Query 000325
Match_columns 1665
No_of_seqs 467 out of 1659
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 04:25:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000325.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000325hhsearch_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-175 6E-180 1576.8 33.5 1328 1-1664 1-1413(1414)
2 KOG1473 Nucleosome remodeling 99.1 3E-11 6.6E-16 151.6 4.9 272 229-514 191-492 (1414)
3 KOG1973 Chromatin remodeling p 98.6 2.2E-08 4.8E-13 114.7 3.1 54 1305-1363 213-269 (274)
4 COG5141 PHD zinc finger-contai 98.5 1.2E-08 2.6E-13 120.8 -1.4 115 278-422 114-244 (669)
5 COG5034 TNG2 Chromatin remodel 98.4 1.3E-07 2.8E-12 105.8 4.4 56 1302-1362 212-270 (271)
6 KOG4299 PHD Zn-finger protein 98.4 9.4E-08 2E-12 117.1 1.3 50 374-423 253-307 (613)
7 PF00628 PHD: PHD-finger; Int 98.4 1E-07 2.2E-12 82.7 0.6 49 1313-1362 1-51 (51)
8 KOG0955 PHD finger protein BR1 98.3 9.8E-08 2.1E-12 123.6 -0.8 115 290-425 154-273 (1051)
9 KOG1244 Predicted transcriptio 98.2 3.1E-07 6.8E-12 103.2 1.2 46 375-420 282-330 (336)
10 smart00249 PHD PHD zinc finger 98.1 2.1E-06 4.5E-11 71.4 3.7 46 1313-1359 2-47 (47)
11 KOG0383 Predicted helicase [Ge 98.1 1.5E-06 3.2E-11 109.5 3.4 76 347-423 21-96 (696)
12 cd04718 BAH_plant_2 BAH, or Br 98.1 1.3E-06 2.8E-11 92.2 2.3 78 395-474 1-79 (148)
13 KOG0825 PHD Zn-finger protein 98.0 2E-06 4.4E-11 106.4 2.5 47 374-420 215-265 (1134)
14 PF00628 PHD: PHD-finger; Int 97.9 2.1E-06 4.7E-11 74.5 0.1 45 376-420 1-50 (51)
15 smart00249 PHD PHD zinc finger 97.7 1.8E-05 3.9E-10 65.8 2.4 43 376-418 1-47 (47)
16 COG5034 TNG2 Chromatin remodel 97.5 5.8E-05 1.2E-09 85.3 2.8 47 371-420 218-269 (271)
17 KOG1973 Chromatin remodeling p 97.4 7.6E-05 1.6E-09 86.2 2.7 43 375-420 222-267 (274)
18 KOG1632 Uncharacterized PHD Zn 97.3 6.5E-05 1.4E-09 89.2 1.3 53 1310-1362 59-113 (345)
19 KOG1632 Uncharacterized PHD Zn 97.3 0.00011 2.4E-09 87.3 2.0 56 1307-1362 235-295 (345)
20 KOG1512 PHD Zn-finger protein 97.2 0.00013 2.7E-09 83.3 1.5 44 375-420 315-362 (381)
21 KOG0956 PHD finger protein AF1 96.8 0.0003 6.5E-09 87.3 0.3 44 375-420 6-56 (900)
22 KOG4443 Putative transcription 96.7 0.00053 1.1E-08 85.4 1.4 44 376-419 70-116 (694)
23 KOG1245 Chromatin remodeling c 96.6 0.00047 1E-08 93.6 -0.2 50 373-422 1107-1159(1404)
24 KOG4323 Polycomb-like PHD Zn-f 96.6 0.0015 3.2E-08 79.8 3.4 51 1311-1362 171-224 (464)
25 KOG0954 PHD finger protein [Ge 96.5 0.00085 1.8E-08 84.2 1.2 50 373-424 270-324 (893)
26 PF09465 LBR_tudor: Lamin-B re 96.4 0.0032 7E-08 57.2 3.7 41 41-81 5-49 (55)
27 KOG0957 PHD finger protein [Ge 96.3 0.0016 3.4E-08 78.9 1.5 45 375-419 545-596 (707)
28 PF15612 WHIM1: WSTF, HB1, Itc 95.9 0.0052 1.1E-07 53.9 2.3 45 257-301 4-48 (50)
29 KOG1246 DNA-binding protein ju 95.5 0.0063 1.4E-07 80.6 2.3 150 374-525 155-322 (904)
30 PF13831 PHD_2: PHD-finger; PD 95.2 0.0045 9.8E-08 51.8 -0.3 34 384-419 2-36 (36)
31 KOG4323 Polycomb-like PHD Zn-f 94.9 0.0088 1.9E-07 73.4 0.7 48 375-422 169-225 (464)
32 KOG2752 Uncharacterized conser 94.2 0.021 4.6E-07 66.8 1.7 28 1310-1337 127-159 (345)
33 KOG4443 Putative transcription 93.1 0.032 6.9E-07 70.3 0.7 94 373-472 17-117 (694)
34 KOG1512 PHD Zn-finger protein 93.0 0.026 5.7E-07 65.1 -0.2 85 375-468 259-357 (381)
35 KOG4299 PHD Zn-finger protein 92.7 0.15 3.3E-06 64.4 5.6 57 1145-1206 41-97 (613)
36 KOG0383 Predicted helicase [Ge 92.5 0.093 2E-06 67.7 3.6 68 391-458 1-79 (696)
37 smart00333 TUDOR Tudor domain. 92.1 0.15 3.2E-06 45.3 3.3 48 42-89 3-53 (57)
38 KOG1844 PHD Zn-finger proteins 91.8 0.096 2.1E-06 65.1 2.5 57 1309-1367 84-140 (508)
39 KOG0825 PHD Zn-finger protein 89.7 0.18 3.8E-06 64.7 2.1 53 1308-1362 213-266 (1134)
40 KOG1244 Predicted transcriptio 88.2 0.14 3.1E-06 59.2 -0.1 89 374-467 224-325 (336)
41 PF13831 PHD_2: PHD-finger; PD 88.1 0.13 2.8E-06 43.3 -0.4 34 1325-1360 3-36 (36)
42 smart00743 Agenet Tudor-like d 83.6 1.4 3E-05 40.1 3.8 49 42-90 3-57 (61)
43 KOG0957 PHD finger protein [Ge 83.3 0.9 1.9E-05 56.3 3.3 54 1149-1202 541-596 (707)
44 PF07227 DUF1423: Protein of u 81.3 1.2 2.5E-05 55.2 3.3 53 1311-1364 129-194 (446)
45 KOG1245 Chromatin remodeling c 80.9 0.76 1.7E-05 63.9 1.7 56 1307-1364 1105-1160(1404)
46 PF09038 53-BP1_Tudor: Tumour 79.8 2.1 4.6E-05 45.1 4.0 38 42-79 3-43 (122)
47 KOG0955 PHD finger protein BR1 78.6 1.9 4.1E-05 58.4 4.1 56 1307-1365 216-273 (1051)
48 cd04508 TUDOR Tudor domains ar 78.5 2.5 5.3E-05 36.3 3.5 41 47-87 3-47 (48)
49 PLN00163 histone H4; Provision 77.5 1.7 3.7E-05 40.5 2.3 35 947-981 17-53 (59)
50 KOG0954 PHD finger protein [Ge 70.3 3 6.6E-05 54.0 2.8 54 1311-1367 272-326 (893)
51 PF13901 DUF4206: Domain of un 70.0 2.4 5.1E-05 47.8 1.6 57 1136-1206 139-200 (202)
52 PF15446 zf-PHD-like: PHD/FYVE 66.9 2.2 4.9E-05 47.1 0.7 44 377-420 2-59 (175)
53 KOG0956 PHD finger protein AF1 62.8 3.9 8.4E-05 52.7 1.7 63 1310-1375 5-76 (900)
54 PF13639 zf-RING_2: Ring finge 61.3 1.6 3.5E-05 37.3 -1.4 43 1312-1360 2-44 (44)
55 cd00029 C1 Protein kinase C co 57.6 3.9 8.5E-05 35.1 0.4 28 1616-1643 14-44 (50)
56 PF00130 C1_1: Phorbol esters/ 54.2 7.3 0.00016 34.4 1.5 34 1152-1185 11-46 (53)
57 KOG3467 Histone H4 [Chromatin 53.8 7.2 0.00016 39.0 1.5 40 958-997 30-72 (103)
58 PF14446 Prok-RING_1: Prokaryo 53.6 5.6 0.00012 36.9 0.7 30 375-404 6-39 (54)
59 KOG4628 Predicted E3 ubiquitin 52.9 7.7 0.00017 47.3 1.9 45 375-422 230-277 (348)
60 smart00109 C1 Protein kinase C 52.3 4.8 0.00011 34.2 0.1 28 1616-1643 14-43 (49)
61 KOG1081 Transcription factor N 51.6 8.2 0.00018 48.7 1.9 48 372-422 87-134 (463)
62 PF00130 C1_1: Phorbol esters/ 50.6 7.1 0.00015 34.5 0.8 28 1616-1643 14-44 (53)
63 PF12861 zf-Apc11: Anaphase-pr 50.0 5.9 0.00013 39.6 0.3 29 391-420 51-79 (85)
64 PF11793 FANCL_C: FANCL C-term 47.9 3.2 7E-05 39.6 -1.8 45 374-418 2-61 (70)
65 PF14446 Prok-RING_1: Prokaryo 47.6 9.2 0.0002 35.5 1.1 33 1151-1183 4-37 (54)
66 smart00417 H4 Histone H4. 45.0 11 0.00025 36.8 1.3 24 958-981 14-37 (74)
67 PF02178 AT_hook: AT hook moti 44.9 9.5 0.00021 26.3 0.5 10 6-15 1-10 (13)
68 KOG3612 PHD Zn-finger protein 41.4 20 0.00044 45.8 3.0 52 371-423 57-110 (588)
69 cd04714 BAH_BAHCC1 BAH, or Bro 40.1 15 0.00033 38.3 1.5 22 1308-1329 100-121 (121)
70 PF07496 zf-CW: CW-type Zinc F 39.6 19 0.00041 32.4 1.8 35 1325-1360 2-36 (50)
71 PF13639 zf-RING_2: Ring finge 39.6 4.4 9.5E-05 34.7 -2.1 41 375-419 1-44 (44)
72 smart00384 AT_hook DNA binding 39.6 18 0.00039 29.2 1.4 16 6-21 1-16 (26)
73 PF12898 Stc1: Stc1 domain; I 39.5 18 0.00039 35.9 1.8 45 1612-1664 36-84 (84)
74 PF13832 zf-HC5HC2H_2: PHD-zin 38.4 17 0.00037 36.7 1.5 32 1309-1343 54-87 (110)
75 PF12678 zf-rbx1: RING-H2 zinc 36.7 20 0.00043 34.4 1.6 44 1312-1360 21-73 (73)
76 KOG1886 BAH domain proteins [T 35.6 34 0.00073 43.4 3.6 51 1309-1363 169-219 (464)
77 cd00076 H4 Histone H4, one of 33.7 21 0.00046 35.8 1.3 24 958-981 14-37 (85)
78 smart00109 C1 Protein kinase C 32.8 16 0.00036 31.0 0.3 32 1153-1184 12-44 (49)
79 COG2956 Predicted N-acetylgluc 32.8 20 0.00042 43.8 1.0 36 476-511 248-283 (389)
80 cd04718 BAH_plant_2 BAH, or Br 32.7 28 0.0006 38.2 2.0 27 1336-1363 2-28 (148)
81 KOG2626 Histone H3 (Lys4) meth 31.3 41 0.00089 43.1 3.4 56 1307-1362 16-76 (544)
82 PTZ00015 histone H4; Provision 30.8 32 0.00069 35.7 2.0 35 947-981 18-54 (102)
83 PF07649 C1_3: C1-like domain; 30.0 20 0.00043 28.9 0.3 29 1312-1341 2-30 (30)
84 PF09337 zf-H2C2: His(2)-Cys(2 29.6 13 0.00027 32.3 -0.9 31 750-784 9-39 (39)
85 PF13341 RAG2_PHD: RAG2 PHD do 28.0 21 0.00045 34.8 0.2 34 1325-1358 29-67 (78)
86 KOG1829 Uncharacterized conser 27.9 21 0.00044 46.4 0.1 62 1133-1206 495-561 (580)
87 PF13832 zf-HC5HC2H_2: PHD-zin 27.0 26 0.00057 35.4 0.7 31 374-404 55-88 (110)
88 cd00029 C1 Protein kinase C co 26.4 26 0.00056 30.1 0.5 32 1153-1184 12-45 (50)
89 PF13901 DUF4206: Domain of un 26.3 36 0.00079 38.6 1.7 37 375-420 153-197 (202)
90 KOG4198 RNA-binding Ran Zn-fin 26.2 52 0.0011 39.5 2.9 24 1557-1581 35-58 (280)
91 cd05501 Bromo_SP100C_like Brom 25.5 23 0.0005 36.5 -0.0 43 467-514 30-76 (102)
92 PF13771 zf-HC5HC2H: PHD-like 25.4 28 0.0006 33.8 0.5 31 374-404 36-69 (90)
93 PF13771 zf-HC5HC2H: PHD-like 24.1 42 0.0009 32.6 1.4 32 1310-1344 36-69 (90)
94 PF12678 zf-rbx1: RING-H2 zinc 23.8 24 0.00053 33.9 -0.2 25 391-419 49-73 (73)
95 PF03107 C1_2: C1 domain; Int 22.9 62 0.0013 26.3 1.9 28 1615-1642 2-30 (30)
96 KOG4628 Predicted E3 ubiquitin 21.5 55 0.0012 40.3 2.0 82 1138-1226 214-297 (348)
97 PF07649 C1_3: C1-like domain; 21.4 23 0.0005 28.6 -0.8 27 1615-1641 2-29 (30)
98 PF10513 EPL1: Enhancer of pol 20.7 17 0.00036 39.2 -2.2 19 293-311 117-135 (160)
99 PHA02929 N1R/p28-like protein; 20.1 39 0.00085 39.6 0.4 45 373-421 173-225 (238)
No 1
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=100.00 E-value=2.6e-175 Score=1576.82 Aligned_cols=1328 Identities=38% Similarity=0.574 Sum_probs=1097.3
Q ss_pred CCCCCCCCCCCCcCCCCCCccCcCCCCCCccccccc-ccccceeecceehhccCC-ceEEEEEEEEecceEEEEecCCCc
Q 000325 1 MEAKVKRPRGRPRKRKRPEDEDVTDGAGGKKRVVAV-EAKPIALVGRYVLKEFES-GIFLGKIVYYESGLYRVDYEDGDC 78 (1665)
Q Consensus 1 me~~~~~~~~r~r~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~LvGr~V~k~f~~-~~~~GkV~~yd~g~Y~V~yEDGd~ 78 (1665)
||.+++|||||||||.|+|+.+. +.+++|+|+-.. .+.|+.|.|+|++|.+.+ ++|+||+++||+|+|||.|||||+
T Consensus 1 m~g~~arpRGRp~k~p~~e~~nr-~~~~~kkp~~~~e~~~p~s~l~~r~~~d~~d~~~~~~k~~s~d~~~~rv~~e~~~~ 79 (1414)
T KOG1473|consen 1 MEGKVARPRGRPRKRPRSEDGNR-SINRGKKPVEEVESAVPRSLLGKRYLKDGDDKKVFLGKIVSYDTGLYRVKYEDGDV 79 (1414)
T ss_pred CCCCCCCCCCCCCCCCCcccccc-hhhhccCccccccccCccccccccccCCccchhhhhcccccccCcceeEEeecccc
Confidence 99999999999999999999999 999999994322 345679999999999999 999999999999999999999999
Q ss_pred cccChHHHHHhhccCCCcchhhhHhhhhhhhhhhccccccccccccccCCCCcccccccccccccccccCcccccCCccc
Q 000325 79 EDLDSSELRQFLLNENDFDADLTRRRKKLDDWLVKRSLKNEKSNLEKKDGDAKSEVDRIEASTLSEVSCGLTVEDVGEQV 158 (1665)
Q Consensus 79 Edl~~~el~~~l~~~~~~~~~~~~R~~kld~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 158 (1665)
|+|+-..+++.++.++.+++..+-|+.+||+.....+....-...+.+..|.++... + .+.+-..+
T Consensus 80 ~~~~~s~v~~~~~s~s~~~eet~~rr~dl~d~~edk~d~~dd~e~~e~~~ed~~~~N--~------------~~~v~~se 145 (1414)
T KOG1473|consen 80 ESLEASTVRPLIISDSGKDEETRPRRKDLDDQEEDKDDKKDDSEEEEKDDEDPFMCN--E------------DSSVQESE 145 (1414)
T ss_pred cccccccccccccccccccccccccccchhhhhhhhhhcccccccccccccchhhcC--c------------hhhhhhhh
Confidence 999999999999999999999999999999999887755111111222223222211 0 11122334
Q ss_pred cCCCCCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCch-----------HHHHHHH--HhhhhcCCCCch---hhh--
Q 000325 159 EGDMDSSSDSCEHVRETDAGLEAETPLLPPPQLPPSSGTI-----------ALMRVLR--RHLETLSSDGSE---LAS-- 220 (1665)
Q Consensus 159 ~~d~~sss~s~~~~~~~~~~~~~~~p~~ppleLP~SS~di-----------sl~r~LR--rhle~lS~~g~e---~As-- 220 (1665)
+++..++........+.++..+.+.|.+||||||+||||| |||++|| +|..||+||+|| +|+
T Consensus 146 ~~~n~t~~~~~~~~d~~~p~~~~e~~~vPpleLP~SSedi~IPne~Vm~alsIYevLRsF~~~LrisPF~feDFcaAL~~ 225 (1414)
T KOG1473|consen 146 SGLNYTDIGRPPRLDEPNPDLEEEPPLVPPLELPESSEDIGIPNEHVMDALSIYEVLRSFSRQLRISPFRFEDFCAALIS 225 (1414)
T ss_pred cccccCCCCCCCCCCCCCCChhhccccCCCccCCCcccccCCcHHHHHHHHHHHHHHHhhcceEEeCCccHHHHHHHHHh
Confidence 4555666666677777777788999999999999999999 9999999 699999999998 553
Q ss_pred ----------------------------------hhhhcccccccccccHHHHHHHHHhhcccccCCcccchhhhhhhcc
Q 000325 221 ----------------------------------NCLRCIDWSLLDTLTWPVYVVQYLTSMGYIKGTQWTGFYDEVSVRE 266 (1665)
Q Consensus 221 ----------------------------------~CLR~i~w~lLD~lTWP~~L~~Yl~s~G~~~~~~~k~~~~~ll~~e 266 (1665)
+|++||+|+|||+||||+|||+|+++||+..+.-|..|+..+...|
T Consensus 226 ~~~ssLlaeVHvaLLrA~lr~eD~~~Thfs~~d~KdsvnI~l~liD~lTWPevLrqY~ea~~~ad~~v~~~~n~fv~~~e 305 (1414)
T KOG1473|consen 226 HEQSSLLAEVHVALLRALLREEDRLSTHFSPLDSKDSVNIDLYLIDTLTWPEVLRQYFEADKHADGPVWDIFNPFVVEDE 305 (1414)
T ss_pred cCchhHHHHHHHHHHHHHhhhhhhcccccCccccccceeeeeehhccccHHHHHHHHHHhccccCcchhhhhcccccccc
Confidence 5677999999999999999999999999999999999988888899
Q ss_pred ccccchhhHHHHHHHHhhhhcchHHHHHHHhcccccccC----CCCCcc-ccccccccccc------cCCCCCCCcccch
Q 000325 267 YYSLSAGRKLMILQILCDDVLDSEELRAEIDAREESEVG----LDPDAA-SYGSEIARRRV------HPRFSKTPDCKNR 335 (1665)
Q Consensus 267 Y~~~pV~~KL~ILq~LcD~~l~s~efR~E~dmrEede~~----ld~~n~-~~l~E~G~Rr~------h~R~~k~sa~k~~ 335 (1665)
||+.||+.||+|||||||+||+++.+|.||+.+++.+.+ ++.+.. .++.|+++|++ |||+.+.++....
