Query 028961
Match_columns 201
No_of_seqs 183 out of 1537
Neff 8.0
Searched_HMMs 46136
Date Fri Mar 29 05:16:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028961.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028961hhsearch_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 8E-40 1.7E-44 261.0 4.8 164 1-164 1-191 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 2.1E-34 4.6E-39 196.8 4.8 75 2-77 1-75 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 2.4E-32 5.1E-37 189.4 5.9 78 2-79 1-78 (83)
4 smart00432 MADS MADS domain. 100.0 4.6E-31 1E-35 170.5 4.8 58 2-59 1-58 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 2.4E-30 5.1E-35 167.3 4.1 58 2-59 1-58 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 6.1E-29 1.3E-33 155.6 1.6 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.8 2.4E-20 5.2E-25 133.9 10.7 90 84-173 11-100 (100)
8 KOG0015 Regulator of arginine 99.8 3.3E-21 7.3E-26 158.1 2.7 77 2-78 63-147 (338)
9 COG5068 ARG80 Regulator of arg 99.5 1.1E-14 2.3E-19 124.9 3.6 65 1-66 81-145 (412)
10 PF06005 DUF904: Protein of un 94.8 0.37 8.1E-06 32.2 8.2 49 119-172 1-49 (72)
11 PRK04098 sec-independent trans 92.2 0.07 1.5E-06 41.1 1.2 82 42-133 14-95 (158)
12 PF10584 Proteasome_A_N: Prote 89.0 0.065 1.4E-06 27.7 -1.0 13 44-56 4-16 (23)
13 cd07429 Cby_like Chibby, a nuc 88.4 0.88 1.9E-05 32.9 4.1 22 151-172 75-96 (108)
14 PRK15422 septal ring assembly 88.2 4.4 9.6E-05 27.5 7.1 43 119-166 1-43 (79)
15 PF06698 DUF1192: Protein of u 87.6 1.1 2.4E-05 28.8 3.8 31 110-140 12-42 (59)
16 PF06156 DUF972: Protein of un 87.5 5.7 0.00012 28.6 7.9 51 121-176 7-57 (107)
17 PRK13169 DNA replication intia 87.2 6.1 0.00013 28.6 7.9 50 121-175 7-56 (110)
18 COG3074 Uncharacterized protei 86.9 7 0.00015 25.9 7.6 46 119-169 1-46 (79)
19 PF01166 TSC22: TSC-22/dip/bun 85.8 2.3 5.1E-05 27.1 4.5 29 143-171 16-44 (59)
20 PRK10884 SH3 domain-containing 83.3 22 0.00048 28.6 10.9 77 89-170 90-168 (206)
21 PF08317 Spc7: Spc7 kinetochor 82.9 26 0.00057 30.1 11.3 62 115-176 202-265 (325)
22 TIGR02449 conserved hypothetic 80.0 14 0.0003 24.2 6.8 46 123-173 1-46 (65)
23 PF07106 TBPIP: Tat binding pr 78.9 12 0.00026 28.9 7.2 52 90-142 114-165 (169)
24 PF10504 DUF2452: Protein of u 78.7 14 0.0003 28.6 7.2 44 120-163 28-74 (159)
25 smart00787 Spc7 Spc7 kinetocho 77.7 38 0.00082 29.1 10.5 62 114-175 196-259 (312)
26 cd04787 HTH_HMRTR_unk Helix-Tu 76.1 19 0.00041 26.6 7.4 73 118-193 57-129 (133)
27 COG4467 Regulator of replicati 75.9 20 0.00043 25.8 6.9 48 121-173 7-54 (114)
28 KOG4797 Transcriptional regula 75.8 21 0.00045 25.8 6.9 28 143-170 69-96 (123)
29 PRK10884 SH3 domain-containing 74.3 25 0.00055 28.3 8.1 11 97-107 91-101 (206)
30 PHA02592 52 DNA topisomerase I 73.2 66 0.0014 29.1 11.2 45 25-75 284-328 (439)
31 KOG1962 B-cell receptor-associ 70.8 35 0.00075 27.8 8.0 56 118-173 154-211 (216)
32 KOG4797 Transcriptional regula 69.5 10 0.00022 27.3 4.2 44 128-171 47-90 (123)
33 PHA03155 hypothetical protein; 69.0 42 0.00091 24.4 7.8 57 86-142 9-65 (115)
34 PF05812 Herpes_BLRF2: Herpesv 66.8 48 0.001 24.3 7.5 56 87-142 5-64 (118)
35 PF10224 DUF2205: Predicted co 66.2 39 0.00084 23.0 6.6 32 146-177 35-66 (80)
36 PHA03162 hypothetical protein; 65.8 54 0.0012 24.5 7.9 57 86-142 14-74 (135)
37 COG2433 Uncharacterized conser 65.4 1.2E+02 0.0027 28.5 11.3 54 122-175 450-508 (652)
38 PF14645 Chibby: Chibby family 64.1 13 0.00028 27.2 4.0 22 151-172 74-95 (116)
39 cd00187 TOP4c DNA Topoisomeras 63.1 74 0.0016 28.8 9.4 62 7-75 257-329 (445)
40 PF10491 Nrf1_DNA-bind: NLS-bi 62.7 17 0.00037 29.3 4.7 47 26-73 35-88 (214)
41 PF06156 DUF972: Protein of un 62.1 22 0.00047 25.6 4.8 35 143-177 17-51 (107)
42 PF00170 bZIP_1: bZIP transcri 62.1 38 0.00083 21.5 6.3 36 134-173 16-51 (64)
43 smart00340 HALZ homeobox assoc 60.7 27 0.00059 20.7 4.1 29 151-179 8-36 (44)
44 smart00338 BRLZ basic region l 60.6 41 0.00089 21.4 6.1 36 135-174 17-52 (65)
45 KOG3088 Secretory carrier memb 60.6 27 0.00059 29.7 5.7 49 146-195 69-117 (313)
46 PRK04654 sec-independent trans 59.8 1.4 3.1E-05 35.5 -1.8 34 34-72 8-41 (214)
47 PF14915 CCDC144C: CCDC144C pr 59.5 1.1E+02 0.0025 26.1 9.7 79 89-173 3-81 (305)
48 KOG0930 Guanine nucleotide exc 59.1 37 0.0008 28.9 6.3 43 116-167 8-50 (395)
49 PF14282 FlxA: FlxA-like prote 58.6 64 0.0014 23.0 9.8 61 91-168 18-78 (106)
50 PF07926 TPR_MLP1_2: TPR/MLP1/ 58.3 72 0.0016 23.5 11.0 31 143-173 100-130 (132)
51 PRK00888 ftsB cell division pr 58.2 39 0.00083 24.1 5.6 24 149-172 35-58 (105)
52 PRK13729 conjugal transfer pil 56.6 1.1E+02 0.0023 28.1 9.1 30 144-173 93-122 (475)
53 TIGR02449 conserved hypothetic 56.3 41 0.00089 22.0 4.9 28 146-173 5-32 (65)
54 PF06005 DUF904: Protein of un 56.3 57 0.0012 21.7 5.8 30 141-170 11-40 (72)
55 PF07716 bZIP_2: Basic region 54.9 48 0.001 20.4 6.3 37 134-174 15-51 (54)
56 PF15397 DUF4618: Domain of un 54.7 67 0.0015 26.9 7.1 37 141-177 186-222 (258)
57 PF02416 MttA_Hcf106: mttA/Hcf 54.7 1.3 2.9E-05 27.7 -2.2 31 43-76 12-42 (53)
58 PRK13169 DNA replication intia 54.2 36 0.00078 24.6 4.8 34 143-176 17-50 (110)
59 PF05529 Bap31: B-cell recepto 53.7 1E+02 0.0022 24.1 7.9 55 121-175 124-188 (192)
60 PF11232 Med25: Mediator compl 53.1 12 0.00027 28.7 2.4 35 37-71 109-150 (152)
61 PF04977 DivIC: Septum formati 52.3 39 0.00085 22.0 4.6 30 145-174 21-50 (80)
62 PF10226 DUF2216: Uncharacteri 51.3 77 0.0017 25.3 6.6 31 141-171 48-78 (195)
63 TIGR02209 ftsL_broad cell divi 51.0 71 0.0015 21.2 6.4 33 144-176 27-59 (85)
64 PF09941 DUF2173: Uncharacteri 50.6 22 0.00048 25.7 3.2 26 32-58 3-28 (108)
65 KOG4643 Uncharacterized coiled 49.9 48 0.001 33.0 6.2 44 130-173 282-326 (1195)
66 PF03980 Nnf1: Nnf1 ; InterPr 49.8 73 0.0016 22.5 6.0 48 115-175 60-107 (109)
67 PF09278 MerR-DNA-bind: MerR, 49.5 63 0.0014 20.2 5.4 11 118-128 14-24 (65)
68 PRK14860 tatA twin arginine tr 49.3 3.8 8.3E-05 26.7 -0.8 40 33-77 7-46 (64)
69 TIGR02338 gimC_beta prefoldin, 49.3 94 0.002 22.1 9.5 45 128-173 62-106 (110)
70 KOG0183 20S proteasome, regula 49.1 9.3 0.0002 31.0 1.2 18 41-58 4-23 (249)
71 PF04999 FtsL: Cell division p 48.6 87 0.0019 21.5 6.3 45 143-187 37-91 (97)
72 cd04770 HTH_HMRTR Helix-Turn-H 48.5 1E+02 0.0022 22.2 7.0 54 118-172 57-110 (123)
73 KOG4005 Transcription factor X 48.1 1.5E+02 0.0032 24.6 7.9 30 143-172 106-135 (292)
74 PF13870 DUF4201: Domain of un 48.0 1.3E+02 0.0028 23.2 11.8 83 88-173 9-102 (177)
75 PRK10227 DNA-binding transcrip 47.0 1.1E+02 0.0023 22.8 6.6 55 118-173 57-111 (135)
76 TIGR00606 rad50 rad50. This fa 46.3 2.7E+02 0.0059 28.8 11.4 56 118-173 821-882 (1311)
77 KOG0184 20S proteasome, regula 46.2 11 0.00023 30.9 1.1 23 36-58 3-27 (254)
78 cd01109 HTH_YyaN Helix-Turn-He 46.2 1E+02 0.0023 21.8 6.4 54 118-172 57-110 (113)
79 KOG0804 Cytoplasmic Zn-finger 45.0 2.1E+02 0.0045 26.0 9.0 35 135-169 376-410 (493)
80 PF07558 Shugoshin_N: Shugoshi 44.9 32 0.00069 20.7 2.9 32 141-172 14-45 (46)
81 KOG4252 GTP-binding protein [S 44.9 1.5E+02 0.0034 23.7 7.4 30 39-75 91-120 (246)
82 PF07888 CALCOCO1: Calcium bin 44.7 2.7E+02 0.0058 26.0 12.0 19 153-171 218-236 (546)
83 cd04785 HTH_CadR-PbrR-like Hel 44.6 1.2E+02 0.0026 22.0 6.8 55 118-173 57-111 (126)
84 smart00338 BRLZ basic region l 43.9 83 0.0018 19.9 5.0 29 143-171 35-63 (65)
85 PRK01470 tatA twin arginine tr 43.8 5.3 0.00011 24.8 -0.7 32 43-77 14-45 (51)
86 PRK00182 tatB sec-independent 43.5 5.5 0.00012 30.8 -0.8 38 34-76 9-46 (160)
87 PF14662 CCDC155: Coiled-coil 43.4 1.7E+02 0.0037 23.4 10.9 16 90-105 41-56 (193)
88 PF05812 Herpes_BLRF2: Herpesv 42.3 52 0.0011 24.1 4.1 28 149-176 4-31 (118)
89 PF14009 DUF4228: Domain of un 41.5 26 0.00056 26.5 2.7 33 40-73 14-46 (181)
90 TIGR01411 tatAE twin arginine- 41.0 5.8 0.00013 24.1 -0.8 38 34-76 6-43 (47)
91 PF04849 HAP1_N: HAP1 N-termin 40.7 43 0.00094 28.7 4.0 27 149-175 161-187 (306)
92 KOG0963 Transcription factor/C 40.7 3.2E+02 0.007 25.8 10.3 83 92-174 121-208 (629)
93 COG5000 NtrY Signal transducti 40.5 22 0.00047 33.5 2.3 22 36-57 374-395 (712)
94 PF03961 DUF342: Protein of un 40.5 78 0.0017 28.4 5.9 49 151-199 385-433 (451)
95 cd04769 HTH_MerR2 Helix-Turn-H 40.4 1E+02 0.0023 22.0 5.6 15 118-132 56-70 (116)
96 KOG4343 bZIP transcription fac 39.9 97 0.0021 28.8 6.2 30 148-177 309-338 (655)
97 PRK09822 lipopolysaccharide co 39.5 22 0.00048 29.3 2.0 38 20-58 119-159 (269)
98 cd01108 HTH_CueR Helix-Turn-He 39.4 1.5E+02 0.0032 21.6 6.9 54 118-172 57-110 (127)
99 TIGR01410 tatB twin arginine-t 39.2 8.1 0.00017 26.3 -0.5 31 43-76 14-44 (80)
100 TIGR02044 CueR Cu(I)-responsiv 38.9 1.5E+02 0.0033 21.5 6.7 54 118-172 57-110 (127)
101 TIGR02051 MerR Hg(II)-responsi 38.6 1.5E+02 0.0033 21.4 7.0 53 118-173 56-108 (124)
102 PF11365 DUF3166: Protein of u 38.5 1.3E+02 0.0029 21.2 5.6 37 141-177 8-44 (96)
103 PRK15002 redox-sensitivie tran 38.3 1.5E+02 0.0033 22.6 6.4 54 118-171 67-120 (154)
104 PHA03155 hypothetical protein; 38.1 55 0.0012 23.8 3.6 26 150-175 10-35 (115)
105 PRK03100 sec-independent trans 37.9 8.7 0.00019 28.9 -0.5 36 34-74 9-44 (136)
106 COG4467 Regulator of replicati 37.8 57 0.0012 23.5 3.6 30 146-175 20-49 (114)
107 PF04880 NUDE_C: NUDE protein, 37.6 87 0.0019 24.4 5.0 13 124-136 2-14 (166)
108 PF07407 Seadorna_VP6: Seadorn 37.4 1E+02 0.0022 26.8 5.7 42 113-168 23-64 (420)
109 PRK11637 AmiB activator; Provi 37.1 3E+02 0.0065 24.4 11.4 76 89-173 51-128 (428)
110 TIGR03752 conj_TIGR03752 integ 36.5 3.4E+02 0.0073 24.9 10.2 72 89-173 70-141 (472)
111 PHA03162 hypothetical protein; 36.5 62 0.0013 24.2 3.8 27 150-176 15-41 (135)
112 COG4917 EutP Ethanolamine util 36.4 24 0.00053 26.5 1.7 25 34-58 58-82 (148)
113 cd01107 HTH_BmrR Helix-Turn-He 36.1 1.5E+02 0.0033 20.8 6.3 48 118-171 58-105 (108)
114 TIGR02231 conserved hypothetic 36.1 3.4E+02 0.0074 24.8 10.0 48 118-173 123-170 (525)
115 PLN03128 DNA topoisomerase 2; 35.8 4E+02 0.0088 27.3 10.4 29 44-75 961-989 (1135)
116 PF10226 DUF2216: Uncharacteri 35.7 2.3E+02 0.005 22.6 7.7 66 114-179 3-79 (195)
117 PRK14127 cell division protein 35.5 1E+02 0.0023 22.2 4.8 19 115-133 19-37 (109)
118 KOG0250 DNA repair protein RAD 34.7 5.1E+02 0.011 26.3 11.9 26 84-109 660-685 (1074)
119 PF09755 DUF2046: Uncharacteri 34.0 3.1E+02 0.0067 23.7 11.1 79 94-172 180-278 (310)
120 TIGR02047 CadR-PbrR Cd(II)/Pb( 34.0 1.9E+02 0.004 21.1 6.9 54 118-172 57-110 (127)
121 KOG2129 Uncharacterized conser 33.9 3.6E+02 0.0078 24.4 10.1 27 146-172 276-302 (552)
122 PRK10265 chaperone-modulator p 33.8 58 0.0013 22.9 3.3 79 32-112 10-98 (101)
123 PF15066 CAGE1: Cancer-associa 33.8 2.7E+02 0.0059 25.5 8.0 13 33-45 254-266 (527)
124 KOG0971 Microtubule-associated 33.6 5.1E+02 0.011 26.1 11.6 55 86-140 326-389 (1243)
125 TIGR02894 DNA_bind_RsfA transc 33.4 2.3E+02 0.005 22.0 11.7 57 116-172 77-135 (161)
126 PF09789 DUF2353: Uncharacteri 33.0 3.2E+02 0.007 23.6 10.0 48 129-177 68-115 (319)
127 PF10211 Ax_dynein_light: Axon 33.0 2.4E+02 0.0053 22.2 10.0 17 156-172 171-187 (189)
128 COG4831 Roadblock/LC7 domain [ 33.0 25 0.00055 24.8 1.2 29 30-59 3-31 (109)
129 PRK15422 septal ring assembly 32.9 1.6E+02 0.0034 20.0 5.5 31 142-172 12-42 (79)
130 PF08687 ASD2: Apx/Shroom doma 32.8 13 0.00029 31.1 -0.2 60 133-196 82-148 (264)
131 PRK14859 tatA twin arginine tr 32.6 7.9 0.00017 25.2 -1.3 32 43-77 15-46 (63)
132 TIGR01950 SoxR redox-sensitive 32.3 1.3E+02 0.0028 22.6 5.1 55 118-172 57-111 (142)
133 PF10623 PilI: Plasmid conjuga 32.3 54 0.0012 22.3 2.6 31 42-72 8-40 (83)
134 cd02980 TRX_Fd_family Thioredo 32.3 37 0.0008 22.0 1.9 31 39-70 47-77 (77)
135 PF09388 SpoOE-like: Spo0E lik 32.2 1.1E+02 0.0023 18.1 3.8 40 97-138 2-41 (45)
136 TIGR01478 STEVOR variant surfa 32.0 71 0.0015 27.1 3.9 45 7-72 25-69 (295)
137 KOG4603 TBP-1 interacting prot 31.8 2.6E+02 0.0056 22.1 8.3 56 87-143 118-173 (201)
138 PRK01770 sec-independent trans 31.5 61 0.0013 25.4 3.3 38 34-76 8-45 (171)
139 cd04783 HTH_MerR1 Helix-Turn-H 31.1 2E+02 0.0044 20.7 6.9 52 118-172 57-108 (126)
140 cd01282 HTH_MerR-like_sg3 Heli 31.1 1.7E+02 0.0036 20.8 5.4 51 118-169 56-109 (112)
141 PF09730 BicD: Microtubule-ass 30.9 5E+02 0.011 25.2 10.7 21 154-174 127-147 (717)
142 KOG0933 Structural maintenance 30.8 4.4E+02 0.0095 26.7 9.3 10 47-56 654-663 (1174)
143 PRK09413 IS2 repressor TnpA; R 30.7 1.6E+02 0.0034 21.2 5.2 30 146-175 76-105 (121)
144 PRK00191 tatA twin arginine tr 30.6 8.1 0.00018 26.6 -1.5 39 33-76 6-44 (84)
145 PRK11637 AmiB activator; Provi 30.4 3.9E+02 0.0084 23.7 11.8 16 146-161 108-123 (428)
146 cd04779 HTH_MerR-like_sg4 Heli 30.4 2.3E+02 0.005 21.0 7.9 50 118-167 56-107 (134)
147 PF06937 EURL: EURL protein; 30.2 81 0.0018 26.6 3.9 33 108-140 208-240 (285)
148 PF03428 RP-C: Replication pro 30.1 68 0.0015 25.2 3.3 64 41-111 96-170 (177)
149 PF09798 LCD1: DNA damage chec 29.9 2.6E+02 0.0055 26.8 7.6 52 122-173 4-58 (654)
150 PF11802 CENP-K: Centromere-as 29.6 3.4E+02 0.0075 22.8 9.4 55 90-144 57-114 (268)
151 cd04790 HTH_Cfa-like_unk Helix 29.6 2E+02 0.0043 22.2 6.0 47 118-171 58-104 (172)
152 PF15342 FAM212: FAM212 family 29.5 19 0.00041 23.0 0.1 13 187-199 36-48 (62)
153 PF01502 PRA-CH: Phosphoribosy 29.4 12 0.00025 25.3 -0.9 35 19-53 20-63 (75)
154 COG0139 HisI Phosphoribosyl-AM 29.1 22 0.00047 25.8 0.4 35 19-53 52-95 (111)
155 KOG0946 ER-Golgi vesicle-tethe 29.0 5.8E+02 0.013 25.3 12.0 83 86-173 612-696 (970)
156 cd01106 HTH_TipAL-Mta Helix-Tu 28.7 2E+02 0.0044 19.9 6.0 15 118-132 57-71 (103)
157 TIGR00012 L29 ribosomal protei 28.5 1.1E+02 0.0025 18.9 3.6 27 116-142 2-28 (55)
158 cd04776 HTH_GnyR Helix-Turn-He 28.5 2.3E+02 0.0049 20.4 6.8 55 118-172 55-111 (118)
159 KOG4637 Adaptor for phosphoino 28.3 48 0.001 29.3 2.4 45 33-77 367-415 (464)
160 PF08385 DHC_N1: Dynein heavy 28.3 4.6E+02 0.0099 23.9 10.7 83 88-176 294-378 (579)
161 PRK14858 tatA twin arginine tr 27.7 7.2 0.00016 28.2 -2.3 31 43-76 15-45 (108)
162 PF07676 PD40: WD40-like Beta 27.6 59 0.0013 18.0 2.0 20 41-60 9-28 (39)
163 cd04784 HTH_CadR-PbrR Helix-Tu 27.6 2.4E+02 0.0052 20.4 7.1 55 118-173 57-111 (127)
164 COG4575 ElaB Uncharacterized c 27.5 2.4E+02 0.0051 20.3 5.4 26 117-142 32-57 (104)
165 KOG3718 Carnitine O-acyltransf 27.3 51 0.0011 30.2 2.4 28 48-76 14-41 (609)
166 PF09151 DUF1936: Domain of un 27.1 59 0.0013 18.0 1.8 24 34-57 2-25 (36)
167 PF02183 HALZ: Homeobox associ 26.9 1.5E+02 0.0032 17.7 5.5 33 143-175 7-39 (45)
168 PRK09514 zntR zinc-responsive 26.8 2.4E+02 0.0053 20.9 5.8 55 118-172 58-112 (140)
169 cd00890 Prefoldin Prefoldin is 26.7 2.4E+02 0.0052 20.0 6.4 10 190-199 71-80 (129)
170 PRK05561 DNA topoisomerase IV 26.4 6.1E+02 0.013 24.7 11.0 106 44-162 337-458 (742)
171 PF02824 TGS: TGS domain; Int 26.4 88 0.0019 19.6 2.9 27 45-71 1-27 (60)
172 KOG0977 Nuclear envelope prote 26.3 5.4E+02 0.012 24.1 9.1 18 90-107 111-128 (546)
173 COG3883 Uncharacterized protei 26.3 3.1E+02 0.0066 23.1 6.7 53 89-143 49-101 (265)
174 KOG3850 Predicted membrane pro 26.3 3.1E+02 0.0067 24.5 6.9 41 91-139 323-363 (455)
175 PRK03625 tatE twin arginine tr 26.2 13 0.00029 24.4 -1.0 31 43-76 15-45 (67)
176 PRK13923 putative spore coat p 26.1 2.3E+02 0.005 22.2 5.6 9 116-124 100-108 (170)
177 PF04521 Viral_P18: ssRNA posi 25.9 1.5E+02 0.0033 21.8 4.2 22 18-39 4-25 (120)
178 PRK09458 pspB phage shock prot 25.8 2.1E+02 0.0046 19.2 4.8 30 116-154 33-62 (75)
179 cd04788 HTH_NolA-AlbR Helix-Tu 25.7 1.7E+02 0.0036 20.1 4.5 36 118-160 57-92 (96)
180 PF15254 CCDC14: Coiled-coil d 25.5 6.5E+02 0.014 24.7 11.2 85 90-175 392-482 (861)
181 PF02151 UVR: UvrB/uvrC motif; 25.2 1.4E+02 0.0029 16.7 4.0 33 123-155 3-35 (36)
182 PRK13824 replication initiatio 25.2 3.2E+02 0.007 24.4 7.1 97 34-140 103-211 (404)
183 PF12709 Kinetocho_Slk19: Cent 25.0 2.4E+02 0.0052 19.5 8.4 29 146-174 47-75 (87)
184 PF06785 UPF0242: Uncharacteri 25.0 4.7E+02 0.01 22.9 9.1 80 87-173 94-173 (401)
185 PF09177 Syntaxin-6_N: Syntaxi 24.9 1.3E+02 0.0028 20.8 3.7 78 61-139 15-94 (97)
186 KOG4603 TBP-1 interacting prot 24.8 1.2E+02 0.0027 23.8 3.8 55 88-142 82-139 (201)
187 PF11629 Mst1_SARAH: C termina 24.8 1.8E+02 0.0038 17.9 4.9 18 116-133 5-22 (49)
188 cd01365 KISc_KIF1A_KIF1B Kines 24.6 71 0.0015 27.7 2.8 23 36-58 83-108 (356)
189 TIGR01916 F420_cofE F420-0:gam 24.4 60 0.0013 26.9 2.2 25 34-58 134-158 (243)
190 cd04786 HTH_MerR-like_sg7 Heli 24.2 2.9E+02 0.0064 20.3 6.4 56 118-175 57-112 (131)
191 PF01920 Prefoldin_2: Prefoldi 24.1 1.8E+02 0.0039 19.9 4.4 69 33-113 36-104 (106)
192 PF15188 CCDC-167: Coiled-coil 24.0 2.5E+02 0.0054 19.3 6.6 37 117-165 31-67 (85)
193 PF14988 DUF4515: Domain of un 23.9 3.8E+02 0.0083 21.5 8.2 53 121-173 113-174 (206)
194 TIGR02043 ZntR Zn(II)-responsi 23.8 2.9E+02 0.0063 20.2 5.7 55 118-173 58-113 (131)
195 cd01668 TGS_RelA_SpoT TGS_RelA 23.7 78 0.0017 19.1 2.2 25 46-70 2-26 (60)
196 cd04768 HTH_BmrR-like Helix-Tu 23.3 2.3E+02 0.005 19.4 4.8 13 118-130 57-69 (96)
197 PF04849 HAP1_N: HAP1 N-termin 23.0 4.9E+02 0.011 22.4 7.7 27 148-174 241-267 (306)
198 cd03064 TRX_Fd_NuoE TRX-like [ 22.9 59 0.0013 21.4 1.6 29 39-70 52-80 (80)
199 PF00383 dCMP_cyt_deam_1: Cyti 22.8 1E+02 0.0023 20.9 3.0 29 28-56 7-39 (102)
200 KOG4196 bZIP transcription fac 22.8 3.3E+02 0.0072 20.4 6.6 30 148-177 88-117 (135)
201 PRK04863 mukB cell division pr 22.8 9.3E+02 0.02 25.6 10.7 51 115-173 431-481 (1486)
202 PRK13752 putative transcriptio 22.7 3.3E+02 0.0072 20.4 6.7 53 118-173 64-116 (144)
203 PRK00306 50S ribosomal protein 22.5 1.1E+02 0.0024 19.7 2.8 26 115-140 5-30 (66)
204 PF07106 TBPIP: Tat binding pr 22.4 3.5E+02 0.0077 20.5 10.9 54 86-143 80-133 (169)
205 cd04777 HTH_MerR-like_sg1 Heli 22.4 2.8E+02 0.006 19.3 5.5 12 118-129 55-66 (107)
206 KOG0182 20S proteasome, regula 22.1 55 0.0012 26.6 1.5 18 39-56 7-24 (246)
207 PRK11519 tyrosine kinase; Prov 22.1 7.1E+02 0.015 23.9 9.4 50 62-112 245-294 (719)
208 PF12537 DUF3735: Protein of u 22.1 1.8E+02 0.0039 19.0 3.8 25 121-145 47-71 (72)
209 COG4026 Uncharacterized protei 22.0 4.6E+02 0.0099 21.7 9.4 27 149-175 164-190 (290)
210 PF13874 Nup54: Nucleoporin co 21.9 3.4E+02 0.0074 20.1 6.2 59 121-179 60-124 (141)
211 PF10498 IFT57: Intra-flagella 21.8 5.5E+02 0.012 22.5 8.1 52 120-172 239-290 (359)
212 PF07200 Mod_r: Modifier of ru 21.6 2.3E+02 0.0049 21.1 4.8 49 124-172 29-79 (150)
213 cd00632 Prefoldin_beta Prefold 21.3 93 0.002 21.9 2.5 52 148-199 6-57 (105)
214 cd08888 SRPBCC_PITPNA-B_like L 21.2 1.2E+02 0.0026 25.4 3.4 33 107-139 223-257 (258)
215 PF06785 UPF0242: Uncharacteri 21.1 5.7E+02 0.012 22.4 7.9 53 121-174 101-153 (401)
216 COG3411 Ferredoxin [Energy pro 21.0 80 0.0017 20.6 1.8 29 44-72 18-46 (64)
217 PRK13922 rod shape-determining 21.0 2.3E+02 0.0049 23.5 5.1 28 146-173 81-111 (276)
218 cd03750 proteasome_alpha_type_ 20.9 36 0.00078 27.4 0.3 15 44-58 4-20 (227)
219 PF06020 Roughex: Drosophila r 20.9 47 0.001 28.3 0.9 16 36-51 183-198 (334)
220 PRK02201 putative inner membra 20.8 52 0.0011 28.9 1.2 24 136-159 155-178 (357)
221 PRK14857 tatA twin arginine tr 20.8 14 0.0003 25.8 -1.9 30 43-75 17-46 (90)
222 KOG3759 Uncharacterized RUN do 20.7 6.7E+02 0.015 23.1 9.1 52 115-173 198-252 (621)
223 KOG0709 CREB/ATF family transc 20.7 1.2E+02 0.0027 27.5 3.5 28 150-177 288-315 (472)
224 PF04508 Pox_A_type_inc: Viral 20.5 1.3E+02 0.0028 15.4 2.2 15 93-107 2-16 (23)
225 KOG0837 Transcriptional activa 20.4 5.1E+02 0.011 21.8 6.8 52 119-172 199-251 (279)
226 PF14723 SSFA2_C: Sperm-specif 20.3 1.1E+02 0.0024 24.0 2.8 17 123-139 160-176 (179)
227 PLN03230 acetyl-coenzyme A car 20.1 3E+02 0.0065 24.9 5.8 63 66-139 60-122 (431)
228 PF05781 MRVI1: MRVI1 protein; 20.1 7.2E+02 0.016 23.2 10.2 80 96-175 228-326 (538)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=8e-40 Score=261.05 Aligned_cols=164 Identities=38% Similarity=0.540 Sum_probs=131.4
Q ss_pred CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccccc-chHHHHHHHHhhccCCCC
Q 028961 1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNG-TMQGLIEKYLKSTQGAQA 79 (201)
Q Consensus 1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~-~~~~VleRY~~~~~~~~~ 79 (201)
|||+||+|++|+|.++|||||+|||.||||||+||||||||+||+|||||+|++|+||+++ +|..|++||...+.....
