Query 027470
Match_columns 223
No_of_seqs 248 out of 1705
Neff 7.6
Searched_HMMs 46136
Date Fri Mar 29 10:23:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027470.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027470hhsearch_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 5.6E-39 1.2E-43 264.0 4.8 154 1-154 1-184 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 3.5E-35 7.5E-40 207.2 4.5 77 2-80 1-77 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 1.6E-31 3.4E-36 191.2 5.9 74 2-76 1-74 (83)
4 smart00432 MADS MADS domain. 100.0 2.7E-31 5.8E-36 177.2 4.8 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 2.3E-30 5.1E-35 172.8 4.0 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 2.6E-28 5.7E-33 157.8 1.7 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.9 8.1E-21 1.8E-25 140.6 11.5 99 71-169 1-99 (100)
8 KOG0015 Regulator of arginine 99.8 3.3E-20 7.1E-25 157.3 2.4 75 2-76 63-144 (338)
9 COG5068 ARG80 Regulator of arg 99.5 1.1E-14 2.3E-19 129.0 3.4 61 1-61 81-141 (412)
10 PF06005 DUF904: Protein of un 92.8 1.5 3.2E-05 30.3 8.3 48 116-168 1-48 (72)
11 PRK04098 sec-independent trans 89.5 0.36 7.8E-06 38.4 3.0 78 42-130 14-95 (158)
12 KOG4797 Transcriptional regula 88.5 2.3 4.9E-05 31.6 6.3 43 126-168 48-90 (123)
13 PRK15422 septal ring assembly 84.8 7.1 0.00015 27.4 6.9 43 116-163 1-43 (79)
14 smart00787 Spc7 Spc7 kinetocho 84.3 19 0.00041 31.9 11.3 74 96-169 179-256 (312)
15 PRK10884 SH3 domain-containing 84.3 21 0.00045 29.7 10.9 77 87-168 91-169 (206)
16 PF01166 TSC22: TSC-22/dip/bun 84.0 2.9 6.2E-05 27.6 4.4 28 141-168 17-44 (59)
17 COG3074 Uncharacterized protei 83.6 11 0.00024 25.8 7.3 48 116-168 1-48 (79)
18 PF05812 Herpes_BLRF2: Herpesv 83.5 9.5 0.00021 28.9 7.7 58 83-140 4-65 (118)
19 PF10584 Proteasome_A_N: Prote 82.7 0.26 5.6E-06 26.4 -0.7 14 43-56 3-16 (23)
20 PHA03155 hypothetical protein; 82.0 14 0.00029 27.8 7.9 58 82-139 8-65 (115)
21 PHA03162 hypothetical protein; 82.0 13 0.00029 28.6 8.0 59 82-140 13-75 (135)
22 PF08317 Spc7: Spc7 kinetochor 81.7 28 0.00062 30.8 11.5 59 111-169 201-261 (325)
23 COG2433 Uncharacterized conser 81.6 25 0.00053 34.0 11.3 73 87-168 427-504 (652)
24 cd07429 Cby_like Chibby, a nuc 80.9 2.8 6.1E-05 31.3 4.0 22 148-169 75-96 (108)
25 KOG1962 B-cell receptor-associ 80.5 21 0.00045 30.0 9.4 56 115-170 154-211 (216)
26 PF06698 DUF1192: Protein of u 80.4 2.9 6.3E-05 27.7 3.5 31 107-137 12-42 (59)
27 PRK01371 sec-independent trans 75.7 1.9 4.2E-05 33.5 1.9 59 34-121 8-66 (137)
28 PHA02592 52 DNA topisomerase I 74.2 60 0.0013 30.2 11.5 42 26-74 285-326 (439)
29 PF10504 DUF2452: Protein of u 73.8 21 0.00046 28.5 7.3 48 113-160 23-74 (159)
30 PRK13169 DNA replication intia 73.3 29 0.00063 26.0 7.6 48 118-170 7-54 (110)
31 PF07106 TBPIP: Tat binding pr 71.2 25 0.00055 27.9 7.5 56 84-143 81-136 (169)
32 PF06156 DUF972: Protein of un 70.4 37 0.00079 25.2 7.6 47 119-170 8-54 (107)
33 PF04849 HAP1_N: HAP1 N-termin 67.1 59 0.0013 28.8 9.4 88 82-169 160-265 (306)
34 PF10186 Atg14: UV radiation r 66.8 80 0.0017 26.8 10.5 11 52-62 8-18 (302)
35 PF07926 TPR_MLP1_2: TPR/MLP1/ 66.3 56 0.0012 24.9 10.3 28 142-169 102-129 (132)
36 cd00187 TOP4c DNA Topoisomeras 65.2 77 0.0017 29.6 10.3 60 7-74 257-327 (445)
37 PRK11637 AmiB activator; Provi 65.1 1E+02 0.0022 28.3 11.1 76 84-168 49-126 (428)
38 PRK01919 tatB sec-independent 64.8 6.3 0.00014 31.7 2.6 63 43-139 15-77 (169)
39 PF14662 CCDC155: Coiled-coil 64.3 50 0.0011 27.2 7.8 17 150-166 100-116 (193)
40 PF08700 Vps51: Vps51/Vps67; 63.6 43 0.00093 23.1 6.6 65 57-128 1-67 (87)
41 KOG4797 Transcriptional regula 63.5 15 0.00032 27.4 4.1 29 140-168 69-97 (123)
42 PRK10884 SH3 domain-containing 63.4 49 0.0011 27.5 7.9 7 97-103 94-100 (206)
43 PF00170 bZIP_1: bZIP transcri 62.7 39 0.00084 22.2 5.9 35 131-169 16-50 (64)
44 smart00338 BRLZ basic region l 62.4 36 0.00079 22.4 5.8 35 131-169 16-50 (65)
45 PF09278 MerR-DNA-bind: MerR, 61.8 41 0.00089 21.8 6.1 49 115-164 14-62 (65)
46 KOG3759 Uncharacterized RUN do 61.5 1.4E+02 0.003 28.1 10.9 55 110-171 196-253 (621)
47 TIGR02231 conserved hypothetic 60.3 1.1E+02 0.0023 29.0 10.5 51 114-165 122-172 (525)
48 KOG4643 Uncharacterized coiled 59.9 85 0.0018 32.3 9.9 26 34-61 140-165 (1195)
49 PLN03230 acetyl-coenzyme A car 56.9 43 0.00093 31.0 6.9 77 52-135 37-121 (431)
50 PF07716 bZIP_2: Basic region 56.6 49 0.0011 21.0 5.9 35 131-169 15-49 (54)
51 PF06156 DUF972: Protein of un 56.2 81 0.0018 23.4 7.3 29 141-169 18-46 (107)
52 PF15372 DUF4600: Domain of un 56.2 54 0.0012 25.2 6.3 52 79-130 5-65 (129)
53 COG1382 GimC Prefoldin, chaper 55.7 89 0.0019 23.7 7.8 38 131-169 71-108 (119)
54 TIGR02449 conserved hypothetic 55.3 63 0.0014 21.8 7.5 44 120-168 1-44 (65)
55 cd01109 HTH_YyaN Helix-Turn-He 53.5 78 0.0017 23.2 6.9 53 115-168 57-109 (113)
56 TIGR02894 DNA_bind_RsfA transc 53.4 1.2E+02 0.0025 24.4 10.6 58 113-170 77-136 (161)
57 PF06785 UPF0242: Uncharacteri 53.3 1.5E+02 0.0032 26.8 9.3 43 126-169 130-172 (401)
58 PF01166 TSC22: TSC-22/dip/bun 53.2 17 0.00037 24.0 2.7 27 143-169 12-38 (59)
59 PF07106 TBPIP: Tat binding pr 53.1 1.1E+02 0.0024 24.1 9.3 55 85-140 112-166 (169)
60 PRK13729 conjugal transfer pil 52.6 1.3E+02 0.0028 28.4 9.3 30 141-170 93-122 (475)
61 TIGR00606 rad50 rad50. This fa 52.0 2.1E+02 0.0046 30.4 12.0 27 43-70 150-177 (1311)
62 PRK00182 tatB sec-independent 51.6 5.5 0.00012 31.8 0.3 36 34-75 9-44 (160)
63 PF10211 Ax_dynein_light: Axon 51.3 1.3E+02 0.0029 24.5 9.8 23 50-74 81-103 (189)
64 PF14009 DUF4228: Domain of un 50.8 13 0.00029 29.1 2.4 33 40-74 14-46 (181)
65 PF07888 CALCOCO1: Calcium bin 49.9 2E+02 0.0043 27.7 10.3 25 144-168 212-236 (546)
66 PF14645 Chibby: Chibby family 49.5 29 0.00062 26.2 3.9 23 147-169 73-95 (116)
67 TIGR03752 conj_TIGR03752 integ 48.8 2.4E+02 0.0051 26.6 11.8 71 85-168 69-139 (472)
68 PF13870 DUF4201: Domain of un 47.1 1.4E+02 0.0031 23.7 11.8 80 87-169 11-101 (177)
69 PF04849 HAP1_N: HAP1 N-termin 46.6 25 0.00054 31.1 3.6 52 118-169 96-184 (306)
70 PF11365 DUF3166: Protein of u 46.4 70 0.0015 23.3 5.3 33 138-170 8-40 (96)
71 KOG0930 Guanine nucleotide exc 46.3 70 0.0015 28.2 6.2 44 112-164 7-50 (395)
72 PF07888 CALCOCO1: Calcium bin 45.9 2.8E+02 0.0061 26.7 10.7 30 31-61 78-114 (546)
73 cd04769 HTH_MerR2 Helix-Turn-H 45.6 81 0.0017 23.3 5.9 55 114-168 55-109 (116)
74 PF10226 DUF2216: Uncharacteri 45.5 1.7E+02 0.0037 24.1 9.0 42 65-106 19-72 (195)
75 PF10498 IFT57: Intra-flagella 45.3 2.4E+02 0.0051 25.6 9.9 46 119-165 241-286 (359)
76 PF06005 DUF904: Protein of un 45.1 81 0.0018 21.6 5.3 31 138-168 11-41 (72)
77 PF05700 BCAS2: Breast carcino 45.0 92 0.002 26.0 6.7 15 20-34 56-70 (221)
78 TIGR02168 SMC_prok_B chromosom 44.7 3.6E+02 0.0078 27.5 13.2 47 46-94 138-184 (1179)
79 KOG4637 Adaptor for phosphoino 44.5 14 0.0003 33.5 1.7 43 33-75 367-412 (464)
80 PRK00888 ftsB cell division pr 44.4 69 0.0015 23.6 5.2 27 143-169 32-58 (105)
81 PRK13169 DNA replication intia 43.7 69 0.0015 23.9 5.1 29 141-169 18-46 (110)
82 KOG4360 Uncharacterized coiled 42.5 1.2E+02 0.0026 28.8 7.5 86 83-168 160-263 (596)
83 COG4917 EutP Ethanolamine util 42.4 20 0.00043 27.9 2.0 25 35-59 59-83 (148)
84 PF03980 Nnf1: Nnf1 ; InterPr 42.3 1.1E+02 0.0025 22.2 6.2 46 112-170 60-105 (109)
85 PRK03918 chromosome segregatio 42.2 3.7E+02 0.008 26.9 12.0 35 38-72 120-155 (880)
86 PLN03128 DNA topoisomerase 2; 41.0 26 0.00057 36.5 3.3 40 89-128 1095-1134(1135)
87 PRK09822 lipopolysaccharide co 40.5 18 0.0004 30.8 1.7 40 19-59 118-160 (269)
88 PF02416 MttA_Hcf106: mttA/Hcf 40.1 3.5 7.6E-05 26.6 -2.0 29 43-75 12-40 (53)
89 PF13758 Prefoldin_3: Prefoldi 40.1 50 0.0011 24.3 3.8 17 78-94 8-24 (99)
90 KOG0971 Microtubule-associated 39.7 4.5E+02 0.0097 27.2 11.7 53 84-136 327-388 (1243)
91 PF12925 APP_E2: E2 domain of 39.4 2.2E+02 0.0047 23.5 9.9 90 64-169 8-98 (193)
92 KOG3612 PHD Zn-finger protein 39.2 2.7E+02 0.0057 26.8 9.2 72 35-106 404-477 (588)
93 cd02973 TRX_GRX_like Thioredox 38.6 33 0.00071 22.1 2.5 27 43-74 1-27 (67)
94 PRK03100 sec-independent trans 38.2 13 0.00027 29.0 0.4 34 34-73 9-42 (136)
95 PF04880 NUDE_C: NUDE protein, 38.1 66 0.0014 25.9 4.5 14 121-134 2-15 (166)
96 PF04645 DUF603: Protein of un 38.0 2.2E+02 0.0047 23.1 9.1 28 120-147 139-166 (181)
97 PRK01770 sec-independent trans 38.0 26 0.00056 28.3 2.2 35 34-74 8-42 (171)
98 TIGR01950 SoxR redox-sensitive 37.8 1E+02 0.0023 23.8 5.6 55 115-169 57-111 (142)
99 KOG1029 Endocytic adaptor prot 37.7 4.5E+02 0.0099 26.7 10.7 29 17-45 438-467 (1118)
100 PF05529 Bap31: B-cell recepto 37.7 2.1E+02 0.0045 23.0 7.6 29 141-169 157-185 (192)
101 PF04977 DivIC: Septum formati 37.6 84 0.0018 21.0 4.6 29 142-170 21-49 (80)
102 cd01107 HTH_BmrR Helix-Turn-He 36.4 1.7E+02 0.0036 21.3 6.4 49 114-168 57-105 (108)
103 TIGR02338 gimC_beta prefoldin, 36.0 1.7E+02 0.0038 21.4 11.0 44 125-169 62-105 (110)
104 cd04787 HTH_HMRTR_unk Helix-Tu 35.8 1.8E+02 0.0038 22.0 6.5 54 115-169 57-110 (133)
105 PF14257 DUF4349: Domain of un 35.7 2.2E+02 0.0047 24.1 7.8 14 117-130 160-173 (262)
106 TIGR01069 mutS2 MutS2 family p 35.6 4.7E+02 0.01 26.2 11.8 24 120-143 540-563 (771)
107 KOG0804 Cytoplasmic Zn-finger 35.6 3.5E+02 0.0076 25.4 9.2 33 134-166 378-410 (493)
108 PRK00708 sec-independent trans 35.5 34 0.00073 28.6 2.6 35 34-74 8-42 (209)
109 PF09726 Macoilin: Transmembra 35.2 1.6E+02 0.0035 29.2 7.5 82 87-168 458-561 (697)
110 PLN03229 acetyl-coenzyme A car 35.1 1.8E+02 0.004 29.0 7.8 87 42-135 49-142 (762)
111 COG0419 SbcC ATPase involved i 35.1 3.5E+02 0.0076 27.5 10.2 126 33-166 121-253 (908)
112 PF09941 DUF2173: Uncharacteri 35.0 29 0.00062 25.9 1.9 27 32-59 3-29 (108)
113 KOG4302 Microtubule-associated 34.5 4.4E+02 0.0096 26.0 10.2 32 112-143 153-184 (660)
114 cd01282 HTH_MerR-like_sg3 Heli 34.2 1.8E+02 0.0039 21.3 6.2 51 115-166 56-109 (112)
115 PF04977 DivIC: Septum formati 33.9 56 0.0012 21.9 3.2 27 82-108 24-50 (80)
116 PF15254 CCDC14: Coiled-coil d 33.5 4.6E+02 0.01 26.4 10.1 52 116-168 427-478 (861)
117 PRK11637 AmiB activator; Provi 33.3 3.8E+02 0.0082 24.5 11.3 26 143-168 108-133 (428)
118 cd01108 HTH_CueR Helix-Turn-He 33.3 2E+02 0.0044 21.5 6.5 54 114-168 56-109 (127)
119 COG4467 Regulator of replicati 33.2 2.1E+02 0.0045 21.4 7.0 24 118-141 7-30 (114)
120 PRK10265 chaperone-modulator p 33.2 1.5E+02 0.0033 21.5 5.5 75 32-108 10-97 (101)
121 COG0139 HisI Phosphoribosyl-AM 33.2 5.9 0.00013 29.6 -2.0 37 17-53 50-95 (111)
122 KOG4603 TBP-1 interacting prot 33.2 2.7E+02 0.0058 22.7 8.5 21 36-56 45-65 (201)
123 cd04770 HTH_HMRTR Helix-Turn-H 33.1 2E+02 0.0043 21.2 6.4 53 115-168 57-109 (123)
124 smart00338 BRLZ basic region l 32.8 1.4E+02 0.0031 19.4 5.2 28 141-168 36-63 (65)
125 TIGR01478 STEVOR variant surfa 32.5 84 0.0018 27.6 4.5 45 7-73 25-69 (295)
126 PRK15002 redox-sensitivie tran 32.2 1.6E+02 0.0035 23.2 5.9 54 115-168 67-120 (154)
127 PTZ00108 DNA topoisomerase 2-l 32.2 6.6E+02 0.014 27.2 11.7 119 45-167 963-1154(1388)
128 PRK10227 DNA-binding transcrip 32.1 2E+02 0.0043 22.0 6.3 53 115-168 57-109 (135)
129 cd04776 HTH_GnyR Helix-Turn-He 32.0 2.1E+02 0.0046 21.2 7.1 54 115-168 55-110 (118)
130 PF08432 Vfa1: AAA-ATPase Vps4 32.0 70 0.0015 25.9 3.9 13 39-51 11-23 (182)
131 PF03428 RP-C: Replication pro 31.9 1.1E+02 0.0023 24.9 4.9 65 41-108 96-170 (177)
132 PF14775 NYD-SP28_assoc: Sperm 31.9 1.4E+02 0.0031 19.6 4.7 39 64-108 21-59 (60)
133 PF09755 DUF2046: Uncharacteri 31.8 3.7E+02 0.008 23.9 10.0 39 123-161 106-151 (310)
134 smart00340 HALZ homeobox assoc 31.0 1.1E+02 0.0024 18.9 3.6 23 148-170 8-30 (44)
135 smart00415 HSF heat shock fact 30.9 41 0.00088 24.6 2.1 39 37-75 12-51 (105)
136 PRK14860 tatA twin arginine tr 30.8 9.3 0.0002 25.8 -1.2 37 34-76 8-44 (64)
137 PF10623 PilI: Plasmid conjuga 30.5 54 0.0012 23.0 2.5 33 42-75 8-42 (83)
138 PRK00404 tatB sec-independent 30.1 43 0.00094 26.2 2.2 27 42-72 14-40 (141)
139 PF07083 DUF1351: Protein of u 30.0 3.1E+02 0.0066 22.8 7.5 53 63-115 23-75 (215)
140 TIGR02047 CadR-PbrR Cd(II)/Pb( 29.9 2.4E+02 0.0052 21.1 6.5 54 114-168 56-109 (127)
141 TIGR01411 tatAE twin arginine- 29.8 8.7 0.00019 24.2 -1.4 36 34-75 6-41 (47)
142 PF15066 CAGE1: Cancer-associa 29.7 3.8E+02 0.0081 25.4 8.4 25 86-110 314-338 (527)
143 PRK01470 tatA twin arginine tr 29.5 9.6 0.00021 24.5 -1.2 29 43-75 14-42 (51)
144 cd01106 HTH_TipAL-Mta Helix-Tu 29.5 2.1E+02 0.0046 20.4 5.9 15 115-129 57-71 (103)
145 PF09151 DUF1936: Domain of un 29.4 41 0.00088 19.3 1.4 26 35-60 3-30 (36)
146 PRK09343 prefoldin subunit bet 29.2 2.5E+02 0.0054 21.1 9.8 42 127-169 68-109 (121)
147 TIGR01410 tatB twin arginine-t 29.1 30 0.00065 24.3 1.1 29 43-75 14-42 (80)
148 PF06785 UPF0242: Uncharacteri 29.1 3.6E+02 0.0077 24.4 7.9 50 118-168 101-150 (401)
149 cd02980 TRX_Fd_family Thioredo 29.0 44 0.00095 22.3 1.9 30 39-70 47-76 (77)
150 PF09744 Jnk-SapK_ap_N: JNK_SA 28.8 3E+02 0.0065 21.9 10.0 25 144-168 88-112 (158)
151 TIGR02209 ftsL_broad cell divi 28.7 1.7E+02 0.0038 19.9 5.0 29 142-170 28-56 (85)
152 PHA02414 hypothetical protein 28.6 2E+02 0.0044 21.1 5.3 45 117-162 37-81 (111)
153 PRK09514 zntR zinc-responsive 28.5 2.3E+02 0.0049 21.7 6.1 54 115-168 58-111 (140)
154 PF04859 DUF641: Plant protein 28.4 2.8E+02 0.006 21.4 6.7 50 117-167 81-130 (131)
155 cd04785 HTH_CadR-PbrR-like Hel 28.3 2.6E+02 0.0055 20.9 6.3 54 115-169 57-110 (126)
156 KOG2702 Predicted panthothenat 28.2 1.5E+02 0.0032 25.7 5.2 55 41-96 23-81 (323)
157 PF10491 Nrf1_DNA-bind: NLS-bi 28.1 97 0.0021 25.9 4.0 47 26-74 35-88 (214)
158 TIGR00606 rad50 rad50. This fa 28.1 7.2E+02 0.016 26.6 11.4 53 115-167 821-879 (1311)
159 cd01110 HTH_SoxR Helix-Turn-He 28.0 2.3E+02 0.005 21.7 6.0 55 114-169 56-111 (139)
160 PF13815 Dzip-like_N: Iguana/D 27.9 2.5E+02 0.0055 20.8 7.0 51 116-167 66-116 (118)
161 cd04779 HTH_MerR-like_sg4 Heli 27.8 2.8E+02 0.0061 21.2 7.5 51 115-166 56-109 (134)
162 KOG0995 Centromere-associated 27.7 2.3E+02 0.0051 27.3 6.9 100 64-164 282-390 (581)
163 KOG0977 Nuclear envelope prote 27.4 5.7E+02 0.012 24.7 9.6 21 84-104 108-128 (546)
164 KOG4311 Histidinol dehydrogena 27.4 1.5E+02 0.0033 25.9 5.2 39 15-53 180-227 (359)
165 PRK13824 replication initiatio 27.4 3.1E+02 0.0068 25.2 7.7 99 33-138 102-212 (404)
166 PRK14858 tatA twin arginine tr 27.3 17 0.00038 27.1 -0.4 29 43-75 15-43 (108)
167 PRK04863 mukB cell division pr 27.0 7.7E+02 0.017 27.0 11.3 52 112-164 431-482 (1486)
168 PF10226 DUF2216: Uncharacteri 26.9 2.4E+02 0.0052 23.2 6.0 30 138-167 48-77 (195)
169 PF04201 TPD52: Tumour protein 26.9 1.7E+02 0.0038 23.4 5.2 59 79-137 26-87 (162)
170 PF04697 Pinin_SDK_N: pinin/SD 26.7 96 0.0021 23.9 3.5 36 85-120 6-41 (134)
171 KOG0709 CREB/ATF family transc 26.6 78 0.0017 29.6 3.6 25 145-169 286-310 (472)
172 PF09755 DUF2046: Uncharacteri 26.5 4.6E+02 0.01 23.3 10.8 23 147-169 256-278 (310)
173 PF08614 ATG16: Autophagy prot 26.5 3.5E+02 0.0075 21.9 9.9 46 123-168 134-181 (194)
174 PF04873 EIN3: Ethylene insens 26.4 22 0.00047 32.1 0.0 38 25-62 53-91 (354)
175 COG4467 Regulator of replicati 26.2 1.4E+02 0.003 22.3 4.2 25 144-168 21-45 (114)
176 PHA01750 hypothetical protein 25.7 2.2E+02 0.0048 19.3 7.1 12 143-154 61-72 (75)
177 PF09432 THP2: Tho complex sub 25.7 66 0.0014 24.7 2.5 27 41-74 24-50 (132)
178 PF02183 HALZ: Homeobox associ 25.6 1.7E+02 0.0037 18.1 5.3 32 138-169 5-36 (45)
179 TIGR02043 ZntR Zn(II)-responsi 25.6 2.6E+02 0.0056 21.1 5.9 53 115-168 58-111 (131)
180 KOG0861 SNARE protein YKT6, sy 25.3 88 0.0019 25.5 3.2 7 65-71 95-101 (198)
181 COG5068 ARG80 Regulator of arg 25.2 41 0.00089 30.9 1.5 60 8-74 18-77 (412)
182 PLN03128 DNA topoisomerase 2; 25.2 8.1E+02 0.017 26.0 10.8 27 44-74 961-987 (1135)
183 COG1579 Zn-ribbon protein, pos 25.0 4.4E+02 0.0094 22.5 8.3 87 84-170 33-121 (239)
184 PLN02372 violaxanthin de-epoxi 25.0 5.7E+02 0.012 23.8 10.6 26 120-145 380-405 (455)
185 PF09798 LCD1: DNA damage chec 24.9 3.7E+02 0.0081 26.5 8.0 51 119-169 4-57 (654)
186 PF11460 DUF3007: Protein of u 24.8 72 0.0016 23.6 2.5 18 112-129 86-103 (104)
187 PF01502 PRA-CH: Phosphoribosy 24.8 8.7 0.00019 26.7 -2.2 37 17-53 18-63 (75)
188 TIGR03185 DNA_S_dndD DNA sulfu 24.8 6.5E+02 0.014 24.5 11.4 22 85-106 394-415 (650)
189 COG4831 Roadblock/LC7 domain [ 24.7 45 0.00097 24.4 1.3 30 31-61 4-33 (109)
190 PF01920 Prefoldin_2: Prefoldi 24.6 1.8E+02 0.0039 20.5 4.7 69 33-110 36-104 (106)
191 KOG3048 Molecular chaperone Pr 24.5 2.4E+02 0.0053 22.2 5.4 28 110-137 7-34 (153)
192 TIGR02044 CueR Cu(I)-responsiv 24.4 3E+02 0.0066 20.5 6.2 53 115-168 57-109 (127)
193 COG1322 Predicted nuclease of 24.3 6E+02 0.013 23.8 9.0 78 91-168 100-180 (448)
194 cd04790 HTH_Cfa-like_unk Helix 24.2 2.7E+02 0.0058 22.2 5.9 47 115-168 58-104 (172)
195 KOG1853 LIS1-interacting prote 24.1 4.8E+02 0.01 22.7 9.6 81 87-169 96-181 (333)
196 KOG4196 bZIP transcription fac 24.0 86 0.0019 24.2 2.8 19 87-105 86-104 (135)
197 cd02999 PDI_a_ERp44_like PDIa 23.9 1.2E+02 0.0025 21.6 3.5 41 28-73 5-45 (100)
198 KOG4252 GTP-binding protein [S 23.9 42 0.00092 27.7 1.2 16 38-53 90-105 (246)
199 PRK01156 chromosome segregatio 23.9 7.6E+02 0.016 24.9 11.7 27 45-72 131-159 (895)
200 cd03064 TRX_Fd_NuoE TRX-like [ 23.9 49 0.0011 22.5 1.4 30 38-71 51-80 (80)
201 PF09158 MotCF: Bacteriophage 23.7 17 0.00036 26.9 -1.0 53 5-74 19-72 (103)
202 KOG4557 Origin recognition com 23.7 2.2E+02 0.0048 24.1 5.4 71 111-186 160-231 (262)
203 cd02975 PfPDO_like_N Pyrococcu 23.5 88 0.0019 22.8 2.8 31 40-75 20-51 (113)
204 PRK00888 ftsB cell division pr 23.5 1.1E+02 0.0024 22.5 3.3 27 82-108 34-60 (105)
205 KOG3684 Ca2+-activated K+ chan 23.4 5.2E+02 0.011 24.4 8.2 46 116-162 420-465 (489)
206 cd04783 HTH_MerR1 Helix-Turn-H 22.8 3.2E+02 0.007 20.3 6.3 51 115-168 57-107 (126)
207 PF15397 DUF4618: Domain of un 22.6 5.1E+02 0.011 22.4 8.9 35 137-171 185-219 (258)
208 PF14263 DUF4354: Domain of un 22.4 12 0.00025 28.7 -2.1 42 11-57 41-82 (124)
209 KOG4603 TBP-1 interacting prot 22.4 2.4E+02 0.0052 23.0 5.2 57 86-142 83-142 (201)
210 PF10112 Halogen_Hydrol: 5-bro 22.4 27 0.00057 28.5 -0.2 54 21-76 92-150 (199)
211 PF01920 Prefoldin_2: Prefoldi 22.3 2.9E+02 0.0062 19.4 7.7 25 144-168 75-99 (106)
212 cd08888 SRPBCC_PITPNA-B_like L 22.3 1E+02 0.0022 26.7 3.2 26 111-136 232-257 (258)
213 cd03063 TRX_Fd_FDH_beta TRX-li 22.2 71 0.0015 23.0 2.0 37 38-75 44-81 (92)
214 PF09789 DUF2353: Uncharacteri 22.2 5.7E+02 0.012 22.8 9.3 123 20-170 34-158 (319)
215 COG0216 PrfA Protein chain rel 22.2 6E+02 0.013 23.1 8.4 25 141-165 79-103 (363)
216 TIGR03752 conj_TIGR03752 integ 22.0 1.6E+02 0.0034 27.8 4.7 8 145-152 87-94 (472)
217 PF08946 Osmo_CC: Osmosensory 21.5 2.2E+02 0.0048 17.8 4.1 21 142-162 23-43 (46)
218 PF08172 CASP_C: CASP C termin 21.5 5.2E+02 0.011 22.1 9.9 25 145-169 107-131 (248)
219 PF04999 FtsL: Cell division p 21.3 2.7E+02 0.0059 19.6 5.0 29 141-169 38-66 (97)
220 KOG1853 LIS1-interacting prote 21.1 5.5E+02 0.012 22.3 7.9 23 120-142 88-110 (333)
221 PRK04863 mukB cell division pr 20.9 1.1E+03 0.024 25.8 11.8 61 109-169 1046-1112(1486)
222 smart00502 BBC B-Box C-termina 20.9 3.2E+02 0.007 19.5 8.9 37 121-157 55-91 (127)
223 PF12537 DUF3735: Protein of u 20.8 1.7E+02 0.0038 19.8 3.7 25 118-142 47-71 (72)
224 PF10018 Med4: Vitamin-D-recep 20.8 4.5E+02 0.0098 21.1 7.9 48 118-167 4-51 (188)
225 PF07676 PD40: WD40-like Beta 20.7 75 0.0016 18.1 1.6 20 41-60 9-28 (39)
226 PF08702 Fib_alpha: Fibrinogen 20.7 4.1E+02 0.009 20.7 9.3 42 48-94 7-48 (146)
227 PRK13752 putative transcriptio 20.7 4E+02 0.0087 20.5 6.3 51 115-168 64-114 (144)
228 PRK10824 glutaredoxin-4; Provi 20.6 78 0.0017 23.7 2.0 31 42-72 14-44 (115)
229 PF06574 FAD_syn: FAD syntheta 20.5 1.9E+02 0.004 22.7 4.3 26 26-51 22-47 (157)
230 PF12252 SidE: Dot/Icm substra 20.4 7.6E+02 0.016 26.1 9.1 63 89-152 1131-1193(1439)
231 PF07407 Seadorna_VP6: Seadorn 20.2 2.4E+02 0.0052 25.4 5.2 27 85-111 35-61 (420)
232 KOG0183 20S proteasome, regula 20.1 56 0.0012 27.5 1.2 17 41-57 4-20 (249)
233 PRK00191 tatA twin arginine tr 20.1 15 0.00033 26.1 -1.8 36 34-75 7-42 (84)
234 PF07820 TraC: TraC-like prote 20.1 3.2E+02 0.0069 19.8 4.9 35 86-120 6-45 (92)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=5.6e-39 Score=264.03 Aligned_cols=154 Identities=39% Similarity=0.536 Sum_probs=122.2
Q ss_pred CCcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccc
Q 027470 1 MGRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLW 80 (223)
Q Consensus 1 MgR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~ 80 (223)
|||+||+|++|+|.++|||||+|||+||||||+||||||||+||||||||+|++|+||+|+.+|.+|++||...+.....
