Query 002891
Match_columns 870
No_of_seqs 240 out of 1008
Neff 4.4
Searched_HMMs 46136
Date Thu Mar 28 12:52:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002891.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/002891hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0954 PHD finger protein [Ge 100.0 6.1E-38 1.3E-42 356.2 8.3 167 456-640 268-440 (893)
2 KOG0955 PHD finger protein BR1 100.0 2.4E-36 5.2E-41 361.1 9.4 169 456-640 216-397 (1051)
3 KOG0956 PHD finger protein AF1 100.0 2.5E-36 5.4E-41 340.7 6.0 170 456-641 2-185 (900)
4 COG5141 PHD zinc finger-contai 100.0 1.2E-36 2.6E-41 333.9 2.1 168 457-640 191-366 (669)
5 KOG0957 PHD finger protein [Ge 100.0 1.1E-32 2.3E-37 303.3 3.4 283 460-782 120-429 (707)
6 PF13832 zf-HC5HC2H_2: PHD-zin 99.9 5.3E-24 1.1E-28 197.2 8.0 106 530-636 2-110 (110)
7 PF13771 zf-HC5HC2H: PHD-like 99.5 2.1E-15 4.5E-20 134.9 3.1 85 551-637 1-90 (90)
8 KOG1080 Histone H3 (Lys4) meth 99.1 1.3E-10 2.8E-15 141.6 5.9 143 454-619 568-715 (1005)
9 PF13831 PHD_2: PHD-finger; PD 99.0 7.1E-11 1.5E-15 91.0 0.5 35 472-506 1-36 (36)
10 KOG0954 PHD finger protein [Ge 98.7 1.3E-08 2.8E-13 118.8 4.2 137 201-350 755-892 (893)
11 PF00628 PHD: PHD-finger; Int 97.7 2E-05 4.3E-10 63.9 2.6 46 461-507 1-50 (51)
12 smart00249 PHD PHD zinc finger 97.6 5E-05 1.1E-09 58.8 3.6 44 461-505 1-47 (47)
13 KOG1244 Predicted transcriptio 97.3 0.00014 3E-09 78.1 2.5 52 458-510 280-333 (336)
14 KOG1512 PHD Zn-finger protein 97.2 0.00011 2.3E-09 79.3 1.4 49 458-507 313-362 (381)
15 KOG1084 Transcription factor T 97.1 0.0002 4.4E-09 80.8 1.7 98 528-637 221-321 (375)
16 KOG4323 Polycomb-like PHD Zn-f 96.8 0.0012 2.6E-08 76.0 4.7 135 460-638 84-223 (464)
17 KOG4323 Polycomb-like PHD Zn-f 96.8 0.00064 1.4E-08 78.1 2.1 51 458-508 167-224 (464)
18 PF15446 zf-PHD-like: PHD/FYVE 96.7 0.0018 3.8E-08 65.8 4.8 128 461-613 1-141 (175)
19 KOG0825 PHD Zn-finger protein 95.7 0.0053 1.2E-07 73.6 2.4 52 456-508 212-266 (1134)
20 KOG4299 PHD Zn-finger protein 95.2 0.0076 1.6E-07 71.2 1.2 48 460-508 254-305 (613)
21 COG5034 TNG2 Chromatin remodel 94.4 0.3 6.5E-06 52.9 10.5 51 454-507 216-269 (271)
22 KOG1973 Chromatin remodeling p 94.4 0.021 4.6E-07 62.2 2.0 49 457-508 217-268 (274)
23 smart00249 PHD PHD zinc finger 93.4 0.082 1.8E-06 40.7 3.1 32 583-616 1-34 (47)
24 KOG4443 Putative transcription 92.4 0.11 2.3E-06 62.2 3.7 50 459-509 68-119 (694)
25 PF14446 Prok-RING_1: Prokaryo 90.9 0.15 3.3E-06 43.3 2.1 33 458-490 4-36 (54)
26 KOG0383 Predicted helicase [Ge 90.3 0.21 4.6E-06 60.8 3.4 49 455-507 43-93 (696)
27 PF10198 Ada3: Histone acetylt 88.6 2.9 6.2E-05 41.5 9.2 83 285-367 14-105 (131)
28 KOG0957 PHD finger protein [Ge 88.4 2.5 5.5E-05 49.7 9.9 50 455-505 540-595 (707)
29 PF00628 PHD: PHD-finger; Int 86.0 0.55 1.2E-05 38.0 2.2 31 583-615 1-33 (51)
30 KOG1244 Predicted transcriptio 86.0 0.45 9.8E-06 52.0 2.2 48 460-507 225-283 (336)
31 PF02318 FYVE_2: FYVE-type zin 79.0 1.6 3.5E-05 42.0 2.8 48 460-508 55-103 (118)
32 KOG1512 PHD Zn-finger protein 78.1 1.3 2.8E-05 48.9 2.0 49 459-507 258-316 (381)
33 PF00130 C1_1: Phorbol esters/ 76.2 2.6 5.7E-05 34.4 2.9 35 459-493 11-46 (53)
34 KOG1245 Chromatin remodeling c 75.9 0.66 1.4E-05 60.7 -1.0 51 458-509 1107-1159(1404)
35 KOG1973 Chromatin remodeling p 75.2 1.4 3E-05 48.3 1.3 31 581-611 219-250 (274)
36 cd00029 C1 Protein kinase C co 72.4 2.1 4.6E-05 34.0 1.4 34 459-492 11-45 (50)
37 PF07649 C1_3: C1-like domain; 70.7 1.9 4.1E-05 32.0 0.7 28 461-489 2-29 (30)
38 KOG1473 Nucleosome remodeling 70.1 3.8 8.2E-05 52.2 3.5 112 454-612 339-458 (1414)
39 smart00109 C1 Protein kinase C 67.3 2.2 4.9E-05 33.5 0.6 34 459-492 11-44 (49)
40 cd04718 BAH_plant_2 BAH, or Br 64.3 3.6 7.9E-05 41.7 1.5 27 484-510 1-29 (148)
41 KOG1701 Focal adhesion adaptor 64.2 4.8 0.0001 46.7 2.6 118 496-638 320-460 (468)
42 PF03107 C1_2: C1 domain; Int 64.0 6.4 0.00014 29.4 2.4 27 461-489 2-29 (30)
43 KOG4443 Putative transcription 63.8 4.1 8.8E-05 49.4 2.0 47 461-507 20-70 (694)
44 PF07227 DUF1423: Protein of u 62.2 6.5 0.00014 46.0 3.2 46 461-507 130-191 (446)
45 PF13901 DUF4206: Domain of un 60.4 8.1 0.00017 40.6 3.3 44 458-508 151-198 (202)
46 KOG1044 Actin-binding LIM Zn-f 58.2 4.8 0.0001 48.3 1.3 85 528-618 133-226 (670)
47 KOG0825 PHD Zn-finger protein 54.8 22 0.00048 44.3 6.0 51 581-641 215-268 (1134)
48 COG5034 TNG2 Chromatin remodel 48.7 8.8 0.00019 42.0 1.4 31 582-613 222-254 (271)
49 PF10367 Vps39_2: Vacuolar sor 48.0 17 0.00037 33.1 3.0 30 459-490 78-107 (109)
50 PF14197 Cep57_CLD_2: Centroso 46.9 88 0.0019 28.0 7.0 59 299-364 2-62 (69)
51 PF07649 C1_3: C1-like domain; 46.6 8.7 0.00019 28.5 0.7 27 583-611 2-30 (30)
52 PF03107 C1_2: C1 domain; Int 45.4 17 0.00037 27.1 2.1 27 583-611 2-30 (30)
53 PLN02638 cellulose synthase A 41.2 16 0.00035 47.0 2.2 49 458-507 16-67 (1079)
54 PLN02400 cellulose synthase 40.6 20 0.00044 46.2 2.9 48 459-507 36-86 (1085)
55 PF11793 FANCL_C: FANCL C-term 39.2 15 0.00034 32.4 1.2 32 460-491 3-38 (70)
56 PF14569 zf-UDP: Zinc-binding 37.4 5.3 0.00011 36.6 -2.0 49 458-507 8-59 (80)
57 PLN02436 cellulose synthase A 36.9 22 0.00048 45.8 2.5 48 459-507 36-86 (1094)
58 KOG1844 PHD Zn-finger proteins 36.8 20 0.00043 42.0 2.0 46 463-508 89-135 (508)
59 PF13764 E3_UbLigase_R4: E3 ub 36.7 1.1E+02 0.0024 38.8 8.4 31 455-485 464-499 (802)
60 PLN02195 cellulose synthase A 36.6 23 0.00049 45.3 2.5 49 459-508 6-57 (977)
61 PLN02915 cellulose synthase A 33.9 26 0.00057 45.1 2.4 50 458-508 14-66 (1044)
62 KOG3799 Rab3 effector RIM1 and 32.9 18 0.00039 36.4 0.6 51 458-508 64-116 (169)
63 PLN02189 cellulose synthase 31.8 30 0.00064 44.6 2.4 48 459-507 34-84 (1040)
64 PF10367 Vps39_2: Vacuolar sor 31.6 23 0.0005 32.3 1.1 32 581-613 78-109 (109)
65 PF08746 zf-RING-like: RING-li 30.5 21 0.00046 28.9 0.6 30 584-613 1-30 (43)
66 KOG4299 PHD Zn-finger protein 29.8 18 0.0004 43.9 0.2 46 459-508 47-95 (613)
67 KOG0695 Serine/threonine prote 29.7 20 0.00044 41.1 0.4 36 459-494 141-177 (593)
68 PF10497 zf-4CXXC_R1: Zinc-fin 29.6 40 0.00087 32.3 2.4 62 456-539 4-81 (105)
69 PF14446 Prok-RING_1: Prokaryo 27.6 38 0.00081 29.2 1.6 37 581-619 5-44 (54)
70 PF11793 FANCL_C: FANCL C-term 26.7 35 0.00076 30.2 1.3 33 582-614 3-40 (70)
71 PF13832 zf-HC5HC2H_2: PHD-zin 25.2 40 0.00087 31.5 1.5 31 458-491 54-86 (110)
72 COG5194 APC11 Component of SCF 24.3 21 0.00046 33.1 -0.4 32 582-613 21-65 (88)
73 KOG1084 Transcription factor T 22.6 19 0.00041 41.5 -1.4 112 527-641 122-253 (375)
74 PF13639 zf-RING_2: Ring finge 21.4 37 0.00079 26.8 0.4 30 461-491 2-31 (44)
75 smart00109 C1 Protein kinase C 21.1 40 0.00086 26.3 0.6 32 582-615 12-46 (49)
No 1
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=100.00 E-value=6.1e-38 Score=356.20 Aligned_cols=167 Identities=32% Similarity=0.779 Sum_probs=150.1
Q ss_pred CCCCCcCcccCCCCC-CCCCEEEecCCCceeccccccCCCCCCCceecccchhhccCCCCCCCCCCccCCCCcccccccC
Q 002891 456 KEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLC 534 (870)
Q Consensus 456 ke~~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~LC 534 (870)
.+++..|+||..++. +.|+|||||+|++.|||.||||..+|+|+|||+.|.... .+.|+||
T Consensus 268 ~dedviCDvCrspD~e~~neMVfCd~Cn~cVHqaCyGIle~p~gpWlCr~Calg~------------------~ppCvLC 329 (893)
T KOG0954|consen 268 YDEDVICDVCRSPDSEEANEMVFCDKCNICVHQACYGILEVPEGPWLCRTCALGI------------------EPPCVLC 329 (893)
T ss_pred ccccceeceecCCCccccceeEEeccchhHHHHhhhceeecCCCCeeehhccccC------------------CCCeeec
Confidence 346789999999887 589999999999999999999999999999999999741 5689999
Q ss_pred CCCCCCcccccCC-ceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCCCceeeecCCCCCCccccccc
Q 002891 535 GGTTGAFRKSANG-QWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHPTC 610 (870)
Q Consensus 535 p~~gGALK~Tsdg-~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~~GAcIqCs~~~C~~aFH~tC 610 (870)
|.+||+||.+..| +|+|++||||+|||+|.+. .|+||..+..|+.. .+.|.+|+.+.||||+|+.++|.++||++|
T Consensus 330 PkkGGamK~~~sgT~wAHvsCALwIPEVsie~~ekmePItkfs~IpesRwslvC~LCk~k~GACIqCs~k~C~t~fHv~C 409 (893)
T KOG0954|consen 330 PKKGGAMKPTKSGTKWAHVSCALWIPEVSIECPEKMEPITKFSHIPESRWSLVCNLCKVKSGACIQCSNKTCRTAFHVTC 409 (893)
T ss_pred cccCCcccccCCCCeeeEeeeeeccceeeccCHhhcCcccccCCCcHHHHHHHHHHhcccCcceEEecccchhhhccchh
Confidence 9999999999877 7999999999999999986 69999999999876 589999999999999999999999999999
Q ss_pred cccCCceEEEee-CCCceeeeEeCCCCChhh
Q 002891 611 ARSAGFYLNVKS-TGGNFQHKAYCEKHSLEQ 640 (870)
Q Consensus 611 A~~aG~~m~~k~-~~g~i~~kaYC~kHs~~q 640 (870)
|+.+|..|.+-. .++.+.++.||.+|+..+
T Consensus 410 A~~aG~~~~~~~~~~D~v~~~s~c~khs~~~ 440 (893)
T KOG0954|consen 410 AFEAGLEMKTILKENDEVKFKSYCSKHSDHR 440 (893)
T ss_pred hhhcCCeeeeeeccCCchhheeecccccccc
Confidence 999999997643 355667899999997644
No 2
>KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=100.00 E-value=2.4e-36 Score=361.15 Aligned_cols=169 Identities=36% Similarity=0.806 Sum_probs=150.8
Q ss_pred CCCCCcCcccCCCCC-CCCCEEEecCCCceeccccccCCCCCCCceecccchhhccCCCCCCCCCCccCCCCcccccccC
Q 002891 456 KEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLC 534 (870)
Q Consensus 456 ke~~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~LC 534 (870)
.+.+..|+||.+.+. +.|.|||||+|+++|||.|||+..+|+|.|+|++|..... ..+.|.||
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~Cnl~VHq~Cygi~~ipeg~WlCr~Cl~s~~----------------~~v~c~~c 279 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDGCNLAVHQECYGIPFIPEGQWLCRRCLQSPQ----------------RPVRCLLC 279 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCCCcchhhhhccCCCCCCCCcEeehhhccCcC----------------cccceEec
Confidence 356789999999886 5799999999999999999999999999999999998532 25789999
Q ss_pred CCCCCCcccccCCceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCCC-ceeeecCCCCCCccccccc
Q 002891 535 GGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKH-GICIKCNYGNCQTTFHPTC 610 (870)
Q Consensus 535 p~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~~-GAcIqCs~~~C~~aFH~tC 610 (870)
+..+||||+|.+|+|+|++||+|+||+.|.+. .++||.+++.|+.. ++.|++|+.++ |+||+|+..+|..+||++|
T Consensus 280 p~~~gAFkqt~dgrw~Hv~caiwipev~F~nt~~~E~I~~i~~i~~aRwkL~cy~cK~~~~gaciqcs~~~c~~a~hvtc 359 (1051)
T KOG0955|consen 280 PSKGGAFKQTDDGRWAHVVCAIWIPEVSFANTVFLEPIDSIENIPPARWKLTCYICKQKGLGACIQCSKANCYTAFHVTC 359 (1051)
T ss_pred cCCCCcceeccCCceeeeehhhcccccccccchhhccccchhcCcHhhhhceeeeeccCCCCcceecchhhhhhhhhhhh
Confidence 99999999999999999999999999999987 69999999999865 79999999998 9999999999999999999
Q ss_pred cccCCceEEEeeC--CC------ceeeeEeCCCCChhh
Q 002891 611 ARSAGFYLNVKST--GG------NFQHKAYCEKHSLEQ 640 (870)
Q Consensus 611 A~~aG~~m~~k~~--~g------~i~~kaYC~kHs~~q 640 (870)
|+++|++|..... .+ .+....||+.|.+..