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 9999999999999999999999999999999999999999999999999999999999433 399999999987776543
Q ss_pred CCcccCCc---------------------hhHHHHHHHhHHHHHHHHhh---hhhhcCCCCCCCCH-HHHHHHHHHHHHH
Q 028961 80 EPVMQTQP---------------------LDAKDEINMLKQEIEILQKG---LRYMFGGGTGTMTL-DELLVLEKHLELW 134 (201)
Q Consensus 80 ~~~~~~~~---------------------~~l~~e~~kL~~ei~~l~~~---~r~~~Ge~L~~Ls~-~EL~~LE~~Le~~ 134 (201)
........ .........+....+.+... .+++.|+++.+++. .+|..++.+|+..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 32111100 11233344455555555533 77889999999999 9999999999999
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q 028961 135 IYNIRSTKMDIMFQEIN-LLRNKEGILTAAN 164 (201)
Q Consensus 135 l~~IR~RK~~ll~~~i~-~l~~k~~~l~eeN 164 (201)
+..++..+...+.+++. .++.++..+.++|
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 191 (195)
T KOG0014|consen 161 LHNSRSSKSKPLSDSNFQVLQEKEKSLEAEN 191 (195)
T ss_pred hcCCCCCCCcCCcchhhhhhcccchhccccC
Confidence 99999999998888876 6666655555444
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=2.1e-34 Score=196.83 Aligned_cols=75 Identities=57% Similarity=0.971 Sum_probs=71.7
Q ss_pred CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCC
Q 028961 2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGA 77 (201)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~ 77 (201)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|++|+|+ +|++++||+||.+.++..
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~-s~s~~~vl~ry~~~~~~~ 75 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFS-SPSMEKIIERYQKTSGSS 75 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEec-CCCHHHHHHHHHhccccc
Confidence 899999999999999999999999999999999999999999999999999999999 678999999999887653
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=99.97 E-value=2.4e-32 Score=189.39 Aligned_cols=78 Identities=44% Similarity=0.707 Sum_probs=72.6
Q ss_pred CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCCCC
Q 028961 2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQA 79 (201)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~ 79 (201)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+.++||+++++..+|++|...+...+.
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 78 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSEVEGVISRFEVLSALERK 78 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHHHHHHHHHHhhcCHhhhh
Confidence 899999999999999999999999999999999999999999999999999999998554599999999988776543
No 4
>smart00432 MADS MADS domain.
Probab=99.97 E-value=4.6e-31 Score=170.52 Aligned_cols=58 Identities=62% Similarity=1.013 Sum_probs=56.9
Q ss_pred CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961 2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59 (201)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s 59 (201)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|++|.||+
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFAS 58 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccC
Confidence 8999999999999999999999999999999999999999999999999999999983
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=99.96 E-value=2.4e-30 Score=167.33 Aligned_cols=58 Identities=64% Similarity=1.021 Sum_probs=56.8
Q ss_pred CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961 2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59 (201)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s 59 (201)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+++.||+
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~ 58 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWS 58 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccC
Confidence 7999999999999999999999999999999999999999999999999999999984
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=99.95 E-value=6.1e-29 Score=155.62 Aligned_cols=51 Identities=57% Similarity=0.931 Sum_probs=46.8
Q ss_pred eeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCccccccc
Q 028961 9 KRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELAT 59 (201)
Q Consensus 9 k~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s 59 (201)
|+|+|+++|++||+||+.||+|||+|||+||||+||+|||||+|++|.|+|
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 689999999999999999999999999999999999999999999999984
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=99.84 E-value=2.4e-20 Score=133.88 Aligned_cols=90 Identities=36% Similarity=0.497 Sum_probs=86.5
Q ss_pred cCCchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 84 QTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAA 163 (201)
Q Consensus 84 ~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~ee 163 (201)
....+.++.++.+|+.+++.|+..+|+++|++|++||++||..||++|+.+|.+||+||++++.++|+.|++|++.|.++
T Consensus 11 ~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~e 90 (100)
T PF01486_consen 11 DSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEE 90 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHh
Q 028961 164 NKYLQDKMEE 173 (201)
Q Consensus 164 N~~L~~~~~~ 173 (201)
|..|+.++.+
T Consensus 91 n~~L~~~~~e 100 (100)
T PF01486_consen 91 NNQLRQKIEE 100 (100)
T ss_pred HHHHHHHhcC
Confidence 9999999864
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.82 E-value=3.3e-21 Score=158.07 Aligned_cols=77 Identities=38% Similarity=0.560 Sum_probs=68.2
Q ss_pred CccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccc--------cchHHHHHHHHhh
Q 028961 2 ARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATN--------GTMQGLIEKYLKS 73 (201)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~--------~~~~~VleRY~~~ 73 (201)
||+||+|.+|+|+..|.+||||||.||||||+|||||+|.+|-|+|.|++|.+|.|+++ +.=+.+|....+.
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpKLep~i~s~~Gk~lIq~cLn~ 142 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPKLEPMITSDEGKALIQACLNA 142 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEeccccccccccchhhHHHHHHHhcC
Confidence 79999999999999999999999999999999999999999999999999999999942 1336677777777
Q ss_pred ccCCC
Q 028961 74 TQGAQ 78 (201)
Q Consensus 74 ~~~~~ 78 (201)
++...
T Consensus 143 pd~~~ 147 (338)
T KOG0015|consen 143 PDTPP 147 (338)
T ss_pred CCCCC
Confidence 76653
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.50 E-value=1.1e-14 Score=124.94 Aligned_cols=65 Identities=32% Similarity=0.508 Sum_probs=60.2
Q ss_pred CCccccceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHH
Q 028961 1 MARGKVQMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGL 66 (201)
Q Consensus 1 MgR~Ki~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~V 66 (201)
|||+|+.|.+|+|+.+|.|||+||+.||+|||+||+||.|.+|.++|.|.+|+++.|++ +..+.|
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~t-p~~e~v 145 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTT-PKLESV 145 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecC-Cccccc
Confidence 79999999999999999999999999999999999999999999999999999999984 433333
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=94.84 E-value=0.37 Score=32.23 Aligned_cols=49 Identities=27% Similarity=0.341 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
+|++.|.+||..+..++..|. ++..+++.|+.+...|.++|..|.....
T Consensus 1 M~~E~l~~LE~ki~~aveti~-----~Lq~e~eeLke~n~~L~~e~~~L~~en~ 49 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIA-----LLQMENEELKEKNNELKEENEELKEENE 49 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 578999999999999998886 4556677777775555555555555443
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=92.17 E-value=0.07 Score=41.09 Aligned_cols=82 Identities=18% Similarity=0.174 Sum_probs=48.2
Q ss_pred ceEEEEeecCCcccccccccchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCH
Q 028961 42 DVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTL 121 (201)
Q Consensus 42 ~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~ 121 (201)
=||||||+|. ++++.+ ..+...+..|++.....+..-........++.+..+.++.++.....++ ..+++
T Consensus 14 vVaLlvfGP~-KLP~~~--r~lGk~ir~~K~~~~~~k~~l~~Ei~~~elk~e~~k~k~~l~~~~~~l~-------~~~~~ 83 (158)
T PRK04098 14 VVAIIFLGPD-KLPQAM--VDIAKFFKAVKKTINDAKSTLDKEINIEEIKEEALKYKKEFESAVESLK-------KKLKF 83 (158)
T ss_pred HHHHhhcCch-HHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH-------hccCh
Confidence 3789999995 888876 5778888888776554321100011233455555555555555544443 22677
Q ss_pred HHHHHHHHHHHH
Q 028961 122 DELLVLEKHLEL 133 (201)
Q Consensus 122 ~EL~~LE~~Le~ 133 (201)
++|.++-..+..
T Consensus 84 eel~~~~~~~~~ 95 (158)
T PRK04098 84 EELDDLKITAEN 95 (158)
T ss_pred HHHHHHhhhhhh
Confidence 777777544443
No 12
>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=88.98 E-value=0.065 Score=27.73 Aligned_cols=13 Identities=31% Similarity=0.756 Sum_probs=10.8
Q ss_pred EEEEeecCCcccc
Q 028961 44 GVFIFSNHGKLYE 56 (201)
Q Consensus 44 alivfs~~gk~~~ 56 (201)
.+.+|||.|+++.
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 4568999999985
No 13
>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=88.36 E-value=0.88 Score=32.87 Aligned_cols=22 Identities=32% Similarity=0.347 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 028961 151 NLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 151 ~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
..|+++.+.|+|||+.|+.|++
T Consensus 75 ~rlkkk~~~LeEENNlLklKie 96 (108)
T cd07429 75 LRLKKKNQQLEEENNLLKLKIE 96 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3455677888899999888865
No 14
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=88.19 E-value=4.4 Score=27.46 Aligned_cols=43 Identities=26% Similarity=0.320 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKY 166 (201)
Q Consensus 119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~ 166 (201)
+|++=|.+||..+..++..| .++.-+|+.|+.|-..|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI-----~LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999999999998877 46667788888776666655443
No 15
>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=87.62 E-value=1.1 Score=28.76 Aligned_cols=31 Identities=19% Similarity=0.147 Sum_probs=26.1
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 028961 110 YMFGGGTGTMTLDELLVLEKHLELWIYNIRS 140 (201)
Q Consensus 110 ~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~ 140 (201)
+..|++|+.||++||..--..|+.-+.++++
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~ 42 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEA 42 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999988888877777764
No 16
>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=87.47 E-value=5.7 Score=28.63 Aligned_cols=51 Identities=24% Similarity=0.332 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
++.+.+||.+|...+..|.+-|. ++..|-..-..|.-||..|+..+.+...
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~-----~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKK-----QLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45678888888888877766554 4446666778888899999999987644
No 17
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=87.19 E-value=6.1 Score=28.64 Aligned_cols=50 Identities=24% Similarity=0.338 Sum_probs=38.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
++.+.+||++|...+..+.+-|.+ +..|-..-..|.-||..|+..+.+..
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~-----~~el~EEN~~L~iEN~~Lr~~l~~~~ 56 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQ-----LAELLEENTALRLENDKLRERLEELE 56 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 466788888888888777766644 44666678889999999999999753
No 18
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.87 E-value=7 Score=25.89 Aligned_cols=46 Identities=26% Similarity=0.313 Sum_probs=30.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 119 MTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQD 169 (201)
Q Consensus 119 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~ 169 (201)
+|++=|..||..+..++..| .|++-+|+.|+.|...|..|-..++.
T Consensus 1 MSlEv~ekLE~KiqqAvdTI-----~LLQmEieELKEknn~l~~e~q~~q~ 46 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQNAQH 46 (79)
T ss_pred CchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHhHHHHHHHHH
Confidence 57778888888888888766 46666777777666655544443333
No 19
>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=85.83 E-value=2.3 Score=27.07 Aligned_cols=29 Identities=17% Similarity=0.387 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
.+.+.++|..|..+...|+.||..|+...
T Consensus 16 VevLK~~I~eL~~~n~~Le~EN~~Lk~~~ 44 (59)
T PF01166_consen 16 VEVLKEQIAELEERNSQLEEENNLLKQNA 44 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 35677889999999999999999998764
No 20
>PRK10884 SH3 domain-containing protein; Provisional
Probab=83.30 E-value=22 Score=28.63 Aligned_cols=77 Identities=8% Similarity=0.016 Sum_probs=40.7
Q ss_pred hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIR--STKMDIMFQEINLLRNKEGILTAANKY 166 (201)
Q Consensus 89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR--~RK~~ll~~~i~~l~~k~~~l~eeN~~ 166 (201)
.....+..++++++.++..+..+.++ . -....++.+.+..+-..|. ...++-+.+++..++.+...|..+|..
T Consensus 90 ~~~~rlp~le~el~~l~~~l~~~~~~-~----~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~ 164 (206)
T PRK10884 90 SLRTRVPDLENQVKTLTDKLNNIDNT-W----NQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDD 164 (206)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhH-H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677777777777666555432 1 1333344444333322222 233444456666666666666666666
Q ss_pred HHHH
Q 028961 167 LQDK 170 (201)
Q Consensus 167 L~~~ 170 (201)
+.+.
T Consensus 165 ~~~~ 168 (206)
T PRK10884 165 KQRT 168 (206)
T ss_pred HHHH
Confidence 6544
No 21
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=82.87 E-value=26 Score=30.09 Aligned_cols=62 Identities=19% Similarity=0.186 Sum_probs=47.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 115 GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMF--QEINLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~--~~i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
.++.++.++|..+...|...-..|.++|..+-. .+.+.+..+...+.++-..+...+.+...
T Consensus 202 e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~ 265 (325)
T PF08317_consen 202 EIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEK 265 (325)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 488999999999999999888888877776644 56666777777777777777777766443
No 22
>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=80.03 E-value=14 Score=24.16 Aligned_cols=46 Identities=26% Similarity=0.297 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 123 ELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 123 EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
||+.|+..|+..+..... +..+-..|+.....+..|+..|..+++.
T Consensus 1 ~L~~Le~kle~Li~~~~~-----L~~EN~~Lr~q~~~~~~ER~~L~ekne~ 46 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLER-----LKSENRLLRAQEKTWREERAQLLEKNEQ 46 (65)
T ss_pred CHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477788888877654432 3334445555666666666666666553
No 23
>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=78.93 E-value=12 Score=28.89 Aligned_cols=52 Identities=29% Similarity=0.429 Sum_probs=22.2
Q ss_pred HHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 90 AKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 90 l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
+...+..|+.+++.++..+..+.+ +-...|.+|...++.....+....+.||
T Consensus 114 l~~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~~~~~~~~~~~~k~w~kRK 165 (169)
T PF07106_consen 114 LREEIEELEEEIEELEEKLEKLRS-GSKPVSPEEKEKLEKEYKKWRKEWKKRK 165 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444433333 2222444444444444444444444444
No 24
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=78.74 E-value=14 Score=28.58 Aligned_cols=44 Identities=14% Similarity=0.268 Sum_probs=35.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 028961 120 TLDELLVLEKHLELWIYNIRST---KMDIMFQEINLLRNKEGILTAA 163 (201)
Q Consensus 120 s~~EL~~LE~~Le~~l~~IR~R---K~~ll~~~i~~l~~k~~~l~ee 163 (201)
+..||..|-.+++.+..-+|++ |...+.+||..|+.+.+.+.++
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~ 74 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEE 74 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 7789999999998888777765 7778888999998887666654
No 25
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=77.73 E-value=38 Score=29.13 Aligned_cols=62 Identities=18% Similarity=0.112 Sum_probs=42.6
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 114 GGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMF--QEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 114 e~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~--~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+++++++.++|..+...|......|...+.++-. ++...+..+.....+.-..+...+.+..
T Consensus 196 ~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae 259 (312)
T smart00787 196 DELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAE 259 (312)
T ss_pred HHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588999999999999998888888777766543 4555555555555555555555555443
No 26
>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=76.11 E-value=19 Score=26.62 Aligned_cols=73 Identities=8% Similarity=0.068 Sum_probs=41.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCcccccc
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFA 193 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (201)
++|++|+.++-...+..-... ..-..++.+++..+..+...|..--..|...+....... .++......||++
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~~--~~~~~~~~~c~~~ 129 (133)
T cd04787 57 GFSLKDIKEILSHADQGESPC-PMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQWQQMP--DGAPDGHSICHLI 129 (133)
T ss_pred CCCHHHHHHHHhhhccCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CCCCCCCCcCchh
Confidence 588888887765433211111 112356677777777777777777777777665533322 2222345557765
No 27
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=75.91 E-value=20 Score=25.84 Aligned_cols=48 Identities=21% Similarity=0.345 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++.+.+||.+|-..+..|-+-|.+ +..|-.....|+=||..|++++.+
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK~~-----l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLKQH-----LGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHhhHHHHhhHHHHHHHhCC
Confidence 466788888888888777665543 345555667788888888888888
No 28
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=75.82 E-value=21 Score=25.79 Aligned_cols=28 Identities=18% Similarity=0.369 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDK 170 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~ 170 (201)
.+.+.++|..|..+...|++||..|+.-
T Consensus 69 Ve~Lk~qI~eL~er~~~Le~EN~lLk~~ 96 (123)
T KOG4797|consen 69 VEVLKEQIRELEERNSALERENSLLKTL 96 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4566777888888888888888888754
No 29
>PRK10884 SH3 domain-containing protein; Provisional
Probab=74.33 E-value=25 Score=28.32 Aligned_cols=11 Identities=18% Similarity=0.347 Sum_probs=5.1
Q ss_pred hHHHHHHHHhh
Q 028961 97 LKQEIEILQKG 107 (201)
Q Consensus 97 L~~ei~~l~~~ 107 (201)
.+..+..++..
T Consensus 91 ~~~rlp~le~e 101 (206)
T PRK10884 91 LRTRVPDLENQ 101 (206)
T ss_pred HHHHHHHHHHH
Confidence 44444444443
No 30
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=73.18 E-value=66 Score=29.08 Aligned_cols=45 Identities=16% Similarity=0.300 Sum_probs=30.8
Q ss_pred hchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961 25 RAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ 75 (201)
Q Consensus 25 r~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~ 75 (201)
-++|+|+- .|.+ -.-+-+++|+++|++..|. ++.+||..|-.+.-
T Consensus 284 ~~~L~k~~-~L~~--~~~~Nm~~~d~~g~~~~~~---~~~~Il~~f~~~R~ 328 (439)
T PHA02592 284 HEKIMKDF-GLIE--RVSQNITVINENGKLKVYE---NAEDLIRDFVEIRK 328 (439)
T ss_pred HHHHHHhc-Cchh--eeeeeEEEEecCCeeeecC---CHHHHHHHHHHHHH
Confidence 34666543 2322 2236788999999998885 68999999976543
No 31
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=70.78 E-value=35 Score=27.79 Aligned_cols=56 Identities=21% Similarity=0.204 Sum_probs=40.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIR--STKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR--~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+...+|+..|+..++..-.... ..+...+..|.+.++.....|-|+|..|+.++.-
T Consensus 154 ~~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~ 211 (216)
T KOG1962|consen 154 DKLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIES 211 (216)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhc
Confidence 3456677777777765444433 3345566788999999999999999999999864
No 32
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=69.50 E-value=10 Score=27.30 Aligned_cols=44 Identities=16% Similarity=0.210 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 128 EKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 128 E~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
-+.++.++.-|...=+-...++++.|+.+.+.|.+.|..|...-
T Consensus 47 DNKIeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN 90 (123)
T KOG4797|consen 47 DNKIEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALEREN 90 (123)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666555566667899999999999999999887763
No 33
>PHA03155 hypothetical protein; Provisional
Probab=68.98 E-value=42 Score=24.42 Aligned_cols=57 Identities=18% Similarity=0.036 Sum_probs=44.8
Q ss_pred CchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 86 QPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 86 ~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
..+.+..++.+|+-|+..|...+++-.+.+-..|+..+=+.+-.....+|...-++|
T Consensus 9 tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K 65 (115)
T PHA03155 9 DVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK 65 (115)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 457889999999999999999887665555567999888887777777776665555
No 34
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=66.75 E-value=48 Score=24.31 Aligned_cols=56 Identities=20% Similarity=0.123 Sum_probs=40.0
Q ss_pred chhHHHHHHHhHHHHHHHHhhhhhhcC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 87 PLDAKDEINMLKQEIEILQKGLRYMFG----GGTGTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 87 ~~~l~~e~~kL~~ei~~l~~~~r~~~G----e~L~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
.+.+..++.+|+-|+..|...+++-.| .+-..|+..+=+.+-.....+|...=.+|
T Consensus 5 ~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~K 64 (118)
T PF05812_consen 5 MEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKK 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 356888999999999999999888876 55677899888877777776666655555
No 35
>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=66.24 E-value=39 Score=23.03 Aligned_cols=32 Identities=16% Similarity=0.277 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
|.++|+.-+..-..|..||..|..-|......
