Query 040046
Match_columns 221
No_of_seqs 240 out of 1690
Neff 7.3
Searched_HMMs 46136
Date Fri Mar 29 04:33:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040046.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040046hhsearch_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 5.5E-39 1.2E-43 265.4 3.5 154 1-154 1-184 (195)
2 cd00265 MADS_MEF2_like MEF2 (m 100.0 4.5E-35 9.7E-40 208.5 4.1 77 2-80 1-77 (77)
3 cd00266 MADS_SRF_like SRF-like 100.0 4E-31 8.6E-36 190.9 4.2 74 2-76 1-74 (83)
4 smart00432 MADS MADS domain. 100.0 6.2E-31 1.3E-35 177.3 3.6 59 2-60 1-59 (59)
5 cd00120 MADS MADS: MCM1, Agamo 100.0 6.9E-30 1.5E-34 172.4 3.1 59 2-60 1-59 (59)
6 PF00319 SRF-TF: SRF-type tran 99.9 4.9E-28 1.1E-32 158.3 -1.6 51 9-59 1-51 (51)
7 PF01486 K-box: K-box region; 99.8 1.9E-20 4.1E-25 139.7 11.2 98 71-168 1-98 (100)
8 KOG0015 Regulator of arginine 99.8 2.4E-20 5.2E-25 159.7 1.9 60 2-61 63-122 (338)
9 COG5068 ARG80 Regulator of arg 99.5 1.6E-14 3.5E-19 129.0 2.8 61 1-61 81-141 (412)
10 PF06005 DUF904: Protein of un 93.0 0.87 1.9E-05 31.8 7.5 48 116-168 1-48 (72)
11 PRK04098 sec-independent trans 89.2 0.68 1.5E-05 37.2 4.4 77 42-129 14-94 (158)
12 PF10504 DUF2452: Protein of u 88.0 6.1 0.00013 31.8 9.1 44 117-160 28-74 (159)
13 PF10584 Proteasome_A_N: Prote 85.1 0.21 4.5E-06 27.1 -0.5 14 43-56 3-16 (23)
14 PF06698 DUF1192: Protein of u 84.9 2.2 4.8E-05 28.6 4.3 32 107-138 12-43 (59)
15 smart00787 Spc7 Spc7 kinetocho 83.7 22 0.00048 31.7 11.5 74 95-168 178-255 (312)
16 PRK10884 SH3 domain-containing 82.0 29 0.00063 29.1 11.4 49 120-168 119-169 (206)
17 cd00187 TOP4c DNA Topoisomeras 80.3 34 0.00073 32.1 11.9 146 4-159 253-426 (445)
18 PF01166 TSC22: TSC-22/dip/bun 79.6 5 0.00011 26.8 4.4 28 141-168 17-44 (59)
19 PHA03155 hypothetical protein; 79.4 18 0.0004 27.4 7.9 58 82-139 8-65 (115)
20 PF06156 DUF972: Protein of un 79.0 8.7 0.00019 28.9 6.2 38 118-167 7-44 (107)
21 PRK15422 septal ring assembly 78.4 16 0.00036 25.9 7.0 43 116-163 1-43 (79)
22 KOG4797 Transcriptional regula 77.4 12 0.00026 28.2 6.4 41 126-166 48-88 (123)
23 PF05812 Herpes_BLRF2: Herpesv 77.2 21 0.00045 27.4 7.8 57 83-139 4-64 (118)
24 COG2433 Uncharacterized conser 76.9 44 0.00096 32.5 11.6 72 86-166 426-502 (652)
25 PHA03162 hypothetical protein; 76.7 33 0.00073 26.7 10.2 57 83-139 14-74 (135)
26 PF08317 Spc7: Spc7 kinetochor 74.6 62 0.0014 28.8 12.6 71 98-168 186-260 (325)
27 PF07106 TBPIP: Tat binding pr 73.0 23 0.00049 28.4 7.6 56 84-143 81-136 (169)
28 COG3074 Uncharacterized protei 71.0 32 0.00069 23.9 7.5 46 116-166 1-46 (79)
29 PHA02592 52 DNA topisomerase I 69.5 93 0.002 29.2 11.7 28 43-74 299-326 (439)
30 KOG3759 Uncharacterized RUN do 68.8 47 0.001 31.4 9.4 52 110-168 196-250 (621)
31 cd07429 Cby_like Chibby, a nuc 68.6 9 0.0002 28.9 4.0 21 148-168 75-95 (108)
32 PF07106 TBPIP: Tat binding pr 67.8 61 0.0013 25.8 9.6 55 85-140 112-166 (169)
33 PRK01371 sec-independent trans 65.7 4.3 9.4E-05 31.9 1.9 53 42-121 14-66 (137)
34 PRK13169 DNA replication intia 65.2 50 0.0011 25.0 7.5 46 118-168 7-52 (110)
35 KOG1962 B-cell receptor-associ 64.0 90 0.002 26.4 9.8 53 116-168 155-209 (216)
36 PRK01919 tatB sec-independent 63.5 45 0.00099 27.1 7.4 29 43-75 15-43 (169)
37 PRK05561 DNA topoisomerase IV 62.8 1.6E+02 0.0036 29.5 12.7 143 8-160 291-459 (742)
38 TIGR03752 conj_TIGR03752 integ 61.0 1.5E+02 0.0033 28.1 11.9 71 85-168 69-139 (472)
39 PRK11637 AmiB activator; Provi 60.9 1.4E+02 0.003 27.5 11.4 49 120-168 76-126 (428)
40 COG4467 Regulator of replicati 60.8 37 0.0008 25.6 5.9 37 118-166 7-43 (114)
41 PF10211 Ax_dynein_light: Axon 60.7 94 0.002 25.5 10.3 22 51-74 82-103 (189)
42 PF14662 CCDC155: Coiled-coil 58.1 82 0.0018 26.2 8.1 21 148-168 98-118 (193)
43 KOG4637 Adaptor for phosphoino 57.6 8.6 0.00019 35.1 2.5 41 33-75 367-412 (464)
44 TIGR02231 conserved hypothetic 57.5 1.4E+02 0.0031 28.3 10.9 51 114-165 122-172 (525)
45 COG1382 GimC Prefoldin, chaper 57.0 87 0.0019 24.0 8.0 39 129-168 69-107 (119)
46 COG0139 HisI Phosphoribosyl-AM 56.1 6.1 0.00013 29.8 1.1 27 27-53 69-95 (111)
47 PRK04654 sec-independent trans 55.2 7.4 0.00016 32.8 1.6 28 43-74 15-42 (214)
48 PF04849 HAP1_N: HAP1 N-termin 55.1 1E+02 0.0023 27.5 8.8 87 82-168 160-264 (306)
49 KOG4797 Transcriptional regula 54.8 25 0.00053 26.6 4.1 26 141-166 70-95 (123)
50 PF00170 bZIP_1: bZIP transcri 52.8 65 0.0014 21.3 5.9 34 131-168 16-49 (64)
51 smart00338 BRLZ basic region l 52.5 64 0.0014 21.4 5.7 34 131-168 16-49 (65)
52 PF10186 Atg14: UV radiation r 51.3 1.5E+02 0.0033 25.2 10.6 11 52-62 8-18 (302)
53 PF01502 PRA-CH: Phosphoribosy 50.8 6.9 0.00015 27.5 0.6 37 17-53 18-63 (75)
54 PF14257 DUF4349: Domain of un 50.3 1.2E+02 0.0025 25.9 8.4 80 60-158 103-189 (262)
55 PF07888 CALCOCO1: Calcium bin 49.5 1.4E+02 0.0031 28.9 9.3 23 145-167 213-235 (546)
56 PF04849 HAP1_N: HAP1 N-termin 48.8 1.1E+02 0.0023 27.4 7.9 23 146-168 161-183 (306)
57 KOG4311 Histidinol dehydrogena 48.2 1.3E+02 0.0027 26.6 8.0 39 15-53 180-227 (359)
58 PF08432 Vfa1: AAA-ATPase Vps4 48.2 33 0.00071 28.0 4.4 23 39-61 11-41 (182)
59 KOG0804 Cytoplasmic Zn-finger 48.2 1.7E+02 0.0036 27.7 9.2 29 137-165 381-409 (493)
60 PF14775 NYD-SP28_assoc: Sperm 47.8 42 0.00092 22.4 4.1 39 64-108 21-59 (60)
61 TIGR00606 rad50 rad50. This fa 47.3 2.8E+02 0.0061 29.7 12.1 25 44-69 151-176 (1311)
62 PF09278 MerR-DNA-bind: MerR, 46.5 80 0.0017 20.5 5.6 45 115-160 14-58 (65)
63 PRK10884 SH3 domain-containing 45.7 1.4E+02 0.003 25.0 7.8 18 88-105 92-109 (206)
64 PF00521 DNA_topoisoIV: DNA gy 45.3 65 0.0014 29.9 6.4 62 3-74 243-315 (426)
65 PF15188 CCDC-167: Coiled-coil 44.6 1.2E+02 0.0025 21.9 8.0 38 114-163 31-68 (85)
66 PRK00182 tatB sec-independent 43.6 16 0.00036 29.4 1.9 29 43-75 16-44 (160)
67 PF15372 DUF4600: Domain of un 43.4 93 0.002 24.2 5.9 51 80-130 6-65 (129)
68 KOG4643 Uncharacterized coiled 43.3 2.3E+02 0.0051 29.6 10.0 41 128-168 283-324 (1195)
69 COG5068 ARG80 Regulator of arg 42.5 17 0.00036 33.6 1.9 60 8-74 18-77 (412)
70 KOG0709 CREB/ATF family transc 41.9 29 0.00064 32.6 3.5 53 116-168 234-309 (472)
71 TIGR01478 STEVOR variant surfa 41.5 46 0.00099 29.4 4.4 45 7-73 25-69 (295)
72 PF03428 RP-C: Replication pro 41.4 81 0.0018 25.8 5.7 65 41-108 96-170 (177)
73 KOG0977 Nuclear envelope prote 40.5 3.5E+02 0.0076 26.2 11.7 23 145-167 155-177 (546)
74 COG0165 ArgH Argininosuccinate 40.5 63 0.0014 30.5 5.4 48 121-168 93-140 (459)
75 PF10664 NdhM: Cyanobacterial 39.9 96 0.0021 23.1 5.2 30 42-74 25-54 (108)
76 KOG4445 Uncharacterized conser 39.5 1.2E+02 0.0026 27.1 6.7 97 40-139 117-219 (368)
77 KOG1853 LIS1-interacting prote 39.2 2E+02 0.0043 25.2 7.8 24 119-142 87-110 (333)
78 KOG4603 TBP-1 interacting prot 38.8 2.2E+02 0.0048 23.4 8.7 19 37-55 46-64 (201)
79 KOG4196 bZIP transcription fac 38.7 43 0.00093 26.1 3.4 21 85-105 84-104 (135)
80 PF09726 Macoilin: Transmembra 38.6 1.3E+02 0.0027 30.1 7.5 83 86-168 457-561 (697)
81 PF09158 MotCF: Bacteriophage 38.4 13 0.00028 27.8 0.5 54 4-74 18-72 (103)
82 PF04880 NUDE_C: NUDE protein, 38.4 75 0.0016 25.8 5.0 43 121-168 2-47 (166)
83 PF04977 DivIC: Septum formati 37.9 51 0.0011 22.3 3.5 27 82-108 24-50 (80)
84 KOG0977 Nuclear envelope prote 37.9 3.5E+02 0.0076 26.2 10.0 22 84-105 108-129 (546)
85 PF02416 MttA_Hcf106: mttA/Hcf 37.7 7.4 0.00016 25.4 -0.8 29 43-75 12-40 (53)
86 COG4917 EutP Ethanolamine util 37.7 20 0.00044 28.1 1.5 25 35-59 59-83 (148)
87 PF11629 Mst1_SARAH: C termina 37.7 52 0.0011 21.2 3.1 18 112-129 4-21 (49)
88 cd01109 HTH_YyaN Helix-Turn-He 37.1 1.7E+02 0.0036 21.5 6.6 51 115-166 57-107 (113)
89 PF04873 EIN3: Ethylene insens 36.9 11 0.00025 34.2 0.0 41 22-62 50-91 (354)
90 PHA02109 hypothetical protein 36.9 1.6E+02 0.0035 24.2 6.6 45 107-163 179-225 (233)
91 PF06751 EutB: Ethanolamine am 36.8 13 0.00029 34.4 0.4 15 198-212 143-157 (444)
92 PF09744 Jnk-SapK_ap_N: JNK_SA 36.5 2.2E+02 0.0049 22.8 10.9 27 142-168 86-112 (158)
93 PRK09822 lipopolysaccharide co 36.3 15 0.00032 31.6 0.6 40 20-60 119-161 (269)
94 PF09941 DUF2173: Uncharacteri 35.7 30 0.00065 26.1 2.1 28 31-59 2-29 (108)
95 PF11365 DUF3166: Protein of u 35.4 1.8E+02 0.0039 21.4 6.3 71 85-164 18-95 (96)
96 TIGR02449 conserved hypothetic 35.3 1.5E+02 0.0032 20.3 6.8 44 120-168 1-44 (65)
97 PRK00888 ftsB cell division pr 35.2 1.1E+02 0.0024 22.7 5.1 26 143-168 32-57 (105)
98 PF04697 Pinin_SDK_N: pinin/SD 34.9 64 0.0014 25.1 3.8 35 84-118 5-39 (134)
99 PF06005 DUF904: Protein of un 34.7 1.4E+02 0.0031 20.6 5.2 31 138-168 11-41 (72)
100 PF14009 DUF4228: Domain of un 34.6 34 0.00074 26.8 2.5 33 40-74 14-46 (181)
101 PLN03230 acetyl-coenzyme A car 34.6 1.3E+02 0.0028 28.1 6.4 48 53-102 38-93 (431)
102 PRK01770 sec-independent trans 34.5 63 0.0014 26.4 3.9 28 43-74 15-42 (171)
103 PRK00708 sec-independent trans 34.5 49 0.0011 27.9 3.4 29 43-75 15-43 (209)
104 PRK03918 chromosome segregatio 34.2 5E+02 0.011 26.1 12.1 34 38-71 120-154 (880)
105 TIGR02168 SMC_prok_B chromosom 34.1 5.3E+02 0.012 26.4 14.4 13 47-59 139-151 (1179)
106 TIGR02338 gimC_beta prefoldin, 34.0 1.9E+02 0.0042 21.3 11.9 44 124-168 61-104 (110)
107 PF11365 DUF3166: Protein of u 34.0 1.3E+02 0.0029 22.1 5.2 29 140-168 10-38 (96)
108 PF08614 ATG16: Autophagy prot 33.8 2.6E+02 0.0057 22.8 11.7 46 123-168 134-181 (194)
109 PRK15067 ethanolamine ammonia 33.8 21 0.00045 33.3 1.2 16 197-212 152-167 (461)
110 PF07926 TPR_MLP1_2: TPR/MLP1/ 33.3 2.2E+02 0.0047 21.7 11.0 27 142-168 102-128 (132)
111 PRK13169 DNA replication intia 33.1 2.1E+02 0.0046 21.5 6.9 27 142-168 19-45 (110)
112 PF05529 Bap31: B-cell recepto 32.9 2.6E+02 0.0057 22.5 8.0 51 118-168 124-184 (192)
113 cd02973 TRX_GRX_like Thioredox 32.6 52 0.0011 21.3 2.7 27 43-74 1-27 (67)
114 KOG0250 DNA repair protein RAD 32.5 6.2E+02 0.013 26.7 11.6 22 143-164 441-462 (1074)
115 PF04977 DivIC: Septum formati 32.2 1.4E+02 0.003 20.0 5.0 26 143-168 22-47 (80)
116 COG4831 Roadblock/LC7 domain [ 32.2 37 0.0008 25.1 2.0 30 30-60 3-32 (109)
117 PF07407 Seadorna_VP6: Seadorn 31.9 1E+02 0.0022 28.0 5.0 39 110-160 23-61 (420)
118 COG0419 SbcC ATPase involved i 31.6 5.5E+02 0.012 26.2 11.0 121 33-161 121-248 (908)
119 KOG2751 Beclin-like protein [S 31.4 3.6E+02 0.0077 25.4 8.6 22 123-144 204-225 (447)
120 PF08702 Fib_alpha: Fibrinogen 31.4 2.6E+02 0.0056 22.0 10.5 29 48-76 7-35 (146)
121 PF06156 DUF972: Protein of un 31.4 1.1E+02 0.0023 23.0 4.5 40 66-105 5-45 (107)
122 PF13758 Prefoldin_3: Prefoldi 31.3 1.1E+02 0.0023 22.7 4.4 18 77-94 7-24 (99)
123 KOG4360 Uncharacterized coiled 30.8 3.2E+02 0.0069 26.4 8.3 29 83-111 160-188 (596)
124 KOG3048 Molecular chaperone Pr 30.7 2.7E+02 0.0059 22.2 6.7 35 110-152 7-41 (153)
125 PF14645 Chibby: Chibby family 30.5 82 0.0018 23.9 3.8 21 148-168 74-94 (116)
126 smart00340 HALZ homeobox assoc 30.5 1E+02 0.0022 19.2 3.5 25 85-109 8-32 (44)
127 COG0216 PrfA Protein chain rel 30.4 4.3E+02 0.0092 24.2 9.8 46 120-165 54-103 (363)
128 PLN03128 DNA topoisomerase 2; 30.3 6E+02 0.013 27.1 11.0 27 44-74 961-987 (1135)
129 PF13870 DUF4201: Domain of un 30.3 2.8E+02 0.0061 22.1 12.1 76 90-168 14-100 (177)
130 KOG0930 Guanine nucleotide exc 30.2 1.7E+02 0.0037 26.1 6.1 43 113-164 8-50 (395)
131 smart00338 BRLZ basic region l 30.2 1.6E+02 0.0036 19.3 5.2 27 142-168 37-63 (65)
132 PLN02372 violaxanthin de-epoxi 29.7 4.8E+02 0.01 24.5 10.2 41 118-160 378-418 (455)
133 PF10018 Med4: Vitamin-D-recep 29.6 3.1E+02 0.0067 22.3 8.0 49 118-168 4-52 (188)
134 KOG4252 GTP-binding protein [S 28.9 30 0.00065 28.9 1.2 15 39-53 91-105 (246)
135 KOG3612 PHD Zn-finger protein 28.7 5.1E+02 0.011 25.2 9.3 72 35-106 404-477 (588)
136 PF03980 Nnf1: Nnf1 ; InterPr 28.7 2.1E+02 0.0046 20.9 5.8 44 112-168 60-103 (109)
137 PF15254 CCDC14: Coiled-coil d 28.5 6.5E+02 0.014 25.7 10.7 48 116-168 427-478 (861)
138 PF07716 bZIP_2: Basic region 28.5 1.6E+02 0.0035 18.7 5.9 34 131-168 15-48 (54)
139 PRK00888 ftsB cell division pr 28.4 90 0.002 23.1 3.6 27 82-108 34-60 (105)
140 TIGR03185 DNA_S_dndD DNA sulfu 28.2 5.7E+02 0.012 25.0 11.5 23 84-106 393-415 (650)
141 PF07888 CALCOCO1: Calcium bin 28.1 5.6E+02 0.012 24.9 10.8 30 31-61 78-114 (546)
142 PF09151 DUF1936: Domain of un 27.8 55 0.0012 19.0 1.8 26 35-60 3-30 (36)
143 PF05470 eIF-3c_N: Eukaryotic 27.8 5.9E+02 0.013 25.0 10.1 115 41-168 15-131 (595)
144 PF04728 LPP: Lipoprotein leuc 27.5 1.9E+02 0.0041 19.2 5.1 30 139-168 4-33 (56)
145 PF10243 MIP-T3: Microtubule-b 26.9 21 0.00046 34.1 0.0 62 83-145 464-528 (539)
146 PF11976 Rad60-SLD: Ubiquitin- 26.8 80 0.0017 20.9 2.9 35 44-78 2-37 (72)
147 COG1579 Zn-ribbon protein, pos 26.8 4E+02 0.0086 22.9 7.7 85 84-168 33-119 (239)
148 COG1382 GimC Prefoldin, chaper 26.8 1.5E+02 0.0032 22.8 4.6 72 33-113 44-115 (119)
149 PF10224 DUF2205: Predicted co 26.7 1.1E+02 0.0024 21.7 3.6 29 81-109 36-64 (80)
150 PTZ00046 rifin; Provisional 26.5 58 0.0013 29.7 2.7 34 36-79 39-72 (358)
151 PF10112 Halogen_Hydrol: 5-bro 26.3 79 0.0017 25.8 3.4 49 27-77 98-151 (199)
152 KOG4005 Transcription factor X 26.3 3.1E+02 0.0068 23.7 6.9 13 49-61 30-42 (292)
153 smart00415 HSF heat shock fact 26.0 56 0.0012 24.0 2.2 39 37-75 12-51 (105)
154 PRK03100 sec-independent trans 26.0 49 0.0011 25.9 1.9 28 42-73 15-42 (136)
155 TIGR01950 SoxR redox-sensitive 26.0 2.1E+02 0.0045 22.3 5.5 53 115-167 57-109 (142)
156 PF12252 SidE: Dot/Icm substra 26.0 4.2E+02 0.009 28.1 8.6 66 86-152 1128-1193(1439)
157 cd01106 HTH_TipAL-Mta Helix-Tu 25.9 2.6E+02 0.0055 20.1 5.8 15 115-129 57-71 (103)
158 PF07676 PD40: WD40-like Beta 25.9 63 0.0014 18.6 2.0 20 41-60 9-28 (39)
159 PF10491 Nrf1_DNA-bind: NLS-bi 25.8 84 0.0018 26.5 3.3 47 26-74 35-88 (214)
160 PF08946 Osmo_CC: Osmosensory 25.6 1.8E+02 0.004 18.4 4.0 21 142-162 23-43 (46)
161 cd04769 HTH_MerR2 Helix-Turn-H 25.5 2.8E+02 0.0061 20.5 6.3 13 115-127 56-68 (116)
162 PRK11637 AmiB activator; Provi 24.9 5.4E+02 0.012 23.6 11.2 27 142-168 107-133 (428)
163 PF15397 DUF4618: Domain of un 24.9 4.7E+02 0.01 22.8 10.3 31 138-168 186-216 (258)
164 PRK13729 conjugal transfer pil 24.9 3.6E+02 0.0078 25.7 7.6 27 142-168 94-120 (475)
165 PF10498 IFT57: Intra-flagella 24.8 5.3E+02 0.012 23.5 10.3 34 120-154 242-275 (359)
166 TIGR02209 ftsL_broad cell divi 24.7 2.1E+02 0.0047 19.6 5.0 28 141-168 27-54 (85)
167 cd01107 HTH_BmrR Helix-Turn-He 24.7 2.8E+02 0.0061 20.2 6.1 46 114-165 57-102 (108)
168 PRK14860 tatA twin arginine tr 24.5 21 0.00045 24.3 -0.4 37 34-76 8-44 (64)
169 KOG0184 20S proteasome, regula 24.4 41 0.00088 28.7 1.2 21 36-56 3-23 (254)
170 PF10226 DUF2216: Uncharacteri 24.3 4.2E+02 0.0091 22.1 9.7 99 64-167 18-130 (195)
171 PF09798 LCD1: DNA damage chec 24.2 3.9E+02 0.0085 26.5 8.0 49 120-168 5-56 (654)
172 PF05700 BCAS2: Breast carcino 24.2 4.3E+02 0.0092 22.1 8.9 16 120-135 176-191 (221)
173 PF01920 Prefoldin_2: Prefoldi 24.0 2.7E+02 0.0058 19.7 5.6 69 33-110 36-104 (106)
174 PF02183 HALZ: Homeobox associ 23.9 1.9E+02 0.0042 18.0 5.2 30 139-168 6-35 (45)
175 cd04787 HTH_HMRTR_unk Helix-Tu 23.8 3.3E+02 0.0071 20.7 6.3 53 115-168 57-109 (133)
176 KOG0971 Microtubule-associated 23.7 8.6E+02 0.019 25.5 12.0 55 83-137 326-389 (1243)
177 PRK13824 replication initiatio 23.5 5.2E+02 0.011 23.9 8.4 96 34-138 103-212 (404)
178 PF13252 DUF4043: Protein of u 23.5 40 0.00088 30.5 1.1 30 31-60 270-299 (341)
179 TIGR01410 tatB twin arginine-t 23.5 73 0.0016 22.5 2.3 29 43-75 14-42 (80)
180 COG4888 Uncharacterized Zn rib 23.4 49 0.0011 24.6 1.4 58 1-61 1-62 (104)
181 PF02009 Rifin_STEVOR: Rifin/s 23.1 52 0.0011 29.2 1.7 32 37-78 20-51 (299)
182 PLN03229 acetyl-coenzyme A car 23.1 2.6E+02 0.0057 28.1 6.6 21 42-62 49-69 (762)
183 cd02999 PDI_a_ERp44_like PDIa 22.8 1.1E+02 0.0024 21.9 3.2 40 29-73 6-45 (100)
184 PRK14858 tatA twin arginine tr 22.8 48 0.001 25.0 1.2 29 43-75 15-43 (108)
185 PF11460 DUF3007: Protein of u 22.7 1.5E+02 0.0033 22.1 3.9 18 112-129 86-103 (104)
186 TIGR01411 tatAE twin arginine- 22.7 22 0.00047 22.6 -0.5 29 43-75 13-41 (47)
187 TIGR03156 GTP_HflX GTP-binding 22.7 1.6E+02 0.0035 26.5 4.8 25 82-106 109-133 (351)
188 PF09432 THP2: Tho complex sub 22.5 90 0.002 24.3 2.7 28 40-74 23-50 (132)
189 COG4575 ElaB Uncharacterized c 22.5 3.4E+02 0.0073 20.3 6.2 28 113-140 31-58 (104)
190 TIGR01069 mutS2 MutS2 family p 22.4 8.1E+02 0.018 24.7 13.4 24 120-143 540-563 (771)
191 KOG4673 Transcription factor T 22.3 5.7E+02 0.012 25.8 8.5 119 47-168 282-432 (961)
192 COG3433 Aryl carrier domain [S 22.3 75 0.0016 22.2 2.0 30 103-137 5-34 (74)
193 cd02975 PfPDO_like_N Pyrococcu 22.3 1.2E+02 0.0025 22.3 3.3 30 40-74 20-50 (113)
194 PRK01470 tatA twin arginine tr 22.2 24 0.00052 22.9 -0.4 29 43-75 14-42 (51)
195 cd02980 TRX_Fd_family Thioredo 22.2 74 0.0016 21.3 2.1 30 39-70 47-76 (77)
196 cd04790 HTH_Cfa-like_unk Helix 22.2 2.8E+02 0.0061 22.2 5.8 41 115-162 58-98 (172)
197 cd01108 HTH_CueR Helix-Turn-He 22.2 3.5E+02 0.0075 20.3 6.4 51 115-166 57-107 (127)
198 PRK00404 tatB sec-independent 22.1 1.3E+02 0.0028 23.8 3.6 27 43-73 15-41 (141)
199 PRK10803 tol-pal system protei 22.0 86 0.0019 27.1 2.9 25 81-105 60-84 (263)
200 PRK09631 DNA topoisomerase IV 21.7 7.9E+02 0.017 24.3 14.8 44 122-165 388-431 (635)
201 PF04210 MtrG: Tetrahydrometha 21.7 1.3E+02 0.0028 20.8 3.1 33 82-114 12-44 (70)
202 PF05529 Bap31: B-cell recepto 21.6 4.3E+02 0.0094 21.3 7.6 18 143-160 173-190 (192)
203 cd01282 HTH_MerR-like_sg3 Heli 21.6 3.4E+02 0.0073 20.0 6.1 48 115-163 56-106 (112)
204 KOG0183 20S proteasome, regula 21.6 51 0.0011 28.0 1.3 16 41-56 4-19 (249)
205 COG4303 EutB Ethanolamine ammo 21.6 46 0.001 30.1 1.1 14 199-212 154-167 (453)
206 TIGR02047 CadR-PbrR Cd(II)/Pb( 21.6 3.6E+02 0.0077 20.4 6.0 51 115-166 57-107 (127)
207 PRK15002 redox-sensitivie tran 21.4 3.3E+02 0.0071 21.6 5.9 51 115-165 67-117 (154)
208 TIGR02894 DNA_bind_RsfA transc 21.2 4.5E+02 0.0097 21.2 11.8 56 113-168 77-134 (161)
209 PF04999 FtsL: Cell division p 21.0 2.7E+02 0.0058 19.8 4.9 29 140-168 37-65 (97)
210 cd08888 SRPBCC_PITPNA-B_like L 20.8 1.1E+02 0.0024 26.6 3.3 26 111-136 232-257 (258)
211 PRK10361 DNA recombination pro 20.8 6.3E+02 0.014 24.1 8.5 55 113-167 130-187 (475)
212 PF00352 TBP: Transcription fa 20.7 1.5E+02 0.0032 20.8 3.4 49 17-72 29-79 (86)
213 PRK09514 zntR zinc-responsive 20.3 3.1E+02 0.0068 21.1 5.5 52 115-166 58-109 (140)
214 PF04566 RNA_pol_Rpb2_4: RNA p 20.0 39 0.00085 22.7 0.2 31 22-54 23-54 (63)
No 1
>KOG0014 consensus MADS box transcription factor [Transcription]
Probab=100.00 E-value=5.5e-39 Score=265.40 Aligned_cols=154 Identities=40% Similarity=0.569 Sum_probs=122.4
Q ss_pred CCcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhccccc
Q 040046 1 MARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLW 80 (221)
Q Consensus 1 MgR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~ 80 (221)
|||+||+|++|+|+++|||||+|||+||||||+||||||||+||||||||+|++|+|++|+.++.+|++||...+..+..