T Consensus 306 Y~~~pv~~klkILQ~L~Dq~l~~~s~R~e~~se~~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~ 385 (1414)
T KOG1473|consen 306 YPYRPVSNKLKILQFLCDQFLTVNSLRDEIDSEGEIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRFAVPSAFWEC 385 (1414)
T ss_pred ccccchhhhHHHHHHHHHHHHHHHHHHHHHhcccceeecccccccCcccceeecccCCceEEeeecCCccccCCCccchh
Confidence 999999999999999999999999999999998887766 555544 77899999999 8999888776654
Q ss_pred hhhhhhccccccCC---ccCCCCC-CCCCCCCCCCCCcccccccccccccccCccccCCC-CCccccc-cccc--cccCC
Q 000325 336 EAVEFNAENDRMKT---SCKAKPL-GFKGTEMDAPGVDVDGNGDECRICGMDGTLLCCDG-CPSAYHT-RCIG--VSKMY 407 (1665)
Q Consensus 336 ~~~E~~ees~~~s~---~~~s~~s-r~~~~e~~~~~~e~d~ndd~C~VC~~gG~LLcCD~-Cp~afHl-~CL~--PpL~~ 407 (1665)
+.-.+.--....+. ..+..+. |...-..+...-.-..+.+.|.||+..+.+|||++ |+.+||+ .|++ ..-+.
T Consensus 386 evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~gr~ywfi~rrl~Ie~~det~l~yysT~pqly~ll~cLd~~~~e~~ 465 (1414)
T KOG1473|consen 386 EVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRYGRKYWFISRRLRIEGMDETLLWYYSTCPQLYHLLRCLDRTYVEMY 465 (1414)
T ss_pred hhhhhhccCcccccccChhhcccceeccCCCcCccccchhceeeeeEEecCCCcEEEEecCcHHHHHHHHHhchHHHHHh
Confidence 44332210011111 1111111 22111112222223456678999999999999998 9999999 9999 44568
Q ss_pred CCCCCcccccCcccccCCcccccCccccccccccchhhhHHHh-hcccceeeccCCCchhhccccCCCChHHHHHHHhcc
Q 000325 408 VPEGSWYCPECAINKVGPIVTIGTSLRGAELFGIDLYERVFLG-TCNHLLVLNASSNTEQYIRYYNPIDIPKVLQALLSS 486 (1665)
Q Consensus 408 vPeGdW~Cp~C~~~~~~p~~E~g~~~rg~EllG~D~cgR~Yh~-kCerLll~~~s~Dse~~~~YYs~~DL~~Vl~vLy~s 486 (1665)
+++|-|+|+.|...+++++.+..+..|++-.||.|+++|.|.. .|.-+|+.......+.-..||...++.++..++-.+
T Consensus 466 L~d~i~~~~ee~~rqM~lT~~ltne~R~~~~f~~~~h~r~~l~~~c~~~lv~~iq~~~da~l~e~~l~~i~k~v~~~~S~ 545 (1414)
T KOG1473|consen 466 LCDGIWERREEIIRQMGLTEELTNELRGAVDFGEDPHGRLFLGRDCAVLLVLCIQVVEDAILKEENLGDIDKVVLVLISA 545 (1414)
T ss_pred hccchhhhHHHHHHhccchhhhhhhhhcccccccCCCcceeeecchhhHHhhhhhhhhhhhhhHhhhcchHhhhhhhhhc
Confidence 9999999999999999999999888898888999999999986 466555443222223457888888888999999999
Q ss_pred ccchhhHhHHHHHHHHHhcCccccc-cCCCCcccccccccccccccCCCCCCCccccccccceecCCCCCCCCCCCcccc
Q 000325 487 VQHVSLYLGICKAILHYWDIPESVV-PFMGMETNTINAKADEKFCSQSHHPPIKESQRITDMVEAGNASSNNGSNVDNVA 565 (1665)
Q Consensus 487 Dih~~~y~eI~~~I~~y~~~p~NL~-nl~~~~~Sl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 565 (1665)
..|...|.+||++|.+||+.|+--. -++.. .+|-.|+ +...++|-..++.+.+-...
T Consensus 546 s~~~eE~~e~ck~is~~~d~p~~n~~~~~e~-------~~dqtf~---------------~y~ys~n~vse~~~~d~e~~ 603 (1414)
T KOG1473|consen 546 SAHQEEYVEICKAISQYWDLPEGNLWRLREE-------GNDQTFM---------------KYYYSGNEVSEIFLTDSENA 603 (1414)
T ss_pred ccchHHHHHHHHHHhhcccccccchhhhhhc-------ccccchh---------------hhcccCCchhhccCCchhhh
Confidence 9999999999999999999998332 22222 2222220 00112222222222220000
Q ss_pred ccccccccccccCCCCcccccccchhhhhccchhhccCCCCCccccccccccCCccccCCCCCccccccccccccccccc
Q 000325 566 VSSLHTFMNTMSQTGVPFVQSNDITVTEKLQDCLVLNGKLPGHVKMESAMSTGSVSQQADPSDVTYQSLVDRSSAIDFMT 645 (1665)
Q Consensus 566 ~~~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 645 (1665)
..+. +...+|+....+. +-..+|.|- .+
T Consensus 604 dkk~------------------------------~~~tkf~l~~nsd--~~~~g~~~t-------------~g------- 631 (1414)
T KOG1473|consen 604 DKKS------------------------------HMQTKFALITNSD--GVTAGNVTT-------------YG------- 631 (1414)
T ss_pred cccc------------------------------cccceeccccccc--ceecccccc-------------cc-------
Confidence 0011 1122232221100 000011000 00
Q ss_pred ccccccCCCCCCCCccCCCCCcccccccccCCCccccccccCCcccccccccCccchhh----ccchh-hHHHHHHHHHh
Q 000325 646 CTSQISNDGNSGHASSCLSPNISFLSKERNHGGLLGVGTNYANKCAFMGSVFKPHSYIN----QYMHG-EFAAAAAAKLA 720 (1665)
Q Consensus 646 ~~~g~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~n~~~~~~~~~~~~~p~~YiN----~Y~~g-~~aasaAa~La 720 (1665)
++ -...+....-.+.+.+|+|.+||| +|..| +.|+|||+.+|
T Consensus 632 -----------t~----------------------~~~~~~~~~t~~~~lSniP~s~~n~~w~~~tkg~~lavs~A~~~~ 678 (1414)
T KOG1473|consen 632 -----------TG----------------------SQHKKLIARTLQQGLSNIPISYNNRKWPVYTKGFELAVSAAADLA 678 (1414)
T ss_pred -----------ch----------------------hhcchHHHhhhhhhhccCchHhhhccchhhccchhhhhhccchHH
Confidence 00 011334444567789999999999 99999 99999999999
Q ss_pred hhccccccccccccccCcccccchhhHHHHHHhhhccccccccccccccccccCccccccccccCCCCCCCCceeehhhh
Q 000325 721 VLSSEESQASEMHKSGNTRKAMSGSISLQAKAFSSTASRFFWPCSERKLWEVPRERCSWCYSCKSPPSNRRGCMLNSAMT 800 (1665)
Q Consensus 721 ~~sS~e~~~~~~~~s~n~~k~~~~~~~~Q~Kafs~~~~~F~Wps~ekk~~ev~rerCGWC~sCk~s~~~~~~C~ln~a~~ 800 (1665)
++++ |..+.+.++-.|..|+++.++..|+|+||.+|++||||+..+| +..|||||||++|+....+.++||+|.+.+
T Consensus 679 el~s-~t~~~d~s~~~~~~~~~ssn~L~qtklesitaa~f~~~~~~~K--ri~rer~~~~~~~~l~~~s~k~~~~~~~~~ 755 (1414)
T KOG1473|consen 679 ELSS-ETLEPDLSKRSNAFKAASSNILGQTKLESITAAQFFWPSPDKK--RITRERCGWCESCRLTFASRKGTMLLAAVI 755 (1414)
T ss_pred HHHH-hhcccchhhhhhhhccchhhhhcchhheeeehhhhccCCcccc--cccccccchhhhcceeeehhccccchhhcc
Confidence 9999 8999999999999999999999999999999999999999999 999999999999999888999999999999
Q ss_pred hhhhhhHHHhcCcccccCCCCChHHHHHHHHhhhhhccccccccCCChhHHHHHHHHHHhhcchhhHHHHHHHhhhcccc
Q 000325 801 VATKSAMKILNGLLAPKTGEGNLPTIVTYIMYMEESLCGLISGPFRSVSYRKKWRKQVAEACTLNSIKALLLELEENICH 880 (1665)
Q Consensus 801 ~a~kg~~~~~~gl~~~k~~~~hl~~i~~yil~mEe~L~GLl~Gp~~~~~~r~~Wrk~v~~As~~~~ik~lLL~LEsnir~ 880 (1665)
.|+||+|++.+||.|.||+++.|.+|++|++++||+++|++||||+..+-|++||+.|+. .+.++++||+||+-
T Consensus 756 gaqKGa~~r~~G~~~l~n~~~vlS~~~~~~~~~~es~~~v~v~~~~~Esnr~~~r~~L~~------r~~~~~q~ee~i~~ 829 (1414)
T KOG1473|consen 756 GAQKGAMYRNSGLFPLKNWEWVLSSIAAYWLALEESPRGVIVGEFKSESNRKQERKELLV------RRSGGKQLEENICS 829 (1414)
T ss_pred ccccccceeeeccccccChhHHHHHHHHHHHhhhccccceeecccccccchhhHHHHhhh------hhhhhhhhcccccc
Confidence 999999999999999999999999999999999999999999999999999999999988 49999999999999
Q ss_pred eeeccchhhhhhccc-ccccccccccccccccccccCCCCCCCcccCccccccCCCCCCceeeecCCcchhhhhhcccCh
Q 000325 881 IALSGDWVKLMDDWL-GDSSVIQSASCNFVTTQKRGLSGKRGRKHSVISEVTADDCNDQSFSWWQGGKSTKLISKKAILP 959 (1665)
Q Consensus 881 iA~s~dW~K~~D~~~-v~~s~~~~~~~~~~~~qk~g~~grr~rk~~~~~e~~~~~~~~~~~~WwrGG~lsr~if~~~~Lp 959 (1665)
+|++-+|.|+||+|. ++.|..++..-+.++.|+|++|+++ +..+ -|.++.+....+|.|||||+ |+.|+|+|||-
T Consensus 830 ~~~~~y~~~~~~n~~rie~s~~~~ng~~v~akQ~r~pgr~~-~s~~--~ek~A~~s~ld~f~~~Rggk-s~vvl~kavL~ 905 (1414)
T KOG1473|consen 830 GALSCYWPKQMDNWLRIEHSIFQSNGVTVGAKQARDPGRTK-QSLQ--AEKTAPKSDLDSFTWWRGGK-SKVVLQKAVLS 905 (1414)
T ss_pred ccccccchhhccCceeeeechhccCceeechhhhcCCcchh-hhcc--hhhccccccccchhhhhcCc-ceeeehhhhcc
Confidence 999999999999999 9999999999999999999995544 3333 38899998899999999999 99999999999
Q ss_pred HHHHHHHHHhcCcccccccccC--CCccccchhhhhhhhhhcccchhHHHHHHhhhcccccccccCCCcccccCCCCchh
Q 000325 960 HTIIRNAARRGGLRKISGVNYT--AEMPKRSRQLVWRAAVERSKTVSQLALQVRYIDLHVRWSELVRPEQNLQDGKGPET 1037 (1665)
Q Consensus 960 ~s~v~kAarqgG~~ki~gi~Y~--se~~rRsr~~~WraaVe~s~~~sqLalqvR~Ld~~irW~el~~~~~~~~~~K~~~~ 1037 (1665)
++.++|||.|+|.+++|+..|. +.+|||+++..|.+||+-++|++|||||| .|+.+|+|++++
T Consensus 906 ~~~mk~~v~~~g~ta~~k~nfl~~~y~p~~s~~s~wk~av~n~enlh~LAlQ~---------------~q~v~d~~s~~~ 970 (1414)
T KOG1473|consen 906 QSIMKKLVWQQGFTAGPKSNFLDWSYIPRRSRRSCWKAAVENSENLHQLALQL---------------RQNVQDVKSPET 970 (1414)
T ss_pred hHHHHHHhhccccccCCcccccccccccchhhhhhhhhhhcChhhHHHHHHHH---------------HHHHhccCCchh
Confidence 9999999999999999999999 88999999999999999999999999998 689999999999
Q ss_pred hhhhcccceeeeccccccceEEEEecCCcccCChhhhhhhhhhccccCCCCccccccCCchhHHHHHHHhhccccccCCC
Q 000325 1038 EAFAFRNAIICDKKIVENKIRYGVAFGIHRHLPSRVMKNIIDIELSQDGKEKYWFPETCLPLFLIKEYEERVDMVIAPSS 1117 (1665)
Q Consensus 1038 ~~~~fr~~~i~~k~~~~~~~~Y~~~fg~~k~lp~~v~kn~~~~E~~~~~~~k~w~~e~~vPL~LlkefEek~~~~~~~s~ 1117 (1665)
.++.||||-||.|++.+++.+|+.-|++ +++||.|.+ ||+.|.-|+| .||+.+
T Consensus 971 r~ai~r~~~ic~~~l~d~~~~~~~~~~s------~~~~~~~~~---------~~~~~~~~sl----~~~~fr-------- 1023 (1414)
T KOG1473|consen 971 RRAIFRNAEICIKKLYDNKEEEGESWLS------SEFSHVISS---------RPQRHEFVSL----GYEKFR-------- 1023 (1414)
T ss_pred hHHHhhhhhhhccccccCCcccccchhh------hhhhhhhhc---------ccccCceeec----cchhhh--------
Confidence 9999999999999999999999999999 889999887 9999999999 388853
Q ss_pred CCCCchhhHHHHHhhcccccchhhhhhhcccccccccccccccccccCCccccccccccccccccccCcccCCCCcccee
Q 000325 1118 KKPSNELSEFQKKQLKASRKDLFSYLVCRRDKIEKCACASCQIDVLLGNAVKCGTCQGYCHEGCTSSSMHMNSGVEPMIV 1197 (1665)
Q Consensus 1118 ~~~s~~~~~~~~~~~k~~~~~~FsyL~~k~~~le~~~C~~C~kDV~~rdaV~C~~Cqg~fHk~C~~~S~~~~g~~e~~yt 1197 (1665)
.++.-..+++++.++|.+...+|.|+-.+- + .
T Consensus 1024 ~~~~~r~~~~q~~~~~~~~~~v~~~~~~~~--------------------------------------~------~---- 1055 (1414)
T KOG1473|consen 1024 SLDNRRATAIQREWLKGSTANVFEIKDYWP--------------------------------------P------S---- 1055 (1414)
T ss_pred cchhhhhHHHHhhhhcccccceeeeeccCC--------------------------------------c------h----
Confidence 244556789999999999999999987440 0 0
Q ss_pred cccccCcccccccccccCCCCCCCCcccccccccccccccCCCCCCCccccc-ccccCCccccccCCCCccccccccccc
Q 000325 1198 CNRCYLPRALATSEIRSESPTSPLPLHRQEYHTAVKVSKGTRPKGFNQALAS-IRTQESSESKQTVSDSSTVTKTRNRTL 1276 (1665)
Q Consensus 1198 C~rCl~~k~~~i~~~~~~~~~spl~~~~~~~~~avtapK~~r~K~~kqPl~s-v~~k~~sG~Kk~~~~k~~~~Kkkrk~~ 1276 (1665)
+.+++ ..+-+.+|+|+-+|..... +.+.++.
T Consensus 1056 -----------------------------------------------s~~~s~~~~~~~~gvkq~tpd~n~~-~~~~~~~ 1087 (1414)
T KOG1473|consen 1056 -----------------------------------------------QQLPSEKNNVNYSGVKQRTPDGNER-KSKKKTL 1087 (1414)
T ss_pred -----------------------------------------------hhCcccccCCCccceeeecCCcchh-hhccCCc
Confidence 00111 1223446788888888877 8888999
Q ss_pred ceeeeeeccCccccccchhhcccCCCCCCC-CCCCCeeeccCCCCCCCcceEecCCCCccccccccccCccccCCcccee
Q 000325 1277 SWGIIWRKKNIEDAGADFRRANVLPRGKSV-AHLEPVCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVGFK 1355 (1665)
Q Consensus 1277 s~Gl~wKKk~~dd~g~~Fr~env~l~s~s~-~~~~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~ 1355 (1665)
++|++|.+++-.+.+..|+..|+++.+.+. +...++|-+|..||+++..+|.|-.|..|||++.|.+..........|.
