Query 039867
Match_columns 332
No_of_seqs 176 out of 522
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 02:48:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039867.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039867hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1946 RNA polymerase I trans 100.0 3.6E-33 7.9E-38 260.7 8.1 174 111-284 1-181 (240)
2 PF02201 SWIB: SWIB/MDM2 domai 99.8 1E-21 2.2E-26 153.8 2.3 69 204-278 7-76 (76)
3 smart00151 SWIB SWI complex, B 99.8 1.6E-20 3.5E-25 147.4 7.5 70 204-279 7-77 (77)
4 COG5531 SWIB-domain-containing 99.7 1.2E-16 2.7E-21 149.5 8.4 77 203-285 126-204 (237)
5 PRK14724 DNA topoisomerase III 99.7 1.1E-16 2.4E-21 173.9 7.2 70 203-278 917-987 (987)
6 KOG2570 SWI/SNF transcription 99.2 2.1E-11 4.6E-16 121.5 5.5 75 199-281 208-283 (420)
7 PRK06319 DNA topoisomerase I/S 99.1 3E-11 6.4E-16 130.4 4.9 70 204-279 790-860 (860)
8 KOG1081 Transcription factor N 96.8 0.00076 1.7E-08 69.3 2.4 113 18-150 112-230 (463)
9 smart00249 PHD PHD zinc finger 96.1 0.004 8.6E-08 42.1 2.1 33 11-45 12-47 (47)
10 KOG3362 Predicted BBOX Zn-fing 88.8 0.21 4.5E-06 44.9 1.3 42 24-71 104-146 (156)
11 KOG4443 Putative transcription 87.7 0.26 5.7E-06 53.0 1.5 55 19-73 39-101 (694)
12 PF00628 PHD: PHD-finger; Int 87.7 0.19 4.1E-06 35.7 0.3 33 9-43 10-46 (51)
13 KOG0956 PHD finger protein AF1 86.0 0.28 6.1E-06 53.2 0.7 51 11-63 20-70 (900)
14 smart00064 FYVE Protein presen 85.7 0.59 1.3E-05 35.1 2.1 48 45-92 11-66 (68)
15 KOG0383 Predicted helicase [Ge 82.9 0.44 9.6E-06 51.7 0.5 53 20-72 1-76 (696)
16 KOG4299 PHD Zn-finger protein 79.4 0.44 9.6E-06 50.9 -0.9 62 44-105 253-319 (613)
17 KOG4299 PHD Zn-finger protein 78.0 1.2 2.6E-05 47.7 1.7 33 14-48 269-305 (613)
18 PF04438 zf-HIT: HIT zinc fing 77.7 0.6 1.3E-05 31.2 -0.4 25 43-67 1-25 (30)
19 cd04718 BAH_plant_2 BAH, or Br 77.1 1.2 2.6E-05 39.9 1.2 21 24-44 1-23 (148)
20 KOG2522 Filamentous baseplate 76.8 3.2 6.9E-05 43.5 4.3 52 209-260 368-420 (560)
21 smart00249 PHD PHD zinc finger 74.8 1.7 3.6E-05 29.0 1.2 30 46-75 1-34 (47)
22 KOG0955 PHD finger protein BR1 74.5 2.4 5.1E-05 48.2 2.9 43 14-63 237-281 (1051)
23 cd00065 FYVE FYVE domain; Zinc 72.8 2.3 5.1E-05 30.6 1.6 45 46-90 4-56 (57)
24 PF10281 Ish1: Putative stress 72.0 8 0.00017 26.5 4.0 37 200-236 1-38 (38)
25 PRK13702 replication protein; 71.2 4.5 9.8E-05 33.3 3.1 47 186-234 30-76 (85)
26 PF01363 FYVE: FYVE zinc finge 70.9 1.3 2.7E-05 33.4 -0.2 50 44-93 9-68 (69)
27 KOG1512 PHD Zn-finger protein 65.6 2.5 5.3E-05 42.1 0.6 55 19-73 283-347 (381)
28 PF07191 zinc-ribbons_6: zinc- 65.4 2.4 5.1E-05 33.8 0.3 39 54-92 16-60 (70)
29 PRK05350 acyl carrier protein; 65.4 8.4 0.00018 30.1 3.5 56 223-281 2-58 (82)
30 smart00291 ZnF_ZZ Zinc-binding 64.5 3.3 7.1E-05 29.3 0.9 29 45-73 5-37 (44)
31 KOG1512 PHD Zn-finger protein 64.4 2.2 4.9E-05 42.4 0.1 32 14-47 330-361 (381)
32 PF02318 FYVE_2: FYVE-type zin 58.3 4.2 9.1E-05 34.3 0.7 48 43-94 53-106 (118)
33 KOG1862 GYF domain containing 58.3 9.2 0.0002 41.3 3.4 64 44-120 5-68 (673)
34 PF00569 ZZ: Zinc finger, ZZ t 58.0 3.8 8.2E-05 29.3 0.3 29 44-72 4-37 (46)
35 KOG4443 Putative transcription 56.3 6.2 0.00013 42.9 1.6 53 19-71 87-153 (694)
36 PRK05828 acyl carrier protein; 56.0 22 0.00047 28.6 4.4 57 223-281 1-57 (84)
37 KOG3795 Uncharacterized conser 56.0 5.6 0.00012 37.3 1.1 22 41-62 12-33 (230)
38 KOG1244 Predicted transcriptio 54.6 5.1 0.00011 39.7 0.6 73 19-92 250-332 (336)
39 cd02340 ZZ_NBR1_like Zinc fing 53.2 7.4 0.00016 27.7 1.1 27 46-72 2-32 (43)
40 cd02249 ZZ Zinc finger, ZZ typ 53.1 6.8 0.00015 27.8 0.9 28 46-73 2-33 (46)
41 cd02339 ZZ_Mind_bomb Zinc fing 51.5 7.3 0.00016 28.2 0.9 27 46-72 2-33 (45)
42 cd02341 ZZ_ZZZ3 Zinc finger, Z 50.7 7.7 0.00017 28.4 0.9 28 46-73 2-36 (48)
43 PF02148 zf-UBP: Zn-finger in 50.2 3.8 8.2E-05 30.8 -0.8 46 47-92 1-59 (63)
44 PF00643 zf-B_box: B-box zinc 50.2 3.9 8.5E-05 27.9 -0.6 28 45-72 4-32 (42)
45 cd02336 ZZ_RSC8 Zinc finger, Z 47.0 7.5 0.00016 28.2 0.4 32 46-77 2-37 (45)
46 smart00290 ZnF_UBP Ubiquitin C 46.5 12 0.00027 26.3 1.4 23 47-69 2-25 (50)
47 PLN02915 cellulose synthase A 43.1 13 0.00029 42.4 1.7 71 39-113 10-89 (1044)
48 PF13832 zf-HC5HC2H_2: PHD-zin 42.3 11 0.00023 30.8 0.6 22 10-31 65-86 (110)
49 PLN02436 cellulose synthase A 42.2 15 0.00032 42.2 1.9 76 41-121 33-116 (1094)
50 KOG0957 PHD finger protein [Ge 41.6 12 0.00025 40.1 0.9 23 8-32 554-576 (707)
51 PF11793 FANCL_C: FANCL C-term 41.3 13 0.00028 28.9 0.9 23 10-32 17-39 (70)
52 cd02338 ZZ_PCMF_like Zinc fing 41.2 14 0.00029 26.9 1.0 27 46-72 2-33 (49)
53 cd00021 BBOX B-Box-type zinc f 40.2 14 0.0003 24.3 0.8 27 46-72 2-29 (39)
54 PF13771 zf-HC5HC2H: PHD-like 39.7 8.4 0.00018 30.1 -0.3 21 12-32 48-68 (90)
55 PF03107 C1_2: C1 domain; Int 39.5 20 0.00044 23.4 1.5 26 45-70 1-30 (30)
56 CHL00124 acpP acyl carrier pro 38.1 34 0.00074 26.3 2.9 57 223-281 1-57 (82)
57 PLN02189 cellulose synthase 37.5 18 0.00039 41.4 1.6 76 41-121 31-114 (1040)
58 cd02345 ZZ_dah Zinc finger, ZZ 37.5 13 0.00029 27.0 0.4 27 46-72 2-33 (49)
59 cd02342 ZZ_UBA_plant Zinc fing 36.6 19 0.0004 26.3 1.0 27 46-72 2-33 (43)
60 smart00336 BBOX B-Box-type zin 36.2 20 0.00044 23.8 1.1 27 46-72 5-32 (42)
61 PF07649 C1_3: C1-like domain; 36.2 10 0.00023 24.6 -0.3 25 46-70 2-30 (30)
62 cd02335 ZZ_ADA2 Zinc finger, Z 35.5 20 0.00043 25.9 1.1 27 46-72 2-33 (49)
63 PF03380 DUF282: Caenorhabditi 35.2 22 0.00047 25.5 1.2 22 19-40 3-24 (39)
64 cd02334 ZZ_dystrophin Zinc fin 34.8 19 0.00042 26.5 0.9 27 46-72 2-33 (49)
65 KOG4582 Uncharacterized conser 34.0 18 0.00039 35.2 0.9 29 45-73 153-186 (278)
66 PF02037 SAP: SAP domain; Int 33.8 88 0.0019 21.1 4.0 32 203-236 4-35 (35)
67 PRK12449 acyl carrier protein; 33.0 74 0.0016 24.3 4.0 57 223-281 1-57 (80)
68 KOG4739 Uncharacterized protei 32.4 13 0.00028 35.7 -0.4 76 43-129 2-80 (233)
69 KOG0825 PHD Zn-finger protein 31.6 23 0.00049 39.8 1.2 33 9-43 226-261 (1134)
70 PLN02638 cellulose synthase A 30.2 27 0.00059 40.1 1.5 66 44-113 17-91 (1079)
71 KOG0383 Predicted helicase [Ge 30.1 33 0.00071 37.8 2.1 31 20-53 64-96 (696)
72 smart00513 SAP Putative DNA-bi 30.0 1.1E+02 0.0023 20.4 3.9 33 202-236 3-35 (35)
73 cd02344 ZZ_HERC2 Zinc finger, 29.8 28 0.00061 25.3 1.1 27 46-72 2-33 (45)
74 cd02343 ZZ_EF Zinc finger, ZZ 29.1 22 0.00047 26.4 0.4 28 46-73 2-33 (48)
75 PTZ00171 acyl carrier protein; 28.0 86 0.0019 28.0 4.0 58 222-281 65-122 (148)
76 COG0723 QcrA Rieske Fe-S prote 27.8 34 0.00073 30.4 1.5 23 25-47 109-133 (177)
77 PF09947 DUF2180: Uncharacteri 26.0 31 0.00067 27.4 0.8 46 46-91 2-65 (68)
78 PF13842 Tnp_zf-ribbon_2: DDE_ 25.4 38 0.00083 22.8 1.0 23 47-69 3-30 (32)
79 KOG0954 PHD finger protein [Ge 24.9 54 0.0012 36.7 2.6 33 10-44 285-317 (893)
80 PF10723 RepB-RCR_reg: Replica 24.8 40 0.00086 27.4 1.2 43 194-238 38-81 (84)
81 PLN02400 cellulose synthase 24.6 48 0.001 38.3 2.2 68 42-113 34-109 (1085)
82 PTZ00303 phosphatidylinositol 23.8 58 0.0013 37.0 2.5 55 38-92 451-529 (1374)
83 KOG1473 Nucleosome remodeling 23.1 39 0.00084 39.4 1.1 42 19-62 360-403 (1414)
84 PF04236 Transp_Tc5_C: Tc5 tra 23.0 47 0.001 25.8 1.3 27 44-70 27-55 (63)
85 PLN02720 complex II 22.9 41 0.00088 30.1 1.0 48 117-164 3-52 (140)
86 PF15446 zf-PHD-like: PHD/FYVE 22.3 32 0.0007 31.8 0.3 26 47-72 2-34 (175)
87 COG5082 AIR1 Arginine methyltr 21.9 63 0.0014 30.3 2.1 36 19-57 74-110 (190)
88 PF00130 C1_1: Phorbol esters/ 21.7 40 0.00088 23.8 0.6 29 45-73 12-46 (53)
89 PF05643 DUF799: Putative bact 21.6 78 0.0017 30.2 2.7 47 231-278 76-123 (215)
90 PF06524 NOA36: NOA36 protein; 21.6 37 0.00081 33.6 0.6 45 44-88 171-215 (314)
91 KOG3556 Familial cylindromatos 20.8 50 0.0011 35.7 1.3 57 37-101 551-607 (724)
92 PF05928 Zea_mays_MuDR: Zea ma 20.7 33 0.0007 31.9 -0.0 23 111-133 165-188 (207)
93 PRK14559 putative protein seri 20.7 63 0.0014 35.3 2.1 21 65-90 29-49 (645)
94 COG5082 AIR1 Arginine methyltr 20.7 47 0.001 31.1 1.0 15 77-91 115-129 (190)
95 KOG1280 Uncharacterized conser 20.6 53 0.0011 33.6 1.4 27 46-72 10-41 (381)
96 COG4855 Uncharacterized protei 20.1 33 0.00071 27.6 -0.1 46 47-92 10-73 (76)
No 1
>KOG1946 consensus RNA polymerase I transcription factor UAF [Transcription]
Probab=99.98 E-value=3.6e-33 Score=260.65 Aligned_cols=174 Identities=31% Similarity=0.407 Sum_probs=126.5
Q ss_pred CCCCccchhHHHHHHHHhhhcCCChHHHHHhhhhhccCCCCCCCCC-CccccCCCccCcCcCCCCCCcc---CCCchhh-
Q 039867 111 SDPSTKEFFFYDYWRIIKKKECLTSEEVIAASNLLKRGENYKFASD-SDEYDIGKEKKSSKRKRPKSSK---RKRPKRK- 185 (332)
Q Consensus 111 ~D~~t~E~LFK~YW~~iK~ke~Lt~~el~~A~~~~k~~~~~~~~sd-~~~~~~~d~~~~~~~~~~~~~k---~Kk~~~~- 185 (332)
+|..+|||+|++||..++++++||.++|++|.++|.+.......+. +..++..++.++.....+...+ ++..++.