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 99999999999999999999999999999999999999999999999999999999999876799999999876543211
Q ss_pred c-----hhh---------------hh-----hHHHHHHHHHHHHHHH---HHHHhhcCCCCCCCCH-HHHHHHHHHHHHH
Q 040046 81 S-----SQY---------------EK-----MQENLKNLKEVNINLK---KEIRQRLGESLNDLSL-KKLSDLEQDVDNC 131 (221)
Q Consensus 81 ~-----~~~---------------e~-----lq~el~kLk~en~~L~---~~ir~~~Ge~L~~Ls~-~EL~~LE~~Le~~ 131 (221)
. ... +. .......++...+.+. ...+++.|+++.++++ ++|..++.+++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~l~~~~~l~~~~~~l~~~ 160 (195)
T KOG0014|consen 81 KKRVNLESFLRNKKLTELVEEEEKEELKLQLKKSLESSLKVDPEDLELLELEQRKLTGEDLQSLSSLNELNSLESQLESS 160 (195)
T ss_pred ccccchhhHhhhhhhhcccchhhhhhccchhhhhhhhhhhcchhhhhhhHHHHHHHhccccccCCHHHHhcchhhHHHHh
Confidence 0 000 00 1112222333333433 3367889999999999 9999999999999
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHH
Q 040046 132 LRIIRERKLRAISGQIV-THRKKV 154 (221)
Q Consensus 132 L~~VR~rK~~~l~~qi~-~lkkK~ 154 (221)
+..+|..+...+.+++. .++.+.
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~~~ 184 (195)
T KOG0014|consen 161 LHNSRSSKSKPLSDSNFQVLQEKE 184 (195)
T ss_pred hcCCCCCCCcCCcchhhhhhcccc
Confidence 99999999988877765 344333
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=4.5e-35 Score=208.53 Aligned_cols=77 Identities=61% Similarity=0.986 Sum_probs=74.4
Q ss_pred CcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhccccc
Q 040046 2 ARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLW 80 (221)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~ 80 (221)
||+||+|++|||+.+|++||+||++||||||+||||||||+||+|||||+|++|.|+||+ +++||+||++.++.++|
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 899999999999999999999999999999999999999999999999999999999997 59999999999988776
No 3
>cd00266 MADS_SRF_like SRF-like/Type I subfamily of MADS (MCM1, Agamous, Deficiens, and SRF (serum response factor) box family of eukaryotic transcriptional regulators. Binds DNA and exists as hetero- and homo-dimers. Differs from the MEF-like/Type II subgroup mainly in position of the alpha 2 helix responsible for the dimerization interface. Important in homeotic regulation in plants and in immediate-early development in animals. Also found in fungi.
Probab=99.96 E-value=4e-31 Score=190.86 Aligned_cols=74 Identities=47% Similarity=0.731 Sum_probs=70.6
Q ss_pred CcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhc
Q 040046 2 ARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLK 76 (221)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~ 76 (221)
||+||+|++|+|+.+|++||+||+.||||||+||||||||+||+|||||+|+.+.|++++. +..++++|...+.
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 8999999999999999999999999999999999999999999999999999999988765 9999999988764
No 4
>smart00432 MADS MADS domain.
Probab=99.96 E-value=6.2e-31 Score=177.35 Aligned_cols=59 Identities=71% Similarity=1.036 Sum_probs=58.2
Q ss_pred CcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCcccccccc
Q 040046 2 ARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sp 60 (221)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+++.|++|
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=6.9e-30 Score=172.37 Aligned_cols=59 Identities=71% Similarity=1.048 Sum_probs=57.7
Q ss_pred CcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCcccccccc
Q 040046 2 ARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sp 60 (221)
||+||+|++|+|+.+|++||+||+.||+|||+||||||||+||+|||||+|+++.|++|
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 89999999999999999999999999999999999999999999999999999999875
No 6
>PF00319 SRF-TF: SRF-type transcription factor (DNA-binding and dimerisation domain); InterPro: IPR002100 Human serum response factor (SRF) is a ubiquitous nuclear protein important for cell proliferation and differentiation. SRF function is essential for transcriptional regulation of numerous growth-factor-inducible genes, such as c-fos oncogene and muscle-specific actin genes. A core domain of around 90 amino acids is sufficient for the activities of DNA-binding, dimerisation and interaction with accessory factors. Within the core is a DNA-binding region, designated the MADS box [], that is highly similar to many eukaryotic regulatory proteins: among these are MCM1, the regulator of cell type-specific genes in fission yeast; DSRF, a Drosophila trachea development factor; the MEF2 family of myocyte-specific enhancer factors; and the Agamous and Deficiens families of plant homeotic proteins. In SRF, the MADS box has been shown to be involved in DNA-binding and dimerisation []. Proteins belonging to the MADS family function as dimers, the primary DNA-binding element of which is an anti-parallel coiled coil of two amphipathic alpha-helices, one from each subunit. The DNA wraps around the coiled coil allowing the basic N-termini of the helices to fit into the DNA major groove. The chain extending from the helix N-termini reaches over the DNA backbone and penetrates into the minor groove. A 4-stranded, anti-parallel beta-sheet packs against the coiled-coil face opposite the DNA and is the central element of the dimerisation interface. The MADS-box domain is commonly found associated with K-box region see IPR002487 from INTERPRO ; GO: 0003677 DNA binding, 0046983 protein dimerization activity; PDB: 1MNM_B 1N6J_A 1TQE_S 3MU6_D 3P57_I 1EGW_A 1C7U_B 3KOV_A 1HBX_A 1K6O_C ....
Probab=99.93 E-value=4.9e-28 Score=158.29 Aligned_cols=51 Identities=55% Similarity=0.884 Sum_probs=46.8
Q ss_pred EEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccc
Q 040046 9 KRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVS 59 (221)
Q Consensus 9 k~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~s 59 (221)
|+|+|++.|++||+||+.||+|||.||||||||+||+|||||+|++|.|+|
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=99.84 E-value=1.9e-20 Score=139.75 Aligned_cols=98 Identities=42% Similarity=0.649 Sum_probs=95.3
Q ss_pred HHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 71 YQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTH 150 (221)
Q Consensus 71 Y~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~l 150 (221)
|++.++.+.|...++.++.++.+|+.+++.|+..+|+++|+||++||++||..||++|+.+|.+||+||.++|.++|+.+
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 77888899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 040046 151 RKKVRREEEENRKLRNGF 168 (221)
Q Consensus 151 kkK~~~l~e~n~~L~~~~ 168 (221)
++|++.+.++|..|..++
T Consensus 81 ~~ke~~l~~en~~L~~~~ 98 (100)
T PF01486_consen 81 KKKERELEEENNQLRQKI 98 (100)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 999999999999999876
No 8
>KOG0015 consensus Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.79 E-value=2.4e-20 Score=159.67 Aligned_cols=60 Identities=42% Similarity=0.636 Sum_probs=58.9
Q ss_pred CcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccc
Q 040046 2 ARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSS 61 (221)
Q Consensus 2 gR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps 61 (221)
||.||+|++|||+..|.|||||||.||||||+|||||.|.+|-|+|.|.+|-+|.|++|-
T Consensus 63 gr~kik~eyIenK~rR~~tFSKRK~GImKKAyELs~LTGtqVllLVaSEtGhVyTFaTpK 122 (338)
T KOG0015|consen 63 GRVKIKMEYIENKLRRYVTFSKRKTGIMKKAYELSTLTGTQVLLLVASETGHVYTFATPK 122 (338)
T ss_pred ceeeccchhhcccceeeeeehhhhhhhHHHHHHhhhcccceEEEEEEecCcceEEecccc
Confidence 799999999999999999999999999999999999999999999999999999999985
No 9
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=99.47 E-value=1.6e-14 Score=129.03 Aligned_cols=61 Identities=41% Similarity=0.590 Sum_probs=59.9
Q ss_pred CCcccceeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccc
Q 040046 1 MARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSS 61 (221)
Q Consensus 1 MgR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps 61 (221)
|||+||.|..|+|+.+|.|||+||+.||+|||+||+||.|.+|.++|.|.+|+++.|++|.
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 7899999999999999999999999999999999999999999999999999999999985
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=92.98 E-value=0.87 Score=31.79 Aligned_cols=48 Identities=23% Similarity=0.315 Sum_probs=34.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 116 Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
||++-|..||..+..++..|.. +..+++.|+.+...|.++|..|..+.
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 5789999999999999998864 55556677777666666666665544
No 11
>PRK04098 sec-independent translocase; Provisional
Probab=89.16 E-value=0.68 Score=37.20 Aligned_cols=77 Identities=14% Similarity=0.254 Sum_probs=41.4
Q ss_pred ceeeeeecCCCccccccccchhhHHHHHHHHhhhccc--ccc--hhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 040046 42 KVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKID--LWS--SQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLS 117 (221)
Q Consensus 42 ~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~--~~~--~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls 117 (221)
=||||||+| +|+.+.+- ++-+.+-.|++..+.- -.+ -....+++++.+.++..+.....+| ..++
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 368999999 88888766 3667777777654210 000 1123344444444444433333332 2266
Q ss_pred HHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVD 129 (221)
Q Consensus 118 ~~EL~~LE~~Le 129 (221)
+++|.++-..+.
T Consensus 83 ~eel~~~~~~~~ 94 (158)
T PRK04098 83 FEELDDLKITAE 94 (158)
T ss_pred hHHHHHHhhhhh
Confidence 777766644433
No 12
>PF10504 DUF2452: Protein of unknown function (DUF2452); InterPro: IPR019534 This entry contains proteins that have no known function.
Probab=87.97 E-value=6.1 Score=31.78 Aligned_cols=44 Identities=30% Similarity=0.339 Sum_probs=35.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH
Q 040046 117 SLKKLSDLEQDVDNCLRIIRER---KLRAISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 117 s~~EL~~LE~~Le~~L~~VR~r---K~~~l~~qi~~lkkK~~~l~e~ 160 (221)
+..||..|-++++.+...+|++ |-.+|.+||..|+++-+.+.++
T Consensus 28 ~~~dlv~la~~iq~Ad~~~~~~t~~kL~~I~eQi~~Lq~QA~~ile~ 74 (159)
T PF10504_consen 28 DPFDLVDLAQQIQKADSAMRANTCNKLEVIAEQIRFLQEQARKILEE 74 (159)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 6889999999999999998875 6677888888888776555443
No 13
>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=85.07 E-value=0.21 Score=27.14 Aligned_cols=14 Identities=29% Similarity=0.359 Sum_probs=11.4
Q ss_pred eeeeeecCCCcccc
Q 040046 43 VSIIMCSSTGKVQE 56 (221)
Q Consensus 43 v~lIifs~~gk~~~ 56 (221)
-.+.+|||.|+++.
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 45679999999984
No 14
>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=84.85 E-value=2.2 Score=28.62 Aligned_cols=32 Identities=19% Similarity=0.291 Sum_probs=24.3
Q ss_pred hhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 040046 107 QRLGESLNDLSLKKLSDLEQDVDNCLRIIRER 138 (221)
Q Consensus 107 ~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~r 138 (221)
+..|+||+.||++||..--..|+.=+.+++.-
T Consensus 12 ~~ig~dLs~lSv~EL~~RIa~L~aEI~R~~~~ 43 (59)
T PF06698_consen 12 HEIGEDLSLLSVEELEERIALLEAEIARLEAA 43 (59)
T ss_pred cccCCCchhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 45799999999999998766666665555543
No 15
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=83.73 E-value=22 Score=31.72 Aligned_cols=74 Identities=15% Similarity=0.239 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHhhc--CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 95 KEVNINLKKEIRQRL--GESLNDLSLKKLSDLEQDVDNCLRIIRERKLRA--ISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 95 k~en~~L~~~ir~~~--Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~--l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+....|+.+++++. -+.+++++.++|..+-..|..-...|...+.++ +.++...+..++....+.-..+..++
T Consensus 178 ~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~~~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I 255 (312)
T smart00787 178 RDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKKLLQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEI 255 (312)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444554443 457899999999999999988888877766653 33444445555554444444444444
No 16
>PRK10884 SH3 domain-containing protein; Provisional
Probab=82.01 E-value=29 Score=29.07 Aligned_cols=49 Identities=14% Similarity=0.267 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIR--ERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR--~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
...++.+.+..+-..+. ...++-+.+++..++.+...++.+|..+....
T Consensus 119 ~~~~l~~~~~~~~~~~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~~ 169 (206)
T PRK10884 119 RTAEMQQKVAQSDSVINGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRTI 169 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444333333 33444556666666666666666665555443
No 17
>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=80.35 E-value=34 Score=32.12 Aligned_cols=146 Identities=19% Similarity=0.274 Sum_probs=71.7
Q ss_pred ccc-eeEEecCCCCc-cccc---cccc-------cccchhhh-hhhcccCcceeeeeecCCCccccccccchhhHHHHHH
Q 040046 4 GKI-QIKRIENATNR-QVTF---SKRR-------NGLFKKAQ-ELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDE 70 (221)
Q Consensus 4 ~Ki-~ik~Ien~~~R-qvTf---sKRr-------~GL~KKA~-ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~R 70 (221)
+|+ .|+-|.+.++| .|.| -||. ++|+|+.. +-|+-| -+++|.++|++..| + +++||+.
T Consensus 253 ~k~~~I~~~~D~s~~~~vrivI~lk~~~~~~~~~~~L~k~t~L~~s~~~----Nm~~~~~~g~p~~~-~----l~~iL~~ 323 (445)
T cd00187 253 KKIEGISDVRDESDREGIRFVIELKRGAMAEVVLNGLYKVTKLQTTFGI----NMVAFDPNGRPKKL-N----LKEILQE 323 (445)
T ss_pred CCCcccceeeeccCCCceEEEEEECCCccHHHHHHHHHHhcCCceeeee----eEEEEecCCeeEEe-C----HHHHHHH
Confidence 344 47777777777 3444 2333 25554432 223333 67888889999888 5 5789988
Q ss_pred HHhhhccc---ccchhhhhhHHHHHHHHHHHHHHH------HHH------HhhcCCCCCCCCHHHHHHHHHHHHHHHHHH
Q 040046 71 YQRRLKID---LWSSQYEKMQENLKNLKEVNINLK------KEI------RQRLGESLNDLSLKKLSDLEQDVDNCLRII 135 (221)
Q Consensus 71 Y~~~~~~~---~~~~~~e~lq~el~kLk~en~~L~------~~i------r~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~V 135 (221)
|-...-.- .......++++++..+.-...-+. ..+ +.-+-+.+..+.+.+ .+.+--|+..|.++
T Consensus 324 f~~~R~~~~~rR~~~~l~k~~~rl~il~g~~~~i~~id~vi~~ir~s~~ak~~L~~~l~~~~~~~-~qa~~IL~m~L~~L 402 (445)
T cd00187 324 FLDHRLEVYTRRKEYELGKAEARLHILEGLLKAILNIDEVINLIRSSDEAKKALIEELEKLGFSE-IQADAILDMRLRRL 402 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCH-HHHHHHHHhHHHHh
Confidence 86553210 011112233333332222111110 111 000000111112222 24566677777776
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 136 RERKLRAISGQIVTHRKKVRREEE 159 (221)
Q Consensus 136 R~rK~~~l~~qi~~lkkK~~~l~e 159 (221)
..-....+.++++.++++...++.
T Consensus 403 T~~e~~kL~~E~~~l~~ei~~l~~ 426 (445)
T cd00187 403 TKLEREKLLKELKELEAEIEDLEK 426 (445)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 666666666666666666555553
No 18
>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=79.63 E-value=5 Score=26.80 Aligned_cols=28 Identities=25% Similarity=0.315 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 141 RAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 141 ~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+++.++|..|..+...|+.||..|+...
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 4677788888888888888887776543
No 19
>PHA03155 hypothetical protein; Provisional
Probab=79.35 E-value=18 Score=27.42 Aligned_cols=58 Identities=24% Similarity=0.212 Sum_probs=41.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERK 139 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK 139 (221)
...|.|..+|.+|+-||..|.+.+++-.+.+=.-|+..+=..+-...-.+|...-.+|
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 3467889999999999999999987765554456787777666666665555544444
No 20
>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=78.99 E-value=8.7 Score=28.85 Aligned_cols=38 Identities=29% Similarity=0.443 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~ 167 (221)
++.+..||++|..-+ +++..||+.+..+.++|..|+-+
T Consensus 7 ~~~l~~le~~l~~l~------------~~~~~LK~~~~~l~EEN~~L~~E 44 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLL------------EELEELKKQLQELLEENARLRIE 44 (107)
T ss_pred HHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777766544 44455555555555555444443
No 21
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=78.37 E-value=16 Score=25.85 Aligned_cols=43 Identities=21% Similarity=0.298 Sum_probs=32.6
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRK 163 (221)
Q Consensus 116 Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~ 163 (221)
||++=|..||..+..++..|- ++.-+|+.||.|-..|.+++..
T Consensus 1 MS~EvleqLE~KIqqAvdtI~-----LLqmEieELKekn~~L~~e~~~ 43 (79)
T PRK15422 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSLSQEVQN 43 (79)
T ss_pred CcHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 578889999999999999875 5556667787776666665444
No 22
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=77.42 E-value=12 Score=28.16 Aligned_cols=41 Identities=15% Similarity=0.400 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 126 QDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 126 ~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
..+|.+.+-|+..=+=...++++.|+.+++.|++.|..|.+
T Consensus 48 NKIeQAMDLVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~ 88 (123)
T KOG4797|consen 48 NKIEQAMDLVKTHLMFAVREEVEVLKEQIRELEERNSALER 88 (123)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444443333323334445555555554444444443
No 23
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=77.24 E-value=21 Score=27.37 Aligned_cols=57 Identities=23% Similarity=0.265 Sum_probs=38.2
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcC----CCCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040046 83 QYEKMQENLKNLKEVNINLKKEIRQRLG----ESLNDLSLKKLSDLEQDVDNCLRIIRERK 139 (221)
Q Consensus 83 ~~e~lq~el~kLk~en~~L~~~ir~~~G----e~L~~Ls~~EL~~LE~~Le~~L~~VR~rK 139 (221)
.+|.|..+|.+|+-||..|.+.+++-.| .+=.-|+..+=..+-...-.+|...=.+|
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl~~~~~p~~~p~~~~LTp~qKe~~I~s~~~~Lss~A~~K 64 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKLRQSVGPGPSPDDEVLTPAQKEAMITSAVSKLSSQASKK 64 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT---S-TT--B--HHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHccCCCCCCCCccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999999999998877 44456777776666555555555444443
No 24
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=76.91 E-value=44 Score=32.55 Aligned_cols=72 Identities=25% Similarity=0.469 Sum_probs=40.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 86 KMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIR-----ERKLRAISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 86 ~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR-----~rK~~~l~~qi~~lkkK~~~l~e~ 160 (221)
.+...+++|+.+|..|+..+..+. .++..|+..|+..-..++ .|+.+.+...|+.|+++..+-...