T Consensus 360 a~~agl~m~~~~~~~~s~~~~s~~v~~~syC~~H~pp~ 397 (1051)
T KOG0955|consen 360 ARRAGLYMKSNTVKELSKNGTSQSVNKISYCDKHTPPG 397 (1051)
T ss_pred HhhcCceEeecccccccccccccccceeeeccCCCCch
Confidence 9999999985421 11 146778999999864
No 3
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=100.00 E-value=2.5e-36 Score=340.69 Aligned_cols=170 Identities=35% Similarity=0.800 Sum_probs=145.9
Q ss_pred CCCCCcCcccCCCCC-CCCCEEEecC--CCceeccccccCCCCCCCceecccchhhccCCCCCCCCCCccCCCCcccccc
Q 002891 456 KEHPRSCDICRRSET-ILNPILICSG--CKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECS 532 (870)
Q Consensus 456 ke~~~~CsVC~d~E~-~~N~IV~Cd~--C~IaVHq~CYGi~~ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~ 532 (870)
||...-||||-|-.. ..|+|||||+ |-++|||.||||.++|+|+|||++|+... +. ..+.|.
T Consensus 2 KEMVGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCrKCesqe--ra-------------arvrCe 66 (900)
T KOG0956|consen 2 KEMVGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCRKCESQE--RA-------------ARVRCE 66 (900)
T ss_pred cccccceeeecCcCCCccCceeeecCCCceeeeehhcceeEecCCCchhhhhhhhhh--hh-------------ccceee
Confidence 455667999998444 4799999996 99999999999999999999999999742 11 168999
Q ss_pred cCCCCCCCcccccCCceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCC-------CceeeecCCCCC
Q 002891 533 LCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHK-------HGICIKCNYGNC 602 (870)
Q Consensus 533 LCp~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~-------~GAcIqCs~~~C 602 (870)
|||.++||||+|++|.|+||+||||+|||+|.|- .|+||- +..||.. ...|+||+.. .|||++|...+|
T Consensus 67 LCP~kdGALKkTDn~GWAHVVCALYIPEVrFgNV~TMEPIi-Lq~VP~dRfnKtCYIC~E~GrpnkA~~GACMtCNKs~C 145 (900)
T KOG0956|consen 67 LCPHKDGALKKTDNGGWAHVVCALYIPEVRFGNVHTMEPII-LQDVPHDRFNKTCYICNEEGRPNKAAKGACMTCNKSGC 145 (900)
T ss_pred cccCcccceecccCCCceEEEEEeeccceeeccccccccee-eccCchhhhcceeeeecccCCccccccccceecccccc
Confidence 9999999999999999999999999999999996 699975 6667754 6899999974 699999999999
Q ss_pred CccccccccccCCceEEEee-CCCceeeeEeCCCCChhhH
Q 002891 603 QTTFHPTCARSAGFYLNVKS-TGGNFQHKAYCEKHSLEQK 641 (870)
Q Consensus 603 ~~aFH~tCA~~aG~~m~~k~-~~g~i~~kaYC~kHs~~qk 641 (870)
.+.|||+||+.+|++.+..+ .-++++|==||+.|..+.+
T Consensus 146 kqaFHVTCAQ~~GLLCEE~gn~~dNVKYCGYCk~HfsKlk 185 (900)
T KOG0956|consen 146 KQAFHVTCAQRAGLLCEEEGNISDNVKYCGYCKYHFSKLK 185 (900)
T ss_pred hhhhhhhHhhhhccceeccccccccceechhHHHHHHHhh
Confidence 99999999999999998653 2245677779999987543
No 4
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=100.00 E-value=1.2e-36 Score=333.90 Aligned_cols=168 Identities=32% Similarity=0.721 Sum_probs=146.8
Q ss_pred CCCCcCcccCCCCC-CCCCEEEecCCCceeccccccCCCCCCCceecccchhhccCCCCCCCCCCccCCCCcccccccCC
Q 002891 457 EHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLCG 535 (870)
Q Consensus 457 e~~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~LCp 535 (870)
+-+..|.+|...+. +.|.|||||+|+++|||.||||..+|+|.|||++|.... +...-|.+||
T Consensus 191 ~~d~~C~~c~~t~~eN~naiVfCdgC~i~VHq~CYGI~f~peG~WlCrkCi~~~----------------~~i~~C~fCp 254 (669)
T COG5141 191 EFDDICTKCTSTHNENSNAIVFCDGCEICVHQSCYGIQFLPEGFWLCRKCIYGE----------------YQIRCCSFCP 254 (669)
T ss_pred hhhhhhHhccccccCCcceEEEecCcchhhhhhcccceecCcchhhhhhhcccc----------------cceeEEEecc
Confidence 45678999998776 479999999999999999999999999999999999853 2244599999
Q ss_pred CCCCCcccccCCceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCCCceeeecCCCCCCccccccccc
Q 002891 536 GTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHPTCAR 612 (870)
Q Consensus 536 ~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~~GAcIqCs~~~C~~aFH~tCA~ 612 (870)
...||||+|.+|.|+|++||+|+||++|.+- .++||+||.+++.. ++.|+||+..+|+||||++.+|.++||++||+
T Consensus 255 s~dGaFkqT~dgrW~H~iCA~~~pelsF~~l~~~dpI~~i~sVs~srwkl~C~iCk~~~GtcIqCs~~nC~~aYHVtCAr 334 (669)
T COG5141 255 SSDGAFKQTSDGRWGHVICAMFNPELSFGHLLSKDPIDNIASVSSSRWKLGCLICKEFGGTCIQCSYFNCTRAYHVTCAR 334 (669)
T ss_pred CCCCceeeccCCchHhHhHHHhcchhccccccccchhhhhcccchhhHhheeeEEcccCcceeeecccchhhhhhhhhhh
Confidence 9999999999999999999999999999986 69999999999876 68999999999999999999999999999999
Q ss_pred cCCceEE-EeeCCC---ceeeeEeCCCCChhh
Q 002891 613 SAGFYLN-VKSTGG---NFQHKAYCEKHSLEQ 640 (870)
Q Consensus 613 ~aG~~m~-~k~~~g---~i~~kaYC~kHs~~q 640 (870)
++|+++. ....++ .+...-||++|.+..
T Consensus 335 rag~f~~~~~s~n~~s~~id~e~~c~kh~p~g 366 (669)
T COG5141 335 RAGYFDLNIYSHNGISYCIDHEPLCRKHYPLG 366 (669)
T ss_pred hcchhhhhhhcccccceeecchhhhcCCCCcc
Confidence 9999886 322222 234567999998743
No 5
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=99.97 E-value=1.1e-32 Score=303.26 Aligned_cols=283 Identities=27% Similarity=0.500 Sum_probs=192.5
Q ss_pred CcCcccCCCCC-CCCCEEEecCCCceeccccccCCC---CC-------CCceecccchhhccCCCCCCCCCCccCCCCcc
Q 002891 460 RSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAK---ES-------TGPWYCELCEELLSSRSSGAPSVNFWEKPYFV 528 (870)
Q Consensus 460 ~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~---ip-------eg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~ 528 (870)
..|+||..... +.|.||.||+|+|.||..|||+.. |+ ..+|||+.|.+..+ .
T Consensus 120 ~iCcVClg~rs~da~ei~qCd~CGi~VHEgCYGv~dn~si~s~~s~~stepWfCeaC~~Gvs-----------------~ 182 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCDKCGINVHEGCYGVLDNVSIPSGSSDCSTEPWFCEACLYGVS-----------------L 182 (707)
T ss_pred eEEEEeecCccccccceeeccccCceecccccccccccccCCCCccCCCCchhhhhHhcCCC-----------------C
Confidence 37999997544 478999999999999999999862 22 36899999999642 3
Q ss_pred cccccCCCCCCCcccccCCceeeeeccccccceeeccC-CcCccc--cccccCCCCcccccccCC----CceeeecCCCC
Q 002891 529 AECSLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVA--GMEAFPKGIDVCCICRHK----HGICIKCNYGN 601 (870)
Q Consensus 529 ~~C~LCp~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVe--GIesI~k~k~~CsIC~~~----~GAcIqCs~~~ 601 (870)
+.|.|||+++|+||.|+-|.|||++||||+|+|.|... .+.+|. .|+..+.+...|++|..+ .|.||.|..+.
T Consensus 183 P~CElCPn~~GifKetDigrWvH~iCALYvpGVafg~~~~l~~Vtl~em~ysk~Gak~Cs~Ced~~fARtGvci~CdaGM 262 (707)
T KOG0957|consen 183 PHCELCPNRFGIFKETDIGRWVHAICALYVPGVAFGQTHTLCGVTLEEMDYSKFGAKTCSACEDKIFARTGVCIRCDAGM 262 (707)
T ss_pred CccccCCCcCCcccccchhhHHHHHHHhhcCccccccccccccccHHHhhhhhhccchhccccchhhhhcceeeeccchh
Confidence 68999999999999999999999999999999999874 455554 233333457899999974 89999999999
Q ss_pred CCccccccccccCCceEEEeeCCCc-eeeeEeCCCCChhhHhhhhhhccchhhHHhHhHHHHHHHHHHHHH-----HHHH
Q 002891 602 CQTTFHPTCARSAGFYLNVKSTGGN-FQHKAYCEKHSLEQKMKAETQKHGVEELKGIKQIRVELERLRLLC-----ERII 675 (870)
Q Consensus 602 C~~aFH~tCA~~aG~~m~~k~~~g~-i~~kaYC~kHs~~qkak~~~q~~g~eelkslrr~RvelE~lRll~-----eriv 675 (870)
|..+|||+||+..|+.++...+++. ..+.+||++|+.....+--...|...+...|+|+|+. ++|+.-. ..--
T Consensus 263 Ck~YfHVTCAQk~GlLvea~~e~DiAdpfya~CK~Ht~r~~~K~~rrny~~l~~~~~~r~~~k-~~L~~~e~~~~p~~~e 341 (707)
T KOG0957|consen 263 CKEYFHVTCAQKLGLLVEATDENDIADPFYAFCKKHTNRDNLKPYRRNYDDLEKSEARRITVK-RRLRSGELEKNPQKKE 341 (707)
T ss_pred hhhhhhhhHHhhhcceeeccccccchhhHHHHHHhhcchhhhhhhhhhhHHHHHHHHHHHHHH-HHHHhcccccCCCccH
Confidence 9999999999999999987665543 3578999999986554433455555666667776652 1111110 0011
Q ss_pred HHHHHHHHHhhhhHHHHhhccchhhhhhccccCcccCCCCCccccccccccCCCCCCChhhhhccCCceeeecccccccc
Q 002891 676 KREKIKRELILCSHEILAFKRDHHAARLVHGRIPFFPPDVSSESATTSLKGHTDSFKSCSEAFQRSDDVTVDSAASVKNR 755 (870)
Q Consensus 676 kREklKrel~~~~~dila~krd~~~a~s~~v~sp~~~~~~ss~~atts~~g~~~~~~s~s~~~~r~d~~~vds~~s~k~~ 755 (870)
.|.+++++|....+.- ..+.. .-..+|+|....+...|||+ +|+.|....+.--++|.++
T Consensus 342 aqari~~~l~kv~~k~-------~~~k~-~~p~~wvp~~K~~RlLtsSA-----------sa~rrl~~KAE~mg~s~~~- 401 (707)
T KOG0957|consen 342 AQARIREELDKVIEKE-------CKNKP-KGPISWVPKPKQARLLTSSA-----------SAFRRLETKAEEMGLSRKE- 401 (707)
T ss_pred HHHHHHHHHHHHHHHH-------HhccC-CCCCCCCccccccccccchH-----------HHHHHHHHHHHHhcccHhh-
Confidence 2223333333222211 11122 22468999999999888887 3445544444444555555
Q ss_pred ccccCCC-CcCcccC--CCCccccCCCCCC
Q 002891 756 IKVYVPM-DADQRTD--DSSMSQNLYPRKP 782 (870)
Q Consensus 756 ~~~~~~~-d~~~~~~--~~s~~~~~~~~~~ 782 (870)
+++ .+ |.--+++ .=|+-++.|+..+
T Consensus 402 f~~--~ead~~~~id~r~k~Hv~pafs~ef 429 (707)
T KOG0957|consen 402 FRQ--READPFFNIDLRSKSHVPPAFSKEF 429 (707)
T ss_pred hcc--cccCccccccccccccCCccccHHH
Confidence 332 22 2222332 2356666666544
No 6
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=99.90 E-value=5.3e-24 Score=197.16 Aligned_cols=106 Identities=43% Similarity=0.980 Sum_probs=96.8
Q ss_pred ccccCCCCCCCcccccCCceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCCCceeeecCCCCCCccc
Q 002891 530 ECSLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTF 606 (870)
Q Consensus 530 ~C~LCp~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~~GAcIqCs~~~C~~aF 606 (870)
.|.||+..+||||+|.++.|||++||+|+|++.|.+. .+++|. ++.|++. +.+|.+|++..|++|+|..++|.++|
T Consensus 2 ~C~lC~~~~Galk~t~~~~WvHv~Cal~~~~~~~~~~~~~~~v~-~~~i~~~~~~~~C~iC~~~~G~~i~C~~~~C~~~f 80 (110)
T PF13832_consen 2 SCVLCPKRGGALKRTSDGQWVHVLCALWIPEVIFNNGESMEPVD-ISNIPPSRFKLKCSICGKSGGACIKCSHPGCSTAF 80 (110)
T ss_pred ccEeCCCCCCcccCccCCcEEEeEccceeCccEEeechhcCccc-ceeecchhcCCcCcCCCCCCceeEEcCCCCCCcCC
Confidence 6999999999999999999999999999999999987 578877 7777765 79999999999999999999999999
Q ss_pred cccccccCCceEEEeeCCCceeeeEeCCCC
Q 002891 607 HPTCARSAGFYLNVKSTGGNFQHKAYCEKH 636 (870)
Q Consensus 607 H~tCA~~aG~~m~~k~~~g~i~~kaYC~kH 636 (870)
||+||+.+|+++++...+....+.+||++|
T Consensus 81 H~~CA~~~g~~~~~~~~~~~~~~~~~C~~H 110 (110)
T PF13832_consen 81 HPTCARKAGLYFEIENEEDNVQFIAYCPKH 110 (110)
T ss_pred CHHHHHHCCCeEEeeecCCCceEEEECCCC
Confidence 999999999999987655456789999999
No 7
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=99.54 E-value=2.1e-15 Score=134.90 Aligned_cols=85 Identities=34% Similarity=0.686 Sum_probs=72.2
Q ss_pred eeeccccccceeeccCC---cCccccccccCC--CCcccccccCCCceeeecCCCCCCccccccccccCCceEEEeeCCC
Q 002891 551 HAFCAEWVFESTFRRGQ---VNPVAGMEAFPK--GIDVCCICRHKHGICIKCNYGNCQTTFHPTCARSAGFYLNVKSTGG 625 (870)
Q Consensus 551 HVvCALWiPEv~f~n~~---mepVeGIesI~k--~k~~CsIC~~~~GAcIqCs~~~C~~aFH~tCA~~aG~~m~~k~~~g 625 (870)
|++||+|+|++.+.+.. +.++.+++.+.+ .++.|++|+++.||+|+|..++|...||++||+.+|+.+.+.. .
