Query 027204
Match_columns 226
No_of_seqs 134 out of 344
Neff 5.7
Searched_HMMs 46136
Date Fri Mar 29 06:31:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027204.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027204hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07798 DUF1640: Protein of u 100.0 1.4E-54 3E-59 365.2 24.2 177 50-226 1-177 (177)
2 KOG3156 Uncharacterized membra 100.0 8.4E-52 1.8E-56 353.1 21.4 194 32-226 27-220 (220)
3 PF07798 DUF1640: Protein of u 98.0 0.0023 5E-08 53.9 19.7 29 134-162 96-124 (177)
4 PRK10884 SH3 domain-containing 97.0 0.024 5.2E-07 49.3 13.1 36 187-222 153-190 (206)
5 COG3937 Uncharacterized conser 95.1 0.28 6E-06 38.7 9.4 79 55-146 28-107 (108)
6 KOG3156 Uncharacterized membra 94.8 1.6 3.4E-05 38.4 14.1 107 111-222 98-212 (220)
7 TIGR01837 PHA_granule_1 poly(h 94.8 0.57 1.2E-05 37.2 10.6 89 54-142 25-116 (118)
8 PF11559 ADIP: Afadin- and alp 94.3 2.4 5.1E-05 34.5 16.8 120 66-202 29-148 (151)
9 PF08317 Spc7: Spc7 kinetochor 94.1 2.7 5.9E-05 38.6 15.0 26 119-144 206-231 (325)
10 PF00038 Filament: Intermediat 94.0 4.4 9.5E-05 36.4 17.8 22 127-148 235-256 (312)
11 PF10779 XhlA: Haemolysin XhlA 93.4 1.3 2.9E-05 31.9 9.3 35 184-219 31-65 (71)
12 PRK15178 Vi polysaccharide exp 93.4 1.6 3.6E-05 42.1 12.6 38 49-86 196-233 (434)
13 COG3524 KpsE Capsule polysacch 92.4 4 8.7E-05 38.0 13.0 33 48-80 132-164 (372)
14 PF00957 Synaptobrevin: Synapt 92.3 3.5 7.6E-05 30.5 13.2 25 130-154 4-28 (89)
15 cd04766 HTH_HspR Helix-Turn-He 92.3 0.51 1.1E-05 35.2 6.1 45 22-75 24-69 (91)
16 KOG0860 Synaptobrevin/VAMP-lik 92.2 5.1 0.00011 32.1 12.4 79 130-220 30-108 (116)
17 smart00787 Spc7 Spc7 kinetocho 91.8 11 0.00023 34.9 15.6 22 122-143 204-225 (312)
18 PRK10884 SH3 domain-containing 91.7 5 0.00011 34.9 12.4 22 199-220 171-192 (206)
19 PF05478 Prominin: Prominin; 91.5 19 0.00041 37.2 20.8 24 199-222 407-430 (806)
20 cd04776 HTH_GnyR Helix-Turn-He 90.6 4.2 9.2E-05 31.9 10.0 45 22-76 23-67 (118)
21 PF12128 DUF3584: Protein of u 90.5 20 0.00044 38.7 18.0 32 122-153 685-716 (1201)
22 PF05957 DUF883: Bacterial pro 90.2 6.3 0.00014 29.5 11.6 13 191-203 64-76 (94)
23 PF03962 Mnd1: Mnd1 family; I 89.8 7.4 0.00016 33.3 11.5 138 48-206 8-154 (188)
24 COG2433 Uncharacterized conser 89.7 8 0.00017 38.9 13.1 71 106-186 421-491 (652)
25 PF06705 SF-assemblin: SF-asse 89.0 15 0.00033 32.2 16.7 74 127-200 108-188 (247)
26 COG1579 Zn-ribbon protein, pos 88.6 17 0.00038 32.4 17.8 99 90-196 49-158 (239)
27 PLN03229 acetyl-coenzyme A car 88.6 16 0.00036 37.6 14.6 69 144-212 532-622 (762)
28 TIGR02054 MerD mercuric resist 88.4 1.9 4.2E-05 34.3 6.6 61 8-77 7-73 (120)
29 PF12128 DUF3584: Protein of u 88.3 41 0.0009 36.4 19.6 10 107-116 656-665 (1201)
30 PF12325 TMF_TATA_bd: TATA ele 88.3 9.6 0.00021 30.5 10.5 34 168-201 67-110 (120)
31 PRK13182 racA polar chromosome 87.9 5.6 0.00012 33.8 9.4 36 28-72 29-64 (175)
32 PF08581 Tup_N: Tup N-terminal 87.5 9.8 0.00021 28.3 10.2 64 124-199 13-76 (79)
33 KOG0977 Nuclear envelope prote 87.5 31 0.00067 34.4 15.5 28 122-149 169-196 (546)
34 PF02183 HALZ: Homeobox associ 87.3 2.3 5.1E-05 28.3 5.4 38 106-144 4-41 (45)
35 PF08317 Spc7: Spc7 kinetochor 86.7 23 0.00049 32.6 13.5 7 191-197 255-261 (325)
36 TIGR01010 BexC_CtrB_KpsE polys 86.6 24 0.00051 32.5 13.6 24 63-86 138-161 (362)
37 PF10805 DUF2730: Protein of u 86.6 12 0.00025 29.1 9.9 57 88-144 27-87 (106)
38 PF09731 Mitofilin: Mitochondr 86.5 29 0.00062 34.1 14.9 17 103-119 254-270 (582)
39 cd04786 HTH_MerR-like_sg7 Heli 86.4 6.6 0.00014 31.5 8.7 60 8-76 4-69 (131)
40 PRK11637 AmiB activator; Provi 86.2 13 0.00028 35.3 11.9 18 127-144 66-83 (428)
41 PF07439 DUF1515: Protein of u 86.1 15 0.00033 29.1 10.7 65 127-206 6-76 (112)
42 cd01109 HTH_YyaN Helix-Turn-He 85.1 7 0.00015 30.1 8.0 40 28-76 30-69 (113)
43 PLN03229 acetyl-coenzyme A car 84.4 30 0.00064 35.8 13.9 31 175-205 648-684 (762)
44 PF11166 DUF2951: Protein of u 84.4 17 0.00037 28.1 12.5 25 202-226 71-96 (98)
45 PF07889 DUF1664: Protein of u 84.4 20 0.00044 29.0 10.9 19 167-185 101-119 (126)
46 PRK11546 zraP zinc resistance 84.1 14 0.00031 30.5 9.7 31 121-151 88-118 (143)
47 cd04779 HTH_MerR-like_sg4 Heli 84.0 11 0.00023 30.6 8.9 40 27-75 28-67 (134)
48 PRK06569 F0F1 ATP synthase sub 83.8 24 0.00053 29.5 13.9 17 138-154 86-102 (155)
49 PRK11637 AmiB activator; Provi 83.5 25 0.00055 33.3 12.6 16 127-142 73-88 (428)
50 PRK10227 DNA-binding transcrip 83.3 7.4 0.00016 31.4 7.7 40 28-76 30-69 (135)
51 PF04420 CHD5: CHD5-like prote 83.2 7.2 0.00016 32.4 7.8 35 104-142 44-79 (161)
52 KOG4253 Tryptophan-rich basic 83.1 15 0.00032 31.1 9.4 46 172-222 73-118 (175)
53 PF00038 Filament: Intermediat 83.0 34 0.00074 30.6 15.7 42 103-144 191-238 (312)
54 PF10779 XhlA: Haemolysin XhlA 82.6 15 0.00033 26.3 9.2 36 174-218 32-68 (71)
55 TIGR03752 conj_TIGR03752 integ 82.4 10 0.00022 37.0 9.5 17 127-143 78-94 (472)
56 COG3206 GumC Uncharacterized p 82.2 47 0.001 31.7 17.4 36 124-159 308-343 (458)
57 cd01279 HTH_HspR-like Helix-Tu 82.1 6.6 0.00014 29.8 6.6 48 22-78 24-72 (98)
58 PF09753 Use1: Membrane fusion 82.1 35 0.00076 30.1 12.2 33 127-159 161-193 (251)
59 KOG0977 Nuclear envelope prote 82.1 41 0.00089 33.6 13.6 22 97-118 166-187 (546)
60 PRK13454 F0F1 ATP synthase sub 82.1 30 0.00064 29.2 13.8 35 179-213 119-153 (181)
61 PRK00409 recombination and DNA 81.8 63 0.0014 33.5 15.5 57 122-178 537-593 (782)
62 cd01106 HTH_TipAL-Mta Helix-Tu 81.5 9.7 0.00021 28.8 7.4 39 29-76 31-69 (103)
63 PF11657 Activator-TraM: Trans 81.1 30 0.00065 28.6 15.2 42 183-224 102-143 (144)
64 cd04787 HTH_HMRTR_unk Helix-Tu 80.7 10 0.00022 30.2 7.6 45 22-75 23-68 (133)
65 TIGR03185 DNA_S_dndD DNA sulfu 80.6 42 0.00092 33.6 13.5 37 41-81 143-179 (650)
66 cd01282 HTH_MerR-like_sg3 Heli 80.4 13 0.00028 28.8 7.9 47 22-77 23-69 (112)
67 cd04785 HTH_CadR-PbrR-like Hel 80.2 17 0.00037 28.6 8.6 40 28-76 30-69 (126)
68 PF03449 GreA_GreB_N: Transcri 80.2 17 0.00037 26.5 7.9 58 129-186 9-70 (74)
69 cd01107 HTH_BmrR Helix-Turn-He 79.8 11 0.00025 28.9 7.3 46 22-76 23-70 (108)
70 PF09969 DUF2203: Uncharacteri 79.7 22 0.00047 28.4 9.0 65 65-153 3-67 (120)
71 PRK13752 putative transcriptio 79.7 18 0.00039 29.5 8.8 39 28-75 37-75 (144)
72 COG0789 SoxR Predicted transcr 79.7 20 0.00043 27.5 8.7 44 26-78 27-71 (124)
73 PHA02562 46 endonuclease subun 79.5 61 0.0013 31.3 15.1 8 52-59 114-121 (562)
74 cd04775 HTH_Cfa-like Helix-Tur 79.3 8.6 0.00019 29.3 6.5 45 22-75 24-68 (102)
75 KOG0250 DNA repair protein RAD 79.3 50 0.0011 35.5 13.7 17 35-51 188-204 (1074)
76 TIGR01069 mutS2 MutS2 family p 79.2 75 0.0016 32.9 15.0 6 63-68 492-497 (771)
77 cd01111 HTH_MerD Helix-Turn-He 78.8 12 0.00027 28.8 7.3 46 22-76 23-69 (107)
78 PRK09841 cryptic autophosphory 78.6 82 0.0018 32.1 18.2 18 66-83 238-255 (726)
79 PF09738 DUF2051: Double stran 78.3 56 0.0012 30.1 13.2 69 78-146 83-164 (302)
80 cd01110 HTH_SoxR Helix-Turn-He 78.2 12 0.00025 30.3 7.2 46 22-76 24-69 (139)
81 PRK13749 transcriptional regul 78.1 12 0.00026 29.9 7.1 63 7-78 6-74 (121)
82 PF05701 WEMBL: Weak chloropla 78.1 73 0.0016 31.3 16.9 23 122-144 309-331 (522)
83 TIGR02047 CadR-PbrR Cd(II)/Pb( 77.9 19 0.00042 28.4 8.3 39 28-75 30-68 (127)
84 cd04770 HTH_HMRTR Helix-Turn-H 77.3 17 0.00037 28.2 7.8 40 28-76 30-69 (123)
85 PRK09174 F0F1 ATP synthase sub 76.7 49 0.0011 28.6 12.8 12 198-209 175-186 (204)
86 cd04789 HTH_Cfa Helix-Turn-Hel 75.9 12 0.00025 28.6 6.3 42 22-72 24-65 (102)
87 PF10267 Tmemb_cc2: Predicted 75.9 27 0.00059 33.4 10.0 17 29-45 119-135 (395)
88 TIGR02051 MerR Hg(II)-responsi 75.8 17 0.00036 28.7 7.4 40 28-76 29-68 (124)
89 KOG0995 Centromere-associated 75.8 92 0.002 31.3 14.6 24 122-145 301-324 (581)
90 cd04765 HTH_MlrA-like_sg2 Heli 75.4 8.4 0.00018 29.4 5.4 39 29-76 31-70 (99)
91 PRK09514 zntR zinc-responsive 75.1 15 0.00031 29.8 7.0 46 22-76 24-70 (140)
92 TIGR02044 CueR Cu(I)-responsiv 75.1 17 0.00036 28.7 7.2 47 21-76 22-69 (127)
93 PF10174 Cast: RIM-binding pro 74.9 80 0.0017 32.9 13.7 24 124-147 331-354 (775)
94 PF00430 ATP-synt_B: ATP synth 74.7 37 0.0008 26.2 9.8 35 127-161 45-79 (132)
95 TIGR02043 ZntR Zn(II)-responsi 74.4 17 0.00038 28.9 7.2 46 22-76 24-70 (131)
96 KOG0971 Microtubule-associated 74.4 1.2E+02 0.0027 32.4 14.7 42 122-164 472-513 (1243)
97 cd04782 HTH_BltR Helix-Turn-He 73.9 13 0.00029 28.0 6.1 37 30-75 32-68 (97)
98 cd04768 HTH_BmrR-like Helix-Tu 73.8 10 0.00022 28.6 5.4 38 30-76 32-69 (96)
99 PF08172 CASP_C: CASP C termin 73.8 51 0.0011 29.5 10.7 25 181-205 101-125 (248)
100 TIGR01005 eps_transp_fam exopo 73.8 1.1E+02 0.0023 31.1 18.6 29 132-160 319-347 (754)
101 cd01108 HTH_CueR Helix-Turn-He 73.7 35 0.00075 26.9 8.8 41 27-76 29-69 (127)
102 PF15254 CCDC14: Coiled-coil d 72.9 29 0.00062 36.1 9.8 45 124-168 389-433 (861)
103 COG1579 Zn-ribbon protein, pos 72.9 71 0.0015 28.6 15.5 93 106-199 37-136 (239)
104 PF09726 Macoilin: Transmembra 72.6 51 0.0011 33.8 11.6 28 121-148 459-486 (697)
105 cd04784 HTH_CadR-PbrR Helix-Tu 72.6 27 0.0006 27.3 7.9 40 28-76 30-69 (127)
106 TIGR03017 EpsF chain length de 72.2 87 0.0019 29.4 16.6 20 64-83 140-159 (444)
107 KOG0999 Microtubule-associated 72.1 1.2E+02 0.0025 30.8 13.6 79 127-206 112-206 (772)
108 cd04790 HTH_Cfa-like_unk Helix 72.0 51 0.0011 27.5 9.8 45 22-75 24-69 (172)
109 PF14723 SSFA2_C: Sperm-specif 71.8 20 0.00044 30.6 7.2 43 112-154 135-177 (179)
110 cd04783 HTH_MerR1 Helix-Turn-H 71.6 31 0.00066 27.1 8.0 41 27-76 29-69 (126)
111 PRK05759 F0F1 ATP synthase sub 71.6 51 0.0011 26.5 13.3 7 146-152 95-101 (156)
112 TIGR03017 EpsF chain length de 71.3 91 0.002 29.2 13.8 28 133-160 286-313 (444)
113 cd01104 HTH_MlrA-CarA Helix-Tu 70.8 6.3 0.00014 27.0 3.5 43 23-74 25-67 (68)
114 cd01105 HTH_GlnR-like Helix-Tu 70.8 6.4 0.00014 29.2 3.7 47 21-76 23-70 (88)
115 TIGR03545 conserved hypothetic 70.7 1.2E+02 0.0026 30.3 14.0 40 134-174 217-256 (555)
116 COG4550 Predicted membrane pro 70.6 54 0.0012 26.3 9.5 73 144-217 39-113 (120)
117 cd04769 HTH_MerR2 Helix-Turn-H 70.5 36 0.00078 26.3 8.0 37 31-76 32-68 (116)
118 KOG0971 Microtubule-associated 70.5 1.6E+02 0.0034 31.7 18.1 77 121-200 409-503 (1243)
119 cd04773 HTH_TioE_rpt2 Second H 70.3 18 0.00039 27.8 6.2 47 22-77 23-70 (108)
120 KOG3385 V-SNARE [Intracellular 70.3 51 0.0011 26.5 8.8 71 136-207 32-102 (118)
121 cd04777 HTH_MerR-like_sg1 Heli 70.0 18 0.0004 27.5 6.2 44 22-75 23-66 (107)
122 PF05597 Phasin: Poly(hydroxya 69.8 53 0.0012 26.7 9.1 21 121-141 108-128 (132)
123 PF09726 Macoilin: Transmembra 69.8 79 0.0017 32.5 12.3 14 185-198 641-654 (697)
124 PF10168 Nup88: Nuclear pore c 69.7 96 0.0021 32.0 12.9 31 172-202 684-714 (717)
125 COG5185 HEC1 Protein involved 69.5 1.2E+02 0.0027 30.1 13.3 14 104-117 491-504 (622)
126 PF09730 BicD: Microtubule-ass 69.3 1.3E+02 0.0028 31.2 13.6 14 160-173 74-87 (717)
127 COG1561 Uncharacterized stress 68.8 53 0.0012 30.2 9.8 16 188-203 271-286 (290)
128 PF05377 FlaC_arch: Flagella a 68.8 19 0.00042 25.1 5.4 25 123-147 15-39 (55)
129 PRK11415 hypothetical protein; 68.7 16 0.00036 26.6 5.4 35 105-144 5-39 (74)
130 KOG0250 DNA repair protein RAD 68.7 1.8E+02 0.0038 31.5 16.3 9 189-197 445-453 (1074)
131 cd04788 HTH_NolA-AlbR Helix-Tu 68.4 11 0.00023 28.4 4.5 38 29-75 31-68 (96)
132 PF07888 CALCOCO1: Calcium bin 67.7 1.4E+02 0.003 29.9 17.6 59 124-183 366-424 (546)
133 PF10498 IFT57: Intra-flagella 67.5 1.1E+02 0.0024 28.8 13.6 10 20-29 115-124 (359)
134 PF08776 VASP_tetra: VASP tetr 67.2 25 0.00054 23.0 5.3 8 109-116 5-12 (40)
135 smart00422 HTH_MERR helix_turn 66.7 7 0.00015 26.8 3.0 39 29-76 31-69 (70)
136 PF05615 THOC7: Tho complex su 66.6 57 0.0012 26.0 8.7 27 177-203 78-104 (139)
137 cd04774 HTH_YfmP Helix-Turn-He 66.4 11 0.00024 28.5 4.2 50 22-80 23-73 (96)
138 PRK15002 redox-sensitivie tran 66.4 29 0.00063 28.7 7.1 46 22-76 34-79 (154)
139 cd04763 HTH_MlrA-like Helix-Tu 65.8 8 0.00017 26.9 3.1 43 23-74 25-67 (68)
140 COG2433 Uncharacterized conser 65.6 1.6E+02 0.0034 30.1 13.0 26 123-148 444-469 (652)
141 PF10186 Atg14: UV radiation r 65.6 93 0.002 27.1 17.5 28 124-151 79-106 (302)
142 PF04582 Reo_sigmaC: Reovirus 65.4 8 0.00017 36.1 3.9 19 63-81 2-20 (326)
143 PF04799 Fzo_mitofusin: fzo-li 65.2 43 0.00092 28.6 7.9 25 131-155 111-135 (171)
144 PF09677 TrbI_Ftype: Type-F co 65.2 23 0.0005 27.9 5.9 42 47-88 32-77 (111)
145 KOG0933 Structural maintenance 65.2 2.1E+02 0.0045 31.0 17.8 56 119-174 731-796 (1174)
146 TIGR03752 conj_TIGR03752 integ 65.0 43 0.00092 32.9 8.8 58 124-185 82-139 (472)
147 PRK14074 rpsF 30S ribosomal pr 64.9 89 0.0019 28.2 10.1 42 62-103 11-63 (257)
148 cd00187 TOP4c DNA Topoisomeras 64.5 33 0.00072 33.2 8.1 28 118-145 401-428 (445)
149 cd04781 HTH_MerR-like_sg6 Heli 64.5 34 0.00073 26.7 6.8 45 22-75 23-67 (120)
150 KOG0993 Rab5 GTPase effector R 64.4 1.4E+02 0.003 29.2 11.9 69 30-117 269-337 (542)
151 PF03477 ATP-cone: ATP cone do 64.1 14 0.00029 27.0 4.3 55 44-102 6-65 (90)
152 PRK11519 tyrosine kinase; Prov 63.4 1.8E+02 0.0039 29.7 18.3 19 66-84 238-256 (719)
153 COG3883 Uncharacterized protei 63.3 1.2E+02 0.0025 27.7 10.8 27 168-194 79-105 (265)
154 PHA01750 hypothetical protein 63.3 49 0.0011 24.1 6.7 17 170-186 43-59 (75)
155 PF02183 HALZ: Homeobox associ 63.3 17 0.00036 24.2 4.1 20 123-142 6-25 (45)
156 PRK14472 F0F1 ATP synthase sub 63.1 87 0.0019 25.9 12.5 39 134-172 97-135 (175)
157 PF15188 CCDC-167: Coiled-coil 63.0 64 0.0014 24.4 8.2 50 124-175 7-56 (85)
158 KOG1962 B-cell receptor-associ 63.0 63 0.0014 28.5 8.8 14 160-173 191-204 (216)
159 PRK01885 greB transcription el 62.6 30 0.00065 28.7 6.5 57 130-186 11-71 (157)
160 PF13411 MerR_1: MerR HTH fami 62.3 7.9 0.00017 26.6 2.6 41 26-75 26-67 (69)
161 TIGR01843 type_I_hlyD type I s 62.3 1.3E+02 0.0027 27.6 13.6 22 123-144 197-218 (423)
162 cd04772 HTH_TioE_rpt1 First He 62.3 49 0.0011 25.0 7.2 37 28-74 30-66 (99)
163 PRK09174 F0F1 ATP synthase sub 62.1 1E+02 0.0023 26.5 13.4 26 138-163 136-161 (204)
164 TIGR01061 parC_Gpos DNA topois 61.9 47 0.001 34.2 9.0 25 121-145 426-450 (738)
165 PF04420 CHD5: CHD5-like prote 61.8 40 0.00087 27.9 7.1 23 168-190 72-94 (161)
166 PF14257 DUF4349: Domain of un 61.6 37 0.0008 29.9 7.3 27 121-147 161-187 (262)
167 COG0598 CorA Mg2+ and Co2+ tra 61.4 1.3E+02 0.0028 27.4 17.1 22 201-222 259-282 (322)
168 CHL00019 atpF ATP synthase CF0 61.0 98 0.0021 25.9 12.5 38 135-172 104-141 (184)
169 PF07926 TPR_MLP1_2: TPR/MLP1/ 60.8 84 0.0018 25.0 12.3 59 123-182 60-118 (132)
170 smart00806 AIP3 Actin interact 60.7 1.3E+02 0.0029 29.2 11.2 77 127-206 167-243 (426)
171 PF04380 BMFP: Membrane fusoge 60.3 59 0.0013 23.9 7.0 24 121-144 49-72 (79)
172 KOG1029 Endocytic adaptor prot 59.5 2.4E+02 0.0052 29.9 14.7 30 120-149 470-499 (1118)
173 PF05266 DUF724: Protein of un 59.1 1.2E+02 0.0025 26.1 12.3 16 55-70 76-91 (190)
174 PF10146 zf-C4H2: Zinc finger- 58.9 1.3E+02 0.0028 26.6 11.5 20 183-202 84-103 (230)
175 TIGR03185 DNA_S_dndD DNA sulfu 58.9 2E+02 0.0044 28.8 13.9 22 184-205 266-287 (650)
176 PF10805 DUF2730: Protein of u 58.2 84 0.0018 24.2 8.6 60 122-189 35-99 (106)
177 PRK14471 F0F1 ATP synthase sub 58.2 1E+02 0.0022 25.2 13.3 19 146-164 99-117 (164)
178 PF07106 TBPIP: Tat binding pr 58.0 53 0.0012 27.0 7.3 26 50-76 16-41 (169)
179 PRK14475 F0F1 ATP synthase sub 57.7 1.1E+02 0.0023 25.3 13.2 39 134-172 89-127 (167)
180 PF04111 APG6: Autophagy prote 57.1 1.6E+02 0.0035 27.1 11.9 10 169-178 113-122 (314)
181 PRK09631 DNA topoisomerase IV 57.0 67 0.0015 32.7 9.0 13 64-76 384-396 (635)
182 TIGR01063 gyrA DNA gyrase, A s 56.8 69 0.0015 33.3 9.3 28 119-146 424-451 (800)
183 PRK00888 ftsB cell division pr 56.4 38 0.00083 26.2 5.7 20 124-143 43-62 (105)
184 PF14362 DUF4407: Domain of un 56.3 1.5E+02 0.0033 26.5 20.4 30 122-151 142-171 (301)
185 PRK04220 2-phosphoglycerate ki 56.1 26 0.00055 32.3 5.4 58 43-104 9-66 (301)
186 PF09278 MerR-DNA-bind: MerR, 56.0 55 0.0012 22.2 6.0 24 52-75 2-25 (65)
187 PF04380 BMFP: Membrane fusoge 56.0 79 0.0017 23.2 7.9 11 90-100 44-54 (79)
188 PRK04778 septation ring format 55.8 2.2E+02 0.0047 28.2 18.2 28 179-206 396-423 (569)
189 TIGR01950 SoxR redox-sensitive 55.6 53 0.0012 26.7 6.7 45 23-76 25-69 (142)
190 PF12718 Tropomyosin_1: Tropom 55.2 1.1E+02 0.0025 24.8 13.2 34 121-154 34-67 (143)
191 TIGR03545 conserved hypothetic 55.0 1.8E+02 0.0039 29.1 11.5 16 145-160 217-232 (555)
192 PHA02562 46 endonuclease subun 55.0 2E+02 0.0044 27.7 14.3 38 106-144 336-373 (562)
193 TIGR01000 bacteriocin_acc bact 54.6 2E+02 0.0043 27.4 13.8 17 186-202 297-313 (457)
194 cd04764 HTH_MlrA-like_sg1 Heli 54.5 19 0.00041 24.8 3.4 37 29-74 30-66 (67)
195 TIGR03007 pepcterm_ChnLen poly 54.2 2E+02 0.0044 27.4 15.4 20 64-83 130-149 (498)
196 PRK05759 F0F1 ATP synthase sub 54.1 1.1E+02 0.0024 24.4 12.5 10 179-188 103-112 (156)
197 PF08826 DMPK_coil: DMPK coile 53.4 79 0.0017 22.4 8.6 51 134-200 6-59 (61)
198 PRK09039 hypothetical protein; 53.3 1.9E+02 0.0042 26.9 17.1 41 160-200 142-185 (343)
199 PF04880 NUDE_C: NUDE protein, 53.2 12 0.00026 31.6 2.6 23 134-157 19-41 (166)
200 PRK06569 F0F1 ATP synthase sub 53.2 1.3E+02 0.0029 25.1 13.3 19 184-202 107-125 (155)
201 PF10168 Nup88: Nuclear pore c 53.1 2.8E+02 0.006 28.7 14.3 29 159-187 636-664 (717)
202 PF04728 LPP: Lipoprotein leuc 52.9 77 0.0017 22.2 6.2 15 188-202 25-39 (56)
203 PRK13460 F0F1 ATP synthase sub 52.5 1.3E+02 0.0029 24.8 13.3 33 136-168 97-129 (173)
204 PF07889 DUF1664: Protein of u 52.5 1.2E+02 0.0027 24.4 9.1 10 92-101 35-44 (126)
205 TIGR01062 parC_Gneg DNA topois 51.4 59 0.0013 33.6 7.6 31 116-146 418-448 (735)
206 PRK07352 F0F1 ATP synthase sub 51.1 1.4E+02 0.003 24.6 13.1 27 142-168 106-132 (174)
207 PF07139 DUF1387: Protein of u 51.0 2.1E+02 0.0045 26.6 13.3 27 91-117 173-199 (302)
208 PRK00226 greA transcription el 50.6 65 0.0014 26.3 6.5 56 131-186 12-71 (157)
209 PF04799 Fzo_mitofusin: fzo-li 50.4 98 0.0021 26.4 7.6 66 133-203 102-167 (171)
210 PF08340 DUF1732: Domain of un 50.3 84 0.0018 23.9 6.5 27 91-117 6-32 (87)
211 cd00592 HTH_MerR-like Helix-Tu 49.7 63 0.0014 23.9 5.9 29 49-77 41-69 (100)
212 PF02038 ATP1G1_PLM_MAT8: ATP1 49.4 37 0.0008 23.3 4.0 24 201-225 11-34 (50)
213 TIGR00450 mnmE_trmE_thdF tRNA 49.3 1.1E+02 0.0023 29.5 8.7 28 134-163 143-170 (442)
214 TIGR01843 type_I_hlyD type I s 49.1 2.1E+02 0.0046 26.1 16.4 14 46-59 69-82 (423)
215 KOG3433 Protein involved in me 49.1 1.8E+02 0.0039 25.3 9.6 19 176-194 140-158 (203)
216 PRK05892 nucleoside diphosphat 49.0 98 0.0021 25.7 7.4 53 131-186 13-71 (158)
217 PRK03598 putative efflux pump 48.1 2.1E+02 0.0045 25.8 10.4 17 45-61 68-84 (331)
218 KOG1899 LAR transmembrane tyro 48.0 3.4E+02 0.0073 28.1 13.2 42 81-122 155-196 (861)
219 PF11559 ADIP: Afadin- and alp 48.0 1.4E+02 0.0031 23.9 17.6 12 106-117 72-83 (151)
220 PF03245 Phage_lysis: Bacterio 47.8 1.4E+02 0.0031 23.7 8.5 33 171-203 26-58 (125)
221 KOG4673 Transcription factor T 47.8 3.5E+02 0.0077 28.3 14.3 82 103-185 470-553 (961)
222 smart00502 BBC B-Box C-termina 47.2 1.2E+02 0.0025 22.6 13.4 30 128-157 45-74 (127)
223 PRK05561 DNA topoisomerase IV 47.2 89 0.0019 32.3 8.2 28 117-144 432-459 (742)
224 PF08657 DASH_Spc34: DASH comp 46.5 1.2E+02 0.0025 27.5 8.0 33 122-154 180-212 (259)
225 PRK13428 F0F1 ATP synthase sub 46.4 2.8E+02 0.0061 26.8 12.5 71 95-172 48-118 (445)
226 KOG2129 Uncharacterized conser 46.4 2.7E+02 0.0058 27.4 10.6 81 123-214 254-337 (552)
227 PF10458 Val_tRNA-synt_C: Valy 46.2 94 0.002 21.8 6.0 35 122-156 4-40 (66)
228 PF04977 DivIC: Septum formati 46.1 83 0.0018 22.0 5.8 18 124-141 33-50 (80)
229 PF15397 DUF4618: Domain of un 45.9 2.3E+02 0.005 25.7 16.2 25 179-203 199-223 (258)
230 PF00430 ATP-synt_B: ATP synth 45.7 1.4E+02 0.0029 22.9 10.9 29 129-157 40-68 (132)
231 KOG0964 Structural maintenance 45.6 4.3E+02 0.0094 28.7 19.3 25 128-152 410-434 (1200)
232 PF07352 Phage_Mu_Gam: Bacteri 45.6 1.6E+02 0.0035 23.8 8.2 25 130-154 11-35 (149)
233 PHA03332 membrane glycoprotein 45.5 3.5E+02 0.0076 29.6 12.1 84 105-189 889-979 (1328)
234 cd04778 HTH_MerR-like_sg2 Heli 45.3 29 0.00064 30.3 3.9 49 22-79 24-72 (219)
235 COG4985 ABC-type phosphate tra 45.3 1.2E+02 0.0026 27.4 7.7 36 152-198 211-246 (289)
236 COG0711 AtpF F0F1-type ATP syn 45.2 1.7E+02 0.0038 24.0 12.9 39 134-172 85-123 (161)
237 PF07334 IFP_35_N: Interferon- 44.9 38 0.00081 25.2 3.8 23 125-147 3-25 (76)
238 PRK04654 sec-independent trans 44.8 1.1E+02 0.0023 27.1 7.2 46 106-153 40-85 (214)
239 KOG0612 Rho-associated, coiled 44.6 4.8E+02 0.01 28.9 14.4 6 21-26 397-402 (1317)
240 KOG0243 Kinesin-like protein [ 44.2 3.7E+02 0.0081 29.1 12.2 9 134-142 453-461 (1041)
241 KOG4674 Uncharacterized conser 44.2 5.6E+02 0.012 29.6 18.9 76 128-203 804-888 (1822)
242 PF07888 CALCOCO1: Calcium bin 43.9 3.5E+02 0.0076 27.2 15.2 76 109-186 373-455 (546)
243 PF10925 DUF2680: Protein of u 43.8 48 0.001 23.2 4.1 28 55-82 22-50 (59)
244 PRK13460 F0F1 ATP synthase sub 43.8 1.9E+02 0.004 23.9 12.5 7 191-197 131-137 (173)
245 PF11026 DUF2721: Protein of u 43.6 1.2E+02 0.0026 24.1 6.9 10 186-195 49-58 (130)
246 TIGR02209 ftsL_broad cell divi 42.9 1.1E+02 0.0023 22.0 6.0 20 124-143 40-59 (85)
247 KOG4572 Predicted DNA-binding 42.7 2.9E+02 0.0063 29.6 10.8 80 121-200 1008-1105(1424)
248 TIGR01461 greB transcription e 42.7 88 0.0019 25.9 6.2 54 131-186 10-69 (156)
249 TIGR01069 mutS2 MutS2 family p 42.4 3.4E+02 0.0074 28.2 11.6 29 124-152 534-562 (771)
250 cd07665 BAR_SNX1 The Bin/Amphi 42.0 2.5E+02 0.0054 24.9 11.7 15 68-82 98-112 (234)
251 PF09753 Use1: Membrane fusion 41.9 2.4E+02 0.0052 24.7 11.8 19 139-157 162-180 (251)
252 KOG0579 Ste20-like serine/thre 41.9 4.5E+02 0.0097 27.8 13.2 34 97-130 842-875 (1187)
253 KOG4348 Adaptor protein CMS/SE 41.8 74 0.0016 31.3 6.2 12 136-147 594-605 (627)
254 TIGR01834 PHA_synth_III_E poly 41.8 3E+02 0.0065 25.8 10.4 24 121-144 288-311 (320)
255 TIGR02338 gimC_beta prefoldin, 41.6 1.6E+02 0.0035 22.6 9.5 32 154-185 66-97 (110)
256 PRK06342 transcription elongat 41.4 91 0.002 26.0 6.1 20 167-186 62-81 (160)
257 PRK00409 recombination and DNA 41.1 3.5E+02 0.0076 28.1 11.4 7 62-68 496-502 (782)
258 KOG3192 Mitochondrial J-type c 41.0 69 0.0015 27.1 5.2 25 179-203 122-146 (168)
259 PF08614 ATG16: Autophagy prot 40.8 1.9E+02 0.0041 24.4 8.1 38 109-147 104-141 (194)
260 PF03961 DUF342: Protein of un 40.7 2.2E+02 0.0049 27.2 9.5 14 131-144 343-356 (451)
261 TIGR00255 conserved hypothetic 40.4 2.9E+02 0.0063 25.2 14.3 12 191-202 275-286 (291)
262 PRK13729 conjugal transfer pil 40.3 1.5E+02 0.0033 29.2 8.2 12 186-197 110-121 (475)
263 PF10475 DUF2450: Protein of u 40.3 2.7E+02 0.006 24.9 9.9 32 124-155 30-61 (291)
264 PF02344 Myc-LZ: Myc leucine z 40.0 49 0.0011 20.6 3.1 21 123-143 9-29 (32)
265 PRK10361 DNA recombination pro 40.0 3.8E+02 0.0082 26.4 18.0 34 167-200 145-178 (475)
266 KOG0963 Transcription factor/C 39.8 4.3E+02 0.0093 27.0 14.0 24 129-152 292-315 (629)
267 TIGR01144 ATP_synt_b ATP synth 39.7 1.9E+02 0.0041 22.9 13.3 10 148-157 88-97 (147)
268 PRK13455 F0F1 ATP synthase sub 39.6 2.2E+02 0.0048 23.7 12.5 31 138-168 110-140 (184)
269 PF07989 Microtub_assoc: Micro 39.6 1.5E+02 0.0032 21.7 6.5 36 109-144 23-58 (75)
270 KOG0996 Structural maintenance 39.4 5.7E+02 0.012 28.3 17.0 39 106-145 492-530 (1293)
271 PF06156 DUF972: Protein of un 39.3 1.9E+02 0.004 22.6 7.7 38 105-150 20-57 (107)
272 PHA01750 hypothetical protein 39.2 1.1E+02 0.0024 22.3 5.3 20 122-141 42-61 (75)
273 cd04780 HTH_MerR-like_sg5 Heli 38.9 51 0.0011 24.8 3.9 39 29-76 31-70 (95)
274 PF07407 Seadorna_VP6: Seadorn 38.7 1.4E+02 0.003 28.4 7.2 16 126-141 43-58 (420)
275 cd04752 Commd4 COMM_Domain con 38.6 67 0.0015 26.9 4.9 35 51-85 22-56 (174)
276 COG5509 Uncharacterized small 38.5 57 0.0012 23.3 3.7 25 184-208 29-53 (65)
277 TIGR00987 himA integration hos 38.3 71 0.0015 23.8 4.6 36 51-86 2-38 (96)
278 TIGR03755 conj_TIGR03755 integ 38.2 3.9E+02 0.0084 26.0 11.0 79 109-197 285-374 (418)
279 PF05103 DivIVA: DivIVA protei 38.0 29 0.00063 26.9 2.5 18 64-81 17-34 (131)
280 PF13166 AAA_13: AAA domain 37.9 4.3E+02 0.0092 26.4 16.3 26 127-152 327-352 (712)
281 PRK14474 F0F1 ATP synthase sub 37.9 2.9E+02 0.0063 24.5 13.2 32 138-169 88-119 (250)
282 PF00627 UBA: UBA/TS-N domain; 37.8 35 0.00076 21.0 2.4 21 55-75 4-24 (37)
283 PRK08475 F0F1 ATP synthase sub 37.6 2.4E+02 0.0051 23.4 12.5 95 77-174 47-141 (167)
284 PRK13895 conjugal transfer pro 37.6 2.4E+02 0.0052 23.4 14.9 49 176-224 91-143 (144)
285 PF05791 Bacillus_HBL: Bacillu 37.5 2.5E+02 0.0054 23.6 10.7 12 188-199 164-175 (184)
286 PRK05291 trmE tRNA modificatio 37.5 2E+02 0.0043 27.6 8.6 20 48-67 78-104 (449)
287 PF12252 SidE: Dot/Icm substra 37.5 3.2E+02 0.0069 30.0 10.3 17 68-84 1011-1027(1439)
288 PF03915 AIP3: Actin interacti 37.2 99 0.0021 29.9 6.4 40 168-207 201-240 (424)
289 PF06810 Phage_GP20: Phage min 37.2 2.4E+02 0.0052 23.3 9.4 54 106-159 33-88 (155)
290 PHA03332 membrane glycoprotein 37.1 3.7E+02 0.0081 29.4 10.8 78 122-199 891-978 (1328)
291 COG5547 Small integral membran 37.1 55 0.0012 23.2 3.4 29 196-224 4-32 (62)
292 PRK15043 transcriptional regul 37.0 62 0.0013 29.0 4.7 45 22-75 27-71 (243)
293 PF04977 DivIC: Septum formati 36.7 69 0.0015 22.4 4.1 18 124-141 26-43 (80)
294 PF14389 Lzipper-MIP1: Leucine 36.6 1.8E+02 0.0039 21.7 6.9 21 132-152 11-31 (88)
295 PRK13461 F0F1 ATP synthase sub 36.5 2.3E+02 0.005 22.9 13.3 18 144-161 94-111 (159)
296 PF05461 ApoL: Apolipoprotein 36.0 3.6E+02 0.0077 25.0 11.4 27 55-81 16-42 (313)
297 PRK13729 conjugal transfer pil 36.0 1.3E+02 0.0028 29.7 7.0 41 104-145 80-120 (475)
298 PF05529 Bap31: B-cell recepto 35.8 2E+02 0.0043 24.0 7.4 11 188-198 176-186 (192)
299 COG3883 Uncharacterized protei 35.5 3.5E+02 0.0075 24.7 10.6 33 121-153 72-104 (265)
300 PF02403 Seryl_tRNA_N: Seryl-t 35.3 1.9E+02 0.0042 21.7 11.1 8 134-141 41-48 (108)
301 PRK14471 F0F1 ATP synthase sub 35.2 2.5E+02 0.0053 22.9 12.2 17 191-207 123-139 (164)
302 PF09787 Golgin_A5: Golgin sub 35.1 4.4E+02 0.0096 25.8 14.4 30 124-153 276-308 (511)
303 COG5185 HEC1 Protein involved 34.9 4.8E+02 0.01 26.1 13.3 18 128-145 343-360 (622)
304 PRK13979 DNA topoisomerase IV 34.9 1.2E+02 0.0026 32.4 7.1 29 117-145 441-469 (957)
305 TIGR01000 bacteriocin_acc bact 34.7 4.1E+02 0.0089 25.3 13.2 10 49-58 88-97 (457)
306 PF01025 GrpE: GrpE; InterPro 34.7 2E+02 0.0043 23.2 7.1 32 124-155 27-58 (165)
307 PRK01919 tatB sec-independent 34.6 2E+02 0.0043 24.5 7.1 51 104-156 38-88 (169)
308 TIGR01462 greA transcription e 34.6 1.5E+02 0.0033 24.0 6.4 57 130-186 6-66 (151)
309 PF03148 Tektin: Tektin family 34.5 4E+02 0.0086 25.1 12.5 94 86-193 203-296 (384)
310 PF15397 DUF4618: Domain of un 34.5 3.5E+02 0.0077 24.5 17.3 45 101-145 57-104 (258)
311 PRK04863 mukB cell division pr 34.4 7.3E+02 0.016 28.1 15.2 34 173-206 1085-1124(1486)
312 PRK00050 16S rRNA m(4)C1402 me 34.4 1.7E+02 0.0036 26.9 7.2 126 20-159 108-233 (296)
313 PRK12337 2-phosphoglycerate ki 34.3 88 0.0019 30.8 5.6 57 45-105 88-144 (475)
314 smart00165 UBA Ubiquitin assoc 34.2 62 0.0013 19.5 3.1 22 55-76 3-24 (37)
315 PRK12758 DNA topoisomerase IV 34.2 2E+02 0.0044 30.5 8.4 30 125-154 435-464 (869)
316 PF07851 TMPIT: TMPIT-like pro 34.0 2.7E+02 0.0059 26.1 8.6 13 205-217 127-139 (330)
317 PF10267 Tmemb_cc2: Predicted 33.9 4.4E+02 0.0095 25.4 19.6 24 131-154 260-283 (395)
318 smart00338 BRLZ basic region l 33.8 1.6E+02 0.0034 20.2 5.5 14 127-140 38-51 (65)
319 PLN02678 seryl-tRNA synthetase 33.6 2.6E+02 0.0056 27.2 8.7 9 172-180 88-96 (448)
320 PRK14472 F0F1 ATP synthase sub 33.6 2.7E+02 0.0059 22.9 13.3 6 191-196 133-138 (175)
321 PF06580 His_kinase: Histidine 33.5 41 0.00089 24.5 2.5 46 46-94 10-55 (82)
322 PRK05560 DNA gyrase subunit A; 33.5 1.6E+02 0.0035 30.7 7.6 29 118-146 426-454 (805)
323 COG4026 Uncharacterized protei 33.4 3.6E+02 0.0079 24.3 9.3 11 70-80 75-85 (290)
324 TIGR02106 cyd_oper_ybgT cyd op 33.4 73 0.0016 19.6 3.1 19 205-223 5-23 (30)
325 PF14769 CLAMP: Flagellar C1a 33.4 82 0.0018 23.8 4.3 32 52-86 2-33 (101)
326 PRK11820 hypothetical protein; 33.4 3.8E+02 0.0082 24.5 15.5 12 191-202 272-283 (288)
327 PRK10664 transcriptional regul 33.3 83 0.0018 23.5 4.2 31 55-85 5-36 (90)
328 KOG1161 Protein involved in va 33.1 3.3E+02 0.0071 25.4 8.8 94 41-142 12-113 (310)
329 PF15035 Rootletin: Ciliary ro 33.0 3.1E+02 0.0067 23.3 13.1 30 170-199 149-178 (182)
330 KOG0249 LAR-interacting protei 32.9 4.3E+02 0.0094 27.8 10.2 20 125-144 233-252 (916)
331 cd04767 HTH_HspR-like_MBC Heli 32.4 57 0.0012 26.1 3.3 47 22-78 24-71 (120)
332 PHA00728 hypothetical protein 31.9 22 0.00048 28.9 0.9 23 201-223 60-82 (151)
333 TIGR00606 rad50 rad50. This fa 31.7 7.3E+02 0.016 27.3 18.1 54 91-145 879-932 (1311)
334 PF10031 DUF2273: Small integr 31.5 97 0.0021 21.1 3.9 30 196-225 4-33 (51)
335 PF10874 DUF2746: Protein of u 31.2 1.1E+02 0.0025 21.5 4.2 7 136-142 15-21 (57)
336 PF12808 Mto2_bdg: Micro-tubul 31.0 1.6E+02 0.0035 20.2 4.9 22 121-142 28-49 (52)
337 PRK09343 prefoldin subunit bet 31.0 2.6E+02 0.0057 21.9 8.9 32 155-186 71-102 (121)
338 COG0486 ThdF Predicted GTPase 31.0 2.7E+02 0.0058 27.3 8.2 16 24-39 40-55 (454)
339 PRK13453 F0F1 ATP synthase sub 30.9 3.1E+02 0.0067 22.7 13.2 28 141-168 104-131 (173)
340 PRK13461 F0F1 ATP synthase sub 30.8 2.9E+02 0.0062 22.3 12.5 8 191-198 120-127 (159)
341 KOG0946 ER-Golgi vesicle-tethe 30.4 7E+02 0.015 26.6 16.5 15 47-61 612-628 (970)
342 PF00509 Hemagglutinin: Haemag 30.3 40 0.00087 33.6 2.5 85 65-153 322-420 (550)
343 PRK13169 DNA replication intia 30.3 2.3E+02 0.0051 22.3 6.4 36 104-147 19-54 (110)
344 PF06401 Alpha-2-MRAP_C: Alpha 30.3 3.5E+02 0.0077 23.9 8.2 33 165-197 175-207 (214)
345 PF09304 Cortex-I_coil: Cortex 30.1 2.8E+02 0.006 21.9 9.7 15 172-186 54-68 (107)
346 PLN02320 seryl-tRNA synthetase 30.1 2.4E+02 0.0052 28.0 7.9 15 170-184 145-159 (502)
347 PF01795 Methyltransf_5: MraW 30.1 53 0.0011 30.5 3.2 125 20-157 111-236 (310)
348 PRK09039 hypothetical protein; 30.0 4.6E+02 0.0099 24.4 18.6 71 122-204 130-200 (343)
349 KOG0963 Transcription factor/C 29.8 6.2E+02 0.014 25.9 14.8 13 132-144 252-264 (629)
350 smart00502 BBC B-Box C-termina 29.8 2.3E+02 0.005 20.9 13.3 19 134-152 33-51 (127)
351 TIGR02209 ftsL_broad cell divi 29.7 1.6E+02 0.0035 21.0 5.2 26 125-154 34-59 (85)
352 PRK04778 septation ring format 29.6 5.6E+02 0.012 25.3 17.6 17 65-81 275-291 (569)
353 PRK10476 multidrug resistance 29.6 4.3E+02 0.0093 23.9 10.0 15 47-61 75-89 (346)
354 PRK09173 F0F1 ATP synthase sub 29.6 3E+02 0.0065 22.2 13.2 18 146-163 93-110 (159)
355 PF13801 Metal_resist: Heavy-m 29.5 2.2E+02 0.0049 20.7 11.8 26 56-81 33-58 (125)
356 TIGR03755 conj_TIGR03755 integ 29.3 3E+02 0.0065 26.7 8.2 19 64-82 254-275 (418)
357 PHA02592 52 DNA topisomerase I 29.3 1.7E+02 0.0038 28.4 6.7 25 119-143 399-423 (439)
358 TIGR03007 pepcterm_ChnLen poly 29.2 5.1E+02 0.011 24.7 17.2 16 134-149 280-295 (498)
359 PF01486 K-box: K-box region; 29.2 2.2E+02 0.0047 21.3 6.0 48 94-141 47-94 (100)
360 PF15450 DUF4631: Domain of un 29.2 6E+02 0.013 25.5 18.0 14 107-120 383-396 (531)
361 TIGR01201 HU_rel DNA-binding p 29.2 89 0.0019 25.4 4.1 36 50-85 30-66 (145)
362 PF02909 TetR_C: Tetracyclin r 29.2 78 0.0017 24.2 3.6 29 55-83 49-77 (139)
363 COG2074 2-phosphoglycerate kin 29.0 94 0.002 28.6 4.5 54 43-100 7-60 (299)
364 KOG0996 Structural maintenance 29.0 8.4E+02 0.018 27.1 16.2 31 10-40 740-770 (1293)
365 PF07195 FliD_C: Flagellar hoo 29.0 3.8E+02 0.0083 23.2 9.7 33 31-63 114-148 (239)
366 PF10146 zf-C4H2: Zinc finger- 28.9 4.1E+02 0.0089 23.5 14.0 13 183-195 91-103 (230)
367 PF08898 DUF1843: Domain of un 28.5 97 0.0021 21.5 3.5 18 125-142 34-51 (53)
368 KOG4196 bZIP transcription fac 28.4 3.4E+02 0.0073 22.3 9.0 22 123-144 89-110 (135)
369 cd04752 Commd4 COMM_Domain con 28.3 89 0.0019 26.1 4.0 31 49-79 58-88 (174)
370 PRK05431 seryl-tRNA synthetase 28.1 5.4E+02 0.012 24.6 9.9 8 134-141 40-47 (425)
371 PRK00464 nrdR transcriptional 28.1 1.3E+02 0.0028 25.1 4.9 41 41-81 51-95 (154)
372 PRK06330 transcript cleavage f 28.0 4.7E+02 0.01 27.2 9.7 60 126-185 569-632 (718)
373 PF11372 DUF3173: Domain of un 28.0 1.1E+02 0.0023 21.7 3.7 24 58-81 7-30 (59)
374 PF12037 DUF3523: Domain of un 28.0 4.7E+02 0.01 23.9 17.4 16 207-222 237-252 (276)
375 PLN02320 seryl-tRNA synthetase 27.8 5.4E+02 0.012 25.6 9.8 20 166-185 134-153 (502)
376 PF11180 DUF2968: Protein of u 27.7 3.9E+02 0.0085 23.2 7.9 69 49-119 67-138 (192)
377 cd00194 UBA Ubiquitin Associat 27.7 92 0.002 18.8 3.1 21 56-76 4-24 (38)
378 PRK11020 hypothetical protein; 27.6 3.2E+02 0.007 21.9 9.1 29 124-152 33-61 (118)
379 PF05266 DUF724: Protein of un 27.6 3.9E+02 0.0085 22.9 12.0 68 124-203 98-175 (190)
380 PF08173 YbgT_YccB: Membrane b 27.5 1.1E+02 0.0023 18.6 3.1 16 205-220 5-20 (28)
381 smart00411 BHL bacterial (prok 27.4 1.4E+02 0.0031 21.4 4.6 33 54-86 4-37 (90)
382 COG4396 Mu-like prophage host- 27.3 3.7E+02 0.008 22.5 7.4 24 129-152 25-48 (170)
383 PRK14749 hypothetical protein; 27.2 1.1E+02 0.0024 18.8 3.2 18 205-222 5-22 (30)
384 PF06200 tify: tify domain; I 27.2 71 0.0015 20.3 2.5 21 45-76 13-33 (36)
385 cd07623 BAR_SNX1_2 The Bin/Amp 27.0 4.1E+02 0.0089 22.9 11.9 14 68-81 88-101 (224)
386 TIGR00414 serS seryl-tRNA synt 27.0 5.6E+02 0.012 24.4 9.9 20 166-185 73-92 (418)
387 KOG4807 F-actin binding protei 26.9 6.1E+02 0.013 24.9 13.3 26 172-197 466-491 (593)
388 PRK10803 tol-pal system protei 26.9 3.3E+02 0.0072 24.2 7.7 24 124-147 70-93 (263)
389 KOG3564 GTPase-activating prot 26.9 2.7E+02 0.006 27.8 7.5 78 122-200 3-87 (604)
390 PF10025 DUF2267: Uncharacteri 26.8 68 0.0015 25.1 2.9 34 52-85 1-36 (125)
391 KOG4674 Uncharacterized conser 26.7 1.1E+03 0.023 27.6 17.4 102 106-208 946-1050(1822)
392 KOG0577 Serine/threonine prote 26.7 7.6E+02 0.016 25.9 13.8 58 90-154 469-530 (948)
393 PF15079 DUF4546: Domain of un 26.7 3.2E+02 0.007 23.5 7.0 12 105-116 17-28 (205)
394 PRK15178 Vi polysaccharide exp 26.7 6.1E+02 0.013 24.7 16.5 20 133-152 318-337 (434)
395 PF00804 Syntaxin: Syntaxin; 26.5 2.4E+02 0.0053 20.1 10.5 19 134-152 43-61 (103)
396 KOG0972 Huntingtin interacting 26.5 5.1E+02 0.011 24.3 8.8 26 130-155 309-334 (384)
397 TIGR00150 HI0065_YjeE ATPase, 26.5 36 0.00079 27.5 1.3 44 22-65 44-89 (133)
398 PRK10361 DNA recombination pro 26.4 6.4E+02 0.014 24.9 12.7 60 137-197 137-196 (475)
399 PRK00285 ihfA integration host 26.4 1.5E+02 0.0032 22.1 4.6 35 51-85 3-38 (99)
400 PRK10646 ADP-binding protein; 26.4 29 0.00064 28.8 0.8 44 22-65 50-95 (153)
401 PF00216 Bac_DNA_binding: Bact 26.3 1.2E+02 0.0026 21.7 4.0 32 54-85 4-36 (90)
402 TIGR03321 alt_F1F0_F0_B altern 26.2 4.4E+02 0.0096 23.0 12.5 95 77-174 30-124 (246)
403 PF04286 DUF445: Protein of un 25.7 4.8E+02 0.01 23.2 15.6 24 202-225 343-366 (367)
404 PF15103 G0-G1_switch_2: G0/G1 25.7 55 0.0012 25.6 2.1 19 205-223 26-44 (102)
405 smart00340 HALZ homeobox assoc 25.6 2E+02 0.0044 19.1 4.4 20 124-143 14-33 (44)
406 TIGR00988 hip integration host 25.6 1.5E+02 0.0032 21.8 4.5 33 54-86 4-38 (94)
407 PF11365 DUF3166: Protein of u 25.6 2.4E+02 0.0052 21.8 5.6 20 125-144 25-44 (96)
408 smart00806 AIP3 Actin interact 25.5 6.4E+02 0.014 24.6 13.3 38 109-146 233-274 (426)
409 PF07926 TPR_MLP1_2: TPR/MLP1/ 25.4 3.4E+02 0.0074 21.4 15.4 17 181-197 99-115 (132)
410 KOG4677 Golgi integral membran 25.3 3.4E+02 0.0073 26.9 7.7 26 121-146 322-347 (554)
411 PF02646 RmuC: RmuC family; I 25.2 2.7E+02 0.0058 25.3 6.8 25 178-202 43-70 (304)
412 PRK13922 rod shape-determining 25.1 4.7E+02 0.01 23.0 8.3 6 147-152 100-105 (276)
413 COG1561 Uncharacterized stress 24.9 5.6E+02 0.012 23.7 15.5 22 162-183 212-233 (290)
414 PF05873 Mt_ATP-synt_D: ATP sy 24.8 4.1E+02 0.0088 22.1 7.7 38 164-201 87-124 (161)
415 PF09789 DUF2353: Uncharacteri 24.7 5.8E+02 0.013 23.8 10.2 30 173-202 72-101 (319)
416 PRK13717 conjugal transfer pro 24.7 2E+02 0.0043 23.5 5.2 40 47-86 46-89 (128)
417 PRK09866 hypothetical protein; 24.5 8.3E+02 0.018 25.6 15.3 43 103-145 417-462 (741)
418 PRK14473 F0F1 ATP synthase sub 24.5 3.8E+02 0.0083 21.7 12.5 8 191-198 123-130 (164)
419 KOG0612 Rho-associated, coiled 24.4 1E+03 0.022 26.6 16.3 34 106-143 618-651 (1317)
420 PF07407 Seadorna_VP6: Seadorn 24.2 1.1E+02 0.0024 29.0 4.1 27 179-205 38-64 (420)
421 PRK09631 DNA topoisomerase IV 24.2 7.9E+02 0.017 25.2 12.4 15 184-198 408-422 (635)
422 PF15456 Uds1: Up-regulated Du 24.2 3.8E+02 0.0081 21.5 10.9 43 169-211 74-119 (124)
423 PF06632 XRCC4: DNA double-str 24.1 6.1E+02 0.013 23.8 12.1 44 124-174 160-203 (342)
424 KOG3366 Mitochondrial F1F0-ATP 24.0 4.6E+02 0.0099 22.4 9.9 51 149-200 75-125 (172)
425 TIGR00006 S-adenosyl-methyltra 24.0 5.6E+02 0.012 23.6 8.7 127 20-159 110-237 (305)
426 PRK13169 DNA replication intia 23.9 3.6E+02 0.0079 21.2 7.5 16 126-141 40-55 (110)
427 PRK00199 ihfB integration host 23.6 1.7E+02 0.0037 21.6 4.5 31 55-85 5-37 (94)
428 PF03915 AIP3: Actin interacti 23.6 6.8E+02 0.015 24.3 16.0 56 87-148 213-272 (424)
429 KOG0742 AAA+-type ATPase [Post 23.5 7.5E+02 0.016 24.7 18.3 19 63-81 71-89 (630)
430 PF03908 Sec20: Sec20; InterP 23.5 3.1E+02 0.0067 20.2 11.7 19 134-152 6-24 (92)
431 PF09325 Vps5: Vps5 C terminal 23.4 4.5E+02 0.0097 22.1 10.3 6 109-114 144-149 (236)
432 PRK13455 F0F1 ATP synthase sub 23.4 4.3E+02 0.0094 21.9 13.2 6 191-196 142-147 (184)
433 PF06705 SF-assemblin: SF-asse 23.4 5E+02 0.011 22.6 18.1 56 142-197 112-167 (247)
434 PF07106 TBPIP: Tat binding pr 23.3 4.1E+02 0.009 21.6 10.0 22 122-143 72-93 (169)
435 PF10845 DUF2576: Protein of u 23.2 95 0.0021 20.9 2.6 18 131-148 13-30 (48)
436 cd00591 HU_IHF Integration hos 23.1 1.6E+02 0.0036 20.9 4.2 30 56-85 5-35 (87)
437 PF15082 DUF4549: Domain of un 23.0 1.1E+02 0.0024 25.3 3.5 24 176-199 10-33 (144)
438 KOG1760 Molecular chaperone Pr 23.0 4.2E+02 0.0091 21.6 9.7 28 175-202 83-110 (131)
439 PRK10753 transcriptional regul 23.0 2E+02 0.0042 21.4 4.6 32 54-85 4-36 (90)
440 cd00089 HR1 Protein kinase C-r 22.8 2.8E+02 0.006 19.5 6.7 11 174-184 47-57 (72)
441 cd07664 BAR_SNX2 The Bin/Amphi 22.8 5.3E+02 0.012 22.7 11.7 6 68-73 98-103 (234)
442 KOG1772 Vacuolar H+-ATPase V1 22.7 3.9E+02 0.0085 21.1 10.1 34 179-212 71-104 (108)
443 PF12836 HHH_3: Helix-hairpin- 22.7 1.2E+02 0.0027 20.9 3.3 34 58-100 14-48 (65)
444 KOG3304 Surfeit family protein 22.7 4.4E+02 0.0096 21.8 11.2 19 67-85 14-32 (148)
445 KOG0161 Myosin class II heavy 22.6 1.3E+03 0.028 27.1 17.4 130 68-203 1009-1141(1930)
446 PF04880 NUDE_C: NUDE protein, 22.6 1.1E+02 0.0025 25.8 3.6 15 128-142 30-44 (166)
447 PRK12758 DNA topoisomerase IV 22.4 9.7E+02 0.021 25.6 11.7 18 183-200 428-445 (869)
448 KOG4673 Transcription factor T 22.4 9.3E+02 0.02 25.4 11.2 16 85-100 504-519 (961)
449 TIGR01837 PHA_granule_1 poly(h 22.3 3.9E+02 0.0084 21.0 11.1 44 136-186 70-113 (118)
450 KOG0804 Cytoplasmic Zn-finger 22.3 7.7E+02 0.017 24.4 15.5 17 96-112 347-363 (493)
451 PF05700 BCAS2: Breast carcino 22.3 5.1E+02 0.011 22.4 10.1 21 182-202 191-211 (221)
452 TIGR02977 phageshock_pspA phag 22.3 5E+02 0.011 22.3 16.8 128 73-201 3-134 (219)
453 COG2919 Septum formation initi 22.1 2.5E+02 0.0054 22.0 5.3 45 122-168 50-97 (117)
454 PF15294 Leu_zip: Leucine zipp 22.1 6.2E+02 0.013 23.2 16.3 136 65-200 1-180 (278)
455 KOG1666 V-SNARE [Intracellular 22.0 5.6E+02 0.012 22.7 14.5 122 95-222 78-214 (220)
456 PRK06231 F0F1 ATP synthase sub 21.8 5.1E+02 0.011 22.2 13.8 98 120-220 80-177 (205)
457 PRK05729 valS valyl-tRNA synth 21.8 2.3E+02 0.0049 29.7 6.3 60 121-187 810-871 (874)
458 PF07553 Lipoprotein_Ltp: Host 21.8 1E+02 0.0022 20.7 2.6 22 50-71 18-42 (48)
459 PF07332 DUF1469: Protein of u 21.7 3.7E+02 0.0079 20.4 7.8 48 178-225 9-56 (121)
460 PHA02682 ORF080 virion core pr 21.6 2.8E+02 0.006 24.6 5.9 48 142-197 210-257 (280)
461 KOG4657 Uncharacterized conser 21.6 6E+02 0.013 22.9 13.5 95 86-200 12-106 (246)
462 PRK01919 tatB sec-independent 21.4 5.2E+02 0.011 22.0 8.6 65 133-199 27-91 (169)
463 PF01788 PsbJ: PsbJ; InterPro 21.4 1.6E+02 0.0034 19.3 3.3 19 206-224 11-29 (40)
464 COG4372 Uncharacterized protei 21.3 7.8E+02 0.017 24.1 13.8 135 58-199 30-167 (499)
465 KOG3647 Predicted coiled-coil 21.3 3.7E+02 0.0081 24.9 6.8 49 97-145 102-156 (338)
466 PF14257 DUF4349: Domain of un 21.3 5.6E+02 0.012 22.4 11.8 100 122-225 132-250 (262)
467 cd04755 Commd7 COMM_Domain con 21.2 2.5E+02 0.0054 24.0 5.4 46 49-94 67-112 (180)
468 PRK10780 periplasmic chaperone 21.2 4.6E+02 0.01 21.4 9.9 76 121-196 42-117 (165)
469 COG4467 Regulator of replicati 21.1 4E+02 0.0087 21.2 6.1 42 96-145 11-52 (114)
470 PF06248 Zw10: Centromere/kine 20.9 8.2E+02 0.018 24.2 13.7 104 93-200 7-116 (593)
471 PRK00888 ftsB cell division pr 20.6 2.6E+02 0.0055 21.6 5.0 52 103-155 30-81 (105)
472 PF00846 Hanta_nucleocap: Hant 20.6 7.9E+02 0.017 23.9 9.9 71 74-144 1-71 (428)
473 KOG0161 Myosin class II heavy 20.5 1.4E+03 0.031 26.8 18.8 150 53-202 1043-1204(1930)
474 PRK12704 phosphodiesterase; Pr 20.5 8.4E+02 0.018 24.1 14.3 104 95-199 37-147 (520)
475 PRK01156 chromosome segregatio 20.5 9.6E+02 0.021 24.8 14.2 103 106-211 618-738 (895)
476 PLN02939 transferase, transfer 20.4 1.1E+03 0.024 25.5 17.5 144 70-222 140-323 (977)
477 TIGR01144 ATP_synt_b ATP synth 20.4 4.3E+02 0.0094 20.8 13.2 100 77-179 20-119 (147)
478 PF06698 DUF1192: Protein of u 20.4 2.4E+02 0.0053 19.8 4.3 27 183-209 24-50 (59)
479 PF11068 YlqD: YlqD protein; 20.3 4.7E+02 0.01 21.1 9.3 69 111-183 16-88 (131)
480 PF07246 Phlebovirus_NSM: Phle 20.2 5.7E+02 0.012 23.3 7.8 121 44-178 116-239 (264)
481 TIGR03321 alt_F1F0_F0_B altern 20.2 5.9E+02 0.013 22.2 14.2 102 113-220 37-138 (246)
482 PRK10780 periplasmic chaperone 20.2 4.8E+02 0.01 21.3 10.2 86 114-199 42-128 (165)
483 KOG2010 Double stranded RNA bi 20.2 5.1E+02 0.011 24.6 7.6 79 70-148 109-201 (405)
484 PRK14475 F0F1 ATP synthase sub 20.1 4.9E+02 0.011 21.3 13.3 97 113-209 42-143 (167)
485 TIGR02338 gimC_beta prefoldin, 20.1 2.3E+02 0.005 21.7 4.7 47 134-181 61-107 (110)
486 PF02268 TFIIA_gamma_N: Transc 20.1 2.6E+02 0.0056 19.0 4.3 30 57-86 19-49 (49)
487 PF04728 LPP: Lipoprotein leuc 20.0 3.2E+02 0.0069 19.1 6.2 41 104-145 7-47 (56)
No 1
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=100.00 E-value=1.4e-54 Score=365.16 Aligned_cols=177 Identities=45% Similarity=0.694 Sum_probs=176.2
Q ss_pred eccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHH
Q 027204 50 LVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQR 129 (226)
Q Consensus 50 ~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~ 129 (226)
|||||+||++|+++|||++|||+|+.+++++++++++.++.++|||+|+++..|+|+++|++||+|++.+++++|+.+|+
T Consensus 1 hFDT~~~v~~Le~~Gft~~QAe~i~~~l~~~l~~~~~~~~~~~vtk~d~e~~~~~~~a~~~eLr~el~~~~k~~~~~lr~ 80 (177)
T PF07798_consen 1 HFDTHKFVKRLEAAGFTEEQAEAIMKALREVLNDSLEKVAQDLVTKSDLENQEYLFKAAIAELRSELQNSRKSEFAELRS 80 (177)
T ss_pred CCcHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG 209 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG 209 (226)
++++|++|+++|+++|++||+++++++|+|||+||+++|++.+.++.+|+++++||+++|++||++||++||+++||++|
T Consensus 81 ~~e~L~~eie~l~~~L~~ei~~l~a~~klD~n~eK~~~r~e~~~~~~ki~e~~~ki~~ei~~lr~~iE~~K~~~lr~~~g 160 (177)
T PF07798_consen 81 ENEKLQREIEKLRQELREEINKLRAEVKLDLNLEKGRIREEQAKQELKIQELNNKIDTEIANLRTEIESLKWDTLRWLVG 160 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhC
Q 027204 210 TLVSISAVGLAIVRILM 226 (226)
Q Consensus 210 ~v~~~~al~la~~rl~~ 226 (226)
++++|+|+++|+|||||
T Consensus 161 ~i~~~~a~~la~~r~~~ 177 (177)
T PF07798_consen 161 VIFGCVALVLAILRLWM 177 (177)
T ss_pred HHHHHHHHHHHHHHHHC
Confidence 99999999999999998
No 2
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=100.00 E-value=8.4e-52 Score=353.06 Aligned_cols=194 Identities=45% Similarity=0.647 Sum_probs=188.9
Q ss_pred cCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHH
Q 027204 32 IGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK 111 (226)
Q Consensus 32 ~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~ise 111 (226)
-.||++|+.... +...++||||++|+.||.+||+..|||+|+.++.+++++++++++.++|||++++...|||+++|+.
