Query 001648
Match_columns 1038
No_of_seqs 301 out of 728
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 05:59:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001648.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001648hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5259 RSC8 RSC chromatin rem 100.0 1.4E-81 3.1E-86 693.1 29.7 291 128-431 31-334 (531)
2 KOG1279 Chromatin remodeling f 100.0 5.8E-81 1.3E-85 707.9 21.4 322 135-590 33-360 (506)
3 PF04433 SWIRM: SWIRM domain; 99.9 3.9E-26 8.5E-31 206.2 5.4 85 149-237 1-86 (86)
4 KOG0457 Histone acetyltransfer 99.9 2.4E-25 5.1E-30 247.6 9.2 121 317-438 12-135 (438)
5 COG5114 Histone acetyltransfer 99.8 8.2E-22 1.8E-26 212.1 6.8 116 318-434 4-122 (432)
6 cd02336 ZZ_RSC8 Zinc finger, Z 99.0 2.7E-10 5.8E-15 93.8 2.6 45 320-364 1-45 (45)
7 PF00249 Myb_DNA-binding: Myb- 98.9 1.6E-09 3.5E-14 88.6 5.5 44 377-420 2-47 (48)
8 PF13921 Myb_DNA-bind_6: Myb-l 98.7 3.1E-08 6.8E-13 83.8 5.7 41 379-419 1-41 (60)
9 smart00717 SANT SANT SWI3, AD 98.7 4.6E-08 1E-12 76.8 6.1 44 377-420 2-46 (49)
10 PLN03000 amine oxidase 98.6 3.2E-08 7E-13 121.4 6.2 82 154-240 87-171 (881)
11 cd00167 SANT 'SWI3, ADA2, N-Co 98.6 1.2E-07 2.7E-12 73.5 5.8 43 378-420 1-44 (45)
12 PLN02328 lysine-specific histo 98.5 8.2E-08 1.8E-12 117.4 5.7 87 154-244 138-226 (808)
13 cd02335 ZZ_ADA2 Zinc finger, Z 98.4 2.1E-07 4.5E-12 77.6 3.7 47 320-366 1-49 (49)
14 cd02249 ZZ Zinc finger, ZZ typ 98.2 1.2E-06 2.5E-11 72.0 3.3 46 320-366 1-46 (46)
15 cd02345 ZZ_dah Zinc finger, ZZ 98.0 3.5E-06 7.6E-11 70.5 2.6 45 320-364 1-47 (49)
16 cd02340 ZZ_NBR1_like Zinc fing 98.0 4.7E-06 1E-10 68.1 3.2 42 321-366 2-43 (43)
17 cd02341 ZZ_ZZZ3 Zinc finger, Z 98.0 4.7E-06 1E-10 69.8 3.1 45 320-366 1-48 (48)
18 cd02338 ZZ_PCMF_like Zinc fing 98.0 4.8E-06 1E-10 69.6 3.1 45 321-365 2-48 (49)
19 PLN02529 lysine-specific histo 98.0 6.9E-06 1.5E-10 100.3 5.6 84 156-244 65-151 (738)
20 cd02343 ZZ_EF Zinc finger, ZZ 97.9 5.7E-06 1.2E-10 69.5 2.6 44 320-363 1-45 (48)
21 smart00291 ZnF_ZZ Zinc-binding 97.9 1.1E-05 2.3E-10 65.9 3.2 39 318-356 3-41 (44)
22 cd02334 ZZ_dystrophin Zinc fin 97.9 9.9E-06 2.2E-10 68.1 3.0 44 321-364 2-47 (49)
23 PLN03212 Transcription repress 97.8 2.2E-05 4.7E-10 84.8 5.6 45 376-420 25-71 (249)
24 TIGR01557 myb_SHAQKYF myb-like 97.8 2.9E-05 6.2E-10 67.2 5.1 45 377-421 4-54 (57)
25 cd02344 ZZ_HERC2 Zinc finger, 97.7 3.5E-05 7.7E-10 63.9 3.2 43 321-366 2-45 (45)
26 PF00569 ZZ: Zinc finger, ZZ t 97.6 1.4E-05 2.9E-10 66.0 -0.0 37 319-355 4-41 (46)
27 PLN03091 hypothetical protein; 97.6 8.8E-05 1.9E-09 85.4 5.7 45 376-420 14-60 (459)
28 cd02339 ZZ_Mind_bomb Zinc fing 97.5 7.4E-05 1.6E-09 61.9 3.3 43 320-365 1-44 (45)
29 PLN03212 Transcription repress 97.4 0.00022 4.7E-09 77.3 5.3 47 374-420 76-122 (249)
30 cd02337 ZZ_CBP Zinc finger, ZZ 97.3 0.00012 2.5E-09 59.7 2.3 36 320-356 1-36 (41)
31 KOG0048 Transcription factor, 97.2 0.0004 8.7E-09 74.5 4.6 45 376-420 9-55 (238)
32 PLN03091 hypothetical protein; 97.0 0.00098 2.1E-08 77.1 5.9 46 375-420 66-111 (459)
33 cd02342 ZZ_UBA_plant Zinc fing 97.0 0.00041 8.8E-09 57.3 2.0 33 320-352 1-34 (43)
34 PLN02976 amine oxidase 96.4 0.0023 5E-08 83.0 4.2 80 158-240 455-540 (1713)
35 KOG4582 Uncharacterized conser 96.3 0.0023 5E-08 70.7 2.4 44 320-366 153-197 (278)
36 KOG0048 Transcription factor, 96.2 0.0077 1.7E-07 64.8 5.8 44 374-417 60-103 (238)
37 KOG0049 Transcription factor, 95.9 0.0086 1.9E-07 71.7 5.2 47 373-419 357-404 (939)
38 KOG1280 Uncharacterized conser 95.6 0.0057 1.2E-07 69.1 1.9 45 319-363 8-54 (381)
39 KOG4286 Dystrophin-like protei 95.0 0.0087 1.9E-07 72.7 0.9 42 320-361 604-647 (966)
40 KOG0049 Transcription factor, 94.8 0.026 5.6E-07 67.9 4.1 45 376-420 412-460 (939)
41 PF13837 Myb_DNA-bind_4: Myb/S 94.7 0.027 5.8E-07 50.8 3.2 44 377-420 2-63 (90)
42 KOG0051 RNA polymerase I termi 90.3 0.33 7.1E-06 59.0 4.9 45 375-420 383-427 (607)
43 KOG0051 RNA polymerase I termi 89.5 0.31 6.8E-06 59.1 3.9 53 376-428 436-514 (607)
44 KOG4167 Predicted DNA-binding 89.0 0.58 1.3E-05 57.6 5.6 54 376-429 619-676 (907)
45 COG5118 BDP1 Transcription ini 88.0 0.71 1.5E-05 53.3 5.1 44 376-419 365-408 (507)
46 KOG4301 Beta-dystrobrevin [Cyt 86.2 0.52 1.1E-05 53.9 2.8 38 318-355 239-277 (434)
47 KOG4282 Transcription factor G 84.4 1.1 2.5E-05 50.5 4.5 45 377-421 55-113 (345)
48 KOG0050 mRNA splicing protein 84.1 0.98 2.1E-05 54.0 3.9 44 376-419 7-51 (617)
49 PF13873 Myb_DNA-bind_5: Myb/S 82.0 2.2 4.8E-05 38.1 4.5 44 377-420 3-68 (78)
50 KOG4468 Polycomb-group transcr 78.3 1.9 4.1E-05 52.4 3.6 45 376-420 88-142 (782)
51 KOG4329 DNA-binding protein [G 77.5 3.3 7.1E-05 48.1 5.0 48 377-424 278-326 (445)
52 PF15324 TALPID3: Hedgehog sig 77.5 11 0.00024 48.7 9.9 89 876-965 60-166 (1252)
53 KOG0050 mRNA splicing protein 76.2 2.3 5E-05 51.0 3.5 45 375-420 58-102 (617)
54 KOG0703 Predicted GTPase-activ 73.4 5 0.00011 45.4 5.1 103 307-429 16-126 (287)
55 TIGR02894 DNA_bind_RsfA transc 72.7 3.5 7.6E-05 43.1 3.4 44 376-420 4-54 (161)
56 KOG1279 Chromatin remodeling f 70.6 3 6.5E-05 50.3 2.8 81 881-962 426-506 (506)
57 COG5147 REB1 Myb superfamily p 66.8 5.2 0.00011 48.4 3.7 46 375-420 71-116 (512)
58 PF04504 DUF573: Protein of un 66.0 8.2 0.00018 37.1 4.2 45 376-420 4-61 (98)
59 KOG1924 RhoA GTPase effector D 65.3 1.2E+02 0.0026 39.0 14.5 14 342-355 212-225 (1102)
60 PF07649 C1_3: C1-like domain; 59.8 4.1 8.9E-05 31.0 0.8 27 321-348 2-29 (30)
61 COG5147 REB1 Myb superfamily p 59.7 5.5 0.00012 48.2 2.2 42 376-417 20-62 (512)
62 PRK00409 recombination and DNA 59.7 43 0.00094 42.7 9.9 78 879-957 489-567 (782)
63 PF09862 DUF2089: Protein of u 57.9 16 0.00034 36.5 4.6 60 322-406 1-60 (113)
64 TIGR01069 mutS2 MutS2 family p 54.9 61 0.0013 41.4 10.1 78 879-957 484-562 (771)
65 KOG1194 Predicted DNA-binding 52.9 22 0.00047 42.7 5.4 45 376-420 187-231 (534)
66 PF03107 C1_2: C1 domain; Int 52.8 11 0.00024 28.8 2.1 28 320-348 1-29 (30)
67 KOG4083 Head-elevated expressi 52.7 11 0.00024 40.3 2.8 108 56-206 53-167 (192)
68 PF12776 Myb_DNA-bind_3: Myb/S 52.6 20 0.00044 32.8 4.2 43 378-420 1-61 (96)
69 PF09111 SLIDE: SLIDE; InterP 52.0 24 0.00052 35.3 4.8 43 376-418 49-107 (118)
70 PLN03142 Probable chromatin-re 50.4 22 0.00047 46.6 5.4 40 377-416 825-865 (1033)
71 KOG3554 Histone deacetylase co 48.0 15 0.00033 44.0 3.2 52 377-428 286-338 (693)
72 smart00307 ILWEQ I/LWEQ domain 46.3 90 0.002 34.0 8.4 73 877-951 118-197 (200)
73 PF15346 ARGLU: Arginine and g 45.8 3.7E+02 0.0081 28.3 12.3 82 881-962 20-111 (149)
74 COG5347 GTPase-activating prot 44.9 18 0.0004 41.6 3.2 98 319-429 20-125 (319)
75 PRK13923 putative spore coat p 41.2 28 0.0006 37.0 3.5 41 376-417 5-52 (170)
76 PLN03162 golden-2 like transcr 41.1 54 0.0012 38.7 6.0 22 976-997 326-347 (526)
77 KOG1194 Predicted DNA-binding 40.3 15 0.00032 44.0 1.5 43 376-419 470-512 (534)
78 KOG3647 Predicted coiled-coil 39.1 1.1E+02 0.0024 34.9 7.8 61 889-951 93-157 (338)
79 smart00345 HTH_GNTR helix_turn 39.1 26 0.00057 28.6 2.5 51 187-238 2-53 (60)
80 cd00090 HTH_ARSR Arsenical Res 38.9 49 0.0011 27.4 4.1 44 193-239 11-54 (78)
81 PF09339 HTH_IclR: IclR helix- 38.6 42 0.00091 28.1 3.6 45 193-238 7-51 (52)
82 PF05928 Zea_mays_MuDR: Zea ma 38.2 2.6E+02 0.0056 30.0 9.8 72 879-951 11-90 (207)
83 KOG0493 Transcription factor E 36.6 59 0.0013 36.9 5.3 54 1-67 1-54 (342)
84 PF12802 MarR_2: MarR family; 35.9 61 0.0013 27.2 4.3 43 199-241 15-57 (62)
85 cd04779 HTH_MerR-like_sg4 Heli 35.8 2.3E+02 0.005 28.8 9.0 78 879-960 47-129 (134)
86 PF02954 HTH_8: Bacterial regu 35.8 48 0.001 26.9 3.4 26 382-407 5-30 (42)
87 PLN03131 hypothetical protein; 35.5 48 0.001 41.4 4.7 93 320-429 24-124 (705)
88 PF01022 HTH_5: Bacterial regu 35.0 78 0.0017 26.1 4.6 45 190-237 3-47 (47)
89 PLN03119 putative ADP-ribosyla 34.1 52 0.0011 40.7 4.7 94 320-429 24-124 (648)
90 PF09849 DUF2076: Uncharacteri 34.0 62 0.0014 36.2 5.0 15 913-927 51-65 (247)
91 KOG1924 RhoA GTPase effector D 33.5 74 0.0016 40.8 5.9 8 919-926 497-504 (1102)
92 smart00595 MADF subfamily of S 33.0 36 0.00079 30.8 2.6 23 397-420 29-51 (89)
93 PF01475 FUR: Ferric uptake re 32.8 52 0.0011 31.6 3.8 50 188-238 7-61 (120)
94 KOG4661 Hsp27-ERE-TATA-binding 31.7 1.7E+02 0.0037 36.5 8.3 17 936-952 651-667 (940)
95 KOG0706 Predicted GTPase-activ 31.2 92 0.002 37.6 6.0 81 318-417 22-105 (454)
96 smart00105 ArfGap Putative GTP 30.3 43 0.00093 32.6 2.7 84 320-420 4-97 (112)
97 PF07956 DUF1690: Protein of U 29.1 1.3E+02 0.0028 31.1 6.0 58 894-951 59-117 (142)
98 PF04102 SlyX: SlyX; InterPro 27.4 3.1E+02 0.0068 24.8 7.5 44 915-963 2-49 (69)
99 PF13404 HTH_AsnC-type: AsnC-t 26.6 1.5E+02 0.0032 24.6 4.8 37 383-420 4-41 (42)
100 KOG3915 Transcription regulato 25.9 5.4E+02 0.012 31.7 10.9 43 875-931 498-540 (641)
101 PLN03142 Probable chromatin-re 25.9 1E+02 0.0023 40.7 5.8 46 375-420 925-983 (1033)
102 COG2916 Hns DNA-binding protei 25.9 2.7E+02 0.006 28.6 7.5 50 906-959 4-53 (128)
103 PF12674 Zn_ribbon_2: Putative 25.5 34 0.00074 32.1 1.1 35 321-355 2-39 (81)
104 PRK14139 heat shock protein Gr 25.4 97 0.0021 33.3 4.5 22 926-947 56-77 (185)
105 KOG1778 CREB binding protein/P 25.4 40 0.00086 39.0 1.8 38 316-354 166-203 (319)
106 PF14569 zf-UDP: Zinc-binding 25.0 29 0.00063 32.8 0.5 31 319-350 9-44 (80)
107 PHA00442 host recBCD nuclease 24.8 68 0.0015 28.7 2.6 24 382-405 26-50 (59)
108 COG5114 Histone acetyltransfer 24.5 76 0.0016 36.9 3.7 54 182-236 376-429 (432)
109 PF08914 Myb_DNA-bind_2: Rap1 24.5 1.2E+02 0.0026 27.5 4.3 43 377-419 3-55 (65)
110 PRK09462 fur ferric uptake reg 23.7 84 0.0018 31.6 3.5 49 190-238 18-71 (148)
111 PF13463 HTH_27: Winged helix 23.4 1.5E+02 0.0032 25.3 4.5 51 191-241 4-54 (68)
112 smart00346 HTH_ICLR helix_turn 23.0 1.1E+02 0.0023 27.6 3.7 44 194-238 10-53 (91)
113 PF13412 HTH_24: Winged helix- 22.9 1.6E+02 0.0035 23.9 4.4 44 190-235 4-47 (48)
114 COG1725 Predicted transcriptio 22.8 1.5E+02 0.0032 30.3 5.0 54 185-238 11-68 (125)
115 cd07153 Fur_like Ferric uptake 22.4 1.1E+02 0.0023 29.0 3.8 47 191-238 3-54 (116)
116 KOG1356 Putative transcription 22.3 41 0.00089 43.1 1.2 37 315-352 225-261 (889)
117 KOG4479 Transcription factor e 22.0 1.2E+02 0.0025 29.3 3.7 44 185-232 36-89 (92)
118 PHA02666 hypothetical protein; 21.7 68 0.0015 35.4 2.6 25 59-84 88-113 (287)
119 smart00550 Zalpha Z-DNA-bindin 20.9 1.7E+02 0.0037 26.1 4.5 50 190-239 7-56 (68)
120 PF14471 DUF4428: Domain of un 20.8 33 0.00072 29.6 0.0 29 321-352 1-30 (51)
121 PF00392 GntR: Bacterial regul 20.7 2.3E+02 0.005 24.5 5.2 53 185-238 4-57 (64)
122 PF06034 DUF919: Nucleopolyhed 20.6 2.4E+02 0.0051 25.8 5.2 44 915-959 13-56 (62)
123 KOG0477 DNA replication licens 20.6 74 0.0016 40.1 2.8 77 318-395 291-373 (854)
124 PF07795 DUF1635: Protein of u 20.1 9.8E+02 0.021 26.7 10.8 46 916-961 25-70 (214)
125 PLN02638 cellulose synthase A 20.1 49 0.0011 43.6 1.3 31 320-351 18-53 (1079)
No 1
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=100.00 E-value=1.4e-81 Score=693.12 Aligned_cols=291 Identities=30% Similarity=0.556 Sum_probs=226.3
Q ss_pred HHHHHhHHHHHHHHhhcCCceEecCCCCCCCCCCCCCHHHHHhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceee
Q 001648 128 AALEAKIEADFEAIRSRDSNVHVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIE 207 (1038)
Q Consensus 128 e~~~~~~~e~~~~~~s~qt~~iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT 207 (1038)
|.-...+..+++..+..|+|+||||+|+.||++.+||+||++..||||+||+++|||++|+.||||||+.||+||.+|||
T Consensus 31 e~~~~~l~~e~~~Fl~~Q~~piiiPs~a~WFd~SKiHeIE~~snPeFF~~rs~~KTP~vYk~YR~FminsyRL~p~eYLt 110 (531)
T COG5259 31 EKKTTILRVEAETFLMEQTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLT 110 (531)
T ss_pred ccccchhhhhhhhhhhccCCceeccchhhhccccccccccccCCchhhcCCCCCCCHHHHHHHHhhccceeecCCcceEE
Confidence 34445567778888889999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhcccccchHHHHHHHHhhhhhcccccCCCCCCCCCccCCCCCCCccccchHHHhhhhhhhhccccccccCCCCCCC
Q 001648 208 LKDLSELEVGSLDARQEVMEFLDYWGLINFHPFPHVESSVANSDGDRMTDADSDAAAKKGSLLEKLYRFEEIKAGPPVAP 287 (1038)
Q Consensus 208 ~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~~~P~~~~~~~~~~g~~~~~~~s~~~~~k~s~i~~L~~Fe~~qs~~P~~~ 287 (1038)
||+||||++||||+|.|||+||++|||||||++|.+.|... |+..+. ......+.++.|+.|.... |...