T Consensus 35 L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~ 66 (80)
T PF10224_consen 35 LSDRVEEVKEENEKLESENEYLQQYIGNLMSS 66 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455555556777999999999999887654
No 36
>PHA03162 hypothetical protein; Provisional
Probab=65.80 E-value=54 Score=24.50 Aligned_cols=57 Identities=16% Similarity=0.029 Sum_probs=43.6
Q ss_pred CchhHHHHHHHhHHHHHHHHhhhhhhcCCC----CCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 86 QPLDAKDEINMLKQEIEILQKGLRYMFGGG----TGTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 86 ~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~----L~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
..+++..++.+|+-|+..|...++.-.|.+ -..|+..+=+-+-.....+|...-++|
T Consensus 14 tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kK 74 (135)
T PHA03162 14 TMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKK 74 (135)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999987776655 345888887777777766666655555
No 37
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=65.38 E-value=1.2e+02 Score=28.52 Aligned_cols=54 Identities=20% Similarity=0.188 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 122 DELLVLEKHLELWIYNIR-----STKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 122 ~EL~~LE~~Le~~l~~IR-----~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
.++..|+..|+..-.+++ .|+.+.+..+|..|+++...-...-..|..++.+..
T Consensus 450 ~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ve~L~~~l~~l~ 508 (652)
T COG2433 450 REIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRVEELERKLAELR 508 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566677777776665554 345566777888887776555555566666666544
No 38
>PF14645 Chibby: Chibby family
Probab=64.10 E-value=13 Score=27.18 Aligned_cols=22 Identities=32% Similarity=0.403 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 028961 151 NLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 151 ~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
..++++.+.|.|||+.|+-+++
T Consensus 74 ~~l~~~n~~L~EENN~Lklk~e 95 (116)
T PF14645_consen 74 QRLRKENQQLEEENNLLKLKIE 95 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556667777777766643
No 39
>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=63.06 E-value=74 Score=28.79 Aligned_cols=62 Identities=19% Similarity=0.461 Sum_probs=36.7
Q ss_pred ceeeecCCCCcc-hhhh---hh-------hchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961 7 QMKRIENPVHRQ-VTFC---KR-------RAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ 75 (201)
Q Consensus 7 ~ik~Ien~~~R~-vTf~---KR-------r~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~ 75 (201)
.|.-|.|.+++. +.|- || .++|+|+- .|.+-= -+-+++|.++|++..| ++.+||..|-.+.-
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 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVT-KLQTTF--GINMVAFDPNGRPKKL----NLKEILQEFLDHRL 329 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhc-CCceee--eeeEEEEecCCeeEEe----CHHHHHHHHHHHHH
Confidence 466666776663 3332 22 23555443 222221 1267888889998877 48899999876544
No 40
>PF10491 Nrf1_DNA-bind: NLS-binding and DNA-binding and dimerisation domains of Nrf1; InterPro: IPR019525 Nuclear respiratory factor-1 is a transcriptional activator that has been implicated in the nuclear control of respiratory chain expression in vertebrates. The first 26 amino acids of nuclear respiratory factor-1 are required for the binding of dynein light chain. The interaction with dynein light chain is observed for both ewg and Nrf-1, transcription factors that are structurally and functionally similar between humans and Drosophila []. In Drosophila, the erect wing (ewg) protein is required for proper development of the central nervous system and the indirect flight muscles. The fly ewg gene encodes a novel DNA-binding domain that is also found in four genes previously identified in sea urchin, chicken, zebrafish, and human []. The highest level of expression of both ewg and Nrf-1 was found in the central nervous system, somites, first branchial arch, optic vesicle, and otic vesicle. In the mouse Nrf-1 protein, Q8C4C0 from SWISSPROT, there is also an NLS domain at 88-116, and a DNA binding and dimerisation domain at 127-282. Ewg is a site-specific transcriptional activator, and evolutionarily conserved regions of ewg contribute both positively and negatively to transcriptional activity [].
Probab=62.70 E-value=17 Score=29.28 Aligned_cols=47 Identities=11% Similarity=0.154 Sum_probs=34.8
Q ss_pred chHHHhH----HHhhhccCCceEEEEeecC---CcccccccccchHHHHHHHHhh
Q 028961 26 AGLLKKA----KELSILCDADVGVFIFSNH---GKLYELATNGTMQGLIEKYLKS 73 (201)
Q Consensus 26 ~GL~KKA----~ELsvLCda~valivfs~~---gk~~~~~s~~~~~~VleRY~~~ 73 (201)
+-|+-|- .|++|-+|-+|.|++.+|+ +..-.|+ ...++.|+..|...
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfG-a~pL~~vv~~~~~~ 88 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFG-AAPLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeec-chhHHHHHHHHHHH
Confidence 3455554 6999999999999999997 2233477 45688888888653
No 41
>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=62.10 E-value=22 Score=25.62 Aligned_cols=35 Identities=17% Similarity=0.170 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
...+.+++..|+.....|.+||..|+-........
T Consensus 17 l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~ 51 (107)
T PF06156_consen 17 LGQLLEELEELKKQLQELLEENARLRIENEHLRER 51 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567899999999999999999999877765543
No 42
>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=62.06 E-value=38 Score=21.52 Aligned_cols=36 Identities=22% Similarity=0.236 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 134 WIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 134 ~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+-..-|.||...+ +.|..+...|..+|..|...+..
T Consensus 16 AAr~~R~RKk~~~----~~Le~~~~~L~~en~~L~~~~~~ 51 (64)
T PF00170_consen 16 AARRSRQRKKQYI----EELEEKVEELESENEELKKELEQ 51 (64)
T ss_dssp HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566665444 56666666666666666665543
No 43
>smart00340 HALZ homeobox associated leucin zipper.
Probab=60.73 E-value=27 Score=20.74 Aligned_cols=29 Identities=28% Similarity=0.314 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccC
Q 028961 151 NLLRNKEGILTAANKYLQDKMEENNGIAN 179 (201)
Q Consensus 151 ~~l~~k~~~l~eeN~~L~~~~~~~~~~~~ 179 (201)
+.|++=-..|-+||..|++.+.+..+...
T Consensus 8 e~LKrcce~LteeNrRL~ke~~eLralk~ 36 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQELRALKL 36 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 45666678899999999999999776543
No 44
>smart00338 BRLZ basic region leucin zipper.
Probab=60.62 E-value=41 Score=21.41 Aligned_cols=36 Identities=31% Similarity=0.291 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 135 IYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 135 l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
-.+-|.||.. .+..|..+...|..+|..|..++...
T Consensus 17 A~~~R~rKk~----~~~~Le~~~~~L~~en~~L~~~~~~l 52 (65)
T smart00338 17 ARRSRERKKA----EIEELERKVEQLEAENERLKKEIERL 52 (65)
T ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555543 44677777777777777777776653
No 45
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.56 E-value=27 Score=29.67 Aligned_cols=49 Identities=18% Similarity=0.141 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCcccccccc
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIP 195 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 195 (201)
+..+-++|++|+..|..--..+.. .......+|.+|-++.++.-|+|-.
T Consensus 69 L~~rqeEL~Rke~ELdRREr~~a~-~g~~~~~nNWPPLP~~~pv~Pcfyq 117 (313)
T KOG3088|consen 69 LLKKQEELRRKEQELDRRERALAR-AGIVIRENNWPPLPSFIPVFPCFYQ 117 (313)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHhh-ccCcccccCCCCCCCCCCccccccc
Confidence 333334455555444433333333 3444556888888888888887744
No 46
>PRK04654 sec-independent translocase; Provisional
Probab=59.78 E-value=1.4 Score=35.48 Aligned_cols=34 Identities=15% Similarity=0.193 Sum_probs=22.5
Q ss_pred HhhhccCCceEEEEeecCCcccccccccchHHHHHHHHh
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLK 72 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~ 72 (201)
||-+..- |+||||+|. +|+... ..+...+.++++
T Consensus 8 ELLlI~V--VALlV~GPe-rLPe~a--RtlGk~irk~R~ 41 (214)
T PRK04654 8 ELTLIAV--VALVVLGPE-RLPKAA--RFAGLWVRRARM 41 (214)
T ss_pred HHHHHHH--HHHHhcCch-HHHHHH--HHHHHHHHHHHH
Confidence 4444432 688999984 777765 466677777664
No 47
>PF14915 CCDC144C: CCDC144C protein coiled-coil region
Probab=59.47 E-value=1.1e+02 Score=26.10 Aligned_cols=79 Identities=20% Similarity=0.296 Sum_probs=54.5
Q ss_pred hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQ 168 (201)
Q Consensus 89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~ 168 (201)
-++.+++.|+-+++.+......- +.--++|...+....+..-..|+ -..+.+..-|-.+..+...|..||..|.
T Consensus 3 ~Lq~eia~LrlEidtik~q~qek-----E~ky~ediei~Kekn~~Lqk~lK-LneE~ltkTi~qy~~QLn~L~aENt~L~ 76 (305)
T PF14915_consen 3 MLQDEIAMLRLEIDTIKNQNQEK-----EKKYLEDIEILKEKNDDLQKSLK-LNEETLTKTIFQYNGQLNVLKAENTMLN 76 (305)
T ss_pred hHHHHHHHHHHHHHHHHHHhHHH-----HHHHHHHHHHHHHHHHHHHHHHh-hhHHHHHHHHHHHhhhHHHHHHHHHHHh
Confidence 36778888888888766542211 12235666666666665554444 4567777888889889999999999999
Q ss_pred HHHHh
Q 028961 169 DKMEE 173 (201)
Q Consensus 169 ~~~~~ 173 (201)
.+++.
T Consensus 77 SkLe~ 81 (305)
T PF14915_consen 77 SKLEK 81 (305)
T ss_pred HHHHH
Confidence 99863
No 48
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=59.05 E-value=37 Score=28.93 Aligned_cols=43 Identities=26% Similarity=0.396 Sum_probs=31.3
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 116 TGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYL 167 (201)
Q Consensus 116 L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L 167 (201)
-++||.+|-..|+ +||.||.+|+ ++|+.|+...+...+|-..|
T Consensus 8 p~~Ls~~E~~eL~--------~ir~rk~qL~-deIq~Lk~Ei~ev~~eid~~ 50 (395)
T KOG0930|consen 8 PNDLSEEERMELE--------NIRRRKQELL-DEIQRLKDEIAEVMEEIDNL 50 (395)
T ss_pred CCCCCHHHHHhHH--------HHHHHHHHHH-HHHHHHHHHHHHHHHHhhhh
Confidence 4678888877665 8999998877 67888887766666554433
No 49
>PF14282 FlxA: FlxA-like protein
Probab=58.60 E-value=64 Score=22.97 Aligned_cols=61 Identities=16% Similarity=0.268 Sum_probs=40.5
Q ss_pred HHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 91 KDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQ 168 (201)
Q Consensus 91 ~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~ 168 (201)
...+..|++++..|+..+..+... .+++.++-. .|.++|..+|..|+.....+..+-..-.
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~--~~~~~e~k~---------------~q~q~Lq~QI~~LqaQI~qlq~q~~~~~ 78 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQD--SDLDAEQKQ---------------QQIQLLQAQIQQLQAQIAQLQSQQAEQQ 78 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcc--cCCCHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777888888888777766542 445665543 5677777888888777766665554433
No 50
>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=58.35 E-value=72 Score=23.50 Aligned_cols=31 Identities=26% Similarity=0.368 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
...+..+|..++.+...|...|..|..+|+.
T Consensus 100 k~~le~e~~~~~~r~~dL~~QN~lLh~QlE~ 130 (132)
T PF07926_consen 100 KEQLEKELSELEQRIEDLNEQNKLLHDQLES 130 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3467789999999999999999999999874
No 51
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=58.21 E-value=39 Score=24.14 Aligned_cols=24 Identities=17% Similarity=0.270 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 149 EINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 149 ~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++..++++...+.++|..|..++.
T Consensus 35 q~~~~~~e~~~l~~~n~~L~~eI~ 58 (105)
T PRK00888 35 QVAAQQQTNAKLKARNDQLFAEID 58 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444443
No 52
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=56.59 E-value=1.1e+02 Score=28.07 Aligned_cols=30 Identities=13% Similarity=0.158 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 144 DIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 144 ~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+++..+...++.+.+.+.+||..|+.+++.
T Consensus 93 q~~saq~~dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 93 DVLNKQRGDDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 456667777888888999999999999964
No 53
>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=56.31 E-value=41 Score=21.98 Aligned_cols=28 Identities=14% Similarity=0.195 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+.+.|+.|=..-..|.+||..|+.++..
T Consensus 5 Le~kle~Li~~~~~L~~EN~~Lr~q~~~ 32 (65)
T TIGR02449 5 LAAQVEHLLEYLERLKSENRLLRAQEKT 32 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555666666666666553
No 54
>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=56.28 E-value=57 Score=21.67 Aligned_cols=30 Identities=23% Similarity=0.337 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 141 TKMDIMFQEINLLRNKEGILTAANKYLQDK 170 (201)
Q Consensus 141 RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~ 170 (201)
.|.+-..+.|..|+.+...|.++|..|...
T Consensus 11 ~ki~~aveti~~Lq~e~eeLke~n~~L~~e 40 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEELKEKNNELKEE 40 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 344455566666666666666666666544
No 55
>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=54.90 E-value=48 Score=20.37 Aligned_cols=37 Identities=16% Similarity=0.112 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 134 WIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 134 ~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
+-.+-|.||.. .+..|..+...|..+|..|..++...
T Consensus 15 AA~r~R~rkk~----~~~~le~~~~~L~~en~~L~~~i~~L 51 (54)
T PF07716_consen 15 AARRSRQRKKQ----REEELEQEVQELEEENEQLRQEIAQL 51 (54)
T ss_dssp HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555543 44677778888999999998887754
No 56
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=54.69 E-value=67 Score=26.88 Aligned_cols=37 Identities=19% Similarity=0.188 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 141 TKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 141 RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
+.++.|..+|..-++-...+.++...|+..+.+....
T Consensus 186 ~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L~~~ 222 (258)
T PF15397_consen 186 LENQVMQKEIVQFREEIDELEEEIPQLRAEVEQLQAQ 222 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455555666666666666777777777776654443
No 57
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=54.67 E-value=1.3 Score=27.66 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=23.6
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
|++|||+| +|+++++ .++.+.+..|++...+
T Consensus 12 valllfGp-~kLP~~~--r~lG~~ir~fk~~~~~ 42 (53)
T PF02416_consen 12 VALLLFGP-KKLPELA--RSLGKAIREFKKAINE 42 (53)
T ss_dssp HHHHHS-T-TTHHHHH--HHHHHHHHHHHHHHHH
T ss_pred HHHHHhCc-hHHHHHH--HHHHHHHHHHHHHHHh
Confidence 67889999 6899887 5788888888876554
No 58
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=54.24 E-value=36 Score=24.65 Aligned_cols=34 Identities=15% Similarity=0.268 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
...+.+++..|+.....|.+||..|+-.......
T Consensus 17 l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~ 50 (110)
T PRK13169 17 LGVLLKELGALKKQLAELLEENTALRLENDKLRE 50 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456688899999999999999999877655443
No 59
>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=53.66 E-value=1e+02 Score=24.11 Aligned_cols=55 Identities=20% Similarity=0.195 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 121 LDELLVLEKHLELWIYNIR----------STKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR----------~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+.++..++..++....... .-+..-..++|+.|+++......+...|++|.+...
T Consensus 124 i~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~ 188 (192)
T PF05529_consen 124 IKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGLQ 188 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455556655555444432 234455678888888888888888888888887654
No 60
>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=53.12 E-value=12 Score=28.66 Aligned_cols=35 Identities=17% Similarity=0.330 Sum_probs=23.8
Q ss_pred hccCCceEEEEeecCCcccc-ccccc------chHHHHHHHH
Q 028961 37 ILCDADVGVFIFSNHGKLYE-LATNG------TMQGLIEKYL 71 (201)
Q Consensus 37 vLCda~valivfs~~gk~~~-~~s~~------~~~~VleRY~ 71 (201)
.-|++.|-+++|||.-+.|- |.+.. .++.|++.++
T Consensus 109 p~c~iKvL~LlYs~kk~~flG~IP~DQ~~Fv~~lr~Vi~~~k 150 (152)
T PF11232_consen 109 PPCEIKVLMLLYSPKKKAFLGFIPNDQEGFVNRLRQVIQIQK 150 (152)
T ss_dssp SSSS-SEEEEEEETTTTEEEEEEESTHHHHHHHHHHHCHHHC
T ss_pred CCCceEEEEEEEcCCCceEEEEcCCCHHHHHHHHHHHHHHhh
Confidence 57999999999999988664 66332 4555555543
No 61
>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=52.29 E-value=39 Score=22.02 Aligned_cols=30 Identities=27% Similarity=0.282 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 145 IMFQEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 145 ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
-+..++..++.+...+.++|..|..++...
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 345677788888888888888888888876
No 62
>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=51.32 E-value=77 Score=25.26 Aligned_cols=31 Identities=23% Similarity=0.285 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 141 TKMDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 141 RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
|+-+.-..+|..|+.-.+.|+++|..|+.-+
T Consensus 48 rrlQ~hl~EIR~LKe~NqkLqedNqELRdLC 78 (195)
T PF10226_consen 48 RRLQQHLNEIRGLKEVNQKLQEDNQELRDLC 78 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555566666666677777887777654
No 63
>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=51.00 E-value=71 Score=21.23 Aligned_cols=33 Identities=18% Similarity=0.084 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 144 DIMFQEINLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 144 ~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
.-+..++..++++...+.++|..|+.++....+
T Consensus 27 ~~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 27 RQLNNELQKLQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 356678888888899999999999999886443
No 64
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=50.59 E-value=22 Score=25.68 Aligned_cols=26 Identities=35% Similarity=0.333 Sum_probs=20.6
Q ss_pred HHHhhhccCCceEEEEeecCCcccccc
Q 028961 32 AKELSILCDADVGVFIFSNHGKLYELA 58 (201)
Q Consensus 32 A~ELsvLCda~valivfs~~gk~~~~~ 58 (201)
..+|..|-|| +|+..||++|++.+|-
T Consensus 3 l~~Lm~lpGv-~AAg~Fs~~G~l~e~~ 28 (108)
T PF09941_consen 3 LDKLMKLPGV-VAAGEFSDDGKLVEYK 28 (108)
T ss_pred HHHhhcCCCe-EEEEEECCCCeEEeee
Confidence 4577777777 4567899999999986
No 65
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=49.88 E-value=48 Score=33.03 Aligned_cols=44 Identities=23% Similarity=0.193 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 130 HLELWIYNIRSTKMDI-MFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 130 ~Le~~l~~IR~RK~~l-l~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
.|+.-|.+.|+|-+.. +..+|-.|++|...+..++...+.+.++
T Consensus 282 MLeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~ktee 326 (1195)
T KOG4643|consen 282 MLEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKTEE 326 (1195)
T ss_pred HHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 3455555666555432 3346666666777777777777777665
No 66
>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=49.84 E-value=73 Score=22.51 Aligned_cols=48 Identities=17% Similarity=0.136 Sum_probs=34.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 115 GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+..+++.+++.. +.=......+++.|......+..+|..|...+.+..
T Consensus 60 ~~~~l~P~~~i~-------------a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 60 WRHSLTPEEDIR-------------AHLAPYKKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred CCCCCChHHHHH-------------HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 366788876542 222334456778899999999999999999988754
No 67
>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=49.55 E-value=63 Score=20.20 Aligned_cols=11 Identities=27% Similarity=0.371 Sum_probs=7.2
Q ss_pred CCCHHHHHHHH
Q 028961 118 TMTLDELLVLE 128 (201)
Q Consensus 118 ~Ls~~EL~~LE 128 (201)
|+|++|+.++-
T Consensus 14 GfsL~eI~~~l 24 (65)
T PF09278_consen 14 GFSLEEIRELL 24 (65)
T ss_dssp T--HHHHHHHH
T ss_pred CCCHHHHHHHH
Confidence 67888888877
No 68
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=49.33 E-value=3.8 Score=26.72 Aligned_cols=40 Identities=23% Similarity=0.434 Sum_probs=30.4
Q ss_pred HHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCC
Q 028961 33 KELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGA 77 (201)
Q Consensus 33 ~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~ 77 (201)
.||-+++- ||+|||+|. |++..+ .++...+..|++...+.
T Consensus 7 ~ElliI~v--IalllfGp~-kLP~l~--r~lGk~ir~fkk~~~~~ 46 (64)
T PRK14860 7 PELIVILV--IALVVFGPA-KLPQLG--QALGGAIRNFKKASNEE 46 (64)
T ss_pred HHHHHHHH--HHHhhcCch-HHHHHH--HHHHHHHHHHHHHcccc
Confidence 35555544 789999986 898887 57888899998876653
No 69
>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=49.28 E-value=94 Score=22.09 Aligned_cols=45 Identities=24% Similarity=0.272 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 128 EKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 128 E~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+...+.++..+..|.+.+ ...|..|.++...+...-..+..++.+
T Consensus 62 ~~~~~e~~~~l~~r~e~i-e~~i~~lek~~~~l~~~l~e~q~~l~~ 106 (110)
T TIGR02338 62 KTDKEEAIQELKEKKETL-ELRVKTLQRQEERLREQLKELQEKIQE 106 (110)
T ss_pred eecHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555556665555443 566677776666666666666665543
No 70
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=49.05 E-value=9.3 Score=31.01 Aligned_cols=18 Identities=33% Similarity=0.608 Sum_probs=15.0
Q ss_pred CceEEEEeecCCcccc--cc
Q 028961 41 ADVGVFIFSNHGKLYE--LA 58 (201)
Q Consensus 41 a~valivfs~~gk~~~--~~ 58 (201)
-|-|+-||||+|+++. |+
T Consensus 4 ydraltvFSPDGhL~QVEYA 23 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQVEYA 23 (249)
T ss_pred cccceEEECCCCCEEeeHhH
Confidence 4678999999999996 55
No 71
>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=48.58 E-value=87 Score=21.52 Aligned_cols=45 Identities=16% Similarity=0.193 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc----------ccCCCCCCCCC
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKMEENNG----------IANFGPITTNN 187 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~----------~~~~~~~~~~~ 187 (201)
...+..+++.++++...|.+||..|.-....... ..+|.++.+..
T Consensus 37 ~~~~~~~l~~l~~~~~~l~~e~~~L~lE~~~l~~~~rIe~iA~~~LgM~~P~~~q 91 (97)
T PF04999_consen 37 SRQLFYELQQLEKEIDQLQEENERLRLEIATLSSPSRIERIAREKLGMVPPEPDQ 91 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHcCCCCCCCCCc
Confidence 3445567899999999999999999988775433 25666665543
No 72
>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=48.51 E-value=1e+02 Score=22.17 Aligned_cols=54 Identities=13% Similarity=0.027 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+..+-.....+-... ..-.+++.+++..+.++...|..-...|...+.