T Consensus 27 ~hrr~~~~~~~~-~~r~~~~dt~alvr~LE~~Gf~~kQAETIt~aiT~v~ndsl~~vsk~~vtkaqq~~v~~QQ~~~f~k 105 (220)
T KOG3156|consen 27 FHRRQSSQLSGF-GRRKFPFDTHALVRSLEAAGFDSKQAETITSAITTVLNDSLETVSKELVTKAQQEKVSYQQKVDFAK 105 (220)
T ss_pred cceehhhhcCcc-cccccchhHHHHHHHHHHcCCChhhHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567777777766 6788999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHH
Q 027204 112 FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHA 191 (226)
Q Consensus 112 LR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~ 191 (226)
+|+||.+++++||+++|+|+|+|++|+|++++.|++||.+..+|+|||+|+||++++++...++.+|.|+.+||++||++
T Consensus 106 iRsel~S~e~sEF~~lr~e~EklkndlEk~ks~lr~ei~~~~a~~rLdLNLEkgr~~d~~~~~~l~~~e~s~kId~Ev~~ 185 (220)
T KOG3156|consen 106 IRSELVSIERSEFANLRAENEKLKNDLEKLKSSLRHEISKTTAEFRLDLNLEKGRIKDESSSHDLQIKEISTKIDQEVTN 185 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhceeecchhhccccchhhhcchhHhHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 027204 192 LRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRILM 226 (226)
Q Consensus 192 LRteIEs~K~d~lrwliG~v~~~~al~la~~rl~~ 226 (226)
||++||++|.++++|++|+|++++|++|||+|+||
T Consensus 186 lk~qi~s~K~qt~qw~~g~v~~~~Al~La~~r~~~ 220 (220)
T KOG3156|consen 186 LKTQIESVKTQTIQWLIGVVTGTSALVLAYLRLLT 220 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 99999999999999999999999999999999997
No 3
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=97.99 E-value=0.0023 Score=53.92 Aligned_cols=29 Identities=24% Similarity=0.443 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNL 162 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNl 162 (226)
|+.|+++++.+++-|++.-+++++.+...
T Consensus 96 L~~ei~~l~a~~klD~n~eK~~~r~e~~~ 124 (177)
T PF07798_consen 96 LREEINKLRAEVKLDLNLEKGRIREEQAK 124 (177)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence 44455555555555555555544444433
No 4
>PRK10884 SH3 domain-containing protein; Provisional
Probab=96.96 E-value=0.024 Score=49.33 Aligned_cols=36 Identities=11% Similarity=0.273 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhHHH-HHHH-HHHHHHHHHHHHHHHH
Q 027204 187 REIHALRAHMEAAKYD-VIKY-CIGTLVSISAVGLAIV 222 (226)
Q Consensus 187 ~eIa~LRteIEs~K~d-~lrw-liG~v~~~~al~la~~ 222 (226)
.++..++.+++..+-+ .++| +.|-.+.+++++||++
T Consensus 153 ~~~~~l~~~~~~~~~~~~~~wf~~Gg~v~~~GlllGli 190 (206)
T PRK10884 153 KKVDAANLQLDDKQRTIIMQWFMYGGGVAGIGLLLGLL 190 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHchHHHHHHHHHHHH
Confidence 3444556666666644 4577 4566666677777775
No 5
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=95.15 E-value=0.28 Score=38.67 Aligned_cols=79 Identities=14% Similarity=0.333 Sum_probs=55.6
Q ss_pred HHHHHHhhCC-CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHH
Q 027204 55 QLVRGLEAQG-VPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEK 133 (226)
Q Consensus 55 ~fvk~Le~aG-ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~ 133 (226)
++++.|-+.| +++++|..++.-+..-... .+. .........+..+=+++...+++++..++.+.+.
T Consensus 28 klvDelVkkGeln~eEak~~vddl~~q~k~----------~~~---e~e~K~~r~i~~ml~~~~~~r~~~~~~l~~rvd~ 94 (108)
T COG3937 28 KLVDELVKKGELNAEEAKRFVDDLLRQAKE----------AQG---ELEEKIPRKIEEMLSDLEVARQSEMDELTERVDA 94 (108)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHHHHHHH----------Hhh---hHHHhhhHHHHHHHhhccccccchHHHHHHHHHH
Confidence 6788888888 9999998887654433221 011 1222345666666677777888999999999999
Q ss_pred HHHHHHHHHHHHH
Q 027204 134 LRSDIEKMRSELR 146 (226)
Q Consensus 134 Lk~Eie~L~~~Lk 146 (226)
|++++..|+++++
T Consensus 95 Lerqv~~Lenk~k 107 (108)
T COG3937 95 LERQVADLENKLK 107 (108)
T ss_pred HHHHHHHHHHHhc
Confidence 9999988887764
No 6
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=94.82 E-value=1.6 Score=38.43 Aligned_cols=107 Identities=16% Similarity=0.245 Sum_probs=65.5
Q ss_pred HHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHH-----HHH
Q 027204 111 KFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLT-----NKL 185 (226)
Q Consensus 111 eLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~-----~Ki 185 (226)
..+.++..+++.=-+..++|...|++|.|+|+ -||.++++.++-+++.-.++.|-++.-=+.++.+.- +.+
T Consensus 98 QQ~~~f~kiRsel~S~e~sEF~~lr~e~Eklk----ndlEk~ks~lr~ei~~~~a~~rLdLNLEkgr~~d~~~~~~l~~~ 173 (220)
T KOG3156|consen 98 QQKVDFAKIRSELVSIERSEFANLRAENEKLK----NDLEKLKSSLRHEISKTTAEFRLDLNLEKGRIKDESSSHDLQIK 173 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhcchhceeecchhhccccchhhhcchhHh
Confidence 45666666666666667777777888877765 458899998888887666666655532222222221 222
Q ss_pred HHHHHHHHHHHHHhHHHH--HHH-HHHHHHHHHHHHHHHH
Q 027204 186 DREIHALRAHMEAAKYDV--IKY-CIGTLVSISAVGLAIV 222 (226)
Q Consensus 186 ~~eIa~LRteIEs~K~d~--lrw-liG~v~~~~al~la~~ 222 (226)
+++ +.+-.||..+|.++ .|+ .+--++|.++...|++
T Consensus 174 e~s-~kId~Ev~~lk~qi~s~K~qt~qw~~g~v~~~~Al~ 212 (220)
T KOG3156|consen 174 EIS-TKIDQEVTNLKTQIESVKTQTIQWLIGVVTGTSALV 212 (220)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 222 46778888899876 455 4444455555555554
No 7
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=94.78 E-value=0.57 Score=37.20 Aligned_cols=89 Identities=11% Similarity=0.196 Sum_probs=61.6
Q ss_pred HHHHHHHhhCC-CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhH--HHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHH
Q 027204 54 LQLVRGLEAQG-VPSKQAEAITAAITEVLNDSLENVAHTFVSKGE--MQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRE 130 (226)
Q Consensus 54 ~~fvk~Le~aG-ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~d--le~~~y~~ka~iseLR~El~~~~k~e~~~lr~e 130 (226)
-+|++.|-+.| .+++++..+++-+.+-+.+.+.+...+...+++ .++.+..+...+..+=..+-...+.|+..|+..
T Consensus 25 ~k~~~~LVkkGe~~~ee~k~~~~e~~~~~~e~~~~~~~~~~~~~~~~~~~le~~~~~~v~~~L~~lg~~tk~ev~~L~~R 104 (118)
T TIGR01837 25 SKFFNRLVKEGELAEKRGQKRFDESVDAAREEVKTALEQTRDQVQRNWDKLEKAFDERVEQALNRLNIPSREEIEALSAK 104 (118)
T ss_pred HHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence 37889998889 999999999888877777666555555544332 234445566666676667767777888777777
Q ss_pred HHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMR 142 (226)
Q Consensus 131 ~e~Lk~Eie~L~ 142 (226)
.+.|...++.|+
T Consensus 105 I~~Le~~l~~l~ 116 (118)
T TIGR01837 105 IEQLAVQVEELR 116 (118)
T ss_pred HHHHHHHHHHHh
Confidence 666666666654
No 8
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=94.32 E-value=2.4 Score=34.45 Aligned_cols=120 Identities=11% Similarity=0.224 Sum_probs=72.7
Q ss_pred ChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 66 PSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 66 t~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
++.-...++.++-+++.. ...++-.++++........+++..|...+..+. .+.+.+..+....+.+...+...+
T Consensus 29 ~~~~~~~vin~i~~Ll~~----~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~-~~~~~~ere~~~~~~~~~~l~~~~ 103 (151)
T PF11559_consen 29 SEDNDVRVINCIYDLLQQ----RDRDMEQREDLSDKLRRLRSDIERLQNDVERLK-EQLEELERELASAEEKERQLQKQL 103 (151)
T ss_pred ccccHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455667777666543 345677777776666666777777766665443 445555555555555555555555
Q ss_pred HHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 027204 146 RYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 146 keeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d 202 (226)
+.....++. .+++.+.+...++...++...|+----.||+.+|-.
T Consensus 104 ~~~~~~~k~------------~kee~~klk~~~~~~~tq~~~e~rkke~E~~kLk~r 148 (151)
T PF11559_consen 104 KSLEAKLKQ------------EKEELQKLKNQLQQRKTQYEHELRKKEREIEKLKER 148 (151)
T ss_pred HHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555544 356666666677777777666666555666666644
No 9
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=94.06 E-value=2.7 Score=38.59 Aligned_cols=26 Identities=19% Similarity=0.408 Sum_probs=14.7
Q ss_pred hhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 119 SQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 119 ~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
..+.++..+|.+...+..+|+..+.+
T Consensus 206 ~D~~eL~~lr~eL~~~~~~i~~~k~~ 231 (325)
T PF08317_consen 206 CDQEELEALRQELAEQKEEIEAKKKE 231 (325)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666666666654443
No 10
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=94.01 E-value=4.4 Score=36.36 Aligned_cols=22 Identities=18% Similarity=0.374 Sum_probs=8.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMRSELRYE 148 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~Lkee 148 (226)
++..+..|...|..++..+..+
T Consensus 235 l~~~~~~Le~~l~~le~~~~~~ 256 (312)
T PF00038_consen 235 LRAKNASLERQLRELEQRLDEE 256 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred cccchhhhhhhHHHHHHHHHHH
Confidence 3333333333333333333333
No 11
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=93.40 E-value=1.3 Score=31.87 Aligned_cols=35 Identities=17% Similarity=0.309 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 184 KLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGL 219 (226)
Q Consensus 184 Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~l 219 (226)
..+..|.++..+|++.+ +.++|+.|+++|.+..++
T Consensus 31 ~~e~~i~~~~~~l~~I~-~n~kW~~r~iiGaiI~~i 65 (71)
T PF10779_consen 31 ANEKDIKNLNKQLEKIK-SNTKWIWRTIIGAIITAI 65 (71)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 33444556666666664 457899998877665443
No 12
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=93.39 E-value=1.6 Score=42.06 Aligned_cols=38 Identities=24% Similarity=0.217 Sum_probs=27.8
Q ss_pred eeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHH
Q 027204 49 FLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 49 ~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~ 86 (226)
+.||+..=+-.|+-.+|+|+.|..|.+++-..-+..++
T Consensus 196 V~~D~~sGIi~l~V~AF~PedA~~ia~aLL~~sE~~VN 233 (434)
T PRK15178 196 VAVDIQQGMLRLNVKARSAKQAEFFAQRILSFAEQHVN 233 (434)
T ss_pred EeecCCCCeEEEEEEecCHHHHHHHHHHHHHHHHHHHH
Confidence 45666666667888899999999999988766444433
No 13
>COG3524 KpsE Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]
Probab=92.37 E-value=4 Score=37.99 Aligned_cols=33 Identities=18% Similarity=0.237 Sum_probs=28.2
Q ss_pred ceeccHHHHHHHHhhCCCChHHHHHHHHHHHHH
Q 027204 48 AFLVDTLQLVRGLEAQGVPSKQAEAITAAITEV 80 (226)
Q Consensus 48 ~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~ 80 (226)
.++||+-.-.-.+.=.||+|.+|-.|..++.+-
T Consensus 132 kVnfD~vSgI~~v~V~aF~p~eaq~Iaqailkq 164 (372)
T COG3524 132 KVNFDSVSGISTVNVTAFDPKEAQKIAQAILKQ 164 (372)
T ss_pred eeecccccceeEEEEeecChhhHHHHHHHHHHH
Confidence 488999888888888899999999998887653
No 14
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=92.31 E-value=3.5 Score=30.45 Aligned_cols=25 Identities=24% Similarity=0.520 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
...+++.+++.++..+.+-|.++-.
T Consensus 4 kl~~i~~~v~~v~~im~~Ni~~ll~ 28 (89)
T PF00957_consen 4 KLEQIQEQVEEVKNIMRENIDKLLE 28 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567888999999999999888843
No 15
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=92.29 E-value=0.51 Score=35.20 Aligned_cols=45 Identities=20% Similarity=0.177 Sum_probs=34.4
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~ 75 (226)
.|+--|.+...|||.|+ .-.+..+.+++.|.. .|||.+....++.
T Consensus 24 ~Gli~p~r~~~g~R~y~---------~~dv~~l~~i~~L~~d~g~~l~~i~~~l~ 69 (91)
T cd04766 24 LGLLSPSRTDGGTRRYS---------ERDIERLRRIQRLTQELGVNLAGVKRILE 69 (91)
T ss_pred CCCcCCCcCCCCCeeEC---------HHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 45555555556777776 345788999999998 9999999887776
No 16
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=92.21 E-value=5.1 Score=32.07 Aligned_cols=79 Identities=16% Similarity=0.241 Sum_probs=51.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIG 209 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG 209 (226)
...++|+++|.+..=|++-++|+-. +++-=+++.+.-..+++....+.+.-..||.++ =|.-+||.++
T Consensus 30 k~~~tq~QvdeVv~IMr~NV~KVlE---------R~ekL~~L~drad~L~~~as~F~~~A~klkrk~---wWkn~Km~~i 97 (116)
T KOG0860|consen 30 KLQQTQAQVDEVVDIMRENVEKVLE---------RGEKLDELDDRADQLQAGASQFEKTAVKLKRKM---WWKNCKMRII 97 (116)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHH---------hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHH
Confidence 4567899999999999999999844 333333444444556666677777777777543 3777787665
Q ss_pred HHHHHHHHHHH
Q 027204 210 TLVSISAVGLA 220 (226)
Q Consensus 210 ~v~~~~al~la 220 (226)
+.+.++.+++.
T Consensus 98 l~~v~~i~l~i 108 (116)
T KOG0860|consen 98 LGLVIIILLVV 108 (116)
T ss_pred HHHHHHHHHHH
Confidence 55554444443
No 17
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=91.83 E-value=11 Score=34.93 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=10.2
Q ss_pred hhHHHhHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~ 143 (226)
++...+|.+...+..++...++
T Consensus 204 ~eL~~lk~~l~~~~~ei~~~~~ 225 (312)
T smart00787 204 TELDRAKEKLKKLLQEIMIKVK 225 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 18
>PRK10884 SH3 domain-containing protein; Provisional
Probab=91.70 E-value=5 Score=34.92 Aligned_cols=22 Identities=5% Similarity=-0.043 Sum_probs=10.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 027204 199 AKYDVIKYCIGTLVSISAVGLA 220 (226)
Q Consensus 199 ~K~d~lrwliG~v~~~~al~la 220 (226)
.+|=+.=-++.+++.+++++|-
T Consensus 171 ~~wf~~Gg~v~~~GlllGlilp 192 (206)
T PRK10884 171 MQWFMYGGGVAGIGLLLGLLLP 192 (206)
T ss_pred HHHHHHchHHHHHHHHHHHHhc
Confidence 4455544444444444444443
No 19
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=91.49 E-value=19 Score=37.22 Aligned_cols=24 Identities=17% Similarity=0.454 Sum_probs=18.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 199 AKYDVIKYCIGTLVSISAVGLAIV 222 (226)
Q Consensus 199 ~K~d~lrwliG~v~~~~al~la~~ 222 (226)
-|++..||.+|+++.++.+.+.+.
T Consensus 407 ~~y~~yR~~~~lil~~~llLIv~~ 430 (806)
T PF05478_consen 407 EKYDSYRWIVGLILCCVLLLIVLC 430 (806)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999988876655443
No 20
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=90.62 E-value=4.2 Score=31.94 Aligned_cols=45 Identities=13% Similarity=0.003 Sum_probs=34.3
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|.=-|.+. .|||-++ .-.++.+.+++.|...|||-++...++..
T Consensus 23 ~GLl~p~r~-~gyR~Y~---------~~~l~~l~~I~~lr~~G~~L~~I~~~l~~ 67 (118)
T cd04776 23 KGLLSPERR-GQTRVYS---------RRDRARLKLILRGKRLGFSLEEIRELLDL 67 (118)
T ss_pred CCCCCCcCC-CCccccC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 455445443 4898887 34689999999999999999888777654
No 21
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=90.49 E-value=20 Score=38.66 Aligned_cols=32 Identities=19% Similarity=0.490 Sum_probs=15.8
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVT 153 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ 153 (226)
.+++.+..+...++.+++...+.++++...++
T Consensus 685 ~~l~~l~~~l~~~~~e~~~~~~~~~~~~~e~~ 716 (1201)
T PF12128_consen 685 EQLNELEEELKQLKQELEELLEELKEQLKELR 716 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444555555555555555555544444
No 22
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=90.20 E-value=6.3 Score=29.51 Aligned_cols=13 Identities=0% Similarity=0.041 Sum_probs=5.2
Q ss_pred HHHHHHHHhHHHH
Q 027204 191 ALRAHMEAAKYDV 203 (226)
Q Consensus 191 ~LRteIEs~K~d~ 203 (226)
.....|...=|..
T Consensus 64 ~~~~~V~e~P~~s 76 (94)
T PF05957_consen 64 QTEDYVRENPWQS 76 (94)
T ss_pred HHHHHHHHChHHH
Confidence 3333344444444
No 23
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=89.76 E-value=7.4 Score=33.28 Aligned_cols=138 Identities=20% Similarity=0.324 Sum_probs=69.9
Q ss_pred ceeccHHHHHHHHh-h-CCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHH
Q 027204 48 AFLVDTLQLVRGLE-A-QGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFS 125 (226)
Q Consensus 48 ~~~FDT~~fvk~Le-~-aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~ 125 (226)
.+.|-|++=+.++- + .|+++.+-.-++..+. .+ ++|.-.-.=...| +=.+.++-....+....
T Consensus 8 ~~~~y~lKELEK~~pK~~gI~~~~VKdvlq~Lv---DD-------glV~~EKiGssn~-----YWsFps~~~~~~~~~~~ 72 (188)
T PF03962_consen 8 SKDFYTLKELEKLAPKEKGIVSMSVKDVLQSLV---DD-------GLVHVEKIGSSNY-----YWSFPSQAKQKRQNKLE 72 (188)
T ss_pred cCCcccHHHHHHHcccccCCchhhHHHHHHHHh---cc-------ccchhhhccCeeE-----EEecChHHHHHHHHHHH
Confidence 34566776555553 3 6998877655554443 33 2332111100000 00122222223334445
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHH-------HHHHHHHHHHHH
Q 027204 126 MLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLD-------REIHALRAHMEA 198 (226)
Q Consensus 126 ~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~-------~eIa~LRteIEs 198 (226)
.+..+.+.++..++.++.++... ..-+.+ - .++...-++...++.++.++..++. ..|..++.++..
T Consensus 73 ~l~~~~~~~~~~i~~l~~~i~~~-~~~r~~----~-~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~ 146 (188)
T PF03962_consen 73 KLQKEIEELEKKIEELEEKIEEA-KKGREE----S-EEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKI 146 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-Hhcccc----c-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 55555555666666655554444 111111 1 3444445555666666666666666 446778888887
Q ss_pred hHHHHHHH
Q 027204 199 AKYDVIKY 206 (226)
Q Consensus 199 ~K~d~lrw 206 (226)
.|-.+-||
T Consensus 147 ~~~~anrw 154 (188)
T PF03962_consen 147 AKEAANRW 154 (188)
T ss_pred HHHHHHHH
Confidence 77777777
No 24
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=89.73 E-value=8 Score=38.94 Aligned_cols=71 Identities=30% Similarity=0.397 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki 185 (226)
...+.+++.-++.+ +.+...|+.+++.++++|++|+.+|..=...+..+++ ..-++..++.+|..++.++
T Consensus 421 ~~~i~~~~~~ve~l-~~e~~~L~~~~ee~k~eie~L~~~l~~~~r~~~~~~~---------~~rei~~~~~~I~~L~~~L 490 (652)
T COG2433 421 EKRIKKLEETVERL-EEENSELKRELEELKREIEKLESELERFRREVRDKVR---------KDREIRARDRRIERLEKEL 490 (652)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHH
Confidence 33344444433322 3456667777777777777777665544444433322 2334444555555554444
Q ss_pred H
Q 027204 186 D 186 (226)
Q Consensus 186 ~ 186 (226)
.
T Consensus 491 ~ 491 (652)
T COG2433 491 E 491 (652)
T ss_pred H
Confidence 3
No 25
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=89.03 E-value=15 Score=32.24 Aligned_cols=74 Identities=27% Similarity=0.395 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHH-------HHHHHHHHHh
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREI-------HALRAHMEAA 199 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eI-------a~LRteIEs~ 199 (226)
+..+......+++.+...|..++..+...+.-+-+.+..+-..-+..++-....++.+|+.|. +.|+.+++.+
T Consensus 108 i~ee~~~r~~~ie~~~~~l~~~l~~l~~~~~~Er~~R~erE~~i~krl~e~~~~l~~~i~~Ek~~Re~~~~~l~~~le~~ 187 (247)
T PF06705_consen 108 IQEEKEERPQDIEELNQELVRELNELQEAFENERNEREEREENILKRLEEEENRLQEKIEKEKNTRESKLSELRSELEEV 187 (247)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444566667777777777777776654444444433333333344444444444444443 4677777765
Q ss_pred H
Q 027204 200 K 200 (226)
Q Consensus 200 K 200 (226)
+
T Consensus 188 ~ 188 (247)
T PF06705_consen 188 K 188 (247)
T ss_pred H
Confidence 5
No 26
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=88.64 E-value=17 Score=32.44 Aligned_cols=99 Identities=14% Similarity=0.280 Sum_probs=57.4
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHHHHhhh--------hhhHHHhHHHHHHHHHHHHHHHHHH---HHHHHhhhhhhhh
Q 027204 90 HTFVSKGEMQKTEMIQEANLSKFKSEVQSSQ--------EHHFSMLQRETEKLRSDIEKMRSEL---RYEIDKVTAGQRL 158 (226)
Q Consensus 90 ~~lvTK~dle~~~y~~ka~iseLR~El~~~~--------k~e~~~lr~e~e~Lk~Eie~L~~~L---keeI~kl~ae~kl 158 (226)
.--....|+++...+...++.++|.-+...+ -.++.+|..+...++.++..|+.+| .+++.++...
T Consensus 49 ~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~~~~~l~~~--- 125 (239)
T COG1579 49 ALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELMEEIEKLEKE--- 125 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---
Confidence 3444567788887788888888877765433 3455666666666666666655443 2233333332
Q ss_pred hhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 027204 159 DLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHM 196 (226)
Q Consensus 159 DlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteI 196 (226)
....++....++..+.+...+++.+++.++-+.
T Consensus 126 -----i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~ 158 (239)
T COG1579 126 -----IEDLKERLERLEKNLAEAEARLEEEVAEIREEG 158 (239)
T ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 222345555666666666666666666555433
No 27
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=88.61 E-value=16 Score=37.60 Aligned_cols=69 Identities=19% Similarity=0.242 Sum_probs=40.0
Q ss_pred HHHHHHHhhhhhhhhhhhhh-hhhhHHHHHhhHHHHHH------HHHHHHHHHH---------------HHHHHHHHhHH
Q 027204 144 ELRYEIDKVTAGQRLDLNLE-RGRIRDELANQNAETTN------LTNKLDREIH---------------ALRAHMEAAKY 201 (226)
Q Consensus 144 ~LkeeI~kl~ae~klDlNle-K~r~ree~~~~~~kI~e------~~~Ki~~eIa---------------~LRteIEs~K~ 201 (226)
+|++-+.-|++.++.-...+ ++..-+.-+.++.+|.+ +..|++.+.+ +|+.+|+++|.
T Consensus 532 ~lk~Kle~Lk~~~~~~~~s~g~~~a~~Lk~ei~kki~e~~~~~~~kek~ea~~aev~~~g~s~~~~~~~~lkeki~~~~~ 611 (762)
T PLN03229 532 SLKYKLDMLNEFSRAKALSEKKSKAEKLKAEINKKFKEVMDRPEIKEKMEALKAEVASSGASSGDELDDDLKEKVEKMKK 611 (762)
T ss_pred HHHHHHHHHHHHHHhhhhcccchhhhhhhHHHHHHHHHhcccHHHHHHHHHHHHHHHhcCccccCCCCHHHHHHHHHHHH
Confidence 34455555555554222111 22233334555666766 7777777766 67788888888
Q ss_pred HHHHHHHHHHH
Q 027204 202 DVIKYCIGTLV 212 (226)
Q Consensus 202 d~lrwliG~v~ 212 (226)
++-.-+.+++=
T Consensus 612 Ei~~eie~v~~ 622 (762)
T PLN03229 612 EIELELAGVLK 622 (762)
T ss_pred HHHHHHHHHHh
Confidence 87766666553
No 28
>TIGR02054 MerD mercuric resistence transcriptional repressor protein MerD. This model represents a transcriptional repressor protein of the MerR family (pfam00376) whose expression is regulated by the mercury-sensitive transcriptional activator, MerR. MerD has been shown to repress the transcription of the mer operon.
Probab=88.44 E-value=1.9 Score=34.31 Aligned_cols=61 Identities=23% Similarity=0.317 Sum_probs=42.0
Q ss_pred HHhhhccccccc-----cccccccCC-CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204 8 VKLVADSGVRVT-----KSQGFNLNY-SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI 77 (226)
Q Consensus 8 ~~~~~~~~~~~~-----~~~~~~~~~-~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al 77 (226)
+.+..-.|+.+. -..|+=-|. +..+|||.++ ....+.++|++.|...|||-++...++.+.
T Consensus 7 ~elA~~~gvs~~tlR~Ye~~GLL~p~~r~~~gyR~Y~---------~~~l~rL~~I~~lr~~G~~L~eI~~ll~~~ 73 (120)
T TIGR02054 7 SRLAEDAGVSVHVVRDYLLRGLLHPVRRTTSGYGIFD---------DASLQRLRFVRAAFEAGIGLGELARLCRAL 73 (120)
T ss_pred HHHHHHHCcCHHHHHHHHHCCCCCCCccCCCCCeeCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHhh
Confidence 344444555443 223543333 3458999988 346899999999999999999988777654
No 29
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=88.30 E-value=41 Score=36.37 Aligned_cols=10 Identities=30% Similarity=0.554 Sum_probs=4.0
Q ss_pred HHHHHHHHHH
Q 027204 107 ANLSKFKSEV 116 (226)
Q Consensus 107 a~iseLR~El 116 (226)
.++..++.+.
T Consensus 656 ~~~~~l~~~~ 665 (1201)
T PF12128_consen 656 QDLQRLKNER 665 (1201)
T ss_pred HHHHHHHHHH
Confidence 3344444443
No 30
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=88.28 E-value=9.6 Score=30.51 Aligned_cols=34 Identities=21% Similarity=0.335 Sum_probs=20.7
Q ss_pred HHHHHhhHHHHHHHHHHHHHHH----------HHHHHHHHHhHH
Q 027204 168 RDELANQNAETTNLTNKLDREI----------HALRAHMEAAKY 201 (226)
Q Consensus 168 ree~~~~~~kI~e~~~Ki~~eI----------a~LRteIEs~K~ 201 (226)
..+...++.++++++.|-++-+ ..||.+|+.+|+
T Consensus 67 ~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~ 110 (120)
T PF12325_consen 67 KKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKE 110 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHH
Confidence 3445566666667776666543 466666666663
No 31
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=87.89 E-value=5.6 Score=33.78 Aligned_cols=36 Identities=14% Similarity=0.130 Sum_probs=28.0
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEA 72 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAea 72 (226)
.+...|+|.|+ .-.++-++|++.|..+|||-++-..
T Consensus 29 ~R~~~G~R~y~---------~~dl~~L~~I~~l~~~Gm~i~~i~~ 64 (175)
T PRK13182 29 EKNEYGHYIFT---------EEDLQLLEYVKSQIEEGQNMQDTQK 64 (175)
T ss_pred CcCCCCCEEEC---------HHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 44567888887 2235899999999999999887644
No 32
>PF08581 Tup_N: Tup N-terminal; InterPro: IPR013890 The N-terminal region of the Tup protein has been shown to interact with the Ssn6 transcriptional co-repressor []. ; PDB: 3VP9_B 3VP8_B.
Probab=87.53 E-value=9.8 Score=28.31 Aligned_cols=64 Identities=17% Similarity=0.385 Sum_probs=37.1
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
|..+-.+....+..-+.+..++...|..+. .+|.-.-.++..-..+..+-+.||+.||.++|+.
T Consensus 13 f~~~~~e~~~~k~~~~e~e~ki~~Qi~Em~------------~ir~~v~eLE~~h~kmK~~YEeEI~rLr~eLe~r 76 (79)
T PF08581_consen 13 FENLSQEANSYKHQKDEYEHKINSQIQEMQ------------QIRQKVYELEQAHRKMKQQYEEEIARLRRELEQR 76 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHH
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444444444444444444444444442 2555566666666667777788888888888763
No 33
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=87.49 E-value=31 Score=34.43 Aligned_cols=28 Identities=25% Similarity=0.476 Sum_probs=18.6
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEI 149 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI 149 (226)
.|...|+.++.+|..+|..++..+-+|+
T Consensus 169 ~e~~~Lk~en~rl~~~l~~~r~~ld~Et 196 (546)
T KOG0977|consen 169 DELKRLKAENSRLREELARARKQLDDET 196 (546)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 5556677777777777777776555553
No 34
>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=87.31 E-value=2.3 Score=28.30 Aligned_cols=38 Identities=24% Similarity=0.538 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
+.|+..||+.-..+ ++++.+|..|++.|+.++..|+..
T Consensus 4 E~Dy~~LK~~yd~L-k~~~~~L~~E~~~L~aev~~L~~k 41 (45)
T PF02183_consen 4 ERDYDALKASYDSL-KAEYDSLKKENEKLRAEVQELKEK 41 (45)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555554443211 233445555555555555555444
No 35
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=86.75 E-value=23 Score=32.56 Aligned_cols=7 Identities=29% Similarity=0.339 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 027204 191 ALRAHME 197 (226)
Q Consensus 191 ~LRteIE 197 (226)
.+..+|+
T Consensus 255 ~l~~eI~ 261 (325)
T PF08317_consen 255 ELLAEIA 261 (325)
T ss_pred HHHHHHH
Confidence 3444443
No 36
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=86.58 E-value=24 Score=32.54 Aligned_cols=24 Identities=8% Similarity=0.140 Sum_probs=17.4
Q ss_pred CCCChHHHHHHHHHHHHHHHhhHH
Q 027204 63 QGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 63 aGft~~QAeai~~al~~~l~~~l~ 86 (226)
.+++|+.|..|+.++.+..+..++
T Consensus 138 ~~~dP~~A~~ian~l~~~~~~~i~ 161 (362)
T TIGR01010 138 TAFDAEEAQKINQRLLKEGERLIN 161 (362)
T ss_pred EecCHHHHHHHHHHHHHHHHHHHH
Confidence 467899999999999664444443
No 37
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=86.57 E-value=12 Score=29.11 Aligned_cols=57 Identities=16% Similarity=0.342 Sum_probs=31.0
Q ss_pred HHhhhhhhhHHHHHHHHH---HHHHHHHHHHHHhhh-hhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 88 VAHTFVSKGEMQKTEMIQ---EANLSKFKSEVQSSQ-EHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 88 ~~~~lvTK~dle~~~y~~---ka~iseLR~El~~~~-k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
+....++|+|++...-.. ...++.+-+++..+. +.|++.|+-+.+.++.++..++.+
T Consensus 27 l~~~~a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~~l~~~ 87 (106)
T PF10805_consen 27 LRRTYAKREDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELKELSAR 87 (106)
T ss_pred HHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 345678888877654322 333445555554442 455555555555555555555444
No 38
>PF09731 Mitofilin: Mitochondrial inner membrane protein; InterPro: IPR019133 Mitofilin controls mitochondrial cristae morphology. Mitofilin is enriched in the narrow space between the inner boundary and the outer membranes, where it forms a homotypic interaction and assembles into a large multimeric protein complex []. The first 78 amino acids contain a typical amino-terminal-cleavable mitochondrial presequence (residues 1-43) rich in positive-charged and hydroxylated residues and a membrane anchor domain (residues 47-66). In addition, it has three centrally located coiled coil domains (residues 200-240,280-310 and 400-420) []. ; GO: 0031305 integral to mitochondrial inner membrane
Probab=86.51 E-value=29 Score=34.13 Aligned_cols=17 Identities=6% Similarity=0.163 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHHHHhh
Q 027204 103 MIQEANLSKFKSEVQSS 119 (226)
Q Consensus 103 y~~ka~iseLR~El~~~ 119 (226)
.....++..|..++..+
T Consensus 254 ~~a~~~i~~L~~~l~~l 270 (582)
T PF09731_consen 254 AHAKERIDALQKELAEL 270 (582)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33344444444444333
No 39
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=86.36 E-value=6.6 Score=31.52 Aligned_cols=60 Identities=18% Similarity=0.294 Sum_probs=40.4
Q ss_pred HHhhhccccccc-----cccccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 8 VKLVADSGVRVT-----KSQGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 8 ~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
+.+..-+|+.+. -..|.=-| .+..+|||.++ .-.++.+.|++.|...|||-++...++..
T Consensus 4 ge~a~~~gvs~~tLRyYE~~GLl~p~~r~~~gyR~Y~---------~~~v~~l~~I~~lr~~GfsL~eI~~ll~~ 69 (131)
T cd04786 4 GELAKRSGMAASRIRFYEAEGLLSSVERSANGYRDYP---------PETVWVLEIISSAQQAGFSLDEIRQLLPA 69 (131)
T ss_pred HHHHHHHCcCHHHHHHHHHCCCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 344444555443 22333223 44567999887 33588999999999999999988877653
No 40
>PRK11637 AmiB activator; Provisional
Probab=86.20 E-value=13 Score=35.28 Aligned_cols=18 Identities=17% Similarity=0.276 Sum_probs=7.3
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~ 144 (226)
++++...+..+++.+..+
T Consensus 66 ~~~~~~~~~~~l~~l~~q 83 (428)
T PRK11637 66 QQQQRASLLAQLKKQEEA 83 (428)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333344444444333
No 41
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=86.10 E-value=15 Score=29.08 Aligned_cols=65 Identities=23% Similarity=0.460 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHH---HHHHHHHHHHHHHHhH---
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNK---LDREIHALRAHMEAAK--- 200 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~K---i~~eIa~LRteIEs~K--- 200 (226)
+......|.+|+++++.++++--. |-|-+ | .....++-|+-.+ ++..+..|+.+|+.+|
T Consensus 6 ~~~q~~~l~~~v~~lRed~r~SEd------rsa~S------R---a~mhrRlDElV~Rv~~lEs~~~~lk~dVsemKpVT 70 (112)
T PF07439_consen 6 LHQQLGTLNAEVKELREDIRRSED------RSAAS------R---ASMHRRLDELVERVTTLESSVSTLKADVSEMKPVT 70 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH------Hhhhh------h---HHHHHhHHHHHHHHHHHHHHHHHHHhhHHhccchH
Confidence 445566678888888877773222 22211 1 1222233333332 2345567777777766
Q ss_pred HHHHHH
Q 027204 201 YDVIKY 206 (226)
Q Consensus 201 ~d~lrw 206 (226)
-|+.||
T Consensus 71 ~dV~rw 76 (112)
T PF07439_consen 71 DDVKRW 76 (112)
T ss_pred HHHHHH
Confidence 567788
No 42
>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=85.10 E-value=7 Score=30.14 Aligned_cols=40 Identities=15% Similarity=0.249 Sum_probs=32.0
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+...|||.++ .-.++.+.++..|.+.|||-++...++..
T Consensus 30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (113)
T cd01109 30 KRDENGIRDFT---------EEDLEWLEFIKCLRNTGMSIKDIKEYAEL 69 (113)
T ss_pred CcCCCCCccCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 34557888877 34588999999999999999988777654
No 43
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=84.44 E-value=30 Score=35.80 Aligned_cols=31 Identities=23% Similarity=0.490 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHhHHHHHH
Q 027204 175 NAETTNLTNKLDREIH------ALRAHMEAAKYDVIK 205 (226)
Q Consensus 175 ~~kI~e~~~Ki~~eIa------~LRteIEs~K~d~lr 205 (226)
..+|..++..|..+|. +|+..||.+|.++-+
T Consensus 648 k~KIe~L~~eIkkkIe~av~ss~LK~k~E~Lk~Evak 684 (762)
T PLN03229 648 QEKIESLNEEINKKIERVIRSSDLKSKIELLKLEVAK 684 (762)
T ss_pred HHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHh
Confidence 5577777777777764 788888888887743
No 44
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=84.40 E-value=17 Score=28.15 Aligned_cols=25 Identities=20% Similarity=0.437 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHH-HHHHHHHHhC
Q 027204 202 DVIKYCIGTLVSISA-VGLAIVRILM 226 (226)
Q Consensus 202 d~lrwliG~v~~~~a-l~la~~rl~~ 226 (226)
++=.|+.|.+.++++ +++|++|.++
T Consensus 71 ~~KmwilGlvgTi~gsliia~lr~~f 96 (98)
T PF11166_consen 71 DIKMWILGLVGTIFGSLIIALLRTIF 96 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345688888877665 7789998764
No 45
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=84.37 E-value=20 Score=28.97 Aligned_cols=19 Identities=21% Similarity=0.359 Sum_probs=9.1
Q ss_pred hHHHHHhhHHHHHHHHHHH
Q 027204 167 IRDELANQNAETTNLTNKL 185 (226)
Q Consensus 167 ~ree~~~~~~kI~e~~~Ki 185 (226)
++.+......-+..++.||
T Consensus 101 i~~dv~~v~~~V~~Le~ki 119 (126)
T PF07889_consen 101 IGDDVDSVQQMVEGLEGKI 119 (126)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444
No 46
>PRK11546 zraP zinc resistance protein; Provisional
Probab=84.07 E-value=14 Score=30.53 Aligned_cols=31 Identities=16% Similarity=0.404 Sum_probs=18.7
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDK 151 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~k 151 (226)
...+.+|..|+..|+..+...+..+..++.+
T Consensus 88 ~~kI~aL~kEI~~Lr~kL~e~r~~~~~~~~k 118 (143)
T PRK11546 88 SSKINAVAKEMENLRQSLDELRVKRDIAMAE 118 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3346666666666666666666665555554
No 47
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=83.99 E-value=11 Score=30.55 Aligned_cols=40 Identities=20% Similarity=0.233 Sum_probs=30.8
Q ss_pred CCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 27 NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 27 ~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
|.+...|||.++ ...++.+.+++.|.+.|||-++...+..
T Consensus 28 p~r~~~g~R~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~ 67 (134)
T cd04779 28 PERSDSNYRYYD---------ETALDRLQLIEHLKGQRLSLAEIKDQLE 67 (134)
T ss_pred CccCCCCCeeEC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence 444556888877 3468899999999999999887666554
No 48
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=83.82 E-value=24 Score=29.48 Aligned_cols=17 Identities=18% Similarity=0.331 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHhhhh
Q 027204 138 IEKMRSELRYEIDKVTA 154 (226)
Q Consensus 138 ie~L~~~LkeeI~kl~a 154 (226)
.+++.++.-.+...+.+
T Consensus 86 ~~~~~a~~~~~~~~~ea 102 (155)
T PRK06569 86 IDSLESEFLIKKKNLEQ 102 (155)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33444333333333333
No 49
>PRK11637 AmiB activator; Provisional
Probab=83.51 E-value=25 Score=33.28 Aligned_cols=16 Identities=19% Similarity=0.212 Sum_probs=6.9
Q ss_pred hHHHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMR 142 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~ 142 (226)
+..+.+.+..+|+.+.
T Consensus 73 ~~~~l~~l~~qi~~~~ 88 (428)
T PRK11637 73 LLAQLKKQEEAISQAS 88 (428)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444443
No 50
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=83.31 E-value=7.4 Score=31.38 Aligned_cols=40 Identities=18% Similarity=0.301 Sum_probs=32.7
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+..+|||-++ .-.+..+.|++.|...|||-++...+...
T Consensus 30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sl~eI~~~l~~ 69 (135)
T PRK10227 30 MRSENGYRTYT---------QQHLNELTLLRQARQVGFNLEESGELVNL 69 (135)
T ss_pred ccCCCCcccCC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 44578999988 34688999999999999999987776654
No 51
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=83.18 E-value=7.2 Score=32.39 Aligned_cols=35 Identities=20% Similarity=0.375 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHh-hhhhhHHHhHHHHHHHHHHHHHHH
Q 027204 104 IQEANLSKFKSEVQS-SQEHHFSMLQRETEKLRSDIEKMR 142 (226)
Q Consensus 104 ~~ka~iseLR~El~~-~~k~e~~~lr~e~e~Lk~Eie~L~ 142 (226)
+.+.++.++|.|+.. +..+||+. ..+++|.++++.
T Consensus 44 ~l~~Ei~~l~~E~~~iS~qDeFAk----waKl~Rk~~kl~ 79 (161)
T PF04420_consen 44 QLRKEILQLKRELNAISAQDEFAK----WAKLNRKLDKLE 79 (161)
T ss_dssp HHHHHHHHHHHHHTTS-TTTSHHH----HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCcHHHHHH----HHHHHHHHHHHH
Confidence 445556666666543 23445542 344555555443
No 52
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=83.10 E-value=15 Score=31.08 Aligned_cols=46 Identities=13% Similarity=0.177 Sum_probs=26.6
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 172 ANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIV 222 (226)
Q Consensus 172 ~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~ 222 (226)
+.++.+|..+.+++++...+-..+ .++.+|++.+.+-.+..+.+.+
T Consensus 73 aRlnRKi~kl~~ele~qs~n~~~q-----~~~~K~vlSv~f~vl~~~~~~~ 118 (175)
T KOG4253|consen 73 ARLNRKINKLDKELETQSKNKTAQ-----AHLHKWVLSVAFYVLKIMYGKT 118 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhhc
Confidence 344555555555554443333332 4577888888777776666653
No 53
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=83.00 E-value=34 Score=30.57 Aligned_cols=42 Identities=17% Similarity=0.427 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHh------hhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 103 MIQEANLSKFKSEVQS------SQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 103 y~~ka~iseLR~El~~------~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
-.++..+.+++..... .-+.|+..+|.....|+.+++.|+..
T Consensus 191 ~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~~~l~~el~~l~~~ 238 (312)
T PF00038_consen 191 EWYQSKLEELRQQSEKSSEELESAKEELKELRRQIQSLQAELESLRAK 238 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhcccccccccccccccccccchhHhHHHHHHhhhhHhhhhhhccccc
Confidence 3445556665544321 22455556666666666666655543
No 54
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=82.59 E-value=15 Score=26.26 Aligned_cols=36 Identities=17% Similarity=0.402 Sum_probs=20.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-HhHHHHHHHHHHHHHHHHHHH
Q 027204 174 QNAETTNLTNKLDREIHALRAHME-AAKYDVIKYCIGTLVSISAVG 218 (226)
Q Consensus 174 ~~~kI~e~~~Ki~~eIa~LRteIE-s~K~d~lrwliG~v~~~~al~ 218 (226)
.+.+|..++.+|. +|+ ..|| +++-++|.+++++..+
T Consensus 32 ~e~~i~~~~~~l~--------~I~~n~kW-~~r~iiGaiI~~i~~~ 68 (71)
T PF10779_consen 32 NEKDIKNLNKQLE--------KIKSNTKW-IWRTIIGAIITAIIYL 68 (71)
T ss_pred HHHHHHHHHHHHH--------HHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 3444555555543 233 4444 6677888777765433
No 55
>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=82.38 E-value=10 Score=37.03 Aligned_cols=17 Identities=29% Similarity=0.542 Sum_probs=8.0
Q ss_pred hHHHHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMRS 143 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~ 143 (226)
+.++++.|+.|-+.|++
T Consensus 78 l~~~N~~l~~eN~~L~~ 94 (472)
T TIGR03752 78 LISENEALKAENERLQK 94 (472)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444445555444443
No 56
>COG3206 GumC Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]
Probab=82.24 E-value=47 Score=31.66 Aligned_cols=36 Identities=11% Similarity=0.254 Sum_probs=24.8
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD 159 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD 159 (226)
+...+-....++.+++.++..+.+|+.++.+..+-|
T Consensus 308 ~~~~~p~~~~~~~q~~~~~~~~~~e~~~~~~~~~~~ 343 (458)
T COG3206 308 LGAKHPQLVALEAQLAELRQQIAAELRQILASLPNE 343 (458)
T ss_pred hcccChHHHhHHHHHHHHHHHHHHHHHHHHHhchhH
Confidence 334445556677778888888888888777766665
No 57
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=82.10 E-value=6.6 Score=29.77 Aligned_cols=48 Identities=19% Similarity=0.135 Sum_probs=35.9
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITAAIT 78 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~al~ 78 (226)
.|+-.|.+...|+|.|+ ...++.++++..|.+ .|||.+....++....