T Consensus 1 H~~Calwsp~v~~~~~~~~~~~~i~~v~~~~~~~~~~~C~~C~~~~Ga~i~C~~~~C~~~fH~~CA~~~~~~~~~~~--~ 78 (90)
T PF13771_consen 1 HENCALWSPEVYFDESEDIGGFSIEDVEKEIKRRRKLKCSICKKKGGACIGCSHPGCSRSFHVPCARKAGCFIEFDE--D 78 (90)
T ss_pred ChHHheecCceEEeCCCccccccHHhHHHHHHHHhCCCCcCCCCCCCeEEEEeCCCCCcEEChHHHccCCeEEEEcc--C
Confidence 89999999999998753 456667766543 3699999999889999999999999999999999999998864 2
Q ss_pred ceeeeEeCCCCC
Q 002891 626 NFQHKAYCEKHS 637 (870)
Q Consensus 626 ~i~~kaYC~kHs 637 (870)
...+.+||++|+
T Consensus 79 ~~~~~~~C~~H~ 90 (90)
T PF13771_consen 79 NGKFRIFCPKHS 90 (90)
T ss_pred CCceEEEChhcC
Confidence 236899999996
No 8
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=99.05 E-value=1.3e-10 Score=141.56 Aligned_cols=143 Identities=34% Similarity=0.752 Sum_probs=120.3
Q ss_pred CCCCCCCcCcccCCCCC-CCCCEEEecCCCceeccccccCCCCC-CCceecccchhhccCCCCCCCCCCccCCCCccccc
Q 002891 454 FSKEHPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKES-TGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAEC 531 (870)
Q Consensus 454 ~ske~~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~ip-eg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C 531 (870)
+.......|.+|.+.+. ..|.++.|+.|...||+.|||....+ .-.|+|+.|.... ....|
T Consensus 568 l~~~~t~~c~~~~~~~~~~~n~~~~~~~~~~~~~s~~~g~~~~~~~~~~~~~~~~~~~-----------------~~r~~ 630 (1005)
T KOG1080|consen 568 LSKWTTERCAVCRDDEDWEKNVSIICDRCTRSVHSECYGNLKSYDGTSWVCDSCETLD-----------------IKRSC 630 (1005)
T ss_pred hcCCCcccccccccccccccceeeeeccccccCCCcccccCCCCCCCcchhhcccccc-----------------CCchh
Confidence 44455678999998764 58999999999999999999998766 4579999998641 15689
Q ss_pred ccCCCCCCCcccccCCceeeeeccccccceeeccC-CcCccccccccCCC--CcccccccCCCceeeecCCCCCCccccc
Q 002891 532 SLCGGTTGAFRKSANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG--IDVCCICRHKHGICIKCNYGNCQTTFHP 608 (870)
Q Consensus 532 ~LCp~~gGALK~Tsdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~--k~~CsIC~~~~GAcIqCs~~~C~~aFH~ 608 (870)
++|+..+||++++..|.|+|+-||.|.+++-+.+. .|.|+.++..++.. ...|.+ .|.|.+|+ .|...||.
T Consensus 631 ~l~~~~g~al~p~d~gr~~~~e~a~~~~e~~~~~~~~~~p~~~~~~~p~~~~~~~~~~----~~~~~~~~--~~~~~~~~ 704 (1005)
T KOG1080|consen 631 CLCPVKGGALKPTDEGRWVHVECAWFRPEVCLASPERMEPAVGTFKIPALSFLKICFI----HGSCRQCC--KCETGSHA 704 (1005)
T ss_pred hhccccCcccCCCCccchhhhhchhccccccCCCccCCCCcccccccCccchhhhccc----cccccccc--hhhhccee
Confidence 99999999999999999999999999999999876 68888887766654 345555 57788888 99999999
Q ss_pred cccccCCceEE
Q 002891 609 TCARSAGFYLN 619 (870)
Q Consensus 609 tCA~~aG~~m~ 619 (870)
+||..+|+.+.
T Consensus 705 ~~a~~~~~~~~ 715 (1005)
T KOG1080|consen 705 MCASRAGYIME 715 (1005)
T ss_pred hhhcCccChhh
Confidence 99999999875
No 9
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=99.00 E-value=7.1e-11 Score=91.00 Aligned_cols=35 Identities=46% Similarity=1.149 Sum_probs=21.7
Q ss_pred CCCEEEecCCCceeccccccCCCCCCC-ceecccch
Q 002891 472 LNPILICSGCKVAVHLDCYRNAKESTG-PWYCELCE 506 (870)
Q Consensus 472 ~N~IV~Cd~C~IaVHq~CYGi~~ipeg-~WLCd~C~ 506 (870)
.|+||+|++|++.||+.|||+..++.+ .|+|++|+
T Consensus 1 ~n~ll~C~~C~v~VH~~CYGv~~~~~~~~W~C~~C~ 36 (36)
T PF13831_consen 1 TNPLLFCDNCNVAVHQSCYGVSEVPDGDDWLCDRCE 36 (36)
T ss_dssp -CEEEE-SSS--EEEHHHHT-SS--SS-----HHH-
T ss_pred CCceEEeCCCCCcCChhhCCcccCCCCCcEECCcCC
Confidence 389999999999999999999988866 89999995
No 10
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=98.66 E-value=1.3e-08 Score=118.81 Aligned_cols=137 Identities=38% Similarity=0.563 Sum_probs=109.0
Q ss_pred CcccccccCCCCCccccchhhhhh-hccccCccCCCcccccCCcccccccccccCCCcccCccCccCccCCCcccCCcch
Q 002891 201 TLVPYFINAKPSSGFFWHPYIHKS-LQMQSGLLSGNKVHKSDGDTEISRLEASSTASVCCNHQGRHSKCNDMSCKSDGVN 279 (870)
Q Consensus 201 ~~~~~~~~~~~~~~~~~~p~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 279 (870)
+.++.+++.+.|.+|..|-||++. ..+....++ ....+..+.+|..+..-+.-....++++.. ...
T Consensus 755 ~~sss~~~~~~~p~fsph~~~~~s~s~s~~e~~s-----ks~~~s~~~~~kq~y~~~~~~~~~~~q~~g--------~e~ 821 (893)
T KOG0954|consen 755 PISSSLFNQEAYPGFSPHRYIHKSLSESGKEQTS-----KSSTDSDVARMKQTYTHLAGSEEGNKQLQG--------AET 821 (893)
T ss_pred CcchhhhccccCCCCCcchhhhhhhhhhcccccc-----cccccCCcchhhheecccccccchhhHHHH--------HHH
Confidence 667789999999999999999999 555444443 244555555555322223333333333333 367
Q ss_pred hHHHHHhhhccccccCCCcchhhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHH
Q 002891 280 LEQVFKARTRGVLELSPTDEVEGEIIYFQHRLLGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLV 350 (870)
Q Consensus 280 ~~q~~~~k~~~~l~~~P~de~e~Ei~~~q~~Ll~~~~~~k~~~~~lv~eV~k~l~~E~~~~~~r~~d~~~~ 350 (870)
+-|+++|+.+|+++.+|.|+.++|..|.|..|++.+..+++..|++..+++++++.|++...+|+||..++
T Consensus 822 ~~~~s~~~p~~~~d~s~~D~e~~~~~~~q~~~~g~~r~rkqssd~~n~~~asr~~~~~~~~~g~~~~~s~~ 892 (893)
T KOG0954|consen 822 FLQLSKARPLGILDLSPEDEEEGELLYYQLQLLGTARSRKQSSDNLNYEVASRLPLEIDEQHGRRWDDSLV 892 (893)
T ss_pred HHHhhccCCcccccCCCCchhhhhHHhhhhccccceecccccccCcChhhhccCCCccccccCcCcchhhc
Confidence 89999999999999999999999999999999999999999999999999999999999999999996654
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=97.72 E-value=2e-05 Score=63.90 Aligned_cols=46 Identities=26% Similarity=0.775 Sum_probs=38.3
Q ss_pred cCcccCCCCCCCCCEEEecCCCceeccccccCCCC----CCCceecccchh
Q 002891 461 SCDICRRSETILNPILICSGCKVAVHLDCYRNAKE----STGPWYCELCEE 507 (870)
Q Consensus 461 ~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~i----peg~WLCd~C~~ 507 (870)
+|.||... ...+.+|+|+.|+..+|..|+|+... +.+.|+|..|..
T Consensus 1 ~C~vC~~~-~~~~~~i~C~~C~~~~H~~C~~~~~~~~~~~~~~w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQS-DDDGDMIQCDSCNRWYHQECVGPPEKAEEIPSGDWYCPNCRP 50 (51)
T ss_dssp EBTTTTSS-CTTSSEEEBSTTSCEEETTTSTSSHSHHSHHSSSBSSHHHHH
T ss_pred eCcCCCCc-CCCCCeEEcCCCChhhCcccCCCChhhccCCCCcEECcCCcC
Confidence 48899983 34789999999999999999998743 355899999974
No 12
>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=97.27 E-value=0.00014 Score=78.06 Aligned_cols=52 Identities=33% Similarity=0.781 Sum_probs=44.9
Q ss_pred CCCcCcccCCCCCCCCCEEEecCCCceeccccccCCC--CCCCceecccchhhcc
Q 002891 458 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAK--ESTGPWYCELCEELLS 510 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~--ipeg~WLCd~C~~~~s 510 (870)
+...|+||+.+|. .++++|||.|...+|-+|...+. -|+|.|-|..|.....
T Consensus 280 eck~csicgtsen-ddqllfcddcdrgyhmyclsppm~eppegswsc~KOG~~~~ 333 (336)
T KOG1244|consen 280 ECKYCSICGTSEN-DDQLLFCDDCDRGYHMYCLSPPMVEPPEGSWSCHLCLEELK 333 (336)
T ss_pred ecceeccccCcCC-CceeEeecccCCceeeEecCCCcCCCCCCchhHHHHHHHHh
Confidence 4678999998775 68999999999999999998764 4699999999998654
No 14
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=97.25 E-value=0.00011 Score=79.29 Aligned_cols=49 Identities=27% Similarity=0.586 Sum_probs=42.7
Q ss_pred CCCcCcccCCCCCCCCCEEEecCCCceeccccccCCCCCCCceecc-cchh
Q 002891 458 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAKESTGPWYCE-LCEE 507 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd-~C~~ 507 (870)
+...|.||+.++- ..+++|||.|+..+|..|.|...+|.|.|.|| .|..
T Consensus 313 ~C~lC~IC~~P~~-E~E~~FCD~CDRG~HT~CVGL~~lP~G~WICD~~C~~ 362 (381)
T KOG1512|consen 313 SCELCRICLGPVI-ESEHLFCDVCDRGPHTLCVGLQDLPRGEWICDMRCRE 362 (381)
T ss_pred ccHhhhccCCccc-chheeccccccCCCCccccccccccCccchhhhHHHH
Confidence 5678999998654 57899999999999999999999999999999 4544
No 15
>KOG1084 consensus Transcription factor TCF20 [Transcription]
Probab=97.09 E-value=0.0002 Score=80.81 Aligned_cols=98 Identities=24% Similarity=0.405 Sum_probs=73.2
Q ss_pred ccccccCCCCCCCcccc-cCCceeeeeccccccceeeccC-CcCccccccccCCC-CcccccccCCCceeeecCCCCCCc
Q 002891 528 VAECSLCGGTTGAFRKS-ANGQWVHAFCAEWVFESTFRRG-QVNPVAGMEAFPKG-IDVCCICRHKHGICIKCNYGNCQT 604 (870)
Q Consensus 528 ~~~C~LCp~~gGALK~T-sdg~WVHVvCALWiPEv~f~n~-~mepVeGIesI~k~-k~~CsIC~~~~GAcIqCs~~~C~~ 604 (870)
...|++++... .+. ....|+|+.|++|.+.+.+..+ .+..+.. .+-+. .+.|..|++ .|+.+.|....|..
