.0 3E-119 6E-124 1072.1 34.2 919 111-1294 164-1145(1414)
2 smart00571 DDT domain in diffe 99.6 3.2E-16 6.9E-21 139.3 5.5 60 136-195 1-62 (63)
3 PF02791 DDT: DDT domain; Int 99.6 4.4E-16 9.5E-21 137.4 5.6 61 136-196 1-61 (61)
4 KOG4299 PHD Zn-finger protein 98.3 1.8E-07 4E-12 112.3 1.0 48 332-379 253-307 (613)
5 KOG1244 Predicted transcriptio 98.1 1.5E-06 3.2E-11 96.1 1.8 45 333-377 282-331 (336)
6 PF00628 PHD: PHD-finger; Int 98.0 1.7E-06 3.7E-11 73.2 1.1 43 334-376 1-50 (51)
7 KOG1473 Nucleosome remodeling 98.0 1.7E-06 3.6E-11 108.5 0.3 131 331-461 427-568 (1414)
8 COG5034 TNG2 Chromatin remodel 97.9 6.9E-06 1.5E-10 90.5 3.1 42 334-376 223-269 (271)
9 KOG1973 Chromatin remodeling p 97.9 5.4E-06 1.2E-10 93.2 2.0 41 338-378 226-269 (274)
10 KOG0825 PHD Zn-finger protein 97.8 6.9E-06 1.5E-10 100.1 2.0 43 334-376 217-265 (1134)
11 smart00249 PHD PHD zinc finger 97.8 1.7E-05 3.7E-10 64.1 3.0 41 334-374 1-47 (47)
12 KOG0383 Predicted helicase [Ge 97.6 1.6E-05 3.4E-10 98.5 0.9 49 329-377 44-94 (696)
13 KOG1512 PHD Zn-finger protein 97.5 3.3E-05 7.1E-10 86.1 1.8 44 333-376 315-362 (381)
14 KOG0955 PHD finger protein BR1 97.4 0.00014 3E-09 93.4 4.8 51 331-381 218-273 (1051)
15 cd04718 BAH_plant_2 BAH, or Br 97.3 0.00021 4.7E-09 74.1 3.8 28 353-380 1-30 (148)
16 KOG0956 PHD finger protein AF1 96.9 0.00043 9.3E-09 84.4 2.6 45 333-377 6-57 (900)
17 KOG1245 Chromatin remodeling c 96.5 0.00056 1.2E-08 90.9 -0.5 51 329-379 1105-1160(1404)
18 COG5141 PHD zinc finger-contai 96.4 0.0014 3E-08 77.7 1.6 48 331-378 192-244 (669)
19 KOG0954 PHD finger protein [Ge 96.0 0.0031 6.7E-08 77.9 1.8 52 331-382 270-326 (893)
20 PF15612 WHIM1: WSTF, HB1, Itc 95.9 0.0041 8.9E-08 53.1 1.8 38 248-285 9-46 (50)
21 KOG4323 Polycomb-like PHD Zn-f 95.9 0.0035 7.6E-08 75.0 1.9 46 333-378 169-225 (464)
22 KOG4443 Putative transcription 95.8 0.004 8.6E-08 76.4 1.7 43 334-376 70-117 (694)
23 PF13831 PHD_2: PHD-finger; PD 95.0 0.0065 1.4E-07 49.6 0.0 34 342-375 2-36 (36)
24 KOG0383 Predicted helicase [Ge 94.1 0.012 2.6E-07 73.8 -0.5 98 349-460 1-112 (696)
25 KOG0957 PHD finger protein [Ge 94.0 0.021 4.6E-07 68.3 1.1 42 334-375 546-596 (707)
26 KOG4443 Putative transcription 93.5 0.019 4.2E-07 70.7 -0.4 90 331-447 17-114 (694)
27 smart00249 PHD PHD zinc finger 89.1 0.34 7.4E-06 39.1 2.7 47 1059-1111 1-47 (47)
28 KOG4299 PHD Zn-finger protein 88.1 0.27 5.9E-06 60.9 2.2 46 332-377 47-95 (613)
29 KOG0957 PHD finger protein [Ge 87.9 0.33 7.1E-06 58.7 2.6 100 333-432 120-273 (707)
30 KOG1512 PHD Zn-finger protein 87.3 0.2 4.2E-06 57.1 0.3 45 333-377 259-317 (381)
31 KOG1244 Predicted transcriptio 86.9 0.44 9.5E-06 54.2 2.7 82 332-440 224-320 (336)
32 PLN00163 histone H4; Provision 84.0 0.59 1.3E-05 42.4 1.6 26 863-888 30-55 (59)
33 PF00628 PHD: PHD-finger; Int 84.0 0.37 8E-06 40.9 0.3 49 1059-1113 1-50 (51)
34 KOG4323 Polycomb-like PHD Zn-f 81.7 0.91 2E-05 55.2 2.5 118 331-453 82-222 (464)
35 KOG3467 Histone H4 [Chromatin 68.6 2.6 5.7E-05 41.0 1.4 42 863-904 30-72 (103)
36 KOG1081 Transcription factor N 67.3 4.1 8.9E-05 50.0 3.0 48 329-377 86-133 (463)
37 PF00130 C1_1: Phorbol esters/ 65.7 4.4 9.5E-05 34.8 2.1 35 1056-1096 10-46 (53)
38 KOG3612 PHD Zn-finger protein 64.0 6.8 0.00015 48.6 3.9 50 330-379 58-110 (588)
39 PF15446 zf-PHD-like: PHD/FYVE 62.9 3.6 7.7E-05 44.5 1.2 43 334-376 1-59 (175)
40 smart00417 H4 Histone H4. 55.8 4.3 9.4E-05 38.5 0.3 30 863-892 14-43 (74)
41 KOG1246 DNA-binding protein ju 53.9 8.6 0.00019 50.7 2.7 45 333-377 156-204 (904)
42 PF14446 Prok-RING_1: Prokaryo 51.2 10 0.00022 34.3 1.9 29 333-361 6-38 (54)
43 PF07227 DUF1423: Protein of u 50.4 12 0.00027 45.7 3.0 53 1057-1115 128-193 (446)
44 PF13901 DUF4206: Domain of un 49.1 9.6 0.00021 41.9 1.7 43 1058-1116 153-200 (202)
45 cd00076 H4 Histone H4, one of 45.2 8.7 0.00019 37.4 0.6 29 863-891 14-42 (85)
46 PF11793 FANCL_C: FANCL C-term 43.6 13 0.00029 34.5 1.5 44 333-376 3-63 (70)
47 PTZ00015 histone H4; Provision 38.1 15 0.00033 37.0 1.0 40 852-891 18-59 (102)
48 KOG4628 Predicted E3 ubiquitin 37.9 22 0.00047 42.5 2.5 45 333-378 230-277 (348)
49 PF09337 zf-H2C2: His(2)-Cys(2 37.8 8.6 0.00019 32.4 -0.6 31 658-692 9-39 (39)
50 PF12156 ATPase-cat_bd: Putati 37.7 8.4 0.00018 37.3 -0.8 37 1058-1094 1-54 (88)
51 KOG3799 Rab3 effector RIM1 and 37.0 18 0.00039 38.1 1.4 55 1051-1113 59-115 (169)
52 PF14446 Prok-RING_1: Prokaryo 34.6 25 0.00055 31.9 1.7 35 1056-1096 4-39 (54)
53 smart00109 C1 Protein kinase C 34.5 15 0.00032 30.3 0.3 32 1058-1095 12-44 (49)
54 PF13832 zf-HC5HC2H_2: PHD-zin 33.0 22 0.00048 34.8 1.3 30 332-361 55-87 (110)
55 PF12861 zf-Apc11: Anaphase-pr 33.0 18 0.00039 35.4 0.6 30 348-377 50-80 (85)
56 PF07191 zinc-ribbons_6: zinc- 32.2 26 0.00057 33.2 1.5 59 1059-1117 3-62 (70)
57 cd00029 C1 Protein kinase C co 30.3 24 0.00052 29.4 0.9 33 1058-1096 12-46 (50)
58 PLN00035 histone H4; Provision 29.9 24 0.00052 35.6 1.0 29 863-891 30-58 (103)
59 PF13901 DUF4206: Domain of un 29.8 36 0.00079 37.5 2.4 37 333-376 153-197 (202)
60 KOG2893 Zn finger protein [Gen 29.7 19 0.00041 41.0 0.2 37 1250-1291 18-55 (341)
61 PF13771 zf-HC5HC2H: PHD-like 27.9 30 0.00066 32.6 1.2 30 332-361 36-68 (90)
62 KOG1734 Predicted RING-contain 26.3 21 0.00045 41.4 -0.2 47 331-377 223-279 (328)
63 PF03604 DNA_RNApol_7kD: DNA d 24.2 40 0.00086 27.5 1.1 22 1058-1079 1-24 (32)
64 KOG0825 PHD Zn-finger protein 23.2 23 0.0005 45.9 -0.7 26 410-439 229-254 (1134)
65 PF13639 zf-RING_2: Ring finge 22.6 19 0.00042 29.9 -1.0 43 1059-1112 2-44 (44)
66 smart00659 RPOLCX RNA polymera 21.4 51 0.0011 28.5 1.3 23 1057-1079 2-26 (44)
67 KOG1829 Uncharacterized conser 21.4 22 0.00047 45.1 -1.3 45 1058-1116 512-561 (580)
No 1
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2.9e-119 Score=1072.14 Aligned_cols=919 Identities=24% Similarity=0.328 Sum_probs=700.8
Q ss_pred CccccCCCCCCCCCCCCCCCCCCCCchhHHhHHHHHHHhHhccccccccCCCHHHHHHHhcCCCCCchHHHHHHHHHHHH
Q 000745 111 GRIEEPVVNPPKLLLPPSSRNLDLDGIPVLDLFSIYACLRSFSTLLFLSPFELEDFVAALKCSSPNLLFDSVHVSILRIL 190 (1306)
Q Consensus 111 ~~~e~~~~~~P~l~LP~SS~dl~vP~e~V~dlLmVy~FLrsFs~~L~LSPFtLDDF~aAL~hde~s~LL~EIHvaLLk~L 190 (1306)
||.|+...+.|||+||+||+||.||+++|+++|+||+|||+|+++|+||||+|||||+||.+.++|.||+||||||||+|
T Consensus 164 p~~~~e~~~vPpleLP~SSedi~IPne~Vm~alsIYevLRsF~~~LrisPF~feDFcaAL~~~~~ssLlaeVHvaLLrA~ 243 (1414)
T KOG1473|consen 164 PDLEEEPPLVPPLELPESSEDIGIPNEHVMDALSIYEVLRSFSRQLRISPFRFEDFCAALISHEQSSLLAEVHVALLRAL 243 (1414)
T ss_pred CChhhccccCCCccCCCcccccCCcHHHHHHHHHHHHHHHhhcceEEeCCccHHHHHHHHHhcCchhHHHHHHHHHHHHH
Confidence 56665555569999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhhhcccCccccchhhccccccCCCCCChHHHHHHHHhhcCCCCCCCcccccceeccCcccccChhhHHHHHHHHhh
Q 000745 191 RKHLEHLSKEGCESASDCLRSLNWGLLDLITWPIFMAEYFLIHNSGLKPGFELTRLKLFSSEYCKQPVSVKIEILRCLCD 270 (1306)
Q Consensus 191 rkd~E~ls~~G~~~a~~~~~~~~w~~LD~lTWPE~Lr~YLes~G~~~~Pele~~~l~ils~eYp~LPVe~KLeILqfLcD 270 (1306)
++|++.+++..+..++++.+|++|++||.+|||||||+|+++.+.-..+-+...+-.+...+||+.||.+||+|||||||
T Consensus 244 lr~eD~~~Thfs~~d~KdsvnI~l~liD~lTWPevLrqY~ea~~~ad~~v~~~~n~fv~~~eY~~~pv~~klkILQ~L~D 323 (1414)
T KOG1473|consen 244 LREEDRLSTHFSPLDSKDSVNIDLYLIDTLTWPEVLRQYFEADKHADGPVWDIFNPFVVEDEYPYRPVSNKLKILQFLCD 323 (1414)
T ss_pred hhhhhhcccccCccccccceeeeeehhccccHHHHHHHHHHhccccCcchhhhhccccccccccccchhhhHHHHHHHHH
Confidence 99999998888888889999999999999999999999999988766665554333355589999999999999999999
Q ss_pred hhhhhHHHHHHHhccccccCCCccccccccccccccccccccccCCCcCchhccccCCCCCCccccccccCCceEecCCC
Q 000745 271 DMIEVEAIRMELNRRSSVAEPEMDFDRNINNEIGKRRRVAMDISAGSCLTEEVVDDANDWNSDECCLCKMDGSLLCCDGC 350 (1306)
Q Consensus 271 ~vLeSeaIRdELerR~~~~E~~~~~d~~~~~e~~KK~~~~~~~s~g~~l~ee~id~~~d~ndD~C~VC~~gG~LLcCD~C 350 (1306)
+||.+..+|+||+.+ ..+. .+|+|.+|++.|+++||..|
T Consensus 324 q~l~~~s~R~e~~se-----~~~~------------------------------------~ddhcrf~~d~~~~lc~Et~ 362 (1414)
T KOG1473|consen 324 QFLTVNSLRDEIDSE-----GEIE------------------------------------YDDHCRFCHDLGDLLCCETC 362 (1414)
T ss_pred HHHHHHHHHHHHhcc-----ccee------------------------------------ecccccccCcccceeecccC
Confidence 999999999999642 2222 25899999999999999999
Q ss_pred CCcccccccCCC--CCCCCCccccccccCCCCCCcc----C--CCccccccccccCCCCcEEEEecCeEEEeecCCCCcc
Q 000745 351 PAAYHSKCVGVA--NVPEGDWFCPECALDRHKPWMK----P--RKSLRGAELLGVDPHGRLYFCSCGYLLVSDSCDTELI 422 (1306)
Q Consensus 351 prafHl~CL~p~--~vPeGdW~Cp~C~~~~~~~~~k----~--r~~lrgaEilg~D~~gRky~~~CgrLLvcdsC~ses~ 422 (1306)
|+.||+.|+.+| .+|+..|.|-.|...++...+. . ....-..+.+|.|++||+||+..++|++|+-- +..