T Consensus 111 vTa~RRNvagDV~aivrvHrFLekWGLINYqvdp~trPs~I---gPplt~----h~q~l~dtP~gl~p~l~~~---~~~~ 180 (531)
T COG5259 111 VTACRRNVAGDVAAIVRVHRFLEKWGLINYQVDPGTRPSTI---GPPLTS----HFQDLHDTPRGLSPFLPWG---PINQ 180 (531)
T ss_pred eeeehhccchhHHHHHHHHHHHHHhcceeeccCCCCCcccc---CCCcch----hhHHHhhCccccccccCCC---Cccc
Confidence 99999999999999999999999999999999988776411 110100 1112223334444443211 1111
Q ss_pred CCCccCC---CCCCCCCCchhHHHHHHh--------hcCC--CccccCCCCCCCCCCCceeccCCCCCccccccccCCCC
Q 001648 288 MPSITFP---AVPSGLFPESAIAEELAK--------LEGP--AVEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKF 354 (1038)
Q Consensus 288 ~~~~~sp---~~~~~l~p~~~~~ed~~~--------~~~~--sv~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~f 354 (1038)
....... .+..+ ++.+...+.... ...+ ....+|..||+.|...|||.++..++++|..||..|+|
T Consensus 181 ~~~~a~~~e~~~~k~-~~~sps~~~~~k~s~~k~~el~~~~~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f 259 (531)
T COG5259 181 RVLGAKEIEYETHKE-ENYSPSLKSPKKESQGKVDELKDHSEKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRF 259 (531)
T ss_pred cccccchhhhhhhcc-CCCCchhhhhhhhcCCCccccccccccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcC
Confidence 1111000 00000 011111111111 0111 12379999999999999999988899999999999999
Q ss_pred CCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhCCcCCCCCCCCC
Q 001648 355 GSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQMPIEDMFLDCDD 431 (1038)
Q Consensus 355 p~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqLPIED~fLe~~d 431 (1038)
+....+.||..++..... .+..||.||++||||||++||++|++||.|||+||++|||+|||+|||+|.||...+
T Consensus 260 ~s~~~ssDf~~v~~~~~~--~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~k~~ 334 (531)
T COG5259 260 PSEFTSSDFKPVTISLLI--RDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSKGD 334 (531)
T ss_pred CCccccccchhhhhhccc--ccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhhccc
Confidence 999999999998765432 467999999999999999999999999999999999999999999999999998754
No 2
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=100.00 E-value=5.8e-81 Score=707.85 Aligned_cols=322 Identities=31% Similarity=0.578 Sum_probs=243.0
Q ss_pred HHHHHHHhhcCCceEecCCCCCCCCCCCCCHHHHHhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhcc
Q 001648 135 EADFEAIRSRDSNVHVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSEL 214 (1038)
Q Consensus 135 ~e~~~~~~s~qt~~iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~ 214 (1038)
....+...+.|+|.||||||++||+|++||.||++.+||||+||+++|||++|++||||||++||+||.+|||+|+|||+
T Consensus 33 ~~~~~~~~~~q~~~i~iPs~a~WFd~~~ih~iE~rs~pEFF~gks~sktPe~Y~~yRnfii~tyrlnp~~ylt~ta~rrn 112 (506)
T KOG1279|consen 33 HDAAKTVVSEQTHFIIIPSYAAWFDKSDIHDIERRSLPEFFNGKSKSKTPEVYMKYRNFIINTYRLNPQEYLTFTACRRN 112 (506)
T ss_pred hhhcccccccccceeecccHHhhcChhhhhhHHhccchhhhcCCCCCCCHHHHHHHHHhhhhhhccCcccchhHHHHHhc
Confidence 34555668899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccchHHHHHHHHhhhhhcccccCCCCCCCCCc---cCCCCCCCccccchHHHhhhhhhhhcccccccc--CCCCCCCCC
Q 001648 215 EVGSLDARQEVMEFLDYWGLINFHPFPHVESSV---ANSDGDRMTDADSDAAAKKGSLLEKLYRFEEIK--AGPPVAPMP 289 (1038)
Q Consensus 215 L~GDv~aI~RVh~FLE~WGLINy~~~P~~~~~~---~~~~g~~~~~~~s~~~~~k~s~i~~L~~Fe~~q--s~~P~~~~~ 289 (1038)
++||||+|+|||+|||+||||||++++...+.. +++.+...+. .....+..+.... +.++..
T Consensus 113 l~gDv~ai~Rvh~FlE~WGLINy~~d~e~rp~~~~p~~t~h~~~~~----------~tp~~~~~~~~~~~~~~~~~~--- 179 (506)
T KOG1279|consen 113 LAGDVCAIARVHAFLEQWGLINYQVDAESRPHPIEPPETSHFQVLA----------DTPRGLAPLTPEDPQSQPDLG--- 179 (506)
T ss_pred ccchHHHHHHHHhhHHhhcccccccChhhCCcccCCCccccccccc----------CCCcccccCCCCCcccccccc---
Confidence 999999999999999999999999998765541 1111110000 0011111111110 000000
Q ss_pred CccCCCCCCCCCC-chhHHHHHHhhcCCCccccCCCCCCCCCCCceeccCCCCCccccccccCCCCCCCCCCCCceeecC
Q 001648 290 SITFPAVPSGLFP-ESAIAEELAKLEGPAVEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILMVP 368 (1038)
Q Consensus 290 ~~~sp~~~~~l~p-~~~~~ed~~~~~~~sv~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~ie~ 368 (1038)
.+.+ ..++ ...+.....+........+|..|+.. ||+-.+...+.+|.+||..|+|+..+...||+.+..
T Consensus 180 ---~~~~--~~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~----~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df~~~~~ 250 (506)
T KOG1279|consen 180 ---NPRM--ETLSLESKIKSLHINAGEHLCAIHCFIKEDP----YYYDLTNRDVNLCADCYDQGEFPSEFKKSDFKVIGE 250 (506)
T ss_pred ---cccc--ccccccccccccccChHhhccccchhccccc----hhhhcchhhhhhhHHHHhcCCccCccccccchhccc
Confidence 0000 0000 00000011111122334566666544 566665567999999999999999999999954432
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhCCcCCCCCCCCCCCCCCCCCcCCCCCCCC
Q 001648 369 GEAAGVSGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQMPIEDMFLDCDDDVDGNLKETTDDAPTNG 448 (1038)
Q Consensus 369 ~e~~~~~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqLPIED~fLe~~d~~~~~~k~t~q~~as~~ 448 (1038)
..+..||++|++||||||++||+||++||.|||+||++|||+|||+|||+|+|+......
T Consensus 251 -----~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD~~l~~~~~~--------------- 310 (506)
T KOG1279|consen 251 -----SARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIEDPYLAKSEAS--------------- 310 (506)
T ss_pred -----cCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccchhhhhcccc---------------
Confidence 236899999999999999999999999999999999999999999999999999863210
Q ss_pred CCCCchhhhhhhhcccccccCCccCCCCCCCCCcccchhhhccCCCCCCCCCchhhhhhhcccccccCCccccccchhHH
Q 001648 449 DTSASKDVAEASESKTGAVEGQTQTSPMETSKPEDASELKICEDTSKPKDESDVKVDEQMLKSEDTSEGKVGQETGENIA 528 (1038)
Q Consensus 449 ~~s~~~d~~e~~e~k~~~~e~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~sk~~~~~~~~~~~e~g~n~a 528 (1038)
+
T Consensus 311 ---~---------------------------------------------------------------------------- 311 (506)
T KOG1279|consen 311 ---L---------------------------------------------------------------------------- 311 (506)
T ss_pred ---c----------------------------------------------------------------------------
Confidence 0
Q ss_pred HHHHHHHHHhcCCCCCCCCCccccccCChHHHHHHHHHhhcCchHHHHHHHHHHHHhhcCCh
Q 001648 529 LKALREAFEAVGYVPTHETPQSFAEVGNPVMALAAFLTLLGGPDLTTASARSSLKSISGNSP 590 (1038)
Q Consensus 529 ~~~l~~af~~~g~~p~~e~~~pFsdagNPVMa~VAFLAslVgP~VAaAAA~AAL~aLs~~~p 590 (1038)
+++.| ++++|++-|||||++++||+++|+|+|+..++++++..++...-
T Consensus 312 --------~~~~~-----~~~~~sq~gnpv~s~~~~l~~~vdP~~~~~~~k~~~~~~~~~~~ 360 (506)
T KOG1279|consen 312 --------GPLSY-----GPVPFSQDGNPVMSTVAFLASVVDPVVKSVAAKSAEEKFSKVNE 360 (506)
T ss_pred --------Ccccc-----CCCccccCCCccccHHHHHHhccCchhhhhhhcccchhhhhhhh
Confidence 11222 34899999999999999999999999999999999998887753
No 3
>PF04433 SWIRM: SWIRM domain; InterPro: IPR007526 The SWIRM domain is a small alpha-helical domain of about 85 amino acid residues found in eukaryotic chromosomal proteins. It is named after the proteins SWI3, RSC8 and MOIRA in which it was first recognised. This domain is predicted to mediate protein-protein interactions in the assembly of chromatin-protein complexes. The SWIRM domain can be linked to different domains, such as the ZZ-type zinc finger (IPR000433 from INTERPRO), the Myb DNA-binding domain (IPR001005 from INTERPRO), the HORMA domain (IPR003511 from INTERPRO), the amino-oxidase domain, the chromo domain (IPR000953 from INTERPRO), and the JAB1/PAD1 domain.; GO: 0005515 protein binding; PDB: 2Z3Y_A 2UXN_A 2Y48_A 2HKO_A 2XAF_A 2X0L_A 2XAJ_A 2UXX_A 2V1D_A 2L3D_A ....
Probab=99.92 E-value=3.9e-26 Score=206.21 Aligned_cols=85 Identities=38% Similarity=0.783 Sum_probs=78.3
Q ss_pred EecCCCCCCCCCCCCCHHHHHhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhccccc-chHHHHHHHH
Q 001648 149 HVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEVG-SLDARQEVME 227 (1038)
Q Consensus 149 iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~G-Dv~aI~RVh~ 227 (1038)
+++|.+++||+++.+|++|++.|||||.| ++|+.|+.|||.||..|+.||..|||+++||+.+.| |++.+.|||+
T Consensus 1 ~~~~~~~~~~~~~~l~~~E~~~~~e~~~~----~~p~~Yl~iRn~il~~w~~n~~~~lt~~~~~~~i~~~d~~~~~ri~~ 76 (86)
T PF04433_consen 1 VVIPAHSSWFDPDKLSEIEKQLCPEFFIG----KTPEQYLKIRNTILAEWRKNPNKYLTKTDARKLIKGIDVNKIRRIYD 76 (86)
T ss_dssp -HCHCCHTTTTTTSS-HHHHHHCHHCTTS----CHHHHHHHHHHHHHHHHHHHTTS---HHHHHHHTTSSSHHHHHHHHH
T ss_pred CCCccccCCCCcccCCHHHHHHhHHHhcc----CChHHHHHHHHHHHHHHHHCCCCcccHHHHHHHccccCHHHHHHHHH
Confidence 46899999999999999999999999998 899999999999999999999999999999999996 9999999999
Q ss_pred hhhhhccccc
Q 001648 228 FLDYWGLINF 237 (1038)
Q Consensus 228 FLE~WGLINy 237 (1038)
||++||+|||
T Consensus 77 FL~~~G~INf 86 (86)
T PF04433_consen 77 FLERWGLINF 86 (86)
T ss_dssp HHHHTTSSSS
T ss_pred HHHHcCccCC
Confidence 9999999998
No 4
>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.92 E-value=2.4e-25 Score=247.61 Aligned_cols=121 Identities=33% Similarity=0.615 Sum_probs=111.2
Q ss_pred CccccCCCCCCCCCC-CceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHh
Q 001648 317 AVEYHCNSCSADCSR-KRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELY 394 (1038)
Q Consensus 317 sv~~~Cn~Cg~dcs~-~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEky 394 (1038)
..+|+|++|..+|+. ++++|..|.+|+||+.||+.|. ++.|...|+|.+|++..++.. ..+||++||++||||++.|
T Consensus 12 g~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~~i~-~~~WtadEEilLLea~~t~ 90 (438)
T KOG0457|consen 12 GGKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDTNSFPIL-DPSWTADEEILLLEAAETY 90 (438)
T ss_pred CCCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecCCCCCCC-CCCCChHHHHHHHHHHHHh
Confidence 368999999999998 5699999999999999999998 689999999999999777755 6899999999999999999
Q ss_pred c-cCHHHHHHHhCCCCHHHHHHHHHhCCcCCCCCCCCCCCCCCCC
Q 001648 395 K-ENWNEIAEHVATKTKAQCILHFVQMPIEDMFLDCDDDVDGNLK 438 (1038)
Q Consensus 395 G-gNW~kIAEHVGTKT~eECIlHFLqLPIED~fLe~~d~~~~~~k 438 (1038)
| |||.+||+|||+||++||+.||++.+|+.++....+...++..
T Consensus 91 G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~~~~~i~~~~~~ 135 (438)
T KOG0457|consen 91 GFGNWQDIADHIGTKTKEECKEHYLKHFVNSPIFPLPDISLGIGV 135 (438)
T ss_pred CCCcHHHHHHHHcccchHHHHHHHHHHHhcCccccccccccccCc
Confidence 9 9999999999999999999999999999999998877665543
No 5
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.85 E-value=8.2e-22 Score=212.10 Aligned_cols=116 Identities=26% Similarity=0.501 Sum_probs=108.4
Q ss_pred ccccCCCCCCCCCC-CceeccCCCCCccccccccCCCC-CCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhc
Q 001648 318 VEYHCNSCSADCSR-KRYHCQKQADFDLCTDCFNNGKF-GSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYK 395 (1038)
Q Consensus 318 v~~~Cn~Cg~dcs~-~~Y~C~kc~dfdLC~dCFs~G~f-p~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyG 395 (1038)
++++|++|..+|+. +++.|..|.+|+||..||.+|.+ +.|.-.|+|.+|+...++++ ..+|+..|||+|+++++..|
T Consensus 4 ~k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiietnsypI~-~e~WgadEEllli~~~~TlG 82 (432)
T COG5114 4 VKIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIETNSYPIG-EEGWGADEELLLIECLDTLG 82 (432)
T ss_pred ceeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeeccCcccc-CCCcCchHHHHHHHHHHhcC
Confidence 67999999999996 89999999999999999999985 78999999999999887765 68999999999999999999
Q ss_pred -cCHHHHHHHhCCCCHHHHHHHHHhCCcCCCCCCCCCCCC
Q 001648 396 -ENWNEIAEHVATKTKAQCILHFVQMPIEDMFLDCDDDVD 434 (1038)
Q Consensus 396 -gNW~kIAEHVGTKT~eECIlHFLqLPIED~fLe~~d~~~ 434 (1038)
|||.+||.|||.|+++||..|||++++|..|+...+...
T Consensus 83 lGNW~dIadyiGsr~kee~k~HylK~y~es~~ypl~~i~~ 122 (432)
T COG5114 83 LGNWEDIADYIGSRAKEEIKSHYLKMYDESKYYPLPDITQ 122 (432)
T ss_pred CCcHHHHHHHHhhhhhHHHHHHHHHHHhhccccccccccc
Confidence 999999999999999999999999999999999887543
No 6
>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=98.97 E-value=2.7e-10 Score=93.78 Aligned_cols=45 Identities=51% Similarity=1.178 Sum_probs=43.3
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCCCCCCCCCCCce
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFI 364 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi 364 (1038)
|+|+.|+.||+.+||||+++.+++||..||.+|+||.++++.||+
T Consensus 1 y~C~~Cg~D~t~vryh~~~~~~~dLC~~CF~~G~f~~~~~s~Dfv 45 (45)
T cd02336 1 YHCFTCGNDCTRVRYHNLKAKKYDLCPSCYQEGRFPSNFQSSDFI 45 (45)
T ss_pred CcccCCCCccCceEEEecCCCccccChHHHhCcCCCCCCcccccC
Confidence 589999999999999999999999999999999999999999995
No 7
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=98.92 E-value=1.6e-09 Score=88.56 Aligned_cols=44 Identities=34% Similarity=0.741 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHHhccC-HHHHHHHhC-CCCHHHHHHHHHhC
Q 001648 377 GKWTDQETLLLLEALELYKEN-WNEIAEHVA-TKTKAQCILHFVQM 420 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyGgN-W~kIAEHVG-TKT~eECIlHFLqL 420 (1038)
..||.+|+.+|+++|.+||.+ |..||++|+ +||..||+.||.++
T Consensus 2 ~~Wt~eE~~~l~~~v~~~g~~~W~~Ia~~~~~~Rt~~qc~~~~~~~ 47 (48)
T PF00249_consen 2 GPWTEEEDEKLLEAVKKYGKDNWKKIAKRMPGGRTAKQCRSRYQNL 47 (48)
T ss_dssp -SS-HHHHHHHHHHHHHSTTTHHHHHHHHHSSSSTHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhCCcHHHHHHHHcCCCCCHHHHHHHHHhh
Confidence 479999999999999999966 999999999 99999999999864
No 8
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.67 E-value=3.1e-08 Score=83.76 Aligned_cols=41 Identities=39% Similarity=0.778 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHh
Q 001648 379 WTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQ 419 (1038)
Q Consensus 379 WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLq 419 (1038)
||.+|+.+|++++..||.+|..||+++|+||+.+|..||..
