Query 003031
Match_columns 855
No_of_seqs 267 out of 1529
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 15:39:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/003031.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/003031hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1244 Predicted transcriptio 99.2 3.9E-12 8.4E-17 133.8 1.0 94 740-840 223-332 (336)
2 KOG1512 PHD Zn-finger protein 99.0 8.8E-11 1.9E-15 124.4 2.0 90 741-838 258-362 (381)
3 KOG0956 PHD finger protein AF1 99.0 2.2E-10 4.8E-15 131.5 3.8 103 741-846 5-186 (900)
4 KOG4443 Putative transcription 98.5 4E-08 8.7E-13 113.4 2.4 96 740-842 17-121 (694)
5 KOG4299 PHD Zn-finger protein 98.5 4.9E-08 1.1E-12 112.3 2.3 45 741-785 253-304 (613)
6 COG5141 PHD zinc finger-contai 98.3 2.3E-07 4.9E-12 104.4 1.9 50 735-784 187-241 (669)
7 KOG4299 PHD Zn-finger protein 98.3 3.5E-07 7.6E-12 105.5 2.8 44 741-784 47-93 (613)
8 PF15446 zf-PHD-like: PHD/FYVE 98.1 2.7E-06 5.8E-11 85.5 3.5 80 743-822 1-143 (175)
9 KOG0955 PHD finger protein BR1 97.9 4.8E-06 1E-10 101.7 3.4 47 738-784 216-267 (1051)
10 KOG1973 Chromatin remodeling p 97.9 4.8E-06 1E-10 88.9 2.3 41 743-784 223-266 (274)
11 PF00628 PHD: PHD-finger; Int 97.9 3.4E-06 7.5E-11 67.7 0.7 42 743-784 1-49 (51)
12 KOG0383 Predicted helicase [Ge 97.9 8.4E-06 1.8E-10 96.4 3.9 69 758-836 1-91 (696)
13 KOG0954 PHD finger protein [Ge 97.9 4.6E-06 9.9E-11 97.7 1.4 53 740-792 270-333 (893)
14 smart00249 PHD PHD zinc finger 97.9 1E-05 2.2E-10 61.8 2.8 41 743-783 1-47 (47)
15 KOG4323 Polycomb-like PHD Zn-f 97.8 1.4E-05 3E-10 90.7 3.0 94 740-837 82-223 (464)
16 KOG1473 Nucleosome remodeling 97.7 1.1E-05 2.4E-10 97.7 1.1 96 738-843 341-483 (1414)
17 COG5034 TNG2 Chromatin remodel 97.7 2.2E-05 4.8E-10 83.2 2.8 44 740-784 220-268 (271)
18 PF00628 PHD: PHD-finger; Int 97.6 1.8E-05 3.8E-10 63.6 0.5 47 785-838 2-50 (51)
19 KOG0825 PHD Zn-finger protein 97.5 2.4E-05 5.2E-10 92.2 1.0 47 785-838 218-265 (1134)
20 KOG0383 Predicted helicase [Ge 97.5 3.2E-05 6.9E-10 91.6 1.6 51 736-786 42-94 (696)
21 smart00249 PHD PHD zinc finger 97.5 8.6E-05 1.9E-09 56.7 3.1 44 785-834 2-46 (47)
22 KOG1244 Predicted transcriptio 97.2 0.00013 2.8E-09 78.2 1.8 44 741-784 281-329 (336)
23 KOG1512 PHD Zn-finger protein 96.9 0.00045 9.8E-09 74.6 1.8 41 741-781 314-357 (381)
24 KOG0825 PHD Zn-finger protein 96.8 0.00045 9.6E-09 82.0 1.4 45 740-784 214-264 (1134)
25 KOG1973 Chromatin remodeling p 96.7 0.00062 1.3E-08 73.0 1.2 37 800-838 229-268 (274)
26 KOG4443 Putative transcription 96.3 0.0012 2.6E-08 77.5 0.9 83 740-822 67-182 (694)
27 PF13831 PHD_2: PHD-finger; PD 96.2 0.0013 2.7E-08 51.2 -0.0 34 751-784 2-36 (36)
28 KOG0957 PHD finger protein [Ge 95.9 0.0044 9.5E-08 71.1 2.7 43 742-784 120-177 (707)
29 cd00122 MBD MeCP2, MBD1, MBD2, 95.2 0.014 3E-07 49.9 2.5 42 290-331 7-50 (62)
30 cd04718 BAH_plant_2 BAH, or Br 95.2 0.012 2.5E-07 58.9 2.3 31 762-792 1-33 (148)
31 cd01396 MeCP2_MBD MeCP2, MBD1, 94.9 0.019 4.2E-07 51.4 2.8 51 290-340 8-64 (77)
32 KOG4323 Polycomb-like PHD Zn-f 94.7 0.013 2.8E-07 67.3 1.2 43 742-784 169-222 (464)
33 KOG0957 PHD finger protein [Ge 94.1 0.02 4.3E-07 66.0 1.2 45 785-836 547-595 (707)
34 KOG0955 PHD finger protein BR1 94.0 0.03 6.4E-07 69.8 2.5 47 784-837 221-267 (1051)
35 COG5034 TNG2 Chromatin remodel 93.9 0.03 6.6E-07 60.1 1.9 38 799-839 230-270 (271)
36 KOG1245 Chromatin remodeling c 93.8 0.015 3.2E-07 74.4 -0.5 45 740-784 1107-1156(1404)
37 KOG1245 Chromatin remodeling c 93.4 0.024 5.3E-07 72.5 0.2 50 785-841 1111-1160(1404)
38 PF01429 MBD: Methyl-CpG bindi 92.7 0.077 1.7E-06 47.1 2.3 43 290-332 12-57 (77)
39 smart00391 MBD Methyl-CpG bind 90.8 0.17 3.7E-06 45.4 2.4 42 290-331 9-53 (77)
40 KOG1081 Transcription factor N 88.2 0.41 8.9E-06 55.5 3.5 45 738-783 86-130 (463)
41 COG5141 PHD zinc finger-contai 86.2 0.28 6.2E-06 56.9 0.9 45 785-836 196-240 (669)
42 cd01397 HAT_MBD Methyl-CpG bin 85.7 0.61 1.3E-05 42.0 2.5 41 290-330 7-49 (73)
43 KOG0956 PHD finger protein AF1 85.3 0.35 7.5E-06 58.1 1.0 47 785-838 8-56 (900)
44 PF13832 zf-HC5HC2H_2: PHD-zin 82.4 0.94 2E-05 41.9 2.4 70 743-823 2-90 (110)
45 PF14446 Prok-RING_1: Prokaryo 80.9 0.93 2E-05 38.8 1.6 35 782-821 5-39 (54)
46 PF14446 Prok-RING_1: Prokaryo 78.4 1.1 2.4E-05 38.4 1.3 29 742-770 6-38 (54)
47 KOG0954 PHD finger protein [Ge 74.2 1.7 3.7E-05 52.8 1.9 35 801-838 286-320 (893)
48 KOG4442 Clathrin coat binding 69.9 1.7 3.7E-05 52.5 0.6 79 601-696 170-263 (729)
49 PF13831 PHD_2: PHD-finger; PD 69.5 1.4 3.1E-05 34.4 -0.1 34 801-836 2-35 (36)
50 KOG1473 Nucleosome remodeling 69.2 1.1 2.4E-05 56.4 -1.1 47 739-785 426-478 (1414)
51 PF11793 FANCL_C: FANCL C-term 64.1 3 6.5E-05 36.7 0.8 29 742-770 3-39 (70)
52 PF13901 DUF4206: Domain of un 59.8 6.5 0.00014 40.9 2.5 31 801-841 170-200 (202)
53 PF07227 DUF1423: Protein of u 59.3 7.4 0.00016 45.3 3.0 63 778-843 124-196 (446)
54 PF15446 zf-PHD-like: PHD/FYVE 59.1 5.7 0.00012 41.1 1.8 36 785-823 2-37 (175)
55 KOG3576 Ovo and related transc 58.2 3.2 6.9E-05 44.3 -0.1 61 751-820 115-190 (267)
56 KOG1829 Uncharacterized conser 54.1 7.1 0.00015 46.9 1.8 35 801-843 529-563 (580)
57 PF13771 zf-HC5HC2H: PHD-like 50.7 5.7 0.00012 35.3 0.3 31 784-822 38-70 (90)
58 PF13832 zf-HC5HC2H_2: PHD-zin 50.4 8.3 0.00018 35.7 1.3 31 740-770 54-87 (110)
59 KOG4628 Predicted E3 ubiquitin 50.1 10 0.00022 43.1 2.1 43 742-785 230-275 (348)
60 PF10497 zf-4CXXC_R1: Zinc-fin 48.7 9.1 0.0002 36.4 1.3 33 759-791 36-79 (105)
61 PF13639 zf-RING_2: Ring finge 48.4 2.9 6.3E-05 32.9 -1.7 40 742-784 1-44 (44)
62 KOG0804 Cytoplasmic Zn-finger 46.9 8.1 0.00017 45.1 0.8 58 740-810 174-247 (493)
63 KOG1701 Focal adhesion adaptor 45.6 13 0.00029 43.2 2.2 75 743-821 336-431 (468)
64 smart00258 SAND SAND domain. 44.9 13 0.00029 33.7 1.6 28 670-697 22-52 (73)
65 KOG1701 Focal adhesion adaptor 44.4 3 6.6E-05 48.2 -3.0 70 741-819 274-362 (468)
66 PF13771 zf-HC5HC2H: PHD-like 43.3 12 0.00027 33.2 1.2 30 741-770 36-68 (90)
67 PF07897 DUF1675: Protein of u 42.3 31 0.00068 38.3 4.3 30 671-700 253-283 (284)
68 KOG3612 PHD Zn-finger protein 40.4 23 0.0005 42.4 3.1 47 738-784 57-106 (588)
69 PF13901 DUF4206: Domain of un 39.9 20 0.00043 37.4 2.3 30 741-770 152-189 (202)
70 KOG1632 Uncharacterized PHD Zn 39.5 14 0.0003 41.7 1.2 41 802-843 74-117 (345)
71 PF11793 FANCL_C: FANCL C-term 39.1 16 0.00035 32.2 1.3 35 784-821 4-40 (70)
72 PF05502 Dynactin_p62: Dynacti 38.4 19 0.00042 42.4 2.1 30 752-784 4-33 (483)
73 PF10497 zf-4CXXC_R1: Zinc-fin 38.1 10 0.00022 36.1 -0.1 32 806-838 33-69 (105)
74 KOG2752 Uncharacterized conser 35.5 22 0.00048 40.1 1.9 35 788-822 133-168 (345)
75 KOG1246 DNA-binding protein ju 35.1 26 0.00056 44.0 2.6 51 740-790 154-208 (904)
76 smart00547 ZnF_RBZ Zinc finger 33.3 23 0.0005 25.1 1.1 9 776-784 1-9 (26)
77 PF00641 zf-RanBP: Zn-finger i 32.3 20 0.00043 26.6 0.6 10 775-784 2-11 (30)
78 PLN02400 cellulose synthase 31.6 42 0.00091 43.2 3.6 45 739-784 34-85 (1085)
79 PRK14559 putative protein seri 30.1 37 0.00081 41.5 2.8 20 743-762 3-24 (645)
80 PLN03086 PRLI-interacting fact 29.3 37 0.0008 41.0 2.5 27 668-694 405-431 (567)
81 KOG1169 Diacylglycerol kinase 29.1 26 0.00057 42.7 1.3 78 741-821 116-212 (634)
82 PLN02436 cellulose synthase A 28.6 48 0.001 42.7 3.4 45 739-784 34-85 (1094)
83 COG0143 MetG Methionyl-tRNA sy 28.5 29 0.00062 41.8 1.5 37 777-821 126-173 (558)
84 PF12861 zf-Apc11: Anaphase-pr 28.3 27 0.00058 32.7 0.9 27 758-784 51-78 (85)
85 COG5243 HRD1 HRD ubiquitin lig 27.9 20 0.00043 41.3 0.0 44 738-791 284-343 (491)
86 KOG1734 Predicted RING-contain 27.8 22 0.00047 39.5 0.3 60 784-848 226-286 (328)
87 PF01342 SAND: SAND domain; I 27.7 22 0.00048 32.5 0.3 31 677-708 41-72 (82)
88 PLN02638 cellulose synthase A 27.6 48 0.001 42.8 3.1 45 739-784 15-66 (1079)
89 PF07649 C1_3: C1-like domain; 27.6 26 0.00057 26.0 0.6 28 785-818 3-30 (30)
90 PRK04023 DNA polymerase II lar 27.3 42 0.00092 43.0 2.6 35 739-784 624-658 (1121)
91 cd01395 HMT_MBD Methyl-CpG bin 26.2 55 0.0012 28.8 2.4 41 291-331 8-49 (60)
92 PF00130 C1_1: Phorbol esters/ 25.1 50 0.0011 26.7 1.9 30 741-770 11-45 (53)
93 PLN02189 cellulose synthase 25.0 60 0.0013 41.8 3.3 45 739-784 32-83 (1040)
94 KOG0269 WD40 repeat-containing 24.7 29 0.00063 43.0 0.6 40 777-823 768-813 (839)
95 KOG1734 Predicted RING-contain 24.7 22 0.00047 39.6 -0.4 34 737-770 220-263 (328)
96 PF12773 DZR: Double zinc ribb 23.5 54 0.0012 26.4 1.8 7 742-748 13-19 (50)
97 KOG4628 Predicted E3 ubiquitin 20.8 35 0.00076 39.0 0.2 45 784-838 231-275 (348)
98 PF14569 zf-UDP: Zinc-binding 20.7 23 0.00049 32.8 -1.0 31 739-769 7-44 (80)
99 PF10367 Vps39_2: Vacuolar sor 20.1 62 0.0014 29.1 1.7 29 741-769 78-108 (109)
No 1
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=99.19 E-value=3.9e-12 Score=133.83 Aligned_cols=94 Identities=30% Similarity=0.709 Sum_probs=78.6
Q ss_pred cccccccccc----------CCceeecCCCCCccccccccc-----CCCCCCCccccccc-ccccCCCCCCCccCCCcCc
Q 003031 740 NDDSCGICGD----------GGELICCDNCPSAFHQACLSI-----QDLPTGSWFCSNCT-CWICGDLVNDKEASSSFDA 803 (855)
Q Consensus 740 ndD~C~VCgd----------GGeLLcCD~CPraFHlsCLgp-----~~vPeG~W~Cp~C~-C~ICge~~~D~e~~s~~~L 803 (855)
...+|-.|-. +.+|+.|..|+++-|++||.. ..+..+.|+|..|+ |.|||-. .++..+
T Consensus 223 Pn~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgts------enddql 296 (336)
T KOG1244|consen 223 PNPYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTS------ENDDQL 296 (336)
T ss_pred CCcccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCc------CCCcee
Confidence 3467877742 568999999999999999984 45667899999998 8999976 344679
Q ss_pred ccccccchhchhhhccCCcCCCCCCceeeCCccHHHH
Q 003031 804 LKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVG 840 (855)
Q Consensus 804 L~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~CkeI~ 840 (855)
++||-|+|+||++||.|+..+.|+|.|-|- -|-+.+
T Consensus 297 lfcddcdrgyhmyclsppm~eppegswsc~-KOG~~~ 332 (336)
T KOG1244|consen 297 LFCDDCDRGYHMYCLSPPMVEPPEGSWSCH-LCLEEL 332 (336)
T ss_pred EeecccCCceeeEecCCCcCCCCCCchhHH-HHHHHH
Confidence 999999999999999999888889999994 665544
No 2
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=99.01 E-value=8.8e-11 Score=124.44 Aligned_cols=90 Identities=27% Similarity=0.597 Sum_probs=74.6
Q ss_pred cccccccccC---------CceeecCCCCCccccccccc-----CCCCCCCccccccc-ccccCCCCCCCccCCCcCccc
Q 003031 741 DDSCGICGDG---------GELICCDNCPSAFHQACLSI-----QDLPTGSWFCSNCT-CWICGDLVNDKEASSSFDALK 805 (855)
Q Consensus 741 dD~C~VCgdG---------GeLLcCD~CPraFHlsCLgp-----~~vPeG~W~Cp~C~-C~ICge~~~D~e~~s~~~LL~ 805 (855)
...|.+|-++ ..+++|..|..++|+.|+.+ ..+..+.|.|..|. |.||++++.+ ..+++
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E------~E~~F 331 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIE------SEHLF 331 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccc------hheec
Confidence 4569999763 46999999999999999996 23456789999998 9999998543 45789
Q ss_pred ccccchhchhhhccCCcCCCCCCceeeCCccHH
Q 003031 806 CSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 806 CdqCeraYHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
||.|+|+||..|+... ..|.|.|.|-..|-.