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (123)
T cd04770 57 GFSLAEIRELLSLRDDGAAPC-AEVRALLEEKLAEVEAKIAELQALRAELAGLLS 110 (123)
T ss_pred CCCHHHHHHHHHhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887765443210001 122455666666666666666666666665554
No 73
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=48.14 E-value=1.5e+02 Score=24.65 Aligned_cols=30 Identities=30% Similarity=0.338 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++++..+-+.|+.+-+.|..+|..|...|+
T Consensus 106 n~~L~~en~~Lr~~n~~L~~~n~el~~~le 135 (292)
T KOG4005|consen 106 NEILQNENDSLRAINESLLAKNHELDSELE 135 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 334444555555555555555655555555
No 74
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=47.98 E-value=1.3e+02 Score=23.25 Aligned_cols=83 Identities=16% Similarity=0.179 Sum_probs=54.5
Q ss_pred hhHHHHHHHhHHHHHHHHhhhhhhc--CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHH
Q 028961 88 LDAKDEINMLKQEIEILQKGLRYMF--GGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMF---------QEINLLRNK 156 (201)
Q Consensus 88 ~~l~~e~~kL~~ei~~l~~~~r~~~--Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~---------~~i~~l~~k 156 (201)
..++.....++.++..++..++... | ++|++-|..+|.-.-.....+|..|-.+|.. ..+...+.|
T Consensus 9 ~~~Rl~~~~lk~~l~k~~~ql~~ke~lg---e~L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keK 85 (177)
T PF13870_consen 9 SKLRLKNITLKHQLAKLEEQLRQKEELG---EGLHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEK 85 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc---CcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555666666666666655543 4 4578888887777777777777776655543 334456677
Q ss_pred HHHHHHHHHHHHHHHHh
Q 028961 157 EGILTAANKYLQDKMEE 173 (201)
Q Consensus 157 ~~~l~eeN~~L~~~~~~ 173 (201)
...+..++..++..+..
T Consensus 86 l~~~~~~~~~l~~~l~~ 102 (177)
T PF13870_consen 86 LHFLSEELERLKQELKD 102 (177)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 78888888888777664
No 75
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=46.96 E-value=1.1e+02 Score=22.81 Aligned_cols=55 Identities=9% Similarity=-0.029 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+.++-...+..-... ..-.+++.+++..+..+...|...-..|...+..
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (135)
T PRK10227 57 GFNLEESGELVNLFNDPQRHS-ADVKRRTLEKVAEIERHIEELQSMRDQLLALANA 111 (135)
T ss_pred CCCHHHHHHHHHhhccCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578888887765433210001 1113456667777777777777777777766654
No 76
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=46.27 E-value=2.7e+02 Score=28.76 Aligned_cols=56 Identities=11% Similarity=0.111 Sum_probs=35.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTK------MDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK------~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+.++++|+.--..++..+..++..- .+-+.++|..|+.+...+.++...+..++..
T Consensus 821 ~~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~l~~ 882 (1311)
T TIGR00606 821 DRTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTNLQR 882 (1311)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577887777666666666663322 2233567777777777777777766666554
No 77
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=46.21 E-value=11 Score=30.85 Aligned_cols=23 Identities=30% Similarity=0.462 Sum_probs=19.0
Q ss_pred hhccCCceEEEEeecCCcccc--cc
Q 028961 36 SILCDADVGVFIFSNHGKLYE--LA 58 (201)
Q Consensus 36 svLCda~valivfs~~gk~~~--~~ 58 (201)
||=.|-|.|.-+|||+|++|+ |+
T Consensus 3 sIGtGyDls~s~fSpdGrvfQveYA 27 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQVEYA 27 (254)
T ss_pred cccccccccceeeCCCCceehHHHH
Confidence 455678999999999999996 55
No 78
>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=46.21 E-value=1e+02 Score=21.78 Aligned_cols=54 Identities=13% Similarity=0.169 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+..+-......-..+. .-..++.+++..+..+...|...-..|..++.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTIP-ERLELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred CCCHHHHHHHHHHHccCCccHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888776554322111111 12355666666666666666666666655553
No 79
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=45.03 E-value=2.1e+02 Score=26.05 Aligned_cols=35 Identities=14% Similarity=0.058 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 135 IYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQD 169 (201)
Q Consensus 135 l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~ 169 (201)
...+-.+|.+-+...++.++++...+.|+|+.|.+
T Consensus 376 ~kk~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~k 410 (493)
T KOG0804|consen 376 EKKIVERKLQQLQTKLKKCQKELKEEREENKKLIK 410 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444455555555566666555556666655544
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=44.92 E-value=32 Score=20.73 Aligned_cols=32 Identities=19% Similarity=0.161 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 141 TKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 141 RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
+....+.-.|..|..+...|..||..|+.++.
T Consensus 14 K~Ns~l~~ki~~le~~~s~L~~en~~lR~~~~ 45 (46)
T PF07558_consen 14 KRNSALSIKIQELENEVSKLLNENVNLRELVL 45 (46)
T ss_dssp ----------------HHHHHHHHHHHHHHHH
T ss_pred hHhHHHHhHHHHHHhHHHHHHHHHHHHHHHhc
Confidence 44566777888888889999999999998764
No 81
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=44.86 E-value=1.5e+02 Score=23.70 Aligned_cols=30 Identities=27% Similarity=0.508 Sum_probs=20.4
Q ss_pred cCCceEEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961 39 CDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ 75 (201)
Q Consensus 39 Cda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~ 75 (201)
-||++|++|||.+.. + |.+.+++=|.....
T Consensus 91 rgaqa~vLVFSTTDr-~------SFea~~~w~~kv~~ 120 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDR-Y------SFEATLEWYNKVQK 120 (246)
T ss_pred ccccceEEEEecccH-H------HHHHHHHHHHHHHH
Confidence 489999999998754 2 34556666655444
No 82
>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=44.70 E-value=2.7e+02 Score=26.03 Aligned_cols=19 Identities=26% Similarity=0.155 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028961 153 LRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 153 l~~k~~~l~eeN~~L~~~~ 171 (201)
+..+...|.++...|..+.
T Consensus 218 ~~~ri~~LEedi~~l~qk~ 236 (546)
T PF07888_consen 218 ARQRIRELEEDIKTLTQKE 236 (546)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444444
No 83
>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=44.59 E-value=1.2e+02 Score=22.01 Aligned_cols=55 Identities=13% Similarity=0.025 Sum_probs=34.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+.++-...+..-... ..-..++.+++..+.++...|.+....|...+..
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (126)
T cd04785 57 GFSLEEIRALLALSDRPDRSC-AEADAIARAHLADVRARIADLRRLEAELKRMVAA 111 (126)
T ss_pred CCCHHHHHHHHhhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887755433210011 1124566777777777777777777777777653
No 84
>smart00338 BRLZ basic region leucin zipper.
Probab=43.89 E-value=83 Score=19.94 Aligned_cols=29 Identities=14% Similarity=0.148 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
.+.+..+...|+.+...|..++..|...+
T Consensus 35 ~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 35 VEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33445566777777777888888777665
No 85
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=43.84 E-value=5.3 Score=24.83 Aligned_cols=32 Identities=13% Similarity=0.292 Sum_probs=25.3
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccCC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGA 77 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~ 77 (201)
|++|+|+| +|+++.+ .++..-+..|++...++
T Consensus 14 i~llvFGp-~KLP~l~--r~lG~~i~~Fk~~~~~~ 45 (51)
T PRK01470 14 IIFVLFGA-GKLPQVM--SDLAKGLKAFKDGMKDD 45 (51)
T ss_pred HHHHhcCc-hHhHHHH--HHHHHHHHHHHHHhccc
Confidence 68899998 5999887 57888888898765543
No 86
>PRK00182 tatB sec-independent translocase; Provisional
Probab=43.53 E-value=5.5 Score=30.79 Aligned_cols=38 Identities=16% Similarity=0.239 Sum_probs=27.1
Q ss_pred HhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
||-|++= ||||||+| .||+++. ..+...+..+++....
T Consensus 9 EllvIlv--IaLlVfGP-erLP~~~--r~lg~~ir~~R~~~~~ 46 (160)
T PRK00182 9 EILLLLI--VGLIVIGP-ERLPRLI--EDVRAALLAARTAINN 46 (160)
T ss_pred HHHHHHH--HHHHhcCc-hHHHHHH--HHHHHHHHHHHHHHHH
Confidence 5555533 78999998 4888886 4677888888765554
No 87
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=43.38 E-value=1.7e+02 Score=23.39 Aligned_cols=16 Identities=31% Similarity=0.522 Sum_probs=6.5
Q ss_pred HHHHHHHhHHHHHHHH
Q 028961 90 AKDEINMLKQEIEILQ 105 (201)
Q Consensus 90 l~~e~~kL~~ei~~l~ 105 (201)
+..++..|++++..++
T Consensus 41 L~~e~~~L~~q~~s~Q 56 (193)
T PF14662_consen 41 LAEEITDLRKQLKSLQ 56 (193)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334444444444333
No 88
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=42.34 E-value=52 Score=24.14 Aligned_cols=28 Identities=25% Similarity=0.316 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 149 EINLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 149 ~i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
-+++|..+...|+=||..|+++|....+
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl~~~~~ 31 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKLRQSVG 31 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 3577888889999999999999998776
No 89
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=41.49 E-value=26 Score=26.55 Aligned_cols=33 Identities=15% Similarity=0.087 Sum_probs=25.2
Q ss_pred CCceEEEEeecCCcccccccccchHHHHHHHHhh
Q 028961 40 DADVGVFIFSNHGKLYELATNGTMQGLIEKYLKS 73 (201)
Q Consensus 40 da~valivfs~~gk~~~~~s~~~~~~VleRY~~~ 73 (201)
...++-||+ ++|++-+|..+-.+.+|+..|=.+
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 444555555 799999997556999999999666
No 90
>TIGR01411 tatAE twin arginine-targeting protein translocase, TatA/E family. This model distinguishes TatA/E from the related TatB, but does not distinguish TatA from TatE. The Tat (twin-arginine translocation) system is a Sec-independent exporter for folded proteins, often with a redox cofactor already bound, across the bacterial inner membrane. Functionally equivalent systems are found in the chloroplast and some in archaeal species. The signal peptide recognized by the Tat system is modeled by TIGR01409.
Probab=41.03 E-value=5.8 Score=24.14 Aligned_cols=38 Identities=26% Similarity=0.339 Sum_probs=26.9
Q ss_pred HhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
||-+..= |++++|+| +|+++.+ .++...+..|++...+
T Consensus 6 ElliI~v--i~llvfGp-~kLP~~~--r~lG~~i~~fk~~~~~ 43 (47)
T TIGR01411 6 EWLIILV--VILLLFGA-KKLPELG--RDLGKAIKEFKKALKE 43 (47)
T ss_pred HHHHHHH--HHHHhcCc-hHhHHHH--HHHHHHHHHHHHHhhc
Confidence 5555433 68899987 5888887 5788888888876543
No 91
>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=40.73 E-value=43 Score=28.70 Aligned_cols=27 Identities=19% Similarity=0.267 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 149 EINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 149 ~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+++.|++|.+.|.+||..|+.......
T Consensus 161 ~le~Lq~Klk~LEeEN~~LR~Ea~~L~ 187 (306)
T PF04849_consen 161 QLEALQEKLKSLEEENEQLRSEASQLK 187 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 368899999999999999999866544
No 92
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=40.66 E-value=3.2e+02 Score=25.84 Aligned_cols=83 Identities=22% Similarity=0.196 Sum_probs=38.0
Q ss_pred HHHHHhHHHHHHHHhhhhhhcCCCCCCCCHH-HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 92 DEINMLKQEIEILQKGLRYMFGGGTGTMTLD-ELLVLEKHLELWIY----NIRSTKMDIMFQEINLLRNKEGILTAANKY 166 (201)
Q Consensus 92 ~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~-EL~~LE~~Le~~l~----~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~ 166 (201)
.|..+|+.+...+...+-.+.+..+.-..+. .+..++..++.... -+-....+=+.+....|+..+..+.+.|..
T Consensus 121 ~e~~~lk~~lee~~~el~~~k~qq~~v~~l~e~l~k~~~~~~~~ie~~a~~~e~~~~q~~~e~e~~L~~~~~~~~~q~~~ 200 (629)
T KOG0963|consen 121 EENEELKEELEEVNNELADLKTQQVTVRNLKERLRKLEQLLEIFIENAANETEEKLEQEWAEREAGLKDEEQNLQEQLEE 200 (629)
T ss_pred hhHHHHHHHHHHHHHHHhhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555565555555444444332222222 24455555554443 233333333334444445455555555555
Q ss_pred HHHHHHhh
Q 028961 167 LQDKMEEN 174 (201)
Q Consensus 167 L~~~~~~~ 174 (201)
|.++|...
T Consensus 201 le~ki~~l 208 (629)
T KOG0963|consen 201 LEKKISSL 208 (629)
T ss_pred HHHHHHHH
Confidence 55555444
No 93
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=40.49 E-value=22 Score=33.55 Aligned_cols=22 Identities=27% Similarity=0.487 Sum_probs=20.6
Q ss_pred hhccCCceEEEEeecCCccccc
Q 028961 36 SILCDADVGVFIFSNHGKLYEL 57 (201)
Q Consensus 36 svLCda~valivfs~~gk~~~~ 57 (201)
|||.|+-++||+|.++|.++.+
T Consensus 374 ~VLsgvtaGVi~~d~~g~i~t~ 395 (712)
T COG5000 374 AVLSGLTAGVIGFDNRGCITTV 395 (712)
T ss_pred HHHhcCceeEEEEcCCCeeEee
Confidence 6999999999999999998886
No 94
>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=40.45 E-value=78 Score=28.43 Aligned_cols=49 Identities=16% Similarity=0.107 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCcccccccccCcc
Q 028961 151 NLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIF 199 (201)
Q Consensus 151 ~~l~~k~~~l~eeN~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 (201)
..+.++...+.++-..|..++........-......|+.+-+.||+..|
T Consensus 385 ~~l~~~~~~l~~~~~~l~~~l~~~~~~~~I~v~~~vypgv~i~i~~~~~ 433 (451)
T PF03961_consen 385 KELKEELKELKEELKELKEELERSYKEARIKVRKRVYPGVEIHIGNKSY 433 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccceEEEECCEEECCEEEEECCEEE
Confidence 3444455556666666666666652211223333445556666666544
No 95
>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=40.40 E-value=1e+02 Score=21.95 Aligned_cols=15 Identities=33% Similarity=0.248 Sum_probs=9.6
Q ss_pred CCCHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLE 132 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le 132 (201)
++|++|+..+-...+
T Consensus 56 G~sl~eI~~~l~~~~ 70 (116)
T cd04769 56 GFTLAELKAIFAGHE 70 (116)
T ss_pred CCCHHHHHHHHhccc
Confidence 567777777655443
No 96
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=39.93 E-value=97 Score=28.78 Aligned_cols=30 Identities=17% Similarity=0.203 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 148 QEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 148 ~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
..++.|-+.-..|..||..|+.+++..-+.
T Consensus 309 ~rLq~ll~Ene~Lk~ENatLk~qL~~l~~E 338 (655)
T KOG4343|consen 309 ARLQALLSENEQLKKENATLKRQLDELVSE 338 (655)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence 356666667788999999999998875554
No 97
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=39.52 E-value=22 Score=29.34 Aligned_cols=38 Identities=24% Similarity=0.412 Sum_probs=28.5
Q ss_pred hhhhhhchHHHhHHHhhhccCCc---eEEEEeecCCcccccc
Q 028961 20 TFCKRRAGLLKKAKELSILCDAD---VGVFIFSNHGKLYELA 58 (201)
Q Consensus 20 Tf~KRr~GL~KKA~ELsvLCda~---valivfs~~gk~~~~~ 58 (201)
.|.+-+.|++||. -+..||+.+ |+-|.||+.++..-|+
T Consensus 119 ~~~~~~~~~~~~~-~~~~L~~~~~~l~~~v~fS~~~r~IGFS 159 (269)
T PRK09822 119 FYRREKGGFLKKI-KFNILKRVHKALLISVPLSKRGRLAGFC 159 (269)
T ss_pred hhhhccCchhhhh-HHHHHhhhhhhhEEEeeccccCCceeee
Confidence 3555588999998 578888554 5556799998888887
No 98
>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=39.40 E-value=1.5e+02 Score=21.56 Aligned_cols=54 Identities=19% Similarity=0.097 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+..+-...+..-.... .-..++.+++..+.++...|..-...|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 110 (127)
T cd01108 57 GFSLEEIRELLALWRDPSRASA-DVKALALEHIAELERKIAELQAMRRTLQQLAD 110 (127)
T ss_pred CCCHHHHHHHHHHHhCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888876553322100011 11356667777777777777666666666554
No 99
>TIGR01410 tatB twin arginine-targeting protein translocase TatB. This model represents the TatB protein of a Sec-independent system for transporting folded proteins, often with a bound redox cofactor, across the bacterial inner membrane. TatC is the multiple membrane spanning component. TatB, like the related TatA/E proteins, appears to span the membrane one time. The tat system recognizes proteins with an elongated signal sequence containing a conserved R-R in a motif approximated by RRxFLK N-terminal to the transmembrane helix. TIGRFAMs model TIGR01409 describes this twin-Arg signal sequence. A similar system, termed Delta-pH-dependent transport, operates on chloroplast-encoded proteins.
Probab=39.16 E-value=8.1 Score=26.29 Aligned_cols=31 Identities=6% Similarity=0.153 Sum_probs=22.6
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
||+|||+|. ++++.+ .++...+.++++...+
T Consensus 14 vallv~GP~-kLP~~~--r~~G~~i~~~r~~~~~ 44 (80)
T TIGR01410 14 VALVVLGPE-RLPVAI--RAVGKFVRRLRGMASD 44 (80)
T ss_pred HHHheECch-HHHHHH--HHHHHHHHHHHHhhHh
Confidence 688999984 777776 4677777777765543
No 100
>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=38.86 E-value=1.5e+02 Score=21.49 Aligned_cols=54 Identities=11% Similarity=0.020 Sum_probs=31.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+.++-...+..-.. ...-..++.+++..+.++...|..--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~-~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02044 57 GFSLEECKELLNLWNDPNRT-SADVKARTLEKVAEIERKISELQSMRDQLEALAQ 110 (127)
T ss_pred CCCHHHHHHHHHhhccCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888888765533211100 1112345666677777777777777777776665
No 101
>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=38.60 E-value=1.5e+02 Score=21.44 Aligned_cols=53 Identities=15% Similarity=0.211 Sum_probs=30.9
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+..+-...+. .... .-..++.+++..++++...|..-...|...+..
T Consensus 56 G~sl~eI~~~l~~~~~--~~~~-~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 108 (124)
T TIGR02051 56 GFSLEEIGGLLGLVDG--THCR-EMYELASRKLKSVQAKMADLLRIERLLEELLEQ 108 (124)
T ss_pred CCCHHHHHHHHhcccC--CCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888876643331 0111 113456666777777766676666666666554
No 102
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=38.51 E-value=1.3e+02 Score=21.17 Aligned_cols=37 Identities=24% Similarity=0.358 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 141 TKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 141 RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
+.-++..++.+.|+++...+.++|..|...+......
T Consensus 8 ~qLqFvEEEa~LlRRkl~ele~eN~~l~~EL~kyk~~ 44 (96)
T PF11365_consen 8 RQLQFVEEEAELLRRKLSELEDENKQLTEELNKYKSK 44 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456677888999999999999999999998875543
No 103
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=38.28 E-value=1.5e+02 Score=22.61 Aligned_cols=54 Identities=13% Similarity=-0.125 Sum_probs=26.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
++|++|+..+-......-...-..-..++.++++.+.++...|..--..|...+
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 578888888766432111000011233444455555555555555555555544
No 104
>PHA03155 hypothetical protein; Provisional
Probab=38.15 E-value=55 Score=23.83 Aligned_cols=26 Identities=23% Similarity=0.287 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 150 INLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 150 i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+++|..+...|.=||..|++++.+..
T Consensus 10 vEeLaaeL~kL~~ENK~LKkkl~~~~ 35 (115)
T PHA03155 10 VEELEKELQKLKIENKALKKKLLQHG 35 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 46677778889999999999998754
No 105
>PRK03100 sec-independent translocase; Provisional
Probab=37.95 E-value=8.7 Score=28.93 Aligned_cols=36 Identities=14% Similarity=0.149 Sum_probs=23.1
Q ss_pred HhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhc
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKST 74 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~ 74 (201)
||-|+ +=||||||+|. ++++.. ..+...+..++...
T Consensus 9 EllvI--~vVaLvv~GPk-rLP~~~--r~lG~~vr~~R~~~ 44 (136)
T PRK03100 9 EMLVL--VVAGLVILGPE-RLPGAI--RWTARALRQARDYA 44 (136)
T ss_pred HHHHH--HHHHHhhcCch-HHHHHH--HHHHHHHHHHHHHH
Confidence 55554 23689999984 777765 35666666666543
No 106
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=37.80 E-value=57 Score=23.55 Aligned_cols=30 Identities=23% Similarity=0.283 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+..++..|++....+.+||..|+-..+...
T Consensus 20 l~~el~~lK~~l~~lvEEN~~L~lENe~LR 49 (114)
T COG4467 20 LLAELGGLKQHLGSLVEENTALRLENEKLR 49 (114)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHhhHHHHH
Confidence 346889999999999999999987766544
No 107
>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=37.61 E-value=87 Score=24.41 Aligned_cols=13 Identities=31% Similarity=0.146 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHH
Q 028961 124 LLVLEKHLELWIY 136 (201)
Q Consensus 124 L~~LE~~Le~~l~ 136 (201)
|.++|..+..++.
T Consensus 2 LeD~EsklN~AIE 14 (166)
T PF04880_consen 2 LEDFESKLNQAIE 14 (166)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 5566666666653
No 108
>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=37.40 E-value=1e+02 Score=26.84 Aligned_cols=42 Identities=21% Similarity=0.192 Sum_probs=29.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 113 GGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQ 168 (201)
Q Consensus 113 Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~ 168 (201)
...|++.|++|+-.|.+. +..+..+++.|+.+...| ||..|+
T Consensus 23 ~~~~~~~~~~e~~aLr~E------------N~~LKkEN~~Lk~eVerL--E~e~l~ 64 (420)
T PF07407_consen 23 NHELEGVSIDENFALRME------------NHSLKKENNDLKIEVERL--ENEMLR 64 (420)
T ss_pred cccccccchhhhhhHHHH------------hHHHHHHHHHHHHHHHHH--HHHhhh
Confidence 346899999999887643 444556777777777777 444454
No 109
>PRK11637 AmiB activator; Provisional
Probab=37.09 E-value=3e+02 Score=24.43 Aligned_cols=76 Identities=13% Similarity=0.120 Sum_probs=37.6
Q ss_pred hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q 028961 89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKM--DIMFQEINLLRNKEGILTAANKY 166 (201)
Q Consensus 89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~--~ll~~~i~~l~~k~~~l~eeN~~ 166 (201)
.++.++..+++++..++..+.. ...+|..++.+|...-..|..... ..+..+|..++.+...++++-..
T Consensus 51 ~l~~qi~~~~~~i~~~~~~~~~---------~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~ 121 (428)
T PRK11637 51 SIQQDIAAKEKSVRQQQQQRAS---------LLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAA 121 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555444444332 234466666666665555544332 23345555665555555555444
Q ss_pred HHHHHHh
Q 028961 167 LQDKMEE 173 (201)
Q Consensus 167 L~~~~~~ 173 (201)
+...+..
T Consensus 122 ~~~~l~~ 128 (428)
T PRK11637 122 QERLLAA 128 (428)
T ss_pred HHHHHHH
Confidence 4444443
No 110
>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=36.51 E-value=3.4e+02 Score=24.86 Aligned_cols=72 Identities=14% Similarity=0.170 Sum_probs=37.5
Q ss_pred hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQ 168 (201)
Q Consensus 89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~ 168 (201)
.++.++..+..+++.|......+.. ....+..++..++... .+-+.++.+.|+.....+...-..|.
T Consensus 70 ~~r~~~~~l~~~N~~l~~eN~~L~~---------r~~~id~~i~~av~~~----~~~~~~~~~ql~~~~~~~~~~l~~l~ 136 (472)
T TIGR03752 70 ELRKRLAKLISENEALKAENERLQK---------REQSIDQQIQQAVQSE----TQELTKEIEQLKSERQQLQGLIDQLQ 136 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---------hhhhHHHHHHHHHHhh----hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555444322211 1122344444444443 34455566777766667777777777
Q ss_pred HHHHh
Q 028961 169 DKMEE 173 (201)
Q Consensus 169 ~~~~~ 173 (201)
.++..
T Consensus 137 ~~l~~ 141 (472)
T TIGR03752 137 RRLAG 141 (472)
T ss_pred HHHhh
Confidence 77753
No 111
>PHA03162 hypothetical protein; Provisional
Probab=36.50 E-value=62 Score=24.20 Aligned_cols=27 Identities=26% Similarity=0.304 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 028961 150 INLLRNKEGILTAANKYLQDKMEENNG 176 (201)
Q Consensus 150 i~~l~~k~~~l~eeN~~L~~~~~~~~~ 176 (201)
+++|..+...|+=||..|+++|...-+
T Consensus 15 mEeLaaeL~kLqmENK~LKkkl~~~~~ 41 (135)
T PHA03162 15 MEDLAAEIAKLQLENKALKKKIKEGTD 41 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 456667778899999999999976543
No 112
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=36.40 E-value=24 Score=26.50 Aligned_cols=25 Identities=20% Similarity=0.320 Sum_probs=21.4
Q ss_pred HhhhccCCceEEEEeecCCcccccc
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELA 58 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~ 58 (201)
=+.++|||||-++|-|.+.+...||
T Consensus 58 L~tt~~dadvi~~v~~and~~s~f~ 82 (148)
T COG4917 58 LITTLQDADVIIYVHAANDPESRFP 82 (148)
T ss_pred HHHHhhccceeeeeecccCccccCC
Confidence 3578999999999999998877776
No 113
>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=36.14 E-value=1.5e+02 Score=20.79 Aligned_cols=48 Identities=13% Similarity=0.153 Sum_probs=27.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
++|+.|+..+-...+. ..-..++.++++.+.++...+...-..|...+
T Consensus 58 G~sl~~i~~l~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 58 GFPLEEIKEILDADND------DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred CCCHHHHHHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888877655442 33344555555556555555555555554443
No 114
>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=36.08 E-value=3.4e+02 Score=24.79 Aligned_cols=48 Identities=13% Similarity=-0.015 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
..++.++.++-..+...+..++.+.. .+..+.+.+.++-..|+.++..