T Consensus 1 WT~eEd~~L~~~~~~~g~~W~~Ia~~l~~Rt~~~~~~r~~~ 41 (60)
T PF13921_consen 1 WTKEEDELLLELVKKYGNDWKKIAEHLGNRTPKQCRNRWRN 41 (60)
T ss_dssp S-HHHHHHHHHHHHHHTS-HHHHHHHSTTS-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHCcCHHHHHHHHCcCCHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.66 E-value=4.6e-08 Score=76.79 Aligned_cols=44 Identities=34% Similarity=0.756 Sum_probs=42.2
Q ss_pred CCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 377 GKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
..||.+|+.+|+.++..|| .+|..||.++++||..+|+.+|..+
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~ 46 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNL 46 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence 4799999999999999999 9999999999999999999999875
No 10
>PLN03000 amine oxidase
Probab=98.62 E-value=3.2e-08 Score=121.40 Aligned_cols=82 Identities=18% Similarity=0.154 Sum_probs=70.5
Q ss_pred CCCCCCCCCCCHHHHHh--CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhcccccc-hHHHHHHHHhhh
Q 001648 154 HCGWFSWTKIHPLEEQA--LPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEVGS-LDARQEVMEFLD 230 (1038)
Q Consensus 154 ySsWFd~~~Ih~iEk~~--lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~GD-v~aI~RVh~FLE 230 (1038)
++.-|+.+.+++.|..+ || ... ...+..||.|||.||.+|+.||..|||++.|...+..+ ...+.++|+||.
T Consensus 87 ~~~~~p~d~l~~~e~~~~~~~-~~~----~~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~L~ 161 (881)
T PLN03000 87 LTAGFPADSLTEEEIEFGVVP-IVG----GIEQVNYILIRNHIISKWRENISSWVTKEMFLGSIPKHCSSLLDSAYNYLV 161 (881)
T ss_pred HHcCCCcccCCHHHHhccccC-ccc----ccchhhHHHHHHHHHHHHHHCCceeecHHHHhhhcchhHHHHHHHHHHHHH
Confidence 34668999999999777 88 222 35789999999999999999999999999998877543 578899999999
Q ss_pred hhcccccCCC
Q 001648 231 YWGLINFHPF 240 (1038)
Q Consensus 231 ~WGLINy~~~ 240 (1038)
+.|+|||++.
T Consensus 162 r~G~in~g~~ 171 (881)
T PLN03000 162 THGYINFGIA 171 (881)
T ss_pred HcCcccHHHH
Confidence 9999999975
No 11
>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains. Tandem copies of the domain bind telomeric DNA tandem repeatsas part of the capping complex. Binding is sequence dependent for repeats which contain the G/C rich motif [C2-3 A (CA)1-6]. The domain is also found in regulatory transcriptional repressor complexes where it also binds DNA.
Probab=98.56 E-value=1.2e-07 Score=73.50 Aligned_cols=43 Identities=37% Similarity=0.743 Sum_probs=41.1
Q ss_pred CCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 378 KWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 378 ~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
.||.+|+.+|+.++..|| ++|..||+.+++||..+|+.||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 499999999999999999 9999999999999999999999865
No 12
>PLN02328 lysine-specific histone demethylase 1 homolog
Probab=98.52 E-value=8.2e-08 Score=117.43 Aligned_cols=87 Identities=21% Similarity=0.223 Sum_probs=74.4
Q ss_pred CCCCCCCCCCCHHHHHh-CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhcccc-cchHHHHHHHHhhhh
Q 001648 154 HCGWFSWTKIHPLEEQA-LPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEV-GSLDARQEVMEFLDY 231 (1038)
Q Consensus 154 ySsWFd~~~Ih~iEk~~-lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~-GDv~aI~RVh~FLE~ 231 (1038)
++.-|+.+.+|+.|..+ |+....+ ..+..||.|||.||.+|+.||..|||+..|+..+- -....+.++|.||.+
T Consensus 138 ~~~~~p~~~l~~~e~~~~~~~~~~~----~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~l~~ 213 (808)
T PLN02328 138 ISVGFPVDSLTEEEIEANVVSTIGG----TEQANYIVVRNHILARWRSNVSNWLTRDHALESIRAEHKNLVDSAYNFLLE 213 (808)
T ss_pred HHcCCCCccCCHHHHhhcCcchhcc----cceeehhhHHHHHHHHHHhCCcceecHHHHHhhcchhhHHHHHHHHHHHhc
Confidence 35678899999998777 7766554 67899999999999999999999999999987763 346789999999999
Q ss_pred hcccccCCCCCCC
Q 001648 232 WGLINFHPFPHVE 244 (1038)
Q Consensus 232 WGLINy~~~P~~~ 244 (1038)
.|.|||++.|...
T Consensus 214 ~g~in~gv~~~~~ 226 (808)
T PLN02328 214 HGYINFGVAPVIK 226 (808)
T ss_pred cCceeeecccccc
Confidence 9999999987543
No 13
>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=98.41 E-value=2.1e-07 Score=77.55 Aligned_cols=47 Identities=36% Similarity=0.924 Sum_probs=42.9
Q ss_pred ccCCCCCCCCCC-CceeccCCCCCccccccccCCC-CCCCCCCCCceee
Q 001648 320 YHCNSCSADCSR-KRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILM 366 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~-~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~i 366 (1038)
+.|++|..++.. .||+|..|.+|+||.+||..|. ...|...|.|++|
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~ 49 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV 49 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence 479999999887 8999999999999999999998 4789999999875
No 14
>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=98.19 E-value=1.2e-06 Score=71.98 Aligned_cols=46 Identities=35% Similarity=0.832 Sum_probs=41.5
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCCCCCCCCCCCceee
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILM 366 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~i 366 (1038)
+.|+.|+.++...+|+|..|.+|+||..||..|. ..|...|.|..|
T Consensus 1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~-~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK-KGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc-CCCCCCCCEeEC
Confidence 5799999999999999999999999999999998 778778888754
No 15
>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=98.00 E-value=3.5e-06 Score=70.51 Aligned_cols=45 Identities=29% Similarity=0.657 Sum_probs=39.8
Q ss_pred ccCCCCCC-CCCCCceeccCCCCCccccccccCCC-CCCCCCCCCce
Q 001648 320 YHCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFI 364 (1038)
Q Consensus 320 ~~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi 364 (1038)
+.|++|.. ++...||+|..|.+|+||..||..|. ...|...|.|.
T Consensus 1 ~~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~ 47 (49)
T cd02345 1 LSCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMY 47 (49)
T ss_pred CcCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCcc
Confidence 36999999 99999999999999999999999997 45677888775
No 16
>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=97.99 E-value=4.7e-06 Score=68.12 Aligned_cols=42 Identities=26% Similarity=0.692 Sum_probs=38.4
Q ss_pred cCCCCCCCCCCCceeccCCCCCccccccccCCCCCCCCCCCCceee
Q 001648 321 HCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILM 366 (1038)
Q Consensus 321 ~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~i 366 (1038)
.|++|+..+.+.||+|..|.+|+||.+||..| .| ..|.|++|
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~~---~H-~~H~f~~~ 43 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAKG---VH-PEHAMLKI 43 (43)
T ss_pred CCCCCCCcCcCCeEECCCCCCccchHHhhCcC---CC-CCCCEEeC
Confidence 69999999999999999999999999999998 56 88988864
No 17
>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=97.98 E-value=4.7e-06 Score=69.82 Aligned_cols=45 Identities=36% Similarity=0.860 Sum_probs=40.1
Q ss_pred ccCCCCCC-CCCCCceeccCCC--CCccccccccCCCCCCCCCCCCceee
Q 001648 320 YHCNSCSA-DCSRKRYHCQKQA--DFDLCTDCFNNGKFGSDMSSSDFILM 366 (1038)
Q Consensus 320 ~~Cn~Cg~-dcs~~~Y~C~kc~--dfdLC~dCFs~G~fp~h~sshDFi~i 366 (1038)
|.|+.|+. .+...||+|..|. +|+||.+||..|. .|...|.|.+|
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~--~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE--SHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC--CCCCCCceeeC
Confidence 57999998 8889999999999 9999999999997 78788877654
No 18
>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=97.98 E-value=4.8e-06 Score=69.65 Aligned_cols=45 Identities=27% Similarity=0.761 Sum_probs=40.2
Q ss_pred cCCCCC-CCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCcee
Q 001648 321 HCNSCS-ADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFIL 365 (1038)
Q Consensus 321 ~Cn~Cg-~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ 365 (1038)
.|++|+ .++...||+|..|.+|+||.+||..|. ...|...|.|.+
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQC 48 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEE
Confidence 699999 788899999999999999999999997 456888898875
No 19
>PLN02529 lysine-specific histone demethylase 1
Probab=97.97 E-value=6.9e-06 Score=100.30 Aligned_cols=84 Identities=21% Similarity=0.266 Sum_probs=70.1
Q ss_pred CCCCCCCCCHHHHHh--CccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhcccccc-hHHHHHHHHhhhhh
Q 001648 156 GWFSWTKIHPLEEQA--LPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEVGS-LDARQEVMEFLDYW 232 (1038)
Q Consensus 156 sWFd~~~Ih~iEk~~--lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~GD-v~aI~RVh~FLE~W 232 (1038)
-=|+.+.+++.|+++ +|.. ..+.+..||.|||.||.+|+.||..|||+++++..+.-+ ...|...|+||.+.
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~yl~irn~il~~w~~np~~~~~~~~a~~~~~~~i~~ci~~c~~~l~~~ 139 (738)
T PLN02529 65 VGFPIDALLEEEIRAGVVREL-----GGKEQNDYIVVRNHILARWRSNVGIWLSKGQIKETVSSEYEHLISAAYDFLLYN 139 (738)
T ss_pred cCCCccccCHHHHhccccCcc-----ccccceeeehHHHHHHHHHHHCCceeecHHHHhhhchhhHHHHHHHHHHHHHhC
Confidence 348888999988854 6643 477899999999999999999999999999998876443 44566899999999
Q ss_pred cccccCCCCCCC
Q 001648 233 GLINFHPFPHVE 244 (1038)
Q Consensus 233 GLINy~~~P~~~ 244 (1038)
|.|||.++|...
T Consensus 140 ~~inc~vnp~~~ 151 (738)
T PLN02529 140 GYINFGVSPSFA 151 (738)
T ss_pred CCcceeeccccc
Confidence 999999998654
No 20
>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=97.93 E-value=5.7e-06 Score=69.48 Aligned_cols=44 Identities=27% Similarity=0.691 Sum_probs=37.9
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCCC-CCCCCCCCc
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKF-GSDMSSSDF 363 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~f-p~h~sshDF 363 (1038)
+.|++|...+...||+|++|.+|+||..||..|.. ..|...|+.
T Consensus 1 i~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~Hpm 45 (48)
T cd02343 1 ISCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHEDDHEM 45 (48)
T ss_pred CCCCCCCCcCCCceEECCCCCCchhHHHHHhCCccCCCCCCCCCc
Confidence 36999999888899999999999999999999985 556666654
No 21
>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=97.86 E-value=1.1e-05 Score=65.93 Aligned_cols=39 Identities=38% Similarity=0.961 Sum_probs=35.3
Q ss_pred ccccCCCCCCCCCCCceeccCCCCCccccccccCCCCCC
Q 001648 318 VEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGS 356 (1038)
Q Consensus 318 v~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~ 356 (1038)
..+.|+.|+..+...+|+|..|.+|+||.+||..|+++.
T Consensus 3 ~~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~ 41 (44)
T smart00291 3 HSYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSAGG 41 (44)
T ss_pred CCcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCcCC
Confidence 357899999999999999999999999999999998653
No 22
>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=97.86 E-value=9.9e-06 Score=68.15 Aligned_cols=44 Identities=34% Similarity=0.726 Sum_probs=38.9
Q ss_pred cCCCCCC-CCCCCceeccCCCCCccccccccCCCC-CCCCCCCCce
Q 001648 321 HCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGKF-GSDMSSSDFI 364 (1038)
Q Consensus 321 ~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~f-p~h~sshDFi 364 (1038)
.|++|+. .+...||+|..|.+|+||..||..|.. ..|...|+|+
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~ 47 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMK 47 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCee
Confidence 5999996 588899999999999999999999984 5688888775
No 23
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.82 E-value=2.2e-05 Score=84.80 Aligned_cols=45 Identities=18% Similarity=0.479 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhC-CCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVA-TKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVG-TKT~eECIlHFLqL 420 (1038)
...||.+|+.+|+++|++|| .+|..||+++| +||..||+.+|+++
T Consensus 25 Rg~WT~EEDe~L~~lV~kyG~~nW~~IAk~~g~gRT~KQCReRW~N~ 71 (249)
T PLN03212 25 RGPWTVEEDEILVSFIKKEGEGRWRSLPKRAGLLRCGKSCRLRWMNY 71 (249)
T ss_pred CCCCCHHHHHHHHHHHHHhCcccHHHHHHhhhcCCCcchHHHHHHHh
Confidence 56899999999999999999 79999999997 79999999999975
No 24
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.81 E-value=2.9e-05 Score=67.17 Aligned_cols=45 Identities=22% Similarity=0.373 Sum_probs=40.5
Q ss_pred CCCCHHHHHHHHHHHHHhc-cCH---HHHHHHhC-CC-CHHHHHHHHHhCC
Q 001648 377 GKWTDQETLLLLEALELYK-ENW---NEIAEHVA-TK-TKAQCILHFVQMP 421 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-gNW---~kIAEHVG-TK-T~eECIlHFLqLP 421 (1038)
..||++|..++|+||+.|| ||| ..|+++++ ++ |+.||..|+-.+.
T Consensus 4 ~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~ 54 (57)
T TIGR01557 4 VVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYR 54 (57)
T ss_pred CCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHH
Confidence 4799999999999999999 599 99999987 57 9999999987653
No 25
>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=97.66 E-value=3.5e-05 Score=63.94 Aligned_cols=43 Identities=28% Similarity=0.774 Sum_probs=37.4
Q ss_pred cCCCCCC-CCCCCceeccCCCCCccccccccCCCCCCCCCCCCceee
Q 001648 321 HCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILM 366 (1038)
Q Consensus 321 ~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~i 366 (1038)
.|++|+. .+.+.||+|..|.+|+||..||..+. |...|.|.+|
T Consensus 2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~~---H~~~H~F~ri 45 (45)
T cd02344 2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKTRK---HNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCccCeEECCCCCCccchHHhhCCCC---cCCCCceeeC
Confidence 6999996 67789999999999999999999963 6678888875
No 26
>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=97.60 E-value=1.4e-05 Score=65.99 Aligned_cols=37 Identities=41% Similarity=1.044 Sum_probs=28.4
Q ss_pred cccCCCCCC-CCCCCceeccCCCCCccccccccCCCCC
Q 001648 319 EYHCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGKFG 355 (1038)
Q Consensus 319 ~~~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~fp 355 (1038)
.+.|+.|+. .+...||+|..|.+|+||..||..|++.
T Consensus 4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~ 41 (46)
T PF00569_consen 4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHS 41 (46)
T ss_dssp SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-
T ss_pred CeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCC
Confidence 578999999 6678999999999999999999999864
No 27
>PLN03091 hypothetical protein; Provisional
Probab=97.56 E-value=8.8e-05 Score=85.42 Aligned_cols=45 Identities=20% Similarity=0.553 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhC-CCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVA-TKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVG-TKT~eECIlHFLqL 420 (1038)
...||.+|+.+|+++|++|| .+|..||+++| +||..||+.||+++
T Consensus 14 Kg~WTpEEDe~L~~~V~kyG~~nWs~IAk~~g~gRT~KQCRERW~Ny 60 (459)
T PLN03091 14 KGLWSPEEDEKLLRHITKYGHGCWSSVPKQAGLQRCGKSCRLRWINY 60 (459)
T ss_pred CCCCCHHHHHHHHHHHHHhCcCCHHHHhhhhccCcCcchHhHHHHhc
Confidence 46799999999999999999 79999999998 79999999999875
No 28
>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=97.52 E-value=7.4e-05 Score=61.92 Aligned_cols=43 Identities=23% Similarity=0.658 Sum_probs=36.4
Q ss_pred ccCCCCC-CCCCCCceeccCCCCCccccccccCCCCCCCCCCCCcee
Q 001648 320 YHCNSCS-ADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFIL 365 (1038)
Q Consensus 320 ~~Cn~Cg-~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~ 365 (1038)
+.|++|+ ..+.+.||+|..|.+|+||..||..+ .|...|.|++
T Consensus 1 i~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~---~H~~~H~f~r 44 (45)
T cd02339 1 IICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGD---KHDLEHRFYR 44 (45)
T ss_pred CCCCCCCCCCcccCeEECCCCCCccchHHHhCCC---CCCCCCCEEe
Confidence 3699999 57778999999999999999999964 4666788865
No 29
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.36 E-value=0.00022 Score=77.28 Aligned_cols=47 Identities=23% Similarity=0.298 Sum_probs=43.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 374 VSGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 374 ~~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
+....||.+|+.+||+.+..||..|..||.+|.+||..+|..||..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~ 122 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTH 122 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHH
Confidence 34578999999999999999999999999999999999999999754
No 30
>cd02337 ZZ_CBP Zinc finger, ZZ type. Zinc finger present in CBP/p300 and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. CREB-binding protein (CBP) is a large multidomain protein that provides binding sites for transcriptional coactivators, the role of the ZZ domain in CBP/p300 is unclear.
Probab=97.35 E-value=0.00012 Score=59.65 Aligned_cols=36 Identities=36% Similarity=0.971 Sum_probs=31.1
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCCCCC
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGS 356 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~ 356 (1038)
|.|+.|...+ ..+|+|..|.+|+||..||..+.-+.
T Consensus 1 y~C~~C~~~~-~~r~~C~~C~dfDLC~~C~~~~~H~H 36 (41)
T cd02337 1 YTCNECKHHV-ETRWHCTVCEDYDLCITCYNTKNHPH 36 (41)
T ss_pred CcCCCCCCcC-CCceECCCCcchhhHHHHhCCCCCCc
Confidence 5799999865 49999999999999999999976543
No 31
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.15 E-value=0.0004 Score=74.48 Aligned_cols=45 Identities=18% Similarity=0.455 Sum_probs=42.7
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhC-CCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVA-TKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVG-TKT~eECIlHFLqL 420 (1038)
...||.+|+.+|.+-|++|| ++|..|+++.| .|+-..|+++|+.+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~Ny 55 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNY 55 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcc
Confidence 37899999999999999999 89999999999 89999999999974
No 32
>PLN03091 hypothetical protein; Provisional
Probab=96.98 E-value=0.00098 Score=77.10 Aligned_cols=46 Identities=20% Similarity=0.379 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 375 SGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 375 ~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
....||.+|+.+||+.+..||..|..||.+|..||..+|+.||..+
T Consensus 66 kKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnsl 111 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSC 111 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHH
Confidence 3578999999999999999999999999999999999999999864
No 33
>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=96.97 E-value=0.00041 Score=57.31 Aligned_cols=33 Identities=33% Similarity=0.849 Sum_probs=29.8
Q ss_pred ccCCCCCC-CCCCCceeccCCCCCccccccccCC
Q 001648 320 YHCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNG 352 (1038)
Q Consensus 320 ~~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G 352 (1038)
+.|+.|+. .+...||+|..|.+|+||..||.+.
