Query 004134
Match_columns 772
No_of_seqs 232 out of 716
Neff 4.9
Searched_HMMs 46136
Date Thu Mar 28 18:09:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004134.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/004134hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5259 RSC8 RSC chromatin rem 100.0 1.5E-94 3.3E-99 778.9 27.6 391 177-645 48-457 (531)
2 KOG1279 Chromatin remodeling f 100.0 6.2E-88 1.4E-92 751.9 28.0 456 153-662 21-506 (506)
3 PF04433 SWIRM: SWIRM domain; 99.9 9.4E-27 2E-31 206.1 5.7 86 181-270 1-86 (86)
4 KOG0457 Histone acetyltransfer 99.9 4E-24 8.6E-29 232.7 8.9 110 344-455 13-125 (438)
5 COG5114 Histone acetyltransfer 99.8 6.4E-21 1.4E-25 200.0 5.9 110 344-455 4-116 (432)
6 cd02336 ZZ_RSC8 Zinc finger, Z 99.0 1.8E-10 3.8E-15 91.4 3.5 45 346-390 1-45 (45)
7 PF00249 Myb_DNA-binding: Myb- 99.0 1E-09 2.2E-14 87.2 5.7 44 404-447 2-47 (48)
8 PF13921 Myb_DNA-bind_6: Myb-l 98.7 2.2E-08 4.8E-13 82.6 5.6 41 406-446 1-41 (60)
9 smart00717 SANT SANT SWI3, AD 98.7 4.1E-08 8.9E-13 75.6 5.9 44 404-447 2-46 (49)
10 cd00167 SANT 'SWI3, ADA2, N-Co 98.6 9.1E-08 2E-12 72.7 5.7 43 405-447 1-44 (45)
11 PLN03000 amine oxidase 98.5 9.3E-08 2E-12 115.3 6.8 84 186-274 87-172 (881)
12 PLN02328 lysine-specific histo 98.4 3E-07 6.4E-12 110.7 6.6 88 186-277 138-226 (808)
13 cd02335 ZZ_ADA2 Zinc finger, Z 98.4 4E-07 8.6E-12 73.4 4.2 47 346-392 1-49 (49)
14 cd02345 ZZ_dah Zinc finger, ZZ 98.1 2.3E-06 5E-11 69.1 3.4 45 347-391 2-48 (49)
15 cd02338 ZZ_PCMF_like Zinc fing 98.0 5.2E-06 1.1E-10 67.1 3.8 45 347-391 2-48 (49)
16 cd02334 ZZ_dystrophin Zinc fin 98.0 5.6E-06 1.2E-10 67.1 3.6 44 347-390 2-47 (49)
17 cd02343 ZZ_EF Zinc finger, ZZ 98.0 5.5E-06 1.2E-10 66.8 3.4 40 347-386 2-41 (48)
18 cd02249 ZZ Zinc finger, ZZ typ 98.0 7E-06 1.5E-10 65.2 3.9 45 346-392 1-46 (46)
19 smart00291 ZnF_ZZ Zinc-binding 98.0 7.1E-06 1.5E-10 64.7 3.5 40 345-384 4-43 (44)
20 cd02340 ZZ_NBR1_like Zinc fing 97.9 8.3E-06 1.8E-10 64.3 3.7 42 347-392 2-43 (43)
21 TIGR01557 myb_SHAQKYF myb-like 97.9 1.6E-05 3.4E-10 66.4 4.9 47 403-449 3-55 (57)
22 PLN02529 lysine-specific histo 97.9 1.2E-05 2.6E-10 96.5 5.4 86 186-276 63-150 (738)
23 cd02341 ZZ_ZZZ3 Zinc finger, Z 97.8 1.9E-05 4.2E-10 63.7 3.8 44 346-392 1-48 (48)
24 PLN03212 Transcription repress 97.8 2.2E-05 4.8E-10 82.4 5.1 45 403-447 25-71 (249)
25 PF00569 ZZ: Zinc finger, ZZ t 97.7 1.4E-05 3E-10 63.7 0.9 41 345-385 4-45 (46)
26 PLN03091 hypothetical protein; 97.5 9.2E-05 2E-09 83.1 5.2 45 403-447 14-60 (459)
27 cd02344 ZZ_HERC2 Zinc finger, 97.5 0.0001 2.2E-09 58.8 3.5 42 347-392 2-45 (45)
28 cd02339 ZZ_Mind_bomb Zinc fing 97.3 0.00029 6.2E-09 56.3 3.6 41 347-391 2-44 (45)
29 PLN03212 Transcription repress 97.2 0.00049 1.1E-08 72.5 5.3 47 401-447 76-122 (249)
30 KOG0048 Transcription factor, 96.9 0.00081 1.8E-08 70.7 4.4 45 403-447 9-55 (238)
31 PLN03091 hypothetical protein; 96.7 0.0023 4.9E-08 72.2 5.9 46 402-447 66-111 (459)
32 cd02337 ZZ_CBP Zinc finger, ZZ 96.4 0.0026 5.7E-08 49.8 2.8 33 346-379 1-33 (41)
33 cd02342 ZZ_UBA_plant Zinc fing 96.1 0.0035 7.5E-08 49.6 2.1 31 347-377 2-33 (43)
34 KOG0049 Transcription factor, 95.4 0.018 3.9E-07 67.3 5.1 46 402-447 359-405 (939)
35 KOG4582 Uncharacterized conser 95.2 0.012 2.6E-07 63.7 2.8 45 346-393 153-198 (278)
36 PF13837 Myb_DNA-bind_4: Myb/S 95.0 0.015 3.4E-07 51.2 2.4 44 404-447 2-63 (90)
37 PLN02976 amine oxidase 95.0 0.02 4.4E-07 73.0 4.3 84 189-275 454-542 (1713)
38 KOG0049 Transcription factor, 94.8 0.024 5.2E-07 66.4 3.9 45 403-447 412-460 (939)
39 KOG4286 Dystrophin-like protei 94.8 0.013 2.8E-07 69.5 1.6 43 345-387 603-646 (966)
40 KOG0048 Transcription factor, 94.4 0.065 1.4E-06 56.5 5.7 43 402-444 61-103 (238)
41 KOG1280 Uncharacterized conser 93.9 0.033 7.2E-07 61.2 2.4 41 345-385 8-49 (381)
42 KOG4301 Beta-dystrobrevin [Cyt 90.4 0.12 2.6E-06 56.9 1.4 42 345-386 240-282 (434)
43 KOG0051 RNA polymerase I termi 89.5 0.32 6.9E-06 57.5 3.9 51 402-452 435-511 (607)
44 KOG0051 RNA polymerase I termi 88.9 0.48 1E-05 56.0 4.7 45 402-447 383-427 (607)
45 KOG4167 Predicted DNA-binding 88.2 0.7 1.5E-05 55.4 5.5 45 402-446 618-662 (907)
46 COG5118 BDP1 Transcription ini 86.8 1.2 2.5E-05 50.0 5.9 45 402-446 364-408 (507)
47 PF13873 Myb_DNA-bind_5: Myb/S 85.6 1.7 3.8E-05 37.6 5.3 44 404-447 3-68 (78)
48 KOG4282 Transcription factor G 84.7 1 2.2E-05 49.8 4.3 46 404-449 55-114 (345)
49 KOG0050 mRNA splicing protein 80.0 1.6 3.5E-05 50.7 3.6 44 403-446 7-51 (617)
50 PRK00409 recombination and DNA 79.4 12 0.00027 46.3 11.1 76 579-655 489-565 (782)
51 KOG0050 mRNA splicing protein 79.2 1.8 3.8E-05 50.4 3.6 44 403-447 59-102 (617)
52 TIGR01069 mutS2 MutS2 family p 79.1 13 0.00029 45.9 11.3 76 579-655 484-560 (771)
53 COG5180 PBP1 Protein interacti 76.9 3.8 8.2E-05 47.3 5.3 53 665-722 506-558 (654)
54 TIGR02894 DNA_bind_RsfA transc 73.3 3.1 6.8E-05 41.9 3.1 44 403-447 4-54 (161)
55 KOG4468 Polycomb-group transcr 73.2 3.1 6.7E-05 49.2 3.5 45 403-447 88-142 (782)
56 PF15324 TALPID3: Hedgehog sig 72.1 32 0.00069 43.6 11.6 91 577-668 61-169 (1252)
57 KOG4329 DNA-binding protein [G 70.6 6 0.00013 44.5 4.8 49 403-451 277-326 (445)
58 PF04504 DUF573: Protein of un 67.7 8.3 0.00018 35.7 4.4 45 403-447 4-61 (98)
59 PLN03119 putative ADP-ribosyla 67.2 6.9 0.00015 46.4 4.6 95 346-456 24-124 (648)
60 KOG1924 RhoA GTPase effector D 65.8 41 0.00089 41.6 10.6 9 222-230 116-124 (1102)
61 KOG1832 HIV-1 Vpr-binding prot 65.7 5.2 0.00011 49.4 3.4 20 24-43 1398-1417(1516)
62 COG5147 REB1 Myb superfamily p 64.4 6.1 0.00013 46.5 3.6 45 403-447 72-116 (512)
63 PF00392 GntR: Bacterial regul 63.0 12 0.00025 31.3 4.1 53 216-270 3-56 (64)
64 PF10446 DUF2457: Protein of u 62.7 2.9 6.3E-05 48.0 0.6 11 175-185 217-227 (458)
65 PLN03131 hypothetical protein; 61.4 10 0.00023 45.3 4.7 94 346-456 24-124 (705)
66 COG5147 REB1 Myb superfamily p 58.9 5.9 0.00013 46.6 2.2 42 403-444 20-62 (512)
67 PF07649 C1_3: C1-like domain; 58.6 6 0.00013 28.7 1.4 27 347-374 2-29 (30)
68 PLN03142 Probable chromatin-re 58.2 13 0.00029 47.3 5.2 40 404-443 825-865 (1033)
69 smart00307 ILWEQ I/LWEQ domain 54.3 72 0.0016 33.5 8.9 38 613-651 160-197 (200)
70 PF03276 Gag_spuma: Spumavirus 51.8 2.9E+02 0.0063 33.2 14.0 9 760-768 268-276 (582)
71 PF12776 Myb_DNA-bind_3: Myb/S 50.5 17 0.00037 32.3 3.3 43 405-447 1-61 (96)
72 PF03107 C1_2: C1 domain; Int 47.4 16 0.00035 26.6 2.2 27 347-374 2-29 (30)
73 PF09111 SLIDE: SLIDE; InterP 47.3 25 0.00055 33.8 4.1 44 402-445 48-107 (118)
74 PRK00846 hypothetical protein; 45.6 1.9E+02 0.0041 26.1 9.0 54 610-664 6-59 (77)
75 KOG0847 Transcription factor, 45.4 14 0.0003 39.1 2.2 19 10-28 217-237 (288)
76 KOG0706 Predicted GTPase-activ 45.1 18 0.00038 41.9 3.0 66 339-425 17-85 (454)
77 PF01022 HTH_5: Bacterial regu 44.7 50 0.0011 26.0 4.8 45 222-270 3-47 (47)
78 PF05928 Zea_mays_MuDR: Zea ma 44.5 2.3E+02 0.005 29.1 10.3 72 579-650 11-89 (207)
79 KOG1832 HIV-1 Vpr-binding prot 43.9 16 0.00035 45.4 2.7 14 30-43 1409-1422(1516)
80 KOG3915 Transcription regulato 43.8 1.1E+02 0.0025 35.8 9.0 37 618-654 527-569 (641)
81 KOG1194 Predicted DNA-binding 43.8 12 0.00026 43.2 1.5 43 403-446 470-512 (534)
82 KOG1194 Predicted DNA-binding 43.7 37 0.0008 39.5 5.3 46 402-447 186-231 (534)
83 PF04111 APG6: Autophagy prote 43.4 3E+02 0.0065 30.7 12.2 48 613-660 74-121 (314)
84 KOG3647 Predicted coiled-coil 42.9 1.1E+02 0.0025 33.5 8.4 62 588-651 92-157 (338)
85 cd04779 HTH_MerR-like_sg4 Heli 42.9 1.5E+02 0.0033 29.0 8.8 46 613-660 84-129 (134)
86 KOG3554 Histone deacetylase co 41.1 23 0.0005 41.1 3.2 51 404-454 286-337 (693)
87 PF01608 I_LWEQ: I/LWEQ domain 40.9 2.1E+02 0.0046 28.9 9.5 39 613-651 110-149 (152)
88 smart00345 HTH_GNTR helix_turn 40.2 31 0.00068 27.2 3.1 50 219-270 2-52 (60)
89 PRK06474 hypothetical protein; 40.0 44 0.00095 34.0 4.7 48 222-270 12-59 (178)
90 PF15219 TEX12: Testis-express 39.6 2.3E+02 0.0049 26.6 8.6 57 605-662 39-98 (100)
91 PF00643 zf-B_box: B-box zinc 39.3 28 0.0006 26.6 2.5 38 346-391 4-41 (42)
92 COG5347 GTPase-activating prot 39.3 34 0.00073 38.3 4.1 99 344-455 19-124 (319)
93 PF02954 HTH_8: Bacterial regu 39.1 41 0.00089 26.1 3.4 26 409-434 5-30 (42)
94 PF09862 DUF2089: Protein of u 38.2 52 0.0011 31.6 4.6 60 348-433 1-60 (113)
95 PF12674 Zn_ribbon_2: Putative 38.0 18 0.00038 32.6 1.4 35 347-381 2-39 (81)
96 COG3074 Uncharacterized protei 37.8 1.4E+02 0.003 26.7 6.6 61 601-661 7-75 (79)
97 smart00595 MADF subfamily of S 37.6 28 0.00061 30.6 2.6 23 424-447 29-51 (89)
98 KOG1279 Chromatin remodeling f 35.4 23 0.00049 41.9 2.1 95 182-276 185-286 (506)
99 PF09339 HTH_IclR: IclR helix- 35.1 52 0.0011 26.4 3.6 44 225-270 7-50 (52)
100 PRK06800 fliH flagellar assemb 34.5 1E+02 0.0022 32.2 6.2 24 635-658 88-111 (228)
101 PRK02793 phi X174 lysis protei 34.4 3.2E+02 0.007 24.0 8.6 47 615-664 6-54 (72)
102 PF02207 zf-UBR: Putative zinc 34.1 26 0.00056 30.4 1.8 35 357-395 11-48 (71)
103 PRK13729 conjugal transfer pil 34.1 4.6E+02 0.01 31.1 12.2 40 584-627 66-107 (475)
104 PF12802 MarR_2: MarR family; 33.7 79 0.0017 25.5 4.5 43 231-274 15-57 (62)
105 PF13404 HTH_AsnC-type: AsnC-t 32.9 1.1E+02 0.0023 24.2 4.8 37 409-446 3-40 (42)
106 PF01412 ArfGap: Putative GTPa 32.8 25 0.00053 33.3 1.5 62 343-417 11-72 (116)
107 PF06689 zf-C4_ClpX: ClpX C4-t 32.6 18 0.0004 28.3 0.5 30 346-376 2-32 (41)
108 PHA00442 host recBCD nuclease 32.5 45 0.00097 28.2 2.7 25 408-432 25-50 (59)
109 PF04931 DNA_pol_phi: DNA poly 32.4 27 0.00058 43.3 2.1 6 222-227 772-777 (784)
110 smart00105 ArfGap Putative GTP 32.4 47 0.001 31.2 3.3 92 346-454 4-105 (112)
111 PF15346 ARGLU: Arginine and g 32.2 5.5E+02 0.012 26.0 13.1 49 614-662 63-111 (149)
112 KOG4849 mRNA cleavage factor I 32.2 2.5E+02 0.0054 32.0 9.2 16 405-422 90-105 (498)
113 KOG0703 Predicted GTPase-activ 32.0 44 0.00096 36.8 3.4 95 345-456 25-126 (287)
114 PF06034 DUF919: Nucleopolyhed 31.6 1.3E+02 0.0028 26.2 5.4 44 615-659 13-56 (62)
115 PRK13923 putative spore coat p 30.7 45 0.00097 34.2 3.0 41 403-444 5-52 (170)
116 PF10820 DUF2543: Protein of u 30.4 38 0.00082 30.1 2.1 56 193-266 22-79 (81)
117 PF14569 zf-UDP: Zinc-binding 30.1 29 0.00064 31.3 1.4 51 343-394 7-66 (80)
118 PRK06800 fliH flagellar assemb 29.8 2.9E+02 0.0062 29.0 8.5 47 604-658 33-79 (228)
119 COG1725 Predicted transcriptio 29.4 94 0.002 30.4 4.9 55 217-271 11-68 (125)
120 TIGR01069 mutS2 MutS2 family p 29.1 5.9E+02 0.013 32.0 12.8 11 576-586 494-504 (771)
121 KOG2129 Uncharacterized conser 28.9 1E+03 0.022 28.1 17.5 54 600-654 255-308 (552)
122 cd00090 HTH_ARSR Arsenical Res 28.5 1E+02 0.0022 24.7 4.4 44 225-272 11-54 (78)
123 PRK04406 hypothetical protein; 28.1 4.3E+02 0.0094 23.5 8.6 48 614-664 8-57 (75)
124 KOG3859 Septins (P-loop GTPase 27.9 4.4E+02 0.0094 29.7 10.0 49 615-663 353-402 (406)
125 COG3883 Uncharacterized protei 26.3 3.7E+02 0.008 29.6 9.2 55 604-659 51-111 (265)
126 PF01475 FUR: Ferric uptake re 26.1 89 0.0019 29.1 4.0 50 220-270 7-60 (120)
127 PLN02436 cellulose synthase A 25.9 84 0.0018 40.4 4.8 50 343-393 34-92 (1094)
128 PF07956 DUF1690: Protein of U 25.7 1.5E+02 0.0033 29.4 5.7 54 598-651 63-117 (142)
129 PF09026 CENP-B_dimeris: Centr 24.7 25 0.00053 32.9 0.0 7 84-90 47-53 (101)
130 KOG0384 Chromodomain-helicase 24.6 49 0.0011 42.8 2.5 28 402-429 1132-1160(1373)
131 PRK02119 hypothetical protein; 23.9 5.1E+02 0.011 22.9 8.6 47 615-664 7-55 (73)
132 KOG1924 RhoA GTPase effector D 23.7 1.6E+03 0.035 28.7 16.2 12 744-755 589-600 (1102)
133 PF12958 DUF3847: Protein of u 23.4 4.2E+02 0.009 24.4 7.6 49 615-663 6-58 (86)
134 PRK00106 hypothetical protein; 23.3 9.7E+02 0.021 29.0 12.6 14 506-519 3-16 (535)
135 PF06005 DUF904: Protein of un 23.3 5.3E+02 0.011 22.9 8.4 49 601-654 7-55 (72)
136 PRK11414 colanic acid/biofilm 23.2 1.1E+02 0.0024 31.3 4.5 65 204-270 2-66 (221)
137 PRK15422 septal ring assembly 23.0 3.3E+02 0.0071 24.8 6.6 31 599-629 5-35 (79)
138 PRK00409 recombination and DNA 22.9 8.4E+02 0.018 30.7 12.6 19 519-537 420-438 (782)
139 PLN02638 cellulose synthase A 22.9 58 0.0013 41.7 2.7 49 344-393 16-73 (1079)
140 PTZ00009 heat shock 70 kDa pro 22.8 1.4E+03 0.031 27.9 14.3 14 417-430 322-335 (653)
141 PLN03142 Probable chromatin-re 22.7 1.3E+02 0.0028 38.9 5.6 46 402-447 925-983 (1033)
142 KOG2072 Translation initiation 22.1 7.6E+02 0.016 31.5 11.4 62 597-659 609-690 (988)
143 PLN02189 cellulose synthase 21.9 1.1E+02 0.0024 39.3 4.7 50 343-393 32-90 (1040)
144 PF14471 DUF4428: Domain of un 21.8 48 0.001 27.3 1.2 30 347-378 1-30 (51)
145 PLN02400 cellulose synthase 21.0 1.2E+02 0.0027 39.0 4.9 51 343-394 34-93 (1085)
146 PF03286 Pox_Ag35: Pox virus A 20.7 52 0.0011 34.5 1.4 27 85-111 136-162 (200)
147 TIGR01554 major_cap_HK97 phage 20.6 5.2E+02 0.011 29.0 9.4 55 589-645 8-62 (378)
148 COG2916 Hns DNA-binding protei 20.6 7.8E+02 0.017 24.4 9.2 49 607-659 5-53 (128)
149 TIGR02449 conserved hypothetic 20.2 4.5E+02 0.0097 23.1 6.7 39 619-657 2-40 (65)
No 1
>COG5259 RSC8 RSC chromatin remodeling complex subunit RSC8 [Chromatin structure and dynamics / Transcription]
Probab=100.00 E-value=1.5e-94 Score=778.89 Aligned_cols=391 Identities=32% Similarity=0.567 Sum_probs=327.8
Q ss_pred CCceeeCCCCCCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHH
Q 004134 177 GSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLT 256 (772)
Q Consensus 177 ~t~~ivIPsys~WF~~~~Ih~iEk~~lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~ 256 (772)
|+|+|+||+|+.|||+.+||+||+++.||||+|++++|||++|++||||||++||+||++|||||+|||||+| |||+|.
