Query 039982
Match_columns 253
No_of_seqs 219 out of 1608
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 03:55:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/039982.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/039982hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0014 MADS box transcription 100.0 2.1E-39 4.6E-44 274.9 2.7 166 1-166 1-190 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 5.6E-34 1.2E-38 207.6 3.2 73 2-74 1-73 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 7.9E-31 1.7E-35 193.7 4.4 73 2-74 1-74 (83)
4 smart00432 MADS MADS domain. 100.0 7.2E-30 1.6E-34 176.0 3.8 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 3.1E-29 6.6E-34 172.9 3.4 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 8E-28 1.7E-32 160.7 -0.7 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.8 2.5E-20 5.4E-25 142.4 9.2 85 91-175 15-99 (100)
8 KOG0015 Regulator of arginine 99.8 2.8E-20 6.1E-25 162.8 2.7 67 2-68 63-129 (338)
9 COG5068 ARG80 Regulator of arg 99.5 1.4E-14 3.1E-19 132.5 3.1 67 1-67 81-147 (412)
10 PF06005 DUF904: Protein of un 94.6 0.41 8.8E-06 34.3 8.4 51 122-177 1-51 (72)
11 COG3074 Uncharacterized protei 89.0 4 8.8E-05 28.9 7.6 51 122-177 1-51 (79)
12 PRK15422 septal ring assembly 87.4 7 0.00015 28.4 8.2 43 122-169 1-43 (79)
13 PF01166 TSC22: TSC-22/dip/bun 87.1 1.6 3.4E-05 29.8 4.5 27 147-173 17-43 (59)
14 TIGR02449 conserved hypothetic 87.0 7.1 0.00015 27.3 7.9 52 126-177 1-54 (65)
15 PF06156 DUF972: Protein of un 86.9 5.5 0.00012 30.7 8.0 51 124-179 7-57 (107)
16 PRK13169 DNA replication intia 86.3 5.9 0.00013 30.7 8.0 49 124-177 7-55 (110)
17 cd07429 Cby_like Chibby, a nuc 85.3 1.7 3.6E-05 33.6 4.4 25 153-177 74-98 (108)
18 PRK10884 SH3 domain-containing 85.1 18 0.00038 31.2 11.1 77 93-174 91-169 (206)
19 PF07926 TPR_MLP1_2: TPR/MLP1/ 84.3 15 0.00034 29.0 9.8 31 147-177 101-131 (132)
20 PF06698 DUF1192: Protein of u 81.4 3.3 7.1E-05 28.5 4.2 32 113-144 12-43 (59)
21 smart00340 HALZ homeobox assoc 81.4 5.1 0.00011 25.5 4.6 31 153-183 7-37 (44)
22 PF10584 Proteasome_A_N: Prote 81.3 0.14 3.1E-06 28.4 -2.1 13 44-56 4-16 (23)
23 COG2433 Uncharacterized conser 79.7 31 0.00067 34.4 11.7 82 94-179 421-509 (652)
24 smart00787 Spc7 Spc7 kinetocho 78.8 32 0.0007 31.5 11.1 80 100-179 177-260 (312)
25 PF08317 Spc7: Spc7 kinetochor 78.2 43 0.00094 30.6 11.8 62 117-178 201-264 (325)
26 KOG4797 Transcriptional regula 76.0 14 0.00029 28.5 6.5 25 148-172 71-95 (123)
27 PF07716 bZIP_2: Basic region 75.3 20 0.00043 23.7 6.6 38 137-178 15-52 (54)
28 smart00338 BRLZ basic region l 73.8 18 0.0004 24.7 6.3 39 137-179 16-54 (65)
29 PF00170 bZIP_1: bZIP transcri 72.9 22 0.00048 24.2 6.6 38 137-178 16-53 (64)
30 PRK10884 SH3 domain-containing 71.4 32 0.0007 29.5 8.6 67 98-174 89-155 (206)
31 PF07106 TBPIP: Tat binding pr 71.3 22 0.00047 29.2 7.3 50 95-145 116-165 (169)
32 KOG1962 B-cell receptor-associ 70.5 29 0.00063 30.1 8.0 52 124-175 157-210 (216)
33 COG4467 Regulator of replicati 69.7 32 0.00068 26.6 7.1 48 124-176 7-54 (114)
34 PF06156 DUF972: Protein of un 69.2 19 0.0004 27.7 6.0 33 147-179 18-50 (107)
35 PF09744 Jnk-SapK_ap_N: JNK_SA 68.4 26 0.00056 28.9 7.0 31 147-177 85-115 (158)
36 PF10504 DUF2452: Protein of u 67.8 35 0.00075 28.2 7.6 45 123-167 28-75 (159)
37 TIGR02338 gimC_beta prefoldin, 67.0 42 0.0009 25.6 7.6 46 131-177 62-107 (110)
38 KOG4797 Transcriptional regula 64.9 13 0.00028 28.7 4.2 48 131-178 47-94 (123)
39 KOG0971 Microtubule-associated 64.1 1.3E+02 0.0028 31.8 12.2 85 93-177 330-429 (1243)
40 cd00187 TOP4c DNA Topoisomeras 64.0 46 0.00099 32.1 8.8 61 7-74 257-329 (445)
41 PRK00888 ftsB cell division pr 63.5 25 0.00054 26.8 5.7 34 146-179 29-62 (105)
42 PRK11637 AmiB activator; Provi 63.1 98 0.0021 29.3 10.9 51 125-175 75-127 (428)
43 TIGR02894 DNA_bind_RsfA transc 63.0 87 0.0019 25.9 11.9 59 119-177 77-137 (161)
44 PF10211 Ax_dynein_light: Axon 62.9 71 0.0015 26.9 9.0 100 51-162 82-181 (189)
45 PRK11637 AmiB activator; Provi 62.9 92 0.002 29.5 10.7 10 98-107 50-59 (428)
46 PF06005 DUF904: Protein of un 62.5 37 0.00079 24.2 6.0 36 144-179 11-46 (72)
47 PF01502 PRA-CH: Phosphoribosy 61.2 4.4 9.6E-05 29.2 1.1 36 18-53 18-63 (75)
48 PF05529 Bap31: B-cell recepto 61.0 59 0.0013 27.1 8.2 54 125-178 125-188 (192)
49 PF04880 NUDE_C: NUDE protein, 60.0 18 0.00039 30.1 4.6 46 127-174 2-47 (166)
50 PF04977 DivIC: Septum formati 58.3 26 0.00056 24.5 4.7 30 148-177 21-50 (80)
51 PLN02372 violaxanthin de-epoxi 57.0 1.8E+02 0.004 27.8 11.4 43 97-151 363-405 (455)
52 PF14645 Chibby: Chibby family 56.7 22 0.00047 27.8 4.4 27 151-177 71-97 (116)
53 PRK13169 DNA replication intia 56.7 44 0.00096 25.8 6.0 33 147-179 18-50 (110)
54 PRK04098 sec-independent trans 55.4 2.8 6E-05 34.5 -0.9 30 43-74 15-44 (158)
55 PHA02592 52 DNA topisomerase I 54.9 1.2E+02 0.0027 29.1 10.0 29 43-73 299-327 (439)
56 COG0139 HisI Phosphoribosyl-AM 54.9 8.3 0.00018 29.8 1.7 38 17-54 49-96 (111)
57 KOG4643 Uncharacterized coiled 54.4 56 0.0012 34.6 7.9 47 134-180 283-330 (1195)
58 PF15397 DUF4618: Domain of un 54.1 1.2E+02 0.0026 27.1 9.1 38 143-180 185-222 (258)
59 PF03980 Nnf1: Nnf1 ; InterPr 52.6 54 0.0012 24.8 6.0 48 118-178 60-107 (109)
60 PF07888 CALCOCO1: Calcium bin 52.0 2.1E+02 0.0046 28.4 11.2 20 154-173 216-235 (546)
61 KOG0709 CREB/ATF family transc 52.0 17 0.00037 34.9 3.6 57 121-177 233-312 (472)
62 PF04849 HAP1_N: HAP1 N-termin 51.9 90 0.0019 28.6 8.1 50 129-178 217-268 (306)
63 cd01109 HTH_YyaN Helix-Turn-He 50.1 93 0.002 23.6 7.0 53 121-174 57-109 (113)
64 KOG4311 Histidinol dehydrogena 49.9 61 0.0013 29.2 6.5 60 15-74 180-261 (359)
65 TIGR03752 conj_TIGR03752 integ 49.7 1.6E+02 0.0036 28.5 9.9 71 94-177 72-142 (472)
66 KOG0930 Guanine nucleotide exc 48.8 57 0.0012 29.6 6.2 44 118-170 7-50 (395)
67 PF11365 DUF3166: Protein of u 47.9 58 0.0013 24.6 5.3 34 146-179 10-43 (96)
68 PF11365 DUF3166: Protein of u 47.7 19 0.00042 27.1 2.7 21 149-169 74-94 (96)
69 PF13870 DUF4201: Domain of un 47.4 1.6E+02 0.0034 24.2 12.1 80 95-177 13-103 (177)
70 PF10186 Atg14: UV radiation r 46.9 2E+02 0.0043 25.2 10.8 8 57-64 13-20 (302)
71 PF09278 MerR-DNA-bind: MerR, 46.6 82 0.0018 21.0 5.6 45 121-166 14-58 (65)
72 cd04769 HTH_MerR2 Helix-Turn-H 46.4 89 0.0019 23.8 6.4 56 120-175 55-110 (116)
73 PRK13729 conjugal transfer pil 45.5 1.1E+02 0.0024 29.7 8.0 32 147-178 93-124 (475)
74 PF10226 DUF2216: Uncharacteri 45.4 77 0.0017 27.0 6.1 29 144-172 48-76 (195)
75 PF02183 HALZ: Homeobox associ 45.1 82 0.0018 20.2 5.9 36 144-179 5-40 (45)
76 PF14282 FlxA: FlxA-like prote 44.9 1.4E+02 0.003 22.7 9.3 57 94-167 18-74 (106)
77 TIGR02449 conserved hypothetic 44.5 85 0.0018 22.0 5.3 29 149-177 5-33 (65)
78 COG0216 PrfA Protein chain rel 44.3 2.1E+02 0.0045 26.7 9.2 92 60-170 7-102 (363)
79 KOG3119 Basic region leucine z 44.1 1.1E+02 0.0023 27.4 7.4 51 126-180 194-244 (269)
80 PF07558 Shugoshin_N: Shugoshi 43.5 33 0.0007 22.2 2.9 31 144-174 14-44 (46)
81 PF15066 CAGE1: Cancer-associa 43.2 1.1E+02 0.0025 29.6 7.6 63 94-167 316-378 (527)
82 PF15254 CCDC14: Coiled-coil d 43.0 3.8E+02 0.0082 27.9 11.5 24 90-113 389-412 (861)
83 KOG4673 Transcription factor T 42.7 2.2E+02 0.0048 29.1 9.7 79 95-174 544-635 (961)
84 PF04849 HAP1_N: HAP1 N-termin 42.5 38 0.00082 31.0 4.2 54 125-178 97-187 (306)
85 PF07888 CALCOCO1: Calcium bin 42.2 3.6E+02 0.0078 26.8 11.1 73 94-173 142-214 (546)
86 TIGR02209 ftsL_broad cell divi 41.4 91 0.002 22.1 5.5 32 147-178 27-58 (85)
87 smart00338 BRLZ basic region l 41.2 95 0.0021 21.0 5.3 28 147-174 36-63 (65)
88 KOG0183 20S proteasome, regula 40.0 13 0.00029 32.1 0.9 21 41-61 4-26 (249)
89 KOG3612 PHD Zn-finger protein 39.7 2.8E+02 0.006 27.5 9.7 71 35-113 404-478 (588)
90 PF06785 UPF0242: Uncharacteri 39.4 3.2E+02 0.0069 25.5 9.5 77 94-177 98-174 (401)
91 PF09789 DUF2353: Uncharacteri 39.2 3.1E+02 0.0068 25.2 10.0 45 134-179 70-114 (319)
92 KOG0963 Transcription factor/C 38.6 2.8E+02 0.0062 27.8 9.7 85 94-178 120-209 (629)
93 TIGR01950 SoxR redox-sensitive 38.1 1.2E+02 0.0025 24.3 6.1 54 121-174 57-110 (142)
94 PF05812 Herpes_BLRF2: Herpesv 37.9 60 0.0013 25.4 4.1 27 152-178 4-30 (118)
95 PF05812 Herpes_BLRF2: Herpesv 37.6 2E+02 0.0043 22.5 7.3 53 93-145 8-64 (118)
96 PHA02109 hypothetical protein 37.4 1.2E+02 0.0026 25.6 6.0 51 101-166 170-222 (233)
97 PHA03155 hypothetical protein; 37.1 52 0.0011 25.6 3.6 24 153-176 10-33 (115)
98 PRK00409 recombination and DNA 36.3 3.6E+02 0.0079 27.9 10.7 35 125-159 544-578 (782)
99 TIGR01069 mutS2 MutS2 family p 36.3 3.6E+02 0.0079 27.9 10.7 34 125-158 539-572 (771)
100 cd01107 HTH_BmrR Helix-Turn-He 35.8 1.7E+02 0.0036 22.0 6.4 49 120-174 57-105 (108)
101 PHA03162 hypothetical protein; 35.7 55 0.0012 26.1 3.6 25 153-177 15-39 (135)
102 PF04999 FtsL: Cell division p 35.4 1.2E+02 0.0027 22.2 5.5 33 146-178 37-69 (97)
103 PRK15422 septal ring assembly 35.4 1.7E+02 0.0036 21.3 5.8 33 145-177 12-44 (79)
104 cd04787 HTH_HMRTR_unk Helix-Tu 35.3 2.2E+02 0.0047 22.3 8.0 57 120-177 56-112 (133)
105 PF06785 UPF0242: Uncharacteri 35.2 2.1E+02 0.0045 26.7 7.7 54 124-178 101-154 (401)
106 PF01166 TSC22: TSC-22/dip/bun 35.2 70 0.0015 21.9 3.6 31 150-180 13-43 (59)
107 cd04770 HTH_HMRTR Helix-Turn-H 35.2 2E+02 0.0044 21.9 6.9 53 121-174 57-109 (123)
108 PF05700 BCAS2: Breast carcino 34.5 3E+02 0.0065 23.6 8.6 24 149-172 173-196 (221)
109 PRK10227 DNA-binding transcrip 34.2 2.1E+02 0.0045 22.6 6.9 54 121-175 57-110 (135)
110 PF09941 DUF2173: Uncharacteri 34.2 31 0.00068 26.6 2.0 35 33-68 4-41 (108)
111 PF09158 MotCF: Bacteriophage 33.7 15 0.00032 28.1 0.1 52 5-71 19-71 (103)
112 PF14723 SSFA2_C: Sperm-specif 33.6 81 0.0018 26.4 4.5 19 125-143 159-177 (179)
113 PF13874 Nup54: Nucleoporin co 33.1 1.8E+02 0.004 23.1 6.5 55 125-179 61-121 (141)
114 TIGR02047 CadR-PbrR Cd(II)/Pb( 33.0 2.3E+02 0.0049 22.0 6.9 54 120-174 56-109 (127)
115 COG4467 Regulator of replicati 32.9 1.1E+02 0.0023 23.7 4.7 31 149-179 20-50 (114)
116 COG4831 Roadblock/LC7 domain [ 32.7 24 0.00053 26.6 1.2 28 31-59 4-31 (109)
117 TIGR00606 rad50 rad50. This fa 32.6 5.4E+02 0.012 28.3 11.8 54 122-175 822-881 (1311)
118 PF02151 UVR: UvrB/uvrC motif; 32.4 1.2E+02 0.0025 18.3 4.2 33 126-158 3-35 (36)
119 cd01282 HTH_MerR-like_sg3 Heli 32.2 2.1E+02 0.0045 21.7 6.4 51 121-172 56-109 (112)
120 PHA03155 hypothetical protein; 32.2 2.4E+02 0.0053 21.9 7.5 54 92-145 12-65 (115)
121 PRK09413 IS2 repressor TnpA; R 31.9 1.3E+02 0.0028 23.1 5.3 29 148-176 75-103 (121)
122 KOG4637 Adaptor for phosphoino 31.8 29 0.00063 32.6 1.8 42 33-74 367-413 (464)
123 KOG0804 Cytoplasmic Zn-finger 31.7 4.1E+02 0.009 25.7 9.3 36 137-172 375-410 (493)
124 COG1579 Zn-ribbon protein, pos 31.6 3.6E+02 0.0079 23.7 11.1 51 122-172 86-138 (239)
125 cd01108 HTH_CueR Helix-Turn-He 31.5 2.5E+02 0.0053 21.8 7.0 54 120-174 56-109 (127)
126 PRK09822 lipopolysaccharide co 31.4 28 0.0006 30.7 1.5 38 21-59 120-160 (269)
127 PRK03918 chromosome segregatio 31.0 4.9E+02 0.011 26.8 10.8 13 124-136 658-670 (880)
128 PF07407 Seadorna_VP6: Seadorn 30.6 1.4E+02 0.003 27.7 5.9 45 118-176 25-69 (420)
129 PRK09514 zntR zinc-responsive 30.5 2E+02 0.0044 22.8 6.3 54 121-174 58-111 (140)
130 PF07889 DUF1664: Protein of u 30.4 2.8E+02 0.006 22.0 7.9 21 127-147 70-90 (126)
131 cd04776 HTH_GnyR Helix-Turn-He 30.3 2.5E+02 0.0055 21.5 7.6 56 121-176 55-112 (118)
132 PF14662 CCDC155: Coiled-coil 30.2 3.5E+02 0.0075 23.1 10.0 19 124-142 69-87 (193)
133 PRK15002 redox-sensitivie tran 30.0 2.1E+02 0.0045 23.3 6.4 54 121-174 67-120 (154)
134 PF08614 ATG16: Autophagy prot 29.9 3.3E+02 0.0072 22.7 9.9 48 127-174 132-181 (194)
135 PHA03162 hypothetical protein; 29.8 2.9E+02 0.0063 22.1 7.7 64 92-158 17-84 (135)
136 TIGR02051 MerR Hg(II)-responsi 29.7 2.1E+02 0.0046 22.0 6.2 52 121-175 56-107 (124)
137 PF11232 Med25: Mediator compl 29.2 49 0.0011 27.1 2.5 35 37-71 109-151 (152)
138 COG2433 Uncharacterized conser 29.2 6.1E+02 0.013 25.6 11.0 21 94-114 442-462 (652)
139 PRK14127 cell division protein 29.2 1.7E+02 0.0037 22.6 5.4 47 118-179 19-65 (109)
140 PF14282 FlxA: FlxA-like prote 29.1 2.6E+02 0.0055 21.2 6.7 50 125-174 19-74 (106)
141 TIGR02231 conserved hypothetic 29.1 5.4E+02 0.012 25.0 10.7 50 121-178 123-172 (525)
142 PF08946 Osmo_CC: Osmosensory 29.0 1.5E+02 0.0032 19.2 4.1 20 148-167 23-42 (46)
143 cd01106 HTH_TipAL-Mta Helix-Tu 29.0 2.2E+02 0.0047 21.1 5.9 15 121-135 57-71 (103)
144 TIGR02043 ZntR Zn(II)-responsi 28.9 2.4E+02 0.0051 22.0 6.4 54 121-174 58-111 (131)
145 PF13758 Prefoldin_3: Prefoldi 28.8 2.3E+02 0.005 21.5 5.9 18 90-107 7-24 (99)
146 PHA01750 hypothetical protein 28.3 2.1E+02 0.0047 20.1 7.2 42 133-174 31-72 (75)
147 PF04508 Pox_A_type_inc: Viral 28.0 71 0.0015 17.7 2.2 17 96-112 2-18 (23)
148 cd04784 HTH_CadR-PbrR Helix-Tu 27.7 2.8E+02 0.0062 21.3 7.0 53 121-174 57-109 (127)
149 KOG0241 Kinesin-like protein [ 27.7 4E+02 0.0087 28.7 9.0 68 94-177 363-430 (1714)
150 PF14988 DUF4515: Domain of un 27.3 4E+02 0.0086 22.8 8.4 54 124-177 113-175 (206)
151 smart00030 CLb CLUSTERIN Beta 27.1 3.1E+02 0.0068 23.5 7.0 27 119-145 9-35 (206)
152 TIGR02044 CueR Cu(I)-responsiv 27.1 3E+02 0.0064 21.3 6.9 55 120-175 56-110 (127)
153 KOG0239 Kinesin (KAR3 subfamil 26.8 6.2E+02 0.013 25.9 10.3 53 126-180 263-315 (670)
154 cd01110 HTH_SoxR Helix-Turn-He 26.8 2.8E+02 0.006 22.0 6.5 54 121-174 57-110 (139)
155 PF07851 TMPIT: TMPIT-like pro 26.8 3.7E+02 0.008 24.9 8.0 45 94-144 3-47 (330)
156 PF09798 LCD1: DNA damage chec 26.8 3.8E+02 0.0083 27.3 8.7 55 125-179 4-61 (654)
157 PF10224 DUF2205: Predicted co 26.6 2.5E+02 0.0055 20.4 7.3 31 149-179 35-65 (80)
158 KOG0184 20S proteasome, regula 26.5 34 0.00074 29.8 1.2 24 36-59 3-28 (254)
159 cd04785 HTH_CadR-PbrR-like Hel 26.3 3.1E+02 0.0066 21.2 7.0 54 121-175 57-110 (126)
160 KOG0837 Transcriptional activa 26.0 3.2E+02 0.0069 24.5 7.1 51 125-177 202-253 (279)
161 PRK00051 hisI phosphoribosyl-A 25.9 44 0.00096 26.5 1.6 37 16-52 44-90 (125)
162 cd04790 HTH_Cfa-like_unk Helix 25.6 2.2E+02 0.0047 23.5 5.9 48 121-175 58-105 (172)
163 PRK09039 hypothetical protein; 25.3 5.4E+02 0.012 23.7 9.3 50 94-164 136-185 (343)
164 PF07798 DUF1640: Protein of u 25.3 3.9E+02 0.0084 22.0 8.5 50 124-173 46-95 (177)
165 KOG4673 Transcription factor T 25.1 7.6E+02 0.017 25.5 10.2 18 94-111 345-362 (961)
166 TIGR01478 STEVOR variant surfa 25.0 52 0.0011 29.7 2.1 44 7-71 25-69 (295)
167 TIGR03185 DNA_S_dndD DNA sulfu 24.9 7.1E+02 0.015 24.9 11.5 15 97-111 400-414 (650)
168 cd04783 HTH_MerR1 Helix-Turn-H 24.7 3E+02 0.0065 21.2 6.2 52 121-175 57-108 (126)
169 KOG2417 Predicted G-protein co 24.7 5.4E+02 0.012 24.4 8.6 27 126-152 187-213 (462)
170 PF15372 DUF4600: Domain of un 24.6 2.7E+02 0.0059 22.2 5.9 41 98-138 18-67 (129)
171 PF04645 DUF603: Protein of un 24.6 4.2E+02 0.0092 22.2 7.9 48 125-172 112-159 (181)
172 PF07676 PD40: WD40-like Beta 24.6 68 0.0015 19.0 2.0 19 41-59 9-27 (39)
173 KOG1853 LIS1-interacting prote 24.5 3E+02 0.0065 24.7 6.6 23 126-148 88-110 (333)
174 KOG3759 Uncharacterized RUN do 24.4 6.4E+02 0.014 24.7 9.2 73 94-173 148-249 (621)
175 KOG0977 Nuclear envelope prote 24.4 7.1E+02 0.015 24.8 10.2 11 97-107 115-125 (546)
176 PLN03128 DNA topoisomerase 2; 24.3 5.2E+02 0.011 28.2 9.6 107 45-165 962-1116(1135)
177 PRK13923 putative spore coat p 24.2 2.7E+02 0.0059 23.2 6.1 25 150-174 110-134 (170)
178 PF05082 Rop-like: Rop-like; 24.1 2.6E+02 0.0056 19.6 5.5 31 150-180 1-31 (66)
179 PF15243 ANAPC15: Anaphase-pro 24.1 92 0.002 23.3 3.0 21 125-145 28-48 (92)
180 PF03961 DUF342: Protein of un 24.1 4E+02 0.0087 25.4 8.2 29 149-177 380-408 (451)
181 COG4917 EutP Ethanolamine util 24.0 52 0.0011 26.5 1.7 25 35-59 59-83 (148)
182 PF01093 Clusterin: Clusterin; 23.9 3E+02 0.0065 26.5 7.1 24 122-145 6-29 (436)
183 PF08781 DP: Transcription fac 23.7 4E+02 0.0086 21.6 7.8 46 126-173 2-47 (142)
184 KOG4360 Uncharacterized coiled 23.5 5.3E+02 0.011 25.5 8.6 21 150-170 239-259 (596)
185 PF06937 EURL: EURL protein; 23.2 85 0.0018 28.2 3.0 38 107-144 204-241 (285)
186 PF09726 Macoilin: Transmembra 23.0 5E+02 0.011 26.6 8.9 18 93-110 458-475 (697)
187 COG4575 ElaB Uncharacterized c 22.8 3.4E+02 0.0073 20.8 5.8 47 98-145 11-57 (104)
188 PF06657 Cep57_MT_bd: Centroso 22.6 3E+02 0.0065 19.8 7.5 52 93-148 22-73 (79)
189 cd04786 HTH_MerR-like_sg7 Heli 22.3 3.7E+02 0.008 21.1 6.4 55 121-177 57-111 (131)
190 PRK10803 tol-pal system protei 22.1 4.5E+02 0.0097 23.2 7.6 24 153-176 77-100 (263)
191 PTZ00108 DNA topoisomerase 2-l 22.1 1.5E+02 0.0033 32.8 5.2 46 94-139 1101-1146(1388)
192 COG3883 Uncharacterized protei 22.1 5.3E+02 0.012 23.1 7.9 53 126-178 53-111 (265)
193 PF15070 GOLGA2L5: Putative go 22.0 2.8E+02 0.0061 27.9 6.8 19 93-111 85-103 (617)
194 PF04566 RNA_pol_Rpb2_4: RNA p 21.8 37 0.00079 23.4 0.4 31 22-54 23-54 (63)
195 cd04777 HTH_MerR-like_sg1 Heli 21.7 2.8E+02 0.0061 20.6 5.4 45 121-165 55-102 (107)
196 cd04788 HTH_NolA-AlbR Helix-Tu 21.6 1.9E+02 0.0042 21.2 4.4 37 121-164 57-93 (96)
197 PLN03237 DNA topoisomerase 2; 21.3 2.3E+02 0.0049 31.7 6.3 46 94-139 1125-1170(1465)
198 PRK04778 septation ring format 21.2 7.7E+02 0.017 24.4 9.7 44 100-143 228-274 (569)
199 cd04768 HTH_BmrR-like Helix-Tu 21.1 2.3E+02 0.0049 20.8 4.7 13 121-133 57-69 (96)