T Consensus 1 I~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~~ 34 (43)
T cd02342 1 IQCDGCGVLPITGPRYKSKVKEDYDLCTICFSRM 34 (43)
T ss_pred CCCCCCCCCcccccceEeCCCCCCccHHHHhhhh
Confidence 36999996 7888999999999999999999874
No 34
>PLN02976 amine oxidase
Probab=96.44 E-value=0.0023 Score=82.96 Aligned_cols=80 Identities=24% Similarity=0.261 Sum_probs=67.8
Q ss_pred CCCCCCCHHHHHhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeehhhhhc------ccccchHHHHHHHHhhhh
Q 001648 158 FSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQIELKDLSE------LEVGSLDARQEVMEFLDY 231 (1038)
Q Consensus 158 Fd~~~Ih~iEk~~lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr------~L~GDv~aI~RVh~FLE~ 231 (1038)
+....|.+|||-.|-|...-|. .-+-||++||.|+-+|-.+-.+-|.+++|-= .-.+-..+|+.|+.||++
T Consensus 455 l~a~~~~~~e~~~~k~~lkr~~---~~q~yl~cr~~~l~~w~k~~~~~l~~~~c~v~~~~~~~e~~~~~l~r~~~~fld~ 531 (1713)
T PLN02976 455 LKARAVGPIEKIKFKEVLKRKG---GLQEYLECRNMILGLWSKDVSRILPLADCGVTDTPSEDESPRASLIREVYLFLDQ 531 (1713)
T ss_pred ccccccChHHHHHHHHHHHhcc---chHHHHHHHHHHHHHhhhhhhhcccHhhccccCCcccccCchhhHHHHHHHHhhc
Confidence 4457899999999999997544 5689999999999999999999999999932 112456789999999999
Q ss_pred hcccccCCC
Q 001648 232 WGLINFHPF 240 (1038)
Q Consensus 232 WGLINy~~~ 240 (1038)
.|.||-++.
T Consensus 532 ~gyin~g~~ 540 (1713)
T PLN02976 532 RGYINAGIA 540 (1713)
T ss_pred cCceecccc
Confidence 999999974
No 35
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=96.25 E-value=0.0023 Score=70.67 Aligned_cols=44 Identities=23% Similarity=0.644 Sum_probs=36.7
Q ss_pred ccCCCCCC-CCCCCceeccCCCCCccccccccCCCCCCCCCCCCceee
Q 001648 320 YHCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILM 366 (1038)
Q Consensus 320 ~~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~i 366 (1038)
..|+.|+. .|.+.||+|..|.+||||.+|+..+ .|+..|-|.++
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~---~~h~~H~~lR~ 197 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN---EHHAAHAMLRL 197 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC---CCCcccceeec
Confidence 57999999 8999999999999999999999987 23344556553
No 36
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.17 E-value=0.0077 Score=64.78 Aligned_cols=44 Identities=23% Similarity=0.472 Sum_probs=41.1
Q ss_pred CCCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHH
Q 001648 374 VSGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHF 417 (1038)
Q Consensus 374 ~~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHF 417 (1038)
+....||.+||.+|+++-..||.-|..||.|+.+||-.++..||
T Consensus 60 ikrg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~W 103 (238)
T KOG0048|consen 60 LKRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHW 103 (238)
T ss_pred ccCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHH
Confidence 33578999999999999999999999999999999999998887
No 37
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.94 E-value=0.0086 Score=71.74 Aligned_cols=47 Identities=32% Similarity=0.740 Sum_probs=43.6
Q ss_pred CCCCCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHHHh
Q 001648 373 GVSGGKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQ 419 (1038)
Q Consensus 373 ~~~~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHFLq 419 (1038)
++.-+.||.+|+.+||-||++|| -+|-+|-+.|.+|+-.||+.+|++
T Consensus 357 sikhg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~n 404 (939)
T KOG0049|consen 357 SVKHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTN 404 (939)
T ss_pred cccCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHH
Confidence 34567899999999999999999 589999999999999999999987
No 38
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=95.59 E-value=0.0057 Score=69.06 Aligned_cols=45 Identities=27% Similarity=0.719 Sum_probs=35.2
Q ss_pred cccCCCCCCC-CCCCceeccCCCCCccccccccCCC-CCCCCCCCCc
Q 001648 319 EYHCNSCSAD-CSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDF 363 (1038)
Q Consensus 319 ~~~Cn~Cg~d-cs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDF 363 (1038)
...|++|++- ...-+|+|+.|.|||||..||.+|. .+.|-..|..
T Consensus 8 ~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~~dHPm 54 (381)
T KOG1280|consen 8 GVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHDEDHPM 54 (381)
T ss_pred CceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccCCCCce
Confidence 4679999985 4457899999999999999999996 3445444443
No 39
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=94.96 E-value=0.0087 Score=72.68 Aligned_cols=42 Identities=26% Similarity=0.602 Sum_probs=33.7
Q ss_pred ccCCCCCC-CCCCCceeccCCCCCccccccccCCCCC-CCCCCC
Q 001648 320 YHCNSCSA-DCSRKRYHCQKQADFDLCTDCFNNGKFG-SDMSSS 361 (1038)
Q Consensus 320 ~~Cn~Cg~-dcs~~~Y~C~kc~dfdLC~dCFs~G~fp-~h~ssh 361 (1038)
..|+.|.. .|.+.||+|++|-+++||..||-.|+-. .|...|
T Consensus 604 ~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~~ 647 (966)
T KOG4286|consen 604 AKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMHY 647 (966)
T ss_pred hhcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCCCCC
Confidence 57999975 5667899999999999999999999853 344333
No 40
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=94.78 E-value=0.026 Score=67.91 Aligned_cols=45 Identities=29% Similarity=0.422 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCH---HHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVATKTK---AQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~---eECIlHFLqL 420 (1038)
.+.||-+|+..||++|++|| |+|-+||-.+|.||. .-|+.+|+..
T Consensus 412 ~~rW~l~edeqL~~~V~~YG~g~WakcA~~Lp~~t~~q~~rrR~R~~~~ 460 (939)
T KOG0049|consen 412 VERWTLVEDEQLLYAVKVYGKGNWAKCAMLLPKKTSRQLRRRRLRLIAA 460 (939)
T ss_pred cCceeecchHHHHHHHHHHccchHHHHHHHccccchhHHHHHHHHHHHH
Confidence 57899999999999999999 999999999999998 6699999875
No 41
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=94.74 E-value=0.027 Score=50.84 Aligned_cols=44 Identities=39% Similarity=0.721 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHHH------hcc--------CHHHHHHHhC----CCCHHHHHHHHHhC
Q 001648 377 GKWTDQETLLLLEALEL------YKE--------NWNEIAEHVA----TKTKAQCILHFVQM 420 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEk------yGg--------NW~kIAEHVG----TKT~eECIlHFLqL 420 (1038)
..||++|+.+||+.+.. |++ -|..||+.+. .||+.||..+|-.|
T Consensus 2 ~~Wt~~et~~Li~~~~~~~~~~~~~~~~~~~~~~~w~~Ia~~l~~~G~~rt~~qc~~Kw~~L 63 (90)
T PF13837_consen 2 RNWTDEETKLLIELWKENLMELRFDNGGKKRNKKVWKEIAEELAEHGYNRTPEQCRNKWKNL 63 (90)
T ss_dssp -SS-HHHHHHHHHHHHH--HHHHHHH--SS--HHHHHHHHHHHHHHC----HHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHhhhccccchHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence 46999999999999977 211 4999999985 59999999999876
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.29 E-value=0.33 Score=58.96 Aligned_cols=45 Identities=24% Similarity=0.450 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 375 SGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 375 ~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
....||.+|+..|-..+..+|++|..|++.|| |.|..|+.||-++
T Consensus 383 ~rg~wt~ee~eeL~~l~~~~g~~W~~Ig~~lg-r~P~~crd~wr~~ 427 (607)
T KOG0051|consen 383 KRGKWTPEEEEELKKLVVEHGNDWKEIGKALG-RMPMDCRDRWRQY 427 (607)
T ss_pred ccCCCCcchHHHHHHHHHHhcccHHHHHHHHc-cCcHHHHHHHHHh
Confidence 35789999999999999999999999999998 7999999999986
No 43
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=89.49 E-value=0.31 Score=59.12 Aligned_cols=53 Identities=23% Similarity=0.512 Sum_probs=44.7
Q ss_pred CCCCCHHHHHHHHHHHH-------Hh-------c----------c--CHHHHHHHhCCCCHHHHHHHHHhCCcCCCCCC
Q 001648 376 GGKWTDQETLLLLEALE-------LY-------K----------E--NWNEIAEHVATKTKAQCILHFVQMPIEDMFLD 428 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIE-------ky-------G----------g--NW~kIAEHVGTKT~eECIlHFLqLPIED~fLe 428 (1038)
...||-+|+.+||..|+ .| | + +|..|++.+|||+..||+.||.+|=+...+..
T Consensus 436 r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~n~ 514 (607)
T KOG0051|consen 436 RGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSFNK 514 (607)
T ss_pred cCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHhhc
Confidence 56899999999999996 44 1 1 69999999999999999999999866665544
No 44
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=89.00 E-value=0.58 Score=57.63 Aligned_cols=54 Identities=30% Similarity=0.453 Sum_probs=46.5
Q ss_pred CCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHh----CCcCCCCCCC
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQ----MPIEDMFLDC 429 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLq----LPIED~fLe~ 429 (1038)
...||..|..++-.||-.|..|+..|++.|.+||..||+.+|+- +++.-..|++
T Consensus 619 Sd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYtWKK~~~~~~~~~~d 676 (907)
T KOG4167|consen 619 SDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYTWKKIMRLGRKIIDD 676 (907)
T ss_pred cccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHHHHHhccchhhhHhh
Confidence 46899999999999999999999999999999999999999975 5554444443
No 45
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=87.97 E-value=0.71 Score=53.34 Aligned_cols=44 Identities=16% Similarity=0.408 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHh
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQ 419 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLq 419 (1038)
...|+..|+.++..||.++|.++..|+....+|...|+.++|++
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999987
No 46
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=86.21 E-value=0.52 Score=53.91 Aligned_cols=38 Identities=32% Similarity=0.787 Sum_probs=32.1
Q ss_pred ccccCCCCCCC-CCCCceeccCCCCCccccccccCCCCC
Q 001648 318 VEYHCNSCSAD-CSRKRYHCQKQADFDLCTDCFNNGKFG 355 (1038)
Q Consensus 318 v~~~Cn~Cg~d-cs~~~Y~C~kc~dfdLC~dCFs~G~fp 355 (1038)
-...|++|... +...+|.|+.|.+|.||.+||-.|.-+
T Consensus 239 hpv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g 277 (434)
T KOG4301|consen 239 HPVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAG 277 (434)
T ss_pred CCccCcceecccccchhhhHhhcCCccccchhhccccCC
Confidence 34679999764 556899999999999999999999854
No 47
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=84.43 E-value=1.1 Score=50.52 Aligned_cols=45 Identities=24% Similarity=0.552 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHhc-----c-----CHHHHHHHh---C-CCCHHHHHHHHHhCC
Q 001648 377 GKWTDQETLLLLEALELYK-----E-----NWNEIAEHV---A-TKTKAQCILHFVQMP 421 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-----g-----NW~kIAEHV---G-TKT~eECIlHFLqLP 421 (1038)
..|+.+|++.||++..... + .|..||..+ | .||+.||..+|-.|.
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~ 113 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLK 113 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Confidence 6899999999999986532 3 399999944 3 499999999998874
No 48
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=84.08 E-value=0.98 Score=53.99 Aligned_cols=44 Identities=32% Similarity=0.619 Sum_probs=40.9
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHHHh
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQ 419 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHFLq 419 (1038)
+..|+..|+..|=-+|.+|| ..|.+|+..+..||+.||..+|..
T Consensus 7 ggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e 51 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEE 51 (617)
T ss_pred cceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHH
Confidence 56899999999999999999 679999999999999999999974
No 49
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=82.03 E-value=2.2 Score=38.08 Aligned_cols=44 Identities=25% Similarity=0.454 Sum_probs=38.1
Q ss_pred CCCCHHHHHHHHHHHHHhc-----------------cCHHHHHHHhC-----CCCHHHHHHHHHhC
Q 001648 377 GKWTDQETLLLLEALELYK-----------------ENWNEIAEHVA-----TKTKAQCILHFVQM 420 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-----------------gNW~kIAEHVG-----TKT~eECIlHFLqL 420 (1038)
..||.+|...||+.|+.|. .-|..|+..+. .||..||..+|-+|
T Consensus 3 ~~fs~~E~~~Lv~~v~~~~~il~~k~~~~~~~~~k~~~W~~I~~~lN~~~~~~Rs~~~lkkkW~nl 68 (78)
T PF13873_consen 3 PNFSEEEKEILVELVEKHKDILENKFSDSVSNKEKRKAWEEIAEELNALGPGKRSWKQLKKKWKNL 68 (78)
T ss_pred CCCCHHHHHHHHHHHHHhHHHHhcccccHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Confidence 5799999999999999985 24999999994 59999999998765
No 50
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=78.30 E-value=1.9 Score=52.36 Aligned_cols=45 Identities=24% Similarity=0.423 Sum_probs=39.4
Q ss_pred CCCCCHHHHHHHHHHHHHhccCHHHH----------HHHhCCCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEI----------AEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyGgNW~kI----------AEHVGTKT~eECIlHFLqL 420 (1038)
...||-+|+--+.+||..||-|+++| --.|..||+.|...||+++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 46899999999999999999999999 3334468999999999985
No 51
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=77.52 E-value=3.3 Score=48.10 Aligned_cols=48 Identities=21% Similarity=0.394 Sum_probs=42.2
Q ss_pred CCCCHHHHHHHHHHHHHhccCHHHHHH-HhCCCCHHHHHHHHHhCCcCC
Q 001648 377 GKWTDQETLLLLEALELYKENWNEIAE-HVATKTKAQCILHFVQMPIED 424 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyGgNW~kIAE-HVGTKT~eECIlHFLqLPIED 424 (1038)
..|+..|=+.+=+||+.||-|+..|-. .|.||+.-|||..|+.--...
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKkSe 326 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKKSE 326 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhcCc
Confidence 579999999999999999999999955 899999999999998754443
No 52
>PF15324 TALPID3: Hedgehog signalling target
Probab=77.47 E-value=11 Score=48.68 Aligned_cols=89 Identities=21% Similarity=0.258 Sum_probs=56.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHHHHHH-----HHHHHHHH-------H---HHHh---hHHHHHHHHH
Q 001648 876 QYIDKLKHAAVTALSAAAVKAKLLACQEEDQIRQLATSL-----IEKQLQKL-------E---AKLA---FFNEMDNVTM 937 (1038)
Q Consensus 876 ~s~~~~~~Aa~~aL~aAA~kAk~LA~~EErei~~Lva~~-----ie~qlkKl-------E---lKLk---~F~ElE~~l~ 937 (1038)
.|+..|..|.||||++||-=-|.=.+-| -++-+...+| .+.||+++ + .|+. |=..|-.+|+
T Consensus 60 DSAtTVAAATAAAIATaAPLiKvQSdLE-AKVnsVselL~KLQEtDkqLqrvteqQt~i~~~~ek~~ch~~EkQmn~fme 138 (1252)
T PF15324_consen 60 DSATTVAAATAAAIATAAPLIKVQSDLE-AKVNSVSELLNKLQETDKQLQRVTEQQTSIQNQHEKLHCHDHEKQMNVFME 138 (1252)
T ss_pred chHHHHHHHHHHHHHhhhhhhhhcchHH-HHHHHHHHHHHHhhhhhcchhhhhhhhccccccccccchhhHHHHHHHHHH
Confidence 5889999999999999886555544433 2222221111 01111111 0 1111 1234667888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhCCC
Q 001648 938 RVREQLERSRQRLYQERALIIQARLGPS 965 (1038)
Q Consensus 938 ~ere~lE~~Rq~L~~eR~~~~~~~l~ps 965 (1038)
.-.+.||+--||.+.-...||.+-|..+
T Consensus 139 Q~l~HLEKLQqQQi~iQshfIsSAl~~~ 166 (1252)
T PF15324_consen 139 QHLRHLEKLQQQQIDIQSHFISSALKTG 166 (1252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 8899999999999999999999999744
No 53
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=76.24 E-value=2.3 Score=51.04 Aligned_cols=45 Identities=24% Similarity=0.542 Sum_probs=41.7
Q ss_pred CCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 375 SGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 375 ~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
....|+.+|+.+||-+...+-.-|..|+.-|| ||..+|..||..|
T Consensus 58 ~~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~l 102 (617)
T KOG0050|consen 58 KKTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNL 102 (617)
T ss_pred hhhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHH
Confidence 34689999999999999999999999999998 8999999999886
No 54
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=73.40 E-value=5 Score=45.36 Aligned_cols=103 Identities=17% Similarity=0.341 Sum_probs=60.6
Q ss_pred HHHHHhhcCCCccccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHH
Q 001648 307 AEELAKLEGPAVEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETL 385 (1038)
Q Consensus 307 ~ed~~~~~~~sv~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeL 385 (1038)
..++++..+ ..+|.-|+.. ..+.-.-. -+++||++|-.--+ ++.|.+. |.. +.=+.||+++..
T Consensus 16 l~~Ll~~~~---N~~CADC~a~--~P~WaSwn-lGvFiC~~C~giHR~lg~hiSk-----VkS-----v~LD~W~~eqv~ 79 (287)
T KOG0703|consen 16 LRELLREPD---NKVCADCGAK--GPRWASWN-LGVFICLRCAGIHRSLGVHISK-----VKS-----VTLDEWTDEQVD 79 (287)
T ss_pred HHHHHcCcc---cCcccccCCC--CCCeEEee-cCeEEEeecccccccccchhhe-----eee-----eeccccCHHHHH
Confidence 344554333 5689988876 22222222 35789999965544 6666553 222 223689999986
Q ss_pred HHHHHHHHhc-----cCHH-HHHHHhCCCCHHHHHHHHHhC-CcCCCCCCC
Q 001648 386 LLLEALELYK-----ENWN-EIAEHVATKTKAQCILHFVQM-PIEDMFLDC 429 (1038)
Q Consensus 386 LLLEAIEkyG-----gNW~-kIAEHVGTKT~eECIlHFLqL-PIED~fLe~ 429 (1038)
.| ..+| --|+ .|......-++++-+.+||+- |..-.|+..
