Query 004288
Match_columns 763
No_of_seqs 265 out of 781
Neff 4.8
Searched_HMMs 46136
Date Thu Mar 28 20:50:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004288.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004288hhsearch_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 3.4E-88 7.3E-93 729.0 26.4 374 177-628 48-439 (531)
2 KOG1279 Chromatin remodeling f 100.0 3.5E-84 7.5E-89 720.4 27.8 444 154-653 22-506 (506)
3 PF04433 SWIRM: SWIRM domain; 99.9 2.1E-26 4.6E-31 203.4 5.6 86 181-270 1-86 (86)
4 KOG0457 Histone acetyltransfer 99.9 6.6E-25 1.4E-29 238.4 8.8 111 344-455 13-125 (438)
5 COG5114 Histone acetyltransfer 99.8 1.2E-21 2.6E-26 205.3 5.7 111 344-455 4-116 (432)
6 cd02336 ZZ_RSC8 Zinc finger, Z 99.1 4E-11 8.7E-16 95.0 3.7 45 346-390 1-45 (45)
7 PF00249 Myb_DNA-binding: Myb- 99.0 3.7E-10 8.1E-15 89.7 5.5 44 404-447 2-47 (48)
8 PF13921 Myb_DNA-bind_6: Myb-l 98.8 8.8E-09 1.9E-13 84.9 5.6 41 406-446 1-41 (60)
9 smart00717 SANT SANT SWI3, AD 98.8 1.7E-08 3.7E-13 77.5 5.9 44 404-447 2-46 (49)
10 cd00167 SANT 'SWI3, ADA2, N-Co 98.7 3.9E-08 8.4E-13 74.6 5.7 43 405-447 1-44 (45)
11 PLN03000 amine oxidase 98.6 6.7E-08 1.4E-12 116.3 6.8 85 185-274 86-172 (881)
12 PLN02328 lysine-specific histo 98.5 1.3E-07 2.8E-12 113.5 6.6 89 185-277 137-226 (808)
13 cd02335 ZZ_ADA2 Zinc finger, Z 98.3 8.4E-07 1.8E-11 71.5 4.2 45 346-390 1-47 (49)
14 cd02343 ZZ_EF Zinc finger, ZZ 98.2 1.3E-06 2.8E-11 70.4 3.6 42 347-388 2-43 (48)
15 TIGR01557 myb_SHAQKYF myb-like 98.2 2.8E-06 6E-11 70.8 5.3 47 403-449 3-55 (57)
16 cd02345 ZZ_dah Zinc finger, ZZ 98.1 2.4E-06 5.2E-11 69.0 3.6 42 347-388 2-44 (49)
17 smart00291 ZnF_ZZ Zinc-binding 98.1 2.8E-06 6.1E-11 66.9 3.6 40 345-384 4-43 (44)
18 cd02334 ZZ_dystrophin Zinc fin 98.0 4.6E-06 1E-10 67.5 3.9 43 347-389 2-45 (49)
19 PLN03212 Transcription repress 98.0 5.9E-06 1.3E-10 86.5 5.1 45 403-447 25-71 (249)
20 cd02249 ZZ Zinc finger, ZZ typ 98.0 5.8E-06 1.3E-10 65.6 3.9 44 346-391 1-45 (46)
21 cd02338 ZZ_PCMF_like Zinc fing 98.0 6.5E-06 1.4E-10 66.5 3.9 43 347-389 2-45 (49)
22 cd02340 ZZ_NBR1_like Zinc fing 98.0 7.2E-06 1.6E-10 64.6 3.7 42 347-392 2-43 (43)
23 PLN02529 lysine-specific histo 97.9 8.9E-06 1.9E-10 97.3 5.6 87 186-277 63-151 (738)
24 PF00569 ZZ: Zinc finger, ZZ t 97.8 6.9E-06 1.5E-10 65.4 1.2 41 345-385 4-45 (46)
25 PLN03091 hypothetical protein; 97.8 3.2E-05 7E-10 86.5 5.8 45 403-447 14-60 (459)
26 cd02341 ZZ_ZZZ3 Zinc finger, Z 97.7 4E-05 8.6E-10 61.9 4.0 43 346-391 1-47 (48)
27 PLN03212 Transcription repress 97.4 0.00016 3.4E-09 76.1 5.2 46 401-446 76-121 (249)
28 KOG0048 Transcription factor, 97.4 0.00013 2.8E-09 76.4 4.5 44 403-446 9-54 (238)
29 cd02344 ZZ_HERC2 Zinc finger, 97.4 0.00015 3.1E-09 58.0 3.6 42 347-392 2-45 (45)
30 cd02339 ZZ_Mind_bomb Zinc fing 97.1 0.00046 9.9E-09 55.1 3.4 41 347-391 2-44 (45)
31 PLN03091 hypothetical protein; 97.1 0.00075 1.6E-08 75.9 5.9 46 402-447 66-111 (459)
32 cd02337 ZZ_CBP Zinc finger, ZZ 96.9 0.00072 1.6E-08 52.9 2.8 33 346-379 1-33 (41)
33 cd02342 ZZ_UBA_plant Zinc fing 96.4 0.0023 4.9E-08 50.7 2.2 31 347-377 2-33 (43)
34 KOG0048 Transcription factor, 96.0 0.011 2.4E-07 62.1 5.8 44 401-444 60-103 (238)
35 KOG0049 Transcription factor, 95.9 0.0086 1.9E-07 69.8 5.1 46 402-447 359-405 (939)
36 PLN02976 amine oxidase 95.9 0.0058 1.2E-07 77.6 4.0 83 190-275 455-542 (1713)
37 KOG0049 Transcription factor, 95.5 0.011 2.5E-07 68.9 4.0 45 403-447 412-460 (939)
38 KOG4582 Uncharacterized conser 95.5 0.0085 1.8E-07 64.6 2.8 44 346-392 153-197 (278)
39 KOG4286 Dystrophin-like protei 95.4 0.0068 1.5E-07 71.6 1.8 43 346-388 604-647 (966)
40 PF13837 Myb_DNA-bind_4: Myb/S 95.3 0.011 2.3E-07 52.1 2.3 44 404-447 2-63 (90)
41 KOG1280 Uncharacterized conser 94.9 0.014 3.1E-07 64.0 2.2 41 345-385 8-49 (381)
42 KOG0051 RNA polymerase I termi 92.2 0.16 3.5E-06 59.8 4.8 45 402-447 383-427 (607)
43 KOG1924 RhoA GTPase effector D 92.0 2 4.4E-05 52.1 13.2 74 367-444 211-289 (1102)
44 KOG4301 Beta-dystrobrevin [Cyt 91.0 0.078 1.7E-06 58.3 0.6 43 345-387 240-283 (434)
45 KOG0051 RNA polymerase I termi 90.2 0.26 5.6E-06 58.2 3.8 52 402-453 435-512 (607)
46 KOG4167 Predicted DNA-binding 89.2 0.55 1.2E-05 56.2 5.5 45 402-446 618-662 (907)
47 COG5118 BDP1 Transcription ini 88.8 0.75 1.6E-05 51.5 5.9 44 403-446 365-408 (507)
48 KOG0050 mRNA splicing protein 88.7 0.39 8.4E-06 55.5 3.7 43 403-445 7-50 (617)
49 PF13873 Myb_DNA-bind_5: Myb/S 87.7 1.2 2.5E-05 38.6 5.3 44 404-447 3-68 (78)
50 KOG0050 mRNA splicing protein 86.9 0.53 1.1E-05 54.5 3.4 44 403-447 59-102 (617)
51 KOG4282 Transcription factor G 85.5 1 2.3E-05 49.6 4.8 46 404-449 55-114 (345)
52 KOG4468 Polycomb-group transcr 79.0 1.7 3.7E-05 51.2 3.5 45 403-447 88-142 (782)
53 KOG4329 DNA-binding protein [G 78.0 3 6.4E-05 46.8 4.8 47 404-450 278-325 (445)
54 TIGR02894 DNA_bind_RsfA transc 77.7 2.2 4.8E-05 42.9 3.4 43 403-446 4-53 (161)
55 COG5147 REB1 Myb superfamily p 76.4 1.6 3.4E-05 51.1 2.2 42 403-444 20-62 (512)
56 COG5147 REB1 Myb superfamily p 73.0 3.1 6.7E-05 48.8 3.5 46 402-447 71-116 (512)
57 KOG4661 Hsp27-ERE-TATA-binding 71.3 10 0.00022 44.8 7.0 18 438-455 461-478 (940)
58 PF04504 DUF573: Protein of un 69.9 5.8 0.00012 36.7 3.9 45 403-447 4-61 (98)
59 KOG1279 Chromatin remodeling f 69.2 5.7 0.00012 46.6 4.5 96 182-277 185-287 (506)
60 PF15324 TALPID3: Hedgehog sig 67.6 46 0.001 42.3 11.7 82 578-659 61-169 (1252)
61 PLN03142 Probable chromatin-re 65.3 8.7 0.00019 48.8 5.3 39 404-442 825-864 (1033)
62 KOG0847 Transcription factor, 63.5 4.3 9.3E-05 42.8 1.9 17 11-27 218-235 (288)
63 PF07649 C1_3: C1-like domain; 62.8 4.8 0.0001 29.2 1.5 27 347-374 2-29 (30)
64 COG5180 PBP1 Protein interacti 58.8 17 0.00036 42.3 5.6 32 666-697 511-543 (654)
65 PRK13729 conjugal transfer pil 58.8 1.7E+02 0.0038 34.5 13.7 54 584-641 65-120 (475)
66 PF03276 Gag_spuma: Spumavirus 57.0 2.4E+02 0.0052 33.9 14.4 9 751-759 268-276 (582)
67 PF12776 Myb_DNA-bind_3: Myb/S 56.1 12 0.00026 33.2 3.2 43 405-447 1-61 (96)
68 PF09111 SLIDE: SLIDE; InterP 54.2 16 0.00035 35.1 3.9 44 402-445 48-107 (118)
69 PRK06800 fliH flagellar assemb 53.0 39 0.00084 35.1 6.5 21 629-649 91-111 (228)
70 KOG1194 Predicted DNA-binding 52.3 23 0.0005 41.1 5.3 45 403-447 187-231 (534)
71 PF03107 C1_2: C1 domain; Int 52.0 12 0.00026 27.3 2.1 28 346-374 1-29 (30)
72 PF00392 GntR: Bacterial regul 51.2 19 0.00041 30.0 3.5 53 216-270 3-56 (64)
73 COG1725 Predicted transcriptio 50.3 26 0.00056 34.2 4.6 58 213-271 8-68 (125)
74 KOG3554 Histone deacetylase co 50.1 14 0.0003 42.8 3.2 51 404-454 286-337 (693)
75 TIGR01069 mutS2 MutS2 family p 50.1 64 0.0014 40.1 9.1 39 580-618 484-523 (771)
76 PLN03131 hypothetical protein; 49.8 22 0.00047 42.7 4.8 95 346-457 24-125 (705)
77 PF09862 DUF2089: Protein of u 48.8 35 0.00075 32.8 5.2 74 348-447 1-79 (113)
78 PF02954 HTH_8: Bacterial regu 47.7 26 0.00057 27.2 3.5 25 409-433 5-29 (42)
79 PF10446 DUF2457: Protein of u 47.3 11 0.00024 43.4 2.0 12 174-185 216-227 (458)
80 smart00345 HTH_GNTR helix_turn 46.7 20 0.00043 28.3 2.8 50 219-270 2-52 (60)
81 PRK00409 recombination and DNA 46.4 75 0.0016 39.6 8.9 39 580-618 489-528 (782)
82 PLN03119 putative ADP-ribosyla 46.3 23 0.00051 42.1 4.3 96 346-457 24-125 (648)
83 KOG1194 Predicted DNA-binding 45.4 11 0.00024 43.5 1.6 43 403-446 470-512 (534)
84 PF07271 Cytadhesin_P30: Cytad 44.0 2.1E+02 0.0045 31.5 10.6 13 636-648 159-171 (279)
85 PHA00442 host recBCD nuclease 43.4 27 0.00058 29.5 3.0 25 408-432 25-50 (59)
86 smart00595 MADF subfamily of S 43.0 20 0.00043 31.4 2.5 23 424-447 29-51 (89)
87 KOG0703 Predicted GTPase-activ 42.0 22 0.00047 39.1 3.0 93 345-456 25-126 (287)
88 PF01475 FUR: Ferric uptake re 40.7 34 0.00073 31.9 3.8 51 219-270 6-60 (120)
89 PLN03142 Probable chromatin-re 39.6 47 0.001 42.6 5.8 46 402-447 925-983 (1033)
90 KOG4849 mRNA cleavage factor I 39.1 1.7E+02 0.0037 33.3 9.2 16 405-422 90-105 (498)
91 PRK13923 putative spore coat p 38.8 38 0.00083 34.6 4.0 41 403-444 5-52 (170)
92 PRK06474 hypothetical protein; 38.5 46 0.00099 33.8 4.6 49 222-271 12-60 (178)
93 PF01022 HTH_5: Bacterial regu 37.5 59 0.0013 25.6 4.2 45 222-270 3-47 (47)
94 PF13404 HTH_AsnC-type: AsnC-t 36.2 83 0.0018 24.8 4.7 37 409-446 3-40 (42)
95 KOG3647 Predicted coiled-coil 35.7 1.1E+02 0.0024 33.6 7.0 24 620-643 135-158 (338)
96 PF14569 zf-UDP: Zinc-binding 34.5 23 0.00049 32.0 1.4 51 343-394 7-66 (80)
97 PLN02436 cellulose synthase A 34.2 52 0.0011 42.1 5.0 50 343-393 34-92 (1094)
98 PF10820 DUF2543: Protein of u 33.2 33 0.00071 30.5 2.2 56 193-266 22-79 (81)
99 KOG0384 Chromodomain-helicase 32.7 29 0.00064 44.6 2.5 28 402-429 1132-1160(1373)
100 PRK07353 F0F1 ATP synthase sub 32.7 4.5E+02 0.0097 25.1 11.0 65 580-644 56-120 (140)
101 PF12802 MarR_2: MarR family; 32.6 76 0.0016 25.6 4.2 43 231-274 15-57 (62)
102 COG5114 Histone acetyltransfer 32.4 48 0.001 37.0 3.8 53 214-268 376-428 (432)
103 PF09339 HTH_IclR: IclR helix- 32.1 54 0.0012 26.3 3.2 44 225-270 7-50 (52)
104 PRK07352 F0F1 ATP synthase sub 31.9 5.3E+02 0.012 25.8 11.0 62 580-641 70-131 (174)
105 PF00643 zf-B_box: B-box zinc 31.8 51 0.0011 25.1 2.9 38 346-391 4-41 (42)
106 PRK09462 fur ferric uptake reg 31.6 74 0.0016 31.0 4.7 49 222-270 18-70 (148)
107 KOG1924 RhoA GTPase effector D 30.4 1.2E+03 0.027 29.6 15.8 12 735-746 589-600 (1102)
108 PTZ00007 (NAP-L) nucleosome as 30.3 1.5E+02 0.0034 33.4 7.4 50 599-650 34-87 (337)
109 KOG0706 Predicted GTPase-activ 29.9 49 0.0011 38.4 3.5 87 339-444 17-105 (454)
110 KOG3895 Synaptic vesicle prote 29.3 4.1E+02 0.0089 30.6 10.2 31 693-723 441-472 (488)
111 PLN02189 cellulose synthase 29.2 69 0.0015 40.9 4.9 51 343-394 32-91 (1040)
112 COG2960 Uncharacterized protei 29.0 1.6E+02 0.0035 27.9 6.0 49 606-654 36-90 (103)
113 PF08946 Osmo_CC: Osmosensory 28.7 85 0.0018 25.7 3.6 29 616-644 10-41 (46)
114 KOG1923 Rac1 GTPase effector F 28.6 4.2E+02 0.009 33.2 10.9 70 577-647 175-245 (830)
115 PF11427 HTH_Tnp_Tc3_1: Tc3 tr 27.8 1.6E+02 0.0034 24.5 5.2 39 410-450 8-46 (50)
116 PLN02400 cellulose synthase 27.2 83 0.0018 40.4 5.1 52 343-395 34-94 (1085)
117 KOG4479 Transcription factor e 26.7 66 0.0014 29.4 3.0 46 216-265 35-89 (92)
118 cd07153 Fur_like Ferric uptake 26.1 89 0.0019 28.6 4.0 47 223-270 3-53 (116)
119 PF13412 HTH_24: Winged helix- 26.1 1.4E+02 0.0029 23.3 4.5 44 222-268 4-47 (48)
120 TIGR00270 conserved hypothetic 26.0 2.4E+02 0.0053 28.3 7.2 38 347-384 2-40 (154)
121 COG5347 GTPase-activating prot 26.0 81 0.0018 35.3 4.3 99 344-455 19-124 (319)
122 PLN02638 cellulose synthase A 25.7 85 0.0018 40.3 4.8 52 343-395 15-75 (1079)
123 COG0735 Fur Fe2+/Zn2+ uptake r 25.3 1.1E+02 0.0024 30.1 4.6 51 222-273 22-76 (145)
124 PF12674 Zn_ribbon_2: Putative 25.2 39 0.00085 30.4 1.4 36 347-382 2-40 (81)
125 smart00550 Zalpha Z-DNA-bindin 25.2 1.4E+02 0.0029 25.6 4.6 51 221-272 6-56 (68)
126 PF01452 Rota_NSP4: Rotavirus 24.7 1.6E+02 0.0034 30.0 5.5 47 590-639 80-129 (173)
127 cd00090 HTH_ARSR Arsenical Res 24.5 1.3E+02 0.0027 24.1 4.2 45 225-273 11-55 (78)
128 KOG3915 Transcription regulato 24.3 2.5E+02 0.0054 33.1 7.7 24 219-242 179-202 (641)
129 PRK09174 F0F1 ATP synthase sub 24.1 8.1E+02 0.018 25.6 11.0 65 580-644 104-168 (204)
130 PF01412 ArfGap: Putative GTPa 24.0 60 0.0013 30.6 2.5 92 345-453 13-113 (116)
131 PRK13428 F0F1 ATP synthase sub 23.1 6.4E+02 0.014 29.4 11.0 62 582-643 54-115 (445)
132 PF14471 DUF4428: Domain of un 22.1 50 0.0011 27.2 1.3 30 347-378 1-30 (51)
133 PF15219 TEX12: Testis-express 21.9 4.8E+02 0.01 24.5 7.6 35 619-653 62-98 (100)
134 PLN02915 cellulose synthase A 21.8 1E+02 0.0022 39.5 4.4 50 344-394 14-72 (1044)
135 PF14073 Cep57_CLD: Centrosome 21.7 6.3E+02 0.014 26.3 9.3 21 583-603 59-79 (178)
136 KOG2199 Signal transducing ada 21.6 1.1E+03 0.024 27.7 11.9 50 601-650 290-356 (462)
137 PF06689 zf-C4_ClpX: ClpX C4-t 21.2 39 0.00084 26.6 0.5 30 346-376 2-32 (41)
138 smart00105 ArfGap Putative GTP 21.1 1.2E+02 0.0025 28.5 3.8 93 346-455 4-106 (112)
139 PRK10947 global DNA-binding tr 20.9 2.6E+02 0.0056 27.7 6.2 32 619-650 22-59 (135)
140 KOG4797 Transcriptional regula 20.5 1.5E+02 0.0033 28.4 4.3 12 644-655 87-98 (123)
141 PF05928 Zea_mays_MuDR: Zea ma 20.4 6.4E+02 0.014 26.0 8.8 22 579-600 10-31 (207)
142 PRK06800 fliH flagellar assemb 20.3 2.1E+02 0.0046 30.0 5.6 20 629-648 59-78 (228)
143 KOG0943 Predicted ubiquitin-pr 20.2 70 0.0015 41.5 2.5 16 97-112 1874-1889(3015)
144 KOG4752 Ribosomal protein L41 20.0 47 0.001 23.6 0.6 6 12-17 2-8 (26)
No 1
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=100.00 E-value=3.4e-88 Score=728.97 Aligned_cols=374 Identities=32% Similarity=0.565 Sum_probs=299.8
Q ss_pred CCcceeCCCCCCCCCCCCCCHHHHhhCCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHH
Q 004288 177 GSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLT 256 (763)
Q Consensus 177 ~t~~ivIPSyS~WF~~~~Ih~iEk~~lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~ 256 (763)
|+|+||||+|+.||++.+||+||+++.||||+||+++|||++|++||||||+.||+||++|||||+|||||+| |||+|.