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 99999999999999999999999999999999999999999999999999999999999876799999999876542211
Q ss_pred c---chhhh----------------------hHHHHHHHHHHHHHHH---HHHHhhcCCCCCCCCH-HHHHHHHHHHHhh
Q 027470 81 S---THYAK----------------------MQESYRKLKEINNKLR---KDIRQRMGEDLDDLTF-EELRGLEQNMSSS 131 (223)
Q Consensus 81 ~---~~~e~----------------------lq~el~kLk~~~~~L~---~e~r~~~GedL~~Ls~-~EL~~LE~~Le~~ 131 (223)
. ..... .......++...+.+. ...++..|+++.+++. ++|..++.+++..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 0 00000 1112223333334443 2366788999999999 9999999999999
Q ss_pred HHHHHHHHHHHHHHhHH-HHHHHH
Q 027470 132 AATVRERKFHVIKTQTD-TYKKKV 154 (223)
Q Consensus 132 l~~IR~RK~~ll~~qi~-~lkkk~ 154 (223)
+..+|..+...+..++. .++.+.
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~ 184 (195)
T KOG0014|consen 161 LHNSRSSKSKPLSDSNFQVLQEKE 184 (195)
T ss_pred hcCCCCCCCcCCcchhhhhhcccc
Confidence 99999999888877765 434433
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=3.5e-35 Score=207.18 Aligned_cols=77 Identities=66% Similarity=1.110 Sum_probs=74.2
Q ss_pred CcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccc
Q 027470 2 GRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLW 80 (223)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~ 80 (223)
||+||+|++|+|+.+|++||+||++||||||.||||||||+||+|||||+|++|+|+||+ +++||+||...++.++|
T Consensus 1 gr~ki~i~~i~~~~~r~~tf~kR~~gl~kKa~Els~Lc~~~v~lvv~sp~gk~~~f~s~s--~~~vl~ry~~~~~~~~~ 77 (77)
T cd00265 1 GRGKIEIKRIENSTNRQVTFSKRRNGLLKKAHELSVLCDAEVALIIFSSSGKLYEFSSPS--MEKIIERYQKTSGSSLW 77 (77)
T ss_pred CCCcceeEEecCccHHHHHHHHhhhhhhhcceeheeccCCceeEEEEcCCCceEEecCCC--HHHHHHHHHhccccccC
Confidence 899999999999999999999999999999999999999999999999999999999987 69999999999887766
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=1.6e-31 Score=191.21 Aligned_cols=74 Identities=43% Similarity=0.748 Sum_probs=70.7
Q ss_pred CcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcC
Q 027470 2 GRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLG 76 (223)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~ 76 (223)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+.++|++++. +..++++|...+.
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~KRk~gl~kKa~ELs~Lc~~~v~~iv~sp~~~~~~~~~~~~-~~~~l~~~~~~~~ 74 (83)
T cd00266 1 GRKKIKIKRIENKKKRAVTFSKRRQGLFKKASELSTLCGAEVAVIVYSPSGKLYVFWPSSE-VEGVISRFEVLSA 74 (83)
T ss_pred CCccceeEEeeccchhhhhHHHhhhhHHHHHHHHHHhhCCcEEEEEECCCCCcceecCcHH-HHHHHHHHhhcCH
Confidence 8999999999999999999999999999999999999999999999999999999988875 9999999988764
No 4
>smart00432 MADS MADS domain.
Probab=99.97 E-value=2.7e-31 Score=177.25 Aligned_cols=59 Identities=76% Similarity=1.140 Sum_probs=58.2
Q ss_pred CcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCC
Q 027470 2 GRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISP 60 (223)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sp 60 (223)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+++.|++|
T Consensus 1 gR~Ki~i~~I~~~~~R~~tf~kRk~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~p 59 (59)
T smart00432 1 GRRKIEIKRIENKTNRQVTFSKRRNGLFKKAHELSVLCDAEVALIVFSPTGKLYEFASP 59 (59)
T ss_pred CCCcceeEEeeCcchhhhhhHhhhhhHHHHHHHHhhccCCeEEEEEECCCCCeeeccCC
Confidence 89999999999999999999999999999999999999999999999999999999987
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=2.3e-30 Score=172.82 Aligned_cols=59 Identities=71% Similarity=1.097 Sum_probs=57.8
Q ss_pred CcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCC
Q 027470 2 GRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISP 60 (223)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sp 60 (223)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+++.|++|
T Consensus 1 gr~Ki~i~~I~~~~~R~~tf~kR~~gl~kKa~Els~Lc~~~v~~iv~sp~g~~~~~~~~ 59 (59)
T cd00120 1 GRGKIEIKRIENKTSRQVTFSKRRNGLFKKASELSVLCDAEVAVIVFSPSGKLYEFWSS 59 (59)
T ss_pred CCccceeEEeeCcchhhhhHHHHhchHHHhhhhheeccCCcEEEEEECCCCCcccccCC
Confidence 79999999999999999999999999999999999999999999999999999999875
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=99.94 E-value=2.6e-28 Score=157.76 Aligned_cols=51 Identities=55% Similarity=0.905 Sum_probs=46.9
Q ss_pred eeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccC
Q 027470 9 KRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYIS 59 (223)
Q Consensus 9 k~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~s 59 (223)
|+|+|++.|++||+||+.||||||.||||||||+||+|||||+|++|.|+|
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 689999999999999999999999999999999999999999999999976
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=99.85 E-value=8.1e-21 Score=140.64 Aligned_cols=99 Identities=39% Similarity=0.645 Sum_probs=96.2
Q ss_pred HhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHH
Q 027470 71 YQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTY 150 (223)
Q Consensus 71 Y~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~l 150 (223)
|++.++.+.|...++.++.++.+++.+++.|+..+|+++|+||++||++||..||++|+.+|.+||+||++++.++|+.+
T Consensus 1 Y~~~~~~~~~~~~~e~~~~e~~~L~~~~~~L~~~~R~~~GedL~~Ls~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l 80 (100)
T PF01486_consen 1 YQKQSGTDLWDSQHEELQQEIAKLRKENESLQKELRHLMGEDLESLSLKELQQLEQQLESALKRVRSRKDQLLMEQIEEL 80 (100)
T ss_pred CCcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHhccccccccccchHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 77888889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q 027470 151 KKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 151 kkk~~~l~een~~L~~~~~ 169 (223)
++|++.+.++|..|+.++.
T Consensus 81 ~~ke~~l~~en~~L~~~~~ 99 (100)
T PF01486_consen 81 KKKERELEEENNQLRQKIE 99 (100)
T ss_pred HHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999874
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.78 E-value=3.3e-20 Score=157.28 Aligned_cols=75 Identities=37% Similarity=0.549 Sum_probs=65.6
Q ss_pred CcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcc-------hhhHHHHHHhhh
Q 027470 2 GRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTT-------TTKKMFDQYQKS 74 (223)
Q Consensus 2 gR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~-------~~~~ii~RY~~~ 74 (223)
||.||+|.+|||+..|.|||||||.||||||+|||||.|.+|-|+|.|.+|-+|.|+.|-- .=+.+|....+.
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 7999999999999999999999999999999999999999999999999999999999862 114555555555
Q ss_pred cC
Q 027470 75 LG 76 (223)
Q Consensus 75 ~~ 76 (223)
++
T Consensus 143 pd 144 (338)
T KOG0015|consen 143 PD 144 (338)
T ss_pred CC
Confidence 44
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.49 E-value=1.1e-14 Score=128.98 Aligned_cols=61 Identities=44% Similarity=0.643 Sum_probs=60.0
Q ss_pred CCcccceeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCc
Q 027470 1 MGRGKIEIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPT 61 (223)
Q Consensus 1 MgR~Ki~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps 61 (223)
|||+||.|.+|+|+.+|.|||+||+.||+|||.||+||.+.+|.++|.|.+|+++.|+.|.
T Consensus 81 ~~~~~~~is~i~nk~~r~vtf~Krk~gI~kka~ElsvLt~~~vl~lvise~g~v~tf~tp~ 141 (412)
T COG5068 81 VTGRKIGISYITNKTKRSVTFSKRKHGINKKAFELSVLTGTEVLLLVISENGLVHTFTTPK 141 (412)
T ss_pred cccccCCcccccCcccccchhhhhhhhhhhhhhhhhhccCCceEEEEecCCCceeeecCCc
Confidence 7899999999999999999999999999999999999999999999999999999999986
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=92.77 E-value=1.5 Score=30.33 Aligned_cols=48 Identities=19% Similarity=0.349 Sum_probs=33.4
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++++.|..||..+..++..|.. +..+++.|+.+...|.++|..|..+.
T Consensus 1 M~~E~l~~LE~ki~~aveti~~-----Lq~e~eeLke~n~~L~~e~~~L~~en 48 (72)
T PF06005_consen 1 MSLELLEQLEEKIQQAVETIAL-----LQMENEELKEKNNELKEENEELKEEN 48 (72)
T ss_dssp --HHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 5788999999999999999864 44555677777555555555555544
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=89.51 E-value=0.36 Score=38.43 Aligned_cols=78 Identities=19% Similarity=0.306 Sum_probs=43.2
Q ss_pred ceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcc--ccc--chhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 027470 42 KVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVD--LWS--THYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLT 117 (223)
Q Consensus 42 evalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~--~~~--~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls 117 (223)
=||||||+| .|+++.+- ++-..+..+++....- -.. -....+++++.+.++..+....+++ ..++
T Consensus 14 vVaLlvfGP-~KLP~~~r---~lGk~ir~~K~~~~~~k~~l~~Ei~~~elk~e~~k~k~~l~~~~~~l~-------~~~~ 82 (158)
T PRK04098 14 VVAIIFLGP-DKLPQAMV---DIAKFFKAVKKTINDAKSTLDKEINIEEIKEEALKYKKEFESAVESLK-------KKLK 82 (158)
T ss_pred HHHHhhcCc-hHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH-------hccC
Confidence 478999999 79998865 4667777777754310 000 1122344444444444444333333 2267
Q ss_pred HHHHHHHHHHHHh
Q 027470 118 FEELRGLEQNMSS 130 (223)
Q Consensus 118 ~~EL~~LE~~Le~ 130 (223)
+++|.++-..+..
T Consensus 83 ~eel~~~~~~~~~ 95 (158)
T PRK04098 83 FEELDDLKITAEN 95 (158)
T ss_pred hHHHHHHhhhhhh
Confidence 7777766544443
No 12
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=88.46 E-value=2.3 Score=31.63 Aligned_cols=43 Identities=16% Similarity=0.378 Sum_probs=30.7
Q ss_pred HHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 126 QNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 126 ~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+.++.++.-|...-+-.+.++++.||.+++.|++.|..|..+-
T Consensus 48 NKIeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN 90 (123)
T KOG4797|consen 48 NKIEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALEREN 90 (123)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566666667666666667888888888888877777776654
No 13
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=84.77 E-value=7.1 Score=27.37 Aligned_cols=43 Identities=19% Similarity=0.372 Sum_probs=33.0
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGN 163 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~ 163 (223)
+|++=|..||..+..++..|- ++.-+|+.||.|...|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI~-----LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 578889999999999999884 6666778888876666665544
No 14
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=84.34 E-value=19 Score=31.90 Aligned_cols=74 Identities=12% Similarity=0.282 Sum_probs=50.0
Q ss_pred HHHHHHHHHHHhhc--CCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHH--HHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 96 EINNKLRKDIRQRM--GEDLDDLTFEELRGLEQNMSSSAATVRERKFHV--IKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 96 ~~~~~L~~e~r~~~--GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~l--l~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+....|+.++.++. -.++++++.++|..+...|..-...|..++..+ +.+++..+..++....++-..+..++.
T Consensus 179 ~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~ 256 (312)
T smart00787 179 DRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIA 256 (312)
T ss_pred HHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444442 357899999999999999999988888776664 345566666666666666666666664
No 15
>PRK10884 SH3 domain-containing protein; Provisional
Probab=84.30 E-value=21 Score=29.71 Aligned_cols=77 Identities=12% Similarity=0.109 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHH--HHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 87 MQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVR--ERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR--~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
+...+..++.+++.++.++....++ .-+...++.+.+..+-..|. ...++-+.+++..++.+...++.+|..+
T Consensus 91 ~~~rlp~le~el~~l~~~l~~~~~~-----~~~~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~ 165 (206)
T PRK10884 91 LRTRVPDLENQVKTLTDKLNNIDNT-----WNQRTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDK 165 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555665555554443322 11344444554444444443 3444555777777777777777777777
Q ss_pred HHHH
Q 027470 165 LLDF 168 (223)
Q Consensus 165 ~~~~ 168 (223)
....
T Consensus 166 ~~~~ 169 (206)
T PRK10884 166 QRTI 169 (206)
T ss_pred HHHH
Confidence 6554
No 16
>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=83.96 E-value=2.9 Score=27.58 Aligned_cols=28 Identities=21% Similarity=0.287 Sum_probs=19.8
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+.+.++|..|..+...|+.||..|+...
T Consensus 17 evLK~~I~eL~~~n~~Le~EN~~Lk~~~ 44 (59)
T PF01166_consen 17 EVLKEQIAELEERNSQLEEENNLLKQNA 44 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3556777777777777777777776654
No 17
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=83.60 E-value=11 Score=25.79 Aligned_cols=48 Identities=17% Similarity=0.287 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+|++=|..||..+..++..| .++.-+|+.||.|...|..+-..+.+..
T Consensus 1 MSlEv~ekLE~KiqqAvdTI-----~LLQmEieELKEknn~l~~e~q~~q~~r 48 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTI-----TLLQMEIEELKEKNNSLSQEVQNAQHQR 48 (79)
T ss_pred CchHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhhHhHHHHHHHHHHH
Confidence 57778888999988888877 4666777888887776666555444433
No 18
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=83.55 E-value=9.5 Score=28.90 Aligned_cols=58 Identities=22% Similarity=0.306 Sum_probs=42.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcC----CCCCCCCHHHHHHHHHHHHhhHHHHHHHHH
Q 027470 83 HYAKMQESYRKLKEINNKLRKDIRQRMG----EDLDDLTFEELRGLEQNMSSSAATVRERKF 140 (223)
Q Consensus 83 ~~e~lq~el~kLk~~~~~L~~e~r~~~G----edL~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 140 (223)
.++.|..++.+|+-+|..|++.+++-.| .+-.-|+..+=..+-...-.+|...-.+|-
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~KI 65 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKKI 65 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678999999999999999999998887 566778988877777777777766665553
No 19
>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=82.70 E-value=0.26 Score=26.40 Aligned_cols=14 Identities=29% Similarity=0.548 Sum_probs=11.1
Q ss_pred eeEEEecCCCCccc
Q 027470 43 VSLIMFSNTGKFHE 56 (223)
Q Consensus 43 valIvfs~~gk~~~ 56 (223)
..+.+|||.|+++.
T Consensus 3 ~~~t~FSp~Grl~Q 16 (23)
T PF10584_consen 3 RSITTFSPDGRLFQ 16 (23)
T ss_dssp SSTTSBBTTSSBHH
T ss_pred CCceeECCCCeEEe
Confidence 35678999999984
No 20
>PHA03155 hypothetical protein; Provisional
Probab=82.01 E-value=14 Score=27.83 Aligned_cols=58 Identities=19% Similarity=0.216 Sum_probs=45.4
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHH
Q 027470 82 THYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERK 139 (223)
Q Consensus 82 ~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK 139 (223)
...|.|..++.+|+-+|..|++.+++-.+.+=.-|+..+=..+-...-.+|...-.+|
T Consensus 8 ~tvEeLaaeL~kL~~ENK~LKkkl~~~~~p~d~~LT~~qKea~I~s~v~~Lt~~A~~K 65 (115)
T PHA03155 8 ADVEELEKELQKLKIENKALKKKLLQHGNPEDELLTPAQKDAIINSLVNKLTKKAEEK 65 (115)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHccCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999999987766655566888887777777777776666555
No 21
>PHA03162 hypothetical protein; Provisional
Probab=82.01 E-value=13 Score=28.59 Aligned_cols=59 Identities=17% Similarity=0.186 Sum_probs=44.5
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHhhcCCC----CCCCCHHHHHHHHHHHHhhHHHHHHHHH
Q 027470 82 THYAKMQESYRKLKEINNKLRKDIRQRMGED----LDDLTFEELRGLEQNMSSSAATVRERKF 140 (223)
Q Consensus 82 ~~~e~lq~el~kLk~~~~~L~~e~r~~~Ged----L~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 140 (223)
...|.|..++.+|+-||..|++.+++-.|.+ =..|+..+=.-+-...-.+|...-.+|-
T Consensus 13 ~tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kKI 75 (135)
T PHA03162 13 PTMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKKI 75 (135)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578899999999999999999998777655 2348888777776666666666655553
No 22
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=81.71 E-value=28 Score=30.81 Aligned_cols=59 Identities=20% Similarity=0.454 Sum_probs=45.8
Q ss_pred CCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHH--HHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 111 EDLDDLTFEELRGLEQNMSSSAATVRERKFHV--IKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 111 edL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~l--l~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
.+++.++.++|..+...|...-..|.++|..+ +..++..++.++..+.++...+..++.
T Consensus 201 ~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~ 261 (325)
T PF08317_consen 201 EEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIA 261 (325)
T ss_pred hhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999998888777665 346666666677777777777776664
No 23
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=81.64 E-value=25 Score=33.96 Aligned_cols=73 Identities=18% Similarity=0.377 Sum_probs=42.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHH-----HHHHHHHHHhHHHHHHHHHHHHHHH
Q 027470 87 MQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVR-----ERKFHVIKTQTDTYKKKVRNLEERH 161 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR-----~RK~~ll~~qi~~lkkk~~~l~een 161 (223)
+...+++|+.+|..|+.++..+. .++..|+..|+..-..++ .|+.+.+...|+.|+++...-...-
T Consensus 427 ~~~~ve~l~~e~~~L~~~~ee~k---------~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~v 497 (652)
T COG2433 427 LEETVERLEEENSELKRELEELK---------REIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKRV 497 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455566666666665554443 567777777776666655 4555566677777777655444444
Q ss_pred HHHHHHH
Q 027470 162 GNILLDF 168 (223)
Q Consensus 162 ~~L~~~~ 168 (223)
..|..++
T Consensus 498 e~L~~~l 504 (652)
T COG2433 498 EELERKL 504 (652)
T ss_pred HHHHHHH
Confidence 4444433
No 24
>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=80.86 E-value=2.8 Score=31.29 Aligned_cols=22 Identities=36% Similarity=0.386 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 027470 148 DTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 148 ~~lkkk~~~l~een~~L~~~~~ 169 (223)
..+++|.+.|+|||+.|+.+++
T Consensus 75 ~rlkkk~~~LeEENNlLklKie 96 (108)
T cd07429 75 LRLKKKNQQLEEENNLLKLKIE 96 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3567778888899999888875
No 25
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=80.46 E-value=21 Score=29.97 Aligned_cols=56 Identities=16% Similarity=0.262 Sum_probs=39.5
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHH--HHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERK--FHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK--~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
+-..+|+..|+..++..-+...... ..-+..|.+.+.+....|-|+|+.|+.+++.
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 3455678888888877666655333 3345677778888788888888888888853
No 26
>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=80.43 E-value=2.9 Score=27.73 Aligned_cols=31 Identities=29% Similarity=0.385 Sum_probs=25.0
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHhhHHHHHH
Q 027470 107 QRMGEDLDDLTFEELRGLEQNMSSSAATVRE 137 (223)
Q Consensus 107 ~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~ 137 (223)
+..|+||+.||++||..--..|+.-+.++++
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 4579999999999999877777776666654
No 27
>PRK01371 sec-independent translocase; Provisional
Probab=75.69 E-value=1.9 Score=33.52 Aligned_cols=59 Identities=25% Similarity=0.536 Sum_probs=34.4
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDL 113 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL 113 (223)
||-|+. =|+||||+| .|+++++- ++-..|..+++ .....+.+++.-+|.++
T Consensus 8 EllvIl--vVallvfGP-eKLP~~ar---~lg~~ir~~R~-----------------------~~~~ak~~i~~Elg~ef 58 (137)
T PRK01371 8 ELVVLV--VLAVLVFGP-DKLPKAAR---DAGRTLRQLRE-----------------------MANNARNDLRSELGPEF 58 (137)
T ss_pred HHHHHH--HHHhheeCc-hHHHHHHH---HHHHHHHHHHH-----------------------HHHHHHHHHHHHhcchh
Confidence 444442 467899999 88888754 23344444433 22333444555568777
Q ss_pred CCCCHHHH
Q 027470 114 DDLTFEEL 121 (223)
Q Consensus 114 ~~Ls~~EL 121 (223)
+++.+.+|
T Consensus 59 ~d~d~r~l 66 (137)
T PRK01371 59 ADLDLRDL 66 (137)
T ss_pred cccchhhc
Confidence 77755544
No 28
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=74.19 E-value=60 Score=30.23 Aligned_cols=42 Identities=14% Similarity=0.305 Sum_probs=29.1
Q ss_pred ccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 26 NGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 26 ~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
++|+|+- .|.+- .-+-+++|+++|++..|.+ +++||+.|-.+
T Consensus 285 ~~L~k~~-~L~~~--~~~Nm~~~d~~g~~~~~~~----~~~Il~~f~~~ 326 (439)
T PHA02592 285 EKIMKDF-GLIER--VSQNITVINENGKLKVYEN----AEDLIRDFVEI 326 (439)
T ss_pred HHHHHhc-Cchhe--eeeeEEEEecCCeeeecCC----HHHHHHHHHHH
Confidence 4667653 23222 2367888999999998855 67899998665
No 29
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=73.81 E-value=21 Score=28.47 Aligned_cols=48 Identities=23% Similarity=0.337 Sum_probs=38.0
Q ss_pred CCCC-CHHHHHHHHHHHHhhHHHHHHH---HHHHHHHhHHHHHHHHHHHHHH
Q 027470 113 LDDL-TFEELRGLEQNMSSSAATVRER---KFHVIKTQTDTYKKKVRNLEER 160 (223)
Q Consensus 113 L~~L-s~~EL~~LE~~Le~~l~~IR~R---K~~ll~~qi~~lkkk~~~l~ee 160 (223)
..-+ +..||..|-++++.+-.-+|++ |-.+|.+||..|++.-+.+.++
T Consensus 23 ~~~~~~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~ 74 (159)
T PF10504_consen 23 VSRLGDPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEE 74 (159)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444 7789999999999999999864 6667888999988887666554
No 30
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=73.34 E-value=29 Score=25.96 Aligned_cols=48 Identities=19% Similarity=0.223 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 118 FEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
++.+.+||+++...+..+.+=|.++ ..+-.....|.-||..|+..+..