T Consensus 363 prvvhlEcv~hP~~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~ywfi~rrl~Ie~~d--et~ 440 (1414)
T KOG1473|consen 363 PRVVHLECVFHPRFAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYWFISRRLRIEGMD--ETL 440 (1414)
T ss_pred CceEEeeecCCccccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCccccchhceeeeeEEecCC--CcE
Confidence 999999999987 4999999999998776654431 1 11122467889999999999999999999843 457
Q ss_pred ccccc-CCchhHHHHhhccCc------hhHHHHHHHHHHHhcCCCCCCCc-ccccc----cchhhhccc------ccc--
Q 000745 423 LNYYC-RDDLNFVIDVLKSSD------TFYGGIINAICKQWDITVSSNGV-RSNLA----LNTVSLSRH------MKA-- 482 (1306)
Q Consensus 423 ~~YY~-~~dL~~vL~~L~s~~------~~y~~I~~~I~~~w~ip~~l~~~-~s~~~----~n~~~~~~~------~~~-- 482 (1306)
++||+ ..+|..+|+.|+... ..-.+..++|.+||++|+.++.. |-..+ .-..+|+.. +..
T Consensus 441 l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R~~~~f~~~~h~r~~l~~~c~~~lv~~iq 520 (1414)
T KOG1473|consen 441 LWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMGLTEELTNELRGAVDFGEDPHGRLFLGRDCAVLLVLCIQ 520 (1414)
T ss_pred EEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhccchhhhhhhhhcccccccCCCcceeeecchhhHHhhhhh
Confidence 99999 589999999999521 22335569999999999998665 21111 111122211 000
Q ss_pred -----CCCccccchhhhhhhhhhcccccCCCCcccccc----ccccccccc----ccCCccCCCCccchhc-ccCCCcCc
Q 000745 483 -----EVPTISEIDNEQKLEENFLAGYSNRPDNALSKS----ANLLDSVTA----MELPNISSEGSAETTQ-MNSGFDNF 548 (1306)
Q Consensus 483 -----~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~----~~~~~~~~~----~~~~~~~s~~s~~~~~-~~~~~~~~ 548 (1306)
..+..+..+.. .+.+.++..+++.. +..+. .++-|.... +..-. -++|...-+ .++.++.+
T Consensus 521 ~~~da~l~e~~l~~i~--k~v~~~~S~s~~~e-E~~e~ck~is~~~d~p~~n~~~~~e~~--~dqtf~~y~ys~n~vse~ 595 (1414)
T KOG1473|consen 521 VVEDAILKEENLGDID--KVVLVLISASAHQE-EYVEICKAISQYWDLPEGNLWRLREEG--NDQTFMKYYYSGNEVSEI 595 (1414)
T ss_pred hhhhhhhhHhhhcchH--hhhhhhhhcccchH-HHHHHHHHHhhcccccccchhhhhhcc--cccchhhhcccCCchhhc
Confidence 01111100000 11122222222221 00000 000000000 00000 000000000 00001000
Q ss_pred ccCCCCC----ccchhcccccccccCCCCCCCCCCCCccchhhhccccCCC---CCCCCCCCCCCCccccccchhhhh--
Q 000745 549 QKEGPDN----SIRAAEFSNQSEIAGKLPAPGHNSMTSSTSDIKQKFASSG---CNSSPTNSRKGDALQLQPEIAYMN-- 619 (1306)
Q Consensus 549 ~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~Y~N-- 619 (1306)
..--+.. +.+.-.|+- +.|...+.+.|-...++.+-....+.-+ +.++. |++|||
T Consensus 596 ~~~d~e~~dkk~~~~tkf~l---~~nsd~~~~g~~~t~gt~~~~~~~~~~t~~~~lSni-------------P~s~~n~~ 659 (1414)
T KOG1473|consen 596 FLTDSENADKKSHMQTKFAL---ITNSDGVTAGNVTTYGTGSQHKKLIARTLQQGLSNI-------------PISYNNRK 659 (1414)
T ss_pred cCCchhhhcccccccceecc---cccccceeccccccccchhhcchHHHhhhhhhhccC-------------chHhhhcc
Confidence 0000000 000000000 0000111111111111111111111110 13343 499999
Q ss_pred --cccch-hhhHHHHHHhhhccccccccCCC---CchhH----HHHHHHHHHhhccceeeecCCcccccccccccccccc
Q 000745 620 --RYSFA-QTASSVAEELMHKSSNEISKEPI---NSNEE----IISKQMKAILKKWDKFYWPNTQKLNADTQKEKCGWCF 689 (1306)
Q Consensus 620 --~Y~~g-~~aasaA~~l~~~sse~~~~~~~---~~~~~----~~~~q~Kafs~~~~~f~wps~~kk~~ev~rerCGWC~ 689 (1306)
+|..| +.|+|||+.++.+++ ++.+... ++..+ ++..|+|+||.+|++||||+..+| +..|||||||+
T Consensus 660 w~~~tkg~~lavs~A~~~~el~s-~t~~~d~s~~~~~~~~~ssn~L~qtklesitaa~f~~~~~~~K--ri~rer~~~~~ 736 (1414)
T KOG1473|consen 660 WPVYTKGFELAVSAAADLAELSS-ETLEPDLSKRSNAFKAASSNILGQTKLESITAAQFFWPSPDKK--RITRERCGWCE 736 (1414)
T ss_pred chhhccchhhhhhccchHHHHHH-hhcccchhhhhhhhccchhhhhcchhheeeehhhhccCCcccc--cccccccchhh
Confidence 99999 999999999999999 5665531 33333 578999999999999999999999 99999999999
Q ss_pred ccccCCCC-CCeeeeeccccccCcchhhhccccccccCCCchHHHHHHHHhhHhhhcccccccCCChhhhHHHHHHHHhh
Q 000745 690 SCKSATDD-MDCLFYMNNGRVLGSSESEVAGLLSKRNKKGHLVDVICHILSIEDRLLGLLLGPWLNPHYTKLWRKSALKA 768 (1306)
Q Consensus 690 sCk~s~~~-~~C~ln~a~~~~~k~~~~~~~gl~~~kn~~~hl~~i~~yil~mEe~L~GLl~Gp~~~~~~r~~Wrk~~~~A 768 (1306)
+|+..... ++||++.+...|+||+|.+.+||.|.+|.++.+.+|++|++++||+++|++|||++...-|++||+.|+.