T Consensus 48 Q~~piiiPs~a~WFd~SKiHeIE~~snPeFF~~rs~~KTP~vYk~YR~FminsyRL~p~eYLtvTa~RRNvag-DV~aiv 126 (531)
T COG5259 48 QTHPIIIPSYAEWFDGSKIHEIEKRSNPEFFNGRSPSKTPEVYKDYRNFMINSYRLNPNEYLTVTACRRNVAG-DVAAIV 126 (531)
T ss_pred cCCceeccchhhhccccccccccccCCchhhcCCCCCCCHHHHHHHHhhccceeecCCcceEEeeeehhccch-hHHHHH
Confidence 7999999999999999999999999999999999999999999999999999999999999999999999999 999999
Q ss_pred HHHHhhhhhcccccccCCCCCCC---CC---CCCccccCCCCccccCCccccccc----cccccCCCCcCcccccccCCC
Q 004288 257 RIFRFLNHWGIINYCAAVQSPEP---WN---RGSYLREDSNGEVSVPSDALKSID----SLIKFDKPKCSLKVADVYSSS 326 (763)
Q Consensus 257 RVh~FLe~WGLINy~~dp~~~p~---~~---~~~~l~~~p~G~~~~~~~~l~~~~----~l~~fd~~~~~~~~~di~~~~ 326 (763)
|||+||++|||||||+||.++|. |+ +.+.+.++|.|.+.+.+..+.... ..+.| ....++.|+++
T Consensus 127 rvHrFLekWGLINYqvdp~trPs~IgPplt~h~q~l~dtP~gl~p~l~~~~~~~~~~~a~~~e~-----~~~k~~~~sps 201 (531)
T COG5259 127 RVHRFLEKWGLINYQVDPGTRPSTIGPPLTSHFQDLHDTPRGLSPFLPWGPINQRVLGAKEIEY-----ETHKEENYSPS 201 (531)
T ss_pred HHHHHHHHhcceeeccCCCCCccccCCCcchhhHHHhhCccccccccCCCCccccccccchhhh-----hhhccCCCCch
Confidence 99999999999999999999984 22 234566777776554332221110 01111 11122333331
Q ss_pred C------CCCCCcCchhHHHhhcc--CCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCC
Q 004288 327 C------GGADFFDLDNTIRERLS--ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREY 398 (763)
Q Consensus 327 ~------~~~~~~~l~~~i~e~~~--~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~ 398 (763)
. ..+.+.+ +..+.. ..+|..||..+...||+.++..++++|..||-.|+|+.+..+.||.+++....
T Consensus 202 ~~~~~k~s~~k~~e----l~~~~~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f~s~~~ssDf~~v~~~~~- 276 (531)
T COG5259 202 LKSPKKESQGKVDE----LKDHSEKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLL- 276 (531)
T ss_pred hhhhhhhcCCCccc----cccccccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcCCCccccccchhhhhhcc-
Confidence 0 0111111 222222 37999999999999999998888999999999999999999999999987542
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCCcccCCCCCCCCCcCCCCCCCCCCCCc
Q 004288 399 GDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSSRDDRGGLH 478 (763)
Q Consensus 399 ~~~~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqLPIED~fL~~~~~p~~s~~~~~~~~~d~g~~~ 478 (763)
..+..||+||+++|||||++||+||++||.||||||+||||+|||||||+|.||.+.+- ..
T Consensus 277 --~~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~k~~~----------------~~- 337 (531)
T COG5259 277 --IRDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSKGDG----------------KG- 337 (531)
T ss_pred --cccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhhcccC----------------cC-
Confidence 24679999999999999999999999999999999999999999999999999976420 00
Q ss_pred ccCCCCCCCCCccccccCCCCCCcCCCCcHHHHHHHHHhhcChHHHHHHHHHHHHHHHhhcccCCCCCCCCCCccccccc
Q 004288 479 STVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNREE 558 (763)
Q Consensus 479 ~~~ng~~~g~~~~~~~~~~~~PFs~a~NPVMS~vAFLAslV~P~VAaAAAkAAl~~L~~~~~~~~~~~r~~se~~~~~e~ 558 (763)
..+ .+.+||..++||||++|+||+++|.|+|+...+.+.++ . +. ..-.
T Consensus 338 ------~~~--------~G~~~f~~seNPVlstis~L~~iV~p~v~s~~q~~~~k---~---g~--~~~~---------- 385 (531)
T COG5259 338 ------DNS--------KGRLPFDGSENPVLSTISFLAGIVNPRVQSEKQRAIIK---S---GK--ISHI---------- 385 (531)
T ss_pred ------CCC--------CCccccccCCCchhhHHHHHHHhcCHHHHHHHhhhhhh---c---cc--eecC----------
Confidence 001 24579999999999999999999999998888777632 1 10 0000
Q ss_pred cCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 559 ENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQFAEVETLLM 628 (763)
Q Consensus 559 ~~D~~~~~~~~n~~~~~~~s~~~vk~Aaa~ALaAAAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~ 628 (763)
..-+.+.+...+..||.+++-|||++|+.|||+|++|+..+|+.|+++|+.+|.
T Consensus 386 ----------------n~e~~~~~~~~~~~al~s~~eka~l~~~~Eerkm~rL~~~~iq~qleKlk~Kl~ 439 (531)
T COG5259 386 ----------------NRESQEHIEEVIEYALDSGKEKAKLQATNEERKMERLRNVLIQAQLEKLKMKLG 439 (531)
T ss_pred ----------------ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 011345678889999999999999999999999999999999998888887763
No 2
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=100.00 E-value=3.5e-84 Score=720.38 Aligned_cols=444 Identities=34% Similarity=0.539 Sum_probs=338.3
Q ss_pred CCCCcccccCCccccccccccccCCcceeCCCCCCCCCCCCCCHHHHhhCCcccCCCCCCCChHHHHHHHHHHHHHHHhC
Q 004288 154 RSDTSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDN 233 (763)
Q Consensus 154 ~~~~~~v~~~p~~~~~~~~~k~~~t~~ivIPSyS~WF~~~~Ih~iEk~~lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~n 233 (763)
...+.+++ |.++...+...++|+|.|+||||++||+|++||.||++++||||+|++++|||++||+||||||++||+|
T Consensus 22 ~~~~~~~~--~~~~~~~~~~~~~q~~~i~iPs~a~WFd~~~ih~iE~rs~pEFF~gks~sktPe~Y~~yRnfii~tyrln 99 (506)
T KOG1279|consen 22 ESQETLGG--PAAHDAAKTVVSEQTHFIIIPSYAAWFDKSDIHDIERRSLPEFFNGKSKSKTPEVYMKYRNFIINTYRLN 99 (506)
T ss_pred cCcccccc--cchhhhcccccccccceeecccHHhhcChhhhhhHHhccchhhhcCCCCCCCHHHHHHHHHhhhhhhccC
Confidence 45555666 5566666777899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeeHHHhhcccCCCCHHHHHHHHHhhhhhcccccccCCCCCCCCC------CCCccccCCCCccccCCccccccccc
Q 004288 234 PEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWN------RGSYLREDSNGEVSVPSDALKSIDSL 307 (763)
Q Consensus 234 P~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~~dp~~~p~~~------~~~~l~~~p~G~~~~~~~~l~~~~~l 307 (763)
|.+|||+|+|||+++| |||+|.|||+|||+||||||++|++++|.+. +...+.++|.|.+.+.+.. ..
T Consensus 100 p~~ylt~ta~rrnl~g-Dv~ai~Rvh~FlE~WGLINy~~d~e~rp~~~~p~~t~h~~~~~~tp~~~~~~~~~~-----~~ 173 (506)
T KOG1279|consen 100 PQEYLTFTACRRNLAG-DVCAIARVHAFLEQWGLINYQVDAESRPHPIEPPETSHFQVLADTPRGLAPLTPED-----PQ 173 (506)
T ss_pred cccchhHHHHHhcccc-hHHHHHHHHhhHHhhcccccccChhhCCcccCCCcccccccccCCCcccccCCCCC-----cc
Confidence 9999999999999999 9999999999999999999999999998532 2233445555544322111 11
Q ss_pred cccCCCCcCcccccccCCCCCCCCCcCchhHHHhhccCCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCC
Q 004288 308 IKFDKPKCSLKVADVYSSSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSL 387 (763)
Q Consensus 308 ~~fd~~~~~~~~~di~~~~~~~~~~~~l~~~i~e~~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~ 387 (763)
..++...+... ......+...+.....+.+...+|..|+.. ||+.....++.+|.+||..|+|+..++..
T Consensus 174 ~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~----~~~~~~~~~~~~c~~c~~~g~~~~~~~~~ 243 (506)
T KOG1279|consen 174 SQPDLGNPRME------TLSLESKIKSLHINAGEHLCAIHCFIKEDP----YYYDLTNRDVNLCADCYDQGEFPSEFKKS 243 (506)
T ss_pred ccccccccccc------cccccccccccccChHhhccccchhccccc----hhhhcchhhhhhhHHHHhcCCccCccccc
Confidence 11111111111 001111122233334455667788888765 77777777899999999999999999999
Q ss_pred CceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcCCCCCCcccCCCCCCCCCcCC
Q 004288 388 DYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSN 467 (763)
Q Consensus 388 Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqLPIED~fL~~~~~p~~s~~~~ 467 (763)
||.. +....+..||++|++||||||++||+||++||.|||+||++|||+|||+|||+|+||.+.+
T Consensus 244 Df~~------~~~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD~~l~~~~--------- 308 (506)
T KOG1279|consen 244 DFKV------IGESARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIEDPYLAKSE--------- 308 (506)
T ss_pred cchh------ccccCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccchhhhhcc---------
Confidence 9922 2334578999999999999999999999999999999999999999999999999997632
Q ss_pred CCCCCCCCCCcccCCCCCCCCCccccccCCCCCCcCCCCcHHHHHHHHHhhcChHHHHHHHHHHHHHHHhhcccCCCCCC
Q 004288 468 SSSRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNR 547 (763)
Q Consensus 468 ~~~~~d~g~~~~~~ng~~~g~~~~~~~~~~~~PFs~a~NPVMS~vAFLAslV~P~VAaAAAkAAl~~L~~~~~~~~~~~r 547 (763)
++ .|++.+ +..+|+.-+||||++++||+++|+|+|+..+++.+...+.+.+.......+
T Consensus 309 ---------------~~-~~~~~~-----~~~~~sq~gnpv~s~~~~l~~~vdP~~~~~~~k~~~~~~~~~~~~~~~~~~ 367 (506)
T KOG1279|consen 309 ---------------AS-LGPLSY-----GPVPFSQDGNPVMSTVAFLASVVDPVVKSVAAKSAEEKFSKVNEESPLAKI 367 (506)
T ss_pred ---------------cc-cCcccc-----CCCccccCCCccccHHHHHHhccCchhhhhhhcccchhhhhhhhcccchhh
Confidence 11 355543 678999999999999999999999999999999999998877554422111
Q ss_pred CC----CCccccccccCCCC-------------------CC--CCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHhH
Q 004288 548 MN----SENVHNREEENSGV-------------------HG--PWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFAD 602 (763)
Q Consensus 548 ~~----se~~~~~e~~~D~~-------------------~~--~~~~n~~~~~~~s~~~vk~Aaa~ALaAAAakAklLA~ 602 (763)
.. .+.......+.++. .. ....|......+... +..|+..+|++||+|||+||.
T Consensus 368 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~e~~k~~~~~~~~~n~~~~k~~e~~-~~~a~~~~ls~aa~k~k~la~ 446 (506)
T KOG1279|consen 368 EVSAKGVEEAASKLGGTDKSKFLALSDIACTLPDEEEKLQSKLKAKLNPNKEKTIELG-LSTAANAALSAAAVKAKLLAA 446 (506)
T ss_pred hHHhhhhHHhhhhhccchhhhhhhhhhhhhcccchHHHHHHHhhcccccchhhhhHHH-HHHHHHHHHHHHHHhhhhhhh
Confidence 00 00000000000000 00 000111111111112 689999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 004288 603 HEEREIQRLSANIINH----------QFAEVETLLMRECEQVEKARQRFATERTRIVSTRL 653 (763)
Q Consensus 603 ~EEREI~rLva~iIe~----------QF~eLE~~L~kEreqLEr~Rq~L~~ER~~il~~rl 653 (763)
+|| +++.+++.++++ ||+++|.++++|++++++.||++..+|+.++..||
T Consensus 447 ~ee-~~~s~~~~~~~~q~~k~E~~l~~~~e~e~~~~~e~e~~~~~~~~~~~~~~~~~~~~l 506 (506)
T KOG1279|consen 447 QEE-RIKSLVALLEETQLKKLEAKLRHFEEAETLLMREREQLERVRQRLKAERQQFHMARL 506 (506)
T ss_pred HHH-HHHHHhhhhhhhhhhhhhHHHHHHHHHHhhhhhhhhhHHHHHHHHHhcchhhhhhcC
Confidence 999 999999999987 58899999999999999999999999999988775
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=99.93 E-value=2.1e-26 Score=203.44 Aligned_cols=86 Identities=43% Similarity=0.962 Sum_probs=79.0
Q ss_pred eeCCCCCCCCCCCCCCHHHHhhCCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHH
Q 004288 181 HVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFR 260 (763)
Q Consensus 181 ivIPSyS~WF~~~~Ih~iEk~~lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~ 260 (763)
+++|.+++||+++.+|++|++.+||||.| ++|+.|+.|||.||..|+.||.+|||+++||+++.|.|++.+.|||+
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 47899999999999999999999999998 99999999999999999999999999999999998679999999999
Q ss_pred hhhhhccccc
Q 004288 261 FLNHWGIINY 270 (763)
Q Consensus 261 FLe~WGLINy 270 (763)
||++||+|||
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=99.91 E-value=6.6e-25 Score=238.44 Aligned_cols=111 Identities=29% Similarity=0.583 Sum_probs=99.7
Q ss_pred cCCcCCCCCCCCCc-ceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC
Q 004288 344 SENHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN 422 (763)
Q Consensus 344 ~~~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG 422 (763)
.++.|++|..+|+. ++++|.+|++|+||+.||+.|.+.+.|+..|-|+|..+..++. ...+||++||++||||+++||
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~~i-~~~~WtadEEilLLea~~t~G 91 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDTNSFPI-LDPSWTADEEILLLEAAETYG 91 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecCCCCCC-CCCCCChHHHHHHHHHHHHhC
Confidence 46899999999998 6699999999999999999999999998877666655544543 468999999999999999999
Q ss_pred -CCHHHHHHHhCCCCHHHHHHHHhcCCCCCCccc
Q 004288 423 -DNWNEIAEHVSTKSKAQCILHFVRLPMEDGILE 455 (763)
Q Consensus 423 -gNW~~IAehVGtKT~eECilHFlqLPIED~fL~ 455 (763)
|||.+||+||||||++||+.||++.+|+.++..
T Consensus 92 ~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~~ 125 (438)
T KOG0457|consen 92 FGNWQDIADHIGTKTKEECKEHYLKHFVNSPIFP 125 (438)
T ss_pred CCcHHHHHHHHcccchHHHHHHHHHHHhcCcccc
Confidence 999999999999999999999999999988754
No 5
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.84 E-value=1.2e-21 Score=205.28 Aligned_cols=111 Identities=23% Similarity=0.468 Sum_probs=100.1
Q ss_pred cCCcCCCCCCCCCc-ceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC
Q 004288 344 SENHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN 422 (763)
Q Consensus 344 ~~~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG 422 (763)
.+++|++|..+|+. +++.|.+|++++||..||.+|.+.+.|+..|-|||-..+.++. ...+|++.||++|+++++..|
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 VKIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIETNSYPI-GEEGWGADEELLLIECLDTLG 82 (432)
T ss_pred ceeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeeccCccc-cCCCcCchHHHHHHHHHHhcC
Confidence 46899999999997 8999999999999999999999999998766666655555554 468999999999999999999
Q ss_pred -CCHHHHHHHhCCCCHHHHHHHHhcCCCCCCccc
Q 004288 423 -DNWNEIAEHVSTKSKAQCILHFVRLPMEDGILE 455 (763)
Q Consensus 423 -gNW~~IAehVGtKT~eECilHFlqLPIED~fL~ 455 (763)
|||++||+|||.|+++||..||+++++|..|..
T Consensus 83 lGNW~dIadyiGsr~kee~k~HylK~y~es~~yp 116 (432)
T COG5114 83 LGNWEDIADYIGSRAKEEIKSHYLKMYDESKYYP 116 (432)
T ss_pred CCcHHHHHHHHhhhhhHHHHHHHHHHHhhccccc
Confidence 999999999999999999999999999988853
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=99.12 E-value=4e-11 Score=95.00 Aligned_cols=45 Identities=38% Similarity=0.780 Sum_probs=43.4
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCce
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYI 390 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~ 390 (763)
++|+.|+.+|+.+||||+++.+++||+.||.+|+||.+|++.||+
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 579999999999999999999999999999999999999999995
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=99.03 E-value=3.7e-10 Score=89.66 Aligned_cols=44 Identities=27% Similarity=0.681 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHHHHHHcCCC-HHHHHHHhC-CCCHHHHHHHHhcC
Q 004288 404 ETWSDQETFLLLEGIEMYNDN-WNEIAEHVS-TKSKAQCILHFVRL 447 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yGgN-W~~IAehVG-tKT~eECilHFlqL 447 (763)
..||.+|+.+|++||.+||.+ |..||++|+ +||..||..||.++
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 479999999999999999955 999999999 99999999999764
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=98.78 E-value=8.8e-09 Score=84.89 Aligned_cols=41 Identities=34% Similarity=0.762 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 406 WSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 406 WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlq 446 (763)
||.+|+.+|++++..||.+|.+||+++|+||+.+|..||..