T Consensus 24 ~Gli~p~r~~~g~R~Ys---------~~dv~~l~~I~~L~~~~G~~l~~i~~~l~l~~ 72 (98)
T cd01279 24 LGLVSPARTNGGGRRYS---------NNDLELLRQVQRLSQDEGFNLAGIKRIIELYP 72 (98)
T ss_pred CCCCCCCcCCCCCeeEC---------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHhhh
Confidence 45445544456888776 446889999999998 9999998887776543
No 58
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=82.08 E-value=35 Score=30.05 Aligned_cols=33 Identities=12% Similarity=0.103 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD 159 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD 159 (226)
-|..-+.|..|+-.|-..||+-......-++-|
T Consensus 161 ~~~~QE~L~~em~~La~~LK~~s~~~~~~l~~D 193 (251)
T PF09753_consen 161 HRNLQEDLTEEMLSLARQLKENSLAFSQILKED 193 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666666666666655555444433
No 59
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=82.06 E-value=41 Score=33.60 Aligned_cols=22 Identities=14% Similarity=0.199 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 027204 97 EMQKTEMIQEANLSKFKSEVQS 118 (226)
Q Consensus 97 dle~~~y~~ka~iseLR~El~~ 118 (226)
.++...-..++..+.|+.+|..
T Consensus 166 ~le~e~~~Lk~en~rl~~~l~~ 187 (546)
T KOG0977|consen 166 ALEDELKRLKAENSRLREELAR 187 (546)
T ss_pred HHHHHHHHHHHHhhhhHHHHHH
Confidence 3444444445555555555443
No 60
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=82.05 E-value=30 Score=29.18 Aligned_cols=35 Identities=0% Similarity=-0.000 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVS 213 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~ 213 (226)
.+.+.+.+..++..+.+|+..|-+.++-+-+.+..
T Consensus 119 ~~A~~e~~~~~aea~~~I~~~k~~a~~~l~~~a~~ 153 (181)
T PRK13454 119 AKADAEIAAKAAESEKRIAEIRAGALESVEEVAKD 153 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555566666666666665555544433
No 61
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=81.78 E-value=63 Score=33.48 Aligned_cols=57 Identities=21% Similarity=0.256 Sum_probs=26.9
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAET 178 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI 178 (226)
.+...++.+.++++++++....+++++-.++....+-+.+.-..+.+.+...+-.++
T Consensus 537 ~~~~~~~~e~~~~~~~l~~~~~~l~~~~~~~~~~~~~~a~~~l~~a~~~~~~~i~~l 593 (782)
T PRK00409 537 EEAEALLKEAEKLKEELEEKKEKLQEEEDKLLEEAEKEAQQAIKEAKKEADEIIKEL 593 (782)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555555555555444444444444433334444433333333
No 62
>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=81.47 E-value=9.7 Score=28.83 Aligned_cols=39 Identities=21% Similarity=0.238 Sum_probs=30.8
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
+...|||.++ ...++.+.++..|...|||-+++..++..
T Consensus 31 ~~~~g~R~y~---------~~di~~l~~i~~lr~~g~~l~~i~~~~~~ 69 (103)
T cd01106 31 RTENGYRLYT---------EEDLERLQQILFLKELGFSLKEIKELLKD 69 (103)
T ss_pred cCCCCceeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHc
Confidence 3456777766 34588999999999999999999887754
No 63
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=81.07 E-value=30 Score=28.62 Aligned_cols=42 Identities=12% Similarity=0.196 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 183 NKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRI 224 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~rl 224 (226)
.+|+..++.++..+...|.-.+-=+++.+++++++++++|-+
T Consensus 102 ~~i~~~~~~~~~~~~~~r~~a~~nl~aa~~~~~aa~v~~~~~ 143 (144)
T PF11657_consen 102 SEIDNSLAEVNDLVREARKAAILNLVAAVLVLLAACVALWVS 143 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666665444444566666666666665543
No 64
>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=80.75 E-value=10 Score=30.17 Aligned_cols=45 Identities=20% Similarity=0.234 Sum_probs=33.4
Q ss_pred cccccCCCCC-cCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLNYSNT-IGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~-~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.|.=-|.+.. +|||-++ .-.++.+.+++.|++.|||-++-..++.
T Consensus 23 ~GLl~p~r~~~~gyR~Y~---------~~~~~~l~~I~~lr~~G~sL~eI~~~l~ 68 (133)
T cd04787 23 IGLLRPTRDPVNGYRLYS---------EKDLSRLRFILSARQLGFSLKDIKEILS 68 (133)
T ss_pred CCCCCCCcCCCCCeeeCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 4444454444 8899887 3458899999999999999988666554
No 65
>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=80.56 E-value=42 Score=33.64 Aligned_cols=37 Identities=19% Similarity=0.181 Sum_probs=17.3
Q ss_pred ccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHH
Q 027204 41 VKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 41 ~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l 81 (226)
.|+.....+.||--+... |...|= .++.|.+++..++
T Consensus 143 lp~~~~~~FfFDGE~I~~-la~~~~---~~~~l~~Ai~~Ll 179 (650)
T TIGR03185 143 LPLELADLFFFDGEKIEA-LANPDR---LASLLKEAIEVLL 179 (650)
T ss_pred CCHhHHHHhcccHHHHHH-Hhcccc---chHHHHHHHHHHh
Confidence 344444455666655443 332222 2234666665554
No 66
>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=80.38 E-value=13 Score=28.76 Aligned_cols=47 Identities=23% Similarity=0.379 Sum_probs=36.3
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI 77 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al 77 (226)
.|+=-|.+...|||.++ .-.+.++.+++.|.+.|||-++...++...
T Consensus 23 ~GLl~p~r~~~g~R~Y~---------~~~~~~l~~I~~lr~~G~sl~eI~~~l~~~ 69 (112)
T cd01282 23 QGLLVPERSANGYRDYD---------EAAVDRVRQIRRLLAAGLTLEEIREFLPCL 69 (112)
T ss_pred CCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHHh
Confidence 35444555667888887 346889999999999999999988877653
No 67
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=80.20 E-value=17 Score=28.64 Aligned_cols=40 Identities=25% Similarity=0.332 Sum_probs=31.9
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+..+|||.++ .-.+..+.+++.|...|||-++...++..
T Consensus 30 ~r~~~g~R~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (126)
T cd04785 30 ARTAGGYRLYG---------AAHVERLRFIRRARDLGFSLEEIRALLAL 69 (126)
T ss_pred CcCCCCccccC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHhh
Confidence 34567899887 23588999999999999999997776654
No 68
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=80.17 E-value=17 Score=26.51 Aligned_cols=58 Identities=29% Similarity=0.341 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhh--hhh--hhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 129 RETEKLRSDIEKMRSELRYEIDKVTAGQR--LDL--NLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 129 ~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k--lDl--NleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
...++|+.|++.|+..-+.++.+--.+.+ .|+ |.+=...++.+..++.+|.+++.+|.
T Consensus 9 ~g~~~L~~EL~~L~~~~rpe~~~~i~~Ar~~GDlsENaeY~aAke~q~~le~rI~~Le~~l~ 70 (74)
T PF03449_consen 9 EGYEKLQAELEHLKNVERPEIAEEIAEAREQGDLSENAEYHAAKERQAFLEARIRELEERLA 70 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCSSSTSSHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCcccchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566777777777644444333333222 244 56666677788888888888777664
No 69
>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=79.85 E-value=11 Score=28.86 Aligned_cols=46 Identities=26% Similarity=0.299 Sum_probs=34.5
Q ss_pred cccccCCCC--CcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLNYSN--TIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~~~~--~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
+|.=-|.++ ..|||.++ ....+.+.+++.|...|||-++...++..
T Consensus 23 ~GLi~p~~~~~~ngyR~Y~---------~~~i~~l~~I~~lr~~G~sl~~i~~l~~~ 70 (108)
T cd01107 23 IGLLKPAYVDPDTGYRYYS---------AEQLERLNRIKYLRDLGFPLEEIKEILDA 70 (108)
T ss_pred cCCCCCCcCCCCCCccccC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 454434332 26899887 45688999999999999999988877654
No 70
>PF09969 DUF2203: Uncharacterized conserved protein (DUF2203); InterPro: IPR018699 This family has no known function.
Probab=79.70 E-value=22 Score=28.38 Aligned_cols=65 Identities=20% Similarity=0.365 Sum_probs=38.7
Q ss_pred CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 65 VPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 65 ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
||.++|.+++-.++..+..- ...++++.++..+++.....- +...++.+++.+.++
T Consensus 3 FTl~EA~~lLP~l~~~~~~~------------------~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~~~~~~~~ 58 (120)
T PF09969_consen 3 FTLEEANALLPLLRPILEEI------------------RELKAELEELEERLQELEDSL------EVNGLEAELEELEAR 58 (120)
T ss_pred cCHHHHHHHHHHHHHHHHHH------------------HHHHHHHHHHHHHHHhccchh------hHHhHHHHHHHHHHH
Confidence 89999999999999886431 233455556655554332111 333455556666666
Q ss_pred HHHHHHhhh
Q 027204 145 LRYEIDKVT 153 (226)
Q Consensus 145 LkeeI~kl~ 153 (226)
+++-++.+.
T Consensus 59 ~~~~i~~i~ 67 (120)
T PF09969_consen 59 LRELIDEIE 67 (120)
T ss_pred HHHHHHHHH
Confidence 655555543
No 71
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=79.70 E-value=18 Score=29.51 Aligned_cols=39 Identities=10% Similarity=0.087 Sum_probs=31.3
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.+..+|||-++ .-...-+.|++.|...|||-++-..++.
T Consensus 37 ~r~~~gyR~Y~---------~~~l~rl~~I~~lr~~G~sL~eI~~ll~ 75 (144)
T PRK13752 37 DKPYGSIRRYG---------EADVTRVRFVKSAQRLGFSLDEIAELLR 75 (144)
T ss_pred ccCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 44567899988 3457889999999999999988776664
No 72
>COG0789 SoxR Predicted transcriptional regulators [Transcription]
Probab=79.68 E-value=20 Score=27.48 Aligned_cols=44 Identities=16% Similarity=0.258 Sum_probs=33.8
Q ss_pred cCCCCC-cCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHH
Q 027204 26 LNYSNT-IGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAIT 78 (226)
Q Consensus 26 ~~~~~~-~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~ 78 (226)
.|.+++ +|||-+| ... +..+.+++.|...|||-++-..++....
T Consensus 27 ~p~~~~~~gyR~Ys--------~~d-l~~l~~I~~~r~~G~~L~~I~~~l~~~~ 71 (124)
T COG0789 27 SPERRDEGGYRYYT--------PED-LELLQIIKTLRELGFSLAEIKELLDLLS 71 (124)
T ss_pred CCcccCCCCceecC--------HHH-HHHHHHHHHHHHcCCCHHHHHHHHhccc
Confidence 344444 5999998 233 8999999999999999988877776644
No 73
>PHA02562 46 endonuclease subunit; Provisional
Probab=79.54 E-value=61 Score=31.26 Aligned_cols=8 Identities=13% Similarity=0.081 Sum_probs=3.4
Q ss_pred cHHHHHHH
Q 027204 52 DTLQLVRG 59 (226)
Q Consensus 52 DT~~fvk~ 59 (226)
|+..++..
T Consensus 114 ~~~~~i~~ 121 (562)
T PHA02562 114 DFQKYFEQ 121 (562)
T ss_pred HHHHHHHH
Confidence 34444444
No 74
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, 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 dissimil
Probab=79.34 E-value=8.6 Score=29.25 Aligned_cols=45 Identities=22% Similarity=0.237 Sum_probs=33.7
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.|.--|.+...|||.++ ...++.+.+++.|.+.|||-++...++.
T Consensus 24 ~Gll~~~r~~~g~R~Y~---------~~dl~~l~~I~~l~~~G~~l~ei~~~~~ 68 (102)
T cd04775 24 IGLIPSARSEANYRLYS---------EADLSRLEKIVFLQAGGLPLEEIAGCLA 68 (102)
T ss_pred CCCCCCCCCCCCCeeeC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHc
Confidence 45543444556888887 3458899999999999999998876543
No 75
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=79.28 E-value=50 Score=35.49 Aligned_cols=17 Identities=12% Similarity=0.165 Sum_probs=10.2
Q ss_pred ccccccccCCCCcceec
Q 027204 35 RQISQLVKSNGKRAFLV 51 (226)
Q Consensus 35 ~~~s~~~~~~~~~~~~F 51 (226)
|.|=++..|...|.+.+
T Consensus 188 R~FL~~~~p~dkYklfm 204 (1074)
T KOG0250|consen 188 RSFLANSNPKDKYKLFM 204 (1074)
T ss_pred HHHHhcCChHHHHHHHH
Confidence 55666666666665443
No 76
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=79.15 E-value=75 Score=32.91 Aligned_cols=6 Identities=33% Similarity=0.672 Sum_probs=3.3
Q ss_pred CCCChH
Q 027204 63 QGVPSK 68 (226)
Q Consensus 63 aGft~~ 68 (226)
.|+|++
T Consensus 492 ~Glp~~ 497 (771)
T TIGR01069 492 YGIPHF 497 (771)
T ss_pred hCcCHH
Confidence 366653
No 77
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote 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 conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=78.79 E-value=12 Score=28.84 Aligned_cols=46 Identities=17% Similarity=0.238 Sum_probs=33.9
Q ss_pred cccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|+=-| .+..+|||.++ .-.+..+.|++.|.+.||+-+.-..++..
T Consensus 23 ~GLl~p~~r~~~g~R~Y~---------~~~l~~l~~I~~lr~~G~~l~~I~~~l~~ 69 (107)
T cd01111 23 RGLLHPVARTEGGYGLFD---------DCALQRLRFVRAAFEAGIGLDELARLCRA 69 (107)
T ss_pred CCCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 455434 34567999888 34688999999999999997776665554
No 78
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=78.61 E-value=82 Score=32.15 Aligned_cols=18 Identities=11% Similarity=0.054 Sum_probs=14.3
Q ss_pred ChHHHHHHHHHHHHHHHh
Q 027204 66 PSKQAEAITAAITEVLND 83 (226)
Q Consensus 66 t~~QAeai~~al~~~l~~ 83 (226)
.|+.|..|+.++.+...+
T Consensus 238 dP~~Aa~ilN~la~~Yi~ 255 (726)
T PRK09841 238 DPQLITRILNSIANNYLQ 255 (726)
T ss_pred CHHHHHHHHHHHHHHHHH
Confidence 478999999988887653
No 79
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=78.32 E-value=56 Score=30.14 Aligned_cols=69 Identities=14% Similarity=0.328 Sum_probs=35.4
Q ss_pred HHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhh-------------hhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 78 TEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQ-------------EHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 78 ~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~-------------k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
+.-+.+--++....||+=++|+|....+.=.+.-|+..|.-++ ..++..++.....|+.+++.|+..
T Consensus 83 k~~l~evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~re~~eK~~elEr~K~~~d~L~~e~~~Lre~ 162 (302)
T PF09738_consen 83 KDSLAEVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQREYREKIRELERQKRAHDSLREELDELREQ 162 (302)
T ss_pred HHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444456677888888888766433333333333332221 134455555555555555555555
Q ss_pred HH
Q 027204 145 LR 146 (226)
Q Consensus 145 Lk 146 (226)
|+
T Consensus 163 L~ 164 (302)
T PF09738_consen 163 LK 164 (302)
T ss_pred HH
Confidence 54
No 80
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=78.22 E-value=12 Score=30.34 Aligned_cols=46 Identities=11% Similarity=0.197 Sum_probs=35.3
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|.=-|.+...|||.++ .-.+..+.+++.|...|||-++...++..
T Consensus 24 ~GLl~p~r~~~g~R~Y~---------~~dl~~l~~I~~lr~~G~sl~eI~~~l~~ 69 (139)
T cd01110 24 KGLIASWRNAGNQRRYP---------RDVLRRIAFIKVAQRLGLSLAEIAEALAT 69 (139)
T ss_pred CCCCCCCcCCCCCeEEC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 45544555667888877 34689999999999999999987776653
No 81
>PRK13749 transcriptional regulator MerD; Provisional
Probab=78.09 E-value=12 Score=29.90 Aligned_cols=63 Identities=24% Similarity=0.283 Sum_probs=43.0
Q ss_pred HHHhhhccccccc-----cccccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHH
Q 027204 7 VVKLVADSGVRVT-----KSQGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAIT 78 (226)
Q Consensus 7 ~~~~~~~~~~~~~-----~~~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~ 78 (226)
.+.+..-.|+.+. -.+|.=-| .+..+|||.++ .-....++|++.+...|||-++...++.+..
T Consensus 6 IgelA~~~gvS~~tiR~YE~~GLl~p~~r~~~gyR~Y~---------~~~l~rL~~I~~~r~~G~sL~eI~~ll~l~~ 74 (121)
T PRK13749 6 VSRLALDAGVSVHIVRDYLLRGLLRPVACTTGGYGLFD---------DAALQRLCFVRAAFEAGIGLDALARLCRALD 74 (121)
T ss_pred HHHHHHHHCCCHHHHHHHHHCCCCCCCCcCCCCCccCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhhhc
Confidence 3444445555443 23454333 24458999887 3357889999999999999999888887753
No 82
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=78.05 E-value=73 Score=31.31 Aligned_cols=23 Identities=22% Similarity=0.440 Sum_probs=11.0
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
..+..|+.+.++.+.++..++++
T Consensus 309 ~~vesL~~ELe~~K~el~~lke~ 331 (522)
T PF05701_consen 309 ASVESLRSELEKEKEELERLKER 331 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555555555555443
No 83
>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=77.87 E-value=19 Score=28.45 Aligned_cols=39 Identities=13% Similarity=0.172 Sum_probs=31.5
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.+..+|||.++ .-.+..+++++.|.+.|||-++-..+..
T Consensus 30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~lG~sL~eI~~~l~ 68 (127)
T TIGR02047 30 ARTDNNYRVYT---------VGHVERLAFIRNCRTLDMSLAEIRQLLR 68 (127)
T ss_pred CcCCCCCCcCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 45567999887 2357889999999999999988777665
No 84
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=77.33 E-value=17 Score=28.21 Aligned_cols=40 Identities=18% Similarity=0.262 Sum_probs=32.5
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+..+|||.++ .-..+.+.+++.|.+.|||-++...++..
T Consensus 30 ~r~~~gyR~Y~---------~~~i~~l~~I~~lr~~G~sl~eI~~~l~~ 69 (123)
T cd04770 30 QRSENGYRLYG---------EADLARLRFIRRAQALGFSLAEIRELLSL 69 (123)
T ss_pred CCCCCCCccCC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 44567899888 34588999999999999999888777764
No 85
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=76.68 E-value=49 Score=28.58 Aligned_cols=12 Identities=17% Similarity=0.349 Sum_probs=4.5
Q ss_pred HhHHHHHHHHHH
Q 027204 198 AAKYDVIKYCIG 209 (226)
Q Consensus 198 s~K~d~lrwliG 209 (226)
.+-..+...++|
T Consensus 175 e~A~~I~~Kllg 186 (204)
T PRK09174 175 ETAAAIVEQLIG 186 (204)
T ss_pred HHHHHHHHHHhC
Confidence 333333334333
No 86
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. 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=75.92 E-value=12 Score=28.56 Aligned_cols=42 Identities=29% Similarity=0.352 Sum_probs=33.0
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEA 72 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAea 72 (226)
.|.--|.+...|||.++ .-..+.+.+++.|.+.|||-++...
T Consensus 24 ~Gll~~~r~~~g~R~Y~---------~~~l~~l~~I~~l~~~G~~l~ei~~ 65 (102)
T cd04789 24 LGLITGTRNANGYRLYP---------DSDLQRLLLIQQLQAGGLSLKECLA 65 (102)
T ss_pred CCCCCCCcCCCCCeeCC---------HHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 46655666678899887 3457899999999999999987544
No 87
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=75.90 E-value=27 Score=33.44 Aligned_cols=17 Identities=18% Similarity=0.186 Sum_probs=7.9
Q ss_pred CCCcCcccccccccCCC
Q 027204 29 SNTIGYRQISQLVKSNG 45 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~ 45 (226)
.+.++||.|.+.+.+.|
T Consensus 119 ~v~skPrEfA~likNkF 135 (395)
T PF10267_consen 119 AVVSKPREFAHLIKNKF 135 (395)
T ss_pred HHHhCcHHHHhcccCCC
Confidence 34445555554444444
No 88
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=75.85 E-value=17 Score=28.66 Aligned_cols=40 Identities=15% Similarity=0.244 Sum_probs=31.6
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+..+|||.++ .-.+..+.|++.|...|||-++...++..
T Consensus 29 ~r~~~g~R~Y~---------~~~l~~l~~I~~l~~~G~sl~eI~~~l~~ 68 (124)
T TIGR02051 29 DRPEGGYRRYP---------EETVKRLRFIKRAQELGFSLEEIGGLLGL 68 (124)
T ss_pred ccCCCCCEeEC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHhc
Confidence 44568899887 23577889999999999999887776653
No 89
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=75.81 E-value=92 Score=31.32 Aligned_cols=24 Identities=17% Similarity=0.400 Sum_probs=12.2
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
.|+..-..|++.|+.+.+.|+..+
T Consensus 301 ~Eie~kEeE~e~lq~~~d~Lk~~I 324 (581)
T KOG0995|consen 301 SEIEEKEEEIEKLQKENDELKKQI 324 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444455555555555555443
No 90
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=75.41 E-value=8.4 Score=29.37 Aligned_cols=39 Identities=21% Similarity=0.170 Sum_probs=27.9
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHH-HhhCCCChHHHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRG-LEAQGVPSKQAEAITAA 76 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~-Le~aGft~~QAeai~~a 76 (226)
+...|||.++ ...++.+.+++. |.+.|||-+++..++..
T Consensus 31 r~~~g~R~Yt---------~~di~~l~~I~~llr~~G~~l~~i~~~l~~ 70 (99)
T cd04765 31 KRAGGRRYYR---------PKDVELLLLIKHLLYEKGYTIEGAKQALKE 70 (99)
T ss_pred CCCCCCeeeC---------HHHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 3455677665 245678888997 58999999888776653
No 91
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=75.11 E-value=15 Score=29.76 Aligned_cols=46 Identities=17% Similarity=0.252 Sum_probs=35.1
Q ss_pred cccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|.=-| .+..+|||.++ .-.+..+.+++.|.+.|||-++...++..
T Consensus 24 ~GLl~p~~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 70 (140)
T PRK09514 24 QGLMDPEVRTEGGYRLYT---------EQDLQRLRFIRRAKQLGFTLEEIRELLSI 70 (140)
T ss_pred CCCCCCcccCCCCCeeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 344444 34568899887 34688999999999999999988777653
No 92
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=75.08 E-value=17 Score=28.70 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=35.2
Q ss_pred ccccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 21 SQGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 21 ~~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+|.--| .+...|||.++ .-....++|++.|...|||-++...++..
T Consensus 22 ~~GLl~p~~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T TIGR02044 22 EKGLIPPPLRSEGGYRTYT---------QQHLDELRLISRARQVGFSLEECKELLNL 69 (127)
T ss_pred HCCCCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 3454434 34568999988 34578899999999999999887776654
No 93
>PF10174 Cast: RIM-binding protein of the cytomatrix active zone; InterPro: IPR019323 This entry represents a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion []. Located at the C terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [].
Probab=74.87 E-value=80 Score=32.93 Aligned_cols=24 Identities=33% Similarity=0.475 Sum_probs=16.2
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
+.+.....+.|+.|++.|+.+|.+
T Consensus 331 l~~ke~~~~~Lqsdve~Lr~rle~ 354 (775)
T PF10174_consen 331 LRAKEQEAEMLQSDVEALRFRLEE 354 (775)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Confidence 344455667777888888877754
No 94
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=74.69 E-value=37 Score=26.17 Aligned_cols=35 Identities=23% Similarity=0.340 Sum_probs=16.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLN 161 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlN 161 (226)
.+.+.+.+..+.+..-.+.+.+...+..+.+-+.+
T Consensus 45 ~~~ea~~~~~e~~~~l~~a~~ea~~i~~~a~~~a~ 79 (132)
T PF00430_consen 45 LKEEAEQLLAEYEEKLAEAREEAQEIIEEAKEEAE 79 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444445555555444444443
No 95
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=74.44 E-value=17 Score=28.87 Aligned_cols=46 Identities=13% Similarity=0.159 Sum_probs=34.8
Q ss_pred cccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|.=-| .+..+|||.++ .-.+..+.+++.|.+.|||-++...++..
T Consensus 24 ~GLl~p~~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sl~eI~~~l~~ 70 (131)
T TIGR02043 24 NGLIKPAGRTDSGYRLYT---------DEDQKRLRFILKAKELGFTLDEIKELLSI 70 (131)
T ss_pred CCCCCCCCcCCCCceecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 344334 34568899887 34688999999999999999988777753
No 96
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=74.37 E-value=1.2e+02 Score=32.43 Aligned_cols=42 Identities=19% Similarity=0.349 Sum_probs=28.2
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhh
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLER 164 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK 164 (226)
+|+.+++.-.++|..--..+.-+|++||..++..++ .+|-++
T Consensus 472 ~dlEalee~~EQL~Esn~ele~DLreEld~~~g~~k-el~~r~ 513 (1243)
T KOG0971|consen 472 GDLEALEEMNEQLQESNRELELDLREELDMAKGARK-ELQKRV 513 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH-HHHHHH
Confidence 566667777777777777777788888888766543 444433
No 97
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators 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 predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=73.92 E-value=13 Score=27.96 Aligned_cols=37 Identities=19% Similarity=0.278 Sum_probs=29.1
Q ss_pred CCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 30 NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 30 ~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
..+|||.++ ....+.+.+++.|.+.|||-++...++.
T Consensus 32 ~~~gyR~Y~---------~~~~~~l~~I~~lr~~G~~l~eI~~~l~ 68 (97)
T cd04782 32 KENGYRYYT---------LEQFEQLDIILLLKELGISLKEIKDYLD 68 (97)
T ss_pred CCCCCccCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 457888887 3457899999999999999877665544
No 98
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=73.83 E-value=10 Score=28.58 Aligned_cols=38 Identities=21% Similarity=0.215 Sum_probs=30.9
Q ss_pred CCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 30 NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 30 ~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
...|||.++ .-.+..+.+++.|.+.|||-++...+...
T Consensus 32 ~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~~l~~I~~~l~~ 69 (96)
T cd04768 32 AENGYRYYS---------YAQLYQLQFILFLRELGFSLAEIKELLDT 69 (96)
T ss_pred CCCCeeeCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 467888887 44688999999999999999987766653
No 99
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=73.83 E-value=51 Score=29.51 Aligned_cols=25 Identities=28% Similarity=0.373 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHH
Q 027204 181 LTNKLDREIHALRAHMEAAKYDVIK 205 (226)
Q Consensus 181 ~~~Ki~~eIa~LRteIEs~K~d~lr 205 (226)
-..+...++..|+.|++++|.|.++
T Consensus 101 elr~~~~~~~~L~~Ev~~L~~DN~k 125 (248)
T PF08172_consen 101 ELRKQQQTISSLRREVESLRADNVK 125 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345556677999999999988654
No 100
>TIGR01005 eps_transp_fam exopolysaccharide transport protein family. The model describes the exopolysaccharide transport protein family in bacteria. The transport protein is part of a large genetic locus which is associated with exopolysaccharide (EPS) biosynthesis. Detailed molecular characterization and gene fusion analysis revealed atleast seven gene products are involved in the overall regulation, which among other things, include exopolysaccharide biosynthesis, property of conferring virulence and exopolysaccharide export.
Probab=73.77 E-value=1.1e+02 Score=31.14 Aligned_cols=29 Identities=17% Similarity=0.357 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 027204 132 EKLRSDIEKMRSELRYEIDKVTAGQRLDL 160 (226)
Q Consensus 132 e~Lk~Eie~L~~~LkeeI~kl~ae~klDl 160 (226)
-.++.+++.|++.+.+|+.++.+..+-+.
T Consensus 319 ~~l~~qi~~l~~~i~~e~~~~~~~~~~~~ 347 (754)
T TIGR01005 319 VAAKSSLADLDAQIRSELQKITKSLLMQA 347 (754)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777777777666554443
No 101
>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=73.68 E-value=35 Score=26.89 Aligned_cols=41 Identities=17% Similarity=0.270 Sum_probs=33.1
Q ss_pred CCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 27 NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 27 ~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
|.+...|||.++ .-.++.+.+++.|...|||-++-..++..
T Consensus 29 ~~r~~~g~R~Y~---------~~~~~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T cd01108 29 PSRSDNGYRVYN---------QRDIEELRFIRRARDLGFSLEEIRELLAL 69 (127)
T ss_pred CCcCCCCceecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 344568999988 34688999999999999999988777653
No 102
>PF15254 CCDC14: Coiled-coil domain-containing protein 14
Probab=72.93 E-value=29 Score=36.08 Aligned_cols=45 Identities=22% Similarity=0.279 Sum_probs=31.2
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~r 168 (226)
+.-||+|+.+|++.+..|.+.|+|.=..-+..=-.|.|+|---.+
T Consensus 389 ~QplrsENaqLrRrLrilnqqlreqe~~~k~~~~~~~n~El~sLq 433 (861)
T PF15254_consen 389 MQPLRSENAQLRRRLRILNQQLREQEKAEKTSGSQDCNLELFSLQ 433 (861)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHhhcccCCCcccchhhHHHH
Confidence 567999999999999999999998433332222256665544433
No 103
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=72.85 E-value=71 Score=28.61 Aligned_cols=93 Identities=20% Similarity=0.392 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh---h-hhhhhhhhhhhhHHHHHhhHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA---G-QRLDLNLERGRIRDELANQNAETTNL 181 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a---e-~klDlNleK~r~ree~~~~~~kI~e~ 181 (226)
++.+..++..+...+ -++..++.+.-++..||..++.++...=.++.+ + -.-+++-|..-.++....++.++.++
T Consensus 37 ~~e~e~~~~~~~~~~-~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l 115 (239)
T COG1579 37 KAELEALNKALEALE-IELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAEL 115 (239)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555554433 445556666666666666666665443333311 1 11235555555566666666665555
Q ss_pred HHH---HHHHHHHHHHHHHHh
Q 027204 182 TNK---LDREIHALRAHMEAA 199 (226)
Q Consensus 182 ~~K---i~~eIa~LRteIEs~ 199 (226)
..+ +..++.+++..+.+.
T Consensus 116 ~~~~~~l~~~i~~l~~~~~~~ 136 (239)
T COG1579 116 MEEIEKLEKEIEDLKERLERL 136 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 433 333344444444433
No 104
>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=72.58 E-value=51 Score=33.83 Aligned_cols=28 Identities=18% Similarity=0.409 Sum_probs=15.2
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYE 148 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~Lkee 148 (226)
|.|+.++|.+++.|+..+..|.+.-..|
T Consensus 459 k~eL~qlr~ene~Lq~Kl~~L~~aRq~D 486 (697)
T PF09726_consen 459 KSELSQLRQENEQLQNKLQNLVQARQQD 486 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666665555554444333
No 105
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=72.56 E-value=27 Score=27.35 Aligned_cols=40 Identities=10% Similarity=0.152 Sum_probs=32.2
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.+..+|||.++ .-.+..+++++.|.+.|||-++...+...
T Consensus 30 ~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (127)
T cd04784 30 ARSANNYRLYD---------EEHLERLLFIRRCRSLDMSLDEIRTLLQL 69 (127)
T ss_pred CcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 34568999888 34588899999999999999988777654
No 106
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=72.24 E-value=87 Score=29.38 Aligned_cols=20 Identities=25% Similarity=0.400 Sum_probs=15.6
Q ss_pred CCChHHHHHHHHHHHHHHHh
Q 027204 64 GVPSKQAEAITAAITEVLND 83 (226)
Q Consensus 64 Gft~~QAeai~~al~~~l~~ 83 (226)
|.+|+.|..++.++.+.+.+
T Consensus 140 ~~dp~~A~~i~n~~~~~y~~ 159 (444)
T TIGR03017 140 GVDPRFAATVANAFAQAYID 159 (444)
T ss_pred CCCHHHHHHHHHHHHHHHHH
Confidence 55789999999988886654
No 107
>KOG0999 consensus Microtubule-associated protein Bicaudal-D [Intracellular trafficking, secretion, and vesicular transport]
Probab=72.14 E-value=1.2e+02 Score=30.84 Aligned_cols=79 Identities=24% Similarity=0.421 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhh---hhhhhhhhhhhhHHHHHhhH---HH-------HHHHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAG---QRLDLNLERGRIRDELANQN---AE-------TTNLTNKLDREIHALR 193 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae---~klDlNleK~r~ree~~~~~---~k-------I~e~~~Ki~~eIa~LR 193 (226)
|.++.-++++++...+.+ ++.+.+..++ ..-+..+++.|.|++++... .+ +.|-|--+...++.||
T Consensus 112 leneLKq~r~el~~~q~E-~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~LR 190 (772)
T KOG0999|consen 112 LENELKQLRQELTNVQEE-NERLEKVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSNLR 190 (772)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHh
Confidence 333333444444433333 3344444443 34467788899999886542 22 2333334444556666
Q ss_pred H---HHHHhHHHHHHH
Q 027204 194 A---HMEAAKYDVIKY 206 (226)
Q Consensus 194 t---eIEs~K~d~lrw 206 (226)
. |.|.+|.++-|.
T Consensus 191 ~sQVEyEglkheikRl 206 (772)
T KOG0999|consen 191 QSQVEYEGLKHEIKRL 206 (772)
T ss_pred hhhhhhhHHHHHHHHH
Confidence 4 556666665443
No 108
>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=72.03 E-value=51 Score=27.51 Aligned_cols=45 Identities=13% Similarity=0.184 Sum_probs=32.9
Q ss_pred cccccC-CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLN-YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~-~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.|.=-| .+..+|||-++ .-.+..+.+++.|.+.|||-++...++.
T Consensus 24 ~GLl~p~~r~~~gyR~Y~---------~~dl~rL~~I~~lr~~G~sL~eI~~ll~ 69 (172)
T cd04790 24 IGLLSPSARSESNYRLYG---------ERDLERLEQICAYRSAGVSLEDIRSLLQ 69 (172)
T ss_pred CCCCCCCccCCCCCccCC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 344334 34568999887 2347889999999999999888666654
No 109
>PF14723 SSFA2_C: Sperm-specific antigen 2 C-terminus
Probab=71.77 E-value=20 Score=30.62 Aligned_cols=43 Identities=9% Similarity=0.193 Sum_probs=30.7
Q ss_pred HHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 112 FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 112 LR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
+=.+|.--+|.|...|.+-.+.++.|+..|+..|.|....++.
T Consensus 135 vy~hMSeeER~EaeQLQsLR~avRqElqELE~QL~DRl~~l~e 177 (179)
T PF14723_consen 135 VYRHMSEEEREEAEQLQSLRSAVRQELQELEFQLEDRLLQLRE 177 (179)
T ss_pred HHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3344445567777778888888888888888888877766643
No 110
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=71.59 E-value=31 Score=27.08 Aligned_cols=41 Identities=15% Similarity=0.215 Sum_probs=32.1
Q ss_pred CCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 27 NYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 27 ~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
|.+...|||.++ ...+..+.+++.|...|||-++...++..
T Consensus 29 ~~r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (126)
T cd04783 29 PPRPEGGYRRYP---------EETVTRLRFIKRAQELGFTLDEIAELLEL 69 (126)
T ss_pred CCcCCCCCeecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 445567888887 34688899999999999999887666653
No 111
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=71.58 E-value=51 Score=26.46 Aligned_cols=7 Identities=14% Similarity=0.311 Sum_probs=2.5
Q ss_pred HHHHHhh
Q 027204 146 RYEIDKV 152 (226)
Q Consensus 146 keeI~kl 152 (226)
+.++..+
T Consensus 95 ~~ea~~~ 101 (156)
T PRK05759 95 EAEAARI 101 (156)
T ss_pred HHHHHHH
Confidence 3333333
No 112
>TIGR03017 EpsF chain length determinant protein EpsF. Sequences in this family of proteins are members of the chain length determinant family (pfam02706) which includes the wzc protein from E.coli. This family of proteins are homologous to the EpsF protein of the methanolan biosynthesis operon of Methylobacillus species strain 12S. The distribution of this protein appears to be restricted to a subset of exopolysaccharide operons containing a syntenic grouping of genes including a variant of the EpsH exosortase protein. Exosortase has been proposed to be involved in the targetting and processing of proteins containing the PEP-CTERM domain to the exopolysaccharide layer.
Probab=71.26 E-value=91 Score=29.22 Aligned_cols=28 Identities=29% Similarity=0.457 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhh
Q 027204 133 KLRSDIEKMRSELRYEIDKVTAGQRLDL 160 (226)
Q Consensus 133 ~Lk~Eie~L~~~LkeeI~kl~ae~klDl 160 (226)
.++.+++.++..+..++.++...++-++
T Consensus 286 ~l~~~i~~l~~~l~~e~~~~~~~~~~~~ 313 (444)
T TIGR03017 286 RAQAEINSLKSQLNAEIKKVTSSVGTNS 313 (444)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556677777777777776666554443
No 113
>cd01104 HTH_MlrA-CarA Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA- and CarA-like proteins in this group appear to lack the long dimerization helix seen i
Probab=70.82 E-value=6.3 Score=27.03 Aligned_cols=43 Identities=33% Similarity=0.363 Sum_probs=29.5
Q ss_pred ccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHH
Q 027204 23 GFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAIT 74 (226)
Q Consensus 23 ~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~ 74 (226)
|+..|.+...++|.++ .-.++.+..++.|.+.|||.+++..+.
T Consensus 25 g~~~~~r~~~~~r~yt---------~~~v~~l~~i~~l~~~g~~l~~i~~~~ 67 (68)
T cd01104 25 GLPAPQRTDGGHRLYS---------EADVARLRLIRRLTSEGVRISQAAALA 67 (68)
T ss_pred CCCCCCcCCCCCeecC---------HHHHHHHHHHHHHHHCCCCHHHHHHHh
Confidence 4433333445666665 124778999999999999999877653
No 114
>cd01105 HTH_GlnR-like Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator GlnR and related proteins, N-terminal domain. The GlnR and TnrA (also known as ScgR) proteins have been shown to regulate expression of glutamine synthetase as well as several genes involved in nitrogen metabolism. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=70.78 E-value=6.4 Score=29.20 Aligned_cols=47 Identities=21% Similarity=0.190 Sum_probs=35.0
Q ss_pred ccccccCCCCCc-CcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 21 SQGFNLNYSNTI-GYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 21 ~~~~~~~~~~~~-~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
..|+-.|.+... |||.++ .-.++.+.+++.|.+.|||.+++..++..
T Consensus 23 ~~Gll~p~r~~~~g~R~Ys---------~~dv~~l~~I~~Lr~~G~sl~~i~~~l~~ 70 (88)
T cd01105 23 EKGLIKSIRSDGGGQRKYS---------LADVDRLLVIKELLDEGFTLAAAVEKLRR 70 (88)
T ss_pred HCCCCCCCccCCCCceecC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence 356555555554 888776 23578899999999999999988777763
No 115
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=70.70 E-value=1.2e+02 Score=30.33 Aligned_cols=40 Identities=18% Similarity=0.459 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhh
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQ 174 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~ 174 (226)
.+.|+++|+++++.+.+++++ .+-|++..+..++.+.+++
T Consensus 217 ~~~e~d~lk~e~~~~~~~i~~-~~~~l~~~~~~~~~~~~~l 256 (555)
T TIGR03545 217 IKEEFDKLKKEGKADKQKIKS-AKNDLQNDKKQLKADLAEL 256 (555)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHHHHHHHHHH
Confidence 444555555555444444433 2224444444444444433
No 116
>COG4550 Predicted membrane protein [Function unknown]
Probab=70.55 E-value=54 Score=26.30 Aligned_cols=73 Identities=18% Similarity=0.321 Sum_probs=54.6
Q ss_pred HHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHH--HHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Q 027204 144 ELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDRE--IHALRAHMEAAKYDVIKYCIGTLVSISAV 217 (226)
Q Consensus 144 ~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~e--Ia~LRteIEs~K~d~lrwliG~v~~~~al 217 (226)
++..-++.+++-.|.-.|+++-.=.+-++.-+.+|++++.+|+.- |.+.|+..+.+ .|+++|+.+.+-..+.-
T Consensus 39 ~v~~~~~~iK~lQKeAVn~q~y~K~eAlkqses~i~~le~ei~~~PlVeefr~sq~da-NdLlQ~it~tie~~vn~ 113 (120)
T COG4550 39 KVKTKVDEIKKLQKEAVNLQHYDKEEALKQSESKIDELEAEIDHLPLVEEFRTSQEDA-NDLLQYITKTIETQVND 113 (120)
T ss_pred HHHHHHHHHHHHHHhhHHHHHhhHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHhH-HHHHHHHHHHHHHHHHH
Confidence 334445555555666778777777777788889999999988864 56888877776 68999999998776654
No 117
>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=70.51 E-value=36 Score=26.33 Aligned_cols=37 Identities=24% Similarity=0.314 Sum_probs=29.7
Q ss_pred CcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 31 TIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 31 ~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
..|||.++ .-.+..+.+++.|.+.|||-++-..++..
T Consensus 32 ~~~yR~Y~---------~~d~~~l~~I~~lr~~G~sl~eI~~~l~~ 68 (116)
T cd04769 32 SGNYRVYD---------AQHVECLRFIKEARQLGFTLAELKAIFAG 68 (116)
T ss_pred CCCceeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 33788887 34578899999999999999988777654
No 118
>KOG0971 consensus Microtubule-associated protein dynactin DCTN1/Glued [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=70.50 E-value=1.6e+02 Score=31.67 Aligned_cols=77 Identities=17% Similarity=0.349 Sum_probs=44.5
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHH---HH---------HHHhhhhhhhhhhhhhhhhhHHHHHhhH------HHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSEL---RY---------EIDKVTAGQRLDLNLERGRIRDELANQN------AETTNLT 182 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~L---ke---------eI~kl~ae~klDlNleK~r~ree~~~~~------~kI~e~~ 182 (226)
++|.+.|+.--|.|+++++.++..+ ++ ++-...+|-++++..+-...++++.+++ -+++|.|
T Consensus 409 ~sE~~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAlGAE~MV~qLtdknlnlEekVklLeetv~dlEalee~~EQL~Esn 488 (1243)
T KOG0971|consen 409 NSELEELRRQKERLSRELDQAESTIADLKEQVDAALGAEEMVEQLTDKNLNLEEKVKLLEETVGDLEALEEMNEQLQESN 488 (1243)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5778888888888888888887654 33 3333444555555544444555554443 2333333
Q ss_pred HHHHHHHHHHHHHHHHhH
Q 027204 183 NKLDREIHALRAHMEAAK 200 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K 200 (226)
..... +||.||+.+|
T Consensus 489 ~ele~---DLreEld~~~ 503 (1243)
T KOG0971|consen 489 RELEL---DLREELDMAK 503 (1243)
T ss_pred HHHHH---HHHHHHHHHh
Confidence 33222 6777777653
No 119
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. 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. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=70.35 E-value=18 Score=27.81 Aligned_cols=47 Identities=19% Similarity=0.232 Sum_probs=35.0
Q ss_pred cccccCCCC-CcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204 22 QGFNLNYSN-TIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAI 77 (226)
Q Consensus 22 ~~~~~~~~~-~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al 77 (226)
.|+--|.+. .+|||-++ ...+..+.+++.|.+.|||-++...++...
T Consensus 23 ~Gll~p~~~~~~g~R~Y~---------~~dl~~l~~I~~lr~~G~~l~~I~~~l~~~ 70 (108)
T cd04773 23 EGLLSPDREPETGYRVYD---------PSDVRDARLIHLLRRGGYLLEQIATVVEQL 70 (108)
T ss_pred CCCCCCCcCCCCCceeeC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHHh
Confidence 455444343 36888887 346889999999999999999887777653
No 120
>KOG3385 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=70.34 E-value=51 Score=26.46 Aligned_cols=71 Identities=11% Similarity=0.166 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 027204 136 SDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYC 207 (226)
Q Consensus 136 ~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwl 207 (226)
+|-|+.-..|++.+..++. +-+|++.|-.-....+..++.....+.-.+.-....+++--.....-++-|+
T Consensus 32 ~ENee~~e~L~~kV~aLKs-Ls~dIg~Ev~~qnklld~mdddfdsts~~L~gtm~r~~~~ar~sg~~l~~~m 102 (118)
T KOG3385|consen 32 RENEEAAESLQQKVKALKS-LSLDIGDEVRTQNKLLDGMDDDFDSTSGFLSGTMGRLKTMARRSGISLLCWM 102 (118)
T ss_pred hhhHHHHHHHHHHHHHHHH-HHHHhccccchHHHHHHHhccchhhhHHHHHHHHHHHHHHHhcCCcchHHHH
Confidence 3333444444555655654 6677765433333333444444444444444444445444333333445554
No 121
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=70.01 E-value=18 Score=27.46 Aligned_cols=44 Identities=16% Similarity=0.187 Sum_probs=29.5
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.|.=-| +...|||.++. -.+..++|++.|++.|||-++-..++.
T Consensus 23 ~GLl~p-~~~~g~r~Y~~---------~~~~~l~~I~~lr~~G~sL~eI~~~l~ 66 (107)
T cd04777 23 LGLLIP-EKKGGQYFFDE---------KCQDDLEFILELKGLGFSLIEIQKIFS 66 (107)
T ss_pred CCCcCC-ccCCCccccCH---------HHHHHHHHHHHHHHCCCCHHHHHHHHH
Confidence 344334 33467665541 235789999999999999887665554
No 122
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=69.79 E-value=53 Score=26.66 Aligned_cols=21 Identities=14% Similarity=0.423 Sum_probs=9.7
Q ss_pred hhhHHHhHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKM 141 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L 141 (226)
+.|+..|+..++.|.++++.|
T Consensus 108 ~~dv~~L~~rId~L~~~v~~l 128 (132)
T PF05597_consen 108 RKDVEALSARIDQLTAQVERL 128 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444443
No 123
>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=69.77 E-value=79 Score=32.48 Aligned_cols=14 Identities=36% Similarity=0.603 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHH
Q 027204 185 LDREIHALRAHMEA 198 (226)
Q Consensus 185 i~~eIa~LRteIEs 198 (226)
=|.||.+||+.|+.
T Consensus 641 ~d~ei~~lk~ki~~ 654 (697)
T PF09726_consen 641 KDKEIEELKAKIAQ 654 (697)
T ss_pred HHHHHHHHHHHHHH
Confidence 35566666666553
No 124
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=69.70 E-value=96 Score=31.97 Aligned_cols=31 Identities=16% Similarity=0.190 Sum_probs=25.3
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 027204 172 ANQNAETTNLTNKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 172 ~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d 202 (226)
..|...|+++-.+...+|.++-.+|...|..
T Consensus 684 ~~Q~~~I~~iL~~~~~~I~~~v~~ik~i~~~ 714 (717)
T PF10168_consen 684 ESQKRTIKEILKQQGEEIDELVKQIKNIKKI 714 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5677888888888899999888888877654
No 125
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=69.49 E-value=1.2e+02 Score=30.05 Aligned_cols=14 Identities=0% Similarity=0.150 Sum_probs=7.7
Q ss_pred HHHHHHHHHHHHHH
Q 027204 104 IQEANLSKFKSEVQ 117 (226)
Q Consensus 104 ~~ka~iseLR~El~ 117 (226)
..+.++++|-.++.
T Consensus 491 ~~~~~i~El~~~l~ 504 (622)
T COG5185 491 NLKHDINELTQILE 504 (622)
T ss_pred hHHhHHHHHHHHHH
Confidence 34556666655554
No 126
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=69.34 E-value=1.3e+02 Score=31.21 Aligned_cols=14 Identities=50% Similarity=0.902 Sum_probs=7.3
Q ss_pred hhhhhhhhHHHHHh
Q 027204 160 LNLERGRIRDELAN 173 (226)
Q Consensus 160 lNleK~r~ree~~~ 173 (226)
+..++.+.|++++.
T Consensus 74 ~e~~~~~lr~e~ke 87 (717)
T PF09730_consen 74 LELERKRLREEIKE 87 (717)
T ss_pred HHHHHHHHHHHHHH
Confidence 34455555555543
No 127
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=68.83 E-value=53 Score=30.25 Aligned_cols=16 Identities=19% Similarity=0.324 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHhHHHH
Q 027204 188 EIHALRAHMEAAKYDV 203 (226)
Q Consensus 188 eIa~LRteIEs~K~d~ 203 (226)
-.=+||..||.+|-++
T Consensus 271 ~~vElK~~IEqmREQV 286 (290)
T COG1561 271 AVVELKVLIEQMREQV 286 (290)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3336777777776543
No 128
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=68.76 E-value=19 Score=25.09 Aligned_cols=25 Identities=16% Similarity=0.466 Sum_probs=17.9
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
.++.+|++++.++.+++.+++.+++
T Consensus 15 ~i~tvk~en~~i~~~ve~i~envk~ 39 (55)
T PF05377_consen 15 SINTVKKENEEISESVEKIEENVKD 39 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3667777777788888887776543
No 129
>PRK11415 hypothetical protein; Provisional
Probab=68.71 E-value=16 Score=26.57 Aligned_cols=35 Identities=23% Similarity=0.344 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 105 QEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 105 ~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
++..|++|+.+ ..+|+.|..+...|.++|..+...
T Consensus 5 ~~d~I~~Lk~~-----D~~F~~L~~~h~~Ld~~I~~lE~~ 39 (74)
T PRK11415 5 YRDLISRLKNE-----NPRFMSLFDKHNKLDHEIARKEGS 39 (74)
T ss_pred HHHHHHHHHhc-----CHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45556677665 678899999988888888887664
No 130
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=68.69 E-value=1.8e+02 Score=31.53 Aligned_cols=9 Identities=44% Similarity=0.626 Sum_probs=3.5
Q ss_pred HHHHHHHHH
Q 027204 189 IHALRAHME 197 (226)
Q Consensus 189 Ia~LRteIE 197 (226)
|.+|+..|+
T Consensus 445 i~~l~k~i~ 453 (1074)
T KOG0250|consen 445 ILQLRKKIE 453 (1074)
T ss_pred HHHHHHHHH
Confidence 333333333
No 131
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=68.35 E-value=11 Score=28.44 Aligned_cols=38 Identities=13% Similarity=0.094 Sum_probs=30.9
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
+...|||.++ .-.+..+.+++.|.+.|||-++...+..
T Consensus 31 r~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~~l~eI~~~l~ 68 (96)
T cd04788 31 RTEGGHRLYD---------RADIRRLHQIIALRRLGFSLREIGRALD 68 (96)
T ss_pred cCCCCceeeC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 4467888887 3468899999999999999988777664
No 132
>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=67.70 E-value=1.4e+02 Score=29.95 Aligned_cols=59 Identities=20% Similarity=0.205 Sum_probs=36.9
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTN 183 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~ 183 (226)
....+.+.++|+.|+..+...++++-..-. -++.+++-++.-.+-.+...+.+|+|++.
T Consensus 366 ~e~~k~~ie~L~~el~~~e~~lqEer~E~q-kL~~ql~ke~D~n~vqlsE~~rel~Elks 424 (546)
T PF07888_consen 366 AEADKDEIEKLSRELQMLEEHLQEERMERQ-KLEKQLGKEKDCNRVQLSENRRELQELKS 424 (546)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 344456677788888777777776643322 24456666666666566666666666665
No 133
>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=67.48 E-value=1.1e+02 Score=28.80 Aligned_cols=10 Identities=20% Similarity=0.381 Sum_probs=5.6
Q ss_pred cccccccCCC
Q 027204 20 KSQGFNLNYS 29 (226)
Q Consensus 20 ~~~~~~~~~~ 29 (226)
|..||.+.+|
T Consensus 115 ~~~~F~~~~p 124 (359)
T PF10498_consen 115 KRKNFKWKRP 124 (359)
T ss_pred HhcCcCccCC
Confidence 4455665555
No 134
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=67.24 E-value=25 Score=23.02 Aligned_cols=8 Identities=38% Similarity=0.791 Sum_probs=3.4
Q ss_pred HHHHHHHH
Q 027204 109 LSKFKSEV 116 (226)
Q Consensus 109 iseLR~El 116 (226)
+..+|.|+
T Consensus 5 le~~KqEI 12 (40)
T PF08776_consen 5 LERLKQEI 12 (40)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 33444443
No 135
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=66.71 E-value=7 Score=26.84 Aligned_cols=39 Identities=18% Similarity=0.303 Sum_probs=28.8
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
+...|+|.|+ ......+..+..|.+.|||.+++..+++.
T Consensus 31 ~~~~g~r~y~---------~~dl~~l~~i~~lr~~g~~~~~i~~~l~l 69 (70)
T smart00422 31 RTEGGYRLYS---------DEDLERLRFIKRLKELGFSLEEIKELLEL 69 (70)
T ss_pred cCCCCCEecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHhc
Confidence 3455666555 23456788899999999999999887753
No 136
>PF05615 THOC7: Tho complex subunit 7; InterPro: IPR008501 The Tho complex (THOC) is involved in transcription elongation and mRNA export from the nucleus []. This entry represents the subunit THOC7, which is found in higher eukaryotes, and the non-homologous subunit Mft1p found in yeast. The funtions of these subunits are unknown, and it is not known if these subunits are functionally equivalent.
Probab=66.56 E-value=57 Score=26.00 Aligned_cols=27 Identities=19% Similarity=0.401 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 177 ETTNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 177 kI~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
..+..+.+|+.+|.+++.+|+.+|.++
T Consensus 78 ~Y~~~~~~i~~~i~~~k~~ie~lk~~L 104 (139)
T PF05615_consen 78 NYEQLNEEIEQEIEQAKKEIEELKEEL 104 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555666666666666666665544
No 137
>cd04774 HTH_YfmP Helix-Turn-Helix DNA binding domain of the YfmP transcription regulator. Helix-turn-helix (HTH) transcription regulator, YfmP, and related proteins; N-terminal domain. YfmP regulates the multidrug efflux protein, YfmO, and indirectly regulates the expression of the Bacillus subtilis copZA operon encoding a metallochaperone, CopZ, and a CPx-type ATPase efflux protein, CopA. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=66.39 E-value=11 Score=28.51 Aligned_cols=50 Identities=16% Similarity=0.076 Sum_probs=38.7
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITAAITEV 80 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~al~~~ 80 (226)
.|.-.|.+...|||-|+ ...+..++++..|.+ .|||.+++..++....+.
T Consensus 23 ~Gll~p~r~~~g~R~Y~---------~~dv~~l~~I~~L~~~~G~~l~ei~~~l~~~~~~ 73 (96)
T cd04774 23 IGLVSPERSEGRYRLYS---------EEDLKRLERILRLREVLGFSLQEVTHFLERPLEP 73 (96)
T ss_pred CCCCCCCcCCCCCEEEC---------HHHHHHHHHHHHHHHHcCCCHHHHHHHHhccccc
Confidence 45555656667888777 345889999999999 999999998888776544
No 138
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=66.39 E-value=29 Score=28.72 Aligned_cols=46 Identities=11% Similarity=0.176 Sum_probs=33.7
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
.|.=-|.+...|||.++. ..+..+.|++.|.+.|||-++-..++..
T Consensus 34 ~GLi~~~r~~~g~R~Y~~---------~~i~~L~~I~~lr~lG~sL~eIk~ll~~ 79 (154)
T PRK15002 34 KGLITSIRNSGNQRRYKR---------DVLRYVAIIKIAQRIGIPLATIGEAFGV 79 (154)
T ss_pred CCCCCCccCCCCCEEECH---------HHHHHHHHHHHHHHcCCCHHHHHHHHHH
Confidence 343344455668888772 3488999999999999999886666654
No 139
>cd04763 HTH_MlrA-like Helix-Turn-Helix DNA binding domain of MlrA-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MlrA (merR-like regulator A) and related proteins, N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. Its close homolog, CarA from Myxococcus xanthus, is involved in activation of the carotenoid biosynthesis genes by light. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen
Probab=65.76 E-value=8 Score=26.87 Aligned_cols=43 Identities=14% Similarity=0.161 Sum_probs=32.1
Q ss_pred ccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHH
Q 027204 23 GFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAIT 74 (226)
Q Consensus 23 ~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~ 74 (226)
|+.-|.+...|+|.|+ ....+.+..++.|.+.|||-+++..++
T Consensus 25 gl~~~~r~~~g~R~yt---------~~di~~l~~i~~l~~~g~~l~~i~~~l 67 (68)
T cd04763 25 GLLKPQRSDGGHRLFN---------DADIDRILEIKRWIDNGVQVSKVKKLL 67 (68)
T ss_pred CCCCCCcCCCCCcccC---------HHHHHHHHHHHHHHHcCCCHHHHHHHh
Confidence 5444545667888776 335788999999999999999886653
No 140
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=65.58 E-value=1.6e+02 Score=30.05 Aligned_cols=26 Identities=42% Similarity=0.687 Sum_probs=15.0
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRSELRYE 148 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~Lkee 148 (226)
++..++.+++.|+.+++.++.+++.+
T Consensus 444 ~~ee~k~eie~L~~~l~~~~r~~~~~ 469 (652)
T COG2433 444 ELEELKREIEKLESELERFRREVRDK 469 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566666666666666665544
No 141
>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=65.55 E-value=93 Score=27.14 Aligned_cols=28 Identities=21% Similarity=0.412 Sum_probs=13.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDK 151 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~k 151 (226)
+..++.+.+..+..++.+++.+...-..