T Consensus 1 ~~~~~~~~~~~~~~l~~~~~~~lt~~~vr~~~~~~~~v~~~~~k~~~~~~~~~~~~~~~~~~~k~~~~k~~~~~~~~~~~ 80 (240)
T KOG1946|consen 1 MDSLSWEYLFKDYILSLKDQETLTPDDVRRAMAPRSGVDGTAQKSLLAKAIDESSDEDSALPVKGSKKKKRGSKTRSRKP 80 (240)
T ss_pred CcchhhhhhhhHHHhcccccccCCHHHHHHHhccccCCCCcchhhhhhhhhhcccccccccccccccccccccccccccC
Confidence 3678999999999999999999999999999999998665433211 1222222222222222221111 1101100
Q ss_pred hhhhhcccccCcccccccCcHHHHHHHHHhCCCc-CccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCce
Q 039867 186 QSAMKSKFKSSRKEFIGWGSKSLLEFLVSIGKDT-TRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKS 263 (332)
Q Consensus 186 k~~~~~~~k~k~~~~~~w~S~eL~eFL~~iG~d~-t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~ 263 (332)
+....+.....+..-++||+..|..|+.+|+..+ +++|||.+|+++||+|||+||||||.| |.|+||++|+.|||+++
T Consensus 81 ~~~~~~~~~~~~~~~~~~g~~kl~~ls~~L~~~~G~~~lsR~~vvk~iw~YIke~nLqDP~nkr~IlCDekL~~iF~~k~ 160 (240)
T KOG1946|consen 81 KSLESSGEKNKKKKKASWGSTKLIPLSPSLARFVGTSELSRTDVVKKIWAYIKEHNLQDPKNKREILCDEKLKSIFGKKR 160 (240)
T ss_pred cccccccccchhccccCcCcccccccCHHHHhhcccccccHHHHHHHHHHHHHHhccCCccccCeeeeHHHHHHHhccCc
Confidence 0001111111122227799999888888888888 889999999999999999999999999 99999999999999999
Q ss_pred echHhHHHHHHhcccCCCCch
Q 039867 264 VEKRKLCELLTIHFAENLDCS 284 (332)
Q Consensus 264 V~~~~m~kLL~~H~~~n~e~s 284 (332)
|+||+|++||.+||+++.+.+
T Consensus 161 v~~fem~KLL~~H~~~~~d~~ 181 (240)
T KOG1946|consen 161 VGMFEMLKLLTKHFLKNQDMV 181 (240)
T ss_pred cceeeHHHHHHHhccCccccc
Confidence 999999999999999998653
No 2
>PF02201 SWIB: SWIB/MDM2 domain; InterPro: IPR003121 The SWI/SNF family of complexes, which are conserved from yeast to humans, are ATP-dependent chromatin-remodelling proteins that facilitate transcription activation []. The mammalian complexes are made up of 9-12 proteins called BAFs (BRG1-associated factors). The BAF60 family have at least three members: BAF60a, which is ubiquitous, BAF60b and BAF60c, which are expressed in muscle and pancreatic tissues, respectively. BAF60b is present in alternative forms of the SWI/SNF complex, including complex B (SWIB), which lacks BAF60a. The SWIB domain is a conserved region found within the BAF60b proteins [], and can be found fused to the C terminus of DNA topoisomerase in Chlamydia. MDM2 is an oncoprotein that acts as a cellular inhibitor of the p53 tumour suppressor by binding to the transactivation domain of p53 and suppressing its ability to activate transcription []. p53 acts in response to DNA damage, inducing cell cycle arrest and apoptosis. Inactivation of p53 is a common occurrence in neoplastic transformations. The core of MDM2 folds into an open bundle of four helices, which is capped by two small 3-stranded beta-sheets. It consists of a duplication of two structural repeats. MDM2 has a deep hydrophobic cleft on which the p53 alpha-helix binds; p53 residues involved in transactivation are buried deep within the cleft of MDM2, thereby concealing the p53 transactivation domain. The SWIB and MDM2 domains are homologous and share a common fold.; GO: 0005515 protein binding; PDB: 1V31_A 3FE7_A 3JZQ_B 3EQY_B 2VYR_A 3JZO_A 3DAB_E 3LBJ_E 3FEA_A 3FDO_A ....
Probab=99.83 E-value=1e-21 Score=153.79 Aligned_cols=69 Identities=41% Similarity=0.602 Sum_probs=64.3
Q ss_pred CcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhccc
Q 039867 204 GSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFA 278 (332)
Q Consensus 204 ~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~ 278 (332)
+|++|++| +|.++ +||++|++.||+|||+||||||++ +.|+||++|+.|||.++|++++|+++|.+||.
T Consensus 7 ls~~L~~~---lg~~~---~sr~~v~~~lw~YIk~~~L~dp~~k~~I~cD~~L~~lf~~~~v~~~~i~~~l~~hl~ 76 (76)
T PF02201_consen 7 LSPELAEF---LGEDE---LSRSEVVKRLWQYIKENNLQDPKDKRIIICDEKLKKLFGKDSVNFFEIPKLLKPHLI 76 (76)
T ss_dssp HHHHHHHH---TT-SC---EEHHHHHHHHHHHHHHTTSBESSSTTEEE-TTSHHHHHHTSECSEEETTHHHHHHHE
T ss_pred CCHHHHHH---hCCCC---CCHHHHHHHHHHHHHHhcCCCcccCceEecCHHHHHHhCCCeecHhhHHHHHHHhcC
Confidence 58999999 88876 999999999999999999999999 99999999999999999999999999999984
No 3
>smart00151 SWIB SWI complex, BAF60b domains.
Probab=99.82 E-value=1.6e-20 Score=147.37 Aligned_cols=70 Identities=30% Similarity=0.557 Sum_probs=66.0
Q ss_pred CcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhcccC
Q 039867 204 GSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFAE 279 (332)
Q Consensus 204 ~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~ 279 (332)
+|++|++| +|.+ ++||++|++.||+|||.||||||.+ +.|+||+.|++|||+++|.+++|+++|++||.+
T Consensus 7 ls~~L~~~---lg~~---~~tr~ev~~~lw~YIk~n~L~d~~~k~~i~~D~~L~~l~~~~~v~~~~~~~ll~~Hl~~ 77 (77)
T smart00151 7 LSPELAKV---LGAP---EMTRTEIIKRLWEYIKEHNLQDPQNKREILCDSKLEQIFGKDRMDMFEMNKLLTPHLIK 77 (77)
T ss_pred CCHHHHHH---hCCC---cCcHHHHHHHHHHHHHHhcccCCccCCEEecCHHHHHHHCcCeecHHHHHHHHHHHcCC
Confidence 59999999 6764 5999999999999999999999999 999999999999999999999999999999864
No 4
>COG5531 SWIB-domain-containing proteins implicated in chromatin remodeling [Chromatin structure and dynamics]
Probab=99.67 E-value=1.2e-16 Score=149.47 Aligned_cols=77 Identities=26% Similarity=0.438 Sum_probs=70.2
Q ss_pred cCcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhcccC-C
Q 039867 203 WGSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFAE-N 280 (332)
Q Consensus 203 w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~-n 280 (332)
-.|+.||.| ||.++ ++|++||+.||+|||.||||||.| |.|+||++|+.|||.+++.||+|.++|.+|+.+ .
T Consensus 126 ~lS~~La~i---lG~~~---~tr~~~v~~lw~YIk~h~lq~~~nkr~I~~D~~L~~v~g~~p~~mf~~~k~l~~hl~~~~ 199 (237)
T COG5531 126 KLSPKLAAI---LGLEP---GTRPEAVKKLWKYIKKHNLQDPNNKRLILCDSKLKKVLGSDPIDMFELTKPLSPHLIKYT 199 (237)
T ss_pred ecCHHHHHH---hCCCC---CCccHHHHHHHHHHHHhcCCCccccceecccHHHHHHhCCCchhhhhhhcccccceecCc
Confidence 459999999 78875 999999999999999999999999 999999999999999999999999999999997 3
Q ss_pred CCchh
Q 039867 281 LDCSE 285 (332)
Q Consensus 281 ~e~s~ 285 (332)
.+.|.
T Consensus 200 ~~vs~ 204 (237)
T COG5531 200 IDVSK 204 (237)
T ss_pred ccccc
Confidence 33343
No 5
>PRK14724 DNA topoisomerase III; Provisional
Probab=99.65 E-value=1.1e-16 Score=173.89 Aligned_cols=70 Identities=29% Similarity=0.458 Sum_probs=66.4
Q ss_pred cCcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhccc
Q 039867 203 WGSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFA 278 (332)
Q Consensus 203 w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~ 278 (332)
-+|++|++| ||.+. +||++|++.||+|||+||||||.| |.|+||++|+.|||+++|+||+|+++|++||.
T Consensus 917 ~ls~~La~~---lg~~~---~~r~~v~~~lW~YIK~~~Lqdp~~k~~i~cD~~L~~vfg~~~~~~~~~~~~l~~hl~ 987 (987)
T PRK14724 917 KPSAALAAV---IGAEP---VARPEVIKKLWDYIKANNLQDPADKRAINADAKLRPVFGKDQVTMFELAGIVGKHLS 987 (987)
T ss_pred CCCHHHHHH---hCCCc---CCHHHHHHHHHHHHHHccCCCcccCCeeccchHHHHHhCCCcccHHHHHHHHHHhcC
Confidence 459999999 67764 999999999999999999999999 99999999999999999999999999999983
No 6
>KOG2570 consensus SWI/SNF transcription activation complex subunit [Chromatin structure and dynamics; Transcription]
Probab=99.18 E-value=2.1e-11 Score=121.54 Aligned_cols=75 Identities=25% Similarity=0.342 Sum_probs=68.1
Q ss_pred cccccCcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhcc
Q 039867 199 EFIGWGSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHF 277 (332)
Q Consensus 199 ~~~~w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~ 277 (332)
+|. +||.|+.+|| |.. -||++||..||.|||.|+||||.+ ..|.||..|+.+||.+++.+.+|+.+|.+|+
T Consensus 208 ~fk--lsp~La~lLG-i~t-----~Trp~iI~alWqYIk~n~Lqd~~e~~~incD~~l~qif~~~rl~F~elp~~l~~lL 279 (420)
T KOG2570|consen 208 EFK--LSPRLANLLG-IHT-----GTRPDIVTALWQYIKTNKLQDPEDSDFINCDKALEQIFGVDRLKFPELPQLLNPLL 279 (420)
T ss_pred ccc--cCHHHHHHhh-hcc-----CcchHHHHHHHHHHHHhccCCcccchhhcchHHHHHhhcccccccccchhhhhhcc
Confidence 455 8999999965 444 469999999999999999999999 9999999999999999999999999999999
Q ss_pred cCCC
Q 039867 278 AENL 281 (332)
Q Consensus 278 ~~n~ 281 (332)
....
T Consensus 280 ~P~d 283 (420)
T KOG2570|consen 280 SPPD 283 (420)
T ss_pred CCCC
Confidence 7654
No 7
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=99.14 E-value=3e-11 Score=130.37 Aligned_cols=70 Identities=27% Similarity=0.446 Sum_probs=65.5
Q ss_pred CcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhcccC
Q 039867 204 GSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFAE 279 (332)
Q Consensus 204 ~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~ 279 (332)
.|++|+.| +|.. +++|.+|++.||+|||+|+||||.+ |.|+||++|+++||++++.+|+|+++|++||.+
T Consensus 790 ~S~~La~~---~g~~---~~sr~~~~~~lw~yIk~~~lqdp~~Kr~i~~d~kl~kvf~~~~~~~~~~~k~l~~hl~~ 860 (860)
T PRK06319 790 PSPALAAM---IGAE---PVGRGEATKKVWDYIKEHGLQSPENKKLIIPDSKLQGVIGPDPIDMFQLSKKLSQHLIK 860 (860)
T ss_pred cccccccc---cCcC---ccCchHHHHHHHHHHHHhcccCccccccCCCchhhhhhhCcCccchhhhHHHHHhhhcC
Confidence 49999999 5654 5999999999999999999999999 999999999999999999999999999999864
No 8
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=96.75 E-value=0.00076 Score=69.26 Aligned_cols=113 Identities=7% Similarity=-0.195 Sum_probs=84.1
Q ss_pred CCCCchhhhhcccCC-----CCCCCCCeeecCccccccCCCCccce-ecCCCCCccccccCceeEEeeCCcccchhhhhh
Q 039867 18 SYNSLYAFRMKLTGL-----VHFSYEAYRSYLHICFKCDKAPKFYC-LCCPSAICGPCLYEAEFAVVKGDKGLCDECLEL 91 (332)
Q Consensus 18 ~~~C~KayH~~C~~~-----~~~s~~~W~C~wH~C~~C~k~s~~~C-~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~ 91 (332)
.+.|++|||+.|..- ++.....|+|.||.|..|...+ | .+++..+| .+++.. ....|++ ..
T Consensus 112 ~r~c~~~~~~~c~~~~~d~~~~~~~~~~~~vw~~vg~~~~~~---c~vc~~~~~~-----~~~~~~--~~~f~~~---~~ 178 (463)
T KOG1081|consen 112 HRKCKPAQLEKCSKRCTDCRAFKKREVGDLVWSKVGEYPWWP---CMVCHDPLLP-----KGMKHD--HVNFFGC---YA 178 (463)
T ss_pred cccCcCccCcccccCCcceeeeccccceeEEeEEcCcccccc---cceecCcccc-----hhhccc--cceeccc---hh
Confidence 999999999999766 5667899999999999999988 4 55556667 122222 3333333 66
Q ss_pred hhhhccccCCCCccCCCCCCCCCccchhHHHHHHHHhhhcCCChHHHHHhhhhhccCCC
Q 039867 92 VLRKEEKKDVDPNQCKNDFSDPSTKEFFFYDYWRIIKKKECLTSEEVIAASNLLKRGEN 150 (332)
Q Consensus 92 ~~lIE~~~~~ds~~~~VDF~D~~t~E~LFK~YW~~iK~ke~Lt~~el~~A~~~~k~~~~ 150 (332)
.+.+.....+ ..+|.+.-. ++|+.||..-+....++..--..|-..+++...
T Consensus 179 ~~~~~~~~~~-----~g~~~~~l~--~~~~~~s~~~~~~~~~~~r~~~~~~q~~~~~~~ 230 (463)
T KOG1081|consen 179 WTHEKRVFPY-----EGQSSKLIP--HSKKPASTMSEKIKEAKARFGKLKAQWEAGIKQ 230 (463)
T ss_pred hHHHhhhhhc-----cchHHHhhh--hccccchhhhhhhhcccchhhhcccchhhccch
Confidence 6666666665 445555555 999999999999999888888888888887766
No 9
>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 KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=88.78 E-value=0.21 Score=44.86 Aligned_cols=42 Identities=19% Similarity=0.530 Sum_probs=32.5
Q ss_pred hhhhcccCCCCCCCCCeeecCccccccCCCCccceecCCCCCcc-cccc
Q 039867 24 AFRMKLTGLVHFSYEAYRSYLHICFKCDKAPKFYCLCCPSAICG-PCLY 71 (332)
Q Consensus 24 ayH~~C~~~~~~s~~~W~C~wH~C~~C~k~s~~~C~~CP~S~Ck-~C~~ 71 (332)
+||..+......| +.|+|.+||-.|.|.|..|...||- .|++
T Consensus 104 ~Y~~~~a~p~~KP------~r~fCaVCG~~S~ysC~~CG~kyCsv~C~~ 146 (156)
T KOG3362|consen 104 NYHTAYAKPSFKP------LRKFCAVCGYDSKYSCVNCGTKYCSVRCLK 146 (156)
T ss_pred chhhcccCCCCCC------cchhhhhcCCCchhHHHhcCCceeechhhh
Confidence 5776665554443 6789999999999999999999984 4554
No 11
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=87.71 E-value=0.26 Score=52.95 Aligned_cols=55 Identities=15% Similarity=0.215 Sum_probs=40.3
Q ss_pred CCCchhhhhcccCCCCCC---CCCeeecCc-cccccCCC---Cccc-eecCCCCCccccccCc
Q 039867 19 YNSLYAFRMKLTGLVHFS---YEAYRSYLH-ICFKCDKA---PKFY-CLCCPSAICGPCLYEA 73 (332)
Q Consensus 19 ~~C~KayH~~C~~~~~~s---~~~W~C~wH-~C~~C~k~---s~~~-C~~CP~S~Ck~C~~~a 73 (332)
++|.+-||+.|+...... .+-|.||-| +|-.|+.. ..|+ |-.|--||...|.+..
