Query 033431
Match_columns 119
No_of_seqs 21 out of 23
Neff 2.7
Searched_HMMs 46136
Date Fri Mar 29 13:48:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033431.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033431hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00888 ftsB cell division pr 93.9 0.31 6.7E-06 34.8 6.6 36 35-70 28-63 (105)
2 TIGR02209 ftsL_broad cell divi 92.5 0.87 1.9E-05 29.8 6.7 45 20-64 3-54 (85)
3 PF06305 DUF1049: Protein of u 90.8 0.51 1.1E-05 29.8 4.0 32 30-61 37-68 (68)
4 PF11853 DUF3373: Protein of u 90.5 0.31 6.8E-06 43.7 3.8 30 39-69 30-59 (489)
5 PF00170 bZIP_1: bZIP transcri 88.9 1.5 3.2E-05 28.0 5.1 36 38-73 23-58 (64)
6 TIGR02209 ftsL_broad cell divi 88.9 2.1 4.6E-05 28.0 5.9 24 39-62 36-59 (85)
7 PF04977 DivIC: Septum formati 88.0 1.1 2.4E-05 28.4 4.0 32 37-68 20-51 (80)
8 PF04999 FtsL: Cell division p 86.9 3 6.6E-05 28.2 5.9 46 16-61 10-62 (97)
9 PF10828 DUF2570: Protein of u 85.4 5.1 0.00011 28.4 6.7 38 20-57 4-41 (110)
10 PRK15396 murein lipoprotein; P 83.9 8.4 0.00018 26.9 7.0 54 15-70 1-54 (78)
11 PHA03162 hypothetical protein; 81.4 1.7 3.7E-05 33.6 3.1 30 35-64 7-36 (135)
12 smart00338 BRLZ basic region l 81.3 5.3 0.00012 25.4 4.9 36 39-74 24-59 (65)
13 PF04977 DivIC: Septum formati 78.3 4.5 9.8E-05 25.6 3.9 48 27-74 3-50 (80)
14 PF06005 DUF904: Protein of un 76.1 7.2 0.00016 26.6 4.6 32 40-71 24-62 (72)
15 COG2919 Septum formation initi 74.4 22 0.00048 25.5 7.0 44 40-92 56-99 (117)
16 PF01920 Prefoldin_2: Prefoldi 74.4 7.9 0.00017 25.6 4.4 34 40-73 68-101 (106)
17 PF04999 FtsL: Cell division p 74.3 24 0.00052 23.8 7.3 29 34-62 42-70 (97)
18 COG3159 Uncharacterized protei 74.1 5.6 0.00012 32.8 4.3 66 30-95 40-110 (218)
19 KOG4196 bZIP transcription fac 72.4 11 0.00023 29.4 5.1 43 35-77 71-117 (135)
20 PF10883 DUF2681: Protein of u 71.7 20 0.00043 25.6 6.1 46 25-70 14-59 (87)
21 PF14775 NYD-SP28_assoc: Sperm 69.8 6.8 0.00015 25.8 3.2 23 42-64 34-56 (60)
22 PF11382 DUF3186: Protein of u 69.6 18 0.0004 29.8 6.3 34 38-71 29-62 (308)
23 PF02183 HALZ: Homeobox associ 68.2 14 0.00031 23.1 4.3 29 42-70 13-41 (45)
24 PHA03155 hypothetical protein; 67.5 6.7 0.00015 29.7 3.1 23 42-64 9-31 (115)
25 PF07716 bZIP_2: Basic region 67.1 17 0.00036 22.6 4.4 31 39-69 23-53 (54)
26 PF06103 DUF948: Bacterial pro 66.7 35 0.00076 22.7 6.4 50 21-70 8-62 (90)
27 PF05812 Herpes_BLRF2: Herpesv 65.4 8.2 0.00018 29.1 3.2 23 42-64 4-26 (118)
28 PF07047 OPA3: Optic atrophy 3 65.3 22 0.00049 26.1 5.5 49 18-66 81-130 (134)
29 cd00632 Prefoldin_beta Prefold 65.2 43 0.00093 23.1 7.6 61 13-73 40-102 (105)
30 PRK15396 murein lipoprotein; P 63.8 22 0.00048 24.8 4.9 48 21-70 13-61 (78)
31 PF13801 Metal_resist: Heavy-m 63.2 28 0.00061 22.5 5.1 40 36-78 43-82 (125)
32 PF11932 DUF3450: Protein of u 63.1 38 0.00083 26.6 6.7 49 36-84 79-127 (251)
33 PF06156 DUF972: Protein of un 60.6 20 0.00044 25.9 4.4 28 41-68 29-56 (107)