T Consensus 80 ~m----~~~GN~~an~~~ea~~p~~~~~p~~d~~~e~FIR~KYE~kkf~~~ 126 (287)
T KOG0703|consen 80 FM----ISMGNAKANSYYEAKLPDPFRRPGPDDLVEQFIRDKYERKKFLDP 126 (287)
T ss_pred HH----HHHcchhhhhhccccCCccccCCChHHHHHHHHHHHHhhhhhccc
Confidence 44 4455 1266 344444456778889999983 333445554
No 55
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=72.70 E-value=3.5 Score=43.14 Aligned_cols=44 Identities=25% Similarity=0.440 Sum_probs=38.0
Q ss_pred CCCCCHHHHHHHHHHHHHhc--c-----CHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYK--E-----NWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG--g-----NW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
.+.||.+|+++|-|.|..|= | -++.|++.++ ||..-|-.+|..+
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~-RTsAACGFRWNs~ 54 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN-RTAAACGFRWNAY 54 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-ccHHHhcchHHHH
Confidence 46799999999999999985 2 4888999996 8999999999753
No 56
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=70.62 E-value=3 Score=50.30 Aligned_cols=81 Identities=62% Similarity=0.711 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 881 LKHAAVTALSAAAVKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALIIQA 960 (1038)
Q Consensus 881 ~~~Aa~~aL~aAA~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~~~~ 960 (1038)
+.+|+..+|++||+|||+||.+|| +|+++++.++++|++|||.||++|+|+|+++++||+++++.||+++++|++|++.
T Consensus 426 ~~~a~~~~ls~aa~k~k~la~~ee-~~~s~~~~~~~~q~~k~E~~l~~~~e~e~~~~~e~e~~~~~~~~~~~~~~~~~~~ 504 (506)
T KOG1279|consen 426 LSTAANAALSAAAVKAKLLAAQEE-RIKSLVALLEETQLKKLEAKLRHFEEAETLLMREREQLERVRQRLKAERQQFHMA 504 (506)
T ss_pred HHHHHHHHHHHHHHhhhhhhhHHH-HHHHHhhhhhhhhhhhhhHHHHHHHHHHhhhhhhhhhHHHHHHHHHhcchhhhhh
Confidence 899999999999999999999999 9999999999999999999999999999999999999999999999999999998
Q ss_pred hh
Q 001648 961 RL 962 (1038)
Q Consensus 961 ~l 962 (1038)
||
T Consensus 505 ~l 506 (506)
T KOG1279|consen 505 RL 506 (506)
T ss_pred cC
Confidence 86
No 57
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=66.78 E-value=5.2 Score=48.38 Aligned_cols=46 Identities=22% Similarity=0.495 Sum_probs=43.4
Q ss_pred CCCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 375 SGGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 375 ~~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
....|+.+|.-.||+.-..+|--|..||.+|+.+|..+|..+|+.+
T Consensus 71 k~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~ 116 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNT 116 (512)
T ss_pred ccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHH
Confidence 3578999999999999999999999999999999999999999976
No 58
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=65.97 E-value=8.2 Score=37.06 Aligned_cols=45 Identities=16% Similarity=0.344 Sum_probs=36.0
Q ss_pred CCCCCHHHHHHHHHHHHHh----c----cCHHHHHHHhCCC-----CHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELY----K----ENWNEIAEHVATK-----TKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEky----G----gNW~kIAEHVGTK-----T~eECIlHFLqL 420 (1038)
..-||+++|+.||+||-.| | .||...-++|... |..|...+.-+|
T Consensus 4 qR~WS~eDEi~iL~gl~~~~~~~G~~p~~d~~~f~~~vk~~l~~~~s~~Ql~~KirrL 61 (98)
T PF04504_consen 4 QRLWSEEDEIVILQGLIDFRAKTGKSPQPDMNAFYDFVKGSLSFDVSKNQLYDKIRRL 61 (98)
T ss_pred cCCCCchHHHHHHHHHHHHHHhcCCCCCccHHHHHHHHHHHccCCCCHHHHHHHHHHH
Confidence 3579999999999999998 4 4899998888643 677777666655
No 59
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=65.33 E-value=1.2e+02 Score=39.02 Aligned_cols=14 Identities=43% Similarity=0.762 Sum_probs=9.6
Q ss_pred CccccccccCCCCC
Q 001648 342 FDLCTDCFNNGKFG 355 (1038)
Q Consensus 342 fdLC~dCFs~G~fp 355 (1038)
++-|+..|.+.+|+
T Consensus 212 iIrClka~mNn~~G 225 (1102)
T KOG1924|consen 212 IIRCLKAFMNNKFG 225 (1102)
T ss_pred HHHHHHHHhccccc
Confidence 45677777777765
No 60
>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=59.83 E-value=4.1 Score=30.95 Aligned_cols=27 Identities=33% Similarity=0.864 Sum_probs=12.4
Q ss_pred cCCCCCCCCCC-CceeccCCCCCcccccc
Q 001648 321 HCNSCSADCSR-KRYHCQKQADFDLCTDC 348 (1038)
Q Consensus 321 ~Cn~Cg~dcs~-~~Y~C~kc~dfdLC~dC 348 (1038)
.|+.|+..+.. ..|+|..| +|.|...|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~C-df~lH~~C 29 (30)
T PF07649_consen 2 RCDACGKPIDGGWFYRCSEC-DFDLHEEC 29 (30)
T ss_dssp --TTTS----S--EEE-TTT------HHH
T ss_pred cCCcCCCcCCCCceEECccC-CCccChhc
Confidence 69999999988 89999998 68888776
No 61
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=59.74 E-value=5.5 Score=48.22 Aligned_cols=42 Identities=24% Similarity=0.439 Sum_probs=39.9
Q ss_pred CCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHH
Q 001648 376 GGKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHF 417 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHF 417 (1038)
...|+..|+..|+-+++.|| .||..||..++.++..+|..|+
T Consensus 20 ~gsw~~~EDe~l~~~vk~l~~nnws~vas~~~~~~~kq~~~rw 62 (512)
T COG5147 20 GGSWKRTEDEDLKALVKKLGPNNWSKVASLLISSTGKQSSNRW 62 (512)
T ss_pred CCCCCCcchhHHHHHHhhcccccHHHHHHHhcccccccccchh
Confidence 46899999999999999999 7899999999999999999999
No 62
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=59.71 E-value=43 Score=42.70 Aligned_cols=78 Identities=22% Similarity=0.297 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHH-HHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 879 DKLKHAAVTALSA-AAVKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALI 957 (1038)
Q Consensus 879 ~~~~~Aa~~aL~a-AA~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~ 957 (1038)
.-+..|..++|.. .=-+|+.+...++.++.+|+..|.+ +.+.+|.+....+++..-+++.++++|+.+++|-.+|..+
T Consensus 489 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~l~~-~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~~~~~~ 567 (782)
T PRK00409 489 NAFEIAKRLGLPENIIEEAKKLIGEDKEKLNELIASLEE-LERELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEEDKL 567 (782)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHhhhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666543 3357888888899999999998754 3344666666666665555555555555555555554444
No 63
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=57.95 E-value=16 Score=36.49 Aligned_cols=60 Identities=18% Similarity=0.344 Sum_probs=42.7
Q ss_pred CCCCCCCCCCCceeccCCCCCccccccccCCCCCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhccCHHHH
Q 001648 322 CNSCSADCSRKRYHCQKQADFDLCTDCFNNGKFGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYKENWNEI 401 (1038)
Q Consensus 322 Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyGgNW~kI 401 (1038)
|-.|+..+.-.+++|..|.. --.|.|.. ..| .--..|++.+++..-+..||-.+|
T Consensus 1 CPvCg~~l~vt~l~C~~C~t-------~i~G~F~l----~~~--------------~~L~~E~~~Fi~~Fi~~rGnlKe~ 55 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGT-------EIEGEFEL----PWF--------------ARLSPEQLEFIKLFIKNRGNLKEM 55 (113)
T ss_pred CCCCCCceEEEEEEcCCCCC-------EEEeeecc----chh--------------hcCCHHHHHHHHHHHHhcCCHHHH
Confidence 88899998888999887642 11232210 001 123468888999999999999999
Q ss_pred HHHhC
Q 001648 402 AEHVA 406 (1038)
Q Consensus 402 AEHVG 406 (1038)
++.+|
T Consensus 56 e~~lg 60 (113)
T PF09862_consen 56 EKELG 60 (113)
T ss_pred HHHHC
Confidence 99999
No 64
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=54.92 E-value=61 Score=41.40 Aligned_cols=78 Identities=15% Similarity=0.144 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHH-HHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 879 DKLKHAAVTALSAA-AVKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALI 957 (1038)
Q Consensus 879 ~~~~~Aa~~aL~aA-A~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~ 957 (1038)
.-+..|..++|... =-+|+-+...++.++..|+..|.+ +.+++|.++...+.+..-+++.+++||..+++|-.+|..+
T Consensus 484 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~L~~-~~~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~~~~~~ 562 (771)
T TIGR01069 484 YAFEIAQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLSA-LEKELEQKNEHLEKLLKEQEKLKKELEQEMEELKERERNK 562 (771)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHHhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555433 346788888888899999988754 3334555555555555555555555554444444444433
No 65
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=52.92 E-value=22 Score=42.67 Aligned_cols=45 Identities=13% Similarity=0.445 Sum_probs=42.2
Q ss_pred CCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
-..||++|..||=.+.+.||.++.+|-+.+.-|+-...+.+|+..
T Consensus 187 ~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 187 PDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred cccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 368999999999999999999999999999999999999999854
No 66
>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=52.78 E-value=11 Score=28.82 Aligned_cols=28 Identities=29% Similarity=0.783 Sum_probs=23.6
Q ss_pred ccCCCCCCCCCCC-ceeccCCCCCcccccc
Q 001648 320 YHCNSCSADCSRK-RYHCQKQADFDLCTDC 348 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~-~Y~C~kc~dfdLC~dC 348 (1038)
+.|..|++.+... .|+|.+|. |.|.+.|
T Consensus 1 ~~C~~C~~~~~~~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 1 FWCDVCRRKIDGFYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCCCCCcCCCEeEEeCCCC-CeEcCcc
Confidence 3699999999988 99998875 8887776
No 67
>KOG4083 consensus Head-elevated expression protein [Transcription]
Probab=52.68 E-value=11 Score=40.30 Aligned_cols=108 Identities=18% Similarity=0.282 Sum_probs=0.0
Q ss_pred cchhhhhhcccCCCCCCCCCCcccccccCCcchhhhcccCCCCCCCCCccccccCCChHHHHHHHhh----hhhHHHHHH
Q 001648 56 SKRMTREKNLVAHTPIYNHNGPLTRARQGPTTLAAAAAFGGAPGSAGGKLEAARDDSTFEAIEELNK----ASEEWAALE 131 (1038)
Q Consensus 56 skr~~rek~~~~~~~~~~h~gp~trarq~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~----~~~~~e~~~ 131 (1038)
+|=+.||.|+ -|+++||+ +|.---+.+--++ .....+...+++|+ ...=|.+.-
T Consensus 53 ak~~~RerAA--------a~a~~~~s--~pr~r~~~~~e~~------------k~~~LAr~le~~~q~L~k~daf~Ke~l 110 (192)
T KOG4083|consen 53 AKELSRERAA--------ANAQLTRS--IPRERQSSAEEGE------------KAARLARDLEEKSQELKKQDAFYKEQL 110 (192)
T ss_pred cchhhhchhc--------cccccccc--ccccchhHhhhhh------------hHhHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HhHHH---HHHHHhhcCCceEecCCCCCCCCCCCCCHHHHHhCccccCCCCCCCChHHHHHHHHHHHHHHHhCCCcee
Q 001648 132 AKIEA---DFEAIRSRDSNVHVVPTHCGWFSWTKIHPLEEQALPAFFNGKSQDRTPDIYMEIRNWIMKKFHSNPITQI 206 (1038)
Q Consensus 132 ~~~~e---~~~~~~s~qt~~iIIPSySsWFd~~~Ih~iEk~~lPEFF~gKs~skTPe~Yl~iRN~II~~yr~nP~~yL 206 (1038)
++|++ +|..++..|-+-. +...|+++++ ..--.+-...++.|+.+||.||.+-|
T Consensus 111 arlEen~~e~ykv~~eqy~~a-------------aE~VekrFk~--------~~~~pvCqdlq~qil~Cyr~~p~e~L 167 (192)
T KOG4083|consen 111 ARLEENSSEFYKVTTEQYQKA-------------AERVEKRFKA--------YHREPVCQDLQAQILRCYRENPGEVL 167 (192)
T ss_pred HHHHhhhHHHHHHHHHHHHHH-------------HHHHHHHhhh--------hhcCCcccccHHHHHHHHhcCCCccc
No 68
>PF12776 Myb_DNA-bind_3: Myb/SANT-like DNA-binding domain; InterPro: IPR024752 This domain, found in a range of uncharacterised proteins, may be related to Myb/SANT-like DNA binding domains.
Probab=52.56 E-value=20 Score=32.76 Aligned_cols=43 Identities=37% Similarity=0.511 Sum_probs=34.6
Q ss_pred CCCHHHHHHHHHHHHHh--c-----------cCHHHHHHHhC-----CCCHHHHHHHHHhC
Q 001648 378 KWTDQETLLLLEALELY--K-----------ENWNEIAEHVA-----TKTKAQCILHFVQM 420 (1038)
Q Consensus 378 ~WTdqEeLLLLEAIEky--G-----------gNW~kIAEHVG-----TKT~eECIlHFLqL 420 (1038)
.||++.+..||+.+... . ..|+.|++.+. ..|..||..||-.|
T Consensus 1 ~Wt~~~~~~ll~~~~e~~~~g~~~~~~~fk~~~w~~i~~~~~~~~~~~~t~~qlknk~~~l 61 (96)
T PF12776_consen 1 SWTPEMTRFLLDLLIEQINKGNRPTNGGFKKEGWNNIAEEFNEKTGLNYTKKQLKNKWKTL 61 (96)
T ss_pred CCChHHHHHHHHHHHHHHHhCCCCCCCCcCHHHHHHHHHHHHHHhCCcccHHHHHHHHHHH
Confidence 49999999999998554 1 24999999885 36899999998664
No 69
>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices. It has a role in DNA binding, contacting DNA target sites similar to c-Myb (IPR014778 from INTERPRO) repeats or homeodomains []. ; GO: 0003676 nucleic acid binding, 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006338 chromatin remodeling, 0005634 nucleus; PDB: 2NOG_A 2Y9Y_A 2Y9Z_A 1OFC_X.
Probab=51.95 E-value=24 Score=35.26 Aligned_cols=43 Identities=21% Similarity=0.364 Sum_probs=34.9
Q ss_pred CCCCCHHHHHHHHHHHHHhc----cCHHHHHHHhC------------CCCHHHHHHHHH
Q 001648 376 GGKWTDQETLLLLEALELYK----ENWNEIAEHVA------------TKTKAQCILHFV 418 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG----gNW~kIAEHVG------------TKT~eECIlHFL 418 (1038)
+..||.+|+-.||-.+.+|| |+|+.|-+.|. +||+.++-.|-.
T Consensus 49 ~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~ 107 (118)
T PF09111_consen 49 KKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN 107 (118)
T ss_dssp -SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH
T ss_pred CCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH
Confidence 57899999999999999999 68999998874 789998876654
No 70
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=50.40 E-value=22 Score=46.65 Aligned_cols=40 Identities=20% Similarity=0.329 Sum_probs=36.9
Q ss_pred CCCCHHHHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHH
Q 001648 377 GKWTDQETLLLLEALELYK-ENWNEIAEHVATKTKAQCILH 416 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlH 416 (1038)
..|+..+-..++.|.++|| +|...||..|++||++|+..+
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y 865 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERY 865 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHH
Confidence 4799999999999999999 899999999999999997644
No 71
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=47.99 E-value=15 Score=43.96 Aligned_cols=52 Identities=23% Similarity=0.434 Sum_probs=42.9
Q ss_pred CCCCHHHHHHHHHHHHHhccCHHHHHH-HhCCCCHHHHHHHHHhCCcCCCCCC
Q 001648 377 GKWTDQETLLLLEALELYKENWNEIAE-HVATKTKAQCILHFVQMPIEDMFLD 428 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyGgNW~kIAE-HVGTKT~eECIlHFLqLPIED~fLe 428 (1038)
..|+.-|-.|+=||+++||.|+++|-. ++.=|+-..+|.+|+-.--.|.|..
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKttdRYvq 338 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTTDRYVQ 338 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhhhHHHH
Confidence 589999999999999999999999965 5566899999988876655555544
No 72
>smart00307 ILWEQ I/LWEQ domain. Thought to possess an F-actin binding function.
Probab=46.30 E-value=90 Score=34.03 Aligned_cols=73 Identities=27% Similarity=0.381 Sum_probs=37.5
Q ss_pred hhHHHHHHH-----HHHHHHHHHHhHHhhhhHHHHHHHHHH--HHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Q 001648 877 YIDKLKHAA-----VTALSAAAVKAKLLACQEEDQIRQLAT--SLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQR 949 (1038)
Q Consensus 877 s~~~~~~Aa-----~~aL~aAA~kAk~LA~~EErei~~Lva--~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~ 949 (1038)
+-.+|..|+ +++.-.+++|...-.+.|+.+ .--.. .+++-..+-||...+.| +||.-|+.+|+.|-..|+.