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~-----~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQL-----AELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788888887777766655444 34445556666677777777754
No 31
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=71.22 E-value=25 Score=27.87 Aligned_cols=56 Identities=18% Similarity=0.217 Sum_probs=29.5
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 027470 84 YAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVI 143 (223)
Q Consensus 84 ~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll 143 (223)
+..+++++..++.++..|+.++..+. ..++.+||...-..|+.-+..+.+|-..+-
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~----~~~t~~el~~~i~~l~~e~~~l~~kL~~l~ 136 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLS----SEPTNEELREEIEELEEEIEELEEKLEKLR 136 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh----cCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444443322 346666666666666666666666655554
No 32
>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=70.44 E-value=37 Score=25.24 Aligned_cols=47 Identities=17% Similarity=0.205 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 119 EELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 119 ~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
+.+..||++|..-+..|.+=|.++ ..+-.....|.-||..|+..+..
T Consensus 8 ~~l~~le~~l~~l~~~~~~LK~~~-----~~l~EEN~~L~~EN~~Lr~~l~~ 54 (107)
T PF06156_consen 8 DRLDQLEQQLGQLLEELEELKKQL-----QELLEENARLRIENEHLRERLEE 54 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777766665555544333 23444444555566666666643
No 33
>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=67.12 E-value=59 Score=28.76 Aligned_cols=88 Identities=15% Similarity=0.307 Sum_probs=57.1
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHhhcC--------------CCCCCCC--HHHHHHHHHHHHhhHHHHHHHHHHH--H
Q 027470 82 THYAKMQESYRKLKEINNKLRKDIRQRMG--------------EDLDDLT--FEELRGLEQNMSSSAATVRERKFHV--I 143 (223)
Q Consensus 82 ~~~e~lq~el~kLk~~~~~L~~e~r~~~G--------------edL~~Ls--~~EL~~LE~~Le~~l~~IR~RK~~l--l 143 (223)
.+++.|+..+..|.++|..|+.+..++.. +++..|+ -.++..|...|.........-..++ +
T Consensus 160 ~~le~Lq~Klk~LEeEN~~LR~Ea~~L~~et~~~EekEqqLv~dcv~QL~~An~qia~LseELa~k~Ee~~rQQEEIt~L 239 (306)
T PF04849_consen 160 IQLEALQEKLKSLEEENEQLRSEASQLKTETDTYEEKEQQLVLDCVKQLSEANQQIASLSEELARKTEENRRQQEEITSL 239 (306)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999988877655532 1222221 1234455555555555444444432 3
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 144 KTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 144 ~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
..||-.+++|.+.+.-||..|...+.
T Consensus 240 lsqivdlQ~r~k~~~~EnEeL~q~L~ 265 (306)
T PF04849_consen 240 LSQIVDLQQRCKQLAAENEELQQHLQ 265 (306)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 47788888999999889988888875
No 34
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=66.82 E-value=80 Score=26.85 Aligned_cols=11 Identities=9% Similarity=0.093 Sum_probs=6.4
Q ss_pred CCcccccCCcc
Q 027470 52 GKFHEYISPTT 62 (223)
Q Consensus 52 gk~~~~~sps~ 62 (223)
.+...||..+.
T Consensus 8 ~~~~~~C~~C~ 18 (302)
T PF10186_consen 8 SRRRFYCANCV 18 (302)
T ss_pred CCCCeECHHHH
Confidence 44455777663
No 35
>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=66.29 E-value=56 Score=24.88 Aligned_cols=28 Identities=11% Similarity=0.299 Sum_probs=25.0
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 142 VIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 142 ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
.+..++..++++...|.++|+.|..+++
T Consensus 102 ~le~e~~~~~~r~~dL~~QN~lLh~QlE 129 (132)
T PF07926_consen 102 QLEKELSELEQRIEDLNEQNKLLHDQLE 129 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4578999999999999999999998885
No 36
>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=65.24 E-value=77 Score=29.58 Aligned_cols=60 Identities=18% Similarity=0.526 Sum_probs=36.0
Q ss_pred eeeeeCCCCcch-hhhh---hcc-------ccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 7 EIKRIENPTNRQ-VTYS---KRR-------NGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 7 ~ik~Ien~~~R~-vTfs---KRr-------~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
.|+-|.+.++|. |.|- ||. ++|+|+.. |.+--. +-+++|.++|++..| + +++||+.|-.+
T Consensus 257 ~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t~-L~~s~~--~Nm~~~~~~g~p~~~-~----l~~iL~~f~~~ 327 (445)
T cd00187 257 GISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTK-LQTTFG--INMVAFDPNGRPKKL-N----LKEILQEFLDH 327 (445)
T ss_pred ccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhcC-Cceeee--eeEEEEecCCeeEEe-C----HHHHHHHHHHH
Confidence 466677776663 3332 222 35554432 222111 267888889999888 4 67899998765
No 37
>PRK11637 AmiB activator; Provisional
Probab=65.09 E-value=1e+02 Score=28.31 Aligned_cols=76 Identities=13% Similarity=0.199 Sum_probs=37.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHH--HHHHhHHHHHHHHHHHHHHH
Q 027470 84 YAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFH--VIKTQTDTYKKKVRNLEERH 161 (223)
Q Consensus 84 ~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~--ll~~qi~~lkkk~~~l~een 161 (223)
.+.++.++..+.+++..++.++.. ...+|..++.+|...-..|+....+ .+..+|+.+++++..++++-
T Consensus 49 l~~l~~qi~~~~~~i~~~~~~~~~---------~~~~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l 119 (428)
T PRK11637 49 LKSIQQDIAAKEKSVRQQQQQRAS---------LLAQLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQ 119 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444432 2234556666666665555543332 34455566666655555555
Q ss_pred HHHHHHH
Q 027470 162 GNILLDF 168 (223)
Q Consensus 162 ~~L~~~~ 168 (223)
..+...+
T Consensus 120 ~~~~~~l 126 (428)
T PRK11637 120 AAQERLL 126 (428)
T ss_pred HHHHHHH
Confidence 4444444
No 38
>PRK01919 tatB sec-independent translocase; Provisional
Probab=64.83 E-value=6.3 Score=31.73 Aligned_cols=63 Identities=19% Similarity=0.389 Sum_probs=37.9
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHH
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELR 122 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~ 122 (223)
||||||+| .++++.+- ++-..+.++++... .++.+.+ .+ +.++||.
T Consensus 15 VALiV~GP-ekLP~~aR---tlGk~i~k~Rr~~~----------------d~K~ev~---~E-----------~e~dElr 60 (169)
T PRK01919 15 VALVVIGP-ERLPRVAR---TAGALFGRAQRYIN----------------DVKAEVS---RE-----------IELDELR 60 (169)
T ss_pred HHHheeCc-hHhHHHHH---HHHHHHHHHHHHHH----------------HHHHHHH---HH-----------HhHHHHH
Confidence 89999999 88887754 35556666655421 1222211 11 1236888
Q ss_pred HHHHHHHhhHHHHHHHH
Q 027470 123 GLEQNMSSSAATVRERK 139 (223)
Q Consensus 123 ~LE~~Le~~l~~IR~RK 139 (223)
.+...++.....+....
T Consensus 61 k~~~~~e~~~~~v~~si 77 (169)
T PRK01919 61 KMKTDFESAARDVENTI 77 (169)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 88888887777664443
No 39
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=64.29 E-value=50 Score=27.19 Aligned_cols=17 Identities=24% Similarity=0.530 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027470 150 YKKKVRNLEERHGNILL 166 (223)
Q Consensus 150 lkkk~~~l~een~~L~~ 166 (223)
|-.++..|+++|..|..
T Consensus 100 L~~~i~~Lqeen~kl~~ 116 (193)
T PF14662_consen 100 LVAEIETLQEENGKLLA 116 (193)
T ss_pred HHHHHHHHHHHHhHHHH
Confidence 33333444444444433
No 40
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=63.56 E-value=43 Score=23.12 Aligned_cols=65 Identities=15% Similarity=0.303 Sum_probs=37.3
Q ss_pred ccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCC--CHHHHHHHHHHH
Q 027470 57 YISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDL--TFEELRGLEQNM 128 (223)
Q Consensus 57 ~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~L--s~~EL~~LE~~L 128 (223)
|.+|+.+++..+..+-.... ...+..-..+|..++.....+++...|..-.++ ..+++..++..+
T Consensus 1 ~~~~~fd~~~~~~~~l~~~s-------~~~i~~~~~~L~~~i~~~~~eLr~~V~~nY~~fI~as~~I~~m~~~~ 67 (87)
T PF08700_consen 1 FDSENFDVDEYFKDLLKNSS-------IKEIRQLENKLRQEIEEKDEELRKLVYENYRDFIEASDEISSMENDL 67 (87)
T ss_pred CCCCcCCHHHHHHHHHhhCC-------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 45666676666665544332 334455555666777777777887777654332 334555554444
No 41
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=63.49 E-value=15 Score=27.44 Aligned_cols=29 Identities=17% Similarity=0.163 Sum_probs=24.9
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 140 FHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 140 ~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
-+.+.+||..|..+...|++||..|+.-.
T Consensus 69 Ve~Lk~qI~eL~er~~~Le~EN~lLk~~~ 97 (123)
T KOG4797|consen 69 VEVLKEQIRELEERNSALERENSLLKTLA 97 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 35778999999999999999999998654
No 42
>PRK10884 SH3 domain-containing protein; Provisional
Probab=63.44 E-value=49 Score=27.50 Aligned_cols=7 Identities=14% Similarity=0.012 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 027470 97 INNKLRK 103 (223)
Q Consensus 97 ~~~~L~~ 103 (223)
....++.
T Consensus 94 rlp~le~ 100 (206)
T PRK10884 94 RVPDLEN 100 (206)
T ss_pred HHHHHHH
Confidence 3333333
No 43
>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=62.70 E-value=39 Score=22.22 Aligned_cols=35 Identities=26% Similarity=0.396 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 131 SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 131 ~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+-...|.||... ++.|..++..|..+|..|...+.
T Consensus 16 AAr~~R~RKk~~----~~~Le~~~~~L~~en~~L~~~~~ 50 (64)
T PF00170_consen 16 AARRSRQRKKQY----IEELEEKVEELESENEELKKELE 50 (64)
T ss_dssp HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhh----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566777544 46777888888888887777664
No 44
>smart00338 BRLZ basic region leucin zipper.
Probab=62.36 E-value=36 Score=22.40 Aligned_cols=35 Identities=29% Similarity=0.383 Sum_probs=25.0
Q ss_pred hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 131 SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 131 ~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+-...|.||... +..|..++..|..+|..|..++.
T Consensus 16 aA~~~R~rKk~~----~~~Le~~~~~L~~en~~L~~~~~ 50 (65)
T smart00338 16 AARRSRERKKAE----IEELERKVEQLEAENERLKKEIE 50 (65)
T ss_pred HHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666443 46888888888888888888774
No 45
>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=61.79 E-value=41 Score=21.79 Aligned_cols=49 Identities=12% Similarity=0.357 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
|+|++|+..+-..-+..-....... +++.++++.+.++...|..--..|
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~~~~~-~~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPCADRR-ALLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5788888887733333223333333 566666666666666655544443
No 46
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=61.50 E-value=1.4e+02 Score=28.12 Aligned_cols=55 Identities=22% Similarity=0.335 Sum_probs=37.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhHHHHH---HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027470 110 GEDLDDLTFEELRGLEQNMSSSAATVR---ERKFHVIKTQTDTYKKKVRNLEERHGNILLDFETK 171 (223)
Q Consensus 110 GedL~~Ls~~EL~~LE~~Le~~l~~IR---~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~~ 171 (223)
.-+|+.||.+||+ .+++++++.+- .-|.|++ +.||..+..|+.=-+.|..+..+.
T Consensus 196 nl~i~~lsteelr---~qVD~A~~q~VnP~k~KeQLV----~QLkTQItDLErFInFlQ~e~~e~ 253 (621)
T KOG3759|consen 196 NLDIDKLSTEELR---RQVDDALKQLVNPFKEKEQLV----DQLKTQITDLERFINFLQDEVGEN 253 (621)
T ss_pred cCCcccccHHHHH---HHHHHHHHHHhChHHHHHHHH----HHHHHHHHHHHHHHHHHHHhhhcC
Confidence 4569999999876 58888888775 3444443 456666666666666666665443
No 47
>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=60.29 E-value=1.1e+02 Score=28.99 Aligned_cols=51 Identities=10% Similarity=0.109 Sum_probs=38.0
Q ss_pred CCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 027470 114 DDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNIL 165 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~ 165 (223)
+..++.++.++-..+...+..++.+...+ ..++..++++...|+.+-..|.
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~l~~~l~~l~ 172 (525)
T TIGR02231 122 NEPDLKEWFQAFDFNGSEIERLLTEDREA-ERRIRELEKQLSELQNELNALL 172 (525)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhc
Confidence 35689999999999999999998877655 5666777777666666655443
No 48
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=59.94 E-value=85 Score=32.31 Aligned_cols=26 Identities=15% Similarity=0.036 Sum_probs=15.9
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCc
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPT 61 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps 61 (223)
.+-++||..+-+---++++.++ .+|.
T Consensus 140 ~~le~vGl~~~~~~s~s~~~~~--~sp~ 165 (1195)
T KOG4643|consen 140 KLLELVGLEKKYRESRSGKELY--KSPY 165 (1195)
T ss_pred HHHHHhcccceeeccccCCCCC--CCcc
Confidence 3447899888776655544443 4444
No 49
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=56.92 E-value=43 Score=31.02 Aligned_cols=77 Identities=14% Similarity=0.239 Sum_probs=40.8
Q ss_pred CCcccccCCcc----hhh----HHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHH
Q 027470 52 GKFHEYISPTT----TTK----KMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRG 123 (223)
Q Consensus 52 gk~~~~~sps~----~~~----~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~ 123 (223)
+..++|+||.. +++ ..+.+|+-..... +..+-.+...+..|.++++.|+.-- ...+.| ++ +|+..
T Consensus 37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~fe~pi~ele~ki~el~~~~-~~~~~~---~~-~ei~~ 109 (431)
T PLN03230 37 RLEHEYPWPEKLPQGELTTGALKILNRFKPLKNKP--KPVTLPFEKPIVDLENRIDEVRELA-NKTGVD---FS-AQIAE 109 (431)
T ss_pred CCCCCCCCcccCCCCcccccHHHHHHhcCCCCCCC--CCCccchhhHHHHHHHHHHHHHhhh-hccccc---HH-HHHHH
Confidence 33499999873 222 3777777655422 2233334455666777766654421 111212 22 56777
Q ss_pred HHHHHHhhHHHH
Q 027470 124 LEQNMSSSAATV 135 (223)
Q Consensus 124 LE~~Le~~l~~I 135 (223)
||..++...+.|
T Consensus 110 l~~~~~~~~~~i 121 (431)
T PLN03230 110 LEERYDQVRREL 121 (431)
T ss_pred HHHHHHHHHHHH
Confidence 777666554444
No 50
>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=56.56 E-value=49 Score=21.01 Aligned_cols=35 Identities=23% Similarity=0.411 Sum_probs=25.1
Q ss_pred hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 131 SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 131 ~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+..+-|.||.. .+..+..++..|..+|..|..++.
T Consensus 15 AA~r~R~rkk~----~~~~le~~~~~L~~en~~L~~~i~ 49 (54)
T PF07716_consen 15 AARRSRQRKKQ----REEELEQEVQELEEENEQLRQEIA 49 (54)
T ss_dssp HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455666644 356888888889999999988774
No 51
>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=56.18 E-value=81 Score=23.39 Aligned_cols=29 Identities=17% Similarity=0.307 Sum_probs=25.4
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
..+.+++..||.....|.|||..|+.+.+
T Consensus 18 ~~l~~~~~~LK~~~~~l~EEN~~L~~EN~ 46 (107)
T PF06156_consen 18 GQLLEELEELKKQLQELLEENARLRIENE 46 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44578999999999999999999998875
No 52
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=56.17 E-value=54 Score=25.24 Aligned_cols=52 Identities=23% Similarity=0.377 Sum_probs=35.1
Q ss_pred cccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCC---------CCCCCHHHHHHHHHHHHh
Q 027470 79 LWSTHYAKMQESYRKLKEINNKLRKDIRQRMGED---------LDDLTFEELRGLEQNMSS 130 (223)
Q Consensus 79 ~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~Ged---------L~~Ls~~EL~~LE~~Le~ 130 (223)
-|...|+...+-.+.|++++..|+..+.+..|.. .+.|+++.|..|-.+|+.
T Consensus 5 EWktRYEtQ~E~N~QLekqi~~l~~kiek~r~n~~drl~siR~ye~Ms~~~l~~llkqLEk 65 (129)
T PF15372_consen 5 EWKTRYETQLELNDQLEKQIIILREKIEKIRGNPSDRLSSIRRYEQMSVESLNQLLKQLEK 65 (129)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHHHhhccHHHHHHHHHHHHH
Confidence 4666666555555566667766666666555532 478899999988888884
No 53
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=55.69 E-value=89 Score=23.73 Aligned_cols=38 Identities=21% Similarity=0.382 Sum_probs=27.1
Q ss_pred hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 131 SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 131 ~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
++..+..|+ +.+.-+|++|++.++.++++-..|...+.
T Consensus 71 ~~~eL~er~-E~Le~ri~tLekQe~~l~e~l~eLq~~i~ 108 (119)
T COG1382 71 AVDELEERK-ETLELRIKTLEKQEEKLQERLEELQSEIQ 108 (119)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444 45577888999999888888888888874
No 54
>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=55.26 E-value=63 Score=21.83 Aligned_cols=44 Identities=14% Similarity=0.253 Sum_probs=24.7
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 120 ELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 120 EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+|..||..++.-+..... +..+...|+..+..+..|+..|..++
T Consensus 1 ~L~~Le~kle~Li~~~~~-----L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLER-----LKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred CHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888877765543 23334444444555555555555444
No 55
>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=53.52 E-value=78 Score=23.18 Aligned_cols=53 Identities=8% Similarity=0.308 Sum_probs=31.0
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-......-..+.. -..++.+++..+..+...|+..-..|...+
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~-~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTIPE-RLELLEEHREELEEQIAELQETLAYLDYKI 109 (113)
T ss_pred CCCHHHHHHHHHHHccCCccHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47888877765544322222222 235666777777777776666666665554
No 56
>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=53.40 E-value=1.2e+02 Score=24.36 Aligned_cols=58 Identities=17% Similarity=0.312 Sum_probs=40.5
Q ss_pred CCCCCHHHHHHHHHHHHhhHHHHHH--HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 113 LDDLTFEELRGLEQNMSSSAATVRE--RKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 113 L~~Ls~~EL~~LE~~Le~~l~~IR~--RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
...|++++...+-+.+......... .-.+-+.+++..|+.+...|+.+|..|..++..
T Consensus 77 ~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~~~ 136 (161)
T TIGR02894 77 AGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRLST 136 (161)
T ss_pred cccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999998888865332321 223345677788888888888888888777643
No 57
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=53.30 E-value=1.5e+02 Score=26.78 Aligned_cols=43 Identities=16% Similarity=0.241 Sum_probs=28.7
Q ss_pred HHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 126 QNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 126 ~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+.||..+...++++.++ .-|++.+++..+..+||+..|.+++.
T Consensus 130 q~LE~li~~~~EEn~~l-qlqL~~l~~e~~Ekeeesq~LnrELa 172 (401)
T PF06785_consen 130 QHLEGLIRHLREENQCL-QLQLDALQQECGEKEEESQTLNRELA 172 (401)
T ss_pred HHHHHHHHHHHHHHHHH-HHhHHHHHHHHhHhHHHHHHHHHHHH
Confidence 44555566666665544 56777787777777778777776664
No 58
>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=53.18 E-value=17 Score=23.98 Aligned_cols=27 Identities=19% Similarity=0.437 Sum_probs=23.5
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 143 IKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 143 l~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+.++++.||.++..|++.|..|..+..
T Consensus 12 VrEEVevLK~~I~eL~~~n~~Le~EN~ 38 (59)
T PF01166_consen 12 VREEVEVLKEQIAELEERNSQLEEENN 38 (59)
T ss_dssp -TTSHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358899999999999999999988764
No 59
>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=53.08 E-value=1.1e+02 Score=24.10 Aligned_cols=55 Identities=18% Similarity=0.221 Sum_probs=38.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHH
Q 027470 85 AKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKF 140 (223)
Q Consensus 85 e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~ 140 (223)
+.+...+..++.++..|+..+..+.+ +-...+.+|...++.......+..+.||.
T Consensus 112 ~el~~~i~~l~~e~~~l~~kL~~l~~-~~~~vs~ee~~~~~~~~~~~~k~w~kRKr 166 (169)
T PF07106_consen 112 EELREEIEELEEEIEELEEKLEKLRS-GSKPVSPEEKEKLEKEYKKWRKEWKKRKR 166 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666777777777666655554 44447888888888888888888887774
No 60
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=52.62 E-value=1.3e+02 Score=28.39 Aligned_cols=30 Identities=10% Similarity=0.292 Sum_probs=23.5
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
++|..+...++.|++.++.+|..|..+++.
T Consensus 93 q~~saq~~dle~KIkeLEaE~~~Lk~Ql~a 122 (475)
T PRK13729 93 DVLNKQRGDDQRRIEKLGQDNAALAEQVKA 122 (475)
T ss_pred HHHhhhhhhHHHHHHHHHHHHHHHHHHHHh
Confidence 355566677788888999999999998853
No 61
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=52.02 E-value=2.1e+02 Score=30.45 Aligned_cols=27 Identities=15% Similarity=0.299 Sum_probs=14.1
Q ss_pred eeEEEecCCCCcc-cccCCcchhhHHHHH
Q 027470 43 VSLIMFSNTGKFH-EYISPTTTTKKMFDQ 70 (223)
Q Consensus 43 valIvfs~~gk~~-~~~sps~~~~~ii~R 70 (223)
...|||-|.|... .+..|. ..+.+|++
T Consensus 150 f~~vi~~~Qge~~~~~~~~~-~rk~~~d~ 177 (1311)
T TIGR00606 150 LNNVIFCHQEDSNWPLSEGK-ALKQKFDE 177 (1311)
T ss_pred HhhceeeCCcccccccCChH-HHHHHHHH
Confidence 3457788888752 222332 34455543
No 62
>PRK00182 tatB sec-independent translocase; Provisional
Probab=51.60 E-value=5.5 Score=31.80 Aligned_cols=36 Identities=17% Similarity=0.291 Sum_probs=25.6
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
||-|++ =||||||+| .|+++++. .+...|..+++..
T Consensus 9 EllvIl--vIaLlVfGP-erLP~~~r---~lg~~ir~~R~~~ 44 (160)
T PRK00182 9 EILLLL--IVGLIVIGP-ERLPRLIE---DVRAALLAARTAI 44 (160)
T ss_pred HHHHHH--HHHHHhcCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 555443 378999999 89998875 4667777776653
No 63
>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=51.32 E-value=1.3e+02 Score=24.45 Aligned_cols=23 Identities=17% Similarity=0.242 Sum_probs=12.7
Q ss_pred CCCCcccccCCcchhhHHHHHHhhh
Q 027470 50 NTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 50 ~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
..|-+-.-.+. ....+|++|+..
T Consensus 81 ERGlLL~rvrd--e~~~~l~~y~~l 103 (189)
T PF10211_consen 81 ERGLLLLRVRD--EYRMTLDAYQTL 103 (189)
T ss_pred HHhHHHHHHHH--HHHHHHHHHHHH
Confidence 34555555553 355667777654
No 64
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=50.78 E-value=13 Score=29.08 Aligned_cols=33 Identities=18% Similarity=0.297 Sum_probs=25.2
Q ss_pred ccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 40 DAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 40 daevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
...++-||+ ++|++.+|..| +++.+|+..|=.+
T Consensus 14 ~~~~vkvv~-~~G~v~~~~~p-v~a~evm~~~P~h 46 (181)
T PF14009_consen 14 SAATVKVVH-PDGKVEEFKRP-VTAAEVMLENPGH 46 (181)
T ss_pred CCceEEEEc-CCCcEEEeCCC-cCHHHHHHHCCCC
Confidence 445555555 78999999888 5799999998554
No 65
>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=49.85 E-value=2e+02 Score=27.66 Aligned_cols=25 Identities=24% Similarity=0.296 Sum_probs=15.7
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 144 KTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 144 ~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
..+...++.++..|+++...|..+.
T Consensus 212 ~~q~~e~~~ri~~LEedi~~l~qk~ 236 (546)
T PF07888_consen 212 KEQLAEARQRIRELEEDIKTLTQKE 236 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455556666677777766666554
No 66
>PF14645 Chibby: Chibby family
Probab=49.53 E-value=29 Score=26.18 Aligned_cols=23 Identities=26% Similarity=0.411 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 027470 147 TDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 147 i~~lkkk~~~l~een~~L~~~~~ 169 (223)
...++++.+.|+|||+.|+.+++
T Consensus 73 ~~~l~~~n~~L~EENN~Lklk~e 95 (116)
T PF14645_consen 73 NQRLRKENQQLEEENNLLKLKIE 95 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666677777777777664
No 67
>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=48.81 E-value=2.4e+02 Score=26.61 Aligned_cols=71 Identities=10% Similarity=0.217 Sum_probs=35.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 85 AKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 85 e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
..++.++..+..+|+.|..+...+. +....+.++++.++...|.. +.++.+.|+.....++..-..|
T Consensus 69 k~~r~~~~~l~~~N~~l~~eN~~L~---------~r~~~id~~i~~av~~~~~~----~~~~~~ql~~~~~~~~~~l~~l 135 (472)
T TIGR03752 69 KELRKRLAKLISENEALKAENERLQ---------KREQSIDQQIQQAVQSETQE----LTKEIEQLKSERQQLQGLIDQL 135 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---------HhhhhHHHHHHHHHHhhhHH----HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666655543321 12234455566666554422 2334455555555555555555
Q ss_pred HHHH
Q 027470 165 LLDF 168 (223)
Q Consensus 165 ~~~~ 168 (223)
..++
T Consensus 136 ~~~l 139 (472)
T TIGR03752 136 QRRL 139 (472)
T ss_pred HHHH
Confidence 5555
No 68
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=47.12 E-value=1.4e+02 Score=23.65 Aligned_cols=80 Identities=21% Similarity=0.309 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHhh--cCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHH---------HhHHHHHHHHH
Q 027470 87 MQESYRKLKEINNKLRKDIRQR--MGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIK---------TQTDTYKKKVR 155 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~r~~--~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~---------~qi~~lkkk~~ 155 (223)
+.-.+..++....+++..+++. +|+. |.+-|-.+|.-.-..-..+|.+|-.+|.. ..+...+.|..