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=98.75 E-value=1.7e-08 Score=77.52 Aligned_cols=44 Identities=30% Similarity=0.686 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 404 ETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHFlqL 447 (763)
..||.+|+.+|++++..|| .+|..||+++++||+.+|..+|..+
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~ 46 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNL 46 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence 4799999999999999999 9999999999999999999999865
No 10
>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=98.67 E-value=3.9e-08 Score=74.55 Aligned_cols=43 Identities=33% Similarity=0.753 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 405 TWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 405 ~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHFlqL 447 (763)
.||.+|+.+|+.++.+|| ++|..||+.+++||..+|..||..+
T Consensus 1 ~Wt~eE~~~l~~~~~~~g~~~w~~Ia~~~~~rs~~~~~~~~~~~ 44 (45)
T cd00167 1 PWTEEEDELLLEAVKKYGKNNWEKIAKELPGRTPKQCRERWRNL 44 (45)
T ss_pred CCCHHHHHHHHHHHHHHCcCCHHHHHhHcCCCCHHHHHHHHHHh
Confidence 499999999999999999 9999999999999999999999764
No 11
>PLN03000 amine oxidase
Probab=98.57 E-value=6.7e-08 Score=116.28 Aligned_cols=85 Identities=22% Similarity=0.302 Sum_probs=72.3
Q ss_pred CCCCCCCCCCCCHHHHhh--CCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhh
Q 004288 185 MHSDWFSPDTVHRLERQV--VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFL 262 (763)
Q Consensus 185 SyS~WF~~~~Ih~iEk~~--lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FL 262 (763)
.++.=|+.+++++.|..+ ||. .-.+.+..|+.|||.||.+|+.||..|||+++|...+..--...+.++|+||
T Consensus 86 a~~~~~p~d~l~~~e~~~~~~~~-----~~~~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~L 160 (881)
T PLN03000 86 ALTAGFPADSLTEEEIEFGVVPI-----VGGIEQVNYILIRNHIISKWRENISSWVTKEMFLGSIPKHCSSLLDSAYNYL 160 (881)
T ss_pred HHHcCCCcccCCHHHHhccccCc-----ccccchhhHHHHHHHHHHHHHHCCceeecHHHHhhhcchhHHHHHHHHHHHH
Confidence 346789999999999776 662 1246789999999999999999999999999999887542247799999999
Q ss_pred hhhcccccccCC
Q 004288 263 NHWGIINYCAAV 274 (763)
Q Consensus 263 e~WGLINy~~dp 274 (763)
.+.|+|||++..
T Consensus 161 ~r~G~in~g~~~ 172 (881)
T PLN03000 161 VTHGYINFGIAQ 172 (881)
T ss_pred HHcCcccHHHHH
Confidence 999999999974
No 12
>PLN02328 lysine-specific histone demethylase 1 homolog
Probab=98.50 E-value=1.3e-07 Score=113.52 Aligned_cols=89 Identities=22% Similarity=0.283 Sum_probs=77.1
Q ss_pred CCCCCCCCCCCCHHHHhh-CCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhh
Q 004288 185 MHSDWFSPDTVHRLERQV-VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLN 263 (763)
Q Consensus 185 SyS~WF~~~~Ih~iEk~~-lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe 263 (763)
.++.=|..+++|+.|..+ |++.-.+ +.+..|+.|||.||.+|+.||..|||+.+|+..+-.-....+.++|.||.
T Consensus 137 a~~~~~p~~~l~~~e~~~~~~~~~~~----~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~l~ 212 (808)
T PLN02328 137 AISVGFPVDSLTEEEIEANVVSTIGG----TEQANYIVVRNHILARWRSNVSNWLTRDHALESIRAEHKNLVDSAYNFLL 212 (808)
T ss_pred HHHcCCCCccCCHHHHhhcCcchhcc----cceeehhhHHHHHHHHHHhCCcceecHHHHHhhcchhhHHHHHHHHHHHh
Confidence 357789999999998777 6666544 78999999999999999999999999999998875434578999999999
Q ss_pred hhcccccccCCCCC
Q 004288 264 HWGIINYCAAVQSP 277 (763)
Q Consensus 264 ~WGLINy~~dp~~~ 277 (763)
+.|.|||+|.|...
T Consensus 213 ~~g~in~gv~~~~~ 226 (808)
T PLN02328 213 EHGYINFGVAPVIK 226 (808)
T ss_pred ccCceeeecccccc
Confidence 99999999998654
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=98.28 E-value=8.4e-07 Score=71.48 Aligned_cols=45 Identities=33% Similarity=0.703 Sum_probs=40.1
Q ss_pred CcCCCCCCCCCc-ceeeccCCcCcccChhhhhcCCCCCCCCC-CCce
Q 004288 346 NHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHSS-LDYI 390 (763)
Q Consensus 346 ~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CFs~G~e~~~hsS-~Df~ 390 (763)
+.|++|..++.. .+|+|.+|.+++||.+||..|.+...|+. |.|+
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~ 47 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYR 47 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeE
Confidence 479999999887 99999999999999999999999999976 4444
No 14
>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=98.19 E-value=1.3e-06 Score=70.38 Aligned_cols=42 Identities=29% Similarity=0.543 Sum_probs=39.1
Q ss_pred cCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCC
Q 004288 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLD 388 (763)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~D 388 (763)
.|++|...+...+|+|++|.+++||..||..|.+..+|+..|
T Consensus 2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~~H 43 (48)
T cd02343 2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHEDDH 43 (48)
T ss_pred CCCCCCCcCCCceEECCCCCCchhHHHHHhCCccCCCCCCCC
Confidence 699999988889999999999999999999999999998754
No 15
>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=98.17 E-value=2.8e-06 Score=70.79 Aligned_cols=47 Identities=15% Similarity=0.386 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCH---HHHHHHhC-CC-CHHHHHHHHhcCCC
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNW---NEIAEHVS-TK-SKAQCILHFVRLPM 449 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW---~~IAehVG-tK-T~eECilHFlqLPI 449 (763)
+..||++|..++|+||+.|| ||| .+|+++++ ++ |+.||..|+-.+.+
T Consensus 3 r~~WT~eeh~~Fl~ai~~~G~g~~a~pk~I~~~~~~~~lT~~qV~SH~QKy~~ 55 (57)
T TIGR01557 3 RVVWTEDLHDRFLQAVQKLGGPDWATPKRILELMVVDGLTRDQVASHLQKYRL 55 (57)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcccchHHHHHHcCCCCCCHHHHHHHHHHHHc
Confidence 35799999999999999999 699 99999987 67 99999999866543
No 16
>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=98.11 E-value=2.4e-06 Score=69.00 Aligned_cols=42 Identities=31% Similarity=0.641 Sum_probs=38.7
Q ss_pred cCCCCCC-CCCcceeeccCCcCcccChhhhhcCCCCCCCCCCC
Q 004288 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLD 388 (763)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~D 388 (763)
.|++|.. ++...+|+|+.|.+|+||.+||..|.+..+|++.|
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H 44 (49)
T cd02345 2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLH 44 (49)
T ss_pred cCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCC
Confidence 6999998 99999999999999999999999999999997543
No 17
>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=98.09 E-value=2.8e-06 Score=66.91 Aligned_cols=40 Identities=33% Similarity=0.630 Sum_probs=37.3
Q ss_pred CCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCC
Q 004288 345 ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGH 384 (763)
Q Consensus 345 ~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~h 384 (763)
.+.|+.|+.++...+|+|..|.+++||.+||..|+++..|
T Consensus 4 ~~~C~~C~~~i~g~ry~C~~C~d~dlC~~Cf~~~~~~~~h 43 (44)
T smart00291 4 SYSCDTCGKPIVGVRYHCLVCPDYDLCQSCFAKGSAGGEH 43 (44)
T ss_pred CcCCCCCCCCCcCCEEECCCCCCccchHHHHhCcCcCCCC
Confidence 4689999999999999999999999999999999998776
No 18
>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=98.04 E-value=4.6e-06 Score=67.54 Aligned_cols=43 Identities=33% Similarity=0.691 Sum_probs=39.0
Q ss_pred cCCCCCC-CCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCc
Q 004288 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDY 389 (763)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df 389 (763)
.|+.|+. ++...+|+|.+|.+|+||..||..|++...|+..|-
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp 45 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHP 45 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCC
Confidence 6999996 688899999999999999999999999999987553
No 19
>PLN03212 Transcription repressor MYB5; Provisional
Probab=98.01 E-value=5.9e-06 Score=86.49 Aligned_cols=45 Identities=16% Similarity=0.427 Sum_probs=42.1
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVG-tKT~eECilHFlqL 447 (763)
...||.+|+.+|+++|++|| .+|..||+++| +||..||..+|.++
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 46799999999999999999 89999999997 79999999999875
No 20
>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=98.00 E-value=5.8e-06 Score=65.65 Aligned_cols=44 Identities=30% Similarity=0.698 Sum_probs=38.1
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCC-CCCcee
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIR 391 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hs-S~Df~r 391 (763)
+.|+.|+.++...+|+|..|.+++||.+||..|. ..|. .|.|.+
T Consensus 1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~--~~H~~~H~~~~ 45 (46)
T cd02249 1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK--KGHPPDHSFTE 45 (46)
T ss_pred CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc--CCCCCCCCEeE
Confidence 4799999999999999999999999999999998 5665 566654
No 21
>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=97.99 E-value=6.5e-06 Score=66.47 Aligned_cols=43 Identities=21% Similarity=0.397 Sum_probs=38.9
Q ss_pred cCCCCC-CCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCc
Q 004288 347 HCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDY 389 (763)
Q Consensus 347 ~C~~C~-~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df 389 (763)
.|+.|+ .++...+|+|..|.+|+||.+||..|.+...|+..|-
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~ 45 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHP 45 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCC
Confidence 699999 7899999999999999999999999999999985443
No 22
>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=97.96 E-value=7.2e-06 Score=64.60 Aligned_cols=42 Identities=29% Similarity=0.558 Sum_probs=38.0
Q ss_pred cCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceec
Q 004288 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRV 392 (763)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rV 392 (763)
.|+.|+.++...+|+|..|.+++||.+||..| .|..|.|+++
T Consensus 2 ~Cd~C~~~i~G~ry~C~~C~d~dLC~~C~~~~----~H~~H~f~~~ 43 (43)
T cd02340 2 ICDGCQGPIVGVRYKCLVCPDYDLCESCEAKG----VHPEHAMLKI 43 (43)
T ss_pred CCCCCCCcCcCCeEECCCCCCccchHHhhCcC----CCCCCCEEeC
Confidence 69999999999999999999999999999988 6777888764
No 23
>PLN02529 lysine-specific histone demethylase 1
Probab=97.93 E-value=8.9e-06 Score=97.32 Aligned_cols=87 Identities=22% Similarity=0.245 Sum_probs=72.3
Q ss_pred CCCCCCCCCCCHHHHhh--CCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhh
Q 004288 186 HSDWFSPDTVHRLERQV--VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLN 263 (763)
Q Consensus 186 yS~WF~~~~Ih~iEk~~--lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe 263 (763)
++-=|..+++.+.|+++ +|+. -++.+..|+.|||.|+.+|+.||..|||+++++..+..--...|...|.||.
T Consensus 63 ~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~yl~irn~il~~w~~np~~~~~~~~a~~~~~~~i~~ci~~c~~~l~ 137 (738)
T PLN02529 63 LSVGFPIDALLEEEIRAGVVREL-----GGKEQNDYIVVRNHILARWRSNVGIWLSKGQIKETVSSEYEHLISAAYDFLL 137 (738)
T ss_pred HHcCCCccccCHHHHhccccCcc-----ccccceeeehHHHHHHHHHHHCCceeecHHHHhhhchhhHHHHHHHHHHHHH
Confidence 45679999999999854 5443 3789999999999999999999999999999988765412344668999999
Q ss_pred hhcccccccCCCCC
Q 004288 264 HWGIINYCAAVQSP 277 (763)
Q Consensus 264 ~WGLINy~~dp~~~ 277 (763)
+-|.|||.|.|...
T Consensus 138 ~~~~inc~vnp~~~ 151 (738)
T PLN02529 138 YNGYINFGVSPSFA 151 (738)
T ss_pred hCCCcceeeccccc
Confidence 99999999998653
No 24
>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=97.81 E-value=6.9e-06 Score=65.39 Aligned_cols=41 Identities=34% Similarity=0.686 Sum_probs=31.4
Q ss_pred CCcCCCCCC-CCCcceeeccCCcCcccChhhhhcCCCCCCCC
Q 004288 345 ENHCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS 385 (763)
Q Consensus 345 ~~~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hs 385 (763)
.+.|+.|+. ++...+|+|..|.+|+||..||..|++...|+
T Consensus 4 ~~~C~~C~~~~i~g~Ry~C~~C~d~dLC~~C~~~g~~~~~H~ 45 (46)
T PF00569_consen 4 GYTCDGCGTDPIIGVRYHCLVCPDYDLCEDCFSKGRHSHNHK 45 (46)
T ss_dssp SCE-SSS-SSSEESSEEEESSSSS-EEEHHHHHH--H-SSSS
T ss_pred CeECcCCCCCcCcCCeEECCCCCCCchhhHHHhCcCCCCCcC
Confidence 468999998 66789999999999999999999999888774
No 25
>PLN03091 hypothetical protein; Provisional
Probab=97.76 E-value=3.2e-05 Score=86.53 Aligned_cols=45 Identities=22% Similarity=0.531 Sum_probs=41.8
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhC-CCCHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVG-tKT~eECilHFlqL 447 (763)
...||.+|+.+|+++|++|| .+|..||+++| +||..||..||+.+
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 45799999999999999999 89999999998 79999999999764
No 26
>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=97.70 E-value=4e-05 Score=61.91 Aligned_cols=43 Identities=28% Similarity=0.651 Sum_probs=36.4
Q ss_pred CcCCCCCC-CCCcceeeccCCc--CcccChhhhhcCCCCCCCCC-CCcee
Q 004288 346 NHCNYCSQ-PIPAVYYQSQKEV--DVLLCPECFHEGRFVTGHSS-LDYIR 391 (763)
Q Consensus 346 ~~C~~C~~-~~~~~~y~c~kc~--d~~LC~~CFs~G~e~~~hsS-~Df~r 391 (763)
+.|+.|+. ++...+|+|..|. +|+||.+||..|. .|+. |.|++
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~---~H~~~H~~~~ 47 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE---SHQEDHWLVK 47 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC---CCCCCCceee
Confidence 47999998 8999999999999 9999999999997 6654 44444
No 27
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.44 E-value=0.00016 Score=76.08 Aligned_cols=46 Identities=13% Similarity=0.229 Sum_probs=42.7
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 401 IDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 401 ~~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlq 446 (763)
.....||.+|+.+||+.+..||..|..||++|.+||..+|..||..
T Consensus 76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns 121 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNT 121 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHH
Confidence 3467899999999999999999999999999999999999999964
No 28
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=97.43 E-value=0.00013 Score=76.41 Aligned_cols=44 Identities=14% Similarity=0.415 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhC-CCCHHHHHHHHhc
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVR 446 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVG-tKT~eECilHFlq 446 (763)
...||.+|+.+|.+.|++|| ++|..|+++.| .|+..+|+++|+.
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~N 54 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTN 54 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhc
Confidence 46899999999999999999 99999999999 8999999999976
No 29
>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=97.42 E-value=0.00015 Score=57.97 Aligned_cols=42 Identities=24% Similarity=0.630 Sum_probs=35.1
Q ss_pred cCCCCCC-CCCcceeeccCCcCcccChhhhhcCCCCCCCC-CCCceec
Q 004288 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRV 392 (763)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hs-S~Df~rV 392 (763)
.|++|+. ++...+|+|+.|.+|+||..||..+. |+ .|.|.||
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 6999985 77889999999999999999999853 53 5677764
No 30
>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=97.11 E-value=0.00046 Score=55.09 Aligned_cols=41 Identities=24% Similarity=0.603 Sum_probs=33.4
Q ss_pred cCCCCC-CCCCcceeeccCCcCcccChhhhhcCCCCCCCC-CCCcee
Q 004288 347 HCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIR 391 (763)
Q Consensus 347 ~C~~C~-~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hs-S~Df~r 391 (763)
.|+.|+ .++...+|+|..|.+++||.+||..+ .|+ .|.|++
T Consensus 2 ~Cd~C~~~~i~G~RykC~~C~dyDLC~~C~~~~----~H~~~H~f~r 44 (45)
T cd02339 2 ICDTCRKQGIIGIRWKCAECPNYDLCTTCYHGD----KHDLEHRFYR 44 (45)
T ss_pred CCCCCCCCCcccCeEECCCCCCccchHHHhCCC----CCCCCCCEEe
Confidence 699999 67778999999999999999999964 343 455654
No 31
>PLN03091 hypothetical protein; Provisional
Probab=97.07 E-value=0.00075 Score=75.87 Aligned_cols=46 Identities=20% Similarity=0.330 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqL 447 (763)
....||.+|+.+||+.+..||..|.+||++|..||..+|..||..+
T Consensus 66 kKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnsl 111 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSC 111 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHH
Confidence 4578999999999999999999999999999999999999998753
No 32
>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=96.91 E-value=0.00072 Score=52.94 Aligned_cols=33 Identities=21% Similarity=0.521 Sum_probs=28.9
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCC
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGR 379 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~ 379 (763)
+.|+.|...++ .+|+|+.|.||+||..||..+.
T Consensus 1 y~C~~C~~~~~-~r~~C~~C~dfDLC~~C~~~~~ 33 (41)
T cd02337 1 YTCNECKHHVE-TRWHCTVCEDYDLCITCYNTKN 33 (41)
T ss_pred CcCCCCCCcCC-CceECCCCcchhhHHHHhCCCC
Confidence 47999998654 9999999999999999998754
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=96.36 E-value=0.0023 Score=50.70 Aligned_cols=31 Identities=35% Similarity=0.771 Sum_probs=28.4
Q ss_pred cCCCCCC-CCCcceeeccCCcCcccChhhhhc
Q 004288 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHE 377 (763)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~ 377 (763)
.|+.|+. ++...+|+|..|.+|+||..||..
T Consensus 2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~ 33 (43)
T cd02342 2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSR 33 (43)
T ss_pred CCCCCCCCcccccceEeCCCCCCccHHHHhhh
Confidence 6999995 888899999999999999999965
No 34
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.98 E-value=0.011 Score=62.07 Aligned_cols=44 Identities=18% Similarity=0.405 Sum_probs=40.8
Q ss_pred CCCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHH
Q 004288 401 IDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHF 444 (763)
Q Consensus 401 ~~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHF 444 (763)
.....||.+||.+|+++-..||.-|..||.|+.+||-.++..||
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 34678999999999999999999999999999999999998877
No 35
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.94 E-value=0.0086 Score=69.83 Aligned_cols=46 Identities=26% Similarity=0.658 Sum_probs=42.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 402 DGETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHFlqL 447 (763)
....||.+|+.+|+-||++|| -+|-+|-+.|.+||-.||..+|++.
T Consensus 359 khg~wt~~ED~~L~~AV~~Yg~kdw~k~R~~vPnRSdsQcR~RY~nv 405 (939)
T KOG0049|consen 359 KHGRWTDQEDVLLVCAVSRYGAKDWAKVRQAVPNRSDSQCRERYTNV 405 (939)
T ss_pred cCCCCCCHHHHHHHHHHHHhCccchhhHHHhcCCccHHHHHHHHHHH
Confidence 356899999999999999999 7999999999999999999999873
No 36
>PLN02976 amine oxidase
Probab=95.93 E-value=0.0058 Score=77.65 Aligned_cols=83 Identities=22% Similarity=0.394 Sum_probs=66.9
Q ss_pred CCCCCCCHHHHhhCCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcc---cCC--CCHHHHHHHHHhhhh
Q 004288 190 FSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGL---VDG--VSPEDLTRIFRFLNH 264 (763)
Q Consensus 190 F~~~~Ih~iEk~~lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~---l~g--~Dv~~i~RVh~FLe~ 264 (763)
+....|.+|||-.|.|....| -.-+.|+++||.|+-+|-+|=.+-|-+|+|-=. +.. .-...|..|+.||++
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 LKARAVGPIEKIKFKEVLKRK---GGLQEYLECRNMILGLWSKDVSRILPLADCGVTDTPSEDESPRASLIREVYLFLDQ 531 (1713)
T ss_pred ccccccChHHHHHHHHHHHhc---cchHHHHHHHHHHHHHhhhhhhhcccHhhccccCCcccccCchhhHHHHHHHHhhc
Confidence 345678899999988888643 357889999999999999999999999999411 000 136678999999999
Q ss_pred hcccccccCCC
Q 004288 265 WGIINYCAAVQ 275 (763)
Q Consensus 265 WGLINy~~dp~ 275 (763)
.|.||-++...