T Consensus 118 ~~~~L~~Ask~V~~At~~LVaaak~~~~~~~e~~~-~~d~s~l~~~~~k~~emE~Qv~IL-~lE~~L~~ar~~L~~lRk~ 195 (200)
T smart00307 118 AQDRLQAASKAVTNATANLVAAVKSGMIFDEEQEE-EEDFSKLSLHEGKTQEMEQQVEIL-KLENELEAARKKLAEIRKQ 195 (200)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh-hcchhccchHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 345555542 334444666766644323222 22233 34444444555666666 6676666666666666654
Q ss_pred HH
Q 001648 950 LY 951 (1038)
Q Consensus 950 L~ 951 (1038)
-|
T Consensus 196 ~Y 197 (200)
T smart00307 196 HY 197 (200)
T ss_pred Hh
Confidence 33
No 73
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=45.81 E-value=3.7e+02 Score=28.32 Aligned_cols=82 Identities=16% Similarity=0.269 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHHHHhHHhhhhHHH----------HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 001648 881 LKHAAVTALSAAAVKAKLLACQEED----------QIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRL 950 (1038)
Q Consensus 881 ~~~Aa~~aL~aAA~kAk~LA~~EEr----------ei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L 950 (1038)
|.......|.+-.+++....-.++- +|.+=-..+++..=+|-|-.-+.-++||.||..-+..+|-+.++|
T Consensus 20 V~krVee~l~~eei~~ei~rRvee~r~~me~~v~~ele~ek~~~l~e~r~keEeer~~~eELe~ileen~rkvEEAQrk~ 99 (149)
T PF15346_consen 20 VRKRVEEELNSEEIEKEIQRRVEEERKKMEKQVAEELEREKEEALEEARRKEEEERKKREELEKILEENRRKVEEAQRKL 99 (149)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444466666666555544432 222222333444445567777888999999999999999999999
Q ss_pred HHHHHHHHHHhh
Q 001648 951 YQERALIIQARL 962 (1038)
Q Consensus 951 ~~eR~~~~~~~l 962 (1038)
..+|++++..|.
T Consensus 100 aeEr~~~~Eer~ 111 (149)
T PF15346_consen 100 AEERLRMEEERR 111 (149)
T ss_pred HHHHHHHHHHHH
Confidence 999999987765
No 74
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=44.85 E-value=18 Score=41.55 Aligned_cols=98 Identities=16% Similarity=0.260 Sum_probs=55.5
Q ss_pred cccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhccC
Q 001648 319 EYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYKEN 397 (1038)
Q Consensus 319 ~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyGgN 397 (1038)
...|.-|+..- -.|.-|. -++.||++|-.--+ ++.|.+ |++ . ..=+.||.+|..+|.-+=...-..
T Consensus 20 Nk~CaDCga~~-P~W~S~n--lGvfiCi~CagvHRsLGvhiS---~VK--S-----itLD~wt~~~l~~m~~gGN~~a~~ 86 (319)
T COG5347 20 NKKCADCGAPN-PTWASVN--LGVFLCIDCAGVHRSLGVHIS---KVK--S-----LTLDNWTEEELRRMEVGGNSNANR 86 (319)
T ss_pred cCccccCCCCC-CceEecc--cCeEEEeecchhhhcccccee---eee--e-----eecccCCHHHHHHHHHhcchhhhh
Confidence 45799898765 3454443 46899999976655 565544 222 1 112579999988765411110012
Q ss_pred HHHHHH---H-hC--CCCHHHHHHHHHh-CCcCCCCCCC
Q 001648 398 WNEIAE---H-VA--TKTKAQCILHFVQ-MPIEDMFLDC 429 (1038)
Q Consensus 398 W~kIAE---H-VG--TKT~eECIlHFLq-LPIED~fLe~ 429 (1038)
|.+--- + +. .+.-...+.+|++ +|..-.|...
T Consensus 87 ~~e~~~~~~~~~~~k~~yd~~v~~~y~~~ky~~~~~~~~ 125 (319)
T COG5347 87 FYEKNLLDQLLLPIKAKYDSSVAKKYIRKKYELKKFIDD 125 (319)
T ss_pred HhccCCCcccccccccccCHHHHHHHHHHHHHhhhcccc
Confidence 322111 1 12 3566777888876 6666666655
No 75
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=41.20 E-value=28 Score=37.03 Aligned_cols=41 Identities=22% Similarity=0.417 Sum_probs=34.2
Q ss_pred CCCCCHHHHHHHHHHHHHhc--c-----CHHHHHHHhCCCCHHHHHHHH
Q 001648 376 GGKWTDQETLLLLEALELYK--E-----NWNEIAEHVATKTKAQCILHF 417 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyG--g-----NW~kIAEHVGTKT~eECIlHF 417 (1038)
.+.||.+++++|-+.|..|+ | -...++..++ ||...|-.+|
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L~-rt~aac~fRw 52 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDALK-RTAAACGFRW 52 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHh-hhHHHHHhHH
Confidence 36799999999999999998 3 3666666665 8999999999
No 76
>PLN03162 golden-2 like transcription factor; Provisional
Probab=41.08 E-value=54 Score=38.65 Aligned_cols=22 Identities=23% Similarity=0.335 Sum_probs=16.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCC
Q 001648 976 RNPMTFANSVARPPMSMTSPRP 997 (1038)
Q Consensus 976 r~~~~~~n~~~rp~~~m~~~~p 997 (1038)
-+|+||...++||+|.|.+++.
T Consensus 326 ~~pigfP~~~P~P~~~~~~~P~ 347 (526)
T PLN03162 326 LVPIHTPHIQPRPSMAMAMQPQ 347 (526)
T ss_pred ccccCCCCCCCCCCccCCCCCC
Confidence 3678898778999988866433
No 77
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=40.30 E-value=15 Score=44.02 Aligned_cols=43 Identities=30% Similarity=0.478 Sum_probs=38.9
Q ss_pred CCCCCHHHHHHHHHHHHHhccCHHHHHHHhCCCCHHHHHHHHHh
Q 001648 376 GGKWTDQETLLLLEALELYKENWNEIAEHVATKTKAQCILHFVQ 419 (1038)
Q Consensus 376 ~~~WTdqEeLLLLEAIEkyGgNW~kIAEHVGTKT~eECIlHFLq 419 (1038)
.-+||..|-- |+....+|+++...|++.++|||++|....||+
T Consensus 470 ~~~wSp~e~s-~ircf~~y~~~fe~ia~l~~tktp~Q~~~fy~~ 512 (534)
T KOG1194|consen 470 NYGWSPEEKS-AIRCFHWYKDNFELIAELMATKTPEQIKKFYMD 512 (534)
T ss_pred cCCCCCcccc-cccCchhhccchHHHHHHhcCCCHHHHHHHhcC
Confidence 4589988877 888889999999999999999999999999986
No 78
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=39.06 E-value=1.1e+02 Score=34.94 Aligned_cols=61 Identities=28% Similarity=0.287 Sum_probs=44.0
Q ss_pred HHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhh----HHHHHHHHHHHHHHHHHHHHHHH
Q 001648 889 LSAAAVKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAF----FNEMDNVTMRVREQLERSRQRLY 951 (1038)
Q Consensus 889 L~aAA~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~----F~ElE~~l~~ere~lE~~Rq~L~ 951 (1038)
+-.||+++--|+..| +-|+.-| ..|.+|++++-.+|-- -++|+.-++|-+.+|||.||+|-
T Consensus 93 ~~~aa~Rplel~e~E-kvlk~aI-q~i~~~~q~~~~~Lnnvasdea~L~~Kierrk~ElEr~rkRle 157 (338)
T KOG3647|consen 93 LMSAAQRPLELLEVE-KVLKSAI-QAIQVRLQSSRAQLNNVASDEAALGSKIERRKAELERTRKRLE 157 (338)
T ss_pred HHHHHcCCccHHHHH-HHHHHHH-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666666644 5555444 3466788887777754 57899999999999999999873
No 79
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=39.05 E-value=26 Score=28.63 Aligned_cols=51 Identities=18% Similarity=0.123 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHhCCCcee-ehhhhhcccccchHHHHHHHHhhhhhcccccC
Q 001648 187 YMEIRNWIMKKFHSNPITQI-ELKDLSELEVGSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 187 Yl~iRN~II~~yr~nP~~yL-T~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
|-.+|+.|+..+. .|...| |..+..+.+.=....+.|.+.-|+.-|+|-..
T Consensus 2 ~~~l~~~i~~~~~-~~~~~l~s~~~la~~~~vs~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 2 AERLREDIVSGEL-RPGDKLPSERELAAQLGVSRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred HHHHHHHHHcCCC-CCCCcCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEe
Confidence 5667777766533 355567 78887777655788999999999999999654
No 80
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=38.89 E-value=49 Score=27.41 Aligned_cols=44 Identities=18% Similarity=0.216 Sum_probs=34.1
Q ss_pred HHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccCC
Q 001648 193 WIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFHP 239 (1038)
Q Consensus 193 ~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~~ 239 (1038)
.|+......+ +++.+..+.+.-....+.|+..-|..+|+|+...
T Consensus 11 ~il~~l~~~~---~~~~ei~~~~~i~~~~i~~~l~~L~~~g~i~~~~ 54 (78)
T cd00090 11 RILRLLLEGP---LTVSELAERLGLSQSTVSRHLKKLEEAGLVESRR 54 (78)
T ss_pred HHHHHHHHCC---cCHHHHHHHHCcCHhHHHHHHHHHHHCCCeEEEE
Confidence 3444333344 8888888877668899999999999999999753
No 81
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=38.56 E-value=42 Score=28.07 Aligned_cols=45 Identities=9% Similarity=0.072 Sum_probs=36.5
Q ss_pred HHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccC
Q 001648 193 WIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 193 ~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
.||+.+...+.. +|++++-+.+.=.-..+.|+..-|.++|+|...
T Consensus 7 ~iL~~l~~~~~~-~t~~eia~~~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 7 RILEALAESGGP-LTLSEIARALGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHCHHCTBSC-EEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHcCCCC-CCHHHHHHHHCcCHHHHHHHHHHHHHCcCeecC
Confidence 366777777664 899999888777889999999999999999754
No 82
>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=38.18 E-value=2.6e+02 Score=30.02 Aligned_cols=72 Identities=15% Similarity=0.227 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHHHHHhHHhhh-hHHHHHHHHHHHHHHHHHHH-------HHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 001648 879 DKLKHAAVTALSAAAVKAKLLAC-QEEDQIRQLATSLIEKQLQK-------LEAKLAFFNEMDNVTMRVREQLERSRQRL 950 (1038)
Q Consensus 879 ~~~~~Aa~~aL~aAA~kAk~LA~-~EErei~~Lva~~ie~qlkK-------lElKLk~F~ElE~~l~~ere~lE~~Rq~L 950 (1038)
+-|..|-++|++|+-++.-.|.. .|-|--.|..+.+++ |..- +-.-||||-.+-.-|..-..+.-|+.|+|
T Consensus 11 ~~v~aaraaavaa~earc~~~vaekea~a~v~fa~Iaae-kvEavk~ss~Vd~vD~KYhv~IknslryaIQEmRRQs~~l 89 (207)
T PF05928_consen 11 DVVDAARAAAVAASEARCVVFVAEKEARAGVRFADIAAE-KVEAVKISSKVDTVDMKYHVQIKNSLRYAIQEMRRQSQQL 89 (207)
T ss_pred HHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHh-HHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44555556667666666555443 333444444444333 3332 23358899998888877777666666655
Q ss_pred H
Q 001648 951 Y 951 (1038)
Q Consensus 951 ~ 951 (1038)
-
T Consensus 90 ~ 90 (207)
T PF05928_consen 90 P 90 (207)
T ss_pred h
Confidence 3
No 83
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=36.55 E-value=59 Score=36.85 Aligned_cols=54 Identities=37% Similarity=0.460 Sum_probs=28.9
Q ss_pred CchhhhccCCCccccccccccCCCCCCCCCccccccCccccccccccccCCCCCCcchhhhhhcccC
Q 001648 1 MEEKRREAGAQPAATSSAAAGAESAASEPASSRRRAGAHKRKASALSATNASSTPSKRMTREKNLVA 67 (1038)
Q Consensus 1 me~k~~~~~~~~~~~~~~~~~~~~~~~ep~~~rrr~~~~krk~~~l~~~~~~~~~skr~~rek~~~~ 67 (1038)
|||.- ++++++.+|++|+-.+-+-|...|--++|. |..+++|+.|-.-|--.++
T Consensus 1 meeqq----p~pg~AAAA~~g~~~~~~spg~~~~sGsGS---------sP~~a~p~~~~a~~lp~v~ 54 (342)
T KOG0493|consen 1 MEEQQ----PQPGAAAAAAAGAAHAHASPGQQRLSGSGS---------SPASATPLTIKAEELPSVI 54 (342)
T ss_pred Ccccc----CCcchhhhhcccccccccCcccCCCCCCCC---------CCCCCCCCCccccccchhh
Confidence 67765 344344455556655555555444433332 4456677777665555444
No 84
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=35.91 E-value=61 Score=27.16 Aligned_cols=43 Identities=19% Similarity=0.175 Sum_probs=34.5
Q ss_pred HhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccCCCC
Q 001648 199 HSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFHPFP 241 (1038)
Q Consensus 199 r~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~~~P 241 (1038)
..+|...+|++++.+.+.=+-.++.|+..=|+.+|||--..++
T Consensus 15 ~~~~~~~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~ 57 (62)
T PF12802_consen 15 ARHPGEELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDP 57 (62)
T ss_dssp HHSTTSGEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-S
T ss_pred HHCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 3455557999999998877999999999999999999776543
No 85
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=35.78 E-value=2.3e+02 Score=28.79 Aligned_cols=78 Identities=26% Similarity=0.299 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHhhhh-----HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 879 DKLKHAAVTALSAAAVKAKLLACQ-----EEDQIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQE 953 (1038)
Q Consensus 879 ~~~~~Aa~~aL~aAA~kAk~LA~~-----EErei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~e 953 (1038)
..|+..-..+++-+.+|.-+ +.. .-+++.+-+. .++.|+++||.+++.+.++-..|++ ++-+..+.+|..+
T Consensus 47 ~~I~~lr~~G~sL~eI~~~l-~~~~~~~~~~~~~~~~~~-~l~~~i~~Le~~l~~L~~~~~~l~~--~~~~~~~~~~~~~ 122 (134)
T cd04779 47 QLIEHLKGQRLSLAEIKDQL-EEVQRSDKEQREVAQEVQ-LVCDQIDGLEHRLKQLKPIASQTDR--AQRMKMTKELSQQ 122 (134)
T ss_pred HHHHHHHHCCCCHHHHHHHH-HhhccccchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhcCHH
Confidence 33444444445555555432 221 1233444444 5899999999999999999999987 6667889999998
Q ss_pred HHHHHHH
Q 001648 954 RALIIQA 960 (1038)
Q Consensus 954 R~~~~~~ 960 (1038)
-++.|.+
T Consensus 123 ~~~~~~~ 129 (134)
T cd04779 123 VLTLIQS 129 (134)
T ss_pred hHHHHHH
Confidence 8888765
No 86
>PF02954 HTH_8: Bacterial regulatory protein, Fis family; InterPro: IPR002197 The Factor for Inversion Stimulation (FIS) protein is a regulator of bacterial functions, and binds specifically to weakly related DNA sequences [,]. It activates ribosomal RNA transcription, and is involved in upstream activation of rRNA promoters. The protein has been shown to play a role in the regulation of virulence factors in both Salmonella typhimurium and Escherichia coli []. Some of its functions include inhibition of the initiation of DNA replication from the OriC site, and promotion of Hin-mediated DNA inversion. In its C-terminal extremity, FIS encodes a helix-turn-helix (HTH) DNA- binding motif, which shares a high degree of similarity with other HTH motifs of more primitive bacterial transcriptional regulators, such as the nitrogen assimilation regulatory proteins (NtrC) from species like Azobacter, Rhodobacter and Rhizobium. This has led to speculation that both evolved from a single common ancestor []. The 3-dimensional structure of the E. coli FIS DNA-binding protein has been determined by means of X-ray diffraction to 2.0A resolution [,]. FIS is composed of four alpha-helices tightly intertwined to form a globular dimer with two protruding HTH motifs. The 24 N-terminal amino acids are poorly defined, indicating that they might act as `feelers' suitable for DNA or protein (invertase) recognition []. Other proteins belonging to this subfamily include: E. coli: atoC, hydG, ntrC, fhlA, tyrR, Rhizobium spp.: ntrC, nifA, dctD ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NTC_A 3JRH_A 3JRB_A 3IV5_A 3JRI_A 1ETQ_A 1ETW_B 1ETY_A 3JRF_A 3JRA_A ....
Probab=35.76 E-value=48 Score=26.94 Aligned_cols=26 Identities=27% Similarity=0.211 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhccCHHHHHHHhCC
Q 001648 382 QETLLLLEALELYKENWNEIAEHVAT 407 (1038)
Q Consensus 382 qEeLLLLEAIEkyGgNW~kIAEHVGT 407 (1038)
-|-..|.++|+.|+||....|+.+|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lgi 30 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLGI 30 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHTS
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHCC
Confidence 47778999999999999999999993
No 87
>PLN03131 hypothetical protein; Provisional
Probab=35.45 E-value=48 Score=41.38 Aligned_cols=93 Identities=19% Similarity=0.405 Sum_probs=50.5
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHH------H
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEAL------E 392 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAI------E 392 (1038)
..|.-|+.. ...+-|.. -.+.||+.|-.--+ ++ | +|.. +.-..||++|...| +.+ +
T Consensus 24 k~CADCga~--~P~WASiN-lGIFICi~CSGIHRsLg-----h---RVKS-----VTLD~WtdeEV~~M-k~gGN~~AN~ 86 (705)
T PLN03131 24 RRCINCNSL--GPQFVCTN-FWTFICMTCSGIHREFT-----H---RVKS-----VSMSKFTSQDVEAL-QNGGNQRARE 86 (705)
T ss_pred CccccCCCC--CCCeeEec-cceEEchhchhhhcccC-----c---cccc-----ccCCCCCHHHHHHH-HHhccHHHHH
Confidence 468888764 34555554 46789999975544 32 1 2332 12368999886433 222 2
Q ss_pred HhccCHHHHHHHhCCCCHHHHHHHHHhC-CcCCCCCCC
Q 001648 393 LYKENWNEIAEHVATKTKAQCILHFVQM-PIEDMFLDC 429 (1038)
Q Consensus 393 kyGgNW~kIAEHVGTKT~eECIlHFLqL-PIED~fLe~ 429 (1038)
.|..+|..--..+...+..+-+..||+. |++-.|+..
T Consensus 87 iyeanwd~~r~~lP~~sd~ekrr~FIR~KYVeKRFa~~ 124 (705)
T PLN03131 87 IYLKDWDQQRQRLPDNSKVDKIREFIKDIYVDKKYAGG 124 (705)
T ss_pred HHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhhhcC
Confidence 2334565332233333445556678773 444555554
No 88
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=34.98 E-value=78 Score=26.05 Aligned_cols=45 Identities=20% Similarity=0.150 Sum_probs=37.5
Q ss_pred HHHHHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhccccc
Q 001648 190 IRNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINF 237 (1038)
Q Consensus 190 iRN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy 237 (1038)
.|-.||..-... .+++.++.+.+.=+-..+.+=.+.|...|||.+
T Consensus 3 ~R~~Il~~L~~~---~~~~~el~~~l~~s~~~vs~hL~~L~~~glV~~ 47 (47)
T PF01022_consen 3 TRLRILKLLSEG---PLTVSELAEELGLSQSTVSHHLKKLREAGLVEK 47 (47)
T ss_dssp HHHHHHHHHTTS---SEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHhC---CCchhhHHHhccccchHHHHHHHHHHHCcCeeC
Confidence 577888777773 489999999887788999999999999999975
No 89
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=34.11 E-value=52 Score=40.74 Aligned_cols=94 Identities=20% Similarity=0.414 Sum_probs=50.6
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHH-----HH
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEAL-----EL 393 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAI-----Ek 393 (1038)
..|.-|+... ..|-|.. -.+.||+.|-.--+ ++ | +|.. +.-+.||.+|...|..+= +.