T Consensus 79 i~~~~~~i~~~r~~l~~~~~~l~~~~~~ 106 (302)
T PF10186_consen 79 IERLRKRIEQKRERLEELRESLEQRRSR 106 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555444444333
No 142
>PF04582 Reo_sigmaC: Reovirus sigma C capsid protein; InterPro: IPR007662 Protein sigmaC in its native state was shown to be a homotrimer. It was demonstrated that the sigmaC subunits are not covalently bound via disulphide linkages and the formation of an intrachain disulphide bond between the two cysteine residues of the sigmaC polypeptide may have a negative effect on oligomer stability. The susceptibility of the trimer to pH, temperature, ionic strength, chemical denaturants and detergents indicates that hydrophobic interactions contribute much more to oligomer stability than do ionic interactions and hydrogen bonding [].; PDB: 2VRS_C 2JJL_A 2BSF_A 2BT7_A 2BT8_A.
Probab=65.43 E-value=8 Score=36.10 Aligned_cols=19 Identities=16% Similarity=0.307 Sum_probs=0.0
Q ss_pred CCCChHHHHHHHHHHHHHH
Q 027204 63 QGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 63 aGft~~QAeai~~al~~~l 81 (226)
+|++|.|=+.++..+-.+.
T Consensus 2 ~gLsp~QRREVV~LILslT 20 (326)
T PF04582_consen 2 AGLSPSQRREVVGLILSLT 20 (326)
T ss_dssp -------------------
T ss_pred CCCCHHHHHHHHHhhhccc
Confidence 5899999999888876653
No 143
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=65.25 E-value=43 Score=28.56 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 131 TEKLRSDIEKMRSELRYEIDKVTAG 155 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~LkeeI~kl~ae 155 (226)
..+|.+.+|..+++|++||.++..+
T Consensus 111 f~rL~~~Vd~~~~eL~~eI~~L~~~ 135 (171)
T PF04799_consen 111 FARLCQQVDQTKNELEDEIKQLEKE 135 (171)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456677777777777777777553
No 144
>PF09677 TrbI_Ftype: Type-F conjugative transfer system protein (TrbI_Ftype); InterPro: IPR014115 This entry represents TrbI, an essential component of the F-type conjugative transfer system for plasmid DNA transfer that has been shown to be localized to the periplasm [, ].
Probab=65.20 E-value=23 Score=27.90 Aligned_cols=42 Identities=26% Similarity=0.339 Sum_probs=34.9
Q ss_pred cceeccHHH----HHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHH
Q 027204 47 RAFLVDTLQ----LVRGLEAQGVPSKQAEAITAAITEVLNDSLENV 88 (226)
Q Consensus 47 ~~~~FDT~~----fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~ 88 (226)
....||--+ |++++-+.+.||+|.++.+......++..+...
T Consensus 32 ~iV~~dl~~tv~~f~~~~a~~~lt~~q~~a~t~~F~~aL~~~L~~~ 77 (111)
T PF09677_consen 32 RIVTFDLKGTVDEFVQQLARSSLTPEQVEALTQRFMQALEASLAEY 77 (111)
T ss_pred ceEEeeHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 578899764 677788899999999999999999988777553
No 145
>KOG0933 consensus Structural maintenance of chromosome protein 2 (chromosome condensation complex Condensin, subunit E) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=65.19 E-value=2.1e+02 Score=31.04 Aligned_cols=56 Identities=13% Similarity=0.217 Sum_probs=39.2
Q ss_pred hhhhhHHHhHHHHHHHHHHHHHHHHHHHHH----------HHhhhhhhhhhhhhhhhhhHHHHHhh
Q 027204 119 SQEHHFSMLQRETEKLRSDIEKMRSELRYE----------IDKVTAGQRLDLNLERGRIRDELANQ 174 (226)
Q Consensus 119 ~~k~e~~~lr~e~e~Lk~Eie~L~~~Lkee----------I~kl~ae~klDlNleK~r~ree~~~~ 174 (226)
++-+++..+-.++..+..+++.+++.+++. |..+.+..+-+.+.+.+|.++..+.+
T Consensus 731 ~~~~e~~~~~~~~~~~~e~v~e~~~~Ike~~~~~k~~~~~i~~lE~~~~d~~~~re~rlkdl~kei 796 (1174)
T KOG0933|consen 731 LEQNEFHKLLDDLKELLEEVEESEQQIKEKERALKKCEDKISTLEKKMKDAKANRERRLKDLEKEI 796 (1174)
T ss_pred HhcChHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHhHHHHHHHHH
Confidence 345788888899999999999999988764 44444455555566666666655444
No 146
>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=64.97 E-value=43 Score=32.88 Aligned_cols=58 Identities=17% Similarity=0.290 Sum_probs=31.9
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki 185 (226)
=..|+.|+++|+..-..+.+++...++..+. ++..++...+++.+.....++++..++
T Consensus 82 N~~l~~eN~~L~~r~~~id~~i~~av~~~~~----~~~~~~~ql~~~~~~~~~~l~~l~~~l 139 (472)
T TIGR03752 82 NEALKAENERLQKREQSIDQQIQQAVQSETQ----ELTKEIEQLKSERQQLQGLIDQLQRRL 139 (472)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHhhhH----HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457778888888777777776666655543 232233333344444444444444333
No 147
>PRK14074 rpsF 30S ribosomal protein S6; Provisional
Probab=64.95 E-value=89 Score=28.22 Aligned_cols=42 Identities=14% Similarity=0.253 Sum_probs=30.9
Q ss_pred hCCCChHHHHHHHHHHHHHHHhhHH-----------HHHhhhhhhhHHHHHHH
Q 027204 62 AQGVPSKQAEAITAAITEVLNDSLE-----------NVAHTFVSKGEMQKTEM 103 (226)
Q Consensus 62 ~aGft~~QAeai~~al~~~l~~~l~-----------~~~~~lvTK~dle~~~y 103 (226)
..|++..|+|.+++-+..++.++-. .-..+-+||.|+|-..-
T Consensus 11 ~q~ls~~q~e~l~e~~~~~l~~~~~~v~~~e~wG~~~~~~~~~~~~~~~~~~~ 63 (257)
T PRK14074 11 QQGLLQQEVEEMVQELAVLLKNIKADVMFQQIKGILEKGNDKLTKQELEVRAE 63 (257)
T ss_pred cccccHHHHHHHHHHHHHHHHhcCCeeehhhhhhhhhcccchhhHHHHHhhHH
Confidence 5689999999999999999876532 22356678888765443
No 148
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=64.55 E-value=33 Score=33.24 Aligned_cols=28 Identities=21% Similarity=0.284 Sum_probs=18.1
Q ss_pred hhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 118 SSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 118 ~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
.+.+.+...|+.|.+.++.+++.++.-+
T Consensus 401 ~LT~~e~~kL~~E~~~l~~ei~~l~~~l 428 (445)
T cd00187 401 RLTKLEREKLLKELKELEAEIEDLEKIL 428 (445)
T ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445566667777777777777766655
No 149
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=64.49 E-value=34 Score=26.65 Aligned_cols=45 Identities=20% Similarity=0.194 Sum_probs=34.0
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
+|.=-|.+...|||-++ ....+.+.+++.|.+.|||-++...+..
T Consensus 23 ~GLl~p~~~~~gyR~Y~---------~~~l~~l~~I~~lr~~G~~L~eI~~~l~ 67 (120)
T cd04781 23 KGLIASIGRRGLRRQYD---------PQVLDRLALIALGRAAGFSLDEIQAMLS 67 (120)
T ss_pred CCCCCCCcCCCCceecC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 44444444556999887 3568899999999999999988776654
No 150
>KOG0993 consensus Rab5 GTPase effector Rabaptin-5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=64.42 E-value=1.4e+02 Score=29.20 Aligned_cols=69 Identities=14% Similarity=0.266 Sum_probs=41.9
Q ss_pred CCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHH
Q 027204 30 NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANL 109 (226)
Q Consensus 30 ~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~i 109 (226)
.+|+.-..-..|.||.+|.+..||.-|.- .+.|= -+- ++ ++ .-+=+|++++...-+..-||
T Consensus 269 lss~t~~~e~~y~~p~gy~lv~dt~w~~l--qkegr------qlq---rd-----lE---~~~~~r~ele~~~~qs~ed~ 329 (542)
T KOG0993|consen 269 LSSTTKSAEELYSEPIGYPLVLDTLWFIL--QKEGR------QLQ---RD-----LE---ELIETRAELEHTEQQSQEDI 329 (542)
T ss_pred HhhcccchhhhcCCCCCCCcChHHHHHHH--HHHhH------HHH---HH-----HH---HHHHHHHHHHHHHHhhhHHH
Confidence 45566666677788888999999998853 33342 000 11 11 22335666666666666777
Q ss_pred HHHHHHHH
Q 027204 110 SKFKSEVQ 117 (226)
Q Consensus 110 seLR~El~ 117 (226)
+..+..+.
T Consensus 330 t~q~~~ll 337 (542)
T KOG0993|consen 330 TVQRAQLL 337 (542)
T ss_pred HHHHHHHH
Confidence 77776653
No 151
>PF03477 ATP-cone: ATP cone domain; InterPro: IPR005144 The ATP-cone is an evolutionarily mobile, ATP-binding regulatory domain which is found in a variety of proteins including ribonucleotide reductases, phosphoglycerate kinases and transcriptional regulators []. In ribonucleotide reductase protein R1 (P28903 from SWISSPROT) from Escherichia coli this domain is located at the N terminus, and is composed mostly of helices []. It forms part of the allosteric effector region and contains the general allosteric activity site in a cleft located at the tip of the N-terminal region []. This site binds either ATP (activating) or dATP (inhibitory), with the base bound in a hydrophobic pocket and the phosphates bound to basic residues. Substrate binding to this site is thought to affect enzyme activity by altering the relative positions of the two subunits of ribonucleotide reductase.; PDB: 2XO4_A 1RLR_A 7R1R_B 5R1R_A 2XO5_B 2XAW_A 2R1R_C 2XAY_B 2X0X_C 2XAZ_A ....
Probab=64.15 E-value=14 Score=26.99 Aligned_cols=55 Identities=25% Similarity=0.322 Sum_probs=37.4
Q ss_pred CCCcceeccHHHHHHHHhhCC-----CChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHH
Q 027204 44 NGKRAFLVDTLQLVRGLEAQG-----VPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTE 102 (226)
Q Consensus 44 ~~~~~~~FDT~~fvk~Le~aG-----ft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~ 102 (226)
.+++..+||-.++.+.|..++ +++++++.|+.-+..-+.+. ...-+|-+++.+..
T Consensus 6 rdG~~e~F~~~KI~~~i~~a~~~~~~~~~~~~~~i~~~V~~~l~~~----~~~~is~~eI~~~v 65 (90)
T PF03477_consen 6 RDGRVEPFDREKIVRAIEKACEASRELSEEDAEEIASEVENKLYDS----GKEEISTEEIQDIV 65 (90)
T ss_dssp SSSSEEES-HHHHHHHHHTTCTTTSTTTST-HHHHHHHHHTC-ST--------TEEHHHHHHHH
T ss_pred CCCcEeeecHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHhc----cCCCeeHHHHHHHH
Confidence 456688999999999999999 88999988888766555432 12367777766544
No 152
>PRK11519 tyrosine kinase; Provisional
Probab=63.42 E-value=1.8e+02 Score=29.68 Aligned_cols=19 Identities=21% Similarity=0.184 Sum_probs=14.7
Q ss_pred ChHHHHHHHHHHHHHHHhh
Q 027204 66 PSKQAEAITAAITEVLNDS 84 (226)
Q Consensus 66 t~~QAeai~~al~~~l~~~ 84 (226)
.|+.|..++.++.+.+.+.
T Consensus 238 dP~~Aa~iaN~l~~~Yi~~ 256 (719)
T PRK11519 238 DREQIRDILNSITRNYLEQ 256 (719)
T ss_pred CHHHHHHHHHHHHHHHHHH
Confidence 4788998998888876543
No 153
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=63.33 E-value=1.2e+02 Score=27.67 Aligned_cols=27 Identities=15% Similarity=0.279 Sum_probs=15.0
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 027204 168 RDELANQNAETTNLTNKLDREIHALRA 194 (226)
Q Consensus 168 ree~~~~~~kI~e~~~Ki~~eIa~LRt 194 (226)
..+++.+..+|.++++.|...=.-|+.
T Consensus 79 ~~eik~l~~eI~~~~~~I~~r~~~l~~ 105 (265)
T COG3883 79 KAEIKKLQKEIAELKENIVERQELLKK 105 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555666666666666555444433
No 154
>PHA01750 hypothetical protein
Probab=63.28 E-value=49 Score=24.11 Aligned_cols=17 Identities=41% Similarity=0.438 Sum_probs=7.1
Q ss_pred HHHhhHHHHHHHHHHHH
Q 027204 170 ELANQNAETTNLTNKLD 186 (226)
Q Consensus 170 e~~~~~~kI~e~~~Ki~ 186 (226)
|..++..+|++++.|+|
T Consensus 43 ELdNL~~ei~~~kikqD 59 (75)
T PHA01750 43 ELDNLKTEIEELKIKQD 59 (75)
T ss_pred HHHHHHHHHHHHHHhHH
Confidence 33444444444443333
No 155
>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=63.26 E-value=17 Score=24.18 Aligned_cols=20 Identities=10% Similarity=0.491 Sum_probs=11.2
Q ss_pred hHHHhHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMR 142 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~ 142 (226)
|+..|++..+.|+.+.+.|.
T Consensus 6 Dy~~LK~~yd~Lk~~~~~L~ 25 (45)
T PF02183_consen 6 DYDALKASYDSLKAEYDSLK 25 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45555555555555555554
No 156
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=63.09 E-value=87 Score=25.94 Aligned_cols=39 Identities=18% Similarity=0.201 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHH
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELA 172 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~ 172 (226)
-..+.+.+..+.+++..++....+.++..++.+.+.+..
T Consensus 97 a~~~~~~~~~~A~~ea~~~~~~a~~~I~~e~~~a~~~l~ 135 (175)
T PRK14472 97 AEKLRAEITEKAHTEAKKMIASAKEEIEQEKRRALDVLR 135 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555666667777777777777666666665543
No 157
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=63.05 E-value=64 Score=24.42 Aligned_cols=50 Identities=22% Similarity=0.379 Sum_probs=26.4
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQN 175 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~ 175 (226)
+..+.....+.+.+++.+..+|+.. .+..+-|-++..|+..++......+
T Consensus 7 Id~lEekl~~cr~~le~ve~rL~~~--eLs~e~R~~lE~E~~~l~~~l~~~E 56 (85)
T PF15188_consen 7 IDGLEEKLAQCRRRLEAVESRLRRR--ELSPEARRSLEKELNELKEKLENNE 56 (85)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHccc--CCChHHHHHHHHHHHHHHHHhhccH
Confidence 3444445555666677766666543 3444555555555544444444433
No 158
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=63.02 E-value=63 Score=28.53 Aligned_cols=14 Identities=29% Similarity=0.385 Sum_probs=5.6
Q ss_pred hhhhhhhhHHHHHh
Q 027204 160 LNLERGRIRDELAN 173 (226)
Q Consensus 160 lNleK~r~ree~~~ 173 (226)
+|.|-.|.-++.+.
T Consensus 191 ~~~EydrLlee~~~ 204 (216)
T KOG1962|consen 191 LQDEYDRLLEEYSK 204 (216)
T ss_pred cccHHHHHHHHHHH
Confidence 33333444444433
No 159
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=62.64 E-value=30 Score=28.66 Aligned_cols=57 Identities=18% Similarity=0.186 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhh--hhh--hhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTAGQR--LDL--NLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~k--lDl--NleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
-.++|+.|++.|+..-+.++.+...+.+ .|+ |.+=.-.|+++..++.+|.+++.++.
T Consensus 11 g~~~L~~EL~~L~~~~r~e~~~~i~~Ar~~GDl~ENaeY~aAk~~~~~~e~rI~~L~~~L~ 71 (157)
T PRK01885 11 GYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLE 71 (157)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHcCCcchhhcHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3456777777776544444333333222 232 44444467777777888887777654
No 160
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=62.31 E-value=7.9 Score=26.61 Aligned_cols=41 Identities=24% Similarity=0.339 Sum_probs=30.6
Q ss_pred cCCC-CCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 26 LNYS-NTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 26 ~~~~-~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
+|.+ ...|+|.|+ ...++.+..++.|.+.|||.+++..++.
T Consensus 26 l~~~~~~~g~r~y~---------~~dv~~l~~i~~l~~~G~sl~~I~~~l~ 67 (69)
T PF13411_consen 26 LPPPRDENGYRYYS---------EEDVERLREIKELRKQGMSLEEIKKLLK 67 (69)
T ss_dssp STTBESTTSSEEE----------HHHHHHHHHHHHHHHTTTHHHHHHHHH-
T ss_pred cccccccCceeecc---------HHHHHHHHHHHHHHHCcCCHHHHHHHHc
Confidence 4443 467777776 4568889999999999999999887664
No 161
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=62.31 E-value=1.3e+02 Score=27.59 Aligned_cols=22 Identities=18% Similarity=0.445 Sum_probs=9.6
Q ss_pred hHHHhHHHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
++...+.+...++.++...+.+
T Consensus 197 ~~~~~~~~~~~~~~~l~~~~~~ 218 (423)
T TIGR01843 197 ELLELERERAEAQGELGRLEAE 218 (423)
T ss_pred HHHHHHHHHHHHHhHHHHHHHH
Confidence 3334444444444444444433
No 162
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. 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. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=62.27 E-value=49 Score=24.98 Aligned_cols=37 Identities=24% Similarity=0.279 Sum_probs=27.5
Q ss_pred CCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHH
Q 027204 28 YSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAIT 74 (226)
Q Consensus 28 ~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~ 74 (226)
.+..+|||.++ ...+..++|++.|. .||+-+....++
T Consensus 30 ~r~~~g~R~Y~---------~~~v~~l~~I~~l~-~g~~l~~i~~~~ 66 (99)
T cd04772 30 ERTANGYRIYT---------DKHIAALRAYRALL-PGYGYRVAQRIM 66 (99)
T ss_pred CcCCCCCeecC---------HHHHHHHHHHHHHh-hCCCHHHHHHHH
Confidence 45678999988 23578899999998 688876654433
No 163
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=62.11 E-value=1e+02 Score=26.55 Aligned_cols=26 Identities=12% Similarity=0.120 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhh
Q 027204 138 IEKMRSELRYEIDKVTAGQRLDLNLE 163 (226)
Q Consensus 138 ie~L~~~LkeeI~kl~ae~klDlNle 163 (226)
.+..+.+..+++.+..++.+-++..+
T Consensus 136 ~e~~~~~a~~ea~~~l~~Ae~~I~~e 161 (204)
T PRK09174 136 AEAERAAIEASLEKKLKEAEARIAAI 161 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444333343333
No 164
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=61.91 E-value=47 Score=34.24 Aligned_cols=25 Identities=16% Similarity=0.251 Sum_probs=13.2
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
+.|...|+.|.+.|+.+++.|+.-|
T Consensus 426 ~~e~~kl~~e~~~l~~~i~~l~~iL 450 (738)
T TIGR01061 426 NTDIFELKEEQNELEKKIISLEQII 450 (738)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555555433
No 165
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=61.83 E-value=40 Score=27.92 Aligned_cols=23 Identities=22% Similarity=0.277 Sum_probs=10.7
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHH
Q 027204 168 RDELANQNAETTNLTNKLDREIH 190 (226)
Q Consensus 168 ree~~~~~~kI~e~~~Ki~~eIa 190 (226)
+-..+..+.+++++++....+-+
T Consensus 72 ~Rk~~kl~~el~~~~~~~~~~~~ 94 (161)
T PF04420_consen 72 NRKLDKLEEELEKLNKSLSSEKS 94 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444445555555554444433
No 166
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=61.61 E-value=37 Score=29.88 Aligned_cols=27 Identities=30% Similarity=0.636 Sum_probs=19.3
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
-.|+-.+..+...++.|||.++.+++.
T Consensus 161 ~~d~l~ie~~L~~v~~eIe~~~~~~~~ 187 (262)
T PF14257_consen 161 VEDLLEIERELSRVRSEIEQLEGQLKY 187 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356667777777788888887776544
No 167
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=61.45 E-value=1.3e+02 Score=27.40 Aligned_cols=22 Identities=9% Similarity=0.152 Sum_probs=11.0
Q ss_pred HHHHHH--HHHHHHHHHHHHHHHH
Q 027204 201 YDVIKY--CIGTLVSISAVGLAIV 222 (226)
Q Consensus 201 ~d~lrw--liG~v~~~~al~la~~ 222 (226)
++++|- ++++++.-.+++.|+|
T Consensus 259 N~imk~LTi~s~iflPpTlIagiy 282 (322)
T COG0598 259 NEIMKILTIVSTIFLPPTLITGFY 282 (322)
T ss_pred HHHHHHHHHHHHHHHhhHHHHccc
Confidence 445555 3355555555555543
No 168
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=61.04 E-value=98 Score=25.88 Aligned_cols=38 Identities=8% Similarity=0.266 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHH
Q 027204 135 RSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELA 172 (226)
Q Consensus 135 k~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~ 172 (226)
..+.+.+..+.+.++..+....+-++..++.+.+.++.
T Consensus 104 e~~~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~~l~ 141 (184)
T CHL00019 104 EREKENLINQAKEDLERLENYKNETIRFEQQRAINQVR 141 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455555566666666666666655555555443
No 169
>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=60.76 E-value=84 Score=24.99 Aligned_cols=59 Identities=14% Similarity=0.316 Sum_probs=28.1
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLT 182 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~ 182 (226)
.+..+|.+...++.++..|+.....--..+ ...+-.++.+|.....++...+.++.+++
T Consensus 60 ~L~~lr~e~~~~~~~~~~l~~~~~~a~~~l-~~~e~sw~~qk~~le~e~~~~~~r~~dL~ 118 (132)
T PF07926_consen 60 ELQQLREELQELQQEINELKAEAESAKAEL-EESEASWEEQKEQLEKELSELEQRIEDLN 118 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555555554432222222 12233445555555555555555555544
No 170
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=60.67 E-value=1.3e+02 Score=29.17 Aligned_cols=77 Identities=17% Similarity=0.253 Sum_probs=44.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKY 206 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrw 206 (226)
+|.-...-+.++...=..+++.+.+++. +-++.+ -+-.|.-+..-..++.+...++-+.+.+|.--||.++.|+..+
T Consensus 167 lRQ~~~~~~~~~~~sm~~i~~k~~~~k~-~~~~~~--~~s~R~y~e~~k~kL~~~Sd~lltkVDDLQD~vE~LRkDV~~R 243 (426)
T smart00806 167 LRQTHNSFFTEIKESIKDILEKIDKFKS-SSLSAS--GSSNRAYVESSKKKLSEDSDSLLTKVDDLQDIIEALRKDVAQR 243 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhccC--CCcchHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3333333344444444445555555554 222333 2233444455556677777777778888888888888887765
No 171
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=60.26 E-value=59 Score=23.87 Aligned_cols=24 Identities=13% Similarity=0.302 Sum_probs=10.9
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
|.||..++....+++..++.|+.+
T Consensus 49 REEFd~q~~~L~~~r~kl~~LEar 72 (79)
T PF04380_consen 49 REEFDAQKAVLARTREKLEALEAR 72 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444
No 172
>KOG1029 consensus Endocytic adaptor protein intersectin [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]
Probab=59.53 E-value=2.4e+02 Score=29.90 Aligned_cols=30 Identities=13% Similarity=0.314 Sum_probs=21.6
Q ss_pred hhhhHHHhHHHHHHHHHHHHHHHHHHHHHH
Q 027204 120 QEHHFSMLQRETEKLRSDIEKMRSELRYEI 149 (226)
Q Consensus 120 ~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI 149 (226)
.|.+++.++...+....|++.|.++|++-=
T Consensus 470 ~kt~ie~~~~q~e~~isei~qlqarikE~q 499 (1118)
T KOG1029|consen 470 QKTEIEEVTKQRELMISEIDQLQARIKELQ 499 (1118)
T ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Confidence 367777777777777777777777776643
No 173
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=59.09 E-value=1.2e+02 Score=26.11 Aligned_cols=16 Identities=25% Similarity=0.293 Sum_probs=10.1
Q ss_pred HHHHHHhhCCCChHHH
Q 027204 55 QLVRGLEAQGVPSKQA 70 (226)
Q Consensus 55 ~fvk~Le~aGft~~QA 70 (226)
+-...||+.||...--
T Consensus 76 ~tl~~LE~~GFnV~~l 91 (190)
T PF05266_consen 76 KTLSELEEHGFNVKFL 91 (190)
T ss_pred HHHHHHHHcCCccHHH
Confidence 4456677788875443
No 174
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=58.93 E-value=1.3e+02 Score=26.63 Aligned_cols=20 Identities=15% Similarity=0.353 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHhHHH
Q 027204 183 NKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K~d 202 (226)
.+...|+.-|+.+|..++.+
T Consensus 84 ~r~~eey~~Lk~~in~~R~e 103 (230)
T PF10146_consen 84 QRLYEEYKPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44445666667776666555
No 175
>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=58.92 E-value=2e+02 Score=28.84 Aligned_cols=22 Identities=18% Similarity=0.401 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHhHHHHHH
Q 027204 184 KLDREIHALRAHMEAAKYDVIK 205 (226)
Q Consensus 184 Ki~~eIa~LRteIEs~K~d~lr 205 (226)
++..++..++.+.+..+-.+-+
T Consensus 266 ~Le~ei~~le~e~~e~~~~l~~ 287 (650)
T TIGR03185 266 QLERQLKEIEAARKANRAQLRE 287 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333444443333333333
No 176
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=58.24 E-value=84 Score=24.24 Aligned_cols=60 Identities=17% Similarity=0.354 Sum_probs=29.1
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHH-----HHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELR-----YEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREI 189 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~Lk-----eeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eI 189 (226)
.++..+........+-+..+++++. +++.++ .++-.+++.+++.++.+++-+++..+.-+
T Consensus 35 ~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~dv~~L--------~l~l~el~G~~~~l~~~l~~v~~~~~lLl 99 (106)
T PF10805_consen 35 EDIEKLEERLDEHDRRLQALETKLEHLPTRDDVHDL--------QLELAELRGELKELSARLQGVSHQLDLLL 99 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHH--------HHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444445555555555542 234333 22234455555666666666655544433
No 177
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=58.22 E-value=1e+02 Score=25.15 Aligned_cols=19 Identities=21% Similarity=0.302 Sum_probs=7.4
Q ss_pred HHHHHhhhhhhhhhhhhhh
Q 027204 146 RYEIDKVTAGQRLDLNLER 164 (226)
Q Consensus 146 keeI~kl~ae~klDlNleK 164 (226)
+.+........+-++..++
T Consensus 99 ~~ea~~~~~~a~~~i~~ek 117 (164)
T PRK14471 99 QVEGDKMIEQAKASIESEK 117 (164)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444333333443333
No 178
>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=58.01 E-value=53 Score=27.00 Aligned_cols=26 Identities=8% Similarity=0.065 Sum_probs=13.9
Q ss_pred eccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 50 LVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 50 ~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
||..--++.-|.. +|+...+.-.++.
T Consensus 16 Pys~~di~~nL~~-~~~K~~v~k~Ld~ 41 (169)
T PF07106_consen 16 PYSAQDIFDNLHN-KVGKTAVQKALDS 41 (169)
T ss_pred CCcHHHHHHHHHh-hccHHHHHHHHHH
Confidence 3445555555655 6777655444333
No 179
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=57.73 E-value=1.1e+02 Score=25.27 Aligned_cols=39 Identities=8% Similarity=0.106 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHH
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELA 172 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~ 172 (226)
-..+.+......+.|..++....+.++..++.+...++.
T Consensus 89 a~~~~~~~~~~A~~ea~~~~~~A~~~I~~e~~~a~~el~ 127 (167)
T PRK14475 89 ARRMEAEAKEKLEEQIKRRAEMAERKIAQAEAQAAADVK 127 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555566666677777777777777777666665554
No 180
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=57.12 E-value=1.6e+02 Score=27.09 Aligned_cols=10 Identities=10% Similarity=0.116 Sum_probs=3.6
Q ss_pred HHHHhhHHHH
Q 027204 169 DELANQNAET 178 (226)
Q Consensus 169 ee~~~~~~kI 178 (226)
++...++.++
T Consensus 113 ~e~~sl~~q~ 122 (314)
T PF04111_consen 113 EERDSLKNQY 122 (314)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 181
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=57.00 E-value=67 Score=32.69 Aligned_cols=13 Identities=15% Similarity=0.225 Sum_probs=8.0
Q ss_pred CCChHHHHHHHHH
Q 027204 64 GVPSKQAEAITAA 76 (226)
Q Consensus 64 Gft~~QAeai~~a 76 (226)
|||++||++|.+.
T Consensus 384 ~~t~~qa~ail~m 396 (635)
T PRK09631 384 DVTEEDIENLLKI 396 (635)
T ss_pred CCCHHHHHHHHHh
Confidence 5666666666554
No 182
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=56.84 E-value=69 Score=33.32 Aligned_cols=28 Identities=21% Similarity=0.113 Sum_probs=15.0
Q ss_pred hhhhhHHHhHHHHHHHHHHHHHHHHHHH
Q 027204 119 SQEHHFSMLQRETEKLRSDIEKMRSELR 146 (226)
Q Consensus 119 ~~k~e~~~lr~e~e~Lk~Eie~L~~~Lk 146 (226)
+.+.|...|+.|.+.|+.+++.++.-|.
T Consensus 424 Lt~~e~~kl~~e~~~l~~ei~~l~~iL~ 451 (800)
T TIGR01063 424 LTGLEREKLQEEYKELLELIADLEDILA 451 (800)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3344555555555556666655554443
No 183
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=56.35 E-value=38 Score=26.22 Aligned_cols=20 Identities=15% Similarity=0.406 Sum_probs=13.6
Q ss_pred HHHhHHHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~ 143 (226)
.+.++.+++.|++||+.|++
T Consensus 43 ~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 43 NAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHhhC
Confidence 45566667777777777765
No 184
>PF14362 DUF4407: Domain of unknown function (DUF4407)
Probab=56.33 E-value=1.5e+02 Score=26.54 Aligned_cols=30 Identities=27% Similarity=0.416 Sum_probs=15.8
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDK 151 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~k 151 (226)
.+...++.+...++.+++...+.+..|..-
T Consensus 142 ~~i~~l~~~~~~~~~~~~~~~~~~~~E~~g 171 (301)
T PF14362_consen 142 AEIAALQAEIDQLEKEIDRAQQEAQCEIFG 171 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 334455555555555555555555555444
No 185
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=56.07 E-value=26 Score=32.35 Aligned_cols=58 Identities=22% Similarity=0.241 Sum_probs=47.3
Q ss_pred CCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHH
Q 027204 43 SNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMI 104 (226)
Q Consensus 43 ~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~ 104 (226)
+.+++..||---=+.+.|..+|++++.|-.++..+.+.+.+. ....++++++++..++
T Consensus 9 ~~~~~~~pfSrgiL~rsL~~~g~~~~~A~~iA~~i~~~L~~~----g~~~i~~~el~~~V~~ 66 (301)
T PRK04220 9 KGKKYEMPFSKGILARSLTAAGMKPSIAYEIASEIEEELKKE----GIKEITKEELRRRVYY 66 (301)
T ss_pred cCCCccCCCcHHHHHHHHHHcCCChhHHHHHHHHHHHHHHHc----CCEEeeHHHHHHHHHH
Confidence 345677888888999999999999999999999998887654 4567788888776543
No 186
>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=56.04 E-value=55 Score=22.17 Aligned_cols=24 Identities=21% Similarity=0.415 Sum_probs=17.8
Q ss_pred cHHHHHHHHhhCCCChHHHHHHHH
Q 027204 52 DTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 52 DT~~fvk~Le~aGft~~QAeai~~ 75 (226)
+.+.|+..++..|||-++-..++.
T Consensus 2 ~rL~~I~~~r~lGfsL~eI~~~l~ 25 (65)
T PF09278_consen 2 ERLQFIRRLRELGFSLEEIRELLE 25 (65)
T ss_dssp HHHHHHHHHHHTT--HHHHHHHHH
T ss_pred hHHHHHHHHHHcCCCHHHHHHHHh
Confidence 457899999999999888766663
No 187
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=55.98 E-value=79 Score=23.19 Aligned_cols=11 Identities=18% Similarity=0.383 Sum_probs=8.7
Q ss_pred hhhhhhhHHHH
Q 027204 90 HTFVSKGEMQK 100 (226)
Q Consensus 90 ~~lvTK~dle~ 100 (226)
-++|||++++-
T Consensus 44 ldlVtREEFd~ 54 (79)
T PF04380_consen 44 LDLVTREEFDA 54 (79)
T ss_pred CCCCcHHHHHH
Confidence 58999998863
No 188
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=55.77 E-value=2.2e+02 Score=28.24 Aligned_cols=28 Identities=21% Similarity=0.309 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDVIKY 206 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~lrw 206 (226)
.+-..++...|+.||.+...++-.+-+|
T Consensus 396 e~eq~ei~e~l~~Lrk~E~eAr~kL~~~ 423 (569)
T PRK04778 396 EKEQEKLSEMLQGLRKDELEAREKLERY 423 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334455555666666655555444444
No 189
>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=55.65 E-value=53 Score=26.65 Aligned_cols=45 Identities=13% Similarity=0.219 Sum_probs=32.0
Q ss_pred ccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 23 GFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 23 ~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
|.=-|.+...|||.++ .-.+..+.|++.|.+.|||-++-..++..
T Consensus 25 GLl~~~r~~~g~R~Y~---------~~di~~l~~I~~lr~~G~sL~eI~~~l~~ 69 (142)
T TIGR01950 25 GLITSIRNSGNQRRYK---------RDVLRRVAVIKAAQRVGIPLATIGEALAV 69 (142)
T ss_pred CCCCCccCCCCCEEEC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 4433444456777766 23578899999999999999886666554
No 190
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=55.24 E-value=1.1e+02 Score=24.83 Aligned_cols=34 Identities=21% Similarity=0.503 Sum_probs=24.6
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
..++..|...+..|..+++++...|.+--..+..
T Consensus 34 E~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee 67 (143)
T PF12718_consen 34 EQEITSLQKKNQQLEEELDKLEEQLKEAKEKLEE 67 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3667778888888888888888877665555544
No 191
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=55.04 E-value=1.8e+02 Score=29.12 Aligned_cols=16 Identities=25% Similarity=0.399 Sum_probs=8.4
Q ss_pred HHHHHHhhhhhhhhhh
Q 027204 145 LRYEIDKVTAGQRLDL 160 (226)
Q Consensus 145 LkeeI~kl~ae~klDl 160 (226)
.++++.+++++.+.|.
T Consensus 217 ~~~e~d~lk~e~~~~~ 232 (555)
T TIGR03545 217 IKEEFDKLKKEGKADK 232 (555)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445566655555443
No 192
>PHA02562 46 endonuclease subunit; Provisional
Probab=54.99 E-value=2e+02 Score=27.66 Aligned_cols=38 Identities=18% Similarity=0.442 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
...+.+++..+...+ +++..+..+...++.+++.|++.
T Consensus 336 ~~~i~el~~~i~~~~-~~i~~~~~~~~~l~~ei~~l~~~ 373 (562)
T PHA02562 336 SKKLLELKNKISTNK-QSLITLVDKAKKVKAAIEELQAE 373 (562)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhh
Confidence 444555555543322 33445555555566666666544
No 193
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=54.64 E-value=2e+02 Score=27.44 Aligned_cols=17 Identities=18% Similarity=0.407 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHhHHH
Q 027204 186 DREIHALRAHMEAAKYD 202 (226)
Q Consensus 186 ~~eIa~LRteIEs~K~d 202 (226)
..++..++.+++..+..
T Consensus 297 ~~~l~~~~~~l~~a~~~ 313 (457)
T TIGR01000 297 NQKLLELESKIKSLKED 313 (457)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34444555555554443
No 194
>cd04764 HTH_MlrA-like_sg1 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 1). The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules. Many MlrA-like proteins in this group appear to lack the long dimerization helix seen in the N-terminal domains of typical MerR-like proteins.
Probab=54.52 E-value=19 Score=24.78 Aligned_cols=37 Identities=19% Similarity=0.255 Sum_probs=29.0
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAIT 74 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~ 74 (226)
+...|||.|+ .-.++.+..++.|.+.|||-++...++
T Consensus 30 ~~~~g~R~y~---------~~~l~~l~~i~~l~~~g~~l~~i~~~l 66 (67)
T cd04764 30 RTENGRRYYT---------DEDIELLKKIKTLLEKGLSIKEIKEIL 66 (67)
T ss_pred CCCCCceeeC---------HHHHHHHHHHHHHHHCCCCHHHHHHHh
Confidence 3456777766 345789999999999999999887654
No 195
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=54.15 E-value=2e+02 Score=27.42 Aligned_cols=20 Identities=5% Similarity=0.194 Sum_probs=15.2
Q ss_pred CCChHHHHHHHHHHHHHHHh
Q 027204 64 GVPSKQAEAITAAITEVLND 83 (226)
Q Consensus 64 Gft~~QAeai~~al~~~l~~ 83 (226)
|..|+.|..++.++.+.+-+
T Consensus 130 ~~dP~~Aa~i~n~l~~~yi~ 149 (498)
T TIGR03007 130 DKDPELAKDVVQTLLTIFVE 149 (498)
T ss_pred CCCHHHHHHHHHHHHHHHHH
Confidence 34589999999998886644
No 196
>PRK05759 F0F1 ATP synthase subunit B; Validated
Probab=54.13 E-value=1.1e+02 Score=24.43 Aligned_cols=10 Identities=10% Similarity=0.388 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 027204 179 TNLTNKLDRE 188 (226)
Q Consensus 179 ~e~~~Ki~~e 188 (226)
.+....|..+
T Consensus 103 ~~a~~~i~~e 112 (156)
T PRK05759 103 AQAQAEIEQE 112 (156)
T ss_pred HHHHHHHHHH
Confidence 3333344443
No 197
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=53.36 E-value=79 Score=22.40 Aligned_cols=51 Identities=22% Similarity=0.391 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHH---HHHHHHHHHHHHHHHHHhH
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNL---TNKLDREIHALRAHMEAAK 200 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~---~~Ki~~eIa~LRteIEs~K 200 (226)
|..||.. ++.+.+|+.++++. .-..+.++++. |..+..+|..|+.+||.++
T Consensus 6 L~~Eira-kQ~~~eEL~kvk~~---------------n~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r 59 (61)
T PF08826_consen 6 LEAEIRA-KQAIQEELTKVKSA---------------NLAFESKLQEAEKRNRELEQEIERLKKEMEELR 59 (61)
T ss_dssp HHHHHHH-HHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHH-HHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444443 56777777777552 12222333332 2334566777888877655
No 198
>PRK09039 hypothetical protein; Validated
Probab=53.31 E-value=1.9e+02 Score=26.87 Aligned_cols=41 Identities=22% Similarity=0.255 Sum_probs=20.4
Q ss_pred hhhhhhhhHHHHHhhHHHHHHHHHH---HHHHHHHHHHHHHHhH
Q 027204 160 LNLERGRIRDELANQNAETTNLTNK---LDREIHALRAHMEAAK 200 (226)
Q Consensus 160 lNleK~r~ree~~~~~~kI~e~~~K---i~~eIa~LRteIEs~K 200 (226)
+|.+....|...+.++..|...+.+ ....|.+|+.+|+.+.
T Consensus 142 L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~ 185 (343)
T PRK09039 142 LNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVAL 185 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555444332 2334556666666553
No 199
>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=53.23 E-value=12 Score=31.65 Aligned_cols=23 Identities=26% Similarity=0.580 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhh
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQR 157 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~k 157 (226)
|..||+. +..|+++.+.|+.|++
T Consensus 19 LE~ELdE-KE~L~~~~QRLkDE~R 41 (166)
T PF04880_consen 19 LESELDE-KENLREEVQRLKDELR 41 (166)
T ss_dssp HHHHHHH-HHHHHHCH--------
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHH
Confidence 4444444 4445555555544444
No 200
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=53.21 E-value=1.3e+02 Score=25.05 Aligned_cols=19 Identities=5% Similarity=0.242 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHhHHH
Q 027204 184 KLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 184 Ki~~eIa~LRteIEs~K~d 202 (226)
-+..+|.++.+..++.|.+
T Consensus 107 ~~~~~~~~~~~~~~~~~~~ 125 (155)
T PRK06569 107 SINQNIEDINLAAKQFRTN 125 (155)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3344444444444444433
No 201
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=53.09 E-value=2.8e+02 Score=28.67 Aligned_cols=29 Identities=31% Similarity=0.496 Sum_probs=13.4
Q ss_pred hhhhhhhhhHHHHHhhHHHHHHHHHHHHH
Q 027204 159 DLNLERGRIRDELANQNAETTNLTNKLDR 187 (226)
Q Consensus 159 DlNleK~r~ree~~~~~~kI~e~~~Ki~~ 187 (226)
+|-.|-.++++....+...|++++.|++.
T Consensus 636 ~~~~EL~~~~~~l~~l~~si~~lk~k~~~ 664 (717)
T PF10168_consen 636 EFKKELERMKDQLQDLKASIEQLKKKLDY 664 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34333444444444444555555444443
No 202
>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=52.85 E-value=77 Score=22.18 Aligned_cols=15 Identities=47% Similarity=0.716 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHhHHH
Q 027204 188 EIHALRAHMEAAKYD 202 (226)
Q Consensus 188 eIa~LRteIEs~K~d 202 (226)
+|+.||.++..+|-+
T Consensus 25 dv~~lr~~v~~ak~E 39 (56)
T PF04728_consen 25 DVNALRADVQAAKEE 39 (56)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 344555555544444
No 203
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=52.49 E-value=1.3e+02 Score=24.80 Aligned_cols=33 Identities=15% Similarity=0.197 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 136 SDIEKMRSELRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 136 ~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~r 168 (226)
.+.+.+..+.+.+..++....+-++..++.+..
T Consensus 97 ~~~~~~~~~A~~ea~~~~~~a~~~ie~e~~~a~ 129 (173)
T PRK13460 97 KLKNKLLEETNNEVKAQKDQAVKEIELAKGKAL 129 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444445555555554444444444433
No 204
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=52.46 E-value=1.2e+02 Score=24.42 Aligned_cols=10 Identities=30% Similarity=0.647 Sum_probs=6.1
Q ss_pred hhhhhHHHHH
Q 027204 92 FVSKGEMQKT 101 (226)
Q Consensus 92 lvTK~dle~~ 101 (226)
+|||..|.++
T Consensus 35 ~vTrr~m~~A 44 (126)
T PF07889_consen 35 FVTRRSMSDA 44 (126)
T ss_pred HHHHHhHHHH
Confidence 5666666554
No 205
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=51.41 E-value=59 Score=33.64 Aligned_cols=31 Identities=10% Similarity=0.124 Sum_probs=19.6
Q ss_pred HHhhhhhhHHHhHHHHHHHHHHHHHHHHHHH
Q 027204 116 VQSSQEHHFSMLQRETEKLRSDIEKMRSELR 146 (226)
Q Consensus 116 l~~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lk 146 (226)
|..+.+-|...++.|.+.|+.|++.|+.-|.
T Consensus 418 L~~L~~le~~~i~~E~~~l~~e~~~l~~~L~ 448 (735)
T TIGR01062 418 LRHLAKLEEHAIIDEQSELEKERAILEKILK 448 (735)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 3445566666777777777777776665543
No 206
>PRK07352 F0F1 ATP synthase subunit B; Validated
Probab=51.08 E-value=1.4e+02 Score=24.64 Aligned_cols=27 Identities=15% Similarity=0.251 Sum_probs=11.1
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 142 RSELRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 142 ~~~LkeeI~kl~ae~klDlNleK~r~r 168 (226)
....+.++.......+.++..++...+
T Consensus 106 ~~~A~~e~~~~~~~a~~~i~~e~~~a~ 132 (174)
T PRK07352 106 EKQAIEDMARLKQTAAADLSAEQERVI 132 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444443333333
No 207
>PF07139 DUF1387: Protein of unknown function (DUF1387); InterPro: IPR009816 This family represents a conserved region approximately 300 residues long within a number of hypothetical proteins of unknown function that seem to be restricted to mammals.
Probab=51.01 E-value=2.1e+02 Score=26.59 Aligned_cols=27 Identities=19% Similarity=0.189 Sum_probs=20.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 027204 91 TFVSKGEMQKTEMIQEANLSKFKSEVQ 117 (226)
Q Consensus 91 ~lvTK~dle~~~y~~ka~iseLR~El~ 117 (226)
.++-|++++...-..++.|++|+.=|.
T Consensus 173 r~~lkee~d~S~k~ik~~F~~l~~cL~ 199 (302)
T PF07139_consen 173 RVVLKEEMDSSIKKIKQTFAELQSCLM 199 (302)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455677777777788888999888764
No 208
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=50.64 E-value=65 Score=26.34 Aligned_cols=56 Identities=23% Similarity=0.312 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHH----HHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMRS----ELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 131 ~e~Lk~Eie~L~~----~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
.++|+.|++.|++ ++..++...++.--+-=|.+-...++....++.+|.+++..+.
T Consensus 12 ~~~L~~eL~~l~~~~r~~~~~~~~~A~~~gdl~En~~y~~a~~~~~~~~~ri~~l~~~L~ 71 (157)
T PRK00226 12 YEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHAAKEEQGFIEGRIRELEDKLS 71 (157)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHcCCccccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777777766 4555555554321111122222345555555666666555443
No 209
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=50.36 E-value=98 Score=26.38 Aligned_cols=66 Identities=9% Similarity=0.175 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 133 KLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 133 ~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
++++|++..-.+|...++...+|.+-+ ..+...++..+|. ++.--..+....+.|..+++..+.+-
T Consensus 102 QVqqeL~~tf~rL~~~Vd~~~~eL~~e----I~~L~~~i~~le~-~~~~~k~LrnKa~~L~~eL~~F~~~y 167 (171)
T PF04799_consen 102 QVQQELSSTFARLCQQVDQTKNELEDE----IKQLEKEIQRLEE-IQSKSKTLRNKANWLESELERFQEQY 167 (171)
T ss_dssp --------HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467777777777777777666633322 2333333333321 11111223333445666666655443
No 210
>PF08340 DUF1732: Domain of unknown function (DUF1732); InterPro: IPR013551 This domain of unknown function is found at the C terminus of bacterial proteins, many of which are hypothetical and include proteins of the YicC family.
Probab=50.29 E-value=84 Score=23.90 Aligned_cols=27 Identities=11% Similarity=0.322 Sum_probs=19.7
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 027204 91 TFVSKGEMQKTEMIQEANLSKFKSEVQ 117 (226)
Q Consensus 91 ~lvTK~dle~~~y~~ka~iseLR~El~ 117 (226)
-++.|.|+.+.-..+++++..+|.-+.
T Consensus 6 ~~a~k~DI~EEl~RL~sH~~~f~~~l~ 32 (87)
T PF08340_consen 6 LLADKADISEELVRLKSHLKQFRELLE 32 (87)
T ss_pred HHHHHcchHHHHHHHHHHHHHHHHHHh
Confidence 466777877777777777777777764
No 211
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. 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 of multidrug/metal ion transporter genes and oxidative stress regulons 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=49.73 E-value=63 Score=23.86 Aligned_cols=29 Identities=24% Similarity=0.322 Sum_probs=24.1
Q ss_pred eeccHHHHHHHHhhCCCChHHHHHHHHHH
Q 027204 49 FLVDTLQLVRGLEAQGVPSKQAEAITAAI 77 (226)
Q Consensus 49 ~~FDT~~fvk~Le~aGft~~QAeai~~al 77 (226)
..++.++++..|...|||.+++..++...
T Consensus 41 ~dv~~l~~i~~l~~~g~~~~~i~~~l~~~ 69 (100)
T cd00592 41 EDLERLRLIRRLRELGLSLKEIRELLDAR 69 (100)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHhcc
Confidence 34678899999999999999988877653
No 212
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=49.44 E-value=37 Score=23.28 Aligned_cols=24 Identities=25% Similarity=0.347 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 201 YDVIKYCIGTLVSISAVGLAIVRIL 225 (226)
Q Consensus 201 ~d~lrwliG~v~~~~al~la~~rl~ 225 (226)
|+++|. .|++++.+..++|++-++
T Consensus 11 y~tLri-gGLi~A~vlfi~Gi~iil 34 (50)
T PF02038_consen 11 YETLRI-GGLIFAGVLFILGILIIL 34 (50)
T ss_dssp HHHHHH-HHHHHHHHHHHHHHHHHC
T ss_pred hhHhhc-cchHHHHHHHHHHHHHHH
Confidence 566664 688888888888887654
No 213
>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.
Probab=49.29 E-value=1.1e+02 Score=29.52 Aligned_cols=28 Identities=25% Similarity=0.360 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhh
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLE 163 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNle 163 (226)
+...++.++++|.+-++.+ ++.+||..|
T Consensus 143 ls~~~~~~r~~l~~~~a~i--ea~iDf~ee 170 (442)
T TIGR00450 143 LDQKIEAIRKSLLQLLAQV--EVNIDYEED 170 (442)
T ss_pred HHHHHHHHHHHHHHHHHHe--eEECCcCCC
Confidence 5566777777777767766 456788654
No 214
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=49.12 E-value=2.1e+02 Score=26.12 Aligned_cols=14 Identities=7% Similarity=0.043 Sum_probs=6.9
Q ss_pred CcceeccHHHHHHH
Q 027204 46 KRAFLVDTLQLVRG 59 (226)
Q Consensus 46 ~~~~~FDT~~fvk~ 59 (226)
+....+|.-..-..
T Consensus 69 ~~L~~ld~~~~~~~ 82 (423)
T TIGR01843 69 QVLVELDATDVEAD 82 (423)
T ss_pred CeEEEEccchhhhH
Confidence 33455666555433
No 215
>KOG3433 consensus Protein involved in meiotic recombination/predicted coiled-coil protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=49.10 E-value=1.8e+02 Score=25.32 Aligned_cols=19 Identities=11% Similarity=0.023 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027204 176 AETTNLTNKLDREIHALRA 194 (226)
Q Consensus 176 ~kI~e~~~Ki~~eIa~LRt 194 (226)
.++++++-.+-..+..++.
T Consensus 140 ~k~~e~dpqv~~k~~~~~K 158 (203)
T KOG3433|consen 140 AKIQETDPQVFEKKVHLEK 158 (203)
T ss_pred HHHhhcCHHHHHHHHHHHH
Confidence 3455555555555544433
No 216
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=49.02 E-value=98 Score=25.67 Aligned_cols=53 Identities=21% Similarity=0.313 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHH----Hhhhhhhhhhh--hhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMRSELRYEI----DKVTAGQRLDL--NLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~LkeeI----~kl~ae~klDl--NleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
.++|+.|++.|+.+ +.++ ...++ ..|+ |.+=...|+++..++.+|.+++.++.
T Consensus 13 ~~~L~~EL~~L~~~-r~~i~~~i~~Ar~--~GDlsENaey~aak~~q~~~e~RI~~L~~~L~ 71 (158)
T PRK05892 13 RDHLEAELARLRAR-RDRLAVEVNDRGM--IGDHGDQAEAIQRADELARLDDRINELDRRLR 71 (158)
T ss_pred HHHHHHHHHHHHHH-hHHHHHHHHHHHh--CCCcchhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555542 4443 33332 2333 44555567777777888888777765
No 217
>PRK03598 putative efflux pump membrane fusion protein; Provisional
Probab=48.06 E-value=2.1e+02 Score=25.76 Aligned_cols=17 Identities=18% Similarity=0.071 Sum_probs=10.6
Q ss_pred CCcceeccHHHHHHHHh
Q 027204 45 GKRAFLVDTLQLVRGLE 61 (226)
Q Consensus 45 ~~~~~~FDT~~fvk~Le 61 (226)
++..+.+|+-.+-..|.
T Consensus 68 G~~L~~ld~~~~~~~l~ 84 (331)
T PRK03598 68 GQVLGELDAAPYENALM 84 (331)
T ss_pred CCEEEEEChHHHHHHHH
Confidence 34457788877755544
No 218
>KOG1899 consensus LAR transmembrane tyrosine phosphatase-interacting protein liprin [General function prediction only]
Probab=48.02 E-value=3.4e+02 Score=28.13 Aligned_cols=42 Identities=17% Similarity=0.289 Sum_probs=33.3
Q ss_pred HHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 81 LNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEH 122 (226)
Q Consensus 81 l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~ 122 (226)
++..-+.+...+.++..||-..+.+++.+++||=-+..++|.
T Consensus 155 LnatEEmLQqellsrtsLETqKlDLmaevSeLKLkltalEke 196 (861)
T KOG1899|consen 155 LNATEEMLQQELLSRTSLETQKLDLMAEVSELKLKLTALEKE 196 (861)
T ss_pred hchHHHHHHHHHHhhhhHHHHHhHHHHHHHHhHHHHHHHHHH
Confidence 444456677888888888888888999999999888877744
No 219
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=47.99 E-value=1.4e+02 Score=23.88 Aligned_cols=12 Identities=8% Similarity=0.526 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQ 117 (226)
Q Consensus 106 ka~iseLR~El~ 117 (226)
..++..|+.++.
T Consensus 72 ~~~~~rL~~~~~ 83 (151)
T PF11559_consen 72 QNDVERLKEQLE 83 (151)
T ss_pred HHHHHHHHHHHH
Confidence 344444444443
No 220
>PF03245 Phage_lysis: Bacteriophage Rz lysis protein; InterPro: IPR004929 Many bacteriophages with Gram-negative hosts contain two auxiliary lysis genes Rz and Rz1. These genes are nested, with Rz1 occupying the last third of Rz in a +1 reading frame. Both of these genes are required for host cell lysis if the outer membrane is stabilised by millimolar concentrations of divalent cations, but are otherwise uneccessary []. The Rz protein is believed to posses endopeptidase activity, while Rz1 encodes a prolipoprotein which, after cleavage by a signal peptidase, is located in the outer membrane. It has been suggested that these two proteins may form a complex which cleaves the oligopeptide crosslinks between glycosidic strands in the peptidoglycan and the Lpp lipoproteins of the outer bacterial membrane. For more information see []. This entry represents the Rz protein and related sequences. This family is not considered to be a peptidase according to the MEROPs database.; GO: 0019835 cytolysis
Probab=47.80 E-value=1.4e+02 Score=23.72 Aligned_cols=33 Identities=15% Similarity=0.344 Sum_probs=25.5
Q ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 171 LANQNAETTNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 171 ~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
+..+...+.++..|.+.|+++.+++++.+.-++
T Consensus 26 ~~~~~~~la~ld~k~tkEL~~Ak~e~~~Lr~dl 58 (125)
T PF03245_consen 26 MQQRQQALAALDAKYTKELADAKAEIDRLRADL 58 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence 344555778888888999999998888877665
No 221
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=47.77 E-value=3.5e+02 Score=28.31 Aligned_cols=82 Identities=21% Similarity=0.224 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHH
Q 027204 103 MIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL--RYEIDKVTAGQRLDLNLERGRIRDELANQNAETTN 180 (226)
Q Consensus 103 y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L--keeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e 180 (226)
..+.+-|-+||......+ +-....-..+..|+.|.++|++-| ++++.++.-+.---+|.++.|..++....+..+.+
T Consensus 470 l~qs~iIkKLRAk~ke~e-tl~~K~ge~i~~L~sE~~~lk~il~~Kee~Ek~~~E~I~k~~ae~~rq~~~~~~sr~~~~~ 548 (961)
T KOG4673|consen 470 LAQSAIIKKLRAKIKEAE-TLEEKKGELITKLQSEENKLKSILRDKEETEKLLQETIEKHQAELTRQKDYYSNSRALAAA 548 (961)
T ss_pred HHHHHHHHHHHHHhhhhh-HHHHHhhhHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHH
Confidence 345566777877654322 001111222333444444444443 33444444444444455555566665555555544
Q ss_pred HHHHH
Q 027204 181 LTNKL 185 (226)
Q Consensus 181 ~~~Ki 185 (226)
+..+.