T Consensus 426 ~~~~~ve~l~~e~~~L~~~~ee~k---------~eie~L~~~l~~~~r~~~~~~~~~rei~~~~~~I~~L~~~L~e~~~~ 496 (652)
T COG2433 426 KLEETVERLEEENSELKRELEELK---------REIEKLESELERFRREVRDKVRKDREIRARDRRIERLEKELEEKKKR 496 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455566666666666554443 566667777766655554 344555667777776665443333
Q ss_pred HHHHHH
Q 040046 161 NRKLRN 166 (221)
Q Consensus 161 n~~L~~ 166 (221)
-..|..
T Consensus 497 ve~L~~ 502 (652)
T COG2433 497 VEELER 502 (652)
T ss_pred HHHHHH
Confidence 333333
No 25
>PHA03162 hypothetical protein; Provisional
Probab=76.73 E-value=33 Score=26.70 Aligned_cols=57 Identities=19% Similarity=0.219 Sum_probs=40.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcCCC-C---CCCCHHHHHHHHHHHHHHHHHHHHHH
Q 040046 83 QYEKMQENLKNLKEVNINLKKEIRQRLGES-L---NDLSLKKLSDLEQDVDNCLRIIRERK 139 (221)
Q Consensus 83 ~~e~lq~el~kLk~en~~L~~~ir~~~Ge~-L---~~Ls~~EL~~LE~~Le~~L~~VR~rK 139 (221)
..|.|..+|.+|+-||..|.+.+++-.|.+ | ..|+..+=.-+-...-.+|...=.+|
T Consensus 14 tmEeLaaeL~kLqmENK~LKkkl~~~~~~~~~p~d~~LTp~qKea~I~s~v~~Lts~A~kK 74 (135)
T PHA03162 14 TMEDLAAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAKK 74 (135)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCCccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999999999999998776654 2 23777766666555555555444444
No 26
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=74.64 E-value=62 Score=28.80 Aligned_cols=71 Identities=17% Similarity=0.241 Sum_probs=45.3
Q ss_pred HHHHHHHHHhhc--CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 98 NINLKKEIRQRL--GESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAI--SGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 98 n~~L~~~ir~~~--Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l--~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
...|..++..+. ...++.++.++|..+-..|...-..|..+|..+- ..+...++.++..+.++-..+..++
T Consensus 186 ~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI 260 (325)
T PF08317_consen 186 KAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEI 260 (325)
T ss_pred HHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444443332 3458999999999999999988888887776543 3444555555555555555555544
No 27
>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=73.01 E-value=23 Score=28.36 Aligned_cols=56 Identities=14% Similarity=0.233 Sum_probs=29.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 84 YEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAI 143 (221)
Q Consensus 84 ~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l 143 (221)
+..+++++..++.++..|+.++..+. ..++.+||...-..|+.-+..+.+|-..+-
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 34445555555555555554443332 345666666666666665555555554443
No 28
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.01 E-value=32 Score=23.88 Aligned_cols=46 Identities=20% Similarity=0.289 Sum_probs=32.3
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 116 Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
||++=|..||..+..++..|. ++.=+|+.||.|...|..+-..+..
T Consensus 1 MSlEv~ekLE~KiqqAvdTI~-----LLQmEieELKEknn~l~~e~q~~q~ 46 (79)
T COG3074 1 MSLEVFEKLEAKVQQAIDTIT-----LLQMEIEELKEKNNSLSQEVQNAQH 46 (79)
T ss_pred CchHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHhhHhHHHHHHHHH
Confidence 577888889988888888764 5666677777776666555444433
No 29
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=69.45 E-value=93 Score=29.19 Aligned_cols=28 Identities=18% Similarity=0.434 Sum_probs=22.5
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
+-+++|+++|++..|.+ +++||+.|-..
T Consensus 299 ~Nm~~~d~~g~~~~~~~----~~~Il~~f~~~ 326 (439)
T PHA02592 299 QNITVINENGKLKVYEN----AEDLIRDFVEI 326 (439)
T ss_pred eeEEEEecCCeeeecCC----HHHHHHHHHHH
Confidence 67788999999988865 56899888654
No 30
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=68.81 E-value=47 Score=31.43 Aligned_cols=52 Identities=17% Similarity=0.243 Sum_probs=30.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 110 GESLNDLSLKKLSDLEQDVDNCLRIIR---ERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 110 Ge~L~~Ls~~EL~~LE~~Le~~L~~VR---~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.-+|+.||-+||+. ++++++..+- .-|.++. +.|+.+++.|+-=.+.|..+.
T Consensus 196 nl~i~~lsteelr~---qVD~A~~q~VnP~k~KeQLV----~QLkTQItDLErFInFlQ~e~ 250 (621)
T KOG3759|consen 196 NLDIDKLSTEELRR---QVDDALKQLVNPFKEKEQLV----DQLKTQITDLERFINFLQDEV 250 (621)
T ss_pred cCCcccccHHHHHH---HHHHHHHHHhChHHHHHHHH----HHHHHHHHHHHHHHHHHHHhh
Confidence 44588999998875 7888887753 3344443 445555555554333333333
No 31
>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=68.64 E-value=9 Score=28.87 Aligned_cols=21 Identities=33% Similarity=0.370 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040046 148 VTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 148 ~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..++||...|+|||+.|+.++
T Consensus 75 ~rlkkk~~~LeEENNlLklKi 95 (108)
T cd07429 75 LRLKKKNQQLEEENNLLKLKI 95 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 366778888888888887776
No 32
>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=67.82 E-value=61 Score=25.83 Aligned_cols=55 Identities=18% Similarity=0.285 Sum_probs=42.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 85 EKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKL 140 (221)
Q Consensus 85 e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~ 140 (221)
+.+...+..|+.++..++..+..+.+ +-...|.+|...++.......+..+.||.
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 45666777777777777777766665 44558889999999888888888888874
No 33
>PRK01371 sec-independent translocase; Provisional
Probab=65.70 E-value=4.3 Score=31.88 Aligned_cols=53 Identities=19% Similarity=0.398 Sum_probs=31.6
Q ss_pred ceeeeeecCCCccccccccchhhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHH
Q 040046 42 KVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKL 121 (221)
Q Consensus 42 ~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL 121 (221)
=|+||||+| .|+.+++- .+-+.+..|++.. ...+.+++.-+|.+++++.+.+|
T Consensus 14 vVallvfGP-eKLP~~ar---~lg~~ir~~R~~~-----------------------~~ak~~i~~Elg~ef~d~d~r~l 66 (137)
T PRK01371 14 VLAVLVFGP-DKLPKAAR---DAGRTLRQLREMA-----------------------NNARNDLRSELGPEFADLDLRDL 66 (137)
T ss_pred HHHhheeCc-hHHHHHHH---HHHHHHHHHHHHH-----------------------HHHHHHHHHHhcchhcccchhhc
Confidence 368899999 88877655 2444555554432 23334444556777777755444
No 34
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=65.24 E-value=50 Score=24.95 Aligned_cols=46 Identities=26% Similarity=0.270 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
++.+.+||+++...+..+.+-|.++. .+-.....|+-||..|+..+
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~~-----el~EEN~~L~iEN~~Lr~~l 52 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQLA-----ELLEENTALRLENDKLRERL 52 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHH
Confidence 45677888888766665555444332 34444444555566666555
No 35
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=64.01 E-value=90 Score=26.45 Aligned_cols=53 Identities=19% Similarity=0.206 Sum_probs=25.4
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDLEQDVDNCLRIIRERKLR--AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 116 Ls~~EL~~LE~~Le~~L~~VR~rK~~--~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
-..+|+..|+..++..-+.......+ .+..|.+.+.+....|-|+|..|..++
T Consensus 155 ~~~~~~~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i 209 (216)
T KOG1962|consen 155 KLKADLEKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQI 209 (216)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHH
Confidence 34567777777776655544333322 233333333333444444444444443
No 36
>PRK01919 tatB sec-independent translocase; Provisional
Probab=63.55 E-value=45 Score=27.11 Aligned_cols=29 Identities=17% Similarity=0.334 Sum_probs=20.8
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|+||||+| .|+.+.+- ++-..+-++++..
T Consensus 15 VALiV~GP-ekLP~~aR---tlGk~i~k~Rr~~ 43 (169)
T PRK01919 15 VALVVIGP-ERLPRVAR---TAGALFGRAQRYI 43 (169)
T ss_pred HHHheeCc-hHhHHHHH---HHHHHHHHHHHHH
Confidence 79999999 78777654 3556666666653
No 37
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=62.82 E-value=1.6e+02 Score=29.48 Aligned_cols=143 Identities=18% Similarity=0.234 Sum_probs=75.1
Q ss_pred eEEecCCCCcc--ccc---cccc--------cccchhhh-hhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHh
Q 040046 8 IKRIENATNRQ--VTF---SKRR--------NGLFKKAQ-ELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQR 73 (221)
Q Consensus 8 ik~Ien~~~Rq--vTf---sKRr--------~GL~KKA~-ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~ 73 (221)
|+-|.+.++|. +.| -||. +.|+|+.. +-|+-| -+++|+++|++.. .++++||+.|-.
T Consensus 291 i~~~~d~s~~~~~~r~~i~~k~~~~~~~~~~~~l~k~t~l~~~~~~----n~~~~d~~~~p~~-----~~l~~il~~f~~ 361 (742)
T PRK05561 291 IADVRDESDRENPVRIVIEPKSNRVDPEALMNHLFATTDLESSYRV----NMNAIGLDGRPRV-----KGLKEILSEWLD 361 (742)
T ss_pred cccceeccCCCCCEEEEEEECCCcCCHHHHHHHHHHhcCcceeeee----eEEEEccCCEEEE-----CCHHHHHHHHHH
Confidence 66677878777 444 2443 24554421 223322 6788988898633 247899999866
Q ss_pred hhcccc---cchhhhhhHHHHHHHHH---HHHHHHHHHHhhcC-CC-----CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 74 RLKIDL---WSSQYEKMQENLKNLKE---VNINLKKEIRQRLG-ES-----LNDLSLKKLSDLEQDVDNCLRIIRERKLR 141 (221)
Q Consensus 74 ~~~~~~---~~~~~e~lq~el~kLk~---en~~L~~~ir~~~G-e~-----L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~ 141 (221)
+.-.-+ .....++++++++.++- ....+...|.-..+ .+ +..+.+.+ .+-+--|+..|.++..-...
T Consensus 362 ~R~~~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~s~~ak~~l~~~f~~~~-~qa~~Il~m~L~~Lt~le~~ 440 (742)
T PRK05561 362 HRREVVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDEPKANLMARFDLSE-IQAEAILELRLRRLAKLEEI 440 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCccHHHHHHHHhCCCH-HHHHHHHHhhHHHHHHHHHH
Confidence 532110 11122233333333211 11111111110000 00 01112222 35677788888888888888
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~ 160 (221)
.+.+++..++++...++..
T Consensus 441 kl~~E~~~l~~ei~~l~~i 459 (742)
T PRK05561 441 EIRKEQDELRKEIAELEAI 459 (742)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 8888888888887777765
No 38
>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=61.00 E-value=1.5e+02 Score=28.07 Aligned_cols=71 Identities=13% Similarity=0.208 Sum_probs=35.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 85 EKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKL 164 (221)
Q Consensus 85 e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L 164 (221)
..++.++..+..+|+.|..+...+.. ....+.++++.++...|. -+.++.+.|+.....++.....|
T Consensus 69 k~~r~~~~~l~~~N~~l~~eN~~L~~---------r~~~id~~i~~av~~~~~----~~~~~~~ql~~~~~~~~~~l~~l 135 (472)
T TIGR03752 69 KELRKRLAKLISENEALKAENERLQK---------REQSIDQQIQQAVQSETQ----ELTKEIEQLKSERQQLQGLIDQL 135 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH---------hhhhHHHHHHHHHHhhhH----HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666665543321 123345566666655442 23344455555544444444444
Q ss_pred HHHH
Q 040046 165 RNGF 168 (221)
Q Consensus 165 ~~~~ 168 (221)
...+
T Consensus 136 ~~~l 139 (472)
T TIGR03752 136 QRRL 139 (472)
T ss_pred HHHH
Confidence 4444
No 39
>PRK11637 AmiB activator; Provisional
Probab=60.88 E-value=1.4e+02 Score=27.55 Aligned_cols=49 Identities=16% Similarity=0.236 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKL--RAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~--~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+|..++.+|...-..|+.... ..+..+|+.+++++..++++...+...+
T Consensus 76 ~l~~l~~qi~~~~~~i~~~~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l 126 (428)
T PRK11637 76 QLKKQEEAISQASRKLRETQNTLNQLNKQIDELNASIAKLEQQQAAQERLL 126 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355555555555555543322 2344555555555555554444443333
No 40
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=60.81 E-value=37 Score=25.59 Aligned_cols=37 Identities=22% Similarity=0.280 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
++.+..||++|-..+.. +..+|+....+-|+|..|+-
T Consensus 7 Fd~v~~le~~l~~l~~e------------l~~lK~~l~~lvEEN~~L~l 43 (114)
T COG4467 7 FDQVDNLEEQLGVLLAE------------LGGLKQHLGSLVEENTALRL 43 (114)
T ss_pred HHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHhhHHHHh
Confidence 46677788887755544 44555555555555544443
No 41
>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=60.67 E-value=94 Score=25.54 Aligned_cols=22 Identities=27% Similarity=0.286 Sum_probs=11.5
Q ss_pred CCccccccccchhhHHHHHHHHhh
Q 040046 51 TGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 51 ~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
.|-+-.-.+. ....+|++|+..
T Consensus 82 RGlLL~rvrd--e~~~~l~~y~~l 103 (189)
T PF10211_consen 82 RGLLLLRVRD--EYRMTLDAYQTL 103 (189)
T ss_pred HhHHHHHHHH--HHHHHHHHHHHH
Confidence 3544444443 245666666554
No 42
>PF14662 CCDC155: Coiled-coil region of CCDC155
Probab=58.06 E-value=82 Score=26.20 Aligned_cols=21 Identities=24% Similarity=0.158 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040046 148 VTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 148 ~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..|-.++..|+++|..|..+.
T Consensus 98 q~L~~~i~~Lqeen~kl~~e~ 118 (193)
T PF14662_consen 98 QSLVAEIETLQEENGKLLAER 118 (193)
T ss_pred HHHHHHHHHHHHHHhHHHHhh
Confidence 344444555555555544433
No 43
>KOG4637 consensus Adaptor for phosphoinositide 3-kinase [Signal transduction mechanisms]
Probab=57.64 E-value=8.6 Score=35.14 Aligned_cols=41 Identities=29% Similarity=0.421 Sum_probs=28.8
Q ss_pred hhhhcccCccee--eeeecCCCccccccccch---hhHHHHHHHHhhh
Q 040046 33 QELTVLCDAKVS--IIMCSSTGKVQEYVSSST---TTKQLLDEYQRRL 75 (221)
Q Consensus 33 ~ELSvLCda~v~--lIifs~~gk~~~~~sps~---~~~~ii~RY~~~~ 75 (221)
+-|||+||-+|. ||--.++| |-|+.|.. ++++++.-|+..+
T Consensus 367 yalSV~~~~~V~HClIy~tatG--~GFa~pyn~y~tlk~lV~hY~h~S 412 (464)
T KOG4637|consen 367 YALSVVHDGEVKHCLIYQTATG--FGFAEPYNLYSTLKELVLHYQHTS 412 (464)
T ss_pred eEEEEEECCceeeeEEeecccc--ccccchhHHHHHHHHHHHHHhhhh
Confidence 569999998874 44444445 55566642 7899999998765
No 44
>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=57.53 E-value=1.4e+02 Score=28.26 Aligned_cols=51 Identities=14% Similarity=0.046 Sum_probs=37.1
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 114 NDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
+..++.++..+-..+...+..++.++. -+..++..++++...|+.+-..+.
T Consensus 122 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~l~~~l~~l~ 172 (525)
T TIGR02231 122 NEPDLKEWFQAFDFNGSEIERLLTEDR-EAERRIRELEKQLSELQNELNALL 172 (525)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhc
Confidence 367899999999999988888887775 345566677777666666544443
No 45
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=57.03 E-value=87 Score=24.02 Aligned_cols=39 Identities=21% Similarity=0.282 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 129 DNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 129 e~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+.++..+.+|+. .+.-+|.+|.++++.+++.-..|...+
T Consensus 69 ~~~~~eL~er~E-~Le~ri~tLekQe~~l~e~l~eLq~~i 107 (119)
T COG1382 69 EEAVDELEERKE-TLELRIKTLEKQEEKLQERLEELQSEI 107 (119)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444443 677788899999988888888777766
No 46
>COG0139 HisI Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]
Probab=56.10 E-value=6.1 Score=29.84 Aligned_cols=27 Identities=22% Similarity=0.479 Sum_probs=22.7
Q ss_pred ccchhhhhhhcccCcceeeeeecCCCc
Q 040046 27 GLFKKAQELTVLCDAKVSIIMCSSTGK 53 (221)
Q Consensus 27 GL~KKA~ELSvLCda~v~lIifs~~gk 53 (221)
|=+-|+.|+.+-||.|+-+|+..+.|.
T Consensus 69 G~~q~v~~i~~DCD~Dall~~V~q~gg 95 (111)
T COG0139 69 GHTQKVVEIRLDCDGDALLLLVEQIGG 95 (111)
T ss_pred CceEEEEEEEcCCCCCEEEEEEEeCCC
Confidence 555667899999999999999999653
No 47
>PRK04654 sec-independent translocase; Provisional
Probab=55.17 E-value=7.4 Score=32.77 Aligned_cols=28 Identities=4% Similarity=0.118 Sum_probs=19.2
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
|+||||+| .|+.+.+- ++-+.+.++++.
T Consensus 15 VALlV~GP-erLPe~aR---tlGk~irk~R~~ 42 (214)
T PRK04654 15 VALVVLGP-ERLPKAAR---FAGLWVRRARMQ 42 (214)
T ss_pred HHHHhcCc-hHHHHHHH---HHHHHHHHHHHH
Confidence 68899999 77777654 355666666643
No 48
>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=55.10 E-value=1e+02 Score=27.47 Aligned_cols=87 Identities=26% Similarity=0.367 Sum_probs=48.6
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhhcCC--------------CCCCCC--HHHHHHHHHHHHHHHHHHHHHHHH--HH
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIRQRLGE--------------SLNDLS--LKKLSDLEQDVDNCLRIIRERKLR--AI 143 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir~~~Ge--------------~L~~Ls--~~EL~~LE~~Le~~L~~VR~rK~~--~l 143 (221)
.+++.+|..+..|.++|..|+.+..++..+ ++..|+ =.++..|...|............+ -+
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 346788999999999999998876554432 211111 012223333333333332222222 23
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 144 SGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 144 ~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..||-.+++|.+.+--+|..|...+
T Consensus 240 lsqivdlQ~r~k~~~~EnEeL~q~L 264 (306)
T PF04849_consen 240 LSQIVDLQQRCKQLAAENEELQQHL 264 (306)
T ss_pred HHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 3555667778887777777776665
No 49
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=54.84 E-value=25 Score=26.55 Aligned_cols=26 Identities=23% Similarity=0.259 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 141 RAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 141 ~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
+.+.+||..|..+...|++||.-|+.
T Consensus 70 e~Lk~qI~eL~er~~~Le~EN~lLk~ 95 (123)
T KOG4797|consen 70 EVLKEQIRELEERNSALERENSLLKT 95 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47889999999999999999876665
No 50
>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=52.78 E-value=65 Score=21.29 Aligned_cols=34 Identities=32% Similarity=0.385 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 131 CLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 131 ~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|-...|.||...+ +.|..++..|+.+|..|...+
T Consensus 16 AAr~~R~RKk~~~----~~Le~~~~~L~~en~~L~~~~ 49 (64)
T PF00170_consen 16 AARRSRQRKKQYI----EELEEKVEELESENEELKKEL 49 (64)
T ss_dssp HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhH----HHHHHHHHHHHHHHHHHHHHH
Confidence 3455677776655 577777777887877777665
No 51
>smart00338 BRLZ basic region leucin zipper.
Probab=52.47 E-value=64 Score=21.37 Aligned_cols=34 Identities=35% Similarity=0.433 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 131 CLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 131 ~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+-...|.||...+ ..|..++..|+.+|..|..++
T Consensus 16 aA~~~R~rKk~~~----~~Le~~~~~L~~en~~L~~~~ 49 (65)
T smart00338 16 AARRSRERKKAEI----EELERKVEQLEAENERLKKEI 49 (65)
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 3455666666554 577778888888888777776
No 52
>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=51.33 E-value=1.5e+02 Score=25.17 Aligned_cols=11 Identities=9% Similarity=0.262 Sum_probs=6.0
Q ss_pred Cccccccccch
Q 040046 52 GKVQEYVSSST 62 (221)
Q Consensus 52 gk~~~~~sps~ 62 (221)
.+...||..+.
T Consensus 8 ~~~~~~C~~C~ 18 (302)
T PF10186_consen 8 SRRRFYCANCV 18 (302)
T ss_pred CCCCeECHHHH
Confidence 34445677654
No 53
>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=50.75 E-value=6.9 Score=27.54 Aligned_cols=37 Identities=27% Similarity=0.541 Sum_probs=27.5
Q ss_pred ccccccccccccchh---------hhhhhcccCcceeeeeecCCCc
Q 040046 17 RQVTFSKRRNGLFKK---------AQELTVLCDAKVSIIMCSSTGK 53 (221)
Q Consensus 17 RqvTfsKRr~GL~KK---------A~ELSvLCda~v~lIifs~~gk 53 (221)
+-+-||+-|++|-.| +.|+.+-||.|+-|+..-|.|.
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 334458888777555 5789999999999999999886
No 54
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=50.30 E-value=1.2e+02 Score=25.93 Aligned_cols=80 Identities=19% Similarity=0.299 Sum_probs=43.0
Q ss_pred cchhhHHHHHHHHhhhccc-------ccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHH
Q 040046 60 SSTTTKQLLDEYQRRLKID-------LWSSQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCL 132 (221)
Q Consensus 60 ps~~~~~ii~RY~~~~~~~-------~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L 132 (221)
|+..+...++......... -...+|-.++.+++.++.+.++|..- +.. -+ +++|+..+|.+|.
T Consensus 103 P~~~~~~~l~~l~~~g~v~~~~~~~~DvT~~y~D~~arl~~l~~~~~rl~~l----l~k-a~--~~~d~l~ie~~L~--- 172 (262)
T PF14257_consen 103 PADKFDSFLDELSELGKVTSRNISSEDVTEQYVDLEARLKNLEAEEERLLEL----LEK-AK--TVEDLLEIERELS--- 172 (262)
T ss_pred CHHHHHHHHHHHhccCceeeeeccccchHHHHHHHHHHHHHHHHHHHHHHHH----HHh-cC--CHHHHHHHHHHHH---
Confidence 4445666666666442111 11233445555666666655555432 221 11 8999999988876
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 133 RIIRERKLRAISGQIVTHRKKVRREE 158 (221)
Q Consensus 133 ~~VR~rK~~~l~~qi~~lkkK~~~l~ 158 (221)
-+..+|+.++.+.+.|.