T Consensus 332 CD~CDRG~HT~CVGL~--~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 332 CDVCDRGPHTLCVGLQ--DLPRGEWICDMRCRE 362 (381)
T ss_pred cccccCCCCccccccc--cccCccchhhhHHHH
Confidence 9999999999999875 567999999765654
No 3
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=98.98 E-value=2.2e-10 Score=131.51 Aligned_cols=103 Identities=31% Similarity=0.803 Sum_probs=81.9
Q ss_pred ccccccccc-----CCceeecCC--CCCcccccccccCCCCCCCccccccc-----------------------------
Q 003031 741 DDSCGICGD-----GGELICCDN--CPSAFHQACLSIQDLPTGSWFCSNCT----------------------------- 784 (855)
Q Consensus 741 dD~C~VCgd-----GGeLLcCD~--CPraFHlsCLgp~~vPeG~W~Cp~C~----------------------------- 784 (855)
..-|.||.| ...|+.||+ |.-+.|+.|+++.++|.|.|||..|.
T Consensus 5 VGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqeraarvrCeLCP~kdGALKkTDn~GWA 84 (900)
T KOG0956|consen 5 VGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQERAARVRCELCPHKDGALKKTDNGGWA 84 (900)
T ss_pred ccceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhhhhccceeecccCcccceecccCCCce
Confidence 355999998 246999996 99999999999999999999999996
Q ss_pred -----------------------------------ccccCCCCCCCccCCCcCccccc--ccchhchhhhccCCcC---C
Q 003031 785 -----------------------------------CWICGDLVNDKEASSSFDALKCS--QCEHKYHGECLKDMSK---G 824 (855)
Q Consensus 785 -----------------------------------C~ICge~~~D~e~~s~~~LL~Cd--qCeraYHv~CL~p~~~---~ 824 (855)
|+||.+.+..... ..+..+.|. .|.++||+.|.+-... +
T Consensus 85 HVVCALYIPEVrFgNV~TMEPIiLq~VP~dRfnKtCYIC~E~GrpnkA-~~GACMtCNKs~CkqaFHVTCAQ~~GLLCEE 163 (900)
T KOG0956|consen 85 HVVCALYIPEVRFGNVHTMEPIILQDVPHDRFNKTCYICNEEGRPNKA-AKGACMTCNKSGCKQAFHVTCAQRAGLLCEE 163 (900)
T ss_pred EEEEEeeccceeecccccccceeeccCchhhhcceeeeecccCCcccc-ccccceecccccchhhhhhhHhhhhccceec
Confidence 8888876443332 235678896 8999999999987643 1
Q ss_pred C---CCCceeeCCccHHHHhhhccc
Q 003031 825 A---VSEAWFCNQSCQEVGNKLGQG 846 (855)
Q Consensus 825 ~---p~G~WFCs~~CkeI~~~L~q~ 846 (855)
. ...--||+ +|+..|.+| .+
T Consensus 164 ~gn~~dNVKYCG-YCk~HfsKl-kk 186 (900)
T KOG0956|consen 164 EGNISDNVKYCG-YCKYHFSKL-KK 186 (900)
T ss_pred cccccccceech-hHHHHHHHh-hc
Confidence 1 14556996 999999999 54
No 4
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=98.50 E-value=4e-08 Score=113.39 Aligned_cols=96 Identities=28% Similarity=0.780 Sum_probs=76.7
Q ss_pred ccccccccccC-----CceeecCCCCCccccccccc---CCCCCCCccccccc-ccccCCCCCCCccCCCcCcccccccc
Q 003031 740 NDDSCGICGDG-----GELICCDNCPSAFHQACLSI---QDLPTGSWFCSNCT-CWICGDLVNDKEASSSFDALKCSQCE 810 (855)
Q Consensus 740 ndD~C~VCgdG-----GeLLcCD~CPraFHlsCLgp---~~vPeG~W~Cp~C~-C~ICge~~~D~e~~s~~~LL~CdqCe 810 (855)
....|.+|+.. |-|+.|..|...||..|+.. ..+-.+.|.|+.|+ |..||..+ +....++|+.|+
T Consensus 17 ~~~mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~g------D~~kf~~Ck~cD 90 (694)
T KOG4443|consen 17 VCLMCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTG------DPKKFLLCKRCD 90 (694)
T ss_pred hhhhhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccC------Cccccccccccc
Confidence 35678899863 46999999999999999995 22223459999998 99999542 235678999999
Q ss_pred hhchhhhccCCcCCCCCCceeeCCccHHHHhh
Q 003031 811 HKYHGECLKDMSKGAVSEAWFCNQSCQEVGNK 842 (855)
Q Consensus 811 raYHv~CL~p~~~~~p~G~WFCs~~CkeI~~~ 842 (855)
-+||.+|+.|+....+.|.|+|+ .|...+..
T Consensus 91 vsyh~yc~~P~~~~v~sg~~~ck-k~~~c~qc 121 (694)
T KOG4443|consen 91 VSYHCYCQKPPNDKVPSGPWLCK-KCTRCRQC 121 (694)
T ss_pred ccccccccCCccccccCcccccH-HHHhhhhc
Confidence 99999999999888899999996 55555543
No 5
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.48 E-value=4.9e-08 Score=112.34 Aligned_cols=45 Identities=49% Similarity=1.354 Sum_probs=41.2
Q ss_pred cccccccccCCce---eecCCCCCccccccccc----CCCCCCCcccccccc
Q 003031 741 DDSCGICGDGGEL---ICCDNCPSAFHQACLSI----QDLPTGSWFCSNCTC 785 (855)
Q Consensus 741 dD~C~VCgdGGeL---LcCD~CPraFHlsCLgp----~~vPeG~W~Cp~C~C 785 (855)
+++|..|+..|.. +|||+||++||+.||.| +.+|.|.|+|+.|.|
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~ 304 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKI 304 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCee
Confidence 5699999998877 99999999999999997 578999999999983
No 6
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=98.30 E-value=2.3e-07 Score=104.42 Aligned_cols=50 Identities=38% Similarity=0.943 Sum_probs=43.3
Q ss_pred CCcccccccccccccC-----CceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 735 DEDDKNDDSCGICGDG-----GELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 735 ~~ed~ndD~C~VCgdG-----GeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
+.+++-++.|.+|... .-++.||+|.-+.|+.|+|+..+|+|.|+|..|.
T Consensus 187 ~~~d~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi 241 (669)
T COG5141 187 EPSDEFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCI 241 (669)
T ss_pred CCchhhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhc
Confidence 3445567889999763 4599999999999999999999999999999996
No 7
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.28 E-value=3.5e-07 Score=105.47 Aligned_cols=44 Identities=48% Similarity=1.139 Sum_probs=36.5
Q ss_pred cccccccccCCceeecCCCCCcccccccccC---CCCCCCccccccc
Q 003031 741 DDSCGICGDGGELICCDNCPSAFHQACLSIQ---DLPTGSWFCSNCT 784 (855)
Q Consensus 741 dD~C~VCgdGGeLLcCD~CPraFHlsCLgp~---~vPeG~W~Cp~C~ 784 (855)
...|.+|..||+++||+.|+.+||+.|-++. ..+.+.|.|..|.
T Consensus 47 ~ts~~~~~~~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~ 93 (613)
T KOG4299|consen 47 ATSCGICKSGGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCP 93 (613)
T ss_pred hhhcchhhhcCCccccccCccccchhccCcccCcccccccccccCCC
Confidence 5679999999999999999999999999863 3334567777775
No 8
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=98.06 E-value=2.7e-06 Score=85.50 Aligned_cols=80 Identities=28% Similarity=0.671 Sum_probs=59.4
Q ss_pred ccccccc------CCceeecCCCCCccccccccc--------CCCCCCC--ccccccc---------------ccccCCC
Q 003031 743 SCGICGD------GGELICCDNCPSAFHQACLSI--------QDLPTGS--WFCSNCT---------------CWICGDL 791 (855)
Q Consensus 743 ~C~VCgd------GGeLLcCD~CPraFHlsCLgp--------~~vPeG~--W~Cp~C~---------------C~ICge~ 791 (855)
.|.+|+. -|.||.|.+|..+||..||++ +.+-.+. .+|.+|. |..|+..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~~aP~~~~C~~C~~~ 80 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDPRAPHHGMCQQCKKP 80 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccCCCCCCCcccccCCC
Confidence 3777842 478999999999999999997 2333333 5788886 8999876
Q ss_pred CCCCcc--------------------------------CCCcCcccccccchhchhhhccCCc
Q 003031 792 VNDKEA--------------------------------SSSFDALKCSQCEHKYHGECLKDMS 822 (855)
Q Consensus 792 ~~D~e~--------------------------------~s~~~LL~CdqCeraYHv~CL~p~~ 822 (855)
+..-.+ ..+..|+.|..|.++||..+|++..
T Consensus 81 G~~c~pfr~r~T~kQEe~~ReeNgG~DPit~Vd~~lvnN~~nVLFRC~~C~RawH~~HLP~~~ 143 (175)
T PF15446_consen 81 GPSCKPFRPRKTPKQEEKLREENGGVDPITPVDPELVNNPDNVLFRCTSCHRAWHFEHLPPPS 143 (175)
T ss_pred CCCCcccCCCCCcHHHHHHHHHcCCCCCCccCCHHHccChhheEEecCCccceeehhhCCCCc
Confidence 532110 0124478999999999999999864
No 9
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=97.94 E-value=4.8e-06 Score=101.70 Aligned_cols=47 Identities=40% Similarity=0.989 Sum_probs=42.1
Q ss_pred ccccccccccccC-----CceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 738 DKNDDSCGICGDG-----GELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 738 d~ndD~C~VCgdG-----GeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
...+..|.||.++ ..++.||.|..++|+.|++.+.+|+|.|.|..|.
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl 267 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCL 267 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhc
Confidence 3456789999984 4699999999999999999999999999999996
No 10
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.90 E-value=4.8e-06 Score=88.90 Aligned_cols=41 Identities=39% Similarity=1.085 Sum_probs=36.5
Q ss_pred cccccccCCceeecCC--CC-CcccccccccCCCCCCCccccccc
Q 003031 743 SCGICGDGGELICCDN--CP-SAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 743 ~C~VCgdGGeLLcCD~--CP-raFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
+|. |...|+|+-||. |+ .+||+.|+|+...|.|.|||+.|.
T Consensus 223 ~Cn-qvsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~ 266 (274)
T KOG1973|consen 223 ICN-QVSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCK 266 (274)
T ss_pred Eec-ccccccccccCCCCCCcceEEEeccccccCCCCcccchhhh
Confidence 344 556999999997 99 899999999999999999999876
No 11
>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=97.89 E-value=3.4e-06 Score=67.66 Aligned_cols=42 Identities=40% Similarity=1.272 Sum_probs=35.5
Q ss_pred ccccccc---CCceeecCCCCCcccccccccC----CCCCCCccccccc
Q 003031 743 SCGICGD---GGELICCDNCPSAFHQACLSIQ----DLPTGSWFCSNCT 784 (855)
Q Consensus 743 ~C~VCgd---GGeLLcCD~CPraFHlsCLgp~----~vPeG~W~Cp~C~ 784 (855)
+|.+|+. .+++|.|+.|.+.||..|+++. ..+.+.|+|+.|.
T Consensus 1 ~C~vC~~~~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~ 49 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCR 49 (51)
T ss_dssp EBTTTTSSCTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHH
T ss_pred eCcCCCCcCCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCc
Confidence 4788887 7789999999999999999984 3345589999986
No 12
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.88 E-value=8.4e-06 Score=96.37 Aligned_cols=69 Identities=30% Similarity=0.766 Sum_probs=59.9
Q ss_pred CCCCccccccccc--CCCCCCCccccccc--------------------ccccCCCCCCCccCCCcCcccccccchhchh
Q 003031 758 NCPSAFHQACLSI--QDLPTGSWFCSNCT--------------------CWICGDLVNDKEASSSFDALKCSQCEHKYHG 815 (855)
Q Consensus 758 ~CPraFHlsCLgp--~~vPeG~W~Cp~C~--------------------C~ICge~~~D~e~~s~~~LL~CdqCeraYHv 815 (855)
.|+++||..|+.+ ...|+++|.|+.|. |.+|++. +.++.|+.|..+||.