T Consensus 1088 s~~v~~~~~~~a~t~~~~~~qnii~ag~~~kp~~~p~~~i~~~p~~pg~~~i~~~~~~~~~~~~~v~ln~s~~p~~~~~k 1167 (1414)
T KOG1473|consen 1088 SSGVIWRKKNYADTGVPFRHQNIILAGRSDKPTLSPVCFICTLPYNPGLTYIHCTVCMTWGHKEAVKLNSSPIPEVVGFK 1167 (1414)
T ss_pred cccccccccccccCCCCcchhhHHhccCCCCCCCCccccceeeccCCCCCcceEEEeeccCcceeEecCCCcchHHhhhh
Confidence 999999999999999999999999888766 8889999999999999999999999999999999999999998889999
Q ss_pred ecCccccCCCCCCCCCcchhhhhhhhhHHHHHHHHhhhhccCCCCCCCCCCCccCCCCCccccccccccCCCCCCcccCC
Q 000325 1356 CCRCRRIGGPECPYMDPELKEQKRKKDQKRKKDQKRKKQQLNAPKQGQGSMRVDSDDGTISESKEFKLTTPMYPMEEMFV 1435 (1665)
Q Consensus 1356 Cp~Crrk~gP~cP~~~~~~k~q~~~k~q~rrk~~~r~~~q~na~~~~~~~~g~~s~~g~~~e~~~~~~~~~~~~~~~~~~ 1435 (1665)
|.+|++++.|.|||++++++.|.++++.--+. . ...|++.|.++|+..+.|++++++++|-++++++|+
T Consensus 1168 ~~~~~ri~~P~~~~~~~~~~~~~~~kr~~~~~---q--------~~~q~~~~~~s~s~~~~e~~~~~~a~p~~~~d~~~i 1236 (1414)
T KOG1473|consen 1168 CCQCRRIRSPDCPYMDPKLKEQKQTKRGGFRN---Q--------KHQQGNQGRDSDSERMSESKDSLPATPDNDGDDPFI 1236 (1414)
T ss_pred HHhhhccCCCCCCcCCchhhHHHhhhhhhhHH---H--------HHhhhccccccccccccccccccccCCCCCCCCccc
Confidence 99999999999999999999999888654432 1 334566699999999999999999999999999999
Q ss_pred CCCCCcceeccceeecCCCCCccccccccCCCCCCCccccccccccCCCCCCCCCCCCCCcccccCcCcCCCCCCCcCCc
Q 000325 1436 PEDDPLLFSLSTVELITEPNSEVDCGWNNSAPGPQKLPVRRQTKCEGDVGSGSVGNNVPNVDLSMSFDANNVMNPKEELS 1515 (1665)
Q Consensus 1436 ~~~dpll~s~~~ve~i~e~~~~~d~~~~~~~pg~~kl~vrr~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s 1515 (1665)
+++||+|++.++|++||+...++||......||||||+|||++|+++.+.+ ++.+-..|.|+.+-+
T Consensus 1237 p~~dp~l~~~~k~~q~~p~sr~v~~~~~~~~~~~q~~~v~~~i~~~~sd~~--------------~p~~~~iv~p~~~~a 1302 (1414)
T KOG1473|consen 1237 PEDDPLLVSVSKVQQITPQSRDVEWTPAQMIPGPQKLGVRRVVKREDSDGQ--------------FPEGTPIVKPEREPA 1302 (1414)
T ss_pred cCCCchhhhHHHHHHhCccccchhccccCccCCCcccccccceeehhcccc--------------CCCCccccCccccch
Confidence 999999999999999999988888877777999999999999999988732 233334488885559
Q ss_pred ccccccccCCCCCcccccccCCCCCccCCccccccceecccccccCCCCCCCccccCCccccccCCcccccccCCCcccc
Q 000325 1516 VPCVEWDASGNGLEGEMLFDYDGLNYEDMEFEPQTYFSFSELLASDDGGQSDGVDASGVVFGNREDLSCSIQQDGAPQQC 1595 (1665)
Q Consensus 1516 ~~~~~~d~~~~~~~~~~~~d~~~~~~~~~e~ep~tyfs~tell~~dd~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1595 (1665)
+|+++||++ ++++|| |+||||||||||++||||..||.| +|+.+++++.-++++ -..-++|
T Consensus 1303 ~~~~~~~~s-----~~~v~~-----~~~~e~~pq~~~~~~~~~~~~~sg--a~y~dd~~~~~pg~q-------~~~~~q~ 1363 (1414)
T KOG1473|consen 1303 VPVREWDAS-----GELVFD-----YEDMEFEPQTYFSLTELLTVDDSG--AGYMDDQDTPNPGQQ-------VRYVEQC 1363 (1414)
T ss_pred hhhhhhhcC-----cceeec-----hhccCcchHHHHHHHhhhhhhccC--ccccccCCCCCCCCC-------cchHhhc
Confidence 999999999 699999 999999999999999999999998 778888887744443 2234777
Q ss_pred CCCCCCCCCCCcccccccccccccCCCCCCCCccceeccceEeccCCCCCcccccCCCCCccccccccC
Q 000325 1596 GLGTSKDPSNCTVSTVNKMQCRICPDIEPAPNLSCQICGLVIHSQCSPWPWVESSYMEGSWKCGNCRDW 1664 (1665)
Q Consensus 1596 ~~~~s~~~~~~~~~~~~~~~c~~c~~~~p~pdl~c~~cg~~ih~~csp~~w~e~~~~~~~w~cg~crew 1664 (1665)
|... .+|+.|++++|+|||.|++|++.||+| +| | +...+++|+||.||.|
T Consensus 1364 g~n~--------------~P~~~~~~~~p~~~l~~~~~~~q~h~~-s~--~--s~~~g~~~~~g~~rv~ 1413 (1414)
T KOG1473|consen 1364 GPNV--------------NPCQVCSRGGPGPDLMCMVCQQQIHSH-SP--W--SDATGFSWSCGTCRVP 1413 (1414)
T ss_pred CCCc--------------CcchhhhccCccchhHHHHHHHHhcCC-CC--c--ccCcccceeeeeeecc
Confidence 7433 449999999999999999999999999 99 7 7789999999999998
No 2
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=99.13 E-value=3e-11 Score=151.62 Aligned_cols=272 Identities=20% Similarity=0.322 Sum_probs=167.9
Q ss_pred cccccccHHHHHHHHHhhcccccCCcccchhhhhhhccccccchhhHHHHHHHHhhhhcchHHHHHHHhc-cc-ccccCC
Q 000325 229 SLLDTLTWPVYVVQYLTSMGYIKGTQWTGFYDEVSVREYYSLSAGRKLMILQILCDDVLDSEELRAEIDA-RE-ESEVGL 306 (1665)
Q Consensus 229 ~lLD~lTWP~~L~~Yl~s~G~~~~~~~k~~~~~ll~~eY~~~pV~~KL~ILq~LcD~~l~s~efR~E~dm-rE-ede~~l 306 (1665)
+.+|++.--+|||.|-..- ++....+..|.+.|+..+...+-.+.-+.+|..|-.+-=....=-..++. +. -...++
T Consensus 191 ~Vm~alsIYevLRsF~~~L-risPF~feDFcaAL~~~~~ssLlaeVHvaLLrA~lr~eD~~~Thfs~~d~KdsvnI~l~l 269 (1414)
T KOG1473|consen 191 HVMDALSIYEVLRSFSRQL-RISPFRFEDFCAALISHEQSSLLAEVHVALLRALLREEDRLSTHFSPLDSKDSVNIDLYL 269 (1414)
T ss_pred HHHHHHHHHHHHHhhcceE-EeCCccHHHHHHHHHhcCchhHHHHHHHHHHHHHhhhhhhcccccCccccccceeeeeeh
Confidence 6778888899999987654 44556678899999889999999999999888775321100000000000 00 000000
Q ss_pred -CCCc-ccc---ccccccccccCCC--CC----------CCcccchhhhhhhccccccCCccCCCCCCCCCCCCCCCCCc
Q 000325 307 -DPDA-ASY---GSEIARRRVHPRF--SK----------TPDCKNREAVEFNAENDRMKTSCKAKPLGFKGTEMDAPGVD 369 (1665)
Q Consensus 307 -d~~n-~~~---l~E~G~Rr~h~R~--~k----------~sa~k~~~~~E~~ees~~~s~~~~s~~sr~~~~e~~~~~~e 369 (1665)
|-+. +.+ +.|+=+.+.++-+ -+ +....+-...++|. +.+ .-....+..-..++
T Consensus 270 iD~lTWPevLrqY~ea~~~ad~~v~~~~n~fv~~~eY~~~pv~~klkILQ~L~-----Dq~-----l~~~s~R~e~~se~ 339 (1414)
T KOG1473|consen 270 IDTLTWPEVLRQYFEADKHADGPVWDIFNPFVVEDEYPYRPVSNKLKILQFLC-----DQF-----LTVNSLRDEIDSEG 339 (1414)
T ss_pred hccccHHHHHHHHHHhccccCcchhhhhccccccccccccchhhhHHHHHHHH-----HHH-----HHHHHHHHHHhccc
Confidence 0000 000 0111111111100 00 00000000001110 000 00000011112224
Q ss_pred ccccccccccccccCccccCCCCCccccccccccccCCCCCCCcccccCcccccCCcc------cccCccccccccccch
Q 000325 370 VDGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGPIV------TIGTSLRGAELFGIDL 443 (1665)
Q Consensus 370 ~d~ndd~C~VC~~gG~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~p~~------E~g~~~rg~EllG~D~ 443 (1665)
....+|+|++|++.|.++||.+||+.||++|..||...+|...|.|..|..++....+ .......+.+.+|.|.
T Consensus 340 ~~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr 419 (1414)
T KOG1473|consen 340 EIEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDR 419 (1414)
T ss_pred ceeecccccccCcccceeecccCCceEEeeecCCccccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCc
Confidence 4557789999999999999999999999999999999999999999999887764332 1111223577899999
Q ss_pred hhhHHHhhcccceeeccCCCchhhccccCC-CChHHHHHHHhccccchhhHhHHH---HHHHHHhcCcccccc-CC
Q 000325 444 YERVFLGTCNHLLVLNASSNTEQYIRYYNP-IDIPKVLQALLSSVQHVSLYLGIC---KAILHYWDIPESVVP-FM 514 (1665)
Q Consensus 444 cgR~Yh~kCerLll~~~s~Dse~~~~YYs~-~DL~~Vl~vLy~sDih~~~y~eI~---~~I~~y~~~p~NL~n-l~ 514 (1665)
++++||+.-++++++. .| ++..+||+| .++..++++|+...++..++..|. +.|.++|.+++.++| ++
T Consensus 420 ~gr~ywfi~rrl~Ie~--~d-et~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~rqM~lT~~ltne~R 492 (1414)
T KOG1473|consen 420 YGRKYWFISRRLRIEG--MD-ETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEIIRQMGLTEELTNELR 492 (1414)
T ss_pred cccchhceeeeeEEec--CC-CcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHHHhccchhhhhhhhh
Confidence 9999999999999974 34 678999995 588889999998876655555554 577899999999999 44
No 3
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=98.58 E-value=2.2e-08 Score=114.70 Aligned_cols=54 Identities=30% Similarity=0.583 Sum_probs=44.0
Q ss_pred CCCCCCCeeeccCCCCCCCcceEecCC--CC-ccccccccccCccccCCccceeecCccccC
Q 000325 1305 SVAHLEPVCDLCKQPYNSNLMYIHCET--CQ-RWFHADAVELEESKLSDVVGFKCCRCRRIG 1363 (1665)
Q Consensus 1305 s~~~~~~vcCiC~kPyn~d~~MI~CD~--C~-~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk~ 1363 (1665)
..+.+.+.||+|.+... .-||.||+ |. +|||+.||||+...- ++|+||.|+...
T Consensus 213 ~~d~~e~~yC~Cnqvsy--g~Mi~CDn~~C~~eWFH~~CVGL~~~Pk---gkWyC~~C~~~~ 269 (274)
T KOG1973|consen 213 AVDPDEPTYCICNQVSY--GKMIGCDNPGCPIEWFHFTCVGLKTKPK---GKWYCPRCKAEN 269 (274)
T ss_pred ccCCCCCEEEEeccccc--ccccccCCCCCCcceEEEeccccccCCC---Ccccchhhhhhh
Confidence 33678999999996443 36999998 99 999999999996543 469999997653
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=98.52 E-value=1.2e-08 Score=120.77 Aligned_cols=115 Identities=24% Similarity=0.373 Sum_probs=81.4
Q ss_pred HHHHHhhhhc-chHHHHHHHhcccccccCCCCCccccccccccccccCCCCCCCcccchhhhhhhc----------cccc
Q 000325 278 ILQILCDDVL-DSEELRAEIDAREESEVGLDPDAASYGSEIARRRVHPRFSKTPDCKNREAVEFNA----------ENDR 346 (1665)
Q Consensus 278 ILq~LcD~~l-~s~efR~E~dmrEede~~ld~~n~~~l~E~G~Rr~h~R~~k~sa~k~~~~~E~~e----------es~~ 346 (1665)
-.+.+.++.. .-..|...|||||.|++|+.|+|+..+.++ ...+.+|++. +..+
T Consensus 114 e~~Kfi~i~p~~~~~f~v~YdlDe~D~m~l~Ylne~~~~e~---------------vS~e~fEii~t~lE~EWf~~e~~l 178 (669)
T COG5141 114 EGKKFIDIEPPRGLFFSVIYDLDEYDTMWLRYLNESAIDEN---------------VSEEAFEIIVTRLEKEWFFFEHGL 178 (669)
T ss_pred hhhhceeccCCcCccCceeecccchhHHHHHHHHHHHhhhh---------------hhHHHHHHHHHHHHHHHHhhhccC
Confidence 4455666666 777899999999999999999998333322 1123333332 3333
Q ss_pred cCCccCCCCCCCCCCCCCCCCCccccccccccccccc-----CccccCCCCCccccccccccccCCCCCCCcccccCccc
Q 000325 347 MKTSCKAKPLGFKGTEMDAPGVDVDGNGDECRICGMD-----GTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAIN 421 (1665)
Q Consensus 347 ~s~~~~s~~sr~~~~e~~~~~~e~d~ndd~C~VC~~g-----G~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~ 421 (1665)
|+.. + +..+.+|.-++.|.+|... ..+++||+|+.+.|+.|++.+ .+|+|.|+|..|...
T Consensus 179 p~k~-------v------epi~~~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~--f~peG~WlCrkCi~~ 243 (669)
T COG5141 179 PDKH-------V------EPIEPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQ--FLPEGFWLCRKCIYG 243 (669)
T ss_pred cccc-------c------cccCCchhhhhhhHhccccccCCcceEEEecCcchhhhhhcccce--ecCcchhhhhhhccc
Confidence 3310 1 1122333567899999874 379999999999999999999 899999999999874
Q ss_pred c
Q 000325 422 K 422 (1665)
Q Consensus 422 ~ 422 (1665)
+
T Consensus 244 ~ 244 (669)
T COG5141 244 E 244 (669)
T ss_pred c
Confidence 4
No 5
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=98.45 E-value=1.3e-07 Score=105.84 Aligned_cols=56 Identities=23% Similarity=0.601 Sum_probs=44.5
Q ss_pred CCCCCCCCCCeeeccCCCCCCCcceEecCC--CC-ccccccccccCccccCCccceeecCcccc
Q 000325 1302 RGKSVAHLEPVCDLCKQPYNSNLMYIHCET--CQ-RWFHADAVELEESKLSDVVGFKCCRCRRI 1362 (1665)
Q Consensus 1302 ~s~s~~~~~~vcCiC~kPyn~d~~MI~CD~--C~-~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk 1362 (1665)
.+.+..+++++||.|+++.-+ -||.||+ |+ +|||..||||.+-. -..|+|+.|+..
T Consensus 212 ss~d~se~e~lYCfCqqvSyG--qMVaCDn~nCkrEWFH~~CVGLk~pP---KG~WYC~eCk~~ 270 (271)
T COG5034 212 SSEDNSEGEELYCFCQQVSYG--QMVACDNANCKREWFHLECVGLKEPP---KGKWYCPECKKA 270 (271)
T ss_pred CccccccCceeEEEecccccc--cceecCCCCCchhheeccccccCCCC---CCcEeCHHhHhc
Confidence 334446889999999997654 5999996 87 89999999997543 247999999754
No 6
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.38 E-value=9.4e-08 Score=117.05 Aligned_cols=50 Identities=44% Similarity=1.220 Sum_probs=45.7
Q ss_pred ccccccccccCcc---ccCCCCCccccccccccc--cCCCCCCCcccccCccccc
Q 000325 374 GDECRICGMDGTL---LCCDGCPSAYHTRCIGVS--KMYVPEGSWYCPECAINKV 423 (1665)
Q Consensus 374 dd~C~VC~~gG~L---LcCD~Cp~afHl~CL~Pp--L~~vPeGdW~Cp~C~~~~~ 423 (1665)
+++|..|+..|.. ||||+||++||+.||.|| .+.+|.|.|+|++|.++..