T Consensus 39 ~~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~gD~~kf~~Ck~cDvsyh~yc~~P~ 101 (694)
T KOG4443|consen 39 SDCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTGDPKKFLLCKRCDVSYHCYCQKPP 101 (694)
T ss_pred hhhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccCCcccccccccccccccccccCCc
Confidence 579999999999952211 133999887 68888744 4455 9999888888887763
No 12
>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=87.69 E-value=0.19 Score=35.66 Aligned_cols=33 Identities=3% Similarity=-0.116 Sum_probs=24.9
Q ss_pred ccceecccCCCCCchhhhhcccCCCCC----CCCCeeec
Q 039867 9 PQHIKFNMSSYNSLYAFRMKLTGLVHF----SYEAYRSY 43 (332)
Q Consensus 9 ~~~~~~~cd~~~C~KayH~~C~~~~~~----s~~~W~C~ 43 (332)
+.+--+.|| .|...||+.|++.... +.+.|.|+
T Consensus 10 ~~~~~i~C~--~C~~~~H~~C~~~~~~~~~~~~~~w~C~ 46 (51)
T PF00628_consen 10 DDGDMIQCD--SCNRWYHQECVGPPEKAEEIPSGDWYCP 46 (51)
T ss_dssp TTSSEEEBS--TTSCEEETTTSTSSHSHHSHHSSSBSSH
T ss_pred CCCCeEEcC--CCChhhCcccCCCChhhccCCCCcEECc
Confidence 345567788 7999999999999544 23488885
No 13
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=86.00 E-value=0.28 Score=53.17 Aligned_cols=51 Identities=18% Similarity=0.274 Sum_probs=45.7
Q ss_pred ceecccCCCCCchhhhhcccCCCCCCCCCeeecCccccccCCCCccceecCCC
Q 039867 11 HIKFNMSSYNSLYAFRMKLTGLVHFSYEAYRSYLHICFKCDKAPKFYCLCCPS 63 (332)
Q Consensus 11 ~~~~~cd~~~C~KayH~~C~~~~~~s~~~W~C~wH~C~~C~k~s~~~C~~CP~ 63 (332)
.--+.||-.+|.-|-|-.|-|.+.-|.|.|.|- -|-...+.+.++|.-||.
T Consensus 20 NPLVYCDG~nCsVAVHQaCYGIvqVPtGpWfCr--KCesqeraarvrCeLCP~ 70 (900)
T KOG0956|consen 20 NPLVYCDGHNCSVAVHQACYGIVQVPTGPWFCR--KCESQERAARVRCELCPH 70 (900)
T ss_pred CceeeecCCCceeeeehhcceeEecCCCchhhh--hhhhhhhhccceeecccC
Confidence 345789999999999999999999999999984 677778899999999996
No 14
>smart00064 FYVE Protein present in Fab1, YOTB, Vac1, and EEA1. The FYVE zinc finger is named after four proteins where it was first found: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. The FYVE finger is structurally related to the KOG0383 consensus Predicted helicase [General function prediction only]
Probab=82.86 E-value=0.44 Score=51.72 Aligned_cols=53 Identities=15% Similarity=0.241 Sum_probs=42.2
Q ss_pred CCchhhhhcccCC--CCCCCCCeeecC--------------------ccccccCCCCccc-eecCCCCCccccccC
Q 039867 20 NSLYAFRMKLTGL--VHFSYEAYRSYL--------------------HICFKCDKAPKFY-CLCCPSAICGPCLYE 72 (332)
Q Consensus 20 ~C~KayH~~C~~~--~~~s~~~W~C~w--------------------H~C~~C~k~s~~~-C~~CP~S~Ck~C~~~ 72 (332)
.|+++||..|+.- -..+++.|.||- -.|-+|+.+.... |.+||.||.-.|+..
T Consensus 1 ~~~r~~~~~~~~p~~~~~~~~~~k~~~~e~~~~~~~~~~~~~~~~~~e~c~ic~~~g~~l~c~tC~~s~h~~cl~~ 76 (696)
T KOG0383|consen 1 TCPRAYHRVCLDPKLKEEPEMDPKCPGCESSSAQVEAKDDDWDDAEQEACRICADGGELLWCDTCPASFHASCLGP 76 (696)
T ss_pred CCCcccCcCCCCcccccCCcCCccCcchhhcccccccccCCcchhhhhhhhhhcCCCcEEEeccccHHHHHHccCC
Confidence 4999999999875 444478899981 2588998887555 899999999999954
No 16
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=79.40 E-value=0.44 Score=50.88 Aligned_cols=62 Identities=19% Similarity=0.412 Sum_probs=47.6
Q ss_pred CccccccCCCCcc----ceecCCCCCccccccCc-eeEEeeCCcccchhhhhhhhhhccccCCCCcc
Q 039867 44 LHICFKCDKAPKF----YCLCCPSAICGPCLYEA-EFAVVKGDKGLCDECLELVLRKEEKKDVDPNQ 105 (332)
Q Consensus 44 wH~C~~C~k~s~~----~C~~CP~S~Ck~C~~~a-~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~ 105 (332)
..+|+.|++...| .|..||.||+..|++.- +--.+..+.-||..|---+.+++..++--..|
T Consensus 253 ~~fCsaCn~~~~F~~~i~CD~Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k~~in~~~~t~~~~~ 319 (613)
T KOG4299|consen 253 EDFCSACNGSGLFNDIICCDGCPRSFHQTCLEPPLEPENIPPGSWFCPECKIKSVINPKMETLSNRG 319 (613)
T ss_pred HHHHHHhCCccccccceeecCCchHHHHhhcCCCCCcccCCCCccccCCCeeeeecccchhhhhhcc
Confidence 3489999999998 48999999999999973 22222445889999998888888777554333
No 17
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=77.98 E-value=1.2 Score=47.74 Aligned_cols=33 Identities=3% Similarity=-0.175 Sum_probs=25.6
Q ss_pred cccCCCCCchhhhhcccCCC----CCCCCCeeecCcccc
Q 039867 14 FNMSSYNSLYAFRMKLTGLV----HFSYEAYRSYLHICF 48 (332)
Q Consensus 14 ~~cd~~~C~KayH~~C~~~~----~~s~~~W~C~wH~C~ 48 (332)
.-||. ||++||..||.-. --|.|.|.|+.|.|-
T Consensus 269 i~CD~--Cp~sFH~~CLePPl~~eniP~g~W~C~ec~~k 305 (613)
T KOG4299|consen 269 ICCDG--CPRSFHQTCLEPPLEPENIPPGSWFCPECKIK 305 (613)
T ss_pred eeecC--CchHHHHhhcCCCCCcccCCCCccccCCCeee
Confidence 35787 9999999998763 345789999877664
No 18
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 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 HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=77.67 E-value=0.6 Score=31.15 Aligned_cols=25 Identities=24% Similarity=0.709 Sum_probs=17.7
Q ss_pred cCccccccCCCCccceecCCCCCcc
Q 039867 43 YLHICFKCDKAPKFYCLCCPSAICG 67 (332)
Q Consensus 43 ~wH~C~~C~k~s~~~C~~CP~S~Ck 67 (332)
|.+.|.+|+..+.|.|..|...+|.
T Consensus 1 ~~~~C~vC~~~~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 1 PRKLCSVCGNPAKYRCPRCGARYCS 25 (30)
T ss_dssp --EEETSSSSEESEE-TTT--EESS
T ss_pred CcCCCccCcCCCEEECCCcCCceeC
Confidence 4578999999999999999877763
No 19
>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=77.10 E-value=1.2 Score=39.94 Aligned_cols=21 Identities=5% Similarity=-0.028 Sum_probs=17.5
Q ss_pred hhhhcccCC--CCCCCCCeeecC
Q 039867 24 AFRMKLTGL--VHFSYEAYRSYL 44 (332)
Q Consensus 24 ayH~~C~~~--~~~s~~~W~C~w 44 (332)
.||+.||+- +..|.|.|.||.
T Consensus 1 g~H~~CL~Ppl~~~P~g~W~Cp~ 23 (148)
T cd04718 1 GFHLCCLRPPLKEVPEGDWICPF 23 (148)
T ss_pred CcccccCCCCCCCCCCCCcCCCC
Confidence 499999886 777889999873
No 20
>KOG2522 consensus Filamentous baseplate protein Ligatin, contains PUA domain [Translation, ribosomal structure and biogenesis]
Probab=76.79 E-value=3.2 Score=43.51 Aligned_cols=52 Identities=13% Similarity=0.249 Sum_probs=43.3
Q ss_pred HHHHHHhCCCcCccCCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhC
Q 039867 209 LEFLVSIGKDTTRKLSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLG 260 (332)
Q Consensus 209 ~eFL~~iG~d~t~~lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFg 260 (332)
.+++..+|......++-.||...+..||+.|||-|+.| ..|+-|+-|-...-
T Consensus 368 ~~Lf~evg~~kg~lyt~seir~~V~kYi~knnLad~~nKg~VrLDpILfd~~~ 420 (560)
T KOG2522|consen 368 KDLFKEVGLAKGTLYTSSEIRSAVSKYISKNNLADTKNKGKVRLDPILFDMVN 420 (560)
T ss_pred HHHHHhcCccccceeeHHHHHHHHHHHhhhhhccccccCCcEEeccHHHHHHH
Confidence 34556678888889999999999999999999999999 88777777665544
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 KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=74.51 E-value=2.4 Score=48.24 Aligned_cols=43 Identities=19% Similarity=0.342 Sum_probs=34.1
Q ss_pred cccCCCCCchhhhhcccCCCCCCCCCeeecCcccccc--CCCCccceecCCC
Q 039867 14 FNMSSYNSLYAFRMKLTGLVHFSYEAYRSYLHICFKC--DKAPKFYCLCCPS 63 (332)
Q Consensus 14 ~~cd~~~C~KayH~~C~~~~~~s~~~W~C~wH~C~~C--~k~s~~~C~~CP~ 63 (332)
.-|| +|-.|+|..|.|.-+.|.|+|.| .-| .......|..||.
T Consensus 237 vfCD--~Cnl~VHq~Cygi~~ipeg~WlC-----r~Cl~s~~~~v~c~~cp~ 281 (1051)
T KOG0955|consen 237 VFCD--GCNLAVHQECYGIPFIPEGQWLC-----RRCLQSPQRPVRCLLCPS 281 (1051)
T ss_pred EEcC--CCcchhhhhccCCCCCCCCcEee-----hhhccCcCcccceEeccC
Confidence 3466 69999999999999999999987 344 3334468999996
No 23
>cd00065 FYVE FYVE domain; Zinc-binding domain; targets proteins to membrane lipids via interaction with phosphatidylinositol-3-phosphate, PI3P; present in Fab1, YOTB, Vac1, and EEA1;
Probab=72.81 E-value=2.3 Score=30.62 Aligned_cols=45 Identities=24% Similarity=0.582 Sum_probs=31.7
Q ss_pred cccccCCC-----CccceecCCCCCccccccCceeEEe---eCCcccchhhhh
Q 039867 46 ICFKCDKA-----PKFYCLCCPSAICGPCLYEAEFAVV---KGDKGLCDECLE 90 (332)
Q Consensus 46 ~C~~C~k~-----s~~~C~~CP~S~Ck~C~~~a~f~~v---r~~kGfC~~C~~ 90 (332)
.|..|++. ....|..|...||..|.....+... ....-+|..|..
T Consensus 4 ~C~~C~~~F~~~~rk~~Cr~Cg~~~C~~C~~~~~~~~~~~~~~~~rvC~~C~~ 56 (57)
T cd00065 4 SCMGCGKPFTLTRRRHHCRNCGRIFCSKCSSNRIPLPSMGGGKPVRVCDSCYE 56 (57)
T ss_pred cCcccCccccCCccccccCcCcCCcChHHcCCeeecCcccCCCccEeChHHhC
Confidence 56677664 5677999999999999998655443 123567777753
No 24
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=71.96 E-value=8 Score=26.52 Aligned_cols=37 Identities=16% Similarity=0.335 Sum_probs=31.4
Q ss_pred ccccCcHHHHHHHHHhCCCcCccC-CHHHHHHHHHHHH
Q 039867 200 FIGWGSKSLLEFLVSIGKDTTRKL-SKQVVAIIIREYC 236 (332)
Q Consensus 200 ~~~w~S~eL~eFL~~iG~d~t~~l-SR~dVvk~lW~YI 236 (332)
|-.|-..+|.++|.+-|....+.. +|.+++..+-+|+
T Consensus 1 fdtWs~~~L~~wL~~~gi~~~~~~~~rd~Ll~~~k~~y 38 (38)
T PF10281_consen 1 FDTWSDSDLKSWLKSHGIPVPKSAKTRDELLKLAKKNY 38 (38)
T ss_pred CCCCCHHHHHHHHHHcCCCCCCCCCCHHHHHHHHHHhC
Confidence 567999999999999887776666 9999999988764
No 25
>PRK13702 replication protein; Provisional
Probab=71.16 E-value=4.5 Score=33.35 Aligned_cols=47 Identities=17% Similarity=0.188 Sum_probs=37.0
Q ss_pred hhhhhcccccCcccccccCcHHHHHHHHHhCCCcCccCCHHHHHHHHHH
Q 039867 186 QSAMKSKFKSSRKEFIGWGSKSLLEFLVSIGKDTTRKLSKQVVAIIIRE 234 (332)
Q Consensus 186 k~~~~~~~k~k~~~~~~w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~ 234 (332)
|.....+.+...++..-|++++|.+-|.-|+..+ .+||.+++..|.+
T Consensus 30 Qr~svaRKr~THkei~vfi~n~lK~~L~elc~~~--glTQAe~IE~LIe 76 (85)
T PRK13702 30 QRASVARKRATHKEIKVFIQNPLKDKLMELCEEE--GLTQAEMIERLIE 76 (85)
T ss_pred HHHHHHHHHHhhhhhheeecHHHHHHHHHHHHHc--CCcHHHHHHHHHH
Confidence 3334444455677999999999999998888876 5999999998875
No 26
>PF01363 FYVE: FYVE zinc finger; InterPro: IPR000306 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. The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two zinc ions []. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue. FYVE-type domains are divided into two known classes: FYVE domains that specifically bind to phosphatidylinositol 3-phosphate in lipid bilayers and FYVE-related domains of undetermined function []. Those that bind to phosphatidylinositol 3-phosphate are often found in proteins targeted to lipid membranes that are involved in regulating membrane traffic [, , ]. Most FYVE domains target proteins to endosomes by binding specifically to phosphatidylinositol-3-phosphate at the membrane surface. By contrast, the CARP2 FYVE-like domain is not optimized to bind to phosphoinositides or insert into lipid bilayers. FYVE domains are distinguished from other zinc fingers by three signature sequences: an N-terminal WxxD motif, a basic R(R/K)HHCR patch, and a C-terminal RVC motif. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding; PDB: 1HYI_A 1JOC_B 1HYJ_A 1DVP_A 3ZYQ_A 4AVX_A 1VFY_A 3T7L_A 1X4U_A 1WFK_A ....