T Consensus 24 k~CADCgs~~--P~WASiN-lGIFICi~CSGIHRsLG-----h---RVKS-----LSLDkWT~EEVe~Mk~gGN~~AN~i 87 (648)
T PLN03119 24 RRCINCNSLG--PQYVCTT-FWTFVCMACSGIHREFT-----H---RVKS-----VSMSKFTSKEVEVLQNGGNQRAREI 87 (648)
T ss_pred CccccCCCCC--CCceeec-cceEEeccchhhhccCC-----c---eeec-----cccCCCCHHHHHHHHHhchHHHHHH
Confidence 4688888643 5566655 35789999965443 32 1 3333 223689998865333211 22
Q ss_pred hccCHHHHHHHhCCCCHHHHHHHHHhC-CcCCCCCCC
Q 001648 394 YKENWNEIAEHVATKTKAQCILHFVQM-PIEDMFLDC 429 (1038)
Q Consensus 394 yGgNW~kIAEHVGTKT~eECIlHFLqL-PIED~fLe~ 429 (1038)
|..+|..--..+...+..+-+..||+. |++-.|...
T Consensus 88 yeanw~~~~~~~P~~sD~e~lr~FIR~KYVeKRF~~~ 124 (648)
T PLN03119 88 YLKNWDHQRQRLPENSNAERVREFIKNVYVQKKYAGA 124 (648)
T ss_pred HHhhcccccCCCCCCccHHHHHHHHHHHHhhhhccCc
Confidence 224565432223333334556678874 444455554
No 90
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=33.96 E-value=62 Score=36.18 Aligned_cols=15 Identities=20% Similarity=0.399 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHh
Q 001648 913 SLIEKQLQKLEAKLA 927 (1038)
Q Consensus 913 ~~ie~qlkKlElKLk 927 (1038)
+|-|.=||+|..+++
T Consensus 51 lvQE~AL~~a~~ri~ 65 (247)
T PF09849_consen 51 LVQEQALKQAQARIQ 65 (247)
T ss_pred HHHHHHHHHHHHHHH
Confidence 445666777776664
No 91
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=33.54 E-value=74 Score=40.81 Aligned_cols=8 Identities=63% Similarity=0.733 Sum_probs=3.4
Q ss_pred HHHHHHHH
Q 001648 919 LQKLEAKL 926 (1038)
Q Consensus 919 lkKlElKL 926 (1038)
|+|+|.|+
T Consensus 497 l~k~e~Ki 504 (1102)
T KOG1924|consen 497 LQKHEEKI 504 (1102)
T ss_pred HHHhhhhc
Confidence 44444443
No 92
>smart00595 MADF subfamily of SANT domain.
Probab=33.03 E-value=36 Score=30.85 Aligned_cols=23 Identities=26% Similarity=0.647 Sum_probs=21.2
Q ss_pred CHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 397 NWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 397 NW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
-|..||..+|. |.++|+.+|-.|
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 69999999997 999999999876
No 93
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=32.78 E-value=52 Score=31.62 Aligned_cols=50 Identities=18% Similarity=0.195 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHhCCCceeehhhhhcccc-----cchHHHHHHHHhhhhhcccccC
Q 001648 188 MEIRNWIMKKFHSNPITQIELKDLSELEV-----GSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 188 l~iRN~II~~yr~nP~~yLT~T~cRr~L~-----GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
-.-|..|++....++. .+|+.++-..|. =+...|.|...+|+.-|||.=-
T Consensus 7 T~~R~~Il~~l~~~~~-~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~ 61 (120)
T PF01475_consen 7 TPQRLAILELLKESPE-HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKI 61 (120)
T ss_dssp HHHHHHHHHHHHHHSS-SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEE
T ss_pred CHHHHHHHHHHHcCCC-CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEE
Confidence 4568899999999888 899999877663 2678899999999999999754
No 94
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=31.68 E-value=1.7e+02 Score=36.48 Aligned_cols=17 Identities=47% Similarity=0.503 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHH
Q 001648 936 TMRVREQLERSRQRLYQ 952 (1038)
Q Consensus 936 l~~ere~lE~~Rq~L~~ 952 (1038)
|.+||..||++||+|-.
T Consensus 651 l~~erlrle~qRQrLER 667 (940)
T KOG4661|consen 651 LKAERLRLERQRQRLER 667 (940)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45566666666666543
No 95
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=31.22 E-value=92 Score=37.55 Aligned_cols=81 Identities=17% Similarity=0.252 Sum_probs=47.6
Q ss_pred ccccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhcc
Q 001648 318 VEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYKE 396 (1038)
Q Consensus 318 v~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyGg 396 (1038)
....|.-|+..-.. | |...-++.||++|-.--+ ++.|++ |++-.. + +.||-.+... .++||
T Consensus 22 ~NKvCFDCgAknPt-W--aSVTYGIFLCiDCSAvHRnLGVHiS---FVRSTn-----L--DsWs~~qLR~-----M~~GG 83 (454)
T KOG0706|consen 22 ENKVCFDCGAKNPT-W--ASVTYGIFLCIDCSAVHRNLGVHIS---FVRSTN-----L--DSWSWEQLRR-----MQVGG 83 (454)
T ss_pred CCceecccCCCCCC-c--eeecceEEEEEecchhhhccccceE---EEeecc-----c--ccCCHHHHhH-----hhhcC
Confidence 44679999876432 1 222346899999977665 788877 776433 2 2399887653 45676
Q ss_pred CHH--HHHHHhCCCCHHHHHHHH
Q 001648 397 NWN--EIAEHVATKTKAQCILHF 417 (1038)
Q Consensus 397 NW~--kIAEHVGTKT~eECIlHF 417 (1038)
|=+ ..-+.-|-++. +|..+|
T Consensus 84 N~nA~~FFkqhg~~t~-d~~aKY 105 (454)
T KOG0706|consen 84 NANARVFFKQHGCVTL-DANAKY 105 (454)
T ss_pred chhHHHHHHHcCCcch-hhhhhh
Confidence 532 33333333333 555555
No 96
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=30.31 E-value=43 Score=32.62 Aligned_cols=84 Identities=24% Similarity=0.360 Sum_probs=44.3
Q ss_pred ccCCCCCCCCCCCceeccCCCCCccccccccCCC-CCCCCCCCCceeecCCCCCCCCCCCCCHHHHHHHHHHHHHhc-cC
Q 001648 320 YHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGK-FGSDMSSSDFILMVPGEAAGVSGGKWTDQETLLLLEALELYK-EN 397 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~-fp~h~sshDFi~ie~~e~~~~~~~~WTdqEeLLLLEAIEkyG-gN 397 (1038)
..|.-|+.. ...+-+.. -...||..|-.--+ ++.|.+ |++ . +.-+.|+.+|.. +| +..| ..
T Consensus 4 ~~CaDC~~~--~p~w~s~~-~GifvC~~CsgiHR~lg~his---~Vk--S-----l~md~w~~~~i~-~~---~~~GN~~ 66 (112)
T smart00105 4 KKCFDCGAP--NPTWASVN-LGVFLCIECSGIHRSLGVHIS---KVR--S-----LTLDTWTEEELR-LL---QKGGNEN 66 (112)
T ss_pred CcccCCCCC--CCCcEEec-cceeEhHHhHHHHHhcCCCcC---eee--e-----cccCCCCHHHHH-HH---HHhhhHH
Confidence 368778763 34444443 46789999976544 454432 222 2 122589997764 33 3333 22
Q ss_pred HHHHHHHhC--------CCCHHHHHHHHHhC
Q 001648 398 WNEIAEHVA--------TKTKAQCILHFVQM 420 (1038)
Q Consensus 398 W~kIAEHVG--------TKT~eECIlHFLqL 420 (1038)
++.+=+.-+ ..+..+-+..||+.
T Consensus 67 ~n~~~e~~~~~~~~~~~~~~~~~~~~~fI~~ 97 (112)
T smart00105 67 ANSIWESNLDDFSLKPPDSDDQQKYESFIAA 97 (112)
T ss_pred HHHHHHhhCCccccCCCCCchHHHHHHHHHH
Confidence 333332221 11246778888874
No 97
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=29.15 E-value=1.3e+02 Score=31.12 Aligned_cols=58 Identities=22% Similarity=0.365 Sum_probs=45.6
Q ss_pred HHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHH-HHHHHHHHHHHH
Q 001648 894 VKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRV-REQLERSRQRLY 951 (1038)
Q Consensus 894 ~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~e-re~lE~~Rq~L~ 951 (1038)
.++.++++.+..+...|-...++..+.+|..||.-|..|+.+-... ...++.+|..|.
T Consensus 59 l~~~~~~ed~~~~~~~lSs~~v~~~i~~L~~kLe~~~kl~~~~~~~~~~~v~~aR~~vv 117 (142)
T PF07956_consen 59 LEKSLLSEDEKDQDPGLSSKSVNEEIEKLREKLEERKKLRELKEEKNSEEVEKARSAVV 117 (142)
T ss_pred HHHhhcccccccccccccHHHHHHHHHHHHHHHHHHHHHHhccccccchhhHHHHHHHH
Confidence 4555666566677788999999999999999999888777665543 567788888875
No 98
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=27.43 E-value=3.1e+02 Score=24.84 Aligned_cols=44 Identities=27% Similarity=0.573 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHhhHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 001648 915 IEKQLQKLEAKLAFFNE----MDNVTMRVREQLERSRQRLYQERALIIQARLG 963 (1038)
Q Consensus 915 ie~qlkKlElKLk~F~E----lE~~l~~ere~lE~~Rq~L~~eR~~~~~~~l~ 963 (1038)
++.++..||.||.|.++ |-.++-+--.++++.+ .+.+.+..||.
T Consensus 2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~-----~~l~~L~~rl~ 49 (69)
T PF04102_consen 2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQ-----RQLRLLRERLR 49 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHT--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHH
Confidence 57889999999999765 4444444444444433 34455566665
No 99
>PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B ....
Probab=26.57 E-value=1.5e+02 Score=24.56 Aligned_cols=37 Identities=14% Similarity=0.181 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHhc-cCHHHHHHHhCCCCHHHHHHHHHhC
Q 001648 383 ETLLLLEALELYK-ENWNEIAEHVATKTKAQCILHFVQM 420 (1038)
Q Consensus 383 EeLLLLEAIEkyG-gNW~kIAEHVGTKT~eECIlHFLqL 420 (1038)
=+..||..++.-+ --|.+||+.||- |...|..++-+|
T Consensus 4 ~D~~Il~~Lq~d~r~s~~~la~~lgl-S~~~v~~Ri~rL 41 (42)
T PF13404_consen 4 LDRKILRLLQEDGRRSYAELAEELGL-SESTVRRRIRRL 41 (42)
T ss_dssp HHHHHHHHHHH-TTS-HHHHHHHHTS--HHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCccHHHHHHHHCc-CHHHHHHHHHHh
Confidence 3567888888887 689999999995 888888877554
No 100
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=25.90 E-value=5.4e+02 Score=31.75 Aligned_cols=43 Identities=35% Similarity=0.353 Sum_probs=29.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Q 001648 875 DQYIDKLKHAAVTALSAAAVKAKLLACQEEDQIRQLATSLIEKQLQKLEAKLAFFNE 931 (1038)
Q Consensus 875 ~~s~~~~~~Aa~~aL~aAA~kAk~LA~~EErei~~Lva~~ie~qlkKlElKLk~F~E 931 (1038)
..|++.|.+-...-|-.|+-.| .+.|+|| |+.|-||||.++.|
T Consensus 498 ~SS~eTll~niq~llkva~dna----r~qekQi----------q~Ek~ELkmd~lre 540 (641)
T KOG3915|consen 498 LSSIETLLTNIQGLLKVAIDNA----RAQEKQI----------QLEKTELKMDFLRE 540 (641)
T ss_pred chhHHHHHHHHHHHHHHHHHHH----HHHHHHH----------HHHHHHHHHHHHHH
Confidence 3567777776666666665544 4567777 57888888888765
No 101
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=25.88 E-value=1e+02 Score=40.74 Aligned_cols=46 Identities=13% Similarity=0.279 Sum_probs=39.2
Q ss_pred CCCCCCHHHHHHHHHHHHHhc-cCHHHHHHHhC------------CCCHHHHHHHHHhC
Q 001648 375 SGGKWTDQETLLLLEALELYK-ENWNEIAEHVA------------TKTKAQCILHFVQM 420 (1038)
Q Consensus 375 ~~~~WTdqEeLLLLEAIEkyG-gNW~kIAEHVG------------TKT~eECIlHFLqL 420 (1038)
.+..||.+|+-.||-.+.+|| |+|+.|-+.|. +||+.++-.+...|
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 456799999999999999999 99999988774 78999987776543
No 102
>COG2916 Hns DNA-binding protein H-NS [General function prediction only]
Probab=25.85 E-value=2.7e+02 Score=28.64 Aligned_cols=50 Identities=22% Similarity=0.103 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 906 QIRQLATSLIEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALIIQ 959 (1038)
Q Consensus 906 ei~~Lva~~ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~~~ 959 (1038)
-|+.|.+.+-+.+++-||-+|+-|+.+.+.-..| +..+++.+.+|+.-+.
T Consensus 4 n~r~l~~~~~e~~~e~lee~~ek~eq~~~~r~~e----~~~~~~~i~e~~~~~~ 53 (128)
T COG2916 4 NIRTLRAMARETYLELLEEMLEKEEQVVQERQEE----EAAAIAEIEERQEKYG 53 (128)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH
Confidence 3789999999999999999998877766554444 4444444444444433
No 103
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=25.54 E-value=34 Score=32.13 Aligned_cols=35 Identities=29% Similarity=0.681 Sum_probs=25.0
Q ss_pred cCCCCCCCCCCCceeccC---CCCCccccccccCCCCC
Q 001648 321 HCNSCSADCSRKRYHCQK---QADFDLCTDCFNNGKFG 355 (1038)
Q Consensus 321 ~Cn~Cg~dcs~~~Y~C~k---c~dfdLC~dCFs~G~fp 355 (1038)
.|-.||.++......-.. ..+-+-|.-||.+|.|.
T Consensus 2 ~CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~G~Ft 39 (81)
T PF12674_consen 2 FCQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQNGEFT 39 (81)
T ss_pred cCCcCcCccCCccccccccCCCCchhHHHHHhcCCcee
Confidence 699999998875522221 23457899999999873
No 104
>PRK14139 heat shock protein GrpE; Provisional
Probab=25.45 E-value=97 Score=33.34 Aligned_cols=22 Identities=27% Similarity=0.388 Sum_probs=11.4
Q ss_pred HhhHHHHHHHHHHHHHHHHHHH
Q 001648 926 LAFFNEMDNVTMRVREQLERSR 947 (1038)
Q Consensus 926 Lk~F~ElE~~l~~ere~lE~~R 947 (1038)
|+.+.|+|.+-.|-.++.+..+
T Consensus 56 lR~~AefeN~rKR~~kE~e~~~ 77 (185)
T PRK14139 56 LRAKAETENVRRRAQEDVAKAH 77 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666555444444433
No 105
>KOG1778 consensus CREB binding protein/P300 and related TAZ Zn-finger proteins [Transcription]
Probab=25.39 E-value=40 Score=38.96 Aligned_cols=38 Identities=24% Similarity=0.622 Sum_probs=33.3
Q ss_pred CCccccCCCCCCCCCCCceeccCCCCCccccccccCCCC
Q 001648 316 PAVEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNGKF 354 (1038)
Q Consensus 316 ~sv~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G~f 354 (1038)
+...+.|+.|.-+. ..+++|..|.+|++|..||....+
T Consensus 166 ~~~~~~c~~c~~~~-~~~~~c~~~~d~d~~~~~~~k~~h 203 (319)
T KOG1778|consen 166 KWFAYTCPICKLEV-LTAWHCEVCPDYDRCRACEEKPLH 203 (319)
T ss_pred CceeeecCcccccc-ccccccccCCchhhhhcccCCCCC
Confidence 45678999999987 778999999999999999998863
No 106
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=25.01 E-value=29 Score=32.84 Aligned_cols=31 Identities=23% Similarity=0.654 Sum_probs=13.6
Q ss_pred cccCCCCCCCCCC-----CceeccCCCCCcccccccc
Q 001648 319 EYHCNSCSADCSR-----KRYHCQKQADFDLCTDCFN 350 (1038)
Q Consensus 319 ~~~Cn~Cg~dcs~-----~~Y~C~kc~dfdLC~dCFs 350 (1038)
...|..|+.++.. .++.|..| .|-+|-.||.