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~---------g~~l~c~tC~~s~h~ 71 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADG---------GELLWCDTCPASFHA 71 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCC---------CcEEEeccccHHHHH
Confidence 4899999999997 45568999999996 8999975 668889999999999
Q ss_pred hhccCCcCCCCCCceeeCCcc
Q 003031 816 ECLKDMSKGAVSEAWFCNQSC 836 (855)
Q Consensus 816 ~CL~p~~~~~p~G~WFCs~~C 836 (855)
.|+.++....+.+.|.|+ .|
T Consensus 72 ~cl~~pl~~~p~~~~~c~-Rc 91 (696)
T KOG0383|consen 72 SCLGPPLTPQPNGEFICP-RC 91 (696)
T ss_pred HccCCCCCcCCccceeee-ee
Confidence 999998888886779998 66
No 13
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.86 E-value=4.6e-06 Score=97.69 Aligned_cols=53 Identities=36% Similarity=1.029 Sum_probs=46.2
Q ss_pred cccccccccc-----CCceeecCCCCCcccccccccCCCCCCCccccccc------ccccCCCC
Q 003031 740 NDDSCGICGD-----GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT------CWICGDLV 792 (855)
Q Consensus 740 ndD~C~VCgd-----GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~------C~ICge~~ 792 (855)
++..|-||.. +.+|+.||.|....|+.|+|+.++|+|.|.|..|. |..|-+.+
T Consensus 270 edviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg~~ppCvLCPkkG 333 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALGIEPPCVLCPKKG 333 (893)
T ss_pred ccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccccCCCCeeeccccC
Confidence 5678988876 46899999999999999999999999999999997 77776543
No 14
>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 KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=97.76 E-value=1.4e-05 Score=90.71 Aligned_cols=94 Identities=21% Similarity=0.465 Sum_probs=70.9
Q ss_pred cccccccccc-----CCceeecCCCCCcccccccccCCCCCCCccccccc------------------------------
Q 003031 740 NDDSCGICGD-----GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT------------------------------ 784 (855)
Q Consensus 740 ndD~C~VCgd-----GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~------------------------------ 784 (855)
.+..|.+|.. +.++..|+.|..+||+.|..+.....+.|.+..|.
T Consensus 82 ~e~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~~~~g~a~K~g~~a~~~l~y~~~~l~w 161 (464)
T KOG4323|consen 82 SELNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIFSQEGGALKKGRLARPSLPYPEASLDW 161 (464)
T ss_pred cccCCcccccccccCchhhhhhhhhccCcccccCccCcCcCCccccccccccccccccccccccccccccccCccccccc
Confidence 3455778865 45788999999999999998866666777777664
Q ss_pred ---------ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCC----CCCceeeCCccH
Q 003031 785 ---------CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGA----VSEAWFCNQSCQ 837 (855)
Q Consensus 785 ---------C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~----p~G~WFCs~~Ck 837 (855)
|.+|.+.+. ..+..|++|+.|..+||..|..+....+ +...|||..|+.
T Consensus 162 D~~~~~n~qc~vC~~g~~----~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 162 DSGHKVNLQCSVCYCGGP----GAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNR 223 (464)
T ss_pred CccccccceeeeeecCCc----CccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhcc
Confidence 667665421 2234799999999999999999985433 489999975544
No 16
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=97.70 E-value=1.1e-05 Score=97.67 Aligned_cols=96 Identities=28% Similarity=0.548 Sum_probs=74.0
Q ss_pred ccccccccccccCCceeecCCCCCccccccccc--CCCCCCCccccccc-------------------------------
Q 003031 738 DKNDDSCGICGDGGELICCDNCPSAFHQACLSI--QDLPTGSWFCSNCT------------------------------- 784 (855)
Q Consensus 738 d~ndD~C~VCgdGGeLLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~------------------------------- 784 (855)
-.-++.|.+|.+.|+++||.+||+.||+.|+.+ ..+|...|.|.-|.
T Consensus 341 ~~~ddhcrf~~d~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvngvvd~vl~~~K~~~~iR~~~iG~dr~ 420 (1414)
T KOG1473|consen 341 IEYDDHCRFCHDLGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVNGVVDCVLPPSKNVDSIRHTPIGRDRY 420 (1414)
T ss_pred eeecccccccCcccceeecccCCceEEeeecCCccccCCCccchhhhhhhhccCcccccccChhhcccceeccCCCcCcc
Confidence 344678999999999999999999999999996 57788899999886
Q ss_pred ----------ccccCCCCCCCccCCCcCcccccc-cchhchh-hhccCCcC--CCCCCceeeCCccHHHHhhh
Q 003031 785 ----------CWICGDLVNDKEASSSFDALKCSQ-CEHKYHG-ECLKDMSK--GAVSEAWFCNQSCQEVGNKL 843 (855)
Q Consensus 785 ----------C~ICge~~~D~e~~s~~~LL~Cdq-CeraYHv-~CL~p~~~--~~p~G~WFCs~~CkeI~~~L 843 (855)
|.||+. +.+.+-|.. |+..||. .||+...- ....+.|+|+ +|-.-.++|
T Consensus 421 gr~ywfi~rrl~Ie~~---------det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~-ee~~rqM~l 483 (1414)
T KOG1473|consen 421 GRKYWFISRRLRIEGM---------DETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERR-EEIIRQMGL 483 (1414)
T ss_pred ccchhceeeeeEEecC---------CCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhH-HHHHHhccc
Confidence 233332 245666775 9999999 99996533 3348999996 776555544
No 17
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.68 E-value=2.2e-05 Score=83.19 Aligned_cols=44 Identities=34% Similarity=1.068 Sum_probs=38.7
Q ss_pred cccccccccc--CCceeecCC--CCC-cccccccccCCCCCCCccccccc
Q 003031 740 NDDSCGICGD--GGELICCDN--CPS-AFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 740 ndD~C~VCgd--GGeLLcCD~--CPr-aFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
+.-+|+ |.+ .|+|+-||+ |.+ +||..|+|+...|.|.|||+.|+
T Consensus 220 e~lYCf-CqqvSyGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk 268 (271)
T COG5034 220 EELYCF-CQQVSYGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECK 268 (271)
T ss_pred ceeEEE-ecccccccceecCCCCCchhheeccccccCCCCCCcEeCHHhH
Confidence 345666 887 699999996 988 99999999999999999999986
No 18
>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=97.59 E-value=1.8e-05 Score=63.58 Aligned_cols=47 Identities=32% Similarity=0.885 Sum_probs=36.6
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCC--CCCceeeCCccHH
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGA--VSEAWFCNQSCQE 838 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~--p~G~WFCs~~Cke 838 (855)
|.+|++. .....++.|+.|.+.||..|+.++.... +.+.|+|+ .|..
T Consensus 2 C~vC~~~------~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~-~C~~ 50 (51)
T PF00628_consen 2 CPVCGQS------DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCP-NCRP 50 (51)
T ss_dssp BTTTTSS------CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSH-HHHH
T ss_pred CcCCCCc------CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECc-CCcC
Confidence 7788873 2346789999999999999999986633 36699997 6653
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.55 E-value=2.4e-05 Score=92.20 Aligned_cols=47 Identities=30% Similarity=0.671 Sum_probs=37.8
Q ss_pred ccccCCCCCCCccCCCcCcccccccchh-chhhhccCCcCCCCCCceeeCCccHH
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHK-YHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCera-YHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
|.||+.+ |. ...||.||.|... ||++||++..-+.+.+.|||. .|.-
T Consensus 218 C~IC~~~--Dp----EdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~-NC~d 265 (1134)
T KOG0825|consen 218 CDICTVH--DP----EDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCT-NCSL 265 (1134)
T ss_pred ceeeccC--Ch----HHhheeecccccceeeccccCcccccccccceecC-cchh
Confidence 6666654 21 2458999999999 999999998878889999996 7864
No 20
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.52 E-value=3.2e-05 Score=91.61 Aligned_cols=51 Identities=45% Similarity=1.139 Sum_probs=44.2
Q ss_pred CcccccccccccccCCceeecCCCCCccccccccc--CCCCCCCccccccccc
Q 003031 736 EDDKNDDSCGICGDGGELICCDNCPSAFHQACLSI--QDLPTGSWFCSNCTCW 786 (855)
Q Consensus 736 ~ed~ndD~C~VCgdGGeLLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~C~ 786 (855)
..+.+...|.+|.++|++++|+.||.+||..|+++ ...|.+.|.|+.|.|.
T Consensus 42 ~~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~p 94 (696)
T KOG0383|consen 42 WDDAEQEACRICADGGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFCP 94 (696)
T ss_pred cchhhhhhhhhhcCCCcEEEeccccHHHHHHccCCCCCcCCccceeeeeeccC
Confidence 44667788999999999999999999999999986 4566677999998764
No 21
>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 KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=97.23 E-value=0.00013 Score=78.25 Aligned_cols=44 Identities=41% Similarity=1.021 Sum_probs=37.1
Q ss_pred ccccccccc---CCceeecCCCCCccccccccc--CCCCCCCccccccc
Q 003031 741 DDSCGICGD---GGELICCDNCPSAFHQACLSI--QDLPTGSWFCSNCT 784 (855)
Q Consensus 741 dD~C~VCgd---GGeLLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~ 784 (855)
-..|.+|+. ..+|++||.|.++||.+||.| .+.|+|.|.|.-|.
T Consensus 281 ck~csicgtsenddqllfcddcdrgyhmyclsppm~eppegswsc~KOG 329 (336)
T KOG1244|consen 281 CKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCL 329 (336)
T ss_pred cceeccccCcCCCceeEeecccCCceeeEecCCCcCCCCCCchhHHHHH
Confidence 456888886 468999999999999999997 57789999976663
No 23
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.86 E-value=0.00045 Score=74.57 Aligned_cols=41 Identities=39% Similarity=0.957 Sum_probs=37.1
Q ss_pred ccccccccc---CCceeecCCCCCcccccccccCCCCCCCcccc
Q 003031 741 DDSCGICGD---GGELICCDNCPSAFHQACLSIQDLPTGSWFCS 781 (855)
Q Consensus 741 dD~C~VCgd---GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp 781 (855)
-..|.+|+. ..+++.||.|.++||..|+|+..+|.|.|.|.
T Consensus 314 C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD 357 (381)
T KOG1512|consen 314 CELCRICLGPVIESEHLFCDVCDRGPHTLCVGLQDLPRGEWICD 357 (381)
T ss_pred cHhhhccCCcccchheeccccccCCCCccccccccccCccchhh
Confidence 356999987 46899999999999999999999999999986
No 24
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=96.81 E-value=0.00045 Score=82.01 Aligned_cols=45 Identities=33% Similarity=0.983 Sum_probs=38.7
Q ss_pred ccccccccccC---CceeecCCCCCc-cccccccc--CCCCCCCccccccc
Q 003031 740 NDDSCGICGDG---GELICCDNCPSA-FHQACLSI--QDLPTGSWFCSNCT 784 (855)
Q Consensus 740 ndD~C~VCgdG---GeLLcCD~CPra-FHlsCLgp--~~vPeG~W~Cp~C~ 784 (855)
...-|.+|... .-||+||.|..+ ||.+||+| .++|.+.|||+.|.
T Consensus 214 E~~~C~IC~~~DpEdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~ 264 (1134)
T KOG0825|consen 214 EEVKCDICTVHDPEDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCS 264 (1134)
T ss_pred ccccceeeccCChHHhheeecccccceeeccccCcccccccccceecCcch
Confidence 34569999863 459999999999 99999998 56999999999997
No 25
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=96.67 E-value=0.00062 Score=73.00 Aligned_cols=37 Identities=19% Similarity=0.499 Sum_probs=30.9
Q ss_pred CcCcccccc--cc-hhchhhhccCCcCCCCCCceeeCCccHH
Q 003031 800 SFDALKCSQ--CE-HKYHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 800 ~~~LL~Cdq--Ce-raYHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
.+.|+.||. |+ .+||..|+... ..|.|.|||++|+..
T Consensus 229 yg~Mi~CDn~~C~~eWFH~~CVGL~--~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 229 YGKMIGCDNPGCPIEWFHFTCVGLK--TKPKGKWYCPRCKAE 268 (274)
T ss_pred cccccccCCCCCCcceEEEeccccc--cCCCCcccchhhhhh
Confidence 477899997 99 99999999885 567899999966554
No 26
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=96.34 E-value=0.0012 Score=77.50 Aligned_cols=83 Identities=28% Similarity=0.732 Sum_probs=58.2
Q ss_pred cccccccccc---CCceeecCCCCCccccccccc--CCCCCCCccccccc-ccccCCCCCC----C--------------
Q 003031 740 NDDSCGICGD---GGELICCDNCPSAFHQACLSI--QDLPTGSWFCSNCT-CWICGDLVND----K-------------- 795 (855)
Q Consensus 740 ndD~C~VCgd---GGeLLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~-C~ICge~~~D----~-------------- 795 (855)
....|..|+. ...++.|+.|.-+||-+|..| ..++.|.|+|++|. |..|....-. -
T Consensus 67 ~crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~ 146 (694)
T KOG4443|consen 67 SCRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLS 146 (694)
T ss_pred CceeeeeccccCCcccccccccccccccccccCCccccccCcccccHHHHhhhhccccccccchhhhccCcccccccccc
Confidence 3456777774 456999999999999999998 68999999999996 6666543211 0
Q ss_pred ---------ccCCCcCcccccccchhchhhhccCCc
Q 003031 796 ---------EASSSFDALKCSQCEHKYHGECLKDMS 822 (855)
Q Consensus 796 ---------e~~s~~~LL~CdqCeraYHv~CL~p~~ 822 (855)
...-...++.|++|.++-|-.|-.-..
T Consensus 147 ~cPvc~~~Y~~~e~~~~~~c~~c~rwsh~~c~~~sd 182 (694)
T KOG4443|consen 147 YCPVCLIVYQDSESLPMVCCSICQRWSHGGCDGISD 182 (694)
T ss_pred cCchHHHhhhhccchhhHHHHHhcccccCCCCccch
Confidence 000012346778888888888866543
No 27
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.19 E-value=0.0013 Score=51.23 Aligned_cols=34 Identities=41% Similarity=1.195 Sum_probs=20.6
Q ss_pred CceeecCCCCCcccccccccCCCCCC-Cccccccc
Q 003031 751 GELICCDNCPSAFHQACLSIQDLPTG-SWFCSNCT 784 (855)
Q Consensus 751 GeLLcCD~CPraFHlsCLgp~~vPeG-~W~Cp~C~ 784 (855)
..|+.|+.|.-.+|+.|++...+|.+ +|+|..|+
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 46899999999999999999888877 89998884
No 28
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=95.93 E-value=0.0044 Score=71.14 Aligned_cols=43 Identities=33% Similarity=1.010 Sum_probs=35.2
Q ss_pred cccccccc-----CCceeecCCCCCccccccccc---CCCCC-------CCccccccc
Q 003031 742 DSCGICGD-----GGELICCDNCPSAFHQACLSI---QDLPT-------GSWFCSNCT 784 (855)
Q Consensus 742 D~C~VCgd-----GGeLLcCD~CPraFHlsCLgp---~~vPe-------G~W~Cp~C~ 784 (855)
.+|.||-. .|+++-||.|+-..|..|+|. ..+|. ..|||.-|.
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~ 177 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACL 177 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHh
Confidence 48999953 689999999999999999995 23343 369999997
No 29
>cd00122 MBD MeCP2, MBD1, MBD2, MBD3, MBD4, CLLD8-like, and BAZ2A-like proteins constitute a family of proteins that share the methyl-CpG-binding domain (MBD). The MBD consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1. The MBDs present in putative chromatin remodelling subunit, BAZ2A, and putative histone methyltransferase, CLLD8, represent two phylogenetically distinct groups within the MBD protein family.