T Consensus 532 ~gyin~g~~s~ 542 (1713)
T PLN02976 532 RGYINAGIASE 542 (1713)
T ss_pred cCceecccccc
Confidence 99999998764
No 37
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.52 E-value=0.011 Score=68.87 Aligned_cols=45 Identities=24% Similarity=0.416 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCH---HHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSK---AQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~---eECilHFlqL 447 (763)
.+.||-+|+..||++|++|| |+|-+||-.+|.||. .-|.++|+..
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 46899999999999999999 999999999999998 6699999764
No 38
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=95.50 E-value=0.0085 Score=64.62 Aligned_cols=44 Identities=23% Similarity=0.453 Sum_probs=36.5
Q ss_pred CcCCCCCC-CCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceec
Q 004288 346 NHCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRV 392 (763)
Q Consensus 346 ~~C~~C~~-~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rV 392 (763)
..|+.|+. .+...+|+|..|.||+||.+|+..+ ..|-.|-|.++
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 58999999 8899999999999999999999876 33445555553
No 39
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=95.41 E-value=0.0068 Score=71.59 Aligned_cols=43 Identities=35% Similarity=0.708 Sum_probs=38.0
Q ss_pred CcCCCCC-CCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCC
Q 004288 346 NHCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLD 388 (763)
Q Consensus 346 ~~C~~C~-~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~D 388 (763)
..|+.|. .+|...+|+|++|-+++||..||..|+-..+|+-++
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 6799997 556679999999999999999999999999997664
No 40
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.32 E-value=0.011 Score=52.06 Aligned_cols=44 Identities=34% Similarity=0.698 Sum_probs=33.2
Q ss_pred CCCCHHHHHHHHHHHHH------cC------C--CHHHHHHHhC----CCCHHHHHHHHhcC
Q 004288 404 ETWSDQETFLLLEGIEM------YN------D--NWNEIAEHVS----TKSKAQCILHFVRL 447 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~------yG------g--NW~~IAehVG----tKT~eECilHFlqL 447 (763)
..||++|+..||+.+.. |+ + -|..||+.+. .||+.||..+|-.|
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 21 1 4999999984 59999999999876
No 41
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=94.89 E-value=0.014 Score=64.01 Aligned_cols=41 Identities=22% Similarity=0.448 Sum_probs=34.7
Q ss_pred CCcCCCCCCCC-CcceeeccCCcCcccChhhhhcCCCCCCCC
Q 004288 345 ENHCNYCSQPI-PAVYYQSQKEVDVLLCPECFHEGRFVTGHS 385 (763)
Q Consensus 345 ~~~C~~C~~~~-~~~~y~c~kc~d~~LC~~CFs~G~e~~~hs 385 (763)
...|+.|++.- +.-+|+|+.|.||+||..||.+|.-...|.
T Consensus 8 ~v~CdgC~k~~~t~rrYkCL~C~DyDlC~sCyen~~tt~~H~ 49 (381)
T KOG1280|consen 8 GVSCDGCGKTAFTFRRYKCLRCSDYDLCFSCYENGATTPIHD 49 (381)
T ss_pred CceeccccccceeeeeeEeeeecchhHHHHHhhcCCCCcccC
Confidence 35799998654 558999999999999999999998777764
No 42
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=92.19 E-value=0.16 Score=59.76 Aligned_cols=45 Identities=16% Similarity=0.358 Sum_probs=42.2
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqL 447 (763)
....||.+|+..|-.-+.++|++|..|++.|| |.|..|..+|-++
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 46789999999999999999999999999998 8999999999875
No 43
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=91.99 E-value=2 Score=52.06 Aligned_cols=74 Identities=15% Similarity=0.255 Sum_probs=34.4
Q ss_pred CcccChhhhhcCCCCCCC--C-CCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC--CCHHHHHHHhCCCCHHHHH
Q 004288 367 DVLLCPECFHEGRFVTGH--S-SLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN--DNWNEIAEHVSTKSKAQCI 441 (763)
Q Consensus 367 d~~LC~~CFs~G~e~~~h--s-S~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG--gNW~~IAehVGtKT~eECi 441 (763)
.++-|.+.|.+.++.-.. . ..+....-...+ -...=+--|..+||-++-.-+ +-.++|=+.+-+.-..+-+
T Consensus 211 eiIrClka~mNn~~Gl~~vL~~e~~lllla~ald----pr~pnmm~dvvkllsalciV~ee~~~ekvl~aiT~~ae~~~v 286 (1102)
T KOG1924|consen 211 EIIRCLKAFMNNKFGLVLVLRRERSLLLLARALD----PREPNMMTDVVKLLSALCIVGEENGLEKVLEAITTIAEAKPV 286 (1102)
T ss_pred HHHHHHHHHhccccceeeeecCCccHHHHHHhcC----ccCccHHHHHHHHHHHHheeehhhHHHHHHHHHHHHHhhcch
Confidence 366788888887775431 0 000000000000 012335566777777776544 3344555554443333444
Q ss_pred HHH
Q 004288 442 LHF 444 (763)
Q Consensus 442 lHF 444 (763)
.+|
T Consensus 287 eRF 289 (1102)
T KOG1924|consen 287 ERF 289 (1102)
T ss_pred hhh
Confidence 444
No 44
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=91.04 E-value=0.078 Score=58.33 Aligned_cols=43 Identities=28% Similarity=0.633 Sum_probs=36.9
Q ss_pred CCcCCCCC-CCCCcceeeccCCcCcccChhhhhcCCCCCCCCCC
Q 004288 345 ENHCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSL 387 (763)
Q Consensus 345 ~~~C~~C~-~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~ 387 (763)
...|++|. ..++..+|.|+.|.++.+|.+||-.|+-.+.|+.-
T Consensus 240 pv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g~~hsnq 283 (434)
T KOG4301|consen 240 PVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAGGSHSNQ 283 (434)
T ss_pred CccCcceecccccchhhhHhhcCCccccchhhccccCCCCcchH
Confidence 35799996 55677999999999999999999999998888653
No 45
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=90.22 E-value=0.26 Score=58.18 Aligned_cols=52 Identities=25% Similarity=0.481 Sum_probs=43.9
Q ss_pred CCCCCCHHHHHHHHHHHH-------Hc------------------C-CCHHHHHHHhCCCCHHHHHHHHhcCCCCCCc
Q 004288 402 DGETWSDQETFLLLEGIE-------MY------------------N-DNWNEIAEHVSTKSKAQCILHFVRLPMEDGI 453 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe-------~y------------------G-gNW~~IAehVGtKT~eECilHFlqLPIED~f 453 (763)
....||-+|+.+||..|+ .| . =+|..|++.+|||+..||..||.+|=+...+
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s~ 512 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPSF 512 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHHh
Confidence 356899999999999995 34 1 2799999999999999999999998766544
No 46
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=89.24 E-value=0.55 Score=56.18 Aligned_cols=45 Identities=20% Similarity=0.435 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlq 446 (763)
..+-||-.|..++-+||-.|.-|+..|++.|.+||..||+..|.-
T Consensus 618 gSd~WTp~E~~lF~kA~y~~~KDF~~v~km~~~KtVaqCVeyYYt 662 (907)
T KOG4167|consen 618 GSDKWTPLERKLFNKALYTYSKDFIFVQKMVKSKTVAQCVEYYYT 662 (907)
T ss_pred CcccccHHHHHHHHHHHHHhcccHHHHHHHhccccHHHHHHHHHH
Confidence 456899999999999999999999999999999999999998853
No 47
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=88.82 E-value=0.75 Score=51.46 Aligned_cols=44 Identities=14% Similarity=0.394 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlq 446 (763)
...||..|..++..||.++|.|+.-|+....+|+..|+.++|++
T Consensus 365 ~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 365 ALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence 46899999999999999999999999999999999999999975
No 48
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=88.72 E-value=0.39 Score=55.48 Aligned_cols=43 Identities=26% Similarity=0.592 Sum_probs=40.8
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHHh
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFV 445 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHFl 445 (763)
+..|+..|+..|--|+.+|| ..|.+|+..+..||+.||..+|.
T Consensus 7 ggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~ 50 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWE 50 (617)
T ss_pred cceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHH
Confidence 46799999999999999999 88999999999999999999997
No 49
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=87.70 E-value=1.2 Score=38.62 Aligned_cols=44 Identities=30% Similarity=0.445 Sum_probs=37.3
Q ss_pred CCCCHHHHHHHHHHHHHcC-----------------CCHHHHHHHhC-----CCCHHHHHHHHhcC
Q 004288 404 ETWSDQETFLLLEGIEMYN-----------------DNWNEIAEHVS-----TKSKAQCILHFVRL 447 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yG-----------------gNW~~IAehVG-----tKT~eECilHFlqL 447 (763)
..||.+|...||+-|+.|. .-|.+|++.+. .||..||..+|-.|
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 4799999999999999972 25999999993 59999999988654
No 50
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=86.89 E-value=0.53 Score=54.45 Aligned_cols=44 Identities=25% Similarity=0.514 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqL 447 (763)
...|+.+|+.+||.+...+..-|--||.-|| +|..||..||..|
T Consensus 59 ~tews~eederlLhlakl~p~qwrtIa~i~g-r~~~qc~eRy~~l 102 (617)
T KOG0050|consen 59 KTEWSREEDERLLHLAKLEPTQWRTIADIMG-RTSQQCLERYNNL 102 (617)
T ss_pred hhhhhhhHHHHHHHHHHhcCCccchHHHHhh-hhHHHHHHHHHHH
Confidence 4689999999999999999999999999998 9999999999886
No 51
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=85.51 E-value=1 Score=49.61 Aligned_cols=46 Identities=28% Similarity=0.528 Sum_probs=37.6
Q ss_pred CCCCHHHHHHHHHHHHHc----C-CC-----HHHHHHHh---C-CCCHHHHHHHHhcCCC
Q 004288 404 ETWSDQETFLLLEGIEMY----N-DN-----WNEIAEHV---S-TKSKAQCILHFVRLPM 449 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~y----G-gN-----W~~IAehV---G-tKT~eECilHFlqLPI 449 (763)
..|+.+|++.||++.... . ++ |..||... | .||+.||..+|-.|..
T Consensus 55 ~~Ws~~et~~Li~~~~~~~~~~~~~~~k~~~We~va~k~~~~g~~rs~~qck~K~~nl~k 114 (345)
T KOG4282|consen 55 PRWSEEETLTLIEIRGEMDVALRRGKLKGPLWEEVARKMAELGYPRSPKQCKAKIENLKK 114 (345)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhhhcccHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence 679999999999998652 2 44 99999944 4 5999999999987754
No 52
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=79.05 E-value=1.7 Score=51.16 Aligned_cols=45 Identities=20% Similarity=0.427 Sum_probs=39.3
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHH----------HHhCCCCHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYNDNWNEIA----------EHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yGgNW~~IA----------ehVGtKT~eECilHFlqL 447 (763)
...||.+|+.-+.+||..||-|+++|- ..+..||+.|...||.++
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 468999999999999999999999993 334568999999999886
No 53
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=78.02 E-value=3 Score=46.82 Aligned_cols=47 Identities=23% Similarity=0.428 Sum_probs=41.5
Q ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHH-HHhCCCCHHHHHHHHhcCCCC
Q 004288 404 ETWSDQETFLLLEGIEMYNDNWNEIA-EHVSTKSKAQCILHFVRLPME 450 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yGgNW~~IA-ehVGtKT~eECilHFlqLPIE 450 (763)
..|+.+|=+.+=+||+.||-|...|- ..|.|||--||+..|..--..
T Consensus 278 ~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKkS 325 (445)
T KOG4329|consen 278 SGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKKS 325 (445)
T ss_pred ccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhcC
Confidence 58999999999999999999999995 489999999999988765443
No 54
>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=77.68 E-value=2.2 Score=42.94 Aligned_cols=43 Identities=19% Similarity=0.457 Sum_probs=37.0
Q ss_pred CCCCCHHHHHHHHHHHHHcC--C-----CHHHHHHHhCCCCHHHHHHHHhc
Q 004288 403 GETWSDQETFLLLEGIEMYN--D-----NWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG--g-----NW~~IAehVGtKT~eECilHFlq 446 (763)
.+.||.+|+++|-|.|..|- | -.++|++.++ ||+.-|-.+|..
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~-RTsAACGFRWNs 53 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN-RTAAACGFRWNA 53 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-ccHHHhcchHHH
Confidence 36799999999999999983 2 5788889885 999999999954
No 55
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=76.40 E-value=1.6 Score=51.14 Aligned_cols=42 Identities=19% Similarity=0.380 Sum_probs=40.1
Q ss_pred CCCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHH
Q 004288 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHF 444 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHF 444 (763)
...|+..|+..|+-+++.|| .||.+||...+.+++++|..|+
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 45899999999999999999 9999999999999999999999
No 56
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=73.05 E-value=3.1 Score=48.79 Aligned_cols=46 Identities=22% Similarity=0.496 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqL 447 (763)
....|+.+|+..|++.-..+|.-|..||..|+.+|..+|..+|+.+
T Consensus 71 k~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~ 116 (512)
T COG5147 71 KKKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNT 116 (512)
T ss_pred ccccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHH
Confidence 3468999999999999999999999999999999999999999953
No 57
>KOG4661 consensus Hsp27-ERE-TATA-binding protein/Scaffold attachment factor (SAF-B) [Transcription]
Probab=71.30 E-value=10 Score=44.76 Aligned_cols=18 Identities=22% Similarity=0.584 Sum_probs=13.8
Q ss_pred HHHHHHHhcCCCCCCccc
Q 004288 438 AQCILHFVRLPMEDGILE 455 (763)
Q Consensus 438 eECilHFlqLPIED~fL~ 455 (763)
.-||.|..+.-+....+.
T Consensus 461 tkCI~hLHrTELHGrmIS 478 (940)
T KOG4661|consen 461 TKCIEHLHRTELHGRMIS 478 (940)
T ss_pred HHHHHHhhhhhhcceeee
Confidence 569999998887766653
No 58
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=69.88 E-value=5.8 Score=36.72 Aligned_cols=45 Identities=24% Similarity=0.446 Sum_probs=34.5
Q ss_pred CCCCCHHHHHHHHHHHHHc----C----CCHHHHHHHhCCC-----CHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMY----N----DNWNEIAEHVSTK-----SKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~y----G----gNW~~IAehVGtK-----T~eECilHFlqL 447 (763)
..-||+++|+.||+||-.| | .||...-++|... |..|-..+.-+|
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 4579999999999999888 4 4899988888632 566666655444
No 59
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=69.16 E-value=5.7 Score=46.63 Aligned_cols=96 Identities=9% Similarity=-0.049 Sum_probs=75.8
Q ss_pred eCCCCCCCCCCCCCCHHHHhhCCcccCCCC-CCCChHHHHHHHHHHHHHHHhCCCceee-----HHHhhcccCC-CCHHH
Q 004288 182 VLPMHSDWFSPDTVHRLERQVVPHFFSGKS-PDHTPEKYMECRNHIVAKYMDNPEKRLI-----VSDCQGLVDG-VSPED 254 (763)
Q Consensus 182 vIPSyS~WF~~~~Ih~iEk~~lPEFF~gk~-~~kTPe~Y~~~RN~II~~yr~nP~~yLT-----~T~crr~l~g-~Dv~~ 254 (763)
..+.+++=++...=+.-.....++|+.+++ ....+..|+.+|+.+++.++---..+.+ -+..+++.+. .++-.
T Consensus 185 ~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df~~~~~~~~~~WT~qE~lLL 264 (506)
T KOG1279|consen 185 TLSLESKIKSLHINAGEHLCAIHCFIKEDPYYYDLTNRDVNLCADCYDQGEFPSEFKKSDFKVIGESARPNWTEQETLLL 264 (506)
T ss_pred cccccccccccccChHhhccccchhccccchhhhcchhhhhhhHHHHhcCCccCccccccchhccccCCCCccHHHHHHH
Confidence 667778888888888899999999998873 2567888899999999999765444444 4556666654 56788
Q ss_pred HHHHHHhhhhhcccccccCCCCC
Q 004288 255 LTRIFRFLNHWGIINYCAAVQSP 277 (763)
Q Consensus 255 i~RVh~FLe~WGLINy~~dp~~~ 277 (763)
|-+|+.|.+.|+.|+.+|--.++
T Consensus 265 LE~ie~y~ddW~kVa~hVg~ks~ 287 (506)
T KOG1279|consen 265 LEAIEMYGDDWNKVADHVGTKSQ 287 (506)
T ss_pred HHHHHHhcccHHHHHhccCCCCH
Confidence 99999999999999999985443
No 60
>PF15324 TALPID3: Hedgehog signalling target
Probab=67.61 E-value=46 Score=42.25 Aligned_cols=82 Identities=24% Similarity=0.340 Sum_probs=54.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHhHHHH----------------HHHHHHHHHHHHH-----------HHHHHHHHHHHH
Q 004288 578 SAEKVKAAAKAGLAAAATKAKLFADHEE----------------REIQRLSANIINH-----------QFAEVETLLMRE 630 (763)
Q Consensus 578 s~~~vk~Aaa~ALaAAAakAklLA~~EE----------------REI~rLva~iIe~-----------QF~eLE~~L~kE 630 (763)
++.+|-+|.|+|+|+||-=-|.-.+.|- |++++....-.+. +=+.|..+|+..
T Consensus 61 SAtTVAAATAAAIATaAPLiKvQSdLEAKVnsVselL~KLQEtDkqLqrvteqQt~i~~~~ek~~ch~~EkQmn~fmeQ~ 140 (1252)
T PF15324_consen 61 SATTVAAATAAAIATAAPLIKVQSDLEAKVNSVSELLNKLQETDKQLQRVTEQQTSIQNQHEKLHCHDHEKQMNVFMEQH 140 (1252)
T ss_pred hHHHHHHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhhhhcchhhhhhhhccccccccccchhhHHHHHHHHHHHH
Confidence 5567778888888888766565555442 2222222221110 124456677888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCCCC
Q 004288 631 CEQVEKARQRFATERTRIVSTRLGPGGVP 659 (763)
Q Consensus 631 reqLEr~Rq~L~~ER~~il~~rl~~~g~~ 659 (763)
.+.||+..||.+.-+..||.+.|.+++.-
T Consensus 141 l~HLEKLQqQQi~iQshfIsSAl~~~s~q 169 (1252)
T PF15324_consen 141 LRHLEKLQQQQIDIQSHFISSALKTGSLQ 169 (1252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 88999999999999999999999977654
No 61
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=65.26 E-value=8.7 Score=48.84 Aligned_cols=39 Identities=21% Similarity=0.390 Sum_probs=36.6
Q ss_pred CCCCHHHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHH
Q 004288 404 ETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCIL 442 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yG-gNW~~IAehVGtKT~eECil 442 (763)
..||..+-..++.|.++|| +|-..||..|++||++|...
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~ 864 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVER 864 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHH
Confidence 4799999999999999999 99999999999999999874
No 62
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=63.54 E-value=4.3 Score=42.79 Aligned_cols=17 Identities=24% Similarity=0.597 Sum_probs=10.7
Q ss_pred hh-HHHhhhcCcccccCC
Q 004288 11 TR-KWKRRKREPRKQLNK 27 (763)
Q Consensus 11 ~~-~~~~~~~~~~~~~~~ 27 (763)
.| |||||--..-++-++
T Consensus 218 RRTKWRKkhAaEmasakk 235 (288)
T KOG0847|consen 218 RRTKWRKKHAAEMASAKK 235 (288)
T ss_pred chhhhhhhhccchhhccc
Confidence 45 999998744444333
No 63
>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=62.83 E-value=4.8 Score=29.21 Aligned_cols=27 Identities=33% Similarity=0.806 Sum_probs=12.5
Q ss_pred cCCCCCCCCCc-ceeeccCCcCcccChhh
Q 004288 347 HCNYCSQPIPA-VYYQSQKEVDVLLCPEC 374 (763)
Q Consensus 347 ~C~~C~~~~~~-~~y~c~kc~d~~LC~~C 374 (763)
.|+.|+..... ..|+|..| +|.|...|
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 59999999988 99999998 68888777
No 64
>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]
Probab=58.78 E-value=17 Score=42.27 Aligned_cols=32 Identities=25% Similarity=0.319 Sum_probs=21.1
Q ss_pred CCCCCccCCCCCC-CCCCcCCCCCCCCCCCCCC
Q 004288 666 VVAPSMVNNNIGN-NRPQVMSASSSQPSIPGYS 697 (763)
Q Consensus 666 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~ 697 (763)
+|-|-|..|-+|. --|.++|..||-|-|+|+.