T Consensus 11 ~Rl~~~~lk~~l~k~~~ql~~ke~lge~---L~~iDFeqLkien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~ 87 (177)
T PF13870_consen 11 LRLKNITLKHQLAKLEEQLRQKEELGEG---LHLIDFEQLKIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLH 87 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCc---ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444333 5655 44444444444444455555555444433 44566777777
Q ss_pred HHHHHHHHHHHHHh
Q 027470 156 NLEERHGNILLDFE 169 (223)
Q Consensus 156 ~l~een~~L~~~~~ 169 (223)
.+..++..+...+.
T Consensus 88 ~~~~~~~~l~~~l~ 101 (177)
T PF13870_consen 88 FLSEELERLKQELK 101 (177)
T ss_pred HHHHHHHHHHHHHH
Confidence 77777777777664
No 69
>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=46.55 E-value=25 Score=31.11 Aligned_cols=52 Identities=19% Similarity=0.316 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHhhHHHHHHH------HHHHHH-------------------------------HhHHHHHHHHHHHHHH
Q 027470 118 FEELRGLEQNMSSSAATVRER------KFHVIK-------------------------------TQTDTYKKKVRNLEER 160 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~R------K~~ll~-------------------------------~qi~~lkkk~~~l~ee 160 (223)
.+....||..|..+...|..= |+.++. -+++.|++|.+.|++|
T Consensus 96 ~~~~~~le~~L~~~~e~v~qLrHeL~~kdeLL~~ys~~~ee~~~~~~~~~~~~~~~~~~~~~~~~~le~Lq~Klk~LEeE 175 (306)
T PF04849_consen 96 SERNEALEEQLGAALEQVEQLRHELSMKDELLQIYSNDDEESEPESSESTPLRRNESSLSSQKCIQLEALQEKLKSLEEE 175 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHhhhcccccCCCccccccccccccccchhHHHHHHHHHHHHHH
Confidence 356677777887777777643 444433 2368999999999999
Q ss_pred HHHHHHHHh
Q 027470 161 HGNILLDFE 169 (223)
Q Consensus 161 n~~L~~~~~ 169 (223)
|..|+.+..
T Consensus 176 N~~LR~Ea~ 184 (306)
T PF04849_consen 176 NEQLRSEAS 184 (306)
T ss_pred HHHHHHHHH
Confidence 999998764
No 70
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=46.43 E-value=70 Score=23.34 Aligned_cols=33 Identities=12% Similarity=0.450 Sum_probs=28.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 138 RKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 138 RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
+.-|+..++.+-|++|...++++|..|..++..
T Consensus 8 ~qLqFvEEEa~LlRRkl~ele~eN~~l~~EL~k 40 (96)
T PF11365_consen 8 RQLQFVEEEAELLRRKLSELEDENKQLTEELNK 40 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334577889999999999999999999998863
No 71
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=46.30 E-value=70 Score=28.15 Aligned_cols=44 Identities=25% Similarity=0.401 Sum_probs=32.7
Q ss_pred CCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 112 DLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 112 dL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
.-++||.+|-..| ..||.||.+|+ ++|+.|+..+....+|-..+
T Consensus 7 ep~~Ls~~E~~eL--------~~ir~rk~qL~-deIq~Lk~Ei~ev~~eid~~ 50 (395)
T KOG0930|consen 7 EPNDLSEEERMEL--------ENIRRRKQELL-DEIQRLKDEIAEVMEEIDNL 50 (395)
T ss_pred CCCCCCHHHHHhH--------HHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhh
Confidence 4567888776554 46999999886 78999988888777665444
No 72
>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=45.91 E-value=2.8e+02 Score=26.66 Aligned_cols=30 Identities=17% Similarity=0.253 Sum_probs=16.1
Q ss_pred HHHHHhhhcccceeEEEecC-CC------CcccccCCc
Q 027470 31 KAQELTVLCDAKVSLIMFSN-TG------KFHEYISPT 61 (223)
Q Consensus 31 KA~ELsvLCdaevalIvfs~-~g------k~~~~~sps 61 (223)
+|+.|.-. |.+--..+|.+ .| .+|.|+.|+
T Consensus 78 ~ayyLPk~-~~e~YqfcYv~~~g~V~G~S~pFqf~~~~ 114 (546)
T PF07888_consen 78 QAYYLPKD-DDEFYQFCYVDQKGEVRGASTPFQFRAPK 114 (546)
T ss_pred CcccCCCC-CCCeEEEEEECCCccEEEecCCcccCCCC
Confidence 46666653 23444445543 22 577787765
No 73
>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=45.65 E-value=81 Score=23.29 Aligned_cols=55 Identities=9% Similarity=0.079 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 114 DDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
-+++++|+..+-...+..-...-..-..++.++++.+.++.+.++..-+.|...+
T Consensus 55 ~G~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (116)
T cd04769 55 LGFTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFE 109 (116)
T ss_pred cCCCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3477777776655544321111122234555555555555555555555554443
No 74
>PF10226 DUF2216: Uncharacterized conserved proteins (DUF2216); InterPro: IPR019359 Proteins in this entry are found in Metazoa and contain a coiled-coil domain. Some annotation suggests it might be PKR, the Hepatitis delta antigen-interacting protein A, but this could not be confirmed.
Probab=45.52 E-value=1.7e+02 Score=24.07 Aligned_cols=42 Identities=21% Similarity=0.351 Sum_probs=23.3
Q ss_pred hHHHHHHhhhcCc---------cc---ccchhhhhHHHHHHHHHHHHHHHHHHH
Q 027470 65 KKMFDQYQKSLGV---------DL---WSTHYAKMQESYRKLKEINNKLRKDIR 106 (223)
Q Consensus 65 ~~ii~RY~~~~~~---------~~---~~~~~e~lq~el~kLk~~~~~L~~e~r 106 (223)
++++.|.+..-.. .+ .+...+..-.++..||+.|.+|+.+..
T Consensus 19 eel~~rLR~~E~ek~~~m~~~g~lm~evNrrlQ~hl~EIR~LKe~NqkLqedNq 72 (195)
T PF10226_consen 19 EELVRRLRRAEAEKMSLMVEHGRLMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQ 72 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677777655321 11 122333334567777888887776543
No 75
>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=45.34 E-value=2.4e+02 Score=25.59 Aligned_cols=46 Identities=15% Similarity=0.310 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Q 027470 119 EELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNIL 165 (223)
Q Consensus 119 ~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~ 165 (223)
..|..|...+...|.+|..|-..+ .+|++.+-..-+....+.....
T Consensus 241 ~~L~kl~~~i~~~lekI~sREk~i-N~qle~l~~eYr~~~~~ls~~~ 286 (359)
T PF10498_consen 241 SQLDKLQQDISKTLEKIESREKYI-NNQLEPLIQEYRSAQDELSEVQ 286 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHH
Confidence 355556666666666665554333 4555555444444444333333
No 76
>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=45.05 E-value=81 Score=21.65 Aligned_cols=31 Identities=10% Similarity=0.125 Sum_probs=21.2
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 138 RKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 138 RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
.|.+-..+.|..|+.++..|.++|..|....
T Consensus 11 ~ki~~aveti~~Lq~e~eeLke~n~~L~~e~ 41 (72)
T PF06005_consen 11 EKIQQAVETIALLQMENEELKEKNNELKEEN 41 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 4555556777777777777777777776544
No 77
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=44.95 E-value=92 Score=25.96 Aligned_cols=15 Identities=13% Similarity=0.246 Sum_probs=7.2
Q ss_pred hhhhccccHHHHHHH
Q 027470 20 TYSKRRNGIFKKAQE 34 (223)
Q Consensus 20 TfsKRr~GL~KKA~E 34 (223)
.|+.....++++..|
T Consensus 56 ~~~~~~t~~l~~E~~ 70 (221)
T PF05700_consen 56 PFSAFETPLLQAELE 70 (221)
T ss_pred CcccccchhHHHHHH
Confidence 344444455555444
No 78
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=44.67 E-value=3.6e+02 Score=27.54 Aligned_cols=47 Identities=11% Similarity=0.247 Sum_probs=22.7
Q ss_pred EEecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHH
Q 027470 46 IMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKL 94 (223)
Q Consensus 46 Ivfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kL 94 (223)
+.|-+.|+...|...+ .+..++-+....+...|...++.....+.++
T Consensus 138 ~~~~~q~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~t~~nL~r~ 184 (1179)
T TIGR02168 138 YSIIEQGKISEIIEAK--PEERRAIFEEAAGISKYKERRKETERKLERT 184 (1179)
T ss_pred chheecccHHHHHcCC--HHHHHHHHHHHccHHHHHHHHHHHHHHHHHH
Confidence 3455778888887422 2233333444444444443444444444333
No 79
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=44.49 E-value=14 Score=33.51 Aligned_cols=43 Identities=23% Similarity=0.328 Sum_probs=28.6
Q ss_pred HHHhhhcccceeEEEecCCCCcccccCCc---chhhHHHHHHhhhc
Q 027470 33 QELTVLCDAKVSLIMFSNTGKFHEYISPT---TTTKKMFDQYQKSL 75 (223)
Q Consensus 33 ~ELsvLCdaevalIvfs~~gk~~~~~sps---~~~~~ii~RY~~~~ 75 (223)
.-|||+||-+|.-.+.-.+..-|-|+.|. +++++++..|++.+
T Consensus 367 yalSV~~~~~V~HClIy~tatG~GFa~pyn~y~tlk~lV~hY~h~S 412 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATGFGFAEPYNLYSTLKELVLHYQHTS 412 (464)
T ss_pred eEEEEEECCceeeeEEeeccccccccchhHHHHHHHHHHHHHhhhh
Confidence 35899999877444433334445555555 36889999998765
No 80
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=44.43 E-value=69 Score=23.58 Aligned_cols=27 Identities=11% Similarity=0.350 Sum_probs=14.6
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 143 IKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 143 l~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+.+++..++++...++.+|..|..++.
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~eI~ 58 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAEID 58 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555553
No 81
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=43.74 E-value=69 Score=23.94 Aligned_cols=29 Identities=21% Similarity=0.298 Sum_probs=24.7
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
..+.+++..||..+..+.|||..|+-+..
T Consensus 18 ~~l~~el~~LK~~~~el~EEN~~L~iEN~ 46 (110)
T PRK13169 18 GVLLKELGALKKQLAELLEENTALRLEND 46 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34568999999999999999999998754
No 82
>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]
Probab=42.54 E-value=1.2e+02 Score=28.85 Aligned_cols=86 Identities=20% Similarity=0.220 Sum_probs=43.7
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcCCC---------CCCCCHHHHHHHHHHHHhhHHHHHHHHHH---------HHH
Q 027470 83 HYAKMQESYRKLKEINNKLRKDIRQRMGED---------LDDLTFEELRGLEQNMSSSAATVRERKFH---------VIK 144 (223)
Q Consensus 83 ~~e~lq~el~kLk~~~~~L~~e~r~~~Ged---------L~~Ls~~EL~~LE~~Le~~l~~IR~RK~~---------ll~ 144 (223)
+.+.|++.+..++++|..|+-+..++.-|. +-++=+++|+++-.++-..-+.+-.+-.+ .+.
T Consensus 160 ~~EaL~ekLk~~~een~~lr~k~~llk~Et~~~~~keq~~y~~~~KelrdtN~q~~s~~eel~~kt~el~~q~Ee~skLl 239 (596)
T KOG4360|consen 160 LLEALQEKLKPLEEENTQLRSKAMLLKTETLTYEEKEQQLYGDCVKELRDTNTQARSGQEELQSKTKELSRQQEENSKLL 239 (596)
T ss_pred HHHHHHhhcCChHHHHHHHHHHHHHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888888888888876655443221 22222334433333333222222222211 234
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 145 TQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 145 ~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
.||-.+++|++.+.-|+..|...+
T Consensus 240 sql~d~qkk~k~~~~Ekeel~~~L 263 (596)
T KOG4360|consen 240 SQLVDLQKKIKYLRHEKEELDEHL 263 (596)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHH
Confidence 566666777766666555554433
No 83
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=42.44 E-value=20 Score=27.88 Aligned_cols=25 Identities=20% Similarity=0.264 Sum_probs=21.2
Q ss_pred HhhhcccceeEEEecCCCCcccccC
Q 027470 35 LTVLCDAKVSLIMFSNTGKFHEYIS 59 (223)
Q Consensus 35 LsvLCdaevalIvfs~~gk~~~~~s 59 (223)
+.++|||+|-++|-+.+.+...|+.
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~p 83 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFPP 83 (148)
T ss_pred HHHhhccceeeeeecccCccccCCc
Confidence 5789999999999999888777743
No 84
>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=42.28 E-value=1.1e+02 Score=22.21 Aligned_cols=46 Identities=20% Similarity=0.177 Sum_probs=34.8
Q ss_pred CCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 112 DLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 112 dL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
...+++++++. ++.-......+++.|+.+...++.+|..|..++..
T Consensus 60 ~~~~l~P~~~i-------------~a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~ 105 (109)
T PF03980_consen 60 WRHSLTPEEDI-------------RAHLAPYKKKEREQLNARLQELEEENEALAEEIQE 105 (109)
T ss_pred CCCCCChHHHH-------------HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888753 34444555677889999999999999999998864
No 85
>PRK03918 chromosome segregation protein; Provisional
Probab=42.17 E-value=3.7e+02 Score=26.90 Aligned_cols=35 Identities=14% Similarity=0.226 Sum_probs=21.4
Q ss_pred hcccce-eEEEecCCCCcccccCCcchhhHHHHHHh
Q 027470 38 LCDAKV-SLIMFSNTGKFHEYISPTTTTKKMFDQYQ 72 (223)
Q Consensus 38 LCdaev-alIvfs~~gk~~~~~sps~~~~~ii~RY~ 72 (223)
+++.++ .-+||-|.|.+..|..++..-+++|++-.
T Consensus 120 ~~~~~~f~~~~~~~Qg~~~~~~~~~~~r~~~~~~~~ 155 (880)
T PRK03918 120 LIPYHVFLNAIYIRQGEIDAILESDESREKVVRQIL 155 (880)
T ss_pred hcCHHHhceeEEEeccchHHHhcCcHHHHHHHHHHh
Confidence 455554 23466778998888754344566776653
No 86
>PLN03128 DNA topoisomerase 2; Provisional
Probab=40.98 E-value=26 Score=36.48 Aligned_cols=40 Identities=18% Similarity=0.273 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHH
Q 027470 89 ESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNM 128 (223)
Q Consensus 89 ~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~L 128 (223)
+++++|.++.+.++.++..+..-...+|..+||..|+..|
T Consensus 1095 e~~~kL~~e~~~~~~ei~~l~~~t~~~~w~~DLd~~~~~~ 1134 (1135)
T PLN03128 1095 EKVDELRAERAKKETEVEELKKTTPEDLWRKDLDAFEEAL 1134 (1135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhh
Confidence 3555666666666666666666666667777777776655
No 87
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=40.50 E-value=18 Score=30.77 Aligned_cols=40 Identities=18% Similarity=0.432 Sum_probs=29.6
Q ss_pred hhhhhccccHHHHHHHHhhhcccc---eeEEEecCCCCcccccC
Q 027470 19 VTYSKRRNGIFKKAQELTVLCDAK---VSLIMFSNTGKFHEYIS 59 (223)
Q Consensus 19 vTfsKRr~GL~KKA~ELsvLCdae---valIvfs~~gk~~~~~s 59 (223)
.-|.+-+.|++||.. +..||..+ |+=|.||+.++..-|++
T Consensus 118 ~~~~~~~~~~~~~~~-~~~L~~~~~~l~~~v~fS~~~r~IGFSk 160 (269)
T PRK09822 118 SFYRREKGGFLKKIK-FNILKRVHKALLISVPLSKRGRLAGFCK 160 (269)
T ss_pred hhhhhccCchhhhhH-HHHHhhhhhhhEEEeeccccCCceeeee
Confidence 345555889999874 77888765 44566999999888876
No 88
>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=40.15 E-value=3.5 Score=26.62 Aligned_cols=29 Identities=24% Similarity=0.505 Sum_probs=20.9
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
|++|||+| +|+++++- ++-+.+..|++..
T Consensus 12 valllfGp-~kLP~~~r---~lG~~ir~fk~~~ 40 (53)
T PF02416_consen 12 VALLLFGP-KKLPELAR---SLGKAIREFKKAI 40 (53)
T ss_dssp HHHHHS-T-TTHHHHHH---HHHHHHHHHHHHH
T ss_pred HHHHHhCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 67889999 88998865 4666777777654
No 89
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=40.12 E-value=50 Score=24.26 Aligned_cols=17 Identities=24% Similarity=0.649 Sum_probs=11.8
Q ss_pred ccccchhhhhHHHHHHH
Q 027470 78 DLWSTHYAKMQESYRKL 94 (223)
Q Consensus 78 ~~~~~~~e~lq~el~kL 94 (223)
..|...|+-|++++..+
T Consensus 8 q~w~aEYe~LKEEi~~l 24 (99)
T PF13758_consen 8 QTWEAEYEGLKEEIEAL 24 (99)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 34667777777777766
No 90
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=39.69 E-value=4.5e+02 Score=27.20 Aligned_cols=53 Identities=23% Similarity=0.328 Sum_probs=33.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHh------hcCCCCCCCCHHHHHHHHHH---HHhhHHHHH
Q 027470 84 YAKMQESYRKLKEINNKLRKDIRQ------RMGEDLDDLTFEELRGLEQN---MSSSAATVR 136 (223)
Q Consensus 84 ~e~lq~el~kLk~~~~~L~~e~r~------~~GedL~~Ls~~EL~~LE~~---Le~~l~~IR 136 (223)
.+.||.++..+++.++.|..++-- -.|.+....|-=++.+||++ |-++|-+.|
T Consensus 327 aesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLR 388 (1243)
T KOG0971|consen 327 AESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLR 388 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHH
Confidence 355777777788888777654321 13666666666666666654 666666666
No 91
>PF12925 APP_E2: E2 domain of amyloid precursor protein; InterPro: IPR024329 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. The E2 domain is the largest of the conserved domains in the amyloidogenic glycoproteins. The structure of E2 consists of two coiled-coil sub-structures connected through a continuous helix, and bears an unexpected resemblance to the spectrin family of protein structures. E2 can reversibly dimerise in solution, and the dimerisation occurs along the longest dimension of the molecule in an antiparallel orientation, which enables the N-terminal substructure of one monomer to pack against the C-terminal substructure of a second monomer. The high degree of conservation of residues at the putative dimer interface suggests that the E2 dimer observed in the crystal could be physiologically relevant. Heparin sulphate proteoglycans, the putative ligands for the precursor present in extracellular matrix, bind to E2 at a conserved and positively charged site near the dimer interface [].; PDB: 3K6B_A 3K66_A 1TKN_A 3NYL_A 3NYJ_A 3UMH_A 3UMK_A 3UMI_A 3QMK_B 3PMR_B ....
Probab=39.36 E-value=2.2e+02 Score=23.51 Aligned_cols=90 Identities=18% Similarity=0.234 Sum_probs=45.5
Q ss_pred hhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 027470 64 TKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVI 143 (223)
Q Consensus 64 ~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll 143 (223)
..+++|.|...++.......+..-+..++ +. .+..+.+.| .|..++|.+.. .+.+.--.+-+.+
T Consensus 8 ~~~~~D~Y~~~~~~~~Eh~~f~~Ak~rLe---~~---hr~r~~~Vm---------keW~eaE~~~~-~l~~~DPk~Ae~~ 71 (193)
T PF12925_consen 8 TSDAVDPYFEHPDPENEHQRFKEAKERLE---EK---HRERMTKVM---------KEWSEAEERYK-ELPKADPKKAEQF 71 (193)
T ss_dssp ---HHHHHHHSSTTSTHHHHHHHHHHHHH---HH---HHHHHHHHH---------HHHHHHHHTTT-TSHHHHHHHHHHH
T ss_pred CCCCCChHhhcCCCCchHHHHHHHHHHHH---HH---HHHHHHHHH---------HHHHHHHHHHH-hchhhhhhhhhHH
Confidence 34678999999876533222322222222 11 111111221 24444555544 2334444444444
Q ss_pred HHh-HHHHHHHHHHHHHHHHHHHHHHh
Q 027470 144 KTQ-TDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 144 ~~q-i~~lkkk~~~l~een~~L~~~~~ 169 (223)
... +...++++..|++|+..-+++++
T Consensus 72 k~~m~~rFQ~~v~aLE~e~~~er~qL~ 98 (193)
T PF12925_consen 72 KKEMTQRFQKTVQALEQEAAAERQQLV 98 (193)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 433 36778888888888888888775
No 92
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=39.23 E-value=2.7e+02 Score=26.81 Aligned_cols=72 Identities=13% Similarity=0.019 Sum_probs=37.6
Q ss_pred HhhhcccceeEEEecCCCCcccccCCc--chhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHH
Q 027470 35 LTVLCDAKVSLIMFSNTGKFHEYISPT--TTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIR 106 (223)
Q Consensus 35 LsvLCdaevalIvfs~~gk~~~~~sps--~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r 106 (223)
..+.|+-.+|-+.++..-..+.+.-.- ..|+.+|--++...-.+........+...+.+|..+++.++...+
T Consensus 404 ~~t~v~~~la~~~~st~~~~~~~d~~~~~~km~~~i~~~~~~~~sd~~~~rer~l~a~t~kL~~E~e~~q~~~~ 477 (588)
T KOG3612|consen 404 KLTQVSKMLADLHYSTQLGGVHADPTVVEDKMKDAIIDLQESTLSDYSGSRERSLVAATEKLRQEFEELQQTSR 477 (588)
T ss_pred hhcccchhhhhcccccccCCcccchHHHHHHHHHHHHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHHHHh
Confidence 456677777766666644433332210 133444444443332232233334467778888888777765544
No 93
>cd02973 TRX_GRX_like Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All members contain a redox-active CXXC motif and may function as PDOs. The archaeal proteins Mj0307 and Mt807 show structures more similar to GRX, but activities more similar to TRX. Some members of the family are similar to PfPDO in that they contain a second CXXC motif located in a second TRX-fold subdomain at the N-terminus; the superimposable N- and C-terminal TRX subdomains form a compact structure. PfPDO is postulated to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI). The C-terminal CXXC motif of PfPDO is required for its oxidase, reductase and isomerase activities. Also included in the family is the C-terminal TRX-fold subdomain of the N-terminal domain (NTD) of bacteri
Probab=38.56 E-value=33 Score=22.09 Aligned_cols=27 Identities=7% Similarity=0.052 Sum_probs=21.0
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
|.+++|+. +||.++..++.+++.+...
T Consensus 1 ~~v~~f~~-----~~C~~C~~~~~~l~~l~~~ 27 (67)
T cd02973 1 VNIEVFVS-----PTCPYCPDAVQAANRIAAL 27 (67)
T ss_pred CEEEEEEC-----CCCCCcHHHHHHHHHHHHh
Confidence 56888887 4788888888888887543
No 94
>PRK03100 sec-independent translocase; Provisional
Probab=38.21 E-value=13 Score=29.01 Aligned_cols=34 Identities=21% Similarity=0.304 Sum_probs=21.1
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhh
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQK 73 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~ 73 (223)
||-|+. =||||||+| .|+.+... ++-..+..+++
T Consensus 9 EllvI~--vVaLvv~GP-krLP~~~r---~lG~~vr~~R~ 42 (136)
T PRK03100 9 EMLVLV--VAGLVILGP-ERLPGAIR---WTARALRQARD 42 (136)
T ss_pred HHHHHH--HHHHhhcCc-hHHHHHHH---HHHHHHHHHHH
Confidence 555442 378999998 78887754 34445555543
No 95
>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=38.06 E-value=66 Score=25.87 Aligned_cols=14 Identities=14% Similarity=0.361 Sum_probs=9.0
Q ss_pred HHHHHHHHHhhHHH
Q 027470 121 LRGLEQNMSSSAAT 134 (223)
Q Consensus 121 L~~LE~~Le~~l~~ 134 (223)
|.++|..+..++.+
T Consensus 2 LeD~EsklN~AIER 15 (166)
T PF04880_consen 2 LEDFESKLNQAIER 15 (166)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 55677777766654
No 96
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=38.03 E-value=2.2e+02 Score=23.11 Aligned_cols=28 Identities=11% Similarity=0.166 Sum_probs=20.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHhH
Q 027470 120 ELRGLEQNMSSSAATVRERKFHVIKTQT 147 (223)
Q Consensus 120 EL~~LE~~Le~~l~~IR~RK~~ll~~qi 147 (223)
++..|+..|+...+.--.|+++|+.+=+
T Consensus 139 ~i~slk~EL~d~iKe~e~~emeLyyecM 166 (181)
T PF04645_consen 139 EIESLKSELNDLIKEREIREMELYYECM 166 (181)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888877777777777775433
No 97
>PRK01770 sec-independent translocase; Provisional
Probab=37.99 E-value=26 Score=28.35 Aligned_cols=35 Identities=11% Similarity=0.219 Sum_probs=22.9
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
||-|.+ =|+||||+| .+++...- ++-..|.+++++
T Consensus 8 ELllI~--vVaLlV~GP-erLP~~~r---~lg~~i~~~R~~ 42 (171)
T PRK01770 8 ELLLVF--VIGLVVLGP-QRLPVAVK---TVAGWIRALRSL 42 (171)
T ss_pred HHHHHH--HHHHHhcCc-hHHHHHHH---HHHHHHHHHHHH
Confidence 444443 378999999 78887754 355666666654
No 98
>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=37.84 E-value=1e+02 Score=23.80 Aligned_cols=55 Identities=2% Similarity=0.022 Sum_probs=32.7
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
++|++++..+-..+...-.........++.+++..+..+...|+.--..|...+.
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 5888888887765542211111222345666677777777777766666666553
No 99
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=37.69 E-value=4.5e+02 Score=26.68 Aligned_cols=29 Identities=21% Similarity=0.284 Sum_probs=19.2
Q ss_pred chhhhhhccccHHHHHHHHh-hhcccceeE
Q 027470 17 RQVTYSKRRNGIFKKAQELT-VLCDAKVSL 45 (223)
Q Consensus 17 R~vTfsKRr~GL~KKA~ELs-vLCdaeval 45 (223)
+..+.--+-..|=-|-++|| -|||+.|.+
T Consensus 438 k~~ql~~eletLn~k~qqls~kl~Dvr~~~ 467 (1118)
T KOG1029|consen 438 KKKQLQQELETLNFKLQQLSGKLQDVRVDI 467 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhheecc
Confidence 33444445556777778887 688888765
No 100
>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=37.69 E-value=2.1e+02 Score=23.03 Aligned_cols=29 Identities=14% Similarity=0.189 Sum_probs=18.1
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
....++++.++++....+.+...|..+.+
T Consensus 157 ~~~~~ei~~lk~el~~~~~~~~~LkkQ~~ 185 (192)
T PF05529_consen 157 KKLSEEIEKLKKELEKKEKEIEALKKQSE 185 (192)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666666666666666654
No 101
>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=37.59 E-value=84 Score=21.03 Aligned_cols=29 Identities=10% Similarity=0.303 Sum_probs=20.8
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 142 VIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 142 ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
-+..++..++++...+..+|..|..++..