T Consensus 221 e~~~~l~~~~~---~~d~~~~~~~h~~c~~~~~~~~~~q~~~l~~~~~--~v~r~~~~~c~~c~k-~ga~~~c~~~~~~~ 294 (375)
T KOG1084|consen 221 EFFCALSPKAT---IPDIGFELWYHRYCALWAPNVHESQGGQLTNVDN--AVIRFPSLQCILCQK-PGATLKCVQASLLS 294 (375)
T ss_pred hhhhhhcCCCc---CCccchhHHHHHHHHhcCCcceeccCccccCchh--hhhcccchhcccccC-CCCchhhhhhhhhc
Confidence 34788877533 333 4568999999999999999876 6665543 22222 379999998 59999999999999
Q ss_pred cccccccccCCceEEEeeCCCceeeeEeCCCCC
Q 002891 605 TFHPTCARSAGFYLNVKSTGGNFQHKAYCEKHS 637 (870)
Q Consensus 605 aFH~tCA~~aG~~m~~k~~~g~i~~kaYC~kHs 637 (870)
.+|.+|+..+....... ..+++|+.|.
T Consensus 295 ~~h~~c~~~~~~~~~~~------~r~v~~~~h~ 321 (375)
T KOG1084|consen 295 NAHFPCARAKNGIPLDY------DRKVSCPRHR 321 (375)
T ss_pred ccCcccccCcccccchh------hhhccCCCCC
Confidence 99999998865443221 3678999999
No 16
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.80 E-value=0.0012 Score=76.01 Aligned_cols=135 Identities=15% Similarity=0.216 Sum_probs=88.3
Q ss_pred CcCcccCCCCC-CCCCEEEecCCCceeccccccCCCCCCCceecccchhhccCCCCCCCCCCccCCCCcccccccCCCCC
Q 002891 460 RSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLCGGTT 538 (870)
Q Consensus 460 ~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~LCp~~g 538 (870)
..|.||...-. ..|.++.|++|+...||.|--......+.|.|..|..... ...|
T Consensus 84 ~~~nv~~s~~~~p~~e~~~~~r~~~~~~q~~~i~~~~~~~~~~~~~c~~~~~------------------------~~~g 139 (464)
T KOG4323|consen 84 LNPNVLTSETVLPENEKVICGRCKSGYHQGCNIPRFPSLDIGESTECVFPIF------------------------SQEG 139 (464)
T ss_pred cCCcccccccccCchhhhhhhhhccCcccccCccCcCcCCcccccccccccc------------------------cccc
Confidence 67999996432 4789999999999999999655444468899999876421 2347
Q ss_pred CCcccccCCceeeeeccccccceeeccCCcCccccccccCCCCcccccccCC----CceeeecCCCCCCccccccccccC
Q 002891 539 GAFRKSANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFPKGIDVCCICRHK----HGICIKCNYGNCQTTFHPTCARSA 614 (870)
Q Consensus 539 GALK~Tsdg~WVHVvCALWiPEv~f~n~~mepVeGIesI~k~k~~CsIC~~~----~GAcIqCs~~~C~~aFH~tCA~~a 614 (870)
|++|.. .-+| +-+.|....+ +.+...+..+.|+||..- .--+|+|+ .|..+||-.|.+..
T Consensus 140 ~a~K~g---~~a~-------~~l~y~~~~l----~wD~~~~~n~qc~vC~~g~~~~~NrmlqC~--~C~~~fHq~Chqp~ 203 (464)
T KOG4323|consen 140 GALKKG---RLAR-------PSLPYPEASL----DWDSGHKVNLQCSVCYCGGPGAGNRMLQCD--KCRQWYHQACHQPL 203 (464)
T ss_pred cccccc---cccc-------ccccCccccc----ccCccccccceeeeeecCCcCccceeeeec--ccccHHHHHhccCC
Confidence 777654 4444 2233321111 111233445669999852 12579999 99999999999876
Q ss_pred CceEEEeeCCCceeeeEeCCCCCh
Q 002891 615 GFYLNVKSTGGNFQHKAYCEKHSL 638 (870)
Q Consensus 615 G~~m~~k~~~g~i~~kaYC~kHs~ 638 (870)
--.+.+.. ..+..||..=..
T Consensus 204 i~~~l~~D----~~~~w~C~~C~~ 223 (464)
T KOG4323|consen 204 IKDELAGD----PFYEWFCDVCNR 223 (464)
T ss_pred CCHhhccC----ccceEeehhhcc
Confidence 55554422 345667766543
No 17
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=96.76 E-value=0.00064 Score=78.12 Aligned_cols=51 Identities=22% Similarity=0.585 Sum_probs=41.9
Q ss_pred CCCcCcccCCCCC-CCCCEEEecCCCceeccccccCCC------CCCCceecccchhh
Q 002891 458 HPRSCDICRRSET-ILNPILICSGCKVAVHLDCYRNAK------ESTGPWYCELCEEL 508 (870)
Q Consensus 458 ~~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi~~------ipeg~WLCd~C~~~ 508 (870)
.++.|+||..... ..|+||+|++|+--+|+.|.-... .+...|+|..|.+.
T Consensus 167 ~n~qc~vC~~g~~~~~NrmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~ 224 (464)
T KOG4323|consen 167 VNLQCSVCYCGGPGAGNRMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRG 224 (464)
T ss_pred ccceeeeeecCCcCccceeeeecccccHHHHHhccCCCCHhhccCccceEeehhhccc
Confidence 4567999997654 678999999999999999986542 35678999999875
No 18
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=96.74 E-value=0.0018 Score=65.84 Aligned_cols=128 Identities=16% Similarity=0.389 Sum_probs=72.8
Q ss_pred cCcccCCC-C-CCCCCEEEecCCCceeccccccCC--------CCCCC--ceecccchhhccCCCCCCCCCCccCCCCcc
Q 002891 461 SCDICRRS-E-TILNPILICSGCKVAVHLDCYRNA--------KESTG--PWYCELCEELLSSRSSGAPSVNFWEKPYFV 528 (870)
Q Consensus 461 ~CsVC~d~-E-~~~N~IV~Cd~C~IaVHq~CYGi~--------~ipeg--~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~ 528 (870)
.|.+|... + ...++||+|.+|..++|+.|.|.. ++.++ .--|+.|......+.. . .| ..
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~-----~---aP-~~ 71 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDP-----R---AP-HH 71 (175)
T ss_pred CcccccCCCCCccCCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccC-----C---CC-CC
Confidence 49999752 2 356899999999999999999974 33333 3569999875433221 1 12 26
Q ss_pred cccccCCCCCCCcccccCCceeeeecccccc-ceeeccCCcCccccccccCCCCcccccccCCCceeeecCCCCCCcccc
Q 002891 529 AECSLCGGTTGAFRKSANGQWVHAFCAEWVF-ESTFRRGQVNPVAGMEAFPKGIDVCCICRHKHGICIKCNYGNCQTTFH 607 (870)
Q Consensus 529 ~~C~LCp~~gGALK~Tsdg~WVHVvCALWiP-Ev~f~n~~mepVeGIesI~k~k~~CsIC~~~~GAcIqCs~~~C~~aFH 607 (870)
..|.-|...|-+-++.....- -+.. .....|+-..||..++.-.-++ ..-..+.|. .|.++||
T Consensus 72 ~~C~~C~~~G~~c~pfr~r~T------~kQEe~~ReeNgG~DPit~Vd~~lvnN--------~~nVLFRC~--~C~RawH 135 (175)
T PF15446_consen 72 GMCQQCKKPGPSCKPFRPRKT------PKQEEKLREENGGVDPITPVDPELVNN--------PDNVLFRCT--SCHRAWH 135 (175)
T ss_pred CcccccCCCCCCCcccCCCCC------cHHHHHHHHHcCCCCCCccCCHHHccC--------hhheEEecC--Cccceee
Confidence 689999987654433221110 0000 0122233334544433211110 133466788 8888999
Q ss_pred cccccc
Q 002891 608 PTCARS 613 (870)
Q Consensus 608 ~tCA~~ 613 (870)
..-.-.
T Consensus 136 ~~HLP~ 141 (175)
T PF15446_consen 136 FEHLPP 141 (175)
T ss_pred hhhCCC
Confidence 765543
No 19
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.72 E-value=0.0053 Score=73.57 Aligned_cols=52 Identities=27% Similarity=0.776 Sum_probs=43.7
Q ss_pred CCCCCcCcccCCCCCCCCCEEEecCCCce-eccccccCC--CCCCCceecccchhh
Q 002891 456 KEHPRSCDICRRSETILNPILICSGCKVA-VHLDCYRNA--KESTGPWYCELCEEL 508 (870)
Q Consensus 456 ke~~~~CsVC~d~E~~~N~IV~Cd~C~Ia-VHq~CYGi~--~ipeg~WLCd~C~~~ 508 (870)
......|.||...+. .+.||.||.|+.. +|-+|.... .+|-+.|+|+-|...
T Consensus 212 ~~E~~~C~IC~~~Dp-EdVLLLCDsCN~~~YH~YCLDPdl~eiP~~eWYC~NC~dL 266 (1134)
T KOG0825|consen 212 SQEEVKCDICTVHDP-EDVLLLCDSCNKVYYHVYCLDPDLSESPVNEWYCTNCSLL 266 (1134)
T ss_pred ccccccceeeccCCh-HHhheeecccccceeeccccCcccccccccceecCcchhh
Confidence 344578999998775 5789999999999 999999874 478999999999764
No 20
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=95.18 E-value=0.0076 Score=71.17 Aligned_cols=48 Identities=29% Similarity=0.800 Sum_probs=41.9
Q ss_pred CcCcccCCCCCCCCCEEEecCCCceeccccccCC----CCCCCceecccchhh
Q 002891 460 RSCDICRRSETILNPILICSGCKVAVHLDCYRNA----KESTGPWYCELCEEL 508 (870)
Q Consensus 460 ~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~----~ipeg~WLCd~C~~~ 508 (870)
.+|+-|...+. .|.||.||+|...|||.|.-.+ .+|.|.|+|.-|...
T Consensus 254 ~fCsaCn~~~~-F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 254 DFCSACNGSGL-FNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred HHHHHhCCccc-cccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 59999998765 3999999999999999999876 468899999999863
No 21
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=94.37 E-value=0.3 Score=52.91 Aligned_cols=51 Identities=27% Similarity=0.763 Sum_probs=40.6
Q ss_pred CCCCCCCcCcccCCCCCCCCCEEEecC--CCc-eeccccccCCCCCCCceecccchh
Q 002891 454 FSKEHPRSCDICRRSETILNPILICSG--CKV-AVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 454 ~ske~~~~CsVC~d~E~~~N~IV~Cd~--C~I-aVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
.+.++.++| -|.+.- .++||-||+ |.. =||..|.|....|.|.|+|+-|+.
T Consensus 216 ~se~e~lYC-fCqqvS--yGqMVaCDn~nCkrEWFH~~CVGLk~pPKG~WYC~eCk~ 269 (271)
T COG5034 216 NSEGEELYC-FCQQVS--YGQMVACDNANCKREWFHLECVGLKEPPKGKWYCPECKK 269 (271)
T ss_pred cccCceeEE-Eecccc--cccceecCCCCCchhheeccccccCCCCCCcEeCHHhHh
Confidence 444455555 677643 589999996 776 499999999999999999999985
No 22
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=94.35 E-value=0.021 Score=62.16 Aligned_cols=49 Identities=27% Similarity=0.793 Sum_probs=39.6
Q ss_pred CCCCcCcccCCCCCCCCCEEEecC--CC-ceeccccccCCCCCCCceecccchhh
Q 002891 457 EHPRSCDICRRSETILNPILICSG--CK-VAVHLDCYRNAKESTGPWYCELCEEL 508 (870)
Q Consensus 457 e~~~~CsVC~d~E~~~N~IV~Cd~--C~-IaVHq~CYGi~~ipeg~WLCd~C~~~ 508 (870)
++..+| +|.. .....||-||+ |. -=||..|.|+..-|.|.|+|..|...
T Consensus 217 ~e~~yC-~Cnq--vsyg~Mi~CDn~~C~~eWFH~~CVGL~~~PkgkWyC~~C~~~ 268 (274)
T KOG1973|consen 217 DEPTYC-ICNQ--VSYGKMIGCDNPGCPIEWFHFTCVGLKTKPKGKWYCPRCKAE 268 (274)
T ss_pred CCCEEE-Eecc--cccccccccCCCCCCcceEEEeccccccCCCCcccchhhhhh
Confidence 344555 4543 23689999998 99 78999999999999999999999875
No 23
>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 KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=92.42 E-value=0.11 Score=62.20 Aligned_cols=50 Identities=30% Similarity=0.766 Sum_probs=37.6
Q ss_pred CCcCcccCCCCCCCCCEEEecCCCceeccccccCC--CCCCCceecccchhhc
Q 002891 459 PRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEELL 509 (870)
Q Consensus 459 ~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~--~ipeg~WLCd~C~~~~ 509 (870)
...|-.|+. -.+.+.+++|++|.+++|-+|--.. .++.|+|+|..|..-.