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 6799999999866 999999999999999999 5899999999999988653
No 7
>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=98.35 E-value=1e-07 Score=82.75 Aligned_cols=49 Identities=27% Similarity=0.598 Sum_probs=39.3
Q ss_pred ee-ccCCCCCCCcceEecCCCCccccccccccCccccCCc-cceeecCcccc
Q 000325 1313 CD-LCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDV-VGFKCCRCRRI 1362 (1665)
Q Consensus 1313 cC-iC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i-~~Y~Cp~Crrk 1362 (1665)
+| +|++ .+.+..||+|+.|+.|||..|++++....... ..|+|+.|.++
T Consensus 1 ~C~vC~~-~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~~ 51 (51)
T PF00628_consen 1 YCPVCGQ-SDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRPK 51 (51)
T ss_dssp EBTTTTS-SCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHHC
T ss_pred eCcCCCC-cCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcCc
Confidence 35 8998 44567899999999999999999997744332 28999999753
No 8
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=98.31 E-value=9.8e-08 Score=123.63 Aligned_cols=115 Identities=25% Similarity=0.422 Sum_probs=73.8
Q ss_pred HHHHHHHhcccccccCCCCCccccccccccccccCCCCCCCcccchhhhhhhccccccCCccCCCCCCCCCCCCCCCCCc
Q 000325 290 EELRAEIDAREESEVGLDPDAASYGSEIARRRVHPRFSKTPDCKNREAVEFNAENDRMKTSCKAKPLGFKGTEMDAPGVD 369 (1665)
Q Consensus 290 ~efR~E~dmrEede~~ld~~n~~~l~E~G~Rr~h~R~~k~sa~k~~~~~E~~ees~~~s~~~~s~~sr~~~~e~~~~~~e 369 (1665)
-.+..+|++||++..|++..|. .|...........+++.+. +...++...+ ..+..+..+.
T Consensus 154 ~~~e~~y~~de~d~~wl~~~n~------------~~~~~~~~~v~~~~~~~~~-----dr~eke~~f~--~~e~~~~~~~ 214 (1051)
T KOG0955|consen 154 LDEEVEYDLDEEDYSWLDIMNE------------LRTRNGVFDVSIDTFELLV-----DRLEKESYFK--NYELGDPKDA 214 (1051)
T ss_pred hccccccchHHHHHHHHhhhhH------------HHhhcCCccccccchhhhh-----hhHHHHHHhh--hhhccCCCcc
Confidence 3456789999999999988776 1111222222233333333 1111111111 1111122223
Q ss_pred ccccccccccccccC-----ccccCCCCCccccccccccccCCCCCCCcccccCcccccCC
Q 000325 370 VDGNGDECRICGMDG-----TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGP 425 (1665)
Q Consensus 370 ~d~ndd~C~VC~~gG-----~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~p 425 (1665)
....|..|.||.++. .+|+||+|+.++|++|++.| .+|+|.|+|..|...+.++
T Consensus 215 ~~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~--~ipeg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 215 LLEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIP--FIPEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred ccCCCccceeecccccCCCceEEEcCCCcchhhhhccCCC--CCCCCcEeehhhccCcCcc
Confidence 345667899999964 79999999999999999976 8999999999999866654
No 9
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=98.23 E-value=3.1e-07 Score=103.23 Aligned_cols=46 Identities=43% Similarity=0.998 Sum_probs=42.0
Q ss_pred cccccccc---cCccccCCCCCccccccccccccCCCCCCCcccccCcc
Q 000325 375 DECRICGM---DGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 375 d~C~VC~~---gG~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
.+|.+|+. +++||+||-|+++||++||.||+...|+|.|.|-.|+.
T Consensus 282 k~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~ 330 (336)
T KOG1244|consen 282 KYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLE 330 (336)
T ss_pred ceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHH
Confidence 46888887 45999999999999999999999999999999999975
No 10
>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=98.10 E-value=1.5e-06 Score=109.53 Aligned_cols=76 Identities=32% Similarity=0.694 Sum_probs=58.0
Q ss_pred cCCccCCCCCCCCCCCCCCCCCcccccccccccccccCccccCCCCCccccccccccccCCCCCCCcccccCccccc
Q 000325 347 MKTSCKAKPLGFKGTEMDAPGVDVDGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKV 423 (1665)
Q Consensus 347 ~s~~~~s~~sr~~~~e~~~~~~e~d~ndd~C~VC~~gG~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~ 423 (1665)
.++.++.+.+.....+..+++ .++.+...|++|.++|.+|+||.|+.+||.+|+++|+..+|.|+|.|+.|.++..
T Consensus 21 ~~~k~~~~e~~~~~~~~~~~~-~~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p~~ 96 (696)
T KOG0383|consen 21 MDPKCPGCESSSAQVEAKDDD-WDDAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCPKN 96 (696)
T ss_pred CCccCcchhhcccccccccCC-cchhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccCCC
Confidence 355555554443333322222 4456778999999999999999999999999999999999999999999965443
No 12
>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=98.09 E-value=1.3e-06 Score=92.25 Aligned_cols=78 Identities=23% Similarity=0.340 Sum_probs=50.1
Q ss_pred cccccccccccCCCCCCCcccccCcccccCCcccccCccccccccccchhhhHHHhhcccceeeccCCCchh-hccccCC
Q 000325 395 AYHTRCIGVSKMYVPEGSWYCPECAINKVGPIVTIGTSLRGAELFGIDLYERVFLGTCNHLLVLNASSNTEQ-YIRYYNP 473 (1665)
Q Consensus 395 afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~p~~E~g~~~rg~EllG~D~cgR~Yh~kCerLll~~~s~Dse~-~~~YYs~ 473 (1665)
+||++||.|||+.+|+|+|+||.|..+..+..........+...-+-...++.|-...++|+... .. .++ ..|||-|
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~vArIekiW~~~-G~-~~~~grWy~rP 78 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQSAMPQLPPTSRSACEKLLSGDLWLARIEKLWEEN-GT-YWYAARWYTLP 78 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCCcccccCCCcchhhhhhhccCchHHHHHHHHHhcc-Cc-eEEEEEEEeCc
Confidence 59999999999999999999999998765533322111111111122345677778888887753 22 233 4677775
Q ss_pred C
Q 000325 474 I 474 (1665)
Q Consensus 474 ~ 474 (1665)
.
T Consensus 79 E 79 (148)
T cd04718 79 E 79 (148)
T ss_pred h
Confidence 4
No 13
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.03 E-value=2e-06 Score=106.39 Aligned_cols=47 Identities=34% Similarity=0.944 Sum_probs=42.0
Q ss_pred ccccccccccC---ccccCCCCCcc-ccccccccccCCCCCCCcccccCcc
Q 000325 374 GDECRICGMDG---TLLCCDGCPSA-YHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 374 dd~C~VC~~gG---~LLcCD~Cp~a-fHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
...|.+|...+ .||+||.|+.+ ||++||+|+|-++|-++|||+.|..
T Consensus 215 ~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~d 265 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSL 265 (1134)
T ss_pred cccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcchh
Confidence 34688888754 89999999999 9999999999999999999999964
No 14
>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=97.93 E-value=2.1e-06 Score=74.53 Aligned_cols=45 Identities=42% Similarity=1.224 Sum_probs=38.8
Q ss_pred ccccccc---cCccccCCCCCccccccccccccC--CCCCCCcccccCcc
Q 000325 376 ECRICGM---DGTLLCCDGCPSAYHTRCIGVSKM--YVPEGSWYCPECAI 420 (1665)
Q Consensus 376 ~C~VC~~---gG~LLcCD~Cp~afHl~CL~PpL~--~vPeGdW~Cp~C~~ 420 (1665)
+|.+|+. .+.+|.||.|...||..|++|+.. .++.+.|+|+.|..
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 4888888 569999999999999999999976 55667999999964
No 15
>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 COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.48 E-value=5.8e-05 Score=85.25 Aligned_cols=47 Identities=38% Similarity=1.070 Sum_probs=40.4
Q ss_pred ccccccccccccc--CccccCCC--CCc-cccccccccccCCCCCCCcccccCcc
Q 000325 371 DGNGDECRICGMD--GTLLCCDG--CPS-AYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 371 d~ndd~C~VC~~g--G~LLcCD~--Cp~-afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
.++.-+|+ |++. |+|+-||+ |.+ .||+.|++.. ..|.|.|||+.|..
T Consensus 218 e~e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGLk--~pPKG~WYC~eCk~ 269 (271)
T COG5034 218 EGEELYCF-CQQVSYGQMVACDNANCKREWFHLECVGLK--EPPKGKWYCPECKK 269 (271)
T ss_pred cCceeEEE-ecccccccceecCCCCCchhheeccccccC--CCCCCcEeCHHhHh
Confidence 45566787 8885 79999996 986 9999999987 89999999999975
No 17
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.41 E-value=7.6e-05 Score=86.17 Aligned_cols=43 Identities=37% Similarity=1.039 Sum_probs=37.9
Q ss_pred cccccccccCccccCCC--CC-ccccccccccccCCCCCCCcccccCcc
Q 000325 375 DECRICGMDGTLLCCDG--CP-SAYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 375 d~C~VC~~gG~LLcCD~--Cp-~afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
.+|. |...|+|+-||+ |+ ..||+.|++.. ..|.|.|||+.|..
T Consensus 222 C~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVGL~--~~PkgkWyC~~C~~ 267 (274)
T KOG1973|consen 222 CICN-QVSYGKMIGCDNPGCPIEWFHFTCVGLK--TKPKGKWYCPRCKA 267 (274)
T ss_pred EEec-ccccccccccCCCCCCcceEEEeccccc--cCCCCcccchhhhh
Confidence 4455 666899999998 99 99999999997 78999999999975
No 18
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=97.35 E-value=6.5e-05 Score=89.25 Aligned_cols=53 Identities=19% Similarity=0.527 Sum_probs=48.5
Q ss_pred CCeeeccCCCCCCCcceEecCCCCccccccc--cccCccccCCccceeecCcccc
Q 000325 1310 EPVCDLCKQPYNSNLMYIHCETCQRWFHADA--VELEESKLSDVVGFKCCRCRRI 1362 (1665)
Q Consensus 1310 ~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~C--VgLte~~a~~i~~Y~Cp~Crrk 1362 (1665)
...+|.|.++++++.+||+|+.|.+|||++| ||++++++..++.|+|..|...
T Consensus 59 ~~~~~~~~~~~~p~~~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c~~c~~~ 113 (345)
T KOG1632|consen 59 TQRYCKCYKPCDPDDLMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVCDECKEA 113 (345)
T ss_pred hhchhhcccccCchhhhhccccccccccccccccCchhhcCCccccccccccchh
Confidence 3459999999999889999999999999999 9999999999999999999443
No 19
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=97.26 E-value=0.00011 Score=87.26 Aligned_cols=56 Identities=23% Similarity=0.511 Sum_probs=46.9
Q ss_pred CCCCCeeec-cCCCCCCCcceEecCCCCccccccccccCccccCCccc----eeecCcccc
Q 000325 1307 AHLEPVCDL-CKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVG----FKCCRCRRI 1362 (1665)
Q Consensus 1307 ~~~~~vcCi-C~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~----Y~Cp~Crrk 1362 (1665)
++-..++|. |+..+..+.|||+|+.|+.|||+.||.++++....+.. |+|+.|...
T Consensus 235 ~~~~~~~~~~cg~~~~~~~~~~~~~~~e~w~~~~~v~~~~a~~~~~~~~~~~~~c~~~~~~ 295 (345)
T KOG1632|consen 235 PDYSKLICDPCGLSDANKKFEICCDLCESWFHGDCVQIFEARKRLNEIRNEVYKCPHCTVL 295 (345)
T ss_pred cccccccccccCcchHHHHHHHHHHHHHHHhcccccccccchhhhhhhhccceecCceeec
Confidence 455667775 77777666899999999999999999999998877777 999999653
No 20
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.20 E-value=0.00013 Score=83.26 Aligned_cols=44 Identities=39% Similarity=0.921 Sum_probs=37.8
Q ss_pred ccccccccc---CccccCCCCCccccccccccccCCCCCCCcccc-cCcc
Q 000325 375 DECRICGMD---GTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCP-ECAI 420 (1665)
Q Consensus 375 d~C~VC~~g---G~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp-~C~~ 420 (1665)
..|.+|+++ .++++||.|+++||.+|++.- .+|.|.|+|. .|..
T Consensus 315 ~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL~--~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 315 ELCRICLGPVIESEHLFCDVCDRGPHTLCVGLQ--DLPRGEWICDMRCRE 362 (381)
T ss_pred HhhhccCCcccchheeccccccCCCCccccccc--cccCccchhhhHHHH
Confidence 358888885 489999999999999999986 8999999998 4644
No 21
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=96.84 E-value=0.0003 Score=87.31 Aligned_cols=44 Identities=39% Similarity=1.105 Sum_probs=39.4
Q ss_pred ccccccccc-----CccccCCC--CCccccccccccccCCCCCCCcccccCcc
Q 000325 375 DECRICGMD-----GTLLCCDG--CPSAYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 375 d~C~VC~~g-----G~LLcCD~--Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
.-|.||-+. .-|+.||+ |.-|.|+-|+++. .||.|.|||..|..
T Consensus 6 GGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIv--qVPtGpWfCrKCes 56 (900)
T KOG0956|consen 6 GGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIV--QVPTGPWFCRKCES 56 (900)
T ss_pred cceeeecCcCCCccCceeeecCCCceeeeehhcceeE--ecCCCchhhhhhhh
Confidence 469999983 37999996 9999999999998 99999999999965
No 22
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.75 E-value=0.00053 Score=85.43 Aligned_cols=44 Identities=36% Similarity=0.989 Sum_probs=39.0
Q ss_pred ccccccccC---ccccCCCCCccccccccccccCCCCCCCcccccCc
Q 000325 376 ECRICGMDG---TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECA 419 (1665)
Q Consensus 376 ~C~VC~~gG---~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~ 419 (1665)
.|..|+.+| .+++|+.|+.+||.+|..|+++.||.|.|+|+.|.
T Consensus 70 vCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~ 116 (694)
T KOG4443|consen 70 VCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCT 116 (694)
T ss_pred eeeeccccCCcccccccccccccccccccCCccccccCcccccHHHH
Confidence 466676544 89999999999999999999999999999999994
No 23
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=96.62 E-value=0.00047 Score=93.57 Aligned_cols=50 Identities=32% Similarity=0.855 Sum_probs=44.7
Q ss_pred cccccccccccC---ccccCCCCCccccccccccccCCCCCCCcccccCcccc
Q 000325 373 NGDECRICGMDG---TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINK 422 (1665)
Q Consensus 373 ndd~C~VC~~gG---~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~ 422 (1665)
....|.||...+ .+++||.|..+||++|+.|.+..+|.|+|+|+.|+...
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 446799999854 78999999999999999999999999999999998743
No 24
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.56 E-value=0.0015 Score=79.83 Aligned_cols=51 Identities=22% Similarity=0.595 Sum_probs=37.7
Q ss_pred CeeeccCCCCCCCcceEecCCCCccccccccc--cCccccCC-ccceeecCcccc
Q 000325 1311 PVCDLCKQPYNSNLMYIHCETCQRWFHADAVE--LEESKLSD-VVGFKCCRCRRI 1362 (1665)
Q Consensus 1311 ~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVg--Lte~~a~~-i~~Y~Cp~Crrk 1362 (1665)
-.||-|.+|...+ -||+|+.|..|||-.|.. ++.+.+.+ --.|+|..|.+.
T Consensus 171 c~vC~~g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 171 CSVCYCGGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred eeeeecCCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 3445556666666 799999999999999997 44444444 347999999765
No 25
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=96.54 E-value=0.00085 Score=84.16 Aligned_cols=50 Identities=32% Similarity=0.829 Sum_probs=43.0
Q ss_pred ccccccccccc-----CccccCCCCCccccccccccccCCCCCCCcccccCcccccC
Q 000325 373 NGDECRICGMD-----GTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVG 424 (1665)
Q Consensus 373 ndd~C~VC~~g-----G~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~ 424 (1665)
++-.|-||..+ .+|++||.|+...|+.|++.. .+|+|.|.|..|......
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIl--e~p~gpWlCr~Calg~~p 324 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGIL--EVPEGPWLCRTCALGIEP 324 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhcee--ecCCCCeeehhccccCCC
Confidence 56678888875 499999999999999999997 899999999999765433
No 26
>PF09465 LBR_tudor: Lamin-B receptor of TUDOR domain; InterPro: IPR019023 The Lamin-B receptor is a chromatin and lamin binding protein in the inner nuclear membrane. It is one of the integral inner nuclear envelope membrane proteins responsible for targeting nuclear membranes to chromatin, being a downstream effector of Ran, a small Ras-like nuclear GTPase which regulates NE assembly. Lamin-B receptor interacts with importin beta, a Ran-binding protein, thereby directly contributing to the fusion of membrane vesicles and the formation of the nuclear envelope []. ; PDB: 2L8D_A 2DIG_A.
Probab=96.40 E-value=0.0032 Score=57.22 Aligned_cols=41 Identities=32% Similarity=0.513 Sum_probs=32.0
Q ss_pred ceeecceehhccCC--ceEEEEEEEEe--cceEEEEecCCCcccc
Q 000325 41 IALVGRYVLKEFES--GIFLGKIVYYE--SGLYRVDYEDGDCEDL 81 (1665)
Q Consensus 41 ~~LvGr~V~k~f~~--~~~~GkV~~yd--~g~Y~V~yEDGd~Edl 81 (1665)
++=+|+.|.-..++ -+|-|||++|| ...|.|.|+||+..+|
T Consensus 5 k~~~Ge~V~~rWP~s~lYYe~kV~~~d~~~~~y~V~Y~DGtel~l 49 (55)
T PF09465_consen 5 KFAIGEVVMVRWPGSSLYYEGKVLSYDSKSDRYTVLYEDGTELEL 49 (55)
T ss_dssp SS-SS-EEEEE-TTTS-EEEEEEEEEETTTTEEEEEETTS-EEEE
T ss_pred cccCCCEEEEECCCCCcEEEEEEEEecccCceEEEEEcCCCEEEe
Confidence 35689999988888 78899999999 9999999999998655
No 27
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=96.30 E-value=0.0016 Score=78.92 Aligned_cols=45 Identities=33% Similarity=0.824 Sum_probs=39.6
Q ss_pred cccccccccC---ccccCCCCCccccccccccccCCCCCC----CcccccCc
Q 000325 375 DECRICGMDG---TLLCCDGCPSAYHTRCIGVSKMYVPEG----SWYCPECA 419 (1665)
Q Consensus 375 d~C~VC~~gG---~LLcCD~Cp~afHl~CL~PpL~~vPeG----dW~Cp~C~ 419 (1665)
.-|.||.+.- .|+.||.|...||+-||.|||+.+|.- -|+|.+|-
T Consensus 545 ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 545 YSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred eeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 4699998853 678899999999999999999999985 49999993
No 28
>PF15612 WHIM1: WSTF, HB1, Itc1p, MBD9 motif 1; PDB: 2Y9Z_B 2Y9Y_B.