200 PF11315 Med30: Mediator compl 21.0 4.7E+02 0.01 21.4 7.3 77 58-135 9-94 (150)
201 PF00170 bZIP_1: bZIP transcri 20.8 2.7E+02 0.0059 18.6 6.4 7 127-133 28-34 (64)
202 PF05483 SCP-1: Synaptonemal c 20.4 7.3E+02 0.016 25.5 9.1 26 151-176 601-626 (786)
203 PRK13752 putative transcriptio 20.4 3.7E+02 0.0079 21.5 6.1 52 121-175 64-115 (144)
204 PRK13922 rod shape-determining 20.3 2.3E+02 0.0049 25.0 5.3 28 148-175 80-110 (276)
205 COG1382 GimC Prefoldin, chaper 20.2 3.8E+02 0.0081 21.1 5.8 41 137-178 71-111 (119)
206 PF14009 DUF4228: Domain of un 20.1 84 0.0018 25.1 2.3 32 40-72 14-46 (181)
207 PTZ00108 DNA topoisomerase 2-l 20.1 1E+03 0.023 26.6 10.9 46 119-164 1096-1145(1388)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=2.1e-39 Score=274.88 Aligned_cols=166 Identities=43% Similarity=0.597 Sum_probs=132.5
Q ss_pred CCCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccch--hhhhhhhhcccchhhhh
Q 039982 1 MGRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSS--MEHILSRYSKGIDLECQ 78 (253)
Q Consensus 1 MgR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~s--m~~iieRY~~~~~~~~~ 78 (253)
|||+||+|+||+|.++|||||+|||+||||||+||||||||+||||||||+|++|+|++++ |..|++||.........
T Consensus 1 M~R~ki~i~~Ien~~~RqvTFsKRr~GL~KKA~ELsvLCd~eiavIifsp~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~ 80 (195)
T KOG0014|consen 1 MGRGKIEIKRIENESSRQVTFSKRRNGLFKKASELSVLCDAEIAVIVFSPSGKLYEFGSSDESVDAVVDRFLNLTEPSRK 80 (195)
T ss_pred CCCCccceeeccccchhhhhhHHHHhhHHHHHHHHHHhcCCeEEEEEECCCCCccccCCcchhHHHHHHHHHhhhhhhhc
Confidence 9999999999999999999999999999999999999999999999999999999998865 99999999987662211
Q ss_pred cccCCCCCC---------------CCC--CcchHHHHHHHHHHHHHHH---HHHHhcCCCCCCCCH-HHHHHHHHHHHHH
Q 039982 79 TNRNEEHGV---------------PEL--PPKSAELNALKDEYARLRL---AYMRMNGQELDGLSF-KELQQLEHQLSEG 137 (253)
Q Consensus 79 ~~~~~~~~~---------------~~l--q~~~~e~~kLk~ei~~Lq~---~~r~l~GedL~~Ls~-~EL~~LE~~Le~s 137 (253)
......... +.. +....+...++...+.++. ..+++.|++|.+++. .+|..++.+|+.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 111111100 000 1123445566666776654 488999999999999 9999999999999
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q 039982 138 MLSVKDMKEQVLLEQIR-RSRLMEQKAMLE 166 (253)
Q Consensus 138 L~~IR~rK~qll~~qi~-~Lk~Ke~~l~ee 166 (253)
+..+|..+...+.+++. .++.++..+.++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (195)
T KOG0014|consen 161 LHNSRSSKSKPLSDSNFQVLQEKEKSLEAE 190 (195)
T ss_pred hcCCCCCCCcCCcchhhhhhcccchhcccc
Confidence 99999999999988887 555555554443
No 2
>cd00265 MADS_MEF2_like MEF2 (myocyte enhancer factor 2)-like/Type II subfamily of MADS ( MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero and homo-dimers. Differs from SRF-like/Type I subgroup mainly in position of the alpha helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=100.00 E-value=5.6e-34 Score=207.56 Aligned_cols=73 Identities=75% Similarity=1.114 Sum_probs=71.5
Q ss_pred CCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccchhhhhhhhhcccch
Q 039982 2 GRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSSMEHILSRYSKGID 74 (253)
Q Consensus 2 gR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~sm~~iieRY~~~~~ 74 (253)
||+||+|++|||..+|+|||+||+.||||||+||||||||+||||||||+|++|+|+++++++||+||...++
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s~~~vl~ry~~~~~ 73 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPSMEKIIERYQKTSG 73 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCCHHHHHHHHHhccc
Confidence 8999999999999999999999999999999999999999999999999999999999999999999998876
No 3
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.96 E-value=7.9e-31 Score=193.70 Aligned_cols=73 Identities=59% Similarity=0.864 Sum_probs=70.2
Q ss_pred CCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccch-hhhhhhhhcccch
Q 039982 2 GRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSS-MEHILSRYSKGID 74 (253)
Q Consensus 2 gR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~s-m~~iieRY~~~~~ 74 (253)
||+||+|++|+|..+|+|||+|||.||||||+||||||||+||+|||||+|+++.|++++ +..+|+||...+.
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~ 74 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSA 74 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCH
Confidence 899999999999999999999999999999999999999999999999999999988755 9999999998877
No 4
>smart00432 MADS MADS domain.
Probab=99.96 E-value=7.2e-30 Score=175.97 Aligned_cols=59 Identities=78% Similarity=1.141 Sum_probs=57.5
Q ss_pred CCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccc
Q 039982 2 GRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSS 60 (253)
Q Consensus 2 gR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~ 60 (253)
||+||+|++|+|..+|++||+||+.||+|||+||||||||+||+|||||+|++|.|++|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999998864
No 5
>cd00120 MADS MADS: MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptonal regulators. Binds DNA and exists as hetero and homo-dimers. Composed of 2 main subgroups: SRF-like/Type I and MEF2-like (myocyte enhancer factor 2)/ Type II. These subgroups differ mainly in position of the alpha 2 helix responsible for the dimerization interface; Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.95 E-value=3.1e-29 Score=172.94 Aligned_cols=59 Identities=83% Similarity=1.177 Sum_probs=57.4
Q ss_pred CCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccc
Q 039982 2 GRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSS 60 (253)
Q Consensus 2 gR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~ 60 (253)
||+||+|++|+|...|++||+|||.||+|||+||||||||+||+|||||+|+++.|+++
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999998863
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.93 E-value=8e-28 Score=160.66 Aligned_cols=51 Identities=65% Similarity=1.006 Sum_probs=47.1
Q ss_pred EEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCccccccc
Q 039982 9 KKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSS 59 (253)
Q Consensus 9 krIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s 59 (253)
|+|+|.+.|++||+|||.||||||.||||||||+||||||||+|++|.|||
T Consensus 1 K~I~n~~~R~~tf~KRk~gL~KKa~ELs~LC~~~v~~iv~~~~g~~~~f~s 51 (51)
T PF00319_consen 1 KRIENKSRRKVTFSKRKKGLFKKASELSTLCGVDVALIVFSPDGKLYTFPS 51 (51)
T ss_dssp S--SSHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEEETTSEEEEEES
T ss_pred CCccchhHhHhHHHHHHhhhhhccceeeeecCCeEEEEEECCCCCEEEecC
Confidence 689999999999999999999999999999999999999999999999986
No 7
>PF01486 K-box: K-box region; InterPro: IPR002487 MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PDOC00302 from PROSITEDOC, IPR002100 from INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [, , ]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=99.83 E-value=2.5e-20 Score=142.44 Aligned_cols=85 Identities=35% Similarity=0.514 Sum_probs=82.5
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 91 PPKSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETL 170 (253)
Q Consensus 91 q~~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L 170 (253)
+.++.++++|+.+++.|+..+|+++|+||++|+++||++||++|+.+|.+||+||+++|+++|+.|++|+..|.++|..|
T Consensus 15 e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~en~~L 94 (100)
T PF01486_consen 15 EELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEENNQL 94 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHH
Q 039982 171 RKQME 175 (253)
Q Consensus 171 ~~~~~ 175 (253)
+.++.
T Consensus 95 ~~~~~ 99 (100)
T PF01486_consen 95 RQKIE 99 (100)
T ss_pred HHHhc
Confidence 99885
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.79 E-value=2.8e-20 Score=162.84 Aligned_cols=67 Identities=45% Similarity=0.674 Sum_probs=62.8
Q ss_pred CCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccchhhhhhhh
Q 039982 2 GRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSSMEHILSR 68 (253)
Q Consensus 2 gR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~sm~~iieR 68 (253)
||.||+|.+|||+..|.|||||||.||||||+|||||.+.+|-|+|.|.+|-+|.|+.+.++-||.-
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s 129 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITS 129 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccc
Confidence 7999999999999999999999999999999999999999999999999999999998776666643
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.48 E-value=1.4e-14 Score=132.46 Aligned_cols=67 Identities=40% Similarity=0.565 Sum_probs=62.9
Q ss_pred CCCccceeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccchhhhhhh
Q 039982 1 MGRGKIEIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSSMEHILS 67 (253)
Q Consensus 1 MgR~Ki~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~sm~~iie 67 (253)
|||+||.|..|+|+.+|.|||+||+.||+|||+||+||.+.+|.|+|.|.+|+++.|+.+..+.|+.
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~~e~v~~ 147 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPKLESVVK 147 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCccccccc
Confidence 7899999999999999999999999999999999999999999999999999999999876665554
No 10
>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=94.60 E-value=0.41 Score=34.26 Aligned_cols=51 Identities=24% Similarity=0.322 Sum_probs=37.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
++++.|.+||..+..++..|.. |..+++.|+.+-..|.++|..|+.....+
T Consensus 1 M~~E~l~~LE~ki~~aveti~~-----Lq~e~eeLke~n~~L~~e~~~L~~en~~L 51 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIAL-----LQMENEELKEKNNELKEENEELKEENEQL 51 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 4788999999999999999864 45567888888666666666666665544
No 11
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=88.95 E-value=4 Score=28.89 Aligned_cols=51 Identities=18% Similarity=0.281 Sum_probs=35.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+|++=|.+||..+..++.-| .||.-+|++|+.|...|..|-..++...+++
T Consensus 1 MSlEv~ekLE~KiqqAvdTI-----~LLQmEieELKEknn~l~~e~q~~q~~reaL 51 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQNAQHQREAL 51 (79)
T ss_pred CchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHhHHHHHHHHHHHHHH
Confidence 46777888888888888776 4667777888877776666655555554444
No 12
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=87.43 E-value=7 Score=28.37 Aligned_cols=43 Identities=14% Similarity=0.261 Sum_probs=32.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENET 169 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~ 169 (253)
+|++=|.+||..+..++..|- ||.-+|++|+.|-..|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI~-----LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 577789999999999998874 6666778888876666665444
No 13
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=87.14 E-value=1.6 Score=29.80 Aligned_cols=27 Identities=30% Similarity=0.291 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
+.|.++|.+|..+...|+.||..|+..
T Consensus 17 evLK~~I~eL~~~n~~Le~EN~~Lk~~ 43 (59)
T PF01166_consen 17 EVLKEQIAELEERNSQLEEENNLLKQN 43 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 467788888888888888888888774
No 14
>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=87.03 E-value=7.1 Score=27.34 Aligned_cols=52 Identities=25% Similarity=0.316 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQ--VLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~q--ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+|+.||..|+.-+.....-+.+ ++.++...++..-..|.+.|..-+.+|+.+
T Consensus 1 ~L~~Le~kle~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekne~Ar~rvEam 54 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLERLKSENRLLRAQEKTWREERAQLLEKNEQARQKVEAM 54 (65)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788999999888877665543 666666666666666666666666666654
No 15
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=86.86 E-value=5.5 Score=30.66 Aligned_cols=51 Identities=33% Similarity=0.533 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 124 FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
++.+.+||++|..-+..|.+-|.+ +..|-..-..|.-||..|+..+.+...
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~~-----~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKKQ-----LQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 356788888888888777776644 456666667777788888887776643
No 16
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=86.34 E-value=5.9 Score=30.67 Aligned_cols=49 Identities=31% Similarity=0.428 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
++.+.+||++|...+..+.+-|.+ +..|-..-..|.-||..||..+.+.
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~-----~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQ-----LAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999999888888777655 4666677778888888888888775
No 17
>cd07429 Cby_like Chibby, a nuclear inhibitor of Wnt/beta-catenin mediated transcription, and similar proteins. Chibby(Cby) is a well-conserved nuclear protein that functions as part of the Wnt/beta-catenin signaling pathway. Specifically, Cby binds directly to beta-catenin by interacting with its central region, which harbors armadillo repeats. Cby-beta-catenin interactions may also involve 14-3-3 proteins. By competing with other binding partners of beta-catenin, the Tcf/Lef transcription factors, Cby inhibits transcriptional activation. Cby has been shown to play a role in adipocyte differentiation. The C-terminal region of Cby appears to contain an alpha-helical coiled-coil motif.
Probab=85.34 E-value=1.7 Score=33.58 Aligned_cols=25 Identities=28% Similarity=0.310 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 153 IRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 153 i~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+..|++|.+.|+|||+.|+-|++-+
T Consensus 74 ~~rlkkk~~~LeEENNlLklKievL 98 (108)
T cd07429 74 VLRLKKKNQQLEEENNLLKLKIEVL 98 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566778889999999999998754
No 18
>PRK10884 SH3 domain-containing protein; Provisional
Probab=85.09 E-value=18 Score=31.17 Aligned_cols=77 Identities=9% Similarity=0.159 Sum_probs=42.1
Q ss_pred chHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVK--DMKEQVLLEQIRRSRLMEQKAMLENETL 170 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR--~rK~qll~~qi~~Lk~Ke~~l~eeN~~L 170 (253)
....+..++++++.++.++..+.++ .+ .....+.+.++.+-..|. ...++-|.+++..++.+...|..+|..+
T Consensus 91 ~~~rlp~le~el~~l~~~l~~~~~~-~~----~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~ 165 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNNIDNT-WN----QRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK 165 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH-HH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677788888888888877766543 11 333344444443333333 2333344555555555555555555555
Q ss_pred HHHH
Q 039982 171 RKQM 174 (253)
Q Consensus 171 ~~~~ 174 (253)
+..+
T Consensus 166 ~~~~ 169 (206)
T PRK10884 166 QRTI 169 (206)
T ss_pred HHHH
Confidence 5443
No 19
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=84.31 E-value=15 Score=28.96 Aligned_cols=31 Identities=19% Similarity=0.211 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
..|..+|..++++...|...|..|..+|+.+
T Consensus 101 ~~le~e~~~~~~r~~dL~~QN~lLh~QlE~l 131 (132)
T PF07926_consen 101 EQLEKELSELEQRIEDLNEQNKLLHDQLESL 131 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4678999999999999999999999998754
No 20
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=81.45 E-value=3.3 Score=28.47 Aligned_cols=32 Identities=22% Similarity=0.258 Sum_probs=26.3
Q ss_pred HhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039982 113 RMNGQELDGLSFKELQQLEHQLSEGMLSVKDM 144 (253)
Q Consensus 113 ~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~r 144 (253)
+..|+||+.||++||..--..|+.-+.+++.-
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAA 43 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 56799999999999998887777777777654
No 21
>smart00340 HALZ homeobox associated leucin zipper.
Probab=81.43 E-value=5.1 Score=25.53 Aligned_cols=31 Identities=23% Similarity=0.190 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 039982 153 IRRSRLMEQKAMLENETLRKQMEELRRSSSR 183 (253)
Q Consensus 153 i~~Lk~Ke~~l~eeN~~L~~~~~~~~~~~~~ 183 (253)
.+.|++=-..|-+||.+|+++++++......
T Consensus 7 Ce~LKrcce~LteeNrRL~ke~~eLralk~~ 37 (44)
T smart00340 7 CELLKRCCESLTEENRRLQKEVQELRALKLS 37 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 4678888888999999999999999876433
No 22
>PF10584 Proteasome_A_N: Proteasome subunit A N-terminal signature; InterPro: IPR000426 The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). This family contains the alpha subunit sequences which range from 210 to 290 amino acids. These sequences are classified as non-peptidase homologues in MEROPS peptidase family T1 (clan PB(T)). ; GO: 0004175 endopeptidase activity, 0006511 ubiquitin-dependent protein catabolic process, 0019773 proteasome core complex, alpha-subunit complex; PDB: 3H4P_M 1IRU_O 3UN4_U 1FNT_A 3OEV_G 3OEU_U 3SDK_U 3DY3_G 3MG7_G 3L5Q_C ....
Probab=81.35 E-value=0.14 Score=28.39 Aligned_cols=13 Identities=31% Similarity=0.836 Sum_probs=10.4
Q ss_pred EEEEEecCCcccc
Q 039982 44 GVIVFSSTGKLYE 56 (253)
Q Consensus 44 alIifS~~gkl~e 56 (253)
.+.+|||.|+||.