T Consensus 68 crvCe~c~~-~gD~~kf~~Ck~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~ 119 (694)
T KOG4443|consen 68 CRVCEACGT-TGDPKKFLLCKRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCR 119 (694)
T ss_pred ceeeeeccc-cCCcccccccccccccccccccCCccccccCcccccHHHHhhh
Confidence 344555552 2346889999999999998887653 5789999999997653
No 25
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=90.94 E-value=0.15 Score=43.30 Aligned_cols=33 Identities=24% Similarity=0.679 Sum_probs=28.4
Q ss_pred CCCcCcccCCCCCCCCCEEEecCCCceeccccc
Q 002891 458 HPRSCDICRRSETILNPILICSGCKVAVHLDCY 490 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CY 490 (870)
....|.+|++.-...+.+|+|..|+...|..||
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~CgapyHR~C~ 36 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPYHRDCW 36 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcccHHHH
Confidence 346899999854457899999999999999999
No 26
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=90.30 E-value=0.21 Score=60.79 Aligned_cols=49 Identities=22% Similarity=0.624 Sum_probs=39.9
Q ss_pred CCCCCCcCcccCCCCCCCCCEEEecCCCceeccccccCC--CCCCCceecccchh
Q 002891 455 SKEHPRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEE 507 (870)
Q Consensus 455 ske~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~--~ipeg~WLCd~C~~ 507 (870)
+..+...|.||.+ +..++.|+.|-..+|..|-+.+ .+|.+.|+|.+|..
T Consensus 43 ~~~~~e~c~ic~~----~g~~l~c~tC~~s~h~~cl~~pl~~~p~~~~~c~Rc~~ 93 (696)
T KOG0383|consen 43 DDAEQEACRICAD----GGELLWCDTCPASFHASCLGPPLTPQPNGEFICPRCFC 93 (696)
T ss_pred chhhhhhhhhhcC----CCcEEEeccccHHHHHHccCCCCCcCCccceeeeeecc
Confidence 3445678999998 5678899999999999999875 35666699999943
No 27
>PF10198 Ada3: Histone acetyltransferases subunit 3; InterPro: IPR019340 This entry is found in Ada3 and homologous proteins which function as part of histone acetyltransferase complexes []. Ada3 is an essential component of the Ada transcriptional coactivator (alteration/deficiency in activation) complex. It plays a key role in linking histone acetyltransferase-containing complexes to p53 (tumour suppressor protein) thereby regulating p53 acetylation, stability and transcriptional activation following DNA damage [].
Probab=88.59 E-value=2.9 Score=41.45 Aligned_cols=83 Identities=19% Similarity=0.199 Sum_probs=58.1
Q ss_pred Hhhhcccc---------ccCCCcchhhHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHHhHHHH
Q 002891 285 KARTRGVL---------ELSPTDEVEGEIIYFQHRLLGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLVNQYLC 355 (870)
Q Consensus 285 ~~k~~~~l---------~~~P~de~e~Ei~~~q~~Ll~~~~~~k~~~~~lv~eV~k~l~~E~~~~~~r~~d~~~~nq~L~ 355 (870)
-.+..||+ .-..+|||-.||..+|++|..-...|..+...|..-+..++...=-+.-..-.|.....-|++
T Consensus 14 EL~~~Gll~~~d~~d~~~~~eDDEI~aeLR~lQ~eLr~~~~~N~~rk~rL~~~~~e~ma~QE~~~~l~~lD~~V~~aY~K 93 (131)
T PF10198_consen 14 ELRYIGLLSEDDDPDWQDNREDDEISAELRRLQAELREQSAHNNARKKRLLKIAKEEMARQEYKRILDDLDKQVEQAYKK 93 (131)
T ss_pred HHHHcCCcCCCCccccccCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999 336689999999999999999999888887777765555554332222234556555677888
Q ss_pred HHHHHHHcCCcc
Q 002891 356 ELREAKKQGRKE 367 (870)
Q Consensus 356 e~reAkkq~rke 367 (870)
-++..++..++.
T Consensus 94 r~~~~~kkkk~~ 105 (131)
T PF10198_consen 94 RMRARKKKKKKK 105 (131)
T ss_pred HHHHhhcccCcc
Confidence 887765554433
No 28
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=88.40 E-value=2.5 Score=49.67 Aligned_cols=50 Identities=28% Similarity=0.636 Sum_probs=38.6
Q ss_pred CCCCCCcCcccCCCCCCCCCEEEecCCCceeccccccCCC--CC----CCceecccc
Q 002891 455 SKEHPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAK--ES----TGPWYCELC 505 (870)
Q Consensus 455 ske~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~--ip----eg~WLCd~C 505 (870)
++.....|.||..+. +.-.++.||-|++.+|..|...+- .| ...|.|.-|
T Consensus 540 ~~a~~ysCgiCkks~-dQHll~~CDtC~lhYHlGCL~PPLTR~Pkk~kn~gWqCsEC 595 (707)
T KOG0957|consen 540 PKAMNYSCGICKKST-DQHLLTQCDTCHLHYHLGCLSPPLTRLPKKNKNFGWQCSEC 595 (707)
T ss_pred ccccceeeeeeccch-hhHHHhhcchhhceeeccccCCccccCcccccCcceeeccc
Confidence 344557899999853 245688999999999999998752 23 346999999
No 29
>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=86.01 E-value=0.55 Score=38.02 Aligned_cols=31 Identities=26% Similarity=0.800 Sum_probs=26.0
Q ss_pred ccccccCC--CceeeecCCCCCCccccccccccCC
Q 002891 583 VCCICRHK--HGICIKCNYGNCQTTFHPTCARSAG 615 (870)
Q Consensus 583 ~CsIC~~~--~GAcIqCs~~~C~~aFH~tCA~~aG 615 (870)
+|.+|++. .+.+|+|. .|..+||..|.....
T Consensus 1 ~C~vC~~~~~~~~~i~C~--~C~~~~H~~C~~~~~ 33 (51)
T PF00628_consen 1 YCPVCGQSDDDGDMIQCD--SCNRWYHQECVGPPE 33 (51)
T ss_dssp EBTTTTSSCTTSSEEEBS--TTSCEEETTTSTSSH
T ss_pred eCcCCCCcCCCCCeEEcC--CCChhhCcccCCCCh
Confidence 47888874 67899999 999999999997653
No 30
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=85.97 E-value=0.45 Score=52.00 Aligned_cols=48 Identities=25% Similarity=0.597 Sum_probs=37.7
Q ss_pred CcCcccCCCC--C----CCCCEEEecCCCceeccccccCCC-----CCCCceecccchh
Q 002891 460 RSCDICRRSE--T----ILNPILICSGCKVAVHLDCYRNAK-----ESTGPWYCELCEE 507 (870)
Q Consensus 460 ~~CsVC~d~E--~----~~N~IV~Cd~C~IaVHq~CYGi~~-----ipeg~WLCd~C~~ 507 (870)
.+|+.|.... . ...++|.|..|+..-|-+|..... +....|-|.-|++
T Consensus 225 ~YCDFclgdsr~nkkt~~peelvscsdcgrsghpsclqft~nm~~avk~yrwqcieck~ 283 (336)
T KOG1244|consen 225 PYCDFCLGDSRENKKTGMPEELVSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKY 283 (336)
T ss_pred cccceeccccccccccCCchhhcchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecce
Confidence 5899999643 1 235799999999999999987542 3467899999985
No 31
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=79.02 E-value=1.6 Score=41.97 Aligned_cols=48 Identities=25% Similarity=0.624 Sum_probs=36.1
Q ss_pred CcCcccCCCC-CCCCCEEEecCCCceeccccccCCCCCCCceecccchhh
Q 002891 460 RSCDICRRSE-TILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 508 (870)
Q Consensus 460 ~~CsVC~d~E-~~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~ 508 (870)
..|..|...- ...|.-..|..|...|=+.|- +....+..|+|..|...
T Consensus 55 ~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~-~~~~~~~~WlC~vC~k~ 103 (118)
T PF02318_consen 55 RHCARCGKPFGFLFNRGRVCVDCKHRVCKKCG-VYSKKEPIWLCKVCQKQ 103 (118)
T ss_dssp SB-TTTS-BCSCTSTTCEEETTTTEEEETTSE-EETSSSCCEEEHHHHHH
T ss_pred cchhhhCCcccccCCCCCcCCcCCccccCccC-CcCCCCCCEEChhhHHH
Confidence 4799998743 345777999999999999994 44345789999999875
No 32
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=78.08 E-value=1.3 Score=48.85 Aligned_cols=49 Identities=22% Similarity=0.348 Sum_probs=38.8
Q ss_pred CCcCcccCCCCC-----CCCCEEEecCCCceeccccccCCC-----CCCCceecccchh
Q 002891 459 PRSCDICRRSET-----ILNPILICSGCKVAVHLDCYRNAK-----ESTGPWYCELCEE 507 (870)
Q Consensus 459 ~~~CsVC~d~E~-----~~N~IV~Cd~C~IaVHq~CYGi~~-----ipeg~WLCd~C~~ 507 (870)
...|.+|++... ..|-+|.|.-|..+.|-+|..... +..-.|-|--|..
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~l 316 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCKPCATRPHPYCVAMIPELVGQYKTYFWKCSSCEL 316 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeecccccCCCCcchhcCHHHHhHHhhcchhhcccHh
Confidence 467999998643 247899999999999999987542 3467899988874
No 33
>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=76.24 E-value=2.6 Score=34.40 Aligned_cols=35 Identities=26% Similarity=0.592 Sum_probs=26.5
Q ss_pred CCcCcccCCCC-CCCCCEEEecCCCceeccccccCC
Q 002891 459 PRSCDICRRSE-TILNPILICSGCKVAVHLDCYRNA 493 (870)
Q Consensus 459 ~~~CsVC~d~E-~~~N~IV~Cd~C~IaVHq~CYGi~ 493 (870)
...|++|...= +...+-+.|..|++.||..|....
T Consensus 11 ~~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 11 PTYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp TEB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred CCCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 36899999753 245788999999999999998654
No 34
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=75.91 E-value=0.66 Score=60.74 Aligned_cols=51 Identities=31% Similarity=0.762 Sum_probs=42.6
Q ss_pred CCCcCcccCCCCCCCCCEEEecCCCceeccccccCC--CCCCCceecccchhhc
Q 002891 458 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNA--KESTGPWYCELCEELL 509 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~--~ipeg~WLCd~C~~~~ 509 (870)
....|-||+.... .+.++.|+.|.-.+|..|..+. .+|.+.|+|..|....
T Consensus 1107 ~~~~c~~cr~k~~-~~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW~C~~c~~e~ 1159 (1404)
T KOG1245|consen 1107 VNALCKVCRRKKQ-DEKMLLCDECLSGFHLFCLRPALSSVPPGDWMCPSCRKEH 1159 (1404)
T ss_pred chhhhhhhhhccc-chhhhhhHhhhhhHHHHhhhhhhccCCcCCccCCccchhh
Confidence 4578999997432 4789999999999999999864 5678999999998764
No 35
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=75.19 E-value=1.4 Score=48.33 Aligned_cols=31 Identities=29% Similarity=0.536 Sum_probs=26.2
Q ss_pred CcccccccCCCceeeecCCCCCC-cccccccc
Q 002891 581 IDVCCICRHKHGICIKCNYGNCQ-TTFHPTCA 611 (870)
Q Consensus 581 k~~CsIC~~~~GAcIqCs~~~C~-~aFH~tCA 611 (870)
...|..+....|.+|.|...+|. .|||..|.
T Consensus 219 ~~yC~Cnqvsyg~Mi~CDn~~C~~eWFH~~CV 250 (274)
T KOG1973|consen 219 PTYCICNQVSYGKMIGCDNPGCPIEWFHFTCV 250 (274)
T ss_pred CEEEEecccccccccccCCCCCCcceEEEecc
Confidence 46666555679999999999999 99999996
No 36
>cd00029 C1 Protein kinase C conserved region 1 (C1) . Cysteine-rich zinc binding domain. Some members of this domain family bind phorbol esters and diacylglycerol, some are reported to bind RasGTP. May occur in tandem arrangement. Diacylglycerol (DAG) is a second messenger, released by activation of Phospholipase D. Phorbol Esters (PE) can act as analogues of DAG and mimic its downstream effects in, for example, tumor promotion. Protein Kinases C are activated by DAG/PE, this activation is mediated by their N-terminal conserved region (C1). DAG/PE binding may be phospholipid dependent. C1 domains may also mediate DAG/PE signals in chimaerins (a family of Rac GTPase activating proteins), RasGRPs (exchange factors for Ras/Rap1), and Munc13 isoforms (scaffolding proteins involved in exocytosis).