T Consensus 511 ~~~~A~~~~M~~~m~~P~~~PSA~P~P~M~~~~ 543 (654)
T COG5180 511 GMNPAMGMNMGGMMGFPMGGPSASPNPMMNGFA 543 (654)
T ss_pred ccChhhcCCccceeeccCCCCCCCCCCCcCCcc
Confidence 5666666555553 2356688888888888854
No 65
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=58.77 E-value=1.7e+02 Score=34.45 Aligned_cols=54 Identities=6% Similarity=0.131 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 584 AAAKAGLAAAATKAKLFADHEEREIQRLSAN--IINHQFAEVETLLMRECEQVEKARQRF 641 (763)
Q Consensus 584 ~Aaa~ALaAAAakAklLA~~EEREI~rLva~--iIe~QF~eLE~~L~kEreqLEr~Rq~L 641 (763)
.....+|.....|++.| |++|..|=.. ++..+.+++|.+|++--.++++.++++
T Consensus 65 kVnqSALteqQ~kasEL----EKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 65 KVRQHATTEMQVTAAQM----QKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 35566777777777777 6777766222 222455555555544333344444443
No 66
>PF03276 Gag_spuma: Spumavirus gag protein; InterPro: IPR004957 The Spumavirus gag protein is a core viral polyprotein that undergoes specific enzymatic cleavages in vivo to yield the mature protein.; GO: 0019028 viral capsid
Probab=57.03 E-value=2.4e+02 Score=33.87 Aligned_cols=9 Identities=33% Similarity=0.549 Sum_probs=6.3
Q ss_pred cccCCCCCC
Q 004288 751 MIRSASGTS 759 (763)
Q Consensus 751 ~~~~~~~~~ 759 (763)
-+|.|.|+.
T Consensus 268 hIRaViGet 276 (582)
T PF03276_consen 268 HIRAVIGET 276 (582)
T ss_pred HHHhhhCCC
Confidence 378888864
No 67
>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=56.13 E-value=12 Score=33.22 Aligned_cols=43 Identities=28% Similarity=0.460 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHHc-------C------CCHHHHHHHhC-----CCCHHHHHHHHhcC
Q 004288 405 TWSDQETFLLLEGIEMY-------N------DNWNEIAEHVS-----TKSKAQCILHFVRL 447 (763)
Q Consensus 405 ~WT~eEellLLEaIe~y-------G------gNW~~IAehVG-----tKT~eECilHFlqL 447 (763)
.||++++..||+.+... . ..|+.|++.+. ..|+.||..||-.|
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 49999999999998543 1 25889999884 46889999998655
No 68
>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=54.23 E-value=16 Score=35.07 Aligned_cols=44 Identities=18% Similarity=0.379 Sum_probs=35.1
Q ss_pred CCCCCCHHHHHHHHHHHHHcC----CCHHHHHHHh------------CCCCHHHHHHHHh
Q 004288 402 DGETWSDQETFLLLEGIEMYN----DNWNEIAEHV------------STKSKAQCILHFV 445 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yG----gNW~~IAehV------------GtKT~eECilHFl 445 (763)
.+..||.+|+--||-.+.+|| |+|++|-+.| .+||+.|+..|-.
T Consensus 48 ~~k~yseeEDRfLl~~~~~~G~~~~~~~e~Ik~~Ir~~p~FrFDwf~kSRt~~el~rR~~ 107 (118)
T PF09111_consen 48 KKKVYSEEEDRFLLCMLYKYGYDAEGNWEKIKQEIRESPLFRFDWFFKSRTPQELQRRCN 107 (118)
T ss_dssp S-SSS-HHHHHHHHHHHHHHTTTSTTHHHHHHHHHHH-CGGCT-HHHHTS-HHHHHHHHH
T ss_pred CCCCcCcHHHHHHHHHHHHhCCCCCchHHHHHHHHHhCCCcccchhcccCCHHHHHHHHH
Confidence 357899999999999999998 5899999988 3789988876653
No 69
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=53.02 E-value=39 Score=35.14 Aligned_cols=21 Identities=29% Similarity=0.303 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 004288 629 RECEQVEKARQRFATERTRIV 649 (763)
Q Consensus 629 kEreqLEr~Rq~L~~ER~~il 649 (763)
.+|.+.|+.+|+.+.+..++|
T Consensus 91 ~~r~~fekekqq~~~~~t~~L 111 (228)
T PRK06800 91 AARQQFQKEQQETAYEWTELL 111 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 70
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=52.35 E-value=23 Score=41.06 Aligned_cols=45 Identities=11% Similarity=0.421 Sum_probs=41.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqL 447 (763)
-+.||++|..||=.+.+.||-+..+|-+.+--||-...+..|...
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 468999999999999999999999999999999999999888654
No 71
>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=52.01 E-value=12 Score=27.29 Aligned_cols=28 Identities=21% Similarity=0.584 Sum_probs=22.7
Q ss_pred CcCCCCCCCCCcc-eeeccCCcCcccChhh
Q 004288 346 NHCNYCSQPIPAV-YYQSQKEVDVLLCPEC 374 (763)
Q Consensus 346 ~~C~~C~~~~~~~-~y~c~kc~d~~LC~~C 374 (763)
+.|..|++.+... .|+|.+|. +.+.+.|
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 3699999999888 99997764 7777666
No 72
>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=51.16 E-value=19 Score=30.02 Aligned_cols=53 Identities=25% Similarity=0.285 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHHHHhCCCcee-eHHHhhcccCCCCHHHHHHHHHhhhhhccccc
Q 004288 216 PEKYMECRNHIVAKYMDNPEKRL-IVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 216 Pe~Y~~~RN~II~~yr~nP~~yL-T~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
-++|-.+++.|.+.- .-|..+| +..+.-+.+ |+....+.+....|+.+|+|--
T Consensus 3 ~~i~~~l~~~I~~g~-~~~g~~lps~~~la~~~-~vsr~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 3 EQIYDQLRQAILSGR-LPPGDRLPSERELAERY-GVSRTTVREALRRLEAEGLIER 56 (64)
T ss_dssp HHHHHHHHHHHHTTS-S-TTSBE--HHHHHHHH-TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHcCC-CCCCCEeCCHHHHHHHh-ccCCcHHHHHHHHHHHCCcEEE
Confidence 367888888888755 4578899 888854444 5678899999999999999954
No 73
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=50.31 E-value=26 Score=34.15 Aligned_cols=58 Identities=22% Similarity=0.294 Sum_probs=43.9
Q ss_pred CCChHHHHHHHHHHHHHHH---hCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhcccccc
Q 004288 213 DHTPEKYMECRNHIVAKYM---DNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYC 271 (763)
Q Consensus 213 ~kTPe~Y~~~RN~II~~yr---~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~ 271 (763)
++.| +|.+|.|.|...-. +.|...|--+---....|++.+.+.|.+.-||+-|+|.-.
T Consensus 8 s~~P-IY~QI~~qIk~~I~~g~l~pGdkLPSvRelA~~~~VNpnTv~raY~eLE~eG~i~t~ 68 (125)
T COG1725 8 SSKP-IYEQIANQIKEQIASGELKPGDKLPSVRELAKDLGVNPNTVQRAYQELEREGIVETK 68 (125)
T ss_pred CCCC-HHHHHHHHHHHHHHhCCcCCCCCCCcHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 3444 89999999987765 5677776544333333468999999999999999999655
No 74
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=50.11 E-value=14 Score=42.84 Aligned_cols=51 Identities=25% Similarity=0.420 Sum_probs=40.6
Q ss_pred CCCCHHHHHHHHHHHHHcCCCHHHHHH-HhCCCCHHHHHHHHhcCCCCCCcc
Q 004288 404 ETWSDQETFLLLEGIEMYNDNWNEIAE-HVSTKSKAQCILHFVRLPMEDGIL 454 (763)
Q Consensus 404 ~~WT~eEellLLEaIe~yGgNW~~IAe-hVGtKT~eECilHFlqLPIED~fL 454 (763)
..|+.-|-.++=||+++||-|+++|-+ ++.=||-..++..|.-.--.|.|.
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKttdRYv 337 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTTDRYV 337 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhhhHHH
Confidence 589999999999999999999999976 445588888887776554445443
No 75
>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=50.08 E-value=64 Score=40.06 Aligned_cols=39 Identities=21% Similarity=0.196 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 004288 580 EKVKAAAKAGLA-AAATKAKLFADHEEREIQRLSANIINH 618 (763)
Q Consensus 580 ~~vk~Aaa~ALa-AAAakAklLA~~EEREI~rLva~iIe~ 618 (763)
.-+..|...+|- ..-.+|+.+...++.++++|+..|.+.
T Consensus 484 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~L~~~ 523 (771)
T TIGR01069 484 YAFEIAQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLSAL 523 (771)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 345555555553 346789999999999999999999764
No 76
>PLN03131 hypothetical protein; Provisional
Probab=49.84 E-value=22 Score=42.75 Aligned_cols=95 Identities=18% Similarity=0.318 Sum_probs=54.4
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHH------H
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGI------E 419 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaI------e 419 (763)
..|.-|+... ..+.|.. -.+.||..|-.--+... + +|... .-+.||++|...| +.+ +
T Consensus 24 k~CADCga~~--P~WASiN-lGIFICi~CSGIHRsLg-----h--RVKSV------TLD~WtdeEV~~M-k~gGN~~AN~ 86 (705)
T PLN03131 24 RRCINCNSLG--PQFVCTN-FWTFICMTCSGIHREFT-----H--RVKSV------SMSKFTSQDVEAL-QNGGNQRARE 86 (705)
T ss_pred CccccCCCCC--CCeeEec-cceEEchhchhhhcccC-----c--ccccc------cCCCCCHHHHHHH-HHhccHHHHH
Confidence 4688888643 4455544 35779999965443331 1 44432 2358999887543 322 2
Q ss_pred HcCCCHHHHHHHhCCCCHHHHHHHHhcC-CCCCCcccCC
Q 004288 420 MYNDNWNEIAEHVSTKSKAQCILHFVRL-PMEDGILENV 457 (763)
Q Consensus 420 ~yGgNW~~IAehVGtKT~eECilHFlqL-PIED~fL~~~ 457 (763)
.|..+|..--..+...+..+-+..||+. |++..|+...
T Consensus 87 iyeanwd~~r~~lP~~sd~ekrr~FIR~KYVeKRFa~~~ 125 (705)
T PLN03131 87 IYLKDWDQQRQRLPDNSKVDKIREFIKDIYVDKKYAGGK 125 (705)
T ss_pred HHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhhhcCC
Confidence 2344565333333444555667788884 7777777653
No 77
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=48.77 E-value=35 Score=32.79 Aligned_cols=74 Identities=12% Similarity=0.189 Sum_probs=47.9
Q ss_pred CCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCCCHHH
Q 004288 348 CNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNE 427 (763)
Q Consensus 348 C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yGgNW~~ 427 (763)
|-.|+.++.-.+++|..|.-. -.|.|... . + .-=..|++.+++..-+..||-.+
T Consensus 1 CPvCg~~l~vt~l~C~~C~t~-------i~G~F~l~----~---------~------~~L~~E~~~Fi~~Fi~~rGnlKe 54 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGTE-------IEGEFELP----W---------F------ARLSPEQLEFIKLFIKNRGNLKE 54 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCE-------EEeeeccc----h---------h------hcCCHHHHHHHHHHHHhcCCHHH
Confidence 788999998888988877421 12222110 0 0 11236788888888899999999
Q ss_pred HHHHhCC-----CCHHHHHHHHhcC
Q 004288 428 IAEHVST-----KSKAQCILHFVRL 447 (763)
Q Consensus 428 IAehVGt-----KT~eECilHFlqL 447 (763)
|++.+|- |++-+=+..=|.+
T Consensus 55 ~e~~lgiSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 55 MEKELGISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred HHHHHCCCcHHHHHHHHHHHHHhCC
Confidence 9999992 5554444443444
No 78
>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=47.67 E-value=26 Score=27.21 Aligned_cols=25 Identities=20% Similarity=0.210 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHcCCCHHHHHHHhC
Q 004288 409 QETFLLLEGIEMYNDNWNEIAEHVS 433 (763)
Q Consensus 409 eEellLLEaIe~yGgNW~~IAehVG 433 (763)
-|-..|.++++.++||..+.|+.+|
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lg 29 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLG 29 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHT
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHC
Confidence 3677899999999999999999999
No 79
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=47.30 E-value=11 Score=43.38 Aligned_cols=12 Identities=17% Similarity=0.180 Sum_probs=8.3
Q ss_pred cccCCcceeCCC
Q 004288 174 KRFGSRVHVLPM 185 (763)
Q Consensus 174 k~~~t~~ivIPS 185 (763)
.|+..++|+||-
T Consensus 216 ~Rr~~K~~~iPQ 227 (458)
T PF10446_consen 216 ARRREKHIPIPQ 227 (458)
T ss_pred HHHHcCCCCCCC
Confidence 355677888874
No 80
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=46.71 E-value=20 Score=28.33 Aligned_cols=50 Identities=20% Similarity=0.240 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHhCCCcee-eHHHhhcccCCCCHHHHHHHHHhhhhhccccc
Q 004288 219 YMECRNHIVAKYMDNPEKRL-IVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 219 Y~~~RN~II~~yr~nP~~yL-T~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
|-.+|+.|+... ..|...| |..+.-..+ |+....+.|...-|+.-|+|-.
T Consensus 2 ~~~l~~~i~~~~-~~~~~~l~s~~~la~~~-~vs~~tv~~~l~~L~~~g~i~~ 52 (60)
T smart00345 2 AERLREDIVSGE-LRPGDKLPSERELAAQL-GVSRTTVREALSRLEAEGLVQR 52 (60)
T ss_pred HHHHHHHHHcCC-CCCCCcCcCHHHHHHHH-CCCHHHHHHHHHHHHHCCCEEE
Confidence 667788877764 3467778 788865554 5678899999999999999954
No 81
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=46.42 E-value=75 Score=39.55 Aligned_cols=39 Identities=18% Similarity=0.291 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 004288 580 EKVKAAAKAGLA-AAATKAKLFADHEEREIQRLSANIINH 618 (763)
Q Consensus 580 ~~vk~Aaa~ALa-AAAakAklLA~~EEREI~rLva~iIe~ 618 (763)
.-+..|...+|- ..-.+|+.+...++.++++|+..|.+.
T Consensus 489 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~l~~~ 528 (782)
T PRK00409 489 NAFEIAKRLGLPENIIEEAKKLIGEDKEKLNELIASLEEL 528 (782)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence 345556556663 346789999999999999999999765
No 82
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=46.31 E-value=23 Score=42.14 Aligned_cols=96 Identities=20% Similarity=0.316 Sum_probs=54.0
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHH-----HH
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGI-----EM 420 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaI-----e~ 420 (763)
..|.-|+... ..+.|... .+.+|..|=.--+..+ .||... .-+.||++|...|..+= +.
T Consensus 24 k~CADCgs~~--P~WASiNl-GIFICi~CSGIHRsLG-------hRVKSL------SLDkWT~EEVe~Mk~gGN~~AN~i 87 (648)
T PLN03119 24 RRCINCNSLG--PQYVCTTF-WTFVCMACSGIHREFT-------HRVKSV------SMSKFTSKEVEVLQNGGNQRAREI 87 (648)
T ss_pred CccccCCCCC--CCceeecc-ceEEeccchhhhccCC-------ceeecc------ccCCCCHHHHHHHHHhchHHHHHH
Confidence 4788888643 55555543 4779999954433321 144432 23689998875443221 12
Q ss_pred cCCCHHHHHHHhCCCCHHHHHHHHhcC-CCCCCcccCC
Q 004288 421 YNDNWNEIAEHVSTKSKAQCILHFVRL-PMEDGILENV 457 (763)
Q Consensus 421 yGgNW~~IAehVGtKT~eECilHFlqL-PIED~fL~~~ 457 (763)
|..+|..--..+...+..+-+..||+. |++..|....
T Consensus 88 yeanw~~~~~~~P~~sD~e~lr~FIR~KYVeKRF~~~~ 125 (648)
T PLN03119 88 YLKNWDHQRQRLPENSNAERVREFIKNVYVQKKYAGAN 125 (648)
T ss_pred HHhhcccccCCCCCCccHHHHHHHHHHHHhhhhccCcC
Confidence 334565432223333345566789884 7777787654
No 83
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=45.38 E-value=11 Score=43.45 Aligned_cols=43 Identities=28% Similarity=0.429 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlq 446 (763)
.-+||..|-. |+.....|+++...||+-++|||++|....|++
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 778888999999999999999999999998876
No 84
>PF07271 Cytadhesin_P30: Cytadhesin P30/P32; InterPro: IPR009896 This family consists of several Mycoplasma species specific Cytadhesin P32 and P30 proteins. P30 has been found to be membrane associated and localised on the tip organelle. It is thought that it is important in cytadherence and virulence [].; GO: 0007157 heterophilic cell-cell adhesion, 0009405 pathogenesis, 0016021 integral to membrane
Probab=43.95 E-value=2.1e+02 Score=31.51 Aligned_cols=13 Identities=8% Similarity=-0.033 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHH
Q 004288 636 KARQRFATERTRI 648 (763)
Q Consensus 636 r~Rq~L~~ER~~i 648 (763)
..++-++..|+..
T Consensus 159 ~~~~~~fq~rI~~ 171 (279)
T PF07271_consen 159 PSFRPLFQQRICP 171 (279)
T ss_pred cccCccccccccc
Confidence 3455555444333
No 85
>PHA00442 host recBCD nuclease inhibitor
Probab=43.40 E-value=27 Score=29.53 Aligned_cols=25 Identities=20% Similarity=0.416 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHcC-CCHHHHHHHh
Q 004288 408 DQETFLLLEGIEMYN-DNWNEIAEHV 432 (763)
Q Consensus 408 ~eEellLLEaIe~yG-gNW~~IAehV 432 (763)
-+-....|++++.+| +||+-+.+.+
T Consensus 25 Lek~~~~L~~Lea~GVDNW~Gy~eA~ 50 (59)
T PHA00442 25 LEKDNEFLKALRACGVDNWDGYMDAV 50 (59)
T ss_pred HHHhhHHHHHHHHcCCcchhhHHHHH
Confidence 345667899999999 9999988765
No 86
>smart00595 MADF subfamily of SANT domain.