T Consensus 123 ~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~l~~l~~~l~~ 170 (525)
T TIGR02231 123 EPDLKEWFQAFDFNGSEIERLLTEDR--------EAERRIRELEKQLSELQNELNA 170 (525)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHh
Confidence 56788888888888888877776654 3333444444444455555443
No 115
>PLN03128 DNA topoisomerase 2; Provisional
Probab=35.83 E-value=4e+02 Score=27.31 Aligned_cols=29 Identities=14% Similarity=0.460 Sum_probs=23.1
Q ss_pred EEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961 44 GVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ 75 (201)
Q Consensus 44 alivfs~~gk~~~~~s~~~~~~VleRY~~~~~ 75 (201)
-+++|.+.|++..|. ++.+||..|-.+.-
T Consensus 961 nm~l~d~~~~i~ky~---~~~~il~~f~~~R~ 989 (1135)
T PLN03128 961 NMHLFDKDGKIKKYD---SPEDILEEFFHLRL 989 (1135)
T ss_pred EEEEECCCCcccCCC---CHHHHHHHHHHHHH
Confidence 577899999988885 68899999976544
No 116
>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=35.65 E-value=2.3e+02 Score=22.64 Aligned_cols=66 Identities=21% Similarity=0.254 Sum_probs=38.2
Q ss_pred CCCCCCCHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHhhccccC
Q 028961 114 GGTGTMTLDELLVLE-KHLELWIYNIRSTKMDIMFQEINLLR----------NKEGILTAANKYLQDKMEENNGIAN 179 (201)
Q Consensus 114 e~L~~Ls~~EL~~LE-~~Le~~l~~IR~RK~~ll~~~i~~l~----------~k~~~l~eeN~~L~~~~~~~~~~~~ 179 (201)
++|..+|-+||..+. ..|-..|.+.-+-|..+|.++-..++ ...+.|.+.|..|..--.+....-+
T Consensus 3 ~~l~~~sDeell~~skeel~~rLR~~E~ek~~~m~~~g~lm~evNrrlQ~hl~EIR~LKe~NqkLqedNqELRdLCC 79 (195)
T PF10226_consen 3 EDLSKVSDEELLRWSKEELVRRLRRAEAEKMSLMVEHGRLMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQELRDLCC 79 (195)
T ss_pred cccccCCHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 456666777766553 33445566666666666665544333 2346777777777766555443333
No 117
>PRK14127 cell division protein GpsB; Provisional
Probab=35.54 E-value=1e+02 Score=22.22 Aligned_cols=19 Identities=11% Similarity=-0.043 Sum_probs=12.4
Q ss_pred CCCCCCHHHHHHHHHHHHH
Q 028961 115 GTGTMTLDELLVLEKHLEL 133 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~ 133 (201)
.+-|.+.+|...+-+++-.
T Consensus 19 ~~RGYd~~EVD~FLd~V~~ 37 (109)
T PRK14127 19 SMRGYDQDEVDKFLDDVIK 37 (109)
T ss_pred CCCCCCHHHHHHHHHHHHH
Confidence 3557788887776655543
No 118
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=34.70 E-value=5.1e+02 Score=26.34 Aligned_cols=26 Identities=27% Similarity=0.267 Sum_probs=15.0
Q ss_pred cCCchhHHHHHHHhHHHHHHHHhhhh
Q 028961 84 QTQPLDAKDEINMLKQEIEILQKGLR 109 (201)
Q Consensus 84 ~~~~~~l~~e~~kL~~ei~~l~~~~r 109 (201)
++.+++++.+...+++++..++...+
T Consensus 660 d~~ie~le~e~~~l~~~~~~l~~~~~ 685 (1074)
T KOG0250|consen 660 DDEIEDLEREASRLQKEILELENQRR 685 (1074)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666555554433
No 119
>PF09755 DUF2046: Uncharacterized conserved protein H4 (DUF2046); InterPro: IPR019152 This is the conserved N-terminal 350 residues of a family of proteins of unknown function possibly containing a coiled-coil domain.
Probab=34.02 E-value=3.1e+02 Score=23.65 Aligned_cols=79 Identities=14% Similarity=0.188 Sum_probs=42.7
Q ss_pred HHHhHHHHHHHHhhhhhhc---CCC-CCCCCHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHH------HHHH
Q 028961 94 INMLKQEIEILQKGLRYMF---GGG-TGTMTLDEL----------LVLEKHLELWIYNIRSTKMDIMFQE------INLL 153 (201)
Q Consensus 94 ~~kL~~ei~~l~~~~r~~~---Ge~-L~~Ls~~EL----------~~LE~~Le~~l~~IR~RK~~ll~~~------i~~l 153 (201)
+.+|.++++.|....|.+. ..+ -++.|+.|. ..+...+...-..|..-+.++...+ +..+
T Consensus 180 vN~L~Kqm~~l~~eKr~Lq~~l~~~~s~~~s~~d~~~~~~~~Dt~e~~~shI~~Lr~EV~RLR~qL~~sq~e~~~k~~~~ 259 (310)
T PF09755_consen 180 VNRLWKQMDKLEAEKRRLQEKLEQPVSAPPSPRDTVNVSEENDTAERLSSHIRSLRQEVSRLRQQLAASQQEHSEKMAQY 259 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHccccCCCCCcchHHhhcccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4667777776666544331 111 122233332 3444444444444444444544433 3334
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 028961 154 RNKEGILTAANKYLQDKME 172 (201)
Q Consensus 154 ~~k~~~l~eeN~~L~~~~~ 172 (201)
-.+++.+.+||..|+.++.
T Consensus 260 ~~eek~ireEN~rLqr~L~ 278 (310)
T PF09755_consen 260 LQEEKEIREENRRLQRKLQ 278 (310)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5678999999999999876
No 120
>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=33.99 E-value=1.9e+02 Score=21.09 Aligned_cols=54 Identities=20% Similarity=0.071 Sum_probs=31.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+.++-..-+..-... ..-.+++.++++.+.++...|.+.-..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T TIGR02047 57 DMSLAEIRQLLRYQDKPEKSC-SDVNALLDEHISHVRARIIKLQALIEQLVDLRG 110 (127)
T ss_pred CCCHHHHHHHHHhhhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888887654322211001 111346677777777777777777777766554
No 121
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=33.87 E-value=3.6e+02 Score=24.41 Aligned_cols=27 Identities=22% Similarity=0.150 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
..+.+..+...+....+||.+|+.++-
T Consensus 276 ~~ek~~qy~~Ee~~~reen~rlQrkL~ 302 (552)
T KOG2129|consen 276 YQEKLMQYRAEEVDHREENERLQRKLI 302 (552)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 445556667777888888888777744
No 122
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=33.81 E-value=58 Score=22.93 Aligned_cols=79 Identities=14% Similarity=0.102 Sum_probs=43.3
Q ss_pred HHHhhhccCCceEEE---------EeecCC-cccccccccchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHH
Q 028961 32 AKELSILCDADVGVF---------IFSNHG-KLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEI 101 (201)
Q Consensus 32 A~ELsvLCda~vali---------vfs~~g-k~~~~~s~~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei 101 (201)
..|||..||++...| --.+.| .-|.|. +.--.++.+......+-..+...-.-...+-.++..|++++
T Consensus 10 ~~Elc~~~gi~~~~l~eLve~GlIep~~~~~~~~~F~--~~~l~r~~~a~rL~~dl~in~~gialvl~LLd~i~~Lr~el 87 (101)
T PRK10265 10 ITEFCLHTGVSEEELNEIVGLGVIEPREIQETTWVFD--DHAAIVVQRAVRLRHELALDWPGIAVALTLLDEIAHLKQEN 87 (101)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeecCCCCcccceEC--HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 468888898876553 322222 233444 23344555655554443222100012346677888888888
Q ss_pred HHHHhhhhhhc
Q 028961 102 EILQKGLRYMF 112 (201)
Q Consensus 102 ~~l~~~~r~~~ 112 (201)
..++..++.+.
T Consensus 88 ~~L~~~l~~~~ 98 (101)
T PRK10265 88 RLLRQRLSRFV 98 (101)
T ss_pred HHHHHHHHHHh
Confidence 88887765543
No 123
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=33.78 E-value=2.7e+02 Score=25.48 Aligned_cols=13 Identities=31% Similarity=0.427 Sum_probs=8.6
Q ss_pred HHhhhccCCceEE
Q 028961 33 KELSILCDADVGV 45 (201)
Q Consensus 33 ~ELsvLCda~val 45 (201)
.|+||-|.-+|.+
T Consensus 254 pe~sv~~qkev~~ 266 (527)
T PF15066_consen 254 PEMSVSHQKEVTV 266 (527)
T ss_pred cccccchhhhcch
Confidence 4677777666655
No 124
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=33.59 E-value=5.1e+02 Score=26.06 Aligned_cols=55 Identities=18% Similarity=0.292 Sum_probs=35.2
Q ss_pred CchhHHHHHHHhHHHHHHHHhhhhhh------cCCCCCCCCHHHHHHHHH---HHHHHHHHHHH
Q 028961 86 QPLDAKDEINMLKQEIEILQKGLRYM------FGGGTGTMTLDELLVLEK---HLELWIYNIRS 140 (201)
Q Consensus 86 ~~~~l~~e~~kL~~ei~~l~~~~r~~------~Ge~L~~Ls~~EL~~LE~---~Le~~l~~IR~ 140 (201)
....+|.++..++..++.|+..+.-+ .|.+....|--++.+||. .|-.+|-+.|.
T Consensus 326 RaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRD 389 (1243)
T KOG0971|consen 326 RAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRD 389 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567778888888887777653322 255555666667777775 46667777764
No 125
>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=33.43 E-value=2.3e+02 Score=21.98 Aligned_cols=57 Identities=12% Similarity=0.216 Sum_probs=34.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 116 TGTMTLDELLVLEKHLELWIYNIRS--TKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 116 L~~Ls~~EL~~LE~~Le~~l~~IR~--RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
...+++++...+-+.+......... .-.+-+.+++..|+.+...|..||..|.++..
T Consensus 77 ~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~ 135 (161)
T TIGR02894 77 AGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLS 135 (161)
T ss_pred cccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3679999988887777653221111 12334455666666666777777766666543
No 126
>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=33.02 E-value=3.2e+02 Score=23.62 Aligned_cols=48 Identities=21% Similarity=0.196 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 129 KHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 129 ~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
..|...+...|.+ +.-+..+++.|+++...++.++..|+.++......
T Consensus 68 ~~La~lL~~sre~-Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~ 115 (319)
T PF09789_consen 68 KNLAQLLSESREQ-NKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVG 115 (319)
T ss_pred hhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhh
Confidence 3444455556644 45567899999999999999999999999986654
No 127
>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=33.01 E-value=2.4e+02 Score=22.19 Aligned_cols=17 Identities=24% Similarity=0.389 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 028961 156 KEGILTAANKYLQDKME 172 (201)
Q Consensus 156 k~~~l~eeN~~L~~~~~ 172 (201)
+...|...|..|..++.
T Consensus 171 ei~~lk~~~~ql~~~l~ 187 (189)
T PF10211_consen 171 EIDFLKKQNQQLKAQLE 187 (189)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 33444455666655553
No 128
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=32.99 E-value=25 Score=24.82 Aligned_cols=29 Identities=31% Similarity=0.240 Sum_probs=21.2
Q ss_pred HhHHHhhhccCCceEEEEeecCCccccccc
Q 028961 30 KKAKELSILCDADVGVFIFSNHGKLYELAT 59 (201)
Q Consensus 30 KKA~ELsvLCda~valivfs~~gk~~~~~s 59 (201)
.|-.||--+-||= |.=.|||+||+.+|-+
T Consensus 3 ekLdeLlqi~Gv~-AAGefs~DGkLv~Ykg 31 (109)
T COG4831 3 EKLDELLQIKGVM-AAGEFSPDGKLVEYKG 31 (109)
T ss_pred hhHHHHhCcccee-EeceeCCCCceEEeeC
Confidence 3556777776764 4457999999999863
No 129
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=32.94 E-value=1.6e+02 Score=20.01 Aligned_cols=31 Identities=23% Similarity=0.299 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 142 KMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 142 K~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
|.+-..+.|..|+-....|.+.|..|...+.
T Consensus 12 KIqqAvdtI~LLqmEieELKekn~~L~~e~~ 42 (79)
T PRK15422 12 KVQQAIDTITLLQMEIEELKEKNNSLSQEVQ 42 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666666666666666666666544
No 130
>PF08687 ASD2: Apx/Shroom domain ASD2; InterPro: IPR014799 Cell shape changes require the coordination of actin and microtubule cytoskeletons. The Shroom family is a small group of related proteins that are defined by sequence similarity and in most cases by some link to the actin cytoskeleton. The Shroom (Shrm) protein family is found only in animals. Proteins of this family are predicted to be utilised in multiple morphogenic and developmental processes across animal phyla to regulate cells shape or intracellular architecture in an actin and myosin-dependent manner []. While the founding member of the Shrm family is Shrm1 (formerly Apx), it appears that this protein is found only in Xenopus []. In mice and humans, the Shrm family of proteins consists of: Shrm2 (formerly Apxl), a protein involved in the morphogenesis, maintenance, and/or function of vascular endothelial cells. Shrm3 (formerly Shroom), a protein necessary for neural tube closure in vertebrate development as deficiency in Shrm results in spina bifida. Shrm3 is also conserved in some invertebrates, as orthologues can be found in sea urchins. Shrm4, a regulator of cyto-skeletal architecture that may play an important role in vertebrate development. It is implicated in X-linked mental retardation in humans. This protein family is based on the conservation of a specific arrangement of an N-terminal PDZ domain, a centrally positioned sequence motif termed ASD1 (Apx/Shrm Domain 1) and a C-terminal motif termed ASD2 [, , ]. Shrm2 and Shrm3 contain all three domains, while Shrm4 contains the PDZ and ASD2 domains, but lacks a discernible ASD1 element. To date, the ASD1 and ASD2 elements have only been found in Shrm-related proteins and do not appear in combination with other conserved domains. ASD1 is required for targeting actin, while ASD2 is capable of eliciting an actomyosin based constriction event [, ]. ASD2 is the most highly conserved sequence element shared by Shrm1, Shrm2, Shrm3, and Shrm4. It possesses a well conserved series of leucine residues that exhibit spacing consistent with that of a leucine zipper motif []. Shroom2 is both necessary and sufficient to govern the localization of pigment granules at the apical surface of epithelial cells. Shroom2 is a central regulator of RPE pigmentation. Despite their diverse biological roles, Shroom family proteins share a common activity. Since the locus encoding human SHROOM2 lies within the critical region for two distinct forms of ocular albinism, it is possible that SHROOM2 mutations may contribute to human visual system disorders [].; GO: 0000902 cell morphogenesis, 0005737 cytoplasm; PDB: 3THF_B.
Probab=32.85 E-value=13 Score=31.12 Aligned_cols=60 Identities=13% Similarity=0.158 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc-------cCCCCCCCCCccccccccc
Q 028961 133 LWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENNGI-------ANFGPITTNNIECPFAIPN 196 (201)
Q Consensus 133 ~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~ 196 (201)
..-..|..+|.+|+ +.|++|...|+++...|..-+..+... -...|.+.+++.+-.|||+
T Consensus 82 e~~~~l~~Kk~eLi----~~l~~kl~~L~~eqe~l~ee~~~n~~lG~~ve~~v~~~c~p~E~~Ky~~fi~D 148 (264)
T PF08687_consen 82 ENDNDLNAKKVELI----ESLSKKLEVLQEEQEALQEEIQANEALGAEVEALVQEVCKPNEFEKYRMFIGD 148 (264)
T ss_dssp ----HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHH
T ss_pred ccchHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHH
Confidence 33445666777776 567777777777777777766655432 2233455555556666654
No 131
>PRK14859 tatA twin arginine translocase protein A; Provisional
Probab=32.55 E-value=7.9 Score=25.17 Aligned_cols=32 Identities=25% Similarity=0.431 Sum_probs=25.4
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccCC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGA 77 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~ 77 (201)
|++|||+|. ++++.+ .++...+..|++...+.
T Consensus 15 v~LlvfGp~-kLP~l~--r~lGk~i~~frk~~~~~ 46 (63)
T PRK14859 15 IVLIVFGAG-KLPEIG--GGLGKSIKNFKKATSEK 46 (63)
T ss_pred HHHHHhCch-HHHHHH--HHHHHHHHHHHHHhccc
Confidence 688999986 888886 57888888898766553
No 132
>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=32.33 E-value=1.3e+02 Score=22.57 Aligned_cols=55 Identities=13% Similarity=-0.084 Sum_probs=31.7
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+..+-..+...-...-..-..++.+++..+.++...|..--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~ 111 (142)
T TIGR01950 57 GIPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCIG 111 (142)
T ss_pred CCCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5888888887765432111111112245566666666666666666666766665
No 133
>PF10623 PilI: Plasmid conjugative transfer protein PilI; InterPro: IPR018897 The thin pilus of plasmid R64 belongs to the type IV family and is required for liquid matings. PilI is one of 14 genes that have been identified as being involved in biogenesis of the R64 thin pilus [].
Probab=32.32 E-value=54 Score=22.25 Aligned_cols=31 Identities=19% Similarity=0.445 Sum_probs=24.9
Q ss_pred ceEEEEeecCC--cccccccccchHHHHHHHHh
Q 028961 42 DVGVFIFSNHG--KLYELATNGTMQGLIEKYLK 72 (201)
Q Consensus 42 ~valivfs~~g--k~~~~~s~~~~~~VleRY~~ 72 (201)
.+-++|++.+| +++.+........++.+|..
T Consensus 8 rl~VLVv~n~c~~kL~~~~~~~D~~~i~r~f~T 40 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFDTKPDNDPDKIARRFCT 40 (83)
T ss_pred eEEEEEEeCCcceeEeecCCCCCHHHHHhhccC
Confidence 46788999986 47777766789999999975
No 134
>cd02980 TRX_Fd_family Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:ubiquinone oxidoreductase (NuoE). TRX-like Fds are soluble low-potential electron carriers containing a single [2Fe-2S] cluster. The exact role of TRX-like Fd is still unclear. It has been suggested that it may be involved in nitrogen fixation. Its homologous domains in large redox enzymes (such as Nuo and hydrogenases) function as electron carriers.
Probab=32.27 E-value=37 Score=21.96 Aligned_cols=31 Identities=19% Similarity=0.424 Sum_probs=20.4
Q ss_pred cCCceEEEEeecCCcccccccccchHHHHHHH
Q 028961 39 CDADVGVFIFSNHGKLYELATNGTMQGLIEKY 70 (201)
Q Consensus 39 Cda~valivfs~~gk~~~~~s~~~~~~VleRY 70 (201)
|+.--.++|+ |.|.+|...++..+..|++.+
T Consensus 47 C~~~P~v~i~-~~~~~y~~v~~~~~~~il~~~ 77 (77)
T cd02980 47 CGLAPVVVVY-PDGVWYGRVTPEDVEEIVEEL 77 (77)
T ss_pred ccCCCEEEEe-CCCeEEccCCHHHHHHHHHhC
Confidence 5444445555 677888776666888888753
No 135
>PF09388 SpoOE-like: Spo0E like sporulation regulatory protein; InterPro: IPR018540 Spore formation is an extreme response to starvation and can also be a component of disease transmission. Sporulation is controlled by an expanded two-component system where starvation signals result in sensor kinase activation and phosphorylation of the master sporulation response regulator Spo0A. Phosphatases such as Spo0E dephosphorylate Spo0A thereby inhibiting sporulation. This is a family of Spo0E-like phosphatases. The structure of a Bacillus anthracis member of this family has revealed an anti-parallel alpha-helical structure []. ; PDB: 2BZB_B 2C0S_A.
Probab=32.21 E-value=1.1e+02 Score=18.08 Aligned_cols=40 Identities=30% Similarity=0.312 Sum_probs=24.5
Q ss_pred hHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHH
Q 028961 97 LKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNI 138 (201)
Q Consensus 97 L~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~I 138 (201)
|..+|+.++..+-.+.... +++-++.-.+.+.||..+...
T Consensus 2 L~~~Ie~~R~~L~~~~~~~--~l~~~~vl~~Sq~LD~lI~~y 41 (45)
T PF09388_consen 2 LLEEIEELRQELNELAEKK--GLTDPEVLELSQELDKLINEY 41 (45)
T ss_dssp HHHHHHHHHHHHHHHHHHC--CTTCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHHHHH
Confidence 3444555554443333222 677888888999998877543
No 136
>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=31.98 E-value=71 Score=27.14 Aligned_cols=45 Identities=13% Similarity=0.187 Sum_probs=32.3
Q ss_pred ceeeecCCCCcchhhhhhhchHHHhHHHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHh
Q 028961 7 QMKRIENPVHRQVTFCKRRAGLLKKAKELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLK 72 (201)
Q Consensus 7 ~ik~Ien~~~R~vTf~KRr~GL~KKA~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~ 72 (201)
.+..|.|.+.|..+=+ -.||..|.+ +.| .|-+.|+|++|++.|..
T Consensus 25 n~~li~n~tqr~t~~s-------------R~L~Ecel~---~~p-----~Y~nDpEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKS-------------RLLAEIQRP---KNP-----HYHNDPELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccc-------------eehhhhccc---cCC-----CCCCcHHHHHHHHHHhH
Confidence 4678888888877633 257777665 444 45668899999999875
No 137
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=31.81 E-value=2.6e+02 Score=22.08 Aligned_cols=56 Identities=20% Similarity=0.271 Sum_probs=28.9
Q ss_pred chhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 87 PLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKM 143 (201)
Q Consensus 87 ~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 143 (201)
...+|.++..|+++....+..+..+.. .....+.+|-.+.+..-+...+.-|.||.
T Consensus 118 ~eemQe~i~~L~kev~~~~erl~~~k~-g~~~vtpedk~~v~~~y~~~~~~wrk~kr 173 (201)
T KOG4603|consen 118 TEEMQEEIQELKKEVAGYRERLKNIKA-GTNHVTPEDKEQVYREYQKYCKEWRKRKR 173 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH-hcccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555554444431 23455556665555555555555555554
No 138
>PRK01770 sec-independent translocase; Provisional
Probab=31.55 E-value=61 Score=25.38 Aligned_cols=38 Identities=18% Similarity=0.286 Sum_probs=25.5
Q ss_pred HhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
||-+.+= ||||||+|. +|+... ..+...+.+++++...
T Consensus 8 ELllI~v--VaLlV~GPe-rLP~~~--r~lg~~i~~~R~~~~~ 45 (171)
T PRK01770 8 ELLLVFV--IGLVVLGPQ-RLPVAV--KTVAGWIRALRSLATT 45 (171)
T ss_pred HHHHHHH--HHHHhcCch-HHHHHH--HHHHHHHHHHHHHHHH
Confidence 5555433 689999984 777765 4677777777765443
No 139
>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=31.12 E-value=2e+02 Score=20.71 Aligned_cols=52 Identities=21% Similarity=0.139 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+.++-..-... .. ..-..++.++++.+.++...|..--..|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~--~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 108 (126)
T cd04783 57 GFTLDEIAELLELDDGT--DC-SEARELAEQKLAEVDEKIADLQRMRASLQELVS 108 (126)
T ss_pred CCCHHHHHHHHhcccCC--CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47788877665432211 01 112345556666666666666666666665554
No 140
>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=31.07 E-value=1.7e+02 Score=20.77 Aligned_cols=51 Identities=16% Similarity=0.118 Sum_probs=24.7
Q ss_pred CCCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWI---YNIRSTKMDIMFQEINLLRNKEGILTAANKYLQD 169 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l---~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~ 169 (201)
++|++|+..+-...+..- ... ....+++.+++..+..+...|..--..|..
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 477777777655433210 001 111345555555555555555554444443
No 141
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=30.91 E-value=5e+02 Score=25.17 Aligned_cols=21 Identities=19% Similarity=0.281 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 028961 154 RNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 154 ~~k~~~l~eeN~~L~~~~~~~ 174 (201)
+...+.|.||...|..++++.