T Consensus 173 ---------~v~~eIe~~~~~~~~l~ 189 (262)
T PF14257_consen 173 ---------RVRSEIEQLEGQLKYLD 189 (262)
T ss_pred ---------HHHHHHHHHHHHHHHHH
Confidence 24455566655544443
No 55
>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=49.47 E-value=1.4e+02 Score=28.85 Aligned_cols=23 Identities=26% Similarity=0.458 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040046 145 GQIVTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 145 ~qi~~lkkK~~~l~e~n~~L~~~ 167 (221)
.+...+..++..|+++...|..+
T Consensus 213 ~q~~e~~~ri~~LEedi~~l~qk 235 (546)
T PF07888_consen 213 EQLAEARQRIRELEEDIKTLTQK 235 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555666555544443
No 56
>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=48.82 E-value=1.1e+02 Score=27.37 Aligned_cols=23 Identities=35% Similarity=0.475 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040046 146 QIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 146 qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+++.|++|.+.|+++|..|+.+.
T Consensus 161 ~le~Lq~Klk~LEeEN~~LR~Ea 183 (306)
T PF04849_consen 161 QLEALQEKLKSLEEENEQLRSEA 183 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 35789999999999999999876
No 57
>KOG4311 consensus Histidinol dehydrogenase [Amino acid transport and metabolism]
Probab=48.24 E-value=1.3e+02 Score=26.64 Aligned_cols=39 Identities=28% Similarity=0.548 Sum_probs=29.1
Q ss_pred CCcccccccccc---------ccchhhhhhhcccCcceeeeeecCCCc
Q 040046 15 TNRQVTFSKRRN---------GLFKKAQELTVLCDAKVSIIMCSSTGK 53 (221)
Q Consensus 15 ~~RqvTfsKRr~---------GL~KKA~ELSvLCda~v~lIifs~~gk 53 (221)
+.+-|-||+-|+ |=+-+.-.++|-||-|.-..+.-++|+
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 455666777776 445556788999999988888888887
No 58
>PF08432 Vfa1: AAA-ATPase Vps4-associated protein 1; InterPro: IPR013640 This is a family of fungal proteins of unknown function.
Probab=48.21 E-value=33 Score=28.04 Aligned_cols=23 Identities=35% Similarity=0.323 Sum_probs=15.8
Q ss_pred cCcceeeeeecC--------CCccccccccc
Q 040046 39 CDAKVSIIMCSS--------TGKVQEYVSSS 61 (221)
Q Consensus 39 Cda~v~lIifs~--------~gk~~~~~sps 61 (221)
.||..|+|||-| +|+=|.|+-|+
T Consensus 11 ~~~k~C~IC~KpsttVL~t~~~~DfFY~C~~ 41 (182)
T PF08432_consen 11 TDAKACFICYKPSTTVLITPDNKDFFYVCPS 41 (182)
T ss_pred CCCCceeEecCCCceEEecCCCCCeEEeCcc
Confidence 678888888766 45656665554
No 59
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=48.18 E-value=1.7e+02 Score=27.68 Aligned_cols=29 Identities=38% Similarity=0.614 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 137 ERKLRAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 137 ~rK~~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
++|.+.+.+.++.+.+....+.|+|+.|.
T Consensus 381 e~k~~q~q~k~~k~~kel~~~~E~n~~l~ 409 (493)
T KOG0804|consen 381 ERKLQQLQTKLKKCQKELKEEREENKKLI 409 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444443
No 60
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=47.79 E-value=42 Score=22.40 Aligned_cols=39 Identities=18% Similarity=0.331 Sum_probs=26.0
Q ss_pred hHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 040046 64 TKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQR 108 (221)
Q Consensus 64 ~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~ 108 (221)
+..-+.||.+.-- .-..+..+.+.|+++|..|+.-+.++
T Consensus 21 L~~~l~rY~~vL~------~R~~l~~e~~~L~~qN~eLr~lLkqY 59 (60)
T PF14775_consen 21 LENFLKRYNKVLL------DRAALIQEKESLEQQNEELRSLLKQY 59 (60)
T ss_pred HHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5667778876532 11345566788899999888776654
No 61
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=47.32 E-value=2.8e+02 Score=29.67 Aligned_cols=25 Identities=12% Similarity=0.106 Sum_probs=13.3
Q ss_pred eeeeecCCCcc-ccccccchhhHHHHH
Q 040046 44 SIIMCSSTGKV-QEYVSSSTTTKQLLD 69 (221)
Q Consensus 44 ~lIifs~~gk~-~~~~sps~~~~~ii~ 69 (221)
..|||-|-|.. +++..|+ ..+++|+
T Consensus 151 ~~vi~~~Qge~~~~~~~~~-~rk~~~d 176 (1311)
T TIGR00606 151 NNVIFCHQEDSNWPLSEGK-ALKQKFD 176 (1311)
T ss_pred hhceeeCCcccccccCChH-HHHHHHH
Confidence 34778888875 2333333 3445553
No 62
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=46.49 E-value=80 Score=20.52 Aligned_cols=45 Identities=11% Similarity=0.155 Sum_probs=20.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~ 160 (221)
|+|++|++.+-.--+..-....... +++..+++.+.++...++..
T Consensus 14 GfsL~eI~~~l~l~~~~~~~~~~~~-~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 14 GFSLEEIRELLELYDQGDPPCADRR-ALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp T--HHHHHHHHHHCCSHCHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred CCCHHHHHHHHhccCCCCCCHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 5777777776622121112222222 45555556666655555543
No 63
>PRK10884 SH3 domain-containing protein; Provisional
Probab=45.70 E-value=1.4e+02 Score=25.04 Aligned_cols=18 Identities=11% Similarity=0.270 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 040046 88 QENLKNLKEVNINLKKEI 105 (221)
Q Consensus 88 q~el~kLk~en~~L~~~i 105 (221)
...+.+++.++..++.++
T Consensus 92 ~~rlp~le~el~~l~~~l 109 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKL 109 (206)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555555443
No 64
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=45.30 E-value=65 Score=29.85 Aligned_cols=62 Identities=29% Similarity=0.502 Sum_probs=35.0
Q ss_pred cccceeEEecCCCCccccc---ccc-------ccccchhhhhhhcccCccee-eeeecCCCccccccccchhhHHHHHHH
Q 040046 3 RGKIQIKRIENATNRQVTF---SKR-------RNGLFKKAQELTVLCDAKVS-IIMCSSTGKVQEYVSSSTTTKQLLDEY 71 (221)
Q Consensus 3 R~Ki~ik~Ien~~~RqvTf---sKR-------r~GL~KKA~ELSvLCda~v~-lIifs~~gk~~~~~sps~~~~~ii~RY 71 (221)
.++|+|.-|.+.+.+.|.| -|| .++|+|+-. |.+- .-+. +++|.. | ..|.+ +++||+.|
T Consensus 243 ~~~i~I~d~~D~Sd~~v~ivI~lk~~~~~~~~~~~L~k~t~-Lq~s--~~~n~~~l~~~-~--p~~~~----~~eIL~~f 312 (426)
T PF00521_consen 243 DKKIKISDYRDESDRGVRIVIELKRGADPEKILEGLYKKTK-LQSS--ISTNNMVLFDN-G--PKYDS----LKEILKEF 312 (426)
T ss_dssp TTSSTEEEEEE-BBTBS-EEEEESTTSHHHHHHHHHHHHST-TEEE--EEEETEEEETT-E--EEESS----HHHHHHHH
T ss_pred cCcchhhHHHhcCCCceeEEEEecCCccHHHHHHHHHHHhh-hhcc--ccchheEEecC-c--ceeCC----HHHHHHHH
Confidence 4677788888888888877 344 235666532 2211 1222 344555 5 55555 57899888
Q ss_pred Hhh
Q 040046 72 QRR 74 (221)
Q Consensus 72 ~~~ 74 (221)
-..
T Consensus 313 ~~~ 315 (426)
T PF00521_consen 313 YEF 315 (426)
T ss_dssp HHH
T ss_pred HHH
Confidence 654
No 65
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=44.55 E-value=1.2e+02 Score=21.88 Aligned_cols=38 Identities=24% Similarity=0.431 Sum_probs=25.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 114 NDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRK 163 (221)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~ 163 (221)
..||.++=..||..+. .+..++.+..++...|..+|+.
T Consensus 31 ~eLs~e~R~~lE~E~~------------~l~~~l~~~E~eL~~LrkENrK 68 (85)
T PF15188_consen 31 RELSPEARRSLEKELN------------ELKEKLENNEKELKLLRKENRK 68 (85)
T ss_pred cCCChHHHHHHHHHHH------------HHHHHhhccHHHHHHHHHhhhh
Confidence 4577888888885544 4556666777777777777753
No 66
>PRK00182 tatB sec-independent translocase; Provisional
Probab=43.56 E-value=16 Score=29.40 Aligned_cols=29 Identities=10% Similarity=0.251 Sum_probs=22.1
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|+||||+| .|+.+++- .+-..+..+++..
T Consensus 16 IaLlVfGP-erLP~~~r---~lg~~ir~~R~~~ 44 (160)
T PRK00182 16 VGLIVIGP-ERLPRLIE---DVRAALLAARTAI 44 (160)
T ss_pred HHHHhcCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 68999999 89888775 4667777777653
No 67
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=43.36 E-value=93 Score=24.20 Aligned_cols=51 Identities=24% Similarity=0.466 Sum_probs=28.2
Q ss_pred cchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCC---------CCCCCHHHHHHHHHHHHH
Q 040046 80 WSSQYEKMQENLKNLKEVNINLKKEIRQRLGES---------LNDLSLKKLSDLEQDVDN 130 (221)
Q Consensus 80 ~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~---------L~~Ls~~EL~~LE~~Le~ 130 (221)
|...|+-..+-=..|++++..|+..+-...|.. ++.||++.|..|-.+||.
T Consensus 6 WktRYEtQ~E~N~QLekqi~~l~~kiek~r~n~~drl~siR~ye~Ms~~~l~~llkqLEk 65 (129)
T PF15372_consen 6 WKTRYETQLELNDQLEKQIIILREKIEKIRGNPSDRLSSIRRYEQMSVESLNQLLKQLEK 65 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCccccHHHHHHhhccHHHHHHHHHHHHH
Confidence 555554322222334444445555554444432 367888888888888773
No 68
>KOG4643 consensus Uncharacterized coiled-coil protein [Function unknown]
Probab=43.26 E-value=2.3e+02 Score=29.57 Aligned_cols=41 Identities=17% Similarity=0.289 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 128 VDNCLRIIRERKLR-AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 128 Le~~L~~VR~rK~~-~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|+.-|...|+|-++ -+..+|-++++|...++.++...+.+.
T Consensus 283 LeeQLq~lrarse~~tleseiiqlkqkl~dm~~erdtdr~kt 324 (1195)
T KOG4643|consen 283 LEEQLQKLRARSEGATLESEIIQLKQKLDDMRSERDTDRHKT 324 (1195)
T ss_pred HHHHHHHHHhccccCChHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 55666666666543 345566677777777777776666665
No 69
>COG5068 ARG80 Regulator of arginine metabolism and related MADS box-containing transcription factors [Transcription]
Probab=42.50 E-value=17 Score=33.63 Aligned_cols=60 Identities=22% Similarity=0.265 Sum_probs=48.4
Q ss_pred eEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 8 IKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 8 ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
|+++-+...-..||..|+.| ||+++||..+-+.||....-+..|.++.. ..+.-+.||+.
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 78888888889999999999 99999999999999988667777777653 44555556554
No 70
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=41.92 E-value=29 Score=32.57 Aligned_cols=53 Identities=25% Similarity=0.214 Sum_probs=33.2
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDLEQDVDNCLRIIRERKLRAIS-----------------------GQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 116 Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~-----------------------~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.++.+.--|-+.=|..|++||.+...... .|...|++|+..|+..|..|..++
T Consensus 234 ~slPs~lPLTKaEEriLKrvRRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~kkV~~Le~~N~sLl~qL 309 (472)
T KOG0709|consen 234 YSLPSKLPLTKAEERILKRVRRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQKKVEELELSNRSLLAQL 309 (472)
T ss_pred CcCcccCCchHHHHHHHHHHHHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHHHHHHHHhhccHHHHHHH
Confidence 34444455555556666777654333322 333468888888998888888776
No 71
>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=41.47 E-value=46 Score=29.40 Aligned_cols=45 Identities=20% Similarity=0.344 Sum_probs=30.9
Q ss_pred eeEEecCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHh
Q 040046 7 QIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQR 73 (221)
Q Consensus 7 ~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~ 73 (221)
.+..|.|.+.|..+=|+ .||..|.+ ++| .|-+. ..|++|+|.|.+
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 46678888888766332 57998886 445 34443 269999999876
No 72
>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=41.44 E-value=81 Score=25.78 Aligned_cols=65 Identities=15% Similarity=0.216 Sum_probs=39.7
Q ss_pred cceeeeee--cCCCccccccccch--------hhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 040046 41 AKVSIIMC--SSTGKVQEYVSSST--------TTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQR 108 (221)
Q Consensus 41 a~v~lIif--s~~gk~~~~~sps~--------~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~ 108 (221)
+|++||+. |||||=|..-++.- +.--++.||...... -......+..+..++.+...+.+.|+++
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 56788886 58899877655531 456777888765421 1222233445566777777777766654
No 73
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=40.54 E-value=3.5e+02 Score=26.22 Aligned_cols=23 Identities=22% Similarity=0.479 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 040046 145 GQIVTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 145 ~qi~~lkkK~~~l~e~n~~L~~~ 167 (221)
.++.+++.+.+.++++...|+.+
T Consensus 155 Ae~~~~krr~~~le~e~~~Lk~e 177 (546)
T KOG0977|consen 155 AEINTLKRRIKALEDELKRLKAE 177 (546)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555555555444
No 74
>COG0165 ArgH Argininosuccinate lyase [Amino acid transport and metabolism]
Probab=40.54 E-value=63 Score=30.50 Aligned_cols=48 Identities=23% Similarity=0.125 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 121 LSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 121 L~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|.+.-..+-..|..=|+|=+|+-..--=-++++...+.+.+..|...+
T Consensus 93 L~~~iG~~ggkLhtgRSRNDQVatd~rL~lr~~~~~l~~~i~~l~~aL 140 (459)
T COG0165 93 LIERIGDVGGKLHTGRSRNDQVATDLRLWLRDKLLELLELIRILQKAL 140 (459)
T ss_pred HHHHHhhhhchhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333333444456666888888877666678899999999988888877
No 75
>PF10664 NdhM: Cyanobacterial and plastid NDH-1 subunit M; InterPro: IPR018922 The NADH dehydrogenase I complex shuttles electrons from an unknown electron donor, via FMN and iron-sulphur (Fe-S) centres, to quinones in the respiratory and/or the photosynthetic chain. The immediate electron acceptor for the enzyme in plants is believed to be plastoquinone. The NADH dehydrogenase I complex couples the redox reaction to proton translocation, and thus conserves the redox energy in a proton gradient. This entry represents subunit M of the NADH dehydrogenase I complex in cyanobacteria and plant chloroplasts []. ; GO: 0016655 oxidoreductase activity, acting on NADH or NADPH, quinone or similar compound as acceptor, 0055114 oxidation-reduction process
Probab=39.92 E-value=96 Score=23.12 Aligned_cols=30 Identities=3% Similarity=0.103 Sum_probs=22.3
Q ss_pred ceeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 42 KVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 42 ~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
++--+...|++ +|.|+..++++|..||...
T Consensus 25 ~~LTLdlDPdN---EF~W~~~~l~kVy~~F~eL 54 (108)
T PF10664_consen 25 DKLTLDLDPDN---EFNWNEEALQKVYRKFDEL 54 (108)
T ss_pred CeeEEecCCCc---ccccCHHHHHHHHHHHHHH
Confidence 34445556655 6899888899999999876
No 76
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=39.48 E-value=1.2e+02 Score=27.13 Aligned_cols=97 Identities=19% Similarity=0.168 Sum_probs=53.9
Q ss_pred CcceeeeeecCCCccccccccch--hhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCC
Q 040046 40 DAKVSIIMCSSTGKVQEYVSSST--TTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLS 117 (221)
Q Consensus 40 da~v~lIifs~~gk~~~~~sps~--~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls 117 (221)
++-|||+.|.+..- |. .+++. -----+.||-...... +.+.+++++.++.+.++..+-+-..+|...|.+.++|-
T Consensus 117 qCvICLygfa~~~~-ft-~T~C~Hy~H~~ClaRyl~~~~~~-lrqe~q~~~~~~qh~~~~~eavcpVcre~i~~e~~slk 193 (368)
T KOG4445|consen 117 QCVICLYGFASSPA-FT-VTACDHYMHFACLARYLTECLTG-LRQEIQDAQKERQHMKEQVEAVCPVCRERIKIEENSLK 193 (368)
T ss_pred ceEEEEEeecCCCc-ee-eehhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhhHhhhhhHhhhhcccccccee
Confidence 35688888987432 21 11211 0113467887654322 23455666666777777777776777888887777654
Q ss_pred H----HHHHHHHHHHHHHHHHHHHHH
Q 040046 118 L----KKLSDLEQDVDNCLRIIRERK 139 (221)
Q Consensus 118 ~----~EL~~LE~~Le~~L~~VR~rK 139 (221)
. .++..+-+..-.+|+..-.||
T Consensus 194 ~a~~Pt~~l~~~~~~~eslrq~~~r~ 219 (368)
T KOG4445|consen 194 IAEFPTYPMELYQPSAESLRQQEERK 219 (368)
T ss_pred ccCCCccccccCcccHHHHHHHHHHH
Confidence 2 223333333444555555556
No 77
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=39.17 E-value=2e+02 Score=25.22 Aligned_cols=24 Identities=13% Similarity=0.108 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 119 KKLSDLEQDVDNCLRIIRERKLRA 142 (221)
Q Consensus 119 ~EL~~LE~~Le~~L~~VR~rK~~~ 142 (221)
-+--.-+.+|+.-+...++-|+++
T Consensus 87 ~q~y~q~s~Leddlsqt~aikeql 110 (333)
T KOG1853|consen 87 VQFYQQESQLEDDLSQTHAIKEQL 110 (333)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455667777777777776654
No 78
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=38.80 E-value=2.2e+02 Score=23.40 Aligned_cols=19 Identities=21% Similarity=-0.027 Sum_probs=11.2
Q ss_pred cccCcceeeeeecCCCccc
Q 040046 37 VLCDAKVSIIMCSSTGKVQ 55 (221)
Q Consensus 37 vLCda~v~lIifs~~gk~~ 55 (221)
.-|=|+.+-|+|--.||--
T Consensus 46 Ld~La~~Gki~~K~YGKqK 64 (201)
T KOG4603|consen 46 LDQLAQQGKIKEKMYGKQK 64 (201)
T ss_pred HHHHHHcCchhHHhcccee
Confidence 3355666666666666543
No 79
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=38.68 E-value=43 Score=26.08 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=14.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHH
Q 040046 85 EKMQENLKNLKEVNINLKKEI 105 (221)
Q Consensus 85 e~lq~el~kLk~en~~L~~~i 105 (221)
..+++++++|+.+|..++.+.
T Consensus 84 ~~L~qqv~~L~~e~s~~~~E~ 104 (135)
T KOG4196|consen 84 AELQQQVEKLKEENSRLRREL 104 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 356677777777777776654
No 80
>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=38.58 E-value=1.3e+02 Score=30.10 Aligned_cols=83 Identities=19% Similarity=0.306 Sum_probs=42.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcC---CC---CCCC--CHHHHHHHHHHHHHHHHHHHHHHHHH---H-----------
Q 040046 86 KMQENLKNLKEVNINLKKEIRQRLG---ES---LNDL--SLKKLSDLEQDVDNCLRIIRERKLRA---I----------- 143 (221)
Q Consensus 86 ~lq~el~kLk~en~~L~~~ir~~~G---e~---L~~L--s~~EL~~LE~~Le~~L~~VR~rK~~~---l----------- 143 (221)
.++.+|..++.+|+.|+..+-.+.- .| |..| -+.|.+..-..+|.-|..-|.+|.+- -
T Consensus 457 ~lk~eL~qlr~ene~Lq~Kl~~L~~aRq~DKq~l~~LEkrL~eE~~~R~~lEkQL~eErk~r~~ee~~aar~~~~~~~~r 536 (697)
T PF09726_consen 457 SLKSELSQLRQENEQLQNKLQNLVQARQQDKQSLQQLEKRLAEERRQRASLEKQLQEERKARKEEEEKAARALAQAQATR 536 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhccccchhcc
Confidence 4455666777777777765532221 11 1111 13444445555666666666443321 0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 144 SGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 144 ~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+--+.++.+.+.|+.|.+.|+.++
T Consensus 537 ~e~~e~~r~r~~~lE~E~~~lr~el 561 (697)
T PF09726_consen 537 QECAESCRQRRRQLESELKKLRREL 561 (697)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHH
Confidence 0223446666666776666666665
No 81
>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=38.41 E-value=13 Score=27.76 Aligned_cols=54 Identities=19% Similarity=0.402 Sum_probs=38.0
Q ss_pred ccceeEEe-cCCCCccccccccccccchhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 4 GKIQIKRI-ENATNRQVTFSKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 4 ~Ki~ik~I-en~~~RqvTfsKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
.+|++|-+ +|.+|=.++|.||-.|+- =+=...+|..--|+..- .++++..|...
T Consensus 18 ~~ie~K~~~~~RSN~~i~f~KRt~Gir---------------qfEi~n~G~~RI~gYk~--se~~~~~f~sl 72 (103)
T PF09158_consen 18 DKIEVKEIVIDRSNYEIRFKKRTKGIR---------------QFEIRNKGEFRIFGYKM--SEEIIKKFTSL 72 (103)
T ss_dssp HT--EEEEEEETTEEEEEEEEEETTEE---------------EEEEETTSEEEEEEES----HHHHHHHHHT
T ss_pred cceeeeeeEeeccceEEeeecccCcee---------------EEEEecCCcEEEEEEcC--CHHHHHHHHhc
Confidence 35788865 889999999999999983 23344778877777742 46788888765
No 82
>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=38.37 E-value=75 Score=25.77 Aligned_cols=43 Identities=21% Similarity=0.406 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Q 040046 121 LSDLEQDVDNCLRIIRERKLRAISGQIV---THRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 121 L~~LE~~Le~~L~~VR~rK~~~l~~qi~---~lkkK~~~l~e~n~~L~~~~ 168 (221)
|.++|..+..++.+ +-+|..+|+ .|+-.+..|.+|-+.|+.++
T Consensus 2 LeD~EsklN~AIER-----nalLE~ELdEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 2 LEDFESKLNQAIER-----NALLESELDEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHH-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666653 335555553 45555666666666666665
No 83
>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=37.89 E-value=51 Score=22.32 Aligned_cols=27 Identities=30% Similarity=0.484 Sum_probs=18.9
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIRQR 108 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir~~ 108 (221)
.++..++.+++.++.+++.|+.++..+
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 445667777777888888777776544
No 84
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=37.88 E-value=3.5e+02 Score=26.21 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=13.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH
Q 040046 84 YEKMQENLKNLKEVNINLKKEI 105 (221)
Q Consensus 84 ~e~lq~el~kLk~en~~L~~~i 105 (221)
..+++.++.+|+++++.++...
T Consensus 108 ra~~e~ei~kl~~e~~elr~~~ 129 (546)
T KOG0977|consen 108 RAKLEIEITKLREELKELRKKL 129 (546)
T ss_pred HHHHHHHHHHhHHHHHHHHHHH
Confidence 3455666677777766665543
No 85
>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=37.74 E-value=7.4 Score=25.35 Aligned_cols=29 Identities=14% Similarity=0.427 Sum_probs=21.0
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|++|+|+| +|+.+++- ++-+.+..|++..
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 57889999 88888766 4667777787764
No 86
>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]
Probab=37.71 E-value=20 Score=28.09 Aligned_cols=25 Identities=24% Similarity=0.325 Sum_probs=20.7
Q ss_pred hhcccCcceeeeeecCCCccccccc
Q 040046 35 LTVLCDAKVSIIMCSSTGKVQEYVS 59 (221)
Q Consensus 35 LSvLCda~v~lIifs~~gk~~~~~s 59 (221)
+.++|||||-++|-|.+.+-..|+.