Probab=95.19 E-value=0.014 Score=49.85 Aligned_cols=42 Identities=33% Similarity=0.434 Sum_probs=37.9
Q ss_pred HcCceeccccCCC--ccccceeeeCCCccccccchhHHHHhccc
Q 003031 290 AAGWAVERRKRPS--RKYMDTIYRSPEGRLFREFPKVWRVCGEN 331 (855)
Q Consensus 290 ~AgW~i~~rkR~~--r~~~~~~y~sP~~~~~r~~~~aWk~cG~~ 331 (855)
-.||+-+-+.|.. +.++|.||.||.|+.||+.+++=++++++
T Consensus 7 p~GW~R~~~~r~~g~~~k~dv~Y~sP~Gk~~Rs~~ev~~yL~~~ 50 (62)
T cd00122 7 PPGWKRELVIRKSGSAGKGDVYYYSPCGKKLRSKPEVARYLEKT 50 (62)
T ss_pred CCCeEEEEEEcCCCCCCcceEEEECCCCceecCHHHHHHHHHhC
Confidence 4699999888885 89999999999999999999999998875
No 30
>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=95.17 E-value=0.012 Score=58.89 Aligned_cols=31 Identities=32% Similarity=0.863 Sum_probs=26.8
Q ss_pred ccccccccc--CCCCCCCcccccccccccCCCC
Q 003031 762 AFHQACLSI--QDLPTGSWFCSNCTCWICGDLV 792 (855)
Q Consensus 762 aFHlsCLgp--~~vPeG~W~Cp~C~C~ICge~~ 792 (855)
+||..||.| ..+|+|+|+||.|.....++..
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~~~~~ 33 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKSGQSA 33 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCCCCcc
Confidence 599999997 7899999999999987777653
No 31
>cd01396 MeCP2_MBD MeCP2, MBD1, MBD2, MBD3, and MBD4 are members of a protein family that share the methyl-CpG-binding domain (MBD). The MBD, consists of about 70 residues and is defined as the minimal region required for binding to methylated DNA by a methyl-CpG-binding protein which binds specifically to methylated DNA. The MBD can recognize a single symmetrically methylated CpG either as naked DNA or within chromatin. MeCP2, MBD1 and MBD2 (and likely MBD3) form complexes with histone deacetylase and are involved in histone deacetylase-dependent repression of transcription. MBD4 is an endonuclease that forms a complex with the DNA mismatch-repair protein MLH1.
Probab=94.92 E-value=0.019 Score=51.41 Aligned_cols=51 Identities=29% Similarity=0.391 Sum_probs=42.4
Q ss_pred HcCceeccccCCC--ccccceeeeCCCccccccchhHHHHhccc----ccccCCCCC
Q 003031 290 AAGWAVERRKRPS--RKYMDTIYRSPEGRLFREFPKVWRVCGEN----LLADGSNVV 340 (855)
Q Consensus 290 ~AgW~i~~rkR~~--r~~~~~~y~sP~~~~~r~~~~aWk~cG~~----L~~~~~~~~ 340 (855)
-.||..+-+.|.. ..++|.||.||.|+.||+.+++=++++.+ |-++..+|.
T Consensus 8 p~GW~r~~~~R~~gs~~k~DvyY~sP~Gkk~RS~~ev~~yL~~~~~~~~~~~~FdF~ 64 (77)
T cd01396 8 PPGWKRELVPRKSGSAGKFDVYYISPTGKKFRSKVELARYLEKNGPTSLDLSDFDFT 64 (77)
T ss_pred CCCCEEEEEEecCCCCCcceEEEECCCCCEEECHHHHHHHHHhCCCCCCcHhHcccC
Confidence 3699999888886 89999999999999999999999999874 544444444
No 32
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=94.65 E-value=0.013 Score=67.34 Aligned_cols=43 Identities=35% Similarity=0.874 Sum_probs=35.1
Q ss_pred ccccccccC-----CceeecCCCCCcccccccccC------CCCCCCccccccc
Q 003031 742 DSCGICGDG-----GELICCDNCPSAFHQACLSIQ------DLPTGSWFCSNCT 784 (855)
Q Consensus 742 D~C~VCgdG-----GeLLcCD~CPraFHlsCLgp~------~vPeG~W~Cp~C~ 784 (855)
..|.+|..| ..||.|+.|...||+.|+.+. .-+.+.|||..|.
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~ 222 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN 222 (464)
T ss_pred ceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc
Confidence 349999863 479999999999999999962 3356789998886
No 33
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=94.13 E-value=0.02 Score=66.02 Aligned_cols=45 Identities=27% Similarity=0.654 Sum_probs=36.1
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCCC----CCceeeCCcc
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAV----SEAWFCNQSC 836 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~p----~G~WFCs~~C 836 (855)
|.||.+. .+...++.||.|...||.+||.|++.-+| +..|.|+ .|
T Consensus 547 CgiCkks------~dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCs-EC 595 (707)
T KOG0957|consen 547 CGICKKS------TDQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCS-EC 595 (707)
T ss_pred eeeeccc------hhhHHHhhcchhhceeeccccCCccccCcccccCcceeec-cc
Confidence 8888875 11245789999999999999999987665 6789997 66
No 34
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=94.03 E-value=0.03 Score=69.78 Aligned_cols=47 Identities=30% Similarity=0.610 Sum_probs=35.7
Q ss_pred cccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCCCCCceeeCCccH
Q 003031 784 TCWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQ 837 (855)
Q Consensus 784 ~C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~Ck 837 (855)
.|.||.+. +..+...+++||.|..++|+.|..- +..++|.|+| +.|-
T Consensus 221 ~C~iC~~~----~~~n~n~ivfCD~Cnl~VHq~Cygi--~~ipeg~WlC-r~Cl 267 (1051)
T KOG0955|consen 221 VCCICLDG----ECQNSNVIVFCDGCNLAVHQECYGI--PFIPEGQWLC-RRCL 267 (1051)
T ss_pred cceeeccc----ccCCCceEEEcCCCcchhhhhccCC--CCCCCCcEee-hhhc
Confidence 37788765 2233467899999999999999982 3456999999 5774
No 35
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=93.86 E-value=0.03 Score=60.13 Aligned_cols=38 Identities=24% Similarity=0.678 Sum_probs=30.3
Q ss_pred CCcCccccc--ccch-hchhhhccCCcCCCCCCceeeCCccHHH
Q 003031 799 SSFDALKCS--QCEH-KYHGECLKDMSKGAVSEAWFCNQSCQEV 839 (855)
Q Consensus 799 s~~~LL~Cd--qCer-aYHv~CL~p~~~~~p~G~WFCs~~CkeI 839 (855)
+.+.|+-|| -|++ +||..|+... +.|+|.|||+ .|++.
T Consensus 230 SyGqMVaCDn~nCkrEWFH~~CVGLk--~pPKG~WYC~-eCk~~ 270 (271)
T COG5034 230 SYGQMVACDNANCKREWFHLECVGLK--EPPKGKWYCP-ECKKA 270 (271)
T ss_pred ccccceecCCCCCchhheeccccccC--CCCCCcEeCH-HhHhc
Confidence 347789998 7876 5899999874 6679999995 88764
No 36
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=93.84 E-value=0.015 Score=74.44 Aligned_cols=45 Identities=33% Similarity=0.982 Sum_probs=39.7
Q ss_pred ccccccccccC---CceeecCCCCCccccccccc--CCCCCCCccccccc
Q 003031 740 NDDSCGICGDG---GELICCDNCPSAFHQACLSI--QDLPTGSWFCSNCT 784 (855)
Q Consensus 740 ndD~C~VCgdG---GeLLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~ 784 (855)
....|.+|... ..++.|+.|...||..|+.+ ..+|.|+|+|+.|+
T Consensus 1107 ~~~~c~~cr~k~~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~ 1156 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCR 1156 (1404)
T ss_pred chhhhhhhhhcccchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccc
Confidence 44679999863 36999999999999999997 78999999999997
No 37
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=93.36 E-value=0.024 Score=72.55 Aligned_cols=50 Identities=24% Similarity=0.617 Sum_probs=40.9
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCCCCCceeeCCccHHHHh
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVGN 841 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~CkeI~~ 841 (855)
|.+|.+.. ....++.|+.|..+||.+|+++.....+.+.|||+ .|..-..
T Consensus 1111 c~~cr~k~------~~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~-~c~~e~~ 1160 (1404)
T KOG1245|consen 1111 CKVCRRKK------QDEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCP-SCRKEHR 1160 (1404)
T ss_pred hhhhhhcc------cchhhhhhHhhhhhHHHHhhhhhhccCCcCCccCC-ccchhhh
Confidence 89998752 12468999999999999999999888889999998 6665443
No 38
>PF01429 MBD: Methyl-CpG binding domain; InterPro: IPR001739 Methylation at CpG dinucleotide, the most common DNA modification in eukaryotes, has been correlated with gene silencing associated with various phenomena such as genomic imprinting, transposon and chromosome X inactivation, differentiation, and cancer. Effects of DNA methylation are mediated through proteins which bind to symmetrically methylated CpGs. Such proteins contain a specific domain of ~70 residues, the methyl-CpG-binding domain (MBD), which is linked to additional domains associated with chromatin, such as the bromodomain, the AT hook motif,the SET domain, or the PHD finger. MBD-containing proteins appear to act as structural proteins, which recruit a variety of histone deacetylase (HDAC) complexes and chromatin remodelling factors, leading to chromatin compaction and, consequently, to transcriptional repression. The MBD of MeCP2, MBD1, MBD2, MBD4 and BAZ2 mediates binding to DNA, in case of MeCP2, MBD1 and MBD2 preferentially to methylated CpG. In case of human MBD3 and SETDB1 the MBD has been shown to mediate protein-protein interactions [, ]. The MBD folds into an alpha/beta sandwich structure comprising a layer of twisted beta sheet, backed by another layer formed by the alpha1 helix and a hairpin loop at the C terminus. These layers are both amphipathic, with the alpha1 helix and the beta sheet lying parallel and the hydrophobic faces tightly packed against each other. The beta sheet is composed of two long inner strands (beta2 and beta3) sandwiched by two shorter outer strands (beta1 and beta4) [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 2KY8_A 1UB1_A 1D9N_A 1IG4_A 1QK9_A 3C2I_A.
Probab=92.66 E-value=0.077 Score=47.12 Aligned_cols=43 Identities=37% Similarity=0.446 Sum_probs=36.2
Q ss_pred HcCceeccccCCC---ccccceeeeCCCccccccchhHHHHhcccc
Q 003031 290 AAGWAVERRKRPS---RKYMDTIYRSPEGRLFREFPKVWRVCGENL 332 (855)
Q Consensus 290 ~AgW~i~~rkR~~---r~~~~~~y~sP~~~~~r~~~~aWk~cG~~L 332 (855)
-.||+.+-+.|.+ .-+++.||.||.|+.||++.++=+++++.-
T Consensus 12 p~GW~re~~~R~~g~~~~~~dv~Y~sP~Gk~~RS~~eV~~yL~~~~ 57 (77)
T PF01429_consen 12 PDGWKREVVVRKSGSSAGKKDVYYYSPCGKRFRSKKEVVRYLKENP 57 (77)
T ss_dssp TTT-EEEEEESSSSTTTTSEEEEEEETTSEEESSHHHHHHHHTTSS
T ss_pred CCCCEEEEEEecCCCcCCceEEEEECCCCCEEeCHHHHHHHHHhCC
Confidence 3699999987773 358999999999999999999999988765
No 39
>smart00391 MBD Methyl-CpG binding domain. Methyl-CpG binding domain, also known as the TAM (TTF-IIP5, ARBP, MeCP1) domain
Probab=90.77 E-value=0.17 Score=45.44 Aligned_cols=42 Identities=31% Similarity=0.502 Sum_probs=36.0
Q ss_pred HcCceeccccCC---CccccceeeeCCCccccccchhHHHHhccc
Q 003031 290 AAGWAVERRKRP---SRKYMDTIYRSPEGRLFREFPKVWRVCGEN 331 (855)
Q Consensus 290 ~AgW~i~~rkR~---~r~~~~~~y~sP~~~~~r~~~~aWk~cG~~ 331 (855)
-.||.=+-+.|. ++.+++-||.||.|+.+|+.+++=+.++++
T Consensus 9 p~GW~R~~~~r~~g~~~~~~dV~Y~sP~GkklRs~~ev~~YL~~~ 53 (77)
T smart00391 9 PCGWRRETKQRKSGRSAGKFDVYYISPCGKKLRSKSELARYLHKN 53 (77)
T ss_pred CCCcEEEEEEecCCCCCCcccEEEECCCCCeeeCHHHHHHHHHhC
Confidence 369987777666 467999999999999999999999999865
No 40
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=88.15 E-value=0.41 Score=55.49 Aligned_cols=45 Identities=29% Similarity=0.617 Sum_probs=31.7
Q ss_pred ccccccccccccCCceeecCCCCCcccccccccCCCCCCCcccccc
Q 003031 738 DKNDDSCGICGDGGELICCDNCPSAFHQACLSIQDLPTGSWFCSNC 783 (855)
Q Consensus 738 d~ndD~C~VCgdGGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C 783 (855)
..+.++|++|.+||.+++|+.|+.++|..|... ..|...|.|..|
T Consensus 86 ~~~~~~c~vc~~ggs~v~~~s~~~~~~r~c~~~-~~~~c~~~~~d~ 130 (463)
T KOG1081|consen 86 KIEPSECFVCFKGGSLVTCKSRIQAPHRKCKPA-QLEKCSKRCTDC 130 (463)
T ss_pred CCCcchhccccCCCccceeccccccccccCcCc-cCcccccCCcce
Confidence 456789999999999999997777777777654 233444444444
No 41
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=86.23 E-value=0.28 Score=56.92 Aligned_cols=45 Identities=27% Similarity=0.559 Sum_probs=34.4
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCCCCCceeeCCcc
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSC 836 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~C 836 (855)
|.+|..... ++...+++|+.|+-+-|..|..-+ -.|+|.|+| +.|
T Consensus 196 C~~c~~t~~----eN~naiVfCdgC~i~VHq~CYGI~--f~peG~WlC-rkC 240 (669)
T COG5141 196 CTKCTSTHN----ENSNAIVFCDGCEICVHQSCYGIQ--FLPEGFWLC-RKC 240 (669)
T ss_pred hHhcccccc----CCcceEEEecCcchhhhhhcccce--ecCcchhhh-hhh
Confidence 667776532 344678999999999999998764 346899999 455
No 42
>cd01397 HAT_MBD Methyl-CpG binding domains (MBD) present in putative chromatin remodelling factor such as BAZ2A; BAZ2A contains a MBD, DDT, PHD-type zinc finger and Bromo domain suggesting that BAZ2A might be associated with histone acetyltransferase (HAT) activity. The Drosophila melanogaster toutatis protein, a putative subunit of the chromatin-remodeling complex, and other such proteins in this group share a similar domain architecture with BAZ2A, as does the Caenorhabditis elegans flectin homolog.