T Consensus 127 Khei~rl~Ee~~~l~~qlee~ 147 (717)
T PF09730_consen 127 KHEIKRLEEEIELLNSQLEEA 147 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344466666777776666653
No 142
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=30.83 E-value=4.4e+02 Score=26.72 Aligned_cols=10 Identities=20% Similarity=0.521 Sum_probs=5.5
Q ss_pred EeecCCcccc
Q 028961 47 IFSNHGKLYE 56 (201)
Q Consensus 47 vfs~~gk~~~ 56 (201)
||.|.|-+.-
T Consensus 654 V~dP~GtlTG 663 (1174)
T KOG0933|consen 654 VYDPSGTLTG 663 (1174)
T ss_pred eeCCCCcccC
Confidence 4666665553
No 143
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=30.71 E-value=1.6e+02 Score=21.23 Aligned_cols=30 Identities=23% Similarity=0.304 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
..+++..|+++.+.|..||..|++-+.=..
T Consensus 76 ~~~ei~~L~~el~~L~~E~diLKKa~~~~~ 105 (121)
T PRK09413 76 AMKQIKELQRLLGKKTMENELLKEAVEYGR 105 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 456678888899999999999998876433
No 144
>PRK00191 tatA twin arginine translocase protein A; Provisional
Probab=30.61 E-value=8.1 Score=26.59 Aligned_cols=39 Identities=15% Similarity=0.248 Sum_probs=29.0
Q ss_pred HHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 33 KELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 33 ~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
.||-++.- |++|||+|. |+++++ .++...+..|++...+
T Consensus 6 ~ElliI~v--I~lllFGp~-KLP~~~--r~lGk~ir~FK~~~~~ 44 (84)
T PRK00191 6 WEIGIIVL--LIIVLFGAK-KLPDAA--RSIGRSMRIFKSEVKE 44 (84)
T ss_pred HHHHHHHH--HHHHHhcch-HHHHHH--HHHHHHHHHHHHHHhc
Confidence 35555543 588999996 999987 5788888888875444
No 145
>PRK11637 AmiB activator; Provisional
Probab=30.42 E-value=3.9e+02 Score=23.71 Aligned_cols=16 Identities=13% Similarity=0.160 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 028961 146 MFQEINLLRNKEGILT 161 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~ 161 (201)
+..+|..++.+...+.
T Consensus 108 l~~eI~~~q~~l~~~~ 123 (428)
T PRK11637 108 LNASIAKLEQQQAAQE 123 (428)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3345555554433333
No 146
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=30.39 E-value=2.3e+02 Score=21.04 Aligned_cols=50 Identities=10% Similarity=0.076 Sum_probs=26.4
Q ss_pred CCCHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLEL--WIYNIRSTKMDIMFQEINLLRNKEGILTAANKYL 167 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~--~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L 167 (201)
++|++|+..+-...+. ........+.+.+..++..+..+...+.+-...|
T Consensus 56 G~sL~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~i~~Le~~l~~L~~~~~~l 107 (134)
T cd04779 56 RLSLAEIKDQLEEVQRSDKEQREVAQEVQLVCDQIDGLEHRLKQLKPIASQT 107 (134)
T ss_pred CCCHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666665544332 1112223344556667777766666665555444
No 147
>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=30.23 E-value=81 Score=26.56 Aligned_cols=33 Identities=27% Similarity=0.181 Sum_probs=25.4
Q ss_pred hhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 028961 108 LRYMFGGGTGTMTLDELLVLEKHLELWIYNIRS 140 (201)
Q Consensus 108 ~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~ 140 (201)
..++.-+.|.+|+++||.+|-..|-..+..|-.
T Consensus 208 ~~~~SrEeL~~Mt~~EL~qL~~~L~~qIq~vfe 240 (285)
T PF06937_consen 208 HPHYSREELNSMTLDELKQLNEKLLQQIQDVFE 240 (285)
T ss_pred ccccCHHHhhhCCHHHHHHHHHHHHHHHHHHHH
Confidence 445555779999999999999888777666553
No 148
>PF03428 RP-C: Replication protein C N-terminal domain; InterPro: IPR005090 Proteins in this group have homology with the RepC protein of Agrobacterium Ri and Ti plasmids []. They may be involved in plasmid replication and stabilisation functions.
Probab=30.07 E-value=68 Score=25.22 Aligned_cols=64 Identities=19% Similarity=0.324 Sum_probs=37.7
Q ss_pred CceEEEEe--ecCCcccccccc---------cchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhh
Q 028961 41 ADVGVFIF--SNHGKLYELATN---------GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLR 109 (201)
Q Consensus 41 a~valivf--s~~gk~~~~~s~---------~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r 109 (201)
+++++|+. ||+||=|-.-+. =++..++.||........ ........+..++.++..+...++
T Consensus 96 veaGLI~rrDS~NgkRy~~R~~~G~I~~A~GfdLsPL~~R~~El~~~a~-------~~~~~~~~~r~lr~~it~~rR~i~ 168 (177)
T PF03428_consen 96 VEAGLIVRRDSPNGKRYARRDRGGRIVEAFGFDLSPLIARAEELAALAE-------AARAERRALRRLRRRITLLRRDIR 168 (177)
T ss_pred HHCCCeeeccCCCCCccCccCCCCCEEeEeCcCHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67788886 577886653211 267788899877655321 222334455566666666665554
Q ss_pred hh
Q 028961 110 YM 111 (201)
Q Consensus 110 ~~ 111 (201)
.+
T Consensus 169 ~l 170 (177)
T PF03428_consen 169 KL 170 (177)
T ss_pred HH
Confidence 43
No 149
>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=29.92 E-value=2.6e+02 Score=26.79 Aligned_cols=52 Identities=19% Similarity=0.314 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 122 DELLVLEKHLELWIYNIRSTKMDIMF---QEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 122 ~EL~~LE~~Le~~l~~IR~RK~~ll~---~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+.|..|+++-+.-+...+.+.+++=. ++++.|+...+.|++|++.|.-....
T Consensus 4 dkL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE~r~ 58 (654)
T PF09798_consen 4 DKLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNELRS 58 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34666666666666666666655543 57777788888888888888766543
No 150
>PF11802 CENP-K: Centromere-associated protein K; InterPro: IPR020993 Cenp-K is one of seven new Cenp-A-nucleosome distal (CAD) centromere components (the others being Cenp-L, Cenp-O, Cenp-P, Cenp-Q, Cenp-R and Cenp-S) that are identified as assembling on the Cenp-A nucleosome associated complex, NAC []. The Cenp-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival despite continued centromere-derived mitotic checkpoint signalling. Cenp-K is centromere-associated through its interaction with one or more components of the Cenp-A NAC.; GO: 0005634 nucleus
Probab=29.60 E-value=3.4e+02 Score=22.85 Aligned_cols=55 Identities=22% Similarity=0.169 Sum_probs=32.4
Q ss_pred HHHHHHHhHHHHHHHHhhhhhhcCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 90 AKDEINMLKQEIEILQKGLRYMFGGG---TGTMTLDELLVLEKHLELWIYNIRSTKMD 144 (201)
Q Consensus 90 l~~e~~kL~~ei~~l~~~~r~~~Ge~---L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ 144 (201)
+-.++..|..++..-++..-.+...+ |..+.-++|+.+-..|+..|..+.++-.+
T Consensus 57 l~~~~k~L~aE~~qwqk~~peii~~n~~VL~~lgkeelqkl~~eLe~vLs~~q~Knek 114 (268)
T PF11802_consen 57 LMMRVKCLTAELEQWQKRTPEIIPLNPEVLLTLGKEELQKLISELEMVLSTVQSKNEK 114 (268)
T ss_pred HHHHHHHHHHHHHHHHhcCCCcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555555444432222222 44567788888888888888877766544
No 151
>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=29.58 E-value=2e+02 Score=22.22 Aligned_cols=47 Identities=11% Similarity=0.128 Sum_probs=24.5
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKM 171 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~ 171 (201)
++|++|+..+-..-.... ..++.+++..+.++...|...-..|...+
T Consensus 58 G~sL~eI~~ll~~~~~~~-------~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 58 GVSLEDIRSLLQQPGDDA-------TDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred CCCHHHHHHHHhcCChhH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577777776654333222 23445555555555555555555555444
No 152
>PF15342 FAM212: FAM212 family
Probab=29.52 E-value=19 Score=22.98 Aligned_cols=13 Identities=15% Similarity=0.503 Sum_probs=10.3
Q ss_pred CcccccccccCcc
Q 028961 187 NIECPFAIPNEIF 199 (201)
Q Consensus 187 ~~~~~~~~~~~~~ 199 (201)
--++||++|++.|
T Consensus 36 RnRQPLVLGDN~F 48 (62)
T PF15342_consen 36 RNRQPLVLGDNVF 48 (62)
T ss_pred ccCCCeeecccHH
Confidence 3458999999887
No 153
>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=29.40 E-value=12 Score=25.29 Aligned_cols=35 Identities=26% Similarity=0.483 Sum_probs=26.5
Q ss_pred hhhhhhhchHHHh---------HHHhhhccCCceEEEEeecCCc
Q 028961 19 VTFCKRRAGLLKK---------AKELSILCDADVGVFIFSNHGK 53 (201)
Q Consensus 19 vTf~KRr~GL~KK---------A~ELsvLCda~valivfs~~gk 53 (201)
+.||+-|++|-.| +.|+.+-||.|+-++..-|.|.
T Consensus 20 ~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 20 TYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred EEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 3467777777555 4689999999999999999887
No 154
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=29.13 E-value=22 Score=25.79 Aligned_cols=35 Identities=23% Similarity=0.434 Sum_probs=26.4
Q ss_pred hhhhhhhchHHHh---------HHHhhhccCCceEEEEeecCCc
Q 028961 19 VTFCKRRAGLLKK---------AKELSILCDADVGVFIFSNHGK 53 (201)
Q Consensus 19 vTf~KRr~GL~KK---------A~ELsvLCda~valivfs~~gk 53 (201)
..||+-|+-|-+| ..|+.+-||.|+-+++..+.|.
T Consensus 52 ~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 52 HYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred EEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 3456656645554 5699999999999999999654
No 155
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=28.97 E-value=5.8e+02 Score=25.26 Aligned_cols=83 Identities=19% Similarity=0.116 Sum_probs=46.6
Q ss_pred CchhHHHHHHHhHHHHHHHHhhhhhhcCC--CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 86 QPLDAKDEINMLKQEIEILQKGLRYMFGG--GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAA 163 (201)
Q Consensus 86 ~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge--~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~ee 163 (201)
...++..+..+|=++++.+-.....-.++ +.+.++.+.+.++-........-||. +.-+|+.+++++..|.-|
T Consensus 612 ~k~~lD~~f~kL~kele~~i~k~ls~~~eee~~~~~~~k~~e~l~~~~~kyK~lI~~-----lD~~~e~lkQ~~~~l~~e 686 (970)
T KOG0946|consen 612 TKLALDFEFKKLFKELEGLIAKLLSSKTEEEEQTQLAEKYHEELDDIQQKYKGLIRE-----LDYQIENLKQMEKELQVE 686 (970)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHhcCCCccchhhHHHHHHHHHHHHHHHHHHHHHHH-----HhhHHHHHHHHHHHHHHH
Confidence 44566677777877777766654433332 24445555555555555444333332 223556666666666666
Q ss_pred HHHHHHHHHh
Q 028961 164 NKYLQDKMEE 173 (201)
Q Consensus 164 N~~L~~~~~~ 173 (201)
|..|..++..
T Consensus 687 ~eeL~~~vq~ 696 (970)
T KOG0946|consen 687 NEELEEEVQD 696 (970)
T ss_pred HHHHHHHHHH
Confidence 6666665544
No 156
>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=28.69 E-value=2e+02 Score=19.88 Aligned_cols=15 Identities=27% Similarity=0.259 Sum_probs=11.4
Q ss_pred CCCHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLE 132 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le 132 (201)
+++++++..+-....
T Consensus 57 g~~l~~i~~~~~~~~ 71 (103)
T cd01106 57 GFSLKEIKELLKDPS 71 (103)
T ss_pred CCCHHHHHHHHHcCc
Confidence 688988888776654
No 157
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=28.53 E-value=1.1e+02 Score=18.89 Aligned_cols=27 Identities=19% Similarity=0.181 Sum_probs=20.6
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 116 TGTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 116 L~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
|-++|.+||......+...|-..|-.+
T Consensus 2 lr~~s~~EL~~~l~~lr~eLf~Lr~~~ 28 (55)
T TIGR00012 2 LREKSKEELAKKLDELKKELFELRFQK 28 (55)
T ss_pred HhhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 456888898888888888887777443
No 158
>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=28.48 E-value=2.3e+02 Score=20.38 Aligned_cols=55 Identities=16% Similarity=0.025 Sum_probs=28.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNI--RSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~I--R~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++++..+-...+..-... .....+++.+++..|..+...|.+--..|...+.
T Consensus 55 G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~ 111 (118)
T cd04776 55 GFSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAEE 111 (118)
T ss_pred CCCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777776665443221110 1122345666666666666666655555555544
No 159
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=28.35 E-value=48 Score=29.29 Aligned_cols=45 Identities=16% Similarity=0.214 Sum_probs=29.6
Q ss_pred HHhhhccCCc--eEEEEeecCCccccccc--ccchHHHHHHHHhhccCC
Q 028961 33 KELSILCDAD--VGVFIFSNHGKLYELAT--NGTMQGLIEKYLKSTQGA 77 (201)
Q Consensus 33 ~ELsvLCda~--valivfs~~gk~~~~~s--~~~~~~VleRY~~~~~~~ 77 (201)
+-|||+||-+ -|||--.++|=-|.-|- -.++++.+.-|+..+-..
T Consensus 367 yalSV~~~~~V~HClIy~tatG~GFa~pyn~y~tlk~lV~hY~h~SLe~ 415 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATGFGFAEPYNLYSTLKELVLHYQHTSLEQ 415 (464)
T ss_pred eEEEEEECCceeeeEEeeccccccccchhHHHHHHHHHHHHHhhhhHHh
Confidence 5689999755 47777666664443221 138899999998765543
No 160
>PF08385 DHC_N1: Dynein heavy chain, N-terminal region 1; InterPro: IPR013594 Dynein heavy chains interact with other heavy chains to form dimers, and with intermediate chain-light chain complexes to form a basal cargo binding unit []. The region featured in this family includes the sequences implicated in mediating these interactions []. It is thought to be flexible and not to adopt a rigid conformation [].
Probab=28.28 E-value=4.6e+02 Score=23.86 Aligned_cols=83 Identities=10% Similarity=0.148 Sum_probs=48.3
Q ss_pred hhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Q 028961 88 LDAKDEINMLKQEIEILQKGLRYMFGGGTGTM-TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNK-EGILTAANK 165 (201)
Q Consensus 88 ~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~L-s~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k-~~~l~eeN~ 165 (201)
..|.......+..+..++..+.......++++ |+++.-.+-......+. |.. +...+..-+.. ...+.+|-.
T Consensus 294 ~~w~~~~~~f~~~i~~lE~~l~~~l~~~f~~~~s~~~~~~ll~~f~~L~~--Rp~----I~~~l~~~~~~ll~~~~~ei~ 367 (579)
T PF08385_consen 294 EEWERDFSEFRERIEDLERRLANILRQAFDDCSSPEEAFRLLQKFKSLLN--RPR----IRKALQEKYEQLLQQFKEEID 367 (579)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHhHhc--chH----HHHHHHHHHHHHHHHHHHHHH
Confidence 37888899999999999998777766656554 55665555544443331 211 22222222211 244556666
Q ss_pred HHHHHHHhhcc
Q 028961 166 YLQDKMEENNG 176 (201)
Q Consensus 166 ~L~~~~~~~~~ 176 (201)
.++..+.....
T Consensus 368 ~~~~~f~~~~~ 378 (579)
T PF08385_consen 368 QLKKIFDNQKE 378 (579)
T ss_pred HHHHHHHhccc
Confidence 66666665553
No 161
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=27.70 E-value=7.2 Score=28.18 Aligned_cols=31 Identities=19% Similarity=0.366 Sum_probs=23.4
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
|+||||+| .|+++.. .++...+.+|++...+
T Consensus 15 VallvfGP-kKLPela--r~lGk~i~~fk~~~~d 45 (108)
T PRK14858 15 IALIVIGP-QKLPDLA--RSLGRGLAEFKKATDD 45 (108)
T ss_pred HHHHhcCc-hHHHHHH--HHHHHHHHHHHHHHHH
Confidence 68899997 5888876 4677888888776543
No 162
>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=27.63 E-value=59 Score=17.96 Aligned_cols=20 Identities=30% Similarity=0.383 Sum_probs=14.4
Q ss_pred CceEEEEeecCCcccccccc
Q 028961 41 ADVGVFIFSNHGKLYELATN 60 (201)
Q Consensus 41 a~valivfs~~gk~~~~~s~ 60 (201)
..-.-..|||+|+-..|++.
T Consensus 9 ~~~~~p~~SpDGk~i~f~s~ 28 (39)
T PF07676_consen 9 GDDGSPAWSPDGKYIYFTSN 28 (39)
T ss_dssp SSEEEEEE-TTSSEEEEEEE
T ss_pred ccccCEEEecCCCEEEEEec
Confidence 34566789999998888753
No 163
>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=27.61 E-value=2.4e+02 Score=20.35 Aligned_cols=55 Identities=22% Similarity=0.154 Sum_probs=30.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+..+-......-... ..-..++.+++..+.++...|..-...|......
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (127)
T cd04784 57 DMSLDEIRTLLQLQDDPEASC-AEVNALIDEHLAHVRARIAELQALEKQLQALRER 111 (127)
T ss_pred CCCHHHHHHHHHhhhcCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 688888888765432110000 1123556666666666666666666666655543
No 164
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=27.50 E-value=2.4e+02 Score=20.26 Aligned_cols=26 Identities=23% Similarity=0.194 Sum_probs=22.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 117 GTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 117 ~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
.+.+-+++..|-..++..|+++|.|=
T Consensus 32 g~~a~~e~~~lR~r~~~~Lk~~r~rl 57 (104)
T COG4575 32 GSLAGDEAEELRSKAESALKEARDRL 57 (104)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999999988664
No 165
>KOG3718 consensus Carnitine O-acyltransferase CROT [Lipid transport and metabolism]
Probab=27.31 E-value=51 Score=30.17 Aligned_cols=28 Identities=36% Similarity=0.415 Sum_probs=22.7
Q ss_pred eecCCcccccccccchHHHHHHHHhhccC
Q 028961 48 FSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 48 fs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
||-...+++.| -|++.+.|++|.+...+
T Consensus 14 Fs~qdsLPSLP-lPeLeETleKYl~s~~p 41 (609)
T KOG3718|consen 14 FSFQDSLPSLP-LPELEETLEKYLSSIQP 41 (609)
T ss_pred ccccccCCCCC-CchHHHHHHHHHHhccc
Confidence 67777788877 78999999999876554
No 166
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=27.11 E-value=59 Score=17.98 Aligned_cols=24 Identities=17% Similarity=0.333 Sum_probs=17.2
Q ss_pred HhhhccCCceEEEEeecCCccccc
Q 028961 34 ELSILCDADVGVFIFSNHGKLYEL 57 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~ 57 (201)
.|+--||+-|-+-||...|..-.|
T Consensus 2 hlcpkcgvgvl~pvy~~kgeikvf 25 (36)
T PF09151_consen 2 HLCPKCGVGVLEPVYNQKGEIKVF 25 (36)
T ss_dssp -B-TTTSSSBEEEEE-TTS-EEEE
T ss_pred ccCCccCceEEEEeecCCCcEEEE
Confidence 366779999999999999976665
No 167
>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=26.89 E-value=1.5e+02 Score=17.73 Aligned_cols=33 Identities=18% Similarity=0.239 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 143 MDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 143 ~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
-..+...-+.|+..-..|..||..|+.++....
T Consensus 7 y~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~ 39 (45)
T PF02183_consen 7 YDALKASYDSLKAEYDSLKKENEKLRAEVQELK 39 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666778888888899999999998887644
No 168
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=26.77 E-value=2.4e+02 Score=20.88 Aligned_cols=55 Identities=16% Similarity=0.003 Sum_probs=28.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
++|++|+..+-......-...-..-..++.++++.+.++...|.+-...|.....
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 112 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLND 112 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788887776543211000000112345666666666666666665555555544
No 169
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=26.68 E-value=2.4e+02 Score=20.04 Aligned_cols=10 Identities=0% Similarity=0.222 Sum_probs=7.1
Q ss_pred cccccccCcc
Q 028961 190 CPFAIPNEIF 199 (201)
Q Consensus 190 ~~~~~~~~~~ 199 (201)
..+.||.|+|
T Consensus 71 v~v~iG~~~~ 80 (129)
T cd00890 71 VLVDLGTGVY 80 (129)
T ss_pred EEEEecCCEE
Confidence 5677887765
No 170
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=26.42 E-value=6.1e+02 Score=24.66 Aligned_cols=106 Identities=15% Similarity=0.204 Sum_probs=57.2
Q ss_pred EEEEeecCCcccccccccchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHh----------hhhhhcC
Q 028961 44 GVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQK----------GLRYMFG 113 (201)
Q Consensus 44 alivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~----------~~r~~~G 113 (201)
-+++|+++|++.. -++.+||..|-.+.-.-- ....+.++.+++++...++- .++-..+
T Consensus 337 n~~~~d~~~~p~~----~~l~~il~~f~~~R~~~~--------~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~ 404 (742)
T PRK05561 337 NMNAIGLDGRPRV----KGLKEILSEWLDHRREVV--------TRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRE 404 (742)
T ss_pred eEEEEccCCEEEE----CCHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhc
Confidence 6788888888643 368999999976544321 01122223333333333221 1111111
Q ss_pred CC------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 114 GG------TGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTA 162 (201)
Q Consensus 114 e~------L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~e 162 (201)
.+ ...+.+.| .+.+..|+..|.++..-...-+.+++..|+++...|+.
T Consensus 405 s~~ak~~l~~~f~~~~-~qa~~Il~m~L~~Lt~le~~kl~~E~~~l~~ei~~l~~ 458 (742)
T PRK05561 405 SDEPKANLMARFDLSE-IQAEAILELRLRRLAKLEEIEIRKEQDELRKEIAELEA 458 (742)
T ss_pred CccHHHHHHHHhCCCH-HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 00 01122223 35777788888888877777777777777766554443
No 171
>PF02824 TGS: TGS domain; InterPro: IPR004095 The TGS domain is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), GTPase, and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) []. The TGS domain is also present at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role []. ; PDB: 1WXQ_A 1NYR_B 1NYQ_B 2KMM_A 1WWT_A 1TKE_A 1TKG_A 1TJE_A 1QF6_A 1TKY_A ....
Probab=26.41 E-value=88 Score=19.60 Aligned_cols=27 Identities=15% Similarity=0.247 Sum_probs=20.8
Q ss_pred EEEeecCCcccccccccchHHHHHHHH
Q 028961 45 VFIFSNHGKLYELATNGTMQGLIEKYL 71 (201)
Q Consensus 45 livfs~~gk~~~~~s~~~~~~VleRY~ 71 (201)
+.||-|+|+..+|+...++.++...-.
T Consensus 1 I~v~lpdG~~~~~~~g~T~~d~A~~I~ 27 (60)
T PF02824_consen 1 IRVYLPDGSIKELPEGSTVLDVAYSIH 27 (60)
T ss_dssp EEEEETTSCEEEEETTBBHHHHHHHHS
T ss_pred CEEECCCCCeeeCCCCCCHHHHHHHHC
Confidence 357779999999987777777776554
No 172
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=26.32 E-value=5.4e+02 Score=24.06 Aligned_cols=18 Identities=33% Similarity=0.442 Sum_probs=9.0
Q ss_pred HHHHHHHhHHHHHHHHhh
Q 028961 90 AKDEINMLKQEIEILQKG 107 (201)
Q Consensus 90 l~~e~~kL~~ei~~l~~~ 107 (201)
+..++.+|+.+++.+...
T Consensus 111 ~e~ei~kl~~e~~elr~~ 128 (546)
T KOG0977|consen 111 LEIEITKLREELKELRKK 128 (546)
T ss_pred HHHHHHHhHHHHHHHHHH
Confidence 344455555555554443
No 173
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.29 E-value=3.1e+02 Score=23.11 Aligned_cols=53 Identities=21% Similarity=0.203 Sum_probs=26.5
Q ss_pred hHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 89 DAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKM 143 (201)
Q Consensus 89 ~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 143 (201)
.++.++..|..+++.+........++ .+=+-.++..|+..++..-.+|+.|+.