T Consensus 4 ~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 4 SITTFSPDGRLFQ 16 (23)
T ss_dssp STTSBBTTSSBHH
T ss_pred CceeECCCCeEEe
Confidence 3458999999974
No 23
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=79.71 E-value=31 Score=34.38 Aligned_cols=82 Identities=22% Similarity=0.310 Sum_probs=54.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCC--CCCCCCHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQ--ELDGLSFKELQQLEHQLSEGMLSVK-----DMKEQVLLEQIRRSRLMEQKAMLE 166 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~Ge--dL~~Ls~~EL~~LE~~Le~sL~~IR-----~rK~qll~~qi~~Lk~Ke~~l~ee 166 (253)
..++.++.+.++.|+.+++.+..+ .+. +++..|+..|+..-.+++ .|+-+.+...|..|+++..+-...
T Consensus 421 ~~~i~~~~~~ve~l~~e~~~L~~~~ee~k----~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ 496 (652)
T COG2433 421 EKRIKKLEETVERLEEENSELKRELEELK----REIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKR 496 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555556665555554432 111 567777777777766665 345566778899999888887888
Q ss_pred HHHHHHHHHHHhh
Q 039982 167 NETLRKQMEELRR 179 (253)
Q Consensus 167 N~~L~~~~~~~~~ 179 (253)
-..|..++..+..
T Consensus 497 ve~L~~~l~~l~k 509 (652)
T COG2433 497 VEELERKLAELRK 509 (652)
T ss_pred HHHHHHHHHHHHH
Confidence 8888888776653
No 24
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=78.79 E-value=32 Score=31.47 Aligned_cols=80 Identities=15% Similarity=0.210 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHHhc--CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 100 LKDEYARLRLAYMRMN--GQELDGLSFKELQQLEHQLSEGMLSVKDMKEQV--LLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 100 Lk~ei~~Lq~~~r~l~--GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~ql--l~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
++.....|+.++.++. -++++.++.++|..+...|..-...|..++.++ +.++...+..+.....+.-..+..++.
T Consensus 177 l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~ 256 (312)
T smart00787 177 LRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIA 256 (312)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444443 257889999999999999999988888877764 345666666666666666666666666
Q ss_pred HHhh
Q 039982 176 ELRR 179 (253)
Q Consensus 176 ~~~~ 179 (253)
+...
T Consensus 257 ~ae~ 260 (312)
T smart00787 257 EAEK 260 (312)
T ss_pred HHHH
Confidence 5543
No 25
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=78.17 E-value=43 Score=30.61 Aligned_cols=62 Identities=18% Similarity=0.279 Sum_probs=47.5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 117 QELDGLSFKELQQLEHQLSEGMLSVKDMKEQV--LLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 117 edL~~Ls~~EL~~LE~~Le~sL~~IR~rK~ql--l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
.+++.++.++|..|-..|...-..|.++|..+ +..+...++.+...+.++-..+..++.+..
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~ 264 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAE 264 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45889999999999999999988888877764 446666777777777777777777666554
No 26
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=75.99 E-value=14 Score=28.54 Aligned_cols=25 Identities=36% Similarity=0.307 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 148 VLLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 148 ll~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
.|.++|.+|..+...|++||..|+.
T Consensus 71 ~Lk~qI~eL~er~~~Le~EN~lLk~ 95 (123)
T KOG4797|consen 71 VLKEQIRELEERNSALERENSLLKT 95 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444454555555555554443
No 27
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=75.30 E-value=20 Score=23.70 Aligned_cols=38 Identities=24% Similarity=0.240 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 137 GMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 137 sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
+-.+.|.+|.+ .+..|..+...|..+|..|..++..+.
T Consensus 15 AA~r~R~rkk~----~~~~le~~~~~L~~en~~L~~~i~~L~ 52 (54)
T PF07716_consen 15 AARRSRQRKKQ----REEELEQEVQELEEENEQLRQEIAQLE 52 (54)
T ss_dssp HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44556666644 458889999999999999999987764
No 28
>smart00338 BRLZ basic region leucin zipper.
Probab=73.77 E-value=18 Score=24.69 Aligned_cols=39 Identities=28% Similarity=0.383 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 137 GMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 137 sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
+-.+.|.||.. .+..|..+...|..+|..|..++..+..
T Consensus 16 aA~~~R~rKk~----~~~~Le~~~~~L~~en~~L~~~~~~l~~ 54 (65)
T smart00338 16 AARRSRERKKA----EIEELERKVEQLEAENERLKKEIERLRR 54 (65)
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556777655 4688888888999999999888877654
No 29
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=72.88 E-value=22 Score=24.22 Aligned_cols=38 Identities=26% Similarity=0.319 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 137 GMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 137 sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
+-.+.|.||... |+.|+.+...|..+|..|...+..+.
T Consensus 16 AAr~~R~RKk~~----~~~Le~~~~~L~~en~~L~~~~~~L~ 53 (64)
T PF00170_consen 16 AARRSRQRKKQY----IEELEEKVEELESENEELKKELEQLK 53 (64)
T ss_dssp HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhh----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777554 57788888888888888877776654
No 30
>PRK10884 SH3 domain-containing protein; Provisional
Probab=71.37 E-value=32 Score=29.54 Aligned_cols=67 Identities=12% Similarity=0.103 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 98 NALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 98 ~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
..++.++..++.++..+. .+|.++..+.+.....+..+-.+ ..++|..|+.+-..|.++...++.++
T Consensus 89 p~~~~rlp~le~el~~l~---------~~l~~~~~~~~~~~~~l~~~~~~-~~~~~~~L~~~n~~L~~~l~~~~~~~ 155 (206)
T PRK10884 89 PSLRTRVPDLENQVKTLT---------DKLNNIDNTWNQRTAEMQQKVAQ-SDSVINGLKEENQKLKNQLIVAQKKV 155 (206)
T ss_pred ccHHHHHHHHHHHHHHHH---------HHHHHHHhHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457788888887765544 34555554444333333222211 22334444444444444444444443
No 31
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=71.28 E-value=22 Score=29.22 Aligned_cols=50 Identities=20% Similarity=0.217 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 95 AELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 95 ~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
..+..|+.+++.++..+..+.+ +-...+.+|...++.......+..+.||
T Consensus 116 ~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~~~~~~~~~~~~k~w~kRK 165 (169)
T PF07106_consen 116 EEIEELEEEIEELEEKLEKLRS-GSKPVSPEEKEKLEKEYKKWRKEWKKRK 165 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444333333 2222444444444444444444444443
No 32
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=70.54 E-value=29 Score=30.10 Aligned_cols=52 Identities=19% Similarity=0.222 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSEGMLSVKDMK--EQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK--~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
..|+..|+..++..-+..-... ..-|..|.+.+++....|.++|..|+.+++
T Consensus 157 ~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~ 210 (216)
T KOG1962|consen 157 KADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIE 210 (216)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHh
Confidence 4567777777776655554433 335678888888889999999999998874
No 33
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=69.72 E-value=32 Score=26.55 Aligned_cols=48 Identities=27% Similarity=0.378 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
++.+.+||.+|-..+..|-.-|.++ ..|=..-..|.-||..||..+.+
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK~~l-----~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLKQHL-----GSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHhhHHHHhhHHHHHHHhCC
Confidence 4678888888887777666655443 34444444555555556655543
No 34
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=69.22 E-value=19 Score=27.73 Aligned_cols=33 Identities=33% Similarity=0.387 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
..|.++|..|+.....|.+||..|+-+-+.++.
T Consensus 18 ~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~ 50 (107)
T PF06156_consen 18 GQLLEELEELKKQLQELLEENARLRIENEHLRE 50 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456789999999999999999999998877754
No 35
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=68.39 E-value=26 Score=28.89 Aligned_cols=31 Identities=13% Similarity=0.131 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
..+..+...|..+...|+.+|+.|..++...
T Consensus 85 d~~~~e~k~L~~~v~~Le~e~r~L~~~~~~~ 115 (158)
T PF09744_consen 85 DQWRQERKDLQSQVEQLEEENRQLELKLKNL 115 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 3556667788888888899998888776544
No 36
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=67.82 E-value=35 Score=28.18 Aligned_cols=45 Identities=24% Similarity=0.236 Sum_probs=36.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Q 039982 123 SFKELQQLEHQLSEGMLSVKDM---KEQVLLEQIRRSRLMEQKAMLEN 167 (253)
Q Consensus 123 s~~EL~~LE~~Le~sL~~IR~r---K~qll~~qi~~Lk~Ke~~l~eeN 167 (253)
+..+|-.|-++++.+..-+|++ |-.+|.+||..|+.+-+.+.++-
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~~ 75 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEEA 75 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778999999999999888876 56688899999998876666543
No 37
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=66.95 E-value=42 Score=25.57 Aligned_cols=46 Identities=15% Similarity=0.252 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 131 EHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 131 E~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+.-.+.++..+..|++.+ ...|..|.++...+...-..+..++.++
T Consensus 62 ~~~~~e~~~~l~~r~e~i-e~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 62 KTDKEEAIQELKEKKETL-ELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred eecHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666665443 6677777777777777777777766554
No 38
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=64.89 E-value=13 Score=28.66 Aligned_cols=48 Identities=15% Similarity=0.144 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 131 EHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 131 E~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
.+.+|.++.-|+..-+=...++++.|+.+.+.|.+.|..|.++-.-+.
T Consensus 47 DNKIeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk 94 (123)
T KOG4797|consen 47 DNKIEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALERENSLLK 94 (123)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666665666679999999999999999999998755444
No 39
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=64.09 E-value=1.3e+02 Score=31.76 Aligned_cols=85 Identities=19% Similarity=0.342 Sum_probs=51.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHhc------CCCCCCCCHHHHHHHHH---HHHHHHHHHHHH------HHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLAYMRMN------GQELDGLSFKELQQLEH---QLSEGMLSVKDM------KEQVLLEQIRRSR 157 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~~r~l~------GedL~~Ls~~EL~~LE~---~Le~sL~~IR~r------K~qll~~qi~~Lk 157 (253)
++.|+..+++.++.|+..+.-+. |-+....|-=++.+||. .|..+|-+.|.- -.+.+..+.+..+
T Consensus 330 LQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRDlsA~ek~d~qK~~kelE~k~ 409 (1243)
T KOG0971|consen 330 LQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRDLSASEKQDHQKLQKELEKKN 409 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh
Confidence 57777888888888877643322 55555566555555554 578888887753 2234445555555
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 039982 158 LMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 158 ~Ke~~l~eeN~~L~~~~~~~ 177 (253)
.....|......|..++..+
T Consensus 410 sE~~eL~r~kE~Lsr~~d~a 429 (1243)
T KOG0971|consen 410 SELEELRRQKERLSRELDQA 429 (1243)
T ss_pred hHHHHHHHHHHHHHHHHHHH
Confidence 55555666666666655443
No 40
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=64.03 E-value=46 Score=32.07 Aligned_cols=61 Identities=23% Similarity=0.412 Sum_probs=36.5
Q ss_pred eeEEecCCCCc-ccccc---ccc-------cchhhhhh-hhhcccCCceEEEEEecCCcccccccchhhhhhhhhcccch
Q 039982 7 EIKKIENLNSR-QVTFS---KRR-------NGLLKKAK-ELSVLCDADVGVIVFSSTGKLYEFSSSSMEHILSRYSKGID 74 (253)
Q Consensus 7 ~ikrIen~~~R-qvTFs---KRr-------~GL~KKA~-ELSvLCdaevalIifS~~gkl~e~~s~sm~~iieRY~~~~~ 74 (253)
.|+-|.+.+.| .|.|- ||. ++|+|+-. +-++-| -+++|.++|++..| ++.+||..|-.+--
T Consensus 257 ~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t~L~~s~~~----Nm~~~~~~g~p~~~---~l~~iL~~f~~~R~ 329 (445)
T cd00187 257 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQTTFGI----NMVAFDPNGRPKKL---NLKEILQEFLDHRL 329 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhcCCceeeee----eEEEEecCCeeEEe---CHHHHHHHHHHHHH
Confidence 35666666666 34442 232 35554432 233333 66788889998888 78888888865443
No 41
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=63.45 E-value=25 Score=26.83 Aligned_cols=34 Identities=15% Similarity=0.207 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 146 EQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 146 ~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
..-+..++..++++...+.++|..|+.++..+..
T Consensus 29 ~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 29 YWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 3445667788888888888888888888877643
No 42
>PRK11637 AmiB activator; Provisional
Probab=63.10 E-value=98 Score=29.31 Aligned_cols=51 Identities=14% Similarity=0.182 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQ--VLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~q--ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
.+|..|+.+|...-..|.....+ .+..+|+.++++...++.+-..++..+.
T Consensus 75 ~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~ 127 (428)
T PRK11637 75 AQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLLA 127 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666777776666666555443 3456666666666655555555555443
No 43
>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=63.02 E-value=87 Score=25.92 Aligned_cols=59 Identities=15% Similarity=0.173 Sum_probs=42.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 119 LDGLSFKELQQLEHQLSEGMLSVKD--MKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 119 L~~Ls~~EL~~LE~~Le~sL~~IR~--rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
...|++++....-+.+......... .-.+-+.+++..|+.+...|..+|..|.+++..+
T Consensus 77 ~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~~ 137 (161)
T TIGR02894 77 AGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLSTI 137 (161)
T ss_pred cccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999988888888765333322 2234667788888888888888888887776554
No 44
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=62.93 E-value=71 Score=26.92 Aligned_cols=100 Identities=16% Similarity=0.113 Sum_probs=43.8
Q ss_pred CCcccccccchhhhhhhhhcccchhhhhcccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHH
Q 039982 51 TGKLYEFSSSSMEHILSRYSKGIDLECQTNRNEEHGVPELPPKSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQL 130 (253)
Q Consensus 51 ~gkl~e~~s~sm~~iieRY~~~~~~~~~~~~~~~~~~~~lq~~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~L 130 (253)
.|-|..-.-..+..+|++|..... ........... + .......+..++..|+.+...+... +.+|..-
T Consensus 82 RGlLL~rvrde~~~~l~~y~~l~~---s~~~f~~rk~l--~-~e~~~~~l~~~i~~L~~e~~~L~~~------~~~l~~~ 149 (189)
T PF10211_consen 82 RGLLLLRVRDEYRMTLDAYQTLYE---SSIAFGMRKAL--Q-AEQGKQELEEEIEELEEEKEELEKQ------VQELKNK 149 (189)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHH--H-HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHH
Confidence 455544333556777777766544 11110000000 0 0122344555555555554443332 2233333
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 131 EHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQK 162 (253)
Q Consensus 131 E~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~ 162 (253)
...++......+....+...++|+.|++....
T Consensus 150 ~e~~ek~~~e~~~~~~k~~~~ei~~lk~~~~q 181 (189)
T PF10211_consen 150 CEQLEKREEELRQEEEKKHQEEIDFLKKQNQQ 181 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444445555555555554333
No 45
>PRK11637 AmiB activator; Provisional
Probab=62.91 E-value=92 Score=29.49 Aligned_cols=10 Identities=10% Similarity=0.295 Sum_probs=3.6
Q ss_pred HHHHHHHHHH
Q 039982 98 NALKDEYARL 107 (253)
Q Consensus 98 ~kLk~ei~~L 107 (253)
..+++++..+
T Consensus 50 ~~l~~qi~~~ 59 (428)
T PRK11637 50 KSIQQDIAAK 59 (428)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 46
>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=62.54 E-value=37 Score=24.18 Aligned_cols=36 Identities=25% Similarity=0.291 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 144 MKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 144 rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
.|-+-..+.|..|+.+...|.++|..|...-..+..
T Consensus 11 ~ki~~aveti~~Lq~e~eeLke~n~~L~~e~~~L~~ 46 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEELKEKNNELKEENEELKE 46 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 455666777888888888888888888776655543
No 47
>PF01502 PRA-CH: Phosphoribosyl-AMP cyclohydrolase; InterPro: IPR002496 Phosphoribosyl-AMP cyclohydrolase 3.5.4.19 from EC catalyses the third step in the histidine biosynthetic pathway: 5-phosphoribosyl-AMP + H2O = 5-(5-phospho-D-ribosylaminoformimino)-1-(5-phospho-ribosyl) imidazole-4-carboxamide It requires Zn2+ ions for activity [].; GO: 0004635 phosphoribosyl-AMP cyclohydrolase activity, 0000105 histidine biosynthetic process; PDB: 1ZPS_B.
Probab=61.17 E-value=4.4 Score=29.19 Aligned_cols=36 Identities=31% Similarity=0.535 Sum_probs=28.0
Q ss_pred ccc-ccccccchhhh---------hhhhhcccCCceEEEEEecCCc
Q 039982 18 QVT-FSKRRNGLLKK---------AKELSVLCDADVGVIVFSSTGK 53 (253)
Q Consensus 18 qvT-FsKRr~GL~KK---------A~ELSvLCdaevalIifS~~gk 53 (253)
.+| ||+-|++|-.| +.|+.+-||.|.-|+..-|.|.
T Consensus 18 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 18 RATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp B-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred cEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 444 68888888766 6789999999999999999887
No 48
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=61.01 E-value=59 Score=27.15 Aligned_cols=54 Identities=31% Similarity=0.316 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 125 KELQQLEHQLSEGMLSVK----------DMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR----------~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
.+|..++..++..-+... ..+..-..++|+.|+++......+...|++|.+.+.
T Consensus 125 ~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~ 188 (192)
T PF05529_consen 125 KELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQ 188 (192)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666665555543 234556788999999999889999999999887664
No 49
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=59.95 E-value=18 Score=30.11 Aligned_cols=46 Identities=15% Similarity=0.238 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 127 LQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 127 L~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
|.++|..+..++.+-----.+| ++-+.|+.+.+.|.+|-..|++++
T Consensus 2 LeD~EsklN~AIERnalLE~EL--dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 2 LEDFESKLNQAIERNALLESEL--DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHhHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777776543333333 444455556666666666666665
No 50
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=58.28 E-value=26 Score=24.49 Aligned_cols=30 Identities=27% Similarity=0.318 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 148 VLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 148 ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
-+..++..|+++...+..+|..|..++..+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455778899999999999999999998877
No 51
>PLN02372 violaxanthin de-epoxidase
Probab=57.00 E-value=1.8e+02 Score=27.77 Aligned_cols=43 Identities=19% Similarity=0.265 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 97 LNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLE 151 (253)
Q Consensus 97 ~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~ 151 (253)
+++|.+..+..++.+ ++|..++|.+|+.-+..|+..-..++..
T Consensus 363 ~~~l~~~~e~~e~~i------------~~e~~~~~~e~~~~v~~~~~~~~~~~~~ 405 (455)
T PLN02372 363 LERLEKDVEEGEKTI------------VKEARQIEEELEKEVEKLGKEEESLFKR 405 (455)
T ss_pred HHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777777777765 4568999999999999998877776655
No 52
>PF14645 Chibby: Chibby family
Probab=56.71 E-value=22 Score=27.77 Aligned_cols=27 Identities=33% Similarity=0.331 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 151 EQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 151 ~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
.....++++.+.|.|||+.|+-|++-+
T Consensus 71 ~~~~~l~~~n~~L~EENN~Lklk~elL 97 (116)
T PF14645_consen 71 EENQRLRKENQQLEEENNLLKLKIELL 97 (116)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667778888999999999887543
No 53
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=56.70 E-value=44 Score=25.84 Aligned_cols=33 Identities=27% Similarity=0.365 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
..+.+++..|+.....+.+||..|+-.-..++.
T Consensus 18 ~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~ 50 (110)
T PRK13169 18 GVLLKELGALKKQLAELLEENTALRLENDKLRE 50 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788999999999999999999998766654
No 54
>PRK04098 sec-independent translocase; Provisional
Probab=55.40 E-value=2.8 Score=34.54 Aligned_cols=30 Identities=20% Similarity=0.317 Sum_probs=17.8
Q ss_pred eEEEEEecCCcccccccchhhhhhhhhcccch
Q 039982 43 VGVIVFSSTGKLYEFSSSSMEHILSRYSKGID 74 (253)
Q Consensus 43 valIifS~~gkl~e~~s~sm~~iieRY~~~~~ 74 (253)
||||||+|. ||++.. ..+...|-.|++...
T Consensus 15 VaLlvfGP~-KLP~~~-r~lGk~ir~~K~~~~ 44 (158)
T PRK04098 15 VAIIFLGPD-KLPQAM-VDIAKFFKAVKKTIN 44 (158)
T ss_pred HHHhhcCch-HHHHHH-HHHHHHHHHHHHHHH
Confidence 688999876 666543 234445555555443
No 55
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=54.92 E-value=1.2e+02 Score=29.11 Aligned_cols=29 Identities=17% Similarity=0.348 Sum_probs=22.5
Q ss_pred eEEEEEecCCcccccccchhhhhhhhhcccc
Q 039982 43 VGVIVFSSTGKLYEFSSSSMEHILSRYSKGI 73 (253)
Q Consensus 43 valIifS~~gkl~e~~s~sm~~iieRY~~~~ 73 (253)
+-+++|.++|++..| .++.+||..|-.+-
T Consensus 299 ~Nm~~~d~~g~~~~~--~~~~~Il~~f~~~R 327 (439)
T PHA02592 299 QNITVINENGKLKVY--ENAEDLIRDFVEIR 327 (439)
T ss_pred eeEEEEecCCeeeec--CCHHHHHHHHHHHH
Confidence 667889999998877 56888888885543
No 56
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=54.89 E-value=8.3 Score=29.81 Aligned_cols=38 Identities=24% Similarity=0.444 Sum_probs=28.4
Q ss_pred cccc-ccccccchhhh---------hhhhhcccCCceEEEEEecCCcc
Q 039982 17 RQVT-FSKRRNGLLKK---------AKELSVLCDADVGVIVFSSTGKL 54 (253)
Q Consensus 17 RqvT-FsKRr~GL~KK---------A~ELSvLCdaevalIifS~~gkl 54 (253)
+.++ ||+=|+-|-+| ..|+.+-||.|+-+|+..+.|.+
T Consensus 49 g~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg~ 96 (111)
T COG0139 49 GEAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGGP 96 (111)
T ss_pred CeEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCCC
Confidence 3344 56666645555 78999999999999999996654
No 57
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=54.37 E-value=56 Score=34.60 Aligned_cols=47 Identities=23% Similarity=0.249 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 134 LSEGMLSVKDMKEQ-VLLEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 134 Le~sL~~IR~rK~q-ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
|+.-|.+.|+|=+. -+..+|-.|++|...+..++...+.|++++...