Probab=85.68 E-value=0.61 Score=42.02 Aligned_cols=41 Identities=29% Similarity=0.572 Sum_probs=37.8
Q ss_pred HcCceeccccCC--CccccceeeeCCCccccccchhHHHHhcc
Q 003031 290 AAGWAVERRKRP--SRKYMDTIYRSPEGRLFREFPKVWRVCGE 330 (855)
Q Consensus 290 ~AgW~i~~rkR~--~r~~~~~~y~sP~~~~~r~~~~aWk~cG~ 330 (855)
..||+=|.+.|. +|.+.+-||.||-|+.+|+.+.+=+.+++
T Consensus 7 ~~GW~Re~vir~~~~~~~~dV~Y~aPcGKklRs~~ev~~yL~~ 49 (73)
T cd01397 7 ELGWRRETRIRGLGGRIQGEVAYYAPCGKKLRQYPEVIKYLSK 49 (73)
T ss_pred CCCceeEEEeccCCCCccceEEEECCCCcccccHHHHHHHHHh
Confidence 479999998888 69999999999999999999999999986
No 43
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=85.34 E-value=0.35 Score=58.08 Aligned_cols=47 Identities=23% Similarity=0.745 Sum_probs=36.9
Q ss_pred ccccCCCCCCCccCCCcCccccc--ccchhchhhhccCCcCCCCCCceeeCCccHH
Q 003031 785 CWICGDLVNDKEASSSFDALKCS--QCEHKYHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~Cd--qCeraYHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
|.+|-. +..+.+..++.|| -|.-+.|+.|..-. .+|.|.||| +.|..
T Consensus 8 CCVCSD----ErGWaeNPLVYCDG~nCsVAVHQaCYGIv--qVPtGpWfC-rKCes 56 (900)
T KOG0956|consen 8 CCVCSD----ERGWAENPLVYCDGHNCSVAVHQACYGIV--QVPTGPWFC-RKCES 56 (900)
T ss_pred eeeecC----cCCCccCceeeecCCCceeeeehhcceeE--ecCCCchhh-hhhhh
Confidence 667764 3345567899998 89999999998763 678999999 67764
No 44
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=82.39 E-value=0.94 Score=41.86 Aligned_cols=70 Identities=24% Similarity=0.571 Sum_probs=44.9
Q ss_pred cccccccCCceeecCCCCCccccccccc-C----------------CCCCCCcccccccccccCCCCCCCccCCCcCccc
Q 003031 743 SCGICGDGGELICCDNCPSAFHQACLSI-Q----------------DLPTGSWFCSNCTCWICGDLVNDKEASSSFDALK 805 (855)
Q Consensus 743 ~C~VCgdGGeLLcCD~CPraFHlsCLgp-~----------------~vPeG~W~Cp~C~C~ICge~~~D~e~~s~~~LL~ 805 (855)
.|.+|...|.++--..-....|..|... + .++...| .=.|.+|++. .+..+.
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~~~~i~~~~~---~~~C~iC~~~--------~G~~i~ 70 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVDISNIPPSRF---KLKCSICGKS--------GGACIK 70 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCcccceeecchhc---CCcCcCCCCC--------CceeEE
Confidence 4788877544444444577888888752 1 1111111 1238899974 356789
Q ss_pred ccc--cchhchhhhccCCcC
Q 003031 806 CSQ--CEHKYHGECLKDMSK 823 (855)
Q Consensus 806 Cdq--CeraYHv~CL~p~~~ 823 (855)
|.. |.+.||+.|......
T Consensus 71 C~~~~C~~~fH~~CA~~~g~ 90 (110)
T PF13832_consen 71 CSHPGCSTAFHPTCARKAGL 90 (110)
T ss_pred cCCCCCCcCCCHHHHHHCCC
Confidence 998 999999999987643
No 45
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=80.88 E-value=0.93 Score=38.83 Aligned_cols=35 Identities=31% Similarity=0.879 Sum_probs=28.0
Q ss_pred cccccccCCCCCCCccCCCcCcccccccchhchhhhccCC
Q 003031 782 NCTCWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDM 821 (855)
Q Consensus 782 ~C~C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~ 821 (855)
.++|.+||+...+. ..+++|..|..-||..|....
T Consensus 5 ~~~C~~Cg~~~~~~-----dDiVvCp~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKFKDG-----DDIVVCPECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcccCC-----CCEEECCCCCCcccHHHHhhC
Confidence 45799999975433 457999999999999998654
No 46
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=78.44 E-value=1.1 Score=38.35 Aligned_cols=29 Identities=28% Similarity=1.011 Sum_probs=25.9
Q ss_pred cccccccc----CCceeecCCCCCccccccccc
Q 003031 742 DSCGICGD----GGELICCDNCPSAFHQACLSI 770 (855)
Q Consensus 742 D~C~VCgd----GGeLLcCD~CPraFHlsCLgp 770 (855)
..|.+|++ +++++.|..|...||..|...
T Consensus 6 ~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~~~ 38 (54)
T PF14446_consen 6 CKCPVCGKKFKDGDDIVVCPECGAPYHRDCWEK 38 (54)
T ss_pred ccChhhCCcccCCCCEEECCCCCCcccHHHHhh
Confidence 56999996 789999999999999999964
No 47
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=74.25 E-value=1.7 Score=52.84 Aligned_cols=35 Identities=20% Similarity=0.637 Sum_probs=28.9
Q ss_pred cCcccccccchhchhhhccCCcCCCCCCceeeCCccHH
Q 003031 801 FDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 801 ~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
..|++|+.|.-.-|+.|..-. +.|.+.|.|. .|..
T Consensus 286 neMVfCd~Cn~cVHqaCyGIl--e~p~gpWlCr-~Cal 320 (893)
T KOG0954|consen 286 NEMVFCDKCNICVHQACYGIL--EVPEGPWLCR-TCAL 320 (893)
T ss_pred ceeEEeccchhHHHHhhhcee--ecCCCCeeeh-hccc
Confidence 568999999999999998764 6678999995 7753
No 48
>KOG4442 consensus Clathrin coat binding protein/Huntingtin interacting protein HIP1, involved in regulation of endocytosis [Intracellular trafficking, secretion, and vesicular transport]
Probab=69.92 E-value=1.7 Score=52.52 Aligned_cols=79 Identities=16% Similarity=0.200 Sum_probs=59.8
Q ss_pred CCCCCceeeecCCCccchhhhcC---------------CcccccccchHHHHHHHhCccccCCceeeeCCCCccccccce
Q 003031 601 GQKRPVTCRIKDDDLLGGELIKN---------------GMWFMEGTRTVLSWLIIAGIIALNDVIQYRNPKDDAVIKDGL 665 (855)
Q Consensus 601 ~~~~~~~~~i~dddLL~~~i~~n---------------gk~~~~g~RTVLSWLID~Glv~~rdkvqY~~~k~~~~LleG~ 665 (855)
+.+..|++-...+..+.+....| +||+|.+.-+| |||+-+.+....+.+|+|... +
T Consensus 170 ~~kh~Yfm~L~~~e~IDAT~KGnlaRFiNHSC~PNa~~~KWtV~~~lRv-------GiFakk~I~~GEEITFDYqf~--r 240 (729)
T KOG4442|consen 170 GIKHYYFMALQGGEYIDATKKGNLARFINHSCDPNAEVQKWTVPDELRV-------GIFAKKVIKPGEEITFDYQFD--R 240 (729)
T ss_pred CCceEEEEEecCCceecccccCcHHHhhcCCCCCCceeeeeeeCCeeEE-------EEeEecccCCCceeeEecccc--c
Confidence 44455666555544444444333 99999998887 999999999999999999987 5
Q ss_pred eecCCeEeccCCCccchhhhhhhcCCCCCcc
Q 003031 666 VTNNGIICKCCNLVFSVSQFKIHAGFKPNRP 696 (855)
Q Consensus 666 iT~dGI~C~CC~kv~S~S~FE~HAG~~~rrP 696 (855)
-.++...|-| +-.+|.||.+..|
T Consensus 241 YGr~AQ~CyC--------geanC~G~IGgk~ 263 (729)
T KOG4442|consen 241 YGRDAQPCYC--------GEANCRGWIGGKP 263 (729)
T ss_pred cccccccccc--------CCcccccccCCCC
Confidence 5677789988 7788888877653
No 49
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=69.48 E-value=1.4 Score=34.44 Aligned_cols=34 Identities=24% Similarity=0.679 Sum_probs=17.3
Q ss_pred cCcccccccchhchhhhccCCcCCCCCCceeeCCcc
Q 003031 801 FDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSC 836 (855)
Q Consensus 801 ~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~C 836 (855)
..++.|+.|.-..|..|..-..... ...|+|- -|
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~~~~-~~~W~C~-~C 35 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSEVPD-GDDWLCD-RC 35 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS--S-S-----H-HH
T ss_pred CceEEeCCCCCcCChhhCCcccCCC-CCcEECC-cC
Confidence 3578999999999999998753322 3369994 44
No 50
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=69.17 E-value=1.1 Score=56.37 Aligned_cols=47 Identities=23% Similarity=0.322 Sum_probs=41.4
Q ss_pred cccccccccccCCceeecCC-CCCcccc-ccccc----CCCCCCCcccccccc
Q 003031 739 KNDDSCGICGDGGELICCDN-CPSAFHQ-ACLSI----QDLPTGSWFCSNCTC 785 (855)
Q Consensus 739 ~ndD~C~VCgdGGeLLcCD~-CPraFHl-sCLgp----~~vPeG~W~Cp~C~C 785 (855)
-..+.|.+|+..+.++||++ ||..||+ .||+- ..++++-|+|++|.-
T Consensus 426 fi~rrl~Ie~~det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i~~~~ee~~ 478 (1414)
T KOG1473|consen 426 FISRRLRIEGMDETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGIWERREEII 478 (1414)
T ss_pred ceeeeeEEecCCCcEEEEecCcHHHHHHHHHhchHHHHHhhccchhhhHHHHH
Confidence 45577999999999999997 9999998 99993 578899999999973
No 51
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=64.11 E-value=3 Score=36.73 Aligned_cols=29 Identities=45% Similarity=0.944 Sum_probs=12.0
Q ss_pred cccccccc----CCc--eeecC--CCCCccccccccc
Q 003031 742 DSCGICGD----GGE--LICCD--NCPSAFHQACLSI 770 (855)
Q Consensus 742 D~C~VCgd----GGe--LLcCD--~CPraFHlsCLgp 770 (855)
..|.||.. .++ .+.|+ .|...||..||.-
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~ 39 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSE 39 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHH
Confidence 45888875 232 47898 7999999999973
No 52
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=59.80 E-value=6.5 Score=40.94 Aligned_cols=31 Identities=19% Similarity=0.728 Sum_probs=23.8
Q ss_pred cCcccccccchhchhhhccCCcCCCCCCceeeCCccHHHHh
Q 003031 801 FDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVGN 841 (855)
Q Consensus 801 ~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~CkeI~~ 841 (855)
.....|..|..-||..|.... -|| .|.++-.
T Consensus 170 ~~~~~C~~C~~v~H~~C~~~~---------~Cp-kC~R~~~ 200 (202)
T PF13901_consen 170 DTTVRCPKCKSVFHKSCFRKK---------SCP-KCARRQK 200 (202)
T ss_pred CCeeeCCcCccccchhhcCCC---------CCC-CcHhHhc
Confidence 356899999999999999851 176 7776643
No 53
>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=59.33 E-value=7.4 Score=45.34 Aligned_cols=63 Identities=25% Similarity=0.627 Sum_probs=41.5
Q ss_pred cccccccccccCCCCCCCccCCCcCcccccccchhchhhhccCCcC---CC-------CCCceeeCCccHHHHhhh
Q 003031 778 WFCSNCTCWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSK---GA-------VSEAWFCNQSCQEVGNKL 843 (855)
Q Consensus 778 W~Cp~C~C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~---~~-------p~G~WFCs~~CkeI~~~L 843 (855)
=||..|.|.+|++. |.. .++-.-+.|+.|.++-|..|.=.... +. ..+.-|++..|.+..+-|
T Consensus 124 gFC~~C~C~iC~kf--D~~-~n~~~Wi~Cd~CgH~cH~dCALr~~~i~~G~s~~g~~g~~d~~f~C~~C~~~seLl 196 (446)
T PF07227_consen 124 GFCRRCMCCICSKF--DDN-KNTCSWIGCDVCGHWCHLDCALRHELIGTGPSVKGSIGTLDMQFHCRACGKTSELL 196 (446)
T ss_pred CccccCCccccCCc--ccC-CCCeeEEeccCCCceehhhhhcccccccCCccCCCCCccCceEEEccCCCChhhHH
Confidence 46999999999985 322 23345688999999999999744321 11 122345557998765533
No 54
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=59.13 E-value=5.7 Score=41.14 Aligned_cols=36 Identities=31% Similarity=0.611 Sum_probs=26.8
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcC
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSK 823 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~ 823 (855)
|..|+..+.+ ..-+.|+.|..|..+||..||.+...
T Consensus 2 C~~C~~~g~~---~~kG~Lv~CQGCs~sYHk~CLG~Rs~ 37 (175)
T PF15446_consen 2 CDTCGYEGDD---RNKGPLVYCQGCSSSYHKACLGPRSQ 37 (175)
T ss_pred cccccCCCCC---ccCCCeEEcCccChHHHhhhcCCccc
Confidence 6677643222 23468999999999999999988743
No 55
>KOG3576 consensus Ovo and related transcription factors [Transcription]
Probab=58.24 E-value=3.2 Score=44.28 Aligned_cols=61 Identities=28% Similarity=0.592 Sum_probs=39.0
Q ss_pred CceeecCCCCCcc--------cccccccCCCCCCCcccccccccccCCCCCCCcc-------CCCcCcccccccchhchh
Q 003031 751 GELICCDNCPSAF--------HQACLSIQDLPTGSWFCSNCTCWICGDLVNDKEA-------SSSFDALKCSQCEHKYHG 815 (855)
Q Consensus 751 GeLLcCD~CPraF--------HlsCLgp~~vPeG~W~Cp~C~C~ICge~~~D~e~-------~s~~~LL~CdqCeraYHv 815 (855)
++...|+.|.++| |..|.... ....|..||+.-+|.-+ -.+..-..|..|+++|-.