T Consensus 49 ~~q~ei~~L~~qi~~~~~k~~~~~~~--i~~~~~eik~l~~eI~~~~~~I~~r~~ 101 (265)
T COG3883 49 NIQNEIESLDNQIEEIQSKIDELQKE--IDQSKAEIKKLQKEIAELKENIVERQE 101 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444433322221 112345666677777777777776663
No 174
>KOG3850 consensus Predicted membrane protein [Function unknown]
Probab=26.27 E-value=3.1e+02 Score=24.50 Aligned_cols=41 Identities=22% Similarity=0.289 Sum_probs=22.1
Q ss_pred HHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 028961 91 KDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIR 139 (201)
Q Consensus 91 ~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR 139 (201)
++|+..|+++...++... .=.+.+-..+++..+|.-..+|-
T Consensus 323 QnEi~nLKqElasmeerv--------aYQsyERaRdIqEalEscqtris 363 (455)
T KOG3850|consen 323 QNEIANLKQELASMEERV--------AYQSYERARDIQEALESCQTRIS 363 (455)
T ss_pred HHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444554444444332 23355666667777776666664
No 175
>PRK03625 tatE twin arginine translocase protein E; Validated
Probab=26.19 E-value=13 Score=24.41 Aligned_cols=31 Identities=26% Similarity=0.477 Sum_probs=24.2
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhccC
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQG 76 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~ 76 (201)
|++++|+|. |+++.+ .++...+.-|++...+
T Consensus 15 I~lllFGpk-KLp~lg--~~lGk~i~~Fk~~~~~ 45 (67)
T PRK03625 15 LVVLLFGTK-KLRTLG--GDLGAAIKGFKKAMND 45 (67)
T ss_pred HHHHHcCcc-HHHHHH--HHHHHHHHHHHHHhcc
Confidence 678999985 998887 5788888888875444
No 176
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=26.12 E-value=2.3e+02 Score=22.16 Aligned_cols=9 Identities=22% Similarity=0.604 Sum_probs=6.1
Q ss_pred CCCCCHHHH
Q 028961 116 TGTMTLDEL 124 (201)
Q Consensus 116 L~~Ls~~EL 124 (201)
..++++++.
T Consensus 100 ~~~it~~~v 108 (170)
T PRK13923 100 ISDLTLEDV 108 (170)
T ss_pred cccCCHHHH
Confidence 456777777
No 177
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=25.92 E-value=1.5e+02 Score=21.79 Aligned_cols=22 Identities=27% Similarity=0.249 Sum_probs=17.6
Q ss_pred chhhhhhhchHHHhHHHhhhcc
Q 028961 18 QVTFCKRRAGLLKKAKELSILC 39 (201)
Q Consensus 18 ~vTf~KRr~GL~KKA~ELsvLC 39 (201)
-.+|+|+|..++||-.+-.|-|
T Consensus 4 ~~~~rk~R~~~y~~lgl~~vkC 25 (120)
T PF04521_consen 4 FRCVRKYRASVYKKLGLSAVKC 25 (120)
T ss_pred hHHHHHHHHHHHHHcCCeeeee
Confidence 4679999999999987766644
No 178
>PRK09458 pspB phage shock protein B; Provisional
Probab=25.76 E-value=2.1e+02 Score=19.20 Aligned_cols=30 Identities=20% Similarity=0.199 Sum_probs=20.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 116 TGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLR 154 (201)
Q Consensus 116 L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~ 154 (201)
-.+||-+|.+.|++..+. .+-|.++|+.|.
T Consensus 33 ~~~Ls~~d~~~L~~L~~~---------A~rm~~RI~tLE 62 (75)
T PRK09458 33 SQGLSQEEQQRLAQLTEK---------AERMRERIQALE 62 (75)
T ss_pred CCCCCHHHHHHHHHHHHH---------HHHHHHHHHHHH
Confidence 357899998888877663 344666777664
No 179
>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=25.66 E-value=1.7e+02 Score=20.12 Aligned_cols=36 Identities=8% Similarity=0.110 Sum_probs=18.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGIL 160 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l 160 (201)
+++++|+..+-..-+... .+++.++++.+.++...|
T Consensus 57 G~~l~eI~~~l~~~~~~~-------~~~l~~~~~~l~~~i~~l 92 (96)
T cd04788 57 GFSLREIGRALDGPDFDP-------LELLRRQLARLEEQLELA 92 (96)
T ss_pred CCCHHHHHHHHhCCChhH-------HHHHHHHHHHHHHHHHHH
Confidence 578888777654433222 334445555555444433
No 180
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=25.54 E-value=6.5e+02 Score=24.72 Aligned_cols=85 Identities=19% Similarity=0.193 Sum_probs=46.7
Q ss_pred HHHHHHHhHHHHHHHHhhhhhh------cCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 90 AKDEINMLKQEIEILQKGLRYM------FGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAA 163 (201)
Q Consensus 90 l~~e~~kL~~ei~~l~~~~r~~------~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~ee 163 (201)
++.|..-|+.++..|...+|.- .|..--++-+--|+.|-..|+.-|..-. +--++++..-++|-+-...+.+|
T Consensus 392 lrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLqSlN~~Lq~ql~es~-k~~e~lq~kneellk~~e~q~~E 470 (861)
T PF15254_consen 392 LRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQSLNMSLQNQLQESL-KSQELLQSKNEELLKVIENQKEE 470 (861)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHHHHHHHHHHHHHHHH-HhHHHHHHhHHHHHHHHHHHHHH
Confidence 4455555555555544443321 1111113444556655555554444332 22355666666777677788899
Q ss_pred HHHHHHHHHhhc
Q 028961 164 NKYLQDKMEENN 175 (201)
Q Consensus 164 N~~L~~~~~~~~ 175 (201)
|+.|.+.+.+..
T Consensus 471 nk~~~~~~~ekd 482 (861)
T PF15254_consen 471 NKRLRKMFQEKD 482 (861)
T ss_pred HHHHHHHHHHHH
Confidence 999988877644
No 181
>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=25.22 E-value=1.4e+02 Score=16.72 Aligned_cols=33 Identities=21% Similarity=0.172 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 123 ELLVLEKHLELWIYNIRSTKMDIMFQEINLLRN 155 (201)
Q Consensus 123 EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~ 155 (201)
.+..|+..+..+...-+--+...+.++|..|++
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 355666666666666666666666666666653
No 182
>PRK13824 replication initiation protein RepC; Provisional
Probab=25.18 E-value=3.2e+02 Score=24.37 Aligned_cols=97 Identities=13% Similarity=0.224 Sum_probs=55.6
Q ss_pred HhhhccCCceEEEEe--ecCCccccccc-c--------cchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHH
Q 028961 34 ELSILCDADVGVFIF--SNHGKLYELAT-N--------GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIE 102 (201)
Q Consensus 34 ELsvLCda~valivf--s~~gk~~~~~s-~--------~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~ 102 (201)
-|+.|.+ ++||++ ||+||=|-.-. . =++..++.||........ ....-+.++..++.++.
T Consensus 103 hla~Lve--aGLI~rrDSpNGKRyarr~~~G~i~~AfGfDLsPL~~R~~El~~~A~-------~~~ae~~~~r~lr~~it 173 (404)
T PRK13824 103 HLAALVE--AGLIIRRDSPNGKRYARKGRGGEIEEAFGFDLAPLLARAEEFEALAE-------QVAAERKALRRLRERLT 173 (404)
T ss_pred HHHHHHH--CCCeEeecCCCCcccceeCCCCceeeeeccchHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHH
Confidence 4566644 556664 77888774321 1 167788888876554321 22233555677777777
Q ss_pred HHHhhhhhhcCCCCC-CCCHHHHHHHHHHHHHHHHHHHH
Q 028961 103 ILQKGLRYMFGGGTG-TMTLDELLVLEKHLELWIYNIRS 140 (201)
Q Consensus 103 ~l~~~~r~~~Ge~L~-~Ls~~EL~~LE~~Le~~l~~IR~ 140 (201)
.+...++.+.....+ +++ .+...++..+...+..++.
T Consensus 174 ~~rRdi~~li~~a~~~~~~-~~w~~~~~~~~~i~~~l~R 211 (404)
T PRK13824 174 LCRRDIAKLIEAAIEEGVP-GDWEGVEQRFRAIVARLPR 211 (404)
T ss_pred HHHHHHHHHHHHHHhccCC-CcHHHHHHHHHHHHHHcCC
Confidence 777766655421111 111 1466677777777766663
No 183
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=25.00 E-value=2.4e+02 Score=19.53 Aligned_cols=29 Identities=21% Similarity=0.358 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 146 MFQEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 146 l~~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
+..++..|+.+...+.+||..|+.++...
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~~e 75 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLDTE 75 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66788888888888999999998887643
No 184
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=24.98 E-value=4.7e+02 Score=22.93 Aligned_cols=80 Identities=16% Similarity=0.132 Sum_probs=38.1
Q ss_pred chhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 87 PLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKY 166 (201)
Q Consensus 87 ~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~ 166 (201)
.+..+.|...|+.++++|-..+-+..+- +---..-.++||..+.+.+.++.+ +.-+++.+.+.-+...||+..
T Consensus 94 ~~e~q~e~~qL~~qnqkL~nqL~~~~~v------f~k~k~~~q~LE~li~~~~EEn~~-lqlqL~~l~~e~~Ekeeesq~ 166 (401)
T PF06785_consen 94 VEERQQESEQLQSQNQKLKNQLFHVREV------FMKTKGDIQHLEGLIRHLREENQC-LQLQLDALQQECGEKEEESQT 166 (401)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHH------HHHhcchHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHhHhHHHHHH
Confidence 3444555566666666555543222110 000000124455555555555433 334556666666666666666
Q ss_pred HHHHHHh
Q 028961 167 LQDKMEE 173 (201)
Q Consensus 167 L~~~~~~ 173 (201)
|...+.|
T Consensus 167 LnrELaE 173 (401)
T PF06785_consen 167 LNRELAE 173 (401)
T ss_pred HHHHHHH
Confidence 6555554
No 185
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=24.91 E-value=1.3e+02 Score=20.80 Aligned_cols=78 Identities=8% Similarity=0.178 Sum_probs=44.5
Q ss_pred cchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhcCCC--CCCCCHHHHHHHHHHHHHHHHHH
Q 028961 61 GTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGG--TGTMTLDELLVLEKHLELWIYNI 138 (201)
Q Consensus 61 ~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~--L~~Ls~~EL~~LE~~Le~~l~~I 138 (201)
..+..++.+|...................++..+..+...++.|+.........+ . +++..||..-...+...-..|
T Consensus 15 ~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF-~l~~~Ei~~Rr~fv~~~~~~i 93 (97)
T PF09177_consen 15 DRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKF-NLSEEEISRRRQFVSAIRNQI 93 (97)
T ss_dssp HHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH-T-HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccc-CCCHHHHHHHHHHHHHHHHHH
Confidence 3667777888776665430000011223556666777777777777765443322 2 577777777777776655555
Q ss_pred H
Q 028961 139 R 139 (201)
Q Consensus 139 R 139 (201)
.
T Consensus 94 ~ 94 (97)
T PF09177_consen 94 K 94 (97)
T ss_dssp H
T ss_pred H
Confidence 4
No 186
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=24.82 E-value=1.2e+02 Score=23.82 Aligned_cols=55 Identities=16% Similarity=0.152 Sum_probs=35.2
Q ss_pred hhHHHHHHHhHHHHHHHHhhhhhhcCC--CC-CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 028961 88 LDAKDEINMLKQEIEILQKGLRYMFGG--GT-GTMTLDELLVLEKHLELWIYNIRSTK 142 (201)
Q Consensus 88 ~~l~~e~~kL~~ei~~l~~~~r~~~Ge--~L-~~Ls~~EL~~LE~~Le~~l~~IR~RK 142 (201)
..+..++.+|..+...|+..++++..+ .| ..||++|++.=-+.|..-...-|.|=
T Consensus 82 ~~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl 139 (201)
T KOG4603|consen 82 QVLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERL 139 (201)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHH
Confidence 345556666666666666666665543 23 34899999888888776666655543
No 187
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=24.82 E-value=1.8e+02 Score=17.91 Aligned_cols=18 Identities=17% Similarity=0.108 Sum_probs=12.7
Q ss_pred CCCCCHHHHHHHHHHHHH
Q 028961 116 TGTMTLDELLVLEKHLEL 133 (201)
Q Consensus 116 L~~Ls~~EL~~LE~~Le~ 133 (201)
|..+|++||++.-..|+.
T Consensus 5 Lk~ls~~eL~~rl~~LD~ 22 (49)
T PF11629_consen 5 LKFLSYEELQQRLASLDP 22 (49)
T ss_dssp GGGS-HHHHHHHHHHHHH
T ss_pred HhhCCHHHHHHHHHhCCH
Confidence 667899999877766653
No 188
>cd01365 KISc_KIF1A_KIF1B Kinesin motor domain, KIF1_like proteins. KIF1A (Unc104) transports synaptic vesicles to the nerve terminal, KIF1B has been implicated in transport of mitochondria. Both proteins are expressed in neurons. This catalytic (head) domain has ATPase activity and belongs to the larger group of P-loop NTPases. Kinesins are microtubule-dependent molecular motors that play important roles in intracellular transport and in cell division. In most kinesins, the motor domain is found at the N-terminus (N-type). N-type kinesins are (+) end-directed motors, i.e. they transport cargo towards the (+) end of the microtubule. In contrast to the majority of dimeric kinesins, most KIF1A/Unc104 kinesins are monomeric motors. A lysine-rich loop in KIF1A binds to the negatively charged C-terminus of tubulin and compensates for the lack of a second motor domain, allowing KIF1A to move processively.
Probab=24.55 E-value=71 Score=27.67 Aligned_cols=23 Identities=22% Similarity=0.466 Sum_probs=19.7
Q ss_pred hhccCCceEEEEeecC--Ccccc-cc
Q 028961 36 SILCDADVGVFIFSNH--GKLYE-LA 58 (201)
Q Consensus 36 svLCda~valivfs~~--gk~~~-~~ 58 (201)
+++-|..+|++.|+++ ||-|+ |+
T Consensus 83 ~~l~G~n~~i~ayGqtGSGKT~Tm~G 108 (356)
T cd01365 83 HAFEGYNVCLFAYGQTGSGKSYTMMG 108 (356)
T ss_pred HHhCCCceEEEEecCCCCCCeEEecC
Confidence 4688999999999997 78887 55
No 189
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=24.45 E-value=60 Score=26.93 Aligned_cols=25 Identities=32% Similarity=0.498 Sum_probs=21.8
Q ss_pred HhhhccCCceEEEEeecCCcccccc
Q 028961 34 ELSILCDADVGVFIFSNHGKLYELA 58 (201)
Q Consensus 34 ELsvLCda~valivfs~~gk~~~~~ 58 (201)
+|.-.+|++|+|||..+.|++|--+
T Consensus 134 ~l~~~~g~~v~VIItDt~gr~~R~G 158 (243)
T TIGR01916 134 GLRELTGVDVGVIITDTNGRPFREG 158 (243)
T ss_pred HHHHHHCCCEEEEEECCCCCccccC
Confidence 5666789999999999999998776
No 190
>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=24.20 E-value=2.9e+02 Score=20.26 Aligned_cols=56 Identities=13% Similarity=0.025 Sum_probs=31.3
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
++|++|+..+-......- .. ..-..++.+++..+.++...|.+-...|...+..-.
T Consensus 57 GfsL~eI~~ll~~~~~~~-~~-~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~ 112 (131)
T cd04786 57 GFSLDEIRQLLPADASNW-QH-DELLAALERKVADIEALEARLAQNKAQLLVLIDLIE 112 (131)
T ss_pred CCCHHHHHHHHhcccCCC-CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 457777666654221000 00 111345667777777777777777777777765543
No 191
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=24.09 E-value=1.8e+02 Score=19.87 Aligned_cols=69 Identities=19% Similarity=0.321 Sum_probs=34.8
Q ss_pred HHhhhccCCceEEEEeecCCcccccccccchHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhc
Q 028961 33 KELSILCDADVGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMF 112 (201)
Q Consensus 33 ~ELsvLCda~valivfs~~gk~~~~~s~~~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~ 112 (201)
.||..+-+- ..||=.-|++|.-.+.+++...|+.-...... ....+......+.+++..++..++.+.
T Consensus 36 ~eL~~l~~~---~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~---------~i~~l~~~~~~l~~~l~~~~~~l~~~~ 103 (106)
T PF01920_consen 36 EELEKLDDD---RKVYKSVGKMFVKQDKEEAIEELEERIEKLEK---------EIKKLEKQLKYLEKKLKELKKKLYELF 103 (106)
T ss_dssp HHHHTSSTT----EEEEEETTEEEEEEHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHCCC
T ss_pred HHHHhCCCc---chhHHHHhHHHHHhhHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467776443 44555557877654344555555444332221 233444555555555555555555544
Q ss_pred C
Q 028961 113 G 113 (201)
Q Consensus 113 G 113 (201)
|
T Consensus 104 ~ 104 (106)
T PF01920_consen 104 G 104 (106)
T ss_dssp S
T ss_pred c
Confidence 4
No 192
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=24.02 E-value=2.5e+02 Score=19.34 Aligned_cols=37 Identities=16% Similarity=0.207 Sum_probs=24.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 117 GTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANK 165 (201)
Q Consensus 117 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~ 165 (201)
..||.++-..||..+.. +..++....++-+.|+.||.
T Consensus 31 ~eLs~e~R~~lE~E~~~------------l~~~l~~~E~eL~~LrkENr 67 (85)
T PF15188_consen 31 RELSPEARRSLEKELNE------------LKEKLENNEKELKLLRKENR 67 (85)
T ss_pred cCCChHHHHHHHHHHHH------------HHHHhhccHHHHHHHHHhhh
Confidence 45788888888855443 33444566666677777774
No 193
>PF14988 DUF4515: Domain of unknown function (DUF4515)
Probab=23.92 E-value=3.8e+02 Score=21.47 Aligned_cols=53 Identities=21% Similarity=0.195 Sum_probs=30.0
Q ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 121 LDELLVLEKHL-ELWIYNIRSTKMDIMFQ--------EINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 121 ~~EL~~LE~~L-e~~l~~IR~RK~~ll~~--------~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+.|=..||.++ +..+..+-.+...-+.. -+..+-.--+.+..||..|++.+..
T Consensus 113 l~EK~~LEke~~e~~i~~l~e~a~~el~~k~~ale~~A~~~l~e~~~~i~~EN~~L~k~L~~ 174 (206)
T PF14988_consen 113 LQEKARLEKEASELKILQLGERAHKELKKKAQALELAAKKSLDEFTRSIKRENQQLRKELLQ 174 (206)
T ss_pred HHHHHHHHHHHHHhhHHHhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555666666 54444444444433322 2344444557777888888877654
No 194
>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=23.85 E-value=2.9e+02 Score=20.15 Aligned_cols=55 Identities=20% Similarity=0.095 Sum_probs=31.2
Q ss_pred CCCHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLEL-WIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~-~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+..+-..... .-... ..-..++.++++.+.++...|..-...|...+..
T Consensus 58 G~sl~eI~~~l~~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 113 (131)
T TIGR02043 58 GFTLDEIKELLSIKLDATEHSC-AEVKAIVDAKLELVDEKINELTKIRRSLKKLSDA 113 (131)
T ss_pred CCCHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788888876653311 00001 1123566677777777777776666666665543
No 195
>cd01668 TGS_RelA_SpoT TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after the Threonyl-tRNA Synthetase, GTPase, and SpoT proteins where it occurs. The function of the TGS domain is unknown.
Probab=23.65 E-value=78 Score=19.06 Aligned_cols=25 Identities=20% Similarity=0.477 Sum_probs=20.3
Q ss_pred EEeecCCcccccccccchHHHHHHH
Q 028961 46 FIFSNHGKLYELATNGTMQGLIEKY 70 (201)
Q Consensus 46 ivfs~~gk~~~~~s~~~~~~VleRY 70 (201)
.||=|+|..++|+.+.++.+++...
T Consensus 2 ~~~~~~g~~~~~~~~~t~~~~~~~~ 26 (60)
T cd01668 2 YVFTPKGEIIELPAGATVLDFAYAI 26 (60)
T ss_pred EEECCCCCEEEcCCCCCHHHHHHHH
Confidence 5889999999998777888888654
No 196
>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=23.26 E-value=2.3e+02 Score=19.42 Aligned_cols=13 Identities=23% Similarity=0.245 Sum_probs=8.6
Q ss_pred CCCHHHHHHHHHH
Q 028961 118 TMTLDELLVLEKH 130 (201)
Q Consensus 118 ~Ls~~EL~~LE~~ 130 (201)
+++++++..+-..
T Consensus 57 G~~l~~I~~~l~~ 69 (96)
T cd04768 57 GFSLAEIKELLDT 69 (96)
T ss_pred CCCHHHHHHHHhc
Confidence 5777777766543
No 197
>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=23.04 E-value=4.9e+02 Score=22.40 Aligned_cols=27 Identities=26% Similarity=0.316 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 148 QEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 148 ~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
.+|-.|+++.+.+..||..|...+...
T Consensus 241 sqivdlQ~r~k~~~~EnEeL~q~L~~s 267 (306)
T PF04849_consen 241 SQIVDLQQRCKQLAAENEELQQHLQAS 267 (306)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 456667778888888888888776643
No 198
>cd03064 TRX_Fd_NuoE TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes. It is a multisubunit complex with at least 14 core subunits. It catalyzes the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane, providing the proton motive force required for energy-consuming processes. Electrons are transferred from NADH to quinone through a chain of iron-sulfur clusters in Nuo, including the [2Fe-2S] cluster present in NuoE core subunit, also called the 24 kD subunit of Complex 1. This subfamily also include formate dehydrogenases, NiFe hydrogenases and NAD-reducing hydrogenases, that contain a NuoE domain. A subset of these proteins contain both NuoE and NuoF in a single chain. NuoF, also called the 51 kD subunit of Complex 1, contains one [4Fe-4S] clu
Probab=22.94 E-value=59 Score=21.45 Aligned_cols=29 Identities=21% Similarity=0.423 Sum_probs=19.2
Q ss_pred cCCceEEEEeecCCcccccccccchHHHHHHH
Q 028961 39 CDADVGVFIFSNHGKLYELATNGTMQGLIEKY 70 (201)
Q Consensus 39 Cda~valivfs~~gk~~~~~s~~~~~~VleRY 70 (201)
|+--.+++| +|.+|...++..+.+|++.|
T Consensus 52 C~~gP~v~v---~g~~y~~vt~~~i~~i~~~~ 80 (80)
T cd03064 52 CDLAPVMMI---NDDVYGRLTPEKVDAILEAL 80 (80)
T ss_pred CCCCCEEEE---CCEEECCCCHHHHHHHHHhC
Confidence 655555555 37788776566888888754
No 199
>PF00383 dCMP_cyt_deam_1: Cytidine and deoxycytidylate deaminase zinc-binding region; InterPro: IPR002125 Cytidine deaminase (3.5.4.5 from EC) (cytidine aminohydrolase) catalyzes the hydrolysis of cytidine into uridine and ammonia while deoxycytidylate deaminase (3.5.4.12 from EC) (dCMP deaminase) hydrolyzes dCMP into dUMP. Both enzymes are known to bind zinc and to require it for their catalytic activity [, ]. These two enzymes do not share any sequence similarity with the exception of a region that contains three conserved histidine and cysteine residues which are thought to be involved in the binding of the catalytic zinc ion. Such a region is also found in other proteins [, ]: Yeast cytosine deaminase (3.5.4.1 from EC) (gene FCY1) which transforms cytosine into uracil. Mammalian apolipoprotein B mRNA editing protein, responsible for the postranscriptional editing of a CAA codon into a UAA (stop) codon in the APOB mRNA. Riboflavin biosynthesis protein ribG, which converts 2,5-diamino-6-(ribosylamino)-4(3H)-pyrimidinone 5'-phosphate into 5-amino-6-(ribosylamino)-2,4(1H,3H)-pyrimidinedione 5'-phosphate. Bacillus cereus blasticidin-S deaminase (3.5.4.23 from EC), which catalyzes the deamination of the cytosine moiety of the antibiotics blasticidin S, cytomycin and acetylblasticidin S. Bacillus subtilis protein comEB. This protein is required for the binding and uptake of transforming DNA. B. subtilis hypothetical protein yaaJ. Escherichia coli hypothetical protein yfhC. Yeast hypothetical protein YJL035c. ; GO: 0008270 zinc ion binding, 0016787 hydrolase activity; PDB: 3MPZ_C 3R2N_C 1WKQ_A 1TIY_B 2B3J_C 2O7P_B 2OBC_A 2G6V_B 2D30_B 2D5N_B ....
Probab=22.81 E-value=1e+02 Score=20.94 Aligned_cols=29 Identities=28% Similarity=0.410 Sum_probs=21.4
Q ss_pred HHHhHHHhhhcc----CCceEEEEeecCCcccc
Q 028961 28 LLKKAKELSILC----DADVGVFIFSNHGKLYE 56 (201)
Q Consensus 28 L~KKA~ELsvLC----da~valivfs~~gk~~~ 56 (201)
+|+.|.+++-.. ...|+.+|++++|+...