T Consensus 9 ~qiCqiCGD~VGl~~~Ge~FVAC~eC-~fPvCr~CyE 44 (80)
T PF14569_consen 9 GQICQICGDDVGLTENGEVFVACHEC-AFPVCRPCYE 44 (80)
T ss_dssp S-B-SSS--B--B-SSSSB--S-SSS------HHHHH
T ss_pred CcccccccCccccCCCCCEEEEEccc-CCccchhHHH
Confidence 4579999998764 57789988 4888999975
No 107
>PHA00442 host recBCD nuclease inhibitor
Probab=24.83 E-value=68 Score=28.67 Aligned_cols=24 Identities=25% Similarity=0.477 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHhc-cCHHHHHHHh
Q 001648 382 QETLLLLEALELYK-ENWNEIAEHV 405 (1038)
Q Consensus 382 qEeLLLLEAIEkyG-gNW~kIAEHV 405 (1038)
+-...+|++++.+| +||+.+.+.+
T Consensus 26 ek~~~~L~~Lea~GVDNW~Gy~eA~ 50 (59)
T PHA00442 26 EKDNEFLKALRACGVDNWDGYMDAV 50 (59)
T ss_pred HHhhHHHHHHHHcCCcchhhHHHHH
Confidence 44566899999999 9999988765
No 108
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=24.50 E-value=76 Score=36.91 Aligned_cols=54 Identities=19% Similarity=0.283 Sum_probs=46.7
Q ss_pred CChHHHHHHHHHHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccc
Q 001648 182 RTPDIYMEIRNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLIN 236 (1038)
Q Consensus 182 kTPe~Yl~iRN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLIN 236 (1038)
-.|.-||.+.--||..+..... .+|.++|++++.-|..-.-+|+.|.-.-|+|-
T Consensus 376 i~PkpyL~LK~~~is~~l~t~g-~f~K~d~~~Lf~id~~ka~~~YdfF~~~~Wi~ 429 (432)
T COG5114 376 ISPKPYLELKKEVISCFLRTRG-EFTKEDFNRLFGIDLGKADGLYDFFLERGWIH 429 (432)
T ss_pred CCCccHHHHHHHHHHHHHHhCC-CccHHHHHHHhCcCcchhhHHHHHHHhccccC
Confidence 3688999999999999988665 59999999988668888889999998888873
No 109
>PF08914 Myb_DNA-bind_2: Rap1 Myb domain; InterPro: IPR015010 Rap1 Myb adopts a canonical three-helix bundle tertiary structure, with the second and third helices forming a helix-turn-helix variant motif. The function is unclear but it may either interact with DNA via an adaptor protein or it may be only involved in protein-protein interactions []. ; PDB: 1FEX_A.
Probab=24.50 E-value=1.2e+02 Score=27.50 Aligned_cols=43 Identities=19% Similarity=0.354 Sum_probs=30.2
Q ss_pred CCCCHHHHHHHHHHHHHhc-------cC--HHHHHHHhC-CCCHHHHHHHHHh
Q 001648 377 GKWTDQETLLLLEALELYK-------EN--WNEIAEHVA-TKTKAQCILHFVQ 419 (1038)
Q Consensus 377 ~~WTdqEeLLLLEAIEkyG-------gN--W~kIAEHVG-TKT~eECIlHFLq 419 (1038)
...|.+|+..||+-|..+. || |.++++.-. .+|-.--..||++
T Consensus 3 ~~fT~edD~~l~~~v~~~~~~~~~~~Gn~iwk~le~~~~t~HtwQSwR~Ry~K 55 (65)
T PF08914_consen 3 TPFTEEDDAALLDYVKENERQGGSVSGNKIWKELEEKHPTRHTWQSWRDRYLK 55 (65)
T ss_dssp ----HHHHHHHHHHHHHT--STTTTTSSHHHHHHHHS-SSS--SHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCCchHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 4689999999999996553 55 999999766 6788888999987
No 110
>PRK09462 fur ferric uptake regulator; Provisional
Probab=23.69 E-value=84 Score=31.64 Aligned_cols=49 Identities=18% Similarity=0.197 Sum_probs=39.0
Q ss_pred HHHHHHHHHHhCCCceeehhhhhcccc-----cchHHHHHHHHhhhhhcccccC
Q 001648 190 IRNWIMKKFHSNPITQIELKDLSELEV-----GSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 190 iRN~II~~yr~nP~~yLT~T~cRr~L~-----GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
-|-.|++.........||..++-+.|. -+...|.|...+|..-|||.=-
T Consensus 18 qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~ 71 (148)
T PRK09462 18 PRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRH 71 (148)
T ss_pred HHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEE
Confidence 466788877776667899998866652 2789999999999999999743
No 111
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=23.43 E-value=1.5e+02 Score=25.25 Aligned_cols=51 Identities=18% Similarity=0.178 Sum_probs=36.5
Q ss_pred HHHHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccCCCC
Q 001648 191 RNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFHPFP 241 (1038)
Q Consensus 191 RN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~~~P 241 (1038)
+.|.|=.+..+....+|.+++.+.+.=|...+.|+..=|...|||.-..++
T Consensus 4 ~q~~vL~~l~~~~~~~t~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~ 54 (68)
T PF13463_consen 4 PQWQVLRALAHSDGPMTQSDLAERLGISKSTVSRIIKKLEEKGLVEKERDP 54 (68)
T ss_dssp HHHHHHHHHT--TS-BEHHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEES
T ss_pred HHHHHHHHHHccCCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCC
Confidence 444453444457778999999998887999999999999999999777654
No 112
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=23.00 E-value=1.1e+02 Score=27.63 Aligned_cols=44 Identities=16% Similarity=0.252 Sum_probs=34.4
Q ss_pred HHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccC
Q 001648 194 IMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 194 II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
|++....++. .+|+.+.-+.+.-....+.|+...|+.+|+|-..
T Consensus 10 Il~~l~~~~~-~~t~~~ia~~l~i~~~tv~r~l~~L~~~g~l~~~ 53 (91)
T smart00346 10 VLRALAEEPG-GLTLAELAERLGLSKSTAHRLLNTLQELGYVEQD 53 (91)
T ss_pred HHHHHHhCCC-CcCHHHHHHHhCCCHHHHHHHHHHHHHCCCeeec
Confidence 4444444433 6999999888866889999999999999999764
No 113
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=22.91 E-value=1.6e+02 Score=23.94 Aligned_cols=44 Identities=27% Similarity=0.260 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhccc
Q 001648 190 IRNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLI 235 (1038)
Q Consensus 190 iRN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLI 235 (1038)
.+-.|++.-+.+|. +|.++..+.+.=....+.+....|..-|+|
T Consensus 4 ~~~~Il~~l~~~~~--~t~~ela~~~~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 4 TQRKILNYLRENPR--ITQKELAEKLGISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHHHCTT--S-HHHHHHHHTS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHHcCC--CCHHHHHHHhCCCHHHHHHHHHHHHHCcCc
Confidence 34567777777887 899999888766888999999999999998
No 114
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=22.79 E-value=1.5e+02 Score=30.30 Aligned_cols=54 Identities=20% Similarity=0.219 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHh---CCCceeehh-hhhcccccchHHHHHHHHhhhhhcccccC
Q 001648 185 DIYMEIRNWIMKKFHS---NPITQIELK-DLSELEVGSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 185 e~Yl~iRN~II~~yr~---nP~~yLT~T-~cRr~L~GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
.+|..|.|.|...-.. .|...|-.+ +.-..+.-..+.+.|.+.-||+-|+|.-.
T Consensus 11 PIY~QI~~qIk~~I~~g~l~pGdkLPSvRelA~~~~VNpnTv~raY~eLE~eG~i~t~ 68 (125)
T COG1725 11 PIYEQIANQIKEQIASGELKPGDKLPSVRELAKDLGVNPNTVQRAYQELEREGIVETK 68 (125)
T ss_pred CHHHHHHHHHHHHHHhCCcCCCCCCCcHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 5999999999887764 788777443 33333434889999999999999999876
No 115
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=22.42 E-value=1.1e+02 Score=29.05 Aligned_cols=47 Identities=19% Similarity=0.145 Sum_probs=38.0
Q ss_pred HHHHHHHHHhCCCceeehhhhhcccc-----cchHHHHHHHHhhhhhcccccC
Q 001648 191 RNWIMKKFHSNPITQIELKDLSELEV-----GSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 191 RN~II~~yr~nP~~yLT~T~cRr~L~-----GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
|-.|++..... ...+|+.++-..|. -+...+.|...+|..-|||.--
T Consensus 3 R~~Il~~l~~~-~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~ 54 (116)
T cd07153 3 RLAILEVLLES-DGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREI 54 (116)
T ss_pred HHHHHHHHHhC-CCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEE
Confidence 67788877776 46799998876662 3788999999999999999854
No 116
>KOG1356 consensus Putative transcription factor 5qNCA, contains JmjC domain [Transcription]
Probab=22.25 E-value=41 Score=43.07 Aligned_cols=37 Identities=19% Similarity=0.637 Sum_probs=30.7
Q ss_pred CCCccccCCCCCCCCCCCceeccCCCCCccccccccCC
Q 001648 315 GPAVEYHCNSCSADCSRKRYHCQKQADFDLCTDCFNNG 352 (1038)
Q Consensus 315 ~~sv~~~Cn~Cg~dcs~~~Y~C~kc~dfdLC~dCFs~G 352 (1038)
...+...|+.|..-+-..+..|.+|. |.+|.+||..-
T Consensus 225 ~~g~~~mC~~C~~tlfn~hw~C~~C~-~~~Cl~C~r~~ 261 (889)
T KOG1356|consen 225 VKGIREMCDRCETTLFNIHWRCPRCG-FGVCLDCYRKW 261 (889)
T ss_pred ccCcchhhhhhcccccceeEEccccC-Ceeeecchhhc
Confidence 34567889999988777888999995 77999999766
No 117
>KOG4479 consensus Transcription factor e(y)2 [Transcription]
Probab=21.98 E-value=1.2e+02 Score=29.28 Aligned_cols=44 Identities=30% Similarity=0.256 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHhCCCceeehhhhh-------cccccch---HHHHHHHHhhhhh
Q 001648 185 DIYMEIRNWIMKKFHSNPITQIELKDLS-------ELEVGSL---DARQEVMEFLDYW 232 (1038)
Q Consensus 185 e~Yl~iRN~II~~yr~nP~~yLT~T~cR-------r~L~GDv---~aI~RVh~FLE~W 232 (1038)
++-..+||-|+.+=-.| +|+.+.- |-|+-|+ ..++|||.||+++
T Consensus 36 ~ik~mcrniimEkG~~n----~tvdqL~AeitPkaRaLVPd~VKkEll~rirt~L~~~ 89 (92)
T KOG4479|consen 36 DIKEMCRNIIMEKGVDN----ITVDQLAAEITPKARALVPDVVKKELLLRIRTALDKH 89 (92)
T ss_pred HHHHHHHHHHHHhcccc----ccHHHHHHHhCchhhhhchHHHHHHHHHHHHHHHHHH
Confidence 56678999999887776 5555442 3455554 5789999999986
No 118
>PHA02666 hypothetical protein; Provisional
Probab=21.75 E-value=68 Score=35.44 Aligned_cols=25 Identities=28% Similarity=0.428 Sum_probs=17.6
Q ss_pred hhhhhcccCCCCCCCCCCccccc-ccC
Q 001648 59 MTREKNLVAHTPIYNHNGPLTRA-RQG 84 (1038)
Q Consensus 59 ~~rek~~~~~~~~~~h~gp~tra-rq~ 84 (1038)
+-|-+-..-|++. -||||..|| ||+
T Consensus 88 H~r~~~~~~~~~~-~~~~~~~~a~~~~ 113 (287)
T PHA02666 88 HNRGSTSSSHNHH-AHRGPHQSAHRRS 113 (287)
T ss_pred hhcCCCCcccCcc-ccccccccchhcc
Confidence 3344444467776 999999999 775
No 119
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=20.88 E-value=1.7e+02 Score=26.10 Aligned_cols=50 Identities=10% Similarity=-0.035 Sum_probs=43.8
Q ss_pred HHHHHHHHHHhCCCceeehhhhhcccccchHHHHHHHHhhhhhcccccCC
Q 001648 190 IRNWIMKKFHSNPITQIELKDLSELEVGSLDARQEVMEFLDYWGLINFHP 239 (1038)
Q Consensus 190 iRN~II~~yr~nP~~yLT~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~~ 239 (1038)
.++.|+.....++..-+|..+.-+.|.=+...+.|+..=|+.-|+|-+..
T Consensus 7 ~~~~IL~~L~~~g~~~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~ 56 (68)
T smart00550 7 LEEKILEFLENSGDETSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQG 56 (68)
T ss_pred HHHHHHHHHHHCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecC
Confidence 57889999999877569999998888768889999999999999998864
No 120
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=20.84 E-value=33 Score=29.63 Aligned_cols=29 Identities=21% Similarity=0.566 Sum_probs=21.2
Q ss_pred cCCCCCCCCCCCc-eeccCCCCCccccccccCC
Q 001648 321 HCNSCSADCSRKR-YHCQKQADFDLCTDCFNNG 352 (1038)
Q Consensus 321 ~Cn~Cg~dcs~~~-Y~C~kc~dfdLC~dCFs~G 352 (1038)
.|..|+..++... ++- .|..+|.+||..-
T Consensus 1 ~C~iCg~kigl~~~~k~---~DG~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKRFKI---KDGYICKDCLKKL 30 (51)
T ss_pred CCCccccccccccceec---cCccchHHHHHHh
Confidence 4999999987632 433 3557999999875
No 121
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=20.70 E-value=2.3e+02 Score=24.50 Aligned_cols=53 Identities=25% Similarity=0.277 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHhCCCcee-ehhhhhcccccchHHHHHHHHhhhhhcccccC
Q 001648 185 DIYMEIRNWIMKKFHSNPITQI-ELKDLSELEVGSLDARQEVMEFLDYWGLINFH 238 (1038)
Q Consensus 185 e~Yl~iRN~II~~yr~nP~~yL-T~T~cRr~L~GDv~aI~RVh~FLE~WGLINy~ 238 (1038)
++|-.||+.|+.- +.-|..+| +..+.-+.+.--...+.+.+..|..+|||-..
T Consensus 4 ~i~~~l~~~I~~g-~~~~g~~lps~~~la~~~~vsr~tvr~al~~L~~~g~i~~~ 57 (64)
T PF00392_consen 4 QIYDQLRQAILSG-RLPPGDRLPSERELAERYGVSRTTVREALRRLEAEGLIERR 57 (64)
T ss_dssp HHHHHHHHHHHTT-SS-TTSBE--HHHHHHHHTS-HHHHHHHHHHHHHTTSEEEE
T ss_pred HHHHHHHHHHHcC-CCCCCCEeCCHHHHHHHhccCCcHHHHHHHHHHHCCcEEEE
Confidence 5677777776653 23466788 88888777766778899999999999999655
No 122
>PF06034 DUF919: Nucleopolyhedrovirus protein of unknown function (DUF919); InterPro: IPR009265 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf29. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short baculovirus proteins of unknown function.
Probab=20.60 E-value=2.4e+02 Score=25.84 Aligned_cols=44 Identities=14% Similarity=0.313 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 001648 915 IEKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALIIQ 959 (1038)
Q Consensus 915 ie~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~~~ 959 (1038)
|+..-++|++|+.|||.|-.| .+--.+|....++|..-|+.|+.
T Consensus 13 I~~~K~~l~ik~~H~Ekl~ki-tK~p~El~~i~~kl~~~R~~FLn 56 (62)
T PF06034_consen 13 INQMKRQLTIKSQHWEKLKKI-TKNPKELQEIEKKLQELRQNFLN 56 (62)
T ss_pred HHHHHHHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHHHHHH
Confidence 556667899999999999765 45556677788888888888874
No 123
>KOG0477 consensus DNA replication licensing factor, MCM2 component [Replication, recombination and repair]
Probab=20.57 E-value=74 Score=40.13 Aligned_cols=77 Identities=19% Similarity=0.384 Sum_probs=46.9
Q ss_pred ccccCCCCCCCCCCCceeccC-CCCCccccccccCCCCCCC---CCCCCceeecCCCCCCC--CCCCCCHHHHHHHHHHH
Q 001648 318 VEYHCNSCSADCSRKRYHCQK-QADFDLCTDCFNNGKFGSD---MSSSDFILMVPGEAAGV--SGGKWTDQETLLLLEAL 391 (1038)
Q Consensus 318 v~~~Cn~Cg~dcs~~~Y~C~k-c~dfdLC~dCFs~G~fp~h---~sshDFi~ie~~e~~~~--~~~~WTdqEeLLLLEAI 391 (1038)
++|.|..|+.. -..+++... ......|..|-+.|-|..+ ....+|+++...+.++. .+.-=-..|.+||-+.|
T Consensus 291 vky~C~KC~~v-lgPF~qs~n~evkp~~C~~cqSkGpf~vn~e~TvyrnYQritiQEspg~v~~GrlPRsk~vILl~DLv 369 (854)
T KOG0477|consen 291 VKYDCLKCGFV-LGPFVQSSNSEVKPGSCPECQSKGPFEVNVEETVYRNYQRITIQESPGTVPAGRLPRSKEVILLADLV 369 (854)
T ss_pred HhhhHHhhCCc-cCceeeccCceeCCCCCccccCCCCCccchhhhhhcccceeeeccCCCcCCCCccccchhheehhhhh
Confidence 57889999843 344444332 1346789999999987543 34566888876665542 23333445666666666
Q ss_pred HHhc
Q 001648 392 ELYK 395 (1038)
Q Consensus 392 EkyG 395 (1038)
...+
T Consensus 370 D~~k 373 (854)
T KOG0477|consen 370 DSCK 373 (854)
T ss_pred hhcC
Confidence 5443
No 124
>PF07795 DUF1635: Protein of unknown function (DUF1635); InterPro: IPR012862 The members of this family include sequences that are parts of hypothetical proteins expressed by plant species. The region in question is about 170 amino acids long.
Probab=20.14 E-value=9.8e+02 Score=26.73 Aligned_cols=46 Identities=20% Similarity=0.337 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 001648 916 EKQLQKLEAKLAFFNEMDNVTMRVREQLERSRQRLYQERALIIQAR 961 (1038)
Q Consensus 916 e~qlkKlElKLk~F~ElE~~l~~ere~lE~~Rq~L~~eR~~~~~~~ 961 (1038)
+..++|-|--+.|+.+|=.+.-+||.+...+=|+|+.+-..+....
T Consensus 25 ~EElRk~eeqi~~L~~Ll~~a~~ERDEAr~qlq~Ll~~~~~l~~~~ 70 (214)
T PF07795_consen 25 NEELRKREEQIAHLKDLLKKAYQERDEAREQLQKLLLEKLSLQQQQ 70 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence 3457788888889999999999999999999999998776666544
No 125
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=20.08 E-value=49 Score=43.60 Aligned_cols=31 Identities=23% Similarity=0.682 Sum_probs=26.0
Q ss_pred ccCCCCCCCCCC-----CceeccCCCCCccccccccC
Q 001648 320 YHCNSCSADCSR-----KRYHCQKQADFDLCTDCFNN 351 (1038)
Q Consensus 320 ~~Cn~Cg~dcs~-----~~Y~C~kc~dfdLC~dCFs~ 351 (1038)
..|..||.++.. .++-|.+|. |-+|-.||.=
T Consensus 18 qiCqICGD~vg~~~~Ge~FVAC~eC~-FPVCrpCYEY 53 (1079)
T PLN02638 18 QVCQICGDNVGKTVDGEPFVACDVCA-FPVCRPCYEY 53 (1079)
T ss_pred ceeeecccccCcCCCCCEEEEeccCC-Cccccchhhh
Confidence 479999999764 578999994 9999999853
Done!