Probab=42.99 E-value=20 Score=31.44 Aligned_cols=23 Identities=35% Similarity=0.667 Sum_probs=21.2
Q ss_pred CHHHHHHHhCCCCHHHHHHHHhcC
Q 004288 424 NWNEIAEHVSTKSKAQCILHFVRL 447 (763)
Q Consensus 424 NW~~IAehVGtKT~eECilHFlqL 447 (763)
-|.+||..+|. |.++|..+|-.|
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 87
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=41.98 E-value=22 Score=39.13 Aligned_cols=93 Identities=15% Similarity=0.357 Sum_probs=55.4
Q ss_pred CCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCC--CCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC
Q 004288 345 ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSS--LDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN 422 (763)
Q Consensus 345 ~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS--~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG 422 (763)
-.+|.-|+..- ++..+-. -.+.||.+|-. -|.+ .|+-+|... .=+.||+++...|.+ +|
T Consensus 25 N~~CADC~a~~--P~WaSwn-lGvFiC~~C~g------iHR~lg~hiSkVkSv------~LD~W~~eqv~~m~~----~G 85 (287)
T KOG0703|consen 25 NKVCADCGAKG--PRWASWN-LGVFICLRCAG------IHRSLGVHISKVKSV------TLDEWTDEQVDFMIS----MG 85 (287)
T ss_pred cCcccccCCCC--CCeEEee-cCeEEEeeccc------ccccccchhheeeee------eccccCHHHHHHHHH----Hc
Confidence 35788888763 2222222 34778888853 3443 255666543 226899999876654 34
Q ss_pred -----CCHHH-HHHHhCCCCHHHHHHHHhcC-CCCCCcccC
Q 004288 423 -----DNWNE-IAEHVSTKSKAQCILHFVRL-PMEDGILEN 456 (763)
Q Consensus 423 -----gNW~~-IAehVGtKT~eECilHFlqL-PIED~fL~~ 456 (763)
-=|+. |....-.-++++-+.+||+- |....|++.
T Consensus 86 N~~an~~~ea~~p~~~~~p~~d~~~e~FIR~KYE~kkf~~~ 126 (287)
T KOG0703|consen 86 NAKANSYYEAKLPDPFRRPGPDDLVEQFIRDKYERKKFLDP 126 (287)
T ss_pred chhhhhhccccCCccccCCChHHHHHHHHHHHHhhhhhccc
Confidence 12443 23333345677789999984 555677764
No 88
>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=40.66 E-value=34 Score=31.86 Aligned_cols=51 Identities=20% Similarity=0.268 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHhCCCceeeHHHhhccc----CCCCHHHHHHHHHhhhhhccccc
Q 004288 219 YMECRNHIVAKYMDNPEKRLIVSDCQGLV----DGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 219 Y~~~RN~II~~yr~nP~~yLT~T~crr~l----~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
.-.-|..|++....++. .+|+.+.-..| ..++..+|.|...+|+.-|||.=
T Consensus 6 ~T~~R~~Il~~l~~~~~-~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~ 60 (120)
T PF01475_consen 6 LTPQRLAILELLKESPE-HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRK 60 (120)
T ss_dssp HHHHHHHHHHHHHHHSS-SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEE
T ss_pred CCHHHHHHHHHHHcCCC-CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEE
Confidence 34568899999988877 99999975544 23788999999999999999954
No 89
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=39.62 E-value=47 Score=42.58 Aligned_cols=46 Identities=13% Similarity=0.317 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-CCHHHHHHHh------------CCCCHHHHHHHHhcC
Q 004288 402 DGETWSDQETFLLLEGIEMYN-DNWNEIAEHV------------STKSKAQCILHFVRL 447 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yG-gNW~~IAehV------------GtKT~eECilHFlqL 447 (763)
.+..||.+|+-.||-.+.+|| |+|++|-+.| .+||+.|+..+...|
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 456899999999999999999 9999998887 379999988776554
No 90
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=39.10 E-value=1.7e+02 Score=33.34 Aligned_cols=16 Identities=6% Similarity=0.258 Sum_probs=12.8
Q ss_pred CCCHHHHHHHHHHHHHcC
Q 004288 405 TWSDQETFLLLEGIEMYN 422 (763)
Q Consensus 405 ~WT~eEellLLEaIe~yG 422 (763)
=||-+|+| |+||+..|
T Consensus 90 W~TTD~DL--~~A~~S~G 105 (498)
T KOG4849|consen 90 WYTTDADL--LKALQSTG 105 (498)
T ss_pred EEeccHHH--HHHHHhhh
Confidence 48887765 89999887
No 91
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=38.80 E-value=38 Score=34.64 Aligned_cols=41 Identities=17% Similarity=0.416 Sum_probs=32.8
Q ss_pred CCCCCHHHHHHHHHHHHHcC--C-----CHHHHHHHhCCCCHHHHHHHH
Q 004288 403 GETWSDQETFLLLEGIEMYN--D-----NWNEIAEHVSTKSKAQCILHF 444 (763)
Q Consensus 403 ~~~WT~eEellLLEaIe~yG--g-----NW~~IAehVGtKT~eECilHF 444 (763)
.+.||.+|+++|-+.+-.|+ | -...+++.+ .||...|-.+|
T Consensus 5 qdawt~e~d~llae~vl~~i~eg~tql~afe~~g~~L-~rt~aac~fRw 52 (170)
T PRK13923 5 QDAWTQERDGLLAEVVLRHIREGGTQLKAFEEVGDAL-KRTAAACGFRW 52 (170)
T ss_pred hhhhhhHHHHHHHHHHHHHHhccchHHHHHHHHHHHH-hhhHHHHHhHH
Confidence 36799999999989888886 3 244555666 49999999999
No 92
>PRK06474 hypothetical protein; Provisional
Probab=38.47 E-value=46 Score=33.82 Aligned_cols=49 Identities=22% Similarity=0.267 Sum_probs=40.3
Q ss_pred HHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhcccccc
Q 004288 222 CRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYC 271 (763)
Q Consensus 222 ~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~ 271 (763)
.|-.|++.-..++. .+|++++-..+.++...++.|..+.|+..|||.--
T Consensus 12 ~R~~Il~~L~~~~~-~~ta~el~~~l~~is~aTvYrhL~~L~e~GLI~~~ 60 (178)
T PRK06474 12 VRMKICQVLMRNKE-GLTPLELVKILKDVPQATLYRHLQTMVDSGILHVV 60 (178)
T ss_pred HHHHHHHHHHhCCC-CCCHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEEe
Confidence 68889988877754 39999987776556778999999999999999743
No 93
>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=37.46 E-value=59 Score=25.60 Aligned_cols=45 Identities=20% Similarity=0.288 Sum_probs=37.1
Q ss_pred HHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhccccc
Q 004288 222 CRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 222 ~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
.|-.||..-.. ..+++.+..+.+ |++-..+.+=.+.|...|||.+
T Consensus 3 ~R~~Il~~L~~---~~~~~~el~~~l-~~s~~~vs~hL~~L~~~glV~~ 47 (47)
T PF01022_consen 3 TRLRILKLLSE---GPLTVSELAEEL-GLSQSTVSHHLKKLREAGLVEK 47 (47)
T ss_dssp HHHHHHHHHTT---SSEEHHHHHHHH-TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHh---CCCchhhHHHhc-cccchHHHHHHHHHHHCcCeeC
Confidence 57888888766 447999988876 5788999999999999999975
No 94
>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=36.20 E-value=83 Score=24.76 Aligned_cols=37 Identities=16% Similarity=0.164 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHcC-CCHHHHHHHhCCCCHHHHHHHHhc
Q 004288 409 QETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVR 446 (763)
Q Consensus 409 eEellLLEaIe~yG-gNW~~IAehVGtKT~eECilHFlq 446 (763)
+=+.+||+.++.-+ --|.+||+.|| =|+.+|..+.-+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lg-lS~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELG-LSESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHT-S-HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHC-cCHHHHHHHHHH
Confidence 34678999999988 89999999998 677888777644
No 95
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=35.74 E-value=1.1e+02 Score=33.61 Aligned_cols=24 Identities=21% Similarity=0.361 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 620 FAEVETLLMRECEQVEKARQRFAT 643 (763)
Q Consensus 620 F~eLE~~L~kEreqLEr~Rq~L~~ 643 (763)
.+.|+.+++|-+.+|||.|++|..
T Consensus 135 ea~L~~Kierrk~ElEr~rkRle~ 158 (338)
T KOG3647|consen 135 EAALGSKIERRKAELERTRKRLEA 158 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577888888888888888887743
No 96
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=34.49 E-value=23 Score=32.00 Aligned_cols=51 Identities=22% Similarity=0.497 Sum_probs=18.2
Q ss_pred ccCCcCCCCCCCCCc-----ceeeccCCcCcccChhhhh----cCCCCCCCCCCCceecCC
Q 004288 343 LSENHCNYCSQPIPA-----VYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVDP 394 (763)
Q Consensus 343 ~~~~~C~~C~~~~~~-----~~y~c~kc~d~~LC~~CFs----~G~e~~~hsS~Df~rVd~ 394 (763)
++...|.+|+.++.. +++.|.+| .|-+|-.||. +|+-.--.-...|.+...
T Consensus 7 ~~~qiCqiCGD~VGl~~~Ge~FVAC~eC-~fPvCr~CyEYErkeg~q~CpqCkt~ykr~kg 66 (80)
T PF14569_consen 7 LNGQICQICGDDVGLTENGEVFVACHEC-AFPVCRPCYEYERKEGNQVCPQCKTRYKRHKG 66 (80)
T ss_dssp -SS-B-SSS--B--B-SSSSB--S-SSS------HHHHHHHHHTS-SB-TTT--B----TT
T ss_pred cCCcccccccCccccCCCCCEEEEEccc-CCccchhHHHHHhhcCcccccccCCCcccccC
Confidence 445689999887753 78889998 4889999983 333333333456665544
No 97
>PLN02436 cellulose synthase A
Probab=34.20 E-value=52 Score=42.06 Aligned_cols=50 Identities=20% Similarity=0.488 Sum_probs=34.9
Q ss_pred ccCCcCCCCCCCCCc-----ceeeccCCcCcccChhhhhc----CCCCCCCCCCCceecC
Q 004288 343 LSENHCNYCSQPIPA-----VYYQSQKEVDVLLCPECFHE----GRFVTGHSSLDYIRVD 393 (763)
Q Consensus 343 ~~~~~C~~C~~~~~~-----~~y~c~kc~d~~LC~~CFs~----G~e~~~hsS~Df~rVd 393 (763)
++...|..||.++.. +++.|.+|. |-+|-.||.- |+-...+-...|.+..
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C~-fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNECA-FPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccCC-CccccchhhhhhhcCCccCcccCCchhhcc
Confidence 344589999988743 789999994 9999999943 3333334456666555
No 98
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=33.16 E-value=33 Score=30.46 Aligned_cols=56 Identities=23% Similarity=0.462 Sum_probs=35.7
Q ss_pred CCCCHHHHhhCCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHhhcc--cCCCCHHHHHHHHHhhhhhc
Q 004288 193 DTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGL--VDGVSPEDLTRIFRFLNHWG 266 (763)
Q Consensus 193 ~~Ih~iEk~~lPEFF~gk~~~kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~--l~g~Dv~~i~RVh~FLe~WG 266 (763)
.-|++-||.+|-.||.- +| -|+--++.++-.+-+.. -+|+|..-|--|-.||.+||
T Consensus 22 ~pVse~erd~LAhYFQl----------------Li--tRLmnneeIsEeaQ~EMA~eAgi~~~rID~IA~fLNqWG 79 (81)
T PF10820_consen 22 KPVSEAERDALAHYFQL----------------LI--TRLMNNEEISEEAQQEMASEAGIDEQRIDDIANFLNQWG 79 (81)
T ss_pred cCcchhhhhHHHHHHHH----------------HH--HHHhccHhhhHHHHHHHHHHcCCcHHHHHHHHHHHHHhc
Confidence 34667777777777631 12 23333555554443222 25788888999999999999
No 99
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=32.70 E-value=29 Score=44.63 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=25.8
Q ss_pred CCCCCCHHHHHHHHHHHHHcC-CCHHHHH
Q 004288 402 DGETWSDQETFLLLEGIEMYN-DNWNEIA 429 (763)
Q Consensus 402 ~~~~WT~eEellLLEaIe~yG-gNW~~IA 429 (763)
...+|..+++..||=||-+|| |+|+.|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 567999999999999999999 9999973
No 100
>PRK07353 F0F1 ATP synthase subunit B'; Validated
Probab=32.69 E-value=4.5e+02 Score=25.10 Aligned_cols=65 Identities=23% Similarity=0.290 Sum_probs=52.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 580 EKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQFAEVETLLMRECEQVEKARQRFATE 644 (763)
Q Consensus 580 ~~vk~Aaa~ALaAAAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLEr~Rq~L~~E 644 (763)
......+..-|..|-.+|+.+-+.-..+.++....+++.-=++++.++++-+.++++.|+....+
T Consensus 56 ~~~~~~~e~~L~~a~~ea~~i~~~a~~~a~~~~~~~~~~a~~ea~~~~~~a~~~i~~e~~~a~~~ 120 (140)
T PRK07353 56 EKLEAQYEQQLASARKQAQAVIAEAEAEADKLAAEALAEAQAEAQASKEKARREIEQQKQAALAQ 120 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566678888899999999999999999999999999888888888887777777766665443
No 101
>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=32.55 E-value=76 Score=25.60 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=33.8
Q ss_pred HhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhcccccccCC
Q 004288 231 MDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAV 274 (763)
Q Consensus 231 r~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~~dp 274 (763)
..+|...+|+++.-+.+ |++-.++.|+.+=|+.+|||--..++
T Consensus 15 ~~~~~~~~t~~~la~~l-~~~~~~vs~~v~~L~~~Glv~r~~~~ 57 (62)
T PF12802_consen 15 ARHPGEELTQSELAERL-GISKSTVSRIVKRLEKKGLVERERDP 57 (62)
T ss_dssp HHSTTSGEEHHHHHHHH-TS-HHHHHHHHHHHHHTTSEEEEE-S
T ss_pred HHCCCCCcCHHHHHHHH-CcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 35666679999977665 46899999999999999999776655
No 102
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=32.41 E-value=48 Score=37.03 Aligned_cols=53 Identities=15% Similarity=0.404 Sum_probs=46.5
Q ss_pred CChHHHHHHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhccc
Q 004288 214 HTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGII 268 (763)
Q Consensus 214 kTPe~Y~~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLI 268 (763)
-.|.-|+.+.--||..+... ...+|.++|++++. .|+.-.-+|+.|.-.-|+|
T Consensus 376 i~PkpyL~LK~~~is~~l~t-~g~f~K~d~~~Lf~-id~~ka~~~YdfF~~~~Wi 428 (432)
T COG5114 376 ISPKPYLELKKEVISCFLRT-RGEFTKEDFNRLFG-IDLGKADGLYDFFLERGWI 428 (432)
T ss_pred CCCccHHHHHHHHHHHHHHh-CCCccHHHHHHHhC-cCcchhhHHHHHHHhcccc
Confidence 35999999999999999664 67899999999875 7999999999999888887
No 103
>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=32.13 E-value=54 Score=26.30 Aligned_cols=44 Identities=16% Similarity=0.295 Sum_probs=34.0
Q ss_pred HHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhccccc
Q 004288 225 HIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 225 ~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
.|++.+...+. .+|+++.-+.+ |..-.++.|+..-|+.+|+|..
T Consensus 7 ~iL~~l~~~~~-~~t~~eia~~~-gl~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 7 RILEALAESGG-PLTLSEIARAL-GLPKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HHHHCHHCTBS-CEEHHHHHHHH-TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHcCCC-CCCHHHHHHHH-CcCHHHHHHHHHHHHHCcCeec
Confidence 36666666544 48999987665 6789999999999999999864
No 104
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=31.89 E-value=5.3e+02 Score=25.80 Aligned_cols=62 Identities=16% Similarity=0.234 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 580 EKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQFAEVETLLMRECEQVEKARQRF 641 (763)
Q Consensus 580 ~~vk~Aaa~ALaAAAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLEr~Rq~L 641 (763)
......+..-|..|-.+|+.+-+.-..+.+++...+++.-=++++.++++-++.+++.|+..
T Consensus 70 ~~~~~~~~~~L~~a~~ea~~ii~~a~~~a~~~~~~~~~~A~~e~~~~~~~a~~~i~~e~~~a 131 (174)
T PRK07352 70 AQALAEAQQKLAQAQQEAERIRADAKARAEAIRAEIEKQAIEDMARLKQTAAADLSAEQERV 131 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556667778888888888888888888888888888766677776666555555554443
No 105
>PF00643 zf-B_box: B-box zinc finger; InterPro: IPR000315 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents B-box-type zinc finger domains, which are around 40 residues in length. B-box zinc fingers can be divided into two groups, where types 1 and 2 B-box domains differ in their consensus sequence and in the spacing of the 7-8 zinc-binding residues. Several proteins contain both types 1 and 2 B-boxes, suggesting some level of cooperativity between these two domains. B-box domains are found in over 1500 proteins from a variety of organisms. They are found in TRIM (tripartite motif) proteins that consist of an N-terminal RING finger (originally called an A-box), followed by 1-2 B-box domains and a coiled-coil domain (also called RBCC for Ring, B-box, Coiled-Coil). TRIM proteins contain a type 2 B-box domain, and may also contain a type 1 B-box. In proteins that do not contain RING or coiled-coil domains, the B-box domain is primarily type 2. Many type 2 B-box proteins are involved in ubiquitinylation. Proteins containing a B-box zinc finger domain include transcription factors, ribonucleoproteins and proto-oncoproteins; for example, MID1, MID2, TRIM9, TNL, TRIM36, TRIM63, TRIFIC, NCL1 and CONSTANS-like proteins []. The microtubule-associated E3 ligase MID1 (6.3.2 from EC) contains a type 1 B-box zinc finger domain. MID1 specifically binds Alpha-4, which in turn recruits the catalytic subunit of phosphatase 2A (PP2Ac). This complex is required for targeting of PP2Ac for proteasome-mediated degradation. The MID1 B-box coordinates two zinc ions and adopts a beta/beta/alpha cross-brace structure similar to that of ZZ, PHD, RING and FYVE zinc fingers [, ]. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 3DDT_B 2D8U_A 3Q1D_A 2EGM_A 2YVR_B 2DJA_A 2DQ5_A 2JUN_A 2YRG_A 2DID_A ....
Probab=31.77 E-value=51 Score=25.10 Aligned_cols=38 Identities=18% Similarity=0.340 Sum_probs=25.9
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCcee
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIR 391 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~r 391 (763)
..|..|... ...|.|..|. ..+|..|+..+ |+.|.++.
T Consensus 4 ~~C~~H~~~--~~~~~C~~C~-~~~C~~C~~~~-----H~~H~~~~ 41 (42)
T PF00643_consen 4 PKCPEHPEE--PLSLFCEDCN-EPLCSECTVSG-----HKGHKIVP 41 (42)
T ss_dssp SB-SSTTTS--BEEEEETTTT-EEEEHHHHHTS-----TTTSEEEE
T ss_pred ccCccCCcc--ceEEEecCCC-CccCccCCCCC-----CCCCEEeE
Confidence 467777753 2677788874 68999999876 66665543
No 106
>PRK09462 fur ferric uptake regulator; Provisional
Probab=31.65 E-value=74 Score=30.98 Aligned_cols=49 Identities=12% Similarity=0.204 Sum_probs=38.6
Q ss_pred HHHHHHHHHHhCCCceeeHHHhhccc----CCCCHHHHHHHHHhhhhhccccc
Q 004288 222 CRNHIVAKYMDNPEKRLIVSDCQGLV----DGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 222 ~RN~II~~yr~nP~~yLT~T~crr~l----~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
-|-.|++.........||..+.-..| .+++..++.|...+|+.-|||.=
T Consensus 18 qR~~Il~~l~~~~~~h~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~ 70 (148)
T PRK09462 18 PRLKILEVLQEPDNHHVSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTR 70 (148)
T ss_pred HHHHHHHHHHhCCCCCCCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEE
Confidence 46678877766667899999964444 34788999999999999999963
No 107
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=30.45 E-value=1.2e+03 Score=29.60 Aligned_cols=12 Identities=25% Similarity=0.241 Sum_probs=5.0
Q ss_pred ccccCCCCCCCC
Q 004288 735 VMFNARGGPQPT 746 (763)
Q Consensus 735 ~~~~~~~~~~~~ 746 (763)
.||-.+.|..|.