T Consensus 59 ~tt~~dadvi~~v~~and~~s~f~p 83 (148)
T COG4917 59 ITTLQDADVIIYVHAANDPESRFPP 83 (148)
T ss_pred HHHhhccceeeeeecccCccccCCc
Confidence 5789999999999999888666643
No 87
>PF11629 Mst1_SARAH: C terminal SARAH domain of Mst1; InterPro: IPR024205 The SARAH (Sav/Rassf/Hpo) domain is found at the C terminus in three classes of eukaryotic tumour suppressors that give the domain its name. In the Sav (Salvador) and Hpo (Hippo) families, the SARAH domain mediates signal transduction from Hpo via the Sav scaffolding protein to the downstream component Wts (Warts); the phosphorylation of Wts by Hpo triggers cell cycle arrest and apoptosis by down-regulating cyclin E, Diap 1 and other targets []. The SARAH domain is also involved in dimerisation, as in the human Hpo orthologue, Mst1, which homodimerises via its C-terminal SARAH domain. The SARAH domain is found associated with other domains, such as protein kinase domains, WW/rsp5/WWP domain (IPR001202 from INTERPRO), C1 domain (IPR002219 from INTERPRO), LIM domain (IPR001781 from INTERPRO), or the Ras-associating (RA) domain (IPR000159 from INTERPRO).; GO: 0004674 protein serine/threonine kinase activity; PDB: 2JO8_A.
Probab=37.69 E-value=52 Score=21.17 Aligned_cols=18 Identities=28% Similarity=0.242 Sum_probs=11.6
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 040046 112 SLNDLSLKKLSDLEQDVD 129 (221)
Q Consensus 112 ~L~~Ls~~EL~~LE~~Le 129 (221)
-|..+|++||+..-..|+
T Consensus 4 fLk~ls~~eL~~rl~~LD 21 (49)
T PF11629_consen 4 FLKFLSYEELQQRLASLD 21 (49)
T ss_dssp GGGGS-HHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHhCC
Confidence 367788998887555544
No 88
>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=37.10 E-value=1.7e+02 Score=21.52 Aligned_cols=51 Identities=14% Similarity=0.142 Sum_probs=25.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
++|++|...+-......-..+.. -.+++.+++..+..+...|+.....|..
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~-~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (113)
T cd01109 57 GMSIKDIKEYAELRREGDSTIPE-RLELLEEHREELEEQIAELQETLAYLDY 107 (113)
T ss_pred CCCHHHHHHHHHHHccCCccHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47777777654433221111222 2345666666666666666555444433
No 89
>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=36.94 E-value=11 Score=34.19 Aligned_cols=41 Identities=34% Similarity=0.388 Sum_probs=0.0
Q ss_pred cccccccchhhhhhhcccCcceee-eeecCCCccccccccch
Q 040046 22 SKRRNGLFKKAQELTVLCDAKVSI-IMCSSTGKVQEYVSSST 62 (221)
Q Consensus 22 sKRr~GL~KKA~ELSvLCda~v~l-Iifs~~gk~~~~~sps~ 62 (221)
+.=..||+|=+.=..-||+|..+| -+.+++||+.+|+|||.
T Consensus 50 s~aqd~ilkym~~~m~~~n~~gfvy~~~~~~~k~~~~~s~sl 91 (354)
T PF04873_consen 50 SRAQDGILKYMFPEMELCNAPGFVYTIISSSGKPVEGVSPSL 91 (354)
T ss_dssp ------------------------------------------
T ss_pred hhhhhHHHHhhccccccccCceeeecCCCCCCCccCCcCCcc
Confidence 333457777777778899999999 78888999999999974
No 90
>PHA02109 hypothetical protein
Probab=36.92 E-value=1.6e+02 Score=24.24 Aligned_cols=45 Identities=27% Similarity=0.468 Sum_probs=28.2
Q ss_pred hhcCCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 107 QRLGESLNDLS--LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRK 163 (221)
Q Consensus 107 ~~~Ge~L~~Ls--~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~ 163 (221)
...|+.|++|+ ++++-.|+..|| .+..+.-.++-|..++..+-+.
T Consensus 179 ~~t~~~L~~~~~~L~~I~~L~~ki~------------~LS~E~~Q~~~Ki~N~R~~Vk~ 225 (233)
T PHA02109 179 SHTGENLEGLTDKLKQISELTIKLE------------ALSDEACQVKHKILNLRAEVKR 225 (233)
T ss_pred ccchhhhhhhhHHHHhhHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHH
Confidence 34577777776 556666665555 5666666777776666655443
No 91
>PF06751 EutB: Ethanolamine ammonia lyase large subunit (EutB); InterPro: IPR010628 This family consists of several bacterial ethanolamine ammonia lyase large subunit (EutB) proteins. Ethanolamine ammonia-lyase is a bacterial enzyme that catalyses the adenosylcobalamin-dependent conversion of certain vicinal amino alcohols to oxo compounds and ammonia. The enzyme is a heterodimer composed of subunits of Mr approximately 55,000 (EutB) and 35,000 (EutC) [].; GO: 0008851 ethanolamine ammonia-lyase activity, 0006520 cellular amino acid metabolic process; PDB: 3ABQ_C 3ABS_C 3AO0_A 3ABR_A 3ABO_C 3ANY_A 2QEZ_B.
Probab=36.79 E-value=13 Score=34.38 Aligned_cols=15 Identities=53% Similarity=0.842 Sum_probs=6.8
Q ss_pred CCcccccccCCCCCC
Q 040046 198 GPGIFALRLQPNEPL 212 (221)
Q Consensus 198 ~~~~~~frlqp~qpn 212 (221)
.+.-++.|+|||||-
T Consensus 143 ~~G~ls~RlQPNhPT 157 (444)
T PF06751_consen 143 LPGRLSSRLQPNHPT 157 (444)
T ss_dssp -TTB-EEEE----TT
T ss_pred CCCeeeeecCCCCCC
Confidence 344789999999993
No 92
>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=36.47 E-value=2.2e+02 Score=22.77 Aligned_cols=27 Identities=26% Similarity=0.263 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+.++...|..++..|+++|+.|....
T Consensus 86 ~~~~e~k~L~~~v~~Le~e~r~L~~~~ 112 (158)
T PF09744_consen 86 QWRQERKDLQSQVEQLEEENRQLELKL 112 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444556666677777776666544
No 93
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=36.30 E-value=15 Score=31.59 Aligned_cols=40 Identities=15% Similarity=0.410 Sum_probs=29.4
Q ss_pred cccccccccchhhhhhhcccCcc---eeeeeecCCCcccccccc
Q 040046 20 TFSKRRNGLFKKAQELTVLCDAK---VSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 20 TfsKRr~GL~KKA~ELSvLCda~---v~lIifs~~gk~~~~~sp 60 (221)
-|.+-+.|++||.. ...||..+ |+-|.||+.++..-|++.
T Consensus 119 ~~~~~~~~~~~~~~-~~~L~~~~~~l~~~v~fS~~~r~IGFSkD 161 (269)
T PRK09822 119 FYRREKGGFLKKIK-FNILKRVHKALLISVPLSKRGRLAGFCKD 161 (269)
T ss_pred hhhhccCchhhhhH-HHHHhhhhhhhEEEeeccccCCceeeeec
Confidence 45555889998874 67777665 444569999998888774
No 94
>PF09941 DUF2173: Uncharacterized conserved protein (DUF2173); InterPro: IPR018685 This family of various hypothetical prokaryotic proteins has no known function.
Probab=35.67 E-value=30 Score=26.06 Aligned_cols=28 Identities=29% Similarity=0.253 Sum_probs=22.0
Q ss_pred hhhhhhcccCcceeeeeecCCCccccccc
Q 040046 31 KAQELTVLCDAKVSIIMCSSTGKVQEYVS 59 (221)
Q Consensus 31 KA~ELSvLCda~v~lIifs~~gk~~~~~s 59 (221)
|..+|..|-||- |+..||++|++.+|-.
T Consensus 2 ~l~~Lm~lpGv~-AAg~Fs~~G~l~e~~G 29 (108)
T PF09941_consen 2 KLDKLMKLPGVV-AAGEFSDDGKLVEYKG 29 (108)
T ss_pred cHHHhhcCCCeE-EEEEECCCCeEEeeec
Confidence 346777777774 5678999999999877
No 95
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=35.40 E-value=1.8e+02 Score=21.40 Aligned_cols=71 Identities=30% Similarity=0.332 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhc---CCCCCC---CCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 85 EKMQENLKNLKEVNINLKKEIRQRL---GESLND---LSLKK-LSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRRE 157 (221)
Q Consensus 85 e~lq~el~kLk~en~~L~~~ir~~~---Ge~L~~---Ls~~E-L~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l 157 (221)
+-|...+.++.++|+.|..++.++. | ++++ ++--. -..-+..+..-|+ ....||+.|..|+..|
T Consensus 18 ~LlRRkl~ele~eN~~l~~EL~kyk~~~g-~~d~~~~~~~g~~~~~~~~~l~~eLk--------~a~~qi~~Ls~kv~eL 88 (96)
T PF11365_consen 18 ELLRRKLSELEDENKQLTEELNKYKSKYG-DLDSLAKLSEGGSPSGREAELQEELK--------LAREQINELSGKVMEL 88 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCcccccCCCCCCCccccHHHHHHHH--------HHHHHHHHHhhHHHHH
Confidence 3455566777788888887775543 2 2221 11000 0111112222222 3556788999999999
Q ss_pred HHHHHHH
Q 040046 158 EEENRKL 164 (221)
Q Consensus 158 ~e~n~~L 164 (221)
+-+|+.|
T Consensus 89 q~ENRvl 95 (96)
T PF11365_consen 89 QYENRVL 95 (96)
T ss_pred hhccccc
Confidence 9888643
No 96
>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=35.28 E-value=1.5e+02 Score=20.27 Aligned_cols=44 Identities=18% Similarity=0.216 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
||..||..++.-+.... -+..+...|+..+..+..++..|..+.
T Consensus 1 ~L~~Le~kle~Li~~~~-----~L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 1 ELQALAAQVEHLLEYLE-----RLKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred CHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888887776544 344455566666666777766666655
No 97
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=35.19 E-value=1.1e+02 Score=22.68 Aligned_cols=26 Identities=12% Similarity=0.249 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 143 ISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 143 l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+.+++..++++...++++|..|..++
T Consensus 32 l~~q~~~~~~e~~~l~~~n~~L~~eI 57 (105)
T PRK00888 32 VNDQVAAQQQTNAKLKARNDQLFAEI 57 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444443
No 98
>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=34.91 E-value=64 Score=25.11 Aligned_cols=35 Identities=20% Similarity=0.262 Sum_probs=29.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCH
Q 040046 84 YEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSL 118 (221)
Q Consensus 84 ~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~ 118 (221)
+..||.+|++.++....+...|+.+.|-|-++.-.
T Consensus 5 v~~Lq~qlE~Ake~Lk~vDenIkKltGRDp~e~rp 39 (134)
T PF04697_consen 5 VRTLQAQLEKAKESLKNVDENIKKLTGRDPSENRP 39 (134)
T ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHhCCCccccCc
Confidence 35688999999999999999999999998665543
No 99
>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=34.70 E-value=1.4e+02 Score=20.63 Aligned_cols=31 Identities=16% Similarity=0.197 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 138 RKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 138 rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.|.+...+.|..|+.++..|.++|..|..+.
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 3444566677777777777777777776554
No 100
>PF14009 DUF4228: Domain of unknown function (DUF4228)
Probab=34.63 E-value=34 Score=26.79 Aligned_cols=33 Identities=21% Similarity=0.324 Sum_probs=25.0
Q ss_pred CcceeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 40 DAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 40 da~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
...++-||+ ++|++.+|..| +++.+|+..|=.+
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 78999999998 5789999988544
No 101
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=34.60 E-value=1.3e+02 Score=28.14 Aligned_cols=48 Identities=8% Similarity=0.109 Sum_probs=25.4
Q ss_pred ccccccccch--------hhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHH
Q 040046 53 KVQEYVSSST--------TTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLK 102 (221)
Q Consensus 53 k~~~~~sps~--------~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~ 102 (221)
..++|+||.. ..-..+.+|+-....- ...+-.+...+..|+++++.|+
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~fe~pi~ele~ki~el~ 93 (431)
T PLN03230 38 LEHEYPWPEKLPQGELTTGALKILNRFKPLKNKP--KPVTLPFEKPIVDLENRIDEVR 93 (431)
T ss_pred CCCCCCCcccCCCCcccccHHHHHHhcCCCCCCC--CCCccchhhHHHHHHHHHHHHH
Confidence 3499999864 2234677776554321 1223233445555666665554
No 102
>PRK01770 sec-independent translocase; Provisional
Probab=34.52 E-value=63 Score=26.37 Aligned_cols=28 Identities=7% Similarity=0.181 Sum_probs=19.3
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
|+||||+| .++....- ++-..+.++++.
T Consensus 15 VaLlV~GP-erLP~~~r---~lg~~i~~~R~~ 42 (171)
T PRK01770 15 IGLVVLGP-QRLPVAVK---TVAGWIRALRSL 42 (171)
T ss_pred HHHHhcCc-hHHHHHHH---HHHHHHHHHHHH
Confidence 68899999 77766544 355666666664
No 103
>PRK00708 sec-independent translocase; Provisional
Probab=34.51 E-value=49 Score=27.88 Aligned_cols=29 Identities=7% Similarity=0.165 Sum_probs=18.8
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|+||||+| .+|.+..- ++-+.+-++++..
T Consensus 15 VaLvV~GP-krLP~~~R---~lGk~v~k~R~~a 43 (209)
T PRK00708 15 VLIVVVGP-KDLPPMLR---AFGKMTARMRKMA 43 (209)
T ss_pred HHHhhcCc-hHHHHHHH---HHHHHHHHHHHHH
Confidence 68899999 66666533 3555666666543
No 104
>PRK03918 chromosome segregation protein; Provisional
Probab=34.17 E-value=5e+02 Score=26.08 Aligned_cols=34 Identities=12% Similarity=0.214 Sum_probs=19.9
Q ss_pred ccCccee-eeeecCCCccccccccchhhHHHHHHH
Q 040046 38 LCDAKVS-IIMCSSTGKVQEYVSSSTTTKQLLDEY 71 (221)
Q Consensus 38 LCda~v~-lIifs~~gk~~~~~sps~~~~~ii~RY 71 (221)
+++.++. -+||-+-|.+..|..+...-++||++-
T Consensus 120 ~~~~~~f~~~~~~~Qg~~~~~~~~~~~r~~~~~~~ 154 (880)
T PRK03918 120 LIPYHVFLNAIYIRQGEIDAILESDESREKVVRQI 154 (880)
T ss_pred hcCHHHhceeEEEeccchHHHhcCcHHHHHHHHHH
Confidence 4555542 245667799888875334455666543
No 105
>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=34.10 E-value=5.3e+02 Score=26.41 Aligned_cols=13 Identities=23% Similarity=0.391 Sum_probs=9.1
Q ss_pred eecCCCccccccc
Q 040046 47 MCSSTGKVQEYVS 59 (221)
Q Consensus 47 ifs~~gk~~~~~s 59 (221)
.|-+.|++..|..
T Consensus 139 ~~~~q~~~~~~~~ 151 (1179)
T TIGR02168 139 SIIEQGKISEIIE 151 (1179)
T ss_pred hheecccHHHHHc
Confidence 3446788888884
No 106
>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=34.02 E-value=1.9e+02 Score=21.28 Aligned_cols=44 Identities=16% Similarity=0.341 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 124 LEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 124 LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
++...+.++..|.+|+.. +...|..+.++...+++....+...+
T Consensus 61 v~~~~~e~~~~l~~r~e~-ie~~i~~lek~~~~l~~~l~e~q~~l 104 (110)
T TIGR02338 61 VKTDKEEAIQELKEKKET-LELRVKTLQRQEERLREQLKELQEKI 104 (110)
T ss_pred heecHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555566555543 35556666666555555544444433
No 107
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=33.96 E-value=1.3e+02 Score=22.09 Aligned_cols=29 Identities=24% Similarity=0.405 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 140 LRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 140 ~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
-|+..++.+-|+|+...++++|..|..++
T Consensus 10 LqFvEEEa~LlRRkl~ele~eN~~l~~EL 38 (96)
T PF11365_consen 10 LQFVEEEAELLRRKLSELEDENKQLTEEL 38 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677888889999999999999999987
No 108
>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=33.81 E-value=2.6e+02 Score=22.76 Aligned_cols=46 Identities=26% Similarity=0.278 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHH
Q 040046 123 DLEQDVDNCLRIIRERKLRAISGQI--VTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 123 ~LE~~Le~~L~~VR~rK~~~l~~qi--~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.|+..|...=+.+-.-+++++.-++ +.+..|.+.|+++|..|...+
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 3344444433444444444444443 457889999999999999887
No 109
>PRK15067 ethanolamine ammonia lyase large subunit; Provisional
Probab=33.79 E-value=21 Score=33.32 Aligned_cols=16 Identities=56% Similarity=0.982 Sum_probs=12.4
Q ss_pred CCCcccccccCCCCCC
Q 040046 197 GGPGIFALRLQPNEPL 212 (221)
Q Consensus 197 ~~~~~~~frlqp~qpn 212 (221)
|.+.-++.|+|||||-
T Consensus 152 Gl~G~ls~RlQPNhPT 167 (461)
T PRK15067 152 GLPGTLSARLQPNHPT 167 (461)
T ss_pred CCCceeeeecCCCCCC
Confidence 3445789999999993
No 110
>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=33.31 E-value=2.2e+02 Score=21.72 Aligned_cols=27 Identities=11% Similarity=0.330 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+..++..++++...|.++|+-|...+
T Consensus 102 ~le~e~~~~~~r~~dL~~QN~lLh~Ql 128 (132)
T PF07926_consen 102 QLEKELSELEQRIEDLNEQNKLLHDQL 128 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 577888899999999999998888776
No 111
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=33.14 E-value=2.1e+02 Score=21.52 Aligned_cols=27 Identities=22% Similarity=0.190 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+..++..||..+..+.|+|..|.-+-
T Consensus 19 ~l~~el~~LK~~~~el~EEN~~L~iEN 45 (110)
T PRK13169 19 VLLKELGALKKQLAELLEENTALRLEN 45 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888999999999999999998765
No 112
>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=32.90 E-value=2.6e+02 Score=22.55 Aligned_cols=51 Identities=20% Similarity=0.338 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIR----------ERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR----------~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+.+|..++..++..-+... ..+.....++++.++++....+.+...|..+.
T Consensus 124 i~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~ 184 (192)
T PF05529_consen 124 IKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALKKQS 184 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555544432 22344566777777777777666666666655
No 113
>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=32.57 E-value=52 Score=21.26 Aligned_cols=27 Identities=15% Similarity=0.027 Sum_probs=20.4
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
|.+++|+. ++|.++..++.+++.+...
T Consensus 1 ~~v~~f~~-----~~C~~C~~~~~~l~~l~~~ 27 (67)
T cd02973 1 VNIEVFVS-----PTCPYCPDAVQAANRIAAL 27 (67)
T ss_pred CEEEEEEC-----CCCCCcHHHHHHHHHHHHh
Confidence 56788887 4688877788888888554
No 114
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=32.51 E-value=6.2e+02 Score=26.69 Aligned_cols=22 Identities=41% Similarity=0.610 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040046 143 ISGQIVTHRKKVRREEEENRKL 164 (221)
Q Consensus 143 l~~qi~~lkkK~~~l~e~n~~L 164 (221)
+...|.+++++..+-.++.+.|
T Consensus 441 i~~~i~~l~k~i~~~~~~l~~l 462 (1074)
T KOG0250|consen 441 IEGEILQLRKKIENISEELKDL 462 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555666555544443333
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=32.23 E-value=1.4e+02 Score=20.04 Aligned_cols=26 Identities=19% Similarity=0.420 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 143 ISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 143 l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+..++..++++...+..+|..|..++
T Consensus 22 ~~~ei~~l~~~i~~l~~e~~~L~~ei 47 (80)
T PF04977_consen 22 LNQEIAELQKEIEELKKENEELKEEI 47 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666666666666666555
No 116
>COG4831 Roadblock/LC7 domain [Function unknown]
Probab=32.22 E-value=37 Score=25.11 Aligned_cols=30 Identities=27% Similarity=0.302 Sum_probs=22.5
Q ss_pred hhhhhhhcccCcceeeeeecCCCcccccccc
Q 040046 30 KKAQELTVLCDAKVSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 30 KKA~ELSvLCda~v~lIifs~~gk~~~~~sp 60 (221)
-|..||--+-+| +|.=.|||+||+.+|-+|
T Consensus 3 ekLdeLlqi~Gv-~AAGefs~DGkLv~Ykgd 32 (109)
T COG4831 3 EKLDELLQIKGV-MAAGEFSPDGKLVEYKGD 32 (109)
T ss_pred hhHHHHhCccce-eEeceeCCCCceEEeeCC
Confidence 355667666555 455689999999999886
No 117
>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=31.92 E-value=1e+02 Score=27.98 Aligned_cols=39 Identities=18% Similarity=0.219 Sum_probs=29.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 110 GESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 110 Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~ 160 (221)
...|++.|++|+-.|-+. ++.|..+++.|+.|+..|+++
T Consensus 23 ~~~~~~~~~~e~~aLr~E------------N~~LKkEN~~Lk~eVerLE~e 61 (420)
T PF07407_consen 23 NHELEGVSIDENFALRME------------NHSLKKENNDLKIEVERLENE 61 (420)
T ss_pred cccccccchhhhhhHHHH------------hHHHHHHHHHHHHHHHHHHHH
Confidence 457899999999988665 556777777777777777544
No 118
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=31.57 E-value=5.5e+02 Score=26.23 Aligned_cols=121 Identities=21% Similarity=0.302 Sum_probs=59.2
Q ss_pred hhhhcccCccee---eeeecCCCccccccccch-hhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 040046 33 QELTVLCDAKVS---IIMCSSTGKVQEYVSSST-TTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQR 108 (221)
Q Consensus 33 ~ELSvLCda~v~---lIifs~~gk~~~~~sps~-~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~ 108 (221)
..+--+|+.+.. -+||-|.|.+-.|-.... .=+.|+++--.. +.....+..+.+....++...+.++..+. .
T Consensus 121 ~~i~~llgld~~~f~~~v~l~QGe~~~fl~~~~~er~~il~~l~~l---~~~e~~~~~l~e~~~~~~~~~e~l~~~~~-~ 196 (908)
T COG0419 121 EKIEELLGLDKDTFTRSVYLPQGEFDAFLKSKPKERKEILDELFGL---EKYEKLSELLKEVIKEAKAKIEELEGQLS-E 196 (908)
T ss_pred HHHHHHhCCCHHHHhHHheeccHhHHHHHhcCcHHHHHHHHHHhCc---hhHHHHHHHHHHHHHHHHHHHHHHHHHHH-h
Confidence 445566776533 367889997776655322 234555543322 22233344455555666666666665554 0
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHH--HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Q 040046 109 LGESLNDLSLKKLSDLEQDVDNC--LRIIRERKLR-AISGQIVTHRKKVRREEEEN 161 (221)
Q Consensus 109 ~Ge~L~~Ls~~EL~~LE~~Le~~--L~~VR~rK~~-~l~~qi~~lkkK~~~l~e~n 161 (221)
.-++... ++..++..++.. +..++..... .+..+++.+.+....|++..
T Consensus 197 ~~e~~~~----~~~~~~~e~~~~~~l~e~~~~~~~~~l~~e~e~l~~~~~el~~~~ 248 (908)
T COG0419 197 LLEDIED----LLEALEEELKELKKLEEIQEEQEEEELEQEIEALEERLAELEEEK 248 (908)
T ss_pred hhhhhHH----HHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 1111111 244455555544 3344443332 25555555555555554443
No 119
>KOG2751 consensus Beclin-like protein [Signal transduction mechanisms]
Probab=31.44 E-value=3.6e+02 Score=25.36 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 040046 123 DLEQDVDNCLRIIRERKLRAIS 144 (221)
Q Consensus 123 ~LE~~Le~~L~~VR~rK~~~l~ 144 (221)
.=+..|+..|...+.+|.++..