T Consensus 115 ~d~ftCrvCgK~F~lQRmlnrh~kch~~v---------kr~lct~cgkgfndtfdlkrh~rthtgvrpykc~~c~kaftq 185 (267)
T KOG3576|consen 115 QDSFTCRVCGKKFGLQRMLNRHLKCHSDV---------KRHLCTFCGKGFNDTFDLKRHTRTHTGVRPYKCSLCEKAFTQ 185 (267)
T ss_pred CCeeeeehhhhhhhHHHHHHHHhhhccHH---------HHHHHhhccCcccchhhhhhhhccccCccccchhhhhHHHHh
Confidence 6677788888887 44454431 12348889985443211 123345789999999988
Q ss_pred hhccC
Q 003031 816 ECLKD 820 (855)
Q Consensus 816 ~CL~p 820 (855)
.|--+
T Consensus 186 rcsle 190 (267)
T KOG3576|consen 186 RCSLE 190 (267)
T ss_pred hccHH
Confidence 88543
No 56
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=54.13 E-value=7.1 Score=46.87 Aligned_cols=35 Identities=26% Similarity=0.673 Sum_probs=27.6
Q ss_pred cCcccccccchhchhhhccCCcCCCCCCceeeCCccHHHHhhh
Q 003031 801 FDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVGNKL 843 (855)
Q Consensus 801 ~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~CkeI~~~L 843 (855)
.+...|..|...||..|+.-.... || .|.++.++=
T Consensus 529 ~~~~rC~~C~avfH~~C~~r~s~~-------CP-rC~R~q~r~ 563 (580)
T KOG1829|consen 529 RNTRRCSTCLAVFHKKCLRRKSPC-------CP-RCERRQKRA 563 (580)
T ss_pred ccceeHHHHHHHHHHHHHhccCCC-------CC-chHHHHHHh
Confidence 556899999999999999875222 86 898887754
No 57
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=50.69 E-value=5.7 Score=35.30 Aligned_cols=31 Identities=26% Similarity=0.686 Sum_probs=24.3
Q ss_pred cccccCCCCCCCccCCCcCccccc--ccchhchhhhccCCc
Q 003031 784 TCWICGDLVNDKEASSSFDALKCS--QCEHKYHGECLKDMS 822 (855)
Q Consensus 784 ~C~ICge~~~D~e~~s~~~LL~Cd--qCeraYHv~CL~p~~ 822 (855)
.|.+|++. .+..+.|. .|.+.||+.|.....
T Consensus 38 ~C~~C~~~--------~Ga~i~C~~~~C~~~fH~~CA~~~~ 70 (90)
T PF13771_consen 38 KCSICKKK--------GGACIGCSHPGCSRSFHVPCARKAG 70 (90)
T ss_pred CCcCCCCC--------CCeEEEEeCCCCCcEEChHHHccCC
Confidence 48889875 24567887 599999999998764
No 58
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=50.39 E-value=8.3 Score=35.68 Aligned_cols=31 Identities=42% Similarity=0.981 Sum_probs=26.6
Q ss_pred cccccccccc-CCceeecCC--CCCccccccccc
Q 003031 740 NDDSCGICGD-GGELICCDN--CPSAFHQACLSI 770 (855)
Q Consensus 740 ndD~C~VCgd-GGeLLcCD~--CPraFHlsCLgp 770 (855)
....|.+|+. +|-.+-|.. |..+||..|...
T Consensus 54 ~~~~C~iC~~~~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 54 FKLKCSICGKSGGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred cCCcCcCCCCCCceeEEcCCCCCCcCCCHHHHHH
Confidence 3567999998 688999997 999999999864
No 59
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=50.14 E-value=10 Score=43.12 Aligned_cols=43 Identities=30% Similarity=0.652 Sum_probs=28.4
Q ss_pred cccccccc---CCceeecCCCCCcccccccccCCCCCCCcccccccc
Q 003031 742 DSCGICGD---GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCTC 785 (855)
Q Consensus 742 D~C~VCgd---GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~C 785 (855)
+.|.+|-+ .|+.+.==-|.-.||..|+++.-... .=+||-|+|
T Consensus 230 ~~CaIClEdY~~GdklRiLPC~H~FH~~CIDpWL~~~-r~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYEKGDKLRILPCSHKFHVNCIDPWLTQT-RTFCPVCKR 275 (348)
T ss_pred ceEEEeecccccCCeeeEecCCCchhhccchhhHhhc-CccCCCCCC
Confidence 79999987 45544445678899999999843322 224555554
No 60
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=48.69 E-value=9.1 Score=36.44 Aligned_cols=33 Identities=30% Similarity=0.829 Sum_probs=23.3
Q ss_pred CCCccccccccc-------CCCCCCCccccccc----ccccCCC
Q 003031 759 CPSAFHQACLSI-------QDLPTGSWFCSNCT----CWICGDL 791 (855)
Q Consensus 759 CPraFHlsCLgp-------~~vPeG~W~Cp~C~----C~ICge~ 791 (855)
|...|=..||.. +.+.++.|.||.|+ |..|.+.
T Consensus 36 ~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~CrgiCnCs~Crrk 79 (105)
T PF10497_consen 36 CRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRGICNCSFCRRK 79 (105)
T ss_pred CcceehHhHHHHHHhhhHHHHhcCCceECCCCCCeeCCHhhhcc
Confidence 366676667652 23456789999998 8888764
No 61
>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=48.43 E-value=2.9 Score=32.89 Aligned_cols=40 Identities=28% Similarity=0.654 Sum_probs=24.1
Q ss_pred cccccccc----CCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 742 DSCGICGD----GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 742 D~C~VCgd----GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
|.|.||.+ +..++... |+-.||..|+...... ...||.|+
T Consensus 1 d~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~~~~~~--~~~CP~CR 44 (44)
T PF13639_consen 1 DECPICLEEFEDGEKVVKLP-CGHVFHRSCIKEWLKR--NNSCPVCR 44 (44)
T ss_dssp -CETTTTCBHHTTSCEEEET-TSEEEEHHHHHHHHHH--SSB-TTTH
T ss_pred CCCcCCChhhcCCCeEEEcc-CCCeeCHHHHHHHHHh--CCcCCccC
Confidence 45888876 33455444 9999999999851111 12566663
No 62
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=46.86 E-value=8.1 Score=45.13 Aligned_cols=58 Identities=28% Similarity=0.528 Sum_probs=37.3
Q ss_pred cccccccccc----CCceeecCCCCCcccccccccCCCCCCCccccccc------------ccccCCCCCCCccCCCcCc
Q 003031 740 NDDSCGICGD----GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT------------CWICGDLVNDKEASSSFDA 803 (855)
Q Consensus 740 ndD~C~VCgd----GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~------------C~ICge~~~D~e~~s~~~L 803 (855)
.-..|.||-. .-..+.---|.-+||-.|+.... +-.||-|+ |..||.. ..+
T Consensus 174 ELPTCpVCLERMD~s~~gi~t~~c~Hsfh~~cl~~w~----~~scpvcR~~q~p~~ve~~~c~~c~~~---------~~L 240 (493)
T KOG0804|consen 174 ELPTCPVCLERMDSSTTGILTILCNHSFHCSCLMKWW----DSSCPVCRYCQSPSVVESSLCLACGCT---------EDL 240 (493)
T ss_pred cCCCcchhHhhcCccccceeeeecccccchHHHhhcc----cCcChhhhhhcCcchhhhhhhhhhccc---------ccE
Confidence 3467999964 22344555688899999997532 22366665 6667753 346
Q ss_pred ccccccc
Q 003031 804 LKCSQCE 810 (855)
Q Consensus 804 L~CdqCe 810 (855)
..|--|.
T Consensus 241 wicliCg 247 (493)
T KOG0804|consen 241 WICLICG 247 (493)
T ss_pred EEEEEcc
Confidence 6777776
No 63
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=45.58 E-value=13 Score=43.17 Aligned_cols=75 Identities=19% Similarity=0.647 Sum_probs=43.4
Q ss_pred cccccccC--CceeecCCCCCcccccccc-------cCCCC-----CCCccccccc-------ccccCCCCCCCccCCCc
Q 003031 743 SCGICGDG--GELICCDNCPSAFHQACLS-------IQDLP-----TGSWFCSNCT-------CWICGDLVNDKEASSSF 801 (855)
Q Consensus 743 ~C~VCgdG--GeLLcCD~CPraFHlsCLg-------p~~vP-----eG~W~Cp~C~-------C~ICge~~~D~e~~s~~ 801 (855)
-|.+|+.. +.+| --|+++||..|-. +..+| ...-||-.|- |.+|++++.-.+...
T Consensus 336 kC~~Cg~~I~d~iL--rA~GkayHp~CF~Cv~C~r~ldgipFtvd~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~-- 411 (468)
T KOG1701|consen 336 KCNKCGEPIMDRIL--RALGKAYHPGCFTCVVCARCLDGIPFTVDSQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKD-- 411 (468)
T ss_pred HHhhhhhHHHHHHH--HhcccccCCCceEEEEeccccCCccccccCCCceeeehhhhhhcCcchhhccCCccCCCCCc--
Confidence 36666541 2222 2367788877654 11111 3457787774 999999875443221
Q ss_pred CcccccccchhchhhhccCC
Q 003031 802 DALKCSQCEHKYHGECLKDM 821 (855)
Q Consensus 802 ~LL~CdqCeraYHv~CL~p~ 821 (855)
..+.--.=+|.||+.|..-.
T Consensus 412 etvRvvamdr~fHv~CY~CE 431 (468)
T KOG1701|consen 412 ETVRVVAMDRDFHVNCYKCE 431 (468)
T ss_pred ceEEEEEccccccccceehh
Confidence 12333445788999988654
No 64
>smart00258 SAND SAND domain.
Probab=44.90 E-value=13 Score=33.73 Aligned_cols=28 Identities=29% Similarity=0.536 Sum_probs=21.3
Q ss_pred CeEeccC---CCccchhhhhhhcCCCCCccc
Q 003031 670 GIICKCC---NLVFSVSQFKIHAGFKPNRPC 697 (855)
Q Consensus 670 GI~C~CC---~kv~S~S~FE~HAG~~~rrP~ 697 (855)
|+.+.|- ++.|||++|+.+||.....-|
T Consensus 22 G~~~kCI~~~~~~~TP~eFe~~~g~~~~K~W 52 (73)
T smart00258 22 GISVKCIQYEDKWFTPKEFEIEGGKGKSKDW 52 (73)
T ss_pred CcccCCccCCCEEEChHHHHhhcCCcccCCc
Confidence 5565553 688999999999998766544
No 65
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=44.39 E-value=3 Score=48.17 Aligned_cols=70 Identities=23% Similarity=0.584 Sum_probs=46.4
Q ss_pred ccccccccc--CCceeecCCCCCccccccccc-----------CCCCCCCccccccc------ccccCCCCCCCccCCCc
Q 003031 741 DDSCGICGD--GGELICCDNCPSAFHQACLSI-----------QDLPTGSWFCSNCT------CWICGDLVNDKEASSSF 801 (855)
Q Consensus 741 dD~C~VCgd--GGeLLcCD~CPraFHlsCLgp-----------~~vPeG~W~Cp~C~------C~ICge~~~D~e~~s~~ 801 (855)
...|..|+. .|+-.-|.-=.+.||..|-.- .-.-++.-||..|- |..||+.+.|.
T Consensus 274 ~~iC~~C~K~V~g~~~ac~Am~~~fHv~CFtC~~C~r~L~Gq~FY~v~~k~~CE~cyq~tlekC~~Cg~~I~d~------ 347 (468)
T KOG1701|consen 274 FGICAFCHKTVSGQGLAVEAMDQLFHVQCFTCRTCRRQLAGQSFYQVDGKPYCEGCYQDTLEKCNKCGEPIMDR------ 347 (468)
T ss_pred hhhhhhcCCcccCcchHHHHhhhhhcccceehHhhhhhhccccccccCCcccchHHHHHHHHHHhhhhhHHHHH------
Confidence 347999987 466666766677899888652 11225677899995 99999875432
Q ss_pred Ccccccccchhchhhhcc
Q 003031 802 DALKCSQCEHKYHGECLK 819 (855)
Q Consensus 802 ~LL~CdqCeraYHv~CL~ 819 (855)
+ =..|.++||..|..
T Consensus 348 -i--LrA~GkayHp~CF~ 362 (468)
T KOG1701|consen 348 -I--LRALGKAYHPGCFT 362 (468)
T ss_pred -H--HHhcccccCCCceE
Confidence 1 23566777776654
No 66
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=43.30 E-value=12 Score=33.20 Aligned_cols=30 Identities=33% Similarity=0.835 Sum_probs=25.9
Q ss_pred cccccccccC-CceeecCC--CCCccccccccc
Q 003031 741 DDSCGICGDG-GELICCDN--CPSAFHQACLSI 770 (855)
Q Consensus 741 dD~C~VCgdG-GeLLcCD~--CPraFHlsCLgp 770 (855)
...|.+|+.. |-.+-|.. |...||..|...
T Consensus 36 ~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 36 KLKCSICKKKGGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCCcCCCCCCCeEEEEeCCCCCcEEChHHHcc
Confidence 3569999998 99999985 999999999864
No 67
>PF07897 DUF1675: Protein of unknown function (DUF1675); InterPro: IPR012463 The members of this family are sequences derived from hypothetical plant proteins of unknown function. One member of this family (Q9SFV5 from SWISSPROT) is annotated as a putative RNA-binding protein, but no evidence was found to support this.
Probab=42.32 E-value=31 Score=38.34 Aligned_cols=30 Identities=30% Similarity=0.523 Sum_probs=24.8
Q ss_pred eEeccCCCccchhhhhhhcCCCCCc-ccccc
Q 003031 671 IICKCCNLVFSVSQFKIHAGFKPNR-PCLNL 700 (855)
Q Consensus 671 I~C~CC~kv~S~S~FE~HAG~~~rr-P~~nI 700 (855)
|+|.|-+.-++|.+|-.|||..... |-.+|
T Consensus 253 i~c~chg~~~~~~efv~h~~~~~~~~p~~hi 283 (284)
T PF07897_consen 253 IVCVCHGSFLSPAEFVKHAGGGDVANPLRHI 283 (284)
T ss_pred EEEEecCCCCCHHHHHHhcCCCCcCCchhcc
Confidence 8999999999999999999986543 55444
No 68
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=40.44 E-value=23 Score=42.36 Aligned_cols=47 Identities=21% Similarity=0.276 Sum_probs=38.5
Q ss_pred ccccccccccccCCceeecCCCCCccccccccc-CCCC--CCCccccccc
Q 003031 738 DKNDDSCGICGDGGELICCDNCPSAFHQACLSI-QDLP--TGSWFCSNCT 784 (855)
Q Consensus 738 d~ndD~C~VCgdGGeLLcCD~CPraFHlsCLgp-~~vP--eG~W~Cp~C~ 784 (855)
...+.+|+-|.-.|..+.|+.|.+.||..|+.+ ...+ ...|.|+.|.