T Consensus 737 ~~~l~~~s~k~~~~~~~~~gaqKGa~~r~~G~~~l~n~~~vlS~~~~~~~~~~es~~~v~v~~~~~Esnr~~~r~~L~~- 815 (1414)
T KOG1473|consen 737 SCRLTFASRKGTMLLAAVIGAQKGAMYRNSGLFPLKNWEWVLSSIAAYWLALEESPRGVIVGEFKSESNRKQERKELLV- 815 (1414)
T ss_pred hcceeeehhccccchhhccccccccceeeeccccccChhHHHHHHHHHHHhhhccccceeecccccccchhhHHHHhhh-
Confidence 99998855 9999999999999999999999999999999999999999999999999999999999999999999987
Q ss_pred hhhhhHHHHHHHHHhhhhchhhccccccccCcee-ccccccceeecccccccccCCCCCcCCCCCCCCCcccCCCcceEE
Q 000745 769 ADMASVKHLLLTLEANLQHLALSAEWFKHVDPVV-TVGSASHIVIASSRANSKAGAGRKKARDFDGNPSTKAAGGLSLCW 847 (1306)
Q Consensus 769 s~~~~ik~~LL~LE~nir~~A~s~~W~k~~D~~~-~~~s~~~~~~~s~~~~~k~g~g~rr~r~~~~~~~~~~~~~~~~~W 847 (1306)
.+.++++||+||.-+|++-+|.+.||+|. ++.|+.++.+.+.++.|.|+.||++...++ ..++-......|.|
T Consensus 816 -----r~~~~~q~ee~i~~~~~~~y~~~~~~n~~rie~s~~~~ng~~v~akQ~r~pgr~~~s~~~-ek~A~~s~ld~f~~ 889 (1414)
T KOG1473|consen 816 -----RRSGGKQLEENICSGALSCYWPKQMDNWLRIEHSIFQSNGVTVGAKQARDPGRTKQSLQA-EKTAPKSDLDSFTW 889 (1414)
T ss_pred -----hhhhhhhhccccccccccccchhhccCceeeeechhccCceeechhhhcCCcchhhhcch-hhccccccccchhh
Confidence 38999999999999999999999999998 899999999999999999999999988554 45555677779999
Q ss_pred ecCCcchhhhhccccCcHHHHHHHHHhcCccccCccccCCCchhhhhhhhhhhhhhhhccccHhHHhHHhhhcccccccc
Q 000745 848 WRGGRLSCQLFSWKRLPRSLVSKAARQAGCMKIPGILYPENSDFARRSRTVAWRAAVESSTSVEQLAIQVREFDSNVRWD 927 (1306)
Q Consensus 848 wrGG~ls~~if~~~~Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~~rRsr~~aWraaVe~s~~~sqLalqvR~Ld~~irW~ 927 (1306)
||||+ |+.|+|+|+|-++.++|+|.|+|.+++|+..|-+.+.+|||+++..|.+||+.++|++||||||| -+++
T Consensus 890 ~Rggk-s~vvl~kavL~~~~mk~~v~~~g~ta~~k~nfl~~~y~p~~s~~s~wk~av~n~enlh~LAlQ~~---q~v~-- 963 (1414)
T KOG1473|consen 890 WRGGK-SKVVLQKAVLSQSIMKKLVWQQGFTAGPKSNFLDWSYIPRRSRRSCWKAAVENSENLHQLALQLR---QNVQ-- 963 (1414)
T ss_pred hhcCc-ceeeehhhhcchHHHHHHhhccccccCCcccccccccccchhhhhhhhhhhcChhhHHHHHHHHH---HHHh--
Confidence 99999 99999999999999999999999999999999999999999999999999999999999999982 2333
Q ss_pred cccCCCCCccCchhhhHHHHhhhhcccccccccccceEEEEecCCccccchhhhccccccccccCCCccceeeccCcchh
Q 000745 928 DIENTHPLCTMDKEFRKSVRLFKKAIIRRKCLKEEGVKYLVDFGKRRSVPDIVIRHGSMAEESSSGRKKYWLNESYVPLH 1007 (1306)
Q Consensus 928 ~~~~~~~~~~~~k~~~~~a~~fr~a~i~~K~i~~~~v~Y~~~fg~~k~lP~~v~k~~~~~E~~~~~~~kyW~~E~~vPL~ 1007 (1306)
+.|++++.++.||||-||.|++-+++..|+.-|++ +++||.++. ||+.|..|+|
T Consensus 964 ----------d~~s~~~r~ai~r~~~ic~~~l~d~~~~~~~~~~s------~~~~~~~~~---------~~~~~~~~sl- 1017 (1414)
T KOG1473|consen 964 ----------DVKSPETRRAIFRNAEICIKKLYDNKEEEGESWLS------SEFSHVISS---------RPQRHEFVSL- 1017 (1414)
T ss_pred ----------ccCCchhhHHHhhhhhhhccccccCCcccccchhh------hhhhhhhhc---------ccccCceeec-
Confidence 77999999999999999999999999999999999 888998866 9999999999
Q ss_pred hhHhHHhhhhcccCCCCCCCCCCchhhhcccccccccchhhhhccCCCCccccCCCcCCcccCCceecCcccccCccccc
Q 000745 1008 LLKSFEERRVARKSPKLSSGKLSEPFRVIKKSLRDRGFSYLFSKAARSEYYQCGHCSKDVLIRDAVCCQDCKDNYGVSGY 1087 (1306)
Q Consensus 1008 LlkefE~k~~~~~~~~~~~~~~~~~~~~~~K~~~~~~F~yl~~k~~~~~~~~C~~C~kdv~~rd~v~C~~Cq~~~~~~g~ 1087 (1306)
.||..+. .+.-..+.+++.++|.+.-.+|.|.-.+
T Consensus 1018 ---~~~~fr~------~~~~r~~~~q~~~~~~~~~~v~~~~~~~------------------------------------ 1052 (1414)
T KOG1473|consen 1018 ---GYEKFRS------LDNRRATAIQREWLKGSTANVFEIKDYW------------------------------------ 1052 (1414)
T ss_pred ---cchhhhc------chhhhhHHHHhhhhcccccceeeeeccC------------------------------------
Confidence 3887421 2233456888888888888887765433
Q ss_pred ccccceeccCccccceeeeEecccccccccccccccccCCcCCCCCCccccccccccccccccccccccCCCcccccCcc
Q 000745 1088 FHKRHIRKSAGAVTTECKYTCYQCQDGRFKKDTRTAKNGTKKGKMNTRSVKVKSQKSKKTTGRRSVQSKNSKKTVVGGRS 1167 (1306)
Q Consensus 1088 ~Hke~~~~s~~~~~~~~~~~C~~C~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~q~~k~~t~~k~~~~K~~kk~~~~~r~ 1167 (1306)
+ ++ +.
T Consensus 1053 -----------------------------~---------------~~-------------------------s~------ 1057 (1414)
T KOG1473|consen 1053 -----------------------------P---------------PS-------------------------QQ------ 1057 (1414)
T ss_pred -----------------------------C---------------ch-------------------------hh------
Confidence 0 00 11
Q ss_pred cccccCccccccccccchhhhhhhhhhccccccCCCCCCCcccccCCCCCccchhhhcccchhhcccccceeccccCCCc
Q 000745 1168 LRSRNDKKVAAIPLRRSARRAKLVSVQNRKHAGRKRGRPKSKKKTSRKPKKTTSLQKKRTQSYYSYWLNGLFLSRKPDDD 1247 (1306)
Q Consensus 1168 ~rs~~~k~~~~~pl~~s~~~~k~~~~~~~~~~~~k~~~~~~K~~~~~~~~~~~~~~K~Rt~~~~~yWl~Gl~w~rk~~dd 1247 (1306)
+.|.++....+.. ||.+.+.++. |...+... | |++|.+++-.|
T Consensus 1058 ~~s~~~~~~~~gv----------------------------kq~tpd~n~~-----~~~~~~~s--~--~v~~~~~~~a~ 1100 (1414)
T KOG1473|consen 1058 LPSEKNNVNYSGV----------------------------KQRTPDGNER-----KSKKKTLS--S--GVIWRKKNYAD 1100 (1414)
T ss_pred CcccccCCCccce----------------------------eeecCCcchh-----hhccCCcc--c--ccccccccccc
Confidence 2444444333334 6666665554 11122233 8 99999999999
Q ss_pred cccccccceeeeccCCCCCCCCCCcccccccccCCCCcceEEecccC
Q 000745 1248 RVMQFTRKNFLAASELLTDTLDQPKCYLCHEAEHTSTSNYIACEICG 1294 (1306)
Q Consensus 1248 r~~~Fr~k~~~~~se~~~~~~~~P~C~LC~~~y~~~~l~YI~CE~C~ 1294 (1306)
++..||+.||+..+. ++.+-.+|+|..|.-+| +++++||+|..|.
T Consensus 1101 t~~~~~~qnii~ag~-~~kp~~~p~~~i~~~p~-~pg~~~i~~~~~~ 1145 (1414)
T KOG1473|consen 1101 TGVPFRHQNIILAGR-SDKPTLSPVCFICTLPY-NPGLTYIHCTVCM 1145 (1414)
T ss_pred CCCCcchhhHHhccC-CCCCCCCccccceeecc-CCCCCcceEEEee
Confidence 999999999999999 99999999999999999 8899999999998
No 2
>smart00571 DDT domain in different transcription and chromosome remodeling factors.
Probab=99.62 E-value=3.2e-16 Score=139.33 Aligned_cols=60 Identities=48% Similarity=0.711 Sum_probs=57.0
Q ss_pred chhHHhHHHHHHHhHhccccccccCCC--HHHHHHHhcCCCCCchHHHHHHHHHHHHHHhhh
Q 000745 136 GIPVLDLFSIYACLRSFSTLLFLSPFE--LEDFVAALKCSSPNLLFDSVHVSILRILRKHLE 195 (1306)
Q Consensus 136 ~e~V~dlLmVy~FLrsFs~~L~LSPFt--LDDF~aAL~hde~s~LL~EIHvaLLk~Lrkd~E 195 (1306)
++.|+|+||||+||++|+++|+||||+ ||||++||++++++.||+|||++||++|++|.+
T Consensus 1 ~~~~~d~l~V~eFl~~F~~~L~L~~f~~~l~~f~~Al~~~~~~~ll~ei~~~LL~~i~~d~~ 62 (63)
T smart00571 1 NEAFGDLLMVYEFLRSFGKVLGLSPFRATLEDFIAALKCRDQNGLLTEVHVVLLRAILKDEG 62 (63)
T ss_pred CcHHHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHHhcCCcchHHHHHHHHHHHHHHhCCC
Confidence 478999999999999999999999999 999999999999999999999999999988754
No 3
>PF02791 DDT: DDT domain; InterPro: IPR004022 This domain is predicted to be a DNA binding domain. The DDT domain is named after (DNA binding homeobox and Different Transcription factors). It is found in foetal Alzheimer antigen and several hypothetical and uncharacterised proteins.
Probab=99.62 E-value=4.4e-16 Score=137.40 Aligned_cols=61 Identities=36% Similarity=0.631 Sum_probs=57.4
Q ss_pred chhHHhHHHHHHHhHhccccccccCCCHHHHHHHhcCCCCCchHHHHHHHHHHHHHHhhhh
Q 000745 136 GIPVLDLFSIYACLRSFSTLLFLSPFELEDFVAALKCSSPNLLFDSVHVSILRILRKHLEH 196 (1306)
Q Consensus 136 ~e~V~dlLmVy~FLrsFs~~L~LSPFtLDDF~aAL~hde~s~LL~EIHvaLLk~Lrkd~E~ 196 (1306)
.++|+++||||+||++|+.+|+|+|||||||++||.+.+++.||+|||.+||++|.++.++
T Consensus 1 ~~~~~~~L~v~~Fl~~F~~~L~L~~ftlddf~~AL~~~~~~~ll~ei~~~LL~~l~~~~~d 61 (61)
T PF02791_consen 1 GEAFGDLLMVWEFLNTFGEVLGLSPFTLDDFEQALLCNDPSGLLAEIHCALLKALLADEED 61 (61)
T ss_pred CcHHHHHHHHHHHHHHHHHHHcCCcCCHHHHHHHHcCCCcchhHHHHHHHHHHHHHhccCC
Confidence 3789999999999999999999999999999999999999999999999999999887653
No 4
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.29 E-value=1.8e-07 Score=112.27 Aligned_cols=48 Identities=44% Similarity=1.272 Sum_probs=43.1
Q ss_pred CccccccccCCce---EecCCCCCcccccccCCC----CCCCCCccccccccCCC
Q 000745 332 SDECCLCKMDGSL---LCCDGCPAAYHSKCVGVA----NVPEGDWFCPECALDRH 379 (1306)
Q Consensus 332 dD~C~VC~~gG~L---LcCD~CprafHl~CL~p~----~vPeGdW~Cp~C~~~~~ 379 (1306)
.++|..|++.|.. +|||+||++||+.||.|| .+|.|.|+|++|.++-.
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~ 307 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSV 307 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeeee
Confidence 5699999998876 999999999999999997 49999999999987643
No 5
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.05 E-value=1.5e-06 Score=96.11 Aligned_cols=45 Identities=38% Similarity=0.964 Sum_probs=38.5
Q ss_pred cccccccc---CCceEecCCCCCcccccccCCC--CCCCCCccccccccC
Q 000745 333 DECCLCKM---DGSLLCCDGCPAAYHSKCVGVA--NVPEGDWFCPECALD 377 (1306)
Q Consensus 333 D~C~VC~~---gG~LLcCD~CprafHl~CL~p~--~vPeGdW~Cp~C~~~ 377 (1306)
-+|.+|+. +.+||+||.|+++||++||.|+ ..|+|.|.|..|...