Probab=95.86 E-value=0.0052 Score=53.94 Aligned_cols=45 Identities=47% Similarity=0.770 Sum_probs=36.6
Q ss_pred chhhhhhhccccccchhhHHHHHHHHhhhhcchHHHHHHHhcccc
Q 000325 257 GFYDEVSVREYYSLSAGRKLMILQILCDDVLDSEELRAEIDAREE 301 (1665)
Q Consensus 257 ~~~~~ll~~eY~~~pV~~KL~ILq~LcD~~l~s~efR~E~dmrEe 301 (1665)
+....+...+|+.++++.|+.||++|||.++++..+|.+++..++
T Consensus 4 ~~~~~l~~~~y~~L~~~~kl~iL~~L~~~~l~s~~vr~~i~~~~e 48 (50)
T PF15612_consen 4 GLAPPLETGEYYELSPEEKLEILRALCDQLLSSSSVRNEIEEREE 48 (50)
T ss_dssp GG-CCCCCSTCCCS-HHHHHHHHHHHHHHHCC-CCHHHHHHHHHT
T ss_pred hhhHHHHcCCcccCCHHHHHHHHHHHHHHHcCcHHHHHHHHHhhc
Confidence 344556678999999999999999999999999999999986554
No 29
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=95.53 E-value=0.0063 Score=80.61 Aligned_cols=150 Identities=16% Similarity=0.323 Sum_probs=94.7
Q ss_pred ccccccccccC--ccccCCCCCccccccccccccCCCCCCCcccccCcccccCCccc-ccCccccccccccchhhhHHH-
Q 000325 374 GDECRICGMDG--TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGPIVT-IGTSLRGAELFGIDLYERVFL- 449 (1665)
Q Consensus 374 dd~C~VC~~gG--~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~p~~E-~g~~~rg~EllG~D~cgR~Yh- 449 (1665)
...|..|..+. .++.|++|...||..|..+++..+|+|+|.|+.|.........+ .|. ..+..-+..... ..|+
T Consensus 155 ~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gf-~~~~~~yt~~~f-~~~~~ 232 (904)
T KOG1246|consen 155 YPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTPESKPNYKFGF-EQGSREYTLPKF-EEYAD 232 (904)
T ss_pred chhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCcccccccCCcccccCc-CCCCCccccchh-hhHhh
Confidence 35699999876 23499999999999999999999999999999998753221110 110 000000111111 1111
Q ss_pred -hhcccceeeccCCCc--hhhccccCCCChH-HHHHHHhccccchhhHhHHHH----------HHHHHhcCccccccCCC
Q 000325 450 -GTCNHLLVLNASSNT--EQYIRYYNPIDIP-KVLQALLSSVQHVSLYLGICK----------AILHYWDIPESVVPFMG 515 (1665)
Q Consensus 450 -~kCerLll~~~s~Ds--e~~~~YYs~~DL~-~Vl~vLy~sDih~~~y~eI~~----------~I~~y~~~p~NL~nl~~ 515 (1665)
++..+.-......+. ..+..||..+... .-..++|++|++...++.... .-.+|.+.++||++++.
T Consensus 233 ~~~~~~~~~~~~~~~~~~~vE~e~w~~v~~~~~~~~~~~g~d~~~~~~~s~~~~~~~~~~~~~~~~~y~~s~wnL~~i~~ 312 (904)
T KOG1246|consen 233 NFKKDYFPKSKNSPDSTEDVEKEFWRLVASNLESVEVLYGADLSTKEFGSGFPKSASGPLLGSEAEKYSNSGWNLNNIPR 312 (904)
T ss_pred hhhccccccccCCCCchHHHHHHHHHhhcccccceeeeeccchhhccccccccccCCCCCCCcchhhhccCccccccccc
Confidence 222222222222221 5678888854333 235578999988877755441 33699999999999999
Q ss_pred Cccccccccc
Q 000325 516 METNTINAKA 525 (1665)
Q Consensus 516 ~~~Sl~~~~~ 525 (1665)
.++|+..-.+
T Consensus 313 ~~~svl~~~~ 322 (904)
T KOG1246|consen 313 LEGSVLSHID 322 (904)
T ss_pred CCcccccccc
Confidence 9999988655
No 30
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=95.21 E-value=0.0045 Score=51.81 Aligned_cols=34 Identities=50% Similarity=1.165 Sum_probs=20.2
Q ss_pred CccccCCCCCccccccccccccCCCCCC-CcccccCc
Q 000325 384 GTLLCCDGCPSAYHTRCIGVSKMYVPEG-SWYCPECA 419 (1665)
Q Consensus 384 G~LLcCD~Cp~afHl~CL~PpL~~vPeG-dW~Cp~C~ 419 (1665)
..||.|+.|.-++|..|++.. .+|++ +|+|..|+
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~--~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVS--EVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-S--S--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcc--cCCCCCcEECCcCC
Confidence 368999999999999999998 67777 89999884
No 31
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=94.89 E-value=0.0088 Score=73.38 Aligned_cols=48 Identities=29% Similarity=0.681 Sum_probs=38.9
Q ss_pred cccccccccC-----ccccCCCCCccccccccccccCCC----CCCCcccccCcccc
Q 000325 375 DECRICGMDG-----TLLCCDGCPSAYHTRCIGVSKMYV----PEGSWYCPECAINK 422 (1665)
Q Consensus 375 d~C~VC~~gG-----~LLcCD~Cp~afHl~CL~PpL~~v----PeGdW~Cp~C~~~~ 422 (1665)
..|.||..++ +||.|++|...||..|+.|+.+.. |..+|||..|...+
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 3499998754 899999999999999999986322 45689999997643
No 32
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=94.22 E-value=0.021 Score=66.81 Aligned_cols=28 Identities=29% Similarity=0.835 Sum_probs=24.7
Q ss_pred CCeeeccCCCCCC-----CcceEecCCCCcccc
Q 000325 1310 EPVCDLCKQPYNS-----NLMYIHCETCQRWFH 1337 (1665)
Q Consensus 1310 ~~vcCiC~kPyn~-----d~~MI~CD~C~~WFH 1337 (1665)
.-.||+|..||++ +..|+||..|++|||
T Consensus 127 qG~~C~Cd~~Ypdp~~~~e~~m~QC~iCEDWFH 159 (345)
T KOG2752|consen 127 QGLFCKCDTPYPDPVRTEEGEMLQCVICEDWFH 159 (345)
T ss_pred cceeEEecCCCCCccccccceeeeEEeccchhc
Confidence 3489999999975 567999999999999
No 33
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=93.08 E-value=0.032 Score=70.32 Aligned_cols=94 Identities=21% Similarity=0.444 Sum_probs=65.5
Q ss_pred cccccccccccC-----ccccCCCCCccccccccccccCCCC-CCCcccccCcc-cccCCcccccCccccccccccchhh
Q 000325 373 NGDECRICGMDG-----TLLCCDGCPSAYHTRCIGVSKMYVP-EGSWYCPECAI-NKVGPIVTIGTSLRGAELFGIDLYE 445 (1665)
Q Consensus 373 ndd~C~VC~~gG-----~LLcCD~Cp~afHl~CL~PpL~~vP-eGdW~Cp~C~~-~~~~p~~E~g~~~rg~EllG~D~cg 445 (1665)
...-|.+|+..| .|+-|..|..-||.+|+...+...- .+-|.|+.|+. +.++ ..-....++-|+.|+
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~------~~gD~~kf~~Ck~cD 90 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACG------TTGDPKKFLLCKRCD 90 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeecc------ccCCccccccccccc
Confidence 345688887744 7999999999999999997554331 23499999975 2222 111113345689999
Q ss_pred hHHHhhcccceeeccCCCchhhccccC
Q 000325 446 RVFLGTCNHLLVLNASSNTEQYIRYYN 472 (1665)
Q Consensus 446 R~Yh~kCerLll~~~s~Dse~~~~YYs 472 (1665)
-.||..|.+..........++|.+.+.
T Consensus 91 vsyh~yc~~P~~~~v~sg~~~ckk~~~ 117 (694)
T KOG4443|consen 91 VSYHCYCQKPPNDKVPSGPWLCKKCTR 117 (694)
T ss_pred ccccccccCCccccccCcccccHHHHh
Confidence 999999999988766666666655544
No 34
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=93.00 E-value=0.026 Score=65.12 Aligned_cols=85 Identities=19% Similarity=0.319 Sum_probs=60.6
Q ss_pred ccccccccc---------CccccCCCCCccccccccccccC---CCCCCCcccccCcc-ccc-CCcccccCccccccccc
Q 000325 375 DECRICGMD---------GTLLCCDGCPSAYHTRCIGVSKM---YVPEGSWYCPECAI-NKV-GPIVTIGTSLRGAELFG 440 (1665)
Q Consensus 375 d~C~VC~~g---------G~LLcCD~Cp~afHl~CL~PpL~---~vPeGdW~Cp~C~~-~~~-~p~~E~g~~~rg~EllG 440 (1665)
..|.+|-++ ..+++|..|..++|.+|+..+.. .+..-.|.|..|.- ..+ +|.. ..|++=
T Consensus 259 ~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~-------E~E~~F 331 (381)
T KOG1512|consen 259 NERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVI-------ESEHLF 331 (381)
T ss_pred hhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCccc-------chheec
Confidence 469999874 27999999999999999997632 23345899999953 222 2333 346677
Q ss_pred cchhhhHHHhhcccceeeccCCCchhhc
Q 000325 441 IDLYERVFLGTCNHLLVLNASSNTEQYI 468 (1665)
Q Consensus 441 ~D~cgR~Yh~kCerLll~~~s~Dse~~~ 468 (1665)
||.|+|-||..|-.|--. ....|+|-
T Consensus 332 CD~CDRG~HT~CVGL~~l--P~G~WICD 357 (381)
T KOG1512|consen 332 CDVCDRGPHTLCVGLQDL--PRGEWICD 357 (381)
T ss_pred cccccCCCCccccccccc--cCccchhh
Confidence 999999999999887443 33346554
No 35
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=92.65 E-value=0.15 Score=64.36 Aligned_cols=57 Identities=26% Similarity=0.512 Sum_probs=40.1
Q ss_pred hcccccccccccccccccccCCccccccccccccccccccCcccCCCCccceecccccCccc
Q 000325 1145 CRRDKIEKCACASCQIDVLLGNAVKCGTCQGYCHEGCTSSSMHMNSGVEPMIVCNRCYLPRA 1206 (1665)
Q Consensus 1145 ~k~~~le~~~C~~C~kDV~~rdaV~C~~Cqg~fHk~C~~~S~~~~g~~e~~ytC~rCl~~k~ 1206 (1665)
.+.-|+ .-+|..|.. ..+.+.|..|.+.||.+|..--.+ -......+.|..|--++.
T Consensus 41 ~~~~k~-~ts~~~~~~---~gn~~~~~~~~~s~h~~~~~~~~s-p~~~~~~~~~~~~~~~~~ 97 (613)
T KOG4299|consen 41 RRSGKA-ATSCGICKS---GGNLLCCDHCPASFHLECDKPPLS-PDLKGSEINCSRCPKGRE 97 (613)
T ss_pred ccccch-hhhcchhhh---cCCccccccCccccchhccCcccC-cccccccccccCCCcccc
Confidence 333344 778888865 578899999999999999984422 334456677777766544
No 36
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=92.48 E-value=0.093 Score=67.72 Aligned_cols=68 Identities=25% Similarity=0.395 Sum_probs=51.8
Q ss_pred CCCccccccccccccCCCCCCCcccccCcccccCCcc--------cc-cC--ccccccccccchhhhHHHhhcccceee
Q 000325 391 GCPSAYHTRCIGVSKMYVPEGSWYCPECAINKVGPIV--------TI-GT--SLRGAELFGIDLYERVFLGTCNHLLVL 458 (1665)
Q Consensus 391 ~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~~~p~~--------E~-g~--~~rg~EllG~D~cgR~Yh~kCerLll~ 458 (1665)
.|+++||..|+.|.+..-|+++|.|+.|.......+. +. .| +..+++++.||.|...||..|...-+.
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~ 79 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGGELLWCDTCPASFHASCLGPPLT 79 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCC
Confidence 4999999999999999999999999999654322111 01 11 356788899999999999999955443
No 37
>smart00333 TUDOR Tudor domain. Domain of unknown function present in several RNA-binding proteins. 10 copies in the Drosophila Tudor protein. Initial proposal that the survival motor neuron gene product contain a Tudor domain are corroborated by more recent database search techniques such as PSI-BLAST (unpublished).
Probab=92.10 E-value=0.15 Score=45.26 Aligned_cols=48 Identities=27% Similarity=0.440 Sum_probs=42.1
Q ss_pred eeecceehhcc-CCceEEEEEEEEec-ceEEEEecC-CCccccChHHHHHh
Q 000325 42 ALVGRYVLKEF-ESGIFLGKIVYYES-GLYRVDYED-GDCEDLDSSELRQF 89 (1665)
Q Consensus 42 ~LvGr~V~k~f-~~~~~~GkV~~yd~-g~Y~V~yED-Gd~Edl~~~el~~~ 89 (1665)
+-+|-.|.-.| .+..|=|+|++++. +.|.|.|.| |+.|.+...+|+.+
T Consensus 3 ~~~G~~~~a~~~d~~wyra~I~~~~~~~~~~V~f~D~G~~~~v~~~~l~~l 53 (57)
T smart00333 3 FKVGDKVAARWEDGEWYRARIIKVDGEQLYEVFFIDYGNEEVVPPSDLRPL 53 (57)
T ss_pred CCCCCEEEEEeCCCCEEEEEEEEECCCCEEEEEEECCCccEEEeHHHeecC
Confidence 44677777788 67999999999995 999999999 99999999998865
No 38
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=91.81 E-value=0.096 Score=65.06 Aligned_cols=57 Identities=19% Similarity=0.230 Sum_probs=47.0
Q ss_pred CCCeeeccCCCCCCCcceEecCCCCccccccccccCccccCCccceeecCccccCCCCC
Q 000325 1309 LEPVCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCRRIGGPEC 1367 (1665)
Q Consensus 1309 ~~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk~gP~c 1367 (1665)
....-|+|+.-++.+.+||+|+.|..|-|.-|+|+..... .+.|.|..|.......+
T Consensus 84 ~~~~~c~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~--p~~y~c~~c~~~~~~~~ 140 (508)
T KOG1844|consen 84 REISRCDCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTK--PDKYVCEICTPRNKEVE 140 (508)
T ss_pred CcccccccccccCCCceeeCCcccCcccCceeeeecCCCC--chhceeeeeccccccch
Confidence 3556799998776478999999999999999999986654 56899999988765554
No 39
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.71 E-value=0.18 Score=64.66 Aligned_cols=53 Identities=21% Similarity=0.562 Sum_probs=42.0
Q ss_pred CCCCeeeccCCCCCCCcceEecCCCCcc-ccccccccCccccCCccceeecCcccc
Q 000325 1308 HLEPVCDLCKQPYNSNLMYIHCETCQRW-FHADAVELEESKLSDVVGFKCCRCRRI 1362 (1665)
Q Consensus 1308 ~~~~vcCiC~kPyn~d~~MI~CD~C~~W-FHg~CVgLte~~a~~i~~Y~Cp~Crrk 1362 (1665)
.....|=||..+. +..+||.||.|++= ||..|+..+..++. +..|+|+.|.-.
T Consensus 213 ~E~~~C~IC~~~D-pEdVLLLCDsCN~~~YH~YCLDPdl~eiP-~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 213 QEEVKCDICTVHD-PEDVLLLCDSCNKVYYHVYCLDPDLSESP-VNEWYCTNCSLL 266 (1134)
T ss_pred cccccceeeccCC-hHHhheeecccccceeeccccCccccccc-ccceecCcchhh
Confidence 3344566899764 56689999999988 99999999887764 458999999654
No 40
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=88.20 E-value=0.14 Score=59.18 Aligned_cols=89 Identities=21% Similarity=0.389 Sum_probs=61.7
Q ss_pred ccccccccc----------cCccccCCCCCccccccccccccC---CCCCCCcccccCcccccCCcccccCccccccccc
Q 000325 374 GDECRICGM----------DGTLLCCDGCPSAYHTRCIGVSKM---YVPEGSWYCPECAINKVGPIVTIGTSLRGAELFG 440 (1665)
Q Consensus 374 dd~C~VC~~----------gG~LLcCD~Cp~afHl~CL~PpL~---~vPeGdW~Cp~C~~~~~~p~~E~g~~~rg~EllG 440 (1665)
.-+|-.|.. +.+|+-|.-|.++=|..||.-... .|....|+|-+|..-..- |++....+++=
T Consensus 224 n~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csic-----gtsenddqllf 298 (336)
T KOG1244|consen 224 NPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSIC-----GTSENDDQLLF 298 (336)
T ss_pred CcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccc-----cCcCCCceeEe
Confidence 345666654 238999999999999999986532 344568999999763322 22223356677
Q ss_pred cchhhhHHHhhcccceeeccCCCchhh
Q 000325 441 IDLYERVFLGTCNHLLVLNASSNTEQY 467 (1665)
Q Consensus 441 ~D~cgR~Yh~kCerLll~~~s~Dse~~ 467 (1665)
||.|+|-||..|...-+..-...+|.|
T Consensus 299 cddcdrgyhmyclsppm~eppegswsc 325 (336)
T KOG1244|consen 299 CDDCDRGYHMYCLSPPMVEPPEGSWSC 325 (336)
T ss_pred ecccCCceeeEecCCCcCCCCCCchhH
Confidence 999999999999987555334444554
No 41
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=88.11 E-value=0.13 Score=43.35 Aligned_cols=34 Identities=21% Similarity=0.497 Sum_probs=19.5
Q ss_pred ceEecCCCCccccccccccCccccCCccceeecCcc
Q 000325 1325 MYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCR 1360 (1665)
Q Consensus 1325 ~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Cr 1360 (1665)
.||.|+.|.-.+|..|.|+...... ..|+|..|+
T Consensus 3 ~ll~C~~C~v~VH~~CYGv~~~~~~--~~W~C~~C~ 36 (36)
T PF13831_consen 3 PLLFCDNCNVAVHQSCYGVSEVPDG--DDWLCDRCE 36 (36)
T ss_dssp EEEE-SSS--EEEHHHHT-SS--SS-------HHH-
T ss_pred ceEEeCCCCCcCChhhCCcccCCCC--CcEECCcCC
Confidence 5899999999999999999977554 359998884
No 42
>smart00743 Agenet Tudor-like domain present in plant sequences. Domain in plant sequences with possible chromatin-associated functions.