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 8999999999999999999999999999999999999999999999999999999999999999999999999 599999
Q ss_pred HHHHhhhhhcccccccCCCCCCCCCCCCccccCCCCccccCCcccccccccccccCCCcCCccc-------------ccc
Q 004134 257 RIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDKPKCSLKVA-------------DVY 323 (772)
Q Consensus 257 RVH~FLE~WGLINYqvdp~~~P~~~~~~~i~~~~tG~~~v~s~~l~~~~~l~~fd~pk~~~~~~-------------~i~ 323 (772)
|||+|||+||||||||||.++| +.|+++.+||++..+++ +.|+++|..+..+.+.. +.+
T Consensus 127 rvHrFLekWGLINYqvdp~trP-----s~IgPplt~h~q~l~dt---P~gl~p~l~~~~~~~~~~~a~~~e~~~~k~~~~ 198 (531)
T COG5259 127 RVHRFLEKWGLINYQVDPGTRP-----STIGPPLTSHFQDLHDT---PRGLSPFLPWGPINQRVLGAKEIEYETHKEENY 198 (531)
T ss_pred HHHHHHHHhcceeeccCCCCCc-----cccCCCcchhhHHHhhC---ccccccccCCCCccccccccchhhhhhhccCCC
Confidence 9999999999999999999998 45677889999988654 67888887765432221 223
Q ss_pred CCCC------CCCCCcCchhHHHhhccCCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCC
Q 004134 324 SSSC------GGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPARE 397 (772)
Q Consensus 324 s~~~------~~~d~~~L~~~i~e~~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~ 397 (772)
++.. ..+++.++.... ......|+.||+.+...+|+.++..++.+|..||..|+|+.+..+.||..++....
T Consensus 199 sps~~~~~k~s~~k~~el~~~~--~~~~~~C~~cG~~~~~t~y~nlra~~~n~C~~C~~qg~f~s~~~ssDf~~v~~~~~ 276 (531)
T COG5259 199 SPSLKSPKKESQGKVDELKDHS--EKHPSSCSCCGNKSFNTRYHNLRAEKYNSCSECYDQGRFPSEFTSSDFKPVTISLL 276 (531)
T ss_pred CchhhhhhhhcCCCcccccccc--ccCCceeeccCccccchhhhhhhhhhcccchHHHhcCcCCCccccccchhhhhhcc
Confidence 3211 011122221111 01237899999999999999999889999999999999999999999999987542
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhCCCCCCCcccCcCCCCCCcCCCCCCCCCCCc
Q 004134 398 YGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSSSRDDRGGL 477 (772)
Q Consensus 398 ~~~~~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqLPIED~fLe~~~~~~~s~~~~~~~~~d~g~~ 477 (772)
..+..||++|++||||||++||++|++||.|||+||+||||+|||||||+|.||.+... .
T Consensus 277 ---~~dk~WS~qE~~LLLEGIe~ygDdW~kVA~HVgtKt~EqCIl~FL~LPieD~~l~k~~~----------------~- 336 (531)
T COG5259 277 ---IRDKNWSRQELLLLLEGIEMYGDDWDKVARHVGTKTKEQCILHFLQLPIEDNYLSKGDG----------------K- 336 (531)
T ss_pred ---cccccccHHHHHHHHHHHHHhhhhHHHHHHHhCCCCHHHHHHHHHcCCcchhhhhcccC----------------c-
Confidence 25679999999999999999999999999999999999999999999999999976421 0
Q ss_pred ccCCCCCCCCCCcccccccCCccCCCCCCchHHHHHHHHhhcChHHHHHHHHHHHHHHHhhcccCCCCCCcCcccccccc
Q 004134 478 HSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHGNRMNSENVHNRE 557 (772)
Q Consensus 478 ~~~sng~~~G~~~~~~~~~~~lPFs~a~NPVMS~VAFLas~V~P~VAaAAA~AAl~~L~e~~~~~~~d~~~~se~~~~~~ 557 (772)
|.. ..+.+||..++||||++|+||+++|.|+|+...+.+.++. .+. ..
T Consensus 337 ---------~~~-----~~G~~~f~~seNPVlstis~L~~iV~p~v~s~~q~~~~k~-g~~-----~~------------ 384 (531)
T COG5259 337 ---------GDN-----SKGRLPFDGSENPVLSTISFLAGIVNPRVQSEKQRAIIKS-GKI-----SH------------ 384 (531)
T ss_pred ---------CCC-----CCCccccccCCCchhhHHHHHHHhcCHHHHHHHhhhhhhc-cce-----ec------------
Confidence 000 1245799999999999999999999999988777765211 000 00
Q ss_pred cCCCCCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 558 ENSGVHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLM 637 (772)
Q Consensus 558 ~~~~~~~~~~~n~~~~~~~s~e~vk~Aa~~aLaAAA~KAk~lA~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le 637 (772)
. ..-+.+.+...+..||.+++.|||++|+.|||+|.+|+..+|++||+||++||.+|++||+.+.
T Consensus 385 ----------~-----n~e~~~~~~~~~~~al~s~~eka~l~~~~Eerkm~rL~~~~iq~qleKlk~Kl~~~k~L~~~~~ 449 (531)
T COG5259 385 ----------I-----NRESQEHIEEVIEYALDSGKEKAKLQATNEERKMERLRNVLIQAQLEKLKMKLGHLKELEKSTS 449 (531)
T ss_pred ----------C-----ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 0113345677778899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHH
Q 004134 638 RECEQVEK 645 (772)
Q Consensus 638 ~Ere~LE~ 645 (772)
+||..|+.
T Consensus 450 L~rqeLd~ 457 (531)
T COG5259 450 LERQELDA 457 (531)
T ss_pred HHHHHHHH
Confidence 99999999
No 2
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=100.00 E-value=6.2e-88 Score=751.88 Aligned_cols=456 Identities=35% Similarity=0.550 Sum_probs=355.3
Q ss_pred CCCCCcccccCCccccccccccccCCceeeCCCCCCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHh
Q 004134 153 ERSDTSCVITPPQIMEGKGVVKRFGSRVHVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMD 232 (772)
Q Consensus 153 ~~~~~~~v~~~p~~~~~~~~~k~~~t~~ivIPsys~WF~~~~Ih~iEk~~lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~ 232 (772)
+++-..+++ |.++.......++|+|+|+||||++||||++||+||++++||||+|++++|||++||+||||||++||+
T Consensus 21 ~~~~~~~~~--~~~~~~~~~~~~~q~~~i~iPs~a~WFd~~~ih~iE~rs~pEFF~gks~sktPe~Y~~yRnfii~tyrl 98 (506)
T KOG1279|consen 21 DESQETLGG--PAAHDAAKTVVSEQTHFIIIPSYAAWFDKSDIHDIERRSLPEFFNGKSKSKTPEVYMKYRNFIINTYRL 98 (506)
T ss_pred CcCcccccc--cchhhhcccccccccceeecccHHhhcChhhhhhHHhccchhhhcCCCCCCCHHHHHHHHHhhhhhhcc
Confidence 344555555 345666667788999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCceeeHHHHhhccCCCChhHHHHHHHhhhhhcccccccCCCCCCCCCCCCccccCCCCccccCCcccccccccccccC
Q 004134 233 NPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAVQSPEPWNRGSYLREDSNGEVSVPSDALKSIDSLIKFDK 312 (772)
Q Consensus 233 NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINYqvdp~~~P~~~~~~~i~~~~tG~~~v~s~~l~~~~~l~~fd~ 312 (772)
||.+|||+|+|||||.| |||+|+|||+|||+|||||||+|++.+|. .+.+..+||++++.++ ++++++++.
T Consensus 99 np~~ylt~ta~rrnl~g-Dv~ai~Rvh~FlE~WGLINy~~d~e~rp~-----~~~p~~t~h~~~~~~t---p~~~~~~~~ 169 (506)
T KOG1279|consen 99 NPQEYLTFTACRRNLAG-DVCAIARVHAFLEQWGLINYQVDAESRPH-----PIEPPETSHFQVLADT---PRGLAPLTP 169 (506)
T ss_pred CcccchhHHHHHhcccc-hHHHHHHHHhhHHhhcccccccChhhCCc-----ccCCCcccccccccCC---CcccccCCC
Confidence 99999999999999999 79999999999999999999999999983 4566788999887554 577777765
Q ss_pred CCcCCccccccC---CCCCCCCCcCchhHHHhhccCCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCc
Q 004134 313 PKCSLKVADVYS---SSCGGADFFDLDNTIRERLSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDY 389 (772)
Q Consensus 313 pk~~~~~~~i~s---~~~~~~d~~~L~~~i~e~~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF 389 (772)
.....+...... ......+...+.....+.+...+|..|+.+ +|+..+..++.+|.+||..|+|+..++..||
T Consensus 170 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~c~~~~~~----~~~~~~~~~~~~c~~c~~~g~~~~~~~~~Df 245 (506)
T KOG1279|consen 170 EDPQSQPDLGNPRMETLSLESKIKSLHINAGEHLCAIHCFIKEDP----YYYDLTNRDVNLCADCYDQGEFPSEFKKSDF 245 (506)
T ss_pred CCccccccccccccccccccccccccccChHhhccccchhccccc----hhhhcchhhhhhhHHHHhcCCccCccccccc
Confidence 543322221111 001111122233334456667778877765 6777776789999999999999999999999
Q ss_pred eecCCCCCCCCCCCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhCCCCCCCcccCcCCCCCCcCCCC
Q 004134 390 IRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRLPMEDGILENVEVPNTSRTSNSS 469 (772)
Q Consensus 390 ~rvd~~~~~~~~~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqLPIED~fLe~~~~~~~s~~~~~~ 469 (772)
..+ ....+..||++|++||||||++||+||++||.|||+||++|||+|||+|||+|+||.+.+
T Consensus 246 ~~~------~~~~~~~WT~qE~lLLLE~ie~y~ddW~kVa~hVg~ks~eqCI~kFL~LPieD~~l~~~~----------- 308 (506)
T KOG1279|consen 246 KVI------GESARPNWTEQETLLLLEAIEMYGDDWNKVADHVGTKSQEQCILKFLRLPIEDPYLAKSE----------- 308 (506)
T ss_pred hhc------cccCCCCccHHHHHHHHHHHHHhcccHHHHHhccCCCCHHHHHHHHHhcCccchhhhhcc-----------
Confidence 222 234578999999999999999999999999999999999999999999999999997632
Q ss_pred CCCCCCCcccCCCCCCCCCCcccccccCCccCCCCCCchHHHHHHHHhhcChHHHHHHHHHHHHHHHhhcccCCCC-CC-
Q 004134 470 SRDDRGGLHSTVNGDLPGAGLQEADMENRLPFSNSGNPVMALVAFLASAVGPRVAAACAHASLAALSKQMEGAGHG-NR- 547 (772)
Q Consensus 470 ~~~d~g~~~~~sng~~~G~~~~~~~~~~~lPFs~a~NPVMS~VAFLas~V~P~VAaAAA~AAl~~L~e~~~~~~~d-~~- 547 (772)
++ .|++. .++.+|+..+|||||+++||+++|||+|+..+++.+.....+.+...... .+
T Consensus 309 -------------~~-~~~~~-----~~~~~~sq~gnpv~s~~~~l~~~vdP~~~~~~~k~~~~~~~~~~~~~~~~~~~~ 369 (506)
T KOG1279|consen 309 -------------AS-LGPLS-----YGPVPFSQDGNPVMSTVAFLASVVDPVVKSVAAKSAEEKFSKVNEESPLAKIEV 369 (506)
T ss_pred -------------cc-cCccc-----cCCCccccCCCccccHHHHHHhccCchhhhhhhcccchhhhhhhhcccchhhhH
Confidence 11 23332 35788999899999999999999999999999999998887654221000 00
Q ss_pred --cCccccccc---ccCC-----C---------------CCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 548 --MNSENVHNR---EENS-----G---------------VHGPWGQNGAEAALLSAEKVKAAAKAGLAAAATKAKLFADH 602 (772)
Q Consensus 548 --~~se~~~~~---~~~~-----~---------------~~~~~~~n~~~~~~~s~e~vk~Aa~~aLaAAA~KAk~lA~~ 602 (772)
...+..... ...+ . ......+.. ....+-.. +..|+..+|++||.|||.||.+
T Consensus 370 ~~~~~~~~~~~l~~~~~~~~~~~~~~~~~l~~e~~k~~~~~~~~~n~~-~~k~~e~~-~~~a~~~~ls~aa~k~k~la~~ 447 (506)
T KOG1279|consen 370 SAKGVEEAASKLGGTDKSKFLALSDIACTLPDEEEKLQSKLKAKLNPN-KEKTIELG-LSTAANAALSAAAVKAKLLAAQ 447 (506)
T ss_pred HhhhhHHhhhhhccchhhhhhhhhhhhhcccchHHHHHHHhhcccccc-hhhhhHHH-HHHHHHHHHHHHHHhhhhhhhH
Confidence 000000000 0000 0 000000000 00111112 6788999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 004134 603 EEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRL 662 (772)
Q Consensus 603 EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~rl 662 (772)
|| +++.+++.++++|++|+|.||++|+++|+++.+|++++++.|+.++.+|..|+..||
T Consensus 448 ee-~~~s~~~~~~~~q~~k~E~~l~~~~e~e~~~~~e~e~~~~~~~~~~~~~~~~~~~~l 506 (506)
T KOG1279|consen 448 EE-RIKSLVALLEETQLKKLEAKLRHFEEAETLLMREREQLERVRQRLKAERQQFHMARL 506 (506)
T ss_pred HH-HHHHHhhhhhhhhhhhhhHHHHHHHHHHhhhhhhhhhHHHHHHHHHhcchhhhhhcC
Confidence 99 999999999999999999999999999999999999999999999999999998775
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=9.4e-27 Score=206.12 Aligned_cols=86 Identities=43% Similarity=0.962 Sum_probs=78.6
Q ss_pred eeCCCCCCCCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHH
Q 004134 181 HVLPMHSDWFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFR 260 (772)
Q Consensus 181 ivIPsys~WF~~~~Ih~iEk~~lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~ 260 (772)
+++|.+++||+++.+|++|++.+||||.| ++|+.|+.|||.||..|+.||.+|||+|+||+++.|.|+..+.|||+
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 89999999999999999999999999999999998767999999999
Q ss_pred hhhhhccccc
Q 004134 261 FLNHWGIINY 270 (772)
Q Consensus 261 FLE~WGLINY 270 (772)
||++||+|||
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=99.90 E-value=4e-24 Score=232.69 Aligned_cols=110 Identities=31% Similarity=0.600 Sum_probs=100.6
Q ss_pred cCCCCCCCCCCCCcc-eeeccCCcCcccChhhhccCCCCCCCC-CCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhc
Q 004134 344 SENHCNYCSQPIPAV-YYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMY 421 (772)
Q Consensus 344 ~~~~C~~C~~~~~~~-~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~y 421 (772)
..+.|++|..+|+.. +++|.+|.+|+||+.||+.|.+.+.|+ .|+|.+|++...+ ....+||++||++||||+++|
T Consensus 13 ~ky~C~~C~~dit~~i~ikCaeCp~fdLCl~CFs~GaE~~~H~~~H~Yrim~~~s~~--i~~~~WtadEEilLLea~~t~ 90 (438)
T KOG0457|consen 13 GKYNCDYCSLDITGLIRIKCAECPDFDLCLQCFSVGAETGKHQNDHPYRIMDTNSFP--ILDPSWTADEEILLLEAAETY 90 (438)
T ss_pred CCCCCccHhHHhccceEEEeecCCCcchhHHHHhcccccCCCCCCCCceeecCCCCC--CCCCCCChHHHHHHHHHHHHh
Confidence 468999999999985 699999999999999999999999997 7999999986542 457899999999999999999
Q ss_pred C-CCHHHHHHHhCCCCHHHHHHHHHhCCCCCCCcc
Q 004134 422 N-DNWNEIAEHVSTKSKAQCILHFVRLPMEDGILE 455 (772)
Q Consensus 422 g-~NW~~IAehVGtKT~eECi~hFlqLPIED~fLe 455 (772)
| |||.+||+|||+||++||..||++.+|+.++..
T Consensus 91 G~GNW~dIA~hIGtKtkeeck~hy~k~fv~s~~~~ 125 (438)
T KOG0457|consen 91 GFGNWQDIADHIGTKTKEECKEHYLKHFVNSPIFP 125 (438)
T ss_pred CCCcHHHHHHHHcccchHHHHHHHHHHHhcCcccc
Confidence 9 999999999999999999999999999887643
No 5
>COG5114 Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]
Probab=99.82 E-value=6.4e-21 Score=200.01 Aligned_cols=110 Identities=24% Similarity=0.479 Sum_probs=101.5
Q ss_pred cCCCCCCCCCCCCc-ceeeccCCcCcccChhhhccCCCCCCCC-CCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhc
Q 004134 344 SENHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMY 421 (772)
Q Consensus 344 ~~~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~y 421 (772)
.+++|++|..+|+. +++.|.+|.+++||..||.+|.+.+.|+ .|+|.+|+.+.. .....+|++.||++|+++++..
T Consensus 4 ~k~hCdvC~~d~T~~~~i~C~eC~~~DLC~pCF~~g~~tg~H~pyH~YRiietnsy--pI~~e~WgadEEllli~~~~Tl 81 (432)
T COG5114 4 VKIHCDVCFLDMTDLTFIKCNECPAVDLCLPCFVNGIETGVHSPYHGYRIIETNSY--PIGEEGWGADEELLLIECLDTL 81 (432)
T ss_pred ceeeehHHHHhhhcceeeeeecccccceehhhhhccccccccCCCCCeeEeeccCc--cccCCCcCchHHHHHHHHHHhc
Confidence 46899999999998 6999999999999999999999999987 799999988764 3567899999999999999999
Q ss_pred C-CCHHHHHHHhCCCCHHHHHHHHHhCCCCCCCcc
Q 004134 422 N-DNWNEIAEHVSTKSKAQCILHFVRLPMEDGILE 455 (772)
Q Consensus 422 g-~NW~~IAehVGtKT~eECi~hFlqLPIED~fLe 455 (772)
| |||++||+|||.|+++||..||+++++|..|..
T Consensus 82 GlGNW~dIadyiGsr~kee~k~HylK~y~es~~yp 116 (432)
T COG5114 82 GLGNWEDIADYIGSRAKEEIKSHYLKMYDESKYYP 116 (432)
T ss_pred CCCcHHHHHHHHhhhhhHHHHHHHHHHHhhccccc
Confidence 9 999999999999999999999999999988753
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=99.02 E-value=1.8e-10 Score=91.36 Aligned_cols=45 Identities=38% Similarity=0.780 Sum_probs=43.1
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCce
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYI 390 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~ 390 (772)
++|+.|+++|+.+||||+++.+++||..||.+|+||.+|++.||+
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 479999999999999999999999999999999999999999995
No 7
>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins. These belong to the SANT domain family that specifically recognise the sequence YAAC(G/T)G [, ]. In myb, one of the most conserved regions consisting of three tandem repeats has been shown to be involved in DNA-binding [].; PDB: 1X41_A 2XAF_B 2XAG_B 2XAH_B 2UXN_B 2Y48_B 2XAQ_B 2X0L_B 2IW5_B 2XAJ_B ....
Probab=98.96 E-value=1e-09 Score=87.25 Aligned_cols=44 Identities=27% Similarity=0.681 Sum_probs=39.7
Q ss_pred CCCCHHHHHHHHHHHHhcCCC-HHHHHHHhC-CCCHHHHHHHHHhC
Q 004134 404 ETWSDQETFLLLEGIEMYNDN-WNEIAEHVS-TKSKAQCILHFVRL 447 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~yg~N-W~~IAehVG-tKT~eECi~hFlqL 447 (772)
..||.+|+.+|++||.+||.+ |..||++|+ +||..||..||.++
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 469999999999999999966 999999999 99999999999864
No 8
>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A ....
Probab=98.70 E-value=2.2e-08 Score=82.64 Aligned_cols=41 Identities=34% Similarity=0.762 Sum_probs=37.5
Q ss_pred CCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 406 WSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 406 WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlq 446 (772)
||.+|+.+|++++..||.+|..||+++|+||+.+|..||..
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 99999999999999999999999999999999999999998
No 9
>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains.