T Consensus 549 le~~~ 553 (961)
T KOG4673|consen 549 LEAQA 553 (961)
T ss_pred HHHHH
Confidence 44443
No 222
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=47.20 E-value=1.2e+02 Score=22.60 Aligned_cols=30 Identities=13% Similarity=0.317 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 027204 128 QRETEKLRSDIEKMRSELRYEIDKVTAGQR 157 (226)
Q Consensus 128 r~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k 157 (226)
+.+++.|..-++.-+..|-.++.+...+..
T Consensus 45 ~~~f~~l~~~L~~~e~~ll~~l~~~~~~~~ 74 (127)
T smart00502 45 KAAFDELRNALNKRKKQLLEDLEEQKENKL 74 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444445555555555555555544333
No 223
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=47.19 E-value=89 Score=32.30 Aligned_cols=28 Identities=14% Similarity=0.285 Sum_probs=18.3
Q ss_pred HhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 117 QSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 117 ~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
..+.+.|...|+.|.+.|+.+++.|+.-
T Consensus 432 ~~Lt~le~~kl~~E~~~l~~ei~~l~~i 459 (742)
T PRK05561 432 RRLAKLEEIEIRKEQDELRKEIAELEAI 459 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566667777777777777776655
No 224
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=46.51 E-value=1.2e+02 Score=27.45 Aligned_cols=33 Identities=12% Similarity=0.255 Sum_probs=21.7
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
..+..||.....|..+|+.|++++.+.=..|..
T Consensus 180 eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~ 212 (259)
T PF08657_consen 180 EKIAALRQRYNQLSNSIAYLEAEVAEQEAQLER 212 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666677777777777777777665555543
No 225
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=46.44 E-value=2.8e+02 Score=26.75 Aligned_cols=71 Identities=13% Similarity=0.245 Sum_probs=35.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHH
Q 027204 95 KGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELA 172 (226)
Q Consensus 95 K~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~ 172 (226)
+.+++....+++..+++.|.|-+.+ +..-...-+...+.+..+.+.|..++....+-++..||.....++.
T Consensus 48 ~~ea~~~~~~~e~~L~~Ak~ea~~I-------i~~A~~~A~~~~~~~~~~A~~ea~~i~~~a~~~Ie~ek~~a~~elr 118 (445)
T PRK13428 48 ADRLAEADQAHTKAVEDAKAEAARV-------VEEAREDAERIAEQLRAQADAEAERIKVQGARQVQLLRAQLTRQLR 118 (445)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444455555555553211 1112222344455555566666666666666666666666555543
No 226
>KOG2129 consensus Uncharacterized conserved protein H4 [Function unknown]
Probab=46.37 E-value=2.7e+02 Score=27.36 Aligned_cols=81 Identities=21% Similarity=0.237 Sum_probs=39.1
Q ss_pred hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHh-hHHHHHHHHHH--HHHHHHHHHHHHHHh
Q 027204 123 HFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELAN-QNAETTNLTNK--LDREIHALRAHMEAA 199 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~-~~~kI~e~~~K--i~~eIa~LRteIEs~ 199 (226)
++..|++|.++|+.++..-...-.+++.+.+++-+ | +|++... ++.-|+++..+ +-..+.+-++ ++
T Consensus 254 hi~~l~~EveRlrt~l~~Aqk~~~ek~~qy~~Ee~-~-------~reen~rlQrkL~~e~erRealcr~lsEses---sl 322 (552)
T KOG2129|consen 254 HIDKLQAEVERLRTYLSRAQKSYQEKLMQYRAEEV-D-------HREENERLQRKLINELERREALCRMLSESES---SL 322 (552)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-h-------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhH---HH
Confidence 33444444444444444444444556666655422 2 3555433 33344555554 3333333333 23
Q ss_pred HHHHHHHHHHHHHHH
Q 027204 200 KYDVIKYCIGTLVSI 214 (226)
Q Consensus 200 K~d~lrwliG~v~~~ 214 (226)
-.|=.+|+=+++.+-
T Consensus 323 emdeery~Ne~~~~g 337 (552)
T KOG2129|consen 323 EMDEERYLNEFVDFG 337 (552)
T ss_pred HHHHHHHHhhhhccC
Confidence 356678887776443
No 227
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=46.23 E-value=94 Score=21.75 Aligned_cols=35 Identities=29% Similarity=0.491 Sum_probs=21.8
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHH--HHhhhhhh
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYE--IDKVTAGQ 156 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~Lkee--I~kl~ae~ 156 (226)
.|...|..+.++++.+++.+...|..+ +++.-.++
T Consensus 4 ~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eV 40 (66)
T PF10458_consen 4 AEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEV 40 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHH
Confidence 345566677777777777777777644 55554443
No 228
>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=46.11 E-value=83 Score=21.96 Aligned_cols=18 Identities=33% Similarity=0.722 Sum_probs=10.5
Q ss_pred HHHhHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKM 141 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L 141 (226)
.+.++.+++.|+.+++.|
T Consensus 33 i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 33 IEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 345555566666666665
No 229
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=45.91 E-value=2.3e+02 Score=25.66 Aligned_cols=25 Identities=28% Similarity=0.397 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
.+....+..+|..||.+++.+..+.
T Consensus 199 re~i~el~e~I~~L~~eV~~L~~~~ 223 (258)
T PF15397_consen 199 REEIDELEEEIPQLRAEVEQLQAQA 223 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444556666667777777655443
No 230
>PF00430 ATP-synt_B: ATP synthase B/B' CF(0); InterPro: IPR002146 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunits B and B' from the F0 complex in F-ATPases found in chloroplasts and in bacterial plasma membranes. The B subunits are part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In bacterial and chloroplast F-ATPases, the peripheral stalk is composed of one copy of the delta subunit (homologous to OSCP in mitochondria), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0045263 proton-transporting ATP synthase complex, coupling factor F(o); PDB: 1L2P_A 2KHK_A 1B9U_A.
Probab=45.71 E-value=1.4e+02 Score=22.92 Aligned_cols=29 Identities=17% Similarity=0.365 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 027204 129 RETEKLRSDIEKMRSELRYEIDKVTAGQR 157 (226)
Q Consensus 129 ~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k 157 (226)
.+.+..+.+.+.+..+....+...+.+..
T Consensus 40 ~~a~~~~~ea~~~~~e~~~~l~~a~~ea~ 68 (132)
T PF00430_consen 40 EEAEELKEEAEQLLAEYEEKLAEAREEAQ 68 (132)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555555544433
No 231
>KOG0964 consensus Structural maintenance of chromosome protein 3 (sister chromatid cohesion complex Cohesin, subunit SMC3) [Cell cycle control, cell division, chromosome partitioning]
Probab=45.62 E-value=4.3e+02 Score=28.73 Aligned_cols=25 Identities=24% Similarity=0.570 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 128 QRETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 128 r~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
....+.++.|++.++..+++-...+
T Consensus 410 ke~e~~lq~e~~~~e~~l~~~~e~i 434 (1200)
T KOG0964|consen 410 KEQENILQKEIEDLESELKEKLEEI 434 (1200)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334455666666666655443333
No 232
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=45.61 E-value=1.6e+02 Score=23.78 Aligned_cols=25 Identities=20% Similarity=0.449 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
++..++++++.++..+.++|+.++.
T Consensus 11 ki~~l~~~~~~i~~~~~~~I~~i~~ 35 (149)
T PF07352_consen 11 KIAELQREIARIEAEANDEIARIKE 35 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455777788887777777777755
No 233
>PHA03332 membrane glycoprotein; Provisional
Probab=45.54 E-value=3.5e+02 Score=29.64 Aligned_cols=84 Identities=14% Similarity=0.174 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh---hhhhhhhhhhhhhHHHHH----hhHHH
Q 027204 105 QEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA---GQRLDLNLERGRIRDELA----NQNAE 177 (226)
Q Consensus 105 ~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a---e~klDlNleK~r~ree~~----~~~~k 177 (226)
--++++++|+.|....+ -+..+.....++-+-|.++...|...|..++. ++.-.+|++-..++..++ ++...
T Consensus 889 naaaia~mksaIg~tNa-AV~~lsDai~klGnti~kisatl~~nI~avNgRIs~Led~VN~r~~~v~~~intLA~ql~~~ 967 (1328)
T PHA03332 889 ATAATAEMASKIGGLNA-RVDKTSDVITKLGDTIAKISATLDNNIRAVNGRVSDLEDQVNLRFLAVATNFNTLATQLKEL 967 (1328)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHhhhHHHHHHHHHHhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 35677788877765432 24444455555666666666666665555544 222234444443433333 33334
Q ss_pred HHHHHHHHHHHH
Q 027204 178 TTNLTNKLDREI 189 (226)
Q Consensus 178 I~e~~~Ki~~eI 189 (226)
+.++|++|+.-.
T Consensus 968 ~~~~N~~ie~~~ 979 (1328)
T PHA03332 968 GTTTNERIEEVM 979 (1328)
T ss_pred hhhHHHHHHHHH
Confidence 555666655544
No 234
>cd04778 HTH_MerR-like_sg2 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 2). 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=45.31 E-value=29 Score=30.31 Aligned_cols=49 Identities=14% Similarity=0.086 Sum_probs=36.1
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITE 79 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~ 79 (226)
.|+=-|.+...+||.++ ..+++-+++++.|++.||+-.+...++.++..
T Consensus 24 ~GLL~p~r~~~~~r~Y~---------~~~v~rL~~I~~l~~~G~~L~~I~~~l~~~~~ 72 (219)
T cd04778 24 RGLLPPPRRRGRVAIYN---------DSHLARLRLINQLLERGYTLAHIAELLAAWEQ 72 (219)
T ss_pred CCCCCCcccCCCCcccC---------HHHHHHHHHHHHHHHCCCCHHHHHHHHHhhhc
Confidence 45443434445777554 45789999999999999999998888887654
No 235
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=45.30 E-value=1.2e+02 Score=27.40 Aligned_cols=36 Identities=28% Similarity=0.423 Sum_probs=18.3
Q ss_pred hhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 152 VTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEA 198 (226)
Q Consensus 152 l~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs 198 (226)
+.++..-|+..||++.....+. +.+++..|+++.+.
T Consensus 211 Ld~~~q~~~~ae~seLq~r~~~-----------l~~~L~~L~~e~~r 246 (289)
T COG4985 211 LDDEFQQHYVAEKSELQKRLAQ-----------LQTELDALRAELER 246 (289)
T ss_pred ccHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHhhhhhh
Confidence 3344444555555554444333 33555666666653
No 236
>COG0711 AtpF F0F1-type ATP synthase, subunit b [Energy production and conversion]
Probab=45.17 E-value=1.7e+02 Score=24.03 Aligned_cols=39 Identities=18% Similarity=0.365 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHH
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELA 172 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~ 172 (226)
-+...+..+.+-+++........+-++..+|.+..++..
T Consensus 85 a~~~~~e~~~~a~~e~~r~~~~a~~~I~~e~~~a~~~l~ 123 (161)
T COG0711 85 AEQIAEEIKAEAEEELERIKEAAEAEIEAEKERALEELR 123 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555666666666666666666555555543
No 237
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=44.90 E-value=38 Score=25.18 Aligned_cols=23 Identities=30% Similarity=0.590 Sum_probs=16.1
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHH
Q 027204 125 SMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
+++..|+.+|+.+|.+|+.+|.+
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~ 25 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQ 25 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667778888888877655544
No 238
>PRK04654 sec-independent translocase; Provisional
Probab=44.85 E-value=1.1e+02 Score=27.14 Aligned_cols=46 Identities=17% Similarity=0.307 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVT 153 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ 153 (226)
|..+..++.|+.. ..+...+|.+...++.++..++.+++.-++.++
T Consensus 40 R~~~~~vk~El~~--El~~~ELrk~l~~~~~~i~~~~~~lk~~~~el~ 85 (214)
T PRK04654 40 RMQWDSVKQELER--ELEAEELKRSLQDVQASLREAEDQLRNTQQQVE 85 (214)
T ss_pred HHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444421 223334444444455555555555555555554
No 239
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=44.58 E-value=4.8e+02 Score=28.94 Aligned_cols=6 Identities=33% Similarity=0.523 Sum_probs=2.6
Q ss_pred cccccc
Q 027204 21 SQGFNL 26 (226)
Q Consensus 21 ~~~~~~ 26 (226)
|-||++
T Consensus 397 FIGfTy 402 (1317)
T KOG0612|consen 397 FIGFTY 402 (1317)
T ss_pred eeeeee
Confidence 344443
No 240
>KOG0243 consensus Kinesin-like protein [Cytoskeleton]
Probab=44.19 E-value=3.7e+02 Score=29.14 Aligned_cols=9 Identities=22% Similarity=0.656 Sum_probs=3.3
Q ss_pred HHHHHHHHH
Q 027204 134 LRSDIEKMR 142 (226)
Q Consensus 134 Lk~Eie~L~ 142 (226)
+..+++.++
T Consensus 453 le~el~~~~ 461 (1041)
T KOG0243|consen 453 LEEELENLE 461 (1041)
T ss_pred HHHHHHHHH
Confidence 333333333
No 241
>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]
Probab=44.18 E-value=5.6e+02 Score=29.62 Aligned_cols=76 Identities=13% Similarity=0.240 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh---hhhhhhhhhhhhhhHHHHHhhHHHHHH------HHHHHHHHHHHHHHHHHH
Q 027204 128 QRETEKLRSDIEKMRSELRYEIDKVT---AGQRLDLNLERGRIRDELANQNAETTN------LTNKLDREIHALRAHMEA 198 (226)
Q Consensus 128 r~e~e~Lk~Eie~L~~~LkeeI~kl~---ae~klDlNleK~r~ree~~~~~~kI~e------~~~Ki~~eIa~LRteIEs 198 (226)
.+.+..|.+++..++.++.++...++ .+...+++.-++.+-+....++.-+.+ ...++..++++|...|++
T Consensus 804 e~~i~eL~~el~~lk~klq~~~~~~r~l~~~~~~~l~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~le~k~~eL~k~l~~ 883 (1822)
T KOG4674|consen 804 ESRIKELERELQKLKKKLQEKSSDLRELTNSLEKQLENAQNLVDELESELKSLLTSLDSVSTNIAKLEIKLSELEKRLKS 883 (1822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677777777766665544443 344444544444444444333322222 223444455566666665
Q ss_pred hHHHH
Q 027204 199 AKYDV 203 (226)
Q Consensus 199 ~K~d~ 203 (226)
.+..+
T Consensus 884 ~~~~~ 888 (1822)
T KOG4674|consen 884 AKTQL 888 (1822)
T ss_pred hHHHH
Confidence 55444
No 242
>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=43.87 E-value=3.5e+02 Score=27.18 Aligned_cols=76 Identities=24% Similarity=0.368 Sum_probs=32.6
Q ss_pred HHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHH-------HHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHH
Q 027204 109 LSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRS-------ELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNL 181 (226)
Q Consensus 109 iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~-------~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~ 181 (226)
+.+|..|++.+.+ ....-|.+..+|+.++.+.+. +.+.+|..+++.+|+ .-.||...+++.+.+..-|..+
T Consensus 373 ie~L~~el~~~e~-~lqEer~E~qkL~~ql~ke~D~n~vqlsE~~rel~Elks~lrv-~qkEKEql~~EkQeL~~yi~~L 450 (546)
T PF07888_consen 373 IEKLSRELQMLEE-HLQEERMERQKLEKQLGKEKDCNRVQLSENRRELQELKSSLRV-AQKEKEQLQEEKQELLEYIERL 450 (546)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555444433 333344455555555544332 223344445554443 2234444444444444444444
Q ss_pred HHHHH
Q 027204 182 TNKLD 186 (226)
Q Consensus 182 ~~Ki~ 186 (226)
+.|++
T Consensus 451 e~r~~ 455 (546)
T PF07888_consen 451 EQRLD 455 (546)
T ss_pred HHHHH
Confidence 44433
No 243
>PF10925 DUF2680: Protein of unknown function (DUF2680); InterPro: IPR024485 Members in this family of proteins are annotated as YckD however currently no function is known.
Probab=43.85 E-value=48 Score=23.22 Aligned_cols=28 Identities=25% Similarity=0.387 Sum_probs=22.3
Q ss_pred HHHHHHhhCC-CChHHHHHHHHHHHHHHH
Q 027204 55 QLVRGLEAQG-VPSKQAEAITAAITEVLN 82 (226)
Q Consensus 55 ~fvk~Le~aG-ft~~QAeai~~al~~~l~ 82 (226)
.+|...-++| +|.+||..|...+.....
T Consensus 22 ~~idk~Ve~G~iTqeqAd~ik~~id~~~~ 50 (59)
T PF10925_consen 22 QIIDKYVEAGVITQEQADAIKKHIDQRQE 50 (59)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHHHHHH
Confidence 4667777888 999999999988876643
No 244
>PRK13460 F0F1 ATP synthase subunit B; Provisional
Probab=43.79 E-value=1.9e+02 Score=23.93 Aligned_cols=7 Identities=14% Similarity=0.325 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 027204 191 ALRAHME 197 (226)
Q Consensus 191 ~LRteIE 197 (226)
+|+.++.
T Consensus 131 el~~ei~ 137 (173)
T PRK13460 131 QLQNQIV 137 (173)
T ss_pred HHHHHHH
Confidence 3333333
No 245
>PF11026 DUF2721: Protein of unknown function (DUF2721); InterPro: IPR021279 This family is conserved in bacteria. The function is not known.
Probab=43.58 E-value=1.2e+02 Score=24.14 Aligned_cols=10 Identities=40% Similarity=0.644 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 027204 186 DREIHALRAH 195 (226)
Q Consensus 186 ~~eIa~LRte 195 (226)
..|+..|+.-
T Consensus 49 ~~el~~L~rR 58 (130)
T PF11026_consen 49 RRELRILRRR 58 (130)
T ss_pred HHHHHHHHHH
Confidence 3444444443
No 246
>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=42.91 E-value=1.1e+02 Score=21.99 Aligned_cols=20 Identities=20% Similarity=0.390 Sum_probs=12.6
Q ss_pred HHHhHHHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~ 143 (226)
...++.+++.|+.|++.|.+
T Consensus 40 ~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 40 IDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHcC
Confidence 44556666667776666654
No 247
>KOG4572 consensus Predicted DNA-binding transcription factor, interacts with stathmin [Transcription; General function prediction only; Signal transduction mechanisms]
Probab=42.69 E-value=2.9e+02 Score=29.61 Aligned_cols=80 Identities=24% Similarity=0.329 Sum_probs=43.2
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhh--h-hhhhhhhhhhhHHHHHhhHHHHHHH--------------HH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAG--Q-RLDLNLERGRIRDELANQNAETTNL--------------TN 183 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae--~-klDlNleK~r~ree~~~~~~kI~e~--------------~~ 183 (226)
+++...+..+++++.++++.++..+.++=.+---+ . -+|.+.-+..+.++++..+.+..+. .+
T Consensus 1008 rselEe~kKe~eaiineiee~eaeIiQekE~el~e~efka~d~Sd~r~kie~efAa~eaemdeik~~~~edrakqkei~k 1087 (1424)
T KOG4572|consen 1008 RSELEEKKKELEAIINEIEELEAEIIQEKEGELIEDEFKALDESDPRAKIEDEFAAIEAEMDEIKDGKCEDRAKQKEIDK 1087 (1424)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHhhhccccCcchhHHHHHHHHHhhhhhhhhhhhhhHHHHHHHHH
Confidence 35556667777777777777777765542211111 0 1344555556666666554433221 11
Q ss_pred -HHHHHHHHHHHHHHHhH
Q 027204 184 -KLDREIHALRAHMEAAK 200 (226)
Q Consensus 184 -Ki~~eIa~LRteIEs~K 200 (226)
-...++.+||++|+...
T Consensus 1088 ~L~ehelenLrnEiekln 1105 (1424)
T KOG4572|consen 1088 ILKEHELENLRNEIEKLN 1105 (1424)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 12345568888888654
No 248
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=42.66 E-value=88 Score=25.86 Aligned_cols=54 Identities=19% Similarity=0.225 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHH----HHHHHHhhhhhhhhh--hhhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMRSE----LRYEIDKVTAGQRLD--LNLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~----LkeeI~kl~ae~klD--lNleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
.++|+.|++.|+.. +.++|...++ ..| =|.+=.-.|+++..++.+|.+++.++.
T Consensus 10 ~~~L~~El~~L~~~~r~~~~~~i~~Ar~--~GDlsENaeY~aak~~~~~le~rI~~L~~~L~ 69 (156)
T TIGR01461 10 YEKLKQELNYLWREERPEVTQKVTWAAS--LGDRSENADYQYGKKRLREIDRRVRFLTKRLE 69 (156)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHH--cCCcchhhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 44566666666532 2333333332 334 244444567777777777777776654
No 249
>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=42.41 E-value=3.4e+02 Score=28.20 Aligned_cols=29 Identities=28% Similarity=0.396 Sum_probs=11.8
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
...++.+.++++.+++....+|+++=.++
T Consensus 534 ~~~~~~e~~~~~~~l~~~~~~l~~~~~~~ 562 (771)
T TIGR01069 534 LEKLLKEQEKLKKELEQEMEELKERERNK 562 (771)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444333333
No 250
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=41.95 E-value=2.5e+02 Score=24.90 Aligned_cols=15 Identities=27% Similarity=0.222 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHH
Q 027204 68 KQAEAITAAITEVLN 82 (226)
Q Consensus 68 ~QAeai~~al~~~l~ 82 (226)
.||..-+-.+...+.
T Consensus 98 ~qa~qd~~~f~e~l~ 112 (234)
T cd07665 98 EQANNDFFLLAELLA 112 (234)
T ss_pred HHHHHHHHHHhhhHH
Confidence 344443333333333
No 251
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=41.93 E-value=2.4e+02 Score=24.73 Aligned_cols=19 Identities=11% Similarity=0.240 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHhhhhhhh
Q 027204 139 EKMRSELRYEIDKVTAGQR 157 (226)
Q Consensus 139 e~L~~~LkeeI~kl~ae~k 157 (226)
+.+..+|.+|+..+-...|
T Consensus 162 ~~~QE~L~~em~~La~~LK 180 (251)
T PF09753_consen 162 RNLQEDLTEEMLSLARQLK 180 (251)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444555555555544433
No 252
>KOG0579 consensus Ste20-like serine/threonine protein kinase [Signal transduction mechanisms]
Probab=41.93 E-value=4.5e+02 Score=27.81 Aligned_cols=34 Identities=15% Similarity=0.176 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHH
Q 027204 97 EMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRE 130 (226)
Q Consensus 97 dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e 130 (226)
++++++-+|+..|..+-.+-....+++--.+|-|
T Consensus 842 EmenlErqQkq~iE~~Eq~h~~rlR~eakRir~E 875 (1187)
T KOG0579|consen 842 EMENLERQQKQEIEDTEQAHEHRLRNEAKRIRIE 875 (1187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 4556666676666665555444444444444333
No 253
>KOG4348 consensus Adaptor protein CMS/SETA [Signal transduction mechanisms]
Probab=41.85 E-value=74 Score=31.32 Aligned_cols=12 Identities=33% Similarity=0.678 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHH
Q 027204 136 SDIEKMRSELRY 147 (226)
Q Consensus 136 ~Eie~L~~~Lke 147 (226)
+|+++|+.+|.+
T Consensus 594 kel~kl~~dlee 605 (627)
T KOG4348|consen 594 KELEKLRKDLEE 605 (627)
T ss_pred HHHHHHHHHHHH
Confidence 444444444433
No 254
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=41.85 E-value=3e+02 Score=25.76 Aligned_cols=24 Identities=8% Similarity=0.379 Sum_probs=10.7
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
|+|+..+...+..|++++..|+..
T Consensus 288 RsElDe~~krL~ELrR~vr~L~k~ 311 (320)
T TIGR01834 288 RSELDEAHQRIQQLRREVKSLKKR 311 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444444444444444444444433
No 255
>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=41.55 E-value=1.6e+02 Score=22.57 Aligned_cols=32 Identities=9% Similarity=0.154 Sum_probs=14.8
Q ss_pred hhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHH
Q 027204 154 AGQRLDLNLERGRIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 154 ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki 185 (226)
+++.-+++.++..+...++.++.++..+..++
T Consensus 66 ~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l 97 (110)
T TIGR02338 66 EEAIQELKEKKETLELRVKTLQRQEERLREQL 97 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555544444444444444444444433
No 256
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=41.45 E-value=91 Score=25.98 Aligned_cols=20 Identities=15% Similarity=0.164 Sum_probs=13.1
Q ss_pred hHHHHHhhHHHHHHHHHHHH
Q 027204 167 IRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 167 ~ree~~~~~~kI~e~~~Ki~ 186 (226)
.|+++...+.+|.++..++.
T Consensus 62 ak~~~~~~e~rI~~L~~~L~ 81 (160)
T PRK06342 62 RRRQMARPLRDLRYLAARRR 81 (160)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 56666667777777666654
No 257
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=41.08 E-value=3.5e+02 Score=28.14 Aligned_cols=7 Identities=29% Similarity=0.705 Sum_probs=4.0
Q ss_pred hCCCChH
Q 027204 62 AQGVPSK 68 (226)
Q Consensus 62 ~aGft~~ 68 (226)
..|+|++
T Consensus 496 ~~Glp~~ 502 (782)
T PRK00409 496 RLGLPEN 502 (782)
T ss_pred HhCcCHH
Confidence 3477764
No 258
>KOG3192 consensus Mitochondrial J-type chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=41.00 E-value=69 Score=27.13 Aligned_cols=25 Identities=20% Similarity=0.329 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
++...||...++.|+..+|+-||+-
T Consensus 122 ~q~q~ri~q~~~qlge~~esk~~~~ 146 (168)
T KOG3192|consen 122 SQNQERIAQCKQQLGEAFESKKYDE 146 (168)
T ss_pred HHHHHHHHHHHHHHHHHHhhccHHH
Confidence 4556788888889999999988774
No 259
>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=40.81 E-value=1.9e+02 Score=24.39 Aligned_cols=38 Identities=24% Similarity=0.462 Sum_probs=16.8
Q ss_pred HHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 109 LSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 109 iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
+.+++.++.. ....++.++.+...|+.++..+...+++
T Consensus 104 l~~l~~~~~~-~~~~l~~l~~~~~~L~~~~~~l~~~l~e 141 (194)
T PF08614_consen 104 LQELEKELSE-KERRLAELEAELAQLEEKIKDLEEELKE 141 (194)
T ss_dssp -----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchhhhhHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444432 2344566666666666666666655544
No 260
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=40.70 E-value=2.2e+02 Score=27.15 Aligned_cols=14 Identities=29% Similarity=0.696 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMRSE 144 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~ 144 (226)
...++.+++++++.
T Consensus 343 ~~~~~~~l~~l~~~ 356 (451)
T PF03961_consen 343 LEELKEELEKLKKN 356 (451)
T ss_pred HHHHHHHHHHHHHH
Confidence 33344444444433
No 261
>TIGR00255 conserved hypothetical protein TIGR00255. The apparent ortholog from Aquifex aeolicus as reported is split into two consecutive reading frames.
Probab=40.44 E-value=2.9e+02 Score=25.25 Aligned_cols=12 Identities=17% Similarity=0.279 Sum_probs=7.2
Q ss_pred HHHHHHHHhHHH
Q 027204 191 ALRAHMEAAKYD 202 (226)
Q Consensus 191 ~LRteIEs~K~d 202 (226)
++|++||..|=+
T Consensus 275 e~K~eiEkiREQ 286 (291)
T TIGR00255 275 EMKVLIEKIKEQ 286 (291)
T ss_pred HHHHHHHHHHHH
Confidence 566666666543
No 262
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=40.33 E-value=1.5e+02 Score=29.19 Aligned_cols=12 Identities=17% Similarity=0.293 Sum_probs=5.5
Q ss_pred HHHHHHHHHHHH
Q 027204 186 DREIHALRAHME 197 (226)
Q Consensus 186 ~~eIa~LRteIE 197 (226)
+.|+..|+.+++
T Consensus 110 EaE~~~Lk~Ql~ 121 (475)
T PRK13729 110 GQDNAALAEQVK 121 (475)
T ss_pred HHHHHHHHHHHH
Confidence 344444444444
No 263
>PF10475 DUF2450: Protein of unknown function N-terminal domain (DUF2450) ; InterPro: IPR019515 This entry represents Vacuolar protein sorting-associated protein 54, and is thought to be involved in retrograde transport from early and late endosomes to late Golgi found in eukaryotes, but its function is not known.
Probab=40.25 E-value=2.7e+02 Score=24.90 Aligned_cols=32 Identities=19% Similarity=0.285 Sum_probs=22.4
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAG 155 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae 155 (226)
...+....++|.+-+|.+..+|..+|.+-.++
T Consensus 30 ~~~i~~~~ekLs~~ldvVe~~L~~~I~~~s~~ 61 (291)
T PF10475_consen 30 LEDIEELQEKLSHYLDVVEKKLSREISEKSDS 61 (291)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455566778888888888888777766553
No 264
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=39.97 E-value=49 Score=20.60 Aligned_cols=21 Identities=29% Similarity=0.558 Sum_probs=12.4
Q ss_pred hHHHhHHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~ 143 (226)
+-..||...++|++.+++|++
T Consensus 9 ekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 9 EKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 344566666777777777654
No 265
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=39.95 E-value=3.8e+02 Score=26.44 Aligned_cols=34 Identities=18% Similarity=0.280 Sum_probs=21.9
Q ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 027204 167 IRDELANQNAETTNLTNKLDREIHALRAHMEAAK 200 (226)
Q Consensus 167 ~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K 200 (226)
.++.+...+.++.++...=..+-+.|+.+|.+++
T Consensus 145 l~e~l~~f~~~v~~~~~~~~~~~~~L~~qi~~L~ 178 (475)
T PRK10361 145 LREQLDGFRRQVQDSFGKEAQERHTLAHEIRNLQ 178 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555566666777766665566667777776654
No 266
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=39.81 E-value=4.3e+02 Score=27.01 Aligned_cols=24 Identities=33% Similarity=0.458 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 129 RETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 129 ~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
+++.+|-.||+.++..+.+++++.
T Consensus 292 ~~i~~L~~di~~~~~S~~~e~e~~ 315 (629)
T KOG0963|consen 292 SEIAQLSNDIERLEASLVEEREKH 315 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444
No 267
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=39.72 E-value=1.9e+02 Score=22.88 Aligned_cols=10 Identities=40% Similarity=0.541 Sum_probs=3.6
Q ss_pred HHHhhhhhhh
Q 027204 148 EIDKVTAGQR 157 (226)
Q Consensus 148 eI~kl~ae~k 157 (226)
+...+....+
T Consensus 88 e~~~~~~~a~ 97 (147)
T TIGR01144 88 EREKIKAQAR 97 (147)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 268
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=39.62 E-value=2.2e+02 Score=23.66 Aligned_cols=31 Identities=13% Similarity=0.147 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 138 IEKMRSELRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 138 ie~L~~~LkeeI~kl~ae~klDlNleK~r~r 168 (226)
.+......+.+...+....+-++..+|.+..
T Consensus 110 ~e~~~~~a~~ea~~~~~~A~~~I~~ek~~a~ 140 (184)
T PRK13455 110 AEQAKADLEASIARRLAAAEDQIASAEAAAV 140 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444444444443
No 269
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=39.59 E-value=1.5e+02 Score=21.65 Aligned_cols=36 Identities=17% Similarity=0.313 Sum_probs=14.6
Q ss_pred HHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 109 LSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 109 iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
|--|...+..........+..++-.|+.+++.|+.+
T Consensus 23 I~fLee~l~~~~~~~~~~~~keNieLKve~~~L~~e 58 (75)
T PF07989_consen 23 IYFLEERLQKLGPESIEELLKENIELKVEVESLKRE 58 (75)
T ss_pred HHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence 333333333333333344444444444444444433
No 270
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=39.38 E-value=5.7e+02 Score=28.32 Aligned_cols=39 Identities=15% Similarity=0.312 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
...+-+.|+++++.+ +|+..|..--+.....++.++..|
T Consensus 492 ~~~~n~~~~e~~vae-sel~~L~~~~~~~~~~~e~lk~~L 530 (1293)
T KOG0996|consen 492 LKQVNEARSELDVAE-SELDILLSRHETGLKKVEELKGKL 530 (1293)
T ss_pred HHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677766544 566666666666666666666554
No 271
>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=39.26 E-value=1.9e+02 Score=22.63 Aligned_cols=38 Identities=24% Similarity=0.306 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 105 QEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEID 150 (226)
Q Consensus 105 ~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~ 150 (226)
.-..+.+||..+ ..+-.|+..|+.|-+.|+..|.+.-.
T Consensus 20 l~~~~~~LK~~~--------~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 20 LLEELEELKKQL--------QELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345566665554 45666777888888888777665433
No 272
>PHA01750 hypothetical protein
Probab=39.19 E-value=1.1e+02 Score=22.34 Aligned_cols=20 Identities=20% Similarity=0.398 Sum_probs=8.7
Q ss_pred hhHHHhHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKM 141 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L 141 (226)
.|..+|+.+.+.++...|.+
T Consensus 42 ~ELdNL~~ei~~~kikqDnl 61 (75)
T PHA01750 42 SELDNLKTEIEELKIKQDEL 61 (75)
T ss_pred HHHHHHHHHHHHHHHhHHHH
Confidence 34444444444444444443
No 273
>cd04780 HTH_MerR-like_sg5 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 5), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=38.93 E-value=51 Score=24.83 Aligned_cols=39 Identities=26% Similarity=0.355 Sum_probs=30.0
Q ss_pred CCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHHH
Q 027204 29 SNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITAA 76 (226)
Q Consensus 29 ~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~a 76 (226)
+...+||.|+ ...+..+++++.|.+ .||+-++...+...
T Consensus 31 r~~~g~r~Y~---------~~dv~~l~~I~~L~~~~G~~l~~I~~~l~~ 70 (95)
T cd04780 31 RLAPNQAEYS---------EAHVERLRLIRALQQEGGLPISQIKEVLDA 70 (95)
T ss_pred CCCCCCeecC---------HHHHHHHHHHHHHHHHcCCCHHHHHHHHHh
Confidence 4455677665 446889999999996 79999998777665
No 274
>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=38.65 E-value=1.4e+02 Score=28.40 Aligned_cols=16 Identities=25% Similarity=0.669 Sum_probs=7.1
Q ss_pred HhHHHHHHHHHHHHHH
Q 027204 126 MLQRETEKLRSDIEKM 141 (226)
Q Consensus 126 ~lr~e~e~Lk~Eie~L 141 (226)
+|+.|++.|+.++++|
T Consensus 43 ~LKkEN~~Lk~eVerL 58 (420)
T PF07407_consen 43 SLKKENNDLKIEVERL 58 (420)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444444
No 275
>cd04752 Commd4 COMM_Domain containing protein 4. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=38.59 E-value=67 Score=26.86 Aligned_cols=35 Identities=14% Similarity=0.172 Sum_probs=31.6
Q ss_pred ccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhH
Q 027204 51 VDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 51 FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l 85 (226)
||.-++.+..+.+||....-.++++++.-++.+..
T Consensus 22 ~~~~~~~kl~~~~~~~~~~lk~~va~l~fiL~~A~ 56 (174)
T cd04752 22 IDYEKVLKLTADAKFESGDVKASIAVLSFILSSAA 56 (174)
T ss_pred CCHHHHHHHHHHhCCCHhhHHHHHHHHHHHHHHHH
Confidence 89999999999999999999999999999986644
No 276
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=38.52 E-value=57 Score=23.33 Aligned_cols=25 Identities=28% Similarity=0.341 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHH
Q 027204 184 KLDREIHALRAHMEAAKYDVIKYCI 208 (226)
Q Consensus 184 Ki~~eIa~LRteIEs~K~d~lrwli 208 (226)
.++.-|+.|+.|||.+|.+..+.-.
T Consensus 29 El~eRIalLq~EIeRlkAe~~kK~~ 53 (65)
T COG5509 29 ELEERIALLQAEIERLKAELAKKKA 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3455678899999999998877643
No 277
>TIGR00987 himA integration host factor, alpha subunit. This protein forms a site-specific DNA-binding heterodimer with the integration host factor beta subunit. It is closely related to the DNA-binding protein HU.
Probab=38.26 E-value=71 Score=23.84 Aligned_cols=36 Identities=17% Similarity=0.276 Sum_probs=28.0
Q ss_pred ccHHHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhHH
Q 027204 51 VDTLQLVRGLE-AQGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 51 FDT~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l~ 86 (226)
++...|++.+- ..|+|..+++++++++-+.+.+.|.
T Consensus 2 mtk~eli~~ia~~~~~s~~~v~~vv~~~~~~i~~~L~ 38 (96)
T TIGR00987 2 LTKAEMSEYLFDELGLSKREAKELVELFFEEIRRALE 38 (96)
T ss_pred CCHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34556777774 5689999999999999999876553
No 278
>TIGR03755 conj_TIGR03755 integrating conjugative element protein, PFL_4711 family. Members of this protein family are found in genomic regions associated with conjugative transfer and integrated TOL-like plasmids. The specific function is unknown.
Probab=38.19 E-value=3.9e+02 Score=26.00 Aligned_cols=79 Identities=25% Similarity=0.291 Sum_probs=38.7
Q ss_pred HHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhh-----------HHH
Q 027204 109 LSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQ-----------NAE 177 (226)
Q Consensus 109 iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~-----------~~k 177 (226)
+.++.+.-....+.=+.+||.+= |-+-|-++|-.||+-.+-=-|.-+ ++ |..++.+ ...
T Consensus 285 L~k~sa~~l~ITrgVIeALr~~P-----dq~~l~~RLA~EiA~a~~~ekALl-~R----R~L~tG~~ePnva~~~~A~~~ 354 (418)
T TIGR03755 285 LAKASSPSLPITRGVIEALREDP-----DQSLLVQRLASEIALADTLEKALL-MR----RMLLTGLQEPNVAANKPAQQE 354 (418)
T ss_pred HHHhcCCCccccHHHHHHHHhCh-----hhHHHHHHHHHHHHHHHHHHHHHH-HH----HHHHhcccCcccccCHHHHHH
Confidence 33444443333444455555552 555666777777665543111111 11 1222111 233
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 027204 178 TTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 178 I~e~~~Ki~~eIa~LRteIE 197 (226)
+.....++|.||.+|+.|+|
T Consensus 355 ~~~~i~~LDrEI~~Lk~E~~ 374 (418)
T TIGR03755 355 VDKAIDKLDREINNLKTELE 374 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44455667777877877777
No 279
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=38.03 E-value=29 Score=26.90 Aligned_cols=18 Identities=17% Similarity=0.342 Sum_probs=12.7
Q ss_pred CCChHHHHHHHHHHHHHH
Q 027204 64 GVPSKQAEAITAAITEVL 81 (226)
Q Consensus 64 Gft~~QAeai~~al~~~l 81 (226)
||.+++-...+..+..-+
T Consensus 17 GYd~~eVD~fl~~l~~~~ 34 (131)
T PF05103_consen 17 GYDPDEVDDFLDELAEEL 34 (131)
T ss_dssp EEEHHHHHHHHHHHHHHH
T ss_pred CcCHHHHHHHHHHHHHHH
Confidence 888888777776665443
No 280
>PF13166 AAA_13: AAA domain
Probab=37.90 E-value=4.3e+02 Score=26.42 Aligned_cols=26 Identities=23% Similarity=0.484 Sum_probs=12.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
++...+.+...++.+.+.|...+...
T Consensus 327 ~~~~~~~l~~~l~~l~~~L~~K~~~~ 352 (712)
T PF13166_consen 327 LKSAIEALKEELEELKKALEKKIKNP 352 (712)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 33344445555555555554444433
No 281
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=37.88 E-value=2.9e+02 Score=24.48 Aligned_cols=32 Identities=13% Similarity=0.107 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHH
Q 027204 138 IEKMRSELRYEIDKVTAGQRLDLNLERGRIRD 169 (226)
Q Consensus 138 ie~L~~~LkeeI~kl~ae~klDlNleK~r~re 169 (226)
.+.+-.+-++|...++...+-++..||.+...
T Consensus 88 ~~~il~~A~~ea~~~~~~a~~~ie~Ek~~a~~ 119 (250)
T PRK14474 88 RQHLLNEAREDVATARDEWLEQLEREKQEFFK 119 (250)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444455555555555555444444333
No 282
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=37.81 E-value=35 Score=21.02 Aligned_cols=21 Identities=24% Similarity=0.246 Sum_probs=15.0
Q ss_pred HHHHHHhhCCCChHHHHHHHH
Q 027204 55 QLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 55 ~fvk~Le~aGft~~QAeai~~ 75 (226)
.-++.|.+.||++++|..-..
T Consensus 4 ~~v~~L~~mGf~~~~~~~AL~ 24 (37)
T PF00627_consen 4 EKVQQLMEMGFSREQAREALR 24 (37)
T ss_dssp HHHHHHHHHTS-HHHHHHHHH
T ss_pred HHHHHHHHcCCCHHHHHHHHH
Confidence 457889888999998865443
No 283
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=37.60 E-value=2.4e+02 Score=23.35 Aligned_cols=95 Identities=7% Similarity=0.174 Sum_probs=0.0
Q ss_pred HHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 027204 77 ITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQ 156 (226)
Q Consensus 77 l~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~ 156 (226)
+..++.+.-+.+.+++ .+.++..-+-.....+.+..+...+..--..+..-...-+.+.+..-.+-+.|........
T Consensus 47 i~~~l~~R~~~I~~~l---~~Ae~~~~ea~~~~~e~e~~L~~Ar~eA~~Ii~~A~~eAe~~~~~ii~~A~~ea~~~~~~a 123 (167)
T PRK08475 47 LKNFYKSRINKISKRL---EEIQEKLKESKEKKEDALKKLEEAKEKAELIVETAKKEAYILTQKIEKQTKDDIENLIKSF 123 (167)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhhhhhhhhhhHHHHHhh
Q 027204 157 RLDLNLERGRIRDELANQ 174 (226)
Q Consensus 157 klDlNleK~r~ree~~~~ 174 (226)
+-++..||.+...+..+.
T Consensus 124 ~~~ie~Ek~~a~~elk~e 141 (167)
T PRK08475 124 EELMEFEVRKMEREVVEE 141 (167)
T ss_pred HHHHHHHHHHHHHHHHHH
No 284
>PRK13895 conjugal transfer protein TraM; Provisional
Probab=37.56 E-value=2.4e+02 Score=23.43 Aligned_cols=49 Identities=16% Similarity=0.154 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH----HhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 176 AETTNLTNKLDREIHALRAHME----AAKYDVIKYCIGTLVSISAVGLAIVRI 224 (226)
Q Consensus 176 ~kI~e~~~Ki~~eIa~LRteIE----s~K~d~lrwliG~v~~~~al~la~~rl 224 (226)
.-+++....|..+|.+.-.++- ..|.--+--+++.++.+++..+++|-+
T Consensus 91 e~~~~~~~~i~~~i~~~~~e~~~~~~~tr~~a~~nl~As~~~~~a~~v~~~~~ 143 (144)
T PRK13895 91 EGAKAAAEAVRREISASLAELAAPVREARRVAMMNLVASGMAVLAACVALWAS 143 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344455555555554444433 333222333555555555555555543
No 285
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=37.55 E-value=2.5e+02 Score=23.63 Aligned_cols=12 Identities=25% Similarity=0.454 Sum_probs=5.6
Q ss_pred HHHHHHHHHHHh
Q 027204 188 EIHALRAHMEAA 199 (226)
Q Consensus 188 eIa~LRteIEs~ 199 (226)
+|..|+.+|++.
T Consensus 164 ~I~~L~~~I~~~ 175 (184)
T PF05791_consen 164 DIPQLQKQIENL 175 (184)
T ss_dssp -HHHHHHHHHHH
T ss_pred CHHHHHHHHHHH
Confidence 344555555544
No 286
>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed
Probab=37.51 E-value=2e+02 Score=27.62 Aligned_cols=20 Identities=15% Similarity=0.064 Sum_probs=11.0
Q ss_pred ceeccHH-------HHHHHHhhCCCCh
Q 027204 48 AFLVDTL-------QLVRGLEAQGVPS 67 (226)
Q Consensus 48 ~~~FDT~-------~fvk~Le~aGft~ 67 (226)
++-|.+| ++.+.|-+.|+.+
T Consensus 78 ~vEi~~HG~~~v~~~il~~l~~~g~r~ 104 (449)
T PRK05291 78 VVEIQCHGGPAVLNLILELLLALGARL 104 (449)
T ss_pred EEEEECCCCHHHHHHHHHHHHHcCCEE
Confidence 4556666 4555565555443
No 287
>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=37.45 E-value=3.2e+02 Score=30.05 Aligned_cols=17 Identities=29% Similarity=0.446 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHhh
Q 027204 68 KQAEAITAAITEVLNDS 84 (226)
Q Consensus 68 ~QAeai~~al~~~l~~~ 84 (226)
.||..-|.++..++...
T Consensus 1011 ~~AK~QMDaIKqmIekK 1027 (1439)
T PF12252_consen 1011 RQAKAQMDAIKQMIEKK 1027 (1439)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 68888999998887654
No 288
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=37.18 E-value=99 Score=29.93 Aligned_cols=40 Identities=15% Similarity=0.263 Sum_probs=27.3
Q ss_pred HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Q 027204 168 RDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYC 207 (226)
Q Consensus 168 ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwl 207 (226)
|.-+..-..++.+-...+-+.+.+|..-||.+|.|++.+-
T Consensus 201 R~~~~~~k~~L~~~sd~Ll~kVdDLQD~VE~LRkDV~~Rg 240 (424)
T PF03915_consen 201 RAYMESGKKKLSEESDRLLTKVDDLQDLVEDLRKDVVQRG 240 (424)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3333344455666666777778889999999999987663
No 289
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=37.18 E-value=2.4e+02 Score=23.29 Aligned_cols=54 Identities=9% Similarity=0.266 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhhhh--hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204 106 EANLSKFKSEVQSSQE--HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD 159 (226)
Q Consensus 106 ka~iseLR~El~~~~k--~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD 159 (226)
+.++.+.-..|..+.+ .+...|+.+++.|+.+.+.-......++..++-+.-++
T Consensus 33 k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~~~~~~~~~e~~l~~~~~~~ai~ 88 (155)
T PF06810_consen 33 KTQLKEADKQIKDLKKSAKDNEELKKQIEELQAKNKTAKEEYEAKLAQMKKDSAIK 88 (155)
T ss_pred HHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444 56666777777777777766666666666665443333
No 290
>PHA03332 membrane glycoprotein; Provisional
Probab=37.12 E-value=3.7e+02 Score=29.43 Aligned_cols=78 Identities=14% Similarity=0.184 Sum_probs=51.9
Q ss_pred hhHHHhHHHHHHHHHHHHHHHH---HHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHH-------
Q 027204 122 HHFSMLQRETEKLRSDIEKMRS---ELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHA------- 191 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~---~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~------- 191 (226)
.+++.+++....+..-|+.+.. ++-+-|.++.+...-.|..--+|+.+...+.+.++-+++..|++--..
T Consensus 891 aaia~mksaIg~tNaAV~~lsDai~klGnti~kisatl~~nI~avNgRIs~Led~VN~r~~~v~~~intLA~ql~~~~~~ 970 (1328)
T PHA03332 891 AATAEMASKIGGLNARVDKTSDVITKLGDTIAKISATLDNNIRAVNGRVSDLEDQVNLRFLAVATNFNTLATQLKELGTT 970 (1328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHHhcccHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Confidence 5566778888888888888776 455568888776555555555677777777777777766665554433
Q ss_pred HHHHHHHh
Q 027204 192 LRAHMEAA 199 (226)
Q Consensus 192 LRteIEs~ 199 (226)
+..+||.+
T Consensus 971 ~N~~ie~~ 978 (1328)
T PHA03332 971 TNERIEEV 978 (1328)
T ss_pred HHHHHHHH
Confidence 56666643
No 291
>COG5547 Small integral membrane protein [Function unknown]
Probab=37.06 E-value=55 Score=23.21 Aligned_cols=29 Identities=21% Similarity=0.386 Sum_probs=23.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 196 MEAAKYDVIKYCIGTLVSISAVGLAIVRI 224 (226)
Q Consensus 196 IEs~K~d~lrwliG~v~~~~al~la~~rl 224 (226)
.|..||-++--++|+++++..+.+|+++-
T Consensus 4 lk~fkypIIgglvglliAili~t~GfwKt 32 (62)
T COG5547 4 LKKFKYPIIGGLVGLLIAILILTFGFWKT 32 (62)
T ss_pred HHHhccchHHHHHHHHHHHHHHHHHHHHH
Confidence 35677888888889988888888888864
No 292
>PRK15043 transcriptional regulator MirA; Provisional
Probab=37.00 E-value=62 Score=28.96 Aligned_cols=45 Identities=13% Similarity=0.167 Sum_probs=34.2
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITA 75 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~ 75 (226)
.|+--|.+...|||.+| .-.++.+++++.|.+.||+.++...+..
T Consensus 27 ~GLL~P~Rt~~G~R~Ys---------~~dv~rL~~I~~l~~~G~~i~eIk~ll~ 71 (243)
T PRK15043 27 YGLLKPQRTDGGHRLFN---------DADIDRIREIKRWIDNGVQVSKVKMLLS 71 (243)
T ss_pred cCCCCCccCCCCCEEEC---------HHHHHHHHHHHHHHHcCCCHHHHHHHHh
Confidence 35545555667888887 3358999999999999999998765554
No 293
>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=36.69 E-value=69 Score=22.38 Aligned_cols=18 Identities=33% Similarity=0.586 Sum_probs=8.6
Q ss_pred HHHhHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKM 141 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L 141 (226)
++.++++.+.++.+.+.|
T Consensus 26 i~~l~~~i~~l~~e~~~L 43 (80)
T PF04977_consen 26 IAELQKEIEELKKENEEL 43 (80)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344445555454444444
No 294
>PF14389 Lzipper-MIP1: Leucine-zipper of ternary complex factor MIP1
Probab=36.58 E-value=1.8e+02 Score=21.73 Aligned_cols=21 Identities=19% Similarity=0.360 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 027204 132 EKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 132 e~Lk~Eie~L~~~LkeeI~kl 152 (226)
..|..||..|+..|.+|+.-=
T Consensus 11 ~~LeqeV~~Lq~~L~~E~~~r 31 (88)
T PF14389_consen 11 SALEQEVAELQKQLQEEQDLR 31 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 348889999999998886543
No 295
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=36.53 E-value=2.3e+02 Score=22.90 Aligned_cols=18 Identities=22% Similarity=0.296 Sum_probs=7.1
Q ss_pred HHHHHHHhhhhhhhhhhh
Q 027204 144 ELRYEIDKVTAGQRLDLN 161 (226)
Q Consensus 144 ~LkeeI~kl~ae~klDlN 161 (226)
+-+.+..++....+-++.
T Consensus 94 ~A~~ea~~~~~~a~~~i~ 111 (159)
T PRK13461 94 EAHEEADLIIERAKLEAQ 111 (159)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333344444443333333
No 296
>PF05461 ApoL: Apolipoprotein L; InterPro: IPR008405 Apo L belongs to the high density lipoprotein family that plays a central role in cholesterol transport. The cholesterol content of membranes is important in cellular processes such as modulating gene transcription and signal transduction both in the adult brain and during neurodevelopment. There are six apo L genes located in close proximity to each other on chromosome 22q12 in humans. 22q12 is a confirmed high-susceptibility locus for schizophrenia and close to the region associated with velocardiofacial syndrome that includes symptoms of schizophrenia []. The various functions of apoL are still not entirely clear. Apolipoprotein L-I has been identified as a trypanolytic agent [] and displays similar phylogenetic distribution to the programmed cell death protein Bcl-2 and BH-3 domain-containing proteins, suggesting a possible role in apoptosis [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region
Probab=36.02 E-value=3.6e+02 Score=24.96 Aligned_cols=27 Identities=19% Similarity=0.263 Sum_probs=19.3
Q ss_pred HHHHHHhhCCCChHHHHHHHHHHHHHH
Q 027204 55 QLVRGLEAQGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 55 ~fvk~Le~aGft~~QAeai~~al~~~l 81 (226)
..-.-...+|+|++.|.++-+++.++.
T Consensus 16 aw~~~~~~~~l~rde~d~l~~~L~~l~ 42 (313)
T PF05461_consen 16 AWERFVAEAELSRDEADALREALKELT 42 (313)
T ss_pred HHHHHHHhccCchhhHHHHHHHHHHHH
Confidence 334445677888888888888877764
No 297
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=36.01 E-value=1.3e+02 Score=29.67 Aligned_cols=41 Identities=17% Similarity=0.206 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 104 IQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 104 ~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
+++..|+.||+|++.+.+ +-..+...++.+..|+..|++++
T Consensus 80 ELEKqLaaLrqElq~~sa-q~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 80 QMQKQYEEIRRELDVLNK-QRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHHHHHHHHH
Confidence 446667777777652221 11123334444445555544443
No 298
>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=35.82 E-value=2e+02 Score=24.04 Aligned_cols=11 Identities=45% Similarity=0.625 Sum_probs=5.3
Q ss_pred HHHHHHHHHHH
Q 027204 188 EIHALRAHMEA 198 (226)
Q Consensus 188 eIa~LRteIEs 198 (226)
++..|+.+.|.
T Consensus 176 ~~~~LkkQ~~~ 186 (192)
T PF05529_consen 176 EIEALKKQSEG 186 (192)
T ss_pred HHHHHHHHHHH
Confidence 34455555544
No 299
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.54 E-value=3.5e+02 Score=24.68 Aligned_cols=33 Identities=12% Similarity=0.291 Sum_probs=20.5
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDKVT 153 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ 153 (226)
+.++..+..+..+++.+|+.++..++++=..+.
T Consensus 72 ~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~ 104 (265)
T COG3883 72 QKEIDQSKAEIKKLQKEIAELKENIVERQELLK 104 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666666666777777777666666544443
No 300
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=35.31 E-value=1.9e+02 Score=21.69 Aligned_cols=8 Identities=25% Similarity=0.783 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 027204 134 LRSDIEKM 141 (226)
Q Consensus 134 Lk~Eie~L 141 (226)
++.+++.|
T Consensus 41 l~~~~e~l 48 (108)
T PF02403_consen 41 LQQELEEL 48 (108)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHHH
Confidence 33333333
No 301
>PRK14471 F0F1 ATP synthase subunit B; Provisional
Probab=35.19 E-value=2.5e+02 Score=22.85 Aligned_cols=17 Identities=0% Similarity=0.190 Sum_probs=7.0
Q ss_pred HHHHHHHHhHHHHHHHH
Q 027204 191 ALRAHMEAAKYDVIKYC 207 (226)
Q Consensus 191 ~LRteIEs~K~d~lrwl 207 (226)
.|++++..+=.++...+
T Consensus 123 ~l~~~i~~la~~~a~ki 139 (164)
T PRK14471 123 EIKNQVANLSVEIAEKV 139 (164)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444444433333333
No 302
>PF09787 Golgin_A5: Golgin subfamily A member 5; InterPro: IPR019177 This entry represents a family of proteins involved in maintaining Golgi structure. They stimulate the formation of Golgi stacks and ribbons, and are involved in intra-Golgi retrograde transport. Two main interactions have been characterised: one with RAB1A that has been activated by GTP-binding and another with isoform CASP of CUTL1 [].
Probab=35.09 E-value=4.4e+02 Score=25.77 Aligned_cols=30 Identities=20% Similarity=0.505 Sum_probs=18.6
Q ss_pred HHHhHHHHHHHHHHHHHHHHHH---HHHHHhhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSEL---RYEIDKVT 153 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~L---keeI~kl~ 153 (226)
...++.|.+.++.++..|+..+ +.|+....
T Consensus 276 l~~l~~E~~~~~ee~~~l~~Qi~~l~~e~~d~e 308 (511)
T PF09787_consen 276 LEELKQERDHLQEEIQLLERQIEQLRAELQDLE 308 (511)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5567777777777777776666 44444443
No 303
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=34.94 E-value=4.8e+02 Score=26.13 Aligned_cols=18 Identities=28% Similarity=0.610 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027204 128 QRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 128 r~e~e~Lk~Eie~L~~~L 145 (226)
..++..|+..++.|+..+
T Consensus 343 Eeei~~L~~~~d~L~~q~ 360 (622)
T COG5185 343 EEEIKALQSNIDELHKQL 360 (622)
T ss_pred HHHHHHHHhhHHHHHHHH
Confidence 334444555555555444
No 304
>PRK13979 DNA topoisomerase IV subunit A; Provisional
Probab=34.89 E-value=1.2e+02 Score=32.40 Aligned_cols=29 Identities=17% Similarity=0.190 Sum_probs=17.2
Q ss_pred HhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 117 QSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 117 ~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
+.+.+-|...++.|.+.|+.+|+.++.=|
T Consensus 441 ~~Lt~le~~kl~~E~~eL~~~I~~l~~iL 469 (957)
T PRK13979 441 YRLTGLEIVAFEKEYKELEKLIKKLTKIL 469 (957)
T ss_pred HhhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445566666666666666666665443
No 305
>TIGR01000 bacteriocin_acc bacteriocin secretion accessory protein. This family represents an accessory protein that works with the bacteriocin maturation and ABC transport secretion protein described by TIGR01193.