T Consensus 7 ~m~~a~~~a~~s~~~~~~~vgaviv~~~~~~i~ 39 (102)
T PF00383_consen 7 FMRIAIELAKRSRPCGNFPVGAVIVDPDGKIIA 39 (102)
T ss_dssp HHHHHHHHHHTHBTTTSSSEEEEEEETTTEEEE
T ss_pred HHHHHHHHHHhccccCCCCEEEEEEeccCccEE
Confidence 566777666665 88999999998766443
No 200
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=22.81 E-value=3.3e+02 Score=20.36 Aligned_cols=30 Identities=17% Similarity=0.195 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 148 QEINLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 148 ~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
++++.|+.....+.-|--.++.++.....+
T Consensus 88 qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 88 QQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444444444444444444444444433
No 201
>PRK04863 mukB cell division protein MukB; Provisional
Probab=22.80 E-value=9.3e+02 Score=25.62 Aligned_cols=51 Identities=16% Similarity=0.102 Sum_probs=30.6
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 115 GTGTMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++.+||.++|...-...+..+... ..++..++.+...+..+...+.+....
T Consensus 431 ~~~~~SdEeLe~~LenF~aklee~--------e~qL~elE~kL~~lea~leql~~~~~~ 481 (1486)
T PRK04863 431 GLPDLTADNAEDWLEEFQAKEQEA--------TEELLSLEQKLSVAQAAHSQFEQAYQL 481 (1486)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367999999887777766554333 334445555555555555555555444
No 202
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=22.73 E-value=3.3e+02 Score=20.35 Aligned_cols=53 Identities=15% Similarity=0.090 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 118 TMTLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 118 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
++|++|+..+-..-+... -..-..++.+++..+.++...|..-...|...+..
T Consensus 64 G~sL~eI~~ll~~~~~~~---~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~ 116 (144)
T PRK13752 64 GFSLDEIAELLRLEDGTH---CEEASSLAEHKLKDVREKMADLARMEAVLSELVCA 116 (144)
T ss_pred CCCHHHHHHHHhccCCCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 468888777654222110 01123566667777777777777777777776653
No 203
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=22.51 E-value=1.1e+02 Score=19.73 Aligned_cols=26 Identities=19% Similarity=0.219 Sum_probs=15.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHH
Q 028961 115 GTGTMTLDELLVLEKHLELWIYNIRS 140 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~~l~~IR~ 140 (201)
++-++|.+||...-..+..-|-..|-
T Consensus 5 elr~ls~~eL~~~l~~lkkeL~~lR~ 30 (66)
T PRK00306 5 ELRELSVEELNEKLLELKKELFNLRF 30 (66)
T ss_pred HHhhCCHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666655555553
No 204
>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=22.44 E-value=3.5e+02 Score=20.53 Aligned_cols=54 Identities=22% Similarity=0.191 Sum_probs=34.2
Q ss_pred CchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 86 QPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIRSTKM 143 (201)
Q Consensus 86 ~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 143 (201)
....++.++..++.++..++..+..+.. .++.+||...-..|..-+..+.+|=.
T Consensus 80 ei~~L~~el~~l~~~~k~l~~eL~~L~~----~~t~~el~~~i~~l~~e~~~l~~kL~ 133 (169)
T PF07106_consen 80 EIKELREELAELKKEVKSLEAELASLSS----EPTNEELREEIEELEEEIEELEEKLE 133 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666776666666665543 46788887777777665555544443
No 205
>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=22.41 E-value=2.8e+02 Score=19.31 Aligned_cols=12 Identities=17% Similarity=0.122 Sum_probs=9.2
Q ss_pred CCCHHHHHHHHH
Q 028961 118 TMTLDELLVLEK 129 (201)
Q Consensus 118 ~Ls~~EL~~LE~ 129 (201)
++|++|+..+-.
T Consensus 55 G~sL~eI~~~l~ 66 (107)
T cd04777 55 GFSLIEIQKIFS 66 (107)
T ss_pred CCCHHHHHHHHH
Confidence 688888887654
No 206
>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]
Probab=22.14 E-value=55 Score=26.65 Aligned_cols=18 Identities=39% Similarity=0.667 Sum_probs=15.1
Q ss_pred cCCceEEEEeecCCcccc
Q 028961 39 CDADVGVFIFSNHGKLYE 56 (201)
Q Consensus 39 Cda~valivfs~~gk~~~ 56 (201)
.|-|--+.||||.|+||.
T Consensus 7 agfDrhitIFspeGrLyQ 24 (246)
T KOG0182|consen 7 AGFDRHITIFSPEGRLYQ 24 (246)
T ss_pred CCccceEEEECCCceEEe
Confidence 456777899999999996
No 207
>PRK11519 tyrosine kinase; Provisional
Probab=22.11 E-value=7.1e+02 Score=23.89 Aligned_cols=50 Identities=8% Similarity=0.192 Sum_probs=32.3
Q ss_pred chHHHHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhc
Q 028961 62 TMQGLIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMF 112 (201)
Q Consensus 62 ~~~~VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~ 112 (201)
-++.+.+.|....-..... .......++.+++..++.+++..+..+..+.
T Consensus 245 iaN~l~~~Yi~~~~~~k~~-~a~~a~~fL~~ql~~l~~~L~~aE~~l~~fr 294 (719)
T PRK11519 245 ILNSITRNYLEQNIERKSE-EASKSLAFLAQQLPEVRSRLDVAENKLNAFR 294 (719)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566778887655443211 1122456788889999999998888766554
No 208
>PF12537 DUF3735: Protein of unknown function (DUF3735); InterPro: IPR022535 This conserved domain is found in a subunit of a voltage dependent anion channel required for acidification and functions of the Golgi apparatus; it may function in counter-ion conductance. It belongs to the Golgi pH regulator (1.A.38 from TC) family
Probab=22.08 E-value=1.8e+02 Score=19.03 Aligned_cols=25 Identities=12% Similarity=-0.050 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDI 145 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~l 145 (201)
-.|+..+|+.|......+..||.++
T Consensus 47 ~~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 47 ESDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6788888888888888888888654
No 209
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=22.01 E-value=4.6e+02 Score=21.68 Aligned_cols=27 Identities=15% Similarity=0.199 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 028961 149 EINLLRNKEGILTAANKYLQDKMEENN 175 (201)
Q Consensus 149 ~i~~l~~k~~~l~eeN~~L~~~~~~~~ 175 (201)
+.+.++...+.|.-||.+|..++...+
T Consensus 164 e~ee~~erlk~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 164 EYEEVQERLKRLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 334445555666666666666655443
No 210
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=21.89 E-value=3.4e+02 Score=20.15 Aligned_cols=59 Identities=19% Similarity=0.300 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccC
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDI------MFQEINLLRNKEGILTAANKYLQDKMEENNGIAN 179 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~l------l~~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~~~ 179 (201)
+++|+...-.....+..++.|-.+| +...++.++.+...+..+...|..+++......+
T Consensus 60 l~~L~~~~~~~~~rl~~~r~r~~~L~hR~l~v~~~~eilr~~g~~l~~eEe~L~~~le~l~~~l~ 124 (141)
T PF13874_consen 60 LEELQKHDLETSARLEEARRRHQELSHRLLRVLRKQEILRNRGYALSPEEEELRKRLEALEAQLN 124 (141)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------------------
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHc
Confidence 4444444444455555666555555 3445667777777788888888888877655433
No 211
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=21.79 E-value=5.5e+02 Score=22.53 Aligned_cols=52 Identities=15% Similarity=0.108 Sum_probs=34.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 120 TLDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 120 s~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
+-..|..|...+...|.+|..| ++.+.++++.+-.+.+...++-...+.++.
T Consensus 239 ~~~~L~kl~~~i~~~lekI~sR-Ek~iN~qle~l~~eYr~~~~~ls~~~~~y~ 290 (359)
T PF10498_consen 239 TKSQLDKLQQDISKTLEKIESR-EKYINNQLEPLIQEYRSAQDELSEVQEKYK 290 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777888888888888765 455666776666666655555555555544
No 212
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=21.63 E-value=2.3e+02 Score=21.06 Aligned_cols=49 Identities=16% Similarity=0.096 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 124 LLVLEKHLELWIYNIRSTKMDI--MFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 124 L~~LE~~Le~~l~~IR~RK~~l--l~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
.+.+...++..+...+.--... +..+++.++.....+.++-..|..++.
T Consensus 29 ~~~~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~~~~ 79 (150)
T PF07200_consen 29 VQELQQEREELLAENEELAEQNLSLEPELEELRSQLQELYEELKELESEYQ 79 (150)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444443322222 224555555554444444444444443
No 213
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=21.30 E-value=93 Score=21.86 Aligned_cols=52 Identities=10% Similarity=0.093 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccccCCCCCCCCCcccccccccCcc
Q 028961 148 QEINLLRNKEGILTAANKYLQDKMEENNGIANFGPITTNNIECPFAIPNEIF 199 (201)
Q Consensus 148 ~~i~~l~~k~~~l~eeN~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 199 (201)
.+++.|+.....+..+-..|...+.++.....-.-....+..++..||.-|+
T Consensus 6 ~~~q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d~~vy~~VG~vfv 57 (105)
T cd00632 6 AQLQQLQQQLQAYIVQRQKVEAQLNENKKALEELEKLADDAEVYKLVGNVLV 57 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHhhhHHh
Confidence 4455555555555566666666666555431111111133345666776554
No 214
>cd08888 SRPBCC_PITPNA-B_like Lipid-binding SRPBCC domain of mammalian PITPNA, -B, and related proteins (Class I PITPs). This subgroup includes the SRPBCC (START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of mammalian Class 1 phosphatidylinositol transfer proteins (PITPs), PITPNA/PITPalpha and PITPNB/PITPbeta, Drosophila vibrator, and related proteins. These are single domain proteins belonging to the PITP family of lipid transfer proteins, and to the SRPBCC domain superfamily of proteins that bind hydrophobic ligands. SRPBCC domains have a deep hydrophobic ligand-binding pocket. In vitro, PITPs bind phosphatidylinositol (PtdIns), as well as phosphatidylcholine (PtdCho) but with a lower affinity. They transfer these lipids from one membrane compartment to another. The cellular roles of PITPs include inositol lipid signaling, PtdIns metabolism, and membrane trafficking. In addition, PITPNB transfers sphingomyelin in vitro, with a low affinity. PITPNA is found chiefly in the nucleus and cy
Probab=21.16 E-value=1.2e+02 Score=25.36 Aligned_cols=33 Identities=18% Similarity=0.165 Sum_probs=25.8
Q ss_pred hhhhhc--CCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 028961 107 GLRYMF--GGGTGTMTLDELLVLEKHLELWIYNIR 139 (201)
Q Consensus 107 ~~r~~~--Ge~L~~Ls~~EL~~LE~~Le~~l~~IR 139 (201)
.+|+++ =+.--+||++|+..+|......|.++|
T Consensus 223 ~HRq~fcW~DeW~gltmedIR~~E~~t~~~l~~~~ 257 (258)
T cd08888 223 FHRQVFCWLDKWHGLTMDDIRRMEDETKKELDEMR 257 (258)
T ss_pred HHHHHhhhHHHHcCCCHHHHHHHHHHHHHHHHHhh
Confidence 345443 344678999999999999999998887
No 215
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=21.05 E-value=5.7e+02 Score=22.44 Aligned_cols=53 Identities=17% Similarity=0.186 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 028961 121 LDELLVLEKHLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKMEEN 174 (201)
Q Consensus 121 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~~ 174 (201)
.++|+---++|-+.|..+|. ----+..+++.|..=.+.+.|||..|.-++.+.
T Consensus 101 ~~qL~~qnqkL~nqL~~~~~-vf~k~k~~~q~LE~li~~~~EEn~~lqlqL~~l 153 (401)
T PF06785_consen 101 SEQLQSQNQKLKNQLFHVRE-VFMKTKGDIQHLEGLIRHLREENQCLQLQLDAL 153 (401)
T ss_pred HHHHHHhHHHHHHHHHHHHH-HHHHhcchHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 44555555566666666654 111122356666666778889999998887753
No 216
>COG3411 Ferredoxin [Energy production and conversion]
Probab=21.01 E-value=80 Score=20.57 Aligned_cols=29 Identities=14% Similarity=0.230 Sum_probs=23.1
Q ss_pred EEEEeecCCcccccccccchHHHHHHHHh
Q 028961 44 GVFIFSNHGKLYELATNGTMQGLIEKYLK 72 (201)
Q Consensus 44 alivfs~~gk~~~~~s~~~~~~VleRY~~ 72 (201)
.++++.|.|-.|..-+++.++.|++....
T Consensus 18 Pvl~vYpegvWY~~V~p~~a~rIv~~hl~ 46 (64)
T COG3411 18 PVLVVYPEGVWYTRVDPEDARRIVQSHLL 46 (64)
T ss_pred CEEEEecCCeeEeccCHHHHHHHHHHHHh
Confidence 46788889988887767789999887754
No 217
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=20.96 E-value=2.3e+02 Score=23.46 Aligned_cols=28 Identities=21% Similarity=0.228 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHh
Q 028961 146 MFQEINLLRNKE---GILTAANKYLQDKMEE 173 (201)
Q Consensus 146 l~~~i~~l~~k~---~~l~eeN~~L~~~~~~ 173 (201)
+.+++..|+.+. ..+.+||..|++.+.-
T Consensus 81 L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~ 111 (276)
T PRK13922 81 LKKELLELESRLQELEQLEAENARLRELLNL 111 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 334444444333 4778999999987663
No 218
>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=20.92 E-value=36 Score=27.43 Aligned_cols=15 Identities=40% Similarity=0.541 Sum_probs=12.0
Q ss_pred EEEEeecCCcccc--cc
Q 028961 44 GVFIFSNHGKLYE--LA 58 (201)
Q Consensus 44 alivfs~~gk~~~--~~ 58 (201)
.+-+|||+|++|+ |+
T Consensus 4 ~~t~fsp~Grl~QveyA 20 (227)
T cd03750 4 SLTTFSPSGKLVQIEYA 20 (227)
T ss_pred CCceECCCCeEhHHHHH
Confidence 4568999999996 65
No 219
>PF06020 Roughex: Drosophila roughex protein; InterPro: IPR009259 This family consists of several roughex (RUX) proteins specific to Drosophila species. Roughex can influence the intracellular distribution of cyclin A and is therefore defined as a distinct and specialised cell cycle inhibitor for cyclin A-dependent kinase activity []. Rux is though to regulate the metaphase to anaphase transition during development [].
Probab=20.91 E-value=47 Score=28.25 Aligned_cols=16 Identities=0% Similarity=0.196 Sum_probs=13.3
Q ss_pred hhccCCceEEEEeecC
Q 028961 36 SILCDADVGVFIFSNH 51 (201)
Q Consensus 36 svLCda~valivfs~~ 51 (201)
.-+||+||||+||--.
T Consensus 183 ~~~~~~EICLavYek~ 198 (334)
T PF06020_consen 183 GQVSGFEICLAVYEKG 198 (334)
T ss_pred CccccceEEeeehhhh
Confidence 4579999999999753
No 220
>PRK02201 putative inner membrane protein translocase component YidC; Provisional
Probab=20.84 E-value=52 Score=28.90 Aligned_cols=24 Identities=8% Similarity=-0.054 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 136 YNIRSTKMDIMFQEINLLRNKEGI 159 (201)
Q Consensus 136 ~~IR~RK~~ll~~~i~~l~~k~~~ 159 (201)
...-.+|.+.++-+++.+++|.+.
T Consensus 155 ~~~s~~km~~lqPel~~Iq~Kyk~ 178 (357)
T PRK02201 155 STFNQEKQEELQGKKAKIDAKYKD 178 (357)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHhc
Confidence 344567888888899999887653
No 221
>PRK14857 tatA twin arginine translocase protein A; Provisional
Probab=20.76 E-value=14 Score=25.80 Aligned_cols=30 Identities=13% Similarity=0.448 Sum_probs=20.8
Q ss_pred eEEEEeecCCcccccccccchHHHHHHHHhhcc
Q 028961 43 VGVFIFSNHGKLYELATNGTMQGLIEKYLKSTQ 75 (201)
Q Consensus 43 valivfs~~gk~~~~~s~~~~~~VleRY~~~~~ 75 (201)
|+||||+|. |+++.+ .++...+..|++...
T Consensus 17 VaLlvfGP~-KLP~la--r~lGk~i~~fkk~~~ 46 (90)
T PRK14857 17 IALLVFGPK-KLPEIG--RSLGKTLKGFQEASK 46 (90)
T ss_pred HHHHHcCch-HHHHHH--HHHHHHHHHHHHHHH
Confidence 578999984 777776 456777777765433
No 222
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=20.71 E-value=6.7e+02 Score=23.11 Aligned_cols=52 Identities=17% Similarity=0.278 Sum_probs=29.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 028961 115 GTGTMTLDELLVLEKHLELWIYNIR---STKMDIMFQEINLLRNKEGILTAANKYLQDKMEE 173 (201)
Q Consensus 115 ~L~~Ls~~EL~~LE~~Le~~l~~IR---~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~~ 173 (201)
+|+.||.+||+ ++++.++..+- .-|.+|+ ++|+-+...|+.=-+.|+....+
T Consensus 198 ~i~~lsteelr---~qVD~A~~q~VnP~k~KeQLV----~QLkTQItDLErFInFlQ~e~~e 252 (621)
T KOG3759|consen 198 DIDKLSTEELR---RQVDDALKQLVNPFKEKEQLV----DQLKTQITDLERFINFLQDEVGE 252 (621)
T ss_pred CcccccHHHHH---HHHHHHHHHHhChHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhc
Confidence 47788887765 67777777663 3466665 33444444444444444444444
No 223
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=20.69 E-value=1.2e+02 Score=27.48 Aligned_cols=28 Identities=18% Similarity=0.190 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 028961 150 INLLRNKEGILTAANKYLQDKMEENNGI 177 (201)
Q Consensus 150 i~~l~~k~~~l~eeN~~L~~~~~~~~~~ 177 (201)
-+.|++|+..|..+|..|..++...++.
T Consensus 288 NqeL~kkV~~Le~~N~sLl~qL~klQt~ 315 (472)
T KOG0709|consen 288 NQELQKKVEELELSNRSLLAQLKKLQTL 315 (472)
T ss_pred cHHHHHHHHHHhhccHHHHHHHHHHHHH
Confidence 3457777777777777777777766654
No 224
>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=20.49 E-value=1.3e+02 Score=15.45 Aligned_cols=15 Identities=33% Similarity=0.530 Sum_probs=8.7
Q ss_pred HHHHhHHHHHHHHhh
Q 028961 93 EINMLKQEIEILQKG 107 (201)
Q Consensus 93 e~~kL~~ei~~l~~~ 107 (201)
|+..++..|..|+..
T Consensus 2 E~~rlr~rI~dLer~ 16 (23)
T PF04508_consen 2 EMNRLRNRISDLERQ 16 (23)
T ss_pred hHHHHHHHHHHHHHH
Confidence 455566666666554
No 225
>KOG0837 consensus Transcriptional activator of the JUN family [Transcription]
Probab=20.44 E-value=5.1e+02 Score=21.85 Aligned_cols=52 Identities=23% Similarity=0.226 Sum_probs=28.4
Q ss_pred CCHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 028961 119 MTLDELLVLEK-HLELWIYNIRSTKMDIMFQEINLLRNKEGILTAANKYLQDKME 172 (201)
Q Consensus 119 Ls~~EL~~LE~-~Le~~l~~IR~RK~~ll~~~i~~l~~k~~~l~eeN~~L~~~~~ 172 (201)
+-..|+..+|+ .+-+....-+.|| ...++|..|+.++..+.-+|..|..-+.
T Consensus 199 ~e~qe~~kleRkrlrnreaa~Kcr~--rkLdrisrLEdkv~~lk~~n~~L~~~l~ 251 (279)
T KOG0837|consen 199 MEDQEKIKLERKRLRNREAASKCRK--RKLDRISRLEDKVKTLKIYNRDLASELS 251 (279)
T ss_pred chhHHHHHHHHHHhhhHHHHHHHHH--HHHHHHHHHHhhhhhhhhhhhhHHHHHH
Confidence 33445555554 2332222222222 3457888888888877777766554433
No 226
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=20.31 E-value=1.1e+02 Score=23.97 Aligned_cols=17 Identities=41% Similarity=0.444 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 028961 123 ELLVLEKHLELWIYNIR 139 (201)
Q Consensus 123 EL~~LE~~Le~~l~~IR 139 (201)
||++||.+|+..+..|+
T Consensus 160 ElqELE~QL~DRl~~l~ 176 (179)
T PF14723_consen 160 ELQELEFQLEDRLLQLR 176 (179)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34555666655555544
No 227
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=20.11 E-value=3e+02 Score=24.87 Aligned_cols=63 Identities=11% Similarity=0.140 Sum_probs=35.0
Q ss_pred HHHHHHhhccCCCCCCcccCCchhHHHHHHHhHHHHHHHHhhhhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH
Q 028961 66 LIEKYLKSTQGAQAEPVMQTQPLDAKDEINMLKQEIEILQKGLRYMFGGGTGTMTLDELLVLEKHLELWIYNIR 139 (201)
Q Consensus 66 VleRY~~~~~~~~~~~~~~~~~~~l~~e~~kL~~ei~~l~~~~r~~~Ge~L~~Ls~~EL~~LE~~Le~~l~~IR 139 (201)
.|.+|+-+..... .........+..|..+|+.|+..-. -.+ -++ -+|+..|+..++.....|.
T Consensus 60 ~~~~~~~~~~~~~------~~~l~fe~pi~ele~ki~el~~~~~-~~~---~~~-~~ei~~l~~~~~~~~~~i~ 122 (431)
T PLN03230 60 ILNRFKPLKNKPK------PVTLPFEKPIVDLENRIDEVRELAN-KTG---VDF-SAQIAELEERYDQVRRELY 122 (431)
T ss_pred HHHhcCCCCCCCC------CCccchhhHHHHHHHHHHHHHhhhh-ccc---ccH-HHHHHHHHHHHHHHHHHHH
Confidence 6666654443322 1233455567788888888775421 112 122 2667778777776655554
No 228
>PF05781 MRVI1: MRVI1 protein; InterPro: IPR008677 This family consists of mammalian MRVI1 proteins which are related to the lymphoid-restricted membrane protein (JAW1) and the IP3 receptor associated cGMP kinase substrates A and B (IRAGA and IRAGB). The function of MRVI1 is unknown although mutations in the Mrvi1 gene induces myeloid leukaemia by altering the expression of a gene important for myeloid cell growth and/or differentiation so it has been speculated that Mrvi1 is a tumour suppressor gene []. IRAG is very similar in sequence to MRVI1 and is an essential NO/cGKI-dependent regulator of IP3-induced calcium release. Activation of cGKI decreases IP3-stimulated elevations in intracellular calcium, induces smooth muscle relaxation and contributes to the antiproliferative and pro-apoptotic effects of NO/cGMP []. Jaw1 is a member of a class of proteins with COOH-terminal hydrophobic membrane anchors and is structurally similar to proteins involved in vesicle targeting and fusion. This suggests that the function and/or the structure of the ER in lymphocytes may be modified by lymphoid-restricted resident ER proteins [].
Probab=20.08 E-value=7.2e+02 Score=23.21 Aligned_cols=80 Identities=21% Similarity=0.165 Sum_probs=48.6
Q ss_pred HhHHHHHHHHhhhhhhcCCCCC-CCCHHHHHHHHHHHHH---HHHHHH---------------HHHHHHHHHHHHHHHHH
Q 028961 96 MLKQEIEILQKGLRYMFGGGTG-TMTLDELLVLEKHLEL---WIYNIR---------------STKMDIMFQEINLLRNK 156 (201)
Q Consensus 96 kL~~ei~~l~~~~r~~~Ge~L~-~Ls~~EL~~LE~~Le~---~l~~IR---------------~RK~~ll~~~i~~l~~k 156 (201)
.|++++......+..+..-+.+ .=+.+-++.|...|+. ...+|- +|=.++|.++++.|++.
T Consensus 228 Nl~kEi~~~~~~l~~l~~lc~~d~e~~e~~~kl~~~l~~l~~~~~rvss~AE~lGAv~QE~R~SkAvevM~qhvenLkr~ 307 (538)
T PF05781_consen 228 NLKKEIENCLKLLESLAPLCWEDNESREIIQKLQKSLDVLHQCATRVSSRAEMLGAVHQESRVSKAVEVMIQHVENLKRM 307 (538)
T ss_pred HHHHHHHHHHHHHHHhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555555555554443332222 2233345666666653 222222 23468899999999998
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 028961 157 EGILTAANKYLQDKMEENN 175 (201)
Q Consensus 157 ~~~l~eeN~~L~~~~~~~~ 175 (201)
....+.|-..+++-+.++.
T Consensus 308 ~~kehaeL~E~k~~l~qn~ 326 (538)
T PF05781_consen 308 YEKEHAELEELKKLLLQNS 326 (538)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 8888888888888777666
Done!