Probab=83.59 E-value=1.4 Score=40.05 Aligned_cols=49 Identities=24% Similarity=0.125 Sum_probs=42.1
Q ss_pred eeecceehhcc--CCceEEEEEEEEe-cceEEEEecC---CCccccChHHHHHhh
Q 000325 42 ALVGRYVLKEF--ESGIFLGKIVYYE-SGLYRVDYED---GDCEDLDSSELRQFL 90 (1665)
Q Consensus 42 ~LvGr~V~k~f--~~~~~~GkV~~yd-~g~Y~V~yED---Gd~Edl~~~el~~~l 90 (1665)
+-+|..|.=.| .+.-|-|+|++++ .+-|.|.|.| |+.|.+++..||.+.
T Consensus 3 ~~~G~~Ve~~~~~~~~W~~a~V~~~~~~~~~~V~~~~~~~~~~e~v~~~~LRp~~ 57 (61)
T smart00743 3 FKKGDRVEVFSKEEDSWWEAVVTKVLGDGKYLVRYLTESEPLKETVDWSDLRPHP 57 (61)
T ss_pred cCCCCEEEEEECCCCEEEEEEEEEECCCCEEEEEECCCCcccEEEEeHHHcccCC
Confidence 56888998888 8899999999999 4889999998 568888888888654
No 43
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=83.34 E-value=0.9 Score=56.31 Aligned_cols=54 Identities=22% Similarity=0.410 Sum_probs=44.2
Q ss_pred ccccccccccccccccCCccccccccccccccccccCc--ccCCCCccceeccccc
Q 000325 1149 KIEKCACASCQIDVLLGNAVKCGTCQGYCHEGCTSSSM--HMNSGVEPMIVCNRCY 1202 (1665)
Q Consensus 1149 ~le~~~C~~C~kDV~~rdaV~C~~Cqg~fHk~C~~~S~--~~~g~~e~~ytC~rCl 1202 (1665)
+-..|+|+.|.|.-.-.-.+.|-.|.--||-.|..--. -+.....+.|.|.-|-
T Consensus 541 ~a~~ysCgiCkks~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 541 KAMNYSCGICKKSTDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSECD 596 (707)
T ss_pred cccceeeeeeccchhhHHHhhcchhhceeeccccCCccccCcccccCcceeecccc
Confidence 34489999999998888899999999999999998441 1444557889999993
No 44
>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=81.28 E-value=1.2 Score=55.23 Aligned_cols=53 Identities=21% Similarity=0.621 Sum_probs=36.0
Q ss_pred CeeeccCCCCC---CCcceEecCCCCcccccccc--------ccCcccc-C-CccceeecCccccCC
Q 000325 1311 PVCDLCKQPYN---SNLMYIHCETCQRWFHADAV--------ELEESKL-S-DVVGFKCCRCRRIGG 1364 (1665)
Q Consensus 1311 ~vcCiC~kPyn---~d~~MI~CD~C~~WFHg~CV--------gLte~~a-~-~i~~Y~Cp~Crrk~g 1364 (1665)
=.||||.+ +| +.-.||.||.|..|-|.+|. |.+.... . .-..|+|..|-....
T Consensus 129 C~C~iC~k-fD~~~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~se 194 (446)
T PF07227_consen 129 CMCCICSK-FDDNKNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSE 194 (446)
T ss_pred CCccccCC-cccCCCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhh
Confidence 35778987 43 33569999999999999995 2222211 1 123799999976643
No 45
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=80.87 E-value=0.76 Score=63.89 Aligned_cols=56 Identities=18% Similarity=0.482 Sum_probs=45.7
Q ss_pred CCCCCeeeccCCCCCCCcceEecCCCCccccccccccCccccCCccceeecCccccCC
Q 000325 1307 AHLEPVCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCRRIGG 1364 (1665)
Q Consensus 1307 ~~~~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk~g 1364 (1665)
......|-+|++-.. ..-|+.|+.|..|||.-|+......+.. ..|.||.|+..+.
T Consensus 1105 s~~~~~c~~cr~k~~-~~~m~lc~~c~~~~h~~C~rp~~~~~~~-~dW~C~~c~~e~~ 1160 (1404)
T KOG1245|consen 1105 SAVNALCKVCRRKKQ-DEKMLLCDECLSGFHLFCLRPALSSVPP-GDWMCPSCRKEHR 1160 (1404)
T ss_pred ccchhhhhhhhhccc-chhhhhhHhhhhhHHHHhhhhhhccCCc-CCccCCccchhhh
Confidence 455678889997654 3469999999999999999998887754 4699999988774
No 46
>PF09038 53-BP1_Tudor: Tumour suppressor p53-binding protein-1 Tudor; InterPro: IPR015125 This domain consist of ten beta-strands and a carboxy-terminal alpha-helix. The amino-terminal five beta-strands and the C-terminal five beta-strands adopt folds that are identical to each other. The domain is essential for the recruitment of proteins to double stranded breaks in DNA, which is mediated by interaction with methylated Lys 79 of histone H3 []. ; PDB: 3LGL_A 1XNI_B 3LGF_A 2G3R_A 2IG0_A 3LH0_A 1SSF_A.
Probab=79.82 E-value=2.1 Score=45.06 Aligned_cols=38 Identities=26% Similarity=0.500 Sum_probs=29.3
Q ss_pred eeecceehhccCC-ce-EEEEEEEEe-cceEEEEecCCCcc
Q 000325 42 ALVGRYVLKEFES-GI-FLGKIVYYE-SGLYRVDYEDGDCE 79 (1665)
Q Consensus 42 ~LvGr~V~k~f~~-~~-~~GkV~~yd-~g~Y~V~yEDGd~E 79 (1665)
.|||..|.-...+ .+ |-|+|+..- .+-|+|.|+||+.-
T Consensus 3 ~~iG~rV~AkWS~n~yyY~G~I~~~~~~~kykv~FdDG~~~ 43 (122)
T PF09038_consen 3 SFIGLRVFAKWSDNGYYYPGKITSDKGKNKYKVLFDDGYEC 43 (122)
T ss_dssp -STT-EEEEESSTTSEEEEEEEEEEETTTEEEEEETTS-EE
T ss_pred cccccEEEEEEccCCcccCceEeecCCCCeEEEEecCCccc
Confidence 5899998877776 67 579999965 89999999999863
No 47
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=78.62 E-value=1.9 Score=58.43 Aligned_cols=56 Identities=18% Similarity=0.398 Sum_probs=42.1
Q ss_pred CCCCCeeeccCCCCCC-CcceEecCCCCccccccccccCccccCCccceeecCcccc-CCC
Q 000325 1307 AHLEPVCDLCKQPYNS-NLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCRRI-GGP 1365 (1665)
Q Consensus 1307 ~~~~~vcCiC~kPyn~-d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk-~gP 1365 (1665)
.++..+||||...... .-+-++||.|+-=+|-+|+|+..- .-..|.|-.|-.. .++
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~i---peg~WlCr~Cl~s~~~~ 273 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFI---PEGQWLCRRCLQSPQRP 273 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCC---CCCcEeehhhccCcCcc
Confidence 5677899999975421 246899999999999999996543 2247999999544 444
No 48
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=78.48 E-value=2.5 Score=36.33 Aligned_cols=41 Identities=27% Similarity=0.371 Sum_probs=34.7
Q ss_pred eehhccC--CceEEEEEEEEe-cceEEEEecC-CCccccChHHHH
Q 000325 47 YVLKEFE--SGIFLGKIVYYE-SGLYRVDYED-GDCEDLDSSELR 87 (1665)
Q Consensus 47 ~V~k~f~--~~~~~GkV~~yd-~g~Y~V~yED-Gd~Edl~~~el~ 87 (1665)
.+.-.|. +..|=|+|.+.+ .+.|.|.|.| |..|.+...+|+
T Consensus 3 ~c~a~~~~d~~wyra~V~~~~~~~~~~V~f~DyG~~~~v~~~~l~ 47 (48)
T cd04508 3 LCLAKYSDDGKWYRAKITSILSDGKVEVFFVDYGNTEVVPLSDLR 47 (48)
T ss_pred EEEEEECCCCeEEEEEEEEECCCCcEEEEEEcCCCcEEEeHHHcC
Confidence 3444455 689999999999 9999999999 999999988775
No 49
>PLN00163 histone H4; Provisional
Probab=77.47 E-value=1.7 Score=40.53 Aligned_cols=35 Identities=34% Similarity=0.619 Sum_probs=27.2
Q ss_pred cchhhhhhcc--cChHHHHHHHHHhcCcccccccccC
Q 000325 947 KSTKLISKKA--ILPHTIIRNAARRGGLRKISGVNYT 981 (1665)
Q Consensus 947 ~lsr~if~~~--~Lp~s~v~kAarqgG~~ki~gi~Y~ 981 (1665)
|--|+++.-. =+.+.+|++-||.||+++|+|.+|.
T Consensus 17 KRhrk~lrd~i~gItKpaIrRLARRgGVKRIs~~iY~ 53 (59)
T PLN00163 17 KRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYE 53 (59)
T ss_pred hhHHHHHHHhhcccchHHHHHHHHhcCceeecchhhH
Confidence 3444554422 2789999999999999999999996
No 50
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=70.27 E-value=3 Score=54.05 Aligned_cols=54 Identities=22% Similarity=0.536 Sum_probs=41.7
Q ss_pred CeeeccCCCCCC-CcceEecCCCCccccccccccCccccCCccceeecCccccCCCCC
Q 000325 1311 PVCDLCKQPYNS-NLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCRRIGGPEC 1367 (1665)
Q Consensus 1311 ~vcCiC~kPyn~-d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk~gP~c 1367 (1665)
.+|=+|+-|... .--||.||.|+-=.|-.|.||.+..- ..|.|-.|.----|.|
T Consensus 272 viCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~---gpWlCr~Calg~~ppC 326 (893)
T KOG0954|consen 272 VICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPE---GPWLCRTCALGIEPPC 326 (893)
T ss_pred ceeceecCCCccccceeEEeccchhHHHHhhhceeecCC---CCeeehhccccCCCCe
Confidence 455589988532 23599999999999999999987644 4799999976655555
No 51
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=69.99 E-value=2.4 Score=47.80 Aligned_cols=57 Identities=23% Similarity=0.718 Sum_probs=42.1
Q ss_pred ccchhhhhhhccccccccccccccc-ccc----cCCccccccccccccccccccCcccCCCCccceecccccCccc
Q 000325 1136 RKDLFSYLVCRRDKIEKCACASCQI-DVL----LGNAVKCGTCQGYCHEGCTSSSMHMNSGVEPMIVCNRCYLPRA 1206 (1665)
Q Consensus 1136 ~~~~FsyL~~k~~~le~~~C~~C~k-DV~----~rdaV~C~~Cqg~fHk~C~~~S~~~~g~~e~~ytC~rCl~~k~ 1206 (1665)
..-|.+=-.+++. ...|..|+. +++ ...+++|..|...||+.|.... .|++|.+-+.
T Consensus 139 ~~HV~~C~lC~~k---GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~~-----------~CpkC~R~~~ 200 (202)
T PF13901_consen 139 EKHVYSCELCQQK---GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRKK-----------SCPKCARRQK 200 (202)
T ss_pred HHHHHHhHHHHhC---CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCCC-----------CCCCcHhHhc
Confidence 3344444566666 678999975 444 3589999999999999999942 4999987654
No 52
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=66.95 E-value=2.2 Score=47.07 Aligned_cols=44 Identities=36% Similarity=0.944 Sum_probs=33.2
Q ss_pred cccccc------cCccccCCCCCcccccccccccc------CCCCCCC--cccccCcc
Q 000325 377 CRICGM------DGTLLCCDGCPSAYHTRCIGVSK------MYVPEGS--WYCPECAI 420 (1665)
Q Consensus 377 C~VC~~------gG~LLcCD~Cp~afHl~CL~PpL------~~vPeGd--W~Cp~C~~ 420 (1665)
|.+|+. -|.||.|-+|..+||..||++-. +.|-+++ .+|..|+-
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig 59 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIG 59 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcC
Confidence 778853 36899999999999999999863 3344443 57888863
No 53
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=62.85 E-value=3.9 Score=52.75 Aligned_cols=63 Identities=19% Similarity=0.385 Sum_probs=46.1
Q ss_pred CCeeeccCCCCC-CCcceEecCC--CCccccccccccCccccCCccceeecCcccc------CCCCCCCCCcchh
Q 000325 1310 EPVCDLCKQPYN-SNLMYIHCET--CQRWFHADAVELEESKLSDVVGFKCCRCRRI------GGPECPYMDPELK 1375 (1665)
Q Consensus 1310 ~~vcCiC~kPyn-~d~~MI~CD~--C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk------~gP~cP~~~~~~k 1375 (1665)
.--||+|-.--. .+-..|-||. |.-=.|-.|.||-.-. ..-|+|-+|... +=-.|||.|..+|
T Consensus 5 VGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVP---tGpWfCrKCesqeraarvrCeLCP~kdGALK 76 (900)
T KOG0956|consen 5 VGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVP---TGPWFCRKCESQERAARVRCELCPHKDGALK 76 (900)
T ss_pred ccceeeecCcCCCccCceeeecCCCceeeeehhcceeEecC---CCchhhhhhhhhhhhccceeecccCccccee
Confidence 346999974111 1224789995 9999999999996543 247999999655 3357899998888
No 54
>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=61.30 E-value=1.6 Score=37.32 Aligned_cols=43 Identities=19% Similarity=0.502 Sum_probs=31.5
Q ss_pred eeeccCCCCCCCcceEecCCCCccccccccccCccccCCccceeecCcc
Q 000325 1312 VCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCR 1360 (1665)
Q Consensus 1312 vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Cr 1360 (1665)
.|.||...+.++..++... |+..||.+|+.-=... .+.||.||
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~-----~~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR-----NNSCPVCR 44 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH-----SSB-TTTH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh-----CCcCCccC
Confidence 5789999886666677777 9999999998753332 34888885
No 55
>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=57.60 E-value=3.9 Score=35.15 Aligned_cols=28 Identities=25% Similarity=0.694 Sum_probs=25.4
Q ss_pred ccccCCCCC---CCCccceeccceEeccCCC
Q 000325 1616 CRICPDIEP---APNLSCQICGLVIHSQCSP 1643 (1665)
Q Consensus 1616 c~~c~~~~p---~pdl~c~~cg~~ih~~csp 1643 (1665)
|..|...-+ .+.++|..|++.+|..|..
T Consensus 14 C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~ 44 (50)
T cd00029 14 CDVCRKSIWGLFKQGLRCSWCKVKCHKKCAD 44 (50)
T ss_pred hhhcchhhhccccceeEcCCCCCchhhhhhc
Confidence 999988777 5999999999999999987
No 56
>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=54.21 E-value=7.3 Score=34.43 Aligned_cols=34 Identities=26% Similarity=0.566 Sum_probs=28.5
Q ss_pred ccccccccccc--ccCCccccccccccccccccccC
Q 000325 1152 KCACASCQIDV--LLGNAVKCGTCQGYCHEGCTSSS 1185 (1665)
Q Consensus 1152 ~~~C~~C~kDV--~~rdaV~C~~Cqg~fHk~C~~~S 1185 (1665)
.-.|.+|.+-+ .....++|..|+-.+|++|...-
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 56799999999 78999999999999999999843
No 57
>KOG3467 consensus Histone H4 [Chromatin structure and dynamics]
Probab=53.77 E-value=7.2 Score=39.04 Aligned_cols=40 Identities=30% Similarity=0.523 Sum_probs=29.1
Q ss_pred ChHHHHHHHHHhcCcccccccccC---CCccccchhhhhhhhh
Q 000325 958 LPHTIIRNAARRGGLRKISGVNYT---AEMPKRSRQLVWRAAV 997 (1665)
Q Consensus 958 Lp~s~v~kAarqgG~~ki~gi~Y~---se~~rRsr~~~WraaV 997 (1665)
+-+.+||+-||.||.++|.|++|- .-|--=-+.++|.|+.
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 357899999999999999999997 1111113456777664
No 58
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=53.62 E-value=5.6 Score=36.86 Aligned_cols=30 Identities=27% Similarity=0.845 Sum_probs=26.2
Q ss_pred cccccccc----cCccccCCCCCccccccccccc
Q 000325 375 DECRICGM----DGTLLCCDGCPSAYHTRCIGVS 404 (1665)
Q Consensus 375 d~C~VC~~----gG~LLcCD~Cp~afHl~CL~Pp 404 (1665)
..|.+|++ +++++.|..|...||-.|....
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhhC
Confidence 46999998 5789999999999999999664
No 59
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.92 E-value=7.7 Score=47.31 Aligned_cols=45 Identities=31% Similarity=0.631 Sum_probs=31.9
Q ss_pred ccccccccc---CccccCCCCCccccccccccccCCCCCCCcccccCcccc
Q 000325 375 DECRICGMD---GTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINK 422 (1665)
Q Consensus 375 d~C~VC~~g---G~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~ 422 (1665)
+.|.+|.++ |+.|-==-|.-.||..|.+|.|..- .=+||.|+...