Probab=34.75 E-value=4.1e+02 Score=25.30 Aligned_cols=10 Identities=10% Similarity=-0.067 Sum_probs=4.6
Q ss_pred eeccHHHHHH
Q 027204 49 FLVDTLQLVR 58 (226)
Q Consensus 49 ~~FDT~~fvk 58 (226)
+.+|.-.+-.
T Consensus 88 ~~ld~~~~~~ 97 (457)
T TIGR01000 88 VVYDNGNEEN 97 (457)
T ss_pred EEECchHHHH
Confidence 4455544433
No 306
>PF01025 GrpE: GrpE; InterPro: IPR000740 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolysing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. In prokaryotes the grpE protein. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold []. DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. The X-ray crystal structure of GrpE in complex with the ATPase domain of DnaK revealed that GrpE is an asymmetric homodimer, bent in a manner that favours extensive contacts with only one DnaKATPase monomer []. GrpE does not actively compete for the atomic positions occupied by the nucleotide. GrpE and ADP mutually reduce one another's affinity for DnaK 200-fold, and ATP instantly dissociates GrpE from DnaK.; GO: 0000774 adenyl-nucleotide exchange factor activity, 0042803 protein homodimerization activity, 0051087 chaperone binding, 0006457 protein folding; PDB: 3A6M_A 4ANI_A 1DKG_B.
Probab=34.66 E-value=2e+02 Score=23.17 Aligned_cols=32 Identities=19% Similarity=0.286 Sum_probs=19.8
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAG 155 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae 155 (226)
+..+.....++..|+++++.++..+....+..
T Consensus 27 ~~~l~~~~~r~~ae~en~~~r~~~e~~~~~~~ 58 (165)
T PF01025_consen 27 IEELKERLLRLQAEFENYRKRLEKEKEEAKKY 58 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555566677777777776666655543
No 307
>PRK01919 tatB sec-independent translocase; Provisional
Probab=34.62 E-value=2e+02 Score=24.53 Aligned_cols=51 Identities=12% Similarity=0.225 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 027204 104 IQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQ 156 (226)
Q Consensus 104 ~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~ 156 (226)
.++..++++|.|+. +.-++..++.....++.....+++.+.+++..+..++
T Consensus 38 k~Rr~~~d~K~ev~--~E~e~dElrk~~~~~e~~~~~v~~si~~~~~~~~~~~ 88 (169)
T PRK01919 38 RAQRYINDVKAEVS--REIELDELRKMKTDFESAARDVENTIHDNLSEHESDL 88 (169)
T ss_pred HHHHHHHHHHHHHH--HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhH
No 308
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=34.57 E-value=1.5e+02 Score=24.00 Aligned_cols=57 Identities=26% Similarity=0.313 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhh--hhhh--hhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTAGQ--RLDL--NLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~ae~--klDl--NleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
-.++|+.|++.|++.-+-++.+-.++. ..|+ |.+-...++....++.+|.+++.++.
T Consensus 6 g~~~L~~el~~L~~~~r~~~~~~~~~a~~~gDl~Ena~y~aak~~~~~~e~ri~~L~~~L~ 66 (151)
T TIGR01462 6 GYEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLA 66 (151)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHCCChhhccchHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677777777765444444332222 1233 33333445566666666666655544
No 309
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=34.53 E-value=4e+02 Score=25.10 Aligned_cols=94 Identities=15% Similarity=0.323 Sum_probs=0.0
Q ss_pred HHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhh
Q 027204 86 ENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165 (226)
Q Consensus 86 ~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~ 165 (226)
.......+.+++ ..+.+=..||..+ ...+..-...|+...+.+..-|+..|..... .+-.+..++.
T Consensus 203 ~~~s~~ni~~a~------~e~~~S~~LR~~i-------~~~l~~~~~dl~~Q~~~vn~al~~Ri~et~~-ak~~Le~ql~ 268 (384)
T PF03148_consen 203 EEFSNENIQRAE------KERQSSAQLREDI-------DSILEQTANDLRAQADAVNAALRKRIHETQE-AKNELEWQLK 268 (384)
T ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHH
Q ss_pred hhHHHHHhhHHHHHHHHHHHHHHHHHHH
Q 027204 166 RIRDELANQNAETTNLTNKLDREIHALR 193 (226)
Q Consensus 166 r~ree~~~~~~kI~e~~~Ki~~eIa~LR 193 (226)
++.+++..++..|..+..-|.-..+.|+
T Consensus 269 ~~~~ei~~~e~~i~~L~~ai~~k~~~lk 296 (384)
T PF03148_consen 269 KTLQEIAEMEKNIEDLEKAIRDKEGPLK 296 (384)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhHH
No 310
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=34.46 E-value=3.5e+02 Score=24.49 Aligned_cols=45 Identities=33% Similarity=0.442 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHhhh---hhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 101 TEMIQEANLSKFKSEVQSSQ---EHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 101 ~~y~~ka~iseLR~El~~~~---k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
++|.....+...++||+..+ .++++.|+.+.+.|.+.|.+...++
T Consensus 57 le~~~~~~l~~ak~eLqe~eek~e~~l~~Lq~ql~~l~akI~k~~~el 104 (258)
T PF15397_consen 57 LEYSNHKQLQQAKAELQEWEEKEESKLSKLQQQLEQLDAKIQKTQEEL 104 (258)
T ss_pred HHccChHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556677777888877544 4555556666555555555554443
No 311
>PRK04863 mukB cell division protein MukB; Provisional
Probab=34.41 E-value=7.3e+02 Score=28.09 Aligned_cols=34 Identities=35% Similarity=0.467 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHH---HHHHHHHHHHhH--HH-HHHH
Q 027204 173 NQNAETTNLTNKLDRE---IHALRAHMEAAK--YD-VIKY 206 (226)
Q Consensus 173 ~~~~kI~e~~~Ki~~e---Ia~LRteIEs~K--~d-~lrw 206 (226)
..+.+|..+.+++... ...++.+|+.+| |. +++|
T Consensus 1085 ~re~EIe~L~kkL~~~~~e~~~~re~I~~aK~~W~~v~~~ 1124 (1486)
T PRK04863 1085 FCEAEMDNLTKKLRKLERDYHEMREQVVNAKAGWCAVLRL 1124 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3356666666666554 456777888766 54 3444
No 312
>PRK00050 16S rRNA m(4)C1402 methyltranserfase; Provisional
Probab=34.37 E-value=1.7e+02 Score=26.86 Aligned_cols=126 Identities=17% Similarity=0.251 Sum_probs=73.6
Q ss_pred cccccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHH
Q 027204 20 KSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQ 99 (226)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle 99 (226)
...||+|.....-+=||=.+...+.....=.++-..+.+-|..-|--+ +|.-|+.++.+.- ....+-|-.||.
T Consensus 108 ~~RGFSf~~~gpLDMRmd~~~~~sA~~~ln~~~~~~L~~i~~~yGee~-~a~~iA~~Iv~~R------~~~~~~tt~~L~ 180 (296)
T PRK00050 108 AERGFSFRKDGPLDMRMDQSQGLTAAEVVNTYSEEELARIFKEYGEER-FARRIARAIVEAR------PKKPITTTGELA 180 (296)
T ss_pred CcCCcccCCCCCCcCCcCCCCCCCHHHHHhhCCHHHHHHHHHHhcCcc-hHHHHHHHHHHHh------ccCCCCCHHHHH
Confidence 567999877665666663322223333444567778899999988543 6888888776541 123455555554
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204 100 KTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD 159 (226)
Q Consensus 100 ~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD 159 (226)
++.... +..-+... .--.-=|.+||-+ +..|++.|+.-|..-..-|+.+=++=
T Consensus 181 ~~i~~~---~~~~~~~~-hpatr~FQAlRI~---VN~El~~L~~~L~~~~~~L~~gGrl~ 233 (296)
T PRK00050 181 EIIKSA---VPPRRKGI-HPATRTFQALRIE---VNDELEELERALEAALDLLKPGGRLA 233 (296)
T ss_pred HHHHHH---cCccCCCC-CchHHHHHHHHHH---HHhhHHHHHHHHHHHHHHhcCCCEEE
Confidence 443221 11000000 1112346777777 77888888888888777777665554
No 313
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=34.35 E-value=88 Score=30.78 Aligned_cols=57 Identities=19% Similarity=0.229 Sum_probs=45.8
Q ss_pred CCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHH
Q 027204 45 GKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ 105 (226)
Q Consensus 45 ~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ 105 (226)
+++..||--==+++.|+.+|+++++|-+|+..+..-|. .-....+|+.+|....|+.
T Consensus 88 ~~~~~PFSkGiLarSL~~aG~~~~~Ay~iA~~Ve~~Lr----~~~~~~Is~~eL~~~v~~~ 144 (475)
T PRK12337 88 GRGRRPFSRGVLARSLEDAGFSPREAYELASAVELRLR----QEGVREIGAKELEKRTARE 144 (475)
T ss_pred CCCCCCcchhhHHHHHHHcCCCHHHHHHHHHHHHHHHH----HcCCcccCHHHHHHHHHHH
Confidence 45567777777999999999999999999998877654 3456788999998877654
No 314
>smart00165 UBA Ubiquitin associated domain. Present in Rad23, SNF1-like kinases. The newly-found UBA in p62 is known to bind ubiquitin.
Probab=34.24 E-value=62 Score=19.54 Aligned_cols=22 Identities=18% Similarity=0.158 Sum_probs=16.4
Q ss_pred HHHHHHhhCCCChHHHHHHHHH
Q 027204 55 QLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 55 ~fvk~Le~aGft~~QAeai~~a 76 (226)
..+.+|.+-||++++|......
T Consensus 3 ~~v~~L~~mGf~~~~a~~aL~~ 24 (37)
T smart00165 3 EKIDQLLEMGFSREEALKALRA 24 (37)
T ss_pred HHHHHHHHcCCCHHHHHHHHHH
Confidence 3577889999999987655443
No 315
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=34.20 E-value=2e+02 Score=30.45 Aligned_cols=30 Identities=7% Similarity=0.135 Sum_probs=13.6
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 125 SMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
..|..+.+.++.-++.+..-+.+++..++.
T Consensus 435 ~~l~~~i~~~~~~L~~l~~~ii~el~~i~~ 464 (869)
T PRK12758 435 ARLEAEIAEVKHHLAHLTDYAIAYFTNLKK 464 (869)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444445444433
No 316
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=34.02 E-value=2.7e+02 Score=26.10 Aligned_cols=13 Identities=23% Similarity=0.312 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHHH
Q 027204 205 KYCIGTLVSISAV 217 (226)
Q Consensus 205 rwliG~v~~~~al 217 (226)
|.-+.+++..+++
T Consensus 127 Kl~~tii~l~~~~ 139 (330)
T PF07851_consen 127 KLYLTIILLLFAV 139 (330)
T ss_pred HHHHHHHHHHHHH
Confidence 3333443333333
No 317
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=33.87 E-value=4.4e+02 Score=25.36 Aligned_cols=24 Identities=17% Similarity=0.274 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 131 TEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
.++|...++.+.+--..||..|+.
T Consensus 260 ~erLEeqlNd~~elHq~Ei~~LKq 283 (395)
T PF10267_consen 260 YERLEEQLNDLTELHQNEIYNLKQ 283 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444445555544
No 318
>smart00338 BRLZ basic region leucin zipper.
Probab=33.78 E-value=1.6e+02 Score=20.24 Aligned_cols=14 Identities=43% Similarity=0.840 Sum_probs=5.5
Q ss_pred hHHHHHHHHHHHHH
Q 027204 127 LQRETEKLRSDIEK 140 (226)
Q Consensus 127 lr~e~e~Lk~Eie~ 140 (226)
|..++..|+.+++.
T Consensus 38 L~~en~~L~~~~~~ 51 (65)
T smart00338 38 LEAENERLKKEIER 51 (65)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333344444443
No 319
>PLN02678 seryl-tRNA synthetase
Probab=33.60 E-value=2.6e+02 Score=27.22 Aligned_cols=9 Identities=22% Similarity=0.401 Sum_probs=3.2
Q ss_pred HhhHHHHHH
Q 027204 172 ANQNAETTN 180 (226)
Q Consensus 172 ~~~~~kI~e 180 (226)
..++.++.+
T Consensus 88 ~~le~~~~~ 96 (448)
T PLN02678 88 TEKEAEVQE 96 (448)
T ss_pred HHHHHHHHH
Confidence 333333333
No 320
>PRK14472 F0F1 ATP synthase subunit B; Provisional
Probab=33.56 E-value=2.7e+02 Score=22.91 Aligned_cols=6 Identities=33% Similarity=0.584 Sum_probs=2.2
Q ss_pred HHHHHH
Q 027204 191 ALRAHM 196 (226)
Q Consensus 191 ~LRteI 196 (226)
+|+.++
T Consensus 133 ~l~~~i 138 (175)
T PRK14472 133 VLRNEV 138 (175)
T ss_pred HHHHHH
Confidence 333333
No 321
>PF06580 His_kinase: Histidine kinase; InterPro: IPR010559 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This family represents a region within bacterial histidine kinase enzymes. Two-component signal transduction systems such as those mediated by histidine kinase are integral parts of bacterial cellular regulatory processes, and are used to regulate the expression of genes involved in virulence. Members of this family often contain IPR003594 from INTERPRO and/or IPR003660 from INTERPRO.; GO: 0000155 two-component sensor activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane
Probab=33.54 E-value=41 Score=24.51 Aligned_cols=46 Identities=24% Similarity=0.390 Sum_probs=34.5
Q ss_pred CcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhh
Q 027204 46 KRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVS 94 (226)
Q Consensus 46 ~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvT 94 (226)
.+++.|+|+..+..|-..| +++|..++..+.+.+.-++ ....+.+|
T Consensus 10 nPHFl~NtLn~I~~l~~~~--~~~~~~~i~~ls~~lRy~l-~~~~~~v~ 55 (82)
T PF06580_consen 10 NPHFLFNTLNSISWLARID--PEKASEMILSLSDLLRYSL-SSKEEFVT 55 (82)
T ss_pred ChHHHHHHHHHHHHHHHcC--HHHHHHHHHHHHHHHHHHh-CCCCCeee
Confidence 3577899999999999888 8888888888888876655 33333333
No 322
>PRK05560 DNA gyrase subunit A; Validated
Probab=33.51 E-value=1.6e+02 Score=30.71 Aligned_cols=29 Identities=14% Similarity=0.114 Sum_probs=18.0
Q ss_pred hhhhhhHHHhHHHHHHHHHHHHHHHHHHH
Q 027204 118 SSQEHHFSMLQRETEKLRSDIEKMRSELR 146 (226)
Q Consensus 118 ~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lk 146 (226)
.+.+.|...|+.|.+.|+.+++.++.-|.
T Consensus 426 ~LT~~e~~kL~~E~~~l~~ei~~l~~iL~ 454 (805)
T PRK05560 426 RLTGLERDKIEDEYKELLALIADLKDILA 454 (805)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 34455666666777777777766665543
No 323
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=33.44 E-value=3.6e+02 Score=24.32 Aligned_cols=11 Identities=18% Similarity=0.238 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q 027204 70 AEAITAAITEV 80 (226)
Q Consensus 70 Aeai~~al~~~ 80 (226)
|+.+-+.++..
T Consensus 75 A~kf~eeLrg~ 85 (290)
T COG4026 75 AEKFFEELRGM 85 (290)
T ss_pred HHHHHHHHHHh
Confidence 44444444443
No 324
>TIGR02106 cyd_oper_ybgT cyd operon protein YbgT. This model describes a very small (as short as 33 amino acids) protein of unknown function, essentially always found in an operon with CydAB, subunits of the cytochrome d terminal oxidase. It begins with an aromatic motif MWYFXW and appears to contain a membrane-spanning helix. This protein appears to be restricted to the Proteobacteria and exist in a single copy only. We suggest it may be a membrane subunit of the terminal oxidase. The family is named after the E. coli member YbgT. This model excludes the apparently related protein YccB.
Probab=33.41 E-value=73 Score=19.59 Aligned_cols=19 Identities=21% Similarity=0.272 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027204 205 KYCIGTLVSISAVGLAIVR 223 (226)
Q Consensus 205 rwliG~v~~~~al~la~~r 223 (226)
-|++|+.++|...++..++
T Consensus 5 aWilG~~lA~~~~v~~a~w 23 (30)
T TIGR02106 5 AWILGTLLACAFGVLNAMW 23 (30)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4777777666655554443
No 325
>PF14769 CLAMP: Flagellar C1a complex subunit C1a-32
Probab=33.41 E-value=82 Score=23.82 Aligned_cols=32 Identities=25% Similarity=0.464 Sum_probs=25.2
Q ss_pred cHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHH
Q 027204 52 DTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 52 DT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~ 86 (226)
|++-|.+ +.|||.+|.-+++.++..++..+++
T Consensus 2 ~~~~Fa~---~~~fs~~q~s~~~~i~~~ll~~~i~ 33 (101)
T PF14769_consen 2 NTFLFAK---EQGFSWEQTSAFLSILKELLEKNIE 33 (101)
T ss_pred chhHhHh---hCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4555554 4799999999999999999876653
No 326
>PRK11820 hypothetical protein; Provisional
Probab=33.41 E-value=3.8e+02 Score=24.48 Aligned_cols=12 Identities=17% Similarity=0.307 Sum_probs=7.6
Q ss_pred HHHHHHHHhHHH
Q 027204 191 ALRAHMEAAKYD 202 (226)
Q Consensus 191 ~LRteIEs~K~d 202 (226)
++|++||..|=+
T Consensus 272 e~K~elEkiREQ 283 (288)
T PRK11820 272 ELKVLIEQMREQ 283 (288)
T ss_pred HHHHHHHHHHHH
Confidence 567777766644
No 327
>PRK10664 transcriptional regulator HU subunit beta; Provisional
Probab=33.28 E-value=83 Score=23.49 Aligned_cols=31 Identities=23% Similarity=0.316 Sum_probs=24.9
Q ss_pred HHHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 55 QLVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 55 ~fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
.+++.|. +.|+|..||+.+++++-+.+.+.+
T Consensus 5 eli~~ia~~~~~s~~~~~~~v~~~~~~i~~~L 36 (90)
T PRK10664 5 QLIDKIAAGADISKAAAGRALDAIIASVTESL 36 (90)
T ss_pred HHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 4666664 568999999999999998887655
No 328
>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]
Probab=33.13 E-value=3.3e+02 Score=25.41 Aligned_cols=94 Identities=11% Similarity=0.173 Sum_probs=53.3
Q ss_pred ccCCCCcceeccHH-HHHHHH--hhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH
Q 027204 41 VKSNGKRAFLVDTL-QLVRGL--EAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQ 117 (226)
Q Consensus 41 ~~~~~~~~~~FDT~-~fvk~L--e~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~ 117 (226)
+||-.++.+-++-+ +.+|+. +.++..++-- .-.....+++..++++..-++.|.. .+...+.+|+..+.
T Consensus 12 l~ew~~~yinYk~LKK~lK~~~~~~~~~~~~~~--~e~dFv~~Ld~ELEKv~~F~lek~~------el~~Rl~~L~e~~~ 83 (310)
T KOG1161|consen 12 LPEWKDKYINYKELKKLLKQYSIQTADSSPDSR--DESDFVRLLDAELEKVNGFQLEKES------ELIIRLKELEEKID 83 (310)
T ss_pred hhhHhhhhcCHHHHHHHHHHhccccccCCcccc--hHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHhh
Confidence 34444555555554 444444 2222222111 3334556678888888888877664 44556777777765
Q ss_pred -----hhhhhhHHHhHHHHHHHHHHHHHHH
Q 027204 118 -----SSQEHHFSMLQRETEKLRSDIEKMR 142 (226)
Q Consensus 118 -----~~~k~e~~~lr~e~e~Lk~Eie~L~ 142 (226)
.....+|..+|.++.....|+-.|.
T Consensus 84 ~~~~~~~~~~~~~~lr~~l~~~~~em~~L~ 113 (310)
T KOG1161|consen 84 ALSLEPPSAEEMKELREELVDFHGEMVLLE 113 (310)
T ss_pred ccccCCcchhHHHHHHHHHHHHHHHHHHHH
Confidence 3445666676666666666655554
No 329
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=32.97 E-value=3.1e+02 Score=23.33 Aligned_cols=30 Identities=17% Similarity=0.348 Sum_probs=22.4
Q ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 170 ELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 170 e~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
+...++....|+....+.+++++|+|+..+
T Consensus 149 ~v~~lRr~f~elr~~TerdL~~~r~e~~r~ 178 (182)
T PF15035_consen 149 EVVALRRQFAELRTATERDLSDMRAEFART 178 (182)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 445667778888888888888888887653
No 330
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=32.88 E-value=4.3e+02 Score=27.76 Aligned_cols=20 Identities=40% Similarity=0.772 Sum_probs=8.4
Q ss_pred HHhHHHHHHHHHHHHHHHHH
Q 027204 125 SMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~~~ 144 (226)
..++.+-++|+++++.|+++
T Consensus 233 ~~~~~~k~rl~~d~E~Lr~e 252 (916)
T KOG0249|consen 233 EEMRHDKDKLRTDIEDLRGE 252 (916)
T ss_pred HHHHHHHHHHhhhHHHHHHH
Confidence 33444444444444444433
No 331
>cd04767 HTH_HspR-like_MBC Helix-Turn-Helix DNA binding domain of putative HspR-like transcription regulators. Putative helix-turn-helix (HTH) transcription regulator HspR-like proteins. Unlike the characterized HspR, these proteins have a C-terminal domain with putative metal binding cysteines (MBC). Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind spe
Probab=32.37 E-value=57 Score=26.06 Aligned_cols=47 Identities=17% Similarity=0.182 Sum_probs=36.1
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhh-CCCChHHHHHHHHHHH
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEA-QGVPSKQAEAITAAIT 78 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~-aGft~~QAeai~~al~ 78 (226)
+|+--|.+ ..|||-++ ...+..+++++.|.. .||+.+....++.++.
T Consensus 24 ~GLl~p~r-~~G~R~Ys---------~~dv~rL~~I~~L~~e~G~~l~eI~~~L~l~~ 71 (120)
T cd04767 24 HGLIKPAR-RNGQRLYS---------NNDLKRLRFIKKLINEKGLNIAGVKQILSMYP 71 (120)
T ss_pred CCCCCCcC-CCCcEEEC---------HHHHHHHHHHHHHHHHcCCCHHHHHHHHHhCc
Confidence 46655644 47888777 345889999999987 9999999888877653
No 332
>PHA00728 hypothetical protein
Probab=31.94 E-value=22 Score=28.92 Aligned_cols=23 Identities=22% Similarity=0.366 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 027204 201 YDVIKYCIGTLVSISAVGLAIVR 223 (226)
Q Consensus 201 ~d~lrwliG~v~~~~al~la~~r 223 (226)
.|++-|+-|--++++-.+.-+.|
T Consensus 60 kDTMfYLsgnqisLILtAfEfar 82 (151)
T PHA00728 60 KDTMFYLSGNQISLILTAFEFAR 82 (151)
T ss_pred ccceEEecCCchhhHHHHHHHhh
Confidence 36677776655544433333333
No 333
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=31.68 E-value=7.3e+02 Score=27.28 Aligned_cols=54 Identities=13% Similarity=0.159 Sum_probs=22.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 91 TFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 91 ~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
.+..+.+++..--.+...+.+++.++..+ +.++..+..+.++++.+.+.++...
T Consensus 879 ~l~~r~~le~~L~el~~el~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 932 (1311)
T TIGR00606 879 NLQRRQQFEEQLVELSTEVQSLIREIKDA-KEQDSPLETFLEKDQQEKEELISSK 932 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhhhhHHHHHHHHHHHHHHHHH
Confidence 33344444443333444444444444332 2334444444444444444444333
No 334
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=31.45 E-value=97 Score=21.06 Aligned_cols=30 Identities=13% Similarity=0.239 Sum_probs=23.5
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 196 MEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225 (226)
Q Consensus 196 IEs~K~d~lrwliG~v~~~~al~la~~rl~ 225 (226)
+++.|+.++=-++|++++++.+.+|+++-+
T Consensus 4 ~~~~~~~iiG~~~G~ila~l~l~~GF~~tl 33 (51)
T PF10031_consen 4 WKNHRGKIIGGLIGLILALLILTFGFWKTL 33 (51)
T ss_pred HHHCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677777778899999988888888753
No 335
>PF10874 DUF2746: Protein of unknown function (DUF2746); InterPro: IPR022704 The proteins in this entry are uncharacterised.
Probab=31.18 E-value=1.1e+02 Score=21.45 Aligned_cols=7 Identities=43% Similarity=0.980 Sum_probs=2.6
Q ss_pred HHHHHHH
Q 027204 136 SDIEKMR 142 (226)
Q Consensus 136 ~Eie~L~ 142 (226)
.||+.|.
T Consensus 15 DDiD~l~ 21 (57)
T PF10874_consen 15 DDIDELR 21 (57)
T ss_pred HHHHHHH
Confidence 3333333
No 336
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=30.98 E-value=1.6e+02 Score=20.23 Aligned_cols=22 Identities=32% Similarity=0.616 Sum_probs=13.1
Q ss_pred hhhHHHhHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMR 142 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~ 142 (226)
+..++.++.|+..|+.+++.++
T Consensus 28 ~~rl~~l~~EN~~Lr~eL~~~r 49 (52)
T PF12808_consen 28 RKRLSKLEGENRLLRAELERLR 49 (52)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666666666666666543
No 337
>PRK09343 prefoldin subunit beta; Provisional
Probab=30.98 E-value=2.6e+02 Score=21.94 Aligned_cols=32 Identities=13% Similarity=0.124 Sum_probs=14.7
Q ss_pred hhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 155 GQRLDLNLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 155 e~klDlNleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
+++-+++.++.-+...++.++.+...+..++.
T Consensus 71 e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~ 102 (121)
T PRK09343 71 KVEKELKERKELLELRSRTLEKQEKKLREKLK 102 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444445555555444444444433
No 338
>COG0486 ThdF Predicted GTPase [General function prediction only]
Probab=30.97 E-value=2.7e+02 Score=27.33 Aligned_cols=16 Identities=25% Similarity=0.372 Sum_probs=9.4
Q ss_pred cccCCCCCcCcccccc
Q 027204 24 FNLNYSNTIGYRQISQ 39 (226)
Q Consensus 24 ~~~~~~~~~~~~~~s~ 39 (226)
-+.|.|++.-|.++-.
T Consensus 40 ~~~~~~r~a~y~~i~d 55 (454)
T COG0486 40 LKLPKPRTAHYGHIKD 55 (454)
T ss_pred CCCCCCcEEEEEEEEc
Confidence 3556666666666654
No 339
>PRK13453 F0F1 ATP synthase subunit B; Provisional
Probab=30.87 E-value=3.1e+02 Score=22.68 Aligned_cols=28 Identities=11% Similarity=0.164 Sum_probs=11.5
Q ss_pred HHHHHHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 141 MRSELRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 141 L~~~LkeeI~kl~ae~klDlNleK~r~r 168 (226)
+..+-+.+..++....+.++..++....
T Consensus 104 ~~~~A~~ea~~~~~~A~~~I~~ek~~a~ 131 (173)
T PRK13453 104 IIHEANVRANGMIETAQSEINSQKERAI 131 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444444443333333
No 340
>PRK13461 F0F1 ATP synthase subunit B; Provisional
Probab=30.79 E-value=2.9e+02 Score=22.31 Aligned_cols=8 Identities=0% Similarity=0.148 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 027204 191 ALRAHMEA 198 (226)
Q Consensus 191 ~LRteIEs 198 (226)
+|+.++.+
T Consensus 120 ~l~~ei~~ 127 (159)
T PRK13461 120 EIKNQAVD 127 (159)
T ss_pred HHHHHHHH
Confidence 33443333
No 341
>KOG0946 consensus ER-Golgi vesicle-tethering protein p115 [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.39 E-value=7e+02 Score=26.65 Aligned_cols=15 Identities=27% Similarity=0.375 Sum_probs=9.5
Q ss_pred cceeccHH--HHHHHHh
Q 027204 47 RAFLVDTL--QLVRGLE 61 (226)
Q Consensus 47 ~~~~FDT~--~fvk~Le 61 (226)
..+.||+| ++++.|+
T Consensus 612 ~k~~lD~~f~kL~kele 628 (970)
T KOG0946|consen 612 TKLALDFEFKKLFKELE 628 (970)
T ss_pred chhhhhHHHHHHHHHHH
Confidence 45778887 4555554
No 342
>PF00509 Hemagglutinin: Haemagglutinin; InterPro: IPR001364 Haemagglutinin (HA) is one of two main surface fusion glycoproteins embedded in the envelope of influenza viruses, the other being neuraminidase (NA). There are sixteen known HA subtypes (H1-H16) and nine NA subtypes (N1-N9), which together are used to classify influenza viruses (e.g. H5N1). The antigenic variations in HA and NA enable the virus to evade host antibodies made to previous influenza strains, accounting for recurrent influenza epidemics []. The HA glycoprotein is present in the viral membrane as a single polypeptide (HA0), which must be cleaved by the host's trypsin-like proteases to produce two peptides (HA1 and HA2) in order for the virus to be infectious. Once HA0 is cleaved, the newly exposed N-terminal of the HA2 peptide then acts to fuse the viral envelope to the cellular membrane of the host cell, which allows the viral negative-stranded RNA to infect the host cell. The type of host protease can influence the infectivity and pathogenicity of the virus. The haemagglutinin glycoprotein is a trimer containing three structurally distinct regions: a globular head consisting of anti-parallel beta-sheets that form a beta-sandwich with a jelly-roll fold (contains the receptor binding site and the HA1/HA2 cleavage site); a triple-stranded, coiled-coil, alpha-helical stalk; and a globular foot composed of anti-parallel beta-sheets [, ]. Each monomer consists of an intact HA0 polypeptide with the HA1 and HA2 regions linked by disulphide bonds. The N terminus of HA1 provides the central strand in the 5-stranded globular foot, while the rest of the HA1 chain makes its way to the 8-stranded globular head. HA2 provides two alpha helices, which form part of the triple-stranded coiled-coil that stabilises the trimer, its C terminus providing the remaining strands of the 5-stranded globular foot. This entry represents the entire haemagglutinin protein (HA0) consisting of both the HA1 and HA2 regions, as found in influenza A and B viruses.; GO: 0046789 host cell surface receptor binding, 0019064 viral envelope fusion with host membrane, 0019031 viral envelope; PDB: 2WR5_A 2IBX_A 2WR0_B 2WR1_C 2XN9_F 2WRF_I 3S11_E 3BT6_A 3SM5_E 2FK0_H ....
Probab=30.29 E-value=40 Score=33.62 Aligned_cols=85 Identities=18% Similarity=0.310 Sum_probs=49.1
Q ss_pred CChHHHHHHHHHHHHHHHhhHHH-----------HHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhh---hhhhHHHhHHH
Q 027204 65 VPSKQAEAITAAITEVLNDSLEN-----------VAHTFVSKGEMQKTEMIQEANLSKFKSEVQSS---QEHHFSMLQRE 130 (226)
Q Consensus 65 ft~~QAeai~~al~~~l~~~l~~-----------~~~~lvTK~dle~~~y~~ka~iseLR~El~~~---~k~e~~~lr~e 130 (226)
.|+.|.+.+-.|+...++..=+. ..+....=+|++.. ..+|.++.+.+..+ -..+|+++.+|
T Consensus 322 vP~~~~RGlFGAIAGFIEgGW~GmidGWYGf~HqN~qG~G~AAD~kST----Q~aid~it~kvN~iiek~n~~fe~i~~e 397 (550)
T PF00509_consen 322 VPEIQTRGLFGAIAGFIEGGWEGMIDGWYGFHHQNAQGSGYAADLKST----QKAIDQITKKVNSIIEKMNKQFEQIDKE 397 (550)
T ss_dssp SCCSTTTTTTSTBTTTBHSEBTTSTSSSEEEEEEETTEEEEEEEHHHH----HHHHHHHHHHHHHHHHTTTCEEEECSCS
T ss_pred cccccccchHHHHHHHHhcCceeeecccccccccCccceeccccccch----HHHHHHHHHHHHHHHHHhccchhhHHHH
Confidence 47777666666666665432210 01112223454433 34466666655432 25778888888
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Q 027204 131 TEKLRSDIEKMRSELRYEIDKVT 153 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~LkeeI~kl~ 153 (226)
++.+.+.|+.|..++.+.+..+-
T Consensus 398 f~~ve~Ri~~l~~~v~d~~~d~w 420 (550)
T PF00509_consen 398 FNEVEKRIDNLEKKVDDKIADVW 420 (550)
T ss_dssp SSTTGHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhhccchhhh
Confidence 88888888888777777666553
No 343
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=30.29 E-value=2.3e+02 Score=22.29 Aligned_cols=36 Identities=25% Similarity=0.369 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 104 IQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 104 ~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
+.-..+++||.++ ..+-.|+..|+.|-+.||..|.+
T Consensus 19 ~l~~el~~LK~~~--------~el~EEN~~L~iEN~~Lr~~l~~ 54 (110)
T PRK13169 19 VLLKELGALKKQL--------AELLEENTALRLENDKLRERLEE 54 (110)
T ss_pred HHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 3345566666665 44556677777777777777665
No 344
>PF06401 Alpha-2-MRAP_C: Alpha-2-macroglobulin RAP, C-terminal domain ; InterPro: IPR010483 The alpha-2-macroglobulin receptor-associated protein (RAP) is a intracellular glycoprotein that binds to the 2-macroglobulin receptor and other members of the low density lipoprotein receptor family. The protein inhibits binding of all currently known ligands of these receptors []. Two different studies have provided conflicting domain boundaries.; GO: 0008201 heparin binding, 0050750 low-density lipoprotein particle receptor binding, 0005783 endoplasmic reticulum; PDB: 2FCW_A 2P03_A 2FTU_A 2P01_A.
Probab=30.26 E-value=3.5e+02 Score=23.85 Aligned_cols=33 Identities=12% Similarity=0.238 Sum_probs=26.5
Q ss_pred hhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 165 GRIRDELANQNAETTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 165 ~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIE 197 (226)
++.++..+.++.+|+++.+|+..-..+|.+-|-
T Consensus 175 ~~~~e~~~~leek~Kk~~~KV~Kl~~dLe~rIs 207 (214)
T PF06401_consen 175 DRKSEKYKTLEEKIKKLGRKVKKLHQDLESRIS 207 (214)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345677888999999999998888888887764
No 345
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=30.14 E-value=2.8e+02 Score=21.94 Aligned_cols=15 Identities=33% Similarity=0.536 Sum_probs=6.4
Q ss_pred HhhHHHHHHHHHHHH
Q 027204 172 ANQNAETTNLTNKLD 186 (226)
Q Consensus 172 ~~~~~kI~e~~~Ki~ 186 (226)
..+..++.+++.+|+
T Consensus 54 ~s~~qr~~eLqaki~ 68 (107)
T PF09304_consen 54 ASRNQRIAELQAKID 68 (107)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444433
No 346
>PLN02320 seryl-tRNA synthetase
Probab=30.10 E-value=2.4e+02 Score=27.96 Aligned_cols=15 Identities=20% Similarity=0.339 Sum_probs=5.6
Q ss_pred HHHhhHHHHHHHHHH
Q 027204 170 ELANQNAETTNLTNK 184 (226)
Q Consensus 170 e~~~~~~kI~e~~~K 184 (226)
++..++.++.+++.+
T Consensus 145 ~i~~le~~~~~~~~~ 159 (502)
T PLN02320 145 GLVTLEEDLVKLTDE 159 (502)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 347
>PF01795 Methyltransf_5: MraW methylase family; InterPro: IPR002903 This is a family of S-adenosyl-L-methionine-dependent methyltransferases, which are found primarily, though not exclusively, in bacteria. The Escherichia coli protein is essential and has been linked to peptidoglycan biosynthesis [, ].; GO: 0008168 methyltransferase activity; PDB: 1N2X_A 1M6Y_A 1WG8_A 3TKA_A.
Probab=30.07 E-value=53 Score=30.45 Aligned_cols=125 Identities=17% Similarity=0.198 Sum_probs=64.3
Q ss_pred cccccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHH
Q 027204 20 KSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQ 99 (226)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle 99 (226)
...||||.....-+=||=.....|.....=.+|-..+.+-|...| .+.+|..|+.++.+.-. ...+-|-.||.
T Consensus 111 ~~RGFSf~~dgpLDMRMd~~~~~tAa~ilN~~se~~L~~I~~~yG-ee~~a~~IA~~Iv~~R~------~~pi~tT~~L~ 183 (310)
T PF01795_consen 111 PERGFSFRSDGPLDMRMDPSQGLTAADILNTYSEEELARIFREYG-EEKFARRIARAIVEARK------KKPITTTKELA 183 (310)
T ss_dssp GGGSSSSSS--BS---SSTTSS--HHHHHHHS-HHHHHHHHHHHH---TTHHHHHHHHHHHHH------HSS--BHHHHH
T ss_pred CCCCCCCCCCCCCcccccccccccHHHHHHhcCHHHHHHHHHhcC-chhHHHHHHHHHHHHhC------CCCCCCHHHHH
Confidence 568999988766666665433333334445577788999999888 44568888888776622 24555556665
Q ss_pred HHHHHHHHHHHH-HHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 027204 100 KTEMIQEANLSK-FKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQR 157 (226)
Q Consensus 100 ~~~y~~ka~ise-LR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k 157 (226)
++.... +-. -|..-..--.-=|.+||-+ +..|++.|+.-|..-..-|+-+=+
T Consensus 184 ~iI~~~---~~~~~~~~~~hpatr~FQALRI~---VN~EL~~L~~~L~~a~~~L~~gGr 236 (310)
T PF01795_consen 184 EIIEKA---VPKKRRRRKIHPATRVFQALRIA---VNDELEELERGLEAAPDLLKPGGR 236 (310)
T ss_dssp HHHHHH---S-HHHCC-SS-TTHHHHHHHHHH---HCTHHHHHHHHHHHHHHHEEEEEE
T ss_pred HHHHHh---CCcccccccCCHHHHHHHHHHHH---hccHHHHHHHHHHHHHHHhcCCcE
Confidence 443221 110 0110000112235666666 667777777777666555554433
No 348
>PRK09039 hypothetical protein; Validated
Probab=29.99 E-value=4.6e+02 Score=24.38 Aligned_cols=71 Identities=13% Similarity=0.188 Sum_probs=37.1
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKY 201 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~ 201 (226)
..++..+.+...|+.+|+.|+.. +..+.+. | .......+..+.+|.++..++..-++.--.+++..|-
T Consensus 130 ~~~se~~~~V~~L~~qI~aLr~Q----la~le~~----L----~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~ 197 (343)
T PRK09039 130 QVSARALAQVELLNQQIAALRRQ----LAALEAA----L----DASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRS 197 (343)
T ss_pred HHHHHhhHHHHHHHHHHHHHHHH----HHHHHHH----H----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 44444455555555555555544 3333221 1 1233334566667777777777666654455566555
Q ss_pred HHH
Q 027204 202 DVI 204 (226)
Q Consensus 202 d~l 204 (226)
+..
T Consensus 198 ~~~ 200 (343)
T PRK09039 198 EFF 200 (343)
T ss_pred HHH
Confidence 553
No 349
>KOG0963 consensus Transcription factor/CCAAT displacement protein CDP1 [Transcription]
Probab=29.83 E-value=6.2e+02 Score=25.90 Aligned_cols=13 Identities=23% Similarity=0.496 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 027204 132 EKLRSDIEKMRSE 144 (226)
Q Consensus 132 e~Lk~Eie~L~~~ 144 (226)
..+++|++.|+..
T Consensus 252 ~~lE~e~e~L~~q 264 (629)
T KOG0963|consen 252 VFLEREVEQLREQ 264 (629)
T ss_pred HHHHHHHHHHHHH
Confidence 3444555544433
No 350
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=29.76 E-value=2.3e+02 Score=20.91 Aligned_cols=19 Identities=5% Similarity=0.372 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 027204 134 LRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl 152 (226)
++...+..++.+..++..+
T Consensus 33 l~~~~~~~~~~I~~~f~~l 51 (127)
T smart00502 33 VEENAADVEAQIKAAFDEL 51 (127)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444
No 351
>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=29.70 E-value=1.6e+02 Score=20.97 Aligned_cols=26 Identities=23% Similarity=0.440 Sum_probs=11.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 125 SMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
+.+..+.+.++.|.+.| +.|+..+.+
T Consensus 34 ~~~~~~~~~l~~en~~L----~~ei~~l~~ 59 (85)
T TIGR02209 34 QKLQLEIDKLQKEWRDL----QLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHH----HHHHHHHcC
Confidence 34444444444444443 444555544
No 352
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=29.63 E-value=5.6e+02 Score=25.34 Aligned_cols=17 Identities=24% Similarity=0.276 Sum_probs=6.9
Q ss_pred CChHHHHHHHHHHHHHH
Q 027204 65 VPSKQAEAITAAITEVL 81 (226)
Q Consensus 65 ft~~QAeai~~al~~~l 81 (226)
..-+.|+.....+.+-+
T Consensus 275 l~l~~~~~~~~~i~~~I 291 (569)
T PRK04778 275 LDLDEAEEKNEEIQERI 291 (569)
T ss_pred cChHHHHHHHHHHHHHH
Confidence 33344444444444333
No 353
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=29.60 E-value=4.3e+02 Score=23.94 Aligned_cols=15 Identities=13% Similarity=0.080 Sum_probs=9.2
Q ss_pred cceeccHHHHHHHHh
Q 027204 47 RAFLVDTLQLVRGLE 61 (226)
Q Consensus 47 ~~~~FDT~~fvk~Le 61 (226)
....+|...+-..|.
T Consensus 75 ~L~~ld~~~~~~~l~ 89 (346)
T PRK10476 75 LLFRIDPRPYELTVA 89 (346)
T ss_pred EEEEECcHHHHHHHH
Confidence 346788876655543
No 354
>PRK09173 F0F1 ATP synthase subunit B; Validated
Probab=29.60 E-value=3e+02 Score=22.18 Aligned_cols=18 Identities=0% Similarity=-0.104 Sum_probs=6.8
Q ss_pred HHHHHhhhhhhhhhhhhh
Q 027204 146 RYEIDKVTAGQRLDLNLE 163 (226)
Q Consensus 146 keeI~kl~ae~klDlNle 163 (226)
..++.++....+.++..+
T Consensus 93 ~~~~~~~~~~a~~~I~~e 110 (159)
T PRK09173 93 EEYVARRNKLAEQKIAQA 110 (159)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333344333
No 355
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=29.55 E-value=2.2e+02 Score=20.68 Aligned_cols=26 Identities=12% Similarity=0.043 Sum_probs=18.1
Q ss_pred HHHHHhhCCCChHHHHHHHHHHHHHH
Q 027204 56 LVRGLEAQGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 56 fvk~Le~aGft~~QAeai~~al~~~l 81 (226)
.-.....-|+|++|...|-....+..
T Consensus 33 ~~~~~~~l~Lt~eQ~~~l~~~~~~~~ 58 (125)
T PF13801_consen 33 HPMLADMLNLTPEQQAKLRALMDEFR 58 (125)
T ss_dssp HHHHHHHS-TTHHHHHHHHHHHHHHH
T ss_pred chhhhhhcCCCHHHHHHHHHHHHHHH
Confidence 33444556999999999888877664
No 356
>TIGR03755 conj_TIGR03755 integrating conjugative element protein, PFL_4711 family. Members of this protein family are found in genomic regions associated with conjugative transfer and integrated TOL-like plasmids. The specific function is unknown.
Probab=29.33 E-value=3e+02 Score=26.73 Aligned_cols=19 Identities=11% Similarity=0.356 Sum_probs=11.4
Q ss_pred CCCh---HHHHHHHHHHHHHHH
Q 027204 64 GVPS---KQAEAITAAITEVLN 82 (226)
Q Consensus 64 Gft~---~QAeai~~al~~~l~ 82 (226)
||+| +..+...+.+.++++
T Consensus 254 GL~P~ieee~~~~~~~L~~Lv~ 275 (418)
T TIGR03755 254 GLTPLIEEEYDSNLEALQKLVS 275 (418)
T ss_pred CccHHHHHHHHHHHHHHHHHHc
Confidence 4654 455666666666664
No 357
>PHA02592 52 DNA topisomerase II medium subunit; Provisional
Probab=29.31 E-value=1.7e+02 Score=28.36 Aligned_cols=25 Identities=24% Similarity=0.294 Sum_probs=13.8
Q ss_pred hhhhhHHHhHHHHHHHHHHHHHHHH
Q 027204 119 SQEHHFSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 119 ~~k~e~~~lr~e~e~Lk~Eie~L~~ 143 (226)
+.+.+...|+.|.+.++.+++.|+.
T Consensus 399 LT~~e~~kL~~e~~~l~~ei~~l~~ 423 (439)
T PHA02592 399 MTSDEREKLQKEAEELEKEHEYWKK 423 (439)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3445555566665555555555544
No 358
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=29.23 E-value=5.1e+02 Score=24.69 Aligned_cols=16 Identities=13% Similarity=0.194 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 027204 134 LRSDIEKMRSELRYEI 149 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI 149 (226)
++++++.+++.+++++
T Consensus 280 l~~qi~~l~~~l~~~~ 295 (498)
T TIGR03007 280 TKREIAQLEEQKEEEG 295 (498)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 3445555555555544
No 359
>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=29.21 E-value=2.2e+02 Score=21.34 Aligned_cols=48 Identities=19% Similarity=0.273 Sum_probs=25.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHH
Q 027204 94 SKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKM 141 (226)
Q Consensus 94 TK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L 141 (226)
|=.||..++-+....+..+|+--.-+-..++..++..-..+..+-..|
T Consensus 47 s~~eL~~LE~~Le~aL~~VR~rK~~~l~~~i~~l~~ke~~l~~en~~L 94 (100)
T PF01486_consen 47 SLKELQQLEQQLESALKRVRSRKDQLLMEQIEELKKKERELEEENNQL 94 (100)
T ss_pred chHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445666677677777777777644333344444444433333333333
No 360
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=29.19 E-value=6e+02 Score=25.48 Aligned_cols=14 Identities=36% Similarity=0.368 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHhhh
Q 027204 107 ANLSKFKSEVQSSQ 120 (226)
Q Consensus 107 a~iseLR~El~~~~ 120 (226)
..|++++++.....
T Consensus 383 ~rL~e~~~e~~~~~ 396 (531)
T PF15450_consen 383 LRLSEAKNEWESDE 396 (531)
T ss_pred HHHHHHHHHHHHHH
Confidence 44556666665433
No 361
>TIGR01201 HU_rel DNA-binding protein, histone-like, putative. This model describes a set of proteins related to but longer than DNA-binding protein HU. Its distinctive domain architecture compared to HU and related histone-like DNA-binding proteins justifies the designation as superfamily. Members include, so far, one from Bacteroides fragilis, a gut bacterium, and ten from Porphyromonas gingivalis, an oral anaerobe.
Probab=29.16 E-value=89 Score=25.40 Aligned_cols=36 Identities=14% Similarity=0.257 Sum_probs=31.2
Q ss_pred eccHHHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 50 LVDTLQLVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 50 ~FDT~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
..|+-.|++.+. ..|+++.+++++++++.+.+.+.|
T Consensus 30 ~mt~~el~~~Ia~~s~~s~~dv~~vl~~l~~~i~~~L 66 (145)
T TIGR01201 30 VIDFEEIAELIAEESSLSPGDVKGIIDRLAYVLRREL 66 (145)
T ss_pred CcCHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 589999999994 667999999999999999887654
No 362
>PF02909 TetR_C: Tetracyclin repressor, C-terminal all-alpha domain; InterPro: IPR004111 The antibiotic tetracycline has a broad spectrum of activity, acting to inhibit bacterial protein synthesis by binding to the 30S ribosomal subunit, which prevents the association of the aminoacyl-tRNA to the ribosomal acceptor A site. Tetracycline binding is reversible, therefore diluting out the antibiotic can reverse its effects. Tetracycline resistance genes are often located on mobile elements, such as plasmids, transposons and/or conjugative transposons, which can sometimes be transferred between bacterial species. In certain cases, tetracycline can enhance the transfer of these elements, thereby promoting resistance amongst a bacterial colony. There are three types of tetracycline resistance: tetracycline efflux, ribosomal protection, and tetracycline modification [, ]: Tetracycline efflux proteins belong to the major facilitator superfamily. Efflux proteins are membrane-associated proteins that recognise and export tetracycline from the cell. They are found in both Gram-positive and Gram-negative bacteria []. There are at least 22 different tetracycline efflux proteins, grouped according to sequence similarity: Group 1 are Tet(A), Tet(B), Tet(C), Tet(D), Tet(E), Tet(G), Tet(H), Tet(J), Tet(Z) and Tet(30); Group 2 are Tet(K) and Tet(L); Group 3 are Otr(B) and Tcr(3); Group 4 is TetA(P); Group 5 is Tet(V). In addition, there are the efflux proteins Tet(31), Tet(33), Tet(V), Tet(Y), Tet(34), and Tet(35). Ribosomal protection proteins are cytoplasmic proteins that display homology with the elongation factors EF-Tu and EF-G. Protection proteins bind the ribosome, causing an alteration in ribosomal conformation that prevents tetracycline from binding. There are at least ten ribosomal protection proteins: Tet(M), Tet(O), Tet(S), Tet(W), Tet(32), Tet(36), Tet(Q), Tet(T), Otr(A), and TetB(P). Both Tet(M) and Tet(O) have ribosome-dependent GTPase activity, the hydrolysis of GTP providing the energy for the ribosomal conformational changes. Tetracycline modification proteins include the enzymes Tet(37) and Tet(X), both of which inactivate tetracycline. In addition, there are the tetracycline resistance proteins Tet(U) and Otr(C). The expression of several of these tet genes is controlled by a family of tetracycline transcriptional regulators known as TetR. TetR family regulators are involved in the transcriptional control of multidrug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity []. The TetR proteins identified in over 115 genera of bacteria and archaea share a common helix-turn-helix (HTH) structure in their DNA-binding domain. However, TetR proteins can work in different ways: they can bind a target operator directly to exert their effect (e.g. TetR binds Tet(A) gene to repress it in the absence of tetracycline), or they can be involved in complex regulatory cascades in which the TetR protein can either be modulated by another regulator or TetR can trigger the cellular response. This entry represents the C-terminal domain found in the tetracycline transcriptional repressor TetR, which binds to the Tet(A) gene to repress its expression in the absence of tetracycline []. Tet(A) is a membrane-associated efflux protein that exports tetracycline from the cell before it can attach to ribosomes and inhibit polypeptide chain growth. TetR occurs as a homodimer and uses two helix-turn-helix (HTH) motifs to bind tandem DNA operators, thereby blocking the expression of the associated genes, TetA and TetR. The structure of the class D TetR repressor protein [] involves 10 alpha-helices, with connecting turns and loops. The three N-terminal helices constitute the DNA-binding HTH domain, which has an inverse orientation compared with HTH motifs in other DNA-binding proteins. The core of the protein, formed by helices 5-10, is responsible for dimerisation and contains, for each monomer, a binding pocket that accommodates tetracycline in the presence of a divalent cation.; GO: 0045892 negative regulation of transcription, DNA-dependent; PDB: 2Y30_B 3ZQL_C 2Y31_B 2Y2Z_A 2VPR_A 3B6A_A 3B6C_A 2OPT_A 2NS7_B 2NS8_C ....
Probab=29.16 E-value=78 Score=24.18 Aligned_cols=29 Identities=21% Similarity=0.361 Sum_probs=24.1
Q ss_pred HHHHHHhhCCCChHHHHHHHHHHHHHHHh
Q 027204 55 QLVRGLEAQGVPSKQAEAITAAITEVLND 83 (226)
Q Consensus 55 ~fvk~Le~aGft~~QAeai~~al~~~l~~ 83 (226)
.++..|.++||++++|-.+...+...+..
T Consensus 49 ~~l~~L~~aG~~~~~a~~~~~~l~~~v~g 77 (139)
T PF02909_consen 49 AMLRALRDAGFSPEEAARAYAALSSFVLG 77 (139)
T ss_dssp HHHHHHHHTTEEHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHcCcCHHHHHHHHHHHHHHHHH
Confidence 47889999999999998888887776544
No 363
>COG2074 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]
Probab=29.02 E-value=94 Score=28.61 Aligned_cols=54 Identities=28% Similarity=0.313 Sum_probs=44.2
Q ss_pred CCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHH
Q 027204 43 SNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQK 100 (226)
Q Consensus 43 ~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~ 100 (226)
..+++..||--==+++.|..+|+.|.-|-.|+--+.+-+.. ....++||+++.+
T Consensus 7 ~g~~~~~PFSkGiL~rSlta~g~~p~~Ay~iA~~i~e~L~~----~~~~~v~~~eir~ 60 (299)
T COG2074 7 KGDKYEMPFSKGILARSLTAAGVDPDLAYSIAIEIQEELKK----EGIRLVTKDEIRE 60 (299)
T ss_pred cCCcccCCcchhHHHHHHHhcccChhHHHHHHHHHHHHHHh----CCCeEeeHHHHHH
Confidence 34566778888889999999999999999999888777644 3468999999876
No 364
>KOG0996 consensus Structural maintenance of chromosome protein 4 (chromosome condensation complex Condensin, subunit C) [Chromatin structure and dynamics; Cell cycle control, cell division, chromosome partitioning]
Probab=29.02 E-value=8.4e+02 Score=27.12 Aligned_cols=31 Identities=19% Similarity=0.123 Sum_probs=14.8
Q ss_pred hhhccccccccccccccCCCCCcCccccccc
Q 027204 10 LVADSGVRVTKSQGFNLNYSNTIGYRQISQL 40 (226)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~ 40 (226)
.||..|--.-||..++=.-..+.|.++=+++
T Consensus 740 VvTL~G~lIe~SGtmtGGG~~v~~g~mg~~~ 770 (1293)
T KOG0996|consen 740 VVTLDGSLIEKSGTMTGGGKKVKGGRMGTSI 770 (1293)
T ss_pred EEEecceeecccccccCCCCcCCCCCCCCcc
Confidence 3455554444555554444444444444444
No 365
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=28.97 E-value=3.8e+02 Score=23.18 Aligned_cols=33 Identities=15% Similarity=0.377 Sum_probs=21.9
Q ss_pred CcCccccccc-ccCCCC-cceeccHHHHHHHHhhC
Q 027204 31 TIGYRQISQL-VKSNGK-RAFLVDTLQLVRGLEAQ 63 (226)
Q Consensus 31 ~~~~~~~s~~-~~~~~~-~~~~FDT~~fvk~Le~a 63 (226)
..++..++++ ...... ..+.||.-+|-+.|++.
T Consensus 114 ~~~~~sL~~iGI~~~~~~G~L~iD~~kl~~Al~~n 148 (239)
T PF07195_consen 114 SGNYNSLSDIGISTDRDNGTLSIDETKLDKALAEN 148 (239)
T ss_pred CccccCHHHcCeeecCCCCeEEEeHHHHHHHHhhC
Confidence 4455665554 122223 68999999999999863
No 366
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=28.93 E-value=4.1e+02 Score=23.50 Aligned_cols=13 Identities=38% Similarity=0.562 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHH
Q 027204 183 NKLDREIHALRAH 195 (226)
Q Consensus 183 ~Ki~~eIa~LRte 195 (226)
.++..+|+.+|.+
T Consensus 91 ~~Lk~~in~~R~e 103 (230)
T PF10146_consen 91 KPLKDEINELRKE 103 (230)
T ss_pred HHHHHHHHHHHHH
Confidence 3344444445544
No 367
>PF08898 DUF1843: Domain of unknown function (DUF1843); InterPro: IPR014994 This domain is found in functionally uncharacterised proteins. It can be found independently or at the C terminus of the protein.