Probab=98.67 E-value=4.1e-08 Score=75.65 Aligned_cols=44 Identities=30% Similarity=0.686 Sum_probs=42.0
Q ss_pred CCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 404 ETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
..||.+|+.+|+.++..|| .+|..||+++++||+.+|..+|..+
T Consensus 2 ~~Wt~~E~~~l~~~~~~~g~~~w~~Ia~~~~~rt~~~~~~~~~~~ 46 (49)
T smart00717 2 GEWTEEEDELLIELVKKYGKNNWEKIAKELPGRTAEQCRERWNNL 46 (49)
T ss_pred CCCCHHHHHHHHHHHHHHCcCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence 4799999999999999999 9999999999999999999999875
No 10
>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=98.59 E-value=9.1e-08 Score=72.69 Aligned_cols=43 Identities=33% Similarity=0.753 Sum_probs=41.0
Q ss_pred CCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 405 TWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 405 ~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
.||.+|+.+|+.++.+|| ++|..||+.+++||..+|..||..+
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=98.54 E-value=9.3e-08 Score=115.28 Aligned_cols=84 Identities=23% Similarity=0.325 Sum_probs=72.7
Q ss_pred CCCCCCCCCCCHHHHhh--cCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhh
Q 004134 186 HSDWFSPDTVHRLERQV--VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLN 263 (772)
Q Consensus 186 ys~WF~~~~Ih~iEk~~--lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE 263 (772)
++.=|+.+.+++.|..+ || .- -.+.+..|+.|||.||.+|+.||..|||+.+|...+-..-...+.++|.||.
T Consensus 87 ~~~~~p~d~l~~~e~~~~~~~-~~----~~~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~L~ 161 (881)
T PLN03000 87 LTAGFPADSLTEEEIEFGVVP-IV----GGIEQVNYILIRNHIISKWRENISSWVTKEMFLGSIPKHCSSLLDSAYNYLV 161 (881)
T ss_pred HHcCCCcccCCHHHHhccccC-cc----cccchhhHHHHHHHHHHHHHHCCceeecHHHHhhhcchhHHHHHHHHHHHHH
Confidence 67789999999999777 67 22 2467899999999999999999999999999998876533578999999999
Q ss_pred hhcccccccCC
Q 004134 264 HWGIINYCAAV 274 (772)
Q Consensus 264 ~WGLINYqvdp 274 (772)
+.|+|||++..
T Consensus 162 r~G~in~g~~~ 172 (881)
T PLN03000 162 THGYINFGIAQ 172 (881)
T ss_pred HcCcccHHHHH
Confidence 99999999873
No 12
>PLN02328 lysine-specific histone demethylase 1 homolog
Probab=98.41 E-value=3e-07 Score=110.69 Aligned_cols=88 Identities=23% Similarity=0.288 Sum_probs=76.5
Q ss_pred CCCCCCCCCCCHHHHhh-cCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhh
Q 004134 186 HSDWFSPDTVHRLERQV-VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNH 264 (772)
Q Consensus 186 ys~WF~~~~Ih~iEk~~-lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~ 264 (772)
.+.-|..+++|+.|..+ |+..-.+ +.+..|+.|||.||.+|+.||..|||+.+|+..+-......+.++|.||.+
T Consensus 138 ~~~~~p~~~l~~~e~~~~~~~~~~~----~~~~~yl~iRN~il~lW~~np~~~~t~~~a~~~~~~~~~~l~~~~~~~l~~ 213 (808)
T PLN02328 138 ISVGFPVDSLTEEEIEANVVSTIGG----TEQANYIVVRNHILARWRSNVSNWLTRDHALESIRAEHKNLVDSAYNFLLE 213 (808)
T ss_pred HHcCCCCccCCHHHHhhcCcchhcc----cceeehhhHHHHHHHHHHhCCcceecHHHHHhhcchhhHHHHHHHHHHHhc
Confidence 67889999999988777 6666554 789999999999999999999999999999987654335689999999999
Q ss_pred hcccccccCCCCC
Q 004134 265 WGIINYCAAVQSP 277 (772)
Q Consensus 265 WGLINYqvdp~~~ 277 (772)
-|.|||.|.|...
T Consensus 214 ~g~in~gv~~~~~ 226 (808)
T PLN02328 214 HGYINFGVAPVIK 226 (808)
T ss_pred cCceeeecccccc
Confidence 9999999998654
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=98.36 E-value=4e-07 Score=73.41 Aligned_cols=47 Identities=34% Similarity=0.680 Sum_probs=42.7
Q ss_pred CCCCCCCCCCCc-ceeeccCCcCcccChhhhccCCCCCCCC-CCCceec
Q 004134 346 NHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRV 392 (772)
Q Consensus 346 ~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~rv 392 (772)
+.|++|.+++.. .+|+|.+|.+++||.+||..|.+...|+ +|.|+.|
T Consensus 1 ~~Cd~C~~~~~~g~r~~C~~C~d~dLC~~Cf~~g~~~~~H~~~H~~~~~ 49 (49)
T cd02335 1 YHCDYCSKDITGTIRIKCAECPDFDLCLECFSAGAEIGKHRNDHNYRVV 49 (49)
T ss_pred CCCCCcCCCCCCCcEEECCCCCCcchhHHhhhCcCCCCCCCCCCCeEeC
Confidence 469999999887 8999999999999999999999999997 6888865
No 14
>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=2.3e-06 Score=69.14 Aligned_cols=45 Identities=24% Similarity=0.488 Sum_probs=40.5
Q ss_pred CCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCcee
Q 004134 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIR 391 (772)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~r 391 (772)
.|++|.+ ++..++|+|+.|.+++||.+||..|++..+|+ +|.|..
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~dydLC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02345 2 SCSACRKQDISGIRFPCQVCRDYSLCLGCYTKGRETKRHNSLHIMYE 48 (49)
T ss_pred cCCCCCCCCceEeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCccc
Confidence 6999998 99999999999999999999999999988886 566653
No 15
>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=98.01 E-value=5.2e-06 Score=67.08 Aligned_cols=45 Identities=20% Similarity=0.403 Sum_probs=41.2
Q ss_pred CCCCCC-CCCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCcee
Q 004134 347 HCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIR 391 (772)
Q Consensus 347 ~C~~C~-~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~r 391 (772)
.|++|+ .++...+|+|..|.+++||.+||..|.....|+ +|.|+.
T Consensus 2 ~C~~C~~~~i~g~R~~C~~C~d~dlC~~Cf~~~~~~~~H~~~H~~~~ 48 (49)
T cd02338 2 SCDGCGKSNFTGRRYKCLICYDYDLCADCYDSGVTTERHLFDHPMQC 48 (49)
T ss_pred CCCCCcCCCcEEeeEEeCCCCCCccchhHHhCCCcCCCCCCCCCEEE
Confidence 699999 789999999999999999999999999999997 688765
No 16
>cd02334 ZZ_dystrophin Zinc finger, ZZ type. Zinc finger present in dystrophin and dystrobrevin. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Dystrophin attaches actin filaments to an integral membrane glycoprotein complex in muscle cells. The ZZ domain in dystrophin has been shown to be essential for binding to the membrane protein beta-dystroglycan.
Probab=97.99 E-value=5.6e-06 Score=67.05 Aligned_cols=44 Identities=34% Similarity=0.684 Sum_probs=39.5
Q ss_pred CCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCce
Q 004134 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYI 390 (772)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~ 390 (772)
.|++|++ ++...+|+|.+|.+++||..||..|+....|+ .|+++
T Consensus 2 ~Cd~C~~~pi~g~RykC~~C~d~DLC~~Cf~~g~~~~~H~~~Hp~~ 47 (49)
T cd02334 2 KCNICKEFPITGFRYRCLKCFNYDLCQSCFFSGRTSKSHKNSHPMK 47 (49)
T ss_pred CCCCCCCCCceeeeEECCCCCCcCchHHHHhCCCcCCCCCCCCCee
Confidence 5999996 68899999999999999999999999999997 46654
No 17
>cd02343 ZZ_EF Zinc finger, ZZ type. Zinc finger present in proteins with an EF_hand motif. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding.
Probab=97.99 E-value=5.5e-06 Score=66.77 Aligned_cols=40 Identities=30% Similarity=0.600 Sum_probs=37.6
Q ss_pred CCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCC
Q 004134 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSS 386 (772)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss 386 (772)
.|++|...+..++|+|++|.+++||..||..|++..+|+.
T Consensus 2 ~CdgC~~~~~~~RykCl~C~d~DlC~~Cf~~g~~~~~H~~ 41 (48)
T cd02343 2 SCDGCDEIAPWHRYRCLQCTDMDLCKTCFLGGVKPEGHED 41 (48)
T ss_pred CCCCCCCcCCCceEECCCCCCchhHHHHHhCCccCCCCCC
Confidence 5999999888899999999999999999999999999974
No 18
>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=97.97 E-value=7e-06 Score=65.23 Aligned_cols=45 Identities=29% Similarity=0.705 Sum_probs=39.5
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCceec
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRV 392 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~rv 392 (772)
+.|+.|+.++...+|+|..|.+++||..||..|. ..|. .|.|.++
T Consensus 1 ~~C~~C~~~i~g~r~~C~~C~d~dLC~~Cf~~~~--~~H~~~H~~~~~ 46 (46)
T cd02249 1 YSCDGCLKPIVGVRYHCLVCEDFDLCSSCYAKGK--KGHPPDHSFTEI 46 (46)
T ss_pred CCCcCCCCCCcCCEEECCCCCCCcCHHHHHCcCc--CCCCCCCCEeEC
Confidence 4699999999999999999999999999999998 5665 6887753
No 19
>smart00291 ZnF_ZZ Zinc-binding domain, present in Dystrophin, CREB-binding protein. Putative zinc-binding domain present in dystrophin-like proteins, and CREB-binding protein/p300 homologues. The ZZ in dystrophin appears to bind calmodulin. A missense mutation of one of the conserved cysteines in dystrophin results in a patient with Duchenne muscular dystrophy [3].
Probab=97.95 E-value=7.1e-06 Score=64.70 Aligned_cols=40 Identities=33% Similarity=0.630 Sum_probs=36.9
Q ss_pred CCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCC
Q 004134 345 ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGH 384 (772)
Q Consensus 345 ~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~h 384 (772)
...|+.|+.++...+|+|..|.+++||.+||..|++...|
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 4679999999999999999999999999999999988766
No 20
>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=97.94 E-value=8.3e-06 Score=64.28 Aligned_cols=42 Identities=29% Similarity=0.558 Sum_probs=38.4
Q ss_pred CCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceec
Q 004134 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRV 392 (772)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rv 392 (772)
.|++|+.++...+|+|..|.+++||.+||..+ +|..|.|+++
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 69999999999999999999999999999987 6778888864
No 21
>TIGR01557 myb_SHAQKYF myb-like DNA-binding domain, SHAQKYF class. This model describes a DNA-binding domain restricted to (but common in) plant proteins, many of which also contain a response regulator domain. The domain appears related to the Myb-like DNA-binding domain described by Pfam model pfam00249. It is distinguished in part by a well-conserved motif SH[AL]QKY[RF] at the C-terminal end of the motif.
Probab=97.91 E-value=1.6e-05 Score=66.40 Aligned_cols=47 Identities=15% Similarity=0.386 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCH---HHHHHHhC-CC-CHHHHHHHHHhCCC
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNW---NEIAEHVS-TK-SKAQCILHFVRLPM 449 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW---~~IAehVG-tK-T~eECi~hFlqLPI 449 (772)
...||++|..++|+||+.|| ||| .+|+++++ ++ |++||..|+-.+.+
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 34799999999999999999 599 99999987 57 99999999866543
No 22
>PLN02529 lysine-specific histone demethylase 1
Probab=97.88 E-value=1.2e-05 Score=96.49 Aligned_cols=86 Identities=22% Similarity=0.246 Sum_probs=72.1
Q ss_pred CCCCCCCCCCCHHHHhh--cCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhh
Q 004134 186 HSDWFSPDTVHRLERQV--VPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLN 263 (772)
Q Consensus 186 ys~WF~~~~Ih~iEk~~--lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE 263 (772)
++-=|+.+.+.+.|+++ +|+. -.+.++.|+.|||.|+.+|+.||..|||+.+++..+...-...|...|.||.
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 56679999999999854 5544 3789999999999999999999999999999888764422345678999999
Q ss_pred hhcccccccCCCC
Q 004134 264 HWGIINYCAAVQS 276 (772)
Q Consensus 264 ~WGLINYqvdp~~ 276 (772)
+-|.|||.|.|..
T Consensus 138 ~~~~inc~vnp~~ 150 (738)
T PLN02529 138 YNGYINFGVSPSF 150 (738)
T ss_pred hCCCcceeecccc
Confidence 9999999999864
No 23
>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=97.81 E-value=1.9e-05 Score=63.71 Aligned_cols=44 Identities=27% Similarity=0.662 Sum_probs=37.9
Q ss_pred CCCCCCCC-CCCcceeeccCCc--CcccChhhhccCCCCCCCC-CCCceec
Q 004134 346 NHCNYCSQ-PIPAVYYQSQKEV--DVLLCPECFHEGRFVTGHS-SLDYIRV 392 (772)
Q Consensus 346 ~~C~~C~~-~~~~~~y~c~kc~--d~~LC~~CF~~G~~~~~hs-s~DF~rv 392 (772)
+.|+.|+. ++..++|+|..|. +++||.+||..|. .|+ +|.|.++
T Consensus 1 y~Cd~C~~~pI~G~R~~C~~C~~~d~DlC~~C~~~~~---~H~~~H~~~~i 48 (48)
T cd02341 1 FKCDSCGIEPIPGTRYHCSECDDGDFDLCQDCVVKGE---SHQEDHWLVKI 48 (48)
T ss_pred CCCCCCCCCccccceEECCCCCCCCCccCHHHHhCcC---CCCCCCceeeC
Confidence 46999998 9999999999999 9999999999987 665 5666653
No 24
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.80 E-value=2.2e-05 Score=82.40 Aligned_cols=45 Identities=16% Similarity=0.427 Sum_probs=42.0
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhC-CCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVG-tKT~eECi~hFlqL 447 (772)
...||.+|+.+|+++|++|| .+|..||+++| +||..||..+|..+
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 45799999999999999999 79999999997 79999999999975
No 25
>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=97.67 E-value=1.4e-05 Score=63.71 Aligned_cols=41 Identities=34% Similarity=0.686 Sum_probs=31.2
Q ss_pred CCCCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCC
Q 004134 345 ENHCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS 385 (772)
Q Consensus 345 ~~~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs 385 (772)
...|+.|+. ++...+|+|..|.+++||..||..|++...|+
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 467999998 77889999999999999999999999887774
No 26
>PLN03091 hypothetical protein; Provisional
Probab=97.53 E-value=9.2e-05 Score=83.06 Aligned_cols=45 Identities=22% Similarity=0.531 Sum_probs=41.7
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhC-CCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVG-tKT~eECi~hFlqL 447 (772)
...||.+|+.+|+++|++|| .+|..||+++| +||..||..+|+.+
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 35799999999999999999 79999999998 79999999999865
No 27
>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=97.48 E-value=0.0001 Score=58.81 Aligned_cols=42 Identities=24% Similarity=0.600 Sum_probs=36.1
Q ss_pred CCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCceec
Q 004134 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIRV 392 (772)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~rv 392 (772)
.|++|+. ++...+|+|..|.+++||..||..+ .|+ .|.|.||
T Consensus 2 ~Cd~C~~~pI~G~RykC~~C~dyDLC~~Cf~~~----~H~~~H~F~ri 45 (45)
T cd02344 2 TCDGCQMFPINGPRFKCRNCDDFDFCENCFKTR----KHNTRHTFGRI 45 (45)
T ss_pred CCCCCCCCCCccCeEECCCCCCccchHHhhCCC----CcCCCCceeeC
Confidence 5999985 7888999999999999999999984 464 6888875
No 28
>cd02339 ZZ_Mind_bomb Zinc finger, ZZ type. Zinc finger present in Drosophila Mind bomb (D-mib) and related proteins. The ZZ motif coordinates two zinc ions and most likely participates in ligand binding or molecular scaffolding. Mind bomb is an E3 ubiqitin ligase that has been shown to regulate signaling by the Notch ligand Delta in Drosophila melanogaster.
Probab=97.26 E-value=0.00029 Score=56.26 Aligned_cols=41 Identities=24% Similarity=0.603 Sum_probs=34.6
Q ss_pred CCCCCC-CCCCcceeeccCCcCcccChhhhccCCCCCCCC-CCCcee
Q 004134 347 HCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHS-SLDYIR 391 (772)
Q Consensus 347 ~C~~C~-~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hs-s~DF~r 391 (772)
.|++|+ .++..++|+|..|.+++||.+||..+ .|+ .|.|.+
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 67788999999999999999999963 453 677765
No 29
>PLN03212 Transcription repressor MYB5; Provisional
Probab=97.16 E-value=0.00049 Score=72.49 Aligned_cols=47 Identities=13% Similarity=0.210 Sum_probs=43.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 401 IDGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 401 ~~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
.....||.+|+.+||+.+..||..|..||.+|.+||..+|..+|..+
T Consensus 76 I~kgpWT~EED~lLlel~~~~GnKWs~IAk~LpGRTDnqIKNRWns~ 122 (249)
T PLN03212 76 VKRGGITSDEEDLILRLHRLLGNRWSLIAGRIPGRTDNEIKNYWNTH 122 (249)
T ss_pred cccCCCChHHHHHHHHHHHhccccHHHHHhhcCCCCHHHHHHHHHHH
Confidence 34578999999999999999999999999999999999999999653
No 30
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=96.93 E-value=0.00081 Score=70.71 Aligned_cols=45 Identities=13% Similarity=0.406 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhC-CCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVS-TKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVG-tKT~eECi~hFlqL 447 (772)
...||.+|+.+|.+-|++|| ++|..|+++.| .|+-..|+++++.+
T Consensus 9 kGpWt~EED~~L~~~V~~~G~~~W~~i~k~~gl~R~GKSCRlRW~Ny 55 (238)
T KOG0048|consen 9 KGPWTQEEDLTQIRSIKSFGKHNGTALPKLAGLRRCGKSCRLRWTNY 55 (238)
T ss_pred CCCCChHHHHHHHHHHHHhCCCCcchhhhhcCCCccchHHHHHhhcc
Confidence 36899999999999999999 99999999999 89999999999864
No 31
>PLN03091 hypothetical protein; Provisional
Probab=96.71 E-value=0.0023 Score=72.21 Aligned_cols=46 Identities=20% Similarity=0.330 Sum_probs=42.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
....||.+|+.+||+.+..||..|.+||+++.+||..+|..||..+
T Consensus 66 kKgpWT~EED~lLLeL~k~~GnKWskIAk~LPGRTDnqIKNRWnsl 111 (459)
T PLN03091 66 KRGTFSQQEENLIIELHAVLGNRWSQIAAQLPGRTDNEIKNLWNSC 111 (459)
T ss_pred cCCCCCHHHHHHHHHHHHHhCcchHHHHHhcCCCCHHHHHHHHHHH
Confidence 4578999999999999999999999999999999999999888754
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=96.40 E-value=0.0026 Score=49.83 Aligned_cols=33 Identities=21% Similarity=0.526 Sum_probs=28.6
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCC
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGR 379 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~ 379 (772)
+.|+.|.+.+ ..+|+|+.|.+|+||..||..+.
T Consensus 1 y~C~~C~~~~-~~r~~C~~C~dfDLC~~C~~~~~ 33 (41)
T cd02337 1 YTCNECKHHV-ETRWHCTVCEDYDLCITCYNTKN 33 (41)
T ss_pred CcCCCCCCcC-CCceECCCCcchhhHHHHhCCCC
Confidence 4699999855 49999999999999999998754
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=96.11 E-value=0.0035 Score=49.63 Aligned_cols=31 Identities=35% Similarity=0.771 Sum_probs=28.5
Q ss_pred CCCCCCC-CCCcceeeccCCcCcccChhhhcc
Q 004134 347 HCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHE 377 (772)
Q Consensus 347 ~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~ 377 (772)
.|+.|+. ++...+|+|..|.+++||..||..
T Consensus 2 ~CDgCg~~PI~G~RykC~~C~dyDLC~~C~~~ 33 (43)
T cd02342 2 QCDGCGVLPITGPRYKSKVKEDYDLCTICFSR 33 (43)
T ss_pred CCCCCCCCcccccceEeCCCCCCccHHHHhhh
Confidence 6999996 888899999999999999999975
No 34
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=95.42 E-value=0.018 Score=67.34 Aligned_cols=46 Identities=26% Similarity=0.658 Sum_probs=42.7
Q ss_pred CCCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 402 DGETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
....||.+|+.+|+-||++|| -+|-+|-+.|.+||-.||..+|++.
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 346899999999999999999 6999999999999999999999874
No 35
>KOG4582 consensus Uncharacterized conserved protein, contains ZZ-type Zn-finger [General function prediction only]
Probab=95.22 E-value=0.012 Score=63.68 Aligned_cols=45 Identities=22% Similarity=0.446 Sum_probs=38.0
Q ss_pred CCCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecC
Q 004134 346 NHCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVD 393 (772)
Q Consensus 346 ~~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd 393 (772)
..|+.|+. .|...+|+|..|.|++||.+|+..+ ..|-.|-|.++-
T Consensus 153 v~CD~C~~~~IvG~RyKC~~C~dYDLCe~Ce~~~---~~h~~H~~lR~~ 198 (278)
T KOG4582|consen 153 VPCDNCGKPGIVGARYKCTVCPDYDLCERCEAGN---EHHAAHAMLRLH 198 (278)
T ss_pred ccCCCccCCccccceeeecCCCccchhHHhhcCC---CCCcccceeecc
Confidence 58999999 9999999999999999999999876 345567777743
No 36
>PF13837 Myb_DNA-bind_4: Myb/SANT-like DNA-binding domain; PDB: 2EBI_A 2JMW_A.