Probab=72.38 E-value=2.1 Score=34.01 Aligned_cols=34 Identities=41% Similarity=0.812 Sum_probs=26.7
Q ss_pred CCcCcccCCCCC-CCCCEEEecCCCceeccccccC
Q 002891 459 PRSCDICRRSET-ILNPILICSGCKVAVHLDCYRN 492 (870)
Q Consensus 459 ~~~CsVC~d~E~-~~N~IV~Cd~C~IaVHq~CYGi 492 (870)
...|.+|...=. ...+-+.|+.|++.||..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~~C~~C~~~~H~~C~~~ 45 (50)
T cd00029 11 PTFCDVCRKSIWGLFKQGLRCSWCKVKCHKKCADK 45 (50)
T ss_pred CCChhhcchhhhccccceeEcCCCCCchhhhhhcc
Confidence 467999987432 2357889999999999999864
No 37
>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=70.71 E-value=1.9 Score=31.97 Aligned_cols=28 Identities=29% Similarity=0.710 Sum_probs=12.3
Q ss_pred cCcccCCCCCCCCCEEEecCCCceecccc
Q 002891 461 SCDICRRSETILNPILICSGCKVAVHLDC 489 (870)
Q Consensus 461 ~CsVC~d~E~~~N~IV~Cd~C~IaVHq~C 489 (870)
.|.+|...-. .+....|..|+..+|..|
T Consensus 2 ~C~~C~~~~~-~~~~Y~C~~Cdf~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPID-GGWFYRCSECDFDLHEEC 29 (30)
T ss_dssp --TTTS-----S--EEE-TTT-----HHH
T ss_pred cCCcCCCcCC-CCceEECccCCCccChhc
Confidence 5999987432 247899999999999988
No 38
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=70.07 E-value=3.8 Score=52.24 Aligned_cols=112 Identities=21% Similarity=0.428 Sum_probs=72.0
Q ss_pred CCCCCCCcCcccCCCCCCCCCEEEecCCCceeccccccCCC--CCCCceecccchhhccCCCCCCCCCCccCCCCccccc
Q 002891 454 FSKEHPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAK--ESTGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAEC 531 (870)
Q Consensus 454 ~ske~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~--ipeg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C 531 (870)
...+-+..|-+|.+ .+.++.|..|...||..|.-.+. .|...|-|..|..-.-+ + .+.|
T Consensus 339 ~~~~~ddhcrf~~d----~~~~lc~Et~prvvhlEcv~hP~~~~~s~~~e~evc~~hkvn---------g------vvd~ 399 (1414)
T KOG1473|consen 339 GEIEYDDHCRFCHD----LGDLLCCETCPRVVHLECVFHPRFAVPSAFWECEVCNIHKVN---------G------VVDC 399 (1414)
T ss_pred cceeecccccccCc----ccceeecccCCceEEeeecCCccccCCCccchhhhhhhhccC---------c------cccc
Confidence 34444567999987 68899999999999999976553 56889999999864321 1 3456
Q ss_pred ccCCCCCCCccc-ccCCceeeeeccccccceeeccCCcCccccccccCC----CCcccccccCCCceeeecCCCCCCccc
Q 002891 532 SLCGGTTGAFRK-SANGQWVHAFCAEWVFESTFRRGQVNPVAGMEAFPK----GIDVCCICRHKHGICIKCNYGNCQTTF 606 (870)
Q Consensus 532 ~LCp~~gGALK~-Tsdg~WVHVvCALWiPEv~f~n~~mepVeGIesI~k----~k~~CsIC~~~~GAcIqCs~~~C~~aF 606 (870)
+|=+.+.+...+ +..| .+...+ ...+|.||+.. | ..-|.++.|...|
T Consensus 400 vl~~~K~~~~iR~~~iG--------------------------~dr~gr~ywfi~rrl~Ie~~d-e-t~l~yysT~pqly 451 (1414)
T KOG1473|consen 400 VLPPSKNVDSIRHTPIG--------------------------RDRYGRKYWFISRRLRIEGMD-E-TLLWYYSTCPQLY 451 (1414)
T ss_pred ccChhhcccceeccCCC--------------------------cCccccchhceeeeeEEecCC-C-cEEEEecCcHHHH
Confidence 666654443321 1111 111100 13578888863 3 3346677899999
Q ss_pred cc-cccc
Q 002891 607 HP-TCAR 612 (870)
Q Consensus 607 H~-tCA~ 612 (870)
|. .|.=
T Consensus 452 ~ll~cLd 458 (1414)
T KOG1473|consen 452 HLLRCLD 458 (1414)
T ss_pred HHHHHhc
Confidence 98 7764
No 39
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=67.31 E-value=2.2 Score=33.46 Aligned_cols=34 Identities=38% Similarity=0.621 Sum_probs=25.5
Q ss_pred CCcCcccCCCCCCCCCEEEecCCCceeccccccC
Q 002891 459 PRSCDICRRSETILNPILICSGCKVAVHLDCYRN 492 (870)
Q Consensus 459 ~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi 492 (870)
...|.+|...-....+-+.|..|++.||..|...
T Consensus 11 ~~~C~~C~~~i~~~~~~~~C~~C~~~~H~~C~~~ 44 (49)
T smart00109 11 PTKCCVCRKSIWGSFQGLRCSWCKVKCHKKCAEK 44 (49)
T ss_pred CCCccccccccCcCCCCcCCCCCCchHHHHHHhh
Confidence 4689999975321115689999999999999753
No 40
>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=64.31 E-value=3.6 Score=41.68 Aligned_cols=27 Identities=37% Similarity=0.808 Sum_probs=22.0
Q ss_pred eeccccccCC--CCCCCceecccchhhcc
Q 002891 484 AVHLDCYRNA--KESTGPWYCELCEELLS 510 (870)
Q Consensus 484 aVHq~CYGi~--~ipeg~WLCd~C~~~~s 510 (870)
.+|..|...+ .+|+|.|+|..|.....
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~C~~~~~ 29 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPFCEVEKS 29 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCCCcCCCC
Confidence 3799999864 57999999999997543
No 41
>KOG1701 consensus Focal adhesion adaptor protein Paxillin and related LIM proteins [Signal transduction mechanisms]
Probab=64.17 E-value=4.8 Score=46.72 Aligned_cols=118 Identities=24% Similarity=0.463 Sum_probs=69.4
Q ss_pred CCCceecccchhhccCCCCCCCCCCccCCCCcccccccCCCC---------CCCcccccCCceeeeeccccccceeeccC
Q 002891 496 STGPWYCELCEELLSSRSSGAPSVNFWEKPYFVAECSLCGGT---------TGAFRKSANGQWVHAFCAEWVFESTFRRG 566 (870)
Q Consensus 496 peg~WLCd~C~~~~s~~~s~q~~vn~~~~p~~~~~C~LCp~~---------gGALK~Tsdg~WVHVvCALWiPEv~f~n~ 566 (870)
-++.-+|+.|-... .-+|..|+.. |+++ --+-|+=|+|+--+.++-|.-+
T Consensus 320 v~~k~~CE~cyq~t------------------lekC~~Cg~~I~d~iLrA~Gkay---Hp~CF~Cv~C~r~ldgipFtvd 378 (468)
T KOG1701|consen 320 VDGKPYCEGCYQDT------------------LEKCNKCGEPIMDRILRALGKAY---HPGCFTCVVCARCLDGIPFTVD 378 (468)
T ss_pred cCCcccchHHHHHH------------------HHHHhhhhhHHHHHHHHhccccc---CCCceEEEEeccccCCcccccc
Confidence 36677888886642 3378888762 2222 2345666777777777777533
Q ss_pred CcCccccccccCC-CCcccccccCC----Cc----eeeecCCCCCCccccccccccCCceEEEe--eCC-Cc--eeeeEe
Q 002891 567 QVNPVAGMEAFPK-GIDVCCICRHK----HG----ICIKCNYGNCQTTFHPTCARSAGFYLNVK--STG-GN--FQHKAY 632 (870)
Q Consensus 567 ~mepVeGIesI~k-~k~~CsIC~~~----~G----AcIqCs~~~C~~aFH~tCA~~aG~~m~~k--~~~-g~--i~~kaY 632 (870)
.-+.|.=+....+ ..-+|++|+.. .| .-|-|. .+.||+.|-+-..+-|.+. .++ +. +.-.++
T Consensus 379 ~~n~v~Cv~dfh~kfAPrCs~C~~PI~P~~G~~etvRvvam----dr~fHv~CY~CEDCg~~LS~e~e~qgCyPld~Hll 454 (468)
T KOG1701|consen 379 SQNNVYCVPDFHKKFAPRCSVCGNPILPRDGKDETVRVVAM----DRDFHVNCYKCEDCGLLLSSEEEGQGCYPLDGHLL 454 (468)
T ss_pred CCCceeeehhhhhhcCcchhhccCCccCCCCCcceEEEEEc----cccccccceehhhcCccccccCCCCcceeccCcee
Confidence 2233333334433 46899999974 12 223444 4789999999876666553 221 22 345788
Q ss_pred CCCCCh
Q 002891 633 CEKHSL 638 (870)
Q Consensus 633 C~kHs~ 638 (870)
|+.=..
T Consensus 455 Ck~Ch~ 460 (468)
T KOG1701|consen 455 CKTCHL 460 (468)
T ss_pred echhhh
Confidence 876443
No 42
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=64.03 E-value=6.4 Score=29.35 Aligned_cols=27 Identities=37% Similarity=0.849 Sum_probs=21.6
Q ss_pred cCcccCCCCCCCCC-EEEecCCCceecccc
Q 002891 461 SCDICRRSETILNP-ILICSGCKVAVHLDC 489 (870)
Q Consensus 461 ~CsVC~d~E~~~N~-IV~Cd~C~IaVHq~C 489 (870)
.|+||++.- .+. ...|..|...+|..|
T Consensus 2 ~C~~C~~~~--~~~~~Y~C~~c~f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKI--DGFYFYHCSECCFTLHVRC 29 (30)
T ss_pred CCCCCCCCc--CCCEeEEeCCCCCeEcCcc
Confidence 499998632 233 889999999999988
No 43
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=63.75 E-value=4.1 Score=49.41 Aligned_cols=47 Identities=28% Similarity=0.622 Sum_probs=32.8
Q ss_pred cCcccCCCC-CCCCCEEEecCCCceeccccccCCC---CCCCceecccchh
Q 002891 461 SCDICRRSE-TILNPILICSGCKVAVHLDCYRNAK---ESTGPWYCELCEE 507 (870)
Q Consensus 461 ~CsVC~d~E-~~~N~IV~Cd~C~IaVHq~CYGi~~---ipeg~WLCd~C~~ 507 (870)
-|-+|...- ...+.++.|..|+...|.+|..+.- +-.+-|-|..|..
T Consensus 20 mc~l~~s~G~~~ag~m~ac~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crv 70 (694)
T KOG4443|consen 20 MCPLCGSSGKGRAGRLLACSDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRV 70 (694)
T ss_pred hhhhhccccccccCcchhhhhhcccCCcchhhHHHhHHHhcCCcccCCcee
Confidence 455555432 2368899999999999999987421 1234499999875
No 44
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=62.19 E-value=6.5 Score=45.99 Aligned_cols=46 Identities=26% Similarity=0.515 Sum_probs=32.9
Q ss_pred cCcccCCCCCCCC--CEEEecCCCceeccccccCC---------C-----CCCCceecccchh
Q 002891 461 SCDICRRSETILN--PILICSGCKVAVHLDCYRNA---------K-----ESTGPWYCELCEE 507 (870)
Q Consensus 461 ~CsVC~d~E~~~N--~IV~Cd~C~IaVHq~CYGi~---------~-----ipeg~WLCd~C~~ 507 (870)
.|.||..++.+.| .-|.||.|+-..|..|- +. . ..++.+.|..|-.
T Consensus 130 ~C~iC~kfD~~~n~~~Wi~Cd~CgH~cH~dCA-Lr~~~i~~G~s~~g~~g~~d~~f~C~~C~~ 191 (446)
T PF07227_consen 130 MCCICSKFDDNKNTCSWIGCDVCGHWCHLDCA-LRHELIGTGPSVKGSIGTLDMQFHCRACGK 191 (446)
T ss_pred CccccCCcccCCCCeeEEeccCCCceehhhhh-cccccccCCccCCCCCccCceEEEccCCCC
Confidence 5788888776445 47999999999999994 21 0 1245678888754
No 45
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=60.45 E-value=8.1 Score=40.63 Aligned_cols=44 Identities=25% Similarity=0.703 Sum_probs=34.6
Q ss_pred CCCcCcccCCCCC----CCCCEEEecCCCceeccccccCCCCCCCceecccchhh
Q 002891 458 HPRSCDICRRSET----ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 508 (870)
Q Consensus 458 ~~~~CsVC~d~E~----~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~ 508 (870)
.+-.|-+|.+.+. ..+..+.|..|+..+|+.|+.- --|.+|.-.
T Consensus 151 kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~v~H~~C~~~-------~~CpkC~R~ 198 (202)
T PF13901_consen 151 KGFICEICNSDDIIFPFQIDTTVRCPKCKSVFHKSCFRK-------KSCPKCARR 198 (202)
T ss_pred CCCCCccCCCCCCCCCCCCCCeeeCCcCccccchhhcCC-------CCCCCcHhH
Confidence 3468999998663 3457899999999999999973 129999864
No 46
>KOG1044 consensus Actin-binding LIM Zn-finger protein Limatin involved in axon guidance [Signal transduction mechanisms; Cytoskeleton]
Probab=58.18 E-value=4.8 Score=48.27 Aligned_cols=85 Identities=26% Similarity=0.414 Sum_probs=42.6
Q ss_pred ccccccCCC---CCCCcccccCCceeeeeccccccceeeccCCcCccccccc-----cCCCCcccccccCC-CceeeecC
Q 002891 528 VAECSLCGG---TTGAFRKSANGQWVHAFCAEWVFESTFRRGQVNPVAGMEA-----FPKGIDVCCICRHK-HGICIKCN 598 (870)
Q Consensus 528 ~~~C~LCp~---~gGALK~Tsdg~WVHVvCALWiPEv~f~n~~mepVeGIes-----I~k~k~~CsIC~~~-~GAcIqCs 598 (870)
...|+-|.. .|++|.- -+-+| ||.|..-..-..+-++....-+|+.- -.+...+|..|.+- .|..++=.
T Consensus 133 ps~cagc~~~lk~gq~lla-ld~qw-hv~cfkc~~c~~vL~gey~skdg~pyce~dy~~~fgvkc~~c~~fisgkvLqag 210 (670)
T KOG1044|consen 133 PSTCAGCGEELKNGQALLA-LDKQW-HVSCFKCKSCSAVLNGEYMSKDGVPYCEKDYQAKFGVKCEECEKFISGKVLQAG 210 (670)
T ss_pred Cccccchhhhhhccceeee-eccce-eeeeeehhhhcccccceeeccCCCcchhhhhhhhcCeehHHhhhhhhhhhhhcc
Confidence 557888875 3444443 34467 66674433222222221100111100 01124677777653 44444433
Q ss_pred CCCCCccccccccccCCceE
Q 002891 599 YGNCQTTFHPTCARSAGFYL 618 (870)
Q Consensus 599 ~~~C~~aFH~tCA~~aG~~m 618 (870)
+ ..|||+||+-..+--
T Consensus 211 --~--kh~HPtCARCsRCgq 226 (670)
T KOG1044|consen 211 --D--KHFHPTCARCSRCGQ 226 (670)
T ss_pred --C--cccCcchhhhhhhcc
Confidence 3 789999999876643
No 47
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=54.84 E-value=22 Score=44.26 Aligned_cols=51 Identities=22% Similarity=0.447 Sum_probs=35.6
Q ss_pred CcccccccCC--CceeeecCCCCCCcc-ccccccccCCceEEEeeCCCceeeeEeCCCCChhhH
Q 002891 581 IDVCCICRHK--HGICIKCNYGNCQTT-FHPTCARSAGFYLNVKSTGGNFQHKAYCEKHSLEQK 641 (870)
Q Consensus 581 k~~CsIC~~~--~GAcIqCs~~~C~~a-FH~tCA~~aG~~m~~k~~~g~i~~kaYC~kHs~~qk 641 (870)
...|.||... .-.+|-|. .|... ||..|.-..-+.+- ....||..-...+.