Probab=28.48 E-value=97 Score=21.50 Aligned_cols=18 Identities=28% Similarity=0.479 Sum_probs=11.1
Q ss_pred HHhHHHHHHHHHHHHHHH
Q 027204 125 SMLQRETEKLRSDIEKMR 142 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~ 142 (226)
-.+++..++|+.||.+|+
T Consensus 34 ~~i~~al~~Lk~EIaklE 51 (53)
T PF08898_consen 34 GDIAAALEKLKAEIAKLE 51 (53)
T ss_pred hHHHHHHHHHHHHHHHHh
Confidence 344555666777776665
No 368
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=28.36 E-value=3.4e+02 Score=22.31 Aligned_cols=22 Identities=23% Similarity=0.534 Sum_probs=10.9
Q ss_pred hHHHhHHHHHHHHHHHHHHHHH
Q 027204 123 HFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 123 e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
++..|+.|+..++.|+|.++.+
T Consensus 89 qv~~L~~e~s~~~~E~da~k~k 110 (135)
T KOG4196|consen 89 QVEKLKEENSRLRRELDAYKSK 110 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555444
No 369
>cd04752 Commd4 COMM_Domain containing protein 4. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=28.34 E-value=89 Score=26.12 Aligned_cols=31 Identities=26% Similarity=0.430 Sum_probs=27.0
Q ss_pred eeccHHHHHHHHhhCCCChHHHHHHHHHHHH
Q 027204 49 FLVDTLQLVRGLEAQGVPSKQAEAITAAITE 79 (226)
Q Consensus 49 ~~FDT~~fvk~Le~aGft~~QAeai~~al~~ 79 (226)
+..|.-.|...|+.-|||++.++++.....+
T Consensus 58 ~n~~~~~l~~eL~~lglp~e~~~~l~~~~~~ 88 (174)
T cd04752 58 YNVDGESLSSELQQLGLPKEHATSLCRSYEE 88 (174)
T ss_pred cCCCHHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 5578889999999999999999999987654
No 370
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=28.07 E-value=5.4e+02 Score=24.61 Aligned_cols=8 Identities=25% Similarity=0.837 Sum_probs=2.9
Q ss_pred HHHHHHHH
Q 027204 134 LRSDIEKM 141 (226)
Q Consensus 134 Lk~Eie~L 141 (226)
++.+++.|
T Consensus 40 l~~~~~~l 47 (425)
T PRK05431 40 LQTELEEL 47 (425)
T ss_pred HHHHHHHH
Confidence 33333333
No 371
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=28.07 E-value=1.3e+02 Score=25.07 Aligned_cols=41 Identities=34% Similarity=0.321 Sum_probs=30.8
Q ss_pred ccCCCCcceeccHHHHHHHHhhC----CCChHHHHHHHHHHHHHH
Q 027204 41 VKSNGKRAFLVDTLQLVRGLEAQ----GVPSKQAEAITAAITEVL 81 (226)
Q Consensus 41 ~~~~~~~~~~FDT~~fvk~Le~a----Gft~~QAeai~~al~~~l 81 (226)
|-..++...+||..+....|.++ |..+.+++.++..+...+
T Consensus 51 VIKRDG~~v~Fd~~KI~~AI~kA~~a~~~~~~~~~~i~~~V~~~l 95 (154)
T PRK00464 51 VIKKDGRREPFDREKLRRGLRRACEKRPVSSEQIEAAVSRIERQL 95 (154)
T ss_pred EEecCCcCCCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHH
Confidence 55566778999999999999777 567777777776654444
No 372
>PRK06330 transcript cleavage factor/unknown domain fusion protein; Validated
Probab=28.04 E-value=4.7e+02 Score=27.24 Aligned_cols=60 Identities=15% Similarity=0.122 Sum_probs=33.3
Q ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh--hhhh--hhhhhhhHHHHHhhHHHHHHHHHHH
Q 027204 126 MLQRETEKLRSDIEKMRSELRYEIDKVTAGQ--RLDL--NLERGRIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 126 ~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~--klDl--NleK~r~ree~~~~~~kI~e~~~Ki 185 (226)
--..-.++|+.|++.|+..-+-++.+--++. ..|+ |.|=.-.|++++.++.+|++++.++
T Consensus 569 vT~eG~~kLkeEL~~L~~v~rpei~k~I~eAR~~GDLsENaEY~aAKe~q~~le~RI~~Le~~L 632 (718)
T PRK06330 569 TTSESFTRMKNKLQSLVGKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEI 632 (718)
T ss_pred eCHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHCCCcccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3456678888889888874444433332222 2333 3333445556666666666655544
No 373
>PF11372 DUF3173: Domain of unknown function (DUF3173); InterPro: IPR021512 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=28.04 E-value=1.1e+02 Score=21.67 Aligned_cols=24 Identities=21% Similarity=0.281 Sum_probs=18.8
Q ss_pred HHHhhCCCChHHHHHHHHHHHHHH
Q 027204 58 RGLEAQGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 58 k~Le~aGft~~QAeai~~al~~~l 81 (226)
+.|.+-||++.||..|..--...+
T Consensus 7 ~dLi~lGf~~~tA~~IIrqAK~~l 30 (59)
T PF11372_consen 7 KDLIELGFSESTARDIIRQAKALL 30 (59)
T ss_pred HHHHHcCCCHHHHHHHHHHHHHHH
Confidence 567778999999998887655554
No 374
>PF12037 DUF3523: Domain of unknown function (DUF3523); InterPro: IPR021911 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 257 to 277 amino acids in length. This domain is found associated with PF00004 from PFAM. This domain has a conserved LER sequence motif.
Probab=28.03 E-value=4.7e+02 Score=23.95 Aligned_cols=16 Identities=13% Similarity=0.179 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHH
Q 027204 207 CIGTLVSISAVGLAIV 222 (226)
Q Consensus 207 liG~v~~~~al~la~~ 222 (226)
++.+|+|+.++++|+|
T Consensus 237 l~~~vgg~T~LA~GvY 252 (276)
T PF12037_consen 237 LTTTVGGLTALAAGVY 252 (276)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5567778888888887
No 375
>PLN02320 seryl-tRNA synthetase
Probab=27.76 E-value=5.4e+02 Score=25.57 Aligned_cols=20 Identities=20% Similarity=0.209 Sum_probs=9.4
Q ss_pred hhHHHHHhhHHHHHHHHHHH
Q 027204 166 RIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 166 r~ree~~~~~~kI~e~~~Ki 185 (226)
.++++.+.+..+|.+++.++
T Consensus 134 ~l~~~~k~lk~~i~~le~~~ 153 (502)
T PLN02320 134 ALVEEGKNLKEGLVTLEEDL 153 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555554444443
No 376
>PF11180 DUF2968: Protein of unknown function (DUF2968); InterPro: IPR021350 This family of proteins has no known function.
Probab=27.75 E-value=3.9e+02 Score=23.23 Aligned_cols=69 Identities=17% Similarity=0.196 Sum_probs=31.7
Q ss_pred eeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHH---HHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 49 FLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLE---NVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSS 119 (226)
Q Consensus 49 ~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~---~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~ 119 (226)
..|--..|-+-++.. +...||.+-.-+..-...--+ .-..=-+-|+.+++.....+.....|+.|+.+.
T Consensus 67 ALfq~k~fWRViKt~--d~~~AE~~Y~~F~~Qt~~LA~~eirR~~LeAQka~~eR~ia~~~~ra~~LqaDl~~~ 138 (192)
T PF11180_consen 67 ALFQQKAFWRVIKTQ--DEARAEAIYRDFAQQTARLADVEIRRAQLEAQKAQLERLIAESEARANRLQADLQIA 138 (192)
T ss_pred eeeecCceeEeeecC--ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555543 556667665544433111000 000011234444555555566666677776543
No 377
>cd00194 UBA Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been suggested that UBA domains are involved in conferring protein target specificity. The domain, a compact three helix bundle, has a conserved GFP-loop and the proline is thought to be critical for binding. The UBA domain is distinct from the conserved three helical domain seen in the N-terminus of EF-TS and eukaryotic NAC proteins.
Probab=27.71 E-value=92 Score=18.81 Aligned_cols=21 Identities=19% Similarity=0.180 Sum_probs=16.0
Q ss_pred HHHHHhhCCCChHHHHHHHHH
Q 027204 56 LVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 56 fvk~Le~aGft~~QAeai~~a 76 (226)
.+++|.+-||+++++......
T Consensus 4 ~v~~L~~mGf~~~~~~~AL~~ 24 (38)
T cd00194 4 KLEQLLEMGFSREEARKALRA 24 (38)
T ss_pred HHHHHHHcCCCHHHHHHHHHH
Confidence 578889999998887655544
No 378
>PRK11020 hypothetical protein; Provisional
Probab=27.65 E-value=3.2e+02 Score=21.90 Aligned_cols=29 Identities=14% Similarity=0.419 Sum_probs=15.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
++....|.++|..+|+.|+..=..++++-
T Consensus 33 i~qf~~E~~~l~k~I~~lk~~~~~~lske 61 (118)
T PRK11020 33 YAQFEKEKATLEAEIARLKEVQSQKLSKE 61 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566666666655544444433
No 379
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=27.58 E-value=3.9e+02 Score=22.85 Aligned_cols=68 Identities=21% Similarity=0.321 Sum_probs=33.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHH----------HHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTN----------LTNKLDREIHALR 193 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e----------~~~Ki~~eIa~LR 193 (226)
.-.++.+..++..+...++.++.+. ..++.+..+.+..++.+|.+ .....+.+|+.|+
T Consensus 98 LL~lk~~~~~~~e~~k~le~~~~~~------------~~~~~~~e~~i~~Le~ki~el~~~~~~~~~~ke~~~~ei~~lk 165 (190)
T PF05266_consen 98 LLSLKDDQEKLLEERKKLEKKIEEK------------EAELKELESEIKELEMKILELQRQAAKLKEKKEAKDKEISRLK 165 (190)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHH------------HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555555666666666665544 11122223333333333333 3334556666666
Q ss_pred HHHHHhHHHH
Q 027204 194 AHMEAAKYDV 203 (226)
Q Consensus 194 teIEs~K~d~ 203 (226)
+++++++-++
T Consensus 166 s~~~~l~~~~ 175 (190)
T PF05266_consen 166 SEAEALKEEI 175 (190)
T ss_pred HHHHHHHHHH
Confidence 6666655443
No 380
>PF08173 YbgT_YccB: Membrane bound YbgT-like protein; InterPro: IPR012994 This family contains a set of membrane proteins, typically 33 amino acids long. The family has no known function, but the protein is found in the operon CydAB in Escherichia coli. Members have a consensus motif (MWYFXW), which is rich in aromatic residues. The protein forms a single membrane-spanning helix. This family seems to be restricted to proteobacteria [].
Probab=27.45 E-value=1.1e+02 Score=18.56 Aligned_cols=16 Identities=19% Similarity=0.262 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 027204 205 KYCIGTLVSISAVGLA 220 (226)
Q Consensus 205 rwliG~v~~~~al~la 220 (226)
-|++|+.++|.--++.
T Consensus 5 aWilG~~lA~~~~i~~ 20 (28)
T PF08173_consen 5 AWILGVLLACAFGILN 20 (28)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3666766665544443
No 381
>smart00411 BHL bacterial (prokaryotic) histone like domain.
Probab=27.41 E-value=1.4e+02 Score=21.42 Aligned_cols=33 Identities=27% Similarity=0.523 Sum_probs=25.9
Q ss_pred HHHHHHH-hhCCCChHHHHHHHHHHHHHHHhhHH
Q 027204 54 LQLVRGL-EAQGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 54 ~~fvk~L-e~aGft~~QAeai~~al~~~l~~~l~ 86 (226)
-.+++.+ +..|++..+++.+++++-+.+.+.|.
T Consensus 4 ~eli~~ia~~~~~~~~~v~~vl~~l~~~i~~~L~ 37 (90)
T smart00411 4 SELIDAIAEKAGLSKKDAKAAVDAFLEIITEALK 37 (90)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3456666 46789999999999999998876553
No 382
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=27.25 E-value=3.7e+02 Score=22.46 Aligned_cols=24 Identities=13% Similarity=0.426 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 027204 129 RETEKLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 129 ~e~e~Lk~Eie~L~~~LkeeI~kl 152 (226)
.++..|++|.-.|..++.+++...
T Consensus 25 r~iGDlqRE~~RLeTemnDk~aai 48 (170)
T COG4396 25 RQIGDLQREVKRLETEMNDKKAAI 48 (170)
T ss_pred HHHHHHHHHHHHHHHHhcchHhHH
Confidence 345557777777766655555444
No 383
>PRK14749 hypothetical protein; Provisional
Probab=27.20 E-value=1.1e+02 Score=18.79 Aligned_cols=18 Identities=28% Similarity=0.423 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027204 205 KYCIGTLVSISAVGLAIV 222 (226)
Q Consensus 205 rwliG~v~~~~al~la~~ 222 (226)
-|++|+.++|..-++..+
T Consensus 5 aWiLG~~lAc~f~ilna~ 22 (30)
T PRK14749 5 LWFVGILLMCSLSTLVLV 22 (30)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 477777777665554433
No 384
>PF06200 tify: tify domain; InterPro: IPR010399 The tify domain is a 36-amino acid domain only found among Embryophyta (land plants). It has been named after the most conserved amino acid pattern (TIF[F/Y]XG) it contains, but was previously known as the Zim domain. As the use of uppercase characters (TIFY) might imply that the domain is fully conserved across proteins, a lowercase lettering has been chosen in an attempt to highlight the reality of its natural variability. Based on the domain architecture, tify domain containing proteins can be classified into two groups. Group I is formed by proteins possessing a CCT (CONSTANS, CO-like, and TOC1) domain and a GATA-type zinc finger in addition to the tify domain. Group II contains proteins characterised by the tify domain but lacking a GATA-type zinc finger. Tify domain containing proteins might be involved in developmental processes and some of them have features that are characteristic for transcription factors: a nuclear localisation and the presence of a putative DNA-binding domain []. Some proteins known to contain a tify domain include: Arabidopsis thaliana Zinc-finger protein expressed in Inflorescence Meristem (ZIM), a putative transcription factor involved in inflorescence and flower development [, ]. A. thaliana ZIM-like proteins (ZML) []. A. thaliana PEAPOD1 and PEAPOD2 (PPD1 and PPD2) [].
Probab=27.19 E-value=71 Score=20.31 Aligned_cols=21 Identities=29% Similarity=0.501 Sum_probs=16.8
Q ss_pred CCcceeccHHHHHHHHhhCCCChHHHHHHHHH
Q 027204 45 GKRAFLVDTLQLVRGLEAQGVPSKQAEAITAA 76 (226)
Q Consensus 45 ~~~~~~FDT~~fvk~Le~aGft~~QAeai~~a 76 (226)
++.++.|| ++|+++|+.||..
T Consensus 13 ~G~V~Vfd-----------~v~~~Ka~~im~l 33 (36)
T PF06200_consen 13 GGQVCVFD-----------DVPPDKAQEIMLL 33 (36)
T ss_pred CCEEEEeC-----------CCCHHHHHHHHHH
Confidence 45567777 7899999999875
No 385
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=26.99 E-value=4.1e+02 Score=22.89 Aligned_cols=14 Identities=29% Similarity=0.321 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHHH
Q 027204 68 KQAEAITAAITEVL 81 (226)
Q Consensus 68 ~QAeai~~al~~~l 81 (226)
+||..-.-.+.+.+
T Consensus 88 ~qa~~d~~~l~e~L 101 (224)
T cd07623 88 EQADTDFYILAELL 101 (224)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 386
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=26.98 E-value=5.6e+02 Score=24.44 Aligned_cols=20 Identities=35% Similarity=0.491 Sum_probs=9.4
Q ss_pred hhHHHHHhhHHHHHHHHHHH
Q 027204 166 RIRDELANQNAETTNLTNKL 185 (226)
Q Consensus 166 r~ree~~~~~~kI~e~~~Ki 185 (226)
..+++.+.+..+|.++..++
T Consensus 73 ~l~~~~~~l~~~~~~~~~~~ 92 (418)
T TIGR00414 73 EIKKELKELKEELTELSAAL 92 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555544433
No 387
>KOG4807 consensus F-actin binding protein, regulates actin cytoskeletal organization [Cytoskeleton]
Probab=26.92 E-value=6.1e+02 Score=24.86 Aligned_cols=26 Identities=35% Similarity=0.488 Sum_probs=20.5
Q ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 172 ANQNAETTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 172 ~~~~~kI~e~~~Ki~~eIa~LRteIE 197 (226)
+.+...-+|+|+++..||..||+-|.
T Consensus 466 QELnaHNQELnnRLaaEItrLRtllt 491 (593)
T KOG4807|consen 466 QELNAHNQELNNRLAAEITRLRTLLT 491 (593)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence 45566678999999999998888665
No 388
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=26.92 E-value=3.3e+02 Score=24.25 Aligned_cols=24 Identities=4% Similarity=0.153 Sum_probs=14.1
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
+..||-.+|.+.++++++.++-++
T Consensus 70 v~~LrG~~E~~~~~l~~~~~rq~~ 93 (263)
T PRK10803 70 IDSLRGQIQENQYQLNQVVERQKQ 93 (263)
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHH
Confidence 345555556666666666655444
No 389
>KOG3564 consensus GTPase-activating protein [General function prediction only]
Probab=26.89 E-value=2.7e+02 Score=27.78 Aligned_cols=78 Identities=21% Similarity=0.267 Sum_probs=0.0
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhh-------hhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDL-------NLERGRIRDELANQNAETTNLTNKLDREIHALRA 194 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDl-------NleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRt 194 (226)
..+-+++.-.++|+++++.|..--.+|+.+++.+.+ |+ |.|-++.++++..-+.+...++-|+----..++.
T Consensus 3 ~~~lnm~~~f~~l~r~~~~l~~g~e~ef~rl~k~fe-d~~ek~~r~~ae~~~~~~~L~Ka~tk~~~ldvklkha~~~vda 81 (604)
T KOG3564|consen 3 TMMLNMRNLFEQLVRDIEILGEGNEDEFIRLRKDFE-DFEEKWKRTDAELGKYKDLLAKAETKRSALDVKLKHARNQVDA 81 (604)
T ss_pred hHHHHHHHhHHHHHHHHHHhcCccHHHHHHHHHHHH-HHHHHHhhhhHHHHHHHHHHHHHHHhhhhccchHHHHHHHHHH
Q ss_pred HHHHhH
Q 027204 195 HMEAAK 200 (226)
Q Consensus 195 eIEs~K 200 (226)
+|+.-|
T Consensus 82 ~ik~rr 87 (604)
T KOG3564|consen 82 EIKRRR 87 (604)
T ss_pred HHHHHH
No 390
>PF10025 DUF2267: Uncharacterized conserved protein (DUF2267); InterPro: IPR018727 This entry contains proteins that have no known function. ; PDB: 2YSK_A.
Probab=26.82 E-value=68 Score=25.12 Aligned_cols=34 Identities=21% Similarity=0.292 Sum_probs=0.0
Q ss_pred cHHHHHHHH-hhCCC-ChHHHHHHHHHHHHHHHhhH
Q 027204 52 DTLQLVRGL-EAQGV-PSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 52 DT~~fvk~L-e~aGf-t~~QAeai~~al~~~l~~~l 85 (226)
|++.|++.+ +.+|+ +.++|...+.++-..+.+.+
T Consensus 1 ~~~~fl~~V~~~~~l~~~~~A~~a~~avL~~L~~rL 36 (125)
T PF10025_consen 1 KYDEFLDEVRERAGLPDREEAYRATRAVLHTLRERL 36 (125)
T ss_dssp HHHHHHHHHHHHHT---HHHHHHHHHHHHHHHHTTS
T ss_pred CHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHC
No 391
>KOG4674 consensus Uncharacterized conserved coiled-coil protein [Function unknown]
Probab=26.74 E-value=1.1e+03 Score=27.56 Aligned_cols=102 Identities=21% Similarity=0.320 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHh---hhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHH
Q 027204 106 EANLSKFKSEVQS---SQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLT 182 (226)
Q Consensus 106 ka~iseLR~El~~---~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~ 182 (226)
+..+.++|.++.. ..+.++..++.+...|+.++..|+.++.-.+... .+--+|+--+.+-.+.+.......+.+.+
T Consensus 946 ks~lde~~~~~ea~ie~~~~k~tslE~~ls~L~~~~~~l~~e~~~~~k~~-e~~~~~~~~e~~sl~ne~~~~~~~~s~~~ 1024 (1822)
T KOG4674|consen 946 KSELDETRLELEAKIESLHKKITSLEEELSELEKEIENLREELELSTKGK-EDKLLDLSREISSLQNELKSLLKAASQAN 1024 (1822)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccch-hhhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4444455544432 1234445555555556666666665543222222 22344565566666666666666666666
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHH
Q 027204 183 NKLDREIHALRAHMEAAKYDVIKYCI 208 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K~d~lrwli 208 (226)
..+.+--.++.++.+.++...-.|--
T Consensus 1025 ~~~~~~k~dl~~~~~~~~~a~~~Ye~ 1050 (1822)
T KOG4674|consen 1025 EQIEDLQNDLKTETEQLRKAQSKYES 1050 (1822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66665556666665555544444433
No 392
>KOG0577 consensus Serine/threonine protein kinase [Signal transduction mechanisms]
Probab=26.73 E-value=7.6e+02 Score=25.89 Aligned_cols=58 Identities=17% Similarity=0.248 Sum_probs=27.8
Q ss_pred hhhhhhhHHH----HHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 027204 90 HTFVSKGEMQ----KTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTA 154 (226)
Q Consensus 90 ~~lvTK~dle----~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~a 154 (226)
..+||+...| +.-+.|.+-.-.+|-+- -..|-.--++++.|.+..+.+|.-|+..+++
T Consensus 469 aslvtrq~~Eheqe~~l~EQmSgYKrmRrqH-------qkqL~~lE~r~k~e~eehr~~ldrEle~~~~ 530 (948)
T KOG0577|consen 469 ASLVTRQIQEHEQESELREQMSGYKRMRRQH-------QKQLLALEERLKGEREEHRARLDRELETLRA 530 (948)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHhhHHHHHHH-------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 3566665432 22334444444444432 2233333344555556655555555555555
No 393
>PF15079 DUF4546: Domain of unknown function (DUF4546)
Probab=26.73 E-value=3.2e+02 Score=23.51 Aligned_cols=12 Identities=25% Similarity=0.133 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHH
Q 027204 105 QEANLSKFKSEV 116 (226)
Q Consensus 105 ~ka~iseLR~El 116 (226)
+++-|-+|+-|.
T Consensus 17 YkavCleLKpEp 28 (205)
T PF15079_consen 17 YKAVCLELKPEP 28 (205)
T ss_pred HHHHHHhcCCcc
Confidence 455555555553
No 394
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=26.68 E-value=6.1e+02 Score=24.73 Aligned_cols=20 Identities=10% Similarity=0.363 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 027204 133 KLRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 133 ~Lk~Eie~L~~~LkeeI~kl 152 (226)
.|+.+|+.|++.+.++-.++
T Consensus 318 ~l~~rI~aLe~QIa~er~kl 337 (434)
T PRK15178 318 RLSAKIKVLEKQIGEQRNRL 337 (434)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 34444555555544444444
No 395
>PF00804 Syntaxin: Syntaxin; InterPro: IPR006011 Syntaxins A and B are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane. Syntaxins are a family of receptors for intracellular transport vesicles. Each target membrane may be identified by a specific member of the syntaxin family []. Members of the syntaxin family [, ] have a size ranging from 30 Kd to 40 Kd; a C-terminal extremity which is highly hydrophobic and anchors the protein on the cytoplasmic surface of cellular membranes; a central, well conserved region, which seems to be in a coiled-coil conformation. ; GO: 0016020 membrane; PDB: 1S94_B 1EZ3_A 3C98_B 1BR0_A 1FIO_A 2XHE_B.
Probab=26.50 E-value=2.4e+02 Score=20.09 Aligned_cols=19 Identities=16% Similarity=0.559 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 027204 134 LRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl 152 (226)
++.+++.|..+++..+..+
T Consensus 43 ~~~el~~l~~~i~~~~~~~ 61 (103)
T PF00804_consen 43 LKRELDELTDEIKQLFQKI 61 (103)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444444443333333
No 396
>KOG0972 consensus Huntingtin interacting protein 1 (Hip1) interactor Hippi [Signal transduction mechanisms]
Probab=26.48 E-value=5.1e+02 Score=24.35 Aligned_cols=26 Identities=19% Similarity=0.440 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 130 ETEKLRSDIEKMRSELRYEIDKVTAG 155 (226)
Q Consensus 130 e~e~Lk~Eie~L~~~LkeeI~kl~ae 155 (226)
....+--|+++++++|.+.=+++..+
T Consensus 309 ~L~eVm~e~E~~KqemEe~G~~msDG 334 (384)
T KOG0972|consen 309 TLDEVMDEIEQLKQEMEEQGAKMSDG 334 (384)
T ss_pred HHHHHHHHHHHHHHHHHHhcccccCC
Confidence 34445556666666665555555444
No 397
>TIGR00150 HI0065_YjeE ATPase, YjeE family. Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.
Probab=26.48 E-value=36 Score=27.49 Aligned_cols=44 Identities=18% Similarity=0.201 Sum_probs=30.5
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHH--HHHhhCCC
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLV--RGLEAQGV 65 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fv--k~Le~aGf 65 (226)
+++..+..++||-=.+-|-|.......+|||-|++- ..+..-||
T Consensus 44 ~~lg~~~~v~SPTf~lv~~Y~~~~~~l~H~DlYRl~~~~e~~~lg~ 89 (133)
T TIGR00150 44 QGLGIQGNVTSPTFTLVNEYNEGNLMVYHFDLYRLADPEELELMGL 89 (133)
T ss_pred HHcCCCCcccCCCeeeeeecccCCCcEEEechhhcCChhHHHHCCh
Confidence 455566668888877778887555568999999884 23444554
No 398
>PRK10361 DNA recombination protein RmuC; Provisional
Probab=26.41 E-value=6.4e+02 Score=24.90 Aligned_cols=60 Identities=18% Similarity=0.238 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 137 DIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 137 Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIE 197 (226)
.++.|=.-|++.|...+..+. ++..+..+-+..+..+-..+++.+.+|..|-.+|-.-+-
T Consensus 137 ~l~~ll~Pl~e~l~~f~~~v~-~~~~~~~~~~~~L~~qi~~L~~~n~~i~~ea~nLt~ALk 196 (475)
T PRK10361 137 SLNSLLSPLREQLDGFRRQVQ-DSFGKEAQERHTLAHEIRNLQQLNAQMAQEAINLTRALK 196 (475)
T ss_pred HHHHHHhhHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344444555666666655444 333333444455555566677888888888887776654
No 399
>PRK00285 ihfA integration host factor subunit alpha; Reviewed
Probab=26.37 E-value=1.5e+02 Score=22.14 Aligned_cols=35 Identities=20% Similarity=0.351 Sum_probs=28.6
Q ss_pred ccHHHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 51 VDTLQLVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 51 FDT~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
++.-.+++.+. ..|++..++..+++++.+.+.+.|
T Consensus 3 mtk~el~~~ia~~~~~s~~~v~~vl~~~~~~i~~~L 38 (99)
T PRK00285 3 LTKADLAEALFEKVGLSKREAKELVELFFEEIRDAL 38 (99)
T ss_pred cCHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHH
Confidence 56667888884 567999999999999999887655
No 400
>PRK10646 ADP-binding protein; Provisional
Probab=26.37 E-value=29 Score=28.77 Aligned_cols=44 Identities=14% Similarity=0.116 Sum_probs=31.3
Q ss_pred cccccCCCCCcCcccccccccCCCCcceeccHHHHH--HHHhhCCC
Q 027204 22 QGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLV--RGLEAQGV 65 (226)
Q Consensus 22 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fv--k~Le~aGf 65 (226)
+++..+..++||-=.+.|.|+.+....+|||-|++- ..|+.-||
T Consensus 50 ~~Lg~~~~V~SPTFtlv~~Y~~~~~~l~H~DlYRL~~~~el~~lG~ 95 (153)
T PRK10646 50 QALGHQGNVKSPTYTLVEPYTLDNLMVYHFDLYRLADPEELEFMGI 95 (153)
T ss_pred HHcCCCCCCCCCCEeeEEEeeCCCCCEEEEeeccCCCHHHHHHcch
Confidence 345566678888888888887556679999999974 34444454
No 401
>PF00216 Bac_DNA_binding: Bacterial DNA-binding protein; InterPro: IPR000119 Bacteria synthesise a set of small, usually basic proteins of about 90 residues that bind DNA and are known as histone-like proteins [, ]. Examples include the HU protein in Escherichia coli is a dimer of closely related alpha and beta chains and in other bacteria can be a dimer of identical chains. HU-type proteins have been found in a variety of eubacteria, cyanobacteria and archaebacteria, and are also encoded in the chloroplast genome of some algae []. The integration host factor (IHF), a dimer of closely related chains which seem to function in genetic recombination as well as in translational and transcriptional control [] is found in enterobacteria and viral proteins include the African Swine fever virus protein A104R (or LMW5-AR) []. The exact function of these proteins is not yet clear but they are capable of wrapping DNA and stabilising it from denaturation under extreme environmental conditions. The structure is known for one of these proteins []. The protein exists as a dimer and two "beta-arms" function as the non-specific binding site for bacterial DNA. ; GO: 0003677 DNA binding; PDB: 3C4I_B 2O97_A 1MUL_A 1P78_A 1P51_C 1P71_B 2HT0_A 1OWG_A 2IIF_A 1OUZ_A ....
Probab=26.28 E-value=1.2e+02 Score=21.71 Aligned_cols=32 Identities=25% Similarity=0.541 Sum_probs=25.1
Q ss_pred HHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 54 LQLVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 54 ~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
-.+++.+. ..|+|..+++.+++++.+.+.+.|
T Consensus 4 ~eli~~ia~~~~~s~~~v~~vl~~~~~~i~~~L 36 (90)
T PF00216_consen 4 KELIKRIAEKTGLSKKDVEAVLDALFDVIKEAL 36 (90)
T ss_dssp HHHHHHHHHHHTSSHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHH
Confidence 35666664 568999999999999988887655
No 402
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=26.17 E-value=4.4e+02 Score=23.00 Aligned_cols=95 Identities=15% Similarity=0.278 Sum_probs=0.0
Q ss_pred HHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 027204 77 ITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQ 156 (226)
Q Consensus 77 l~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~ 156 (226)
+..++.+.-+.+.+++ .+.++..-+-.....+.+..+...+..--..+......-..+.+.+..+-+.|+.++....
T Consensus 30 i~~~l~~R~~~I~~~l---~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~i~~~A~~eA~~~~~~i~~~A~~ea~~~~~~a 106 (246)
T TIGR03321 30 ILDAMDAREKKIAGEL---ADADTKKREAEQERREYEEKNEELDQQREVLLTKAKEEAQAERQRLLDEAREEADEIREKW 106 (246)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhhhhhhhhhhHHHHHhh
Q 027204 157 RLDLNLERGRIRDELANQ 174 (226)
Q Consensus 157 klDlNleK~r~ree~~~~ 174 (226)
+-++..|+.+...++...
T Consensus 107 ~~~ie~E~~~a~~~l~~e 124 (246)
T TIGR03321 107 QEALRREQAALSDELRRR 124 (246)
T ss_pred HHHHHHHHHHHHHHHHHH
No 403
>PF04286 DUF445: Protein of unknown function (DUF445); InterPro: IPR007383 This entry contains proteins of unknown function. They are predicted to be transmembrane proteins with 2 or 3 TM domains.
Probab=25.69 E-value=4.8e+02 Score=23.22 Aligned_cols=24 Identities=13% Similarity=-0.009 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 202 DVIKYCIGTLVSISAVGLAIVRIL 225 (226)
Q Consensus 202 d~lrwliG~v~~~~al~la~~rl~ 225 (226)
+.|+|..+++++++++++.++..|
T Consensus 343 ~~IrinGallG~liG~~~~~i~~l 366 (367)
T PF04286_consen 343 QWIRINGALLGGLIGLLQYLILQL 366 (367)
T ss_pred HhhhhhhHHHHHHHHHHHHHHHHH
Confidence 358888888888888888887665
No 404
>PF15103 G0-G1_switch_2: G0/G1 switch protein 2
Probab=25.68 E-value=55 Score=25.61 Aligned_cols=19 Identities=21% Similarity=0.527 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027204 205 KYCIGTLVSISAVGLAIVR 223 (226)
Q Consensus 205 rwliG~v~~~~al~la~~r 223 (226)
-|++|.+++++++++|++-
T Consensus 26 lYvLGSvLA~~Gvv~GLVE 44 (102)
T PF15103_consen 26 LYVLGSVLAFFGVVIGLVE 44 (102)
T ss_pred eehhhhHHHHHHHHHHHHH
Confidence 4789999999999999873
No 405
>smart00340 HALZ homeobox associated leucin zipper.
Probab=25.63 E-value=2e+02 Score=19.11 Aligned_cols=20 Identities=20% Similarity=0.542 Sum_probs=14.0
Q ss_pred HHHhHHHHHHHHHHHHHHHH
Q 027204 124 FSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~ 143 (226)
...|..|+.+|+.|+..|+.
T Consensus 14 ce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 14 CESLTEENRRLQKEVQELRA 33 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 45566677778888877764
No 406
>TIGR00988 hip integration host factor, beta subunit. This protein forms a site-specific DNA-binding heterodimer with the homologous integration host factor alpha subunit. It is closely related to the DNA-binding protein HU.
Probab=25.60 E-value=1.5e+02 Score=21.80 Aligned_cols=33 Identities=18% Similarity=0.371 Sum_probs=26.3
Q ss_pred HHHHHHHhh--CCCChHHHHHHHHHHHHHHHhhHH
Q 027204 54 LQLVRGLEA--QGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 54 ~~fvk~Le~--aGft~~QAeai~~al~~~l~~~l~ 86 (226)
-.|++.+.+ .|+|+.+++.+++++-+.+.+.+.
T Consensus 4 ~eli~~i~~~~~~~s~~~v~~vv~~~~~~i~~~L~ 38 (94)
T TIGR00988 4 SELIERIATQQSHLPAKDVEDAVKTMLEHMASALA 38 (94)
T ss_pred HHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 357888864 479999999999999988876553
No 407
>PF11365 DUF3166: Protein of unknown function (DUF3166); InterPro: IPR021507 This eukaryotic family of proteins has no known function.
Probab=25.58 E-value=2.4e+02 Score=21.78 Aligned_cols=20 Identities=30% Similarity=0.532 Sum_probs=8.8
Q ss_pred HHhHHHHHHHHHHHHHHHHH
Q 027204 125 SMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 125 ~~lr~e~e~Lk~Eie~L~~~ 144 (226)
+.+-.++..|..|+.+.+.+
T Consensus 25 ~ele~eN~~l~~EL~kyk~~ 44 (96)
T PF11365_consen 25 SELEDENKQLTEELNKYKSK 44 (96)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 33344444444444444443
No 408
>smart00806 AIP3 Actin interacting protein 3. Aip3p/Bud6p is a regulator of cell and cytoskeletal polarity in Saccharomyces cerevisiae that was previously identified as an actin-interacting protein. Actin-interacting protein 3 (Aip3p) localizes at the cell cortex where cytoskeleton assembly must be achieved to execute polarized cell growth, and deletion of AIP3 causes gross defects in cell and cytoskeletal polarity. Aip3p localization is mediated by the secretory pathway, mutations in early- or late-acting components of the secretory apparatus lead to Aip3p mislocalization PUBMED:10679021.
Probab=25.46 E-value=6.4e+02 Score=24.59 Aligned_cols=38 Identities=18% Similarity=0.435 Sum_probs=25.6
Q ss_pred HHHHHHHHHhh----hhhhHHHhHHHHHHHHHHHHHHHHHHH
Q 027204 109 LSKFKSEVQSS----QEHHFSMLQRETEKLRSDIEKMRSELR 146 (226)
Q Consensus 109 iseLR~El~~~----~k~e~~~lr~e~e~Lk~Eie~L~~~Lk 146 (226)
+..||+|+... ...++..+..++.....|+.+|..-++
T Consensus 233 vE~LRkDV~~RgVRp~~~qLe~v~kdi~~a~keL~~m~~~i~ 274 (426)
T smart00806 233 IEALRKDVAQRGVRPSKKQLETVQKELETARKELKKMEEYID 274 (426)
T ss_pred HHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56788887643 256677777777777777777666544
No 409
>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=25.43 E-value=3.4e+02 Score=21.42 Aligned_cols=17 Identities=24% Similarity=0.538 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHHH
Q 027204 181 LTNKLDREIHALRAHME 197 (226)
Q Consensus 181 ~~~Ki~~eIa~LRteIE 197 (226)
-...+..+|..++..++
T Consensus 99 qk~~le~e~~~~~~r~~ 115 (132)
T PF07926_consen 99 QKEQLEKELSELEQRIE 115 (132)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444444333
No 410
>KOG4677 consensus Golgi integral membrane protein [Intracellular trafficking, secretion, and vesicular transport; General function prediction only]
Probab=25.34 E-value=3.4e+02 Score=26.90 Aligned_cols=26 Identities=23% Similarity=0.266 Sum_probs=12.5
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELR 146 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~Lk 146 (226)
+.|++.+.-....|+.++..++...+
T Consensus 322 ~ed~~~~q~q~~~Lrs~~~d~EAq~r 347 (554)
T KOG4677|consen 322 AEDSAHIQDQYTLLRSQIIDIEAQDR 347 (554)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444445555555554444433
No 411
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=25.19 E-value=2.7e+02 Score=25.35 Aligned_cols=25 Identities=16% Similarity=0.279 Sum_probs=14.7
Q ss_pred HHHHH---HHHHHHHHHHHHHHHHhHHH
Q 027204 178 TTNLT---NKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 178 I~e~~---~Ki~~eIa~LRteIEs~K~d 202 (226)
+.+.+ ..+..++.+|..-+...|..
T Consensus 43 l~~~~~~~~~l~~~~~~L~~aL~~~k~r 70 (304)
T PF02646_consen 43 LSEANGEIQQLSQEASNLTSALKNSKTR 70 (304)
T ss_pred HHHhhhHHHHHHHHHHHHHHHHhCCCch
Confidence 34455 56666677777666655533
No 412
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=25.15 E-value=4.7e+02 Score=22.97 Aligned_cols=6 Identities=17% Similarity=0.158 Sum_probs=2.3
Q ss_pred HHHHhh
Q 027204 147 YEIDKV 152 (226)
Q Consensus 147 eeI~kl 152 (226)
+|-.++
T Consensus 100 ~en~~L 105 (276)
T PRK13922 100 AENARL 105 (276)
T ss_pred HHHHHH
Confidence 333333
No 413
>COG1561 Uncharacterized stress-induced protein [Function unknown]
Probab=24.87 E-value=5.6e+02 Score=23.69 Aligned_cols=22 Identities=18% Similarity=0.371 Sum_probs=11.8
Q ss_pred hhhhhhHHHHHhhHHHHHHHHH
Q 027204 162 LERGRIRDELANQNAETTNLTN 183 (226)
Q Consensus 162 leK~r~ree~~~~~~kI~e~~~ 183 (226)
..|..+++|+..++..|.+..+
T Consensus 212 a~K~DI~EEldRL~sHv~~~~~ 233 (290)
T COG1561 212 AQKADIAEELDRLKSHVKEFRN 233 (290)
T ss_pred HHHhhHHHHHHHHHHHHHHHHH
Confidence 3444455666666555555543
No 414
>PF05873 Mt_ATP-synt_D: ATP synthase D chain, mitochondrial (ATP5H); InterPro: IPR008689 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This entry represents subunit D from the F0 complex in F-ATPases found in mitochondria. The D subunit is part of the peripheral stalk that links the F1 and F0 complexes together, and which acts as a stator to prevent certain subunits from rotating with the central rotary element. The peripheral stalk differs in subunit composition between mitochondrial, chloroplast and bacterial F-ATPases. In mitochondria, the peripheral stalk is composed of one copy each of subunits OSCP (oligomycin sensitivity conferral protein), F6, B and D []. There is no homologue of subunit D in bacterial or chloroplast F-ATPase, whose peripheral stalks are composed of one copy of the delta subunit (homologous to OSCP), and two copies of subunit B in bacteria, or one copy each of subunits B and B' in chloroplasts and photosynthetic bacteria. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0015078 hydrogen ion transmembrane transporter activity, 0015986 ATP synthesis coupled proton transport, 0000276 mitochondrial proton-transporting ATP synthase complex, coupling factor F(o); PDB: 2CLY_E 2WSS_U.
Probab=24.82 E-value=4.1e+02 Score=22.08 Aligned_cols=38 Identities=11% Similarity=0.148 Sum_probs=26.1
Q ss_pred hhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHH
Q 027204 164 RGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKY 201 (226)
Q Consensus 164 K~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~ 201 (226)
-..+....+....+++++..+...+|.+|..+|+..+.
T Consensus 87 ~~~i~~~e~~~~~~~~~~~~~s~~~i~~l~keL~~i~~ 124 (161)
T PF05873_consen 87 TKEIDAQEKEAIKEAKEFEAESKKRIAELEKELANIES 124 (161)
T ss_dssp TTHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 33444555555667778888888888888888876653
No 415
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=24.70 E-value=5.8e+02 Score=23.84 Aligned_cols=30 Identities=27% Similarity=0.393 Sum_probs=15.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 027204 173 NQNAETTNLTNKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 173 ~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d 202 (226)
.+=.+..+-|.++..|+.+||..+..++-|
T Consensus 72 ~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD 101 (319)
T PF09789_consen 72 QLLSESREQNKKLKEEVEELRQKLNEAQGD 101 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 333444555556666666666555554433
No 416
>PRK13717 conjugal transfer protein TrbI; Provisional
Probab=24.67 E-value=2e+02 Score=23.46 Aligned_cols=40 Identities=15% Similarity=0.214 Sum_probs=32.8
Q ss_pred cceeccHH----HHHHHHhhCCCChHHHHHHHHHHHHHHHhhHH
Q 027204 47 RAFLVDTL----QLVRGLEAQGVPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 47 ~~~~FDT~----~fvk~Le~aGft~~QAeai~~al~~~l~~~l~ 86 (226)
..+.||-- .|.+++-+...|++|.+++.+.....++..+.
T Consensus 46 ~iV~FDmK~Tld~F~~Q~~~~~lte~q~e~lt~rF~~aL~~~L~ 89 (128)
T PRK13717 46 VTAAFNMKQTVDAFFDSASQKQLSEAQSKALSARFNTALEASLQ 89 (128)
T ss_pred eEEEEehHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHH
Confidence 46788855 68889988899999999999988888776654
No 417
>PRK09866 hypothetical protein; Provisional
Probab=24.48 E-value=8.3e+02 Score=25.56 Aligned_cols=43 Identities=21% Similarity=0.257 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHhhhh---hhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 103 MIQEANLSKFKSEVQSSQE---HHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 103 y~~ka~iseLR~El~~~~k---~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
|..++++++|.+-.+..+. -....+..+.++|+.+|+.+.++|
T Consensus 417 ~al~sa~~kl~~~a~~~~d~l~~r~~gl~~~~~~L~~~I~~~e~d~ 462 (741)
T PRK09866 417 YALRSAAHKLLNYAQQAREYLDFRAHGLNVACEQLRQNIHQVEESL 462 (741)
T ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556667766666554432 122344455556666666655554
No 418
>PRK14473 F0F1 ATP synthase subunit B; Provisional
Probab=24.46 E-value=3.8e+02 Score=21.68 Aligned_cols=8 Identities=13% Similarity=0.468 Sum_probs=3.1
Q ss_pred HHHHHHHH
Q 027204 191 ALRAHMEA 198 (226)
Q Consensus 191 ~LRteIEs 198 (226)
+|++++.+
T Consensus 123 ~L~~~i~~ 130 (164)
T PRK14473 123 ELKSQIAD 130 (164)
T ss_pred HHHHHHHH
Confidence 33443333
No 419
>KOG0612 consensus Rho-associated, coiled-coil containing protein kinase [Signal transduction mechanisms]
Probab=24.38 E-value=1e+03 Score=26.57 Aligned_cols=34 Identities=15% Similarity=0.289 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHH
Q 027204 106 EANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 106 ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~ 143 (226)
+.++.+...++ +++++.|.+..+.+..++.+++.
T Consensus 618 ~~~~~e~~~~l----~~~i~sL~~~~~~~~~~l~k~~e 651 (1317)
T KOG0612|consen 618 RTEISEIIAEL----KEEISSLEETLKAGKKELLKVEE 651 (1317)
T ss_pred HHHHHHHHHHH----HhHHHHHHHHHHhhhhHHHHHHH
Confidence 44444444444 46667777777777777666665
No 420
>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=24.23 E-value=1.1e+02 Score=28.99 Aligned_cols=27 Identities=15% Similarity=0.308 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDVIK 205 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~lr 205 (226)
++-|.++..|+++||+++|.++.+.++
T Consensus 38 r~EN~~LKkEN~~Lk~eVerLE~e~l~ 64 (420)
T PF07407_consen 38 RMENHSLKKENNDLKIEVERLENEMLR 64 (420)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344555555555555555555544443
No 421
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=24.18 E-value=7.9e+02 Score=25.19 Aligned_cols=15 Identities=27% Similarity=0.459 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHHH
Q 027204 184 KLDREIHALRAHMEA 198 (226)
Q Consensus 184 Ki~~eIa~LRteIEs 198 (226)
|+..|+++|..+|+.
T Consensus 408 k~~~e~~~l~~~i~~ 422 (635)
T PRK09631 408 KNQKEIRILNKELKS 422 (635)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444443
No 422
>PF15456 Uds1: Up-regulated During Septation
Probab=24.15 E-value=3.8e+02 Score=21.46 Aligned_cols=43 Identities=9% Similarity=0.162 Sum_probs=21.0
Q ss_pred HHHHhhHHHHHHHHHHHHHHHHH---HHHHHHHhHHHHHHHHHHHH
Q 027204 169 DELANQNAETTNLTNKLDREIHA---LRAHMEAAKYDVIKYCIGTL 211 (226)
Q Consensus 169 ee~~~~~~kI~e~~~Ki~~eIa~---LRteIEs~K~d~lrwliG~v 211 (226)
+.....+....+.+.|++.-..+ +......++..++.=.+|++
T Consensus 74 ~~~~~~eeel~~~~rk~ee~~~eL~~le~R~~~~~~rLLeH~AavL 119 (124)
T PF15456_consen 74 ESSLKAEEELAESDRKCEELAQELWKLENRLAEVRQRLLEHTAAVL 119 (124)
T ss_pred chHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555556666665544433 23333344444555555543
No 423
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=24.09 E-value=6.1e+02 Score=23.84 Aligned_cols=44 Identities=23% Similarity=0.224 Sum_probs=24.3
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhh
Q 027204 124 FSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQ 174 (226)
Q Consensus 124 ~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~ 174 (226)
...+..+++++-.+-+.++.+|-..+..+ ||--|.+||+....+
T Consensus 160 ~~~~~~qlE~~v~~K~~~E~~L~~KF~~v-------LNeKK~KIR~lq~~L 203 (342)
T PF06632_consen 160 ANKLLKQLEKFVNAKEEHEEDLYAKFVLV-------LNEKKAKIRELQRLL 203 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHhHHHHHHHHHHHH
Confidence 34455555555555555555554444444 566666777665544
No 424
>KOG3366 consensus Mitochondrial F1F0-ATP synthase, subunit d/ATP7 [Energy production and conversion]
Probab=24.02 E-value=4.6e+02 Score=22.42 Aligned_cols=51 Identities=16% Similarity=0.165 Sum_probs=34.4
Q ss_pred HHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 027204 149 IDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAK 200 (226)
Q Consensus 149 I~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K 200 (226)
...++. +..|.+---..+..+.+..-..|.+...+...+|.+|..+||.++
T Consensus 75 y~slk~-v~~~~~ky~~~vda~~k~~~~~~ke~~~~s~~~iq~l~k~le~v~ 125 (172)
T KOG3366|consen 75 YDSLKP-VPVDEDKYLKEVDAEEKAAVKEIKEYESLSKKRIQELEKELEKVK 125 (172)
T ss_pred HHhccc-cCCCHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444443 445555444555556666667788888888888999999888765
No 425
>TIGR00006 S-adenosyl-methyltransferase MraW. Genetics paper in 1972 links mra cluster to peptidoglycan biosynthesis in E. coli. Seems to be common in proteobacteria.wn.
Probab=23.99 E-value=5.6e+02 Score=23.63 Aligned_cols=127 Identities=17% Similarity=0.196 Sum_probs=73.4
Q ss_pred cccccccCCCCCcCcccccccccCCCCcceeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHH
Q 027204 20 KSQGFNLNYSNTIGYRQISQLVKSNGKRAFLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQ 99 (226)
Q Consensus 20 ~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle 99 (226)
-..||||.+...-+=||=..--.+.....-.++-..+.+-|..-|=- ..|..|+.++...-. ...+-|-.||.
T Consensus 110 ~~RGFSf~~dgpLDMRMd~~~~~tA~~~ln~~~e~~L~~i~~~yGEe-~~a~~IA~~Iv~~R~------~~~i~tt~~L~ 182 (305)
T TIGR00006 110 PERGFSFKHDGPLDMRMDQSQKLSAAEILNTYSEEDLERILKKYGEE-KFSKRIARAIVERRK------KKPIQTTKELA 182 (305)
T ss_pred CCCCCccCCCCCcccccCCCCCCCHHHHHhhCCHHHHHHHHHHhcCc-chHHHHHHHHHHHHh------cCCCCCHHHHH
Confidence 56799998776667676432222333344556777889999988843 337777777765421 23455555555
Q ss_pred HHHHHHHHHHH-HHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhh
Q 027204 100 KTEMIQEANLS-KFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLD 159 (226)
Q Consensus 100 ~~~y~~ka~is-eLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klD 159 (226)
++.... +- .-|..-..-..-=|.+||-+ +..|++.|+.-|..-..-|+.+=++-
T Consensus 183 ~ii~~~---~p~~~~~~~~hpatr~FQALRI~---VN~EL~~L~~~L~~~~~~L~~gGrl~ 237 (305)
T TIGR00006 183 ELISKA---VPGFSKHKSIHPATRVFQAIRIY---VNDELEELEEALQFAPNLLAPGGRLS 237 (305)
T ss_pred HHHHHH---cCccccccCCCcHHHHHHHHHHH---HHHhHHHHHHHHHHHHHHhcCCCEEE
Confidence 443221 10 00100000112336777777 77888888888887777776665554
No 426
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=23.91 E-value=3.6e+02 Score=21.20 Aligned_cols=16 Identities=38% Similarity=0.659 Sum_probs=7.3
Q ss_pred HhHHHHHHHHHHHHHH
Q 027204 126 MLQRETEKLRSDIEKM 141 (226)
Q Consensus 126 ~lr~e~e~Lk~Eie~L 141 (226)
.|+-|++.|+.-++.+
T Consensus 40 ~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 40 ALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 3444444444444444
No 427
>PRK00199 ihfB integration host factor subunit beta; Reviewed
Probab=23.59 E-value=1.7e+02 Score=21.56 Aligned_cols=31 Identities=29% Similarity=0.437 Sum_probs=25.4
Q ss_pred HHHHHHhh--CCCChHHHHHHHHHHHHHHHhhH
Q 027204 55 QLVRGLEA--QGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 55 ~fvk~Le~--aGft~~QAeai~~al~~~l~~~l 85 (226)
.|++.+.+ .|++..+++.+++++-+.+.+.+
T Consensus 5 eli~~ia~~~~~~s~~~~~~vv~~~~~~i~~~L 37 (94)
T PRK00199 5 ELIERLAARNPHLSAKDVENAVKEILEEMSDAL 37 (94)
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHH
Confidence 57888864 57999999999999988887655
No 428
>PF03915 AIP3: Actin interacting protein 3; InterPro: IPR022782 This entry represents a domain found in yeast actin interacting protein 3 and bud site selection protein 6. In these proteins it is typically found towards the C terminus. It is also found in metazoan proteins, such as the mouse enhancer trap locus 4 protein. ; PDB: 3ONX_B 3OKQ_A.
Probab=23.59 E-value=6.8e+02 Score=24.26 Aligned_cols=56 Identities=9% Similarity=0.274 Sum_probs=36.3
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhh----hhhhHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027204 87 NVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSS----QEHHFSMLQRETEKLRSDIEKMRSELRYE 148 (226)
Q Consensus 87 ~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~----~k~e~~~lr~e~e~Lk~Eie~L~~~Lkee 148 (226)
..+..+++|-| .+...+.+||.|+... ...++..+..+...+..++.+++..+..+
T Consensus 213 ~~sd~Ll~kVd------DLQD~VE~LRkDV~~RgvRp~~~qle~v~kdi~~a~~~L~~m~~~i~~~ 272 (424)
T PF03915_consen 213 EESDRLLTKVD------DLQDLVEDLRKDVVQRGVRPSPKQLETVAKDISRASKELKKMKEYIKTE 272 (424)
T ss_dssp HHHHHHHHHHH------HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH------HHHHHHHHHHHHHHHcCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666543 3345677888887653 25677777888888888888776665443
No 429
>KOG0742 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]
Probab=23.49 E-value=7.5e+02 Score=24.70 Aligned_cols=19 Identities=21% Similarity=0.309 Sum_probs=13.0
Q ss_pred CCCChHHHHHHHHHHHHHH
Q 027204 63 QGVPSKQAEAITAAITEVL 81 (226)
Q Consensus 63 aGft~~QAeai~~al~~~l 81 (226)
+||.|+--|--+++++++=
T Consensus 71 ~gFDpeaLERaAKAlrein 89 (630)
T KOG0742|consen 71 SGFDPEALERAAKALREIN 89 (630)
T ss_pred cCCChHHHHHHHHHHHhhc
Confidence 3677777677777777763
No 430
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=23.48 E-value=3.1e+02 Score=20.23 Aligned_cols=19 Identities=11% Similarity=0.389 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHHhh
Q 027204 134 LRSDIEKMRSELRYEIDKV 152 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl 152 (226)
+...+...++.|.+++.+.
T Consensus 6 vT~~L~rt~~~m~~ev~~s 24 (92)
T PF03908_consen 6 VTESLRRTRQMMAQEVERS 24 (92)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444445555555444
No 431
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=23.43 E-value=4.5e+02 Score=22.08 Aligned_cols=6 Identities=50% Similarity=0.467 Sum_probs=2.2
Q ss_pred HHHHHH
Q 027204 109 LSKFKS 114 (226)
Q Consensus 109 iseLR~ 114 (226)
+...|.
T Consensus 144 l~kkk~ 149 (236)
T PF09325_consen 144 LQKKKA 149 (236)
T ss_pred HHHHHH
Confidence 333333
No 432
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=23.41 E-value=4.3e+02 Score=21.90 Aligned_cols=6 Identities=33% Similarity=0.473 Sum_probs=2.2
Q ss_pred HHHHHH
Q 027204 191 ALRAHM 196 (226)
Q Consensus 191 ~LRteI 196 (226)
++|.++
T Consensus 142 ~l~~~i 147 (184)
T PRK13455 142 AVRDRA 147 (184)
T ss_pred HHHHHH
Confidence 333333
No 433
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=23.36 E-value=5e+02 Score=22.61 Aligned_cols=56 Identities=18% Similarity=0.303 Sum_probs=21.7
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 142 RSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 142 ~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIE 197 (226)
+......|......+.-+++.-..-+..+-.....+-..+-.++......+...|+
T Consensus 112 ~~~r~~~ie~~~~~l~~~l~~l~~~~~~Er~~R~erE~~i~krl~e~~~~l~~~i~ 167 (247)
T PF06705_consen 112 KEERPQDIEELNQELVRELNELQEAFENERNEREEREENILKRLEEEENRLQEKIE 167 (247)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333333333333333444444444444444444
No 434
>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=23.33 E-value=4.1e+02 Score=21.65 Aligned_cols=22 Identities=18% Similarity=0.498 Sum_probs=10.0
Q ss_pred hhHHHhHHHHHHHHHHHHHHHH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRS 143 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~ 143 (226)
.++..+..++..|+.++..|++
T Consensus 72 eel~~ld~ei~~L~~el~~l~~ 93 (169)
T PF07106_consen 72 EELAELDAEIKELREELAELKK 93 (169)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 435
>PF10845 DUF2576: Protein of unknown function (DUF2576); InterPro: IPR022556 The function of this viral family of proteins is unknown. The entry contains Orf5 from Autographa californica nuclear polyhedrosis virus (AcMNPV).
Probab=23.17 E-value=95 Score=20.92 Aligned_cols=18 Identities=22% Similarity=0.451 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 027204 131 TEKLRSDIEKMRSELRYE 148 (226)
Q Consensus 131 ~e~Lk~Eie~L~~~Lkee 148 (226)
.+++++|+..|+..+.+-
T Consensus 13 reqlrrelnsLR~~vhel 30 (48)
T PF10845_consen 13 REQLRRELNSLRRSVHEL 30 (48)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456777777777766543
No 436
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=23.12 E-value=1.6e+02 Score=20.91 Aligned_cols=30 Identities=30% Similarity=0.556 Sum_probs=23.1
Q ss_pred HHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 56 LVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 56 fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
+++.+. ..|++..++..+++++.+.+.+.|
T Consensus 5 l~~~ia~~~~~~~~~v~~vl~~~~~~i~~~L 35 (87)
T cd00591 5 LIEAIAEKTGLSKKDAEAAVDAFLDVITEAL 35 (87)
T ss_pred HHHHHHHHhCcCHHHHHHHHHHHHHHHHHHH
Confidence 455553 568999999999999988876654
No 437
>PF15082 DUF4549: Domain of unknown function (DUF4549)
Probab=23.02 E-value=1.1e+02 Score=25.26 Aligned_cols=24 Identities=21% Similarity=0.421 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 176 AETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 176 ~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
.+++.++..+..++.+|+.+||..