T Consensus 282 k~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~ 331 (336)
T KOG1244|consen 282 KYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEE 331 (336)
T ss_pred ceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHH
Confidence 45778875 4579999999999999999997 489999999999753
No 6
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.02 E-value=1.7e-06 Score=73.20 Aligned_cols=43 Identities=44% Similarity=1.247 Sum_probs=36.2
Q ss_pred ccccccc---CCceEecCCCCCcccccccCCC----CCCCCCcccccccc
Q 000745 334 ECCLCKM---DGSLLCCDGCPAAYHSKCVGVA----NVPEGDWFCPECAL 376 (1306)
Q Consensus 334 ~C~VC~~---gG~LLcCD~CprafHl~CL~p~----~vPeGdW~Cp~C~~ 376 (1306)
+|.+|+. .++||.||.|..+||..|++++ ..+.+.|+|+.|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 4788877 5689999999999999999986 34556999999974
No 7
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=97.97 E-value=1.7e-06 Score=108.48 Aligned_cols=131 Identities=31% Similarity=0.450 Sum_probs=105.9
Q ss_pred CCccccccccCCceEecCC-CCCcccc-cccCCC----CCCCCCccccccccCCCCCCccCCCccccccccccCCCCcEE
Q 000745 331 NSDECCLCKMDGSLLCCDG-CPAAYHS-KCVGVA----NVPEGDWFCPECALDRHKPWMKPRKSLRGAELLGVDPHGRLY 404 (1306)
Q Consensus 331 ndD~C~VC~~gG~LLcCD~-CprafHl-~CL~p~----~vPeGdW~Cp~C~~~~~~~~~k~r~~lrgaEilg~D~~gRky 404 (1306)
+.+.|.+|+..+.+|||++ ||..||+ .|++-. .+++|-|+|+.|..+...+.....+.++++-.+++|.|||.|
T Consensus 427 i~rrl~Ie~~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R~~~~f~~~~h~r~~ 506 (1414)
T KOG1473|consen 427 ISRRLRIEGMDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMGLTEELTNELRGAVDFGEDPHGRLF 506 (1414)
T ss_pred eeeeeEEecCCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhccchhhhhhhhhcccccccCCCccee
Confidence 3467999999999999998 9999999 999942 499999999999988877776666677888889999999998
Q ss_pred EE-ecCeEEEe-ecCCCCcccccccCCchhHHHHhhccC---chhHHHHHHHHHHHhcCCCC
Q 000745 405 FC-SCGYLLVS-DSCDTELILNYYCRDDLNFVIDVLKSS---DTFYGGIINAICKQWDITVS 461 (1306)
Q Consensus 405 ~~-~CgrLLvc-dsC~ses~~~YY~~~dL~~vL~~L~s~---~~~y~~I~~~I~~~w~ip~~ 461 (1306)
.. .|.-||+- ..-.....++||...++.++...+-+. ..-|.++|+.|+++|+.|+.
T Consensus 507 l~~~c~~~lv~~iq~~~da~l~e~~l~~i~k~v~~~~S~s~~~eE~~e~ck~is~~~d~p~~ 568 (1414)
T KOG1473|consen 507 LGRDCAVLLVLCIQVVEDAILKEENLGDIDKVVLVLISASAHQEEYVEICKAISQYWDLPEG 568 (1414)
T ss_pred eecchhhHHhhhhhhhhhhhhhHhhhcchHhhhhhhhhcccchHHHHHHHHHHhhccccccc
Confidence 88 47655532 222234678999998888777666653 24789999999999999984
No 8
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.88 E-value=6.9e-06 Score=90.50 Aligned_cols=42 Identities=40% Similarity=1.222 Sum_probs=37.7
Q ss_pred cccccccC--CceEecCC--CCC-cccccccCCCCCCCCCcccccccc
Q 000745 334 ECCLCKMD--GSLLCCDG--CPA-AYHSKCVGVANVPEGDWFCPECAL 376 (1306)
Q Consensus 334 ~C~VC~~g--G~LLcCD~--Cpr-afHl~CL~p~~vPeGdW~Cp~C~~ 376 (1306)
+| -|+++ |+|+-||+ |.+ +||+.|+|+...|+|.|||+.|+.
T Consensus 223 YC-fCqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 223 YC-FCQQVSYGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECKK 269 (271)
T ss_pred EE-EecccccccceecCCCCCchhheeccccccCCCCCCcEeCHHhHh
Confidence 45 68774 89999997 998 999999999999999999999975
No 9
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.86 E-value=5.4e-06 Score=93.15 Aligned_cols=41 Identities=37% Similarity=1.070 Sum_probs=37.1
Q ss_pred cccCCceEecCC--CC-CcccccccCCCCCCCCCccccccccCC
Q 000745 338 CKMDGSLLCCDG--CP-AAYHSKCVGVANVPEGDWFCPECALDR 378 (1306)
Q Consensus 338 C~~gG~LLcCD~--Cp-rafHl~CL~p~~vPeGdW~Cp~C~~~~ 378 (1306)
|...|+|+-||. |+ .+||+.|+|+...|.|.||||.|....
T Consensus 226 qvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~~ 269 (274)
T KOG1973|consen 226 QVSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAEN 269 (274)
T ss_pred ccccccccccCCCCCCcceEEEeccccccCCCCcccchhhhhhh
Confidence 556899999998 99 899999999999999999999998653
No 10
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.82 E-value=6.9e-06 Score=100.13 Aligned_cols=43 Identities=35% Similarity=1.065 Sum_probs=37.3
Q ss_pred cccccccCC---ceEecCCCCCc-ccccccCCC--CCCCCCcccccccc
Q 000745 334 ECCLCKMDG---SLLCCDGCPAA-YHSKCVGVA--NVPEGDWFCPECAL 376 (1306)
Q Consensus 334 ~C~VC~~gG---~LLcCD~Cpra-fHl~CL~p~--~vPeGdW~Cp~C~~ 376 (1306)
.|.+|.... -||+||.|+.+ ||+|||+|+ .+|-+.|||++|.-
T Consensus 217 ~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~d 265 (1134)
T KOG0825|consen 217 KCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSL 265 (1134)
T ss_pred cceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchh
Confidence 488897643 49999999999 999999997 49999999999963
No 11
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.62 E-value=1.6e-05 Score=98.50 Aligned_cols=49 Identities=39% Similarity=1.046 Sum_probs=42.7
Q ss_pred CCCCccccccccCCceEecCCCCCcccccccCCC--CCCCCCccccccccC
Q 000745 329 DWNSDECCLCKMDGSLLCCDGCPAAYHSKCVGVA--NVPEGDWFCPECALD 377 (1306)
Q Consensus 329 d~ndD~C~VC~~gG~LLcCD~CprafHl~CL~p~--~vPeGdW~Cp~C~~~ 377 (1306)
+.+...|++|+++|++||||.|+.+||.+|++++ .+|.|+|.|+.|.+.
T Consensus 44 ~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 44 DAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCP 94 (696)
T ss_pred hhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccC
Confidence 3455779999999999999999999999999986 477788999999543
No 13
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.53 E-value=3.3e-05 Score=86.14 Aligned_cols=44 Identities=34% Similarity=0.938 Sum_probs=37.3
Q ss_pred ccccccccC---CceEecCCCCCcccccccCCCCCCCCCcccc-cccc
Q 000745 333 DECCLCKMD---GSLLCCDGCPAAYHSKCVGVANVPEGDWFCP-ECAL 376 (1306)
Q Consensus 333 D~C~VC~~g---G~LLcCD~CprafHl~CL~p~~vPeGdW~Cp-~C~~ 376 (1306)
..|.+|+++ .++++||.|+++||.+|+|+..+|.|.|.|- .|..
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDRGPHTLCVGLQDLPRGEWICDMRCRE 362 (381)
T ss_pred HhhhccCCcccchheeccccccCCCCccccccccccCccchhhhHHHH
Confidence 346777764 5799999999999999999999999999997 4544
No 14
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.38 E-value=0.00014 Score=93.39 Aligned_cols=51 Identities=35% Similarity=1.048 Sum_probs=43.5
Q ss_pred CCccccccccCC-----ceEecCCCCCcccccccCCCCCCCCCccccccccCCCCC
Q 000745 331 NSDECCLCKMDG-----SLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALDRHKP 381 (1306)
Q Consensus 331 ndD~C~VC~~gG-----~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~~~~~ 381 (1306)
.|..|.+|.++. .++.||.|+.++|.+|+|.+.+|+|.|+|..|......+
T Consensus 218 ~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 218 EDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred CCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCcCcc
Confidence 356899998753 489999999999999999889999999999998765443
No 15
>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=97.26 E-value=0.00021 Score=74.13 Aligned_cols=28 Identities=39% Similarity=1.095 Sum_probs=24.3
Q ss_pred cccccccCCC--CCCCCCccccccccCCCC
Q 000745 353 AYHSKCVGVA--NVPEGDWFCPECALDRHK 380 (1306)
Q Consensus 353 afHl~CL~p~--~vPeGdW~Cp~C~~~~~~ 380 (1306)
+||++||.|| .+|+|+|+||.|..+...
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~ 30 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSG 30 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCC
Confidence 6999999997 599999999999876543
No 16
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=96.94 E-value=0.00043 Score=84.39 Aligned_cols=45 Identities=42% Similarity=1.216 Sum_probs=39.4
Q ss_pred ccccccccC-----CceEecCC--CCCcccccccCCCCCCCCCccccccccC
Q 000745 333 DECCLCKMD-----GSLLCCDG--CPAAYHSKCVGVANVPEGDWFCPECALD 377 (1306)
Q Consensus 333 D~C~VC~~g-----G~LLcCD~--CprafHl~CL~p~~vPeGdW~Cp~C~~~ 377 (1306)
.-|+||.|. .-|+.||+ |.-+.|..|+++..||+|.|||..|...
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesq 57 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQ 57 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhh
Confidence 469999873 24999997 9999999999999999999999999654
No 17
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=96.52 E-value=0.00056 Score=90.85 Aligned_cols=51 Identities=33% Similarity=0.886 Sum_probs=42.7
Q ss_pred CCCCccccccccCC---ceEecCCCCCcccccccCCC--CCCCCCccccccccCCC
Q 000745 329 DWNSDECCLCKMDG---SLLCCDGCPAAYHSKCVGVA--NVPEGDWFCPECALDRH 379 (1306)
Q Consensus 329 d~ndD~C~VC~~gG---~LLcCD~CprafHl~CL~p~--~vPeGdW~Cp~C~~~~~ 379 (1306)
......|.+|...+ +|++||.|..+||++|+.|. .+|.|+|+||.|+.+..
T Consensus 1105 s~~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEHR 1160 (1404)
T ss_pred ccchhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhhh
Confidence 33446799997643 59999999999999999984 69999999999997653
No 18
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=96.37 E-value=0.0014 Score=77.73 Aligned_cols=48 Identities=33% Similarity=0.915 Sum_probs=41.4
Q ss_pred CCccccccccCC-----ceEecCCCCCcccccccCCCCCCCCCccccccccCC
Q 000745 331 NSDECCLCKMDG-----SLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALDR 378 (1306)
Q Consensus 331 ndD~C~VC~~gG-----~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~~ 378 (1306)
-++.|.+|.... .++.||+|+.+-|..|.|.+-+|+|.|+|..|....
T Consensus 192 ~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~ 244 (669)
T COG5141 192 FDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGE 244 (669)
T ss_pred hhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccc
Confidence 467899997532 499999999999999999999999999999997543
No 19
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=95.96 E-value=0.0031 Score=77.87 Aligned_cols=52 Identities=35% Similarity=0.906 Sum_probs=43.8
Q ss_pred CCccccccccC-----CceEecCCCCCcccccccCCCCCCCCCccccccccCCCCCC
Q 000745 331 NSDECCLCKMD-----GSLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALDRHKPW 382 (1306)
Q Consensus 331 ndD~C~VC~~g-----G~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~~~~~~ 382 (1306)
++-.|.||..+ .+|++||.|....|..|+|+..+|+|.|.|..|.-....++
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg~~ppC 326 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALGIEPPC 326 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccccCCCCe
Confidence 34568888754 47999999999999999999999999999999987755554
No 20
>PF15612 WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B 2Y9Y_B.