Probab=70.91 E-value=1.3 Score=33.44 Aligned_cols=50 Identities=20% Similarity=0.502 Sum_probs=28.0
Q ss_pred CccccccCCC-----CccceecCCCCCccccccCceeEEe-----eCCcccchhhhhhhh
Q 039867 44 LHICFKCDKA-----PKFYCLCCPSAICGPCLYEAEFAVV-----KGDKGLCDECLELVL 93 (332)
Q Consensus 44 wH~C~~C~k~-----s~~~C~~CP~S~Ck~C~~~a~f~~v-----r~~kGfC~~C~~~~~ 93 (332)
...|.+|++. ...+|..|...||..|......... ....-.|..|...+.
T Consensus 9 ~~~C~~C~~~F~~~~rrhhCr~CG~~vC~~Cs~~~~~~~~~~~~~~~~~RvC~~C~~~~~ 68 (69)
T PF01363_consen 9 ASNCMICGKKFSLFRRRHHCRNCGRVVCSSCSSQRIPLPTPSSGSGEPVRVCDSCYSKLQ 68 (69)
T ss_dssp -SB-TTT--B-BSSS-EEE-TTT--EEECCCS-EEEEET--GGTESEEEEE-HHHHHHHH
T ss_pred CCcCcCcCCcCCCceeeEccCCCCCEECCchhCCEEcccccccCCCCcCEECHHHHHHhc
Confidence 4578888776 5667999999999999986554431 123578888887654
No 27
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=65.58 E-value=2.5 Score=42.13 Aligned_cols=55 Identities=9% Similarity=0.135 Sum_probs=43.1
Q ss_pred CCCchhhhhcccCCCCC-----CCCCeeec-CccccccCCCC----ccceecCCCCCccccccCc
Q 039867 19 YNSLYAFRMKLTGLVHF-----SYEAYRSY-LHICFKCDKAP----KFYCLCCPSAICGPCLYEA 73 (332)
Q Consensus 19 ~~C~KayH~~C~~~~~~-----s~~~W~C~-wH~C~~C~k~s----~~~C~~CP~S~Ck~C~~~a 73 (332)
+.|--+|||.|+.-... -.--|.|. .-.|.+|+++- ..+|..|-..|+--|++=.
T Consensus 283 ~~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~E~E~~FCD~CDRG~HT~CVGL~ 347 (381)
T KOG1512|consen 283 KPCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVIESEHLFCDVCDRGPHTLCVGLQ 347 (381)
T ss_pred cccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCcccchheeccccccCCCCccccccc
Confidence 46889999999887322 13468885 46899999984 6779999999999999843
No 28
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=65.45 E-value=2.4 Score=33.79 Aligned_cols=39 Identities=26% Similarity=0.592 Sum_probs=23.4
Q ss_pred CccceecCC-----CCCccccccCceeEEeeC-Ccccchhhhhhh
Q 039867 54 PKFYCLCCP-----SAICGPCLYEAEFAVVKG-DKGLCDECLELV 92 (332)
Q Consensus 54 s~~~C~~CP-----~S~Ck~C~~~a~f~~vr~-~kGfC~~C~~~~ 92 (332)
..|+|..|- .++|++|-..-+....=| .-.||.+|+.||
T Consensus 16 ~~~~C~~C~~~~~~~a~CPdC~~~Le~LkACGAvdYFC~~c~gLi 60 (70)
T PF07191_consen 16 GHYHCEACQKDYKKEAFCPDCGQPLEVLKACGAVDYFCNHCHGLI 60 (70)
T ss_dssp TEEEETTT--EEEEEEE-TTT-SB-EEEEETTEEEEE-TTTT-EE
T ss_pred CEEECccccccceecccCCCcccHHHHHHHhcccceeeccCCcee
Confidence 455666665 478999988766665544 478999999986
No 29
>PRK05350 acyl carrier protein; Provisional
Probab=65.40 E-value=8.4 Score=30.08 Aligned_cols=56 Identities=16% Similarity=0.159 Sum_probs=49.1
Q ss_pred CCHHHHHHHHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhcccCCC
Q 039867 223 LSKQVVAIIIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFAENL 281 (332)
Q Consensus 223 lSR~dVvk~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~n~ 281 (332)
|+|.+|...|.++|.+. + .-+ ..|-.|..|..-+|-+++.+.+|.-.|+.+|--..
T Consensus 2 m~~~~i~~~v~~ii~~~-~--~~~~~~i~~d~~l~~dlg~DSld~veli~~lE~~fgI~i 58 (82)
T PRK05350 2 MTREEILERLRAILVEL-F--EIDPEDITPEANLYEDLDLDSIDAVDLVVHLQKLTGKKI 58 (82)
T ss_pred CCHHHHHHHHHHHHHHH-h--CCCHHHCCCCccchhhcCCCHHHHHHHHHHHHHHHCCcc
Confidence 78999999999999987 4 234 67889999988889999999999999999998766
No 30
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=64.47 E-value=3.3 Score=29.29 Aligned_cols=29 Identities=31% Similarity=0.931 Sum_probs=23.1
Q ss_pred ccccccCCC---CccceecCC-CCCccccccCc
Q 039867 45 HICFKCDKA---PKFYCLCCP-SAICGPCLYEA 73 (332)
Q Consensus 45 H~C~~C~k~---s~~~C~~CP-~S~Ck~C~~~a 73 (332)
-.|+.|+.+ ..|.|..|| +.+|..|+...
T Consensus 5 ~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~ 37 (44)
T smart00291 5 YSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKG 37 (44)
T ss_pred cCCCCCCCCCcCCEEECCCCCCccchHHHHhCc
Confidence 358888874 467899998 89999998754
No 31
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=64.44 E-value=2.2 Score=42.39 Aligned_cols=32 Identities=6% Similarity=-0.067 Sum_probs=26.4
Q ss_pred cccCCCCCchhhhhcccCCCCCCCCCeeecCccc
Q 039867 14 FNMSSYNSLYAFRMKLTGLVHFSYEAYRSYLHIC 47 (332)
Q Consensus 14 ~~cd~~~C~KayH~~C~~~~~~s~~~W~C~wH~C 47 (332)
.-||. |-+.||-.|+||-.-|.|.|+|.--+|
T Consensus 330 ~FCD~--CDRG~HT~CVGL~~lP~G~WICD~~C~ 361 (381)
T KOG1512|consen 330 LFCDV--CDRGPHTLCVGLQDLPRGEWICDMRCR 361 (381)
T ss_pred ecccc--ccCCCCccccccccccCccchhhhHHH
Confidence 45775 889999999999888999999975433
No 32
>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=58.30 E-value=4.2 Score=34.30 Aligned_cols=48 Identities=23% Similarity=0.405 Sum_probs=34.9
Q ss_pred cCccccccCCC------CccceecCCCCCccccccCceeEEeeCCcccchhhhhhhhh
Q 039867 43 YLHICFKCDKA------PKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLR 94 (332)
Q Consensus 43 ~wH~C~~C~k~------s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~l 94 (332)
+-++|..|+.+ +...|.-|...+|..|... ......-+|..|.+..-+
T Consensus 53 ~~~~C~~C~~~fg~l~~~~~~C~~C~~~VC~~C~~~----~~~~~~WlC~vC~k~rel 106 (118)
T PF02318_consen 53 GERHCARCGKPFGFLFNRGRVCVDCKHRVCKKCGVY----SKKEPIWLCKVCQKQREL 106 (118)
T ss_dssp CCSB-TTTS-BCSCTSTTCEEETTTTEEEETTSEEE----TSSSCCEEEHHHHHHHHH
T ss_pred CCcchhhhCCcccccCCCCCcCCcCCccccCccCCc----CCCCCCEEChhhHHHHHH
Confidence 56799999874 4566999999999999765 224456689999986543
No 33
>KOG1862 consensus GYF domain containing proteins [General function prediction only]
Probab=58.28 E-value=9.2 Score=41.31 Aligned_cols=64 Identities=3% Similarity=-0.203 Sum_probs=58.2
Q ss_pred CccccccCCCCccceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCCCCCCCCccchhH
Q 039867 44 LHICFKCDKAPKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKNDFSDPSTKEFFF 120 (332)
Q Consensus 44 wH~C~~C~k~s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~VDF~D~~t~E~LF 120 (332)
|| |+.+..+..+++.+++...+..+.-...|...++++..++ .........++++.+.+|.|++
T Consensus 5 ~~-s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~a~~~~~~~~~~~p~~~~~~ 68 (673)
T KOG1862|consen 5 SF-SFPEVSTLLYQVPFPALNRGRGEGSTGIESQGRGRMSNGN------------VGSASSKGESGKEERPNLRKVR 68 (673)
T ss_pred cc-CcccCCcccccCCCcccccCCCCCCccccccccccccCCC------------cccccccccCCcccCccccccC
Confidence 99 9999999999999999999999999999999999999988 3344567888999999999999
No 34
>PF00569 ZZ: Zinc finger, ZZ type; InterPro: IPR000433 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 ZZ-type zinc finger domains, named because of their ability to bind two zinc ions []. These domains contain 4-6 Cys residues that participate in zinc binding (plus additional Ser/His residues), including a Cys-X2-Cys motif found in other zinc finger domains. These zinc fingers are thought to be involved in protein-protein interactions. The structure of the ZZ domain shows that it belongs to the family of cross-brace zinc finger motifs that include the PHD, RING, and FYVE domains []. ZZ-type zinc finger domains are found in: Transcription factors P300 and CBP. Plant proteins involved in light responses, such as Hrb1. E3 ubiquitin ligases MEX and MIB2 (6.3.2 from EC). Dystrophin and its homologues. Single copies of the ZZ zinc finger occur in the transcriptional adaptor/coactivator proteins P300, in cAMP response element-binding protein (CREB)-binding protein (CBP) and ADA2. CBP provides several binding sites for transcriptional coactivators. The site of interaction with the tumour suppressor protein p53 and the oncoprotein E1A with CBP/P300 is a Cys-rich region that incorporates two zinc-binding motifs: ZZ-type and TAZ2-type. The ZZ-type zinc finger of CBP contains two twisted anti-parallel beta-sheets and a short alpha-helix, and binds two zinc ions []. One zinc ion is coordinated by four cysteine residues via 2 Cys-X2-Cys motifs, and the third zinc ion via a third Cys-X-Cys motif and a His-X-His motif. The first zinc cluster is strictly conserved, whereas the second zinc cluster displays variability in the position of the two His residues. In Arabidopsis thaliana (Mouse-ear cress), the hypersensitive to red and blue 1 (Hrb1) protein, which regulating both red and blue light responses, contains a ZZ-type zinc finger domain []. ZZ-type zinc finger domains have also been identified in the testis-specific E3 ubiquitin ligase MEX that promotes death receptor-induced apoptosis []. MEX has four putative zinc finger domains: one ZZ-type, one SWIM-type and two RING-type. The region containing the ZZ-type and RING-type zinc fingers is required for interaction with UbcH5a and MEX self-association, whereas the SWIM domain was critical for MEX ubiquitination. In addition, the Cys-rich domains of dystrophin, utrophin and an 87kDa post-synaptic protein contain a ZZ-type zinc finger with high sequence identity to P300/CBP ZZ-type zinc fingers. In dystrophin and utrophin, the ZZ-type zinc finger lies between a WW domain (flanked by and EF hand) and the C-terminal coiled-coil domain. Dystrophin is thought to act as a link between the actin cytoskeleton and the extracellular matrix, and perturbations of the dystrophin-associated complex, for example, between dystrophin and the transmembrane glycoprotein beta-dystroglycan, may lead to muscular dystrophy. Dystrophin and its autosomal homologue utrophin interact with beta-dystroglycan via their C-terminal regions, which are comprised of a WW domain, an EF hand domain and a ZZ-type zinc finger domain []. The WW domain is the primary site of interaction between dystrophin or utrophin and dystroglycan, while the EF hand and ZZ-type zinc finger domains stabilise and strengthen this interaction. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 1TOT_A 2DIP_A 2FC7_A 2E5R_A.
Probab=58.04 E-value=3.8 Score=29.30 Aligned_cols=29 Identities=28% Similarity=0.835 Sum_probs=20.9
Q ss_pred CccccccCC----CCccceecCC-CCCccccccC
Q 039867 44 LHICFKCDK----APKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 44 wH~C~~C~k----~s~~~C~~CP-~S~Ck~C~~~ 72 (332)
...|+.|+. +..|.|..|| +-+|..|...
T Consensus 4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~ 37 (46)
T PF00569_consen 4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSK 37 (46)
T ss_dssp SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH
T ss_pred CeECcCCCCCcCcCCeEECCCCCCCchhhHHHhC
Confidence 357899988 4678899999 8899998864
No 35
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=56.30 E-value=6.2 Score=42.90 Aligned_cols=53 Identities=17% Similarity=0.321 Sum_probs=41.0
Q ss_pred CCCchhhhhcccCC--CCCCCCCeeecCcc-ccccCCCC----------ccceecCCC-CCcccccc
Q 039867 19 YNSLYAFRMKLTGL--VHFSYEAYRSYLHI-CFKCDKAP----------KFYCLCCPS-AICGPCLY 71 (332)
Q Consensus 19 ~~C~KayH~~C~~~--~~~s~~~W~C~wH~-C~~C~k~s----------~~~C~~CP~-S~Ck~C~~ 71 (332)
+.|-=+||-.|.-- ..-+.+.|.|+||. |..|+-.. ...|+.|-+ ++|+.|..
T Consensus 87 k~cDvsyh~yc~~P~~~~v~sg~~~ckk~~~c~qc~~~lpg~s~~~~~~~~~~~~c~s~~~cPvc~~ 153 (694)
T KOG4443|consen 87 KRCDVSYHCYCQKPPNDKVPSGPWLCKKCTRCRQCDSTLPGLSLDLQEGYLQCAPCASLSYCPVCLI 153 (694)
T ss_pred ccccccccccccCCccccccCcccccHHHHhhhhccccccccchhhhccCcccccccccccCchHHH
Confidence 56888999888654 66678999999985 88885432 334889998 99998875
No 36
>PRK05828 acyl carrier protein; Validated
Probab=55.98 E-value=22 Score=28.64 Aligned_cols=57 Identities=16% Similarity=0.173 Sum_probs=46.7
Q ss_pred CCHHHHHHHHHHHHHHcCCCCCCCCccccchhhhhhhCCceechHhHHHHHHhcccCCC
Q 039867 223 LSKQVVAIIIREYCKENNLFHPDKKEICCDAKLQALLGRKSVEKRKLCELLTIHFAENL 281 (332)
Q Consensus 223 lSR~dVvk~lW~YIK~nnLqDP~~r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~n~ 281 (332)
|+|.+|...|.+.|.+.++.=+. -.|..|..|.. +|-+++.+.+|.-.|+..|--..