T Consensus 204 ~~~~~l~~~l~e~~~~~~~~~e 225 (447)
T KOG2751|consen 204 KEEAELDHQLKELEFKAERLNE 225 (447)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3345555566666666665554
No 120
>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=31.42 E-value=2.6e+02 Score=22.00 Aligned_cols=29 Identities=21% Similarity=0.576 Sum_probs=20.0
Q ss_pred ecCCCccccccccchhhHHHHHHHHhhhc
Q 040046 48 CSSTGKVQEYVSSSTTTKQLLDEYQRRLK 76 (221)
Q Consensus 48 fs~~gk~~~~~sps~~~~~ii~RY~~~~~ 76 (221)
|.+++.+-.||...-.+...|++|++.-.
T Consensus 7 ~~~de~~G~~CPTgC~i~~~L~k~~~~v~ 35 (146)
T PF08702_consen 7 CCADEDFGSYCPTGCGIQDFLDKYERDVD 35 (146)
T ss_dssp ECSSTTTTEEEE-HHHHHHHHHHHHHHHH
T ss_pred cccCccccCCCCCcchHHHHHHHHccchH
Confidence 34556666677654489999999998653
No 121
>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=31.42 E-value=1.1e+02 Score=22.95 Aligned_cols=40 Identities=23% Similarity=0.350 Sum_probs=22.6
Q ss_pred HHHHHHHhhhc-ccccchhhhhhHHHHHHHHHHHHHHHHHH
Q 040046 66 QLLDEYQRRLK-IDLWSSQYEKMQENLKNLKEVNINLKKEI 105 (221)
Q Consensus 66 ~ii~RY~~~~~-~~~~~~~~e~lq~el~kLk~en~~L~~~i 105 (221)
+|+++...... .......++.++..+..+-++|..|+.+.
T Consensus 5 ~l~~~l~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN 45 (107)
T PF06156_consen 5 ELFDRLDQLEQQLGQLLEELEELKKQLQELLEENARLRIEN 45 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666655432 12233445566666777777777776654
No 122
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=31.29 E-value=1.1e+02 Score=22.75 Aligned_cols=18 Identities=28% Similarity=0.774 Sum_probs=12.9
Q ss_pred ccccchhhhhhHHHHHHH
Q 040046 77 IDLWSSQYEKMQENLKNL 94 (221)
Q Consensus 77 ~~~~~~~~e~lq~el~kL 94 (221)
...|...|+-|.+++..+
T Consensus 7 Wq~w~aEYe~LKEEi~~l 24 (99)
T PF13758_consen 7 WQTWEAEYEGLKEEIEAL 24 (99)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 345777787777777777
No 123
>KOG4360 consensus Uncharacterized coiled coil protein [Function unknown]
Probab=30.75 E-value=3.2e+02 Score=26.37 Aligned_cols=29 Identities=34% Similarity=0.354 Sum_probs=21.6
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhhcCC
Q 040046 83 QYEKMQENLKNLKEVNINLKKEIRQRLGE 111 (221)
Q Consensus 83 ~~e~lq~el~kLk~en~~L~~~ir~~~Ge 111 (221)
+.+-|++.|+.++++|..|+.+.-++.-|
T Consensus 160 ~~EaL~ekLk~~~een~~lr~k~~llk~E 188 (596)
T KOG4360|consen 160 LLEALQEKLKPLEEENTQLRSKAMLLKTE 188 (596)
T ss_pred HHHHHHhhcCChHHHHHHHHHHHHHHHhh
Confidence 35678888888889998888876655544
No 124
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=30.68 E-value=2.7e+02 Score=22.16 Aligned_cols=35 Identities=26% Similarity=0.408 Sum_probs=26.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 110 GESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRK 152 (221)
Q Consensus 110 Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkk 152 (221)
+-||..||+++|..|-+++|.-|. .+.+.+..|+.
T Consensus 7 ~idltkLsleQL~~lk~q~dqEl~--------~lq~Sl~~L~~ 41 (153)
T KOG3048|consen 7 GIDLTKLSLEQLGALKKQFDQELN--------FLQDSLNALKG 41 (153)
T ss_pred CCChhhCCHHHHHHHHHHHHHHHH--------HHHHHHHHHHH
Confidence 568999999999999999987776 45555555543
No 125
>PF14645 Chibby: Chibby family
Probab=30.54 E-value=82 Score=23.91 Aligned_cols=21 Identities=33% Similarity=0.317 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040046 148 VTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 148 ~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..++++.+.|+|||+.|+.++
T Consensus 74 ~~l~~~n~~L~EENN~Lklk~ 94 (116)
T PF14645_consen 74 QRLRKENQQLEEENNLLKLKI 94 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456666777777777776665
No 126
>smart00340 HALZ homeobox associated leucin zipper.
Probab=30.45 E-value=1e+02 Score=19.22 Aligned_cols=25 Identities=28% Similarity=0.357 Sum_probs=18.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhc
Q 040046 85 EKMQENLKNLKEVNINLKKEIRQRL 109 (221)
Q Consensus 85 e~lq~el~kLk~en~~L~~~ir~~~ 109 (221)
+.++.-.+.|.++|.+|++++..+.
T Consensus 8 e~LKrcce~LteeNrRL~ke~~eLr 32 (44)
T smart00340 8 ELLKRCCESLTEENRRLQKEVQELR 32 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666788899999998875544
No 127
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=30.37 E-value=4.3e+02 Score=24.15 Aligned_cols=46 Identities=20% Similarity=0.269 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKL----RAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~----~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
++..++.+|+.+-..+.+.++ ++..+++..++.+...|+++.+.|+
T Consensus 54 ~~~~~~~~l~~a~~~l~~~~D~em~ema~~Ei~~~~~~~~~le~~L~~lL 103 (363)
T COG0216 54 EYKKAQEDLEDAKEMLAEEKDPEMREMAEEEIKELEAKIEELEEELKILL 103 (363)
T ss_pred HHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334444444444333333222 4566777888888888887776654
No 128
>PLN03128 DNA topoisomerase 2; Provisional
Probab=30.30 E-value=6e+02 Score=27.06 Aligned_cols=27 Identities=22% Similarity=0.532 Sum_probs=21.4
Q ss_pred eeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 44 SIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 44 ~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
-+++|.+.|++..|.++ ++||..|-..
T Consensus 961 nm~l~d~~~~i~ky~~~----~~il~~f~~~ 987 (1135)
T PLN03128 961 NMHLFDKDGKIKKYDSP----EDILEEFFHL 987 (1135)
T ss_pred EEEEECCCCcccCCCCH----HHHHHHHHHH
Confidence 57789999999988664 6888888654
No 129
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=30.27 E-value=2.8e+02 Score=22.08 Aligned_cols=76 Identities=22% Similarity=0.316 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHh--hcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHH
Q 040046 90 NLKNLKEVNINLKKEIRQ--RLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAIS---------GQIVTHRKKVRREE 158 (221)
Q Consensus 90 el~kLk~en~~L~~~ir~--~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~---------~qi~~lkkK~~~l~ 158 (221)
.+..++....+++..+++ -+|++|.-.+|++| .-.-..-...|.+|-.++.. ..+...+.|...+.
T Consensus 14 ~~~~lk~~l~k~~~ql~~ke~lge~L~~iDFeqL---kien~~l~~kIeERn~eL~~Lk~~~~~~v~~L~h~keKl~~~~ 90 (177)
T PF13870_consen 14 KNITLKHQLAKLEEQLRQKEELGEGLHLIDFEQL---KIENQQLNEKIEERNKELLKLKKKIGKTVQILTHVKEKLHFLS 90 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444433 34766555445444 33334444455444444332 22344566666666
Q ss_pred HHHHHHHHHH
Q 040046 159 EENRKLRNGF 168 (221)
Q Consensus 159 e~n~~L~~~~ 168 (221)
.++..+..++
T Consensus 91 ~~~~~l~~~l 100 (177)
T PF13870_consen 91 EELERLKQEL 100 (177)
T ss_pred HHHHHHHHHH
Confidence 6666665554
No 130
>KOG0930 consensus Guanine nucleotide exchange factor Cytohesin, contains PH and Sec7 domains [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.23 E-value=1.7e+02 Score=26.05 Aligned_cols=43 Identities=30% Similarity=0.347 Sum_probs=29.2
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 113 LNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKL 164 (221)
Q Consensus 113 L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L 164 (221)
=++||.+|-..| ..||.||.+++ ++|+.|+..++...++-..+
T Consensus 8 p~~Ls~~E~~eL--------~~ir~rk~qL~-deIq~Lk~Ei~ev~~eid~~ 50 (395)
T KOG0930|consen 8 PNDLSEEERMEL--------ENIRRRKQELL-DEIQRLKDEIAEVMEEIDNL 50 (395)
T ss_pred CCCCCHHHHHhH--------HHHHHHHHHHH-HHHHHHHHHHHHHHHHhhhh
Confidence 356777766655 57899998776 67888887776665554333
No 131
>smart00338 BRLZ basic region leucin zipper.
Probab=30.17 E-value=1.6e+02 Score=19.31 Aligned_cols=27 Identities=19% Similarity=0.304 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.|..+...|+.++..|..++..|...+
T Consensus 37 ~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 37 QLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566677778888888887777776544
No 132
>PLN02372 violaxanthin de-epoxidase
Probab=29.70 E-value=4.8e+02 Score=24.51 Aligned_cols=41 Identities=7% Similarity=0.223 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~ 160 (221)
++|..++|.+++.-+..|+..-..++..+ .+.+..+.|++.
T Consensus 378 ~~e~~~~~~e~~~~v~~~~~~~~~~~~~~--~~~~~~~~l~~~ 418 (455)
T PLN02372 378 VKEARQIEEELEKEVEKLGKEEESLFKRV--ALEEGLKELEQD 418 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHH
Confidence 34478888899988888888777777654 455555554443
No 133
>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=29.65 E-value=3.1e+02 Score=22.29 Aligned_cols=49 Identities=14% Similarity=0.310 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 118 LKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 118 ~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+.+|......|..+|..+... +-+..+|..|++....+.+.-+.+...+
T Consensus 4 ~~~L~~~d~~L~~~L~~l~~h--q~~~~~I~~L~~e~~~ld~~i~~~~~~L 52 (188)
T PF10018_consen 4 AEDLIEADDELSSALEELQEH--QENQARIQQLRAEIEELDEQIRDILKQL 52 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888888888887443 3355566666666555555544444444
No 134
>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]
Probab=28.88 E-value=30 Score=28.85 Aligned_cols=15 Identities=27% Similarity=0.441 Sum_probs=13.3
Q ss_pred cCcceeeeeecCCCc
Q 040046 39 CDAKVSIIMCSSTGK 53 (221)
Q Consensus 39 Cda~v~lIifs~~gk 53 (221)
-||++|++|||.++.
T Consensus 91 rgaqa~vLVFSTTDr 105 (246)
T KOG4252|consen 91 RGAQASVLVFSTTDR 105 (246)
T ss_pred ccccceEEEEecccH
Confidence 589999999999875
No 135
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=28.69 E-value=5.1e+02 Score=25.19 Aligned_cols=72 Identities=14% Similarity=0.104 Sum_probs=35.2
Q ss_pred hhcccCcceeeeeecCC-Ccccccccc-chhhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHH
Q 040046 35 LTVLCDAKVSIIMCSST-GKVQEYVSS-STTTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIR 106 (221)
Q Consensus 35 LSvLCda~v~lIifs~~-gk~~~~~sp-s~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir 106 (221)
+.++|+-..|-+.++.. |..+.-..- ..-|+.+|--++...-.++-...-.-+...+++|..+++.++...+
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 35566666665666643 222211110 0134444444444433333223333456677788888777665443
No 136
>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=28.67 E-value=2.1e+02 Score=20.88 Aligned_cols=44 Identities=14% Similarity=0.040 Sum_probs=32.4
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 112 SLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 112 ~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
...+++++++.. +.-......+++.|+.+...++.+|..|..++
T Consensus 60 ~~~~l~P~~~i~-------------a~l~~~~~~~~~~L~~~l~~l~~eN~~L~~~i 103 (109)
T PF03980_consen 60 WRHSLTPEEDIR-------------AHLAPYKKKEREQLNARLQELEEENEALAEEI 103 (109)
T ss_pred CCCCCChHHHHH-------------HHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777776543 33344556677899999999999999998887
No 137
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=28.49 E-value=6.5e+02 Score=25.66 Aligned_cols=48 Identities=25% Similarity=0.394 Sum_probs=24.7
Q ss_pred CCHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 116 LSLKKLSDL----EQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 116 Ls~~EL~~L----E~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|-+--|+.| +.+|..+++.. +++....+.|-|-..++.+||+.|...+
T Consensus 427 ~El~sLqSlN~~Lq~ql~es~k~~-----e~lq~kneellk~~e~q~~Enk~~~~~~ 478 (861)
T PF15254_consen 427 LELFSLQSLNMSLQNQLQESLKSQ-----ELLQSKNEELLKVIENQKEENKRLRKMF 478 (861)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhH-----HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455544 44444444432 2444444555555666666666666654
No 138
>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=28.46 E-value=1.6e+02 Score=18.70 Aligned_cols=34 Identities=32% Similarity=0.374 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 131 CLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 131 ~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+-..-|.+|-..+ ..+..++..|+.+|..|..++
T Consensus 15 AA~r~R~rkk~~~----~~le~~~~~L~~en~~L~~~i 48 (54)
T PF07716_consen 15 AARRSRQRKKQRE----EELEQEVQELEEENEQLRQEI 48 (54)
T ss_dssp HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Confidence 3344555555444 577888888888888887766
No 139
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=28.37 E-value=90 Score=23.14 Aligned_cols=27 Identities=30% Similarity=0.190 Sum_probs=17.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhh
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIRQR 108 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir~~ 108 (221)
.+++.++.++.+++.+|..|+.++..+
T Consensus 34 ~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 34 DQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445566677777777777777766433
No 140
>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=28.17 E-value=5.7e+02 Score=24.95 Aligned_cols=23 Identities=22% Similarity=0.364 Sum_probs=12.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHH
Q 040046 84 YEKMQENLKNLKEVNINLKKEIR 106 (221)
Q Consensus 84 ~e~lq~el~kLk~en~~L~~~ir 106 (221)
...+..++..++.+.+.+...++
T Consensus 393 ~~~~~~~~~~~e~el~~l~~~l~ 415 (650)
T TIGR03185 393 KSQLLKELRELEEELAEVDKKIS 415 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445555666666666655554
No 141
>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=28.13 E-value=5.6e+02 Score=24.85 Aligned_cols=30 Identities=13% Similarity=0.088 Sum_probs=14.6
Q ss_pred hhhhhhcccCcceeeeeecC-CC------ccccccccc
Q 040046 31 KAQELTVLCDAKVSIIMCSS-TG------KVQEYVSSS 61 (221)
Q Consensus 31 KA~ELSvLCda~v~lIifs~-~g------k~~~~~sps 61 (221)
+|+.|--. |.+--..+|.. .| .+|.|+.|+
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 23333334443 22 356677664
No 142
>PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins. Its exact function has not, as yet, been defined. ; PDB: 2QH1_B 1PVM_B.
Probab=27.83 E-value=55 Score=19.03 Aligned_cols=26 Identities=19% Similarity=0.224 Sum_probs=17.2
Q ss_pred hhcccCcceeeeeecCCCc--ccccccc
Q 040046 35 LTVLCDAKVSIIMCSSTGK--VQEYVSS 60 (221)
Q Consensus 35 LSvLCda~v~lIifs~~gk--~~~~~sp 60 (221)
|+--|++-|-+-||...|. +|..+.|
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 5667999999999999985 4444445
No 143
>PF05470 eIF-3c_N: Eukaryotic translation initiation factor 3 subunit 8 N-terminus; InterPro: IPR008905 The largest of the mammalian translation initiation factors, eIF3, consists of at least eight subunits ranging in mass from 35 to 170 kDa. eIF3 binds to the 40 S ribosome in an early step of translation initiation and promotes the binding of methionyl-tRNAi and mRNA [].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation, 0005852 eukaryotic translation initiation factor 3 complex
Probab=27.79 E-value=5.9e+02 Score=24.95 Aligned_cols=115 Identities=16% Similarity=0.250 Sum_probs=64.0
Q ss_pred cceeeeeecCCCccccccccchhhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHH
Q 040046 41 AKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKK 120 (221)
Q Consensus 41 a~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~E 120 (221)
-|.--||-|..+|.++ .|+.+|..-+++-.+.-|. .++.+.++|-+...+..+ ...+..+-.+=+.-
T Consensus 15 ee~kRVVkSaKdKr~d------el~~~i~~i~n~~ki~Dw~----~i~~eFd~L~k~~~K~~~---~~~~~~~P~~yir~ 81 (595)
T PF05470_consen 15 EEEKRVVKSAKDKRFD------ELEEIIKQIRNAMKINDWS----SILTEFDKLNKQLEKSKK---IQQNEGIPRFYIRA 81 (595)
T ss_pred ccCcccccchHHHHHH------HHHHHHHHHHHHHhhccHH----HHHHHHHHHHHHHHHHhh---hhhcCCCChhHHHH
Confidence 3444456666666554 2555555555554444453 334445555444333222 23456666777999
Q ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 121 LSDLEQDVDNCLRIIRERK--LRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 121 L~~LE~~Le~~L~~VR~rK--~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|..||+.+...+..=-.+| ...=..-.++++.|++.-..++......+
T Consensus 82 l~~Led~v~e~~~~ke~~Kkms~~nakaln~lkQklkK~~k~~e~~i~~y 131 (595)
T PF05470_consen 82 LVELEDFVNETWADKEAKKKMSKNNAKALNTLKQKLKKYNKEYEAQIAKY 131 (595)
T ss_pred HHHHHHHHHHHHhhhHhhhhcCHHhHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 9999999998664322222 11222334678888877666665555555
No 144
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=27.47 E-value=1.9e+02 Score=19.15 Aligned_cols=30 Identities=23% Similarity=0.322 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 139 KLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 139 K~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
|...|..++.+|.-|+..|..+...|+.++
T Consensus 4 kid~Ls~dVq~L~~kvdqLs~dv~~lr~~v 33 (56)
T PF04728_consen 4 KIDQLSSDVQTLNSKVDQLSSDVNALRADV 33 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566788888899999999998888888876
No 145
>PF10243 MIP-T3: Microtubule-binding protein MIP-T3; InterPro: IPR018799 This entry represents a protein which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), and is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved []. ; PDB: 2EQO_A.
Probab=26.89 E-value=21 Score=34.12 Aligned_cols=62 Identities=19% Similarity=0.263 Sum_probs=0.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHh---hcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 83 QYEKMQENLKNLKEVNINLKKEIRQ---RLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISG 145 (221)
Q Consensus 83 ~~e~lq~el~kLk~en~~L~~~ir~---~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~ 145 (221)
.++.|+.+|...+.++......+.. ...+.|..| ..+|.+||+.+......|..-|..+|.+
T Consensus 464 Did~M~~El~~W~~e~~~~~~~l~~e~~~t~~~~~pl-~~~L~ele~~I~~~~~~i~~~ka~Il~N 528 (539)
T PF10243_consen 464 DIDSMQKELEMWRSEYRQHAEALQEEQSITDEALEPL-KAQLAELEQQIKDQQDKICAVKANILKN 528 (539)
T ss_dssp ------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3344444444444444433322211 122333333 3577888888888888888888877754
No 146
>PF11976 Rad60-SLD: Ubiquitin-2 like Rad60 SUMO-like; InterPro: IPR022617 This entry includes small ubiquitin-related modifier (SUMO) proteins. SUMOs are small proteins that are covalently attached to lysines as post-translational modifications and are used to control multiple cellular process including signal transduction, nuclear transport and DNA replication and repair []. Unlike ubiquitin, they are not involved in protein degradation. This entry also contains the C-terminal Rad60 DNA repair protein SUMO-like domain.; PDB: 3RD2_A 2JXX_A 3RCZ_A 3GOE_A 3A4S_D 3A4R_B 2IO1_D 1U4A_A 2K1F_A 1WZ0_A ....
Probab=26.84 E-value=80 Score=20.93 Aligned_cols=35 Identities=29% Similarity=0.466 Sum_probs=26.0
Q ss_pred eeeeecCCCccccc-cccchhhHHHHHHHHhhhccc
Q 040046 44 SIIMCSSTGKVQEY-VSSSTTTKQLLDEYQRRLKID 78 (221)
Q Consensus 44 ~lIifs~~gk~~~~-~sps~~~~~ii~RY~~~~~~~ 78 (221)
.|.|-+.+|+.+.| ..|.+.+..+++.|.+..+..
T Consensus 2 ~i~v~~~~~~~~~~~v~~~~~~~~l~~~~~~~~~i~ 37 (72)
T PF11976_consen 2 TIKVRSQDGKEIKFKVKPTTTVSKLIEKYCEKKGIP 37 (72)
T ss_dssp EEEEEETTSEEEEEEEETTSCCHHHHHHHHHHHTTT
T ss_pred EEEEEeCCCCEEEEEECCCCcHHHHHHHHHHhhCCC
Confidence 57788888876654 346678999999998876543
No 147
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=26.81 E-value=4e+02 Score=22.93 Aligned_cols=85 Identities=14% Similarity=0.254 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcCCCCC-CCCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 040046 84 YEKMQENLKNLKEVNINLKKEIRQRLGESLN-DLSLKKLSDLEQDVDNCLRIIRERKL-RAISGQIVTHRKKVRREEEEN 161 (221)
Q Consensus 84 ~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~-~Ls~~EL~~LE~~Le~~L~~VR~rK~-~~l~~qi~~lkkK~~~l~e~n 161 (221)
+.+++.+++.+++....++.++-.+...... ...+.++..=....+..+..|..-+. .-|..++++.+++...|+.+-
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 HHHHHHH
Q 040046 162 RKLRNGF 168 (221)
Q Consensus 162 ~~L~~~~ 168 (221)
..|....
T Consensus 113 ~~l~~~~ 119 (239)
T COG1579 113 AELMEEI 119 (239)
T ss_pred HHHHHHH
No 148
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=26.80 E-value=1.5e+02 Score=22.79 Aligned_cols=72 Identities=19% Similarity=0.278 Sum_probs=39.8
Q ss_pred hhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcCCC
Q 040046 33 QELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLGES 112 (221)
Q Consensus 33 ~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~ 112 (221)
.||..|- -|. .||=..|.++...+-+..+.++=+|- +..+-++..++.+.++++++.+.|+..|+.++|..
T Consensus 44 ~Ele~l~-eD~--~vYk~VG~llvk~~k~~~~~eL~er~------E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~~ 114 (119)
T COG1382 44 EELEKLD-EDA--PVYKKVGNLLVKVSKEEAVDELEERK------ETLELRIKTLEKQEEKLQERLEELQSEIQKALGDA 114 (119)
T ss_pred HHHhcCC-ccc--HHHHHhhhHHhhhhHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4566553 232 66777777777665432222222221 12234445556666677777777777777777654
Q ss_pred C
Q 040046 113 L 113 (221)
Q Consensus 113 L 113 (221)
.