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~ 49 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIER 49 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566777777777788888888777754
No 102
>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=36.38 E-value=1.7e+02 Score=21.28 Aligned_cols=49 Identities=6% Similarity=0.127 Sum_probs=28.6
Q ss_pred CCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 114 DDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
-++++.|+..+-...+. ..-..++.++++.+.++...++..-..|...+
T Consensus 57 ~G~sl~~i~~l~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 57 LGFPLEEIKEILDADND------DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred cCCCHHHHHHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788887777655442 34444556666666666666655555554443
No 103
>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=36.02 E-value=1.7e+02 Score=21.36 Aligned_cols=44 Identities=11% Similarity=0.243 Sum_probs=26.9
Q ss_pred HHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 125 EQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 125 E~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+...+.++..+..|+..+ ...|+.+.++...+++.-..+...+.
T Consensus 62 ~~~~~e~~~~l~~r~e~i-e~~i~~lek~~~~l~~~l~e~q~~l~ 105 (110)
T TIGR02338 62 KTDKEEAIQELKEKKETL-ELRVKTLQRQEERLREQLKELQEKIQ 105 (110)
T ss_pred eecHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555566665555544 66677777777666666666666553
No 104
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=35.75 E-value=1.8e+02 Score=22.03 Aligned_cols=54 Identities=4% Similarity=0.183 Sum_probs=32.4
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
++|++|+..+-...+..-... ....+++.+++..+..+...++.....|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (133)
T cd04787 57 GFSLKDIKEILSHADQGESPC-PMVRRLIEQRLAETERRIKELLKLRDRMQQAVS 110 (133)
T ss_pred CCCHHHHHHHHhhhccCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888777765443321111 122356677777777777777766666666553
No 105
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=35.71 E-value=2.2e+02 Score=24.12 Aligned_cols=14 Identities=36% Similarity=0.560 Sum_probs=11.8
Q ss_pred CHHHHHHHHHHHHh
Q 027470 117 TFEELRGLEQNMSS 130 (223)
Q Consensus 117 s~~EL~~LE~~Le~ 130 (223)
+++|+..+|+.|..
T Consensus 160 ~~~d~l~ie~~L~~ 173 (262)
T PF14257_consen 160 TVEDLLEIERELSR 173 (262)
T ss_pred CHHHHHHHHHHHHH
Confidence 89999999888773
No 106
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=35.58 E-value=4.7e+02 Score=26.25 Aligned_cols=24 Identities=17% Similarity=0.275 Sum_probs=10.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHH
Q 027470 120 ELRGLEQNMSSSAATVRERKFHVI 143 (223)
Q Consensus 120 EL~~LE~~Le~~l~~IR~RK~~ll 143 (223)
++..+.+.|+..+..+.++|.+++
T Consensus 540 e~~~~~~~l~~~~~~l~~~~~~~~ 563 (771)
T TIGR01069 540 EQEKLKKELEQEMEELKERERNKK 563 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444443
No 107
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=35.58 E-value=3.5e+02 Score=25.42 Aligned_cols=33 Identities=18% Similarity=0.393 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027470 134 TVRERKFHVIKTQTDTYKKKVRNLEERHGNILL 166 (223)
Q Consensus 134 ~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~ 166 (223)
.+-++|.+.+.+.++.+.+..+.+.|+|+.|..
T Consensus 378 k~~e~k~~q~q~k~~k~~kel~~~~E~n~~l~k 410 (493)
T KOG0804|consen 378 KIVERKLQQLQTKLKKCQKELKEEREENKKLIK 410 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334455555566666666666666666666654
No 108
>PRK00708 sec-independent translocase; Provisional
Probab=35.55 E-value=34 Score=28.61 Aligned_cols=35 Identities=20% Similarity=0.272 Sum_probs=21.8
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
||-|+. =|+||||+| .+|++..- ++-..+.+++++
T Consensus 8 ELlvI~--vVaLvV~GP-krLP~~~R---~lGk~v~k~R~~ 42 (209)
T PRK00708 8 ELLVIA--IVLIVVVGP-KDLPPMLR---AFGKMTARMRKM 42 (209)
T ss_pred HHHHHH--HHHHhhcCc-hHHHHHHH---HHHHHHHHHHHH
Confidence 454442 368899999 77777643 345556666554
No 109
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=35.20 E-value=1.6e+02 Score=29.18 Aligned_cols=82 Identities=16% Similarity=0.300 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHH------HhhcCCCCCCC--CHHHHHHHHHHHHhhHHHHHHHHHHH--------------HH
Q 027470 87 MQESYRKLKEINNKLRKDI------RQRMGEDLDDL--TFEELRGLEQNMSSSAATVRERKFHV--------------IK 144 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~------r~~~GedL~~L--s~~EL~~LE~~Le~~l~~IR~RK~~l--------------l~ 144 (223)
++.++..++.+|+.|+..+ |+..-..+..| -+.|.+..-..+|.-|..-|.+|.+- -.
T Consensus 458 lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r~ 537 (697)
T PF09726_consen 458 LKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKEEEEKAARALAQAQATRQ 537 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhccc
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 145 TQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 145 ~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+-.+.++.+.+.|+.|-..|+.++
T Consensus 538 e~~e~~r~r~~~lE~E~~~lr~el 561 (697)
T PF09726_consen 538 ECAESCRQRRRQLESELKKLRREL 561 (697)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHH
No 110
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=35.11 E-value=1.8e+02 Score=28.96 Aligned_cols=87 Identities=16% Similarity=0.244 Sum_probs=44.4
Q ss_pred ceeEEEecCCCCcccccCCcc---hhh----HHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 027470 42 KVSLIMFSNTGKFHEYISPTT---TTK----KMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLD 114 (223)
Q Consensus 42 evalIvfs~~gk~~~~~sps~---~~~----~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~ 114 (223)
++.|+.---.||-++|+||.. +++ ..+.+|+-..... ...+-.+...+..|..+++.|+.-- ...+.|
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~ldfEkpi~ele~ki~el~~~~-~~~~~~-- 123 (762)
T PLN03229 49 DLAVVAKIRKGKKHEYPWPADPDPNVKGGVLSYLSHFKPLKEKP--KPVTLDFEKPLVDLEKKIVDVRKMA-NETGLD-- 123 (762)
T ss_pred ceEEEeeeccccccCCCCCCCCCCCcccchhhHhhccCCCCCCC--CCCCcchhhHHHHHHHHHHHHHhhh-hccccc--
Confidence 455555556788899999873 222 3344444333211 1223334445666666666654321 111212
Q ss_pred CCCHHHHHHHHHHHHhhHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATV 135 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~I 135 (223)
+ -+|+..||..++.....|
T Consensus 124 -~-~~ei~~Le~k~~~~~~~i 142 (762)
T PLN03229 124 -F-SDQIISLESKYQQALKDL 142 (762)
T ss_pred -H-HHHHHHHHHHHHHHHHHH
Confidence 2 246777777766555444
No 111
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=35.10 E-value=3.5e+02 Score=27.51 Aligned_cols=126 Identities=14% Similarity=0.283 Sum_probs=68.1
Q ss_pred HHHhhhcccce---eEEEecCCCCcccccCCcc-hhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhh
Q 027470 33 QELTVLCDAKV---SLIMFSNTGKFHEYISPTT-TTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQR 108 (223)
Q Consensus 33 ~ELsvLCdaev---alIvfs~~gk~~~~~sps~-~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~ 108 (223)
..+.-+|+.+. .-+||-|.|....|-.... .=+.|+++-...- .....+..+......++...+.++..+. .
T Consensus 121 ~~i~~llgld~~~f~~~v~l~QGe~~~fl~~~~~er~~il~~l~~l~---~~e~~~~~l~e~~~~~~~~~e~l~~~~~-~ 196 (908)
T COG0419 121 EKIEELLGLDKDTFTRSVYLPQGEFDAFLKSKPKERKEILDELFGLE---KYEKLSELLKEVIKEAKAKIEELEGQLS-E 196 (908)
T ss_pred HHHHHHhCCCHHHHhHHheeccHhHHHHHhcCcHHHHHHHHHHhCch---hHHHHHHHHHHHHHHHHHHHHHHHHHHH-h
Confidence 44556677653 3478889997776655322 2356676654432 2233445556666666676677666555 1
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhh--HHHHHHHHHH-HHHHhHHHHHHHHHHHHHHHHHHHH
Q 027470 109 MGEDLDDLTFEELRGLEQNMSSS--AATVRERKFH-VIKTQTDTYKKKVRNLEERHGNILL 166 (223)
Q Consensus 109 ~GedL~~Ls~~EL~~LE~~Le~~--l~~IR~RK~~-ll~~qi~~lkkk~~~l~een~~L~~ 166 (223)
.-++... ++..++..++.. +..++..... .+..+++.+.+....|.+....+..
T Consensus 197 ~~e~~~~----~~~~~~~e~~~~~~l~e~~~~~~~~~l~~e~e~l~~~~~el~~~~~~~~~ 253 (908)
T COG0419 197 LLEDIED----LLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEKERLEE 253 (908)
T ss_pred hhhhhHH----HHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1111111 255555555555 3444443332 2566666666666666665555444
No 112
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=35.05 E-value=29 Score=25.93 Aligned_cols=27 Identities=33% Similarity=0.389 Sum_probs=21.3
Q ss_pred HHHHhhhcccceeEEEecCCCCcccccC
Q 027470 32 AQELTVLCDAKVSLIMFSNTGKFHEYIS 59 (223)
Q Consensus 32 A~ELsvLCdaevalIvfs~~gk~~~~~s 59 (223)
-.+|..|-|| +|...||++|++.+|-.
T Consensus 3 l~~Lm~lpGv-~AAg~Fs~~G~l~e~~G 29 (108)
T PF09941_consen 3 LDKLMKLPGV-VAAGEFSDDGKLVEYKG 29 (108)
T ss_pred HHHhhcCCCe-EEEEEECCCCeEEeeec
Confidence 4567777676 56778999999999876
No 113
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=34.51 E-value=4.4e+02 Score=26.01 Aligned_cols=32 Identities=25% Similarity=0.394 Sum_probs=23.4
Q ss_pred CCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHH
Q 027470 112 DLDDLTFEELRGLEQNMSSSAATVRERKFHVI 143 (223)
Q Consensus 112 dL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll 143 (223)
|..+||.+.|.+|-..|...-+..+.|..+++
T Consensus 153 D~~dlsl~kLeelr~~L~~L~~ek~~Rlekv~ 184 (660)
T KOG4302|consen 153 DESDLSLEKLEELREHLNELQKEKSDRLEKVL 184 (660)
T ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66788888888888887777666666665553
No 114
>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=34.17 E-value=1.8e+02 Score=21.30 Aligned_cols=51 Identities=14% Similarity=0.269 Sum_probs=27.5
Q ss_pred CCCHHHHHHHHHHHHhhH---HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSA---ATVRERKFHVIKTQTDTYKKKVRNLEERHGNILL 166 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l---~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~ 166 (223)
++|++|+..+-...+..- ... ....+++.+++..+..+...|...-..|..
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 477777777665544321 111 122355666666666666666555555543
No 115
>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=33.90 E-value=56 Score=21.93 Aligned_cols=27 Identities=26% Similarity=0.458 Sum_probs=19.5
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHhh
Q 027470 82 THYAKMQESYRKLKEINNKLRKDIRQR 108 (223)
Q Consensus 82 ~~~e~lq~el~kLk~~~~~L~~e~r~~ 108 (223)
.++..++.+++.++.+++.|+.++..+
T Consensus 24 ~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 24 QEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456677777888888888877776554
No 116
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=33.52 E-value=4.6e+02 Score=26.45 Aligned_cols=52 Identities=13% Similarity=0.238 Sum_probs=28.4
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+-+--|+.|--.|+..|..-.. -.+++....++|-|-...+.+||+.|...+
T Consensus 427 ~El~sLqSlN~~Lq~ql~es~k-~~e~lq~kneellk~~e~q~~Enk~~~~~~ 478 (861)
T PF15254_consen 427 LELFSLQSLNMSLQNQLQESLK-SQELLQSKNEELLKVIENQKEENKRLRKMF 478 (861)
T ss_pred hhhHHHHHHHHHHHHHHHHHHH-hHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444666655555555544322 223445555666666666667777766654
No 117
>PRK11637 AmiB activator; Provisional
Probab=33.33 E-value=3.8e+02 Score=24.50 Aligned_cols=26 Identities=8% Similarity=-0.005 Sum_probs=14.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 143 IKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 143 l~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+..+|..+++++..+.+.-..+...+
T Consensus 108 l~~eI~~~q~~l~~~~~~l~~rlra~ 133 (428)
T PRK11637 108 LNASIAKLEQQQAAQERLLAAQLDAA 133 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666666665555544444333
No 118
>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=33.29 E-value=2e+02 Score=21.49 Aligned_cols=54 Identities=11% Similarity=0.086 Sum_probs=31.5
Q ss_pred CCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 114 DDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
-++|++|+..+-...+..-.... .-..++.+++..+.++...|+.....|...+
T Consensus 56 ~G~sL~eI~~~l~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 109 (127)
T cd01108 56 LGFSLEEIRELLALWRDPSRASA-DVKALALEHIAELERKIAELQAMRRTLQQLA 109 (127)
T ss_pred cCCCHHHHHHHHHHHhCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34788888776554332211111 1235667777777777777766666666555
No 119
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=33.25 E-value=2.1e+02 Score=21.42 Aligned_cols=24 Identities=25% Similarity=0.403 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHH
Q 027470 118 FEELRGLEQNMSSSAATVRERKFH 141 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~RK~~ 141 (223)
++.+..||++|-..+..|-.-|.+
T Consensus 7 Fd~v~~le~~l~~l~~el~~lK~~ 30 (114)
T COG4467 7 FDQVDNLEEQLGVLLAELGGLKQH 30 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777777655555444433
No 120
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=33.23 E-value=1.5e+02 Score=21.45 Aligned_cols=75 Identities=11% Similarity=0.083 Sum_probs=37.1
Q ss_pred HHHHhhhcccceeEE---------EecCCCCcccccCCcchhhHHHHHHhhh---cCccccc-chhhhhHHHHHHHHHHH
Q 027470 32 AQELTVLCDAKVSLI---------MFSNTGKFHEYISPTTTTKKMFDQYQKS---LGVDLWS-THYAKMQESYRKLKEIN 98 (223)
Q Consensus 32 A~ELsvLCdaevalI---------vfs~~gk~~~~~sps~~~~~ii~RY~~~---~~~~~~~-~~~e~lq~el~kLk~~~ 98 (223)
..|||..|+++...| --.+.| .-.|.-++.++ .++.+..+. -+.+..- .-.-.|-++++.|+.++
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 ITEFCLHTGVSEEELNEIVGLGVIEPREIQ-ETTWVFDDHAA-IVVQRAVRLRHELALDWPGIAVALTLLDEIAHLKQEN 87 (101)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCeecCCCC-cccceECHHHH-HHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999876553 322222 22232232222 334444332 2222111 12234556777777777
Q ss_pred HHHHHHHHhh
Q 027470 99 NKLRKDIRQR 108 (223)
Q Consensus 99 ~~L~~e~r~~ 108 (223)
..|++.++.+
T Consensus 88 ~~L~~~l~~~ 97 (101)
T PRK10265 88 RLLRQRLSRF 97 (101)
T ss_pred HHHHHHHHHH
Confidence 7777766544
No 121
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=33.22 E-value=5.9 Score=29.62 Aligned_cols=37 Identities=24% Similarity=0.522 Sum_probs=27.5
Q ss_pred chhhhhhccccHH---------HHHHHHhhhcccceeEEEecCCCC
Q 027470 17 RQVTYSKRRNGIF---------KKAQELTVLCDAKVSLIMFSNTGK 53 (223)
Q Consensus 17 R~vTfsKRr~GL~---------KKA~ELsvLCdaevalIvfs~~gk 53 (223)
+..-||+-|+-|- -|+.|+.+-||.|+-+++..+.|.
T Consensus 50 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 50 EAHYYSRSRQELWTKGETSGHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred eEEEEEcchhhheccccccCceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 3444566666454 456899999999999999999664
No 122
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=33.22 E-value=2.7e+02 Score=22.70 Aligned_cols=21 Identities=24% Similarity=-0.086 Sum_probs=13.0
Q ss_pred hhhcccceeEEEecCCCCccc
Q 027470 36 TVLCDAKVSLIMFSNTGKFHE 56 (223)
Q Consensus 36 svLCdaevalIvfs~~gk~~~ 56 (223)
+.-|=|+.+-|+|-..||.--
T Consensus 45 ~Ld~La~~Gki~~K~YGKqKI 65 (201)
T KOG4603|consen 45 TLDQLAQQGKIKEKMYGKQKI 65 (201)
T ss_pred HHHHHHHcCchhHHhccceee
Confidence 344667777777777665433
No 123
>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=33.14 E-value=2e+02 Score=21.22 Aligned_cols=53 Identities=13% Similarity=0.166 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-.....+-... ....+++.++++.+.++...|......|...+
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (123)
T cd04770 57 GFSLAEIRELLSLRDDGAAPC-AEVRALLEEKLAEVEAKIAELQALRAELAGLL 109 (123)
T ss_pred CCCHHHHHHHHHhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477788777765544321111 12235556666666666666666555555544
No 124
>smart00338 BRLZ basic region leucin zipper.
Probab=32.84 E-value=1.4e+02 Score=19.44 Aligned_cols=28 Identities=11% Similarity=0.313 Sum_probs=19.5
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+.+..+...|+.++..|..++..|...+
T Consensus 36 ~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 36 EQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455677777777777777777776654
No 125
>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=32.47 E-value=84 Score=27.57 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=31.7
Q ss_pred eeeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhh
Q 027470 7 EIKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQK 73 (223)
Q Consensus 7 ~ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~ 73 (223)
.+..|.|.+.|..+=|+ .||..|.+ +.| .|-+. ..|++|++.|..
T Consensus 25 n~~li~n~tqr~t~~sR-------------~L~Ecel~---~~p-----~Y~nD-pEmK~iid~~n~ 69 (295)
T TIGR01478 25 NVSYIQNNTQMTSTKSR-------------LLAEIQRP---KNP-----HYHND-PELKEIIDKLNE 69 (295)
T ss_pred ceecccCccccccccce-------------ehhhhccc---cCC-----CCCCc-HHHHHHHHHHhH
Confidence 46678888888776332 68888876 444 44443 369999999876
No 126
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=32.24 E-value=1.6e+02 Score=23.15 Aligned_cols=54 Identities=2% Similarity=-0.010 Sum_probs=28.8
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-......-...-.....++.++++.+.++...|...-..|...+
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 478888887766543221111112234455556666666666666555555544
No 127
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=32.22 E-value=6.6e+02 Score=27.23 Aligned_cols=119 Identities=13% Similarity=0.237 Sum_probs=0.0
Q ss_pred EEEecCCCCcccccCCcchhhHHHHHHhhhcC---cccccchhhhhHHHHHHHHHHH------------------HHHHH
Q 027470 45 LIMFSNTGKFHEYISPTTTTKKMFDQYQKSLG---VDLWSTHYAKMQESYRKLKEIN------------------NKLRK 103 (223)
Q Consensus 45 lIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~---~~~~~~~~e~lq~el~kLk~~~------------------~~L~~ 103 (223)
+++|.++|++..|.+ +.+||+.|-..-- ..........++.++..|..+. ..+..
T Consensus 963 m~~~d~~g~i~~~~~----~~~Il~~f~~~Rl~~y~kR~~~~l~~l~~~~~~l~~~~rFI~~vi~~~i~i~~~~k~~l~~ 1038 (1388)
T PTZ00108 963 MVLFDENGKIKKYSD----ALDILKEFYLVRLDLYKKRKEYLLGKLERELARLSNKVRFIKHVINGELVITNAKKKDLVK 1038 (1388)
T ss_pred EEEEeCCCCcceeCC----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCeeEEccCCHHHHHH
Q ss_pred HHHhh------------------------------------------------cCCCCCCCCHHHHHHHHHHHHhhHHHH
Q 027470 104 DIRQR------------------------------------------------MGEDLDDLTFEELRGLEQNMSSSAATV 135 (223)
Q Consensus 104 e~r~~------------------------------------------------~GedL~~Ls~~EL~~LE~~Le~~l~~I 135 (223)
++..+ ++-.|-+|+.+....|..+++.....+
T Consensus 1039 ~L~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ydYLL~M~i~sLT~e~v~kL~~e~~~~~~e~ 1118 (1388)
T PTZ00108 1039 ELKKLGYVRFKDIIKKKSEKITAEEEEGAEEDDEADDEDDEEELGAAVSYDYLLSMPIWSLTKEKVEKLNAELEKKEKEL 1118 (1388)
T ss_pred HHHHcCCCccchhhhhcccccccccccccccccccccccccccccchhhhHHHhcCCHHhhhHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHH----HHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 136 RERKFH----VIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 136 R~RK~~----ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
..-+.. ++.+.++.+.++....+++-.....+
T Consensus 1119 ~~L~~~t~~~lw~~DL~~~~~~~~~~~~~~~~~~~~ 1154 (1388)
T PTZ00108 1119 EKLKNTTPKDMWLEDLDKFEEALEEQEEVEEKEIAK 1154 (1388)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 128
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=32.12 E-value=2e+02 Score=22.03 Aligned_cols=53 Identities=9% Similarity=0.103 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+++++|+.++-...+..-..... ..+++.+++..+..+...|+..-..|...+
T Consensus 57 G~sl~eI~~~l~~~~~~~~~~~~-~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (135)
T PRK10227 57 GFNLEESGELVNLFNDPQRHSAD-VKRRTLEKVAEIERHIEELQSMRDQLLALA 109 (135)
T ss_pred CCCHHHHHHHHHhhccCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58888887776544321111111 124556677777777777777777776655
No 129
>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=32.05 E-value=2.1e+02 Score=21.19 Aligned_cols=54 Identities=13% Similarity=0.222 Sum_probs=29.5
Q ss_pred CCCHHHHHHHHHHHHhhHHHH--HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATV--RERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~I--R~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|+++...+-...+.+-... .....+++.+++..+..+...+++.-..|...+
T Consensus 55 G~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~ 110 (118)
T cd04776 55 GFSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAE 110 (118)
T ss_pred CCCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777776665544322111 112234566677777777666666555555544
No 130
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=31.98 E-value=70 Score=25.91 Aligned_cols=13 Identities=31% Similarity=0.536 Sum_probs=9.8
Q ss_pred cccceeEEEecCC
Q 027470 39 CDAKVSLIMFSNT 51 (223)
Q Consensus 39 CdaevalIvfs~~ 51 (223)
-||..|+|||-|+
T Consensus 11 ~~~k~C~IC~Kps 23 (182)
T PF08432_consen 11 TDAKACFICYKPS 23 (182)
T ss_pred CCCCceeEecCCC
Confidence 4788888888774
No 131
>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=31.90 E-value=1.1e+02 Score=24.91 Aligned_cols=65 Identities=18% Similarity=0.208 Sum_probs=37.4
Q ss_pred cceeEEEe--cCCCCcccccCCcc--------hhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhh
Q 027470 41 AKVSLIMF--SNTGKFHEYISPTT--------TTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQR 108 (223)
Q Consensus 41 aevalIvf--s~~gk~~~~~sps~--------~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~ 108 (223)
+|++||+. |||||=|-.-++.. +..-++.||...... ......-...+..++.+...+.+.++++
T Consensus 96 veaGLI~rrDS~NgkRy~~R~~~G~I~~A~GfdLsPL~~R~~El~~~---a~~~~~~~~~~r~lr~~it~~rR~i~~l 170 (177)
T PF03428_consen 96 VEAGLIVRRDSPNGKRYARRDRGGRIVEAFGFDLSPLIARAEELAAL---AEAARAERRALRRLRRRITLLRRDIRKL 170 (177)
T ss_pred HHCCCeeeccCCCCCccCccCCCCCEEeEeCcCHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677776 58999887655531 445667777654321 1222233445556666666666666554
No 132
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=31.87 E-value=1.4e+02 Score=19.59 Aligned_cols=39 Identities=23% Similarity=0.374 Sum_probs=26.4
Q ss_pred hhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhh
Q 027470 64 TKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQR 108 (223)
Q Consensus 64 ~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~ 108 (223)
+...++||..+- .+...+..+...|+++|..|+.-+.++
T Consensus 21 L~~~l~rY~~vL------~~R~~l~~e~~~L~~qN~eLr~lLkqY 59 (60)
T PF14775_consen 21 LENFLKRYNKVL------LDRAALIQEKESLEQQNEELRSLLKQY 59 (60)
T ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 556677777653 123456677788899999888766654
No 133
>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=31.79 E-value=3.7e+02 Score=23.90 Aligned_cols=39 Identities=23% Similarity=0.374 Sum_probs=23.7
Q ss_pred HHHHHHHhhHHHHHHHHHHHHH----Hh---HHHHHHHHHHHHHHH
Q 027470 123 GLEQNMSSSAATVRERKFHVIK----TQ---TDTYKKKVRNLEERH 161 (223)
Q Consensus 123 ~LE~~Le~~l~~IR~RK~~ll~----~q---i~~lkkk~~~l~een 161 (223)
-|-+.|...|..+|.-|.++=. +| ++.|+++...|+.+-
T Consensus 106 ~ltn~L~rkl~qLr~EK~~lE~~Le~EqE~~V~kL~k~i~~Le~e~ 151 (310)
T PF09755_consen 106 FLTNDLSRKLNQLRQEKVELENQLEQEQEYLVNKLQKKIERLEKEK 151 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 3445677777777777765422 22 567777776665443
No 134
>smart00340 HALZ homeobox associated leucin zipper.
Probab=31.03 E-value=1.1e+02 Score=18.86 Aligned_cols=23 Identities=13% Similarity=0.258 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 027470 148 DTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 148 ~~lkkk~~~l~een~~L~~~~~~ 170 (223)
+.||+=-..|-+||.+|..++.+
T Consensus 8 e~LKrcce~LteeNrRL~ke~~e 30 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQE 30 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777778899999999999864
No 135
>smart00415 HSF heat shock factor.
Probab=30.86 E-value=41 Score=24.56 Aligned_cols=39 Identities=23% Similarity=0.357 Sum_probs=30.1
Q ss_pred hhccccee-EEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 37 VLCDAKVS-LIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 37 vLCdaeva-lIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
+|.|.+.. +|-.+++|+.+....|..-.+.|+.+|-+++
T Consensus 12 ~l~~~~~~~iI~W~~~G~~f~I~d~~~f~~~vLp~~Fk~~ 51 (105)
T smart00415 12 LVEDPSTDKIISWSPSGKSFVIWDPEEFAKNLLPRYFKHN 51 (105)
T ss_pred HHhCCCCCCEEEECCCCCEEEEcCHHHHHHHHHHHhcCCC
Confidence 56677776 8889999998887777644577899987665
No 136
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=30.80 E-value=9.3 Score=25.75 Aligned_cols=37 Identities=19% Similarity=0.336 Sum_probs=27.2
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcC
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLG 76 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~ 76 (223)
||-|++= |+||||+| +|++..+. ++-..+..|++...