T Consensus 10 erv~~lEkeLa~~L~eLK~eiEE~ 33 (144)
T PF15082_consen 10 ERVQQLEKELAKELYELKNEIEEN 33 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 367788888889999999999863
No 438
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=22.98 E-value=4.2e+02 Score=21.61 Aligned_cols=28 Identities=18% Similarity=0.337 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHH
Q 027204 175 NAETTNLTNKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 175 ~~kI~e~~~Ki~~eIa~LRteIEs~K~d 202 (226)
..++.+....+..+|..|+++.++...+
T Consensus 83 ~~~LEe~ke~l~k~i~~les~~e~I~~~ 110 (131)
T KOG1760|consen 83 QDQLEEKKETLEKEIEELESELESISAR 110 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456667777777777777777765544
No 439
>PRK10753 transcriptional regulator HU subunit alpha; Provisional
Probab=22.98 E-value=2e+02 Score=21.36 Aligned_cols=32 Identities=22% Similarity=0.281 Sum_probs=25.2
Q ss_pred HHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhH
Q 027204 54 LQLVRGLE-AQGVPSKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 54 ~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l 85 (226)
..+++.+- +.|+|..+|+.+++++-+.+.+.+
T Consensus 4 ~eli~~ia~~~~~s~~~~~~~v~~~~~~i~~~L 36 (90)
T PRK10753 4 TQLIDVIADKAELSKTQAKAALESTLAAITESL 36 (90)
T ss_pred HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 35667764 568999999999999988887655
No 440
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=22.81 E-value=2.8e+02 Score=19.48 Aligned_cols=11 Identities=9% Similarity=-0.003 Sum_probs=4.7
Q ss_pred hHHHHHHHHHH
Q 027204 174 QNAETTNLTNK 184 (226)
Q Consensus 174 ~~~kI~e~~~K 184 (226)
.+.++.+.+.|
T Consensus 47 ~~~~l~es~~k 57 (72)
T cd00089 47 AEQMLRESKQK 57 (72)
T ss_pred HHHHHHHHHHH
Confidence 33444444444
No 441
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=22.79 E-value=5.3e+02 Score=22.71 Aligned_cols=6 Identities=50% Similarity=0.019 Sum_probs=2.3
Q ss_pred HHHHHH
Q 027204 68 KQAEAI 73 (226)
Q Consensus 68 ~QAeai 73 (226)
.||..-
T Consensus 98 ~qa~~d 103 (234)
T cd07664 98 DQAFAD 103 (234)
T ss_pred HHHHHh
Confidence 343333
No 442
>KOG1772 consensus Vacuolar H+-ATPase V1 sector, subunit G [Energy production and conversion]
Probab=22.71 E-value=3.9e+02 Score=21.14 Aligned_cols=34 Identities=18% Similarity=0.301 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 027204 179 TNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLV 212 (226)
Q Consensus 179 ~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~ 212 (226)
.+++...+..|++|++.....+-+++.-++.+|.
T Consensus 71 ~~~e~~t~~ki~~lk~~~~k~~~~Vv~~LL~~V~ 104 (108)
T KOG1772|consen 71 KRLEQETDDKIAGLKTSAQKNSDDVVDMLLKYVC 104 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhc
Confidence 3455566777889999999999888888777664
No 443
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=22.70 E-value=1.2e+02 Score=20.87 Aligned_cols=34 Identities=29% Similarity=0.357 Sum_probs=20.6
Q ss_pred HHHhhC-CCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHH
Q 027204 58 RGLEAQ-GVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQK 100 (226)
Q Consensus 58 k~Le~a-Gft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~ 100 (226)
..|+.- |+++.+|+.|++.=... +.+-+.+||..
T Consensus 14 ~eL~~lpgi~~~~A~~Iv~~R~~~---------G~f~s~~dL~~ 48 (65)
T PF12836_consen 14 EELQALPGIGPKQAKAIVEYREKN---------GPFKSLEDLKE 48 (65)
T ss_dssp HHHHTSTT--HHHHHHHHHHHHHH----------S-SSGGGGGG
T ss_pred HHHHHcCCCCHHHHHHHHHHHHhC---------cCCCCHHHHhh
Confidence 446555 99999999999874332 46667777654
No 444
>KOG3304 consensus Surfeit family protein 5 [General function prediction only]
Probab=22.68 E-value=4.4e+02 Score=21.76 Aligned_cols=19 Identities=21% Similarity=0.349 Sum_probs=8.1
Q ss_pred hHHHHHHHHHHHHHHHhhH
Q 027204 67 SKQAEAITAAITEVLNDSL 85 (226)
Q Consensus 67 ~~QAeai~~al~~~l~~~l 85 (226)
+.-++++..-...-+.+++
T Consensus 14 ~ask~al~k~~~~Rl~ddI 32 (148)
T KOG3304|consen 14 PASKEALLKSYNKRLKDDI 32 (148)
T ss_pred HHHHHHHHHHHHHHHHHhH
Confidence 3444444444444333333
No 445
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=22.63 E-value=1.3e+03 Score=27.11 Aligned_cols=130 Identities=18% Similarity=0.275 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHH
Q 027204 68 KQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRY 147 (226)
Q Consensus 68 ~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lke 147 (226)
.++...-.-+...+.+--......--.+.++|...-.+..++..++..+.. .+...+.+..+..+...|+..+..++.+
T Consensus 1009 ~~l~k~~~kle~~l~~le~~le~e~~~r~e~Ek~~rkle~el~~~~e~~~~-~~~~~~el~~~l~kke~El~~l~~k~e~ 1087 (1930)
T KOG0161|consen 1009 KSLNKAKAKLEQQLDDLEVTLEREKRIRMELEKAKRKLEGELKDLQESIEE-LKKQKEELDNQLKKKESELSQLQSKLED 1087 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhH
Q ss_pred H---HHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 027204 148 E---IDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDV 203 (226)
Q Consensus 148 e---I~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~ 203 (226)
+ ++++...++ ++-.++.++.++...-+. ..+|.+...++|..+++.++-++
T Consensus 1088 e~~~~~~l~k~i~-eL~~~i~el~e~le~er~----~r~K~ek~r~dL~~ele~l~~~L 1141 (1930)
T KOG0161|consen 1088 EQAEVAQLQKQIK-ELEARIKELEEELEAERA----SRAKAERQRRDLSEELEELKEEL 1141 (1930)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHH
No 446
>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=22.59 E-value=1.1e+02 Score=25.81 Aligned_cols=15 Identities=13% Similarity=0.645 Sum_probs=1.4
Q ss_pred HHHHHHHHHHHHHHH
Q 027204 128 QRETEKLRSDIEKMR 142 (226)
Q Consensus 128 r~e~e~Lk~Eie~L~ 142 (226)
+-+..+|+.|+..|+
T Consensus 30 ~~~~QRLkDE~RDLK 44 (166)
T PF04880_consen 30 REEVQRLKDELRDLK 44 (166)
T ss_dssp HHCH-----------
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 447
>PRK12758 DNA topoisomerase IV subunit A; Provisional
Probab=22.43 E-value=9.7e+02 Score=25.60 Aligned_cols=18 Identities=33% Similarity=0.410 Sum_probs=9.0
Q ss_pred HHHHHHHHHHHHHHHHhH
Q 027204 183 NKLDREIHALRAHMEAAK 200 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K 200 (226)
.|+..|+..|+.+|+..+
T Consensus 428 ~k~~~e~~~l~~~i~~~~ 445 (869)
T PRK12758 428 DKADELIARLEAEIAEVK 445 (869)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344555555555555444
No 448
>KOG4673 consensus Transcription factor TMF, TATA element modulatory factor [Transcription]
Probab=22.40 E-value=9.3e+02 Score=25.39 Aligned_cols=16 Identities=19% Similarity=0.216 Sum_probs=8.6
Q ss_pred HHHHHhhhhhhhHHHH
Q 027204 85 LENVAHTFVSKGEMQK 100 (226)
Q Consensus 85 l~~~~~~lvTK~dle~ 100 (226)
.+++...+.-|.+.|.
T Consensus 504 ~~~lk~il~~Kee~Ek 519 (961)
T KOG4673|consen 504 ENKLKSILRDKEETEK 519 (961)
T ss_pred HHHHHHHhhhHHHHHH
Confidence 3455555555655544
No 449
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=22.34 E-value=3.9e+02 Score=20.95 Aligned_cols=44 Identities=16% Similarity=0.383 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHH
Q 027204 136 SDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLD 186 (226)
Q Consensus 136 ~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~ 186 (226)
...+++.+.+.+.+.++-+ ++++ -.++++..++.+|.++..++.
T Consensus 70 ~~~~~le~~~~~~v~~~L~--~lg~-----~tk~ev~~L~~RI~~Le~~l~ 113 (118)
T TIGR01837 70 RNWDKLEKAFDERVEQALN--RLNI-----PSREEIEALSAKIEQLAVQVE 113 (118)
T ss_pred hhHHHHHHHHHHHHHHHHH--HcCC-----CCHHHHHHHHHHHHHHHHHHH
Confidence 3345666667777776655 2333 247777777777777666654
No 450
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=22.33 E-value=7.7e+02 Score=24.40 Aligned_cols=17 Identities=6% Similarity=0.155 Sum_probs=9.1
Q ss_pred hHHHHHHHHHHHHHHHH
Q 027204 96 GEMQKTEMIQEANLSKF 112 (226)
Q Consensus 96 ~dle~~~y~~ka~iseL 112 (226)
+++++....+...+.++
T Consensus 347 sqlen~k~~~e~~~~e~ 363 (493)
T KOG0804|consen 347 SQLENQKQYYELLITEA 363 (493)
T ss_pred HHHHhHHHHHHHHHHHH
Confidence 56666655554444443
No 451
>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=22.32 E-value=5.1e+02 Score=22.35 Aligned_cols=21 Identities=14% Similarity=0.203 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHH
Q 027204 182 TNKLDREIHALRAHMEAAKYD 202 (226)
Q Consensus 182 ~~Ki~~eIa~LRteIEs~K~d 202 (226)
|..|...+..|+.+|+..|-.
T Consensus 191 n~eie~a~~~Le~ei~~l~~~ 211 (221)
T PF05700_consen 191 NLEIEVACEELEQEIEQLKRK 211 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555556777777776654
No 452
>TIGR02977 phageshock_pspA phage shock protein A. Members of this family are the phage shock protein PspA, from the phage shock operon. This is a narrower family than the set of PspA and its homologs, sometimes several in a genome, as described by PFAM model pfam04012. PspA appears to maintain the protonmotive force under stress conditions that include overexpression of certain phage secretins, heat shock, ethanol, and protein export defects.
Probab=22.31 E-value=5e+02 Score=22.26 Aligned_cols=128 Identities=13% Similarity=0.194 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhHHHHHhhhhhhh-HHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 73 ITAAITEVLNDSLENVAHTFVSKG-EMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDK 151 (226)
Q Consensus 73 i~~al~~~l~~~l~~~~~~lvTK~-dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~k 151 (226)
|..=+..++..++..+...+.... -++...-..+.++.++|..+...- ..-..+..+.+..+..+++...+-..-+.+
T Consensus 3 if~Rl~~iv~a~~n~~~dk~EDP~~~l~q~irem~~~l~~ar~~lA~~~-a~~k~~e~~~~~~~~~~~~~~~~A~~Al~~ 81 (219)
T TIGR02977 3 IFSRFADIVNSNLNALLDKAEDPEKMIRLIIQEMEDTLVEVRTTSARTI-ADKKELERRVSRLEAQVADWQEKAELALSK 81 (219)
T ss_pred HHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_pred hhhhhhhhhhhhhhhhHHHHHhhHHHHHHHH---HHHHHHHHHHHHHHHHhHH
Q 027204 152 VTAGQRLDLNLERGRIRDELANQNAETTNLT---NKLDREIHALRAHMEAAKY 201 (226)
Q Consensus 152 l~ae~klDlNleK~r~ree~~~~~~kI~e~~---~Ki~~eIa~LRteIEs~K~ 201 (226)
=+.++=-..=.+|....+....++..+.... .++...+..|+..|+.+|.
T Consensus 82 G~EdLAr~Al~~k~~~~~~~~~l~~~~~~~~~~v~~l~~~l~~L~~ki~~~k~ 134 (219)
T TIGR02977 82 GREDLARAALIEKQKAQELAEALERELAAVEETLAKLQEDIAKLQAKLAEARA 134 (219)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 453
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=22.08 E-value=2.5e+02 Score=21.97 Aligned_cols=45 Identities=29% Similarity=0.402 Sum_probs=0.0
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHH---HHHHHHhhhhhhhhhhhhhhhhhH
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSE---LRYEIDKVTAGQRLDLNLERGRIR 168 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~---LkeeI~kl~ae~klDlNleK~r~r 168 (226)
.....+..+.++.+.+++.|.++ |+.+|.+++.+ .|+=.|+.|..
T Consensus 50 ~~~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg--~~~i~e~AR~~ 97 (117)
T COG2919 50 ADVLQLQRQIAAQQAELEKLSARNTALEAEIKDLKDG--RDYIEERARSE 97 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc--HHHHHHHHHHH
No 454
>PF15294 Leu_zip: Leucine zipper
Probab=22.07 E-value=6.2e+02 Score=23.22 Aligned_cols=136 Identities=16% Similarity=0.221 Sum_probs=0.0
Q ss_pred CChHHHHHHHHHHHHHHHh-hHHHHHhhhhhhhHHHHHHHHHHHHHH-HHHHHHHhhhhhhHHHhHHHHH-------HHH
Q 027204 65 VPSKQAEAITAAITEVLND-SLENVAHTFVSKGEMQKTEMIQEANLS-KFKSEVQSSQEHHFSMLQRETE-------KLR 135 (226)
Q Consensus 65 ft~~QAeai~~al~~~l~~-~l~~~~~~lvTK~dle~~~y~~ka~is-eLR~El~~~~k~e~~~lr~e~e-------~Lk 135 (226)
|....=.--...|..-+.+ .-++++.+..|-.++.+.--.....+. ++++|+++....-..-+|.-.. +|+
T Consensus 1 F~r~kr~~~Lk~Vds~F~Dlk~srL~e~t~T~~EV~~~ldgL~~~v~~~vesEL~N~~htn~lllrql~~qAek~~lkl~ 80 (278)
T PF15294_consen 1 FARSKREQHLKEVDSCFQDLKSSRLREDTYTSDEVTEMLDGLQVVVKSEVESELINTSHTNVLLLRQLFSQAEKWYLKLQ 80 (278)
T ss_pred CchhHHHHHHHHHHHhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHHHHHHHHHHHHHhc
Q ss_pred HHHHHHHHH-HHHHHHhh-------------------hhhhhhh-----hhhhhhhhHHHHHhhHHHHHHHH--------
Q 027204 136 SDIEKMRSE-LRYEIDKV-------------------TAGQRLD-----LNLERGRIRDELANQNAETTNLT-------- 182 (226)
Q Consensus 136 ~Eie~L~~~-LkeeI~kl-------------------~ae~klD-----lNleK~r~ree~~~~~~kI~e~~-------- 182 (226)
.||..|.++ |-++|.+. ..-+.-. +|.|+.|.++|-..+..++..++
T Consensus 81 ~diselEn~eLLe~i~~~E~~~~~~~~~~~~~~~~~KL~pl~e~g~~~ll~kEi~rLq~EN~kLk~rl~~le~~at~~l~ 160 (278)
T PF15294_consen 81 TDISELENRELLEQIAEFEKQEFTSSFKPNQETSKPKLEPLNESGGSELLNKEIDRLQEENEKLKERLKSLEKQATSALD 160 (278)
T ss_pred ccHHHHHHHHHHHHHHHHHHhhhcccCCccccccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred --HHHHHHHHHHHHHHHHhH
Q 027204 183 --NKLDREIHALRAHMEAAK 200 (226)
Q Consensus 183 --~Ki~~eIa~LRteIEs~K 200 (226)
.++...+.+|+......|
T Consensus 161 Ek~kl~~~L~~lq~~~~~~~ 180 (278)
T PF15294_consen 161 EKSKLEAQLKELQDEQGDQK 180 (278)
T ss_pred HHHHHHHHHHHHHHHHHhhh
No 455
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.01 E-value=5.6e+02 Score=22.72 Aligned_cols=122 Identities=11% Similarity=0.174 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHH-----HHHHHHHHhhhhhh----HHHhHHHHHHHHHHHHHHHHHHHH------HHHhhhhhhhhh
Q 027204 95 KGEMQKTEMIQEANL-----SKFKSEVQSSQEHH----FSMLQRETEKLRSDIEKMRSELRY------EIDKVTAGQRLD 159 (226)
Q Consensus 95 K~dle~~~y~~ka~i-----seLR~El~~~~k~e----~~~lr~e~e~Lk~Eie~L~~~Lke------eI~kl~ae~klD 159 (226)
|+|+.+..-.++... ..=|.|+......| .+..|+..=.--.-++.-.+++++ |...+=+++=-|
T Consensus 78 ksdl~~l~~e~k~~~~~~~~~~~rde~~~~~~add~~~~~dQR~rLl~nTerLeRst~rl~ds~Ria~ETEqIG~~IL~d 157 (220)
T KOG1666|consen 78 KSDLKKLKRELKRTTSRNLNAGDRDELLEALEADDQNISADQRARLLQNTERLERSTDRLKDSQRIALETEQIGSEILED 157 (220)
T ss_pred HHHHHHHHHHHHHhhccccccchHHHHHhhhhccccccchhHHHHHHhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 160 LNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIV 222 (226)
Q Consensus 160 lNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~ 222 (226)
+ ..-|+.+..-...+.+++.-+....--|++. .-+.-.-||.++.++.+..++++++
T Consensus 158 L----~~QRe~L~rar~rL~~td~~lgkS~kiL~tM--~RR~~~nk~~~~aii~~l~~~il~i 214 (220)
T KOG1666|consen 158 L----HGQREQLERARERLRETDANLGKSRKILTTM--TRRLIRNKFTLTAIIALLVLAILLI 214 (220)
T ss_pred H----HHHHHHHHHHHHHHHhchhhhhHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
No 456
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=21.82 E-value=5.1e+02 Score=22.17 Aligned_cols=98 Identities=6% Similarity=0.072 Sum_probs=0.0
Q ss_pred hhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 120 QEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 120 ~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
|+..+..--.+-+..+.+.+.+..+.+..+.+.+.+.+--++.-+.+.......... +.+.+.+..+..-+.+|+.-
T Consensus 80 R~~~I~~~L~~Ae~~~~eA~~~l~e~e~~L~~A~~eA~~Ii~~A~~eAe~~~e~i~~---~A~~eae~ii~~A~~~Ie~E 156 (205)
T PRK06231 80 RKELIEAEINQANELKQQAQQLLENAKQRHENALAQAKEIIDQANYEALQLKSELEK---EANRQANLIIFQARQEIEKE 156 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 027204 200 KYDVIKYCIGTLVSISAVGLA 220 (226)
Q Consensus 200 K~d~lrwliG~v~~~~al~la 220 (226)
|-....-+-+=+..+..-+..
T Consensus 157 k~~a~~~Lk~ei~~lAv~iA~ 177 (205)
T PRK06231 157 RRELKEQLQKESVELAMLAAE 177 (205)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
No 457
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=21.76 E-value=2.3e+02 Score=29.71 Aligned_cols=60 Identities=27% Similarity=0.416 Sum_probs=0.0
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHH--HHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYE--IDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDR 187 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~Lkee--I~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~ 187 (226)
..|...|.++.++++.++++++.+|..+ +++.-.++.-.- ++...+.+.++..+...+..
T Consensus 810 ~~e~~rL~K~l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e-------~~kl~~~~~~~~~l~~~l~~ 871 (874)
T PRK05729 810 EAELARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKE-------REKLAEYEEKLAKLKERLAR 871 (874)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHH-------HHHHHHHHHHHHHHHHHHHH
No 458
>PF07553 Lipoprotein_Ltp: Host cell surface-exposed lipoprotein; InterPro: IPR011434 This domain is found as 1-3 copies in a small family of proteins of unknown function.
Probab=21.75 E-value=1e+02 Score=20.74 Aligned_cols=22 Identities=18% Similarity=0.305 Sum_probs=0.0
Q ss_pred eccHHHHHHHHhhC---CCChHHHH
Q 027204 50 LVDTLQLVRGLEAQ---GVPSKQAE 71 (226)
Q Consensus 50 ~FDT~~fvk~Le~a---Gft~~QAe 71 (226)
+|---.++.+|... |||+++|.
T Consensus 18 ~~Sk~~l~~QL~se~ge~Ft~e~A~ 42 (48)
T PF07553_consen 18 HMSKQGLYDQLTSEYGEGFTEEEAQ 42 (48)
T ss_pred cCCHHHHHHHHHhhcccCCCHHHHH
No 459
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=21.65 E-value=3.7e+02 Score=20.43 Aligned_cols=48 Identities=13% Similarity=0.110 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 178 TTNLTNKLDREIHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225 (226)
Q Consensus 178 I~e~~~Ki~~eIa~LRteIEs~K~d~lrwliG~v~~~~al~la~~rl~ 225 (226)
.++..+=+..++.-.+.|++..+....+-++.++.+.+..++|++-++
T Consensus 9 ~~~~~~lv~~~i~La~~E~~~~~~~~~~~~~~~~~a~vl~~~~l~~l~ 56 (121)
T PF07332_consen 9 VDDLSTLVRTRIELAKAELREKARRLGRGLALLVLAAVLALLALLFLL 56 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 460
>PHA02682 ORF080 virion core protein; Provisional
Probab=21.64 E-value=2.8e+02 Score=24.60 Aligned_cols=48 Identities=21% Similarity=0.327 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 142 RSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHME 197 (226)
Q Consensus 142 ~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIE 197 (226)
+.-++.|+..+-..+| |+| .|...+-.+|++-.+--..-|.+||.-++
T Consensus 210 k~~ikkeladiadsvr-dl~-------aeS~~LtrDIE~AKstTq~AIdDLRrLl~ 257 (280)
T PHA02682 210 KDLIKKELADIADSVR-DLN-------AESLSLTRDIENAKSTTQAAIDDLRRLLT 257 (280)
T ss_pred HHHHHHHHHHHHHHHH-hhh-------hhhhhhHHHHHHHHhhHHHHHHHHHHHHh
No 461
>KOG4657 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.58 E-value=6e+02 Score=22.86 Aligned_cols=95 Identities=8% Similarity=0.186 Sum_probs=0.0
Q ss_pred HHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhh
Q 027204 86 ENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERG 165 (226)
Q Consensus 86 ~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~ 165 (226)
.++.....++.++.+...-+.+-|+..|..+- ++.-.-+| .+..-+.|.+.|.+.|.+--+.+
T Consensus 12 t~l~l~d~~~~~i~n~~s~~D~f~q~~r~~~~---nS~~efar-~lS~~~~e~e~l~~~l~etene~------------- 74 (246)
T KOG4657|consen 12 TMLSLGDICEKDIHNQRSKIDSFIQSPRRRSM---NSLVEFAR-ALSQSQVELENLKADLRETENEL------------- 74 (246)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH-------------
Q ss_pred hhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 027204 166 RIRDELANQNAETTNLTNKLDREIHALRAHMEAAK 200 (226)
Q Consensus 166 r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K 200 (226)
.....+-.+=.+...+|..+|.+++.++|.+.
T Consensus 75 ---~~~neL~~ek~~~q~~ieqeik~~q~elEvl~ 106 (246)
T KOG4657|consen 75 ---VKVNELKTEKEARQMGIEQEIKATQSELEVLR 106 (246)
T ss_pred ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 462
>PRK01919 tatB sec-independent translocase; Provisional
Probab=21.43 E-value=5.2e+02 Score=22.05 Aligned_cols=65 Identities=11% Similarity=0.206 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 133 KLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 133 ~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
.+-+.+-++=.+++.-++.+++++.-++ +-.+++......+....++.+.|..++.++..++...
T Consensus 27 ~~aRtlGk~i~k~Rr~~~d~K~ev~~E~--e~dElrk~~~~~e~~~~~v~~si~~~~~~~~~~~~~~ 91 (169)
T PRK01919 27 RVARTAGALFGRAQRYINDVKAEVSREI--ELDELRKMKTDFESAARDVENTIHDNLSEHESDLNDA 91 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
No 463
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=21.42 E-value=1.6e+02 Score=19.28 Aligned_cols=19 Identities=26% Similarity=0.548 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 027204 206 YCIGTLVSISAVGLAIVRI 224 (226)
Q Consensus 206 wliG~v~~~~al~la~~rl 224 (226)
|++|++.+..++.+--+-|
T Consensus 11 WlVgtv~G~~vi~lvglFf 29 (40)
T PF01788_consen 11 WLVGTVAGIAVIGLVGLFF 29 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHhe
No 464
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=21.30 E-value=7.8e+02 Score=24.07 Aligned_cols=135 Identities=19% Similarity=0.245 Sum_probs=0.0
Q ss_pred HHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHH---HHHHHHHHHHHHhhhhhhHHHhHHHHHHH
Q 027204 58 RGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQ---EANLSKFKSEVQSSQEHHFSMLQRETEKL 134 (226)
Q Consensus 58 k~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~---ka~iseLR~El~~~~k~e~~~lr~e~e~L 134 (226)
..|.=-|+.|.|--.|+.++...+-+.-.-..--+++|. +..-.++. ..++..+|+|+...+ .+-...++|.++.
T Consensus 30 arLrlF~LRPkqTAvlvtvltG~liSA~tLailf~~~~~-lr~gVfqlddi~~qlr~~rtel~~a~-~~k~~~e~er~~~ 107 (499)
T COG4372 30 ARLRLFGLRPKQTAVLVTVLTGMLISAATLAILFLLNRN-LRSGVFQLDDIRPQLRALRTELGTAQ-GEKRAAETEREAA 107 (499)
T ss_pred HHHhHhccCcccceeehhhhhcchhhHHHHHHHHHhhhh-HHhhhhhHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 135 RSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 135 k~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
+.|+.+.+++ ++-...-.+ ..|-++...-.++...-.+.+++..++.+-...-+.-++..
T Consensus 108 ~~El~~~r~e-~~~v~~~~~----~a~~n~~kAqQ~lar~t~Q~q~lqtrl~~l~~qr~ql~aq~ 167 (499)
T COG4372 108 RSELQKARQE-REAVRQELA----AARQNLAKAQQELARLTKQAQDLQTRLKTLAEQRRQLEAQA 167 (499)
T ss_pred HHHHHHHHHH-HHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 465
>KOG3647 consensus Predicted coiled-coil protein [General function prediction only]
Probab=21.27 E-value=3.7e+02 Score=24.89 Aligned_cols=49 Identities=20% Similarity=0.375 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh------hhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 97 EMQKTEMIQEANLSKFKSEVQSSQ------EHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 97 dle~~~y~~ka~iseLR~El~~~~------k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
++-..+--.+++|..+-.+++.++ .++-++|-+.+++-++|++.++++|
T Consensus 102 el~e~Ekvlk~aIq~i~~~~q~~~~~Lnnvasdea~L~~Kierrk~ElEr~rkRl 156 (338)
T KOG3647|consen 102 ELLEVEKVLKSAIQAIQVRLQSSRAQLNNVASDEAALGSKIERRKAELERTRKRL 156 (338)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHH
No 466
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=21.26 E-value=5.6e+02 Score=22.37 Aligned_cols=100 Identities=16% Similarity=0.278 Sum_probs=0.0
Q ss_pred hhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHH-------------
Q 027204 122 HHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDRE------------- 188 (226)
Q Consensus 122 ~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~e------------- 188 (226)
.++..+.+..+.++.+.++|..-|. ..-+-+--+++..+-++++.++..++.+++.++++++-.
T Consensus 132 ~~y~D~~arl~~l~~~~~rl~~ll~---ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v~~sti~i~l~~~~~~~ 208 (262)
T PF14257_consen 132 EQYVDLEARLKNLEAEEERLLELLE---KAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDDRVDYSTITISLYEPESIK 208 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---hcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhceEEEEEEEEecCCCC
Q ss_pred ------HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 189 ------IHALRAHMEAAKYDVIKYCIGTLVSISAVGLAIVRIL 225 (226)
Q Consensus 189 ------Ia~LRteIEs~K~d~lrwliG~v~~~~al~la~~rl~ 225 (226)
-..++.-+... |..+..++..++.+++.++-++=++
T Consensus 209 ~~~~~~~~~~~~al~~~-~~~~~~~~~~lv~~l~~l~p~~~~~ 250 (262)
T PF14257_consen 209 PESPSFGSRFRDALKNG-WNALVSFLSGLVVFLVGLLPWLPLI 250 (262)
T ss_pred CCCCCcchHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
No 467
>cd04755 Commd7 COMM_Domain containing protein 7. The COMM Domain is found at the C-terminus of a variety of proteins; presumably all COMM_Domain containing proteins are located in the nucleus and the COMM domain plays a role in protein-protein interactions. Several family members have been shown to bind and inhibit NF-kappaB.
Probab=21.21 E-value=2.5e+02 Score=24.02 Aligned_cols=46 Identities=11% Similarity=0.042 Sum_probs=0.0
Q ss_pred eeccHHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhh
Q 027204 49 FLVDTLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVS 94 (226)
Q Consensus 49 ~~FDT~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvT 94 (226)
|..|.-.+...|+.-|+|++.|+++.....+-...-.....+....
T Consensus 67 ~nv~~~~L~~eL~~lgL~~eka~~~~~~w~~~~~~L~~~~~~~tL~ 112 (180)
T cd04755 67 RNLTAEQLREDLIQLGLSEEKASYFSEQWKQHYSTLSRSAVGQTLM 112 (180)
T ss_pred cCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHhHHHHHHHHHHcccC
No 468
>PRK10780 periplasmic chaperone; Provisional
Probab=21.16 E-value=4.6e+02 Score=21.39 Aligned_cols=76 Identities=11% Similarity=0.184 Sum_probs=0.0
Q ss_pred hhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Q 027204 121 EHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHM 196 (226)
Q Consensus 121 k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteI 196 (226)
+.-...|.++....+.+++.+..++.....++..+...-=..++.....++......++.....+..++..-..+.
T Consensus 42 k~~~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~~~~~~~~el~~~~~~~q~~~~~~qq~~~~~~~e~ 117 (165)
T PRK10780 42 TGVSKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGSDRTKLEKDVMAQRQTFSQKAQAFEQDRRRRSNEE 117 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 469
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=21.11 E-value=4e+02 Score=21.21 Aligned_cols=42 Identities=26% Similarity=0.352 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 96 GEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 96 ~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
.++++.....-++++.||.-+ ..+=.|+..|+-|-++||.+|
T Consensus 11 ~~le~~l~~l~~el~~lK~~l--------~~lvEEN~~L~lENe~LR~RL 52 (114)
T COG4467 11 DNLEEQLGVLLAELGGLKQHL--------GSLVEENTALRLENEKLRERL 52 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--------HHHHHhhHHHHhhHHHHHHHh
No 470
>PF06248 Zw10: Centromere/kinetochore Zw10; InterPro: IPR009361 Zeste white 10 (ZW10) was initially identified as a mitotic checkpoint protein involved in chromosome segregation, and then implicated in targeting cytoplasmic dynein and dynactin to mitotic kinetochores, but it is also important in non-dividing cells. These include cytoplasmic dynein targeting to Golgi and other membranes, and SNARE-mediated ER-Golgi trafficking [, ]. Dominant-negative ZW10, anti-ZW10 antibody, and ZW10 RNA interference (RNAi) cause Golgi dispersal. ZW10 RNAi also disperse endosomes and lysosomes []. Drosophila kinetochore components Rough deal (Rod) and Zw10 are required for the proper functioning of the metaphase checkpoint in flies []. The eukaryotic spindle assembly checkpoint (SAC) monitors microtubule attachment to kinetochores and prevents anaphase onset until all kinetochores are aligned on the metaphase plate. It is an essential surveillance mechanism that ensures high fidelity chromosome segregation during mitosis. In higher eukaryotes, cytoplasmic dynein is involved in silencing the SAC by removing the checkpoint proteins Mad2 and the Rod-Zw10-Zwilch complex (RZZ) from aligned kinetochores [, , ].; GO: 0007067 mitosis, 0000775 chromosome, centromeric region, 0005634 nucleus
Probab=20.92 E-value=8.2e+02 Score=24.19 Aligned_cols=104 Identities=14% Similarity=0.207 Sum_probs=0.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHH---hhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHh-hhhhhhhhhhhhhhhhH
Q 027204 93 VSKGEMQKTEMIQEANLSKFKSEVQ---SSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDK-VTAGQRLDLNLERGRIR 168 (226)
Q Consensus 93 vTK~dle~~~y~~ka~iseLR~El~---~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~k-l~ae~klDlNleK~r~r 168 (226)
++++|+....-.....+.+++.++. ...-.||...-.....|..+...+..++.+-.+. +..+++-++ ...-
T Consensus 7 l~~edl~~~I~~L~~~i~~~k~eV~~~I~~~y~df~~~~~~~~~L~~~~~~l~~eI~d~l~~~~~~~i~~~l----~~a~ 82 (593)
T PF06248_consen 7 LSKEDLRKSISRLSRRIEELKEEVHSMINKKYSDFSPSLQSAKDLIERSKSLAREINDLLQSEIENEIQPQL----RDAA 82 (593)
T ss_pred CCHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHhhccchhHHHH----HHHH
Q ss_pred HHHHhhHHHHHHHH--HHHHHHHHHHHHHHHHhH
Q 027204 169 DELANQNAETTNLT--NKLDREIHALRAHMEAAK 200 (226)
Q Consensus 169 ee~~~~~~kI~e~~--~Ki~~eIa~LRteIEs~K 200 (226)
++.+.+..++++.. ..+-..+..+...+++.+
T Consensus 83 ~e~~~L~~eL~~~~~~l~~L~~L~~i~~~l~~~~ 116 (593)
T PF06248_consen 83 EELQELKRELEENEQLLEVLEQLQEIDELLEEVE 116 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 471
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.64 E-value=2.6e+02 Score=21.59 Aligned_cols=52 Identities=15% Similarity=0.180 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 103 MIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAG 155 (226)
Q Consensus 103 y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae 155 (226)
.+++..+++++.++..++ .+-..|+.+.+.|+.+-+-++..-|+++.=++.+
T Consensus 30 ~~l~~q~~~~~~e~~~l~-~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~g 81 (105)
T PRK00888 30 WRVNDQVAAQQQTNAKLK-ARNDQLFAEIDDLKGGQEAIEERARNELGMVKPG 81 (105)
T ss_pred HHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCC
No 472
>PF00846 Hanta_nucleocap: Hantavirus nucleocapsid protein; InterPro: IPR002214 Hantaviruses are ssRNA negative-strand viruses. The nucleocapsid protein is an internal protein of the virus particle [, ].; GO: 0019013 viral nucleocapsid; PDB: 2IC9_A 2IC6_A 2K48_A 4FI5_A.
Probab=20.57 E-value=7.9e+02 Score=23.87 Aligned_cols=71 Identities=10% Similarity=0.204 Sum_probs=0.0
Q ss_pred HHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHH
Q 027204 74 TAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSE 144 (226)
Q Consensus 74 ~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~ 144 (226)
|.-+.++..+-..+..+-...+..+..++-++..|=.++-+.--..++.+.+.++.....|++.+...-+.
T Consensus 1 m~~~~elq~e~~~~E~qL~~a~qkl~da~~~~e~dpD~~nk~~~~~R~~~v~~~~~Ki~elkr~lAd~v~~ 71 (428)
T PF00846_consen 1 MSTLEELQEEITQHEQQLVIARQKLKDAEKQYEKDPDDVNKSTLQQRQSVVSALQDKIAELKRQLADRVAA 71 (428)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
No 473
>KOG0161 consensus Myosin class II heavy chain [Cytoskeleton]
Probab=20.46 E-value=1.4e+03 Score=26.78 Aligned_cols=150 Identities=12% Similarity=0.192 Sum_probs=0.0
Q ss_pred HHHHHHHHhhCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHH------hhhhhhHHH
Q 027204 53 TLQLVRGLEAQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQ------SSQEHHFSM 126 (226)
Q Consensus 53 T~~fvk~Le~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~------~~~k~e~~~ 126 (226)
+.++.-.|...+-+-.......+-+...+...-..+..-..--.|......++...+.+|-+.+. ..+++.-+.
T Consensus 1043 ~rkle~el~~~~e~~~~~~~~~~el~~~l~kke~El~~l~~k~e~e~~~~~~l~k~i~eL~~~i~el~e~le~er~~r~K 1122 (1930)
T KOG0161|consen 1043 KRKLEGELKDLQESIEELKKQKEELDNQLKKKESELSQLQSKLEDEQAEVAQLQKQIKELEARIKELEEELEAERASRAK 1122 (1930)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhhhhhh------hhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHhH
Q 027204 127 LQRETEKLRSDIEKMRSELRYEIDKVTAGQR------LDLNLERGRIRDELANQNAETTNLTNKLDREIHALRAHMEAAK 200 (226)
Q Consensus 127 lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~k------lDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~LRteIEs~K 200 (226)
+......|.++++.|+.+|.+......+-.. .++.-=+....++.-.++..+.++..+-...++.|...++..+
T Consensus 1123 ~ek~r~dL~~ele~l~~~Lee~~~~t~~q~e~~~k~e~e~~~l~~~leee~~~~e~~~~~lr~~~~~~~~el~~qle~l~ 1202 (1930)
T KOG0161|consen 1123 AERQRRDLSEELEELKEELEEQGGTTAAQLELNKKREAEVQKLRRDLEEETLDHEAQIEELRKKHADSLAELQEQLEQLQ 1202 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HH
Q 027204 201 YD 202 (226)
Q Consensus 201 ~d 202 (226)
-+
T Consensus 1203 ~~ 1204 (1930)
T KOG0161|consen 1203 KD 1204 (1930)
T ss_pred HH
No 474
>PRK12704 phosphodiesterase; Provisional
Probab=20.46 E-value=8.4e+02 Score=24.12 Aligned_cols=104 Identities=16% Similarity=0.205 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHH----HHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhH--
Q 027204 95 KGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKL----RSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIR-- 168 (226)
Q Consensus 95 K~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~L----k~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~r-- 168 (226)
+.+-+...-+-...-.+.+.+...-.+.++...|.+.++- +.++.+.+++|...-..+....+ +++.+..++.
T Consensus 37 e~eAe~I~keA~~eAke~~ke~~leaeeE~~~~R~Ele~e~~~~e~~L~qrE~rL~~Ree~Le~r~e-~Lekke~eL~~r 115 (520)
T PRK12704 37 EEEAKRILEEAKKEAEAIKKEALLEAKEEIHKLRNEFEKELRERRNELQKLEKRLLQKEENLDRKLE-LLEKREEELEKK 115 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Q ss_pred -HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHh
Q 027204 169 -DELANQNAETTNLTNKLDREIHALRAHMEAA 199 (226)
Q Consensus 169 -ee~~~~~~kI~e~~~Ki~~eIa~LRteIEs~ 199 (226)
.++..++.++.+...+++.-+.....++|..
T Consensus 116 e~~Le~re~eLe~~~~~~~~~~~~~~~~l~~~ 147 (520)
T PRK12704 116 EKELEQKQQELEKKEEELEELIEEQLQELERI 147 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 475
>PRK01156 chromosome segregation protein; Provisional
Probab=20.45 E-value=9.6e+02 Score=24.83 Aligned_cols=103 Identities=17% Similarity=0.275 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhh--hhhHHHhHHHHHHHHHHHHHHHHHH-------------HHHHHhhhhhhhhhhhhhhhhhHHH
Q 027204 106 EANLSKFKSEVQSSQ--EHHFSMLQRETEKLRSDIEKMRSEL-------------RYEIDKVTAGQRLDLNLERGRIRDE 170 (226)
Q Consensus 106 ka~iseLR~El~~~~--k~e~~~lr~e~e~Lk~Eie~L~~~L-------------keeI~kl~ae~klDlNleK~r~ree 170 (226)
+..+.+++.++..++ +.++...+.+.+.+..+++.++..+ .+++..+..+.. .++.+....+.+
T Consensus 618 ~~~~~~le~~~~~le~~~~~l~~~~~~i~~~~~~i~~l~~~i~~l~~~~~~~~~~~~~~~~~~~~~~-~l~~~l~~l~~~ 696 (895)
T PRK01156 618 DKSIREIENEANNLNNKYNEIQENKILIEKLRGKIDNYKKQIAEIDSIIPDLKEITSRINDIEDNLK-KSRKALDDAKAN 696 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhHHHHHHHHHHHH-HHHHHHHHHHHH
Q ss_pred HHhhHHHHHHHHHH---HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 027204 171 LANQNAETTNLTNK---LDREIHALRAHMEAAKYDVIKYCIGTL 211 (226)
Q Consensus 171 ~~~~~~kI~e~~~K---i~~eIa~LRteIEs~K~d~lrwliG~v 211 (226)
...++.++.++... +..++..++..++. .+.++..++.+
T Consensus 697 ~~~l~~~i~~l~~~~~~l~eel~~~~~~~~~--l~~~~~~~~~l 738 (895)
T PRK01156 697 RARLESTIEILRTRINELSDRINDINETLES--MKKIKKAIGDL 738 (895)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHH--HHHHHHHHHHH
No 476
>PLN02939 transferase, transferring glycosyl groups
Probab=20.43 E-value=1.1e+03 Score=25.53 Aligned_cols=144 Identities=17% Similarity=0.176 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHH------------------------HHHHHHhhhhh---
Q 027204 70 AEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSK------------------------FKSEVQSSQEH--- 122 (226)
Q Consensus 70 Aeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~ise------------------------LR~El~~~~k~--- 122 (226)
||.=.-.+..+=...++.+..-+.-|++++...--.+..+++ ||.|+....-.
T Consensus 140 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (977)
T PLN02939 140 AEKNILLLNQARLQALEDLEKILTEKEALQGKINILEMRLSETDARIKLAAQEKIHVEILEEQLEKLRNELLIRGATEGL 219 (977)
T ss_pred HHhhhHhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHhhhhhhhhhhhhhccccchhhHHHHHHHhhhhhcccccccc
Q ss_pred -------hHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHH-----
Q 027204 123 -------HFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIH----- 190 (226)
Q Consensus 123 -------e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa----- 190 (226)
|+..||.|+-.|+.|++-|++++-+--..-..-.++. .|-.-++.-+.+++.|+-..-+
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 (977)
T PLN02939 220 CVHSLSKELDVLKEENMLLKDDIQFLKAELIEVAETEERVFKLE---------KERSLLDASLRELESKFIVAQEDVSKL 290 (977)
T ss_pred ccccHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhhhHHHHHHH---------HHHHHHHHHHHHHHHHHHhhhhhhhhc
Q ss_pred -HHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Q 027204 191 -ALRAHMEAAKYDVIKYCIGTLVSISAVGLAIV 222 (226)
Q Consensus 191 -~LRteIEs~K~d~lrwliG~v~~~~al~la~~ 222 (226)
-|+.+-=--|.+.++-+.+...-.+--+..++
T Consensus 291 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 323 (977)
T PLN02939 291 SPLQYDCWWEKVENLQDLLDRATNQVEKAALVL 323 (977)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 477
>TIGR01144 ATP_synt_b ATP synthase, F0 subunit b. This model describes the F1/F0 ATP synthase b subunit in bacteria only. Scoring just below the trusted cutoff are the N-terminal domains of Mycobacterial b/delta fusion proteins and a subunit from an archaeon, Methanosarcina barkeri, in which the ATP synthase homolog differs in architecture and is not experimentally confirmed. This model helps resolve b from the related b' subunit. Within the family is an example from a sodium-translocating rather than proton-translocating ATP synthase.
Probab=20.42 E-value=4.3e+02 Score=20.77 Aligned_cols=100 Identities=15% Similarity=0.285 Sum_probs=0.0
Q ss_pred HHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q 027204 77 ITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQ 156 (226)
Q Consensus 77 l~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~ 156 (226)
+..++.+.-+.+.+++ .+.+....+-.....+....+...+..--..+..-...-....+....+.+.+...+....
T Consensus 20 i~~~l~~R~~~I~~~l---~~A~~~~~ea~~~~~e~~~~l~~A~~ea~~i~~~a~~~a~~~~~~~~~~a~~e~~~~~~~a 96 (147)
T TIGR01144 20 LAKAIETRQKKIADGL---ASAERAKKEAALAQKKAQVILKEAKDEAQEIIENANKRGSEILEEAKAEAREEREKIKAQA 96 (147)
T ss_pred HHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhhhhhhhhhhHHHHHhhHHHHH
Q 027204 157 RLDLNLERGRIRDELANQNAETT 179 (226)
Q Consensus 157 klDlNleK~r~ree~~~~~~kI~ 179 (226)
+-++..++.+...++...-..+.
T Consensus 97 ~~~i~~e~~~a~~~l~~~~~~lA 119 (147)
T TIGR01144 97 RAEIEAEKEQAREELRKQVADLS 119 (147)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
No 478
>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=20.37 E-value=2.4e+02 Score=19.83 Aligned_cols=27 Identities=19% Similarity=0.265 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 027204 183 NKLDREIHALRAHMEAAKYDVIKYCIG 209 (226)
Q Consensus 183 ~Ki~~eIa~LRteIEs~K~d~lrwliG 209 (226)
..++.-|+.|+.||+.++..+-+...+
T Consensus 24 ~EL~~RIa~L~aEI~R~~~~~~~K~a~ 50 (59)
T PF06698_consen 24 EELEERIALLEAEIARLEAAIAKKSAS 50 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
No 479
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=20.33 E-value=4.7e+02 Score=21.14 Aligned_cols=69 Identities=14% Similarity=0.262 Sum_probs=0.0
Q ss_pred HHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHH----HHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHH
Q 027204 111 KFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELR----YEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTN 183 (226)
Q Consensus 111 eLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~Lk----eeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~ 183 (226)
.+|.++..--.+..+.+..+..+|.-+..++-.+.+ +-+..++. -++.+|++..+....+..++.++..
T Consensus 16 ~~K~~l~~~l~~~i~~~d~el~QLefq~kr~~~e~~~~~~~~~~~i~~----q~~~e~~~r~e~k~~l~~ql~qv~~ 88 (131)
T PF11068_consen 16 KWKEELLQELQEQIQQLDQELQQLEFQGKRMIKEIKKQNAQQIQSIQQ----QFEQEKQERLEQKNQLLQQLEQVQK 88 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhc
No 480
>PF07246 Phlebovirus_NSM: Phlebovirus nonstructural protein NS-M; InterPro: IPR009879 This entry consists of several Phlebovirus nonstructural NS-M proteins, which represent the N-terminal region of the M polyprotein precursor. The function of this family is unknown.
Probab=20.24 E-value=5.7e+02 Score=23.30 Aligned_cols=121 Identities=13% Similarity=0.205 Sum_probs=0.0
Q ss_pred CCCcceeccHHHHHHHHh-hCCCChHHHHHHHHHHHHHHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 027204 44 NGKRAFLVDTLQLVRGLE-AQGVPSKQAEAITAAITEVLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQEH 122 (226)
Q Consensus 44 ~~~~~~~FDT~~fvk~Le-~aGft~~QAeai~~al~~~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k~ 122 (226)
|+...+-=||++++..|- .-|.+.-+.+.+.....+- ..+..+...+... ...-.-+..+++.++ +
T Consensus 116 pG~~IVDC~~~~~isdLgv~vg~g~v~~~~~~~~~~ek---------d~~i~~~~~~~e~---d~rnq~l~~~i~~l~-~ 182 (264)
T PF07246_consen 116 PGHNIVDCDTFKIISDLGVGVGDGRVDYEELKKEAEEK---------DQLIKEKTQEREN---DRRNQILSHEISNLT-N 182 (264)
T ss_pred CCCeeEecCCCCEeeecccccccccccHHHHHHHHHHH---------HHHHHHHhhchhh---hhHHHHHHHHHHHhh-h
Q ss_pred hHHHhHHH--HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHH
Q 027204 123 HFSMLQRE--TEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAET 178 (226)
Q Consensus 123 e~~~lr~e--~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI 178 (226)
++.+++.+ ..+=+++...+..++..+...++.+.+ .+..+-.+++++...+..++
T Consensus 183 ~l~~~~~~~~~~~~~~~~~~~~~e~~~r~~~lr~~~~-~l~~el~~aK~~~~~~~~~~ 239 (264)
T PF07246_consen 183 ELSNLRNDIDKFQEREDEKILHEELEARESGLRNESK-WLEHELSDAKEDMIRLRNDI 239 (264)
T ss_pred hHHHhhchhhhhhhhhhHHHHHHHHHHhHhhhHHHHH-HHHHHHHHHHHHHHHHHhcc
No 481
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=20.23 E-value=5.9e+02 Score=22.23 Aligned_cols=102 Identities=18% Similarity=0.183 Sum_probs=0.0
Q ss_pred HHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHHHHHHHHHHHHH
Q 027204 113 KSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNLTNKLDREIHAL 192 (226)
Q Consensus 113 R~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~~~Ki~~eIa~L 192 (226)
|.+-....-.+....+.+-+.++.+.+..-.+.+.+...+..+.+-+-..++.++.++... +....+..--..+
T Consensus 37 R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~l~~a~~ea~~i~~~A~~eA~~~~~~i~~~A~~------ea~~~~~~a~~~i 110 (246)
T TIGR03321 37 REKKIAGELADADTKKREAEQERREYEEKNEELDQQREVLLTKAKEEAQAERQRLLDEARE------EADEIREKWQEAL 110 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHH
Q ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHH
Q 027204 193 RAHMEAAKYDVIKYCIGTLVSISAVGLA 220 (226)
Q Consensus 193 RteIEs~K~d~lrwliG~v~~~~al~la 220 (226)
+.+.+....++-..++.+.+....-+++
T Consensus 111 e~E~~~a~~~l~~ei~~la~~~A~kil~ 138 (246)
T TIGR03321 111 RREQAALSDELRRRTGAEVFAIARKVLT 138 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 482
>PRK10780 periplasmic chaperone; Provisional
Probab=20.21 E-value=4.8e+02 Score=21.26 Aligned_cols=86 Identities=13% Similarity=0.224 Sum_probs=0.0
Q ss_pred HHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHH-HHHHHHHHHHHHH
Q 027204 114 SEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETT-NLTNKLDREIHAL 192 (226)
Q Consensus 114 ~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~-e~~~Ki~~eIa~L 192 (226)
.+.+..-..++...+.+.+.+..|+.++.+++..+-..+....+-+...+-.....++...-...+ ++..+-..+...+
T Consensus 42 k~~~~~le~~~~~~q~el~~~~~elq~~~~~~q~~~~~ms~~~~~~~~~el~~~~~~~q~~~~~~qq~~~~~~~e~~~~i 121 (165)
T PRK10780 42 TGVSKQLENEFKGRASELQRMETDLQAKMQKLQRDGSTMKGSDRTKLEKDVMAQRQTFSQKAQAFEQDRRRRSNEERNKI 121 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHh
Q 027204 193 RAHMEAA 199 (226)
Q Consensus 193 RteIEs~ 199 (226)
-..|...
T Consensus 122 ~~ki~~a 128 (165)
T PRK10780 122 LTRIQTA 128 (165)
T ss_pred HHHHHHH
No 483
>KOG2010 consensus Double stranded RNA binding protein [General function prediction only]
Probab=20.18 E-value=5.1e+02 Score=24.65 Aligned_cols=79 Identities=14% Similarity=0.244 Sum_probs=0.0
Q ss_pred HHHHHHHHHH-HHHhhHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHhhhh-------------hhHHHhHHHHHHHH
Q 027204 70 AEAITAAITE-VLNDSLENVAHTFVSKGEMQKTEMIQEANLSKFKSEVQSSQE-------------HHFSMLQRETEKLR 135 (226)
Q Consensus 70 Aeai~~al~~-~l~~~l~~~~~~lvTK~dle~~~y~~ka~iseLR~El~~~~k-------------~e~~~lr~e~e~Lk 135 (226)
+|+-..-+++ .+.+--++...-||+-++|+|....+.=...-||.+|.-.+. .||..+++-...|+
T Consensus 109 ~EAs~~e~~Dskv~EveekykkaMvsnaQLDNEKsnl~YqVDtLKD~LeE~eeqLaeS~Re~eek~kE~er~Kh~~s~Lq 188 (405)
T KOG2010|consen 109 PEASLSELRDSKVSEVEEKYKKAMVSNAQLDNEKNNLIYQVDTLKDVLEEQEEQLAESYRENEEKSKELERQKHMCSVLQ 188 (405)
T ss_pred hHHHHHHHhhhhhHHHHHHHHHHHHHHHhhcccccceeeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHH
Q 027204 136 SDIEKMRSELRYE 148 (226)
Q Consensus 136 ~Eie~L~~~Lkee 148 (226)
+..+.|++.|++.
T Consensus 189 ~~~~elKe~l~QR 201 (405)
T KOG2010|consen 189 HKMEELKEGLRQR 201 (405)
T ss_pred HHHHHHHHHHHHH
No 484
>PRK14475 F0F1 ATP synthase subunit B; Provisional
Probab=20.14 E-value=4.9e+02 Score=21.28 Aligned_cols=97 Identities=11% Similarity=0.130 Sum_probs=0.0
Q ss_pred HHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHH-HhhHHHHHHHHHHHHHHHH-
Q 027204 113 KSEVQSSQEHHFSMLQRETEKLRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDEL-ANQNAETTNLTNKLDREIH- 190 (226)
Q Consensus 113 R~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~-~~~~~kI~e~~~Ki~~eIa- 190 (226)
|.+-....-.+....+.+.+.+..+.+..-+..+.+-..+..+.+-+-..++.+.+++. ...+..+..-...|..+..
T Consensus 42 R~~~I~~~l~~Ae~~k~eAe~~~~~~e~~L~~A~~ea~~Ii~~A~~~a~~~~~~~~~~A~~ea~~~~~~A~~~I~~e~~~ 121 (167)
T PRK14475 42 YAAKIQAELDEAQRLREEAQALLADVKAEREEAERQAAAMLAAAKADARRMEAEAKEKLEEQIKRRAEMAERKIAQAEAQ 121 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred ---HHHHHHHHhHHHHHHHHHH
Q 027204 191 ---ALRAHMEAAKYDVIKYCIG 209 (226)
Q Consensus 191 ---~LRteIEs~K~d~lrwliG 209 (226)
+|+.++-.+=.+.-..+++
T Consensus 122 a~~el~~e~~~lAv~~A~kil~ 143 (167)
T PRK14475 122 AAADVKAAAVDLAAQAAETVLA 143 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
No 485
>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=20.07 E-value=2.3e+02 Score=21.65 Aligned_cols=47 Identities=17% Similarity=0.321 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHhhHHHHHHH
Q 027204 134 LRSDIEKMRSELRYEIDKVTAGQRLDLNLERGRIRDELANQNAETTNL 181 (226)
Q Consensus 134 Lk~Eie~L~~~LkeeI~kl~ae~klDlNleK~r~ree~~~~~~kI~e~ 181 (226)
++.+.+.+...|++.+..+...++ .++..+...+..+..+..+++++
T Consensus 61 v~~~~~e~~~~l~~r~e~ie~~i~-~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 61 VKTDKEEAIQELKEKKETLELRVK-TLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred heecHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
No 486
>PF02268 TFIIA_gamma_N: Transcription initiation factor IIA, gamma subunit, helical domain; InterPro: IPR015872 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the alpha-helical domain found at the N-terminal of the gamma subunit of transcription factor TFIIA.; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_D 1RM1_B 1YTF_D 1NH2_D.
Probab=20.05 E-value=2.6e+02 Score=18.95 Aligned_cols=30 Identities=17% Similarity=0.346 Sum_probs=0.0
Q ss_pred HHHHhhCC-CChHHHHHHHHHHHHHHHhhHH
Q 027204 57 VRGLEAQG-VPSKQAEAITAAITEVLNDSLE 86 (226)
Q Consensus 57 vk~Le~aG-ft~~QAeai~~al~~~l~~~l~ 86 (226)
...|-..| ++|+.|..++.-....+++.+.
T Consensus 19 LDeli~~~~I~p~La~kVL~~FDksi~~~L~ 49 (49)
T PF02268_consen 19 LDELIQEGKITPQLAMKVLEQFDKSINEALS 49 (49)
T ss_dssp HHHHHHTTSS-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHHHHHHHhC
No 487
>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=20.04 E-value=3.2e+02 Score=19.11 Aligned_cols=41 Identities=10% Similarity=0.252 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHhHHHHHHHHHHHHHHHHHH
Q 027204 104 IQEANLSKFKSEVQSSQEHHFSMLQRETEKLRSDIEKMRSEL 145 (226)
Q Consensus 104 ~~ka~iseLR~El~~~~k~e~~~lr~e~e~Lk~Eie~L~~~L 145 (226)
++..+++.|...+..+. +|+..+|.+....+.|-..-.++|
T Consensus 7 ~Ls~dVq~L~~kvdqLs-~dv~~lr~~v~~ak~EAaRAN~Rl 47 (56)
T PF04728_consen 7 QLSSDVQTLNSKVDQLS-SDVNALRADVQAAKEEAARANQRL 47 (56)
T ss_dssp HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Done!