T Consensus 115 ~ 115 (119)
T COG1382 115 A 115 (119)
T ss_pred c
Confidence 3
No 149
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=26.71 E-value=1.1e+02 Score=21.75 Aligned_cols=29 Identities=24% Similarity=0.304 Sum_probs=20.1
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHhhc
Q 040046 81 SSQYEKMQENLKNLKEVNINLKKEIRQRL 109 (221)
Q Consensus 81 ~~~~e~lq~el~kLk~en~~L~~~ir~~~ 109 (221)
...++..+++-++|+.+|+-|+.-|..+|
T Consensus 36 ~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm 64 (80)
T PF10224_consen 36 SDRVEEVKEENEKLESENEYLQQYIGNLM 64 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666777777778877777776655
No 150
>PTZ00046 rifin; Provisional
Probab=26.50 E-value=58 Score=29.70 Aligned_cols=34 Identities=21% Similarity=0.552 Sum_probs=23.3
Q ss_pred hcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhcccc
Q 040046 36 TVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDL 79 (221)
Q Consensus 36 SvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~ 79 (221)
=+||..|. |+| -|=+. ..|++|.+.|.+.+..++
T Consensus 39 R~LcECeL----Y~p-----nYDND-PeMK~Vme~F~rqTsQRF 72 (358)
T PTZ00046 39 RLLCECEL----YSS-----NYDND-PEMKSVMENFDRQTSQRF 72 (358)
T ss_pred hhhhhhhc----CCC-----CCCCc-HHHHHHHHHHhHHHHHHH
Confidence 36899887 565 13333 269999999988775443
No 151
>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=26.33 E-value=79 Score=25.84 Aligned_cols=49 Identities=12% Similarity=0.179 Sum_probs=24.4
Q ss_pred ccchhhhhhhcccCcceeeeeecCC-----CccccccccchhhHHHHHHHHhhhcc
Q 040046 27 GLFKKAQELTVLCDAKVSIIMCSST-----GKVQEYVSSSTTTKQLLDEYQRRLKI 77 (221)
Q Consensus 27 GL~KKA~ELSvLCda~v~lIifs~~-----gk~~~~~sps~~~~~ii~RY~~~~~~ 77 (221)
-++++..++...|..=...|.=.|. .+...|-=|+ +.+++++|......
T Consensus 98 ~~~~~~~~~~~~~~~I~~~v~~~P~~l~~a~~Fl~~yLp~--~~~l~~kY~~l~~~ 151 (199)
T PF10112_consen 98 EMIEKVSRIEKIARRIFKYVEKDPERLTQARKFLYYYLPT--AVKLLEKYAELESQ 151 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCHHhHHHHHHHHHHHhhH--HHHHHHHHHHHHhc
Confidence 3445555555554443333333331 2333333353 56788888776543
No 152
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=26.30 E-value=3.1e+02 Score=23.73 Aligned_cols=13 Identities=54% Similarity=0.634 Sum_probs=9.0
Q ss_pred cCCCccccccccc
Q 040046 49 SSTGKVQEYVSSS 61 (221)
Q Consensus 49 s~~gk~~~~~sps 61 (221)
||+|....|.+|+
T Consensus 30 ~p~g~s~~~~~~~ 42 (292)
T KOG4005|consen 30 SPTGSSSGYASSS 42 (292)
T ss_pred CCCCCCccccCcc
Confidence 5667767777775
No 153
>smart00415 HSF heat shock factor.
Probab=26.04 E-value=56 Score=24.02 Aligned_cols=39 Identities=26% Similarity=0.287 Sum_probs=29.3
Q ss_pred cccCccee-eeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 37 VLCDAKVS-IIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 37 vLCda~v~-lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
+|.|.+.. +|-.+++|+.+.-..|..-.+.|+.+|-+.+
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 45667775 8889999998887777655567888886654
No 154
>PRK03100 sec-independent translocase; Provisional
Probab=26.03 E-value=49 Score=25.94 Aligned_cols=28 Identities=7% Similarity=0.159 Sum_probs=18.1
Q ss_pred ceeeeeecCCCccccccccchhhHHHHHHHHh
Q 040046 42 KVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQR 73 (221)
Q Consensus 42 ~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~ 73 (221)
=|+||||+| .|+.+... ++-+.+-.+++
T Consensus 15 vVaLvv~GP-krLP~~~r---~lG~~vr~~R~ 42 (136)
T PRK03100 15 VAGLVILGP-ERLPGAIR---WTARALRQARD 42 (136)
T ss_pred HHHHhhcCc-hHHHHHHH---HHHHHHHHHHH
Confidence 368899998 77777654 24455555554
No 155
>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=26.00 E-value=2.1e+02 Score=22.30 Aligned_cols=53 Identities=8% Similarity=-0.010 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~ 167 (221)
++|++++..+-..+...-...-.....++.++...+..+...|+..-..|...
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~ 109 (142)
T TIGR01950 57 GIPLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGC 109 (142)
T ss_pred CCCHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57788888776554321111112222356666667777766666655455443
No 156
>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=25.99 E-value=4.2e+02 Score=28.13 Aligned_cols=66 Identities=23% Similarity=0.276 Sum_probs=41.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 86 KMQENLKNLKEVNINLKKEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRK 152 (221)
Q Consensus 86 ~lq~el~kLk~en~~L~~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkk 152 (221)
+.-..+..|+++..-|+.+- -+|..+-+..++.|...||++|...-.++-.-=---+..||+.|.+
T Consensus 1128 K~ia~lnnlqqElklLRnEK-~Rmh~~~dkVDFSDIEkLE~qLq~~~~kL~dAyl~eitKqIsaLe~ 1193 (1439)
T PF12252_consen 1128 KAIANLNNLQQELKLLRNEK-IRMHSGTDKVDFSDIEKLEKQLQVIHTKLYDAYLVEITKQISALEK 1193 (1439)
T ss_pred HHHHHHHHHHHHHHHHHhHH-HhhccCCCcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHh
Confidence 33344555666665555442 2345555668899999999999877666655444445556666665
No 157
>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=25.92 E-value=2.6e+02 Score=20.13 Aligned_cols=15 Identities=33% Similarity=0.543 Sum_probs=10.7
Q ss_pred CCCHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVD 129 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le 129 (221)
+++++++..+-....
T Consensus 57 g~~l~~i~~~~~~~~ 71 (103)
T cd01106 57 GFSLKEIKELLKDPS 71 (103)
T ss_pred CCCHHHHHHHHHcCc
Confidence 688888888765543
No 158
>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=25.89 E-value=63 Score=18.65 Aligned_cols=20 Identities=20% Similarity=0.124 Sum_probs=15.1
Q ss_pred cceeeeeecCCCcccccccc
Q 040046 41 AKVSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 41 a~v~lIifs~~gk~~~~~sp 60 (221)
..-.-..|||+|+-..|++-
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 35566789999999999884
No 159
>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=25.80 E-value=84 Score=26.49 Aligned_cols=47 Identities=11% Similarity=0.280 Sum_probs=35.4
Q ss_pred cccchhh----hhhhcccCcceeeeeecCC---CccccccccchhhHHHHHHHHhh
Q 040046 26 NGLFKKA----QELTVLCDAKVSIIMCSST---GKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 26 ~GL~KKA----~ELSvLCda~v~lIifs~~---gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
+-|+-|. .|++|=+|-++.|++.+|+ +....|+.. .++.|+..|...
T Consensus 35 ~rllrkl~~~~de~~trvGqqavvl~~~p~kp~~~f~vfGa~--pL~~vv~~~~~~ 88 (214)
T PF10491_consen 35 TRLLRKLRQTIDEYTTRVGQQAVVLCCTPSKPNPVFKVFGAA--PLENVVRNLKPV 88 (214)
T ss_pred HHHHHHHHHHHHHHHHhhhceeEEEEecCCCCCCceeeecch--hHHHHHHHHHHH
Confidence 4566664 6899999999999999984 334456663 478999999865
No 160
>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=25.58 E-value=1.8e+02 Score=18.38 Aligned_cols=21 Identities=24% Similarity=0.249 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENR 162 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~ 162 (221)
=+-+||..|++|-..|-..+-
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 346777788887766665553
No 161
>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=25.47 E-value=2.8e+02 Score=20.46 Aligned_cols=13 Identities=15% Similarity=0.284 Sum_probs=6.8
Q ss_pred CCCHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQD 127 (221)
Q Consensus 115 ~Ls~~EL~~LE~~ 127 (221)
++|++|+..+-..
T Consensus 56 G~sl~eI~~~l~~ 68 (116)
T cd04769 56 GFTLAELKAIFAG 68 (116)
T ss_pred CCCHHHHHHHHhc
Confidence 4555555555443
No 162
>PRK11637 AmiB activator; Provisional
Probab=24.94 E-value=5.4e+02 Score=23.60 Aligned_cols=27 Identities=7% Similarity=0.038 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
.+..+|..+++++...++.-..+...+
T Consensus 107 ~l~~eI~~~q~~l~~~~~~l~~rlra~ 133 (428)
T PRK11637 107 ELNASIAKLEQQQAAQERLLAAQLDAA 133 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666655555544444433
No 163
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=24.91 E-value=4.7e+02 Score=22.81 Aligned_cols=31 Identities=26% Similarity=0.345 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 138 RKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 138 rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+.++.|..+|...++-+..++++...|..++
T Consensus 186 ~~N~~m~kei~~~re~i~el~e~I~~L~~eV 216 (258)
T PF15397_consen 186 LENQVMQKEIVQFREEIDELEEEIPQLRAEV 216 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555555666666666666666
No 164
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=24.88 E-value=3.6e+02 Score=25.66 Aligned_cols=27 Identities=11% Similarity=0.251 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 142 AISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 142 ~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
++..+...++.|++.++++|..|..++
T Consensus 94 ~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 94 VLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 455566677788888888888888876
No 165
>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=24.84 E-value=5.3e+02 Score=23.47 Aligned_cols=34 Identities=26% Similarity=0.377 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKV 154 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~ 154 (221)
.|..|...+...|.+|..|-. .|.+|++.+-...
T Consensus 242 ~L~kl~~~i~~~lekI~sREk-~iN~qle~l~~eY 275 (359)
T PF10498_consen 242 QLDKLQQDISKTLEKIESREK-YINNQLEPLIQEY 275 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHhHHHHHHH
Confidence 445566666666666665532 3444554443333
No 166
>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=24.72 E-value=2.1e+02 Score=19.58 Aligned_cols=28 Identities=14% Similarity=0.276 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 141 RAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 141 ~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..+..++..++++...++.+|..|..+.
T Consensus 27 ~~~~~~~~~~~~~~~~l~~en~~L~~ei 54 (85)
T TIGR02209 27 RQLNNELQKLQLEIDKLQKEWRDLQLEV 54 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677888888888899998888877
No 167
>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=24.72 E-value=2.8e+02 Score=20.20 Aligned_cols=46 Identities=7% Similarity=0.174 Sum_probs=24.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 114 NDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 114 ~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
-++|+.|...+-...+. +.-..++.++++.+.++...++.....|.
T Consensus 57 ~G~sl~~i~~l~~~~~~------~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 102 (108)
T cd01107 57 LGFPLEEIKEILDADND------DELRKLLREKLAELEAEIEELQRILRLLE 102 (108)
T ss_pred cCCCHHHHHHHHhcCCH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677777776554332 33344555555666666555554443333
No 168
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=24.50 E-value=21 Score=24.33 Aligned_cols=37 Identities=11% Similarity=0.283 Sum_probs=26.2
Q ss_pred hhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhc
Q 040046 34 ELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLK 76 (221)
Q Consensus 34 ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~ 76 (221)
||-|++= |+||||+| +|+...+. ++-+.+..|++...
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 5555433 68999999 68888765 46677888887654
No 169
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=24.36 E-value=41 Score=28.72 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=17.9
Q ss_pred hcccCcceeeeeecCCCcccc
Q 040046 36 TVLCDAKVSIIMCSSTGKVQE 56 (221)
Q Consensus 36 SvLCda~v~lIifs~~gk~~~ 56 (221)
||=.|-|.|.-+|||+|++|.
T Consensus 3 sIGtGyDls~s~fSpdGrvfQ 23 (254)
T KOG0184|consen 3 SIGTGYDLSASTFSPDGRVFQ 23 (254)
T ss_pred cccccccccceeeCCCCceeh
Confidence 455678999999999999986
No 170
>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=24.29 E-value=4.2e+02 Score=22.06 Aligned_cols=99 Identities=14% Similarity=0.223 Sum_probs=47.8
Q ss_pred hHHHHHHHHhhhccc---------ccc---hhhhhhHHHHHHHHHHHHHHHHHHHhhcCCC--CCCCCHHHHHHHHHHHH
Q 040046 64 TKQLLDEYQRRLKID---------LWS---SQYEKMQENLKNLKEVNINLKKEIRQRLGES--LNDLSLKKLSDLEQDVD 129 (221)
Q Consensus 64 ~~~ii~RY~~~~~~~---------~~~---~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~--L~~Ls~~EL~~LE~~Le 129 (221)
-++++.|.+..-+.. +.. .+.+..-.++..||+.|.+|+.+.+.+.+-+ |++ =++=-..|.
T Consensus 18 keel~~rLR~~E~ek~~~m~~~g~lm~evNrrlQ~hl~EIR~LKe~NqkLqedNqELRdLCCFLDd-----dRqKgrkla 92 (195)
T PF10226_consen 18 KEELVRRLRRAEAEKMSLMVEHGRLMKEVNRRLQQHLNEIRGLKEVNQKLQEDNQELRDLCCFLDD-----DRQKGRKLA 92 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccch-----hHHHhHHHh
Confidence 357787777654321 111 2222223466777888887776543332211 111 011111122
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 130 NCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 130 ~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~ 167 (221)
....+.-.--..+|.+++..+.+|.+.|+.....|..+
T Consensus 93 rEWQrFGryta~vmr~eV~~Y~~KL~eLE~kq~~L~rE 130 (195)
T PF10226_consen 93 REWQRFGRYTASVMRQEVAQYQQKLKELEDKQEELIRE 130 (195)
T ss_pred HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 22222222224577777777777777776555444443
No 171
>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=24.20 E-value=3.9e+02 Score=26.54 Aligned_cols=49 Identities=18% Similarity=0.248 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKLRAI---SGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~~~l---~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
+|..|+++-+.-+...+.+...+- .+|++.||.-+..||+|.+.|.-+.
T Consensus 5 kL~~Lq~ek~~E~~~l~~~~~~lk~~~~~el~~Lk~~vqkLEDEKKFL~nE~ 56 (654)
T PF09798_consen 5 KLELLQQEKQKERQALKSSVEELKESHEEELNKLKSEVQKLEDEKKFLNNEL 56 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666666666666666655443 4667788888999999988888776
No 172
>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=24.15 E-value=4.3e+02 Score=22.09 Aligned_cols=16 Identities=25% Similarity=0.131 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRII 135 (221)
Q Consensus 120 EL~~LE~~Le~~L~~V 135 (221)
+|..||..-...+.++
T Consensus 176 ~L~~Le~~W~~~v~kn 191 (221)
T PF05700_consen 176 ELRYLEQRWKELVSKN 191 (221)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4445555544444443
No 173
>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=23.97 E-value=2.7e+02 Score=19.70 Aligned_cols=69 Identities=26% Similarity=0.318 Sum_probs=35.1
Q ss_pred hhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHHHHHhhcC
Q 040046 33 QELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKKEIRQRLG 110 (221)
Q Consensus 33 ~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~~ir~~~G 110 (221)
.||..|-|- ..||=+-|++|.-.+. .++...|+.-.... ...++.+...+..+.++...++..++...|
T Consensus 36 ~eL~~l~~~---~~~y~~vG~~fv~~~~-~~~~~~L~~~~~~~-----~~~i~~l~~~~~~l~~~l~~~~~~l~~~~~ 104 (106)
T PF01920_consen 36 EELEKLDDD---RKVYKSVGKMFVKQDK-EEAIEELEERIEKL-----EKEIKKLEKQLKYLEKKLKELKKKLYELFG 104 (106)
T ss_dssp HHHHTSSTT----EEEEEETTEEEEEEH-HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHCCCS
T ss_pred HHHHhCCCc---chhHHHHhHHHHHhhH-HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 566766443 3344444777765543 23444444433322 334455555555666666666666555444
No 174
>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=23.91 E-value=1.9e+02 Score=18.04 Aligned_cols=30 Identities=20% Similarity=0.251 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 139 KLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 139 K~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
=...|....+.|+..-..|..+|..|..++
T Consensus 6 Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev 35 (45)
T PF02183_consen 6 DYDALKASYDSLKAEYDSLKKENEKLRAEV 35 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356778888888888888888888888876
No 175
>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=23.77 E-value=3.3e+02 Score=20.66 Aligned_cols=53 Identities=11% Similarity=0.208 Sum_probs=27.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
++|++|+..+-...+..-... ..-.+++.+++..+..+...++.....|...+
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~ 109 (133)
T cd04787 57 GFSLKDIKEILSHADQGESPC-PMVRRLIEQRLAETERRIKELLKLRDRMQQAV 109 (133)
T ss_pred CCCHHHHHHHHhhhccCCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477777777654332221111 11234566666777777766665544444433
No 176
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=23.74 E-value=8.6e+02 Score=25.48 Aligned_cols=55 Identities=24% Similarity=0.323 Sum_probs=36.1
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhh------cCCCCCCCCHHHHHHHHHH---HHHHHHHHHH
Q 040046 83 QYEKMQENLKNLKEVNINLKKEIRQR------LGESLNDLSLKKLSDLEQD---VDNCLRIIRE 137 (221)
Q Consensus 83 ~~e~lq~el~kLk~en~~L~~~ir~~------~Ge~L~~Ls~~EL~~LE~~---Le~~L~~VR~ 137 (221)
.-+.||.+++.+++.++.|..++.-+ .|.+-...|-=++.+||++ |-++|-++|+
T Consensus 326 RaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVrLRD 389 (1243)
T KOG0971|consen 326 RAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVRLRD 389 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567788888888888776654221 2666666776677777765 6666666664
No 177
>PRK13824 replication initiation protein RepC; Provisional
Probab=23.55 E-value=5.2e+02 Score=23.95 Aligned_cols=96 Identities=19% Similarity=0.243 Sum_probs=57.3
Q ss_pred hhhcccCcceeeeee--cCCCccccccccch--------hhHHHHHHHHhhhcccccchhhhhhHHHHHHHHHHHHHHHH
Q 040046 34 ELTVLCDAKVSIIMC--SSTGKVQEYVSSST--------TTKQLLDEYQRRLKIDLWSSQYEKMQENLKNLKEVNINLKK 103 (221)
Q Consensus 34 ELSvLCda~v~lIif--s~~gk~~~~~sps~--------~~~~ii~RY~~~~~~~~~~~~~e~lq~el~kLk~en~~L~~ 103 (221)
-|+.|.+| +||+. |||||=|..-.++- ++.-++.||...... -.+...-++++..+++....+++
T Consensus 103 hla~Lvea--GLI~rrDSpNGKRyarr~~~G~i~~AfGfDLsPL~~R~~El~~~---A~~~~ae~~~~r~lr~~it~~rR 177 (404)
T PRK13824 103 HLAALVEA--GLIIRRDSPNGKRYARKGRGGEIEEAFGFDLAPLLARAEEFEAL---AEQVAAERKALRRLRERLTLCRR 177 (404)
T ss_pred HHHHHHHC--CCeEeecCCCCcccceeCCCCceeeeeccchHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566544 56664 68999886654431 455677777765321 12222224566778888888888
Q ss_pred HHHhhcC----CCCCCCCHHHHHHHHHHHHHHHHHHHHH
Q 040046 104 EIRQRLG----ESLNDLSLKKLSDLEQDVDNCLRIIRER 138 (221)
Q Consensus 104 ~ir~~~G----e~L~~Ls~~EL~~LE~~Le~~L~~VR~r 138 (221)
.|+.+.. +.+.+ +...++..+...+..++.+
T Consensus 178 di~~li~~a~~~~~~~----~w~~~~~~~~~i~~~l~R~ 212 (404)
T PRK13824 178 DIAKLIEAAIEEGVPG----DWEGVEQRFRAIVARLPRR 212 (404)
T ss_pred HHHHHHHHHHhccCCC----cHHHHHHHHHHHHHHcCCC
Confidence 8877652 22322 4667777777777766633
No 178
>PF13252 DUF4043: Protein of unknown function (DUF4043)
Probab=23.53 E-value=40 Score=30.48 Aligned_cols=30 Identities=17% Similarity=0.171 Sum_probs=23.1
Q ss_pred hhhhhhcccCcceeeeeecCCCcccccccc
Q 040046 31 KAQELTVLCDAKVSIIMCSSTGKVQEYVSS 60 (221)
Q Consensus 31 KA~ELSvLCda~v~lIifs~~gk~~~~~sp 60 (221)
.+-.-++||||+++++.|+..+....|-|.
T Consensus 270 ~~v~ralLlGaQA~~~A~G~~~~~~~~~w~ 299 (341)
T PF13252_consen 270 VAVARALLLGAQALVIAFGKSGSGMRFFWV 299 (341)
T ss_pred cceeeeeeechhheeeeeeccCCCcccccc
Confidence 445568899999999999996655566664
No 179
>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=23.49 E-value=73 Score=22.49 Aligned_cols=29 Identities=3% Similarity=0.187 Sum_probs=20.0
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|++|||+| .|+++.+- ++-+.+.++++..
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 68899999 77776554 3556666666653
No 180
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=23.36 E-value=49 Score=24.62 Aligned_cols=58 Identities=19% Similarity=0.253 Sum_probs=34.4
Q ss_pred CCcccceeEEecCCCCccccccccccccchhhhhhhcccCcc----eeeeeecCCCccccccccc
Q 040046 1 MARGKIQIKRIENATNRQVTFSKRRNGLFKKAQELTVLCDAK----VSIIMCSSTGKVQEYVSSS 61 (221)
Q Consensus 1 MgR~Ki~ik~Ien~~~RqvTfsKRr~GL~KKA~ELSvLCda~----v~lIifs~~gk~~~~~sps 61 (221)
|||+|...++|-. .|+-.+-|+-+-++= -+|.++.|-++ +++++.+..|--|++--|.
T Consensus 1 MG~rr~krr~~ik--~~~~~L~k~FtCp~C-ghe~vs~ctvkk~~~~g~~~Cg~CGls~e~ev~~ 62 (104)
T COG4888 1 MGRRRRKRRKIIK--RRPQVLPKTFTCPRC-GHEKVSSCTVKKTVNIGTAVCGNCGLSFECEVPE 62 (104)
T ss_pred CCcccccccccCc--ccCccCCceEecCcc-CCeeeeEEEEEecCceeEEEcccCcceEEEeccc
Confidence 9999988877632 111112333222221 25666666554 6778888889888776654
No 181
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=23.13 E-value=52 Score=29.25 Aligned_cols=32 Identities=16% Similarity=0.421 Sum_probs=20.6
Q ss_pred cccCcceeeeeecCCCccccccccchhhHHHHHHHHhhhccc
Q 040046 37 VLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRLKID 78 (221)
Q Consensus 37 vLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~~~~ 78 (221)
+||..|.-.-. |=+. ..|++|++.|.+.+...
T Consensus 20 ~LcECely~sn---------YDND-PeMK~Vme~F~rqTsQR 51 (299)
T PF02009_consen 20 SLCECELYTSN---------YDND-PEMKSVMENFDRQTSQR 51 (299)
T ss_pred chhhhcccccC---------CCCc-HHHHHHHHHHHHHHHHH
Confidence 57888764322 2222 25999999998776543
No 182
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=23.06 E-value=2.6e+02 Score=28.13 Aligned_cols=21 Identities=19% Similarity=0.339 Sum_probs=15.3
Q ss_pred ceeeeeecCCCccccccccch
Q 040046 42 KVSIIMCSSTGKVQEYVSSST 62 (221)
Q Consensus 42 ~v~lIifs~~gk~~~~~sps~ 62 (221)
++.|+.---.||-++|+||..
T Consensus 49 ~~~~~~~~~~~~~~~~~~~~~ 69 (762)
T PLN03229 49 DLAVVAKIRKGKKHEYPWPAD 69 (762)
T ss_pred ceEEEeeeccccccCCCCCCC
Confidence 445555556799999999964
No 183
>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=22.82 E-value=1.1e+02 Score=21.89 Aligned_cols=40 Identities=8% Similarity=0.175 Sum_probs=27.4
Q ss_pred chhhhhhhcccCcceeeeeecCCCccccccccchhhHHHHHHHHh
Q 040046 29 FKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQR 73 (221)
Q Consensus 29 ~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~ 73 (221)
+.++-+|-..-.-++.+|.|.. +||.|+..+..++++..+
T Consensus 6 ~~~~~~~~~~~~g~~vlV~F~a-----~WC~~C~~~~p~l~~la~ 45 (100)
T cd02999 6 LNIALDLMAFNREDYTAVLFYA-----SWCPFSASFRPHFNALSS 45 (100)
T ss_pred hhHHHHHHHhcCCCEEEEEEEC-----CCCHHHHhHhHHHHHHHH
Confidence 4556666665566788888887 689988666666655543
No 184
>PRK14858 tatA twin arginine translocase protein A; Provisional
Probab=22.75 E-value=48 Score=24.98 Aligned_cols=29 Identities=14% Similarity=0.342 Sum_probs=21.8
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|+||||+| .|+.+.+. ++-+.+.+|++..