T Consensus 589 ~g~~Gg~ppPP~ 600 (1102)
T KOG1924|consen 589 GGFLGGPPPPPP 600 (1102)
T ss_pred CCCCCCCCCCCC
Confidence 344444444333
No 108
>PTZ00007 (NAP-L) nucleosome assembly protein -L; Provisional
Probab=30.32 E-value=1.5e+02 Score=33.41 Aligned_cols=50 Identities=12% Similarity=0.311 Sum_probs=36.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHH
Q 004288 599 LFADHEEREIQRLSANIINHQFAEVETLLMRECEQVE----KARQRFATERTRIVS 650 (763)
Q Consensus 599 lLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLE----r~Rq~L~~ER~~il~ 650 (763)
.|....-+.|..| .-++.++.+||..+.+|..+|| ++++-|+..|..|+.
T Consensus 34 ~Lp~~~~~rv~aL--~~lQ~e~~~le~ef~~ev~~LE~kY~~~~~Ply~kR~eII~ 87 (337)
T PTZ00007 34 HLTDEQRETLKKL--QLLQKEFDDLEVEYNAELRKLRSKYEDLYNPIYDKRKEALV 87 (337)
T ss_pred hCCHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHc
Confidence 3444444444444 3356678899999999888887 578999999999986
No 109
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=29.91 E-value=49 Score=38.42 Aligned_cols=87 Identities=18% Similarity=0.359 Sum_probs=48.9
Q ss_pred HHhhccCCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHH
Q 004288 339 IRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGI 418 (763)
Q Consensus 339 i~e~~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaI 418 (763)
++....--.|.-|+..-+. | +.-...+.||.+|=..-|.-+-|-+ |+|-.. ++ .||..|...+
T Consensus 17 LRs~~~NKvCFDCgAknPt-W--aSVTYGIFLCiDCSAvHRnLGVHiS--FVRSTn------LD--sWs~~qLR~M---- 79 (454)
T KOG0706|consen 17 LRSQSENKVCFDCGAKNPT-W--ASVTYGIFLCIDCSAVHRNLGVHIS--FVRSTN------LD--SWSWEQLRRM---- 79 (454)
T ss_pred HhcCCCCceecccCCCCCC-c--eeecceEEEEEecchhhhccccceE--EEeecc------cc--cCCHHHHhHh----
Confidence 3433334579999876543 1 0111358899999877777777755 666432 32 3999887643
Q ss_pred HHcCCCHH--HHHHHhCCCCHHHHHHHH
Q 004288 419 EMYNDNWN--EIAEHVSTKSKAQCILHF 444 (763)
Q Consensus 419 e~yGgNW~--~IAehVGtKT~eECilHF 444 (763)
++|||=+ ..=+.-|-+|. +|..+|
T Consensus 80 -~~GGN~nA~~FFkqhg~~t~-d~~aKY 105 (454)
T KOG0706|consen 80 -QVGGNANARVFFKQHGCVTL-DANAKY 105 (454)
T ss_pred -hhcCchhHHHHHHHcCCcch-hhhhhh
Confidence 4565433 22222232333 566555
No 110
>KOG3895 consensus Synaptic vesicle protein Synapsin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=29.28 E-value=4.1e+02 Score=30.59 Aligned_cols=31 Identities=19% Similarity=0.260 Sum_probs=16.8
Q ss_pred CCCCCCCCCCCCCCCCC-CCCCCCCCCCcccc
Q 004288 693 IPGYSANQPVHPHMQFR-PQQMFPLGQRMPLT 723 (763)
Q Consensus 693 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 723 (763)
.+|--..+++..|++-. |+|....|.|.+++
T Consensus 441 P~g~~~~p~~~~hl~~~gppq~prt~sr~s~~ 472 (488)
T KOG3895|consen 441 PRGHMSDPVGSRHLDHDGPPQIPRTGSRESVD 472 (488)
T ss_pred CccccCCccccccCCCCCCCCCCCCCCCCCCc
Confidence 33333445555565533 45666666666663
No 111
>PLN02189 cellulose synthase
Probab=29.23 E-value=69 Score=40.91 Aligned_cols=51 Identities=18% Similarity=0.421 Sum_probs=35.7
Q ss_pred ccCCcCCCCCCCCC-----cceeeccCCcCcccChhhhhc----CCCCCCCCCCCceecCC
Q 004288 343 LSENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFHE----GRFVTGHSSLDYIRVDP 394 (763)
Q Consensus 343 ~~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CFs~----G~e~~~hsS~Df~rVd~ 394 (763)
++...|..|+.++. .+++.|.+|. |-+|-.||.- |+-...+-...|.+...
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C~-fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~kg 91 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNECG-FPVCRPCYEYERREGTQNCPQCKTRYKRLKG 91 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccCC-CccccchhhhhhhcCCccCcccCCchhhccC
Confidence 34458999998875 3788999994 9999999943 33333345667766653
No 112
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.99 E-value=1.6e+02 Score=27.95 Aligned_cols=49 Identities=14% Similarity=0.276 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHH--HHHHHHHHHHHhhC
Q 004288 606 REIQRLSANIINHQFAEVETLLMRECE----QVEKARQR--FATERTRIVSTRLG 654 (763)
Q Consensus 606 REI~rLva~iIe~QF~eLE~~L~kEre----qLEr~Rq~--L~~ER~~il~~rl~ 654 (763)
+|++..+..+.+.+|++|+..-..|.+ -|-|.|.. .+..|..-|.+||.
T Consensus 36 ~evE~~~r~~~q~~lnkLDlVsREEFdvq~qvl~rtR~kl~~Leari~~LEarl~ 90 (103)
T COG2960 36 AEVEKAFRAQLQRQLNKLDLVSREEFDVQRQVLLRTREKLAALEARIEELEARLA 90 (103)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 678888888889999999965322222 12233333 34455566778887
No 113
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=28.66 E-value=85 Score=25.70 Aligned_cols=29 Identities=17% Similarity=0.442 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHH
Q 004288 616 INHQFAEVETLL---MRECEQVEKARQRFATE 644 (763)
Q Consensus 616 Ie~QF~eLE~~L---~kEreqLEr~Rq~L~~E 644 (763)
+.-|+..+|.++ +.+...||+-||+|..+
T Consensus 10 Lqe~~d~IEqkiedid~qIaeLe~KR~~Lv~q 41 (46)
T PF08946_consen 10 LQEHYDNIEQKIEDIDEQIAELEAKRQRLVDQ 41 (46)
T ss_dssp -----THHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 344555555554 45778889999998765
No 114
>KOG1923 consensus Rac1 GTPase effector FRL [Signal transduction mechanisms; Cytoskeleton]
Probab=28.63 E-value=4.2e+02 Score=33.22 Aligned_cols=70 Identities=23% Similarity=0.194 Sum_probs=32.9
Q ss_pred ccHHHHHHHHHHHHHH-HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 577 LSAEKVKAAAKAGLAA-AATKAKLFADHEEREIQRLSANIINHQFAEVETLLMRECEQVEKARQRFATERTR 647 (763)
Q Consensus 577 ~s~~~vk~Aaa~ALaA-AAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLEr~Rq~L~~ER~~ 647 (763)
++.+++++.....+.+ |..--..+.-.-||+-++-+....+.++.=|. +|..|+|+--+.++.+..-+..
T Consensus 175 isher~~~v~~~~~s~~A~l~~~s~sl~~er~~~~~~~~~~~dels~m~-k~~~~~e~~lk~~~~~l~~ki~ 245 (830)
T KOG1923|consen 175 ISHERLQAVEMAQASAPAPLPGASSSLNKEREPQSYQRKALLDELSCMQ-KLSIEKERSLKAIARLLETKIG 245 (830)
T ss_pred hhHHHHHHHHHHHhcCcccCchhhhhhhhhhhHHHHHHHHhcchhHHHH-HHHHHHHHHHHHHHHhccCCcc
Confidence 4445555544443332 22223344455566666655555544444444 3445555444444444444433
No 115
>PF11427 HTH_Tnp_Tc3_1: Tc3 transposase; PDB: 1U78_A 1TC3_C.
Probab=27.85 E-value=1.6e+02 Score=24.47 Aligned_cols=39 Identities=15% Similarity=0.374 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHcCCCHHHHHHHhCCCCHHHHHHHHhcCCCC
Q 004288 410 ETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPME 450 (763)
Q Consensus 410 EellLLEaIe~yGgNW~~IAehVGtKT~eECilHFlqLPIE 450 (763)
+|.-.|+++..-|-.-.+||..+| || .-||.+||+=|+.
T Consensus 8 ~Eqaqid~m~qlG~s~~~isr~i~-RS-r~~Ir~yl~dP~~ 46 (50)
T PF11427_consen 8 AEQAQIDVMHQLGMSLREISRRIG-RS-RTCIRRYLKDPVN 46 (50)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHT----HHHHHHHHHSCCC
T ss_pred HHHHHHHHHHHhchhHHHHHHHhC-cc-HHHHHHHhcChhh
Confidence 456678888888888999999997 44 6799999998874
No 116
>PLN02400 cellulose synthase
Probab=27.20 E-value=83 Score=40.42 Aligned_cols=52 Identities=17% Similarity=0.469 Sum_probs=36.6
Q ss_pred ccCCcCCCCCCCCCc-----ceeeccCCcCcccChhhhh----cCCCCCCCCCCCceecCCC
Q 004288 343 LSENHCNYCSQPIPA-----VYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVDPA 395 (763)
Q Consensus 343 ~~~~~C~~C~~~~~~-----~~y~c~kc~d~~LC~~CFs----~G~e~~~hsS~Df~rVd~~ 395 (763)
++.-.|..|+.++.. +++.|.+|. |-+|-.||. +|+-..-+-...|.|....
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eCa-FPVCRpCYEYERkeGnq~CPQCkTrYkR~Kgs 94 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNECA-FPVCRPCYEYERKDGTQCCPQCKTRYRRHKGS 94 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccCC-CccccchhheecccCCccCcccCCccccccCC
Confidence 344589999988753 789999994 999999994 3333333456777776543
No 117
>KOG4479 consensus Transcription factor e(y)2 [Transcription]
Probab=26.74 E-value=66 Score=29.39 Aligned_cols=46 Identities=35% Similarity=0.414 Sum_probs=32.4
Q ss_pred hHHHHHHHHHHHHHHHhCCCceeeHHH--------hhcccCC-CCHHHHHHHHHhhhhh
Q 004288 216 PEKYMECRNHIVAKYMDNPEKRLIVSD--------CQGLVDG-VSPEDLTRIFRFLNHW 265 (763)
Q Consensus 216 Pe~Y~~~RN~II~~yr~nP~~yLT~T~--------crr~l~g-~Dv~~i~RVh~FLe~W 265 (763)
-++-..+||-|+.+=..| +|+.+ +|-++.. |--..++|||.||+++
T Consensus 35 d~ik~mcrniimEkG~~n----~tvdqL~AeitPkaRaLVPd~VKkEll~rirt~L~~~ 89 (92)
T KOG4479|consen 35 DDIKEMCRNIIMEKGVDN----ITVDQLAAEITPKARALVPDVVKKELLLRIRTALDKH 89 (92)
T ss_pred HHHHHHHHHHHHHhcccc----ccHHHHHHHhCchhhhhchHHHHHHHHHHHHHHHHHH
Confidence 356677999999887665 66665 3444433 4457899999999875
No 118
>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=26.09 E-value=89 Score=28.63 Aligned_cols=47 Identities=15% Similarity=0.277 Sum_probs=37.7
Q ss_pred HHHHHHHHHhCCCceeeHHHhhccc----CCCCHHHHHHHHHhhhhhccccc
Q 004288 223 RNHIVAKYMDNPEKRLIVSDCQGLV----DGVSPEDLTRIFRFLNHWGIINY 270 (763)
Q Consensus 223 RN~II~~yr~nP~~yLT~T~crr~l----~g~Dv~~i~RVh~FLe~WGLINy 270 (763)
|-.|++..... ...+|+.+.-..| .+++..++.|..++|..-|||.-
T Consensus 3 R~~Il~~l~~~-~~~~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~ 53 (116)
T cd07153 3 RLAILEVLLES-DGHLTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVRE 53 (116)
T ss_pred HHHHHHHHHhC-CCCCCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEE
Confidence 66778877666 6889999975544 24788999999999999999964
No 119
>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=26.07 E-value=1.4e+02 Score=23.32 Aligned_cols=44 Identities=20% Similarity=0.402 Sum_probs=34.4
Q ss_pred HHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhccc
Q 004288 222 CRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGII 268 (763)
Q Consensus 222 ~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLI 268 (763)
.+-.|++.-.+||. +|.++.-+.+ |.....+.|..+.|+.-|+|
T Consensus 4 ~~~~Il~~l~~~~~--~t~~ela~~~-~is~~tv~~~l~~L~~~g~I 47 (48)
T PF13412_consen 4 TQRKILNYLRENPR--ITQKELAEKL-GISRSTVNRYLKKLEEKGLI 47 (48)
T ss_dssp HHHHHHHHHHHCTT--S-HHHHHHHH-TS-HHHHHHHHHHHHHTTSE
T ss_pred HHHHHHHHHHHcCC--CCHHHHHHHh-CCCHHHHHHHHHHHHHCcCc
Confidence 34567777777776 8999987775 67889999999999999997
No 120
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=25.99 E-value=2.4e+02 Score=28.28 Aligned_cols=38 Identities=18% Similarity=0.494 Sum_probs=27.2
Q ss_pred cCCCCCCCCCcc-eeeccCCcCcccChhhhhcCCCCCCC
Q 004288 347 HCNYCSQPIPAV-YYQSQKEVDVLLCPECFHEGRFVTGH 384 (763)
Q Consensus 347 ~C~~C~~~~~~~-~y~c~kc~d~~LC~~CFs~G~e~~~h 384 (763)
.|-.||..+... +..-.+-....+|.+|+.-|+....+
T Consensus 2 ~CEiCG~~i~~~~~~v~iega~l~vC~~C~k~G~~~~~~ 40 (154)
T TIGR00270 2 NCEICGRKIKGKGFKIVIEGSEMTVCGECRKFGKEIIKK 40 (154)
T ss_pred ccccCCCccCCCCeEEEEcCeEEehhhhHHhcCCccccC
Confidence 499999998764 43344445688999999878754443
No 121
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=25.98 E-value=81 Score=35.30 Aligned_cols=99 Identities=17% Similarity=0.305 Sum_probs=54.2
Q ss_pred cCCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcCC
Q 004288 344 SENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYND 423 (763)
Q Consensus 344 ~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yGg 423 (763)
.-..|.-|+..- -.|.-|. -.+.||.+|=.--|--+.| .-+|... .=+.||.+|..+|.-+=...-.
T Consensus 19 ~Nk~CaDCga~~-P~W~S~n--lGvfiCi~CagvHRsLGvh----iS~VKSi------tLD~wt~~~l~~m~~gGN~~a~ 85 (319)
T COG5347 19 SNKKCADCGAPN-PTWASVN--LGVFLCIDCAGVHRSLGVH----ISKVKSL------TLDNWTEEELRRMEVGGNSNAN 85 (319)
T ss_pred ccCccccCCCCC-CceEecc--cCeEEEeecchhhhccccc----eeeeeee------ecccCCHHHHHHHHHhcchhhh
Confidence 346899999876 3444443 3588999996544444433 3344322 1257999998887652111112
Q ss_pred CHHHHHHHh----C--CCCHHHHHHHHhc-CCCCCCccc
Q 004288 424 NWNEIAEHV----S--TKSKAQCILHFVR-LPMEDGILE 455 (763)
Q Consensus 424 NW~~IAehV----G--tKT~eECilHFlq-LPIED~fL~ 455 (763)
.|.+----. . .+.-...+.+|++ ++.+-.|.+
T Consensus 86 ~~~e~~~~~~~~~~~k~~yd~~v~~~y~~~ky~~~~~~~ 124 (319)
T COG5347 86 RFYEKNLLDQLLLPIKAKYDSSVAKKYIRKKYELKKFID 124 (319)
T ss_pred hHhccCCCcccccccccccCHHHHHHHHHHHHHhhhccc
Confidence 233321111 1 2444667777766 566555544
No 122
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=25.65 E-value=85 Score=40.31 Aligned_cols=52 Identities=13% Similarity=0.363 Sum_probs=37.2
Q ss_pred ccCCcCCCCCCCCCc-----ceeeccCCcCcccChhhhh----cCCCCCCCCCCCceecCCC
Q 004288 343 LSENHCNYCSQPIPA-----VYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVDPA 395 (763)
Q Consensus 343 ~~~~~C~~C~~~~~~-----~~y~c~kc~d~~LC~~CFs----~G~e~~~hsS~Df~rVd~~ 395 (763)
++.-.|..||.++.. +++.|.+|. |-+|-.||. +|+-...+-...|.|....
T Consensus 15 ~~~qiCqICGD~vg~~~~Ge~FVAC~eC~-FPVCrpCYEYEr~eG~q~CPqCktrYkr~kgs 75 (1079)
T PLN02638 15 GGGQVCQICGDNVGKTVDGEPFVACDVCA-FPVCRPCYEYERKDGNQSCPQCKTKYKRHKGS 75 (1079)
T ss_pred cCCceeeecccccCcCCCCCEEEEeccCC-CccccchhhhhhhcCCccCCccCCchhhhcCC
Confidence 344589999988753 789999994 999999993 4444444556777766543
No 123
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=25.28 E-value=1.1e+02 Score=30.09 Aligned_cols=51 Identities=14% Similarity=0.232 Sum_probs=39.2
Q ss_pred HHHHHHHHHHhCCCceeeHHHhhccc----CCCCHHHHHHHHHhhhhhcccccccC
Q 004288 222 CRNHIVAKYMDNPEKRLIVSDCQGLV----DGVSPEDLTRIFRFLNHWGIINYCAA 273 (763)
Q Consensus 222 ~RN~II~~yr~nP~~yLT~T~crr~l----~g~Dv~~i~RVh~FLe~WGLINy~~d 273 (763)
-|-.|++...+.+.. +|+.+.-+.| .++.+.++.|+..||+.-|||+-...
T Consensus 22 qR~~vl~~L~~~~~~-~sAeei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~~~ 76 (145)
T COG0735 22 QRLAVLELLLEADGH-LSAEELYEELREEGPGISLATVYRTLKLLEEAGLVHRLEF 76 (145)
T ss_pred HHHHHHHHHHhcCCC-CCHHHHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEEEe
Confidence 467888887766555 9998863333 34678999999999999999987654
No 124
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=25.23 E-value=39 Score=30.42 Aligned_cols=36 Identities=19% Similarity=0.529 Sum_probs=25.2
Q ss_pred cCCCCCCCCCcceeeccC---CcCcccChhhhhcCCCCC
Q 004288 347 HCNYCSQPIPAVYYQSQK---EVDVLLCPECFHEGRFVT 382 (763)
Q Consensus 347 ~C~~C~~~~~~~~y~c~k---c~d~~LC~~CFs~G~e~~ 382 (763)
.|-.||.++......-.+ ...-+-|.-||.+|.|..
T Consensus 2 ~CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~G~Ft~ 40 (81)
T PF12674_consen 2 FCQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQNGEFTQ 40 (81)
T ss_pred cCCcCcCccCCccccccccCCCCchhHHHHHhcCCceee
Confidence 599999999875533222 223567999999998744
No 125
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=25.16 E-value=1.4e+02 Score=25.63 Aligned_cols=51 Identities=10% Similarity=0.145 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhccccccc
Q 004288 221 ECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCA 272 (763)
Q Consensus 221 ~~RN~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~~ 272 (763)
..++.|+.....++..-+|..+.-+.| |++...+.|+..=|+.-|+|-+..