T Consensus 283 LeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kteeL~eE 330 (1195)
T KOG4643|consen 283 LEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEELHEE 330 (1195)
T ss_pred HHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 45555555555443 344566666666666666666666666666544
No 58
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=54.07 E-value=1.2e+02 Score=27.08 Aligned_cols=38 Identities=24% Similarity=0.277 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 143 DMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 143 ~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
.+.++.|..+|..-++-+..+.++...|+..|+.+...
T Consensus 185 ~~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L~~~ 222 (258)
T PF15397_consen 185 TLENQVMQKEIVQFREEIDELEEEIPQLRAEVEQLQAQ 222 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36677888888888888999999999999999888654
No 59
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=52.59 E-value=54 Score=24.77 Aligned_cols=48 Identities=19% Similarity=0.106 Sum_probs=37.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 118 ELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 118 dL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
..+.++++++ |++.-......+++.|+.+...+..+|..|..+|.+..
T Consensus 60 ~~~~l~P~~~-------------i~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 60 WRHSLTPEED-------------IRAHLAPYKKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred CCCCCChHHH-------------HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4566777765 44455555677889999999999999999999997764
No 60
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=52.05 E-value=2.1e+02 Score=28.37 Aligned_cols=20 Identities=15% Similarity=0.114 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 039982 154 RRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 154 ~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
..++.+...|.++...|.++
T Consensus 216 ~e~~~ri~~LEedi~~l~qk 235 (546)
T PF07888_consen 216 AEARQRIRELEEDIKTLTQK 235 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 61
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=52.01 E-value=17 Score=34.93 Aligned_cols=57 Identities=16% Similarity=0.117 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLL-----------------------EQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~-----------------------~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+.++.+.--|-+.=|..|++||-+...... .|-.+|++|+..|..+|..|..++..+
T Consensus 233 G~slPs~lPLTKaEEriLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL~kl 312 (472)
T KOG0709|consen 233 GYSLPSKLPLTKAEERILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQLKKL 312 (472)
T ss_pred cCcCcccCCchHHHHHHHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHHHHH
Confidence 444555666666667777877754433332 233456666666666666666666544
No 62
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=51.91 E-value=90 Score=28.58 Aligned_cols=50 Identities=22% Similarity=0.285 Sum_probs=33.3
Q ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 129 QLEHQLSEGMLSVKDMKEQ--VLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 129 ~LE~~Le~sL~~IR~rK~q--ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
.|..-|..........-.+ -|+.+|-.|++|.+.+.-||..|.+.+....
T Consensus 217 ~LseELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~~EnEeL~q~L~~sk 268 (306)
T PF04849_consen 217 SLSEELARKTEENRRQQEEITSLLSQIVDLQQRCKQLAAENEELQQHLQASK 268 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence 3334444433333333333 3567888999999999999999999887653
No 63
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. 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 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=50.08 E-value=93 Score=23.55 Aligned_cols=53 Identities=15% Similarity=0.154 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
++|++|+..+=.....+-..+. ....++.+++..+.++...|...-..|..++
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTIP-ERLELLEEHREELEEQIAELQETLAYLDYKI 109 (113)
T ss_pred CCCHHHHHHHHHHHccCCccHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5888888876544332211122 2235677777777777777666666665554
No 64
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=49.93 E-value=61 Score=29.20 Aligned_cols=60 Identities=28% Similarity=0.429 Sum_probs=39.8
Q ss_pred CCccccccccccch---------hhhhhhhhcccCCceEEEEEecCCcc-------ccccc-----chhhhhhh-hhccc
Q 039982 15 NSRQVTFSKRRNGL---------LKKAKELSVLCDADVGVIVFSSTGKL-------YEFSS-----SSMEHILS-RYSKG 72 (253)
Q Consensus 15 ~~RqvTFsKRr~GL---------~KKA~ELSvLCdaevalIifS~~gkl-------~e~~s-----~sm~~iie-RY~~~ 72 (253)
+.|-|-||+-|+.| +-+--.++|-||-|.-..+.-++|+- ..|.. -+.+.||. |-+..
T Consensus 180 ~g~gvy~SRsR~~lW~KGetSgn~q~ll~i~vDCD~D~l~f~v~q~g~gfCHl~t~~Cfg~~~~gL~~LEs~l~~Rk~~a 259 (359)
T KOG4311|consen 180 SGKGVYFSRSRSTLWTKGETSGNFQNLLDIYVDCDRDSLIFLVTQDGPGFCHLGTETCFGTSVFGLYSLESILSKRKETA 259 (359)
T ss_pred cCcceEEecccceeeeccccCcCceeeEEEeeccCccceEEEEecCCCcccccCcceeeeeechhhhhHHHHHHHhhhcC
Confidence 45667778877745 44456889999999888888888873 22432 35777774 44444
Q ss_pred ch
Q 039982 73 ID 74 (253)
Q Consensus 73 ~~ 74 (253)
|+
T Consensus 260 Pe 261 (359)
T KOG4311|consen 260 PE 261 (359)
T ss_pred Cc
Confidence 44
No 65
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=49.73 E-value=1.6e+02 Score=28.52 Aligned_cols=71 Identities=18% Similarity=0.233 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
+.++..|..+++.|..++..+.. ....+..+++.+|...| +-+.++++.|+.....++..-..|..+
T Consensus 72 r~~~~~l~~~N~~l~~eN~~L~~---------r~~~id~~i~~av~~~~----~~~~~~~~ql~~~~~~~~~~l~~l~~~ 138 (472)
T TIGR03752 72 RKRLAKLISENEALKAENERLQK---------REQSIDQQIQQAVQSET----QELTKEIEQLKSERQQLQGLIDQLQRR 138 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------hhhhHHHHHHHHHHhhh----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555443322 12345555555555544 445567777777777777777777777
Q ss_pred HHHH
Q 039982 174 MEEL 177 (253)
Q Consensus 174 ~~~~ 177 (253)
+..+
T Consensus 139 l~~~ 142 (472)
T TIGR03752 139 LAGV 142 (472)
T ss_pred Hhhc
Confidence 7544
No 66
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.83 E-value=57 Score=29.62 Aligned_cols=44 Identities=27% Similarity=0.339 Sum_probs=34.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 118 ELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETL 170 (253)
Q Consensus 118 dL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L 170 (253)
+-.+||.+|-..| -+||.||.+|+ ++|+.|+.......+|-..|
T Consensus 7 ep~~Ls~~E~~eL--------~~ir~rk~qL~-deIq~Lk~Ei~ev~~eid~~ 50 (395)
T KOG0930|consen 7 EPNDLSEEERMEL--------ENIRRRKQELL-DEIQRLKDEIAEVMEEIDNL 50 (395)
T ss_pred CCCCCCHHHHHhH--------HHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhh
Confidence 4567888887766 57999998875 78999999888887776655
No 67
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=47.86 E-value=58 Score=24.59 Aligned_cols=34 Identities=18% Similarity=0.147 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 146 EQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 146 ~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
=|+..++.+-|+++...+.++|..|..++..+..
T Consensus 10 LqFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~ 43 (96)
T PF11365_consen 10 LQFVEEEAELLRRKLSELEDENKQLTEELNKYKS 43 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567789999999999999999999999988754
No 68
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=47.73 E-value=19 Score=27.14 Aligned_cols=21 Identities=24% Similarity=0.056 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 039982 149 LLEQIRRSRLMEQKAMLENET 169 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~ 169 (253)
...||..|..|+..|+-||..
T Consensus 74 a~~qi~~Ls~kv~eLq~ENRv 94 (96)
T PF11365_consen 74 AREQINELSGKVMELQYENRV 94 (96)
T ss_pred HHHHHHHHhhHHHHHhhcccc
Confidence 446789999999999988863
No 69
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=47.40 E-value=1.6e+02 Score=24.19 Aligned_cols=80 Identities=15% Similarity=0.193 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHHHh--cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHH
Q 039982 95 AELNALKDEYARLRLAYMRM--NGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVL---------LEQIRRSRLMEQKA 163 (253)
Q Consensus 95 ~e~~kLk~ei~~Lq~~~r~l--~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll---------~~qi~~Lk~Ke~~l 163 (253)
-....++.++..++..+++. +|++ |.+-|..+|.-.-..-..+|.+|-.+|. +..+...+.|...+
T Consensus 13 l~~~~lk~~l~k~~~ql~~ke~lge~---L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~ 89 (177)
T PF13870_consen 13 LKNITLKHQLAKLEEQLRQKEELGEG---LHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFL 89 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666666666666554 3544 5566666666666666666655554443 34556677788888
Q ss_pred HHHHHHHHHHHHHH
Q 039982 164 MLENETLRKQMEEL 177 (253)
Q Consensus 164 ~eeN~~L~~~~~~~ 177 (253)
..++..++..+...
T Consensus 90 ~~~~~~l~~~l~~~ 103 (177)
T PF13870_consen 90 SEELERLKQELKDR 103 (177)
T ss_pred HHHHHHHHHHHHHH
Confidence 88888887776543
No 70
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=46.90 E-value=2e+02 Score=25.16 Aligned_cols=8 Identities=0% Similarity=0.459 Sum_probs=3.7
Q ss_pred cccchhhh
Q 039982 57 FSSSSMEH 64 (253)
Q Consensus 57 ~~s~sm~~ 64 (253)
||...+..
T Consensus 13 ~C~~C~~~ 20 (302)
T PF10186_consen 13 YCANCVNN 20 (302)
T ss_pred ECHHHHHH
Confidence 55544443
No 71
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=46.63 E-value=82 Score=21.02 Aligned_cols=45 Identities=18% Similarity=0.233 Sum_probs=20.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLE 166 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~ee 166 (253)
|+|++|++++=..-+..-....... +++.++++.+.++...|..-
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~~~~~-~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPCADRR-ALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 5778888877622111112222222 55555566666555554443
No 72
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer 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=46.40 E-value=89 Score=23.83 Aligned_cols=56 Identities=13% Similarity=-0.012 Sum_probs=28.5
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
-+++++|+..+=...+..-...-..-..++.++++.+.++...+...-..|...+.
T Consensus 55 ~G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (116)
T cd04769 55 LGFTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEA 110 (116)
T ss_pred cCCCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35777788777555443211111222345555555555555555555555554443
No 73
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=45.49 E-value=1.1e+02 Score=29.72 Aligned_cols=32 Identities=25% Similarity=0.207 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
++|..+...++.|...+..||..|+.+++...
T Consensus 93 q~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~ 124 (475)
T PRK13729 93 DVLNKQRGDDQRRIEKLGQDNAALAEQVKALG 124 (475)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 45667778888899999999999999996543
No 74
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=45.41 E-value=77 Score=26.95 Aligned_cols=29 Identities=31% Similarity=0.350 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 144 MKEQVLLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 144 rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
|+-|....+|..|+.--+.|+++|+.|+.
T Consensus 48 rrlQ~hl~EIR~LKe~NqkLqedNqELRd 76 (195)
T PF10226_consen 48 RRLQQHLNEIRGLKEVNQKLQEDNQELRD 76 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555566666666666666666654
No 75
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=45.10 E-value=82 Score=20.23 Aligned_cols=36 Identities=22% Similarity=0.225 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 144 MKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 144 rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
+=...|...-+.|+..-..|..||..|+.++..+..
T Consensus 5 ~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~ 40 (45)
T PF02183_consen 5 RDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKE 40 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334567778899999999999999999999877643
No 76
>PF14282 FlxA: FlxA-like protein
Probab=44.86 E-value=1.4e+02 Score=22.70 Aligned_cols=57 Identities=14% Similarity=0.227 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLEN 167 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN 167 (253)
...+..|+++|..|+..+..+... .+++.++ +..|.++|..||..|+.....+..+-
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~--~~~~~e~---------------k~~q~q~Lq~QI~~LqaQI~qlq~q~ 74 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQD--SDLDAEQ---------------KQQQIQLLQAQIQQLQAQIAQLQSQQ 74 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc--cCCCHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999888773 2334443 34667777788888877766655443
No 77
>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=44.46 E-value=85 Score=21.95 Aligned_cols=29 Identities=24% Similarity=0.176 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 149 LLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
|.+.|+.|=..-..|..||..|+.++...
T Consensus 5 Le~kle~Li~~~~~L~~EN~~Lr~q~~~~ 33 (65)
T TIGR02449 5 LAAQVEHLLEYLERLKSENRLLRAQEKTW 33 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555566666666666666665544
No 78
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=44.25 E-value=2.1e+02 Score=26.70 Aligned_cols=92 Identities=20% Similarity=0.267 Sum_probs=52.3
Q ss_pred chhhhhhhhhcccchhhhhcccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHH
Q 039982 60 SSMEHILSRYSKGIDLECQTNRNEEHGVPELPPKSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGML 139 (253)
Q Consensus 60 ~sm~~iieRY~~~~~~~~~~~~~~~~~~~~lq~~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~ 139 (253)
..+..+.+||..... -....+.. ....++.++.++...|+.-... +.++.+++..|+.+-.
T Consensus 7 ~kl~~~~~r~~el~~---~L~~p~v~------~d~~~~~~lske~a~l~~iv~~----------~~~~~~~~~~l~~a~~ 67 (363)
T COG0216 7 EKLESLLERYEELEA---LLSDPEVI------SDPDEYRKLSKEYAELEPIVEK----------YREYKKAQEDLEDAKE 67 (363)
T ss_pred HHHHHHHHHHHHHHH---HhcCcccc------cCHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHH
Confidence 467888999987665 11111101 1256777777777777654332 3345555555554444
Q ss_pred HHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 140 SVKDMKE----QVLLEQIRRSRLMEQKAMLENETL 170 (253)
Q Consensus 140 ~IR~rK~----qll~~qi~~Lk~Ke~~l~eeN~~L 170 (253)
-+...++ .+..++|..++.+...|.++-+.|
T Consensus 68 ~l~~~~D~em~ema~~Ei~~~~~~~~~le~~L~~l 102 (363)
T COG0216 68 MLAEEKDPEMREMAEEEIKELEAKIEELEEELKIL 102 (363)
T ss_pred HHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333222 456677777777777666665554
No 79
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=44.13 E-value=1.1e+02 Score=27.40 Aligned_cols=51 Identities=24% Similarity=0.287 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
+-......=..++++=|.+..+.. ++++.|...|..||..|+.+++++...
T Consensus 194 ~y~err~rNN~A~~kSR~~~k~~~----~e~~~r~~~leken~~lr~~v~~l~~e 244 (269)
T KOG3119|consen 194 EYKERRRRNNEAVRKSRDKRKQKE----DEMAHRVAELEKENEALRTQVEQLKKE 244 (269)
T ss_pred HHHHHHHhhhHHHHHhhhhHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444555565555554443 788888899999999999988877543
No 80
>PF07558 Shugoshin_N: Shugoshin N-terminal coiled-coil region; InterPro: IPR011516 This entry represents the N-terminal domain of Shugoshin (Sgo1) kinetochore-attachment proteins. Shugoshin has a conserved coiled-coil N-terminal domain and a highly conserved C-terminal basic region (IPR011515 from INTERPRO). Shugoshin is a crucial target of Bub1 kinase that plays a central role in chromosome cohesion during mitosis and meiosis divisions by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms [, ]. Shugoshin is thought to act by protecting Rec8 and Rad21 at the centromeres from separase degradation during anaphase I (during meiosis) so that sister chromatids remain tethered []. Shugoshin also acts as a spindle checkpoint component required for sensing tension between sister chromatids during mitosis, its degradation when they separate preventing cell cycle arrest and chromosome loss in anaphase, a time when sister chromatids are no longer under tension. Human shugoshin is diffusible and mediates kinetochore-driven formation of kinetochore-microtubules during bipolar spindle assembly []. Further, the primary role of shugoshin is to ensure bipolar attachment of kinetochores, and its role in protecting cohesion has co-developed to facilitate this process [].; GO: 0045132 meiotic chromosome segregation, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 3FGA_D.
Probab=43.48 E-value=33 Score=22.17 Aligned_cols=31 Identities=23% Similarity=0.200 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 144 MKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 144 rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+.+..++-.|..|..+...|..||..|+.++
T Consensus 14 K~Ns~l~~ki~~le~~~s~L~~en~~lR~~~ 44 (46)
T PF07558_consen 14 KRNSALSIKIQELENEVSKLLNENVNLRELV 44 (46)
T ss_dssp ----------------HHHHHHHHHHHHHHH
T ss_pred hHhHHHHhHHHHHHhHHHHHHHHHHHHHHHh
Confidence 4566778889999999999999999999875
No 81
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=43.24 E-value=1.1e+02 Score=29.58 Aligned_cols=63 Identities=19% Similarity=0.227 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLEN 167 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN 167 (253)
+.-+.+|+..+.+-+..+-.+.+..+ -||+.++.- .+...|.+++.+=|..|++++..|.+.+
T Consensus 316 NEvL~kLk~tn~kQq~~IqdLq~sN~---------yLe~kvkeL--Q~k~~kQqvfvDiinkLk~niEeLIedK 378 (527)
T PF15066_consen 316 NEVLQKLKHTNRKQQNRIQDLQCSNL---------YLEKKVKEL--QMKITKQQVFVDIINKLKENIEELIEDK 378 (527)
T ss_pred HHHHHHHHhhhHHHHHHHHHhhhccH---------HHHHHHHHH--HHHhhhhhHHHHHHHHHHHHHHHHHHhH
Confidence 45556666666666655554444332 233333332 2334455666666666666666665543
No 82
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=43.03 E-value=3.8e+02 Score=27.88 Aligned_cols=24 Identities=17% Similarity=0.198 Sum_probs=18.0
Q ss_pred CCcchHHHHHHHHHHHHHHHHHHH
Q 039982 90 LPPKSAELNALKDEYARLRLAYMR 113 (253)
Q Consensus 90 lq~~~~e~~kLk~ei~~Lq~~~r~ 113 (253)
+|.++.|.+.|+.++..|...+|.
T Consensus 389 ~QplrsENaqLrRrLrilnqqlre 412 (861)
T PF15254_consen 389 MQPLRSENAQLRRRLRILNQQLRE 412 (861)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHH
Confidence 466777888888888888777665
No 83
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=42.68 E-value=2.2e+02 Score=29.15 Aligned_cols=79 Identities=19% Similarity=0.149 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCC---CCCCHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHH
Q 039982 95 AELNALKDEYARLRLAYMRMNGQEL---DGLSFKELQQLEHQLSEGMLSVK----------DMKEQVLLEQIRRSRLMEQ 161 (253)
Q Consensus 95 ~e~~kLk~ei~~Lq~~~r~l~GedL---~~Ls~~EL~~LE~~Le~sL~~IR----------~rK~qll~~qi~~Lk~Ke~ 161 (253)
..++.|..++..++..+--..| || +-|--+++.+-+..|-..+...| .|++..|..+|..|+++..
T Consensus 544 ~~~~~le~~~~a~qat~d~a~~-Dlqk~nrlkQdear~~~~~lvqqv~dLR~~L~~~Eq~aarrEd~~R~Ei~~LqrRlq 622 (961)
T KOG4673|consen 544 ALAAALEAQALAEQATNDEARS-DLQKENRLKQDEARERESMLVQQVEDLRQTLSKKEQQAARREDMFRGEIEDLQRRLQ 622 (961)
T ss_pred HHHHHHHHHHHHHHHhhhhhhh-hHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444333333 22 12333455555555555544444 4677777788888888777
Q ss_pred HHHHHHHHHHHHH
Q 039982 162 KAMLENETLRKQM 174 (253)
Q Consensus 162 ~l~eeN~~L~~~~ 174 (253)
.....|..|.+++
T Consensus 623 aaE~R~eel~q~v 635 (961)
T KOG4673|consen 623 AAERRCEELIQQV 635 (961)
T ss_pred HHHHHHHHHHhhc
Confidence 7777777776654
No 84
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=42.49 E-value=38 Score=30.95 Aligned_cols=54 Identities=24% Similarity=0.330 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHH-------------------------------HHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQ------VLL-------------------------------EQIRRSRLMEQKAMLEN 167 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~q------ll~-------------------------------~qi~~Lk~Ke~~l~eeN 167 (253)
+....||..|..++..|..-+.+ ||. -+++.|++|.+.|.+||
T Consensus 97 ~~~~~le~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le~Lq~Klk~LEeEN 176 (306)
T PF04849_consen 97 ERNEALEEQLGAALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLEALQEKLKSLEEEN 176 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhHHHHHHHHHHHHHHH
Confidence 66777888888887777654443 321 23589999999999999
Q ss_pred HHHHHHHHHHh
Q 039982 168 ETLRKQMEELR 178 (253)
Q Consensus 168 ~~L~~~~~~~~ 178 (253)
..|+.+...+.