Probab=95.91 E-value=0.0041 Score=53.12 Aligned_cols=38 Identities=37% Similarity=0.679 Sum_probs=33.1
Q ss_pred eccCcccccChhhHHHHHHHHhhhhhhhHHHHHHHhcc
Q 000745 248 LFSSEYCKQPVSVKIEILRCLCDDMIEVEAIRMELNRR 285 (1306)
Q Consensus 248 ils~eYp~LPVe~KLeILqfLcD~vLeSeaIRdELerR 285 (1306)
+...+|+-+++..|+.||++|||.++++..||++|+.+
T Consensus 9 l~~~~y~~L~~~~kl~iL~~L~~~~l~s~~vr~~i~~~ 46 (50)
T PF15612_consen 9 LETGEYYELSPEEKLEILRALCDQLLSSSSVRNEIEER 46 (50)
T ss_dssp CCCSTCCCS-HHHHHHHHHHHHHHHCC-CCHHHHHHHH
T ss_pred HHcCCcccCCHHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence 44689999999999999999999999999999999865
No 21
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=95.90 E-value=0.0035 Score=75.02 Aligned_cols=46 Identities=33% Similarity=0.772 Sum_probs=37.4
Q ss_pred ccccccccCC-----ceEecCCCCCcccccccCCCC------CCCCCccccccccCC
Q 000745 333 DECCLCKMDG-----SLLCCDGCPAAYHSKCVGVAN------VPEGDWFCPECALDR 378 (1306)
Q Consensus 333 D~C~VC~~gG-----~LLcCD~CprafHl~CL~p~~------vPeGdW~Cp~C~~~~ 378 (1306)
..|.+|+.|+ +||.|+.|...||..|+-|.. -|...|||..|....
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~ 225 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGP 225 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccch
Confidence 3499998654 699999999999999998742 466789999997653
No 22
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=95.78 E-value=0.004 Score=76.42 Aligned_cols=43 Identities=35% Similarity=0.966 Sum_probs=36.0
Q ss_pred cccccccCC---ceEecCCCCCcccccccCCC--CCCCCCcccccccc
Q 000745 334 ECCLCKMDG---SLLCCDGCPAAYHSKCVGVA--NVPEGDWFCPECAL 376 (1306)
Q Consensus 334 ~C~VC~~gG---~LLcCD~CprafHl~CL~p~--~vPeGdW~Cp~C~~ 376 (1306)
.|..|+.+| .+++|+.|+.+||.+|..|+ .+|.|.|+|+.|..
T Consensus 70 vCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~ 117 (694)
T KOG4443|consen 70 VCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTR 117 (694)
T ss_pred eeeeccccCCcccccccccccccccccccCCccccccCcccccHHHHh
Confidence 455566444 59999999999999999996 59999999999964
No 23
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.01 E-value=0.0065 Score=49.57 Aligned_cols=34 Identities=50% Similarity=1.265 Sum_probs=20.5
Q ss_pred CceEecCCCCCcccccccCCCCCCCC-Cccccccc
Q 000745 342 GSLLCCDGCPAAYHSKCVGVANVPEG-DWFCPECA 375 (1306)
Q Consensus 342 G~LLcCD~CprafHl~CL~p~~vPeG-dW~Cp~C~ 375 (1306)
..|+.|++|.-..|..|.+...+|++ +|+|..|+
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 35899999999999999999888887 89998884
No 24
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=94.11 E-value=0.012 Score=73.75 Aligned_cols=98 Identities=24% Similarity=0.332 Sum_probs=62.8
Q ss_pred CCCCcccccccCCC--CCCCCCccccccccCCCCCCccCCCccccccccccCCCCcEEEEe---cCeEEEeecCCCCccc
Q 000745 349 GCPAAYHSKCVGVA--NVPEGDWFCPECALDRHKPWMKPRKSLRGAELLGVDPHGRLYFCS---CGYLLVSDSCDTELIL 423 (1306)
Q Consensus 349 ~CprafHl~CL~p~--~vPeGdW~Cp~C~~~~~~~~~k~r~~lrgaEilg~D~~gRky~~~---CgrLLvcdsC~ses~~ 423 (1306)
.|+++||..|+.|. ..|+++|.||.|.....+.....+. + +.+...+++. .+.+++|++|+ ..+
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~-~--------~~~~~e~c~ic~~~g~~l~c~tC~--~s~ 69 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDD-W--------DDAEQEACRICADGGELLWCDTCP--ASF 69 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCC-c--------chhhhhhhhhhcCCCcEEEecccc--HHH
Confidence 49999999999985 4678999999998776554333221 1 1111222222 46799999997 345
Q ss_pred ccccCCchhHHHHhhc---------cCchhHHHHHHHHHHHhcCCC
Q 000745 424 NYYCRDDLNFVIDVLK---------SSDTFYGGIINAICKQWDITV 460 (1306)
Q Consensus 424 ~YY~~~dL~~vL~~L~---------s~~~~y~~I~~~I~~~w~ip~ 460 (1306)
++|+. .+++...+ .++..-+++.+++.|+|..+.
T Consensus 70 h~~cl---~~pl~~~p~~~~~c~Rc~~p~~~~k~~~il~~~~~~~~ 112 (696)
T KOG0383|consen 70 HASCL---GPPLTPQPNGEFICPRCFCPKNAGKIEKILGWRWKPTP 112 (696)
T ss_pred HHHcc---CCCCCcCCccceeeeeeccCCCcccccccceeEecCCC
Confidence 55554 33333332 233455678899999998777
No 25
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=93.96 E-value=0.021 Score=68.32 Aligned_cols=42 Identities=36% Similarity=0.956 Sum_probs=34.7
Q ss_pred cccccccCCc---eEecCCCCCcccccccCCC--CCCCC----Cccccccc
Q 000745 334 ECCLCKMDGS---LLCCDGCPAAYHSKCVGVA--NVPEG----DWFCPECA 375 (1306)
Q Consensus 334 ~C~VC~~gG~---LLcCD~CprafHl~CL~p~--~vPeG----dW~Cp~C~ 375 (1306)
-|.+|...-+ |+.||.|...||+.||.|| .+|.- -|.|.+|.
T Consensus 546 sCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 546 SCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred eeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 4999986543 8889999999999999997 36653 49999994
No 26
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=93.47 E-value=0.019 Score=70.72 Aligned_cols=90 Identities=28% Similarity=0.456 Sum_probs=59.7
Q ss_pred CCccccccccC-----CceEecCCCCCcccccccCCC---CCCCCCccccccccCCCCCCccCCCccccccccccCCCCc
Q 000745 331 NSDECCLCKMD-----GSLLCCDGCPAAYHSKCVGVA---NVPEGDWFCPECALDRHKPWMKPRKSLRGAELLGVDPHGR 402 (1306)
Q Consensus 331 ndD~C~VC~~g-----G~LLcCD~CprafHl~CL~p~---~vPeGdW~Cp~C~~~~~~~~~k~r~~lrgaEilg~D~~gR 402 (1306)
....|.+|+.. |.|+.|..|..-||.+|+... .+-.+-|.||.|+.... + |
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~---------------c-----~- 75 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEA---------------C-----G- 75 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeee---------------c-----c-
Confidence 34678888764 459999999999999999853 12234499999985311 1 0
Q ss_pred EEEEecCeEEEeecCCCCcccccccCCchhHHHHhhccCchhHHH
Q 000745 403 LYFCSCGYLLVSDSCDTELILNYYCRDDLNFVIDVLKSSDTFYGG 447 (1306)
Q Consensus 403 ky~~~CgrLLvcdsC~ses~~~YY~~~dL~~vL~~L~s~~~~y~~ 447 (1306)
.-..-.++++|+.|+ -.||.+|..|+++.+.+.+.++.+
T Consensus 76 -~~gD~~kf~~Ck~cD-----vsyh~yc~~P~~~~v~sg~~~ckk 114 (694)
T KOG4443|consen 76 -TTGDPKKFLLCKRCD-----VSYHCYCQKPPNDKVPSGPWLCKK 114 (694)
T ss_pred -ccCCccccccccccc-----ccccccccCCccccccCcccccHH
Confidence 000112456677776 378888888888888875543333
No 27
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=88.10 E-value=0.27 Score=60.89 Aligned_cols=46 Identities=35% Similarity=0.945 Sum_probs=39.1
Q ss_pred CccccccccCCceEecCCCCCcccccccCCC---CCCCCCccccccccC
Q 000745 332 SDECCLCKMDGSLLCCDGCPAAYHSKCVGVA---NVPEGDWFCPECALD 377 (1306)
Q Consensus 332 dD~C~VC~~gG~LLcCD~CprafHl~CL~p~---~vPeGdW~Cp~C~~~ 377 (1306)
-+.|.+|..+|+++||+.|+.+||+.|.+++ ..+-+.|.|..|...
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~~ 95 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPKG 95 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcccccccccccCCCcc
Confidence 3579999999999999999999999999975 344567989888764
No 29
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=87.89 E-value=0.33 Score=58.69 Aligned_cols=100 Identities=29% Similarity=0.615 Sum_probs=62.4
Q ss_pred cccccccc-----CCceEecCCCCCcccccccCCC---CCCCC-------CccccccccCCCCC----------Ccc---
Q 000745 333 DECCLCKM-----DGSLLCCDGCPAAYHSKCVGVA---NVPEG-------DWFCPECALDRHKP----------WMK--- 384 (1306)
Q Consensus 333 D~C~VC~~-----gG~LLcCD~CprafHl~CL~p~---~vPeG-------dW~Cp~C~~~~~~~----------~~k--- 384 (1306)
..|+||.. .|++|-||.|....|-.|+|.. ++|.| .|||.-|...-..| -++
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs~P~CElCPn~~GifKetD 199 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVSLPHCELCPNRFGIFKETD 199 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCCCCccccCCCcCCcccccc
Confidence 37999964 5789999999999999999963 35553 59999887532211 011
Q ss_pred CCC-------------------ccccccccc--cCCCCcEEEEecCe-----EEEeecCCCCcccccccCCchh
Q 000745 385 PRK-------------------SLRGAELLG--VDPHGRLYFCSCGY-----LLVSDSCDTELILNYYCRDDLN 432 (1306)
Q Consensus 385 ~r~-------------------~lrgaEilg--~D~~gRky~~~Cgr-----LLvcdsC~ses~~~YY~~~dL~ 432 (1306)
.++ .+.+....+ +...|++....|.- -=||-.|+.+.+--|||..|-.
T Consensus 200 igrWvH~iCALYvpGVafg~~~~l~~Vtl~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGMCk~YfHVTCAQ 273 (707)
T KOG0957|consen 200 IGRWVHAICALYVPGVAFGQTHTLCGVTLEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGMCKEYFHVTCAQ 273 (707)
T ss_pred hhhHHHHHHHhhcCccccccccccccccHHHhhhhhhccchhccccchhhhhcceeeeccchhhhhhhhhhHHh
Confidence 000 011111111 23455555555542 2277889888888999987744
No 30
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=87.27 E-value=0.2 Score=57.12 Aligned_cols=45 Identities=24% Similarity=0.429 Sum_probs=35.8
Q ss_pred ccccccccC---------CceEecCCCCCcccccccCCC-----CCCCCCccccccccC
Q 000745 333 DECCLCKMD---------GSLLCCDGCPAAYHSKCVGVA-----NVPEGDWFCPECALD 377 (1306)
Q Consensus 333 D~C~VC~~g---------G~LLcCD~CprafHl~CL~p~-----~vPeGdW~Cp~C~~~ 377 (1306)
..|.+|-++ ..+++|..|..++|.+|+..+ .+-.-.|.|-.|+.-
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC 317 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELC 317 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhh
Confidence 468888764 249999999999999999864 255568999999753
No 31
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=86.89 E-value=0.44 Score=54.21 Aligned_cols=82 Identities=24% Similarity=0.389 Sum_probs=55.9
Q ss_pred Ccccccccc----------CCceEecCCCCCcccccccCCC-----CCCCCCccccccccCCCCCCccCCCccccccccc
Q 000745 332 SDECCLCKM----------DGSLLCCDGCPAAYHSKCVGVA-----NVPEGDWFCPECALDRHKPWMKPRKSLRGAELLG 396 (1306)
Q Consensus 332 dD~C~VC~~----------gG~LLcCD~CprafHl~CL~p~-----~vPeGdW~Cp~C~~~~~~~~~k~r~~lrgaEilg 396 (1306)
..+|..|.. +.+|+-|..|.++=|..||.-. .|-.-.|.|-+|..-..-....