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 789999983 4322223477889999999987531 12699998744
No 60
>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=52.33 E-value=4.8 Score=34.20 Aligned_cols=28 Identities=25% Similarity=0.685 Sum_probs=24.9
Q ss_pred ccccCCCCCC--CCccceeccceEeccCCC
Q 000325 1616 CRICPDIEPA--PNLSCQICGLVIHSQCSP 1643 (1665)
Q Consensus 1616 c~~c~~~~p~--pdl~c~~cg~~ih~~csp 1643 (1665)
|..|.+.-+. +.+.|..|++.+|..|.+
T Consensus 14 C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~ 43 (49)
T smart00109 14 CCVCRKSIWGSFQGLRCSWCKVKCHKKCAE 43 (49)
T ss_pred ccccccccCcCCCCcCCCCCCchHHHHHHh
Confidence 9999877765 589999999999999987
No 61
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=51.60 E-value=8.2 Score=48.72 Aligned_cols=48 Identities=27% Similarity=0.504 Sum_probs=41.4
Q ss_pred ccccccccccccCccccCCCCCccccccccccccCCCCCCCcccccCcccc
Q 000325 372 GNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAINK 422 (1665)
Q Consensus 372 ~ndd~C~VC~~gG~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~~ 422 (1665)
.+.++|.+|.++|.+++|+.|..++|-.|... ..|.+.|.|..|....
T Consensus 87 ~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~---~~~~c~~~~~d~~~~~ 134 (463)
T KOG1081|consen 87 IEPSECFVCFKGGSLVTCKSRIQAPHRKCKPA---QLEKCSKRCTDCRAFK 134 (463)
T ss_pred CCcchhccccCCCccceeccccccccccCcCc---cCcccccCCcceeeec
Confidence 45689999999999999999999999999866 5788899998887643
No 62
>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=50.56 E-value=7.1 Score=34.53 Aligned_cols=28 Identities=32% Similarity=0.865 Sum_probs=23.7
Q ss_pred ccccCCCC---CCCCccceeccceEeccCCC
Q 000325 1616 CRICPDIE---PAPNLSCQICGLVIHSQCSP 1643 (1665)
Q Consensus 1616 c~~c~~~~---p~pdl~c~~cg~~ih~~csp 1643 (1665)
|..|...- -...+.|..|++.+|..|.+
T Consensus 14 C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~ 44 (53)
T PF00130_consen 14 CDVCGKFIWGLGKQGYRCSWCGLVCHKKCLS 44 (53)
T ss_dssp -TTSSSBECSSSSCEEEETTTT-EEETTGGC
T ss_pred CcccCcccCCCCCCeEEECCCCChHhhhhhh
Confidence 99999988 56789999999999999987
No 63
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=50.01 E-value=5.9 Score=39.64 Aligned_cols=29 Identities=24% Similarity=0.480 Sum_probs=22.6
Q ss_pred CCCccccccccccccCCCCCCCcccccCcc
Q 000325 391 GCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 391 ~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
.|...||+.|+.--+..- ...=.||.|+.
T Consensus 51 ~C~H~FH~hCI~kWl~~~-~~~~~CPmCR~ 79 (85)
T PF12861_consen 51 KCSHNFHMHCILKWLSTQ-SSKGQCPMCRQ 79 (85)
T ss_pred cCccHHHHHHHHHHHccc-cCCCCCCCcCC
Confidence 499999999999877542 33448999986
No 64
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=47.91 E-value=3.2 Score=39.56 Aligned_cols=45 Identities=29% Similarity=0.701 Sum_probs=0.0
Q ss_pred ccccccccc----cCcc--ccCC--CCCccccccccccccCCCCCCC-------cccccC
Q 000325 374 GDECRICGM----DGTL--LCCD--GCPSAYHTRCIGVSKMYVPEGS-------WYCPEC 418 (1665)
Q Consensus 374 dd~C~VC~~----gG~L--LcCD--~Cp~afHl~CL~PpL~~vPeGd-------W~Cp~C 418 (1665)
+..|.||.. ++++ +.|+ .|...||+.||--.+...+.+. +.||.|
T Consensus 2 ~~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~~G~CP~C 61 (70)
T PF11793_consen 2 ELECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPIFGECPYC 61 (70)
T ss_dssp --S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT--EEE-TTT
T ss_pred CCCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeecccccCCcCC
No 65
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=47.63 E-value=9.2 Score=35.49 Aligned_cols=33 Identities=27% Similarity=0.627 Sum_probs=30.0
Q ss_pred ccccccccccccc-cCCccccccccccccccccc
Q 000325 1151 EKCACASCQIDVL-LGNAVKCGTCQGYCHEGCTS 1183 (1665)
Q Consensus 1151 e~~~C~~C~kDV~-~rdaV~C~~Cqg~fHk~C~~ 1183 (1665)
+...|..|.+.+. -.|+|-|..|..-||..|-.
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~ 37 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCWE 37 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHHh
Confidence 4678999999887 88999999999999999986
No 66
>smart00417 H4 Histone H4.
Probab=45.02 E-value=11 Score=36.80 Aligned_cols=24 Identities=46% Similarity=0.866 Sum_probs=23.2
Q ss_pred ChHHHHHHHHHhcCcccccccccC
Q 000325 958 LPHTIIRNAARRGGLRKISGVNYT 981 (1665)
Q Consensus 958 Lp~s~v~kAarqgG~~ki~gi~Y~ 981 (1665)
||+..|++-||.||.++|+|-.|.
T Consensus 14 I~k~~IrRLaRr~GvkRIS~~~y~ 37 (74)
T smart00417 14 ITKPAIRRLARRGGVKRISGLIYD 37 (74)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHH
Confidence 999999999999999999999997
No 67
>PF02178 AT_hook: AT hook motif; InterPro: IPR017956 AT hooks are DNA-binding motifs with a preference for A/T rich regions. These motifs are found in a variety of proteins, including the high mobility group (HMG) proteins [], in DNA-binding proteins from plants [] and in hBRG1 protein, a central ATPase of the human switching/sucrose non-fermenting (SWI/SNF) remodeling complex []. High mobility group (HMG) proteins are a family of relatively low molecular weight non-histone components in chromatin []. HMG-I and HMG-Y (HMGA) are proteins of about 100 amino acid residues which are produced by the alternative splicing of a single gene. HMG-I/Y proteins bind preferentially to the minor groove of AT-rich regions in double-stranded DNA in a non-sequence specific manner [, ]. It is suggested that these proteins could function in nucleosome phasing and in the 3' end processing of mRNA transcripts. They are also involved in the transcription regulation of genes containing, or in close proximity to, AT-rich regions. ; GO: 0003677 DNA binding; PDB: 2EZE_A 2EZD_A 2EZF_A 2EZG_A.
Probab=44.85 E-value=9.5 Score=26.29 Aligned_cols=10 Identities=80% Similarity=1.301 Sum_probs=3.9
Q ss_pred CCCCCCCcCC
Q 000325 6 KRPRGRPRKR 15 (1665)
Q Consensus 6 ~~~~~r~r~~ 15 (1665)
.|+||||+|-
T Consensus 1 ~r~RGRP~k~ 10 (13)
T PF02178_consen 1 KRKRGRPRKN 10 (13)
T ss_dssp S--SS--TT-
T ss_pred CCcCCCCccc
Confidence 4789999874
No 68
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=41.40 E-value=20 Score=45.77 Aligned_cols=52 Identities=21% Similarity=0.304 Sum_probs=42.0
Q ss_pred cccccccccccccCccccCCCCCccccccccccccCCCCC--CCcccccCccccc
Q 000325 371 DGNGDECRICGMDGTLLCCDGCPSAYHTRCIGVSKMYVPE--GSWYCPECAINKV 423 (1665)
Q Consensus 371 d~ndd~C~VC~~gG~LLcCD~Cp~afHl~CL~PpL~~vPe--GdW~Cp~C~~~~~ 423 (1665)
...+-+|+-|+.+|..|-|+.|-+.||..|..|.- ..+. ..|.|+.|..-+.
T Consensus 57 ~N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~-q~r~~s~p~~~p~p~s~k~ 110 (588)
T KOG3612|consen 57 SNIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDP-QKRNYSVPSDKPQPYSFKV 110 (588)
T ss_pred cCCCcccccccCCcceeeeehhhccccccccCcch-hhccccccccCCcccccCC
Confidence 34456899999999999999999999999999963 3444 3699999976443
No 69
>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=40.14 E-value=15 Score=38.30 Aligned_cols=22 Identities=18% Similarity=0.341 Sum_probs=19.6
Q ss_pred CCCCeeeccCCCCCCCcceEec
Q 000325 1308 HLEPVCDLCKQPYNSNLMYIHC 1329 (1665)
Q Consensus 1308 ~~~~vcCiC~kPyn~d~~MI~C 1329 (1665)
...+..|+|..+||++..||+|
T Consensus 100 ~~~~d~~~Ce~~yn~~~~~~~c 121 (121)
T cd04714 100 QDGVDFYYCAGTYNPDTGMLKC 121 (121)
T ss_pred CcCCCEEEEeccCCCCcCcccC
Confidence 4566789999999999999999
No 70
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 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 a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=39.64 E-value=19 Score=32.43 Aligned_cols=35 Identities=14% Similarity=0.464 Sum_probs=17.7
Q ss_pred ceEecCCCCccccccccccCccccCCccceeecCcc
Q 000325 1325 MYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCR 1360 (1665)
Q Consensus 1325 ~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Cr 1360 (1665)
.||||+.|.+|=... .++........+.|+|..-.
T Consensus 2 ~WVQCd~C~KWR~lp-~~~~~~~~~~~d~W~C~~n~ 36 (50)
T PF07496_consen 2 YWVQCDSCLKWRRLP-EEVDPIREELPDPWYCSMNP 36 (50)
T ss_dssp EEEE-TTT--EEEE--CCHHCTSCCSSTT--GGGSS
T ss_pred eEEECCCCCceeeCC-hhhCcccccCCCeEEcCCCC
Confidence 599999999998775 44443111122389998754
No 71
>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=39.60 E-value=4.4 Score=34.69 Aligned_cols=41 Identities=32% Similarity=0.596 Sum_probs=26.6
Q ss_pred ccccccccc---CccccCCCCCccccccccccccCCCCCCCcccccCc
Q 000325 375 DECRICGMD---GTLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECA 419 (1665)
Q Consensus 375 d~C~VC~~g---G~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~ 419 (1665)
|.|.||.+. ++.+.--.|.-.||..|+...+..- -.||.|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~C~H~fh~~Ci~~~~~~~----~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLPCGHVFHRSCIKEWLKRN----NSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEETTSEEEEHHHHHHHHHHS----SB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEccCCCeeCHHHHHHHHHhC----CcCCccC
Confidence 468888873 3222223399999999999876442 3898884
No 72
>smart00384 AT_hook DNA binding domain with preference for A/T rich regions. Small DNA-binding motif first described in the high mobility group non-histone chromosomal protein HMG-I(Y).
Probab=39.56 E-value=18 Score=29.21 Aligned_cols=16 Identities=50% Similarity=0.856 Sum_probs=12.0
Q ss_pred CCCCCCCcCCCCCCcc
Q 000325 6 KRPRGRPRKRKRPEDE 21 (1665)
Q Consensus 6 ~~~~~r~r~~~~~~~~ 21 (1665)
+|+||||||.......
T Consensus 1 kRkRGRPrK~~~~~~~ 16 (26)
T smart00384 1 KRKRGRPRKAPKDXXX 16 (26)
T ss_pred CCCCCCCCCCCCcccc
Confidence 4889999987765543
No 73
>PF12898 Stc1: Stc1 domain; InterPro: IPR024630 The domain contains 8 conserved cysteines that may bind to zinc. In S. pombe, proteins containing the domain act as protein linkers, which link the chromatin modifying CLRC complex to RNAi by tethering it to the RITS complex. This domain has a slightly different arrangement of its CxxC pairs from the LIM domain, hence it is not part of that family []. The tandem zinc-finger structure could mediate protein-protein interactions.
Probab=39.52 E-value=18 Score=35.87 Aligned_cols=45 Identities=27% Similarity=0.683 Sum_probs=33.5
Q ss_pred ccccccccCCCCCCCCccceeccceEeccCCCCCccc---ccCCCCCc-cccccccC
Q 000325 1612 NKMQCRICPDIEPAPNLSCQICGLVIHSQCSPWPWVE---SSYMEGSW-KCGNCRDW 1664 (1665)
Q Consensus 1612 ~~~~c~~c~~~~p~pdl~c~~cg~~ih~~csp~~w~e---~~~~~~~w-~cg~crew 1664 (1665)
..+-|+.|... +..+|.|.+||+.. | =++ ..-..++. +|-.|.+|
T Consensus 36 ~~i~C~~ct~~-q~~El~C~~C~~~k-----~--ld~FSK~QR~~~~~a~C~~Cv~~ 84 (84)
T PF12898_consen 36 SGIRCRECTGG-QVVELTCSPCGKTK-----P--LDEFSKNQRRKPDPARCKDCVQW 84 (84)
T ss_pred CCCCCccCCCC-CcCcCEeccCCCCc-----C--HHHHhHHhhcCCCcccchhhhcC
Confidence 44679999977 99999999999864 4 444 22333445 99999988
No 74
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=38.37 E-value=17 Score=36.65 Aligned_cols=32 Identities=22% Similarity=0.596 Sum_probs=26.3
Q ss_pred CCCeeeccCCCCCCCcceEecCC--CCcccccccccc
Q 000325 1309 LEPVCDLCKQPYNSNLMYIHCET--CQRWFHADAVEL 1343 (1665)
Q Consensus 1309 ~~~vcCiC~kPyn~d~~MI~CD~--C~~WFHg~CVgL 1343 (1665)
....|.+|++. ....|+|.. |..+||..|.-.
T Consensus 54 ~~~~C~iC~~~---~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKS---GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCC---CceeEEcCCCCCCcCCCHHHHHH
Confidence 35689999986 336999998 999999999753
No 75
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=36.66 E-value=20 Score=34.44 Aligned_cols=44 Identities=23% Similarity=0.523 Sum_probs=27.7
Q ss_pred eeeccCCCCC---------CCcceEecCCCCccccccccccCccccCCccceeecCcc
Q 000325 1312 VCDLCKQPYN---------SNLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCR 1360 (1665)
Q Consensus 1312 vcCiC~kPyn---------~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Cr 1360 (1665)
.|.||+.++. .+...|.=..|+--||..|+.-=... .-.||.||
T Consensus 21 ~C~IC~~~l~~~~~~~~~~~~~~~i~~~~C~H~FH~~Ci~~Wl~~-----~~~CP~CR 73 (73)
T PF12678_consen 21 NCAICREPLEDPCPECQAPQDECPIVWGPCGHIFHFHCISQWLKQ-----NNTCPLCR 73 (73)
T ss_dssp BETTTTSBTTSTTCCHHHCTTTS-EEEETTSEEEEHHHHHHHHTT-----SSB-TTSS
T ss_pred cccccChhhhChhhhhcCCccccceEecccCCCEEHHHHHHHHhc-----CCcCCCCC
Confidence 4889998872 12345555679999999999621111 12898886
No 76
>KOG1886 consensus BAH domain proteins [Transcription]
Probab=35.61 E-value=34 Score=43.36 Aligned_cols=51 Identities=6% Similarity=-0.156 Sum_probs=43.1
Q ss_pred CCCeeeccCCCCCCCcceEecCCCCccccccccccCccccCCccceeecCccccC
Q 000325 1309 LEPVCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKLSDVVGFKCCRCRRIG 1363 (1665)
Q Consensus 1309 ~~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a~~i~~Y~Cp~Crrk~ 1363 (1665)
....||.|++.+++...|.+|..|..|+|..|++.+. .++.++|..|+...
T Consensus 169 ~~~~~~~~~k~e~d~~~~kt~~~~~~~~~p~~~~t~~----~~~~~~~~~~s~~~ 219 (464)
T KOG1886|consen 169 RDGDFGDGQKLEIDMLVPKTGPRRGTLPDPKKVQTLN----AAASKRSQQKSEIS 219 (464)
T ss_pred cccchhcccccCCccchhhhcccCCCCCCcccccccc----ccccceeccccccc
Confidence 4567999999999999999999999999999999987 34578888885443
No 77
>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=33.69 E-value=21 Score=35.76 Aligned_cols=24 Identities=46% Similarity=0.804 Sum_probs=23.2
Q ss_pred ChHHHHHHHHHhcCcccccccccC
Q 000325 958 LPHTIIRNAARRGGLRKISGVNYT 981 (1665)
Q Consensus 958 Lp~s~v~kAarqgG~~ki~gi~Y~ 981 (1665)
||...|++-||.||.++|++-.|.
T Consensus 14 i~k~~I~RLarr~GvkRIS~d~y~ 37 (85)
T cd00076 14 ITKPAIRRLARRGGVKRISGGVYD 37 (85)
T ss_pred CCHHHHHHHHHHcCcchhhHHHHH
Confidence 999999999999999999999987
No 78
>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=32.82 E-value=16 Score=30.97 Aligned_cols=32 Identities=22% Similarity=0.746 Sum_probs=26.8
Q ss_pred ccccccccccccC-Ccccccccccccccccccc
Q 000325 1153 CACASCQIDVLLG-NAVKCGTCQGYCHEGCTSS 1184 (1665)
Q Consensus 1153 ~~C~~C~kDV~~r-daV~C~~Cqg~fHk~C~~~ 1184 (1665)
..|.+|.+-+... .+++|..|+-.+|++|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4599998877654 4899999999999999883
No 79
>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]
Probab=32.75 E-value=20 Score=43.77 Aligned_cols=36 Identities=8% Similarity=0.014 Sum_probs=24.0
Q ss_pred hHHHHHHHhccccchhhHhHHHHHHHHHhcCccccc
Q 000325 476 IPKVLQALLSSVQHVSLYLGICKAILHYWDIPESVV 511 (1665)
Q Consensus 476 L~~Vl~vLy~sDih~~~y~eI~~~I~~y~~~p~NL~ 511 (1665)
++.|++.|+....|-....+-..++..++.+..++-
T Consensus 248 l~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~ 283 (389)
T COG2956 248 LSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD 283 (389)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc
Confidence 567777888777666655666667777776665543
No 80
>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=32.65 E-value=28 Score=38.22 Aligned_cols=27 Identities=15% Similarity=0.267 Sum_probs=23.3
Q ss_pred ccccccccCccccCCccceeecCccccC
Q 000325 1336 FHADAVELEESKLSDVVGFKCCRCRRIG 1363 (1665)
Q Consensus 1336 FHg~CVgLte~~a~~i~~Y~Cp~Crrk~ 1363 (1665)
||..|+.-+...+++ ..|+||.|....