T Consensus 177 ~~LR~Ea~~L~ 187 (306)
T PF04849_consen 177 EQLRSEASQLK 187 (306)
T ss_pred HHHHHHHHHhh
Confidence 99999877664
No 85
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=42.24 E-value=3.6e+02 Score=26.80 Aligned_cols=73 Identities=15% Similarity=0.173 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
+..+....++.+.|...+..+.++- .+|+.--..|+..|...+..- ..|..+...+......+.+|+..|..+
T Consensus 142 Q~qlE~~qkE~eeL~~~~~~Le~e~------~~l~~~v~~l~~eL~~~~ee~-e~L~~~~kel~~~~e~l~~E~~~L~~q 214 (546)
T PF07888_consen 142 QNQLEECQKEKEELLKENEQLEEEV------EQLREEVERLEAELEQEEEEM-EQLKQQQKELTESSEELKEERESLKEQ 214 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444454555555554444444331 233333333333444433322 222333444444444444444444433
No 86
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=41.43 E-value=91 Score=22.09 Aligned_cols=32 Identities=22% Similarity=0.248 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
..+..++..++++...+..+|..|+.++..+.
T Consensus 27 ~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~ 58 (85)
T TIGR02209 27 RQLNNELQKLQLEIDKLQKEWRDLQLEVAELS 58 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 35667889999999999999999999987764
No 87
>smart00338 BRLZ basic region leucin zipper.
Probab=41.21 E-value=95 Score=21.03 Aligned_cols=28 Identities=18% Similarity=0.170 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 147 QVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 147 qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+.|..+...|+.+...|..++..|+.++
T Consensus 36 ~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 36 EQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455567777777777777777777654
No 88
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=40.00 E-value=13 Score=32.13 Aligned_cols=21 Identities=29% Similarity=0.650 Sum_probs=16.3
Q ss_pred CceEEEEEecCCcccc--cccch
Q 039982 41 ADVGVIVFSSTGKLYE--FSSSS 61 (253)
Q Consensus 41 aevalIifS~~gkl~e--~~s~s 61 (253)
-|-||-||||+|.|+. |+...
T Consensus 4 ydraltvFSPDGhL~QVEYAqEA 26 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQVEYAQEA 26 (249)
T ss_pred cccceEEECCCCCEEeeHhHHHH
Confidence 3668999999999984 76533
No 89
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=39.70 E-value=2.8e+02 Score=27.53 Aligned_cols=71 Identities=10% Similarity=0.058 Sum_probs=40.8
Q ss_pred hhcccCCceEEEEEecCCcccccc----cchhhhhhhhhcccchhhhhcccCCCCCCCCCCcchHHHHHHHHHHHHHHHH
Q 039982 35 LSVLCDADVGVIVFSSTGKLYEFS----SSSMEHILSRYSKGIDLECQTNRNEEHGVPELPPKSAELNALKDEYARLRLA 110 (253)
Q Consensus 35 LSvLCdaevalIifS~~gkl~e~~----s~sm~~iieRY~~~~~~~~~~~~~~~~~~~~lq~~~~e~~kLk~ei~~Lq~~ 110 (253)
+.+.|+-..|-+.++..---+.+. ...|+++|--++.... ++-...... .....+.+|+.+++.++..
T Consensus 404 ~~t~v~~~la~~~~st~~~~~~~d~~~~~~km~~~i~~~~~~~~---sd~~~~rer-----~l~a~t~kL~~E~e~~q~~ 475 (588)
T KOG3612|consen 404 KLTQVSKMLADLHYSTQLGGVHADPTVVEDKMKDAIIDLQESTL---SDYSGSRER-----SLVAATEKLRQEFEELQQT 475 (588)
T ss_pred hhcccchhhhhcccccccCCcccchHHHHHHHHHHHHHHHHHHH---HHhhcCCcc-----chHHHHHHHHHHHHHHHHH
Confidence 456677777766666543333322 2456666655544333 222211111 2378899999999999887
Q ss_pred HHH
Q 039982 111 YMR 113 (253)
Q Consensus 111 ~r~ 113 (253)
.+.
T Consensus 476 ~~~ 478 (588)
T KOG3612|consen 476 SRR 478 (588)
T ss_pred Hhh
Confidence 664
No 90
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=39.38 E-value=3.2e+02 Score=25.52 Aligned_cols=77 Identities=14% Similarity=0.173 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
+.|.+.|+-++++|..++-|..+- +-.-..=-++||..+.+.++++. -+.-+++.+++.-++-.+|+..|.++
T Consensus 98 q~e~~qL~~qnqkL~nqL~~~~~v------f~k~k~~~q~LE~li~~~~EEn~-~lqlqL~~l~~e~~Ekeeesq~LnrE 170 (401)
T PF06785_consen 98 QQESEQLQSQNQKLKNQLFHVREV------FMKTKGDIQHLEGLIRHLREENQ-CLQLQLDALQQECGEKEEESQTLNRE 170 (401)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHH------HHHhcchHHHHHHHHHHHHHHHH-HHHHhHHHHHHHHhHhHHHHHHHHHH
Confidence 455666666666666554443220 00011112345555566666543 44556777777777777777777766
Q ss_pred HHHH
Q 039982 174 MEEL 177 (253)
Q Consensus 174 ~~~~ 177 (253)
+.+.
T Consensus 171 LaE~ 174 (401)
T PF06785_consen 171 LAEA 174 (401)
T ss_pred HHHH
Confidence 6554
No 91
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=39.16 E-value=3.1e+02 Score=25.25 Aligned_cols=45 Identities=18% Similarity=0.222 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 134 LSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 134 Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
|..-|...|++ +.-+..+++.|+++...++.+++.||.++.....
T Consensus 70 La~lL~~sre~-Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~ 114 (319)
T PF09789_consen 70 LAQLLSESREQ-NKKLKEEVEELRQKLNEAQGDIKLLREKLARQRV 114 (319)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhh
Confidence 33344555554 3456788999999999999999999999987654
No 92
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=38.57 E-value=2.8e+02 Score=27.84 Aligned_cols=85 Identities=22% Similarity=0.213 Sum_probs=52.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCH-HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSF-KELQQLEHQLSEGML----SVKDMKEQVLLEQIRRSRLMEQKAMLENE 168 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~-~EL~~LE~~Le~sL~----~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~ 168 (253)
..|..+|+.+++++..++-...+.++.-..+ +.|..++..++.... .+-....+=+.+.-..|+..+..+.+.|.
T Consensus 120 ~~e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~ 199 (629)
T KOG0963|consen 120 SEENEELKEELEEVNNELADLKTQQVTVRNLKERLRKLEQLLEIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLE 199 (629)
T ss_pred hhhHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777777777766666655443333 346666666666555 44444455555666666666667777777
Q ss_pred HHHHHHHHHh
Q 039982 169 TLRKQMEELR 178 (253)
Q Consensus 169 ~L~~~~~~~~ 178 (253)
.+..+|..+.
T Consensus 200 ~le~ki~~lq 209 (629)
T KOG0963|consen 200 ELEKKISSLQ 209 (629)
T ss_pred HHHHHHHHHH
Confidence 7777665553
No 93
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=38.15 E-value=1.2e+02 Score=24.35 Aligned_cols=54 Identities=11% Similarity=0.039 Sum_probs=33.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+++++|+..+-..+...-.........++.+++..+.++...|..--..|...+
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~ 110 (142)
T TIGR01950 57 GIPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCI 110 (142)
T ss_pred CCCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588888888776544321112222334666777777777777766666666555
No 94
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=37.89 E-value=60 Score=25.44 Aligned_cols=27 Identities=22% Similarity=0.279 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 152 QIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 152 qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
-+++|..+...|+-||+.|+++|..-.
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl~~~~ 30 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKLRQSV 30 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 367889999999999999999996643
No 95
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=37.58 E-value=2e+02 Score=22.55 Aligned_cols=53 Identities=19% Similarity=0.131 Sum_probs=35.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHhcC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLAYMRMNG----QELDGLSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~~r~l~G----edL~~Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
+..++.+|+-++..|.+.+++--| .+=..|+..+=+-+-.+.-.+|...-++|
T Consensus 8 LaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~K 64 (118)
T PF05812_consen 8 LAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKK 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 467888888888888888888777 55667888877777666666666555554
No 96
>PHA02109 hypothetical protein
Probab=37.37 E-value=1.2e+02 Score=25.58 Aligned_cols=51 Identities=18% Similarity=0.322 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 101 KDEYARLRLAYMRMNGQELDGLS--FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLE 166 (253)
Q Consensus 101 k~ei~~Lq~~~r~l~GedL~~Ls--~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~ee 166 (253)
-++|+.++. ..-|+.|++|+ ++|+-.|+..|| .|.++...++.|..++.++
T Consensus 170 TE~ID~~~~---~~t~~~L~~~~~~L~~I~~L~~ki~------------~LS~E~~Q~~~Ki~N~R~~ 222 (233)
T PHA02109 170 TERIDQVER---SHTGENLEGLTDKLKQISELTIKLE------------ALSDEACQVKHKILNLRAE 222 (233)
T ss_pred HHHHHHHHh---ccchhhhhhhhHHHHhhHHHHHHHH------------HHHHHHHHHHHHHHHHHHH
Confidence 344454444 34588888886 666666665554 4555566666665555443
No 97
>PHA03155 hypothetical protein; Provisional
Probab=37.06 E-value=52 Score=25.58 Aligned_cols=24 Identities=25% Similarity=0.331 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 153 IRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 153 i~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
+++|..+...|.-||+.|++++..
T Consensus 10 vEeLaaeL~kL~~ENK~LKkkl~~ 33 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKKLLQ 33 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 578888889999999999999854
No 98
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=36.33 E-value=3.6e+02 Score=27.92 Aligned_cols=35 Identities=20% Similarity=0.337 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLM 159 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~K 159 (253)
.++..+...|+..+.....+|.+++.+.-+..++-
T Consensus 544 ~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~ 578 (782)
T PRK00409 544 KEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQA 578 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666666665555444444433
No 99
>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=36.30 E-value=3.6e+02 Score=27.89 Aligned_cols=34 Identities=24% Similarity=0.329 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRL 158 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~ 158 (253)
.|+..+...|+.-+..+.++|.+++.+--.+.++
T Consensus 539 ~e~~~~~~~l~~~~~~l~~~~~~~~~~a~~ea~~ 572 (771)
T TIGR01069 539 KEQEKLKKELEQEMEELKERERNKKLELEKEAQE 572 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666777777777777777666444444333
No 100
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=35.76 E-value=1.7e+02 Score=21.99 Aligned_cols=49 Identities=12% Similarity=0.171 Sum_probs=30.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
-|+++.|+..+=..... .....++.++++.+.++...+...-..|...+
T Consensus 57 ~G~sl~~i~~l~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 57 LGFPLEEIKEILDADND------DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred cCCCHHHHHHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778888877554432 44455666666777776666665555555443
No 101
>PHA03162 hypothetical protein; Provisional
Probab=35.68 E-value=55 Score=26.13 Aligned_cols=25 Identities=28% Similarity=0.299 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 153 IRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 153 i~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+++|..+...|+-||+.|+++|...
T Consensus 15 mEeLaaeL~kLqmENK~LKkkl~~~ 39 (135)
T PHA03162 15 MEDLAAEIAKLQLENKALKKKIKEG 39 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5778888899999999999999554
No 102
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=35.40 E-value=1.2e+02 Score=22.17 Aligned_cols=33 Identities=21% Similarity=0.256 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 146 EQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 146 ~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
...+..+++.+++....|.+||..|+-++..+.
T Consensus 37 ~~~~~~~l~~l~~~~~~l~~e~~~L~lE~~~l~ 69 (97)
T PF04999_consen 37 SRQLFYELQQLEKEIDQLQEENERLRLEIATLS 69 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 345567799999999999999999999887664
No 103
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=35.39 E-value=1.7e+02 Score=21.30 Aligned_cols=33 Identities=15% Similarity=0.212 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 145 KEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 145 K~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
|-+--.+.|.-|+-....|.+.|..|.+++...
T Consensus 12 KIqqAvdtI~LLqmEieELKekn~~L~~e~~~~ 44 (79)
T PRK15422 12 KVQQAIDTITLLQMEIEELKEKNNSLSQEVQNA 44 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444556777777777777777777777766553
No 104
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal 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. This subgroup lacks one of the c
Probab=35.30 E-value=2.2e+02 Score=22.26 Aligned_cols=57 Identities=9% Similarity=0.253 Sum_probs=35.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
-++|++|+..+-...+.+-... ....+++.+++..++++...|..--..|...+...
T Consensus 56 ~G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 56 LGFSLKDIKEILSHADQGESPC-PMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred cCCCHHHHHHHHhhhccCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888887755433221111 12245777888888888888777777777666554
No 105
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=35.25 E-value=2.1e+02 Score=26.69 Aligned_cols=54 Identities=19% Similarity=0.230 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 124 FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
.++|+.--++|-..|-++|+ ---.+...+..|..=.+.+.|||..|.-++.++.
T Consensus 101 ~~qL~~qnqkL~nqL~~~~~-vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l~ 154 (401)
T PF06785_consen 101 SEQLQSQNQKLKNQLFHVRE-VFMKTKGDIQHLEGLIRHLREENQCLQLQLDALQ 154 (401)
T ss_pred HHHHHHhHHHHHHHHHHHHH-HHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 45677777777777888777 2223345667777777888899998888876553
No 106
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=35.24 E-value=70 Score=21.87 Aligned_cols=31 Identities=13% Similarity=0.114 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 150 LEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 150 ~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
.++++.|+.+...|.+.|..|..+-.-+...
T Consensus 13 rEEVevLK~~I~eL~~~n~~Le~EN~~Lk~~ 43 (59)
T PF01166_consen 13 REEVEVLKEQIAELEERNSQLEEENNLLKQN 43 (59)
T ss_dssp TTSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4789999999999999999999887666543
No 107
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=35.20 E-value=2e+02 Score=21.89 Aligned_cols=53 Identities=15% Similarity=0.154 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+++++|+..+=.....+-.. -....+++.+++..+.++...|...-..|...+
T Consensus 57 G~sl~eI~~~l~~~~~~~~~-~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (123)
T cd04770 57 GFSLAEIRELLSLRDDGAAP-CAEVRALLEEKLAEVEAKIAELQALRAELAGLL 109 (123)
T ss_pred CCCHHHHHHHHHhhhcCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888776554432111 122345666667777776666666555555444
No 108
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=34.50 E-value=3e+02 Score=23.63 Aligned_cols=24 Identities=13% Similarity=0.012 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 149 LLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
...++..|.++...+...|-.+..
T Consensus 173 ~~~~L~~Le~~W~~~v~kn~eie~ 196 (221)
T PF05700_consen 173 AGEELRYLEQRWKELVSKNLEIEV 196 (221)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555666555544444444433
No 109
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=34.20 E-value=2.1e+02 Score=22.65 Aligned_cols=54 Identities=11% Similarity=0.092 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
+++++|+.++-...+..=... ....+++.+++..+..+...|+..-..|...+.
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (135)
T PRK10227 57 GFNLEESGELVNLFNDPQRHS-ADVKRRTLEKVAEIERHIEELQSMRDQLLALAN 110 (135)
T ss_pred CCCHHHHHHHHHhhccCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888765433221111 222355677778888887777777777766553
No 110
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=34.19 E-value=31 Score=26.61 Aligned_cols=35 Identities=31% Similarity=0.461 Sum_probs=24.4
Q ss_pred hhhhcccCCceEEEEEecCCccccccc---chhhhhhhh
Q 039982 33 KELSVLCDADVGVIVFSSTGKLYEFSS---SSMEHILSR 68 (253)
Q Consensus 33 ~ELSvLCdaevalIifS~~gkl~e~~s---~sm~~iieR 68 (253)
.+|..|-+| +|+..||++|++.+|-. +.+-+++.+
T Consensus 4 ~~Lm~lpGv-~AAg~Fs~~G~l~e~~G~l~~~~a~m~A~ 41 (108)
T PF09941_consen 4 DKLMKLPGV-VAAGEFSDDGKLVEYKGELDEEMAEMLAK 41 (108)
T ss_pred HHhhcCCCe-EEEEEECCCCeEEeeecCCCHHHHHHHHH
Confidence 466667676 46699999999999854 344444444
No 111
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=33.69 E-value=15 Score=28.09 Aligned_cols=52 Identities=25% Similarity=0.500 Sum_probs=34.0
Q ss_pred cceeEEe-cCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCcccccccchhhhhhhhhcc
Q 039982 5 KIEIKKI-ENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSSSSMEHILSRYSK 71 (253)
Q Consensus 5 Ki~ikrI-en~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s~sm~~iieRY~~ 71 (253)
+|++|-+ +|.++=.|+|.||-.|+-+ +=....|..--|+---.+++++.|..
T Consensus 19 ~ie~K~~~~~RSN~~i~f~KRt~Girq---------------fEi~n~G~~RI~gYk~se~~~~~f~s 71 (103)
T PF09158_consen 19 KIEVKEIVIDRSNYEIRFKKRTKGIRQ---------------FEIRNKGEFRIFGYKMSEEIIKKFTS 71 (103)
T ss_dssp T--EEEEEEETTEEEEEEEEEETTEEE---------------EEEETTSEEEEEEES--HHHHHHHHH
T ss_pred ceeeeeeEeeccceEEeeecccCceeE---------------EEEecCCcEEEEEEcCCHHHHHHHHh
Confidence 5788865 8899999999999999832 33346777666665555566666654
No 112
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=33.57 E-value=81 Score=26.39 Aligned_cols=19 Identities=42% Similarity=0.768 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKD 143 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~ 143 (253)
.||++||.||++.+..|++
T Consensus 159 qElqELE~QL~DRl~~l~e 177 (179)
T PF14723_consen 159 QELQELEFQLEDRLLQLRE 177 (179)
T ss_pred HHHHHHHHHHHHHHHHHHc
Confidence 3778888888888877765
No 113
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=33.14 E-value=1.8e+02 Score=23.07 Aligned_cols=55 Identities=24% Similarity=0.279 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQV------LLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~ql------l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
++|+.........+..+|.|=.+| ++..++.++.++..+..+-..|+.+++.+..
T Consensus 61 ~~L~~~~~~~~~rl~~~r~r~~~L~hR~l~v~~~~eilr~~g~~l~~eEe~L~~~le~l~~ 121 (141)
T PF13874_consen 61 EELQKHDLETSARLEEARRRHQELSHRLLRVLRKQEILRNRGYALSPEEEELRKRLEALEA 121 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHH
Confidence 345555555555555666555555 5556677777777777777777777766643
No 114
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=32.96 E-value=2.3e+02 Score=22.02 Aligned_cols=54 Identities=22% Similarity=0.068 Sum_probs=33.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
-|++++|+.++=..-+..-... ..-.+++.++++.+.++...|.+.-..|...+
T Consensus 56 lG~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02047 56 LDMSLAEIRQLLRYQDKPEKSC-SDVNALLDEHISHVRARIIKLQALIEQLVDLR 109 (127)
T ss_pred cCCCHHHHHHHHHhhhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577888887644322221111 22345777888888888887777777776554
No 115
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=32.88 E-value=1.1e+02 Score=23.72 Aligned_cols=31 Identities=29% Similarity=0.324 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 149 LLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
+..||..|++....+.+||..|+-.-+.++.
T Consensus 20 l~~el~~lK~~l~~lvEEN~~L~lENe~LR~ 50 (114)
T COG4467 20 LLAELGGLKQHLGSLVEENTALRLENEKLRE 50 (114)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHhhHHHHHH
Confidence 4578999999999999999999988776654
No 116
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=32.70 E-value=24 Score=26.63 Aligned_cols=28 Identities=32% Similarity=0.406 Sum_probs=20.4
Q ss_pred hhhhhhcccCCceEEEEEecCCccccccc
Q 039982 31 KAKELSVLCDADVGVIVFSSTGKLYEFSS 59 (253)
Q Consensus 31 KA~ELSvLCdaevalIifS~~gkl~e~~s 59 (253)
|-.||--+-+| +|.=.|||+|||.+|-+
T Consensus 4 kLdeLlqi~Gv-~AAGefs~DGkLv~Ykg 31 (109)
T COG4831 4 KLDELLQIKGV-MAAGEFSPDGKLVEYKG 31 (109)
T ss_pred hHHHHhCccce-eEeceeCCCCceEEeeC
Confidence 44556555555 45678999999999865
No 117
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=32.64 E-value=5.4e+02 Score=28.32 Aligned_cols=54 Identities=15% Similarity=0.134 Sum_probs=31.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMKE------QVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK~------qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
.++++|+.--..++..+..++.... +-+..+|..|+.+...+..+...+..++.
T Consensus 822 ~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~ 881 (1311)
T TIGR00606 822 RTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQ 881 (1311)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4777777776666666666633222 23356666676666666655555555443
No 118
>PF02151 UVR: UvrB/uvrC motif; InterPro: IPR001943 During the process of Escherichia coli nucleotide excision repair, DNA damage recognition and processing are achieved by the action of the uvrA, uvrB, and uvrC gene products []. UvrB and UvrC share a common domain of around 35 amino acids, the so called UVR domain. This domain in UvrB can interact with the homologous domain in UvrC throughout a putative coiled coil structure. This interaction is important for the incision of the damaged strand [].; GO: 0003677 DNA binding, 0004518 nuclease activity, 0006289 nucleotide-excision repair; PDB: 3PXG_D 3PXI_C 1E52_B 1QOJ_B 2D7D_B 2NMV_B.
Probab=32.36 E-value=1.2e+02 Score=18.26 Aligned_cols=33 Identities=21% Similarity=0.248 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRL 158 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~ 158 (253)
.+..|+..++.+...-+=-+-..+.++|..|++
T Consensus 3 ~i~~l~~~m~~a~~~~dfE~Aa~~Rd~i~~l~~ 35 (36)
T PF02151_consen 3 LIKELEEKMEEAVENEDFEKAARLRDQIKALKK 35 (36)
T ss_dssp HHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHc
Confidence 466777777777777777777777777777765
No 119
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). 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=32.20 E-value=2.1e+02 Score=21.68 Aligned_cols=51 Identities=18% Similarity=0.175 Sum_probs=27.4
Q ss_pred CCCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGM---LSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL---~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
+++++|+..+-...+.+- ... ....+++.+++..+..+...|...-..|..