T Consensus 1 m~~~eI~~~i~~ii~e~~~~~~~-d~i~~~~~~~d-Lg~DSLd~velv~~lE~~f~I~i 57 (84)
T PRK05828 1 MQEMEILLKIKEIAKKKNFAVTL-DESNINKPYRE-LKIDSLDMFSIIVSLESEFNIEF 57 (84)
T ss_pred CCHHHHHHHHHHHHHHhccCCCc-ccccCCCCHHh-cCCCHHHHHHHHHHHHHHHCCCc
Confidence 68999999999999886652221 45566788876 99999999999999999998666
No 37
>KOG3795 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.95 E-value=5.6 Score=37.26 Aligned_cols=22 Identities=27% Similarity=0.665 Sum_probs=19.5
Q ss_pred eecCccccccCCCCccceecCC
Q 039867 41 RSYLHICFKCDKAPKFYCLCCP 62 (332)
Q Consensus 41 ~C~wH~C~~C~k~s~~~C~~CP 62 (332)
+-+.|.|-.|++...|+||.|-
T Consensus 12 ieGRs~C~~C~~SRkFfCY~C~ 33 (230)
T KOG3795|consen 12 IEGRSTCPGCKSSRKFFCYDCR 33 (230)
T ss_pred ccccccCCCCCCcceEEEEeec
Confidence 3578999999999999999984
No 38
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=54.65 E-value=5.1 Score=39.68 Aligned_cols=73 Identities=14% Similarity=0.185 Sum_probs=56.7
Q ss_pred CCCchhhhhcccCCCCCC-----CCCeeec-CccccccCCC----CccceecCCCCCccccccCceeEEeeCCcccchhh
Q 039867 19 YNSLYAFRMKLTGLVHFS-----YEAYRSY-LHICFKCDKA----PKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDEC 88 (332)
Q Consensus 19 ~~C~KayH~~C~~~~~~s-----~~~W~C~-wH~C~~C~k~----s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C 88 (332)
.+|.+.=||+||--+.+- .-+|+|- .-+|.+||-. -+.||.-|-..|+--|+....-.+ .++---|-.|
T Consensus 250 sdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtsenddqllfcddcdrgyhmyclsppm~ep-pegswsc~KO 328 (336)
T KOG1244|consen 250 SDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSENDDQLLFCDDCDRGYHMYCLSPPMVEP-PEGSWSCHLC 328 (336)
T ss_pred hhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcCCCceeEeecccCCceeeEecCCCcCCC-CCCchhHHHH
Confidence 479999999999874432 4689995 5789999755 588899999999999998754433 6666778888
Q ss_pred hhhh
Q 039867 89 LELV 92 (332)
Q Consensus 89 ~~~~ 92 (332)
|+..
T Consensus 329 G~~~ 332 (336)
T KOG1244|consen 329 LEEL 332 (336)
T ss_pred HHHH
Confidence 8753
No 39
>cd02340 ZZ_NBR1_like Zinc finger, ZZ type. Zinc finger present in Drosophila ref(2)P, NBR1, Human sequestosome 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Drosophila ref(2)P appears to control the multiplication of sigma rhabdovirus. NBR1 (Next to BRCA1 gene 1 protein) interacts with fasciculation and elongation protein zeta-1 (FEZ1) and calcium and integrin binding protein (CIB), and may function in cell signalling pathways. Sequestosome 1 is a phosphotyrosine independent ligand for the Lck SH2 domain and binds noncovalently to ubiquitin via its UBA domain.
Probab=53.18 E-value=7.4 Score=27.71 Aligned_cols=27 Identities=33% Similarity=0.979 Sum_probs=21.6
Q ss_pred cccccCCC---CccceecCC-CCCccccccC
Q 039867 46 ICFKCDKA---PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~---s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|+.+ ..|.|..|| +-+|..|...
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~ 32 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAK 32 (43)
T ss_pred CCCCCCCcCcCCeEECCCCCCccchHHhhCc
Confidence 48888765 577899997 8899999764
No 40
>cd02249 ZZ Zinc finger, ZZ type. Zinc finger present in dystrophin, CBP/p300 and many other proteins. The ZZ motif coordinates one or two zinc ions and most likely participates in ligand binding or molecular scaffolding. Many proteins containing ZZ motifs have other zinc-binding motifs as well, and the majority serve as scaffolds in pathways involving acetyltransferase, protein kinase, or ubiqitin-related activity. ZZ proteins can be grouped into the following functional classes: chromatin modifying, cytoskeletal scaffolding, ubiquitin binding or conjugating, and membrane receptor or ion-channel modifying proteins.
Probab=53.07 E-value=6.8 Score=27.81 Aligned_cols=28 Identities=29% Similarity=0.814 Sum_probs=22.6
Q ss_pred cccccCCC---CccceecCC-CCCccccccCc
Q 039867 46 ICFKCDKA---PKFYCLCCP-SAICGPCLYEA 73 (332)
Q Consensus 46 ~C~~C~k~---s~~~C~~CP-~S~Ck~C~~~a 73 (332)
.|+.|+.+ ..|+|..|+ +.+|..|....
T Consensus 2 ~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~ 33 (46)
T cd02249 2 SCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKG 33 (46)
T ss_pred CCcCCCCCCcCCEEECCCCCCCcCHHHHHCcC
Confidence 48888775 567899999 89999998754
No 41
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=51.47 E-value=7.3 Score=28.16 Aligned_cols=27 Identities=33% Similarity=0.908 Sum_probs=22.1
Q ss_pred cccccCC----CCccceecCC-CCCccccccC
Q 039867 46 ICFKCDK----APKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k----~s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|++ +..|.|..|+ +-+|..|...
T Consensus 2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~ 33 (45)
T cd02339 2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHG 33 (45)
T ss_pred CCCCCCCCCcccCeEECCCCCCccchHHHhCC
Confidence 5899995 4578899998 8999999874
No 42
>cd02341 ZZ_ZZZ3 Zinc finger, ZZ type. Zinc finger present in ZZZ3 (ZZ finger containing 3) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=50.66 E-value=7.7 Score=28.45 Aligned_cols=28 Identities=21% Similarity=0.724 Sum_probs=22.6
Q ss_pred cccccCCC----CccceecCC---CCCccccccCc
Q 039867 46 ICFKCDKA----PKFYCLCCP---SAICGPCLYEA 73 (332)
Q Consensus 46 ~C~~C~k~----s~~~C~~CP---~S~Ck~C~~~a 73 (332)
.|++|+.. ..|.|..|| +-+|..|+...
T Consensus 2 ~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~ 36 (48)
T cd02341 2 KCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKG 36 (48)
T ss_pred CCCCCCCCccccceEECCCCCCCCCccCHHHHhCc
Confidence 48999883 468899999 88999998753
No 43
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 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 UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=50.25 E-value=3.8 Score=30.84 Aligned_cols=46 Identities=22% Similarity=0.489 Sum_probs=30.8
Q ss_pred ccccCC--CCccceecCCCCCccc----cccC-------ceeEEeeCCcccchhhhhhh
Q 039867 47 CFKCDK--APKFYCLCCPSAICGP----CLYE-------AEFAVVKGDKGLCDECLELV 92 (332)
Q Consensus 47 C~~C~k--~s~~~C~~CP~S~Ck~----C~~~-------a~f~~vr~~kGfC~~C~~~~ 92 (332)
|..|+. ...+.|+.|++..|.+ |... ..++.+.....+|-.|-..|
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~~~i~C~~C~~~v 59 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLSTGSIWCYACDDYV 59 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTTTCEEETTTTEEE
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCCCeEEEcCCCcEE
Confidence 556654 4788899999999996 4432 46777777788888775543
No 44
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 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 B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=50.24 E-value=3.9 Score=27.87 Aligned_cols=28 Identities=18% Similarity=0.594 Sum_probs=22.8
Q ss_pred ccccccCCC-CccceecCCCCCccccccC
Q 039867 45 HICFKCDKA-PKFYCLCCPSAICGPCLYE 72 (332)
Q Consensus 45 H~C~~C~k~-s~~~C~~CP~S~Ck~C~~~ 72 (332)
..|..+++. ..++|..|-..+|..|...
T Consensus 4 ~~C~~H~~~~~~~~C~~C~~~~C~~C~~~ 32 (42)
T PF00643_consen 4 PKCPEHPEEPLSLFCEDCNEPLCSECTVS 32 (42)
T ss_dssp SB-SSTTTSBEEEEETTTTEEEEHHHHHT
T ss_pred ccCccCCccceEEEecCCCCccCccCCCC
Confidence 457788888 8899999999999999764
No 45
>cd02336 ZZ_RSC8 Zinc finger, ZZ type. Zinc finger present in RSC8 and related proteins. RSC8 is a component of the RSC complex, which is closely related to the SWI/SNF complex and is involved in remodeling chromatin structure. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=46.99 E-value=7.5 Score=28.21 Aligned_cols=32 Identities=25% Similarity=0.644 Sum_probs=26.4
Q ss_pred cccccCCCC---ccceecCC-CCCccccccCceeEE
Q 039867 46 ICFKCDKAP---KFYCLCCP-SAICGPCLYEAEFAV 77 (332)
Q Consensus 46 ~C~~C~k~s---~~~C~~CP-~S~Ck~C~~~a~f~~ 77 (332)
+|+.||..- .|+|..++ +.+|..|+.+..|..
T Consensus 2 ~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~G~f~~ 37 (45)
T cd02336 2 HCFTCGNDCTRVRYHNLKAKKYDLCPSCYQEGRFPS 37 (45)
T ss_pred cccCCCCccCceEEEecCCCccccChHHHhCcCCCC
Confidence 688888774 56688888 899999999988876
No 46
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=46.54 E-value=12 Score=26.27 Aligned_cols=23 Identities=30% Similarity=0.816 Sum_probs=18.1
Q ss_pred ccccCCCC-ccceecCCCCCcccc
Q 039867 47 CFKCDKAP-KFYCLCCPSAICGPC 69 (332)
Q Consensus 47 C~~C~k~s-~~~C~~CP~S~Ck~C 69 (332)
|..|+... .+.|+.|+..+|..-
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~~ 25 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGRY 25 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCCC
Confidence 77887665 667999999999653
No 47
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=43.08 E-value=13 Score=42.37 Aligned_cols=71 Identities=23% Similarity=0.483 Sum_probs=47.1
Q ss_pred CeeecCccccccCCC--------CccceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCc-cCCCC
Q 039867 39 AYRSYLHICFKCDKA--------PKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPN-QCKND 109 (332)
Q Consensus 39 ~W~C~wH~C~~C~k~--------s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~-~~~VD 109 (332)
+=.|+-+.|-+||.. .---|..|...+|+.|. ||-- +++.-.|..|..-....-....+.-| .+..|
T Consensus 10 ~~~~~~~~c~iCGd~vg~~~~Ge~FVAC~eC~fpvCr~cy---eye~-~~g~~~cp~c~t~y~~~~~~~~~~~d~~~~~~ 85 (1044)
T PLN02915 10 RQSADAKTCRVCGDEVGVKEDGQPFVACHVCGFPVCKPCY---EYER-SEGNQCCPQCNTRYKRHKGCPRVEGDDEEGND 85 (1044)
T ss_pred ccCCCcchhhccccccCcCCCCCEEEEeccCCCccccchh---hhhh-hcCCccCCccCCchhhhcCCCCccCCcccccc
Confidence 345889999999877 22239999999999999 4544 66777888887766544322222222 23455
Q ss_pred CCCC
Q 039867 110 FSDP 113 (332)
Q Consensus 110 F~D~ 113 (332)
+||-
T Consensus 86 ~dd~ 89 (1044)
T PLN02915 86 MDDF 89 (1044)
T ss_pred chhh
Confidence 6665
No 48
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=42.29 E-value=11 Score=30.79 Aligned_cols=22 Identities=14% Similarity=-0.057 Sum_probs=18.5
Q ss_pred cceecccCCCCCchhhhhcccC
Q 039867 10 QHIKFNMSSYNSLYAFRMKLTG 31 (332)
Q Consensus 10 ~~~~~~cd~~~C~KayH~~C~~ 31 (332)
.-+...|...+|..+||+.|.-
T Consensus 65 ~G~~i~C~~~~C~~~fH~~CA~ 86 (110)
T PF13832_consen 65 GGACIKCSHPGCSTAFHPTCAR 86 (110)
T ss_pred CceeEEcCCCCCCcCCCHHHHH
Confidence 4566789999999999999953
No 49
>PLN02436 cellulose synthase A
Probab=42.23 E-value=15 Score=42.21 Aligned_cols=76 Identities=22% Similarity=0.496 Sum_probs=51.5
Q ss_pred eecCccccccCCCC-------ccc-eecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCCCCCC
Q 039867 41 RSYLHICFKCDKAP-------KFY-CLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKNDFSD 112 (332)
Q Consensus 41 ~C~wH~C~~C~k~s-------~~~-C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~VDF~D 112 (332)
...-+.|-+||..- .|- |..|.+.+|..|. ||-- +.+.-.|..|.....-.-....+.-|.+..|+||
T Consensus 33 ~~~~~iCqICGD~Vg~t~dGe~FVACn~C~fpvCr~Cy---eyer-~eg~~~Cpqckt~Y~r~kgs~~~~~d~ee~~~dd 108 (1094)
T PLN02436 33 ELSGQTCQICGDEIELTVDGEPFVACNECAFPVCRPCY---EYER-REGNQACPQCKTRYKRIKGSPRVEGDEEEDDIDD 108 (1094)
T ss_pred ccCCccccccccccCcCCCCCEEEeeccCCCccccchh---hhhh-hcCCccCcccCCchhhccCCCCcCCccccccchh
Confidence 35677999998772 343 9999999999999 4444 5667788999877665544444433445666776
Q ss_pred CCccchhHH
Q 039867 113 PSTKEFFFY 121 (332)
Q Consensus 113 ~~t~E~LFK 121 (332)
- -.||-|.
T Consensus 109 ~-e~ef~~~ 116 (1094)
T PLN02436 109 L-ENEFDYG 116 (1094)
T ss_pred h-hhhhcCc
Confidence 6 3455444
No 50
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=41.65 E-value=12 Score=40.05 Aligned_cols=23 Identities=9% Similarity=0.131 Sum_probs=20.4
Q ss_pred cccceecccCCCCCchhhhhcccCC
Q 039867 8 SPQHIKFNMSSYNSLYAFRMKLTGL 32 (332)
Q Consensus 8 ~~~~~~~~cd~~~C~KayH~~C~~~ 32 (332)
.-||.-..|| .|-+-||+-||+-
T Consensus 554 ~dQHll~~CD--tC~lhYHlGCL~P 576 (707)
T KOG0957|consen 554 TDQHLLTQCD--TCHLHYHLGCLSP 576 (707)
T ss_pred hhhHHHhhcc--hhhceeeccccCC
Confidence 3589999998 6999999999986
No 51
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=41.25 E-value=13 Score=28.87 Aligned_cols=23 Identities=4% Similarity=-0.145 Sum_probs=10.0
Q ss_pred cceecccCCCCCchhhhhcccCC
Q 039867 10 QHIKFNMSSYNSLYAFRMKLTGL 32 (332)
Q Consensus 10 ~~~~~~cd~~~C~KayH~~C~~~ 32 (332)
+.-...|+...|.+.||+.||-.