T Consensus 2 ~H~~CL~Ppl~~~P~-g~W~Cp~C~~~~ 28 (148)
T cd04718 2 FHLCCLRPPLKEVPE-GDWICPFCEVEK 28 (148)
T ss_pred cccccCCCCCCCCCC-CCcCCCCCcCCC
Confidence 899999998888877 579999997764
No 81
>KOG2626 consensus Histone H3 (Lys4) methyltransferase complex, subunit CPS60/ASH2/BRE2 [Chromatin structure and dynamics; Transcription]
Probab=31.26 E-value=41 Score=43.10 Aligned_cols=56 Identities=21% Similarity=0.449 Sum_probs=41.4
Q ss_pred CCCCCeeeccCCCCCCCcceEecCCCCccccccccccCcccc---CC--ccceeecCcccc
Q 000325 1307 AHLEPVCDLCKQPYNSNLMYIHCETCQRWFHADAVELEESKL---SD--VVGFKCCRCRRI 1362 (1665)
Q Consensus 1307 ~~~~~vcCiC~kPyn~d~~MI~CD~C~~WFHg~CVgLte~~a---~~--i~~Y~Cp~Crrk 1362 (1665)
......+|.|..-.+....-+||..|-+|||..|....+.-- .. -..|.|..|...
T Consensus 16 ~~~~~~~~y~e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~ 76 (544)
T KOG2626|consen 16 KMKQATVCYCEGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPS 76 (544)
T ss_pred cccCccccccccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCc
Confidence 345678999999888888899999999999986665443311 11 136899999665
No 82
>PTZ00015 histone H4; Provisional
Probab=30.81 E-value=32 Score=35.70 Aligned_cols=35 Identities=40% Similarity=0.652 Sum_probs=28.5
Q ss_pred cchhhhhhccc--ChHHHHHHHHHhcCcccccccccC
Q 000325 947 KSTKLISKKAI--LPHTIIRNAARRGGLRKISGVNYT 981 (1665)
Q Consensus 947 ~lsr~if~~~~--Lp~s~v~kAarqgG~~ki~gi~Y~ 981 (1665)
+=.|+++.-.+ ||...|++-||.||.++|++-.|.
T Consensus 18 kr~rk~~r~~i~gI~k~~IrRLarr~GvkRIS~d~y~ 54 (102)
T PTZ00015 18 KRQKKVLRDNIRGITKGAIRRLARRGGVKRISGDIYE 54 (102)
T ss_pred hhHHHHHhhcccCCCHHHHHHHHHHcCCccchHHHHH
Confidence 44555554433 899999999999999999999997
No 83
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=30.00 E-value=20 Score=28.91 Aligned_cols=29 Identities=24% Similarity=0.700 Sum_probs=12.0
Q ss_pred eeeccCCCCCCCcceEecCCCCcccccccc
Q 000325 1312 VCDLCKQPYNSNLMYIHCETCQRWFHADAV 1341 (1665)
Q Consensus 1312 vcCiC~kPyn~d~~MI~CD~C~~WFHg~CV 1341 (1665)
.|-+|+++-+. .++-.|..|+-.+|..|+
T Consensus 2 ~C~~C~~~~~~-~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDG-GWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S---EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCC-CceEECccCCCccChhcC
Confidence 35579988765 356679999999999985
No 84
>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=29.63 E-value=13 Score=32.32 Aligned_cols=31 Identities=26% Similarity=0.647 Sum_probs=23.6
Q ss_pred HHHhhhccccccccccccccccccCcccccccccc
Q 000325 750 AKAFSSTASRFFWPCSERKLWEVPRERCSWCYSCK 784 (1665)
Q Consensus 750 ~Kafs~~~~~F~Wps~ekk~~ev~rerCGWC~sCk 784 (1665)
-|++++-+.+|+||...+-+.++-| -|..||
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 4788999999999999887666544 355554
No 85
>PF13341 RAG2_PHD: RAG2 PHD domain; PDB: 2JWO_A 2V86_B 2V85_B 2V87_A 2V83_C 2V89_A 2V88_A.
Probab=28.00 E-value=21 Score=34.78 Aligned_cols=34 Identities=26% Similarity=0.620 Sum_probs=20.3
Q ss_pred ceEecCC-CCccccccccccCcccc----CCccceeecC
Q 000325 1325 MYIHCET-CQRWFHADAVELEESKL----SDVVGFKCCR 1358 (1665)
Q Consensus 1325 ~MI~CD~-C~~WFHg~CVgLte~~a----~~i~~Y~Cp~ 1358 (1665)
-||.|.. =+.|.|..|++|++... +.-.+|+|..
T Consensus 29 AMI~cs~~~GHWvhaqCm~LsE~~L~~LSq~n~KYfC~d 67 (78)
T PF13341_consen 29 AMIFCSRGGGHWVHAQCMDLSETMLIQLSQENTKYFCND 67 (78)
T ss_dssp -EEEE-STT-EEEETGGGT--HHHHHHHHHSSS-B--TT
T ss_pred eEEEEeCCCceEeEeecccchHHHHHHHccCCceEEEhh
Confidence 4999986 66899999999988754 2345899975
No 86
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=27.85 E-value=21 Score=46.37 Aligned_cols=62 Identities=26% Similarity=0.513 Sum_probs=43.2
Q ss_pred cccccchhhhhhhcccccccccccccccccc-----cCCccccccccccccccccccCcccCCCCccceecccccCccc
Q 000325 1133 KASRKDLFSYLVCRRDKIEKCACASCQIDVL-----LGNAVKCGTCQGYCHEGCTSSSMHMNSGVEPMIVCNRCYLPRA 1206 (1665)
Q Consensus 1133 k~~~~~~FsyL~~k~~~le~~~C~~C~kDV~-----~rdaV~C~~Cqg~fHk~C~~~S~~~~g~~e~~ytC~rCl~~k~ 1206 (1665)
|.+.+-|-.=..+... ...|-.|+++.. .+.+.+|..|-..||+.|..... + .|++|.+-+.
T Consensus 495 k~~~~HV~~C~lC~~~---gfiCe~Cq~~~iiyPF~~~~~~rC~~C~avfH~~C~~r~s-~--------~CPrC~R~q~ 561 (580)
T KOG1829|consen 495 KLSSKHVKECDLCTGK---GFICELCQHNDIIYPFETRNTRRCSTCLAVFHKKCLRRKS-P--------CCPRCERRQK 561 (580)
T ss_pred HHhhhhhhhchhhccC---eeeeeeccCCCcccccccccceeHHHHHHHHHHHHHhccC-C--------CCCchHHHHH
Confidence 3333444444445544 677888877665 45669999999999999999551 1 2999988765
No 87
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=27.01 E-value=26 Score=35.35 Aligned_cols=31 Identities=32% Similarity=0.864 Sum_probs=26.1
Q ss_pred ccccccccc-cCccccCCC--CCccccccccccc
Q 000325 374 GDECRICGM-DGTLLCCDG--CPSAYHTRCIGVS 404 (1665)
Q Consensus 374 dd~C~VC~~-gG~LLcCD~--Cp~afHl~CL~Pp 404 (1665)
...|.+|+. .|..+-|.. |...||..|....
T Consensus 55 ~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~~ 88 (110)
T PF13832_consen 55 KLKCSICGKSGGACIKCSHPGCSTAFHPTCARKA 88 (110)
T ss_pred CCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHHC
Confidence 467999999 578888987 9999999997653
No 88
>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=26.42 E-value=26 Score=30.13 Aligned_cols=32 Identities=22% Similarity=0.705 Sum_probs=27.4
Q ss_pred cccccccccccc--CCcccccccccccccccccc
Q 000325 1153 CACASCQIDVLL--GNAVKCGTCQGYCHEGCTSS 1184 (1665)
Q Consensus 1153 ~~C~~C~kDV~~--rdaV~C~~Cqg~fHk~C~~~ 1184 (1665)
..|.+|.+-+.. ..+++|..|+-.+|++|...
T Consensus 12 ~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 12 TFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 459999887765 68999999999999999883
No 89
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=26.27 E-value=36 Score=38.57 Aligned_cols=37 Identities=38% Similarity=0.887 Sum_probs=28.7
Q ss_pred cccccccccC--------ccccCCCCCccccccccccccCCCCCCCcccccCcc
Q 000325 375 DECRICGMDG--------TLLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAI 420 (1665)
Q Consensus 375 d~C~VC~~gG--------~LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~ 420 (1665)
..|.+|..++ ...-|..|...||..|.... .||.|..
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 4688888753 56779999999999999852 2999953
No 90
>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]
Probab=26.16 E-value=52 Score=39.47 Aligned_cols=24 Identities=21% Similarity=0.430 Sum_probs=17.3
Q ss_pred ccccCCCCCCCccccCCccccccCC
Q 000325 1557 LLASDDGGQSDGVDASGVVFGNRED 1581 (1665)
Q Consensus 1557 ll~~dd~~q~~~~~~~~~~~~~~~~ 1581 (1665)
++.+||++ +++++..-..+-+..|
T Consensus 35 ~i~~~~~~-~~tid~~~~~~~~~~~ 58 (280)
T KOG4198|consen 35 YIQPDDDE-ARTIDVMRLLLTNSKD 58 (280)
T ss_pred cccccccc-cCccchhhhcccccCC
Confidence 36677777 9999988666655555
No 91
>cd05501 Bromo_SP100C_like Bromodomain, SP100C_like subfamily. The SP100C protein is a splice variant of SP100, a major component of PML-SP100 nuclear bodies (NBs), which are poorly understood. It is covalently modified by SUMO-1 and may play a role in processes at the chromatin level. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=25.50 E-value=23 Score=36.51 Aligned_cols=43 Identities=19% Similarity=0.150 Sum_probs=36.4
Q ss_pred hccccC----CCChHHHHHHHhccccchhhHhHHHHHHHHHhcCccccccCC
Q 000325 467 YIRYYN----PIDIPKVLQALLSSVQHVSLYLGICKAILHYWDIPESVVPFM 514 (1665)
Q Consensus 467 ~~~YYs----~~DL~~Vl~vLy~sDih~~~y~eI~~~I~~y~~~p~NL~nl~ 514 (1665)
..+||. ||||..|.++|... .|..+.+++.+..-|+.|.....
T Consensus 30 ~pdY~~iIk~PMDL~tI~~kL~~~-----~Y~s~~ef~~D~~Lif~N~~~yN 76 (102)
T cd05501 30 IRDYCQGIKEPMWLNKVKERLNER-----VYHTVEGFVRDMRLIFHNHKLFY 76 (102)
T ss_pred CCchHHHcCCCCCHHHHHHHHcCC-----CCCCHHHHHHHHHHHHHHHHHHc
Confidence 467888 89999999999875 48889999999999999987733
No 92
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=25.40 E-value=28 Score=33.83 Aligned_cols=31 Identities=26% Similarity=0.754 Sum_probs=26.5
Q ss_pred cccccccccc-CccccCCC--CCccccccccccc
Q 000325 374 GDECRICGMD-GTLLCCDG--CPSAYHTRCIGVS 404 (1665)
Q Consensus 374 dd~C~VC~~g-G~LLcCD~--Cp~afHl~CL~Pp 404 (1665)
...|.+|+.. |..+-|.. |...||..|..-.
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccC
Confidence 3579999998 98888874 9999999998754
No 93
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=24.06 E-value=42 Score=32.63 Aligned_cols=32 Identities=28% Similarity=0.638 Sum_probs=25.9
Q ss_pred CCeeeccCCCCCCCcceEecCC--CCccccccccccC
Q 000325 1310 EPVCDLCKQPYNSNLMYIHCET--CQRWFHADAVELE 1344 (1665)
Q Consensus 1310 ~~vcCiC~kPyn~d~~MI~CD~--C~~WFHg~CVgLt 1344 (1665)
...|.+|++++. -.|.|.. |...||..|.-..
T Consensus 36 ~~~C~~C~~~~G---a~i~C~~~~C~~~fH~~CA~~~ 69 (90)
T PF13771_consen 36 KLKCSICKKKGG---ACIGCSHPGCSRSFHVPCARKA 69 (90)
T ss_pred CCCCcCCCCCCC---eEEEEeCCCCCcEEChHHHccC
Confidence 458889998743 5899986 9999999998654
No 94
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=23.76 E-value=24 Score=33.86 Aligned_cols=25 Identities=28% Similarity=0.563 Sum_probs=18.7
Q ss_pred CCCccccccccccccCCCCCCCcccccCc
Q 000325 391 GCPSAYHTRCIGVSKMYVPEGSWYCPECA 419 (1665)
Q Consensus 391 ~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~ 419 (1665)
.|.-.||..|+..-|... ..||.|+
T Consensus 49 ~C~H~FH~~Ci~~Wl~~~----~~CP~CR 73 (73)
T PF12678_consen 49 PCGHIFHFHCISQWLKQN----NTCPLCR 73 (73)
T ss_dssp TTSEEEEHHHHHHHHTTS----SB-TTSS
T ss_pred ccCCCEEHHHHHHHHhcC----CcCCCCC
Confidence 499999999998776432 3899985
No 95
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.86 E-value=62 Score=26.34 Aligned_cols=28 Identities=21% Similarity=0.622 Sum_probs=22.8
Q ss_pred cccccCCCCCCC-CccceeccceEeccCC
Q 000325 1615 QCRICPDIEPAP-NLSCQICGLVIHSQCS 1642 (1665)
Q Consensus 1615 ~c~~c~~~~p~p-dl~c~~cg~~ih~~cs 1642 (1665)
.|..|-+.-.+. --.|..|+..+|..|.
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 478886666666 6789999999999994
No 96
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=21.53 E-value=55 Score=40.32 Aligned_cols=82 Identities=21% Similarity=0.281 Sum_probs=49.2
Q ss_pred chhhhhhhccccccc-ccccccccccccCCccccccccccccccccccCcccCCCCccceecccccCcccc-cccccccC
Q 000325 1138 DLFSYLVCRRDKIEK-CACASCQIDVLLGNAVKCGTCQGYCHEGCTSSSMHMNSGVEPMIVCNRCYLPRAL-ATSEIRSE 1215 (1665)
Q Consensus 1138 ~~FsyL~~k~~~le~-~~C~~C~kDV~~rdaV~C~~Cqg~fHk~C~~~S~~~~g~~e~~ytC~rCl~~k~~-~i~~~~~~ 1215 (1665)
++-.+-|.+.+.-+. -.|+.|--|-..+|.|+=.-|+=.||+.|+-.=. ...-. +|+-|.+--+. .......
T Consensus 214 ~~p~~~f~~~~~~~~~~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL--~~~r~---~CPvCK~di~~~~~~~~~~- 287 (348)
T KOG4628|consen 214 KLPVRTFTKGDDEDATDTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWL--TQTRT---FCPVCKRDIRTDSGSEPVS- 287 (348)
T ss_pred hCCcEEeccccccCCCceEEEeecccccCCeeeEecCCCchhhccchhhH--hhcCc---cCCCCCCcCCCCCCCCCcc-
Confidence 333344444443223 3999999999999999999999999999998332 21122 45555552221 1222222
Q ss_pred CCCCCCCcccc
Q 000325 1216 SPTSPLPLHRQ 1226 (1665)
Q Consensus 1216 ~~~spl~~~~~ 1226 (1665)
-.+|++.+..
T Consensus 288 -e~tp~~~~~~ 297 (348)
T KOG4628|consen 288 -EDTPLLSQGP 297 (348)
T ss_pred -CCCccccCCC
Confidence 2566666654
No 97
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=21.37 E-value=23 Score=28.58 Aligned_cols=27 Identities=22% Similarity=0.623 Sum_probs=11.9
Q ss_pred cccccCCCCCC-CCccceeccceEeccC
Q 000325 1615 QCRICPDIEPA-PNLSCQICGLVIHSQC 1641 (1665)
Q Consensus 1615 ~c~~c~~~~p~-pdl~c~~cg~~ih~~c 1641 (1665)
.|..|...-.. +-..|.+|+..||-.|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhc
Confidence 48888877777 8899999999999766
No 98
>PF10513 EPL1: Enhancer of polycomb-like; InterPro: IPR019542 This domain is found at the N-terminal of EPL1 (Enhancer of polycomb-like) proteins. The EPL1 protein is a member of a histone acetyltransferase complex which is involved in transcriptional activation of selected genes []. It is also present at the N terminus of Jade family proteins.
Probab=20.75 E-value=17 Score=39.21 Aligned_cols=19 Identities=32% Similarity=0.191 Sum_probs=18.0
Q ss_pred HHHHhcccccccCCCCCcc
Q 000325 293 RAEIDAREESEVGLDPDAA 311 (1665)
Q Consensus 293 R~E~dmrEede~~ld~~n~ 311 (1665)
..+|||||+|+.||+.+|.
T Consensus 117 ~veYDmDeeD~~wL~~~N~ 135 (160)
T PF10513_consen 117 GVEYDMDEEDEEWLELLNK 135 (160)
T ss_pred CcCCCCchHHHHHHHHHHH
Confidence 7999999999999999887
No 99
>PHA02929 N1R/p28-like protein; Provisional
Probab=20.12 E-value=39 Score=39.56 Aligned_cols=45 Identities=24% Similarity=0.516 Sum_probs=30.8
Q ss_pred cccccccccccC---c-----cccCCCCCccccccccccccCCCCCCCcccccCccc
Q 000325 373 NGDECRICGMDG---T-----LLCCDGCPSAYHTRCIGVSKMYVPEGSWYCPECAIN 421 (1665)
Q Consensus 373 ndd~C~VC~~gG---~-----LLcCD~Cp~afHl~CL~PpL~~vPeGdW~Cp~C~~~ 421 (1665)
.+..|.+|...- . ...=..|.-.||..|+...+...+ .||.|+..
T Consensus 173 ~~~eC~ICle~~~~~~~~~~~~~vl~~C~H~FC~~CI~~Wl~~~~----tCPlCR~~ 225 (238)
T PHA02929 173 KDKECAICMEKVYDKEIKNMYFGILSNCNHVFCIECIDIWKKEKN----TCPVCRTP 225 (238)
T ss_pred CCCCCccCCcccccCccccccceecCCCCCcccHHHHHHHHhcCC----CCCCCCCE
Confidence 456899998841 1 111236888999999988764433 69999863
Done!