T Consensus 57 ~N~d~~cfechlpg~vl~c~vc~Rs~h~~c~sp~~q~r~~s~p~~~p~p~ 106 (588)
T KOG3612|consen 57 SNIDPFCFECHLPGAVLKCIVCHRSFHENCQSPDPQKRNYSVPSDKPQPY 106 (588)
T ss_pred cCCCcccccccCCcceeeeehhhccccccccCcchhhccccccccCCccc
Confidence 345668999999999999999999999999997 3333 3369988886
No 69
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=39.88 E-value=20 Score=37.41 Aligned_cols=30 Identities=30% Similarity=0.802 Sum_probs=24.4
Q ss_pred cccccccccC--------CceeecCCCCCccccccccc
Q 003031 741 DDSCGICGDG--------GELICCDNCPSAFHQACLSI 770 (855)
Q Consensus 741 dD~C~VCgdG--------GeLLcCD~CPraFHlsCLgp 770 (855)
...|.+|.+. .....|..|...||..|...
T Consensus 152 GfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~ 189 (202)
T PF13901_consen 152 GFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK 189 (202)
T ss_pred CCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC
Confidence 3578888863 35788999999999999974
No 70
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=39.52 E-value=14 Score=41.73 Aligned_cols=41 Identities=32% Similarity=0.708 Sum_probs=35.3
Q ss_pred Ccccccccchhchhhh--ccCCcCCCC-CCceeeCCccHHHHhhh
Q 003031 802 DALKCSQCEHKYHGEC--LKDMSKGAV-SEAWFCNQSCQEVGNKL 843 (855)
Q Consensus 802 ~LL~CdqCeraYHv~C--L~p~~~~~p-~G~WFCs~~CkeI~~~L 843 (855)
.+..|+.|..+||..| ++.+..+.+ ...|+| ..|+....++
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~~e~p~~~~~~c-~~c~~~~~~~ 117 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAEKEAPKEDPKVC-DECKEAQDGM 117 (345)
T ss_pred hhhccccccccccccccccCchhhcCCccccccc-cccchhhhhh
Confidence 4678999999999999 888766665 899999 7999988777
No 71
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=39.13 E-value=16 Score=32.16 Aligned_cols=35 Identities=29% Similarity=0.649 Sum_probs=13.5
Q ss_pred cccccCCCCCCCccCCCcCccccc--ccchhchhhhccCC
Q 003031 784 TCWICGDLVNDKEASSSFDALKCS--QCEHKYHGECLKDM 821 (855)
Q Consensus 784 ~C~ICge~~~D~e~~s~~~LL~Cd--qCeraYHv~CL~p~ 821 (855)
.|.||.....+. .....+.|+ .|.+.||..||..-
T Consensus 4 ~C~IC~~~~~~~---~~~p~~~C~n~~C~~~fH~~CL~~w 40 (70)
T PF11793_consen 4 ECGICYSYRLDD---GEIPDVVCPNPSCGKKFHLLCLSEW 40 (70)
T ss_dssp S-SSS--SS-TT--------B--S-TT----B-SGGGHHH
T ss_pred CCCcCCcEecCC---CCcCceEcCCcccCCHHHHHHHHHH
Confidence 378888753311 123458898 99999999999654
No 72
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=38.37 E-value=19 Score=42.36 Aligned_cols=30 Identities=33% Similarity=0.857 Sum_probs=18.6
Q ss_pred ceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 752 ELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 752 eLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
+|.+|..|...=...|+..+ -..||||.|.
T Consensus 4 ~L~fC~~C~~irc~~c~~~E---i~~~yCp~CL 33 (483)
T PF05502_consen 4 ELYFCEHCHKIRCPRCVSEE---IDSYYCPNCL 33 (483)
T ss_pred cceecccccccCChhhcccc---cceeECcccc
Confidence 46677777665555566442 2358888885
No 73
>PF10497 zf-4CXXC_R1: Zinc-finger domain of monoamine-oxidase A repressor R1; InterPro: IPR018866 R1 is a transcription factor repressor that inhibits monoamine oxidase A gene expression. This domain is a four-CXXC zinc finger putative DNA-binding domain found at the C-terminal end of R1. The domain carries 12 cysteines of which four pairs are of the CXXC type [].
Probab=38.09 E-value=10 Score=36.06 Aligned_cols=32 Identities=28% Similarity=0.831 Sum_probs=22.5
Q ss_pred ccccchhchhhhccCCcCCC-----CCCceeeCCccHH
Q 003031 806 CSQCEHKYHGECLKDMSKGA-----VSEAWFCNQSCQE 838 (855)
Q Consensus 806 CdqCeraYHv~CL~p~~~~~-----p~G~WFCs~~Cke 838 (855)
|..|...|+..||.....+. ...+|.|| .|..
T Consensus 33 C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP-~Crg 69 (105)
T PF10497_consen 33 CRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCP-KCRG 69 (105)
T ss_pred CccCcceehHhHHHHHHhhhHHHHhcCCceECC-CCCC
Confidence 44558899999997764433 27899998 5543
No 74
>KOG2752 consensus Uncharacterized conserved protein, contains N-recognin-type Zn-finger [General function prediction only]
Probab=35.47 E-value=22 Score=40.08 Aligned_cols=35 Identities=23% Similarity=0.561 Sum_probs=24.7
Q ss_pred cCCCCCCCccCCCcCcccccccchhch-hhhccCCc
Q 003031 788 CGDLVNDKEASSSFDALKCSQCEHKYH-GECLKDMS 822 (855)
Q Consensus 788 Cge~~~D~e~~s~~~LL~CdqCeraYH-v~CL~p~~ 822 (855)
|..+..+....-++.|++|--|+-+|| .+|++...
T Consensus 133 Cd~~Ypdp~~~~e~~m~QC~iCEDWFHce~c~~~~~ 168 (345)
T KOG2752|consen 133 CDTPYPDPVRTEEGEMLQCVICEDWFHCEGCMQAKT 168 (345)
T ss_pred ecCCCCCccccccceeeeEEeccchhcccccCcccc
Confidence 445543322334577999999999999 99998653
No 75
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=35.14 E-value=26 Score=44.04 Aligned_cols=51 Identities=31% Similarity=0.834 Sum_probs=41.2
Q ss_pred ccccccccccCCc--eeecCCCCCccccccccc--CCCCCCCcccccccccccCC
Q 003031 740 NDDSCGICGDGGE--LICCDNCPSAFHQACLSI--QDLPTGSWFCSNCTCWICGD 790 (855)
Q Consensus 740 ndD~C~VCgdGGe--LLcCD~CPraFHlsCLgp--~~vPeG~W~Cp~C~C~ICge 790 (855)
....|..|..+.+ ++.|+.|...||..|..+ +.++++.|.|+.|....|..
T Consensus 154 ~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (904)
T KOG1246|consen 154 DYPQCNTCSKGKEEKLLLCDSCDDSYHTYCLRPPLTRVPDGDWRCPKCIPTPESK 208 (904)
T ss_pred cchhhhccccCCCccceecccccCcccccccCCCCCcCCcCcccCCcccccccCC
Confidence 3456899987652 349999999999999996 78889999999998765543
No 76
>smart00547 ZnF_RBZ Zinc finger domain. Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.
Probab=33.32 E-value=23 Score=25.15 Aligned_cols=9 Identities=56% Similarity=1.590 Sum_probs=7.1
Q ss_pred CCccccccc
Q 003031 776 GSWFCSNCT 784 (855)
Q Consensus 776 G~W~Cp~C~ 784 (855)
|+|.|+.|.
T Consensus 1 g~W~C~~C~ 9 (26)
T smart00547 1 GDWECPACT 9 (26)
T ss_pred CcccCCCCC
Confidence 579988875
No 77
>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 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 zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....
Probab=32.25 E-value=20 Score=26.56 Aligned_cols=10 Identities=50% Similarity=1.487 Sum_probs=8.2
Q ss_pred CCCccccccc
Q 003031 775 TGSWFCSNCT 784 (855)
Q Consensus 775 eG~W~Cp~C~ 784 (855)
.|+|.|+.|.
T Consensus 2 ~g~W~C~~C~ 11 (30)
T PF00641_consen 2 EGDWKCPSCT 11 (30)
T ss_dssp SSSEEETTTT
T ss_pred CcCccCCCCc
Confidence 5789998886
No 78
>PLN02400 cellulose synthase
Probab=31.56 E-value=42 Score=43.25 Aligned_cols=45 Identities=29% Similarity=0.835 Sum_probs=36.2
Q ss_pred ccccccccccc-------CCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 739 KNDDSCGICGD-------GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 739 ~ndD~C~VCgd-------GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
.+...|++|+| |.-.+.|..|.-..-..|+.- +..+|.=.||.|+
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY-ERkeGnq~CPQCk 85 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY-ERKDGTQCCPQCK 85 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchhhe-ecccCCccCcccC
Confidence 35568999998 456889999988888888854 5667888899997
No 79
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=30.13 E-value=37 Score=41.51 Aligned_cols=20 Identities=20% Similarity=0.524 Sum_probs=10.1
Q ss_pred ccccccc--CCceeecCCCCCc
Q 003031 743 SCGICGD--GGELICCDNCPSA 762 (855)
Q Consensus 743 ~C~VCgd--GGeLLcCD~CPra 762 (855)
.|..|+. ......|..|+..
T Consensus 3 ~Cp~Cg~~n~~~akFC~~CG~~ 24 (645)
T PRK14559 3 ICPQCQFENPNNNRFCQKCGTS 24 (645)
T ss_pred cCCCCCCcCCCCCccccccCCC
Confidence 3555554 2344456666554
No 80
>PLN03086 PRLI-interacting factor K; Provisional
Probab=29.29 E-value=37 Score=41.02 Aligned_cols=27 Identities=11% Similarity=0.425 Sum_probs=21.9
Q ss_pred cCCeEeccCCCccchhhhhhhcCCCCC
Q 003031 668 NNGIICKCCNLVFSVSQFKIHAGFKPN 694 (855)
Q Consensus 668 ~dGI~C~CC~kv~S~S~FE~HAG~~~r 694 (855)
.+-++|..|...+....++.|-.+-.+
T Consensus 405 ~~~V~C~NC~~~i~l~~l~lHe~~C~r 431 (567)
T PLN03086 405 VDTVECRNCKHYIPSRSIALHEAYCSR 431 (567)
T ss_pred CCeEECCCCCCccchhHHHHHHhhCCC
Confidence 345789999999999999999765443
No 81
>KOG1169 consensus Diacylglycerol kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=29.06 E-value=26 Score=42.66 Aligned_cols=78 Identities=27% Similarity=0.704 Sum_probs=50.5
Q ss_pred cccccccccC-CceeecCCCCCccccccccc---C------------CCCCCCccccccc---ccccCCCCCCCccCCCc
Q 003031 741 DDSCGICGDG-GELICCDNCPSAFHQACLSI---Q------------DLPTGSWFCSNCT---CWICGDLVNDKEASSSF 801 (855)
Q Consensus 741 dD~C~VCgdG-GeLLcCD~CPraFHlsCLgp---~------------~vPeG~W~Cp~C~---C~ICge~~~D~e~~s~~ 801 (855)
...|.+|+.+ ...++|+-|+...|..|+.. . .+-...|.+..+. |..|.....- ..+.
T Consensus 116 ~~~c~~~~~~~~~g~~C~~C~~~vh~~C~~~~~~~~~~~~~~~~~r~~v~~~~~~~~~~~~~~~~~~~~~~~~---~~~~ 192 (634)
T KOG1169|consen 116 PKSCGSCGVGIKQGLCCDWCGRTVHERCVRRADPECQCKCDLGRLRKIVLDHPWVKGNAGEAKCDQCLKSVKA---DQGL 192 (634)
T ss_pred cccccchhhcccCceeeccccchHHHHHHhhcCcccccccccccccceeecCcccccccCCccchhhhccccc---cccc
Confidence 3446666665 67899999999999999973 1 1112345555552 5555443211 1224
Q ss_pred CcccccccchhchhhhccCC
Q 003031 802 DALKCSQCEHKYHGECLKDM 821 (855)
Q Consensus 802 ~LL~CdqCeraYHv~CL~p~ 821 (855)
....|..|-+.+|..|....
T Consensus 193 ~~~~c~~~~~~~h~~~~~~~ 212 (634)
T KOG1169|consen 193 TGPRCGWCQIRVHDKCKSEL 212 (634)
T ss_pred cccccceeeeeeecchHHHH
Confidence 46789999999999997643
No 82
>PLN02436 cellulose synthase A
Probab=28.60 E-value=48 Score=42.72 Aligned_cols=45 Identities=27% Similarity=0.823 Sum_probs=35.8
Q ss_pred ccccccccccc-------CCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 739 KNDDSCGICGD-------GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 739 ~ndD~C~VCgd-------GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
.+...|++|+| |.-.+.|..|.-..-..|+.- +..+|.=.||.|+
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cyey-er~eg~~~Cpqck 85 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYEY-ERREGNQACPQCK 85 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhhcCCccCcccC
Confidence 34568999998 456889999988888888844 5667788899997
No 83
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=28.51 E-value=29 Score=41.78 Aligned_cols=37 Identities=22% Similarity=0.551 Sum_probs=26.8
Q ss_pred Cccccccc-----------ccccCCCCCCCccCCCcCcccccccchhchhhhccCC
Q 003031 777 SWFCSNCT-----------CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDM 821 (855)
Q Consensus 777 ~W~Cp~C~-----------C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~ 821 (855)
.|||+.|. |+.||-.. ..--.|+.|++.|++.+|..+
T Consensus 126 ~~Yc~~~e~fl~dr~v~g~cp~cg~~~--------arGD~Ce~Cg~~~~P~~l~~p 173 (558)
T COG0143 126 GLYCVSCERFLPDRYVEGTCPKCGGED--------ARGDQCENCGRTLDPTELINP 173 (558)
T ss_pred eeEcccccccccchheeccCCCcCccc--------cCcchhhhccCcCCchhcCCC
Confidence 58888886 88888431 111369999999999987544
No 84
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=28.27 E-value=27 Score=32.68 Aligned_cols=27 Identities=22% Similarity=0.584 Sum_probs=16.4
Q ss_pred CCCCccccccccc-CCCCCCCccccccc
Q 003031 758 NCPSAFHQACLSI-QDLPTGSWFCSNCT 784 (855)
Q Consensus 758 ~CPraFHlsCLgp-~~vPeG~W~Cp~C~ 784 (855)
.|.-.||..|+.. .......=.||.|+
T Consensus 51 ~C~H~FH~hCI~kWl~~~~~~~~CPmCR 78 (85)
T PF12861_consen 51 KCSHNFHMHCILKWLSTQSSKGQCPMCR 78 (85)
T ss_pred cCccHHHHHHHHHHHccccCCCCCCCcC
Confidence 4999999999984 11112223566654
No 85
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=27.85 E-value=20 Score=41.32 Aligned_cols=44 Identities=32% Similarity=0.699 Sum_probs=29.8
Q ss_pred ccccccccccccC----C------------ceeecCCCCCcccccccccCCCCCCCcccccccccccCCC
Q 003031 738 DKNDDSCGICGDG----G------------ELICCDNCPSAFHQACLSIQDLPTGSWFCSNCTCWICGDL 791 (855)
Q Consensus 738 d~ndD~C~VCgdG----G------------eLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~C~ICge~ 791 (855)
...|..|.+|.|+ + +-+- |+-.+|+.||.. |.=..=.|+||..+
T Consensus 284 ~n~D~~C~ICmde~~h~~~~~~~~~~~~~pKrLp---CGHilHl~CLkn-------W~ERqQTCPICr~p 343 (491)
T COG5243 284 TNSDRTCTICMDEMFHPDHEPLPRGLDMTPKRLP---CGHILHLHCLKN-------WLERQQTCPICRRP 343 (491)
T ss_pred cCCCCeEEEecccccCCCCccCcccccCCccccc---ccceeeHHHHHH-------HHHhccCCCcccCc
Confidence 3456789999884 2 2223 566699999975 43333458889888
No 86
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.78 E-value=22 Score=39.54 Aligned_cols=60 Identities=20% Similarity=0.485 Sum_probs=36.3
Q ss_pred cccccCCCCCCCccCCC-cCcccccccchhchhhhccCCcCCCCCCceeeCCccHHHHhhhccccc
Q 003031 784 TCWICGDLVNDKEASSS-FDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQEVGNKLGQGRV 848 (855)
Q Consensus 784 ~C~ICge~~~D~e~~s~-~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~CkeI~~~L~q~Lv 848 (855)
.|.+||+......++.+ ..-..=-.|.+.||..|++.-.. ....-+|| .|++--+ | +.+.