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 68899999 88888765 3567777777764
No 185
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=22.70 E-value=1.5e+02 Score=22.13 Aligned_cols=18 Identities=28% Similarity=0.586 Sum_probs=15.5
Q ss_pred CCCCCCHHHHHHHHHHHH
Q 040046 112 SLNDLSLKKLSDLEQDVD 129 (221)
Q Consensus 112 ~L~~Ls~~EL~~LE~~Le 129 (221)
.++.||.+|+..|..++|
T Consensus 86 Rle~l~~eE~~~L~~eie 103 (104)
T PF11460_consen 86 RLEELSPEELEALQAEIE 103 (104)
T ss_pred HHHhCCHHHHHHHHHHhc
Confidence 478899999999988876
No 186
>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=22.69 E-value=22 Score=22.59 Aligned_cols=29 Identities=17% Similarity=0.369 Sum_probs=20.9
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|++++|+| +|+.+.+. ++-+.+..|++..
T Consensus 13 i~llvfGp-~kLP~~~r---~lG~~i~~fk~~~ 41 (47)
T TIGR01411 13 VILLLFGA-KKLPELGR---DLGKAIKEFKKAL 41 (47)
T ss_pred HHHHhcCc-hHhHHHHH---HHHHHHHHHHHHh
Confidence 68899998 88888765 3556666776653
No 187
>TIGR03156 GTP_HflX GTP-binding protein HflX. This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).
Probab=22.67 E-value=1.6e+02 Score=26.52 Aligned_cols=25 Identities=24% Similarity=0.143 Sum_probs=13.2
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHH
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIR 106 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir 106 (221)
+...+||-++..|+-...++....+
T Consensus 109 t~e~klqv~la~l~~~l~r~~~~~~ 133 (351)
T TIGR03156 109 THEGKLQVELAQLKYLLPRLVGGWT 133 (351)
T ss_pred ChHHHHHHHHHhccchhhhhhhhHH
Confidence 3345666666666555544444333
No 188
>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=22.48 E-value=90 Score=24.26 Aligned_cols=28 Identities=18% Similarity=0.405 Sum_probs=18.7
Q ss_pred CcceeeeeecCCCccccccccchhhHHHHHHHHhh
Q 040046 40 DAKVSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 40 da~v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
|-+|..|+... |+.| ..+..|++.|...
T Consensus 23 d~~~~~~~vd~------~~pP-~el~~iLe~y~~~ 50 (132)
T PF09432_consen 23 DPEVSEFVVDD------WNPP-KELQSILEKYNTP 50 (132)
T ss_pred CCCcceeeecC------CCCC-HHHHHHHHHHcCC
Confidence 44566666654 5555 4688999999763
No 189
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=22.46 E-value=3.4e+02 Score=20.31 Aligned_cols=28 Identities=18% Similarity=0.252 Sum_probs=22.1
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 113 LNDLSLKKLSDLEQDVDNCLRIIRERKL 140 (221)
Q Consensus 113 L~~Ls~~EL~~LE~~Le~~L~~VR~rK~ 140 (221)
-.+++-+++..|-..++..|+.+|.|-.
T Consensus 31 sg~~a~~e~~~lR~r~~~~Lk~~r~rl~ 58 (104)
T COG4575 31 SGSLAGDEAEELRSKAESALKEARDRLG 58 (104)
T ss_pred cccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788888888888888888887643
No 190
>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=22.42 E-value=8.1e+02 Score=24.73 Aligned_cols=24 Identities=13% Similarity=0.321 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 120 KLSDLEQDVDNCLRIIRERKLRAI 143 (221)
Q Consensus 120 EL~~LE~~Le~~L~~VR~rK~~~l 143 (221)
++..+...++..+..+.++|.+++
T Consensus 540 e~~~~~~~l~~~~~~l~~~~~~~~ 563 (771)
T TIGR01069 540 EQEKLKKELEQEMEELKERERNKK 563 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555555444
No 191
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=22.33 E-value=5.7e+02 Score=25.83 Aligned_cols=119 Identities=17% Similarity=0.180 Sum_probs=0.0
Q ss_pred eecCCCccccccccch---hhHHHHHHH---------------------HhhhcccccchhhhhhHHHHHHHHHHHHHHH
Q 040046 47 MCSSTGKVQEYVSSST---TTKQLLDEY---------------------QRRLKIDLWSSQYEKMQENLKNLKEVNINLK 102 (221)
Q Consensus 47 ifs~~gk~~~~~sps~---~~~~ii~RY---------------------~~~~~~~~~~~~~e~lq~el~kLk~en~~L~ 102 (221)
+|+++|-+|+-..|++ +..++-+|- +..+.+...++.. .|-+|+|+++++..|.
T Consensus 282 ~~~s~~s~~eiiin~ng~SsT~e~ser~s~~v~~el~~~~~~~e~~es~Rs~s~~n~~~~d~--~q~eLdK~~~~i~~Ln 359 (961)
T KOG4673|consen 282 IFESDGSPYEIIINKNGRSSTDEISERISDFVSRELDSRLDTSELNESQRSSSATNVSDSDD--VQLELDKTKKEIKMLN 359 (961)
T ss_pred hccCCCCcceeecCCCCCccccccccccchHHHHHhccchhhHHhhhccCCCCCccccCchh--HHHHHHHHHHHHHHHH
Q ss_pred HHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 103 KEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRERKL--------RAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 103 ~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~rK~--------~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
..+..+... |-.++..-+.-+|.++...+...+.+-+ .-..+.+.++.||+..+-.+...|+.++
T Consensus 360 ~~leaReaq-ll~~e~~ka~lee~~~n~~~e~~~~k~~~s~~ssl~~e~~QRva~lEkKvqa~~kERDalr~e~ 432 (961)
T KOG4673|consen 360 NALEAREAQ-LLADEIAKAMLEEEQLNSVTEDLKRKSNESEVSSLREEYHQRVATLEKKVQALTKERDALRREQ 432 (961)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHhhhHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
No 192
>COG3433 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=22.33 E-value=75 Score=22.22 Aligned_cols=30 Identities=40% Similarity=0.526 Sum_probs=23.0
Q ss_pred HHHHhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q 040046 103 KEIRQRLGESLNDLSLKKLSDLEQDVDNCLRIIRE 137 (221)
Q Consensus 103 ~~ir~~~Ge~L~~Ls~~EL~~LE~~Le~~L~~VR~ 137 (221)
..+-.+.|+ ++++|..=|+-+..+|..||-
T Consensus 5 ~~~~~Ll~e-----~~~~l~dqeNLi~~GLDSiR~ 34 (74)
T COG3433 5 EQIAELLGE-----SVEELDDQENLIDYGLDSIRM 34 (74)
T ss_pred HHHHHHHcC-----ChhhcCchhhHHHhchhHHHH
Confidence 333445566 788888889999999999984
No 193
>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=22.29 E-value=1.2e+02 Score=22.35 Aligned_cols=30 Identities=30% Similarity=0.351 Sum_probs=22.2
Q ss_pred Ccceeeeee-cCCCccccccccchhhHHHHHHHHhh
Q 040046 40 DAKVSIIMC-SSTGKVQEYVSSSTTTKQLLDEYQRR 74 (221)
Q Consensus 40 da~v~lIif-s~~gk~~~~~sps~~~~~ii~RY~~~ 74 (221)
.+++.+||| ++ +||.|+..++.+++.....
T Consensus 20 ~~~~~vvv~f~a-----~wC~~C~~~~~~l~~la~~ 50 (113)
T cd02975 20 KNPVDLVVFSSK-----EGCQYCEVTKQLLEELSEL 50 (113)
T ss_pred CCCeEEEEEeCC-----CCCCChHHHHHHHHHHHHh
Confidence 467777666 54 5899988888888887654
No 194
>PRK01470 tatA twin arginine translocase protein A; Provisional
Probab=22.23 E-value=24 Score=22.92 Aligned_cols=29 Identities=14% Similarity=0.377 Sum_probs=21.6
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHhhh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQRRL 75 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~~~ 75 (221)
|++|+|.| +|+.+.+. ++-+-+..|++..
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 68899999 79888766 3556677777654
No 195
>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=22.21 E-value=74 Score=21.27 Aligned_cols=30 Identities=13% Similarity=0.359 Sum_probs=21.8
Q ss_pred cCcceeeeeecCCCccccccccchhhHHHHHH
Q 040046 39 CDAKVSIIMCSSTGKVQEYVSSSTTTKQLLDE 70 (221)
Q Consensus 39 Cda~v~lIifs~~gk~~~~~sps~~~~~ii~R 70 (221)
|+..-.++|. |.|..|...+|. .+.+|++.
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 6666666665 678888888885 57888875
No 196
>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=22.18 E-value=2.8e+02 Score=22.23 Aligned_cols=41 Identities=15% Similarity=0.296 Sum_probs=18.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENR 162 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~ 162 (221)
++|++|+..+-..-...+ ..++.+++..+.++...|+...+
T Consensus 58 G~sL~eI~~ll~~~~~~~-------~~~L~~~~~~l~~ei~~L~~~~~ 98 (172)
T cd04790 58 GVSLEDIRSLLQQPGDDA-------TDVLRRRLAELNREIQRLRQQQR 98 (172)
T ss_pred CCCHHHHHHHHhcCChhH-------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 456666666543322222 23444444555555444444433
No 197
>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=22.16 E-value=3.5e+02 Score=20.34 Aligned_cols=51 Identities=16% Similarity=0.150 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
++|++|...+-...+..-..... -..++.+++..+..+...|+.....|..
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~~~-~~~~l~~~~~~l~~~i~~L~~~~~~l~~ 107 (127)
T cd01108 57 GFSLEEIRELLALWRDPSRASAD-VKALALEHIAELERKIAELQAMRRTLQQ 107 (127)
T ss_pred CCCHHHHHHHHHHHhCCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777754432221111111 1246667777777777666655444443
No 198
>PRK00404 tatB sec-independent translocase; Provisional
Probab=22.14 E-value=1.3e+02 Score=23.81 Aligned_cols=27 Identities=11% Similarity=0.256 Sum_probs=16.8
Q ss_pred eeeeeecCCCccccccccchhhHHHHHHHHh
Q 040046 43 VSIIMCSSTGKVQEYVSSSTTTKQLLDEYQR 73 (221)
Q Consensus 43 v~lIifs~~gk~~~~~sps~~~~~ii~RY~~ 73 (221)
|+||||+| .|+.+..- ++-..+.++++
T Consensus 15 VaLlV~GP-kkLP~laR---~lG~~i~~~rr 41 (141)
T PRK00404 15 VALLVLGP-ERLPGAAR---TAGLWIGRLKR 41 (141)
T ss_pred HHHHhcCc-hHHHHHHH---HHHHHHHHHHH
Confidence 68889998 77766544 24444555554
No 199
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=22.01 E-value=86 Score=27.12 Aligned_cols=25 Identities=12% Similarity=0.167 Sum_probs=13.0
Q ss_pred chhhhhhHHHHHHHHHHHHHHHHHH
Q 040046 81 SSQYEKMQENLKNLKEVNINLKKEI 105 (221)
Q Consensus 81 ~~~~e~lq~el~kLk~en~~L~~~i 105 (221)
..+++.++.++..|+-.++.+..++
T Consensus 60 ~~ql~~lq~ev~~LrG~~E~~~~~l 84 (263)
T PRK10803 60 QQQLSDNQSDIDSLRGQIQENQYQL 84 (263)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHH
Confidence 3445555555555555555444443
No 200
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=21.74 E-value=7.9e+02 Score=24.33 Aligned_cols=44 Identities=16% Similarity=0.195 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 122 SDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 122 ~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
.+.+.-|+..|.++..--...+.+++..|.++...++...+.+.
T Consensus 388 ~qa~ail~mrl~rlt~~e~~k~~~e~~~l~~~i~~~~~~L~~~~ 431 (635)
T PRK09631 388 EDIENLLKIPIRRISLFDIDKNQKEIRILNKELKSVEKNLKSIK 431 (635)
T ss_pred HHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566677777777777777788888888888777776655533
No 201
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=21.68 E-value=1.3e+02 Score=20.83 Aligned_cols=33 Identities=21% Similarity=0.388 Sum_probs=24.9
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHhhcCCCCC
Q 040046 82 SQYEKMQENLKNLKEVNINLKKEIRQRLGESLN 114 (221)
Q Consensus 82 ~~~e~lq~el~kLk~en~~L~~~ir~~~Ge~L~ 114 (221)
.++..++++|+.+.++.+....++-|+.|..++
T Consensus 12 ~~~~~i~~rLd~iEeKvEf~~~Ei~Qr~GkkiG 44 (70)
T PF04210_consen 12 DDFNEIMKRLDEIEEKVEFTNAEIAQRAGKKIG 44 (70)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHhHHhh
Confidence 456677788888888888888888887776543
No 202
>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=21.62 E-value=4.3e+02 Score=21.26 Aligned_cols=18 Identities=17% Similarity=0.169 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 040046 143 ISGQIVTHRKKVRREEEE 160 (221)
Q Consensus 143 l~~qi~~lkkK~~~l~e~ 160 (221)
-..+++.|+++..+++++
T Consensus 173 ~~~~~~~LkkQ~~~l~~e 190 (192)
T PF05529_consen 173 KEKEIEALKKQSEGLQKE 190 (192)
T ss_pred HHHHHHHHHHHHHHHHhh
Confidence 344556777777776655
No 203
>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=21.61 E-value=3.4e+02 Score=19.96 Aligned_cols=48 Identities=8% Similarity=0.153 Sum_probs=22.7
Q ss_pred CCCHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCL---RIIRERKLRAISGQIVTHRKKVRREEEENRK 163 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L---~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~ 163 (221)
++|++|+..+-...+..- .... ...+++.+++..+..+...|+.....
T Consensus 56 G~sl~eI~~~l~~~~~~~~~~~~~~-~~~~~l~~~~~~l~~~i~~L~~~~~~ 106 (112)
T cd01282 56 GLTLEEIREFLPCLRGGEPTFRPCP-DLLAVLRRELARIDRQIADLTRSRDR 106 (112)
T ss_pred CCCHHHHHHHHHHhhCCCccCCccH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666666544433221 1111 11245555556666665555544333
No 204
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=21.58 E-value=51 Score=27.99 Aligned_cols=16 Identities=13% Similarity=0.233 Sum_probs=13.6
Q ss_pred cceeeeeecCCCcccc
Q 040046 41 AKVSIIMCSSTGKVQE 56 (221)
Q Consensus 41 a~v~lIifs~~gk~~~ 56 (221)
-|-||-||||+|.++.
T Consensus 4 ydraltvFSPDGhL~Q 19 (249)
T KOG0183|consen 4 YDRALTVFSPDGHLFQ 19 (249)
T ss_pred cccceEEECCCCCEEe
Confidence 3668899999999985
No 205
>COG4303 EutB Ethanolamine ammonia-lyase, large subunit [Amino acid transport and metabolism]
Probab=21.58 E-value=46 Score=30.12 Aligned_cols=14 Identities=64% Similarity=1.189 Sum_probs=11.3
Q ss_pred CcccccccCCCCCC
Q 040046 199 PGIFALRLQPNEPL 212 (221)
Q Consensus 199 ~~~~~frlqp~qpn 212 (221)
+.-|+-|||||||-
T Consensus 154 ~gt~s~RLQPNhpt 167 (453)
T COG4303 154 PGTFSARLQPNHPT 167 (453)
T ss_pred CceeeeecCCCCCC
Confidence 34688999999994
No 206
>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=21.57 E-value=3.6e+02 Score=20.35 Aligned_cols=51 Identities=16% Similarity=0.155 Sum_probs=26.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
++|++|+..+-..-+..-... ..-.+++.+++..+..+...|+.....|..
T Consensus 57 G~sL~eI~~~l~~~~~~~~~~-~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (127)
T TIGR02047 57 DMSLAEIRQLLRYQDKPEKSC-SDVNALLDEHISHVRARIIKLQALIEQLVD 107 (127)
T ss_pred CCCHHHHHHHHHhhhCCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777766543222111111 112346677777777777777666555543
No 207
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=21.36 E-value=3.3e+02 Score=21.59 Aligned_cols=51 Identities=6% Similarity=-0.031 Sum_probs=24.0
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLR 165 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~ 165 (221)
++|++|+..+-......-...-..-..++.+++..+.++...|+..-..|.
T Consensus 67 G~sL~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~ 117 (154)
T PRK15002 67 GIPLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELD 117 (154)
T ss_pred CCCHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 477777777655432211100111233455555566666665555444443
No 208
>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=21.17 E-value=4.5e+02 Score=21.25 Aligned_cols=56 Identities=18% Similarity=0.206 Sum_probs=36.4
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 113 LNDLSLKKLSDLEQDVDNCLRIIRE--RKLRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 113 L~~Ls~~EL~~LE~~Le~~L~~VR~--rK~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
...|++++...+-+.+......... .-.+.+..++..|+.+...|+.++..|..+.
T Consensus 77 ~~~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~ 134 (161)
T TIGR02894 77 AGSLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRL 134 (161)
T ss_pred cccCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3679999998888888765333322 1123455666677777777777777766655
No 209
>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=21.01 E-value=2.7e+02 Score=19.78 Aligned_cols=29 Identities=24% Similarity=0.318 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 140 LRAISGQIVTHRKKVRREEEENRKLRNGF 168 (221)
Q Consensus 140 ~~~l~~qi~~lkkK~~~l~e~n~~L~~~~ 168 (221)
...+..+++.+++....++++|..|.-+.
T Consensus 37 ~~~~~~~l~~l~~~~~~l~~e~~~L~lE~ 65 (97)
T PF04999_consen 37 SRQLFYELQQLEKEIDQLQEENERLRLEI 65 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556678899999999999999998876
No 210
>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=20.84 E-value=1.1e+02 Score=26.59 Aligned_cols=26 Identities=15% Similarity=0.405 Sum_probs=23.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHH
Q 040046 111 ESLNDLSLKKLSDLEQDVDNCLRIIR 136 (221)
Q Consensus 111 e~L~~Ls~~EL~~LE~~Le~~L~~VR 136 (221)
+.=-+||++|++.+|.+....|..+|
T Consensus 232 DeW~gltmedIR~~E~~t~~~l~~~~ 257 (258)
T cd08888 232 DKWHGLTMDDIRRMEDETKKELDEMR 257 (258)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHhh
Confidence 45678999999999999999999887
No 211
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=20.81 E-value=6.3e+02 Score=24.06 Aligned_cols=55 Identities=13% Similarity=0.181 Sum_probs=27.8
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Q 040046 113 LNDLSLKKLSDLEQDVDNCLRIIRERKLRAISGQI---VTHRKKVRREEEENRKLRNG 167 (221)
Q Consensus 113 L~~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi---~~lkkK~~~l~e~n~~L~~~ 167 (221)
+...+-+.|..|-.=|...|...+.+-.++-.++. ..|+..++.|.+.|..+..+
T Consensus 130 f~~~~~~~l~~ll~Pl~e~l~~f~~~v~~~~~~~~~~~~~L~~qi~~L~~~n~~i~~e 187 (475)
T PRK10361 130 VDEQNRQSLNSLLSPLREQLDGFRRQVQDSFGKEAQERHTLAHEIRNLQQLNAQMAQE 187 (475)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444555555555555555555544333 24555556665555555443
No 212
>PF00352 TBP: Transcription factor TFIID (or TATA-binding protein, TBP); InterPro: IPR000814 The TATA-box binding protein (TBP) is required for the initiation of transcription by RNA polymerases I, II and III, from promoters with or without a TATA box [, ]. TBP associates with a host of factors, including the general transcription factors TFIIA, -B, -D, -E, and -H, to form huge multi-subunit pre-initiation complexes on the core promoter. Through its association with different transcription factors, TBP can initiate transcription from different RNA polymerases. There are several related TBPs, including TBP-like (TBPL) proteins []. The C-terminal core of TBP (~180 residues) is highly conserved and contains two 77-amino acid repeats that produce a saddle-shaped structure that straddles the DNA; this region binds to the TATA box and interacts with transcription factors and regulatory proteins []. By contrast, the N-terminal region varies in both length and sequence.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0006367 transcription initiation from RNA polymerase II promoter; PDB: 1D3U_A 1PCZ_B 1AIS_A 1NGM_A 1TBP_A 1TBA_B 1YTB_A 1RM1_A 1YTF_A 1NH2_A ....
Probab=20.73 E-value=1.5e+02 Score=20.83 Aligned_cols=49 Identities=22% Similarity=0.401 Sum_probs=31.6
Q ss_pred ccccc-cccccccchhhhhhhcccCcceeeeeecCCCccccccccch-hhHHHHHHHH
Q 040046 17 RQVTF-SKRRNGLFKKAQELTVLCDAKVSIIMCSSTGKVQEYVSSST-TTKQLLDEYQ 72 (221)
Q Consensus 17 RqvTf-sKRr~GL~KKA~ELSvLCda~v~lIifs~~gk~~~~~sps~-~~~~ii~RY~ 72 (221)
+.+.| ..|.+||+=|-. +-.+.+.||++ ||..--+..|. .++..++++.
T Consensus 29 ~~~~YePe~fpgl~~r~~------~p~~t~~IF~s-Gki~itGaks~~~~~~a~~~i~ 79 (86)
T PF00352_consen 29 ENVEYEPERFPGLIYRLR------NPKATVLIFSS-GKIVITGAKSEEEAKKAIEKIL 79 (86)
T ss_dssp TTEEEETTTESSEEEEET------TTTEEEEEETT-SEEEEEEESSHHHHHHHHHHHH
T ss_pred cCcEEeeccCCeEEEeec------CCcEEEEEEcC-CEEEEEecCCHHHHHHHHHHHH
Confidence 66677 345778765533 45788999998 99887666432 4455555543
No 213
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=20.32 E-value=3.1e+02 Score=21.12 Aligned_cols=52 Identities=10% Similarity=0.096 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 040046 115 DLSLKKLSDLEQDVDNCLRIIRERKLRAISGQIVTHRKKVRREEEENRKLRN 166 (221)
Q Consensus 115 ~Ls~~EL~~LE~~Le~~L~~VR~rK~~~l~~qi~~lkkK~~~l~e~n~~L~~ 166 (221)
++|++|+..+-......-..--.....++.++++.+.++...|+.....|..
T Consensus 58 G~sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (140)
T PRK09514 58 GFTLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQR 109 (140)
T ss_pred CCCHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667776665432211000000112345666666777776666655444443
No 214
>PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial and chloroplast polymerases). Domain 4, is also known as the external 2 domain [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3S17_B 1I6H_B 4A3B_B 3K1F_B 4A3I_B 1TWA_B 3S14_B 3S15_B 2NVX_B 3M3Y_B ....
Probab=20.01 E-value=39 Score=22.73 Aligned_cols=31 Identities=26% Similarity=0.528 Sum_probs=22.4
Q ss_pred cccccccchhhhhhhcccC-cceeeeeecCCCcc
Q 040046 22 SKRRNGLFKKAQELTVLCD-AKVSIIMCSSTGKV 54 (221)
Q Consensus 22 sKRr~GL~KKA~ELSvLCd-a~v~lIifs~~gk~ 54 (221)
..||.|.+-+ |.||-+| .+=.+-|++..|++
T Consensus 23 ~~RR~g~i~~--~vsi~~~~~~~ei~I~tD~GR~ 54 (63)
T PF04566_consen 23 NLRRSGKISK--EVSIVYDIREKEIRINTDAGRL 54 (63)
T ss_dssp HHHHTTSS-T--TSEEEEETTTTEEEEE-SSCEE
T ss_pred HHhhccCCcc--eeEEEEeccCCEEEEEccCCcc
Confidence 4688887666 8888886 56778888888874
Done!