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtse------------ 291 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSE------------ 291 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcC------------
Confidence 345666643 3469999999999999999753 3666789999998653311110
Q ss_pred cCCCCcEEEEecCeEEEeecCCCCcccccccCCchhHHHHhhcc
Q 000745 397 VDPHGRLYFCSCGYLLVSDSCDTELILNYYCRDDLNFVIDVLKS 440 (1306)
Q Consensus 397 ~D~~gRky~~~CgrLLvcdsC~ses~~~YY~~~dL~~vL~~L~s 440 (1306)
-| .-||.||.|+. =||..||.|+|-.-+.
T Consensus 292 nd----------dqllfcddcdr-----gyhmyclsppm~eppe 320 (336)
T KOG1244|consen 292 ND----------DQLLFCDDCDR-----GYHMYCLSPPMVEPPE 320 (336)
T ss_pred CC----------ceeEeecccCC-----ceeeEecCCCcCCCCC
Confidence 11 23778899973 4777888888755553
No 32
>PLN00163 histone H4; Provisional
Probab=84.04 E-value=0.59 Score=42.36 Aligned_cols=26 Identities=27% Similarity=0.695 Sum_probs=24.5
Q ss_pred CcHHHHHHHHHhcCccccCccccCCC
Q 000745 863 LPRSLVSKAARQAGCMKIPGILYPEN 888 (1306)
Q Consensus 863 Lp~s~v~KaarQgG~~ki~gi~Y~~~ 888 (1306)
+.+..|++.||-||+++|+|.+|.|.
T Consensus 30 ItKpaIrRLARRgGVKRIs~~iY~e~ 55 (59)
T PLN00163 30 ITKPAIRRLARRGGVKRISGLIYEET 55 (59)
T ss_pred cchHHHHHHHHhcCceeecchhhHhH
Confidence 78999999999999999999999874
No 33
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=83.98 E-value=0.37 Score=40.93 Aligned_cols=49 Identities=18% Similarity=0.518 Sum_probs=38.4
Q ss_pred ccCCCcCCcccCCceecCcccccCcccccccccceeccCccccc-eeeeEeccccc
Q 000745 1059 QCGHCSKDVLIRDAVCCQDCKDNYGVSGYFHKRHIRKSAGAVTT-ECKYTCYQCQD 1113 (1306)
Q Consensus 1059 ~C~~C~kdv~~rd~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~-~~~~~C~~C~~ 1113 (1306)
.|..|+..-...+.|.|..|. .|||.+|+..+...... ...+.|..|..
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~------~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCN------RWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTS------CEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCC------hhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 377888866566799999999 99999999998765522 22899988864
No 34
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=81.68 E-value=0.91 Score=55.24 Aligned_cols=118 Identities=17% Similarity=0.201 Sum_probs=71.0
Q ss_pred CCcccccccc-----CCceEecCCCCCcccccccCCCCCCCCCccccccccCCCC--CC-ccCCCccc-----ccccccc
Q 000745 331 NSDECCLCKM-----DGSLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALDRHK--PW-MKPRKSLR-----GAELLGV 397 (1306)
Q Consensus 331 ndD~C~VC~~-----gG~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~~~~--~~-~k~r~~lr-----gaEilg~ 397 (1306)
..-.|.+|.. +.++..|+.|.++||..|..+...-.+.|.|..|+..... +. .+..+..+ +..-++-
T Consensus 82 ~e~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~w 161 (464)
T KOG4323|consen 82 SELNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDW 161 (464)
T ss_pred cccCCcccccccccCchhhhhhhhhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCccccccc
Confidence 3456888864 3358889999999999999986666678999999754221 11 12221110 0011111
Q ss_pred CCCCc--EEEEe--------cCeEEEeecCCCCcccccccCCchhHHHHhhccCchhHHHHHHHHH
Q 000745 398 DPHGR--LYFCS--------CGYLLVSDSCDTELILNYYCRDDLNFVIDVLKSSDTFYGGIINAIC 453 (1306)
Q Consensus 398 D~~gR--ky~~~--------CgrLLvcdsC~ses~~~YY~~~dL~~vL~~L~s~~~~y~~I~~~I~ 453 (1306)
|.-.+ +.++- ..++|-|+.|. .+||+.|-.+++.-+-..+.+|.+.|+.=.
T Consensus 162 D~~~~~n~qc~vC~~g~~~~~NrmlqC~~C~-----~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 162 DSGHKVNLQCSVCYCGGPGAGNRMLQCDKCR-----QWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred CccccccceeeeeecCCcCccceeeeecccc-----cHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 11000 01111 24788888885 489998888888766666677776664433
No 35
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=68.59 E-value=2.6 Score=40.97 Aligned_cols=42 Identities=21% Similarity=0.443 Sum_probs=32.7
Q ss_pred CcHHHHHHHHHhcCccccCccccCCCchhhhh-hhhhhhhhhh
Q 000745 863 LPRSLVSKAARQAGCMKIPGILYPENSDFARR-SRTVAWRAAV 904 (1306)
Q Consensus 863 Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~~rR-sr~~aWraaV 904 (1306)
+-+.+||+-||.||.++|.|+.|-|-....|= -+.++|.|+.
T Consensus 30 itKpaIRRlARr~GVkRi~G~~yeE~~~~~k~fl~n~i~~A~~ 72 (103)
T KOG3467|consen 30 ITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVT 72 (103)
T ss_pred cchHHHHHHHHhcCcchhchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 45789999999999999999999886654443 3456777664
No 36
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=67.34 E-value=4.1 Score=50.01 Aligned_cols=48 Identities=27% Similarity=0.529 Sum_probs=40.1
Q ss_pred CCCCccccccccCCceEecCCCCCcccccccCCCCCCCCCccccccccC
Q 000745 329 DWNSDECCLCKMDGSLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALD 377 (1306)
Q Consensus 329 d~ndD~C~VC~~gG~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~ 377 (1306)
..+.++|.+|.+||.+++||.|..++|-.|... ..|++-|.|..|..-
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~-~~~~c~~~~~d~~~~ 133 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPA-QLEKCSKRCTDCRAF 133 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcCc-cCcccccCCcceeee
Confidence 345688999999999999999999999999864 567778888888754
No 37
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=65.72 E-value=4.4 Score=34.78 Aligned_cols=35 Identities=26% Similarity=0.421 Sum_probs=28.4
Q ss_pred CccccCCCcCCc--ccCCceecCcccccCcccccccccceecc
Q 000745 1056 EYYQCGHCSKDV--LIRDAVCCQDCKDNYGVSGYFHKRHIRKS 1096 (1306)
Q Consensus 1056 ~~~~C~~C~kdv--~~rd~v~C~~Cq~~~~~~g~~Hke~~~~s 1096 (1306)
..-.|..|++.+ +...+..|+.|+ -.+|++|...-
T Consensus 10 ~~~~C~~C~~~i~g~~~~g~~C~~C~------~~~H~~C~~~~ 46 (53)
T PF00130_consen 10 KPTYCDVCGKFIWGLGKQGYRCSWCG------LVCHKKCLSKV 46 (53)
T ss_dssp STEB-TTSSSBECSSSSCEEEETTTT-------EEETTGGCTS
T ss_pred CCCCCcccCcccCCCCCCeEEECCCC------ChHhhhhhhhc
Confidence 346899999999 677799999999 99999998653
No 38
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=63.97 E-value=6.8 Score=48.57 Aligned_cols=50 Identities=18% Similarity=0.272 Sum_probs=40.1
Q ss_pred CCCccccccccCCceEecCCCCCcccccccCCC-CCCC--CCccccccccCCC
Q 000745 330 WNSDECCLCKMDGSLLCCDGCPAAYHSKCVGVA-NVPE--GDWFCPECALDRH 379 (1306)
Q Consensus 330 ~ndD~C~VC~~gG~LLcCD~CprafHl~CL~p~-~vPe--GdW~Cp~C~~~~~ 379 (1306)
..+-+|+.|+..|..+-|+-|-+.||..|..|. ..+. ..|.||.|..-+.
T Consensus 58 N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~s~k~ 110 (588)
T KOG3612|consen 58 NIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPYSFKV 110 (588)
T ss_pred CCCcccccccCCcceeeeehhhccccccccCcchhhccccccccCCcccccCC
Confidence 334579999999999999999999999999984 3333 3599999975443
No 39
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=62.88 E-value=3.6 Score=44.48 Aligned_cols=43 Identities=35% Similarity=0.916 Sum_probs=31.3
Q ss_pred ccccccc------CCceEecCCCCCcccccccCCCC--------CCCCC--cccccccc
Q 000745 334 ECCLCKM------DGSLLCCDGCPAAYHSKCVGVAN--------VPEGD--WFCPECAL 376 (1306)
Q Consensus 334 ~C~VC~~------gG~LLcCD~CprafHl~CL~p~~--------vPeGd--W~Cp~C~~ 376 (1306)
.|.+|+. -|.|+.|-+|-.+||..|||+-+ |-+++ ..|.+|..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig 59 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIG 59 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcC
Confidence 3778853 35699999999999999999832 33333 45777753
No 40
>smart00417 H4 Histone H4.
Probab=55.78 E-value=4.3 Score=38.54 Aligned_cols=30 Identities=23% Similarity=0.610 Sum_probs=27.7
Q ss_pred CcHHHHHHHHHhcCccccCccccCCCchhh
Q 000745 863 LPRSLVSKAARQAGCMKIPGILYPENSDFA 892 (1306)
Q Consensus 863 Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~~ 892 (1306)
||+..|++-||.||.++|+|-.|.+-.++-
T Consensus 14 I~k~~IrRLaRr~GvkRIS~~~y~elr~vl 43 (74)
T smart00417 14 ITKPAIRRLARRGGVKRISGLIYDETRNVL 43 (74)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHHHHHHHH
Confidence 999999999999999999999998877664
No 41
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=53.91 E-value=8.6 Score=50.70 Aligned_cols=45 Identities=40% Similarity=1.054 Sum_probs=38.0
Q ss_pred ccccccccCCc--eEecCCCCCcccccccCCC--CCCCCCccccccccC
Q 000745 333 DECCLCKMDGS--LLCCDGCPAAYHSKCVGVA--NVPEGDWFCPECALD 377 (1306)
Q Consensus 333 D~C~VC~~gG~--LLcCD~CprafHl~CL~p~--~vPeGdW~Cp~C~~~ 377 (1306)
..|..|..+.. ++.|+.|...||.+|..++ .+|+|+|.|+.|...
T Consensus 156 ~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 (904)
T KOG1246|consen 156 PQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPT 204 (904)
T ss_pred hhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCccccc
Confidence 45888987653 3499999999999999975 599999999999876
No 42
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=51.23 E-value=10 Score=34.28 Aligned_cols=29 Identities=28% Similarity=0.754 Sum_probs=25.3
Q ss_pred cccccccc----CCceEecCCCCCcccccccCC
Q 000745 333 DECCLCKM----DGSLLCCDGCPAAYHSKCVGV 361 (1306)
Q Consensus 333 D~C~VC~~----gG~LLcCD~CprafHl~CL~p 361 (1306)
..|.+|++ +++++.|..|...||-.|...