T Consensus 8 ElliI~v--IalllfGp-~kLP~l~r---~lGk~ir~fkk~~~ 44 (64)
T PRK14860 8 ELIVILV--IALVVFGP-AKLPQLGQ---ALGGAIRNFKKASN 44 (64)
T ss_pred HHHHHHH--HHHhhcCc-hHHHHHHH---HHHHHHHHHHHHcc
Confidence 5655543 78999999 69998865 46677888887654
No 137
>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=30.55 E-value=54 Score=23.02 Aligned_cols=33 Identities=15% Similarity=0.315 Sum_probs=24.4
Q ss_pred ceeEEEecCCC--CcccccCCcchhhHHHHHHhhhc
Q 027470 42 KVSLIMFSNTG--KFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 42 evalIvfs~~g--k~~~~~sps~~~~~ii~RY~~~~ 75 (223)
.+-|+|++.+| |++.+. |+.+...++.+|....
T Consensus 8 rl~VLVv~n~c~~kL~~~~-~~~D~~~i~r~f~Tpd 42 (83)
T PF10623_consen 8 RLQVLVVSNHCERKLFDTK-PDNDPDKIARRFCTPD 42 (83)
T ss_pred eEEEEEEeCCcceeEeecC-CCCCHHHHHhhccCcC
Confidence 46789999988 555544 4458889999998643
No 138
>PRK00404 tatB sec-independent translocase; Provisional
Probab=30.11 E-value=43 Score=26.19 Aligned_cols=27 Identities=11% Similarity=0.176 Sum_probs=17.0
Q ss_pred ceeEEEecCCCCcccccCCcchhhHHHHHHh
Q 027470 42 KVSLIMFSNTGKFHEYISPTTTTKKMFDQYQ 72 (223)
Q Consensus 42 evalIvfs~~gk~~~~~sps~~~~~ii~RY~ 72 (223)
=|+||||+| .|+.+..- ++-..+.+++
T Consensus 14 VVaLlV~GP-kkLP~laR---~lG~~i~~~r 40 (141)
T PRK00404 14 LVALLVLGP-ERLPGAAR---TAGLWIGRLK 40 (141)
T ss_pred HHHHHhcCc-hHHHHHHH---HHHHHHHHHH
Confidence 378899998 77777654 2334444444
No 139
>PF07083 DUF1351: Protein of unknown function (DUF1351); InterPro: IPR009785 This entry is represented by Lactobacillus prophage Lj928, Orf309. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several bacterial and phage proteins of around 230 residues in length. The function of this family is unknown.
Probab=30.04 E-value=3.1e+02 Score=22.77 Aligned_cols=53 Identities=15% Similarity=0.248 Sum_probs=32.4
Q ss_pred hhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCC
Q 027470 63 TTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMGEDLDD 115 (223)
Q Consensus 63 ~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~GedL~~ 115 (223)
.+..+++.|....-+.-.-.........++++.+.++.-++++..-+-.+++.
T Consensus 23 ~v~~~~~~Y~~~vvTee~ik~aKk~rA~LNKl~k~id~~RK~ikk~~~~P~~~ 75 (215)
T PF07083_consen 23 EVDEAVEKYKGYVVTEENIKDAKKDRAELNKLKKAIDDKRKEIKKEYSKPIKE 75 (215)
T ss_pred HHHHHHHHhCCcccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHH
Confidence 46778888876543221112233456778888888888788876655544443
No 140
>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=29.94 E-value=2.4e+02 Score=21.15 Aligned_cols=54 Identities=9% Similarity=0.123 Sum_probs=31.6
Q ss_pred CCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 114 DDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
-++|++|+..+-...+..-... ..-.+++.++++.+.++...|+.....|....
T Consensus 56 lG~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02047 56 LDMSLAEIRQLLRYQDKPEKSC-SDVNALLDEHISHVRARIIKLQALIEQLVDLR 109 (127)
T ss_pred cCCCHHHHHHHHHhhhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577888777654332221111 12234667777788887777777776666544
No 141
>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=29.83 E-value=8.7 Score=24.17 Aligned_cols=36 Identities=25% Similarity=0.385 Sum_probs=24.7
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
||-|..= |++++|+| +|+++.+. ++-+.+..|++..
T Consensus 6 ElliI~v--i~llvfGp-~kLP~~~r---~lG~~i~~fk~~~ 41 (47)
T TIGR01411 6 EWLIILV--VILLLFGA-KKLPELGR---DLGKAIKEFKKAL 41 (47)
T ss_pred HHHHHHH--HHHHhcCc-hHhHHHHH---HHHHHHHHHHHHh
Confidence 5555433 68999998 88888865 3556677776653
No 142
>PF15066 CAGE1: Cancer-associated gene protein 1 family
Probab=29.70 E-value=3.8e+02 Score=25.36 Aligned_cols=25 Identities=28% Similarity=0.352 Sum_probs=16.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcC
Q 027470 86 KMQESYRKLKEINNKLRKDIRQRMG 110 (223)
Q Consensus 86 ~lq~el~kLk~~~~~L~~e~r~~~G 110 (223)
.|.+-+.+|+..|.+-+..|..+-+
T Consensus 314 aLNEvL~kLk~tn~kQq~~IqdLq~ 338 (527)
T PF15066_consen 314 ALNEVLQKLKHTNRKQQNRIQDLQC 338 (527)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHhhh
Confidence 4566777888877776666554443
No 143
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=29.51 E-value=9.6 Score=24.48 Aligned_cols=29 Identities=17% Similarity=0.494 Sum_probs=22.3
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
|++|||+| +|+++.+. ++-+-+..|++..
T Consensus 14 i~llvFGp-~KLP~l~r---~lG~~i~~Fk~~~ 42 (51)
T PRK01470 14 IIFVLFGA-GKLPQVMS---DLAKGLKAFKDGM 42 (51)
T ss_pred HHHHhcCc-hHhHHHHH---HHHHHHHHHHHHh
Confidence 78999999 79998865 4556777777654
No 144
>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=29.47 E-value=2.1e+02 Score=20.40 Aligned_cols=15 Identities=20% Similarity=0.441 Sum_probs=11.3
Q ss_pred CCCHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMS 129 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le 129 (223)
+++++++..+-....
T Consensus 57 g~~l~~i~~~~~~~~ 71 (103)
T cd01106 57 GFSLKEIKELLKDPS 71 (103)
T ss_pred CCCHHHHHHHHHcCc
Confidence 688888888776653
No 145
>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=29.39 E-value=41 Score=19.29 Aligned_cols=26 Identities=19% Similarity=0.372 Sum_probs=17.4
Q ss_pred HhhhcccceeEEEecCCCC--cccccCC
Q 027470 35 LTVLCDAKVSLIMFSNTGK--FHEYISP 60 (223)
Q Consensus 35 LsvLCdaevalIvfs~~gk--~~~~~sp 60 (223)
|+--|++-|-+-||...|. .|-.+.|
T Consensus 3 lcpkcgvgvl~pvy~~kgeikvfrcsnp 30 (36)
T PF09151_consen 3 LCPKCGVGVLEPVYNQKGEIKVFRCSNP 30 (36)
T ss_dssp B-TTTSSSBEEEEE-TTS-EEEEEES-T
T ss_pred cCCccCceEEEEeecCCCcEEEEEcCCC
Confidence 5667999999999999994 5544444
No 146
>PRK09343 prefoldin subunit beta; Provisional
Probab=29.18 E-value=2.5e+02 Score=21.06 Aligned_cols=42 Identities=17% Similarity=0.299 Sum_probs=25.8
Q ss_pred HHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 127 NMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 127 ~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
..+.+...|..|+.- +...|+.+.++...+++....+...+.
T Consensus 68 d~~e~~~~l~~r~E~-ie~~ik~lekq~~~l~~~l~e~q~~l~ 109 (121)
T PRK09343 68 DKTKVEKELKERKEL-LELRSRTLEKQEKKLREKLKELQAKIN 109 (121)
T ss_pred cHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455444433 347777777777777777777776664
No 147
>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=29.11 E-value=30 Score=24.26 Aligned_cols=29 Identities=14% Similarity=0.239 Sum_probs=20.8
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
||||||+| .|+++.+- ++-..+.++++..
T Consensus 14 vallv~GP-~kLP~~~r---~~G~~i~~~r~~~ 42 (80)
T TIGR01410 14 VALVVLGP-ERLPVAIR---AVGKFVRRLRGMA 42 (80)
T ss_pred HHHheECc-hHHHHHHH---HHHHHHHHHHHhh
Confidence 67999999 78887754 3556677776653
No 148
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=29.09 E-value=3.6e+02 Score=24.40 Aligned_cols=50 Identities=24% Similarity=0.333 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 118 FEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
.++|+.--++|-+.|..+|. -.-.+...++.|..=++.+.|||..|.-++
T Consensus 101 ~~qL~~qnqkL~nqL~~~~~-vf~k~k~~~q~LE~li~~~~EEn~~lqlqL 150 (401)
T PF06785_consen 101 SEQLQSQNQKLKNQLFHVRE-VFMKTKGDIQHLEGLIRHLREENQCLQLQL 150 (401)
T ss_pred HHHHHHhHHHHHHHHHHHHH-HHHHhcchHHHHHHHHHHHHHHHHHHHHhH
Confidence 34555555556666666655 222233444555555555666666666555
No 149
>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=29.04 E-value=44 Score=22.31 Aligned_cols=30 Identities=10% Similarity=0.480 Sum_probs=20.7
Q ss_pred cccceeEEEecCCCCcccccCCcchhhHHHHH
Q 027470 39 CDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQ 70 (223)
Q Consensus 39 CdaevalIvfs~~gk~~~~~sps~~~~~ii~R 70 (223)
|+..-.++|. |.|..|...+|. ++.+|++.
T Consensus 47 C~~~P~v~i~-~~~~~y~~v~~~-~~~~il~~ 76 (77)
T cd02980 47 CGLAPVVVVY-PDGVWYGRVTPE-DVEEIVEE 76 (77)
T ss_pred ccCCCEEEEe-CCCeEEccCCHH-HHHHHHHh
Confidence 5555555555 678888888875 67788775
No 150
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=28.75 E-value=3e+02 Score=21.87 Aligned_cols=25 Identities=20% Similarity=0.418 Sum_probs=16.2
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 144 KTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 144 ~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
.++...|..++..|+++|+.|..++
T Consensus 88 ~~e~k~L~~~v~~Le~e~r~L~~~~ 112 (158)
T PF09744_consen 88 RQERKDLQSQVEQLEEENRQLELKL 112 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4445566666777777777777555
No 151
>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=28.74 E-value=1.7e+02 Score=19.91 Aligned_cols=29 Identities=7% Similarity=0.275 Sum_probs=24.1
Q ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 142 VIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 142 ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
.+..++..++++...++.+|..|..++..
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L~~ei~~ 56 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDLQLEVAE 56 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55677888899999999999999988853
No 152
>PHA02414 hypothetical protein
Probab=28.63 E-value=2e+02 Score=21.05 Aligned_cols=45 Identities=24% Similarity=0.319 Sum_probs=32.9
Q ss_pred CHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 027470 117 TFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHG 162 (223)
Q Consensus 117 s~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~ 162 (223)
.+.||+++--.|+.-+. |.+-|..-+.-||+.|.+++..|.+-|.
T Consensus 37 av~ELRdivvslDKd~A-v~sEKqshi~yQi~~Lee~i~aL~~~n~ 81 (111)
T PHA02414 37 AVAELRDIVVSLDKDVA-VNSEKQSHIYYQIERLEEKISALAESNK 81 (111)
T ss_pred HHHHHHHHHHHhhhHhh-hhHHHhhHHHHHHHHHHHHHHHHHhccc
Confidence 35577777777776554 4566666777899999999988887664
No 153
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=28.49 E-value=2.3e+02 Score=21.73 Aligned_cols=54 Identities=13% Similarity=0.114 Sum_probs=28.7
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-......-..--.....++.++++.+.++...|++....|....
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLN 111 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577777777654321100000112234566677777777776666655655544
No 154
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=28.39 E-value=2.8e+02 Score=21.39 Aligned_cols=50 Identities=10% Similarity=0.149 Sum_probs=36.2
Q ss_pred CHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 117 TFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 117 s~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
.+.|++.+-...|..+++....-... -.+|..|+++...+...|..|..+
T Consensus 81 ~~~e~qsli~~yE~~~~kLe~e~~~K-dsei~~Lr~~L~~~~~~n~~Lekr 130 (131)
T PF04859_consen 81 EIQEQQSLIKTYEIVVKKLEAELRAK-DSEIDRLREKLDELNRANKSLEKR 130 (131)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHhhcc
Confidence 56788888777777777665433322 467789999999888888887654
No 155
>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=28.26 E-value=2.6e+02 Score=20.91 Aligned_cols=54 Identities=9% Similarity=0.170 Sum_probs=32.9
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+++++|+..+-...+..-... ..-.+++.+++..+.++...|+.....|...+.
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (126)
T cd04785 57 GFSLEEIRALLALSDRPDRSC-AEADAIARAHLADVRARIADLRRLEAELKRMVA 110 (126)
T ss_pred CCCHHHHHHHHhhhhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888877655433211111 122456677777888887777777777766653
No 156
>KOG2702 consensus Predicted panthothenate kinase/uridine kinase-related protein [Nucleotide transport and metabolism; Coenzyme transport and metabolism]
Probab=28.18 E-value=1.5e+02 Score=25.72 Aligned_cols=55 Identities=18% Similarity=0.202 Sum_probs=36.2
Q ss_pred cceeEEEecCCCCcccccCCcchhhHHHHHHhhhc----CcccccchhhhhHHHHHHHHH
Q 027470 41 AKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL----GVDLWSTHYAKMQESYRKLKE 96 (223)
Q Consensus 41 aevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~----~~~~~~~~~e~lq~el~kLk~ 96 (223)
-+||||..|+.|+.+.-.-.. ...=+.+||...- ..-.|+....-|..-++++|.
T Consensus 23 ~~~c~~~~~~~~~~~~~~~e~-~~~i~~~k~~~~~~~~~~v~~~~~~l~pm~~~v~~~k~ 81 (323)
T KOG2702|consen 23 YRVCVILVGSPGSGKSTIAEE-LCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKT 81 (323)
T ss_pred cceEEEEecCCCccchhhHHH-HhHHHhhhhhHHhhcCCceEEecccchhHHHHHHHhhc
Confidence 479999999999887654433 2345678887642 345677666666666665543
No 157
>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=28.10 E-value=97 Score=25.87 Aligned_cols=47 Identities=9% Similarity=0.190 Sum_probs=35.4
Q ss_pred ccHHHHH----HHHhhhcccceeEEEecCC---CCcccccCCcchhhHHHHHHhhh
Q 027470 26 NGIFKKA----QELTVLCDAKVSLIMFSNT---GKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 26 ~GL~KKA----~ELsvLCdaevalIvfs~~---gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
+-|+.|- .|++|=+|-++.|++.+|+ +..-.|+... ++.|+..|+..
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa~p--L~~vv~~~~~~ 88 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAAP--LENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecchh--HHHHHHHHHHH
Confidence 4466654 7999999999999999984 3444576643 78899998765
No 158
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=28.07 E-value=7.2e+02 Score=26.56 Aligned_cols=53 Identities=19% Similarity=0.115 Sum_probs=29.2
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHH------HHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFH------VIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~------ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
+.++++|..--..++..+..++..-.. -+..+|..|+.++..+.++...+...
T Consensus 821 ~~s~~ele~ei~~~~~el~~l~~~~e~l~~e~e~~~~eI~~Lq~ki~el~~~klkl~~~ 879 (1311)
T TIGR00606 821 DRTVQQVNQEKQEKQHELDTVVSKIELNRKLIQDQQEQIQHLKSKTNELKSEKLQIGTN 879 (1311)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357777777666666666666432222 22456666655555555544444443
No 159
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=27.95 E-value=2.3e+02 Score=21.71 Aligned_cols=55 Identities=9% Similarity=0.077 Sum_probs=30.1
Q ss_pred CCCCHHHHHHHHHHHHhhH-HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 114 DDLTFEELRGLEQNMSSSA-ATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~l-~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
.++|++|+..+-..+...- ..+. ....++..+...+.++...|+.-...|...+.
T Consensus 56 ~G~sl~eI~~~l~~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~i~ 111 (139)
T cd01110 56 LGLSLAEIAEALATLPEDRTPTKA-DWERLSRAWRDRLDERIAELQQLRDQLDGCIG 111 (139)
T ss_pred cCCCHHHHHHHHHHhccCCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3588888888665443221 1111 12234455556666666666666666666653
No 160
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=27.93 E-value=2.5e+02 Score=20.79 Aligned_cols=51 Identities=20% Similarity=0.286 Sum_probs=24.8
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
|+++=|-..-+.|...+....++-..+ .++++.++++.+.+.++.+.|+++
T Consensus 66 l~ieYLl~~q~~L~~~~~~l~~~~~~~-~~~~~~l~~~~~~~~~~~k~lk~E 116 (118)
T PF13815_consen 66 LSIEYLLHCQEYLSSQLEQLEERLQEL-QQEIEKLKQKLKKQKEEIKKLKKE 116 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444444444554444444333322 455555555555555555555443
No 161
>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=27.77 E-value=2.8e+02 Score=21.22 Aligned_cols=51 Identities=12% Similarity=0.238 Sum_probs=27.7
Q ss_pred CCCHHHHHHHHHHHHh---hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSS---SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILL 166 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~---~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~ 166 (223)
++|++|+..+-...+. ....+ ..+.+.+..++..++.+.+.+.+-...|..
T Consensus 56 G~sL~eI~~~l~~~~~~~~~~~~~-~~~~~~l~~~i~~Le~~l~~L~~~~~~l~~ 109 (134)
T cd04779 56 RLSLAEIKDQLEEVQRSDKEQREV-AQEVQLVCDQIDGLEHRLKQLKPIASQTDR 109 (134)
T ss_pred CCCHHHHHHHHHhhccccchHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666655444332 12223 333445677777777777766665555543
No 162
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=27.70 E-value=2.3e+02 Score=27.29 Aligned_cols=100 Identities=22% Similarity=0.340 Sum_probs=0.0
Q ss_pred hhHHHHHHhhhcC-cccccchhhhhHHHHHHHHHHHHHHHHHH--HhhcCCCCCCCCHH------HHHHHHHHHHhhHHH
Q 027470 64 TKKMFDQYQKSLG-VDLWSTHYAKMQESYRKLKEINNKLRKDI--RQRMGEDLDDLTFE------ELRGLEQNMSSSAAT 134 (223)
Q Consensus 64 ~~~ii~RY~~~~~-~~~~~~~~e~lq~el~kLk~~~~~L~~e~--r~~~GedL~~Ls~~------EL~~LE~~Le~~l~~ 134 (223)
|.+.-.+=+..++ ....+...+.-.++++.++.+++.|++.+ ..+.++|+.-++.+ +|..+...++.--+.
T Consensus 282 ~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~k~ 361 (581)
T KOG0995|consen 282 VSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGISGEDVERMNLERNKLKRELNKIQSELDRLSKE 361 (581)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 135 VRERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 135 IR~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
|-+++.+. .+..+.++++...+..--..|
T Consensus 362 vw~~~l~~-~~~f~~le~~~~~~~~l~~~i 390 (581)
T KOG0995|consen 362 VWELKLEI-EDFFKELEKKFIDLNSLIRRI 390 (581)
T ss_pred HHhHHHHH-HHHHHHHHHHHHHHHHHHHHH
No 163
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=27.40 E-value=5.7e+02 Score=24.66 Aligned_cols=21 Identities=38% Similarity=0.431 Sum_probs=11.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHH
Q 027470 84 YAKMQESYRKLKEINNKLRKD 104 (223)
Q Consensus 84 ~e~lq~el~kLk~~~~~L~~e 104 (223)
..+++.++.+|+.+++.++..
T Consensus 108 ra~~e~ei~kl~~e~~elr~~ 128 (546)
T KOG0977|consen 108 RAKLEIEITKLREELKELRKK 128 (546)
T ss_pred HHHHHHHHHHhHHHHHHHHHH
Confidence 344555556666665555443
No 164
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=27.39 E-value=1.5e+02 Score=25.91 Aligned_cols=39 Identities=21% Similarity=0.510 Sum_probs=28.7
Q ss_pred CcchhhhhhccccH---------HHHHHHHhhhcccceeEEEecCCCC
Q 027470 15 TNRQVTYSKRRNGI---------FKKAQELTVLCDAKVSLIMFSNTGK 53 (223)
Q Consensus 15 ~~R~vTfsKRr~GL---------~KKA~ELsvLCdaevalIvfs~~gk 53 (223)
+.+-|-||+-|+.| +-+.-.++|-||-|.-..+.-++|+
T Consensus 180 ~g~gvy~SRsR~~lW~KGetSgn~q~ll~i~vDCD~D~l~f~v~q~g~ 227 (359)
T KOG4311|consen 180 SGKGVYFSRSRSTLWTKGETSGNFQNLLDIYVDCDRDSLIFLVTQDGP 227 (359)
T ss_pred cCcceEEecccceeeeccccCcCceeeEEEeeccCccceEEEEecCCC
Confidence 45666777777744 4444578899999988888888876
No 165
>PRK13824 replication initiation protein RepC; Provisional
Probab=27.38 E-value=3.1e+02 Score=25.23 Aligned_cols=99 Identities=19% Similarity=0.238 Sum_probs=57.0
Q ss_pred HHHhhhcccceeEEEecCCCCcccccCCc--------chhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHH
Q 027470 33 QELTVLCDAKVSLIMFSNTGKFHEYISPT--------TTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKD 104 (223)
Q Consensus 33 ~ELsvLCdaevalIvfs~~gk~~~~~sps--------~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e 104 (223)
+-|+.|.+|-+-+.-=|||||=|-.-.+. .+..-++.||...... ..+...-...+..+++...-+++.
T Consensus 102 Rhla~LveaGLI~rrDSpNGKRyarr~~~G~i~~AfGfDLsPL~~R~~El~~~---A~~~~ae~~~~r~lr~~it~~rRd 178 (404)
T PRK13824 102 RHLAALVEAGLIIRRDSPNGKRYARKGRGGEIEEAFGFDLAPLLARAEEFEAL---AEQVAAERKALRRLRERLTLCRRD 178 (404)
T ss_pred HHHHHHHHCCCeEeecCCCCcccceeCCCCceeeeeccchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667766654333457899988664443 2445667777654321 112222345566778888888887
Q ss_pred HHhhcC----CCCCCCCHHHHHHHHHHHHhhHHHHHHH
Q 027470 105 IRQRMG----EDLDDLTFEELRGLEQNMSSSAATVRER 138 (223)
Q Consensus 105 ~r~~~G----edL~~Ls~~EL~~LE~~Le~~l~~IR~R 138 (223)
++++.. +.+.+ +...++..+...+..++.+
T Consensus 179 i~~li~~a~~~~~~~----~w~~~~~~~~~i~~~l~R~ 212 (404)
T PRK13824 179 IAKLIEAAIEEGVPG----DWEGVEQRFRAIVARLPRR 212 (404)
T ss_pred HHHHHHHHHhccCCC----cHHHHHHHHHHHHHHcCCC
Confidence 776652 22322 3666666677666666633
No 166
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=27.31 E-value=17 Score=27.08 Aligned_cols=29 Identities=14% Similarity=0.351 Sum_probs=21.7
Q ss_pred eeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 43 VSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 43 valIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
|+||||+| .|+++... ++-..+.+|++..
T Consensus 15 VallvfGP-kKLPelar---~lGk~i~~fk~~~ 43 (108)
T PRK14858 15 IALIVIGP-QKLPDLAR---SLGRGLAEFKKAT 43 (108)
T ss_pred HHHHhcCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 78899999 89988765 3556677777653
No 167
>PRK04863 mukB cell division protein MukB; Provisional
Probab=27.04 E-value=7.7e+02 Score=26.97 Aligned_cols=52 Identities=12% Similarity=0.162 Sum_probs=29.0
Q ss_pred CCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027470 112 DLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNI 164 (223)
Q Consensus 112 dL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L 164 (223)
.+.+||.++|...-..++..+......-..+ .+++..++.....+.+....+
T Consensus 431 ~~~~~SdEeLe~~LenF~aklee~e~qL~el-E~kL~~lea~leql~~~~~~l 482 (1486)
T PRK04863 431 GLPDLTADNAEDWLEEFQAKEQEATEELLSL-EQKLSVAQAAHSQFEQAYQLV 482 (1486)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999888888876665544332222 233334444444344433333
No 168
>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=26.92 E-value=2.4e+02 Score=23.24 Aligned_cols=30 Identities=13% Similarity=0.119 Sum_probs=16.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 138 RKFHVIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 138 RK~~ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
|+-+....+|..||.-..-|+++|+.|+.-
T Consensus 48 rrlQ~hl~EIR~LKe~NqkLqedNqELRdL 77 (195)
T PF10226_consen 48 RRLQQHLNEIRGLKEVNQKLQEDNQELRDL 77 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555566666666543
No 169
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=26.87 E-value=1.7e+02 Score=23.39 Aligned_cols=59 Identities=22% Similarity=0.259 Sum_probs=37.2
Q ss_pred cccchhhhhHHHHHHHHHHHHHHHHHHH--h-hcCCCCCCCCHHHHHHHHHHHHhhHHHHHH
Q 027470 79 LWSTHYAKMQESYRKLKEINNKLRKDIR--Q-RMGEDLDDLTFEELRGLEQNMSSSAATVRE 137 (223)
Q Consensus 79 ~~~~~~e~lq~el~kLk~~~~~L~~e~r--~-~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~ 137 (223)
+.....+.|+.+|.++.+++..|+..+. . ..++==-.|.+.-|..|-+.|..++..|..
T Consensus 26 LsEeE~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrkLGit~l~elkqnlskg~~~vq~ 87 (162)
T PF04201_consen 26 LSEEEREELRSELAKVEEEIQTLRQVLAAKERHCAELKRKLGITPLSELKQNLSKGWHDVQD 87 (162)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHCCchHHHHHHHHHHHhHhhhc
Confidence 4445567788889988888887765321 0 111111223456677888888888887764
No 170
>PF04697 Pinin_SDK_N: pinin/SDK conserved region; InterPro: IPR006787 This conserved region is found at the N-terminal of the member proteins. It is located adjacent and N-terminal to the pinin/SKD/memA domain IPR006786 from INTERPRO. Members of this family have very varied localisations within the eukaryotic cell. Pinin is known to localise at the desmosomes and is implicated in anchoring intermediate filaments to the desmosomal plaque [, ]. SDK2/3 is a dynamically localised nuclear protein thought to be involved in modulation of alternative pre-mRNA splicing []. MemA is a tumour marker preferentially expressed in human melanoma cell lines. A common feature of the members of this family is that they may all participate in regulating protein-protein interactions [].