T Consensus 6 ~~~~~IL~~L~~~g~~~~ta~eLa~~l-gl~~~~v~r~L~~L~~~G~V~~~~ 56 (68)
T smart00550 6 SLEEKILEFLENSGDETSTALQLAKNL-GLPKKEVNRVLYSLEKKGKVCKQG 56 (68)
T ss_pred HHHHHHHHHHHHCCCCCcCHHHHHHHH-CCCHHHHHHHHHHHHHCCCEEecC
Confidence 357899999999877679999987776 678899999999999999997754
No 126
>PF01452 Rota_NSP4: Rotavirus non structural protein; InterPro: IPR002107 This entry contains rotaviral non-structural protein 4 (NSP4) as well as related proteins: NSP5, NS28, and NCVP5. The final steps in the assembly of rotavirus occur in the lumen of the endoplasmic reticulum (ER). Targeting of the immature inner capsid particle (ICP) to this compartment is mediated by the cytoplasmic tail of NSP4, located in the ER membrane [, ].; PDB: 2O1J_D 1G1J_B 1G1I_B 2O1K_B 3MIW_A.
Probab=24.69 E-value=1.6e+02 Score=29.95 Aligned_cols=47 Identities=30% Similarity=0.425 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 004288 590 LAAAATKAKLFADHEEREIQRLSANIIN---HQFAEVETLLMRECEQVEKARQ 639 (763)
Q Consensus 590 LaAAAakAklLA~~EEREI~rLva~iIe---~QF~eLE~~L~kEreqLEr~Rq 639 (763)
|--|+-|...-- +.||++.+..||. .|++-+|.+-.||.||+|-.+.
T Consensus 80 lklaGykeqitt---kDeie~qmdrivkemrrQlemidkLTtREiEQVeLLkr 129 (173)
T PF01452_consen 80 LKLAGYKEQITT---KDEIEKQMDRIVKEMRRQLEMIDKLTTREIEQVELLKR 129 (173)
T ss_dssp ------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhcccccCCc---HHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence 334445554443 3455555555554 4899999888999999986543
No 127
>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=24.46 E-value=1.3e+02 Score=24.11 Aligned_cols=45 Identities=22% Similarity=0.403 Sum_probs=33.7
Q ss_pred HHHHHHHhCCCceeeHHHhhcccCCCCHHHHHHHHHhhhhhcccccccC
Q 004288 225 HIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAA 273 (763)
Q Consensus 225 ~II~~yr~nP~~yLT~T~crr~l~g~Dv~~i~RVh~FLe~WGLINy~~d 273 (763)
.|+......+ +++.+..+.+ |++...+.|+..-|...|+|+....
T Consensus 11 ~il~~l~~~~---~~~~ei~~~~-~i~~~~i~~~l~~L~~~g~i~~~~~ 55 (78)
T cd00090 11 RILRLLLEGP---LTVSELAERL-GLSQSTVSRHLKKLEEAGLVESRRE 55 (78)
T ss_pred HHHHHHHHCC---cCHHHHHHHH-CcCHhHHHHHHHHHHHCCCeEEEEe
Confidence 3444433444 8888877665 5688999999999999999987543
No 128
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=24.30 E-value=2.5e+02 Score=33.15 Aligned_cols=24 Identities=13% Similarity=0.162 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHhCCCceeeHHH
Q 004288 219 YMECRNHIVAKYMDNPEKRLIVSD 242 (763)
Q Consensus 219 Y~~~RN~II~~yr~nP~~yLT~T~ 242 (763)
.++||-.=|..|..+-.+-|.+-.
T Consensus 179 mVd~rG~kVAsF~i~g~emiCLPQ 202 (641)
T KOG3915|consen 179 MVDLRGAKVASFTIEGCELICLPQ 202 (641)
T ss_pred eeeecCceeeEEEecCceEEecHH
Confidence 344554444444444444444433
No 129
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=24.10 E-value=8.1e+02 Score=25.60 Aligned_cols=65 Identities=17% Similarity=0.116 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 580 EKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQFAEVETLLMRECEQVEKARQRFATE 644 (763)
Q Consensus 580 ~~vk~Aaa~ALaAAAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLEr~Rq~L~~E 644 (763)
+.++......|..|-.+|+.+...-..+.+.....+++.=-++++.++.+-.+++++.|++...+
T Consensus 104 e~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ea~~~~e~~~~~a~~ea~~~l~~Ae~~I~~ek~~A~~e 168 (204)
T PRK09174 104 DAAVAAYEQELAQARAKAHSIAQAAREAAKAKAEAERAAIEASLEKKLKEAEARIAAIKAKAMAD 168 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677778888888888887777777777777777766677777766666677666665544
No 130
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=24.03 E-value=60 Score=30.63 Aligned_cols=92 Identities=26% Similarity=0.388 Sum_probs=43.3
Q ss_pred CCcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC-C
Q 004288 345 ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN-D 423 (763)
Q Consensus 345 ~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG-g 423 (763)
-..|.-|+..- +.+.|.. -.+.||..|...-+..+.| ..+|... .-+.||.+|..+|.++ | .
T Consensus 13 N~~CaDCg~~~--p~w~s~~-~GiflC~~Cag~HR~lg~~----is~VkSi------~~d~w~~~ev~~~~~~----GN~ 75 (116)
T PF01412_consen 13 NKVCADCGAPN--PTWASLN-YGIFLCLECAGIHRSLGVH----ISRVKSI------TMDNWSPEEVQRMREG----GNK 75 (116)
T ss_dssp CTB-TTT-SBS----EEETT-TTEEE-HHHHHHHHHHTTT----T--EEET------TTS---HHHHHHHHHS----HHH
T ss_pred cCcCCCCCCCC--CCEEEee-cChhhhHHHHHHHHHhccc----chhcccc------ccCCCCHHHHHHHHHH----ChH
Confidence 35799898543 4566654 3578999998654443332 2233321 1246999998877654 3 2
Q ss_pred CHHHHHHHh-------CCCCHHHHHHHHhcC-CCCCCc
Q 004288 424 NWNEIAEHV-------STKSKAQCILHFVRL-PMEDGI 453 (763)
Q Consensus 424 NW~~IAehV-------GtKT~eECilHFlqL-PIED~f 453 (763)
..+.|=++= ...+..+=...||+. |++-.|
T Consensus 76 ~~n~~~e~~~~~~~~~~~~~~~~~~~~fI~~KY~~k~f 113 (116)
T PF01412_consen 76 RANSIWEANSPPPKKPPPSSDQEKREQFIRAKYVEKAF 113 (116)
T ss_dssp HHHHHHTTTSTTTTTHCTTSHHHHHHHHHHHHHTTHTT
T ss_pred HHHHHHHcCCCCCCCCCCCCcHHHHHHHHHHHHHhhhh
Confidence 233332221 123445566667663 444444
No 131
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=23.06 E-value=6.4e+02 Score=29.40 Aligned_cols=62 Identities=16% Similarity=0.255 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 582 VKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQFAEVETLLMRECEQVEKARQRFAT 643 (763)
Q Consensus 582 vk~Aaa~ALaAAAakAklLA~~EEREI~rLva~iIe~QF~eLE~~L~kEreqLEr~Rq~L~~ 643 (763)
.+......|..|-.+|+.+-+.-..+.+++...+++.==++.+.++++-++++|+.|++...
T Consensus 54 ~~~~~e~~L~~Ak~ea~~Ii~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~~~Ie~ek~~a~~ 115 (445)
T PRK13428 54 ADQAHTKAVEDAKAEAARVVEEAREDAERIAEQLRAQADAEAERIKVQGARQVQLLRAQLTR 115 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445556777777888888888888888888887775666666666666666665555433
No 132
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=22.07 E-value=50 Score=27.25 Aligned_cols=30 Identities=23% Similarity=0.532 Sum_probs=20.8
Q ss_pred cCCCCCCCCCcceeeccCCcCcccChhhhhcC
Q 004288 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEG 378 (763)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G 378 (763)
.|..|+..++... ..+-.|..+|.+||..-
T Consensus 1 ~C~iCg~kigl~~--~~k~~DG~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFK--RFKIKDGYICKDCLKKL 30 (51)
T ss_pred CCCcccccccccc--ceeccCccchHHHHHHh
Confidence 4999999887633 12334557999999653
No 133
>PF15219 TEX12: Testis-expressed 12
Probab=21.89 E-value=4.8e+02 Score=24.52 Aligned_cols=35 Identities=20% Similarity=0.347 Sum_probs=23.9
Q ss_pred HHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhh
Q 004288 619 QFAEVETLLMR--ECEQVEKARQRFATERTRIVSTRL 653 (763)
Q Consensus 619 QF~eLE~~L~k--EreqLEr~Rq~L~~ER~~il~~rl 653 (763)
+.+|++.++.. -.|..=+++..++.+|..++...|
T Consensus 62 yi~eiD~lfkEA~~lEnfLkqkre~LrQrlt~isntL 98 (100)
T PF15219_consen 62 YITEIDGLFKEANALENFLKQKRECLRQRLTVISNTL 98 (100)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 68899866542 334444567777888888887655
No 134
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=21.82 E-value=1e+02 Score=39.49 Aligned_cols=50 Identities=16% Similarity=0.412 Sum_probs=35.5
Q ss_pred cCCcCCCCCCCCCc-----ceeeccCCcCcccChhhhh----cCCCCCCCCCCCceecCC
Q 004288 344 SENHCNYCSQPIPA-----VYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVDP 394 (763)
Q Consensus 344 ~~~~C~~C~~~~~~-----~~y~c~kc~d~~LC~~CFs----~G~e~~~hsS~Df~rVd~ 394 (763)
....|..||.++.. +++.|.+|. |-+|-.||. +|+-...+-..+|.+...
T Consensus 14 ~~~~c~iCGd~vg~~~~Ge~FVAC~eC~-fpvCr~cyeye~~~g~~~cp~c~t~y~~~~~ 72 (1044)
T PLN02915 14 DAKTCRVCGDEVGVKEDGQPFVACHVCG-FPVCKPCYEYERSEGNQCCPQCNTRYKRHKG 72 (1044)
T ss_pred CcchhhccccccCcCCCCCEEEEeccCC-CccccchhhhhhhcCCccCCccCCchhhhcC
Confidence 34579999988753 789999994 999999994 333334455667776553
No 135
>PF14073 Cep57_CLD: Centrosome localisation domain of Cep57
Probab=21.69 E-value=6.3e+02 Score=26.30 Aligned_cols=21 Identities=24% Similarity=0.362 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHhHH
Q 004288 583 KAAAKAGLAAAATKAKLFADH 603 (763)
Q Consensus 583 k~Aaa~ALaAAAakAklLA~~ 603 (763)
+.....=|+||=+|.++|-.+
T Consensus 59 ~~dl~~qL~aAEtRCslLEKQ 79 (178)
T PF14073_consen 59 NQDLSSQLSAAETRCSLLEKQ 79 (178)
T ss_pred cHHHHHHHHHHHHHHHHHHHH
Confidence 344566788888888887433
No 136
>KOG2199 consensus Signal transducing adaptor protein STAM/STAM2 [Signal transduction mechanisms]
Probab=21.64 E-value=1.1e+03 Score=27.66 Aligned_cols=50 Identities=14% Similarity=0.322 Sum_probs=29.7
Q ss_pred hHHHHHHHHHHHHHHHHH----------HHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Q 004288 601 ADHEEREIQRLSANIINH----------QFAEVETL-------LMRECEQVEKARQRFATERTRIVS 650 (763)
Q Consensus 601 A~~EEREI~rLva~iIe~----------QF~eLE~~-------L~kEreqLEr~Rq~L~~ER~~il~ 650 (763)
+-.-|-.|-||...|=+. ++-.||.. +.+.+|.+.|....|..-+..++-
T Consensus 290 vfi~e~~iDrlL~~L~~~dPtd~~~D~~~l~~le~~~~~mgPlid~~Le~idrk~~eL~~Ln~~l~~ 356 (462)
T KOG2199|consen 290 VFIDEDKIDRLLQVLHEADPTDEVQDDDDLLDLEAAVHQMGPLIDRKLEKIDRKHEELSQLNVKLLD 356 (462)
T ss_pred eeccHHHHHHHHHHHhhcCCCCccCCCHHHHHHHHHHHHhhhHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 445578888888877654 35555543 345555666666666555555443
No 137
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=21.22 E-value=39 Score=26.57 Aligned_cols=30 Identities=27% Similarity=0.723 Sum_probs=15.9
Q ss_pred CcCCCCCCCCCcc-eeeccCCcCcccChhhhh
Q 004288 346 NHCNYCSQPIPAV-YYQSQKEVDVLLCPECFH 376 (763)
Q Consensus 346 ~~C~~C~~~~~~~-~y~c~kc~d~~LC~~CFs 376 (763)
..|++|++.-..+ .+.. ...+..+|.+|..
T Consensus 2 ~~CSFCgr~~~~v~~li~-g~~~~~IC~~Cv~ 32 (41)
T PF06689_consen 2 KRCSFCGRPESEVGRLIS-GPNGAYICDECVE 32 (41)
T ss_dssp -B-TTT--BTTTSSSEEE-ES-SEEEEHHHHH
T ss_pred CCccCCCCCHHHHhceec-CCCCcEECHHHHH
Confidence 4799999887653 2222 1224789999864
No 138
>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=21.06 E-value=1.2e+02 Score=28.53 Aligned_cols=93 Identities=26% Similarity=0.336 Sum_probs=49.3
Q ss_pred CcCCCCCCCCCcceeeccCCcCcccChhhhhcCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHHcC-CC
Q 004288 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN-DN 424 (763)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CFs~G~e~~~hsS~Df~rVd~~~~~~~~~~~~WT~eEellLLEaIe~yG-gN 424 (763)
..|.-|+... +.+.+.. -.+.+|..|-.--+..+.| ..+|... .-+.||.+|...| +.-| ..
T Consensus 4 ~~CaDC~~~~--p~w~s~~-~GifvC~~CsgiHR~lg~h----is~VkSl------~md~w~~~~i~~~----~~~GN~~ 66 (112)
T smart00105 4 KKCFDCGAPN--PTWASVN-LGVFLCIECSGIHRSLGVH----ISKVRSL------TLDTWTEEELRLL----QKGGNEN 66 (112)
T ss_pred CcccCCCCCC--CCcEEec-cceeEhHHhHHHHHhcCCC----cCeeeec------ccCCCCHHHHHHH----HHhhhHH
Confidence 3688888743 4444443 3578999997654443333 2233321 1247999886433 3333 23
Q ss_pred HHHHHHHhC--------CCCHHHHHHHHhcC-CCCCCccc
Q 004288 425 WNEIAEHVS--------TKSKAQCILHFVRL-PMEDGILE 455 (763)
Q Consensus 425 W~~IAehVG--------tKT~eECilHFlqL-PIED~fL~ 455 (763)
++++=+.-+ ..+..+-...||+. |++..|..
T Consensus 67 ~n~~~e~~~~~~~~~~~~~~~~~~~~~fI~~KY~~k~f~~ 106 (112)
T smart00105 67 ANSIWESNLDDFSLKPPDSDDQQKYESFIAAKYEEKLFVP 106 (112)
T ss_pred HHHHHHhhCCccccCCCCCchHHHHHHHHHHHHHhhhccc
Confidence 333333221 11246777888873 55555543
No 139
>PRK10947 global DNA-binding transcriptional dual regulator H-NS; Provisional
Probab=20.89 E-value=2.6e+02 Score=27.68 Aligned_cols=32 Identities=28% Similarity=0.340 Sum_probs=15.2
Q ss_pred HHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Q 004288 619 QFAEVETLLMR------ECEQVEKARQRFATERTRIVS 650 (763)
Q Consensus 619 QF~eLE~~L~k------EreqLEr~Rq~L~~ER~~il~ 650 (763)
-|+.||.+++| ||++-+...+.-..+|.+.|.
T Consensus 22 ~~e~Lee~~ekl~~vv~er~ee~~~~~~~~~er~~kl~ 59 (135)
T PRK10947 22 TLETLEEMLEKLEVVVNERREEESAAAAEVEERTRKLQ 59 (135)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555444 455444444444445544433
No 140
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=20.52 E-value=1.5e+02 Score=28.44 Aligned_cols=12 Identities=25% Similarity=0.313 Sum_probs=6.3
Q ss_pred HHHHHHHHhhCC
Q 004288 644 ERTRIVSTRLGP 655 (763)
Q Consensus 644 ER~~il~~rl~~ 655 (763)
||++-|..++.+
T Consensus 87 e~EN~lLk~~~s 98 (123)
T KOG4797|consen 87 ERENSLLKTLAS 98 (123)
T ss_pred HHHHHHHHhhCC
Confidence 555555555543
No 141
>PF05928 Zea_mays_MuDR: Zea mays MURB-like protein (MuDR); InterPro: IPR009227 This family consists of several Zea mays (Maize) specific MURB-like proteins. The transposition of Mu elements underlying Mutator activity in maize requires a transcriptionally active MuDR element. Despite variation in MuDR copy number and RNA levels in Mutator lines, transposition events are consistently late in plant development, and Mu excision frequencies are similar [].
Probab=20.44 E-value=6.4e+02 Score=26.00 Aligned_cols=22 Identities=36% Similarity=0.495 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 004288 579 AEKVKAAAKAGLAAAATKAKLF 600 (763)
Q Consensus 579 ~~~vk~Aaa~ALaAAAakAklL 600 (763)
++.|.+|-++|++|+-+|.-.|
T Consensus 10 a~~v~aaraaavaa~earc~~~ 31 (207)
T PF05928_consen 10 ADVVDAARAAAVAASEARCVVF 31 (207)
T ss_pred HHHHHHHHHHHHHHhhhhhhhh
Confidence 3456666666777766665444
No 142
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=20.31 E-value=2.1e+02 Score=29.99 Aligned_cols=20 Identities=25% Similarity=0.569 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 004288 629 RECEQVEKARQRFATERTRI 648 (763)
Q Consensus 629 kEreqLEr~Rq~L~~ER~~i 648 (763)
.|+..|++.||+|+.+|.++
T Consensus 59 ~eqQ~l~~er~~l~~er~~~ 78 (228)
T PRK06800 59 QEQQKLERERQQLLADREQF 78 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555443
No 143
>KOG0943 consensus Predicted ubiquitin-protein ligase/hyperplastic discs protein, HECT superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=20.19 E-value=70 Score=41.47 Aligned_cols=16 Identities=19% Similarity=0.360 Sum_probs=11.3
Q ss_pred hccCCChhHHHHHHHh
Q 004288 97 VVNRPHVSVMDIVAIE 112 (763)
Q Consensus 97 ~v~~ph~~v~a~~a~~ 112 (763)
+--.|.|+++|+.|+.
T Consensus 1874 aAeaP~p~imAsiaaq 1889 (3015)
T KOG0943|consen 1874 AAEAPRPMIMASIAAQ 1889 (3015)
T ss_pred cccCCchhHHHHHhhH
Confidence 3345668999987766
No 144
>KOG4752 consensus Ribosomal protein L41 [Translation, ribosomal structure and biogenesis]
Probab=20.02 E-value=47 Score=23.60 Aligned_cols=6 Identities=50% Similarity=1.675 Sum_probs=4.2
Q ss_pred h-HHHhh
Q 004288 12 R-KWKRR 17 (763)
Q Consensus 12 ~-~~~~~ 17 (763)
| ||||+
T Consensus 2 r~kwrkk 8 (26)
T KOG4752|consen 2 RAKWRKK 8 (26)
T ss_pred chHHHHH
Confidence 5 88864
Done!