T Consensus 17 ~~p~~~C~n~~C~~~fH~~CL~~ 39 (70)
T PF11793_consen 17 EIPDVVCPNPSCGKKFHLLCLSE 39 (70)
T ss_dssp ----B--S-TT----B-SGGGHH
T ss_pred CcCceEcCCcccCCHHHHHHHHH
Confidence 34468899999999999999876
No 52
>cd02338 ZZ_PCMF_like Zinc finger, ZZ type. Zinc finger present in potassium channel modulatory factor (PCMF) 1 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Human potassium channel modulatory factor 1 or FIGC has been shown to possess intrinsic E3 ubiquitin ligase activity and to promote ubiquitination.
Probab=41.19 E-value=14 Score=26.93 Aligned_cols=27 Identities=30% Similarity=0.844 Sum_probs=21.7
Q ss_pred cccccCCC----CccceecCC-CCCccccccC
Q 039867 46 ICFKCDKA----PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~----s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|+.. ..|.|..|| +.+|.+|+..
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~ 33 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDS 33 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhC
Confidence 58899843 467899999 8899999874
No 53
>cd00021 BBOX B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
Probab=40.17 E-value=14 Score=24.27 Aligned_cols=27 Identities=15% Similarity=0.472 Sum_probs=21.8
Q ss_pred cccccCC-CCccceecCCCCCccccccC
Q 039867 46 ICFKCDK-APKFYCLCCPSAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k-~s~~~C~~CP~S~Ck~C~~~ 72 (332)
.|..+++ +..++|..|-..+|..|...
T Consensus 2 ~C~~H~~~~~~~fC~~~~~~iC~~C~~~ 29 (39)
T cd00021 2 LCDEHGEEPLSLFCETDRALLCVDCDLS 29 (39)
T ss_pred CCCccCCcceEEEeCccChhhhhhcChh
Confidence 3666777 78999999999999999743
No 54
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=39.71 E-value=8.4 Score=30.12 Aligned_cols=21 Identities=10% Similarity=-0.028 Sum_probs=17.8
Q ss_pred eecccCCCCCchhhhhcccCC
Q 039867 12 IKFNMSSYNSLYAFRMKLTGL 32 (332)
Q Consensus 12 ~~~~cd~~~C~KayH~~C~~~ 32 (332)
.-..|...+|...||+.|.-.
T Consensus 48 a~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 48 ACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred eEEEEeCCCCCcEEChHHHcc
Confidence 567899999999999999544
No 55
>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=39.49 E-value=20 Score=23.41 Aligned_cols=26 Identities=19% Similarity=0.438 Sum_probs=18.9
Q ss_pred ccccccCCCC----ccceecCCCCCccccc
Q 039867 45 HICFKCDKAP----KFYCLCCPSAICGPCL 70 (332)
Q Consensus 45 H~C~~C~k~s----~~~C~~CP~S~Ck~C~ 70 (332)
+.|.+|++.. .|.|..|...++..|+
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~c~f~lh~~Ca 30 (30)
T PF03107_consen 1 FWCDVCRRKIDGFYFYHCSECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCCcCCCEeEEeCCCCCeEcCccC
Confidence 4689998774 4558888887777763
No 56
>CHL00124 acpP acyl carrier protein; Validated
Probab=38.08 E-value=34 Score=26.30 Aligned_cols=57 Identities=18% Similarity=0.216 Sum_probs=48.1
Q ss_pred CCHHHHHHHHHHHHHHcCCCCCCCCccccchhhhhhhCCceechHhHHHHHHhcccCCC
Q 039867 223 LSKQVVAIIIREYCKENNLFHPDKKEICCDAKLQALLGRKSVEKRKLCELLTIHFAENL 281 (332)
Q Consensus 223 lSR~dVvk~lW~YIK~nnLqDP~~r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~n~ 281 (332)
|+|.+|...|-++|.+.==.+| ..|..|..|..-+|-+++.+.+|.-.|+..|--..
T Consensus 1 M~~~~i~~~l~~ii~~~~~~~~--~~i~~d~~l~~dlg~DSl~~~eli~~le~~f~i~i 57 (82)
T CHL00124 1 MTKNDIFEKVQSIVAEQLGIEK--SEVTLDANFTRDLGADSLDVVELVMAIEEKFDIEI 57 (82)
T ss_pred CCHHHHHHHHHHHHHHHHCCCH--HHCCCCcchhhhcCCcHHHHHHHHHHHHHHHCCcc
Confidence 6788999999999988732222 46889999999999999999999999999998766
No 57
>PLN02189 cellulose synthase
Probab=37.50 E-value=18 Score=41.40 Aligned_cols=76 Identities=22% Similarity=0.463 Sum_probs=51.7
Q ss_pred eecCccccccCCC------C-ccc-eecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCCCCCC
Q 039867 41 RSYLHICFKCDKA------P-KFY-CLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKNDFSD 112 (332)
Q Consensus 41 ~C~wH~C~~C~k~------s-~~~-C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~VDF~D 112 (332)
...-++|-+||.. . .|- |..|.+.+|..|. ||-- +++.-.|..|.....-.-....+.-|.+..|+||
T Consensus 31 ~~~~~~C~iCgd~vg~~~~g~~fvaC~~C~fpvCr~Cy---eyer-~eg~q~CpqCkt~Y~r~kgs~~v~gd~ee~~~dd 106 (1040)
T PLN02189 31 NLDGQVCEICGDEIGLTVDGDLFVACNECGFPVCRPCY---EYER-REGTQNCPQCKTRYKRLKGSPRVEGDDDEEDIDD 106 (1040)
T ss_pred cccCccccccccccCcCCCCCEEEeeccCCCccccchh---hhhh-hcCCccCcccCCchhhccCCCCcCCccccccchh
Confidence 3567799999776 2 333 9999999999999 4444 6677788999887775554444444445667777
Q ss_pred CCccchhHH
Q 039867 113 PSTKEFFFY 121 (332)
Q Consensus 113 ~~t~E~LFK 121 (332)
-+ .||-|.
T Consensus 107 ~~-~e~~~~ 114 (1040)
T PLN02189 107 IE-HEFNID 114 (1040)
T ss_pred hh-hhcccc
Confidence 62 444333
No 58
>cd02345 ZZ_dah Zinc finger, ZZ type. Zinc finger present in Drosophila dah and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dah (discontinuous actin hexagon) is a membrane associated protein essential for cortical furrow formation in Drosophila.
Probab=37.46 E-value=13 Score=27.02 Aligned_cols=27 Identities=30% Similarity=0.782 Sum_probs=21.9
Q ss_pred cccccCC-C---CccceecCC-CCCccccccC
Q 039867 46 ICFKCDK-A---PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k-~---s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|++ + ..|.|..|| +.+|..|...
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~ 33 (49)
T cd02345 2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTK 33 (49)
T ss_pred cCCCCCCCCceEeeEECCCCCCcCchHHHHhC
Confidence 4888988 3 467899999 8899999874
No 59
>cd02342 ZZ_UBA_plant Zinc finger, ZZ type. Zinc finger present in plant ubiquitin-associated (UBA) proteins. The ZZ motif coordinates a zinc ion and most likely participates in ligand binding or molecular scaffolding.
Probab=36.55 E-value=19 Score=26.32 Aligned_cols=27 Identities=19% Similarity=0.508 Sum_probs=22.0
Q ss_pred cccccCCC----CccceecCC-CCCccccccC
Q 039867 46 ICFKCDKA----PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~----s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.||.. ..|.|..|+ +-+|..|...
T Consensus 2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~ 33 (43)
T cd02342 2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSR 33 (43)
T ss_pred CCCCCCCCcccccceEeCCCCCCccHHHHhhh
Confidence 58999975 478899999 6789999874
No 60
>smart00336 BBOX B-Box-type zinc finger.
Probab=36.23 E-value=20 Score=23.83 Aligned_cols=27 Identities=22% Similarity=0.650 Sum_probs=21.6
Q ss_pred cccccC-CCCccceecCCCCCccccccC
Q 039867 46 ICFKCD-KAPKFYCLCCPSAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~-k~s~~~C~~CP~S~Ck~C~~~ 72 (332)
.|..++ .+..++|..|-..+|..|...
T Consensus 5 ~C~~h~~~~~~~~C~~c~~~iC~~C~~~ 32 (42)
T smart00336 5 KCDSHGDEPAEFFCEECGALLCRTCDEA 32 (42)
T ss_pred cCCCCCCCceEEECCCCCcccccccChh
Confidence 466676 777888999999999998854
No 61
>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=36.23 E-value=10 Score=24.56 Aligned_cols=25 Identities=24% Similarity=0.551 Sum_probs=10.7
Q ss_pred cccccCCCC----ccceecCCCCCccccc
Q 039867 46 ICFKCDKAP----KFYCLCCPSAICGPCL 70 (332)
Q Consensus 46 ~C~~C~k~s----~~~C~~CP~S~Ck~C~ 70 (332)
.|..|+++. .|.|..|-..++.+|+
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSECDFDLHEECA 30 (30)
T ss_dssp --TTTS----S--EEE-TTT-----HHHH
T ss_pred cCCcCCCcCCCCceEECccCCCccChhcC
Confidence 588897774 5668888888888774
No 62
>cd02335 ZZ_ADA2 Zinc finger, ZZ type. Zinc finger present in ADA2, a putative transcriptional adaptor, and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=35.52 E-value=20 Score=25.90 Aligned_cols=27 Identities=30% Similarity=0.752 Sum_probs=21.6
Q ss_pred cccccCCCC----ccceecCC-CCCccccccC
Q 039867 46 ICFKCDKAP----KFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~s----~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|++.. .+.|..|+ +.+|..|+..
T Consensus 2 ~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~ 33 (49)
T cd02335 2 HCDYCSKDITGTIRIKCAECPDFDLCLECFSA 33 (49)
T ss_pred CCCCcCCCCCCCcEEECCCCCCcchhHHhhhC
Confidence 488998763 46799997 8999999874
No 63
>PF03380 DUF282: Caenorhabditis protein of unknown function, DUF282; InterPro: IPR005044 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=35.22 E-value=22 Score=25.45 Aligned_cols=22 Identities=9% Similarity=-0.008 Sum_probs=19.9
Q ss_pred CCCchhhhhcccCCCCCCCCCe
Q 039867 19 YNSLYAFRMKLTGLVHFSYEAY 40 (332)
Q Consensus 19 ~~C~KayH~~C~~~~~~s~~~W 40 (332)
+.|+|.|-..|.|.-.++.-.|
T Consensus 3 s~C~~iYdt~CqG~g~Ps~~~w 24 (39)
T PF03380_consen 3 SVCSKIYDTTCQGFGIPSLSDW 24 (39)
T ss_pred cccccccCCCCccCCCCCcccc
Confidence 5799999999999998888888
No 64
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=34.83 E-value=19 Score=26.47 Aligned_cols=27 Identities=26% Similarity=0.839 Sum_probs=22.0
Q ss_pred cccccCCC----CccceecCC-CCCccccccC
Q 039867 46 ICFKCDKA----PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~----s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|++. ..|.|..|+ +-+|..|...
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~ 33 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFS 33 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhC
Confidence 58899864 467799999 8899999874
No 65
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=34.02 E-value=18 Score=35.16 Aligned_cols=29 Identities=28% Similarity=0.800 Sum_probs=25.3
Q ss_pred ccccccCC----CCccceecCC-CCCccccccCc
Q 039867 45 HICFKCDK----APKFYCLCCP-SAICGPCLYEA 73 (332)
Q Consensus 45 H~C~~C~k----~s~~~C~~CP-~S~Ck~C~~~a 73 (332)
-.|+.|++ +..|.|..|| |-+|..|..+.
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~ 186 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN 186 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC
Confidence 48999999 3689999999 88999999874
No 66
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=33.76 E-value=88 Score=21.07 Aligned_cols=32 Identities=22% Similarity=0.048 Sum_probs=25.9
Q ss_pred cCcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHH
Q 039867 203 WGSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYC 236 (332)
Q Consensus 203 w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YI 236 (332)
|--++|.+++...|-.+ .-++.+++..|-+||
T Consensus 4 l~v~eLk~~l~~~gL~~--~G~K~~Li~Rl~~~l 35 (35)
T PF02037_consen 4 LTVAELKEELKERGLST--SGKKAELIERLKEHL 35 (35)
T ss_dssp SHHHHHHHHHHHTTS-S--TSSHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHCCCCC--CCCHHHHHHHHHHhC
Confidence 44578999999889876 377999999999986
No 67
>PRK12449 acyl carrier protein; Provisional
Probab=33.01 E-value=74 Score=24.30 Aligned_cols=57 Identities=11% Similarity=0.108 Sum_probs=46.7
Q ss_pred CCHHHHHHHHHHHHHHcCCCCCCCCccccchhhhhhhCCceechHhHHHHHHhcccCCC
Q 039867 223 LSKQVVAIIIREYCKENNLFHPDKKEICCDAKLQALLGRKSVEKRKLCELLTIHFAENL 281 (332)
Q Consensus 223 lSR~dVvk~lW~YIK~nnLqDP~~r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~n~ 281 (332)
|+|.+|...|.+++.+.-=.+| ..|-.|..|..-+|-+++.+.+|.-.|+..|--..
T Consensus 1 m~~~~i~~~l~~il~~~~~~~~--~~i~~~~~l~~dlg~DSl~~~~li~~lE~~f~i~i 57 (80)
T PRK12449 1 MTREEIFERLINLIQKQRSYLS--LAITEQTHLKDDLAVDSIELVEFIINVEDEFHIAI 57 (80)
T ss_pred CCHHHHHHHHHHHHHHHhCCCc--cccCCCCcHHHHcCCcHHHHHHHHHHHHHHhCCCC
Confidence 5688888899999886432233 36889999999999999999999999999987665
No 68
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=32.38 E-value=13 Score=35.73 Aligned_cols=76 Identities=25% Similarity=0.602 Sum_probs=50.8
Q ss_pred cCccccccCCCC---ccceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCCCCCCCCccchh
Q 039867 43 YLHICFKCDKAP---KFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKNDFSDPSTKEFF 119 (332)
Q Consensus 43 ~wH~C~~C~k~s---~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~VDF~D~~t~E~L 119 (332)
+|-+|..|+.-. .|+=.-|.+-||..|++.+-=. .|..|.+.+-.|+-+..- ..+.+.-|.|.- .+
T Consensus 2 ~~VhCn~C~~~~~~~~f~LTaC~HvfC~~C~k~~~~~-------~C~lCkk~ir~i~l~~sl-p~~ik~~F~d~~---~~ 70 (233)
T KOG4739|consen 2 DFVHCNKCFRFPSQDPFFLTACRHVFCEPCLKASSPD-------VCPLCKKSIRIIQLNRSL-PTDIKSYFADPP---RL 70 (233)
T ss_pred ceEEeccccccCCCCceeeeechhhhhhhhcccCCcc-------ccccccceeeeeeccccc-chhHHHHccCcH---HH
Confidence 477899886553 5666889999999999863211 899999999888877764 344455555543 23
Q ss_pred HHHHHHHHhh
Q 039867 120 FYDYWRIIKK 129 (332)
Q Consensus 120 FK~YW~~iK~ 129 (332)
+-+|+-.|+.