Probab=26.75 E-value=96 Score=23.90 Aligned_cols=36 Identities=19% Similarity=0.261 Sum_probs=29.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHH
Q 027470 85 AKMQESYRKLKEINNKLRKDIRQRMGEDLDDLTFEE 120 (223)
Q Consensus 85 e~lq~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~E 120 (223)
..|+.++++.++.+..+...|+++.|.|.++.-.-+
T Consensus 6 ~~Lq~qlE~Ake~Lk~vDenIkKltGRDp~e~rp~q 41 (134)
T PF04697_consen 6 RTLQAQLEKAKESLKNVDENIKKLTGRDPSENRPGQ 41 (134)
T ss_pred HHHHHHHHHHHHHhhhhhHHHHHHhCCCccccCccc
Confidence 468889999999999999999999999877665443
No 171
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=26.58 E-value=78 Score=29.60 Aligned_cols=25 Identities=24% Similarity=0.422 Sum_probs=19.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 145 TQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 145 ~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
.|...|++|+..|+.+|..|..++.
T Consensus 286 aeNqeL~kkV~~Le~~N~sLl~qL~ 310 (472)
T KOG0709|consen 286 AENQELQKKVEELELSNRSLLAQLK 310 (472)
T ss_pred cCcHHHHHHHHHHhhccHHHHHHHH
Confidence 4556788888888888888887764
No 172
>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=26.51 E-value=4.6e+02 Score=23.31 Aligned_cols=23 Identities=9% Similarity=0.293 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 027470 147 TDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 147 i~~lkkk~~~l~een~~L~~~~~ 169 (223)
+..+-.+++.+.++|..|+.++.
T Consensus 256 ~~~~~~eek~ireEN~rLqr~L~ 278 (310)
T PF09755_consen 256 MAQYLQEEKEIREENRRLQRKLQ 278 (310)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445668889999999999885
No 173
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=26.49 E-value=3.5e+02 Score=21.87 Aligned_cols=46 Identities=17% Similarity=0.263 Sum_probs=26.4
Q ss_pred HHHHHHHhhHHHHHHHHHHHHH--HhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 123 GLEQNMSSSAATVRERKFHVIK--TQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 123 ~LE~~Le~~l~~IR~RK~~ll~--~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
.|+..|...-+.+-.-+++++. -+...+..|.+.|++||..|...+
T Consensus 134 ~l~~~l~ek~k~~e~l~DE~~~L~l~~~~~e~k~~~l~~En~~Lv~Rw 181 (194)
T PF08614_consen 134 DLEEELKEKNKANEILQDELQALQLQLNMLEEKLRKLEEENRELVERW 181 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333443333333333444433 234566788888999999887654
No 174
>PF04873 EIN3: Ethylene insensitive 3; InterPro: IPR006957 Ethylene insensitive 3 (EIN3) proteins are a family of plant DNA-binding proteins that regulate transcription in response to the gaseous plant hormone ethylene, and are essential for ethylene-mediated responses. In the presence of ethylene, dark-grown dicotyledonous seedlings undergo dramatic morphological changes collectively known as the 'triple response'. In Arabidopsis, these changes consist of a radial swelling of the hypocotyl, an exaggeration in the curvature of the apical hook, and the inhibition of cell elongation in the hypocotyl and root.; GO: 0005634 nucleus; PDB: 1WIJ_A.
Probab=26.42 E-value=22 Score=32.14 Aligned_cols=38 Identities=32% Similarity=0.419 Sum_probs=0.0
Q ss_pred cccHHHHHHHHhhhcccceeE-EEecCCCCcccccCCcc
Q 027470 25 RNGIFKKAQELTVLCDAKVSL-IMFSNTGKFHEYISPTT 62 (223)
Q Consensus 25 r~GL~KKA~ELsvLCdaeval-Ivfs~~gk~~~~~sps~ 62 (223)
-.||+|=+.=..-||+|..++ =+.+++||+.+|+||+.
T Consensus 53 qd~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~sl 91 (354)
T PF04873_consen 53 QDGILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPSL 91 (354)
T ss_dssp ---------------------------------------
T ss_pred hhHHHHhhccccccccCceeeecCCCCCCCccCCcCCcc
Confidence 357777777778899999999 78888999999999984
No 175
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=26.24 E-value=1.4e+02 Score=22.29 Aligned_cols=25 Identities=16% Similarity=0.202 Sum_probs=20.3
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 144 KTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 144 ~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
..||..+|+....+.|||..|+-+.
T Consensus 21 ~~el~~lK~~l~~lvEEN~~L~lEN 45 (114)
T COG4467 21 LAELGGLKQHLGSLVEENTALRLEN 45 (114)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHhhH
Confidence 4788889999888888888877654
No 176
>PHA01750 hypothetical protein
Probab=25.69 E-value=2.2e+02 Score=19.31 Aligned_cols=12 Identities=25% Similarity=0.506 Sum_probs=6.2
Q ss_pred HHHhHHHHHHHH
Q 027470 143 IKTQTDTYKKKV 154 (223)
Q Consensus 143 l~~qi~~lkkk~ 154 (223)
+.+|+..+++|.
T Consensus 61 l~~qv~eik~k~ 72 (75)
T PHA01750 61 LSRQVEEIKRKL 72 (75)
T ss_pred HHHHHHHHHHhh
Confidence 455555555553
No 177
>PF09432 THP2: Tho complex subunit THP2; InterPro: IPR018557 The THO complex plays a role in coupling transcription elongation to mRNA export. It is composed of subunits THP2, HPR1, THO2 and MFT1 [].
Probab=25.65 E-value=66 Score=24.73 Aligned_cols=27 Identities=15% Similarity=0.458 Sum_probs=17.9
Q ss_pred cceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 41 AKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 41 aevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
-+|..|+... |+.|. .+..|++.|...
T Consensus 24 ~~~~~~~vd~------~~pP~-el~~iLe~y~~~ 50 (132)
T PF09432_consen 24 PEVSEFVVDD------WNPPK-ELQSILEKYNTP 50 (132)
T ss_pred CCcceeeecC------CCCCH-HHHHHHHHHcCC
Confidence 3455555443 65554 799999999873
No 178
>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=25.62 E-value=1.7e+02 Score=18.06 Aligned_cols=32 Identities=16% Similarity=0.390 Sum_probs=26.1
Q ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 138 RKFHVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 138 RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+=+..+...-+.|+..-..|..||..|..++.
T Consensus 5 ~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~ 36 (45)
T PF02183_consen 5 RDYDALKASYDSLKAEYDSLKKENEKLRAEVQ 36 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567778888888888889999999988875
No 179
>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=25.58 E-value=2.6e+02 Score=21.10 Aligned_cols=53 Identities=9% Similarity=0.140 Sum_probs=30.7
Q ss_pred CCCHHHHHHHHHHHHh-hHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSS-SAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~-~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+++++|...+-..... .-... ..-..++.++++.++++...|+.-...|....
T Consensus 58 G~sl~eI~~~l~~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 111 (131)
T TIGR02043 58 GFTLDEIKELLSIKLDATEHSC-AEVKAIVDAKLELVDEKINELTKIRRSLKKLS 111 (131)
T ss_pred CCCHHHHHHHHHhhccCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788887776654311 00011 12235667777777777777766666665554
No 180
>KOG0861 consensus SNARE protein YKT6, synaptobrevin/VAMP syperfamily [Intracellular trafficking, secretion, and vesicular transport]
Probab=25.30 E-value=88 Score=25.52 Aligned_cols=7 Identities=29% Similarity=0.909 Sum_probs=3.7
Q ss_pred hHHHHHH
Q 027470 65 KKMFDQY 71 (223)
Q Consensus 65 ~~ii~RY 71 (223)
.+|++-|
T Consensus 95 ~kvld~~ 101 (198)
T KOG0861|consen 95 NKVLDEF 101 (198)
T ss_pred HHHHHHH
Confidence 4555555
No 181
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=25.22 E-value=41 Score=30.88 Aligned_cols=60 Identities=20% Similarity=0.241 Sum_probs=46.7
Q ss_pred eeeeCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 8 IKRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 8 ik~Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
|+++-+...-..||..|+.| ||+++||..+-+.||....-...|.++.. ..+.-+.|+..
T Consensus 18 i~~~~d~~~ps~~~~~~~~~------~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-i~q~~a~~q~~ 77 (412)
T COG5068 18 IQGDSDANIPSNTINRLSPG------ELSQQNDGKFDVMIFDSKHSVRVYSNEEP-IEQTKAQLQKF 77 (412)
T ss_pred cccccccCCccccccccCcc------cchhhccCCcccccccccccccccCCccc-ccccHHHHhhh
Confidence 77888888888999999999 99999999999999988776777776652 34444444443
No 182
>PLN03128 DNA topoisomerase 2; Provisional
Probab=25.18 E-value=8.1e+02 Score=25.98 Aligned_cols=27 Identities=19% Similarity=0.533 Sum_probs=21.8
Q ss_pred eEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 44 SLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 44 alIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
-+++|.+.|++..|.+ +++||..|-.+
T Consensus 961 nm~l~d~~~~i~ky~~----~~~il~~f~~~ 987 (1135)
T PLN03128 961 NMHLFDKDGKIKKYDS----PEDILEEFFHL 987 (1135)
T ss_pred EEEEECCCCcccCCCC----HHHHHHHHHHH
Confidence 4788999999999965 56899998665
No 183
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=25.02 E-value=4.4e+02 Score=22.51 Aligned_cols=87 Identities=14% Similarity=0.275 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCC-CCCCCCHHHHHHHHHHHHhhHHHHH-HHHHHHHHHhHHHHHHHHHHHHHHH
Q 027470 84 YAKMQESYRKLKEINNKLRKDIRQRMGE-DLDDLTFEELRGLEQNMSSSAATVR-ERKFHVIKTQTDTYKKKVRNLEERH 161 (223)
Q Consensus 84 ~e~lq~el~kLk~~~~~L~~e~r~~~Ge-dL~~Ls~~EL~~LE~~Le~~l~~IR-~RK~~ll~~qi~~lkkk~~~l~een 161 (223)
+.+++.++..+++....++.++-.+... .-....+.++..=....+..+..|. .+-..-+..+++..+++...|+.+-
T Consensus 33 l~k~~~e~e~~~~~~~~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el 112 (239)
T COG1579 33 LKKAKAELEALNKALEALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDEL 112 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHhh
Q 027470 162 GNILLDFET 170 (223)
Q Consensus 162 ~~L~~~~~~ 170 (223)
..|...++.
T Consensus 113 ~~l~~~~~~ 121 (239)
T COG1579 113 AELMEEIEK 121 (239)
T ss_pred HHHHHHHHH
No 184
>PLN02372 violaxanthin de-epoxidase
Probab=24.96 E-value=5.7e+02 Score=23.82 Aligned_cols=26 Identities=15% Similarity=0.308 Sum_probs=17.6
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHH
Q 027470 120 ELRGLEQNMSSSAATVRERKFHVIKT 145 (223)
Q Consensus 120 EL~~LE~~Le~~l~~IR~RK~~ll~~ 145 (223)
|..++|.+|+.-+..|+..-..++..
T Consensus 380 e~~~~~~e~~~~v~~~~~~~~~~~~~ 405 (455)
T PLN02372 380 EARQIEEELEKEVEKLGKEEESLFKR 405 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36677777777777777666665544
No 185
>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=24.89 E-value=3.7e+02 Score=26.48 Aligned_cols=51 Identities=14% Similarity=0.225 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHHH---HHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 119 EELRGLEQNMSSSAATVRERKFHVI---KTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 119 ~EL~~LE~~Le~~l~~IR~RK~~ll---~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
++|..|+++-+.-+...+.+...+- .+|++.||.-+..|++|.+.|..+..
T Consensus 4 dkL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE~r 57 (654)
T PF09798_consen 4 DKLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNELR 57 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577777777777776666665543 47888888899999999999887763
No 186
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=24.82 E-value=72 Score=23.63 Aligned_cols=18 Identities=33% Similarity=0.593 Sum_probs=15.5
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 027470 112 DLDDLTFEELRGLEQNMS 129 (223)
Q Consensus 112 dL~~Ls~~EL~~LE~~Le 129 (223)
.++.|+.+|+..|..+++
T Consensus 86 Rle~l~~eE~~~L~~eie 103 (104)
T PF11460_consen 86 RLEELSPEELEALQAEIE 103 (104)
T ss_pred HHHhCCHHHHHHHHHHhc
Confidence 468899999999998876
No 187
>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=24.79 E-value=8.7 Score=26.74 Aligned_cols=37 Identities=30% Similarity=0.571 Sum_probs=27.1
Q ss_pred chhhhhhccccHHHH---------HHHHhhhcccceeEEEecCCCC
Q 027470 17 RQVTYSKRRNGIFKK---------AQELTVLCDAKVSLIMFSNTGK 53 (223)
Q Consensus 17 R~vTfsKRr~GL~KK---------A~ELsvLCdaevalIvfs~~gk 53 (223)
+-+-||+-|++|-.| +.|+.+-||.|+-|+..-|.|.
T Consensus 18 ~~~y~SRSR~~lW~KGetSG~~q~v~~i~~DCD~D~ll~~V~~~G~ 63 (75)
T PF01502_consen 18 RATYYSRSRNRLWRKGETSGNTQKVVEIRLDCDGDALLFKVEQVGP 63 (75)
T ss_dssp B-EEEETTTTEEEETTTTTS--EEEEEEEE-TTSSEEEEEEEESS-
T ss_pred cEEEEEccCCcEeeEECCCCCEEEEEEEEecCCCCeEEEEEEeCCC
Confidence 344567777777554 5789999999999999999887
No 188
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=24.79 E-value=6.5e+02 Score=24.45 Aligned_cols=22 Identities=23% Similarity=0.366 Sum_probs=11.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHH
Q 027470 85 AKMQESYRKLKEINNKLRKDIR 106 (223)
Q Consensus 85 e~lq~el~kLk~~~~~L~~e~r 106 (223)
..+..++..+..+++.+...+.
T Consensus 394 ~~~~~~~~~~e~el~~l~~~l~ 415 (650)
T TIGR03185 394 SQLLKELRELEEELAEVDKKIS 415 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455555555555554443
No 189
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=24.73 E-value=45 Score=24.38 Aligned_cols=30 Identities=30% Similarity=0.328 Sum_probs=22.1
Q ss_pred HHHHHhhhcccceeEEEecCCCCcccccCCc
Q 027470 31 KAQELTVLCDAKVSLIMFSNTGKFHEYISPT 61 (223)
Q Consensus 31 KA~ELsvLCdaevalIvfs~~gk~~~~~sps 61 (223)
|-.||--+-+| +|.=.|||+||+.+|-+|=
T Consensus 4 kLdeLlqi~Gv-~AAGefs~DGkLv~Ykgdm 33 (109)
T COG4831 4 KLDELLQIKGV-MAAGEFSPDGKLVEYKGDM 33 (109)
T ss_pred hHHHHhCccce-eEeceeCCCCceEEeeCCC
Confidence 45666666555 5556899999999998853
No 190
>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=24.65 E-value=1.8e+02 Score=20.49 Aligned_cols=69 Identities=16% Similarity=0.262 Sum_probs=34.0
Q ss_pred HHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHHHHHHHHHHHhhcC
Q 027470 33 QELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEINNKLRKDIRQRMG 110 (223)
Q Consensus 33 ~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~~~~L~~e~r~~~G 110 (223)
.||..|-+- ..||-+-|++|.-.+. .++...|+.-... ....+..+...+..+.++...++..+....|
T Consensus 36 ~eL~~l~~~---~~~y~~vG~~fv~~~~-~~~~~~L~~~~~~-----~~~~i~~l~~~~~~l~~~l~~~~~~l~~~~~ 104 (106)
T PF01920_consen 36 EELEKLDDD---RKVYKSVGKMFVKQDK-EEAIEELEERIEK-----LEKEIKKLEKQLKYLEKKLKELKKKLYELFG 104 (106)
T ss_dssp HHHHTSSTT----EEEEEETTEEEEEEH-HHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCS
T ss_pred HHHHhCCCc---chhHHHHhHHHHHhhH-HHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566666333 4555555877765432 2333333333222 1234455555555555555555555554444
No 191
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=24.48 E-value=2.4e+02 Score=22.19 Aligned_cols=28 Identities=25% Similarity=0.496 Sum_probs=23.2
Q ss_pred CCCCCCCCHHHHHHHHHHHHhhHHHHHH
Q 027470 110 GEDLDDLTFEELRGLEQNMSSSAATVRE 137 (223)
Q Consensus 110 GedL~~Ls~~EL~~LE~~Le~~l~~IR~ 137 (223)
+-||..||+++|..|.+++|.-+.-+-.
T Consensus 7 ~idltkLsleQL~~lk~q~dqEl~~lq~ 34 (153)
T KOG3048|consen 7 GIDLTKLSLEQLGALKKQFDQELNFLQD 34 (153)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHHHHHH
Confidence 5689999999999999999976665543
No 192
>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=24.37 E-value=3e+02 Score=20.48 Aligned_cols=53 Identities=11% Similarity=0.078 Sum_probs=30.6
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-...+..-... .....++.+++..+.++...|+.....|...+
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02044 57 GFSLEECKELLNLWNDPNRTS-ADVKARTLEKVAEIERKISELQSMRDQLEALA 109 (127)
T ss_pred CCCHHHHHHHHHhhccCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477888777655332211111 12234556677777777777777777776655
No 193
>COG1322 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]
Probab=24.32 E-value=6e+02 Score=23.83 Aligned_cols=78 Identities=15% Similarity=0.206 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHH---HhHHHHHHHHHHHHHHHHHHHHH
Q 027470 91 YRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIK---TQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 91 l~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~---~qi~~lkkk~~~l~een~~L~~~ 167 (223)
..++..+.+++-.+++.-.+..+.+++-+-+..|..-+..-+...+++-.+.+. ++..++...+..+..++..|..+
T Consensus 100 ~~ql~~~~~~~~~~i~e~~~~~~~el~~~~~~~Ll~~~~~~~e~f~e~l~~~~~~s~~~~~~~~~~i~~~lg~~~~la~e 179 (448)
T COG1322 100 LAQLSSEFQELANEIFEELNRRLAELNQQNLKQLLKPLREVLEKFREQLEQRIHESAEERSTLLEEIDRLLGEIQQLAQE 179 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444455555555555555555444444444444333332 22233334444455555555554
Q ss_pred H
Q 027470 168 F 168 (223)
Q Consensus 168 ~ 168 (223)
.
T Consensus 180 ~ 180 (448)
T COG1322 180 A 180 (448)
T ss_pred H
Confidence 4
No 194
>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=24.17 E-value=2.7e+02 Score=22.21 Aligned_cols=47 Identities=15% Similarity=0.323 Sum_probs=25.9
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
+++++|+..+-..-.. ....++.+++..+.++...|......|...+
T Consensus 58 G~sL~eI~~ll~~~~~-------~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 58 GVSLEDIRSLLQQPGD-------DATDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred CCCHHHHHHHHhcCCh-------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677776665443322 1234555666666666666666555555544
No 195
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=24.10 E-value=4.8e+02 Score=22.68 Aligned_cols=81 Identities=17% Similarity=0.294 Sum_probs=41.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhc--CCCCCC---CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Q 027470 87 MQESYRKLKEINNKLRKDIRQRM--GEDLDD---LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERH 161 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~r~~~--GedL~~---Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een 161 (223)
|..++..++...+.|++-||.+. .++|+- -++=-|.++|+.|+.++.++-----+|- +-+.+=..+.-|.+|.
T Consensus 96 Leddlsqt~aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErnAfLESELd--Eke~llesvqRLkdEa 173 (333)
T KOG1853|consen 96 LEDDLSQTHAIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERNAFLESELD--EKEVLLESVQRLKDEA 173 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhh--HHHHHHHHHHHHHHHH
Confidence 33444445555555666666553 233332 2344566788888888877643222221 1122223344455666
Q ss_pred HHHHHHHh
Q 027470 162 GNILLDFE 169 (223)
Q Consensus 162 ~~L~~~~~ 169 (223)
..|+.++.
T Consensus 174 rdlrqela 181 (333)
T KOG1853|consen 174 RDLRQELA 181 (333)
T ss_pred HHHHHHHH
Confidence 66776664
No 196
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=23.99 E-value=86 Score=24.20 Aligned_cols=19 Identities=42% Similarity=0.742 Sum_probs=9.6
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 027470 87 MQESYRKLKEINNKLRKDI 105 (223)
Q Consensus 87 lq~el~kLk~~~~~L~~e~ 105 (223)
|..++++|+.+|..++.+.
T Consensus 86 L~qqv~~L~~e~s~~~~E~ 104 (135)
T KOG4196|consen 86 LQQQVEKLKEENSRLRREL 104 (135)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4445555555555554443
No 197
>cd02999 PDI_a_ERp44_like PDIa family, endoplasmic reticulum protein 44 (ERp44)-like subfamily; composed of uncharacterized PDI-like eukaryotic proteins containing only one redox active TRX (a) domain with a CXXS motif, similar to ERp44. CXXS is still a redox active motif; however, the mixed disulfide formed with the substrate is more stable than those formed by CXXC motif proteins. PDI-related proteins are usually involved in the oxidative protein folding in the ER by acting as catalysts and folding assistants. ERp44 is involved in thiol-mediated retention in the ER.
Probab=23.93 E-value=1.2e+02 Score=21.57 Aligned_cols=41 Identities=10% Similarity=0.265 Sum_probs=29.0
Q ss_pred HHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhh
Q 027470 28 IFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQK 73 (223)
Q Consensus 28 L~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~ 73 (223)
.+.++-+|...-.-++.+|.|.. +||.||..+..++++..+
T Consensus 5 ~~~~~~~~~~~~~g~~vlV~F~a-----~WC~~C~~~~p~l~~la~ 45 (100)
T cd02999 5 VLNIALDLMAFNREDYTAVLFYA-----SWCPFSASFRPHFNALSS 45 (100)
T ss_pred HhhHHHHHHHhcCCCEEEEEEEC-----CCCHHHHhHhHHHHHHHH
Confidence 45667777776566888888887 799988766666666543
No 198
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=23.90 E-value=42 Score=27.69 Aligned_cols=16 Identities=31% Similarity=0.528 Sum_probs=13.6
Q ss_pred hcccceeEEEecCCCC
Q 027470 38 LCDAKVSLIMFSNTGK 53 (223)
Q Consensus 38 LCdaevalIvfs~~gk 53 (223)
--||++|++|||.+.+
T Consensus 90 yrgaqa~vLVFSTTDr 105 (246)
T KOG4252|consen 90 YRGAQASVLVFSTTDR 105 (246)
T ss_pred hccccceEEEEecccH
Confidence 3589999999999875
No 199
>PRK01156 chromosome segregation protein; Provisional
Probab=23.89 E-value=7.6e+02 Score=24.90 Aligned_cols=27 Identities=26% Similarity=0.514 Sum_probs=17.2
Q ss_pred EEEecCCCCccccc--CCcchhhHHHHHHh
Q 027470 45 LIMFSNTGKFHEYI--SPTTTTKKMFDQYQ 72 (223)
Q Consensus 45 lIvfs~~gk~~~~~--sps~~~~~ii~RY~ 72 (223)
-+||.+.|....+. +|+ .-.++|++..
T Consensus 131 ~~i~~~Qg~~~~l~~~~~~-~r~~~ld~~~ 159 (895)
T PRK01156 131 NSIFVGQGEMDSLISGDPA-QRKKILDEIL 159 (895)
T ss_pred eeEEEeccchHHHHhCCHH-HHHHHHHHHh
Confidence 35677778777666 443 4567777665
No 200
>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=23.87 E-value=49 Score=22.53 Aligned_cols=30 Identities=10% Similarity=0.377 Sum_probs=20.7
Q ss_pred hcccceeEEEecCCCCcccccCCcchhhHHHHHH
Q 027470 38 LCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQY 71 (223)
Q Consensus 38 LCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY 71 (223)
.|+--.+++| .|..|...+|. .+.+|++.|
T Consensus 51 ~C~~gP~v~v---~g~~y~~vt~~-~i~~i~~~~ 80 (80)
T cd03064 51 ACDLAPVMMI---NDDVYGRLTPE-KVDAILEAL 80 (80)
T ss_pred cCCCCCEEEE---CCEEECCCCHH-HHHHHHHhC
Confidence 3666666666 37888888875 677887754
No 201
>PF09158 MotCF: Bacteriophage T4 MotA, C-terminal; InterPro: IPR015241 Transcription factor MotA is required for the activation of middle promoters in Bacteriophage T4, in addition to phage T4 co-activator AsiA, and sigma-70-containing Escherichia coli RNA polymerase. Phage T4 middle promoters have the sigma70 -10 DNA element, but not the -35 element; instead, they have a MotA box at -30 to which the transcription factor MotA binds []. MotA and AsiA interact with the C-terminal of sigma70 (region 4), which normally binds the -35 element and the beta-flap, thereby diverting sigma70 away from host promoters that require -35 element-binding to phage T4 middle promoters. Transcription factor MotA has two domains: an N-terminal domain required for binding to sigma70, and a C-terminal domain required for binding to the -30 MotA box element in the phage T4 middle promoter. This entry represents the C-terminal domain of MotA factors, which adopts a compact alpha/beta structure comprising three alpha-helices and six beta-strands in the order: alpha1-beta1-beta2-beta3-beta4-alpha2-beta5-beta6-alpha3. In this architecture, the domain's hydrophobic core is at the sheet-helix interface, and the second surface of the beta-sheet is completely exposed. It contains a DNA-binding motif, with a consensus sequence containing nine base pairs (5'-TTTGCTTTA-3'), that appears to bind to various mot boxes, allowing access to the minor groove towards the 5'-end of this sequence and the major groove towards the 3'-end [].; PDB: 1KAF_B.
Probab=23.74 E-value=17 Score=26.87 Aligned_cols=53 Identities=25% Similarity=0.486 Sum_probs=35.1
Q ss_pred cceeeee-CCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhh
Q 027470 5 KIEIKRI-ENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKS 74 (223)
Q Consensus 5 Ki~ik~I-en~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (223)
+|++|-+ +|.+|=.++|+||-.|+-+ +=....|..--|+..- .++++..|.+.