Probab=95.01 E-value=0.015 Score=51.16 Aligned_cols=44 Identities=34% Similarity=0.645 Sum_probs=33.5
Q ss_pred CCCCHHHHHHHHHHHHh--c----C--------CCHHHHHHHhC----CCCHHHHHHHHHhC
Q 004134 404 ETWSDQETFLLLEGIEM--Y----N--------DNWNEIAEHVS----TKSKAQCILHFVRL 447 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~--y----g--------~NW~~IAehVG----tKT~eECi~hFlqL 447 (772)
..||++|+..||+.+.. + + .-|..||+.+. .||+.||..+|-.|
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 46999999999999987 2 1 15999999985 59999999999876
No 37
>PLN02976 amine oxidase
Probab=95.01 E-value=0.02 Score=73.04 Aligned_cols=84 Identities=21% Similarity=0.356 Sum_probs=67.1
Q ss_pred CCCCCCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhh-ccCCCC----hhHHHHHHHhhh
Q 004134 189 WFSPDTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQG-LVDGVS----PEDLTRIFRFLN 263 (772)
Q Consensus 189 WF~~~~Ih~iEk~~lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRR-nL~G~d----v~sI~RVH~FLE 263 (772)
=+....|.+|||-.|.|...-| -.-+.|+++||.|+-+|-++=.+-|-+|+|== -....| ...|.-|+.||+
T Consensus 454 gl~a~~~~~~e~~~~k~~lkr~---~~~q~yl~cr~~~l~~w~k~~~~~l~~~~c~v~~~~~~~e~~~~~l~r~~~~fld 530 (1713)
T PLN02976 454 GLKARAVGPIEKIKFKEVLKRK---GGLQEYLECRNMILGLWSKDVSRILPLADCGVTDTPSEDESPRASLIREVYLFLD 530 (1713)
T ss_pred cccccccChHHHHHHHHHHHhc---cchHHHHHHHHHHHHHhhhhhhhcccHhhccccCCcccccCchhhHHHHHHHHhh
Confidence 3445678999999999988643 35788999999999999999999999999951 111111 456888999999
Q ss_pred hhcccccccCCC
Q 004134 264 HWGIINYCAAVQ 275 (772)
Q Consensus 264 ~WGLINYqvdp~ 275 (772)
|-|.||-.+..+
T Consensus 531 ~~gyin~g~~s~ 542 (1713)
T PLN02976 531 QRGYINAGIASE 542 (1713)
T ss_pred ccCceecccccc
Confidence 999999998764
No 38
>KOG0049 consensus Transcription factor, Myb superfamily [Transcription]
Probab=94.82 E-value=0.024 Score=66.36 Aligned_cols=45 Identities=24% Similarity=0.416 Sum_probs=41.4
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCH---HHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSK---AQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~---eECi~hFlqL 447 (772)
.+.||-+|+..||++|++|| |+|-+||-.+|.||. --|..+|+..
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 46799999999999999999 999999999999998 6699999865
No 39
>KOG4286 consensus Dystrophin-like protein [Cell motility; Signal transduction mechanisms; Cytoskeleton]
Probab=94.79 E-value=0.013 Score=69.47 Aligned_cols=43 Identities=35% Similarity=0.774 Sum_probs=37.2
Q ss_pred CCCCCCCCC-CCCcceeeccCCcCcccChhhhccCCCCCCCCCC
Q 004134 345 ENHCNYCSQ-PIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSL 387 (772)
Q Consensus 345 ~~~C~~C~~-~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~ 387 (772)
...|+.|.. +|..++|+|++|-+++||..||..|+-..+|+-|
T Consensus 603 ~~kCniCk~~pIvG~RyR~l~~fn~dlCq~CF~sgraak~hk~~ 646 (966)
T KOG4286|consen 603 QAKCNICKECPIIGFRYRSLKHFNYDICQSCFFSGRAAKGHKMH 646 (966)
T ss_pred hhhcchhhhCccceeeeeehhhcChhHHhhHhhhcccccCCCCC
Confidence 357999954 5667899999999999999999999999999754
No 40
>KOG0048 consensus Transcription factor, Myb superfamily [Transcription]
Probab=94.41 E-value=0.065 Score=56.52 Aligned_cols=43 Identities=19% Similarity=0.393 Sum_probs=39.6
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHH
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHF 444 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hF 444 (772)
....||.+||.+|+++=..||.-|..||.++.+||-.++.-|+
T Consensus 61 krg~fT~eEe~~Ii~lH~~~GNrWs~IA~~LPGRTDNeIKN~W 103 (238)
T KOG0048|consen 61 KRGNFSDEEEDLIIKLHALLGNRWSLIAGRLPGRTDNEVKNHW 103 (238)
T ss_pred cCCCCCHHHHHHHHHHHHHHCcHHHHHHhhCCCcCHHHHHHHH
Confidence 3568999999999999999999999999999999998887765
No 41
>KOG1280 consensus Uncharacterized conserved protein containing ZZ-type Zn-finger [General function prediction only]
Probab=93.92 E-value=0.033 Score=61.23 Aligned_cols=41 Identities=22% Similarity=0.440 Sum_probs=33.7
Q ss_pred CCCCCCCCCCCCc-ceeeccCCcCcccChhhhccCCCCCCCC
Q 004134 345 ENHCNYCSQPIPA-VYYQSQKEVDVLLCPECFHEGRFVTGHS 385 (772)
Q Consensus 345 ~~~C~~C~~~~~~-~~y~c~kc~d~~LC~~CF~~G~~~~~hs 385 (772)
...|+.|++.--. -+|+|+.|.||+||..||.+|.-...|.
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 3579999886533 5899999999999999999997766664
No 42
>KOG4301 consensus Beta-dystrobrevin [Cytoskeleton]
Probab=90.45 E-value=0.12 Score=56.92 Aligned_cols=42 Identities=29% Similarity=0.660 Sum_probs=35.4
Q ss_pred CCCCCCCC-CCCCcceeeccCCcCcccChhhhccCCCCCCCCC
Q 004134 345 ENHCNYCS-QPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSS 386 (772)
Q Consensus 345 ~~~C~~C~-~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss 386 (772)
...|++|. ..+...+|.|+.|.++.+|.+||-.|+-.+.|+.
T Consensus 240 pv~cs~c~srs~~gfry~cq~C~nyqlcq~cfwrG~~g~~hsn 282 (434)
T KOG4301|consen 240 PVECSYCRSRSMMGFRYRCQQCHNYQLCQQCFWRGHAGGSHSN 282 (434)
T ss_pred CccCcceecccccchhhhHhhcCCccccchhhccccCCCCcch
Confidence 34699995 4556789999999999999999999998877764
No 43
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=89.54 E-value=0.32 Score=57.48 Aligned_cols=51 Identities=25% Similarity=0.484 Sum_probs=43.1
Q ss_pred CCCCCCHHHHHHHHHHHH-------hc------------------C-CCHHHHHHHhCCCCHHHHHHHHHhCCCCCC
Q 004134 402 DGETWSDQETFLLLEGIE-------MY------------------N-DNWNEIAEHVSTKSKAQCILHFVRLPMEDG 452 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe-------~y------------------g-~NW~~IAehVGtKT~eECi~hFlqLPIED~ 452 (772)
....||-+|+.+||..|+ .| . =+|..|++.+|||+..||..||-+|=+...
T Consensus 435 ~r~~Ws~eEe~~Llk~V~~~~~~~~q~q~~n~~~~~q~sp~s~~~d~I~Wt~vse~~~TR~~~qCr~Kw~kl~~~~s 511 (607)
T KOG0051|consen 435 NRGAWSIEEEEKLLKTVNEMIREALQPQASNTDTGLQESPESTLKDDINWTLVSEMLGTRSRIQCRYKWYKLTTSPS 511 (607)
T ss_pred ccCcchHHHHHHHHHHHHHHHHHhhcccccccchhhhcCccccccCCcchhhhhHhhcCCCcchHHHHHHHHHhhHH
Confidence 356899999999999995 34 1 389999999999999999999998865543
No 44
>KOG0051 consensus RNA polymerase I termination factor, Myb superfamily [Transcription]
Probab=88.87 E-value=0.48 Score=56.04 Aligned_cols=45 Identities=16% Similarity=0.358 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
....||.+|+..|-.-+.++|++|..|++.|| |.|..|..+|-++
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 45789999999999999999999999999998 6999999999876
No 45
>KOG4167 consensus Predicted DNA-binding protein, contains SANT and ELM2 domains [Transcription]
Probab=88.23 E-value=0.7 Score=55.39 Aligned_cols=45 Identities=20% Similarity=0.435 Sum_probs=41.9
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlq 446 (772)
+.+-||-.|..++-+||-.|.-|+..|++.|.+||..||+..|.-
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 456799999999999999999999999999999999999998863
No 46
>COG5118 BDP1 Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
Probab=86.80 E-value=1.2 Score=50.00 Aligned_cols=45 Identities=13% Similarity=0.386 Sum_probs=42.4
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlq 446 (772)
....||..|+.++..|+.++|-|+.-|+....+|+..|+..+|++
T Consensus 364 ~~~~Ws~~e~ekFYKALs~wGtdF~LIs~lfP~R~RkqIKaKfi~ 408 (507)
T COG5118 364 GALRWSKKEIEKFYKALSIWGTDFSLISSLFPNRERKQIKAKFIK 408 (507)
T ss_pred CCCcccHHHHHHHHHHHHHhcchHHHHHHhcCchhHHHHHHHHHH
Confidence 346899999999999999999999999999999999999999984
No 47
>PF13873 Myb_DNA-bind_5: Myb/SANT-like DNA-binding domain
Probab=85.61 E-value=1.7 Score=37.57 Aligned_cols=44 Identities=30% Similarity=0.445 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHhcC-----------------CCHHHHHHHhC-----CCCHHHHHHHHHhC
Q 004134 404 ETWSDQETFLLLEGIEMYN-----------------DNWNEIAEHVS-----TKSKAQCILHFVRL 447 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~yg-----------------~NW~~IAehVG-----tKT~eECi~hFlqL 447 (772)
..||.+|...||+-|+.|. .-|..|++.+. .||..||..+|-.|
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 5799999999999999882 35999999983 59999999988654
No 48
>KOG4282 consensus Transcription factor GT-2 and related proteins, contains trihelix DNA-binding/SANT domain [Transcription]
Probab=84.66 E-value=1 Score=49.81 Aligned_cols=46 Identities=28% Similarity=0.482 Sum_probs=37.7
Q ss_pred CCCCHHHHHHHHHHHHhc-C----C-----CHHHHHHHh---C-CCCHHHHHHHHHhCCC
Q 004134 404 ETWSDQETFLLLEGIEMY-N----D-----NWNEIAEHV---S-TKSKAQCILHFVRLPM 449 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~y-g----~-----NW~~IAehV---G-tKT~eECi~hFlqLPI 449 (772)
..|+.+|++.||++.... . + .|..||..+ | .||+.||..+|-.|..
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 679999999999999743 1 3 499999944 3 5999999999988754
No 49
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=80.00 E-value=1.6 Score=50.74 Aligned_cols=44 Identities=25% Similarity=0.582 Sum_probs=40.7
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hFlq 446 (772)
+.-|+..|+..|=-|+.+|| ..|.+|+..+..||+.||..+|..
T Consensus 7 ggvwrntEdeilkaav~kyg~nqws~i~sll~~kt~rqC~~rw~e 51 (617)
T KOG0050|consen 7 GGVWRNTEDEVLKAAVMKYGKNQWSRIASLLNRKTARQCKARWEE 51 (617)
T ss_pred cceecccHHHHHHHHHHHcchHHHHHHHHHHhhcchhHHHHHHHH
Confidence 35699999999999999999 899999999999999999999874
No 50
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=79.40 E-value=12 Score=46.29 Aligned_cols=76 Identities=17% Similarity=0.272 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 579 EKVKAAAKAGLA-AAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERT 655 (772)
Q Consensus 579 e~vk~Aa~~aLa-AAA~KAk~lA~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl 655 (772)
..+..|...+|- ..-.+|+.+...++.++.+|+..|.+.. +++|.+...++.+..-+++.+++||+.+++|-.+|.
T Consensus 489 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~l~~~~-~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~~~~ 565 (782)
T PRK00409 489 NAFEIAKRLGLPENIIEEAKKLIGEDKEKLNELIASLEELE-RELEQKAEEAEALLKEAEKLKEELEEKKEKLQEEED 565 (782)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHhhhhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777774 4568899999999999999999876543 334545544444444444444444444444433333
No 51
>KOG0050 consensus mRNA splicing protein CDC5 (Myb superfamily) [RNA processing and modification; Cell cycle control, cell division, chromosome partitioning]
Probab=79.22 E-value=1.8 Score=50.41 Aligned_cols=44 Identities=25% Similarity=0.514 Sum_probs=41.2
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
...|+.+|+.+||.+....-.-|-.|+.-|| +|..||..+|..|
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 4679999999999999999999999999998 7999999999886
No 52
>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=79.13 E-value=13 Score=45.90 Aligned_cols=76 Identities=17% Similarity=0.186 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 579 EKVKAAAKAGLA-AAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERT 655 (772)
Q Consensus 579 e~vk~Aa~~aLa-AAA~KAk~lA~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl 655 (772)
..+..|...+|- ..-.+|+.+...++.++.+|+..|.+.+ +++|.++..++.+..-++++++.||+.+++|-.+|.
T Consensus 484 ~a~~iA~~~Glp~~ii~~A~~~~~~~~~~~~~li~~L~~~~-~~~e~~~~~~~~~~~e~~~~~~~l~~~~~~l~~~~~ 560 (771)
T TIGR01069 484 YAFEIAQRYGIPHFIIEQAKTFYGEFKEEINVLIEKLSALE-KELEQKNEHLEKLLKEQEKLKKELEQEMEELKERER 560 (771)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHHhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667777774 4568899999999999999999876533 335555554444444444444444444444443333
No 53
>COG5180 PBP1 Protein interacting with poly(A)-binding protein [RNA processing and modification]
Probab=76.88 E-value=3.8 Score=47.27 Aligned_cols=53 Identities=28% Similarity=0.432 Sum_probs=29.4
Q ss_pred CCCCCCCCCCcccCCccCCCCCCCCCCccCCCCCCCCCCcccCCCCCCCCCCCCCcCC
Q 004134 665 GGVPSQMNLPVVAPSMVNNNIGNNRPQVMSASSSQPSIPGYSANQPVHPHMQFRPQQM 722 (772)
Q Consensus 665 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 722 (772)
|..-|.|+.+ |+.+|.+. .+ -|.++|..|+-|.|+||+.- .+---|.|+||+|
T Consensus 506 GNa~~~~~~A-~~~~M~~~-m~--~P~~~PSA~P~P~M~~~~~G-~~~~Y~P~~PQ~~ 558 (654)
T COG5180 506 GNAVPGMNPA-MGMNMGGM-MG--FPMGGPSASPNPMMNGFAAG-SMGMYMPFQPQPM 558 (654)
T ss_pred cccccccChh-hcCCccce-ee--ccCCCCCCCCCCCcCCcccC-CcccccCCCCCcc
Confidence 5555455543 55555443 22 45778888888888886543 2222344444433
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=73.30 E-value=3.1 Score=41.92 Aligned_cols=44 Identities=18% Similarity=0.474 Sum_probs=37.7
Q ss_pred CCCCCHHHHHHHHHHHHhc---C----CCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMY---N----DNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~y---g----~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
.+.||.+|+++|-|.|-.| | .-.+.|++.++ ||+.-|-.+|..+
T Consensus 4 QDAWT~eeDlLLAEtVLrhIReG~TQL~AFeEvg~~L~-RTsAACGFRWNs~ 54 (161)
T TIGR02894 4 QDAWTHEEDLLLAETVLRHIREGSTQLSAFEEVGRALN-RTAAACGFRWNAY 54 (161)
T ss_pred ccccccHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHc-ccHHHhcchHHHH
Confidence 3679999999999999998 3 36888889884 8999999998754
No 55
>KOG4468 consensus Polycomb-group transcriptional regulator [Transcription]
Probab=73.25 E-value=3.1 Score=49.19 Aligned_cols=45 Identities=20% Similarity=0.437 Sum_probs=39.5
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCHHHH----------HHHhCCCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYNDNWNEI----------AEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg~NW~~I----------AehVGtKT~eECi~hFlqL 447 (772)
...||.+|+.-+.+||..+|-|+++| -..+..||+.|...||.++
T Consensus 88 ktaWt~~E~~~Ffdal~~~GKdFe~VinaklKRrna~s~~~~Ktkdqvr~~yY~~ 142 (782)
T KOG4468|consen 88 KTAWTHQEEESFFDALRQVGKDFEKVINAKLKRRNATSRVQSKTKDQVRHYYYRL 142 (782)
T ss_pred ccccchhhHHHHHHHHHHhcccHHHHHHHHHHhcccccchhhhhhHHHHHHHHHH
Confidence 46899999999999999999999999 3345568999999999875
No 56
>PF15324 TALPID3: Hedgehog signalling target
Probab=72.11 E-value=32 Score=43.62 Aligned_cols=91 Identities=23% Similarity=0.314 Sum_probs=56.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHH-------HHHHHH--HHH----HHHHHHHHH
Q 004134 577 SAEKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIIN-----HQLK-------RLELKL--KQF----AEVETLLMR 638 (772)
Q Consensus 577 s~e~vk~Aa~~aLaAAA~KAk~lA~~EErEIqrLv~~iIe-----~QLK-------KLElKL--k~f----eeLE~~Le~ 638 (772)
+...|.+|+++|+++||---|+..+.| -++......|=. .||+ +++.|= -+. +.|-.+|+.
T Consensus 61 SAtTVAAATAAAIATaAPLiKvQSdLE-AKVnsVselL~KLQEtDkqLqrvteqQt~i~~~~ek~~ch~~EkQmn~fmeQ 139 (1252)
T PF15324_consen 61 SATTVAAATAAAIATAAPLIKVQSDLE-AKVNSVSELLNKLQETDKQLQRVTEQQTSIQNQHEKLHCHDHEKQMNVFMEQ 139 (1252)
T ss_pred hHHHHHHHHHHHHHhhhhhhhhcchHH-HHHHHHHHHHHHhhhhhcchhhhhhhhccccccccccchhhHHHHHHHHHHH
Confidence 456788888999998886555544433 333332222111 1111 111100 012 234456777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhCCCCCC
Q 004134 639 ECEQVEKARQRFATERTRIVSTRLGPGGVP 668 (772)
Q Consensus 639 Ere~LE~~Rq~L~~eRl~~~~~rl~~~~~~ 668 (772)
-.+.||+.+||.+.-+-.|++..|.+|+.-
T Consensus 140 ~l~HLEKLQqQQi~iQshfIsSAl~~~s~q 169 (1252)
T PF15324_consen 140 HLRHLEKLQQQQIDIQSHFISSALKTGSLQ 169 (1252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCCC
Confidence 788899999999999999999999987755
No 57
>KOG4329 consensus DNA-binding protein [General function prediction only]
Probab=70.61 E-value=6 Score=44.51 Aligned_cols=49 Identities=22% Similarity=0.399 Sum_probs=42.6
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCHHHHH-HHhCCCCHHHHHHHHHhCCCCC
Q 004134 403 GETWSDQETFLLLEGIEMYNDNWNEIA-EHVSTKSKAQCILHFVRLPMED 451 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg~NW~~IA-ehVGtKT~eECi~hFlqLPIED 451 (772)
-..|+.+|=..+=+||+.||-|+..|- ..|.|||.-||+..|..--...
T Consensus 277 l~~wsEeEcr~FEegl~~yGKDF~lIr~nkvrtRsvgElVeyYYlWKkSe 326 (445)
T KOG4329|consen 277 LSGWSEEECRNFEEGLELYGKDFHLIRANKVRTRSVGELVEYYYLWKKSE 326 (445)
T ss_pred cccCCHHHHHHHHHHHHHhcccHHHHHhcccccchHHHHHHHHHHhhcCc
Confidence 357999999999999999999999995 4899999999999987654433
No 58
>PF04504 DUF573: Protein of unknown function, DUF573; InterPro: IPR007592 This is a family of uncharacterised proteins.
Probab=67.70 E-value=8.3 Score=35.72 Aligned_cols=45 Identities=24% Similarity=0.446 Sum_probs=35.0
Q ss_pred CCCCCHHHHHHHHHHHHhc----C----CCHHHHHHHhCCC-----CHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMY----N----DNWNEIAEHVSTK-----SKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~y----g----~NW~~IAehVGtK-----T~eECi~hFlqL 447 (772)
..-||+++|+.||+||-.| | .||...-++|... |..|-..+.-+|
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 4679999999999999888 4 5999988888643 566666665544
No 59
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=67.25 E-value=6.9 Score=46.36 Aligned_cols=95 Identities=20% Similarity=0.352 Sum_probs=54.1
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHH-----Hh
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGI-----EM 420 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaI-----e~ 420 (772)
..|.-|+... ..+.|.. ..+.+|..|-.--|... .+|.. ..-+.||++|...|..+= +.