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 46999986 678999999999999999954
No 43
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=50.41 E-value=12 Score=45.68 Aligned_cols=53 Identities=21% Similarity=0.423 Sum_probs=40.0
Q ss_pred ccccCCCcCCcccCC---ceecCcccccCcccccccccceeccC----ccc------cceeeeEeccccccc
Q 000745 1057 YYQCGHCSKDVLIRD---AVCCQDCKDNYGVSGYFHKRHIRKSA----GAV------TTECKYTCYQCQDGR 1115 (1306)
Q Consensus 1057 ~~~C~~C~kdv~~rd---~v~C~~Cq~~~~~~g~~Hke~~~~s~----~~~------~~~~~~~C~~C~~~k 1115 (1306)
.|.|-.|+|=-...| .|.|..|- .|||.+|..... |.. ..+..|-|-.|-+.-
T Consensus 128 ~C~C~iC~kfD~~~n~~~Wi~Cd~Cg------H~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~s 193 (446)
T PF07227_consen 128 RCMCCICSKFDDNKNTCSWIGCDVCG------HWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTS 193 (446)
T ss_pred cCCccccCCcccCCCCeeEEeccCCC------ceehhhhhcccccccCCccCCCCCccCceEEEccCCCChh
Confidence 378888988332333 89999999 999999998864 221 357799999997753
No 44
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=49.08 E-value=9.6 Score=41.93 Aligned_cols=43 Identities=33% Similarity=0.820 Sum_probs=34.5
Q ss_pred cccCCCcC-CcccC----CceecCcccccCcccccccccceeccCccccceeeeEecccccccc
Q 000745 1058 YQCGHCSK-DVLIR----DAVCCQDCKDNYGVSGYFHKRHIRKSAGAVTTECKYTCYQCQDGRF 1116 (1306)
Q Consensus 1058 ~~C~~C~k-dv~~r----d~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~~~~~~C~~C~~~k~ 1116 (1306)
..|..|+. +|++. .++.|..|. -.||++|.... .|.+|.+.+.
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~------~v~H~~C~~~~----------~CpkC~R~~~ 200 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCK------SVFHKSCFRKK----------SCPKCARRQK 200 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCc------cccchhhcCCC----------CCCCcHhHhc
Confidence 68999996 55443 489999999 99999999952 2999988754
No 45
>cd00076 H4 Histone H4, one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core; along with H3, it plays a central role in nucleosome formation; histones bind to DNA and wrap the genetic material into "beads on a string" in which DNA (the string) is wrapped around small blobs of histones (the beads) at regular intervals; play a role in the inheritance of specialized chromosome structures and the control of gene activity; defects in the establishment of proper chromosome structure by histones may activate or silence genes aberrantly and thus lead to disease; the sequence of histone H4 has remained almost invariant in more than 2 billion years of evolution
Probab=45.24 E-value=8.7 Score=37.41 Aligned_cols=29 Identities=24% Similarity=0.519 Sum_probs=26.7
Q ss_pred CcHHHHHHHHHhcCccccCccccCCCchh
Q 000745 863 LPRSLVSKAARQAGCMKIPGILYPENSDF 891 (1306)
Q Consensus 863 Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~ 891 (1306)
||+..|++-||.||.++|++-.|.+-.+.
T Consensus 14 i~k~~I~RLarr~GvkRIS~d~y~e~~~~ 42 (85)
T cd00076 14 ITKPAIRRLARRGGVKRISGGVYDEVRNV 42 (85)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHHHHHHH
Confidence 99999999999999999999999887663
No 46
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=43.61 E-value=13 Score=34.52 Aligned_cols=44 Identities=27% Similarity=0.574 Sum_probs=17.5
Q ss_pred cccccccc----CCc--eEecC--CCCCcccccccCC------CC---CCCCCcccccccc
Q 000745 333 DECCLCKM----DGS--LLCCD--GCPAAYHSKCVGV------AN---VPEGDWFCPECAL 376 (1306)
Q Consensus 333 D~C~VC~~----gG~--LLcCD--~CprafHl~CL~p------~~---vPeGdW~Cp~C~~ 376 (1306)
..|.+|.. .++ .+.|+ .|...||..||.- .. .-.-.+-||.|..
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C~~ 63 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYCSS 63 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT-S
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCCCC
Confidence 46889964 232 47798 8999999999952 11 1112367999975
No 47
>PTZ00015 histone H4; Provisional
Probab=38.06 E-value=15 Score=36.97 Aligned_cols=40 Identities=18% Similarity=0.344 Sum_probs=31.1
Q ss_pred cchhhhhcccc--CcHHHHHHHHHhcCccccCccccCCCchh
Q 000745 852 RLSCQLFSWKR--LPRSLVSKAARQAGCMKIPGILYPENSDF 891 (1306)
Q Consensus 852 ~ls~~if~~~~--Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~ 891 (1306)
+=.|.++.-.+ ||+..|++-||.||.++|++-.|.|-.+.
T Consensus 18 kr~rk~~r~~i~gI~k~~IrRLarr~GvkRIS~d~y~e~r~v 59 (102)
T PTZ00015 18 KRQKKVLRDNIRGITKGAIRRLARRGGVKRISGDIYEEVRGV 59 (102)
T ss_pred hhHHHHHhhcccCCCHHHHHHHHHHcCCccchHHHHHHHHHH
Confidence 33455553333 99999999999999999999999876554
No 48
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=37.89 E-value=22 Score=42.53 Aligned_cols=45 Identities=29% Similarity=0.642 Sum_probs=31.3
Q ss_pred cccccccc---CCceEecCCCCCcccccccCCCCCCCCCccccccccCC
Q 000745 333 DECCLCKM---DGSLLCCDGCPAAYHSKCVGVANVPEGDWFCPECALDR 378 (1306)
Q Consensus 333 D~C~VC~~---gG~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~~ 378 (1306)
+.|.+|.+ .|+.|-==-|.-.||..|++|.-... .=+||.|+.+-
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~di 277 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKRDI 277 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCCcC
Confidence 68999976 35533334578899999999864322 23699998753
No 49
>PF09337 zf-H2C2: His(2)-Cys(2) zinc finger; InterPro: IPR015416 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 an H2C2-type zinc finger that binds to histone upstream activating sequence (UAS) elements found in histone gene promoters []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=37.76 E-value=8.6 Score=32.37 Aligned_cols=31 Identities=23% Similarity=0.449 Sum_probs=23.5
Q ss_pred HHHHhhccceeeecCCccccccccccccccccccc
Q 000745 658 MKAILKKWDKFYWPNTQKLNADTQKEKCGWCFSCK 692 (1306)
Q Consensus 658 ~Kafs~~~~~f~wps~~kk~~ev~rerCGWC~sCk 692 (1306)
-|++++-+.+|+||...+-+.++-| -|..||
T Consensus 9 ~kT~~~i~~~y~W~gm~~~V~~~ir----~C~~Cq 39 (39)
T PF09337_consen 9 NKTTAKISQRYHWPGMKKDVRRVIR----SCPQCQ 39 (39)
T ss_pred HHHHHHHHHhheecCHHHHHHHHHh----cCcccC
Confidence 3788889999999999887766544 366664
No 50
>PF12156 ATPase-cat_bd: Putative metal-binding domain of cation transport ATPase; InterPro: IPR021993 This domain is found in bacteria, and is approximately 90 amino acids in length. It is found associated with PF00403 from PFAM, PF00122 from PFAM, PF00702 from PFAM. The cysteine-rich nature and composition suggest this might be a cation-binding domain; most members are annotated as being cation transport ATPases.
Probab=37.74 E-value=8.4 Score=37.33 Aligned_cols=37 Identities=32% Similarity=0.804 Sum_probs=28.5
Q ss_pred cccCCCcCCccc--------C---CceecCcccccC------ccccccccccee
Q 000745 1058 YQCGHCSKDVLI--------R---DAVCCQDCKDNY------GVSGYFHKRHIR 1094 (1306)
Q Consensus 1058 ~~C~~C~kdv~~--------r---d~v~C~~Cq~~~------~~~g~~Hke~~~ 1094 (1306)
..|-||..+|+- - -..||.-|+.|| ||..||+++-..
T Consensus 1 ~~C~HCg~~~p~~~~~~~~~~g~~~~FCC~GC~~V~~~i~~~gL~~yY~~r~~~ 54 (88)
T PF12156_consen 1 MKCYHCGLPVPEGAKITVEIDGEERPFCCPGCQAVYQLIHENGLESYYQKRTDP 54 (88)
T ss_pred CCCCCCCCCCCCCCCeeeeeCCCccccccHHHHHHHHHHHHcchHHHHhccCcc
Confidence 369999999962 1 178999999888 778888776543
No 51
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=36.97 E-value=18 Score=38.08 Aligned_cols=55 Identities=24% Similarity=0.489 Sum_probs=38.7
Q ss_pred ccCCCCccccCCCcCCcccCC--ceecCcccccCcccccccccceeccCccccceeeeEeccccc
Q 000745 1051 KAARSEYYQCGHCSKDVLIRD--AVCCQDCKDNYGVSGYFHKRHIRKSAGAVTTECKYTCYQCQD 1113 (1306)
Q Consensus 1051 k~~~~~~~~C~~C~kdv~~rd--~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~~~~~~C~~C~~ 1113 (1306)
|++-.+-.-|+.|+|-- +-| -.+|.||| --|-++|--+-... +.-+...|..|+-
T Consensus 59 KaGv~ddatC~IC~KTK-FADG~GH~C~YCq------~r~CARCGGrv~lr-sNKv~wvcnlc~k 115 (169)
T KOG3799|consen 59 KAGVGDDATCGICHKTK-FADGCGHNCSYCQ------TRFCARCGGRVSLR-SNKVMWVCNLCRK 115 (169)
T ss_pred ccccCcCcchhhhhhcc-cccccCcccchhh------hhHHHhcCCeeeec-cCceEEeccCCcH
Confidence 34445678999999988 555 78999999 66777775332222 3446889999963
No 52
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=34.56 E-value=25 Score=31.87 Aligned_cols=35 Identities=29% Similarity=0.586 Sum_probs=29.3
Q ss_pred CccccCCCcCCcc-cCCceecCcccccCcccccccccceecc
Q 000745 1056 EYYQCGHCSKDVL-IRDAVCCQDCKDNYGVSGYFHKRHIRKS 1096 (1306)
Q Consensus 1056 ~~~~C~~C~kdv~-~rd~v~C~~Cq~~~~~~g~~Hke~~~~s 1096 (1306)
+...|..|.+++. --|+|-|..|. .-+|++|-..-
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~Cg------apyHR~C~~~~ 39 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECG------APYHRDCWEKA 39 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCC------CcccHHHHhhC
Confidence 3468999999997 44599999999 89999998654
No 53
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=34.47 E-value=15 Score=30.28 Aligned_cols=32 Identities=28% Similarity=0.513 Sum_probs=27.1
Q ss_pred cccCCCcCCcccC-CceecCcccccCcccccccccceec
Q 000745 1058 YQCGHCSKDVLIR-DAVCCQDCKDNYGVSGYFHKRHIRK 1095 (1306)
Q Consensus 1058 ~~C~~C~kdv~~r-d~v~C~~Cq~~~~~~g~~Hke~~~~ 1095 (1306)
..|..|++.+... .+..|..|+ -.+|++|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~~C~------~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCSWCK------VKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcCCCCCC------chHHHHHHhh
Confidence 4699999998654 389999999 9999999865
No 54
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=33.03 E-value=22 Score=34.82 Aligned_cols=30 Identities=27% Similarity=0.811 Sum_probs=25.3
Q ss_pred Ccccccccc-CCceEecCC--CCCcccccccCC
Q 000745 332 SDECCLCKM-DGSLLCCDG--CPAAYHSKCVGV 361 (1306)
Q Consensus 332 dD~C~VC~~-gG~LLcCD~--CprafHl~CL~p 361 (1306)
...|.+|+. .|-.+-|.. |...||..|...