T Consensus 56 G~sl~eI~~~l~~~~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (112)
T cd01282 56 GLTLEEIREFLPCLRGGEPTFRPC-PDLLAVLRRELARIDRQIADLTRSRDRLDA 109 (112)
T ss_pred CCCHHHHHHHHHHhhCCCccCCcc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888887755443321 111 122356666666666666666555554443
No 120
>PHA03155 hypothetical protein; Provisional
Probab=32.18 E-value=2.4e+02 Score=21.93 Aligned_cols=54 Identities=19% Similarity=0.155 Sum_probs=40.0
Q ss_pred cchHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 92 PKSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 92 ~~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
.+..++.+|+-++..|.+.+++--+.+=.-|+..+-+-+-.+.-.+|...-++|
T Consensus 12 eLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K 65 (115)
T PHA03155 12 ELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK 65 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 347889999999999998887755555566888887777666666666665554
No 121
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=31.88 E-value=1.3e+02 Score=23.14 Aligned_cols=29 Identities=28% Similarity=0.390 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 148 VLLEQIRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 148 ll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
-+.+++..|+++...|..||..|++.+.-
T Consensus 75 ~~~~ei~~L~~el~~L~~E~diLKKa~~~ 103 (121)
T PRK09413 75 AAMKQIKELQRLLGKKTMENELLKEAVEY 103 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677899999999999999999887643
No 122
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=31.80 E-value=29 Score=32.57 Aligned_cols=42 Identities=24% Similarity=0.287 Sum_probs=31.3
Q ss_pred hhhhcccCCce--EEEEEecCCccccccc---chhhhhhhhhcccch
Q 039982 33 KELSVLCDADV--GVIVFSSTGKLYEFSS---SSMEHILSRYSKGID 74 (253)
Q Consensus 33 ~ELSvLCdaev--alIifS~~gkl~e~~s---~sm~~iieRY~~~~~ 74 (253)
+=|||+||-+| |||--.++|=-|+-|. +++++++.-|+..+-
T Consensus 367 yalSV~~~~~V~HClIy~tatG~GFa~pyn~y~tlk~lV~hY~h~SL 413 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATGFGFAEPYNLYSTLKELVLHYQHTSL 413 (464)
T ss_pred eEEEEEECCceeeeEEeeccccccccchhHHHHHHHHHHHHHhhhhH
Confidence 56999998766 6665556775555443 789999999988765
No 123
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=31.71 E-value=4.1e+02 Score=25.75 Aligned_cols=36 Identities=19% Similarity=0.177 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 137 GMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 137 sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
+.+.+-++|-+.+...++.+++....+.|+|+.|++
T Consensus 375 ~~kk~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~k 410 (493)
T KOG0804|consen 375 AEKKIVERKLQQLQTKLKKCQKELKEEREENKKLIK 410 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445566666777777777777777777777777755
No 124
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=31.60 E-value=3.6e+02 Score=23.75 Aligned_cols=51 Identities=18% Similarity=0.246 Sum_probs=26.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMKEQV--LLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK~ql--l~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
-+.+++..|...++.+-.++.+--.++ +++.+..|+.+...+.+....+..
T Consensus 86 ~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~~e~ 138 (239)
T COG1579 86 KDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLERLEK 138 (239)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777777777776666665544443 334444444444444433333333
No 125
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=31.54 E-value=2.5e+02 Score=21.75 Aligned_cols=54 Identities=17% Similarity=0.124 Sum_probs=31.4
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
-+++++|+..+-......-... .....++.+++..+.++...|..-...|...+
T Consensus 56 ~G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 109 (127)
T cd01108 56 LGFSLEEIRELLALWRDPSRAS-ADVKALALEHIAELERKIAELQAMRRTLQQLA 109 (127)
T ss_pred cCCCHHHHHHHHHHHhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888887654333221111 12235677777777777777766666665544
No 126
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=31.38 E-value=28 Score=30.68 Aligned_cols=38 Identities=26% Similarity=0.481 Sum_probs=28.0
Q ss_pred ccccccchhhhhhhhhcccCC---ceEEEEEecCCccccccc
Q 039982 21 FSKRRNGLLKKAKELSVLCDA---DVGVIVFSSTGKLYEFSS 59 (253)
Q Consensus 21 FsKRr~GL~KKA~ELSvLCda---evalIifS~~gkl~e~~s 59 (253)
|.+-|.|++||.. ...||.. =|+-|.||+.++.+-||.
T Consensus 120 ~~~~~~~~~~~~~-~~~L~~~~~~l~~~v~fS~~~r~IGFSk 160 (269)
T PRK09822 120 YRREKGGFLKKIK-FNILKRVHKALLISVPLSKRGRLAGFCK 160 (269)
T ss_pred hhhccCchhhhhH-HHHHhhhhhhhEEEeeccccCCceeeee
Confidence 3444788888864 6778854 566678999999888875
No 127
>PRK03918 chromosome segregation protein; Provisional
Probab=30.98 E-value=4.9e+02 Score=26.83 Aligned_cols=13 Identities=23% Similarity=0.317 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSE 136 (253)
Q Consensus 124 ~~EL~~LE~~Le~ 136 (253)
.+++..++..++.
T Consensus 658 ~~~~~~l~~~~~~ 670 (880)
T PRK03918 658 EEEYEELREEYLE 670 (880)
T ss_pred HHHHHHHHHHHHH
Confidence 4444444444444
No 128
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=30.65 E-value=1.4e+02 Score=27.69 Aligned_cols=45 Identities=31% Similarity=0.429 Sum_probs=0.0
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 118 ELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 118 dL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
+|++.|++|+-.| ..-+.-|..+++.|+.|...| ||+.++..+.+
T Consensus 25 ~~~~~~~~e~~aL------------r~EN~~LKkEN~~Lk~eVerL--E~e~l~s~V~E 69 (420)
T PF07407_consen 25 ELEGVSIDENFAL------------RMENHSLKKENNDLKIEVERL--ENEMLRSHVCE 69 (420)
T ss_pred cccccchhhhhhH------------HHHhHHHHHHHHHHHHHHHHH--HHHhhhhhhhh
No 129
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=30.53 E-value=2e+02 Score=22.77 Aligned_cols=54 Identities=9% Similarity=0.086 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+++++|+..+-......-...-.....++.++++.+.++...|.+-...|...+
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLN 111 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888887654321110111122345677777777777777666655555544
No 130
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=30.38 E-value=2.8e+02 Score=21.98 Aligned_cols=21 Identities=19% Similarity=0.412 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 039982 127 LQQLEHQLSEGMLSVKDMKEQ 147 (253)
Q Consensus 127 L~~LE~~Le~sL~~IR~rK~q 147 (253)
|+.|...|+.........+++
T Consensus 70 Id~vd~klDe~~ei~~~i~~e 90 (126)
T PF07889_consen 70 IDRVDDKLDEQKEISKQIKDE 90 (126)
T ss_pred HHHHHhhHHHHHHHHHHHHHH
Confidence 555555555555555444444
No 131
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=30.31 E-value=2.5e+02 Score=21.50 Aligned_cols=56 Identities=11% Similarity=0.022 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSV--KDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~I--R~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
|++++++..+-...+.+-... .....+++.+++..|+.+...|..--..|...+..
T Consensus 55 G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~~ 112 (118)
T cd04776 55 GFSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAEER 112 (118)
T ss_pred CCCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777777665544332111 12233567777788877777777776666666543
No 132
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=30.19 E-value=3.5e+02 Score=23.09 Aligned_cols=19 Identities=26% Similarity=0.364 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSEGMLSVK 142 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR 142 (253)
+++|..+-..|+..=+.+-
T Consensus 69 ledLk~~~~~lEE~~~~L~ 87 (193)
T PF14662_consen 69 LEDLKTLAKSLEEENRSLL 87 (193)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3345555555554444443
No 133
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=29.98 E-value=2.1e+02 Score=23.31 Aligned_cols=54 Identities=11% Similarity=0.024 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
|+|++|+..+=.....+-...-.....++.+++..+.++...|..--..|...+
T Consensus 67 G~sL~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i 120 (154)
T PRK15002 67 GIPLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELDGCI 120 (154)
T ss_pred CCCHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888765443221111122344556666666666666665555555544
No 134
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 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 []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=29.90 E-value=3.3e+02 Score=22.73 Aligned_cols=48 Identities=19% Similarity=0.168 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 127 LQQLEHQLSEGMLSVKDMKEQVLL--EQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 127 L~~LE~~Le~sL~~IR~rK~qll~--~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+.+|+..|...=+.+-.-+++++. -+...+..|...|..||..|....
T Consensus 132 ~~~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw 181 (194)
T PF08614_consen 132 IKDLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW 181 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444433333334444333 234456678888999999887653
No 135
>PHA03162 hypothetical protein; Provisional
Probab=29.77 E-value=2.9e+02 Score=22.08 Aligned_cols=64 Identities=16% Similarity=0.100 Sum_probs=41.2
Q ss_pred cchHHHHHHHHHHHHHHHHHHHhcCCC----CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 92 PKSAELNALKDEYARLRLAYMRMNGQE----LDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRL 158 (253)
Q Consensus 92 ~~~~e~~kLk~ei~~Lq~~~r~l~Ged----L~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~ 158 (253)
.+..++.+|+-|+..|.+.+++--|.+ =..|+..+-+-+-...-.+|...-++| |...|..+--
T Consensus 17 eLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kK---Ie~KVr~~t~ 84 (135)
T PHA03162 17 DLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKK---IEAKIRHETL 84 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhh
Confidence 457888889999999988887765544 224777777666666666655555554 4444444333
No 136
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=29.73 E-value=2.1e+02 Score=22.05 Aligned_cols=52 Identities=12% Similarity=0.136 Sum_probs=30.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
+++++|+..+=...+. ..+ .....++.+++..++++...|..-...|...+.
T Consensus 56 G~sl~eI~~~l~~~~~--~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 107 (124)
T TIGR02051 56 GFSLEEIGGLLGLVDG--THC-REMYELASRKLKSVQAKMADLLRIERLLEELLE 107 (124)
T ss_pred CCCHHHHHHHHhcccC--CCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888776543321 111 122356677777777777777666666665543
No 137
>PF11232 Med25: Mediator complex subunit 25 PTOV activation and synapsin 2; InterPro: IPR021394 Mediator is a large complex of up to 33 proteins that is conserved from plants to fungi to humans - the number and representation of individual subunits varying with species [],[]. It is arranged into four different sections, a core, a head, a tail and a kinase-active part, and the number of subunits within each of these is what varies with species. Overall, Mediator regulates the transcriptional activity of RNA polymerase II but it would appear that each of the four different sections has a slightly different function []. The overall function of the full-length Med25 is efficiently to coordinate the transcriptional activation of RAR/RXR (retinoic acid receptor/retinoic X receptor) in higher eukaryotic cells. Human Med25 consists of several domains with different binding properties, the N-terminal, VWA domain, an SD1 - synapsin 1 - domain from residues 229-381, a PTOV(B) or ACID domain from 395-545, an SD2 domain from residues 564-645 and a C-terminal NR box-containing domain (646-650) from 646-747. This family is the combined PTOV and SD2 domains. the PTOV domain being the domain through which Med25 co-operates with the histone acetyltransferase CBP, but the function of the SD2 domain is unclear []. ; PDB: 2KY6_A 2L23_A 2XNF_A 2L6U_A.
Probab=29.20 E-value=49 Score=27.12 Aligned_cols=35 Identities=14% Similarity=0.385 Sum_probs=25.6
Q ss_pred cccCCceEEEEEecCCcccc-ccc-------chhhhhhhhhcc
Q 039982 37 VLCDADVGVIVFSSTGKLYE-FSS-------SSMEHILSRYSK 71 (253)
Q Consensus 37 vLCdaevalIifS~~gkl~e-~~s-------~sm~~iieRY~~ 71 (253)
.-|++.|-+++||+.-+.|- |.. ..+++||+.+++
T Consensus 109 p~c~iKvL~LlYs~kk~~flG~IP~DQ~~Fv~~lr~Vi~~~k~ 151 (152)
T PF11232_consen 109 PPCEIKVLMLLYSPKKKAFLGFIPNDQEGFVNRLRQVIQIQKQ 151 (152)
T ss_dssp SSSS-SEEEEEEETTTTEEEEEEESTHHHHHHHHHHHCHHHCT
T ss_pred CCCceEEEEEEEcCCCceEEEEcCCCHHHHHHHHHHHHHHhhc
Confidence 57999999999999998664 544 357777776653
No 138
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=29.17 E-value=6.1e+02 Score=25.61 Aligned_cols=21 Identities=33% Similarity=0.431 Sum_probs=10.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHh
Q 039982 94 SAELNALKDEYARLRLAYMRM 114 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l 114 (253)
+.++..|+.+|+.|+.++..+
T Consensus 442 ~~~~ee~k~eie~L~~~l~~~ 462 (652)
T COG2433 442 KRELEELKREIEKLESELERF 462 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555554433
No 139
>PRK14127 cell division protein GpsB; Provisional
Probab=29.15 E-value=1.7e+02 Score=22.57 Aligned_cols=47 Identities=17% Similarity=0.277 Sum_probs=28.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 118 ELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 118 dL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
.+-|++.+|....-.++-. ..+.|.+....|.++|..|+.++.++..
T Consensus 19 ~~RGYd~~EVD~FLd~V~~---------------dye~l~~e~~~Lk~e~~~l~~~l~e~~~ 65 (109)
T PRK14127 19 SMRGYDQDEVDKFLDDVIK---------------DYEAFQKEIEELQQENARLKAQVDELTK 65 (109)
T ss_pred CCCCCCHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777665444332 3455555666667777777777766644
No 140
>PF14282 FlxA: FlxA-like protein
Probab=29.07 E-value=2.6e+02 Score=21.18 Aligned_cols=50 Identities=16% Similarity=0.208 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKE------QVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~------qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
..+..|++++...-..|..-+. +--..++..|+.....|...-..|..+.
T Consensus 19 ~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~ 74 (106)
T PF14282_consen 19 SQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQ 74 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555554444444333 2334455555555555555555554443
No 141
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=29.06 E-value=5.4e+02 Score=24.96 Aligned_cols=50 Identities=12% Similarity=0.019 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
..++.++.++-..+...+..++.++ ..+.++...+.++-..|+.++..+.
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~l~~l~~~l~~l~ 172 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTED--------REAERRIRELEKQLSELQNELNALL 172 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5678888888888888887777655 4555555555555555666655543
No 142
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=29.02 E-value=1.5e+02 Score=19.22 Aligned_cols=20 Identities=20% Similarity=0.115 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 039982 148 VLLEQIRRSRLMEQKAMLEN 167 (253)
Q Consensus 148 ll~~qi~~Lk~Ke~~l~eeN 167 (253)
=+-+||..|++|...|....
T Consensus 23 did~qIaeLe~KR~~Lv~qH 42 (46)
T PF08946_consen 23 DIDEQIAELEAKRQRLVDQH 42 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 34577888888877776554
No 143
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=28.98 E-value=2.2e+02 Score=21.08 Aligned_cols=15 Identities=40% Similarity=0.627 Sum_probs=11.2
Q ss_pred CCCHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLS 135 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le 135 (253)
+++++++..+-....
T Consensus 57 g~~l~~i~~~~~~~~ 71 (103)
T cd01106 57 GFSLKEIKELLKDPS 71 (103)
T ss_pred CCCHHHHHHHHHcCc
Confidence 788888888766543
No 144
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=28.86 E-value=2.4e+02 Score=22.04 Aligned_cols=54 Identities=9% Similarity=0.061 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+++++|+..+-......-...-..-..++.++++.++++...|..-...|...+
T Consensus 58 G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (131)
T TIGR02043 58 GFTLDEIKELLSIKLDATEHSCAEVKAIVDAKLELVDEKINELTKIRRSLKKLS 111 (131)
T ss_pred CCCHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888888765331100001122345777788888888777766666665544
No 145
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=28.78 E-value=2.3e+02 Score=21.51 Aligned_cols=18 Identities=33% Similarity=0.363 Sum_probs=16.0
Q ss_pred CCcchHHHHHHHHHHHHH
Q 039982 90 LPPKSAELNALKDEYARL 107 (253)
Q Consensus 90 lq~~~~e~~kLk~ei~~L 107 (253)
||-|..|++.|+.++..+
T Consensus 7 Wq~w~aEYe~LKEEi~~l 24 (99)
T PF13758_consen 7 WQTWEAEYEGLKEEIEAL 24 (99)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 566789999999999999
No 146
>PHA01750 hypothetical protein
Probab=28.30 E-value=2.1e+02 Score=20.06 Aligned_cols=42 Identities=10% Similarity=0.247 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 133 QLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 133 ~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
.|..+++.|-..---=+..||+.++.|..++++.-+.+++++
T Consensus 31 ~lkdAvkeIV~~ELdNL~~ei~~~kikqDnl~~qv~eik~k~ 72 (75)
T PHA01750 31 ALKDAVKEIVNSELDNLKTEIEELKIKQDELSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 334444444333333344455555555555555555555544
No 147
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=28.05 E-value=71 Score=17.65 Aligned_cols=17 Identities=24% Similarity=0.386 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 039982 96 ELNALKDEYARLRLAYM 112 (253)
Q Consensus 96 e~~kLk~ei~~Lq~~~r 112 (253)
|+..++..|..|+.++-
T Consensus 2 E~~rlr~rI~dLer~L~ 18 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLS 18 (23)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 56677777777777653
No 148
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=27.72 E-value=2.8e+02 Score=21.28 Aligned_cols=53 Identities=11% Similarity=0.072 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
++|++|+..+-.....+-. .-..-..++.+++..+.++...|..-...|...+
T Consensus 57 G~sL~eI~~~l~~~~~~~~-~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T cd04784 57 DMSLDEIRTLLQLQDDPEA-SCAEVNALIDEHLAHVRARIAELQALEKQLQALR 109 (127)
T ss_pred CCCHHHHHHHHHhhhcCCC-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888888887543322111 1122345677777777777777666666665544
No 149
>KOG0241 consensus Kinesin-like protein [Cytoskeleton]
Probab=27.67 E-value=4e+02 Score=28.70 Aligned_cols=68 Identities=19% Similarity=0.225 Sum_probs=45.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
..-+..|+++++.|...+.+-.++ ++..|+..|+.+++-|.+ -...-..|.+.+.+.|..++++
T Consensus 363 arvirElReEve~lr~qL~~ae~~--------~~~el~e~l~esekli~e--------i~~twEEkl~ktE~in~erq~~ 426 (1714)
T KOG0241|consen 363 ARVIRELREEVEKLREQLEQAEAM--------KLPELKEKLEESEKLIKE--------ITVTWEEKLRKTEEINQERQAQ 426 (1714)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhc--------cchHHHHHHHHHHHHHHH--------HHhHHHHHHHHHHHHHHHHHHH
Confidence 345666888888888877764333 455666666666554332 2355667778888888888888
Q ss_pred HHHH
Q 039982 174 MEEL 177 (253)
Q Consensus 174 ~~~~ 177 (253)
++.+
T Consensus 427 L~~~ 430 (1714)
T KOG0241|consen 427 LESM 430 (1714)
T ss_pred HHHH
Confidence 8765
No 150
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=27.30 E-value=4e+02 Score=22.80 Aligned_cols=54 Identities=20% Similarity=0.276 Sum_probs=33.4
Q ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQL-SEGMLSVKDMKEQVLLE--------QIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 124 ~~EL~~LE~~L-e~sL~~IR~rK~qll~~--------qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+.|=..||+++ +..+..+-.++..-+.. -+..+-.--+.+..||..|++.+..+
T Consensus 113 l~EK~~LEke~~e~~i~~l~e~a~~el~~k~~ale~~A~~~l~e~~~~i~~EN~~L~k~L~~l 175 (206)
T PF14988_consen 113 LQEKARLEKEASELKILQLGERAHKELKKKAQALELAAKKSLDEFTRSIKRENQQLRKELLQL 175 (206)
T ss_pred HHHHHHHHHHHHHhhHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777777 66666655555555333 34445555666777777777776543
No 151
>smart00030 CLb CLUSTERIN Beta chain.
Probab=27.11 E-value=3.1e+02 Score=23.53 Aligned_cols=27 Identities=19% Similarity=0.370 Sum_probs=15.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 119 LDGLSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 119 L~~Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
|..||..-=..+.++++.+|..|...|
T Consensus 9 Lk~lS~~G~kyvd~EI~nAl~GvKqMK 35 (206)
T smart00030 9 LQEMSTQGSKYINKEIKNALKGVKQIK 35 (206)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 444444445556666777776666555
No 152
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=27.05 E-value=3e+02 Score=21.25 Aligned_cols=55 Identities=13% Similarity=0.091 Sum_probs=32.6
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 120 DGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 120 ~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
-|++++|+.++=......- ........++.+++..+.++...|..--..|...+.
T Consensus 56 ~G~sL~eI~~~l~~~~~~~-~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02044 56 VGFSLEECKELLNLWNDPN-RTSADVKARTLEKVAEIERKISELQSMRDQLEALAQ 110 (127)
T ss_pred CCCCHHHHHHHHHhhccCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578888887654332211 111222356677778888887777777777766553
No 153
>KOG0239 consensus Kinesin (KAR3 subfamily) [Cytoskeleton]
Probab=26.83 E-value=6.2e+02 Score=25.86 Aligned_cols=53 Identities=15% Similarity=0.201 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
+...+-..++..+..++....+ +.+....|..+. .-.+++..|+.++.++.+.