T Consensus 24 k~CADCgs~~--P~WASiN-lGIFICi~CSGIHRsLG-------hRVKS------LSLDkWT~EEVe~Mk~gGN~~AN~i 87 (648)
T PLN03119 24 RRCINCNSLG--PQYVCTT-FWTFVCMACSGIHREFT-------HRVKS------VSMSKFTSKEVEVLQNGGNQRAREI 87 (648)
T ss_pred CccccCCCCC--CCceeec-cceEEeccchhhhccCC-------ceeec------cccCCCCHHHHHHHHHhchHHHHHH
Confidence 4788888643 5555554 36789999965443321 14443 223689998865443221 22
Q ss_pred cCCCHHHHHHHhCCCCHHHHHHHHHhC-CCCCCCccc
Q 004134 421 YNDNWNEIAEHVSTKSKAQCILHFVRL-PMEDGILEN 456 (772)
Q Consensus 421 yg~NW~~IAehVGtKT~eECi~hFlqL-PIED~fLe~ 456 (772)
|..+|..-...+...+..+-+..||+. |++..|...
T Consensus 88 yeanw~~~~~~~P~~sD~e~lr~FIR~KYVeKRF~~~ 124 (648)
T PLN03119 88 YLKNWDHQRQRLPENSNAERVREFIKNVYVQKKYAGA 124 (648)
T ss_pred HHhhcccccCCCCCCccHHHHHHHHHHHHhhhhccCc
Confidence 335676433233333445556788884 667677654
No 60
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=65.76 E-value=41 Score=41.57 Aligned_cols=9 Identities=11% Similarity=0.615 Sum_probs=4.6
Q ss_pred HHHHHHHHH
Q 004134 222 CRNHIVAKY 230 (772)
Q Consensus 222 ~RN~iI~~y 230 (772)
.|..||-.|
T Consensus 116 ek~kmis~~ 124 (1102)
T KOG1924|consen 116 EKRKMISQY 124 (1102)
T ss_pred HHHHHHHHH
Confidence 455555544
No 61
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=65.68 E-value=5.2 Score=49.41 Aligned_cols=20 Identities=30% Similarity=0.526 Sum_probs=8.4
Q ss_pred hhccCCcCcccccchhhhcc
Q 004134 24 QLNKLDEDDVVEDEDEEQDN 43 (772)
Q Consensus 24 ~~~~~~~~~~~~~~~~~~~~ 43 (772)
-|+...+||..||||+|+|+
T Consensus 1398 GR~r~~~dd~DeeeD~e~Ed 1417 (1516)
T KOG1832|consen 1398 GRRRPTDDDSDEEEDDETED 1417 (1516)
T ss_pred cccCCCccccCccccchhhc
Confidence 34444334444444444444
No 62
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=64.43 E-value=6.1 Score=46.49 Aligned_cols=45 Identities=22% Similarity=0.503 Sum_probs=42.4
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
...|+.+|.-.|++.=..++--|..||..|+.+|..+|..+|+.+
T Consensus 72 ~~~~~~eed~~li~l~~~~~~~wstia~~~d~rt~~~~~ery~~~ 116 (512)
T COG5147 72 KKNWSEEEDEQLIDLDKELGTQWSTIADYKDRRTAQQCVERYVNT 116 (512)
T ss_pred cccccHHHHHHHHHHHHhcCchhhhhccccCccchHHHHHHHHHH
Confidence 468999999999999999999999999999999999999999953
No 63
>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=63.02 E-value=12 Score=31.33 Aligned_cols=53 Identities=25% Similarity=0.285 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHHHHHhCCCcee-eHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 216 PEKYMECRNHIVAKYMDNPEKRL-IVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 216 pe~Y~~~RN~iI~~yr~NP~eyL-TvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
-++|-.+++.|.+- ..-|.++| |..+--+.+ |.....+.+....|+.+|||--
T Consensus 3 ~~i~~~l~~~I~~g-~~~~g~~lps~~~la~~~-~vsr~tvr~al~~L~~~g~i~~ 56 (64)
T PF00392_consen 3 EQIYDQLRQAILSG-RLPPGDRLPSERELAERY-GVSRTTVREALRRLEAEGLIER 56 (64)
T ss_dssp HHHHHHHHHHHHTT-SS-TTSBE--HHHHHHHH-TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHcC-CCCCCCEeCCHHHHHHHh-ccCCcHHHHHHHHHHHCCcEEE
Confidence 46788899988886 45689999 888854333 4457899999999999999954
No 64
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=62.71 E-value=2.9 Score=47.95 Aligned_cols=11 Identities=18% Similarity=0.208 Sum_probs=7.2
Q ss_pred ccCCceeeCCC
Q 004134 175 RFGSRVHVLPM 185 (772)
Q Consensus 175 ~~~t~~ivIPs 185 (772)
|...++++||-
T Consensus 217 Rr~~K~~~iPQ 227 (458)
T PF10446_consen 217 RRREKHIPIPQ 227 (458)
T ss_pred HHHcCCCCCCC
Confidence 44567788874
No 65
>PLN03131 hypothetical protein; Provisional
Probab=61.39 E-value=10 Score=45.31 Aligned_cols=94 Identities=19% Similarity=0.358 Sum_probs=54.6
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHH------H
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGI------E 419 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaI------e 419 (772)
..|.-|+... ..+.|.. ..+.+|..|-.--|... | +|.. ..-+.||++|...| +.+ +
T Consensus 24 k~CADCga~~--P~WASiN-lGIFICi~CSGIHRsLg-h------RVKS------VTLD~WtdeEV~~M-k~gGN~~AN~ 86 (705)
T PLN03131 24 RRCINCNSLG--PQFVCTN-FWTFICMTCSGIHREFT-H------RVKS------VSMSKFTSQDVEAL-QNGGNQRARE 86 (705)
T ss_pred CccccCCCCC--CCeeEec-cceEEchhchhhhcccC-c------cccc------ccCCCCCHHHHHHH-HHhccHHHHH
Confidence 4688888643 4555544 46889999975544331 1 4433 22368999886543 332 2
Q ss_pred hcCCCHHHHHHHhCCCCHHHHHHHHHhC-CCCCCCccc
Q 004134 420 MYNDNWNEIAEHVSTKSKAQCILHFVRL-PMEDGILEN 456 (772)
Q Consensus 420 ~yg~NW~~IAehVGtKT~eECi~hFlqL-PIED~fLe~ 456 (772)
.|..+|..--..+...+..+-+..||+. |++..|+..
T Consensus 87 iyeanwd~~r~~lP~~sd~ekrr~FIR~KYVeKRFa~~ 124 (705)
T PLN03131 87 IYLKDWDQQRQRLPDNSKVDKIREFIKDIYVDKKYAGG 124 (705)
T ss_pred HHHhhcccccCCCCCCccHHHHHHHHHHHHhhhhhhcC
Confidence 3345676433334444555666788884 666667654
No 66
>COG5147 REB1 Myb superfamily proteins, including transcription factors and mRNA splicing factors [Transcription / RNA processing and modification / Cell division and chromosome partitioning]
Probab=58.91 E-value=5.9 Score=46.64 Aligned_cols=42 Identities=19% Similarity=0.380 Sum_probs=39.7
Q ss_pred CCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHH
Q 004134 403 GETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHF 444 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hF 444 (772)
...|+..|+.-|+-+++.|| .||..||...+.+++++|..|.
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 35899999999999999999 8999999999999999999998
No 67
>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=58.59 E-value=6 Score=28.68 Aligned_cols=27 Identities=33% Similarity=0.806 Sum_probs=12.5
Q ss_pred CCCCCCCCCCc-ceeeccCCcCcccChhh
Q 004134 347 HCNYCSQPIPA-VYYQSQKEVDVLLCPEC 374 (772)
Q Consensus 347 ~C~~C~~~~~~-~~y~c~kc~d~~LC~~C 374 (772)
.|+.|+.++.. ..|.|..| ++.|...|
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 89999998 78887777
No 68
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=58.16 E-value=13 Score=47.29 Aligned_cols=40 Identities=20% Similarity=0.362 Sum_probs=37.2
Q ss_pred CCCCHHHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHH
Q 004134 404 ETWSDQETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILH 443 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~h 443 (772)
.+||..+-..++.|.++|| +|-..||..|++||++|....
T Consensus 825 ~~w~~~~f~~f~~~~~~~gr~~~~~i~~~~~~k~~~ev~~y 865 (1033)
T PLN03142 825 STWSRRDFNAFIRACEKYGRNDIKSIASEMEGKTEEEVERY 865 (1033)
T ss_pred CcccHHHHHHHHHHHHHhCHhHHHHHHHHhcCCCHHHHHHH
Confidence 4799999999999999999 999999999999999998754
No 69
>smart00307 ILWEQ I/LWEQ domain. Thought to possess an F-actin binding function.
Probab=54.33 E-value=72 Score=33.51 Aligned_cols=38 Identities=11% Similarity=0.232 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 613 NIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFA 651 (772)
Q Consensus 613 ~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~ 651 (772)
.+++...+-+|...+-| +||+-|+.+|+.|-..|+.-|
T Consensus 160 ~~~~~k~~emE~Qv~IL-~lE~~L~~ar~~L~~lRk~~Y 197 (200)
T smart00307 160 SLHEGKTQEMEQQVEIL-KLENELEAARKKLAEIRKQHY 197 (200)
T ss_pred chHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHh
Confidence 44555555566666666 788888888887777776644
No 70
>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=51.78 E-value=2.9e+02 Score=33.20 Aligned_cols=9 Identities=33% Similarity=0.549 Sum_probs=6.5
Q ss_pred ccccCCCCC
Q 004134 760 MIRSASGTS 768 (772)
Q Consensus 760 ~~~~~~~~~ 768 (772)
-+|.|.|+.
T Consensus 268 hIRaViGet 276 (582)
T PF03276_consen 268 HIRAVIGET 276 (582)
T ss_pred HHHhhhCCC
Confidence 378888864
No 71
>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=50.54 E-value=17 Score=32.32 Aligned_cols=43 Identities=28% Similarity=0.459 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHHhc---C----------CCHHHHHHHhC-----CCCHHHHHHHHHhC
Q 004134 405 TWSDQETFLLLEGIEMY---N----------DNWNEIAEHVS-----TKSKAQCILHFVRL 447 (772)
Q Consensus 405 ~WT~qEellLLEaIe~y---g----------~NW~~IAehVG-----tKT~eECi~hFlqL 447 (772)
.||.+.+..||+.+... | ..|+.|++.+. ..|+.||..||-.|
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 35899999885 36889999998655
No 72
>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=47.36 E-value=16 Score=26.63 Aligned_cols=27 Identities=22% Similarity=0.643 Sum_probs=22.3
Q ss_pred CCCCCCCCCCcc-eeeccCCcCcccChhh
Q 004134 347 HCNYCSQPIPAV-YYQSQKEVDVLLCPEC 374 (772)
Q Consensus 347 ~C~~C~~~~~~~-~y~c~kc~d~~LC~~C 374 (772)
.|..|++.+... .|+|.+|. +.+.+.|
T Consensus 2 ~C~~C~~~~~~~~~Y~C~~c~-f~lh~~C 29 (30)
T PF03107_consen 2 WCDVCRRKIDGFYFYHCSECC-FTLHVRC 29 (30)
T ss_pred CCCCCCCCcCCCEeEEeCCCC-CeEcCcc
Confidence 699999999988 99997764 7777666
No 73
>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=47.26 E-value=25 Score=33.80 Aligned_cols=44 Identities=18% Similarity=0.376 Sum_probs=34.9
Q ss_pred CCCCCCHHHHHHHHHHHHhcC----CCHHHHHHHhC------------CCCHHHHHHHHH
Q 004134 402 DGETWSDQETFLLLEGIEMYN----DNWNEIAEHVS------------TKSKAQCILHFV 445 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg----~NW~~IAehVG------------tKT~eECi~hFl 445 (772)
.+..||.+|+--||-.+.+|| |+|+.|-+.|- +||+.++-.+--
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 356899999999999999998 79999998873 788888876643
No 74
>PRK00846 hypothetical protein; Provisional
Probab=45.58 E-value=1.9e+02 Score=26.08 Aligned_cols=54 Identities=20% Similarity=0.180 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Q 004134 610 LSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLGP 664 (772)
Q Consensus 610 Lv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~rl~~ 664 (772)
|-..-++..|..||.||.|-+++=..|...--. .+..-..+..+++.+..||..
T Consensus 6 ~~~~~le~Ri~~LE~rlAfQe~tIe~LN~~v~~-qq~~I~~L~~ql~~L~~rL~~ 59 (77)
T PRK00846 6 LRDQALEARLVELETRLSFQEQALTELSEALAD-ARLTGARNAELIRHLLEDLGK 59 (77)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 444567788999999999987664444332221 111122344555777777774
No 75
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=45.42 E-value=14 Score=39.10 Aligned_cols=19 Identities=26% Similarity=0.580 Sum_probs=11.8
Q ss_pred cch-HHHhhhc-chhhhhccC
Q 004134 10 DTR-KWKRRKR-EPRKQLNKL 28 (772)
Q Consensus 10 ~~~-~~~~~~~-~~~~~~~~~ 28 (772)
.+| |||||-- +.....++|
T Consensus 217 NRRTKWRKkhAaEmasakkkq 237 (288)
T KOG0847|consen 217 NRRTKWRKKHAAEMASAKKKQ 237 (288)
T ss_pred cchhhhhhhhccchhhccccC
Confidence 445 9999877 444444444
No 76
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=45.09 E-value=18 Score=41.87 Aligned_cols=66 Identities=24% Similarity=0.488 Sum_probs=42.6
Q ss_pred HHhhccCCCCCCCCCCCCc---ceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHH
Q 004134 339 IRERLSENHCNYCSQPIPA---VYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLL 415 (772)
Q Consensus 339 i~e~~~~~~C~~C~~~~~~---~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLL 415 (772)
+|....--.|.-|+..-+. +.| .|.||++|-..-|.-+.|-+ |+|-.+ + +.||..+...+
T Consensus 17 LRs~~~NKvCFDCgAknPtWaSVTY------GIFLCiDCSAvHRnLGVHiS--FVRSTn------L--DsWs~~qLR~M- 79 (454)
T KOG0706|consen 17 LRSQSENKVCFDCGAKNPTWASVTY------GIFLCIDCSAVHRNLGVHIS--FVRSTN------L--DSWSWEQLRRM- 79 (454)
T ss_pred HhcCCCCceecccCCCCCCceeecc------eEEEEEecchhhhccccceE--EEeecc------c--ccCCHHHHhHh-
Confidence 4444444579999987543 334 58999999877776666654 777442 2 34999876543
Q ss_pred HHHHhcCCCH
Q 004134 416 EGIEMYNDNW 425 (772)
Q Consensus 416 EaIe~yg~NW 425 (772)
++|||=
T Consensus 80 ----~~GGN~ 85 (454)
T KOG0706|consen 80 ----QVGGNA 85 (454)
T ss_pred ----hhcCch
Confidence 456543
No 77
>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=44.71 E-value=50 Score=26.03 Aligned_cols=45 Identities=20% Similarity=0.288 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 222 CRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 222 ~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
.|-.||..-.. ..+|+++..+.+ |.+-.++.+=.+.|+..|||.|
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 459999998876 5567899999999999999975
No 78
>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=44.49 E-value=2.3e+02 Score=29.07 Aligned_cols=72 Identities=18% Similarity=0.271 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 579 EKVKAAAKAGLAAAATKAKLFADHEEREIQRLSANIINHQLKR-------LELKLKQFAEVETLLMRECEQVEKARQRF 650 (772)
Q Consensus 579 e~vk~Aa~~aLaAAA~KAk~lA~~EErEIqrLv~~iIe~QLKK-------LElKLk~feeLE~~Le~Ere~LE~~Rq~L 650 (772)
+.|.+|-++|++|+-+|.-.|-...|-+--.-.+.|+--|... +-.-||+|-.+-+.+.+-.++.-|+.|+|
T Consensus 11 ~~v~aaraaavaa~earc~~~vaekea~a~v~fa~IaaekvEavk~ss~Vd~vD~KYhv~IknslryaIQEmRRQs~~l 89 (207)
T PF05928_consen 11 DVVDAARAAAVAASEARCVVFVAEKEARAGVRFADIAAEKVEAVKISSKVDTVDMKYHVQIKNSLRYAIQEMRRQSQQL 89 (207)
T ss_pred HHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHhHHHHHHHhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444556666656655444333333333333444333332 33457888888888876655555555444
No 79
>KOG1832 consensus HIV-1 Vpr-binding protein [Cell cycle control, cell division, chromosome partitioning]
Probab=43.87 E-value=16 Score=45.43 Aligned_cols=14 Identities=43% Similarity=0.715 Sum_probs=5.7
Q ss_pred cCcccccchhhhcc
Q 004134 30 EDDVVEDEDEEQDN 43 (772)
Q Consensus 30 ~~~~~~~~~~~~~~ 43 (772)
+||.+|+||+|||+
T Consensus 1409 eeeD~e~Ed~dEdd 1422 (1516)
T KOG1832|consen 1409 EEEDDETEDEDEDD 1422 (1516)
T ss_pred ccccchhhcccccc
Confidence 33334444444443
No 80
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=43.81 E-value=1.1e+02 Score=35.80 Aligned_cols=37 Identities=30% Similarity=0.398 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHH
Q 004134 618 QLKRLELKLKQFAE------VETLLMRECEQVEKARQRFATER 654 (772)
Q Consensus 618 QLKKLElKLk~fee------LE~~Le~Ere~LE~~Rq~L~~eR 654 (772)
|++|-||||..+.| ||+.|..||+.-...+.+|-.||
T Consensus 527 q~Ek~ELkmd~lrerelreslekql~~ErklR~~~qkr~kkEk 569 (641)
T KOG3915|consen 527 QLEKTELKMDFLRERELRESLEKQLAMERKLRAIVQKRLKKEK 569 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777777754 56666666655444444444443
No 81
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=43.80 E-value=12 Score=43.24 Aligned_cols=43 Identities=28% Similarity=0.429 Sum_probs=38.1
Q ss_pred CCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 403 GETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlq 446 (772)
.-+||-.|-. ++.....|+++...||+-++||||+|....||+
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 4589987776 777778999999999999999999999999886
No 82
>KOG1194 consensus Predicted DNA-binding protein, contains Myb-like, SANT and ELM2 domains [Transcription]
Probab=43.69 E-value=37 Score=39.49 Aligned_cols=46 Identities=11% Similarity=0.380 Sum_probs=42.0
Q ss_pred CCCCCCHHHHHHHHHHHHhcCCCHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 402 DGETWSDQETFLLLEGIEMYNDNWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg~NW~~IAehVGtKT~eECi~hFlqL 447 (772)
.-+.||++|..||=.|.+.||-+..+|-+.+.-||-...+..|...
T Consensus 186 ~~d~WT~Ed~vlFe~aF~~~GK~F~kIrq~LP~rsLaSlvqyYy~~ 231 (534)
T KOG1194|consen 186 FPDEWTAEDIVLFEQAFQFFGKDFHKIRQALPHRSLASLVQYYYSW 231 (534)
T ss_pred CcccchHHHHHHHHHHHHHhcccHHHHHHHccCccHHHHHHHHHHH
Confidence 3468999999999999999999999999999999999999888654
No 83
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=43.35 E-value=3e+02 Score=30.65 Aligned_cols=48 Identities=23% Similarity=0.367 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 613 NIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVST 660 (772)
Q Consensus 613 ~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~ 660 (772)
.-++.++++|+.+++.+++.|..+.+++..++.+..++..+|..+-.+
T Consensus 74 ~~l~~el~~le~e~~~l~~eE~~~~~~~n~~~~~l~~~~~e~~sl~~q 121 (314)
T PF04111_consen 74 EELDQELEELEEELEELDEEEEEYWREYNELQLELIEFQEERDSLKNQ 121 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778889999999999999999999999888888777777766554
No 84
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=42.94 E-value=1.1e+02 Score=33.50 Aligned_cols=62 Identities=19% Similarity=0.307 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Q 004134 588 GLAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQ----FAEVETLLMRECEQVEKARQRFA 651 (772)
Q Consensus 588 aLaAAA~KAk~lA~~EErEIqrLv~~iIe~QLKKLElKLk~----feeLE~~Le~Ere~LE~~Rq~L~ 651 (772)
.+-.||.|+-.|+.. |+=++. .-.-|.++++++..+|+. ...|+.-+++-+.+||+.|+.|-
T Consensus 92 ~~~~aa~Rplel~e~-Ekvlk~-aIq~i~~~~q~~~~~Lnnvasdea~L~~Kierrk~ElEr~rkRle 157 (338)
T KOG3647|consen 92 SLMSAAQRPLELLEV-EKVLKS-AIQAIQVRLQSSRAQLNNVASDEAALGSKIERRKAELERTRKRLE 157 (338)
T ss_pred HHHHHHcCCccHHHH-HHHHHH-HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566676666633 333333 334466778887777765 45778888888888888887763
No 85
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=42.91 E-value=1.5e+02 Score=28.98 Aligned_cols=46 Identities=20% Similarity=0.326 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 613 NIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVST 660 (772)
Q Consensus 613 ~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~ 660 (772)
..++.|+++||.+++.+.++-..|++ .+=++++.+|..+-+..++.