T Consensus 19 ~ie~K~~~~~RSN~~i~f~KRt~Girq---------------fEi~n~G~~RI~gYk~--se~~~~~f~sl 72 (103)
T PF09158_consen 19 KIEVKEIVIDRSNYEIRFKKRTKGIRQ---------------FEIRNKGEFRIFGYKM--SEEIIKKFTSL 72 (103)
T ss_dssp T--EEEEEEETTEEEEEEEEEETTEEE---------------EEEETTSEEEEEEES----HHHHHHHHHT
T ss_pred ceeeeeeEeeccceEEeeecccCceeE---------------EEEecCCcEEEEEEcC--CHHHHHHHHhc
Confidence 5778776 7889999999999999742 3334667666666532 35777777654
No 202
>KOG4557 consensus Origin recognition complex, subunit 6 [Replication, recombination and repair]
Probab=23.66 E-value=2.2e+02 Score=24.07 Aligned_cols=71 Identities=17% Similarity=0.211 Sum_probs=42.1
Q ss_pred CCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHH-HHHHHHHHHHHHHHHHHhhhcCCCCccccCCCCch
Q 027470 111 EDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYK-KKVRNLEERHGNILLDFETKYDDPHYGLVDNGDYQ 186 (223)
Q Consensus 111 edL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lk-kk~~~l~een~~L~~~~~~~~~~~~~~~~~~~~~~ 186 (223)
-...+++..+..-|+++|+.....|-.-- .-+-... ++.+.-.+.|..+...+.+....|.-|+....+|+
T Consensus 160 i~~sg~~~s~F~~l~kqler~~~qv~~e~-----~~V~~s~~k~~k~~v~~n~~~~~~~~~k~hkp~~~~~~~~dYE 231 (262)
T KOG4557|consen 160 IEVSGTSESEFSCLSKQLERNYKQVSTEM-----DCVGISKEKKDKKDVKGNRDLLDVLPGKRHKPDGGYSEEADYE 231 (262)
T ss_pred ccccCCCHHHHHHHHHHHHHHHHHhcCCc-----cccCCChhhhhhhhccCcHHHhhhccccCCCCCCCcchhhhHH
Confidence 36788999999999999997666553221 1111222 23344556788888777655443444444334444
No 203
>cd02975 PfPDO_like_N Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO)-like family, N-terminal TRX-fold subdomain; composed of proteins with similarity to PfPDO, a redox active thermostable protein believed to be the archaeal counterpart of bacterial DsbA and eukaryotic protein disulfide isomerase (PDI), which are both involved in oxidative protein folding. PfPDO contains two redox active CXXC motifs in two contiguous TRX-fold subdomains. The active site in the N-terminal TRX-fold subdomain is required for isomerase but not for reductase activity of PfPDO. The exclusive presence of PfPDO-like proteins in extremophiles may suggest that they have a special role in adaptation to extreme conditions.
Probab=23.54 E-value=88 Score=22.84 Aligned_cols=31 Identities=23% Similarity=0.333 Sum_probs=23.1
Q ss_pred ccceeEEEe-cCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 40 DAKVSLIMF-SNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 40 daevalIvf-s~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
..++.+||| +. +||.||..++.+++......
T Consensus 20 ~~~~~vvv~f~a-----~wC~~C~~~~~~l~~la~~~ 51 (113)
T cd02975 20 KNPVDLVVFSSK-----EGCQYCEVTKQLLEELSELS 51 (113)
T ss_pred CCCeEEEEEeCC-----CCCCChHHHHHHHHHHHHhc
Confidence 567777666 54 59999988889998886543
No 204
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=23.52 E-value=1.1e+02 Score=22.46 Aligned_cols=27 Identities=30% Similarity=0.322 Sum_probs=18.1
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHHhh
Q 027470 82 THYAKMQESYRKLKEINNKLRKDIRQR 108 (223)
Q Consensus 82 ~~~e~lq~el~kLk~~~~~L~~e~r~~ 108 (223)
.+++.++.++.+++.+|+.|+.++..+
T Consensus 34 ~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 34 DQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455566677777777777777776543
No 205
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=23.41 E-value=5.2e+02 Score=24.41 Aligned_cols=46 Identities=17% Similarity=0.237 Sum_probs=36.7
Q ss_pred CCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Q 027470 116 LTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHG 162 (223)
Q Consensus 116 Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~ 162 (223)
=++-|+..+...+.+.+..+.+|.+++ ..||+.|..|...|.+.-.
T Consensus 420 nsl~d~aK~~~~myd~~~~l~~~q~~l-e~qI~~Le~kl~~l~~~l~ 465 (489)
T KOG3684|consen 420 NSLVDLAKTQNDMYDLLQELHSRQEEL-EKQIDTLESKLEALTASLS 465 (489)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Confidence 356688888899999999999999887 6789998888776655433
No 206
>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=22.84 E-value=3.2e+02 Score=20.26 Aligned_cols=51 Identities=10% Similarity=0.148 Sum_probs=27.2
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|...+-..-+.. .. ..-.+++.++++.++++...|+.....|...+
T Consensus 57 G~sL~eI~~~l~~~~~~--~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~ 107 (126)
T cd04783 57 GFTLDEIAELLELDDGT--DC-SEARELAEQKLAEVDEKIADLQRMRASLQELV 107 (126)
T ss_pred CCCHHHHHHHHhcccCC--CH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777766654433221 01 12234556666666666666666555665554
No 207
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=22.64 E-value=5.1e+02 Score=22.41 Aligned_cols=35 Identities=14% Similarity=0.276 Sum_probs=28.2
Q ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027470 137 ERKFHVIKTQTDTYKKKVRNLEERHGNILLDFETK 171 (223)
Q Consensus 137 ~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~~ 171 (223)
.+.++.|..+|...++-+..+.++...|+.++...
T Consensus 185 ~~~N~~m~kei~~~re~i~el~e~I~~L~~eV~~L 219 (258)
T PF15397_consen 185 TLENQVMQKEIVQFREEIDELEEEIPQLRAEVEQL 219 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677788888888888888999999998888643
No 208
>PF14263 DUF4354: Domain of unknown function (DUF4354); PDB: 3NRF_B 3SB3_A.
Probab=22.44 E-value=12 Score=28.68 Aligned_cols=42 Identities=17% Similarity=0.289 Sum_probs=29.2
Q ss_pred eCCCCcchhhhhhccccHHHHHHHHhhhcccceeEEEecCCCCcccc
Q 027470 11 IENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMFSNTGKFHEY 57 (223)
Q Consensus 11 Ien~~~R~vTfsKRr~GL~KKA~ELsvLCdaevalIvfs~~gk~~~~ 57 (223)
|.+......||-=.-+.+.++.-+|+.+| ++.|+|.||.+-.
T Consensus 41 v~~k~~ytktF~V~vaN~s~~~idLsk~C-----f~a~~~~gk~f~l 82 (124)
T PF14263_consen 41 VGGKSFYTKTFDVTVANLSDKDIDLSKMC-----FKAYSPDGKEFKL 82 (124)
T ss_dssp ETTEEEEEEEEEEEEEE-SSS-EE-TT-E-----EEEEETTS-EEEE
T ss_pred ecCccceEEEEEEEEecCCCCccccccch-----hhhccccCCEEEe
Confidence 45556667777777888888888999887 9999999997765
No 209
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=22.43 E-value=2.4e+02 Score=22.96 Aligned_cols=57 Identities=25% Similarity=0.247 Sum_probs=32.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcCC--CC-CCCCHHHHHHHHHHHHhhHHHHHHHHHHH
Q 027470 86 KMQESYRKLKEINNKLRKDIRQRMGE--DL-DDLTFEELRGLEQNMSSSAATVRERKFHV 142 (223)
Q Consensus 86 ~lq~el~kLk~~~~~L~~e~r~~~Ge--dL-~~Ls~~EL~~LE~~Le~~l~~IR~RK~~l 142 (223)
.|..++.+|.++...|+..++-+..+ .| ..|+++|++.=-+.|..-...-|+|-..+
T Consensus 83 ~ld~~i~~l~ek~q~l~~t~s~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~ 142 (201)
T KOG4603|consen 83 VLDGKIVALTEKVQSLQQTCSYVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNI 142 (201)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555544433322 33 34788888887777776666666554443
No 210
>PF10112 Halogen_Hydrol: 5-bromo-4-chloroindolyl phosphate hydrolysis protein; InterPro: IPR018770 This entry consists of prokaryotic proteins that mediate the hydrolysis of 5-bromo-4-chloroindolyl phosphate bonds.
Probab=22.40 E-value=27 Score=28.53 Aligned_cols=54 Identities=17% Similarity=0.241 Sum_probs=30.9
Q ss_pred hhhccccHHHHHHHHhhhcccceeEEEecCC-----CCcccccCCcchhhHHHHHHhhhcC
Q 027470 21 YSKRRNGIFKKAQELTVLCDAKVSLIMFSNT-----GKFHEYISPTTTTKKMFDQYQKSLG 76 (223)
Q Consensus 21 fsKRr~GL~KKA~ELsvLCdaevalIvfs~~-----gk~~~~~sps~~~~~ii~RY~~~~~ 76 (223)
+.=|..-++++..++...|..=...|.=.|. .+.+.|-=|+ +.+++++|.....
T Consensus 92 ~~i~~~~~~~~~~~~~~~~~~I~~~v~~~P~~l~~a~~Fl~~yLp~--~~~l~~kY~~l~~ 150 (199)
T PF10112_consen 92 KRIRDLEMIEKVSRIEKIARRIFKYVEKDPERLTQARKFLYYYLPT--AVKLLEKYAELES 150 (199)
T ss_pred HHcCCHHHHHHHHHHHHHHHHHHHHHHHCHHhHHHHHHHHHHHhhH--HHHHHHHHHHHHh
Confidence 3334445667777777666554444444443 2333444454 6788888887654
No 211
>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=22.33 E-value=2.9e+02 Score=19.42 Aligned_cols=25 Identities=12% Similarity=0.302 Sum_probs=15.3
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 144 KTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 144 ~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
..+|+.++++...+.++-..+...+
T Consensus 75 ~~~i~~l~~~~~~l~~~l~~~~~~l 99 (106)
T PF01920_consen 75 EKEIKKLEKQLKYLEKKLKELKKKL 99 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666655555
No 212
>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=22.29 E-value=1e+02 Score=26.68 Aligned_cols=26 Identities=19% Similarity=0.459 Sum_probs=23.6
Q ss_pred CCCCCCCHHHHHHHHHHHHhhHHHHH
Q 027470 111 EDLDDLTFEELRGLEQNMSSSAATVR 136 (223)
Q Consensus 111 edL~~Ls~~EL~~LE~~Le~~l~~IR 136 (223)
+.=-+||++|++.+|......|..+|
T Consensus 232 DeW~gltmedIR~~E~~t~~~l~~~~ 257 (258)
T cd08888 232 DKWHGLTMDDIRRMEDETKKELDEMR 257 (258)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHhh
Confidence 56778999999999999999999887
No 213
>cd03063 TRX_Fd_FDH_beta TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of formate to carbon dioxide accompanied by the reduction of NAD to NADH. FDH is a heteromeric enzyme composed of four nonidentical subunits (alpha, beta, gamma and delta). The FDH beta subunit contains a NADH:ubiquinone oxidoreductase (Nuo) F domain C-terminal to a Fd-like domain without the active site cysteines. The absence of conserved metal-binding residues in the putative active site suggests that members of this subfamily have lost the ability to bind iron-sulfur clusters in the N-terminal Fd-like domain. The C-terminal NuoF domain is a component of Nuo, a multisubunit complex catalyzing the electron transfer of NADH to quinone coupled with the transfer of protons across the membrane. NuoF contains one [4Fe-4S] c
Probab=22.22 E-value=71 Score=22.99 Aligned_cols=37 Identities=8% Similarity=-0.022 Sum_probs=28.9
Q ss_pred hcccceeEEEecCCC-CcccccCCcchhhHHHHHHhhhc
Q 027470 38 LCDAKVSLIMFSNTG-KFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 38 LCdaevalIvfs~~g-k~~~~~sps~~~~~ii~RY~~~~ 75 (223)
+|..+--+.|+.|.| -+|....|. ++.+|++.+...+
T Consensus 44 ~C~~ePlV~V~~p~g~v~Y~~V~~e-dv~~Iv~~~~~~~ 81 (92)
T cd03063 44 MYWLEPLVEVETPGGRVAYGPVTPA-DVASLLDAGALEG 81 (92)
T ss_pred ecCCCCEEEEEeCCCcEEEEeCCHH-HHHHHHHHHhhcC
Confidence 688888888887877 677777786 7899999876643
No 214
>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=22.20 E-value=5.7e+02 Score=22.83 Aligned_cols=123 Identities=11% Similarity=0.072 Sum_probs=0.0
Q ss_pred hhhhccccHHHHHHHHh--hhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHHHHH
Q 027470 20 TYSKRRNGIFKKAQELT--VLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKLKEI 97 (223)
Q Consensus 20 TfsKRr~GL~KKA~ELs--vLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~~ 97 (223)
++..|..+|-||-.|+- ..|+.+..+.--+ ...++..++..++... .......+.+++.+..++..
T Consensus 34 qLqer~q~LKkk~~el~~~~~~~~d~~~~~~~----------~~~~La~lL~~sre~N--k~L~~Ev~~Lrqkl~E~qGD 101 (319)
T PF09789_consen 34 QLQERYQALKKKYRELIQEAAGFGDPSIPPEK----------ENKNLAQLLSESREQN--KKLKEEVEELRQKLNEAQGD 101 (319)
T ss_pred HHHHHHHHHHHHHHHhhhhhcccCCccCCccc----------chhhHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHhch
Q ss_pred HHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 027470 98 NNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDFET 170 (223)
Q Consensus 98 ~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~~~ 170 (223)
+.-|+..+...-..+-..-+-... +-.+-+..|++.++++...|+.+-+.+.-+.++
T Consensus 102 ~KlLR~~la~~r~~~~~~~~~~~~----------------~ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeE 158 (319)
T PF09789_consen 102 IKLLREKLARQRVGDEGIGARHFP----------------HEREDLVEQLEKLREQIEQLERDLQSLLDEKEE 158 (319)
T ss_pred HHHHHHHHHhhhhhhccccccccc----------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 215
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=22.16 E-value=6e+02 Score=23.05 Aligned_cols=25 Identities=20% Similarity=0.332 Sum_probs=16.6
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHH
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNIL 165 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~ 165 (223)
++..++|..++.+...|+++-+.|.
T Consensus 79 ema~~Ei~~~~~~~~~le~~L~~lL 103 (363)
T COG0216 79 EMAEEEIKELEAKIEELEEELKILL 103 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4556777777777777777665553
No 216
>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=22.03 E-value=1.6e+02 Score=27.76 Aligned_cols=8 Identities=13% Similarity=0.418 Sum_probs=3.4
Q ss_pred HhHHHHHH
Q 027470 145 TQTDTYKK 152 (223)
Q Consensus 145 ~qi~~lkk 152 (223)
++.+.|++
T Consensus 87 ~eN~~L~~ 94 (472)
T TIGR03752 87 AENERLQK 94 (472)
T ss_pred HHHHHHHH
Confidence 34444444
No 217
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=21.51 E-value=2.2e+02 Score=17.80 Aligned_cols=21 Identities=24% Similarity=0.283 Sum_probs=12.9
Q ss_pred HHHHhHHHHHHHHHHHHHHHH
Q 027470 142 VIKTQTDTYKKKVRNLEERHG 162 (223)
Q Consensus 142 ll~~qi~~lkkk~~~l~een~ 162 (223)
=+-+||..|++|-..|..++-
T Consensus 23 did~qIaeLe~KR~~Lv~qHP 43 (46)
T PF08946_consen 23 DIDEQIAELEAKRQRLVDQHP 43 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHhCC
Confidence 345777788877666666554
No 218
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=21.50 E-value=5.2e+02 Score=22.08 Aligned_cols=25 Identities=8% Similarity=0.234 Sum_probs=18.7
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 145 TQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 145 ~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+++..|+..+..|+.+|-.|..++-
T Consensus 107 ~~~~~L~~Ev~~L~~DN~kLYEKiR 131 (248)
T PF08172_consen 107 QTISSLRREVESLRADNVKLYEKIR 131 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777788888888888763
No 219
>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=21.31 E-value=2.7e+02 Score=19.56 Aligned_cols=29 Identities=14% Similarity=0.298 Sum_probs=24.1
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 141 HVIKTQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 141 ~ll~~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
..+..+++.+++....++++|..|.-+..
T Consensus 38 ~~~~~~l~~l~~~~~~l~~e~~~L~lE~~ 66 (97)
T PF04999_consen 38 RQLFYELQQLEKEIDQLQEENERLRLEIA 66 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456789999999999999999998774
No 220
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=21.15 E-value=5.5e+02 Score=22.31 Aligned_cols=23 Identities=9% Similarity=0.121 Sum_probs=13.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHH
Q 027470 120 ELRGLEQNMSSSAATVRERKFHV 142 (223)
Q Consensus 120 EL~~LE~~Le~~l~~IR~RK~~l 142 (223)
+--+-+.+|+.-+...++-|.++
T Consensus 88 q~y~q~s~Leddlsqt~aikeql 110 (333)
T KOG1853|consen 88 QFYQQESQLEDDLSQTHAIKEQL 110 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444556666666666666554
No 221
>PRK04863 mukB cell division protein MukB; Provisional
Probab=20.89 E-value=1.1e+03 Score=25.77 Aligned_cols=61 Identities=21% Similarity=0.263 Sum_probs=42.0
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHH------HhHHHHHHHHHHHHHHHHHHHHHHh
Q 027470 109 MGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIK------TQTDTYKKKVRNLEERHGNILLDFE 169 (223)
Q Consensus 109 ~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~------~qi~~lkkk~~~l~een~~L~~~~~ 169 (223)
+|-..+.=--+.+..-...|+..|..-|.|+.++-. .+|+.+.++...+..+...++..+.
T Consensus 1046 ~g~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~re~EIe~L~kkL~~~~~e~~~~re~I~ 1112 (1486)
T PRK04863 1046 LGVPADSGAEERARARRDELHARLSANRSRRNQLEKQLTFCEAEMDNLTKKLRKLERDYHEMREQVV 1112 (1486)
T ss_pred cCCCCCccHHHHHHHhHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 354444333345555568899999999999988765 5677777777777777766666653
No 222
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=20.87 E-value=3.2e+02 Score=19.45 Aligned_cols=37 Identities=19% Similarity=0.334 Sum_probs=18.0
Q ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 027470 121 LRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNL 157 (223)
Q Consensus 121 L~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l 157 (223)
|..-+..|-..|..++..+...+.++++.+......+
T Consensus 55 L~~~e~~ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l 91 (127)
T smart00502 55 LNKRKKQLLEDLEEQKENKLKVLEQQLESLTQKQEKL 91 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555555555555544444333
No 223
>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=20.77 E-value=1.7e+02 Score=19.75 Aligned_cols=25 Identities=12% Similarity=0.194 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHH
Q 027470 118 FEELRGLEQNMSSSAATVRERKFHV 142 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~RK~~l 142 (223)
-.|+..+|+.|......+.+||.++
T Consensus 47 ~~~i~~~~~~l~~t~~~l~~Kk~~l 71 (72)
T PF12537_consen 47 ESDINNAERRLWHTRDMLVEKKKRL 71 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6688888999998888888888664
No 224
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=20.76 E-value=4.5e+02 Score=21.14 Aligned_cols=48 Identities=17% Similarity=0.317 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027470 118 FEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLD 167 (223)
Q Consensus 118 ~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~ 167 (223)
+++|......|..+|..+. ..+-+..+|..|++....+.+.-+.+...
T Consensus 4 ~~~L~~~d~~L~~~L~~l~--~hq~~~~~I~~L~~e~~~ld~~i~~~~~~ 51 (188)
T PF10018_consen 4 AEDLIEADDELSSALEELQ--EHQENQARIQQLRAEIEELDEQIRDILKQ 51 (188)
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777777888777773 33344455555555544444444443333
No 225
>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=20.73 E-value=75 Score=18.12 Aligned_cols=20 Identities=20% Similarity=0.232 Sum_probs=14.6
Q ss_pred cceeEEEecCCCCcccccCC
Q 027470 41 AKVSLIMFSNTGKFHEYISP 60 (223)
Q Consensus 41 aevalIvfs~~gk~~~~~sp 60 (223)
..-.-..|||+|+-..|++-
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 34566789999999888873
No 226
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=20.72 E-value=4.1e+02 Score=20.67 Aligned_cols=42 Identities=10% Similarity=0.342 Sum_probs=24.3
Q ss_pred ecCCCCcccccCCcchhhHHHHHHhhhcCcccccchhhhhHHHHHHH
Q 027470 48 FSNTGKFHEYISPTTTTKKMFDQYQKSLGVDLWSTHYAKMQESYRKL 94 (223)
Q Consensus 48 fs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kL 94 (223)
|..++.+=.||+.--.|+.+|.+|..... ..++.|...+..+
T Consensus 7 ~~~de~~G~~CPTgC~i~~~L~k~~~~v~-----~~i~~L~~~L~~~ 48 (146)
T PF08702_consen 7 CCADEDFGSYCPTGCGIQDFLDKYERDVD-----KDIQELENLLDQI 48 (146)
T ss_dssp ECSSTTTTEEEE-HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHH
T ss_pred cccCccccCCCCCcchHHHHHHHHccchH-----HHHHHHHHHHHHH
Confidence 33445555666533389999999998653 3344444444443
No 227
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=20.69 E-value=4e+02 Score=20.54 Aligned_cols=51 Identities=10% Similarity=0.135 Sum_probs=29.6
Q ss_pred CCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027470 115 DLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKKKVRNLEERHGNILLDF 168 (223)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkkk~~~l~een~~L~~~~ 168 (223)
++|++|+..+-..-+... . ..-..++.+++..++++...|+.....|...+
T Consensus 64 G~sL~eI~~ll~~~~~~~--~-~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~ 114 (144)
T PRK13752 64 GFSLDEIAELLRLEDGTH--C-EEASSLAEHKLKDVREKMADLARMEAVLSELV 114 (144)
T ss_pred CCCHHHHHHHHhccCCCC--H-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777776654222211 0 12234666777777777777777766776655
No 228
>PRK10824 glutaredoxin-4; Provisional
Probab=20.61 E-value=78 Score=23.72 Aligned_cols=31 Identities=0% Similarity=0.019 Sum_probs=24.3
Q ss_pred ceeEEEecCCCCcccccCCcchhhHHHHHHh
Q 027470 42 KVSLIMFSNTGKFHEYISPTTTTKKMFDQYQ 72 (223)
Q Consensus 42 evalIvfs~~gk~~~~~sps~~~~~ii~RY~ 72 (223)
+-.|||||-+....+||.-|..++++|+.+.
T Consensus 14 ~~~Vvvf~Kg~~~~p~Cpyc~~ak~lL~~~~ 44 (115)
T PRK10824 14 ENPILLYMKGSPKLPSCGFSAQAVQALSACG 44 (115)
T ss_pred cCCEEEEECCCCCCCCCchHHHHHHHHHHcC
Confidence 3458999887677778887778899998874
No 229
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=20.50 E-value=1.9e+02 Score=22.73 Aligned_cols=26 Identities=23% Similarity=0.268 Sum_probs=21.5
Q ss_pred ccHHHHHHHHhhhcccceeEEEecCC
Q 027470 26 NGIFKKAQELTVLCDAKVSLIMFSNT 51 (223)
Q Consensus 26 ~GL~KKA~ELsvLCdaevalIvfs~~ 51 (223)
.-|+++|.+++--=++..+|+.|+|.
T Consensus 22 q~Li~~~~~~a~~~~~~~~v~tF~~~ 47 (157)
T PF06574_consen 22 QKLIKKAVEIAKEKGLKSVVLTFDPH 47 (157)
T ss_dssp HHHHHHHHHHHHHCT-EEEEEEESS-
T ss_pred HHHHHHHhhhhhhcccceEEEEcccC
Confidence 34899999999888999999999984
No 230
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=20.36 E-value=7.6e+02 Score=26.14 Aligned_cols=63 Identities=19% Similarity=0.297 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHhhHHHHHHHHHHHHHHhHHHHHH
Q 027470 89 ESYRKLKEINNKLRKDIRQRMGEDLDDLTFEELRGLEQNMSSSAATVRERKFHVIKTQTDTYKK 152 (223)
Q Consensus 89 ~el~kLk~~~~~L~~e~r~~~GedL~~Ls~~EL~~LE~~Le~~l~~IR~RK~~ll~~qi~~lkk 152 (223)
..+..|++++.-|+.+- -+|-.+-+.+++.|...||++|...-.++-.-----+..||..|.+
T Consensus 1131 a~lnnlqqElklLRnEK-~Rmh~~~dkVDFSDIEkLE~qLq~~~~kL~dAyl~eitKqIsaLe~ 1193 (1439)
T PF12252_consen 1131 ANLNNLQQELKLLRNEK-IRMHSGTDKVDFSDIEKLEKQLQVIHTKLYDAYLVEITKQISALEK 1193 (1439)
T ss_pred HHHHHHHHHHHHHHhHH-HhhccCCCcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHh
Confidence 34455555555555542 2344455668899999999999877666654443334456666654
No 231
>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=20.22 E-value=2.4e+02 Score=25.40 Aligned_cols=27 Identities=22% Similarity=0.310 Sum_probs=20.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCC
Q 027470 85 AKMQESYRKLKEINNKLRKDIRQRMGE 111 (223)
Q Consensus 85 e~lq~el~kLk~~~~~L~~e~r~~~Ge 111 (223)
--|++|-.+||+||+.|+.++.++..+
T Consensus 35 ~aLr~EN~~LKkEN~~Lk~eVerLE~e 61 (420)
T PF07407_consen 35 FALRMENHSLKKENNDLKIEVERLENE 61 (420)
T ss_pred hhHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 357888888888998888887666443
No 232
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=20.15 E-value=56 Score=27.49 Aligned_cols=17 Identities=24% Similarity=0.401 Sum_probs=14.0
Q ss_pred cceeEEEecCCCCcccc
Q 027470 41 AKVSLIMFSNTGKFHEY 57 (223)
Q Consensus 41 aevalIvfs~~gk~~~~ 57 (223)
-|-||-||||+|.++..
T Consensus 4 ydraltvFSPDGhL~QV 20 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQV 20 (249)
T ss_pred cccceEEECCCCCEEee
Confidence 36689999999999853
No 233
>PRK00191 tatA twin arginine translocase protein A; Provisional
Probab=20.09 E-value=15 Score=26.13 Aligned_cols=36 Identities=8% Similarity=0.340 Sum_probs=26.4
Q ss_pred HHhhhcccceeEEEecCCCCcccccCCcchhhHHHHHHhhhc
Q 027470 34 ELTVLCDAKVSLIMFSNTGKFHEYISPTTTTKKMFDQYQKSL 75 (223)
Q Consensus 34 ELsvLCdaevalIvfs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (223)
||-|+. =|+||||+| +|+++++. ++-..+..|++..
T Consensus 7 ElliI~--vI~lllFGp-~KLP~~~r---~lGk~ir~FK~~~ 42 (84)
T PRK00191 7 EIGIIV--LLIIVLFGA-KKLPDAAR---SIGRSMRIFKSEV 42 (84)
T ss_pred HHHHHH--HHHHHHhcc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 555554 358899999 69999875 4667788887654
No 234
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=20.07 E-value=3.2e+02 Score=19.79 Aligned_cols=35 Identities=23% Similarity=0.438 Sum_probs=18.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcC-----CCCCCCCHHH
Q 027470 86 KMQESYRKLKEINNKLRKDIRQRMG-----EDLDDLTFEE 120 (223)
Q Consensus 86 ~lq~el~kLk~~~~~L~~e~r~~~G-----edL~~Ls~~E 120 (223)
.+.+++.+|+++...+...-..+.| -.|.+|.++|
T Consensus 6 ~I~~eIekLqe~lk~~e~keaERigr~AlKaGL~eieI~d 45 (92)
T PF07820_consen 6 KIREEIEKLQEQLKQAETKEAERIGRIALKAGLGEIEISD 45 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccCCH
Confidence 3455566666555554443333333 3566666665
Done!