T Consensus 263 ~~~~~~~~~~~~~~~~~~~~~~-L~~~~~~l~~~~-~e~~~r~kL~N~i~eLkGn 315 (670)
T KOG0239|consen 263 QVSLLTREVQEALKESNTLQSD-LESLEENLVEKK-KEKEERRKLHNEILELKGN 315 (670)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH-HHHHHHHHHHHHHHHhhcC
Confidence 3445555566666666665332 233333444444 4558888899998888654
No 154
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=26.82 E-value=2.8e+02 Score=21.96 Aligned_cols=54 Identities=19% Similarity=0.075 Sum_probs=29.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
+++++|+.++=..+...-.........++..++..+.++...|..--..|...+
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~i 110 (139)
T cd01110 57 GLSLAEIAEALATLPEDRTPTKADWERLSRAWRDRLDERIAELQQLRDQLDGCI 110 (139)
T ss_pred CCCHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888654433221111122224555556666666666666555565555
No 155
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=26.81 E-value=3.7e+02 Score=24.91 Aligned_cols=45 Identities=20% Similarity=0.307 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDM 144 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~r 144 (253)
.+|.+.|.++...||..++..... ++|+..+...--.++.+=+.|
T Consensus 3 ~eEW~eL~~efq~Lqethr~Y~qK------leel~~lQ~~C~ssI~~Qkkr 47 (330)
T PF07851_consen 3 EEEWEELQKEFQELQETHRSYKQK------LEELSKLQDKCSSSISHQKKR 47 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHH
Confidence 567788899999999888876553 455666655555555554443
No 156
>PF09798 LCD1: DNA damage checkpoint protein; InterPro: IPR018622 This is a family of proteins which regulate checkpoint kinases. In Schizosaccharomyces pombe (Fission yeast) this protein is called Rad26 and in Saccharomyces cerevisiae (Baker's yeast) it is called LCD1 [].
Probab=26.75 E-value=3.8e+02 Score=27.25 Aligned_cols=55 Identities=18% Similarity=0.227 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQV---LLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~ql---l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
++|..|+++-+.-+..-+.+.+++ -.+|++.||.-.+.|++|.+.|.-+......
T Consensus 4 dkL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE~r~~s~ 61 (654)
T PF09798_consen 4 DKLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNELRSLSS 61 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 356777777777777666666654 3578899999999999999999887765543
No 157
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=26.63 E-value=2.5e+02 Score=20.36 Aligned_cols=31 Identities=23% Similarity=0.287 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 039982 149 LLEQIRRSRLMEQKAMLENETLRKQMEELRR 179 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~ 179 (253)
|.+.|+..+..-..|..||..|..=|..+-.
T Consensus 35 L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~ 65 (80)
T PF10224_consen 35 LSDRVEEVKEENEKLESENEYLQQYIGNLMS 65 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344566666677888999999888877643
No 158
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=26.47 E-value=34 Score=29.84 Aligned_cols=24 Identities=21% Similarity=0.520 Sum_probs=19.2
Q ss_pred hcccCCceEEEEEecCCcccc--ccc
Q 039982 36 SVLCDADVGVIVFSSTGKLYE--FSS 59 (253)
Q Consensus 36 SvLCdaevalIifS~~gkl~e--~~s 59 (253)
||=.+-|.|.-+|||+|++|. |+.
T Consensus 3 sIGtGyDls~s~fSpdGrvfQveYA~ 28 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQVEYAQ 28 (254)
T ss_pred cccccccccceeeCCCCceehHHHHH
Confidence 455677899999999999985 654
No 159
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=26.27 E-value=3.1e+02 Score=21.16 Aligned_cols=54 Identities=13% Similarity=0.117 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
|++++|+.++=......-... .....++.+++..+.++...|......|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (126)
T cd04785 57 GFSLEEIRALLALSDRPDRSC-AEADAIARAHLADVRARIADLRRLEAELKRMVA 110 (126)
T ss_pred CCCHHHHHHHHhhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888887754333211111 223456777888888888887777777766554
No 160
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=26.01 E-value=3.2e+02 Score=24.53 Aligned_cols=51 Identities=24% Similarity=0.229 Sum_probs=32.1
Q ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEH-QLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 125 ~EL~~LE~-~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
.|+..||. .+......-+.|| +.++.|..|++|+..+.-+|..|-..+..+
T Consensus 202 qe~~kleRkrlrnreaa~Kcr~--rkLdrisrLEdkv~~lk~~n~~L~~~l~~l 253 (279)
T KOG0837|consen 202 QEKIKLERKRLRNREAASKCRK--RKLDRISRLEDKVKTLKIYNRDLASELSKL 253 (279)
T ss_pred HHHHHHHHHHhhhHHHHHHHHH--HHHHHHHHHHhhhhhhhhhhhhHHHHHHHH
Confidence 45555554 2333333333333 456889999999988888888776665544
No 161
>PRK00051 hisI phosphoribosyl-AMP cyclohydrolase; Reviewed
Probab=25.87 E-value=44 Score=26.45 Aligned_cols=37 Identities=24% Similarity=0.501 Sum_probs=29.2
Q ss_pred Ccccc-ccccccchhhh---------hhhhhcccCCceEEEEEecCC
Q 039982 16 SRQVT-FSKRRNGLLKK---------AKELSVLCDADVGVIVFSSTG 52 (253)
Q Consensus 16 ~RqvT-FsKRr~GL~KK---------A~ELSvLCdaevalIifS~~g 52 (253)
.+.++ ||+=|++|-.| ..|+.+-||.|.-|+..-+.|
T Consensus 44 tg~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~Ll~~V~q~G 90 (125)
T PRK00051 44 TGRAHYWSRSRQKLWRKGETSGHVQKVHEVRLDCDGDAVLLKVEQVG 90 (125)
T ss_pred cCcEEEEeCccCcccCCCCCcCCeEEEEEEEecCCCCEEEEEEEecC
Confidence 34556 46668888666 568999999999999999988
No 162
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, 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 distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=25.56 E-value=2.2e+02 Score=23.48 Aligned_cols=48 Identities=15% Similarity=0.240 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
|++++|+..+-..-.. ....++.+++..|.++...|...-..|...+.
T Consensus 58 G~sL~eI~~ll~~~~~-------~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~ 105 (172)
T cd04790 58 GVSLEDIRSLLQQPGD-------DATDVLRRRLAELNREIQRLRQQQRAIATLLK 105 (172)
T ss_pred CCCHHHHHHHHhcCCh-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777776443222 22345666666666666666666666655543
No 163
>PRK09039 hypothetical protein; Validated
Probab=25.35 E-value=5.4e+02 Score=23.72 Aligned_cols=50 Identities=22% Similarity=0.186 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAM 164 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~ 164 (253)
+.++..|+.+|+.|+.+ |..|+..|+.+=.+.++. ..+|+.|+++...+.
T Consensus 136 ~~~V~~L~~qI~aLr~Q----------------la~le~~L~~ae~~~~~~-----~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 136 LAQVELLNQQIAALRRQ----------------LAALEAALDASEKRDRES-----QAKIADLGRRLNVAL 185 (343)
T ss_pred hHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHH
Confidence 34455555555555554 666666666665555443 345677776655543
No 164
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=25.27 E-value=3.9e+02 Score=22.00 Aligned_cols=50 Identities=16% Similarity=0.170 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 124 FKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 124 ~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
-.|+.+++..+...+..+|.--..+-..++..++.....|..+-..|+++
T Consensus 46 k~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~~~e~L~~eie~l~~~ 95 (177)
T PF07798_consen 46 KSDLENQEYLFKAAIAELRSELQNSRKSEFAELRSENEKLQREIEKLRQE 95 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555444444444444444444444444444443
No 165
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=25.15 E-value=7.6e+02 Score=25.52 Aligned_cols=18 Identities=33% Similarity=0.285 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAY 111 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~ 111 (253)
+.++++++++|..|...+
T Consensus 345 q~eLdK~~~~i~~Ln~~l 362 (961)
T KOG4673|consen 345 QLELDKTKKEIKMLNNAL 362 (961)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 678889888888776553
No 166
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=25.02 E-value=52 Score=29.75 Aligned_cols=44 Identities=14% Similarity=0.285 Sum_probs=30.9
Q ss_pred eeEEecCCCCccccccccccchhhhhhhhhcccCCceEEEEEecCCccccccc-chhhhhhhhhcc
Q 039982 7 EIKKIENLNSRQVTFSKRRNGLLKKAKELSVLCDADVGVIVFSSTGKLYEFSS-SSMEHILSRYSK 71 (253)
Q Consensus 7 ~ikrIen~~~RqvTFsKRr~GL~KKA~ELSvLCdaevalIifS~~gkl~e~~s-~sm~~iieRY~~ 71 (253)
.+..|.|.|.|..+=|+ .||..|.+ ++| .|-+ |.|++|++.|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----HYHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----CCCCcHHHHHHHHHHhH
Confidence 45678888888766332 57888764 333 4655 899999999864
No 167
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=24.91 E-value=7.1e+02 Score=24.95 Aligned_cols=15 Identities=27% Similarity=0.377 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHH
Q 039982 97 LNALKDEYARLRLAY 111 (253)
Q Consensus 97 ~~kLk~ei~~Lq~~~ 111 (253)
+..+..+++.+...+
T Consensus 400 ~~~~e~el~~l~~~l 414 (650)
T TIGR03185 400 LRELEEELAEVDKKI 414 (650)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333444444444433
No 168
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=24.72 E-value=3e+02 Score=21.16 Aligned_cols=52 Identities=8% Similarity=0.051 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
+++++|+.++=..-... ....-.+++.++++.++++...|..--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~---~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 108 (126)
T cd04783 57 GFTLDEIAELLELDDGT---DCSEARELAEQKLAEVDEKIADLQRMRASLQELVS 108 (126)
T ss_pred CCCHHHHHHHHhcccCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47777777754332211 11223456667777777777666666556655543
No 169
>KOG2417 consensus Predicted G-protein coupled receptor [Signal transduction mechanisms]
Probab=24.70 E-value=5.4e+02 Score=24.37 Aligned_cols=27 Identities=26% Similarity=0.402 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQVLLEQ 152 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~qll~~q 152 (253)
|..+||++|-.+..-+-++|.++.+.|
T Consensus 187 di~~lErrL~qtmdmiisKKkk~a~~~ 213 (462)
T KOG2417|consen 187 DIIQLERRLAQTMDMIISKKKKMAMAQ 213 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555554444444
No 170
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=24.61 E-value=2.7e+02 Score=22.17 Aligned_cols=41 Identities=24% Similarity=0.358 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCC---------CCCCCHHHHHHHHHHHHHHH
Q 039982 98 NALKDEYARLRLAYMRMNGQE---------LDGLSFKELQQLEHQLSEGM 138 (253)
Q Consensus 98 ~kLk~ei~~Lq~~~r~l~Ged---------L~~Ls~~EL~~LE~~Le~sL 138 (253)
+.|.+++..|+..+.++.|.. ++.|+++.|..|-++||.--
T Consensus 18 ~QLekqi~~l~~kiek~r~n~~drl~siR~ye~Ms~~~l~~llkqLEkeK 67 (129)
T PF15372_consen 18 DQLEKQIIILREKIEKIRGNPSDRLSSIRRYEQMSVESLNQLLKQLEKEK 67 (129)
T ss_pred HHHHHHHHHHHHHHHHHhCCCccccHHHHHHhhccHHHHHHHHHHHHHHH
Confidence 457888888888887887743 36788888888888887543
No 171
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=24.61 E-value=4.2e+02 Score=22.22 Aligned_cols=48 Identities=21% Similarity=0.174 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRK 172 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~ 172 (253)
.+...|+..++.--+.|...+.+.+.+.|+.|+.+...+..+-.....
T Consensus 112 ~ei~~L~~kI~~L~~~in~~~k~~~n~~i~slk~EL~d~iKe~e~~em 159 (181)
T PF04645_consen 112 KEIEILRLKISSLQKEINKNKKKDLNEEIESLKSELNDLIKEREIREM 159 (181)
T ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 456666666666666666666666666666666665555555544433
No 172
>PF07676 PD40: WD40-like Beta Propeller Repeat; InterPro: IPR011659 WD-40 repeats (also known as WD or beta-transducin repeats) are short ~40 amino acid motifs, often terminating in a Trp-Asp (W-D) dipeptide. WD40 repeats usually assume a 7-8 bladed beta-propeller fold, but proteins have been found with 4 to 16 repeated units, which also form a circularised beta-propeller structure. WD-repeat proteins are a large family found in all eukaryotes and are implicated in a variety of functions ranging from signal transduction and transcription regulation to cell cycle control and apoptosis. Repeated WD40 motifs act as a site for protein-protein interaction, and proteins containing WD40 repeats are known to serve as platforms for the assembly of protein complexes or mediators of transient interplay among other proteins. The specificity of the proteins is determined by the sequences outside the repeats themselves. Examples of such complexes are G proteins (beta subunit is a beta-propeller), TAFII transcription factor, and E3 ubiquitin ligase [, ]. In Arabidopsis spp., several WD40-containing proteins act as key regulators of plant-specific developmental events. This region appears to be related to the IPR001680 from INTERPRO repeat. This model is likely to miss copies within a sequence.; PDB: 2HQS_D 1C5K_A 2IVZ_A 2W8B_D 3IAX_A 1CRZ_A 1N6F_D 1N6D_C 1N6E_C 1K32_A ....
Probab=24.58 E-value=68 Score=18.96 Aligned_cols=19 Identities=37% Similarity=0.504 Sum_probs=14.4
Q ss_pred CceEEEEEecCCccccccc
Q 039982 41 ADVGVIVFSSTGKLYEFSS 59 (253)
Q Consensus 41 aevalIifS~~gkl~e~~s 59 (253)
..-.-..|||+||-..|++
T Consensus 9 ~~~~~p~~SpDGk~i~f~s 27 (39)
T PF07676_consen 9 GDDGSPAWSPDGKYIYFTS 27 (39)
T ss_dssp SSEEEEEE-TTSSEEEEEE
T ss_pred ccccCEEEecCCCEEEEEe
Confidence 3556689999999888876
No 173
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=24.54 E-value=3e+02 Score=24.68 Aligned_cols=23 Identities=30% Similarity=0.453 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQV 148 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~ql 148 (253)
+--+-+.+|+.-|...++.|+++
T Consensus 88 q~y~q~s~Leddlsqt~aikeql 110 (333)
T KOG1853|consen 88 QFYQQESQLEDDLSQTHAIKEQL 110 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456777888888888888765
No 174
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=24.39 E-value=6.4e+02 Score=24.68 Aligned_cols=73 Identities=18% Similarity=0.204 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHHHHHH------------------------HHHh--cCCCCCCCCHHHHHHHHHHHHHHHHHHH---HH
Q 039982 94 SAELNALKDEYARLRLA------------------------YMRM--NGQELDGLSFKELQQLEHQLSEGMLSVK---DM 144 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~------------------------~r~l--~GedL~~Ls~~EL~~LE~~Le~sL~~IR---~r 144 (253)
++=+..|+.+++.|++. +|.- +.-+|+.||.+||+ .+++.+++.+- .-
T Consensus 148 keLi~QLk~Ql~dLE~~AYe~Geg~LPq~viLekQk~ilDeLr~Kl~lnl~i~~lsteelr---~qVD~A~~q~VnP~k~ 224 (621)
T KOG3759|consen 148 KELIKQLKEQLEDLERTAYENGEGELPQTVILEKQKAILDELREKLELNLDIDKLSTEELR---RQVDDALKQLVNPFKE 224 (621)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCcCchHHHHHHHHHHHHHHHHHhhccCCcccccHHHHH---HHHHHHHHHHhChHHH
Confidence 34456688888888754 1111 13357888888765 57788877763 35
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 145 KEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 145 K~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
|+||. +.|+.+...|+.=-+.|...
T Consensus 225 KeQLV----~QLkTQItDLErFInFlQ~e 249 (621)
T KOG3759|consen 225 KEQLV----DQLKTQITDLERFINFLQDE 249 (621)
T ss_pred HHHHH----HHHHHHHHHHHHHHHHHHHh
Confidence 66653 34444444444433444333
No 175
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=24.36 E-value=7.1e+02 Score=24.76 Aligned_cols=11 Identities=27% Similarity=0.603 Sum_probs=4.2
Q ss_pred HHHHHHHHHHH
Q 039982 97 LNALKDEYARL 107 (253)
Q Consensus 97 ~~kLk~ei~~L 107 (253)
+.+|+.+++.+
T Consensus 115 i~kl~~e~~el 125 (546)
T KOG0977|consen 115 ITKLREELKEL 125 (546)
T ss_pred HHHhHHHHHHH
Confidence 33333333333
No 176
>PLN03128 DNA topoisomerase 2; Provisional
Probab=24.30 E-value=5.2e+02 Score=28.19 Aligned_cols=107 Identities=15% Similarity=0.112 Sum_probs=0.0
Q ss_pred EEEEecCCcccccccchhhhhhhhhcccchhhhhcccCCCCCCCCCCcchHHHHHHHHHHHHHHHH--------------
Q 039982 45 VIVFSSTGKLYEFSSSSMEHILSRYSKGIDLECQTNRNEEHGVPELPPKSAELNALKDEYARLRLA-------------- 110 (253)
Q Consensus 45 lIifS~~gkl~e~~s~sm~~iieRY~~~~~~~~~~~~~~~~~~~~lq~~~~e~~kLk~ei~~Lq~~-------------- 110 (253)
+++|.+.|++..| .++.+||..|-.+--.--..+. +..+.+++.++..++..
T Consensus 962 m~l~d~~~~i~ky--~~~~~il~~f~~~R~~~y~kRk------------~~~l~~~~~~~~~l~~k~~fi~~v~~~~~~i 1027 (1135)
T PLN03128 962 MHLFDKDGKIKKY--DSPEDILEEFFHLRLDLYVKRK------------EVLLENLEYELKKLDNKARFILAVVKGEIVV 1027 (1135)
T ss_pred EEEECCCCcccCC--CCHHHHHHHHHHHHHHhhhhhH------------HHHHHHHHHHHHHHHHHhHHHhheecceEEE
Q ss_pred --------HHHhcCCCCCCCCHHHHH--------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 111 --------YMRMNGQELDGLSFKELQ--------------------------QLEHQLSEGMLSVKDMKEQVLLEQIRRS 156 (253)
Q Consensus 111 --------~r~l~GedL~~Ls~~EL~--------------------------~LE~~Le~sL~~IR~rK~qll~~qi~~L 156 (253)
...++..+++.++..+-+ ...-.|...|.+...-+.+.|.++.+.+
T Consensus 1028 ~~~~k~~~~~~L~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~yLL~M~l~~LT~e~~~kL~~e~~~~ 1107 (1135)
T PLN03128 1028 NNRKRAELLAELEEKGFDKFPKTAKISETNVVGDRDGEASEEEEASDNELAKSYDYLLGMPISSLTLEKVDELRAERAKK 1107 (1135)
T ss_pred cCCCHHHHHHHHHHcCCCCcchhhhhccccccccccccccchhhhcccccccchHHHHhCHHHHhhHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHH
Q 039982 157 RLMEQKAML 165 (253)
Q Consensus 157 k~Ke~~l~e 165 (253)
+.....|..
T Consensus 1108 ~~ei~~l~~ 1116 (1135)
T PLN03128 1108 ETEVEELKK 1116 (1135)
T ss_pred HHHHHHHHc
No 177
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=24.16 E-value=2.7e+02 Score=23.23 Aligned_cols=25 Identities=36% Similarity=0.454 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 150 LEQIRRSRLMEQKAMLENETLRKQM 174 (253)
Q Consensus 150 ~~qi~~Lk~Ke~~l~eeN~~L~~~~ 174 (253)
.++|..|+.+...|..++..|.++.
T Consensus 110 ~~e~~kl~~~~e~L~~e~~~L~~~~ 134 (170)
T PRK13923 110 SEQIGKLQEEEEKLSWENQTLKQEL 134 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555555553
No 178
>PF05082 Rop-like: Rop-like; InterPro: IPR007774 This family contains several uncharacterised bacterial proteins. These proteins are found in nitrogen fixation operons, so are likely to play a role in this process.; PDB: 3CSX_A 2JS5_B.
Probab=24.15 E-value=2.6e+02 Score=19.61 Aligned_cols=31 Identities=10% Similarity=0.157 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 039982 150 LEQIRRSRLMEQKAMLENETLRKQMEELRRS 180 (253)
Q Consensus 150 ~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~~~ 180 (253)
|+.|+.|+++.+.|...-....-.++.+...
T Consensus 1 m~d~~eLk~evkKL~~~A~~~kmdLHDLaEd 31 (66)
T PF05082_consen 1 MSDIEELKKEVKKLNRKATQAKMDLHDLAED 31 (66)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 5778999999999988888888888887654
No 179
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=24.13 E-value=92 Score=23.33 Aligned_cols=21 Identities=33% Similarity=0.338 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 039982 125 KELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 125 ~EL~~LE~~Le~sL~~IR~rK 145 (253)
-||+++|++-+..|..|+.+=
T Consensus 28 ~EL~~~Eq~~q~Wl~sI~ekd 48 (92)
T PF15243_consen 28 TELQQQEQQHQAWLQSIAEKD 48 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 478899999999988888763
No 180
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=24.12 E-value=4e+02 Score=25.38 Aligned_cols=29 Identities=17% Similarity=0.166 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 149 LLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 149 l~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
+.+....|.++...+.++-..|..+++..
T Consensus 380 l~~~~~~l~~~~~~l~~~~~~l~~~l~~~ 408 (451)
T PF03961_consen 380 LKEKKKELKEELKELKEELKELKEELERS 408 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33444555555555555555666655544
No 181
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=24.00 E-value=52 Score=26.48 Aligned_cols=25 Identities=28% Similarity=0.375 Sum_probs=20.3
Q ss_pred hhcccCCceEEEEEecCCccccccc
Q 039982 35 LSVLCDADVGVIVFSSTGKLYEFSS 59 (253)
Q Consensus 35 LSvLCdaevalIifS~~gkl~e~~s 59 (253)
+.++|||||-++|-|.+.+-.-||.