T Consensus 71 ~~~~~~~l~r 80 (233)
T KOG4739|consen 71 IQDLYRKLQR 80 (233)
T ss_pred HHHHHHHHHH
Confidence 4444444443
No 69
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=31.56 E-value=23 Score=39.84 Aligned_cols=33 Identities=3% Similarity=-0.012 Sum_probs=26.2
Q ss_pred ccceecccCCCCCchh-hhhcccCCCC--CCCCCeeec
Q 039867 9 PQHIKFNMSSYNSLYA-FRMKLTGLVH--FSYEAYRSY 43 (332)
Q Consensus 9 ~~~~~~~cd~~~C~Ka-yH~~C~~~~~--~s~~~W~C~ 43 (332)
|..+-+-|| .|-++ ||..||+-.+ -+-+.|.|+
T Consensus 226 pEdVLLLCD--sCN~~~YH~YCLDPdl~eiP~~eWYC~ 261 (1134)
T KOG0825|consen 226 PEDVLLLCD--SCNKVYYHVYCLDPDLSESPVNEWYCT 261 (1134)
T ss_pred hHHhheeec--ccccceeeccccCcccccccccceecC
Confidence 555667788 59999 9999999855 667889874
No 70
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=30.16 E-value=27 Score=40.15 Aligned_cols=66 Identities=23% Similarity=0.544 Sum_probs=43.7
Q ss_pred CccccccCCC------C-cc-ceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCC-CCCCC
Q 039867 44 LHICFKCDKA------P-KF-YCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKN-DFSDP 113 (332)
Q Consensus 44 wH~C~~C~k~------s-~~-~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~V-DF~D~ 113 (332)
-+.|-+||.. + .| -|..|...+|+.|. ||-- +++--.|..|..-....-....+.-|.+.. |+||-
T Consensus 17 ~qiCqICGD~vg~~~~Ge~FVAC~eC~FPVCrpCY---EYEr-~eG~q~CPqCktrYkr~kgsprv~gDeeed~~~dDl 91 (1079)
T PLN02638 17 GQVCQICGDNVGKTVDGEPFVACDVCAFPVCRPCY---EYER-KDGNQSCPQCKTKYKRHKGSPAILGDEEEDGDADDG 91 (1079)
T ss_pred CceeeecccccCcCCCCCEEEEeccCCCccccchh---hhhh-hcCCccCCccCCchhhhcCCCCcCccccccCcchhh
Confidence 4689999876 2 23 39999999999999 4444 667778999987776555443333222233 25554
No 71
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=30.10 E-value=33 Score=37.79 Aligned_cols=31 Identities=16% Similarity=0.210 Sum_probs=23.1
Q ss_pred CCchhhhhcccCC--CCCCCCCeeecCccccccCCC
Q 039867 20 NSLYAFRMKLTGL--VHFSYEAYRSYLHICFKCDKA 53 (332)
Q Consensus 20 ~C~KayH~~C~~~--~~~s~~~W~C~wH~C~~C~k~ 53 (332)
.||-+||..|++. ...+-+-|.|+ .| .|-.+
T Consensus 64 tC~~s~h~~cl~~pl~~~p~~~~~c~--Rc-~~p~~ 96 (696)
T KOG0383|consen 64 TCPASFHASCLGPPLTPQPNGEFICP--RC-FCPKN 96 (696)
T ss_pred cccHHHHHHccCCCCCcCCccceeee--ee-ccCCC
Confidence 6999999999987 33333449999 77 66444
No 72
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=29.95 E-value=1.1e+02 Score=20.44 Aligned_cols=33 Identities=18% Similarity=-0.006 Sum_probs=26.7
Q ss_pred ccCcHHHHHHHHHhCCCcCccCCHHHHHHHHHHHH
Q 039867 202 GWGSKSLLEFLVSIGKDTTRKLSKQVVAIIIREYC 236 (332)
Q Consensus 202 ~w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW~YI 236 (332)
.+--.+|.+++...|-++ .-.+.+++..|-+|+
T Consensus 3 ~l~~~~Lk~~l~~~gl~~--~G~K~~Lv~Rl~~~~ 35 (35)
T smart00513 3 KLKVSELKDELKKRGLST--SGTKAELVDRLLEAL 35 (35)
T ss_pred cCcHHHHHHHHHHcCCCC--CCCHHHHHHHHHHhC
Confidence 344678999999889876 468999999998884
No 73
>cd02344 ZZ_HERC2 Zinc finger, ZZ type. Zinc finger present in HERC2 and related proteins. HERC2 is a potential E3 ubiquitin protein ligase and/or guanine nucleotide exchange factor. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=29.76 E-value=28 Score=25.29 Aligned_cols=27 Identities=30% Similarity=0.821 Sum_probs=22.3
Q ss_pred cccccCCC----CccceecCC-CCCccccccC
Q 039867 46 ICFKCDKA----PKFYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~----s~~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|+.. ..|.|..|+ +.+|..|...
T Consensus 2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~ 33 (45)
T cd02344 2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKT 33 (45)
T ss_pred CCCCCCCCCCccCeEECCCCCCccchHHhhCC
Confidence 58888864 567899999 8999999875
No 74
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=29.06 E-value=22 Score=26.36 Aligned_cols=28 Identities=29% Similarity=0.910 Sum_probs=21.4
Q ss_pred cccccCCCC---ccceecCC-CCCccccccCc
Q 039867 46 ICFKCDKAP---KFYCLCCP-SAICGPCLYEA 73 (332)
Q Consensus 46 ~C~~C~k~s---~~~C~~CP-~S~Ck~C~~~a 73 (332)
.|+.|++.. .|.|..|| +-+|..|+...
T Consensus 2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g 33 (48)
T cd02343 2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGG 33 (48)
T ss_pred CCCCCCCcCCCceEECCCCCCchhHHHHHhCC
Confidence 488887653 56699999 78899998753
No 75
>PTZ00171 acyl carrier protein; Provisional
Probab=28.03 E-value=86 Score=27.95 Aligned_cols=58 Identities=19% Similarity=0.208 Sum_probs=49.8
Q ss_pred cCCHHHHHHHHHHHHHHcCCCCCCCCccccchhhhhhhCCceechHhHHHHHHhcccCCC
Q 039867 222 KLSKQVVAIIIREYCKENNLFHPDKKEICCDAKLQALLGRKSVEKRKLCELLTIHFAENL 281 (332)
Q Consensus 222 ~lSR~dVvk~lW~YIK~nnLqDP~~r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~~n~ 281 (332)
.|++.+|...|.++|.+.-=-+| ..|..|..|..-+|-+++.+.+|.-.|+.+|--..
T Consensus 65 ~~~~~~v~~~l~eiiae~l~vd~--~~I~~ds~~~~dLg~DSLd~veLv~~LEdeFgI~I 122 (148)
T PTZ00171 65 LLSKEDVLTRVKKVVKNFEKVDA--SKITPESNFVKDLGADSLDVVELLIAIEQEFNLTI 122 (148)
T ss_pred ccCHHHHHHHHHHHHHHHhCCCH--hhCCCCcchhhhcCCCHHHHHHHHHHHHHHHCCcc
Confidence 48899999999999998842222 56888999999999999999999999999998776
No 76
>COG0723 QcrA Rieske Fe-S protein [Energy production and conversion]
Probab=27.81 E-value=34 Score=30.44 Aligned_cols=23 Identities=9% Similarity=-0.200 Sum_probs=17.6
Q ss_pred hhhcccCCCC--CCCCCeeecCccc
Q 039867 25 FRMKLTGLVH--FSYEAYRSYLHIC 47 (332)
Q Consensus 25 yH~~C~~~~~--~s~~~W~C~wH~C 47 (332)
=|+=|.-... ...+.|.||.|-.
T Consensus 109 tHlGC~~~~~~~~~~~~~~CPCHGS 133 (177)
T COG0723 109 THLGCTVPWNNAGAEGGFFCPCHGS 133 (177)
T ss_pred cCCCCccCcccCCCCCeEEccCCCC
Confidence 3777766665 6789999999965
No 77
>PF09947 DUF2180: Uncharacterized protein conserved in archaea (DUF2180); InterPro: IPR017211 This group represents a predicted zinc finger protein, AF1427 type.
Probab=26.02 E-value=31 Score=27.42 Aligned_cols=46 Identities=28% Similarity=0.676 Sum_probs=31.5
Q ss_pred ccccc---CCC--CccceecCCCCCccccccCceeEEeeC-------------Ccccchhhhhh
Q 039867 46 ICFKC---DKA--PKFYCLCCPSAICGPCLYEAEFAVVKG-------------DKGLCDECLEL 91 (332)
Q Consensus 46 ~C~~C---~k~--s~~~C~~CP~S~Ck~C~~~a~f~~vr~-------------~kGfC~~C~~~ 91 (332)
.|+.| |+. |.--|..|..++|.+|+..-++..-.+ .+.+|..|+.-
T Consensus 2 kCY~Ca~~gkdt~AVavCivCG~GlC~~H~~~e~~~~~~g~yp~~~~~~~~~l~RilC~~C~~a 65 (68)
T PF09947_consen 2 KCYDCAEEGKDTDAVAVCIVCGAGLCMDHSKREEIPVWEGGYPFPSKKLKKPLPRILCPECHAA 65 (68)
T ss_pred cchhhhhcCCCccceehHHhcCchhhHHHHhhhheeeeccCCCCccccccCCCCeeecHHHHHH
Confidence 46777 332 566699999999999998644322111 36889999864
No 78
>PF13842 Tnp_zf-ribbon_2: DDE_Tnp_1-like zinc-ribbon
Probab=25.43 E-value=38 Score=22.76 Aligned_cols=23 Identities=26% Similarity=0.769 Sum_probs=16.8
Q ss_pred ccccCCC-----CccceecCCCCCcccc
Q 039867 47 CFKCDKA-----PKFYCLCCPSAICGPC 69 (332)
Q Consensus 47 C~~C~k~-----s~~~C~~CP~S~Ck~C 69 (332)
|-+|.+. ..|+|..|+..+|.++
T Consensus 3 C~vC~~~k~rk~T~~~C~~C~v~lC~~~ 30 (32)
T PF13842_consen 3 CKVCSKKKRRKDTRYMCSKCDVPLCVEP 30 (32)
T ss_pred CeECCcCCccceeEEEccCCCCcccCCC
Confidence 5556433 7889999998888763
No 79
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=24.92 E-value=54 Score=36.65 Aligned_cols=33 Identities=3% Similarity=-0.056 Sum_probs=27.5
Q ss_pred cceecccCCCCCchhhhhcccCCCCCCCCCeeecC
Q 039867 10 QHIKFNMSSYNSLYAFRMKLTGLVHFSYEAYRSYL 44 (332)
Q Consensus 10 ~~~~~~cd~~~C~KayH~~C~~~~~~s~~~W~C~w 44 (332)
.|--.-||+ |--.-|..|-|+..-|.|.|-|-|
T Consensus 285 ~neMVfCd~--Cn~cVHqaCyGIle~p~gpWlCr~ 317 (893)
T KOG0954|consen 285 ANEMVFCDK--CNICVHQACYGILEVPEGPWLCRT 317 (893)
T ss_pred cceeEEecc--chhHHHHhhhceeecCCCCeeehh
Confidence 455566774 888899999999999999999876
No 80
>PF10723 RepB-RCR_reg: Replication regulatory protein RepB; InterPro: IPR019661 This family of proteins regulates the replication of rolling circle replication (RCR) plasmids that have a double-strand replication origin (dso). Regulation of the replication of the RCR plasmids occurs mainly at the initiation of leading strand synthesis at the dso, such that concentration of Rep protein controls plasmid replication []. ; PDB: 2KEL_B.
Probab=24.85 E-value=40 Score=27.41 Aligned_cols=43 Identities=14% Similarity=0.114 Sum_probs=27.6
Q ss_pred ccCcccccccCcHHHHHHHHHhCCCcCccCCHHHHHHHHH-HHHHH
Q 039867 194 KSSRKEFIGWGSKSLLEFLVSIGKDTTRKLSKQVVAIIIR-EYCKE 238 (332)
Q Consensus 194 k~k~~~~~~w~S~eL~eFL~~iG~d~t~~lSR~dVvk~lW-~YIK~ 238 (332)
+...++..-|++++|.+-|..|.... -+|+.+++..|. +|+..
T Consensus 38 r~t~k~i~v~I~~~~K~~L~~lc~~~--GlTQae~IE~LI~~~~~~ 81 (84)
T PF10723_consen 38 RETHKRINVFIPNELKERLEELCKEQ--GLTQAEMIERLIKSELQQ 81 (84)
T ss_dssp ---EEEEEEEEEHHHHHHHHHHHHHS-----HHHHHHHHHHHHHHH
T ss_pred HhhcCeeEEEECHHHHHHHHHHHHHc--CCcHHHHHHHHHHHHHHH
Confidence 33455777899999999888776554 499999987654 44443
No 81
>PLN02400 cellulose synthase
Probab=24.62 E-value=48 Score=38.29 Aligned_cols=68 Identities=25% Similarity=0.540 Sum_probs=45.9
Q ss_pred ecCccccccCCC------C-cc-ceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCCCCccCCCCCCCC
Q 039867 42 SYLHICFKCDKA------P-KF-YCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDVDPNQCKNDFSDP 113 (332)
Q Consensus 42 C~wH~C~~C~k~------s-~~-~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ds~~~~VDF~D~ 113 (332)
-.-+.|-+||.. + .| -|..|..-+|..|. ||-- +++--.|..|..-..-.-....+.-|.+..|+||-
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCaFPVCRpCY---EYER-keGnq~CPQCkTrYkR~KgsprV~GDeeedd~DDl 109 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECAFPVCRPCY---EYER-KDGTQCCPQCKTRYRRHKGSPRVEGDEDEDDVDDL 109 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCCCccccchh---heec-ccCCccCcccCCccccccCCCCCCcccccccchhh
Confidence 345689999876 2 23 39999999999999 4554 66777888897766655444444333345555555
No 82
>PTZ00303 phosphatidylinositol kinase; Provisional
Probab=23.77 E-value=58 Score=36.96 Aligned_cols=55 Identities=24% Similarity=0.597 Sum_probs=36.8
Q ss_pred CCeeec---CccccccCCCC----------ccceecCCCCCccccccCc---eeEEe--eC------Ccccchhhhhhh
Q 039867 38 EAYRSY---LHICFKCDKAP----------KFYCLCCPSAICGPCLYEA---EFAVV--KG------DKGLCDECLELV 92 (332)
Q Consensus 38 ~~W~C~---wH~C~~C~k~s----------~~~C~~CP~S~Ck~C~~~a---~f~~v--r~------~kGfC~~C~~~~ 92 (332)
..|.=. -+.|..|++.= ..+|+.|...||..|-... .|..| .+ -.--|..|++-.