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 457999987 577888988 999999999854
No 55
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=32.96 E-value=18 Score=35.42 Aligned_cols=30 Identities=20% Similarity=0.511 Sum_probs=20.6
Q ss_pred CCCCCcccccccCCC-CCCCCCccccccccC
Q 000745 348 DGCPAAYHSKCVGVA-NVPEGDWFCPECALD 377 (1306)
Q Consensus 348 D~CprafHl~CL~p~-~vPeGdW~Cp~C~~~ 377 (1306)
..|.-.||+.|+.-. +-....=.||.|+..
T Consensus 50 g~C~H~FH~hCI~kWl~~~~~~~~CPmCR~~ 80 (85)
T PF12861_consen 50 GKCSHNFHMHCILKWLSTQSSKGQCPMCRQP 80 (85)
T ss_pred ccCccHHHHHHHHHHHccccCCCCCCCcCCe
Confidence 349999999999742 222234489999864
No 56
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=32.16 E-value=26 Score=33.23 Aligned_cols=59 Identities=15% Similarity=0.393 Sum_probs=37.1
Q ss_pred ccCCCcCCcccCC-ceecCcccccCcccccccccceeccCccccceeeeEeccccccccc
Q 000745 1059 QCGHCSKDVLIRD-AVCCQDCKDNYGVSGYFHKRHIRKSAGAVTTECKYTCYQCQDGRFK 1117 (1306)
Q Consensus 1059 ~C~~C~kdv~~rd-~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~~~~~~C~~C~~~k~~ 1117 (1306)
.|..|+.++--.+ -.+|.+|+..|.+.++|-.=+-.+++-+-=-...|-|..|.--+++
T Consensus 3 ~CP~C~~~L~~~~~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~gLiSK 62 (70)
T PF07191_consen 3 TCPKCQQELEWQGGHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHGLISK 62 (70)
T ss_dssp B-SSS-SBEEEETTEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-EE-T
T ss_pred cCCCCCCccEEeCCEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCceeec
Confidence 5888999875555 7899999999999888877666676655533458889999877664
No 57
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=30.29 E-value=24 Score=29.43 Aligned_cols=33 Identities=27% Similarity=0.490 Sum_probs=27.6
Q ss_pred cccCCCcCCccc--CCceecCcccccCcccccccccceecc
Q 000745 1058 YQCGHCSKDVLI--RDAVCCQDCKDNYGVSGYFHKRHIRKS 1096 (1306)
Q Consensus 1058 ~~C~~C~kdv~~--rd~v~C~~Cq~~~~~~g~~Hke~~~~s 1096 (1306)
..|.+|++-+.. ..+..|..|+ -.+|++|...-
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~~C~------~~~H~~C~~~v 46 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCSWCK------VKCHKKCADKV 46 (50)
T ss_pred CChhhcchhhhccccceeEcCCCC------CchhhhhhccC
Confidence 469999998865 4689999999 99999998653
No 58
>PLN00035 histone H4; Provisional
Probab=29.86 E-value=24 Score=35.65 Aligned_cols=29 Identities=24% Similarity=0.623 Sum_probs=26.4
Q ss_pred CcHHHHHHHHHhcCccccCccccCCCchh
Q 000745 863 LPRSLVSKAARQAGCMKIPGILYPENSDF 891 (1306)
Q Consensus 863 Lp~s~v~KaarQgG~~ki~gi~Y~~~s~~ 891 (1306)
||...|++-||.||.++|++-.|.+-.+.
T Consensus 30 ipk~~IrRLARr~GvkRIS~~ay~elr~v 58 (103)
T PLN00035 30 ITKPAIRRLARRGGVKRISGLIYEETRGV 58 (103)
T ss_pred CCHHHHHHHHHHcCcccchHHHHHHHHHH
Confidence 99999999999999999999999876554
No 59
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=29.84 E-value=36 Score=37.51 Aligned_cols=37 Identities=30% Similarity=0.814 Sum_probs=28.9
Q ss_pred ccccccccCC--------ceEecCCCCCcccccccCCCCCCCCCcccccccc
Q 000745 333 DECCLCKMDG--------SLLCCDGCPAAYHSKCVGVANVPEGDWFCPECAL 376 (1306)
Q Consensus 333 D~C~VC~~gG--------~LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~ 376 (1306)
..|.+|.+++ ...-|+.|...||..|.... .||.|..
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~~-------~CpkC~R 197 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRKK-------SCPKCAR 197 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCCC-------CCCCcHh
Confidence 4688888643 47789999999999999841 1999964
No 60
>KOG2893 consensus Zn finger protein [General function prediction only]
Probab=29.69 E-value=19 Score=40.99 Aligned_cols=37 Identities=22% Similarity=0.428 Sum_probs=26.3
Q ss_pred cccccceeeeccCCCCCCCCCCcccccccc-cCCCCcceEEec
Q 000745 1250 MQFTRKNFLAASELLTDTLDQPKCYLCHEA-EHTSTSNYIACE 1291 (1306)
Q Consensus 1250 ~~Fr~k~~~~~se~~~~~~~~P~C~LC~~~-y~~~~l~YI~CE 1291 (1306)
.+|-.|+||+--. ---+-+||+|||. |..++| -|||-
T Consensus 18 refddekiliqhq----kakhfkchichkkl~sgpgl-sihcm 55 (341)
T KOG2893|consen 18 REFDDEKILIQHQ----KAKHFKCHICHKKLFSGPGL-SIHCM 55 (341)
T ss_pred cccchhhhhhhhh----hhccceeeeehhhhccCCCc-eeehh
Confidence 3577788888332 3446689999998 777776 48884
No 61
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=27.94 E-value=30 Score=32.58 Aligned_cols=30 Identities=27% Similarity=0.821 Sum_probs=25.7
Q ss_pred CccccccccC-CceEecCC--CCCcccccccCC
Q 000745 332 SDECCLCKMD-GSLLCCDG--CPAAYHSKCVGV 361 (1306)
Q Consensus 332 dD~C~VC~~g-G~LLcCD~--CprafHl~CL~p 361 (1306)
...|.+|+.. |-.+-|.. |...||..|..-
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 3579999988 88888875 999999999864
No 62
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=26.26 E-value=21 Score=41.39 Aligned_cols=47 Identities=17% Similarity=0.369 Sum_probs=29.3
Q ss_pred CCccccccccCCc----------eEecCCCCCcccccccCCCCCCCCCccccccccC
Q 000745 331 NSDECCLCKMDGS----------LLCCDGCPAAYHSKCVGVANVPEGDWFCPECALD 377 (1306)
Q Consensus 331 ndD~C~VC~~gG~----------LLcCD~CprafHl~CL~p~~vPeGdW~Cp~C~~~ 377 (1306)
++..|.||++.=+ -+.==.|.-+||-+|..-.-+-.-.=.||.|+.+
T Consensus 223 ~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWcivGKkqtCPYCKek 279 (328)
T KOG1734|consen 223 SDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCIVGKKQTCPYCKEK 279 (328)
T ss_pred CcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhhheeecCCCCCchHHHH
Confidence 3568999986311 0111148999999999754322224569999754
No 63
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=24.23 E-value=40 Score=27.53 Aligned_cols=22 Identities=32% Similarity=1.053 Sum_probs=18.0
Q ss_pred cccCCCcCCcccCC--ceecCccc
Q 000745 1058 YQCGHCSKDVLIRD--AVCCQDCK 1079 (1306)
Q Consensus 1058 ~~C~~C~kdv~~rd--~v~C~~Cq 1079 (1306)
|.|+.|..+|.+.. .|.|..|-
T Consensus 1 Y~C~~Cg~~~~~~~~~~irC~~CG 24 (32)
T PF03604_consen 1 YICGECGAEVELKPGDPIRCPECG 24 (32)
T ss_dssp EBESSSSSSE-BSTSSTSSBSSSS
T ss_pred CCCCcCCCeeEcCCCCcEECCcCC
Confidence 67999999987654 89999997
No 64
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=23.17 E-value=23 Score=45.87 Aligned_cols=26 Identities=31% Similarity=0.409 Sum_probs=20.6
Q ss_pred eEEEeecCCCCcccccccCCchhHHHHhhc
Q 000745 410 YLLVSDSCDTELILNYYCRDDLNFVIDVLK 439 (1306)
Q Consensus 410 rLLvcdsC~ses~~~YY~~~dL~~vL~~L~ 439 (1306)
-||+||.|+. .|||.+||++.|-.++
T Consensus 229 VLLLCDsCN~----~~YH~YCLDPdl~eiP 254 (1134)
T KOG0825|consen 229 VLLLCDSCNK----VYYHVYCLDPDLSESP 254 (1134)
T ss_pred hheeeccccc----ceeeccccCccccccc
Confidence 3889999974 6899999999775544
No 65
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=22.63 E-value=19 Score=29.86 Aligned_cols=43 Identities=21% Similarity=0.469 Sum_probs=29.2
Q ss_pred ccCCCcCCcccCCceecCcccccCcccccccccceeccCccccceeeeEecccc
Q 000745 1059 QCGHCSKDVLIRDAVCCQDCKDNYGVSGYFHKRHIRKSAGAVTTECKYTCYQCQ 1112 (1306)
Q Consensus 1059 ~C~~C~kdv~~rd~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~~~~~~C~~C~ 1112 (1306)
.|..|..++...+.+.-..|. ..||.+|...-... ..+|..|+
T Consensus 2 ~C~IC~~~~~~~~~~~~l~C~------H~fh~~Ci~~~~~~-----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLPCG------HVFHRSCIKEWLKR-----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEETTS------EEEEHHHHHHHHHH-----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEccCC------CeeCHHHHHHHHHh-----CCcCCccC
Confidence 589999999766644444599 99999997654222 23666664
No 66
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=21.42 E-value=51 Score=28.55 Aligned_cols=23 Identities=39% Similarity=1.083 Sum_probs=20.1
Q ss_pred ccccCCCcCCcccC--CceecCccc
Q 000745 1057 YYQCGHCSKDVLIR--DAVCCQDCK 1079 (1306)
Q Consensus 1057 ~~~C~~C~kdv~~r--d~v~C~~Cq 1079 (1306)
.|.|+.|..++.+. |.|.|..|-
T Consensus 2 ~Y~C~~Cg~~~~~~~~~~irC~~CG 26 (44)
T smart00659 2 IYICGECGRENEIKSKDVVRCRECG 26 (44)
T ss_pred EEECCCCCCEeecCCCCceECCCCC
Confidence 37899999998776 599999998
No 67
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=21.35 E-value=22 Score=45.07 Aligned_cols=45 Identities=24% Similarity=0.671 Sum_probs=30.0
Q ss_pred cccCCCcCCc---cc--CCceecCcccccCcccccccccceeccCccccceeeeEecccccccc
Q 000745 1058 YQCGHCSKDV---LI--RDAVCCQDCKDNYGVSGYFHKRHIRKSAGAVTTECKYTCYQCQDGRF 1116 (1306)
Q Consensus 1058 ~~C~~C~kdv---~~--rd~v~C~~Cq~~~~~~g~~Hke~~~~s~~~~~~~~~~~C~~C~~~k~ 1116 (1306)
..|.+|+++= ++ +....|..|. .+||++|.++. .--|.+|-+.+.
T Consensus 512 fiCe~Cq~~~iiyPF~~~~~~rC~~C~------avfH~~C~~r~--------s~~CPrC~R~q~ 561 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFETRNTRRCSTCL------AVFHKKCLRRK--------SPCCPRCERRQK 561 (580)
T ss_pred eeeeeccCCCcccccccccceeHHHHH------HHHHHHHHhcc--------CCCCCchHHHHH
Confidence 5777777653 22 2368888888 88888887765 222777776654
Done!