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~p 83 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFPP 83 (148)
T ss_pred HHHhhccceeeeeecccCccccCCc
Confidence 5789999999999998887555543
No 182
>PF01093 Clusterin: Clusterin; InterPro: IPR000753 Clusterin is a vertebrate glycoprotein [], the exact function of which is not yet clear. Clusterin expression is complex, appearing as different forms in different cell compartments. One set of proteins is directed for secretion, and other clusterin species are expressed in the cytoplasm and nucleus. The secretory form of the clusterin protein (sCLU) is targeted to the ER by an initial leader peptide. This ~60kDa pre-sCLU protein is further glycosylated and proteolytically cleaved into alpha- and beta-subunits, held together by disulphide bonds. External sCLU is an 80kDa protein and may act as a molecular chaperone, scavenging denatured proteins outside cells following specific stress-induced injury such as heat shock. sCLU possesses nonspecific binding activity to hydrophobic domains of various proteins in vitro []. A specific nuclear form of CLU (nCLU) acts as a pro-death signal, inhibiting cell growth and survival. The nCLU protein has two coiled-coil domains, one at its N terminus that is unable to bind Ku70, and a C-terminal coiled-coil domain that is uniquely able to associate with Ku70 and is minimally required for cell death. Clusterin is synthesized as a precursor polypeptide of about 400 amino acids which is post-translationally cleaved to form two subunits of about 200 amino acids each. The two subunits are linked by five disulphide bonds to form an antiparallel ladder-like structure []. In each of the mature subunits the five cysteines that are involved in disulphide bonds are clustered in domains of about 30 amino acids located in the central part of the subunits. This entry represents the clusterin precursor and related proteins.; GO: 0008219 cell death
Probab=23.91 E-value=3e+02 Score=26.53 Aligned_cols=24 Identities=25% Similarity=0.364 Sum_probs=10.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 122 LSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 122 Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
||..--..+...++.+|..|+..|
T Consensus 6 lS~~GekyvdeEik~Al~GvKqMK 29 (436)
T PF01093_consen 6 LSEQGEKYVDEEIKNALNGVKQMK 29 (436)
T ss_pred HhHhCchhHHHHHHHHHHHHHHHH
Confidence 333333444455555555554433
No 183
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=23.71 E-value=4e+02 Score=21.58 Aligned_cols=46 Identities=20% Similarity=0.270 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQ 173 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~ 173 (253)
|.+.||..-...+.+|+.++.+| +++..-+-=-+.|.+.|..+...
T Consensus 2 ~~~~Le~ek~~~~~rI~~K~~~L--qEL~~Q~va~knLv~RN~~~~~~ 47 (142)
T PF08781_consen 2 ECEELEEEKQRRRERIKKKKEQL--QELILQQVAFKNLVQRNRQLEQS 47 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHS
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhhhc
Confidence 67888888889999999888664 22222233346677777777654
No 184
>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]
Probab=23.47 E-value=5.3e+02 Score=25.53 Aligned_cols=21 Identities=24% Similarity=0.115 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 039982 150 LEQIRRSRLMEQKAMLENETL 170 (253)
Q Consensus 150 ~~qi~~Lk~Ke~~l~eeN~~L 170 (253)
+.+|-.+++|++.+.-|++.|
T Consensus 239 lsql~d~qkk~k~~~~Ekeel 259 (596)
T KOG4360|consen 239 LSQLVDLQKKIKYLRHEKEEL 259 (596)
T ss_pred HHHHHhhHHHHHHHHHHHHHH
Confidence 344444444444444444443
No 185
>PF06937 EURL: EURL protein; InterPro: IPR009704 This family consists of several animal EURL proteins. EURL is preferentially expressed in chick retinal precursor cells as well as in the anterior epithelial cells of the lens at early stages of development. EURL transcripts are found primarily in the peripheral dorsal retina, i.e., the most undifferentiated part of the dorsal retina. EURL transcripts are also detected in the lens at stage 18 and remain abundant in the proliferating epithelial cells of the lens until at least day 11. The distribution pattern of EURL in the developing retina and lens suggest a role before the events leading to cell determination and differentiation [].
Probab=23.24 E-value=85 Score=28.19 Aligned_cols=38 Identities=24% Similarity=0.357 Sum_probs=27.5
Q ss_pred HHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 039982 107 LRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDM 144 (253)
Q Consensus 107 Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~r 144 (253)
++....+.--|+|.+|+++||.+|-..|-..+..|-+.
T Consensus 204 ~~~r~~~~SrEeL~~Mt~~EL~qL~~~L~~qIq~vfee 241 (285)
T PF06937_consen 204 LQRRHPHYSREELNSMTLDELKQLNEKLLQQIQDVFEE 241 (285)
T ss_pred ccccccccCHHHhhhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666678999999999999987776555544443
No 186
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=23.00 E-value=5e+02 Score=26.61 Aligned_cols=18 Identities=28% Similarity=0.386 Sum_probs=11.0
Q ss_pred chHHHHHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLA 110 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~ 110 (253)
.+.++..|+.+++.|+..
T Consensus 458 lk~eL~qlr~ene~Lq~K 475 (697)
T PF09726_consen 458 LKSELSQLRQENEQLQNK 475 (697)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 355566666666666654
No 187
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=22.80 E-value=3.4e+02 Score=20.82 Aligned_cols=47 Identities=15% Similarity=0.119 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 039982 98 NALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMK 145 (253)
Q Consensus 98 ~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK 145 (253)
+.|..++..|-.....++- +-.+++-+|+..|-.+++..|+++|.|-
T Consensus 11 ~~l~~el~~L~d~lEevL~-ssg~~a~~e~~~lR~r~~~~Lk~~r~rl 57 (104)
T COG4575 11 DQLLAELQELLDTLEEVLK-SSGSLAGDEAEELRSKAESALKEARDRL 57 (104)
T ss_pred HHHHHHHHHHHHHHHHHHH-hcccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555444444432 2356778899999999999999998874
No 188
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=22.63 E-value=3e+02 Score=19.76 Aligned_cols=52 Identities=23% Similarity=0.322 Sum_probs=36.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGMLSVKDMKEQV 148 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~~IR~rK~ql 148 (253)
++.|+..|+.+...|+...+++.. +++...-..|+..|+..++++-.+-+|+
T Consensus 22 LqDE~~hm~~e~~~L~~~~~~~d~----s~~~~~R~~L~~~l~~lv~~mE~K~dQI 73 (79)
T PF06657_consen 22 LQDEFGHMKMEHQELQDEYKQMDP----SLGRRKRRDLEQELEELVKRMEAKADQI 73 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc----ccChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666777777777666655432 4567778888888888888877765554
No 189
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. 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 su
Probab=22.29 E-value=3.7e+02 Score=21.05 Aligned_cols=55 Identities=16% Similarity=0.199 Sum_probs=33.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEEL 177 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~ 177 (253)
|+|++|+..+-......- . ...-..++.+++..+.++...|.+--..|...+...
T Consensus 57 GfsL~eI~~ll~~~~~~~-~-~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~ 111 (131)
T cd04786 57 GFSLDEIRQLLPADASNW-Q-HDELLAALERKVADIEALEARLAQNKAQLLVLIDLI 111 (131)
T ss_pred CCCHHHHHHHHhcccCCC-C-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777654321110 1 112234677888888888888877777777766554
No 190
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=22.15 E-value=4.5e+02 Score=23.21 Aligned_cols=24 Identities=8% Similarity=0.209 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 153 IRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 153 i~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
|+.+.-+...+.+..+.|...+..
T Consensus 77 ~E~~~~~l~~~~~rq~~~y~dld~ 100 (263)
T PRK10803 77 IQENQYQLNQVVERQKQIYLQIDS 100 (263)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444433
No 191
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=22.13 E-value=1.5e+02 Score=32.80 Aligned_cols=46 Identities=13% Similarity=0.242 Sum_probs=37.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGML 139 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~ 139 (253)
..++++|.++++.++.++..|.......|..+||..|+..++....
T Consensus 1101 ~e~v~kL~~e~~~~~~e~~~L~~~t~~~lw~~DL~~~~~~~~~~~~ 1146 (1388)
T PTZ00108 1101 KEKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQEE 1146 (1388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888888888888888888888888888887543
No 192
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.07 E-value=5.3e+02 Score=23.11 Aligned_cols=53 Identities=15% Similarity=0.299 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Q 039982 126 ELQQLEHQLSEGMLSVKDMKEQ--VLLEQIRRSRLMEQK----AMLENETLRKQMEELR 178 (253)
Q Consensus 126 EL~~LE~~Le~sL~~IR~rK~q--ll~~qi~~Lk~Ke~~----l~eeN~~L~~~~~~~~ 178 (253)
||..|-.+++.....+-+.+.+ -+..+|..|+.+... +.+.+..|..++..+.
T Consensus 53 ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq 111 (265)
T COG3883 53 EIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQ 111 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666655555444 233444555554333 3345555555555443
No 193
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=21.95 E-value=2.8e+02 Score=27.94 Aligned_cols=19 Identities=26% Similarity=0.265 Sum_probs=13.7
Q ss_pred chHHHHHHHHHHHHHHHHH
Q 039982 93 KSAELNALKDEYARLRLAY 111 (253)
Q Consensus 93 ~~~e~~kLk~ei~~Lq~~~ 111 (253)
++.++..|+++++.|...+
T Consensus 85 Lq~E~~~L~kElE~L~~ql 103 (617)
T PF15070_consen 85 LQAEAEHLRKELESLEEQL 103 (617)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4667778888888777653
No 194
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=21.79 E-value=37 Score=23.44 Aligned_cols=31 Identities=29% Similarity=0.566 Sum_probs=23.1
Q ss_pred cccccchhhhhhhhhcccC-CceEEEEEecCCcc
Q 039982 22 SKRRNGLLKKAKELSVLCD-ADVGVIVFSSTGKL 54 (253)
Q Consensus 22 sKRr~GL~KKA~ELSvLCd-aevalIifS~~gkl 54 (253)
..||.|.+-+ |.||-+| .+=.+-|++..|++
T Consensus 23 ~~RR~g~i~~--~vsi~~~~~~~ei~I~tD~GR~ 54 (63)
T PF04566_consen 23 NLRRSGKISK--EVSIVYDIREKEIRINTDAGRL 54 (63)
T ss_dssp HHHHTTSS-T--TSEEEEETTTTEEEEE-SSCEE
T ss_pred HHhhccCCcc--eeEEEEeccCCEEEEEccCCcc
Confidence 4688887666 8898886 57788899988885
No 195
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. 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=21.72 E-value=2.8e+02 Score=20.57 Aligned_cols=45 Identities=13% Similarity=0.037 Sum_probs=21.6
Q ss_pred CCCHHHHHHHHHHHHH-HHHHH--HHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSE-GMLSV--KDMKEQVLLEQIRRSRLMEQKAML 165 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~-sL~~I--R~rK~qll~~qi~~Lk~Ke~~l~e 165 (253)
|+|++|+..+=..-.. +.... +..-..++.+++..+..+...|..
T Consensus 55 G~sL~eI~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~ 102 (107)
T cd04777 55 GFSLIEIQKIFSYKRLTKSRTHEDQDYYKSFLKNKKDELEKEIEDLKK 102 (107)
T ss_pred CCCHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888888886543211 11111 122234555555555555444443
No 196
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.57 E-value=1.9e+02 Score=21.18 Aligned_cols=37 Identities=19% Similarity=0.129 Sum_probs=20.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAM 164 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~ 164 (253)
+++++|+..+-..-.. ...+++.++++.+.++...|.
T Consensus 57 G~~l~eI~~~l~~~~~-------~~~~~l~~~~~~l~~~i~~l~ 93 (96)
T cd04788 57 GFSLREIGRALDGPDF-------DPLELLRRQLARLEEQLELAT 93 (96)
T ss_pred CCCHHHHHHHHhCCCh-------hHHHHHHHHHHHHHHHHHHHH
Confidence 5778888776543221 223455555565555554443
No 197
>PLN03237 DNA topoisomerase 2; Provisional
Probab=21.30 E-value=2.3e+02 Score=31.65 Aligned_cols=46 Identities=17% Similarity=0.218 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCCCCCCHHHHHHHHHHHHHHHH
Q 039982 94 SAELNALKDEYARLRLAYMRMNGQELDGLSFKELQQLEHQLSEGML 139 (253)
Q Consensus 94 ~~e~~kLk~ei~~Lq~~~r~l~GedL~~Ls~~EL~~LE~~Le~sL~ 139 (253)
..++++|.++.+.++.++..|.+-....|..+||..|+..|+....
T Consensus 1125 ~E~~~kL~~~~~~k~~el~~l~~~t~~~lW~~DLd~f~~~~~~~~~ 1170 (1465)
T PLN03237 1125 LEKVQELCADRDKLNIEVEDLKKTTPKSLWLKDLDALEKELDKLDK 1170 (1465)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4677889999999999999999988888999999999988886543
No 198
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=21.22 E-value=7.7e+02 Score=24.35 Aligned_cols=44 Identities=32% Similarity=0.570 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHhc--CCCCCCCCH-HHHHHHHHHHHHHHHHHHH
Q 039982 100 LKDEYARLRLAYMRMN--GQELDGLSF-KELQQLEHQLSEGMLSVKD 143 (253)
Q Consensus 100 Lk~ei~~Lq~~~r~l~--GedL~~Ls~-~EL~~LE~~Le~sL~~IR~ 143 (253)
+=.+++.|+.-.++|. |-.|+.+++ .++..|..+|...+..|..
T Consensus 228 ~P~ql~el~~gy~~m~~~gy~~~~~~i~~~i~~l~~~i~~~~~~l~~ 274 (569)
T PRK04778 228 LPDQLQELKAGYRELVEEGYHLDHLDIEKEIQDLKEQIDENLALLEE 274 (569)
T ss_pred hhHHHHHHHHHHHHHHHcCCCCCCCChHHHHHHHHHHHHHHHHHHHh
Confidence 3345556666667766 677889886 6899999999986665544
No 199
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=21.09 E-value=2.3e+02 Score=20.79 Aligned_cols=13 Identities=31% Similarity=0.606 Sum_probs=8.5
Q ss_pred CCCHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQ 133 (253)
Q Consensus 121 ~Ls~~EL~~LE~~ 133 (253)
+++++++..+-..
T Consensus 57 G~~l~~I~~~l~~ 69 (96)
T cd04768 57 GFSLAEIKELLDT 69 (96)
T ss_pred CCCHHHHHHHHhc
Confidence 5777777766543
No 200
>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.
Probab=20.97 E-value=4.7e+02 Score=21.37 Aligned_cols=77 Identities=10% Similarity=0.170 Sum_probs=38.1
Q ss_pred ccchhhhhhhhhcccchhhhhcccCCCCCCCCCCcchHHHHHHHHHHHHHHHHHHHhc---------CCCCCCCCHHHHH
Q 039982 58 SSSSMEHILSRYSKGIDLECQTNRNEEHGVPELPPKSAELNALKDEYARLRLAYMRMN---------GQELDGLSFKELQ 128 (253)
Q Consensus 58 ~s~sm~~iieRY~~~~~~~~~~~~~~~~~~~~lq~~~~e~~kLk~ei~~Lq~~~r~l~---------GedL~~Ls~~EL~ 128 (253)
+-..|.+|+.|.+..-......+..+-. .......+....++++++..++.-.+++. ..+++..+++.|.
T Consensus 9 GQEtVQdIvsrt~elF~~lk~~QlPng~-t~~~~~aqdr~~kl~e~lr~i~~LFkkLRlIYekCne~~~~l~~~~iEsLI 87 (150)
T PF11315_consen 9 GQETVQDIVSRTQELFQALKNPQLPNGS-TQQQNMAQDRRNKLQEQLRTIKVLFKKLRLIYEKCNENCQGLEPTPIESLI 87 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCCc-cchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCHHHhc
Confidence 3356888888876654422222221100 00001124455666666666655444332 1456666777776
Q ss_pred HHHHHHH
Q 039982 129 QLEHQLS 135 (253)
Q Consensus 129 ~LE~~Le 135 (253)
-+.....
T Consensus 88 P~~~~~~ 94 (150)
T PF11315_consen 88 PYKEEPR 94 (150)
T ss_pred cccCCcc
Confidence 6554433
No 201
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=20.83 E-value=2.7e+02 Score=18.65 Aligned_cols=7 Identities=29% Similarity=0.748 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 039982 127 LQQLEHQ 133 (253)
Q Consensus 127 L~~LE~~ 133 (253)
+..||..
T Consensus 28 ~~~Le~~ 34 (64)
T PF00170_consen 28 IEELEEK 34 (64)
T ss_dssp HHHHHHH
T ss_pred HHHHHHH
Confidence 3344333
No 202
>PF05483 SCP-1: Synaptonemal complex protein 1 (SCP-1); InterPro: IPR008827 Synaptonemal complex protein 1 (SCP-1) is the major component of the transverse filaments of the synaptonemal complex. Synaptonemal complexes are structures that are formed between homologous chromosomes during meiotic prophase [].; GO: 0007130 synaptonemal complex assembly, 0000795 synaptonemal complex
Probab=20.44 E-value=7.3e+02 Score=25.52 Aligned_cols=26 Identities=19% Similarity=0.299 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 151 EQIRRSRLMEQKAMLENETLRKQMEE 176 (253)
Q Consensus 151 ~qi~~Lk~Ke~~l~eeN~~L~~~~~~ 176 (253)
.+|+.-.+-...|+++|+.|++++..
T Consensus 601 KqvEnk~K~ieeLqqeNk~LKKk~~a 626 (786)
T PF05483_consen 601 KQVENKNKNIEELQQENKALKKKITA 626 (786)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 34444444456678888888888654
No 203
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=20.44 E-value=3.7e+02 Score=21.48 Aligned_cols=52 Identities=12% Similarity=0.095 Sum_probs=31.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 039982 121 GLSFKELQQLEHQLSEGMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQME 175 (253)
Q Consensus 121 ~Ls~~EL~~LE~~Le~sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~ 175 (253)
+++++|+..+-..-+.. . -..-.+++.+++..++++...|..-...|...+.
T Consensus 64 G~sL~eI~~ll~~~~~~--~-~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~ 115 (144)
T PRK13752 64 GFSLDEIAELLRLEDGT--H-CEEASSLAEHKLKDVREKMADLARMEAVLSELVC 115 (144)
T ss_pred CCCHHHHHHHHhccCCC--C-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788887764322111 0 1222356777778888887777777777766553
No 204
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=20.31 E-value=2.3e+02 Score=24.98 Aligned_cols=28 Identities=21% Similarity=0.176 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHH
Q 039982 148 VLLEQIRRSRLMEQ---KAMLENETLRKQME 175 (253)
Q Consensus 148 ll~~qi~~Lk~Ke~---~l~eeN~~L~~~~~ 175 (253)
.|.+|+..|+.... .+.+||.+|++.+.
T Consensus 80 ~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~ 110 (276)
T PRK13922 80 ELKKELLELESRLQELEQLEAENARLRELLN 110 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44455555555443 66788888888664
No 205
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=20.17 E-value=3.8e+02 Score=21.05 Aligned_cols=41 Identities=17% Similarity=0.185 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 039982 137 GMLSVKDMKEQVLLEQIRRSRLMEQKAMLENETLRKQMEELR 178 (253)
Q Consensus 137 sL~~IR~rK~qll~~qi~~Lk~Ke~~l~eeN~~L~~~~~~~~ 178 (253)
++..+..|+ +.+.-+|..|++++..+.++-..|+.++..+-
T Consensus 71 ~~~eL~er~-E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l 111 (119)
T COG1382 71 AVDELEERK-ETLELRIKTLEKQEEKLQERLEELQSEIQKAL 111 (119)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333444443 45667789999999999999999998887654
No 206
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=20.09 E-value=84 Score=25.15 Aligned_cols=32 Identities=19% Similarity=0.259 Sum_probs=24.3
Q ss_pred CCceEEEEEecCCccccccc-chhhhhhhhhccc
Q 039982 40 DADVGVIVFSSTGKLYEFSS-SSMEHILSRYSKG 72 (253)
Q Consensus 40 daevalIifS~~gkl~e~~s-~sm~~iieRY~~~ 72 (253)
...++-||+ ++|++.+|.. -.+.+|+..|=.+
T Consensus 14 ~~~~vkvv~-~~G~v~~~~~pv~a~evm~~~P~h 46 (181)
T PF14009_consen 14 SAATVKVVH-PDGKVEEFKRPVTAAEVMLENPGH 46 (181)
T ss_pred CCceEEEEc-CCCcEEEeCCCcCHHHHHHHCCCC
Confidence 445555555 8999999876 6799999998666
No 207
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=20.06 E-value=1e+03 Score=26.58 Aligned_cols=46 Identities=13% Similarity=0.234 Sum_probs=28.0
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHH
Q 039982 119 LDGLSFKELQQLEHQLSEGMLSVKDMK----EQVLLEQIRRSRLMEQKAM 164 (253)
Q Consensus 119 L~~Ls~~EL~~LE~~Le~sL~~IR~rK----~qll~~qi~~Lk~Ke~~l~ 164 (253)
|-.|+.++...|.++++.....+..-+ ..++.+.++.+.++.....
T Consensus 1096 i~sLT~e~v~kL~~e~~~~~~e~~~L~~~t~~~lw~~DL~~~~~~~~~~~ 1145 (1388)
T PTZ00108 1096 IWSLTKEKVEKLNAELEKKEKELEKLKNTTPKDMWLEDLDKFEEALEEQE 1145 (1388)
T ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHH
Confidence 556677777777777666666555333 3466677777666654443
Done!