T Consensus 84 ~~l~~~i~~Le~~l~~L~~~~~~l~~--~~~~~~~~~~~~~~~~~~~~ 129 (134)
T cd04779 84 QLVCDQIDGLEHRLKQLKPIASQTDR--AQRMKMTKELSQQVLTLIQS 129 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHhcCHHhHHHHHH
Confidence 46899999999999999999888865 56678889998888887764
No 86
>KOG3554 consensus Histone deacetylase complex, MTA1 component [Chromatin structure and dynamics]
Probab=41.10 E-value=23 Score=41.13 Aligned_cols=51 Identities=25% Similarity=0.420 Sum_probs=41.1
Q ss_pred CCCCHHHHHHHHHHHHhcCCCHHHHHH-HhCCCCHHHHHHHHHhCCCCCCCc
Q 004134 404 ETWSDQETFLLLEGIEMYNDNWNEIAE-HVSTKSKAQCILHFVRLPMEDGIL 454 (772)
Q Consensus 404 ~~WT~qEellLLEaIe~yg~NW~~IAe-hVGtKT~eECi~hFlqLPIED~fL 454 (772)
..|+.-|-.|+=||+++||-|+++|-+ ++.=||-..++..|.-.--.|.|.
T Consensus 286 EEWSasEanLFEeALeKyGKDFndIrqdfLPWKSl~sIveyYYmwKttdRYv 337 (693)
T KOG3554|consen 286 EEWSASEANLFEEALEKYGKDFNDIRQDFLPWKSLTSIVEYYYMWKTTDRYV 337 (693)
T ss_pred hhccchhhHHHHHHHHHhcccHHHHHHhhcchHHHHHHHHHHHHHhhhhHHH
Confidence 579999999999999999999999976 455688888888777665544443
No 87
>PF01608 I_LWEQ: I/LWEQ domain; InterPro: IPR002558 I/LWEQ domains bind to actin. It has been shown that the I/LWEQ domains from mouse talin P26039 from SWISSPROT and yeast Sla2p P33338 from SWISSPROT interact with F-actin []. The domain has four conserved blocks, the name of the domain is derived from the initial conserved amino acid of each of the four blocks []. I/LWEQ domains can be placed into four major groups based on sequence similarity: Metazoan talin. Dictyostelium discoideum (Slime mould) TalA/TalB P54633 from SWISSPROT and SLA110. Metazoan Hip1p O00291 from SWISSPROT. Saccharomyces cerevisiae Sla2p P33338 from SWISSPROT. ; GO: 0003779 actin binding; PDB: 2QDQ_A 2JSW_A 1R0D_B.
Probab=40.87 E-value=2.1e+02 Score=28.92 Aligned_cols=39 Identities=21% Similarity=0.309 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 613 NIINHQLKRLELKLK-QFAEVETLLMRECEQVEKARQRFA 651 (772)
Q Consensus 613 ~iIe~QLKKLElKLk-~feeLE~~Le~Ere~LE~~Rq~L~ 651 (772)
.+-.+|.|++|+.-+ ..=+||+-|+.||+.|-..|+.=|
T Consensus 110 ~ls~~~~k~~eMe~Qv~iL~lE~eLe~ar~kL~~lRk~~Y 149 (152)
T PF01608_consen 110 KLSLHQAKRQEMEAQVRILKLEKELEKARKKLAELRKAHY 149 (152)
T ss_dssp ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred hhcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 334444444443322 133466666666666666665543
No 88
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=40.19 E-value=31 Score=27.24 Aligned_cols=50 Identities=20% Similarity=0.240 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHhCCCcee-eHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 219 YMECRNHIVAKYMDNPEKRL-IVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 219 Y~~~RN~iI~~yr~NP~eyL-TvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
|-.+|+.|+... ..|...| |..+--..+ |....++.|...-|++-|+|-.
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 566777777764 3577788 787755443 4457899999999999999964
No 89
>PRK06474 hypothetical protein; Provisional
Probab=39.97 E-value=44 Score=34.01 Aligned_cols=48 Identities=23% Similarity=0.272 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 222 CRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 222 ~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
.|-.|++.-..++. .+|++++-..+.+....+|.|..+.|+..|||.-
T Consensus 12 ~R~~Il~~L~~~~~-~~ta~el~~~l~~is~aTvYrhL~~L~e~GLI~~ 59 (178)
T PRK06474 12 VRMKICQVLMRNKE-GLTPLELVKILKDVPQATLYRHLQTMVDSGILHV 59 (178)
T ss_pred HHHHHHHHHHhCCC-CCCHHHHHHHhcCCCHHHHHHHHHHHHHCCCEEE
Confidence 68889988777754 3999998766655556789999999999999995
No 90
>PF15219 TEX12: Testis-expressed 12
Probab=39.64 E-value=2.3e+02 Score=26.56 Aligned_cols=57 Identities=19% Similarity=0.355 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHhh
Q 004134 605 REIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVE---KARQRFATERTRIVSTRL 662 (772)
Q Consensus 605 rEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE---~~Rq~L~~eRl~~~~~rl 662 (772)
+||.-++..--..--++-..-+.+.+|++-++ +|-..|| +++..++.+|++++++-|
T Consensus 39 kEinlmls~yA~ilSEraavd~syi~eiD~lf-kEA~~lEnfLkqkre~LrQrlt~isntL 98 (100)
T PF15219_consen 39 KEINLMLSTYAKILSERAAVDASYITEIDGLF-KEANALENFLKQKRECLRQRLTVISNTL 98 (100)
T ss_pred HHHHHHHHHHHHHHhHHHHhhhhhhHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444444433333344444455555555544 3333333 677788888888888765
No 91
>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=39.27 E-value=28 Score=26.61 Aligned_cols=38 Identities=18% Similarity=0.340 Sum_probs=26.5
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCcee
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIR 391 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~r 391 (772)
..|..|... .+.|.|..|. ..+|..|+..+ |+.|+++.
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 3678888874 58999999875 66676654
No 92
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=39.26 E-value=34 Score=38.29 Aligned_cols=99 Identities=17% Similarity=0.334 Sum_probs=53.8
Q ss_pred cCCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhcCC
Q 004134 344 SENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYND 423 (772)
Q Consensus 344 ~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~yg~ 423 (772)
.-..|.-|+..- -.|.-|. -.+.||++|-.--|.-+.| ..+|.. ..-+.||.+|..+|.-+=...-.
T Consensus 19 ~Nk~CaDCga~~-P~W~S~n--lGvfiCi~CagvHRsLGvh----iS~VKS------itLD~wt~~~l~~m~~gGN~~a~ 85 (319)
T COG5347 19 SNKKCADCGAPN-PTWASVN--LGVFLCIDCAGVHRSLGVH----ISKVKS------LTLDNWTEEELRRMEVGGNSNAN 85 (319)
T ss_pred ccCccccCCCCC-CceEecc--cCeEEEeecchhhhccccc----eeeeee------eecccCCHHHHHHHHHhcchhhh
Confidence 346799999876 3344332 4689999997655544443 223322 22368999888777652111112
Q ss_pred CHHHHHHH----hC--CCCHHHHHHHHHh-CCCCCCCcc
Q 004134 424 NWNEIAEH----VS--TKSKAQCILHFVR-LPMEDGILE 455 (772)
Q Consensus 424 NW~~IAeh----VG--tKT~eECi~hFlq-LPIED~fLe 455 (772)
.|.+---- +. .+.-...+.+|++ ++.+-.|.+
T Consensus 86 ~~~e~~~~~~~~~~~k~~yd~~v~~~y~~~ky~~~~~~~ 124 (319)
T COG5347 86 RFYEKNLLDQLLLPIKAKYDSSVAKKYIRKKYELKKFID 124 (319)
T ss_pred hHhccCCCcccccccccccCHHHHHHHHHHHHHhhhccc
Confidence 23321111 11 2444667777776 555555544
No 93
>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=39.11 E-value=41 Score=26.13 Aligned_cols=26 Identities=19% Similarity=0.194 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHhcCCCHHHHHHHhCC
Q 004134 409 QETFLLLEGIEMYNDNWNEIAEHVST 434 (772)
Q Consensus 409 qEellLLEaIe~yg~NW~~IAehVGt 434 (772)
-|-..|.++++.++||..+.|+.+|-
T Consensus 5 ~E~~~i~~aL~~~~gn~~~aA~~Lgi 30 (42)
T PF02954_consen 5 FEKQLIRQALERCGGNVSKAARLLGI 30 (42)
T ss_dssp HHHHHHHHHHHHTTT-HHHHHHHHTS
T ss_pred HHHHHHHHHHHHhCCCHHHHHHHHCC
Confidence 37778999999999999999999993
No 94
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=38.24 E-value=52 Score=31.64 Aligned_cols=60 Identities=15% Similarity=0.247 Sum_probs=41.1
Q ss_pred CCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhcCCCHHH
Q 004134 348 CNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYNDNWNE 427 (772)
Q Consensus 348 C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~yg~NW~~ 427 (772)
|-.|+.++.-.+++|..|.... .|.|... .|.. =..|++.+++..-+..||-.+
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 CPVCGGELVVTRLKCPSCGTEI-------EGEFELP----WFAR---------------LSPEQLEFIKLFIKNRGNLKE 54 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCEE-------Eeeeccc----hhhc---------------CCHHHHHHHHHHHHhcCCHHH
Confidence 7789988877788877763211 2332110 1111 145888888888899999999
Q ss_pred HHHHhC
Q 004134 428 IAEHVS 433 (772)
Q Consensus 428 IAehVG 433 (772)
|++.+|
T Consensus 55 ~e~~lg 60 (113)
T PF09862_consen 55 MEKELG 60 (113)
T ss_pred HHHHHC
Confidence 999999
No 95
>PF12674 Zn_ribbon_2: Putative zinc ribbon domain
Probab=38.00 E-value=18 Score=32.63 Aligned_cols=35 Identities=20% Similarity=0.544 Sum_probs=25.0
Q ss_pred CCCCCCCCCCcceeeccC---CcCcccChhhhccCCCC
Q 004134 347 HCNYCSQPIPAVYYQSQK---EVDVLLCPECFHEGRFV 381 (772)
Q Consensus 347 ~C~~C~~~~~~~~y~c~k---c~d~~LC~~CF~~G~~~ 381 (772)
.|-.||.++......-.+ ...-+-|.-||.+|.|.
T Consensus 2 ~CQSCGMPl~~~~~~Gte~dGs~s~~YC~yCy~~G~Ft 39 (81)
T PF12674_consen 2 FCQSCGMPLSKDEDFGTEADGSKSEDYCSYCYQNGEFT 39 (81)
T ss_pred cCCcCcCccCCccccccccCCCCchhHHHHHhcCCcee
Confidence 699999999875522222 23456899999999874
No 96
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.76 E-value=1.4e+02 Score=26.66 Aligned_cols=61 Identities=21% Similarity=0.235 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHh
Q 004134 601 DHEEREIQRLSANIINHQLKRLELKLKQ--FAEVETLLMRECEQVEKARQRF------ATERTRIVSTR 661 (772)
Q Consensus 601 ~~EErEIqrLv~~iIe~QLKKLElKLk~--feeLE~~Le~Ere~LE~~Rq~L------~~eRl~~~~~r 661 (772)
++=|.+|+..|..|-=.||.-=|||=+. +..=..-+..-|+.|++.-++| +.+|++-+..+
T Consensus 7 ekLE~KiqqAvdTI~LLQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e~~~WQerlrsLLGk 75 (79)
T COG3074 7 EKLEAKVQQAIDTITLLQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEEQNGWQERLRALLGK 75 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4557789999998888888776666543 3333333344455555444443 55565554433
No 97
>smart00595 MADF subfamily of SANT domain.
Probab=37.62 E-value=28 Score=30.57 Aligned_cols=23 Identities=35% Similarity=0.667 Sum_probs=21.2
Q ss_pred CHHHHHHHhCCCCHHHHHHHHHhC
Q 004134 424 NWNEIAEHVSTKSKAQCILHFVRL 447 (772)
Q Consensus 424 NW~~IAehVGtKT~eECi~hFlqL 447 (772)
-|..||..+|. |.++|..++-.|
T Consensus 29 aW~~Ia~~l~~-~~~~~~~kw~~L 51 (89)
T smart00595 29 AWEEIAEELGL-SVEECKKRWKNL 51 (89)
T ss_pred HHHHHHHHHCc-CHHHHHHHHHHH
Confidence 69999999998 999999999876
No 98
>KOG1279 consensus Chromatin remodeling factor subunit and related transcription factors [Chromatin structure and dynamics]
Probab=35.40 E-value=23 Score=41.91 Aligned_cols=95 Identities=9% Similarity=-0.047 Sum_probs=71.7
Q ss_pred eCCCCCCCCCCCCCCHHHHhhcCcccCCCC-CCCChHHHHHHHHHHHHHHHhCCCceee-----HHHHhhccCCC-ChhH
Q 004134 182 VLPMHSDWFSPDTVHRLERQVVPHFFSGKS-PDHTPEKYMECRNHIVAKYMDNPEKRLI-----VSDCQGLVDGV-SPED 254 (772)
Q Consensus 182 vIPsys~WF~~~~Ih~iEk~~lPEFF~gks-~~ktpe~Y~~~RN~iI~~yr~NP~eyLT-----vTacRRnL~G~-dv~s 254 (772)
..+.+++=++...=+.-....+++|+.+++ ....+..|+.+|..+++.++---.-+.+ -+..+++.+.- .+-.
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 566778888888888889999999998873 3577888889999999998653333332 34566665431 2667
Q ss_pred HHHHHHhhhhhcccccccCCCC
Q 004134 255 LTRIFRFLNHWGIINYCAAVQS 276 (772)
Q Consensus 255 I~RVH~FLE~WGLINYqvdp~~ 276 (772)
|=+|+.|.+.|+.|+.+|--.+
T Consensus 265 LE~ie~y~ddW~kVa~hVg~ks 286 (506)
T KOG1279|consen 265 LEAIEMYGDDWNKVADHVGTKS 286 (506)
T ss_pred HHHHHHhcccHHHHHhccCCCC
Confidence 8899999999999999998543
No 99
>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=35.12 E-value=52 Score=26.43 Aligned_cols=44 Identities=16% Similarity=0.297 Sum_probs=33.4
Q ss_pred HHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 225 HIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 225 ~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
.|++.....+.. +|+++.-+.+ |.+..++.|+..-|+.+|+|..
T Consensus 7 ~iL~~l~~~~~~-~t~~eia~~~-gl~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 7 RILEALAESGGP-LTLSEIARAL-GLPKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HHHHCHHCTBSC-EEHHHHHHHH-TS-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHcCCCC-CCHHHHHHHH-CcCHHHHHHHHHHHHHCcCeec
Confidence 356666665444 8999987664 6678899999999999999865
No 100
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=34.53 E-value=1e+02 Score=32.21 Aligned_cols=24 Identities=25% Similarity=0.238 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 635 LLMRECEQVEKARQRFATERTRIV 658 (772)
Q Consensus 635 ~Le~Ere~LE~~Rq~L~~eRl~~~ 658 (772)
-|+.+|.+.++.+|+.+.+-..|+
T Consensus 88 ~~e~~r~~fekekqq~~~~~t~~L 111 (228)
T PRK06800 88 EIEAARQQFQKEQQETAYEWTELL 111 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444333
No 101
>PRK02793 phi X174 lysis protein; Provisional
Probab=34.40 E-value=3.2e+02 Score=24.02 Aligned_cols=47 Identities=17% Similarity=0.153 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhCC
Q 004134 615 INHQLKRLELKLKQFAEVETLLMRECEQVEKARQ--RFATERTRIVSTRLGP 664 (772)
Q Consensus 615 Ie~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq--~L~~eRl~~~~~rl~~ 664 (772)
++..|..||.||.|.+++=..|.. .|-++++ ..+..+++.+..||..
T Consensus 6 ~e~Ri~~LE~~lafQe~tIe~Ln~---~v~~Qq~~I~~L~~~l~~L~~rl~~ 54 (72)
T PRK02793 6 LEARLAELESRLAFQEITIEELNV---TVTAHEMEMAKLRDHLRLLTEKLKA 54 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567889999999998765333332 2222222 2234556777778874
No 102
>PF02207 zf-UBR: Putative zinc finger in N-recognin (UBR box); InterPro: IPR003126 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 N-end rule-based degradation signal, which targets a protein for ubiquitin-dependent proteolysis, comprises a destabilising amino-terminal residue and a specific internal lysine residue. This entry describes a putative zinc finger in N-recognin, a recognition component of the N-end rule pathway []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0004842 ubiquitin-protein ligase activity, 0008270 zinc ion binding; PDB: 3NY1_B 3NIS_F 3NIM_A 3NIK_A 3NII_A 3NIH_A 3NIL_D 3NIN_B 3NIJ_A 3NIT_A ....
Probab=34.14 E-value=26 Score=30.35 Aligned_cols=35 Identities=17% Similarity=0.440 Sum_probs=23.4
Q ss_pred cceeeccCCc---CcccChhhhccCCCCCCCCCCCceecCCC
Q 004134 357 AVYYQSQKEV---DVLLCPECFHEGRFVTGHSSLDYIRVDPA 395 (772)
Q Consensus 357 ~~~y~c~kc~---d~~LC~~CF~~G~~~~~hss~DF~rvd~~ 395 (772)
.+.|+|..|. ...+|..||..+ .|..|+|..+...
T Consensus 11 q~~y~C~tC~~~~~~~iC~~CF~~~----~H~gH~~~~~~~~ 48 (71)
T PF02207_consen 11 QIFYRCLTCSLDESSGICEECFANS----CHEGHRVVYYRSS 48 (71)
T ss_dssp -EEEEETTTBSSTT-BBEHHHHCTS----GGGGSSEEEEE--
T ss_pred CEEEECccCCCCCCEEEchhhCCCC----CcCCCcEEEEEeC
Confidence 3677777764 378999999875 4777888776543
No 103
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=34.09 E-value=4.6e+02 Score=31.12 Aligned_cols=40 Identities=8% Similarity=0.206 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH
Q 004134 584 AAKAGLAAAATKAKLFADHEEREIQRLSA--NIINHQLKRLELKLK 627 (772)
Q Consensus 584 Aa~~aLaAAA~KAk~lA~~EErEIqrLv~--~iIe~QLKKLElKLk 627 (772)
....+|.....|++.| |++|..|-. .++..+++++|.||+
T Consensus 66 VnqSALteqQ~kasEL----EKqLaaLrqElq~~saq~~dle~KIk 107 (475)
T PRK13729 66 VRQHATTEMQVTAAQM----QKQYEEIRRELDVLNKQRGDDQRRIE 107 (475)
T ss_pred HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhhhhhhHHHHHH
Confidence 3445566555666655 666666622 233455555555555
No 104
>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=33.67 E-value=79 Score=25.53 Aligned_cols=43 Identities=21% Similarity=0.339 Sum_probs=33.2
Q ss_pred HhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhcccccccCC
Q 004134 231 MDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCAAV 274 (772)
Q Consensus 231 r~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINYqvdp 274 (772)
..+|...+|+++.-+.+ |.+-.++.|+.+=|+++|||--..++
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 45667689999976654 45678999999999999999776554
No 105
>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=32.86 E-value=1.1e+02 Score=24.19 Aligned_cols=37 Identities=16% Similarity=0.171 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHhcC-CCHHHHHHHhCCCCHHHHHHHHHh
Q 004134 409 QETFLLLEGIEMYN-DNWNEIAEHVSTKSKAQCILHFVR 446 (772)
Q Consensus 409 qEellLLEaIe~yg-~NW~~IAehVGtKT~eECi~hFlq 446 (772)
+=+..||+.++.-+ --|.+||+.||- |+..|..+.-+
T Consensus 3 ~~D~~Il~~Lq~d~r~s~~~la~~lgl-S~~~v~~Ri~r 40 (42)
T PF13404_consen 3 ELDRKILRLLQEDGRRSYAELAEELGL-SESTVRRRIRR 40 (42)
T ss_dssp HHHHHHHHHHHH-TTS-HHHHHHHHTS--HHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCccHHHHHHHHCc-CHHHHHHHHHH
Confidence 34578899998877 799999999996 88888877644
No 106
>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=32.77 E-value=25 Score=33.26 Aligned_cols=62 Identities=29% Similarity=0.492 Sum_probs=30.7
Q ss_pred ccCCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHH
Q 004134 343 LSENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEG 417 (772)
Q Consensus 343 ~~~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEa 417 (772)
..-..|.-|+..- +.+.+.. -.+.+|..|..--+..+.| ..+|.. ..-+.||.+|..+|.++
T Consensus 11 ~~N~~CaDCg~~~--p~w~s~~-~GiflC~~Cag~HR~lg~~----is~VkS------i~~d~w~~~ev~~~~~~ 72 (116)
T PF01412_consen 11 PGNKVCADCGAPN--PTWASLN-YGIFLCLECAGIHRSLGVH----ISRVKS------ITMDNWSPEEVQRMREG 72 (116)
T ss_dssp TTCTB-TTT-SBS----EEETT-TTEEE-HHHHHHHHHHTTT----T--EEE------TTTS---HHHHHHHHHS
T ss_pred cCcCcCCCCCCCC--CCEEEee-cChhhhHHHHHHHHHhccc----chhccc------cccCCCCHHHHHHHHHH
Confidence 3345799998543 4566655 4688999998654443332 223322 12346999988777554
No 107
>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=32.55 E-value=18 Score=28.34 Aligned_cols=30 Identities=23% Similarity=0.701 Sum_probs=16.9
Q ss_pred CCCCCCCCCCCcc-eeeccCCcCcccChhhhc
Q 004134 346 NHCNYCSQPIPAV-YYQSQKEVDVLLCPECFH 376 (772)
Q Consensus 346 ~~C~~C~~~~~~~-~y~c~kc~d~~LC~~CF~ 376 (772)
.+|++|++.-..+ .+. ....+..+|.+|..