T Consensus 215 ~~~C~IC~~~DpEdVLLLCD--sCN~~~YH~YCLDPdl~eiP--------~~eWYC~NC~dL~~ 268 (1134)
T KOG0825|consen 215 EVKCDICTVHDPEDVLLLCD--SCNKVYYHVYCLDPDLSESP--------VNEWYCTNCSLLEI 268 (1134)
T ss_pred cccceeeccCChHHhheeec--ccccceeeccccCccccccc--------ccceecCcchhhhh
Confidence 4789999985 56788999 99977 99999855322221 12459987666543
No 48
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=48.66 E-value=8.8 Score=42.05 Aligned_cols=31 Identities=29% Similarity=0.764 Sum_probs=25.3
Q ss_pred cccccccC-CCceeeecCCCCCC-cccccccccc
Q 002891 582 DVCCICRH-KHGICIKCNYGNCQ-TTFHPTCARS 613 (870)
Q Consensus 582 ~~CsIC~~-~~GAcIqCs~~~C~-~aFH~tCA~~ 613 (870)
+.| +|++ ..|-+|.|...+|. .|||..|.=.
T Consensus 222 lYC-fCqqvSyGqMVaCDn~nCkrEWFH~~CVGL 254 (271)
T COG5034 222 LYC-FCQQVSYGQMVACDNANCKREWFHLECVGL 254 (271)
T ss_pred eEE-EecccccccceecCCCCCchhheecccccc
Confidence 555 5665 68999999999996 7999999743
No 49
>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=47.97 E-value=17 Score=33.09 Aligned_cols=30 Identities=23% Similarity=0.656 Sum_probs=20.8
Q ss_pred CCcCcccCCCCCCCCCEEEecCCCceeccccc
Q 002891 459 PRSCDICRRSETILNPILICSGCKVAVHLDCY 490 (870)
Q Consensus 459 ~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CY 490 (870)
...|.||...= ++..+.---|+-.||..|+
T Consensus 78 ~~~C~vC~k~l--~~~~f~~~p~~~v~H~~C~ 107 (109)
T PF10367_consen 78 STKCSVCGKPL--GNSVFVVFPCGHVVHYSCI 107 (109)
T ss_pred CCCccCcCCcC--CCceEEEeCCCeEEecccc
Confidence 36799999843 3344444456799999996
No 50
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=46.87 E-value=88 Score=28.01 Aligned_cols=59 Identities=32% Similarity=0.250 Sum_probs=46.3
Q ss_pred chhhHHHHHHHHH--hhhhhhhhhhhHHHHHHHHHHhhHHHHhhhhcchhhHHHhHHHHHHHHHHHcC
Q 002891 299 EVEGEIIYFQHRL--LGNAFSRKRLADNLVCKAVKTLNQEIDVARGRRWDAVLVNQYLCELREAKKQG 364 (870)
Q Consensus 299 e~e~Ei~~~q~~L--l~~~~~~k~~~~~lv~eV~k~l~~E~~~~~~r~~d~~~~nq~L~e~reAkkq~ 364 (870)
.+|.|+..||++| +.+-.. .-....+.|..|-+.+-.+--+.+.-+.-|++..++.++.
T Consensus 2 ~Lea~~~~Lr~rLd~~~rk~~-------~~~~~~k~L~~ERd~~~~~l~~a~~e~~~Lk~E~e~L~~e 62 (69)
T PF14197_consen 2 KLEAEIATLRNRLDSLTRKNS-------VHEIENKRLRRERDSAERQLGDAYEENNKLKEENEALRKE 62 (69)
T ss_pred hHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999998 222221 1335678888999999999888999999999999998876
No 51
>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=46.65 E-value=8.7 Score=28.47 Aligned_cols=27 Identities=26% Similarity=0.717 Sum_probs=12.2
Q ss_pred ccccccCCCc--eeeecCCCCCCcccccccc
Q 002891 583 VCCICRHKHG--ICIKCNYGNCQTTFHPTCA 611 (870)
Q Consensus 583 ~CsIC~~~~G--AcIqCs~~~C~~aFH~tCA 611 (870)
.|.+|+...+ ..-.|. .|...+|..||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCS--ECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-T--TT-----HHHH
T ss_pred cCCcCCCcCCCCceEECc--cCCCccChhcC
Confidence 6899998754 466798 99999999997
No 52
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=45.42 E-value=17 Score=27.09 Aligned_cols=27 Identities=41% Similarity=0.968 Sum_probs=21.7
Q ss_pred ccccccCC-Cce-eeecCCCCCCcccccccc
Q 002891 583 VCCICRHK-HGI-CIKCNYGNCQTTFHPTCA 611 (870)
Q Consensus 583 ~CsIC~~~-~GA-cIqCs~~~C~~aFH~tCA 611 (870)
.|.+|++. .|- .-.|. .|...+|+.||
T Consensus 2 ~C~~C~~~~~~~~~Y~C~--~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCS--ECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCcCCCEeEEeC--CCCCeEcCccC
Confidence 58999886 455 66795 88899999997
No 53
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=41.17 E-value=16 Score=46.97 Aligned_cols=49 Identities=24% Similarity=0.586 Sum_probs=39.2
Q ss_pred CCCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchh
Q 002891 458 HPRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 458 ~~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
+...|-||++.-. +++..|-|.-|+..|-..||- ....+|.=-|..|+.
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCYE-YEr~eG~q~CPqCkt 67 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCYE-YERKDGNQSCPQCKT 67 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCC
Confidence 3468999998432 466789999999999999993 334588889999975
No 54
>PLN02400 cellulose synthase
Probab=40.56 E-value=20 Score=46.19 Aligned_cols=48 Identities=23% Similarity=0.607 Sum_probs=38.8
Q ss_pred CCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchh
Q 002891 459 PRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 459 ~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
...|-||++.-. +++..|-|.-|...|-..||-. ...+|.=.|..|+-
T Consensus 36 gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCYEY-ERkeGnq~CPQCkT 86 (1085)
T PLN02400 36 GQICQICGDDVGVTETGDVFVACNECAFPVCRPCYEY-ERKDGTQCCPQCKT 86 (1085)
T ss_pred CceeeecccccCcCCCCCEEEEEccCCCccccchhhe-ecccCCccCcccCC
Confidence 468999998532 4678899999999999999943 34588889999975
No 55
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=39.24 E-value=15 Score=32.40 Aligned_cols=32 Identities=28% Similarity=0.600 Sum_probs=12.8
Q ss_pred CcCcccCCCCCC--CCCEEEec--CCCceecccccc
Q 002891 460 RSCDICRRSETI--LNPILICS--GCKVAVHLDCYR 491 (870)
Q Consensus 460 ~~CsVC~d~E~~--~N~IV~Cd--~C~IaVHq~CYG 491 (870)
..|.||...... .-..+.|. .|+..+|..|.-
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~ 38 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLS 38 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHH
Confidence 579999975432 23568998 899999999984
No 56
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=37.39 E-value=5.3 Score=36.62 Aligned_cols=49 Identities=22% Similarity=0.552 Sum_probs=23.5
Q ss_pred CCCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchh
Q 002891 458 HPRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 458 ~~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
+...|-||++.-. +++.++-|..|+..|-..||-.. ..+|.-.|..|..
T Consensus 8 ~~qiCqiCGD~VGl~~~Ge~FVAC~eC~fPvCr~CyEYE-rkeg~q~CpqCkt 59 (80)
T PF14569_consen 8 NGQICQICGDDVGLTENGEVFVACHECAFPVCRPCYEYE-RKEGNQVCPQCKT 59 (80)
T ss_dssp SS-B-SSS--B--B-SSSSB--S-SSS-----HHHHHHH-HHTS-SB-TTT--
T ss_pred CCcccccccCccccCCCCCEEEEEcccCCccchhHHHHH-hhcCcccccccCC
Confidence 3468999998432 46789999999999999999643 3467778888874
No 57
>PLN02436 cellulose synthase A
Probab=36.86 E-value=22 Score=45.79 Aligned_cols=48 Identities=27% Similarity=0.654 Sum_probs=38.4
Q ss_pred CCcCcccCCCC--C-CCCCEEEecCCCceeccccccCCCCCCCceecccchh
Q 002891 459 PRSCDICRRSE--T-ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 459 ~~~CsVC~d~E--~-~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
...|-||++.- + +++..|-|.-|+..|-..||- ....+|.=.|..|+.
T Consensus 36 ~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cye-yer~eg~~~Cpqckt 86 (1094)
T PLN02436 36 GQTCQICGDEIELTVDGEPFVACNECAFPVCRPCYE-YERREGNQACPQCKT 86 (1094)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhcCCccCcccCC
Confidence 46899999853 2 466789999999999999993 334578889999975
No 58
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=36.84 E-value=20 Score=42.01 Aligned_cols=46 Identities=20% Similarity=0.432 Sum_probs=37.0
Q ss_pred cccCCCCCCCCCEEEecCCCceeccccccCCCCCC-Cceecccchhh
Q 002891 463 DICRRSETILNPILICSGCKVAVHLDCYRNAKEST-GPWYCELCEEL 508 (870)
Q Consensus 463 sVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~ipe-g~WLCd~C~~~ 508 (870)
++|...+...+.++.|+-|..--|..|+|+..... ....|..|...
T Consensus 89 c~c~~~~~~~g~~i~c~~c~~Wqh~~C~g~~~~~~p~~y~c~~c~~~ 135 (508)
T KOG1844|consen 89 CDCGLEDDMEGLMIQCDWCGRWQHKICCGSFKSTKPDKYVCEICTPR 135 (508)
T ss_pred cccccccCCCceeeCCcccCcccCceeeeecCCCCchhceeeeeccc
Confidence 46776443368899999999999999999976554 67899999864
No 59
>PF13764 E3_UbLigase_R4: E3 ubiquitin-protein ligase UBR4
Probab=36.66 E-value=1.1e+02 Score=38.79 Aligned_cols=31 Identities=19% Similarity=0.305 Sum_probs=21.7
Q ss_pred CCCCCCcCcccCCCCC-C----CCCEEEecCCCcee
Q 002891 455 SKEHPRSCDICRRSET-I----LNPILICSGCKVAV 485 (870)
Q Consensus 455 ske~~~~CsVC~d~E~-~----~N~IV~Cd~C~IaV 485 (870)
..+....|+||+.+-. . .+...|+..|++..
T Consensus 464 ~ee~gl~C~ICrEGy~~~p~~~lGiY~f~kr~~l~~ 499 (802)
T PF13764_consen 464 EEEDGLTCCICREGYKFRPDEVLGIYAFSKRVNLEE 499 (802)
T ss_pred cccCCCeEEEcCCccccCCccceeeEEEeecccchh
Confidence 3477889999997531 2 34567888898833
No 60
>PLN02195 cellulose synthase A
Probab=36.57 E-value=23 Score=45.33 Aligned_cols=49 Identities=16% Similarity=0.376 Sum_probs=38.9
Q ss_pred CCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchhh
Q 002891 459 PRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 508 (870)
Q Consensus 459 ~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~ 508 (870)
...|.||++.-. +++..|-|.-|+..|-..||- ....+|.=-|..|+..
T Consensus 6 ~~~c~~cgd~~~~~~~g~~fvaC~eC~~pvCrpCye-yer~eg~q~CpqCkt~ 57 (977)
T PLN02195 6 APICATCGEEVGVDSNGEAFVACHECSYPLCKACLE-YEIKEGRKVCLRCGGP 57 (977)
T ss_pred CccceecccccCcCCCCCeEEEeccCCCccccchhh-hhhhcCCccCCccCCc
Confidence 458999998432 467899999999999999993 3345788899999753
No 61
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=33.89 E-value=26 Score=45.10 Aligned_cols=50 Identities=24% Similarity=0.600 Sum_probs=39.6
Q ss_pred CCCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchhh
Q 002891 458 HPRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEEL 508 (870)
Q Consensus 458 ~~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~~ 508 (870)
....|.||++.-. +++..|-|.-|+..|-..||- ....+|.=.|..|+..
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cye-ye~~~g~~~cp~c~t~ 66 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCYE-YERSEGNQCCPQCNTR 66 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCCCccccchhh-hhhhcCCccCCccCCc
Confidence 3468999998532 466789999999999999993 3345788899999753
No 62
>KOG3799 consensus Rab3 effector RIM1 and related proteins, contain Rab3a binding domain [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.90 E-value=18 Score=36.42 Aligned_cols=51 Identities=22% Similarity=0.482 Sum_probs=35.0
Q ss_pred CCCcCcccCCCCCCCCCEEEecCCCceeccccccCCCCC--CCceecccchhh
Q 002891 458 HPRSCDICRRSETILNPILICSGCKVAVHLDCYRNAKES--TGPWYCELCEEL 508 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~ip--eg~WLCd~C~~~ 508 (870)
++..|-||......++-=-.|.-|++.+-..|-|-.... ...|.|.+|.-.
T Consensus 64 ddatC~IC~KTKFADG~GH~C~YCq~r~CARCGGrv~lrsNKv~wvcnlc~k~ 116 (169)
T KOG3799|consen 64 DDATCGICHKTKFADGCGHNCSYCQTRFCARCGGRVSLRSNKVMWVCNLCRKQ 116 (169)
T ss_pred cCcchhhhhhcccccccCcccchhhhhHHHhcCCeeeeccCceEEeccCCcHH
Confidence 457899999754333444567888888888887655443 346999999753
No 63
>PLN02189 cellulose synthase
Probab=31.83 E-value=30 Score=44.63 Aligned_cols=48 Identities=23% Similarity=0.573 Sum_probs=38.4
Q ss_pred CCcCcccCCCCC---CCCCEEEecCCCceeccccccCCCCCCCceecccchh
Q 002891 459 PRSCDICRRSET---ILNPILICSGCKVAVHLDCYRNAKESTGPWYCELCEE 507 (870)
Q Consensus 459 ~~~CsVC~d~E~---~~N~IV~Cd~C~IaVHq~CYGi~~ipeg~WLCd~C~~ 507 (870)
...|.||++.-+ +++..|-|.-|+..|-..||- ....+|.=-|..|+.