T Consensus 226 vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrGWci--vGKkqtCP-YCKekVd-l-~rmf 286 (328)
T KOG1734|consen 226 VCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRGWCI--VGKKQTCP-YCKEKVD-L-KRMF 286 (328)
T ss_pred hhHhhcchheeecchhhhhhhheeeecccchHHHhhhhhee--ecCCCCCc-hHHHHhh-H-hhhc
Confidence 48999987543321110 01122347899999999998632 24456897 9988655 4 4443
No 87
>PF01342 SAND: SAND domain; InterPro: IPR000770 The SAND domain (named after Sp100, AIRE-1, NucP41/75, DEAF-1) is a conserved ~80 residue region found in a number of nuclear proteins, many of which function in chromatin-dependent transcriptional control. These include proteins linked to various human diseases, such as the Sp100 (Speckled protein 100 kDa), NUDR (Nuclear DEAF-1 related), GMEB (Glucocorticoid Modulatory Element Binding) proteins and AIRE-1 (Autoimmune regulator 1) proteins. Proteins containing the SAND domain have a modular structure; the SAND domain can be associated with a number of other modules, including the bromodomain, the PHD finger and the MYND finger. Because no SAND domain has been found in yeast, it is thought that the SAND domain could be restricted to animal phyla. Many SAND domain-containing proteins, including NUDR, DEAF-1 (Deformed epidermal autoregulatory factor-1) and GMEB, have been shown to bind DNA sequences specifically. The SAND domain has been proposed to mediate the DNA binding activity of these proteins [, ]. The resolution of the 3D structure of the SAND domain from Sp100b has revealed that it consists of a novel alpha/beta fold. The SAND domain adopts a compact fold consisting of a strongly twisted, five-stranded antiparallel beta-sheet with four alpha-helices packing against one side of the beta-sheet. The opposite side of the beta-sheet is solvent exposed. The beta-sheet and alpha-helical parts of the structure form two distinct regions. Multiple hydrophobic residues pack between these regions to form a structural core. A conserved KDWK sequence motif is found within the alpha-helical, positively charged surface patch. The DNA binding surface has been mapped to the alpha-helical region encompassing the KDWK motif [].; GO: 0003677 DNA binding, 0005634 nucleus; PDB: 1OQJ_B 1UFN_A 1H5P_A.
Probab=27.72 E-value=22 Score=32.52 Aligned_cols=31 Identities=23% Similarity=0.425 Sum_probs=20.7
Q ss_pred CCccchhhhhhhcCCCCCccc-ccccccCCCcc
Q 003031 677 NLVFSVSQFKIHAGFKPNRPC-LNLVMESGKPF 708 (855)
Q Consensus 677 ~kv~S~S~FE~HAG~~~rrP~-~nI~LedGkSL 708 (855)
++.+||++||.|||....+-| .+|.+ .|.+|
T Consensus 41 g~~~TP~eFE~~~G~~~sK~WK~SIr~-~g~~L 72 (82)
T PF01342_consen 41 GRWFTPSEFERHGGKGSSKDWKRSIRC-GGEPL 72 (82)
T ss_dssp TEEE-HHHHHHHHTTCTCS-HHHHSEE-TTEEH
T ss_pred CcEECHHHHHhhcCcccCCCCCccEEE-CCEEH
Confidence 788999999999998776533 33444 34443
No 88
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=27.63 E-value=48 Score=42.77 Aligned_cols=45 Identities=29% Similarity=0.803 Sum_probs=36.3
Q ss_pred ccccccccccc-------CCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 739 KNDDSCGICGD-------GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 739 ~ndD~C~VCgd-------GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
.+...|.+||| |.-.+.|..|.-..-..|+.- +..+|.=.||.|+
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYEY-Er~eG~q~CPqCk 66 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYEY-ERKDGNQSCPQCK 66 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCCCccccchhhh-hhhcCCccCCccC
Confidence 35568999998 456889999988888888854 5667888899997
No 89
>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=27.58 E-value=26 Score=25.95 Aligned_cols=28 Identities=32% Similarity=0.793 Sum_probs=12.1
Q ss_pred ccccCCCCCCCccCCCcCcccccccchhchhhhc
Q 003031 785 CWICGDLVNDKEASSSFDALKCSQCEHKYHGECL 818 (855)
Q Consensus 785 C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL 818 (855)
|..|++++. +.....|.+|+-..|..|.
T Consensus 3 C~~C~~~~~------~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 3 CDACGKPID------GGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp -TTTS----------S--EEE-TTT-----HHHH
T ss_pred CCcCCCcCC------CCceEECccCCCccChhcC
Confidence 778887632 1356899999999999984
No 90
>PRK04023 DNA polymerase II large subunit; Validated
Probab=27.29 E-value=42 Score=42.97 Aligned_cols=35 Identities=20% Similarity=0.508 Sum_probs=24.6
Q ss_pred cccccccccccCCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 739 KNDDSCGICGDGGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 739 ~ndD~C~VCgdGGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
.....|..|+.......|..|+.. +...|+|+.|.
T Consensus 624 Vg~RfCpsCG~~t~~frCP~CG~~-----------Te~i~fCP~CG 658 (1121)
T PRK04023 624 IGRRKCPSCGKETFYRRCPFCGTH-----------TEPVYRCPRCG 658 (1121)
T ss_pred ccCccCCCCCCcCCcccCCCCCCC-----------CCcceeCcccc
Confidence 345678889887777778888764 33457888884
No 91
>cd01395 HMT_MBD Methyl-CpG binding domains (MBD) present in putative histone methyltransferases (HMT) such as CLLD8 and SETDB1 proteins; CLLD8 contains a MBD, a PreSET and a bifurcated SET domain, suggesting that CLLD8 might be associated with methylation-mediated transcriptional repression. SETDB1 and other proteins in this group have a similar domain architecture. SETDB1 is a novel KAP-1-associated histone H3, lysine 9-specific methyltransferase that contributes to HP1-mediated silencing of euchromatic genes by KRAB zinc-finger proteins.
Probab=26.19 E-value=55 Score=28.79 Aligned_cols=41 Identities=24% Similarity=0.447 Sum_probs=32.1
Q ss_pred cCceeccccCC-CccccceeeeCCCccccccchhHHHHhccc
Q 003031 291 AGWAVERRKRP-SRKYMDTIYRSPEGRLFREFPKVWRVCGEN 331 (855)
Q Consensus 291 AgW~i~~rkR~-~r~~~~~~y~sP~~~~~r~~~~aWk~cG~~ 331 (855)
-||.=..++|+ +.-+-+=+|+||-|+.+|.++.+=+.+=+.
T Consensus 8 ~gw~R~~~~~~~~~~k~~V~Y~aPCGr~Lr~~~EV~~YL~~t 49 (60)
T cd01395 8 CGFQRMKYRARVGKVKKHVIYKAPCGRSLRNMSEVHRYLRET 49 (60)
T ss_pred cCeEEEEEeccCCCcccceEEECCcchhhhcHHHHHHHHHhc
Confidence 58987777776 345666899999999999999887776544
No 92
>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=25.06 E-value=50 Score=26.73 Aligned_cols=30 Identities=33% Similarity=0.764 Sum_probs=23.8
Q ss_pred ccccccccc-----CCceeecCCCCCccccccccc
Q 003031 741 DDSCGICGD-----GGELICCDNCPSAFHQACLSI 770 (855)
Q Consensus 741 dD~C~VCgd-----GGeLLcCD~CPraFHlsCLgp 770 (855)
...|.+|+. +...+.|..|....|..|+..
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~ 45 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSK 45 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCT
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhh
Confidence 357999986 467899999999999999975
No 93
>PLN02189 cellulose synthase
Probab=25.01 E-value=60 Score=41.77 Aligned_cols=45 Identities=27% Similarity=0.790 Sum_probs=35.6
Q ss_pred ccccccccccc-------CCceeecCCCCCcccccccccCCCCCCCccccccc
Q 003031 739 KNDDSCGICGD-------GGELICCDNCPSAFHQACLSIQDLPTGSWFCSNCT 784 (855)
Q Consensus 739 ~ndD~C~VCgd-------GGeLLcCD~CPraFHlsCLgp~~vPeG~W~Cp~C~ 784 (855)
.+...|.+|+| |.-.+.|..|.-..-..|+.- +..+|.=.||.|+
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cyey-er~eg~q~CpqCk 83 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYEY-ERREGTQNCPQCK 83 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCCCccccchhhh-hhhcCCccCcccC
Confidence 35568999997 446889999988888888844 5667888899997
No 94
>KOG0269 consensus WD40 repeat-containing protein [Function unknown]
Probab=24.75 E-value=29 Score=43.03 Aligned_cols=40 Identities=28% Similarity=0.621 Sum_probs=31.7
Q ss_pred Cccccccc------ccccCCCCCCCccCCCcCcccccccchhchhhhccCCcC
Q 003031 777 SWFCSNCT------CWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSK 823 (855)
Q Consensus 777 ~W~Cp~C~------C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~ 823 (855)
.|+|..|. |.+|+-.+. +....|.+|++.=|..|+..-..
T Consensus 768 ~~~c~rc~s~a~~~CtVC~~vi~-------G~~~~c~~C~H~gH~sh~~sw~~ 813 (839)
T KOG0269|consen 768 LWQCDRCESRASAKCTVCDLVIR-------GVDVWCQVCGHGGHDSHLKSWFF 813 (839)
T ss_pred ceeechHHHHhhcCceeecceee-------eeEeecccccccccHHHHHHHHh
Confidence 38888886 999997642 34578999999999999987543
No 95
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=24.72 E-value=22 Score=39.57 Aligned_cols=34 Identities=26% Similarity=0.611 Sum_probs=22.3
Q ss_pred cccccccccccccC------Cc----eeecCCCCCccccccccc
Q 003031 737 DDKNDDSCGICGDG------GE----LICCDNCPSAFHQACLSI 770 (855)
Q Consensus 737 ed~ndD~C~VCgdG------Ge----LLcCD~CPraFHlsCLgp 770 (855)
...++..|.||++. .+ -+.=-.|.-.||..|..-
T Consensus 220 khl~d~vCaVCg~~~~~s~~eegvienty~LsCnHvFHEfCIrG 263 (328)
T KOG1734|consen 220 KHLSDSVCAVCGQQIDVSVDEEGVIENTYKLSCNHVFHEFCIRG 263 (328)
T ss_pred CCCCcchhHhhcchheeecchhhhhhhheeeecccchHHHhhhh
Confidence 34567899999962 11 111124888999999864
No 96
>PF12773 DZR: Double zinc ribbon
Probab=23.47 E-value=54 Score=26.43 Aligned_cols=7 Identities=43% Similarity=1.118 Sum_probs=2.9
Q ss_pred ccccccc
Q 003031 742 DSCGICG 748 (855)
Q Consensus 742 D~C~VCg 748 (855)
.+|..|+
T Consensus 13 ~fC~~CG 19 (50)
T PF12773_consen 13 KFCPHCG 19 (50)
T ss_pred cCChhhc
Confidence 3344443
No 97
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.80 E-value=35 Score=38.96 Aligned_cols=45 Identities=33% Similarity=0.672 Sum_probs=29.2
Q ss_pred cccccCCCCCCCccCCCcCcccccccchhchhhhccCCcCCCCCCceeeCCccHH
Q 003031 784 TCWICGDLVNDKEASSSFDALKCSQCEHKYHGECLKDMSKGAVSEAWFCNQSCQE 838 (855)
Q Consensus 784 ~C~ICge~~~D~e~~s~~~LL~CdqCeraYHv~CL~p~~~~~p~G~WFCs~~Cke 838 (855)
.|.||-+-- + . +..+.=--|.+.||..|+++-... ..-+|| -|+.
T Consensus 231 ~CaIClEdY---~--~-GdklRiLPC~H~FH~~CIDpWL~~---~r~~CP-vCK~ 275 (348)
T KOG4628|consen 231 TCAICLEDY---E--K-GDKLRILPCSHKFHVNCIDPWLTQ---TRTFCP-VCKR 275 (348)
T ss_pred eEEEeeccc---c--c-CCeeeEecCCCchhhccchhhHhh---cCccCC-CCCC
Confidence 488888631 1 1 223334789999999999997433 245898 5543
No 98
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=20.68 E-value=23 Score=32.81 Aligned_cols=31 Identities=32% Similarity=0.882 Sum_probs=11.4
Q ss_pred ccccccccccc-------CCceeecCCCCCcccccccc
Q 003031 739 KNDDSCGICGD-------GGELICCDNCPSAFHQACLS 769 (855)
Q Consensus 739 ~ndD~C~VCgd-------GGeLLcCD~CPraFHlsCLg 769 (855)
.+..+|.+|++ |.-.+.|..|.-..-..|+.
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyE 44 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYE 44 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHH
T ss_pred cCCcccccccCccccCCCCCEEEEEcccCCccchhHHH
Confidence 45678999997 44567777775544444443
No 99
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=20.13 E-value=62 Score=29.09 Aligned_cols=29 Identities=24% Similarity=0.787 Sum_probs=20.5
Q ss_pred ccccccccc--CCceeecCCCCCcccccccc
Q 003031 741 DDSCGICGD--GGELICCDNCPSAFHQACLS 769 (855)
Q Consensus 741 dD~C~VCgd--GGeLLcCD~CPraFHlsCLg 769 (855)
+..|.+|+. +...+.---|+..||..|..
T Consensus 78 ~~~C~vC~k~l~~~~f~~~p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVFVVFPCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCCCceEEEeCCCeEEeccccc
Confidence 466999998 44444444566889999974
Done!