T Consensus 2 ~~CSFCgr~~~~v~~li-~g~~~~~IC~~Cv~ 32 (41)
T PF06689_consen 2 KRCSFCGRPESEVGRLI-SGPNGAYICDECVE 32 (41)
T ss_dssp -B-TTT--BTTTSSSEE-EES-SEEEEHHHHH
T ss_pred CCccCCCCCHHHHhcee-cCCCCcEECHHHHH
Confidence 4799999988765 232 22225889999964
No 108
>PHA00442 host recBCD nuclease inhibitor
Probab=32.48 E-value=45 Score=28.20 Aligned_cols=25 Identities=20% Similarity=0.416 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhcC-CCHHHHHHHh
Q 004134 408 DQETFLLLEGIEMYN-DNWNEIAEHV 432 (772)
Q Consensus 408 ~qEellLLEaIe~yg-~NW~~IAehV 432 (772)
-+-....|++++.+| +||+-+.+.+
T Consensus 25 Lek~~~~L~~Lea~GVDNW~Gy~eA~ 50 (59)
T PHA00442 25 LEKDNEFLKALRACGVDNWDGYMDAV 50 (59)
T ss_pred HHHhhHHHHHHHHcCCcchhhHHHHH
Confidence 345677899999999 9999988765
No 109
>PF04931 DNA_pol_phi: DNA polymerase phi; InterPro: IPR007015 Proteins of this family are predominantly nucleolar. The majority are described as transcription factor transactivators. The family also includes the fifth essential DNA polymerase (Pol5p) of Schizosaccharomyces pombe (Fission yeast) and Saccharomyces cerevisiae (Baker's yeast) (2.7.7.7 from EC). Pol5p is localized exclusively to the nucleolus and binds near or at the enhancer region of rRNA-encoding DNA repeating units.; GO: 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=32.44 E-value=27 Score=43.30 Aligned_cols=6 Identities=17% Similarity=0.623 Sum_probs=2.4
Q ss_pred HHHHHH
Q 004134 222 CRNHIV 227 (772)
Q Consensus 222 ~RN~iI 227 (772)
+|++++
T Consensus 772 Fk~Rvl 777 (784)
T PF04931_consen 772 FKNRVL 777 (784)
T ss_pred HHHHHH
Confidence 344443
No 110
>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=32.43 E-value=47 Score=31.23 Aligned_cols=92 Identities=26% Similarity=0.373 Sum_probs=47.8
Q ss_pred CCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhcC-CC
Q 004134 346 NHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN-DN 424 (772)
Q Consensus 346 ~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~yg-~N 424 (772)
..|.-|+.. .+.+.+.. ..+.+|..|-.--+..+.| +.+|.. ..-+.||.+|.. +|+.+ | ..
T Consensus 4 ~~CaDC~~~--~p~w~s~~-~GifvC~~CsgiHR~lg~h----is~VkS------l~md~w~~~~i~-~~~~~---GN~~ 66 (112)
T smart00105 4 KKCFDCGAP--NPTWASVN-LGVFLCIECSGIHRSLGVH----ISKVRS------LTLDTWTEEELR-LLQKG---GNEN 66 (112)
T ss_pred CcccCCCCC--CCCcEEec-cceeEhHHhHHHHHhcCCC----cCeeee------cccCCCCHHHHH-HHHHh---hhHH
Confidence 368888874 34454443 4688999998655543333 222322 122579997754 33322 3 12
Q ss_pred HHHHHHHh--------CCCCHHHHHHHHHhC-CCCCCCc
Q 004134 425 WNEIAEHV--------STKSKAQCILHFVRL-PMEDGIL 454 (772)
Q Consensus 425 W~~IAehV--------GtKT~eECi~hFlqL-PIED~fL 454 (772)
++++=+.- ...+..+-...||+- |++..|.
T Consensus 67 ~n~~~e~~~~~~~~~~~~~~~~~~~~~fI~~KY~~k~f~ 105 (112)
T smart00105 67 ANSIWESNLDDFSLKPPDSDDQQKYESFIAAKYEEKLFV 105 (112)
T ss_pred HHHHHHhhCCccccCCCCCchHHHHHHHHHHHHHhhhcc
Confidence 22222211 112246777888873 5554453
No 111
>PF15346 ARGLU: Arginine and glutamate-rich 1
Probab=32.25 E-value=5.5e+02 Score=26.00 Aligned_cols=49 Identities=27% Similarity=0.377 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 004134 614 IINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVSTRL 662 (772)
Q Consensus 614 iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~rl 662 (772)
.+.-.=.|-+-.-+.-++||.+|+.-+..+|-.++.+..+|+.++-.|.
T Consensus 63 ~l~e~r~keEeer~~~eELe~ileen~rkvEEAQrk~aeEr~~~~Eer~ 111 (149)
T PF15346_consen 63 ALEEARRKEEEERKKREELEKILEENRRKVEEAQRKLAEERLRMEEERR 111 (149)
T ss_pred HHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334445567777888999999999999999988888888888866543
No 112
>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]
Probab=32.19 E-value=2.5e+02 Score=32.04 Aligned_cols=16 Identities=13% Similarity=0.300 Sum_probs=11.9
Q ss_pred CCCHHHHHHHHHHHHhcC
Q 004134 405 TWSDQETFLLLEGIEMYN 422 (772)
Q Consensus 405 ~WT~qEellLLEaIe~yg 422 (772)
=||..|+ ||+||+..|
T Consensus 90 W~TTD~D--L~~A~~S~G 105 (498)
T KOG4849|consen 90 WYTTDAD--LLKALQSTG 105 (498)
T ss_pred EEeccHH--HHHHHHhhh
Confidence 3777765 579998876
No 113
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=31.98 E-value=44 Score=36.84 Aligned_cols=95 Identities=14% Similarity=0.314 Sum_probs=56.0
Q ss_pred CCCCCCCCCCCCcceeeccCCcCcccChhhhccCCCCCCCCCCCceecCCCCCCCCCCCCCCCHHHHHHHHHHHHhcC--
Q 004134 345 ENHCNYCSQPIPAVYYQSQKEVDVLLCPECFHEGRFVTGHSSLDYIRVDPAREYGDIDGETWSDQETFLLLEGIEMYN-- 422 (772)
Q Consensus 345 ~~~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G~~~~~hss~DF~rvd~~~~~~~~~~~~WT~qEellLLEaIe~yg-- 422 (772)
-.+|.-|+..- ++..+-. ..+.||+.|-.--|-.+. ++.+|... .-+.||+++...|.+ +|
T Consensus 25 N~~CADC~a~~--P~WaSwn-lGvFiC~~C~giHR~lg~----hiSkVkSv------~LD~W~~eqv~~m~~----~GN~ 87 (287)
T KOG0703|consen 25 NKVCADCGAKG--PRWASWN-LGVFICLRCAGIHRSLGV----HISKVKSV------TLDEWTDEQVDFMIS----MGNA 87 (287)
T ss_pred cCcccccCCCC--CCeEEee-cCeEEEeecccccccccc----hhheeeee------eccccCHHHHHHHHH----Hcch
Confidence 35798888763 3332222 468899999543333222 35555432 346899999776654 33
Q ss_pred ---CCHHH-HHHHhCCCCHHHHHHHHHhC-CCCCCCccc
Q 004134 423 ---DNWNE-IAEHVSTKSKAQCILHFVRL-PMEDGILEN 456 (772)
Q Consensus 423 ---~NW~~-IAehVGtKT~eECi~hFlqL-PIED~fLe~ 456 (772)
-=|+. |......-++++-+.+||+- |....|+..
T Consensus 88 ~an~~~ea~~p~~~~~p~~d~~~e~FIR~KYE~kkf~~~ 126 (287)
T KOG0703|consen 88 KANSYYEAKLPDPFRRPGPDDLVEQFIRDKYERKKFLDP 126 (287)
T ss_pred hhhhhccccCCccccCCChHHHHHHHHHHHHhhhhhccc
Confidence 22443 23333345678889999984 555667654
No 114
>PF06034 DUF919: Nucleopolyhedrovirus protein of unknown function (DUF919); InterPro: IPR009265 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf29. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several short baculovirus proteins of unknown function.
Probab=31.62 E-value=1.3e+02 Score=26.15 Aligned_cols=44 Identities=11% Similarity=0.382 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 615 INHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVS 659 (772)
Q Consensus 615 Ie~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~ 659 (772)
|+..-++|+.|+.|+|.|-+ +++--.+|+...++|..-|..|+.
T Consensus 13 I~~~K~~l~ik~~H~Ekl~k-itK~p~El~~i~~kl~~~R~~FLn 56 (62)
T PF06034_consen 13 INQMKRQLTIKSQHWEKLKK-ITKNPKELQEIEKKLQELRQNFLN 56 (62)
T ss_pred HHHHHHHHHHHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHHHHH
Confidence 34445679999999998854 455555667777777777777764
No 115
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=30.75 E-value=45 Score=34.19 Aligned_cols=41 Identities=17% Similarity=0.419 Sum_probs=33.1
Q ss_pred CCCCCHHHHHHHHHHHHhcC-------CCHHHHHHHhCCCCHHHHHHHH
Q 004134 403 GETWSDQETFLLLEGIEMYN-------DNWNEIAEHVSTKSKAQCILHF 444 (772)
Q Consensus 403 ~~~WT~qEellLLEaIe~yg-------~NW~~IAehVGtKT~eECi~hF 444 (772)
.+.||.+|+++|-+.|-.|+ .-...+++.+ .||...|-.+|
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 36799999999988888885 2455566666 48999999999
No 116
>PF10820 DUF2543: Protein of unknown function (DUF2543); InterPro: IPR020251 This entry contains proteins with no known function.
Probab=30.39 E-value=38 Score=30.07 Aligned_cols=56 Identities=23% Similarity=0.448 Sum_probs=36.6
Q ss_pred CCCCHHHHhhcCcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhh--ccCCCChhHHHHHHHhhhhhc
Q 004134 193 DTVHRLERQVVPHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQG--LVDGVSPEDLTRIFRFLNHWG 266 (772)
Q Consensus 193 ~~Ih~iEk~~lPEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRR--nL~G~dv~sI~RVH~FLE~WG 266 (772)
.-|++-||.+|-.||.- +|- |+--++.++-.+-+. .-+|.+..-|--|-.||.+||
T Consensus 22 ~pVse~erd~LAhYFQl----------------Lit--RLmnneeIsEeaQ~EMA~eAgi~~~rID~IA~fLNqWG 79 (81)
T PF10820_consen 22 KPVSEAERDALAHYFQL----------------LIT--RLMNNEEISEEAQQEMASEAGIDEQRIDDIANFLNQWG 79 (81)
T ss_pred cCcchhhhhHHHHHHHH----------------HHH--HHhccHhhhHHHHHHHHHHcCCcHHHHHHHHHHHHHhc
Confidence 34677788888777731 222 233356666555443 335777777888999999999
No 117
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=30.10 E-value=29 Score=31.28 Aligned_cols=51 Identities=22% Similarity=0.505 Sum_probs=18.1
Q ss_pred ccCCCCCCCCCCCC-----cceeeccCCcCcccChhhhc----cCCCCCCCCCCCceecCC
Q 004134 343 LSENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVDP 394 (772)
Q Consensus 343 ~~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CF~----~G~~~~~hss~DF~rvd~ 394 (772)
+....|..||.++. .++..|.+| .|-+|-.||. +|+-..-.-...|.+...
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 34567999998885 378889888 5889999995 333222222456666554
No 118
>PRK06800 fliH flagellar assembly protein H; Validated
Probab=29.79 E-value=2.9e+02 Score=29.05 Aligned_cols=47 Identities=30% Similarity=0.496 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 604 EREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIV 658 (772)
Q Consensus 604 ErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~ 658 (772)
|.+++.=...|+.+| +-|+..+.++ +.|+..|++.|++|+++|..|-
T Consensus 33 e~~~~~d~~~L~~~Q-~~L~~e~~~l-------~~eqQ~l~~er~~l~~er~~~~ 79 (228)
T PRK06800 33 EEEIQKDHEELLAQQ-KSLHKELNQL-------RQEQQKLERERQQLLADREQFQ 79 (228)
T ss_pred cchhhhhHHHHHHHH-HHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444443 4455555543 3445555555555555555543
No 119
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=29.39 E-value=94 Score=30.36 Aligned_cols=55 Identities=22% Similarity=0.258 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHHH---hCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhcccccc
Q 004134 217 EKYMECRNHIVAKYM---DNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYC 271 (772)
Q Consensus 217 e~Y~~~RN~iI~~yr---~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINYq 271 (772)
-+|..|.|.|...-. ..|.+.|--+=--....|++.+++.|.+.-||+=|+|.-.
T Consensus 11 PIY~QI~~qIk~~I~~g~l~pGdkLPSvRelA~~~~VNpnTv~raY~eLE~eG~i~t~ 68 (125)
T COG1725 11 PIYEQIANQIKEQIASGELKPGDKLPSVRELAKDLGVNPNTVQRAYQELEREGIVETK 68 (125)
T ss_pred CHHHHHHHHHHHHHHhCCcCCCCCCCcHHHHHHHhCCCHHHHHHHHHHHHHCCCEEEe
Confidence 489999999987755 6788887543222223477899999999999999999863
No 120
>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=29.06 E-value=5.9e+02 Score=31.96 Aligned_cols=11 Identities=9% Similarity=0.081 Sum_probs=5.7
Q ss_pred ccHHHHHHHHH
Q 004134 576 LSAEKVKAAAK 586 (772)
Q Consensus 576 ~s~e~vk~Aa~ 586 (772)
++.+-|+.|-.
T Consensus 494 lp~~ii~~A~~ 504 (771)
T TIGR01069 494 IPHFIIEQAKT 504 (771)
T ss_pred cCHHHHHHHHH
Confidence 45555555544
No 121
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=28.91 E-value=1e+03 Score=28.07 Aligned_cols=54 Identities=22% Similarity=0.220 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 600 ADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATER 654 (772)
Q Consensus 600 A~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eR 654 (772)
++.-.-||.||-..+--.|.. -..||.+|.+=|.-++.|-++|++.=++-+.-|
T Consensus 255 i~~l~~EveRlrt~l~~Aqk~-~~ek~~qy~~Ee~~~reen~rlQrkL~~e~erR 308 (552)
T KOG2129|consen 255 IDKLQAEVERLRTYLSRAQKS-YQEKLMQYRAEEVDHREENERLQRKLINELERR 308 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 334455666666666655543 345666666666666555555544433333333
No 122
>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=28.53 E-value=1e+02 Score=24.69 Aligned_cols=44 Identities=23% Similarity=0.412 Sum_probs=32.5
Q ss_pred HHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhccccccc
Q 004134 225 HIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINYCA 272 (772)
Q Consensus 225 ~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINYqv 272 (772)
.|+......+ +++.+..+.+ |.+..++.|+..-|+++|+|+.--
T Consensus 11 ~il~~l~~~~---~~~~ei~~~~-~i~~~~i~~~l~~L~~~g~i~~~~ 54 (78)
T cd00090 11 RILRLLLEGP---LTVSELAERL-GLSQSTVSRHLKKLEEAGLVESRR 54 (78)
T ss_pred HHHHHHHHCC---cCHHHHHHHH-CcCHhHHHHHHHHHHHCCCeEEEE
Confidence 4444434444 8888877655 456789999999999999999743
No 123
>PRK04406 hypothetical protein; Provisional
Probab=28.13 E-value=4.3e+02 Score=23.52 Aligned_cols=48 Identities=10% Similarity=0.134 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhCC
Q 004134 614 IINHQLKRLELKLKQFAEVETLLMRECEQVEKARQ--RFATERTRIVSTRLGP 664 (772)
Q Consensus 614 iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq--~L~~eRl~~~~~rl~~ 664 (772)
-++..+..||.||.|.+++=..|... +-++++ ..+..+++.+.+|+..
T Consensus 8 ~le~Ri~~LE~~lAfQE~tIe~LN~~---v~~Qq~~I~~L~~ql~~L~~rl~~ 57 (75)
T PRK04406 8 QLEERINDLECQLAFQEQTIEELNDA---LSQQQLLITKMQDQMKYVVGKVKN 57 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36678889999999987653333322 222221 2234556777778864
No 124
>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]
Probab=27.86 E-value=4.4e+02 Score=29.68 Aligned_cols=49 Identities=20% Similarity=0.333 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Q 004134 615 INHQLKRLELKL-KQFAEVETLLMRECEQVEKARQRFATERTRIVSTRLG 663 (772)
Q Consensus 615 Ie~QLKKLElKL-k~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~~rl~ 663 (772)
-+..||+.|..| .+|+.|-..-..|+..||..|.+|-.|+..|.+.+..
T Consensus 353 kE~elke~Ekel~~kf~~lkr~h~eEk~kle~~rr~Leee~~~f~~rk~~ 402 (406)
T KOG3859|consen 353 KEAELKEAEKELHEKFDRLKRLHQEEKKKLEEKRKQLEEEVNAFQRRKTA 402 (406)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355677777766 4799999999999999999999999999999877654
No 125
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.34 E-value=3.7e+02 Score=29.57 Aligned_cols=55 Identities=16% Similarity=0.278 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHH
Q 004134 604 EREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVE------KARQRFATERTRIVS 659 (772)
Q Consensus 604 ErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE------~~Rq~L~~eRl~~~~ 659 (772)
+.+|++|.+.|=++ .+|++.+=+.+++++.-|.+=..+++ +.|+.+|.+|+|-+.
T Consensus 51 q~ei~~L~~qi~~~-~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq 111 (265)
T COG3883 51 QNEIESLDNQIEEI-QSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQ 111 (265)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788887776444 34444444445555544443333333 345555555555443
No 126
>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=26.13 E-value=89 Score=29.08 Aligned_cols=50 Identities=20% Similarity=0.274 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHhCCCceeeHHHHhhcc----CCCChhHHHHHHHhhhhhccccc
Q 004134 220 MECRNHIVAKYMDNPEKRLIVSDCQGLV----DGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 220 ~~~RN~iI~~yr~NP~eyLTvTacRRnL----~G~dv~sI~RVH~FLE~WGLINY 270 (772)
-.-|..|++....++. .+|+.+.-..| ...+..+|.|...+|+.=|||.=
T Consensus 7 T~~R~~Il~~l~~~~~-~~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~ 60 (120)
T PF01475_consen 7 TPQRLAILELLKESPE-HLTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRK 60 (120)
T ss_dssp HHHHHHHHHHHHHHSS-SEEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEE
T ss_pred CHHHHHHHHHHHcCCC-CCCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEE
Confidence 4568899999988887 99999875433 23457899999999999999975
No 127
>PLN02436 cellulose synthase A
Probab=25.93 E-value=84 Score=40.37 Aligned_cols=50 Identities=20% Similarity=0.474 Sum_probs=34.5
Q ss_pred ccCCCCCCCCCCCC-----cceeeccCCcCcccChhhhccCC----CCCCCCCCCceecC
Q 004134 343 LSENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFHEGR----FVTGHSSLDYIRVD 393 (772)
Q Consensus 343 ~~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CF~~G~----~~~~hss~DF~rvd 393 (772)
+....|..||.++. .++..|.+| .|-+|..||.--+ -..-+....|.+..
T Consensus 34 ~~~~iCqICGD~Vg~t~dGe~FVACn~C-~fpvCr~Cyeyer~eg~~~Cpqckt~Y~r~k 92 (1094)
T PLN02436 34 LSGQTCQICGDEIELTVDGEPFVACNEC-AFPVCRPCYEYERREGNQACPQCKTRYKRIK 92 (1094)
T ss_pred cCCccccccccccCcCCCCCEEEeeccC-CCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 34458999999884 378999999 5889999996333 22333345666554
No 128
>PF07956 DUF1690: Protein of Unknown function (DUF1690) ; InterPro: IPR012471 Family of uncharacterised fungal proteins.