T Consensus 34 ~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cye-yer~eg~q~CpqCkt 84 (1040)
T PLN02189 34 GQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCYE-YERREGTQNCPQCKT 84 (1040)
T ss_pred CccccccccccCcCCCCCEEEeeccCCCccccchhh-hhhhcCCccCcccCC
Confidence 458999998532 466789999999999999993 334578889999975
No 64
>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=31.58 E-value=23 Score=32.28 Aligned_cols=32 Identities=19% Similarity=0.438 Sum_probs=20.5
Q ss_pred CcccccccCCCceeeecCCCCCCcccccccccc
Q 002891 581 IDVCCICRHKHGICIKCNYGNCQTTFHPTCARS 613 (870)
Q Consensus 581 k~~CsIC~~~~GAcIqCs~~~C~~aFH~tCA~~ 613 (870)
...|.+|+++-|...- ....|...||..|+.+
T Consensus 78 ~~~C~vC~k~l~~~~f-~~~p~~~v~H~~C~~r 109 (109)
T PF10367_consen 78 STKCSVCGKPLGNSVF-VVFPCGHVVHYSCIKR 109 (109)
T ss_pred CCCccCcCCcCCCceE-EEeCCCeEEecccccC
Confidence 4679999987554221 2224458899999753
No 65
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=30.47 E-value=21 Score=28.92 Aligned_cols=30 Identities=20% Similarity=0.639 Sum_probs=16.1
Q ss_pred cccccCCCceeeecCCCCCCcccccccccc
Q 002891 584 CCICRHKHGICIKCNYGNCQTTFHPTCARS 613 (870)
Q Consensus 584 CsIC~~~~GAcIqCs~~~C~~aFH~tCA~~ 613 (870)
|.+|+.-.-.-+.|...+|...+|..|+..
T Consensus 1 C~~C~~iv~~G~~C~~~~C~~r~H~~C~~~ 30 (43)
T PF08746_consen 1 CEACKEIVTQGQRCSNRDCNVRLHDDCFKK 30 (43)
T ss_dssp -TTT-SB-SSSEE-SS--S--EE-HHHHHH
T ss_pred CcccchhHeeeccCCCCccCchHHHHHHHH
Confidence 677887544446799999999999999864
No 66
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=29.82 E-value=18 Score=43.86 Aligned_cols=46 Identities=26% Similarity=0.655 Sum_probs=37.3
Q ss_pred CCcCcccCCCCCCCCCEEEecCCCceeccccccCCCCC---CCceecccchhh
Q 002891 459 PRSCDICRRSETILNPILICSGCKVAVHLDCYRNAKES---TGPWYCELCEEL 508 (870)
Q Consensus 459 ~~~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYGi~~ip---eg~WLCd~C~~~ 508 (870)
...|.+|.. +..++.|+.|..++|+.|-+....| .+.|.|..|...
T Consensus 47 ~ts~~~~~~----~gn~~~~~~~~~s~h~~~~~~~~sp~~~~~~~~~~~~~~~ 95 (613)
T KOG4299|consen 47 ATSCGICKS----GGNLLCCDHCPASFHLECDKPPLSPDLKGSEINCSRCPKG 95 (613)
T ss_pred hhhcchhhh----cCCccccccCccccchhccCcccCcccccccccccCCCcc
Confidence 468999987 4667899999999999998876444 467999988763
No 67
>KOG0695 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=29.70 E-value=20 Score=41.13 Aligned_cols=36 Identities=25% Similarity=0.453 Sum_probs=29.1
Q ss_pred CCcCcccCCCC-CCCCCEEEecCCCceeccccccCCC
Q 002891 459 PRSCDICRRSE-TILNPILICSGCKVAVHLDCYRNAK 494 (870)
Q Consensus 459 ~~~CsVC~d~E-~~~N~IV~Cd~C~IaVHq~CYGi~~ 494 (870)
...|.||.+.- +.+-+-..|-+|.+.||+.|.+...
T Consensus 141 r~~c~ic~d~iwglgrqgyrcinckl~vhkkch~~v~ 177 (593)
T KOG0695|consen 141 RAYCGICSDRIWGLGRQGYRCINCKLLVHKKCHGLVP 177 (593)
T ss_pred ceeeeechhhhhhcccccceeecceeehhhhhccccc
Confidence 46899998743 2456778999999999999998653
No 68
>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=29.64 E-value=40 Score=32.27 Aligned_cols=62 Identities=24% Similarity=0.581 Sum_probs=41.2
Q ss_pred CCCCCcCcccCCCCCCCCCEEEe------cCCCceeccccccCC----------CCCCCceecccchhhccCCCCCCCCC
Q 002891 456 KEHPRSCDICRRSETILNPILIC------SGCKVAVHLDCYRNA----------KESTGPWYCELCEELLSSRSSGAPSV 519 (870)
Q Consensus 456 ke~~~~CsVC~d~E~~~N~IV~C------d~C~IaVHq~CYGi~----------~ipeg~WLCd~C~~~~s~~~s~q~~v 519 (870)
......|-.|+.... +..+.| ..|...-=+.||+-. ...+..|.|..|..
T Consensus 4 ~~~g~~CHqCrqKt~--~~~~~C~~~~~~~~C~~~~~~fC~~CL~~ryge~~~ev~~~~~W~CP~Crg------------ 69 (105)
T PF10497_consen 4 SVNGKTCHQCRQKTL--DFKTICTGHWKNSSCRGCRGKFCGGCLRNRYGENVEEVLEDPNWKCPKCRG------------ 69 (105)
T ss_pred CCCCCCchhhcCCCC--CCceEcCCCCCCCCCccCcceehHhHHHHHHhhhHHHHhcCCceECCCCCC------------
Confidence 345678999998543 555678 778433345666531 12367899999986
Q ss_pred CccCCCCcccccccCCCCCC
Q 002891 520 NFWEKPYFVAECSLCGGTTG 539 (870)
Q Consensus 520 n~~~~p~~~~~C~LCp~~gG 539 (870)
.-.|.+|....|
T Consensus 70 --------iCnCs~Crrk~g 81 (105)
T PF10497_consen 70 --------ICNCSFCRRKRG 81 (105)
T ss_pred --------eeCCHhhhccCC
Confidence 346888987665
No 69
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=27.56 E-value=38 Score=29.23 Aligned_cols=37 Identities=27% Similarity=0.566 Sum_probs=31.2
Q ss_pred CcccccccCC---CceeeecCCCCCCccccccccccCCceEE
Q 002891 581 IDVCCICRHK---HGICIKCNYGNCQTTFHPTCARSAGFYLN 619 (870)
Q Consensus 581 k~~CsIC~~~---~GAcIqCs~~~C~~aFH~tCA~~aG~~m~ 619 (870)
..+|.+|+.+ .+..|.|- .|.+-||-.|....|.-+.
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp--~CgapyHR~C~~~~g~C~~ 44 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCP--ECGAPYHRDCWEKAGGCIN 44 (54)
T ss_pred CccChhhCCcccCCCCEEECC--CCCCcccHHHHhhCCceEe
Confidence 4689999985 57889999 9999999999988876554
No 70
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=26.65 E-value=35 Score=30.19 Aligned_cols=33 Identities=27% Similarity=0.535 Sum_probs=14.0
Q ss_pred cccccccCC---Cc--eeeecCCCCCCccccccccccC
Q 002891 582 DVCCICRHK---HG--ICIKCNYGNCQTTFHPTCARSA 614 (870)
Q Consensus 582 ~~CsIC~~~---~G--AcIqCs~~~C~~aFH~tCA~~a 614 (870)
..|.||... .+ ..+.|....|...||..|....
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~w 40 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEW 40 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHH
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHH
Confidence 568899864 22 2467999999999999998653
No 71
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=25.18 E-value=40 Score=31.50 Aligned_cols=31 Identities=35% Similarity=0.738 Sum_probs=26.3
Q ss_pred CCCcCcccCCCCCCCCCEEEecC--CCceecccccc
Q 002891 458 HPRSCDICRRSETILNPILICSG--CKVAVHLDCYR 491 (870)
Q Consensus 458 ~~~~CsVC~d~E~~~N~IV~Cd~--C~IaVHq~CYG 491 (870)
....|.||... .+..+.|.. |...+|..|.-
T Consensus 54 ~~~~C~iC~~~---~G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 54 FKLKCSICGKS---GGACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred cCCcCcCCCCC---CceeEEcCCCCCCcCCCHHHHH
Confidence 35789999985 467999998 99999999963
No 72
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=24.34 E-value=21 Score=33.06 Aligned_cols=32 Identities=44% Similarity=1.163 Sum_probs=24.5
Q ss_pred cccccccCC-CceeeecCC------------CCCCcccccccccc
Q 002891 582 DVCCICRHK-HGICIKCNY------------GNCQTTFHPTCARS 613 (870)
Q Consensus 582 ~~CsIC~~~-~GAcIqCs~------------~~C~~aFH~tCA~~ 613 (870)
..|.||+.. .|.|++|.. +-|.-+||.-|-.+
T Consensus 21 d~CaICRnhim~~C~eCq~~~~~~~eC~v~wG~CnHaFH~HCI~r 65 (88)
T COG5194 21 DVCAICRNHIMGTCPECQFGMTPGDECPVVWGVCNHAFHDHCIYR 65 (88)
T ss_pred chhhhhhccccCcCcccccCCCCCCcceEEEEecchHHHHHHHHH
Confidence 468888764 677888865 46888999999865
No 73
>KOG1084 consensus Transcription factor TCF20 [Transcription]
Probab=22.65 E-value=19 Score=41.49 Aligned_cols=112 Identities=14% Similarity=0.190 Sum_probs=65.0
Q ss_pred cccccccCCC----CCCCcccccCCceeeeeccccccce--eeccC-Cc--C---cccccccc--CC-CCcccccccCCC
Q 002891 527 FVAECSLCGG----TTGAFRKSANGQWVHAFCAEWVFES--TFRRG-QV--N---PVAGMEAF--PK-GIDVCCICRHKH 591 (870)
Q Consensus 527 ~~~~C~LCp~----~gGALK~Tsdg~WVHVvCALWiPEv--~f~n~-~m--e---pVeGIesI--~k-~k~~CsIC~~~~ 591 (870)
+...|.+|.. -+-.+.......|+|..|.+|...- .-... .+ . .|+.++.+ .. ....|.+|+..
T Consensus 122 ~~~~cg~~~~~~~~~~~~~~~e~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ie~~e~~~~~~~~~~~~~~c~~~- 200 (375)
T KOG1084|consen 122 KHLKCGLCRARVRKLGSQLYDEYPSFEARMGCILIQNSRNGPAPEARLLCFSKSFLIESHEKVEDKCSEALNCKLCHEP- 200 (375)
T ss_pred cccccccchhHHhhhcccccchhhhhhhccchhHHhhccCCCCcccccchhhhhhhHHhhhhhhhhcccccccccccCC-
Confidence 4678999982 1112222334579999999987542 11100 01 0 11122221 12 24788899885
Q ss_pred ceeee----cC-CCCCCccccccccccCCceEEEeeCCCceeeeEeCCCCChhhH
Q 002891 592 GICIK----CN-YGNCQTTFHPTCARSAGFYLNVKSTGGNFQHKAYCEKHSLEQK 641 (870)
Q Consensus 592 GAcIq----Cs-~~~C~~aFH~tCA~~aG~~m~~k~~~g~i~~kaYC~kHs~~qk 641 (870)
|+.+. |. ...|...+|..||+..+..+.- .+...-+..||..|.+.-.
T Consensus 201 ~a~ts~~~~~~~~~~c~~~~e~~~~l~~~~~~~d--~~~~~~~h~~c~~~~~~~~ 253 (375)
T KOG1084|consen 201 GAPTSQFDPCDIDDDCNRSREFFCALSPKATIPD--IGFELWYHRYCALWAPNVH 253 (375)
T ss_pred CCcccccCCcchhhhhhhhhhhhhhhcCCCcCCc--cchhHHHHHHHHhcCCcce
Confidence 44443 55 4589999999999987766532 1122246789999998544
No 74
>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=21.45 E-value=37 Score=26.77 Aligned_cols=30 Identities=20% Similarity=0.458 Sum_probs=22.3
Q ss_pred cCcccCCCCCCCCCEEEecCCCceecccccc
Q 002891 461 SCDICRRSETILNPILICSGCKVAVHLDCYR 491 (870)
Q Consensus 461 ~CsVC~d~E~~~N~IV~Cd~C~IaVHq~CYG 491 (870)
.|.||.+.-...+.++... |+=.+|..|..
T Consensus 2 ~C~IC~~~~~~~~~~~~l~-C~H~fh~~Ci~ 31 (44)
T PF13639_consen 2 ECPICLEEFEDGEKVVKLP-CGHVFHRSCIK 31 (44)
T ss_dssp CETTTTCBHHTTSCEEEET-TSEEEEHHHHH
T ss_pred CCcCCChhhcCCCeEEEcc-CCCeeCHHHHH
Confidence 5999997432355666666 99999999964
No 75
>smart00109 C1 Protein kinase C conserved region 1 (C1) domains (Cysteine-rich domains). Some bind phorbol esters and diacylglycerol. Some bind RasGTP. Zinc-binding domains.
Probab=21.14 E-value=40 Score=26.31 Aligned_cols=32 Identities=28% Similarity=0.794 Sum_probs=25.6
Q ss_pred cccccccCCCc---eeeecCCCCCCccccccccccCC
Q 002891 582 DVCCICRHKHG---ICIKCNYGNCQTTFHPTCARSAG 615 (870)
Q Consensus 582 ~~CsIC~~~~G---AcIqCs~~~C~~aFH~tCA~~aG 615 (870)
..|.+|+.... ..++|. .|....|..|+....
T Consensus 12 ~~C~~C~~~i~~~~~~~~C~--~C~~~~H~~C~~~v~ 46 (49)
T smart00109 12 TKCCVCRKSIWGSFQGLRCS--WCKVKCHKKCAEKVP 46 (49)
T ss_pred CCccccccccCcCCCCcCCC--CCCchHHHHHHhhcC
Confidence 57999998633 367898 999999999997653
Done!