T Consensus 451 PvWqpDDEaSdtC~~C~kkFfSlsK~L~~RKHHCRkCGrVFC~~CSSnRs~yp~aKLpKPgsseE~ppRRVCD~CYdq~ 529 (1374)
T PTZ00303 451 PSWQKDDESSDSCPSCGRAFISLSRPLGTRAHHCRSCGIRLCVFCITKRAHYSFAKLAKPGSSDEAEERLVCDTCYKEY 529 (1374)
T ss_pred CCCCCCcccCCcccCcCCcccccccccccccccccCCccccCccccCCcccCcccccCCCCCcccccccchhHHHHHHH
Confidence 467642 46799998774 4569999999999999753 23322 11 124788888544
No 83
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=23.12 E-value=39 Score=39.37 Aligned_cols=42 Identities=7% Similarity=0.037 Sum_probs=32.7
Q ss_pred CCCchhhhhcccCC--CCCCCCCeeecCccccccCCCCccceecCC
Q 039867 19 YNSLYAFRMKLTGL--VHFSYEAYRSYLHICFKCDKAPKFYCLCCP 62 (332)
Q Consensus 19 ~~C~KayH~~C~~~--~~~s~~~W~C~wH~C~~C~k~s~~~C~~CP 62 (332)
.+||.+||+.|+-- +-.+..-|+|. .|.+|+.++...|..=|
T Consensus 360 Et~prvvhlEcv~hP~~~~~s~~~e~e--vc~~hkvngvvd~vl~~ 403 (1414)
T KOG1473|consen 360 ETCPRVVHLECVFHPRFAVPSAFWECE--VCNIHKVNGVVDCVLPP 403 (1414)
T ss_pred ccCCceEEeeecCCccccCCCccchhh--hhhhhccCcccccccCh
Confidence 58999999999876 44556889997 58888888777775544
No 84
>PF04236 Transp_Tc5_C: Tc5 transposase C-terminal domain; InterPro: IPR007350 This domain corresponds to a C-terminal cysteine rich region that probably binds to a metal ion and could be DNA-binding. It is found in association with the DDE superfamily (IPR004875 from INTERPRO) and the Tc5 transposase family (IPR004906 from INTERPRO). More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=23.03 E-value=47 Score=25.81 Aligned_cols=27 Identities=19% Similarity=0.503 Sum_probs=22.7
Q ss_pred Cccccc--cCCCCccceecCCCCCccccc
Q 039867 44 LHICFK--CDKAPKFYCLCCPSAICGPCL 70 (332)
Q Consensus 44 wH~C~~--C~k~s~~~C~~CP~S~Ck~C~ 70 (332)
-..|.+ |+..|-.+|..|-+++|..|.
T Consensus 27 ~~~C~~~gC~~~s~I~C~~Ckk~~Cf~Hf 55 (63)
T PF04236_consen 27 AGDCDITGCNNTSFIRCAYCKKSLCFNHF 55 (63)
T ss_pred cCcCCCCCCCCcCEEEccccCCcccccce
Confidence 345667 999999999999999998875
No 85
>PLN02720 complex II
Probab=22.87 E-value=41 Score=30.06 Aligned_cols=48 Identities=23% Similarity=0.157 Sum_probs=34.2
Q ss_pred chhHHHHHHHHhhhcCCChHHHHHhhhhhccCCCC--CCCCCCccccCCC
Q 039867 117 EFFFYDYWRIIKKKECLTSEEVIAASNLLKRGENY--KFASDSDEYDIGK 164 (332)
Q Consensus 117 E~LFK~YW~~iK~ke~Lt~~el~~A~~~~k~~~~~--~~~sd~~~~~~~d 164 (332)
|..|+..|+.+|+--+-.+.-|..=+...++.+.. -+++|.++|+++|
T Consensus 3 ~~~~~~~w~g~K~~w~e~fs~l~~y~~~~~rdkPLP~Ws~sDVeeFIaSD 52 (140)
T PLN02720 3 ESFFKKHWEGLKDFWRDRFSFLENYARFSKRDKPLPPWSDSDVDEFIASD 52 (140)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCchhhHHHHHhcC
Confidence 55688889999887776677776666666554433 3457778899987
No 86
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=22.30 E-value=32 Score=31.84 Aligned_cols=26 Identities=38% Similarity=0.887 Sum_probs=22.3
Q ss_pred cccc-------CCCCccceecCCCCCccccccC
Q 039867 47 CFKC-------DKAPKFYCLCCPSAICGPCLYE 72 (332)
Q Consensus 47 C~~C-------~k~s~~~C~~CP~S~Ck~C~~~ 72 (332)
|+.| .++.+.+|.=|..||++.|++.
T Consensus 2 C~~C~~~g~~~~kG~Lv~CQGCs~sYHk~CLG~ 34 (175)
T PF15446_consen 2 CDTCGYEGDDRNKGPLVYCQGCSSSYHKACLGP 34 (175)
T ss_pred cccccCCCCCccCCCeEEcCccChHHHhhhcCC
Confidence 6777 4567889999999999999985
No 87
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=21.93 E-value=63 Score=30.32 Aligned_cols=36 Identities=6% Similarity=0.049 Sum_probs=18.4
Q ss_pred CCCchhhhhcccCCCCCCCCCeeecCc-cccccCCCCccc
Q 039867 19 YNSLYAFRMKLTGLVHFSYEAYRSYLH-ICFKCDKAPKFY 57 (332)
Q Consensus 19 ~~C~KayH~~C~~~~~~s~~~W~C~wH-~C~~C~k~s~~~ 57 (332)
++|| |--|.+-....--.=.|||- .|++||..+++.
T Consensus 74 ~DCP---~~iC~~C~~~~H~s~~C~~~~~C~~Cg~~GH~~ 110 (190)
T COG5082 74 RDCP---HSICYNCSWDGHRSNHCPKPKKCYNCGETGHLS 110 (190)
T ss_pred ccCC---hhHhhhcCCCCcccccCCcccccccccccCccc
Confidence 4555 45554442222223335665 666666666554
No 88
>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=21.66 E-value=40 Score=23.83 Aligned_cols=29 Identities=24% Similarity=0.528 Sum_probs=21.7
Q ss_pred ccccccCCC------CccceecCCCCCccccccCc
Q 039867 45 HICFKCDKA------PKFYCLCCPSAICGPCLYEA 73 (332)
Q Consensus 45 H~C~~C~k~------s~~~C~~CP~S~Ck~C~~~a 73 (332)
-.|+.|++. .-++|..|...+.++|+..+
T Consensus 12 ~~C~~C~~~i~g~~~~g~~C~~C~~~~H~~C~~~~ 46 (53)
T PF00130_consen 12 TYCDVCGKFIWGLGKQGYRCSWCGLVCHKKCLSKV 46 (53)
T ss_dssp EB-TTSSSBECSSSSCEEEETTTT-EEETTGGCTS
T ss_pred CCCcccCcccCCCCCCeEEECCCCChHhhhhhhhc
Confidence 368888765 36779999999999998864
No 89
>PF05643 DUF799: Putative bacterial lipoprotein (DUF799); InterPro: IPR008517 This family consists of several bacterial proteins of unknown function. Some of the family members are described as putative lipoproteins.
Probab=21.63 E-value=78 Score=30.17 Aligned_cols=47 Identities=23% Similarity=0.258 Sum_probs=35.6
Q ss_pred HHHHHHHHcCCCCCCC-CccccchhhhhhhCCceechHhHHHHHHhccc
Q 039867 231 IIREYCKENNLFHPDK-KEICCDAKLQALLGRKSVEKRKLCELLTIHFA 278 (332)
Q Consensus 231 ~lW~YIK~nnLqDP~~-r~IiCDekLk~LFgk~~V~~~~m~kLL~~H~~ 278 (332)
.+-+-+|+|||.||++ +.+ .=.+|+.+||-|-|=+-.|.++=.....
T Consensus 76 ~vde~fkqnGlt~~~~i~~v-~~~kL~eiFGADAvLY~~I~~ygt~Y~v 123 (215)
T PF05643_consen 76 LVDETFKQNGLTDAEDIHAV-PPAKLREIFGADAVLYITIKEYGTSYQV 123 (215)
T ss_pred HHHHHHHHcCCCCHHHhccC-CHHHHHHHhCCCEEEEEEEEECCcEEEE
Confidence 4555678999999999 655 4789999999998877776665444433
No 90
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=21.60 E-value=37 Score=33.62 Aligned_cols=45 Identities=24% Similarity=0.641 Sum_probs=38.6
Q ss_pred CccccccCCCCccceecCCCCCccccccCceeEEeeCCcccchhh
Q 039867 44 LHICFKCDKAPKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDEC 88 (332)
Q Consensus 44 wH~C~~C~k~s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C 88 (332)
-..|..|.+-..+.|++|-..||-.|+..--|...++.-.-|.-|
T Consensus 171 ~~KC~SCNrlGq~sCLRCK~cfCddHvrrKg~ky~k~k~~PCPKC 215 (314)
T PF06524_consen 171 TFKCQSCNRLGQYSCLRCKICFCDDHVRRKGFKYEKGKPIPCPKC 215 (314)
T ss_pred cccccccccccchhhhheeeeehhhhhhhcccccccCCCCCCCCC
Confidence 345788899999999999999999999987788888877777776
No 91
>KOG3556 consensus Familial cylindromatosis protein [General function prediction only]
Probab=20.80 E-value=50 Score=35.72 Aligned_cols=57 Identities=18% Similarity=0.296 Sum_probs=38.9
Q ss_pred CCCeeecCccccccCCCCccceecCCCCCccccccCceeEEeeCCcccchhhhhhhhhhccccCC
Q 039867 37 YEAYRSYLHICFKCDKAPKFYCLCCPSAICGPCLYEAEFAVVKGDKGLCDECLELVLRKEEKKDV 101 (332)
Q Consensus 37 ~~~W~C~wH~C~~C~k~s~~~C~~CP~S~Ck~C~~~a~f~~vr~~kGfC~~C~~~~~lIE~~~~~ 101 (332)
.+.-+=.--+|.+||+-+-|-|..||.|. .-.+-.+.+-||.+|....-++=+...+
T Consensus 551 td~~e~~prQcsicg~la~yecr~c~~sp--------~~~sgle~~~fc~~c~~qfh~h~kr~~V 607 (724)
T KOG3556|consen 551 TDRHEVNPRQCSICGLLAPYECRYCPPSP--------PRASGLEIKQFCKTCNTQFHLHPKRNPV 607 (724)
T ss_pred cccccCCcceeeecccCCCCCCccCCCCc--------ccccchhHhhhhhHHHHHHhhhcccCcc
Confidence 34444455689999999999999998742 1122234567888888887777665444
No 92
>PF05928 Zea_mays_MuDR: Zea mays MURB-like protein (MuDR); InterPro: IPR009227 This family consists of several Zea mays (Maize) specific MURB-like proteins. The transposition of Mu elements underlying Mutator activity in maize requires a transcriptionally active MuDR element. Despite variation in MuDR copy number and RNA levels in Mutator lines, transposition events are consistently late in plant development, and Mu excision frequencies are similar [].
Probab=20.74 E-value=33 Score=31.89 Aligned_cols=23 Identities=30% Similarity=0.488 Sum_probs=19.9
Q ss_pred CCCCccchhHHHH-HHHHhhhcCC
Q 039867 111 SDPSTKEFFFYDY-WRIIKKKECL 133 (332)
Q Consensus 111 ~D~~t~E~LFK~Y-W~~iK~ke~L 133 (332)
.|++-||-.|.++ |+-+|..-+|
T Consensus 165 edpelwemvfed~kwee~k~~vs~ 188 (207)
T PF05928_consen 165 EDPELWEMVFEDMKWEENKVNVSF 188 (207)
T ss_pred CCHHHHHHHHHhhhHHHHHhhhhH
Confidence 5788999999999 9999987664
No 93
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=20.72 E-value=63 Score=35.27 Aligned_cols=21 Identities=33% Similarity=0.615 Sum_probs=11.5
Q ss_pred CccccccCceeEEeeCCcccchhhhh
Q 039867 65 ICGPCLYEAEFAVVKGDKGLCDECLE 90 (332)
Q Consensus 65 ~Ck~C~~~a~f~~vr~~kGfC~~C~~ 90 (332)
.|+.|-.. +..+-.||..|-.
T Consensus 29 ~Cp~CG~~-----~~~~~~fC~~CG~ 49 (645)
T PRK14559 29 PCPQCGTE-----VPVDEAHCPNCGA 49 (645)
T ss_pred cCCCCCCC-----CCcccccccccCC
Confidence 35555444 3445567777743
No 94
>COG5082 AIR1 Arginine methyltransferase-interacting protein, contains RING Zn-finger [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=20.69 E-value=47 Score=31.15 Aligned_cols=15 Identities=20% Similarity=0.375 Sum_probs=8.4
Q ss_pred EeeCCcccchhhhhh
Q 039867 77 VVKGDKGLCDECLEL 91 (332)
Q Consensus 77 ~vr~~kGfC~~C~~~ 91 (332)
+.+..+-+|..|..+
T Consensus 115 P~~~~~~~C~~C~s~ 129 (190)
T COG5082 115 PSKDQQKSCFDCNST 129 (190)
T ss_pred cccccCcceeccCCC
Confidence 334444477777655
No 95
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=20.65 E-value=53 Score=33.64 Aligned_cols=27 Identities=30% Similarity=0.761 Sum_probs=21.8
Q ss_pred cccccCCCCc----cceecCC-CCCccccccC
Q 039867 46 ICFKCDKAPK----FYCLCCP-SAICGPCLYE 72 (332)
Q Consensus 46 ~C~~C~k~s~----~~C~~CP-~S~Ck~C~~~ 72 (332)
.|+.|+|++. |.|+.|- +-+|..|...
T Consensus 10 ~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen 41 (381)
T KOG1280|consen 10 SCDGCGKTAFTFRRYKCLRCSDYDLCFSCYEN 41 (381)
T ss_pred eeccccccceeeeeeEeeeecchhHHHHHhhc
Confidence 5999999974 4577776 8999999884
No 96
>COG4855 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.08 E-value=33 Score=27.55 Aligned_cols=46 Identities=30% Similarity=0.691 Sum_probs=33.1
Q ss_pred cccc---CCC--CccceecCCCCCccccccCceeEEeeC-------------Ccccchhhhhhh
Q 039867 47 CFKC---DKA--PKFYCLCCPSAICGPCLYEAEFAVVKG-------------DKGLCDECLELV 92 (332)
Q Consensus 47 C~~C---~k~--s~~~C~~CP~S~Ck~C~~~a~f~~vr~-------------~kGfC~~C~~~~ 92 (332)
|++| ||. |.--|..|...+|.+|+-.-+|..-.+ -+.+|-.|++.+
T Consensus 10 CY~C~eeGKDtdAV~iCIVCG~GlC~EHli~eE~p~w~G~YP~p~k~~K~~lpRilC~~C~~a~ 73 (76)
T COG4855 10 CYDCAEEGKDTDAVGICIVCGMGLCMEHLIREETPMWGGGYPFPAKKLKKTLPRILCVECHEAI 73 (76)
T ss_pred HHHHHHhCCCcccEEEEEEeCchHHHHHHHhhhcccccCCCCCcchhhhccCCceeeHHHHHHh
Confidence 4445 444 455699999999999998877665333 267899998764
Done!