Probab=25.74 E-value=1.5e+02 Score=29.38 Aligned_cols=54 Identities=28% Similarity=0.426 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 004134 598 LFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRE-CEQVEKARQRFA 651 (772)
Q Consensus 598 ~lA~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~E-re~LE~~Rq~L~ 651 (772)
.+++.+..+-..+....++..+.+|..||..|..|+..-... ...++..|..|.
T Consensus 63 ~~~ed~~~~~~~lSs~~v~~~i~~L~~kLe~~~kl~~~~~~~~~~~v~~aR~~vv 117 (142)
T PF07956_consen 63 LLSEDEKDQDPGLSSKSVNEEIEKLREKLEERKKLRELKEEKNSEEVEKARSAVV 117 (142)
T ss_pred hcccccccccccccHHHHHHHHHHHHHHHHHHHHHHhccccccchhhHHHHHHHH
Confidence 344444555678899999999999999999887776655432 334566666554
No 129
>PF09026 CENP-B_dimeris: Centromere protein B dimerisation domain; InterPro: IPR015115 Centromere protein B (CENP-B) interacts with centromeric heterochromatin in chromosomes and binds to a specific subset of alphoid satellite DNA, called the CENP-B box. CENP-B may organise arrays of centromere satellite DNA into a higher order structure, which then directs centromere formation and kinetochore assembly in mammalian chromosomes. The CENP-B dimerisation domain is composed of two alpha-helices, which are folded into an antiparallel configuration. Dimerisation of CENP-B is mediated by this domain, in which monomers dimerise to form a symmetrical, antiparallel, four-helix bundle structure with a large hydrophobic patch in which 23 residues of one monomer form van der Waals contacts with the other monomer. This CENP-B dimer configuration may be suitable for capturing two distant CENP-B boxes during centromeric heterochromatin formation []. ; GO: 0003677 DNA binding, 0003682 chromatin binding, 0006355 regulation of transcription, DNA-dependent, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 1UFI_A.
Probab=24.70 E-value=25 Score=32.94 Aligned_cols=7 Identities=29% Similarity=0.629 Sum_probs=2.7
Q ss_pred CccccCC
Q 004134 84 GTRICEF 90 (772)
Q Consensus 84 ~~~~~~~ 90 (772)
|+.-..|
T Consensus 47 gea~~~~ 53 (101)
T PF09026_consen 47 GEAMAYF 53 (101)
T ss_dssp HHHHHHH
T ss_pred HHHHhhc
Confidence 3333333
No 130
>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]
Probab=24.60 E-value=49 Score=42.80 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=25.8
Q ss_pred CCCCCCHHHHHHHHHHHHhcC-CCHHHHH
Q 004134 402 DGETWSDQETFLLLEGIEMYN-DNWNEIA 429 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg-~NW~~IA 429 (772)
...+|..++...||=||=+|| |+|+.|-
T Consensus 1132 ~~~~W~~e~Ds~LLiGI~khGygswe~Ir 1160 (1373)
T KOG0384|consen 1132 WDCDWGSEDDSMLLIGIFKHGYGSWEAIR 1160 (1373)
T ss_pred cccCCCchhhhhHhhhhhhcccccHHHhc
Confidence 567899999999999999999 9999873
No 131
>PRK02119 hypothetical protein; Provisional
Probab=23.86 E-value=5.1e+02 Score=22.90 Aligned_cols=47 Identities=13% Similarity=0.181 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhCC
Q 004134 615 INHQLKRLELKLKQFAEVETLLMRECEQVEKARQ--RFATERTRIVSTRLGP 664 (772)
Q Consensus 615 Ie~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq--~L~~eRl~~~~~rl~~ 664 (772)
++..+..||.||.|.+++=.-|.. .|-++++ ..+..+++.+..||..
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~---~v~~Qq~~id~L~~ql~~L~~rl~~ 55 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQ---ALIEQQFVIDKMQVQLRYMANKLKD 55 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 567889999999987765333322 2222222 2233456677777764
No 132
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=23.74 E-value=1.6e+03 Score=28.68 Aligned_cols=12 Identities=25% Similarity=0.241 Sum_probs=5.1
Q ss_pred ccccCCCCCCCC
Q 004134 744 VMFNARGGPQPT 755 (772)
Q Consensus 744 ~~~~~~~~~~~~ 755 (772)
.||-.+.|..|.
T Consensus 589 ~g~~Gg~ppPP~ 600 (1102)
T KOG1924|consen 589 GGFLGGPPPPPP 600 (1102)
T ss_pred CCCCCCCCCCCC
Confidence 444444444443
No 133
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=23.40 E-value=4.2e+02 Score=24.45 Aligned_cols=49 Identities=22% Similarity=0.262 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHhhC
Q 004134 615 INHQLKRLELKLKQFAEVETLLMRECEQVE----KARQRFATERTRIVSTRLG 663 (772)
Q Consensus 615 Ie~QLKKLElKLk~feeLE~~Le~Ere~LE----~~Rq~L~~eRl~~~~~rl~ 663 (772)
++.++++++.||.+.++=++.|+.-...|+ +.|-.-+..|-.++-.-+-
T Consensus 6 l~~e~e~~~~kl~q~e~~~k~L~nr~k~l~k~eRK~RtHRLi~rGa~lEsi~~ 58 (86)
T PF12958_consen 6 LQAEIEKAEKKLEQAEHKIKQLENRKKKLEKKERKERTHRLIERGAILESIFP 58 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHhh
Confidence 455677777777777777777777777664 6777788888877766554
No 134
>PRK00106 hypothetical protein; Provisional
Probab=23.34 E-value=9.7e+02 Score=28.96 Aligned_cols=14 Identities=29% Similarity=0.368 Sum_probs=7.6
Q ss_pred CchHHHHHHHHhhc
Q 004134 506 NPVMALVAFLASAV 519 (772)
Q Consensus 506 NPVMS~VAFLas~V 519 (772)
|-++-+|+-|.++|
T Consensus 3 ~~~~~~~~~~~~~~ 16 (535)
T PRK00106 3 NIIILVVSALIGLV 16 (535)
T ss_pred chHHHHHHHHHHHH
Confidence 44455555566555
No 135
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=23.33 E-value=5.3e+02 Score=22.87 Aligned_cols=49 Identities=29% Similarity=0.361 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 601 DHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATER 654 (772)
Q Consensus 601 ~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eR 654 (772)
++=|.+|+.+|..|--.|++-=++|-+ =..+..|++.|+..=++|-.+|
T Consensus 7 ~~LE~ki~~aveti~~Lq~e~eeLke~-----n~~L~~e~~~L~~en~~L~~e~ 55 (72)
T PF06005_consen 7 EQLEEKIQQAVETIALLQMENEELKEK-----NNELKEENEELKEENEQLKQER 55 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHhHHHHHHHHHHHHHHHHHHH
Confidence 445888899998877766655555443 1222244444444444444333
No 136
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=23.23 E-value=1.1e+02 Score=31.35 Aligned_cols=65 Identities=14% Similarity=0.100 Sum_probs=48.7
Q ss_pred CcccCCCCCCCChHHHHHHHHHHHHHHHhCCCceeeHHHHhhccCCCChhHHHHHHHhhhhhccccc
Q 004134 204 PHFFSGKSPDHTPEKYMECRNHIVAKYMDNPEKRLIVSDCQGLVDGVSPEDLTRIFRFLNHWGIINY 270 (772)
Q Consensus 204 PEFF~gks~~ktpe~Y~~~RN~iI~~yr~NP~eyLTvTacRRnL~G~dv~sI~RVH~FLE~WGLINY 270 (772)
|-|=+-+..+.+..+|-.+|..|+.- ...|+..|+-.+--..+ |+.-..+..-..-|+.-|||-+
T Consensus 2 ~~~~~~~~~~~~e~v~~~l~~~I~~g-~l~pG~~L~e~~La~~l-gVSRtpVREAL~~L~~eGLV~~ 66 (221)
T PRK11414 2 PGTEKTQHISLTLQVENDLKHQLSIG-ALKPGARLITKNLAEQL-GMSITPVREALLRLVSVNALSV 66 (221)
T ss_pred CCCcccCCCCHHHHHHHHHHHHHHhC-CCCCCCccCHHHHHHHH-CCCchhHHHHHHHHHHCCCEEe
Confidence 33433334567788999999999987 67899999876533332 5445678889999999999976
No 137
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=23.05 E-value=3.3e+02 Score=24.85 Aligned_cols=31 Identities=26% Similarity=0.172 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 599 FADHEEREIQRLSANIINHQLKRLELKLKQF 629 (772)
Q Consensus 599 lA~~EErEIqrLv~~iIe~QLKKLElKLk~f 629 (772)
+-++=|-+|+..|..|-=.||+-=|+|-+.-
T Consensus 5 vleqLE~KIqqAvdtI~LLqmEieELKekn~ 35 (79)
T PRK15422 5 VFEKLEAKVQQAIDTITLLQMEIEELKEKNN 35 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456688999999999999988888887643
No 138
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=22.89 E-value=8.4e+02 Score=30.67 Aligned_cols=19 Identities=37% Similarity=0.310 Sum_probs=11.1
Q ss_pred cChHHHHHHHHHHHHHHHh
Q 004134 519 VGPRVAAACAHASLAALSK 537 (772)
Q Consensus 519 V~P~VAaAAA~AAl~~L~e 537 (772)
.||.-.++.+.+.++.+.+
T Consensus 420 tDp~eg~ala~aile~l~~ 438 (782)
T PRK00409 420 TDPDEGAALAISILEYLRK 438 (782)
T ss_pred CCHHHHHHHHHHHHHHHHH
Confidence 4455566666666666644
No 139
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=22.88 E-value=58 Score=41.73 Aligned_cols=49 Identities=14% Similarity=0.418 Sum_probs=35.2
Q ss_pred cCCCCCCCCCCCC-----cceeeccCCcCcccChhhhc----cCCCCCCCCCCCceecC
Q 004134 344 SENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFH----EGRFVTGHSSLDYIRVD 393 (772)
Q Consensus 344 ~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CF~----~G~~~~~hss~DF~rvd 393 (772)
....|..||.++. .+++.|.+| .|-+|-.||. +|+-..-+....|.|..
T Consensus 16 ~~qiCqICGD~vg~~~~Ge~FVAC~eC-~FPVCrpCYEYEr~eG~q~CPqCktrYkr~k 73 (1079)
T PLN02638 16 GGQVCQICGDNVGKTVDGEPFVACDVC-AFPVCRPCYEYERKDGNQSCPQCKTKYKRHK 73 (1079)
T ss_pred CCceeeecccccCcCCCCCEEEEeccC-CCccccchhhhhhhcCCccCCccCCchhhhc
Confidence 4458999999875 378999999 5889999995 33333344456677654
No 140
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=22.84 E-value=1.4e+03 Score=27.85 Aligned_cols=14 Identities=7% Similarity=-0.045 Sum_probs=8.1
Q ss_pred HHHhcCCCHHHHHH
Q 004134 417 GIEMYNDNWNEIAE 430 (772)
Q Consensus 417 aIe~yg~NW~~IAe 430 (772)
+|+..+-+|.+|..
T Consensus 322 ~L~~a~~~~~~i~~ 335 (653)
T PTZ00009 322 VLKDAGMDKRSVHE 335 (653)
T ss_pred HHHHcCCCHHHCcE
Confidence 44444566777654
No 141
>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional
Probab=22.68 E-value=1.3e+02 Score=38.87 Aligned_cols=46 Identities=13% Similarity=0.314 Sum_probs=39.0
Q ss_pred CCCCCCHHHHHHHHHHHHhcC-CCHHHHHHHhC------------CCCHHHHHHHHHhC
Q 004134 402 DGETWSDQETFLLLEGIEMYN-DNWNEIAEHVS------------TKSKAQCILHFVRL 447 (772)
Q Consensus 402 ~~~~WT~qEellLLEaIe~yg-~NW~~IAehVG------------tKT~eECi~hFlqL 447 (772)
....||.+|+-.||-.+.+|| |+|+.|-+.|. +||+.|+..+...|
T Consensus 925 ~~~~~~~~~d~~~~~~~~~~g~~~~~~~~~~i~~~~~f~fd~~~~srt~~~~~~r~~~l 983 (1033)
T PLN03142 925 KGKLYNEECDRFMLCMVHKLGYGNWDELKAAFRTSPLFRFDWFVKSRTPQELARRCDTL 983 (1033)
T ss_pred CCCcCCHHHHHHHHHHHHHhccchHHHHHHHHHhCCceeeehhhccCCHHHHHHHHHHH
Confidence 356799999999999999999 99999988773 78999988775543
No 142
>KOG2072 consensus Translation initiation factor 3, subunit a (eIF-3a) [Translation, ribosomal structure and biogenesis]
Probab=22.05 E-value=7.6e+02 Score=31.45 Aligned_cols=62 Identities=24% Similarity=0.416 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 597 KLFADHEEREIQRLSANIINHQLKRLELKLKQFA--------------------EVETLLMRECEQVEKARQRFATERTR 656 (772)
Q Consensus 597 k~lA~~EErEIqrLv~~iIe~QLKKLElKLk~fe--------------------eLE~~Le~Ere~LE~~Rq~L~~eRl~ 656 (772)
++.....|||-+|+...+=..+.|-++.++.++. +.++++.+..++|+++|+.| ..|++
T Consensus 609 Rl~ee~~Ere~~R~l~E~e~i~~k~~ke~~~~~~~te~~aK~~k~~d~ed~e~lD~d~i~~~q~eel~Ke~kEl-q~rL~ 687 (988)
T KOG2072|consen 609 RLIEEKKEREAKRILREKEAIRKKELKERLEQLKQTEVGAKGGKEKDLEDLEKLDADQIKARQIEELEKERKEL-QSRLQ 687 (988)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCChHHhhhcCHHHHHHHHHHHHHHHHHHH-HHHHH
Confidence 3344455666666666554333333333333322 24678999999999999876 45555
Q ss_pred HHH
Q 004134 657 IVS 659 (772)
Q Consensus 657 ~~~ 659 (772)
...
T Consensus 688 ~q~ 690 (988)
T KOG2072|consen 688 YQE 690 (988)
T ss_pred HHH
Confidence 443
No 143
>PLN02189 cellulose synthase
Probab=21.93 E-value=1.1e+02 Score=39.30 Aligned_cols=50 Identities=18% Similarity=0.446 Sum_probs=34.7
Q ss_pred ccCCCCCCCCCCCC-----cceeeccCCcCcccChhhhccCC----CCCCCCCCCceecC
Q 004134 343 LSENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFHEGR----FVTGHSSLDYIRVD 393 (772)
Q Consensus 343 ~~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CF~~G~----~~~~hss~DF~rvd 393 (772)
+....|..||.++. .++..|.+| .|-+|..||.--+ -..-+....|.+..
T Consensus 32 ~~~~~C~iCgd~vg~~~~g~~fvaC~~C-~fpvCr~Cyeyer~eg~q~CpqCkt~Y~r~k 90 (1040)
T PLN02189 32 LDGQVCEICGDEIGLTVDGDLFVACNEC-GFPVCRPCYEYERREGTQNCPQCKTRYKRLK 90 (1040)
T ss_pred ccCccccccccccCcCCCCCEEEeeccC-CCccccchhhhhhhcCCccCcccCCchhhcc
Confidence 34458999998875 378999998 5889999996333 23333456676655
No 144
>PF14471 DUF4428: Domain of unknown function (DUF4428)
Probab=21.77 E-value=48 Score=27.34 Aligned_cols=30 Identities=23% Similarity=0.514 Sum_probs=21.1
Q ss_pred CCCCCCCCCCcceeeccCCcCcccChhhhccC
Q 004134 347 HCNYCSQPIPAVYYQSQKEVDVLLCPECFHEG 378 (772)
Q Consensus 347 ~C~~C~~~~~~~~y~c~kc~d~~LC~~CF~~G 378 (772)
.|..|++.++...- .+-.|..+|.+||..-
T Consensus 1 ~C~iCg~kigl~~~--~k~~DG~iC~~C~~Kl 30 (51)
T PF14471_consen 1 KCAICGKKIGLFKR--FKIKDGYICKDCLKKL 30 (51)
T ss_pred CCCccccccccccc--eeccCccchHHHHHHh
Confidence 48999999876431 2334557999999654
No 145
>PLN02400 cellulose synthase
Probab=21.04 E-value=1.2e+02 Score=38.99 Aligned_cols=51 Identities=18% Similarity=0.431 Sum_probs=35.6
Q ss_pred ccCCCCCCCCCCCC-----cceeeccCCcCcccChhhhcc----CCCCCCCCCCCceecCC
Q 004134 343 LSENHCNYCSQPIP-----AVYYQSQKEVDVLLCPECFHE----GRFVTGHSSLDYIRVDP 394 (772)
Q Consensus 343 ~~~~~C~~C~~~~~-----~~~y~c~kc~d~~LC~~CF~~----G~~~~~hss~DF~rvd~ 394 (772)
+....|..||.++. .+++.|.+| .|-+|-.||.- |.-..-+....|.|...
T Consensus 34 ~~gqiCqICGD~VG~t~dGe~FVAC~eC-aFPVCRpCYEYERkeGnq~CPQCkTrYkR~Kg 93 (1085)
T PLN02400 34 LNGQICQICGDDVGVTETGDVFVACNEC-AFPVCRPCYEYERKDGTQCCPQCKTRYRRHKG 93 (1085)
T ss_pred cCCceeeecccccCcCCCCCEEEEEccC-CCccccchhheecccCCccCcccCCccccccC
Confidence 34458999999885 378999999 58899999962 22223334567776653
No 146
>PF03286 Pox_Ag35: Pox virus Ag35 surface protein; InterPro: IPR004966 The Pox virus Ag35 surface protein is an evelope protein known as protein H5.; GO: 0019031 viral envelope
Probab=20.68 E-value=52 Score=34.53 Aligned_cols=27 Identities=15% Similarity=0.080 Sum_probs=17.3
Q ss_pred ccccCCcchhhhhccCCchhHHHHHHH
Q 004134 85 TRICEFPTAVQRVVNRPHVSVMDIVAI 111 (772)
Q Consensus 85 ~~~~~~~~~~~~~v~~ph~~v~a~~a~ 111 (772)
+.|....-.+..+|+.-+-++..|+|+
T Consensus 136 ~~I~kdlK~l~~rVsavstVLeDvQAa 162 (200)
T PF03286_consen 136 ANIIKDLKNLNARVSAVSTVLEDVQAA 162 (200)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence 345555566777777776666666554
No 147
>TIGR01554 major_cap_HK97 phage major capsid protein, HK97 family. This family represents the major capsid protein component of the heads (capsids) of bacteriophage HK97, phi-105, P27, and related phage. This model represents one of several analogous families lacking detectable sequence similarity. The gene encoding this component is typically located in an operon encoding the small and large terminase subunits, the portal protein and the prohead or maturation protease.
Probab=20.64 E-value=5.2e+02 Score=29.05 Aligned_cols=55 Identities=18% Similarity=0.217 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 589 LAAAATKAKLFADHEEREIQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEK 645 (772)
Q Consensus 589 LaAAA~KAk~lA~~EErEIqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~ 645 (772)
+..++.+++.|.+.++..-+.+ .-.+.++++|+-|+..+++.+..++.|.+.++.
T Consensus 8 ~~~~~~~~r~l~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 62 (378)
T TIGR01554 8 REEIVAEIRSLLDKAEKLEKEL--TAAALEKEELETDVEKLKEEIKLLEDAIADLEK 62 (378)
T ss_pred HHHHHHHHHHHHhhhhhhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445555566655322222211 222345667788888888888877776666655
No 148
>COG2916 Hns DNA-binding protein H-NS [General function prediction only]
Probab=20.62 E-value=7.8e+02 Score=24.36 Aligned_cols=49 Identities=24% Similarity=0.121 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 607 IQRLSANIINHQLKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRIVS 659 (772)
Q Consensus 607 IqrLv~~iIe~QLKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~~~ 659 (772)
|..|...+-+++++-||..++.|+.+...- .+-+..+...+.+|+.-+.
T Consensus 5 ~r~l~~~~~e~~~e~lee~~ek~eq~~~~r----~~e~~~~~~~i~e~~~~~~ 53 (128)
T COG2916 5 IRTLRAMARETYLELLEEMLEKEEQVVQER----QEEEAAAIAEIEERQEKYG 53 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Confidence 667888888999999999988887765544 4445555555555555544
No 149
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=20.23 E-value=4.5e+02 Score=23.07 Aligned_cols=39 Identities=18% Similarity=0.292 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 004134 619 LKRLELKLKQFAEVETLLMRECEQVEKARQRFATERTRI 657 (772)
Q Consensus 619 LKKLElKLk~feeLE~~Le~Ere~LE~~Rq~L~~eRl~~ 657 (772)
|+.|+.|+.+|=.+=.-|..|-..|-.+-..+-.||..+
T Consensus 2 L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L 40 (65)
T TIGR02449 2 LQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQL 40 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444444444444333
Done!