34 PRK13169 DNA replication intia 60.3 20 0.00043 26.4 4.4 28 40-67 28-55 (110)
35 PF15397 DUF4618: Domain of un 60.0 13 0.00029 31.0 3.8 37 38-74 197-233 (258)
36 COG4839 FtsL Protein required 58.0 33 0.00072 26.1 5.3 50 16-65 35-91 (120)
37 PF09307 MHC2-interact: CLIP, 57.6 3.4 7.4E-05 30.9 0.0 38 19-56 38-75 (114)
38 COG2919 Septum formation initi 55.9 73 0.0016 22.9 6.6 47 23-69 32-78 (117)
39 COG4839 FtsL Protein required 55.8 83 0.0018 24.0 7.1 16 37-52 77-92 (120)
40 PF00521 DNA_topoisoIV: DNA gy 55.6 17 0.00036 31.2 3.8 40 31-71 382-425 (426)
41 PF07200 Mod_r: Modifier of ru 55.2 52 0.0011 23.6 5.8 68 24-91 38-105 (150)
42 COG3883 Uncharacterized protei 53.1 42 0.00091 28.3 5.7 54 40-93 51-113 (265)
43 PRK14127 cell division protein 52.4 30 0.00066 25.4 4.2 32 42-73 38-69 (109)
44 smart00338 BRLZ basic region l 52.3 40 0.00087 21.3 4.3 32 40-71 32-63 (65)
45 KOG4343 bZIP transcription fac 51.5 14 0.00031 34.7 2.9 34 43-76 304-337 (655)
46 KOG3119 Basic region leucine z 48.7 36 0.00079 27.8 4.6 37 37-73 218-254 (269)
47 PF06305 DUF1049: Protein of u 48.1 23 0.0005 22.1 2.7 22 32-53 46-67 (68)
48 PF00170 bZIP_1: bZIP transcri 48.1 57 0.0012 20.6 4.6 31 40-70 32-62 (64)
49 PRK13729 conjugal transfer pil 47.8 62 0.0013 29.4 6.2 20 38-57 73-92 (475)
50 PF14077 WD40_alt: Alternative 47.5 19 0.00042 23.7 2.3 21 41-61 18-38 (48)
51 PF04880 NUDE_C: NUDE protein, 47.1 11 0.00024 29.5 1.4 24 48-71 24-47 (166)
52 PRK11637 AmiB activator; Provi 46.5 95 0.0021 26.2 6.8 11 83-93 126-136 (428)
53 PRK11677 hypothetical protein; 45.8 80 0.0017 23.9 5.7 16 58-73 60-75 (134)
54 PF06295 DUF1043: Protein of u 45.4 83 0.0018 22.9 5.6 14 43-56 27-40 (128)
55 KOG4603 TBP-1 interacting prot 45.0 37 0.0008 27.9 4.0 43 29-71 104-146 (201)
56 PF01166 TSC22: TSC-22/dip/bun 42.6 35 0.00075 23.3 3.0 23 40-62 20-42 (59)
57 PF09813 Coiled-coil_56: Coile 42.3 22 0.00048 26.3 2.2 31 26-56 62-92 (100)
58 COG1792 MreC Cell shape-determ 42.3 26 0.00056 28.8 2.8 24 42-65 84-107 (284)
59 cd00890 Prefoldin Prefoldin is 42.1 65 0.0014 22.0 4.4 32 40-71 93-124 (129)
60 PF10066 DUF2304: Uncharacteri 41.8 1E+02 0.0022 21.8 5.5 49 8-56 53-101 (115)
61 PF08537 NBP1: Fungal Nap bind 40.9 56 0.0012 28.4 4.7 43 38-80 179-227 (323)
62 PF14584 DUF4446: Protein of u 40.8 1.5E+02 0.0033 22.6 6.6 52 21-72 10-77 (151)
63 PF09602 PhaP_Bmeg: Polyhydrox 40.3 80 0.0017 25.1 5.2 44 30-75 32-75 (165)
64 PRK09413 IS2 repressor TnpA; R 40.0 41 0.0009 23.7 3.3 24 17-40 29-52 (121)
65 PF14712 Snapin_Pallidin: Snap 40.0 1.1E+02 0.0024 20.3 5.6 31 41-71 14-44 (92)
66 PF00038 Filament: Intermediat 39.6 64 0.0014 25.5 4.6 35 38-72 220-254 (312)
67 PF10018 Med4: Vitamin-D-recep 39.5 64 0.0014 24.6 4.4 36 40-75 28-63 (188)
68 PF14916 CCDC92: Coiled-coil d 39.4 21 0.00046 24.0 1.6 23 39-61 19-41 (60)
69 PRK15422 septal ring assembly 38.6 76 0.0016 22.7 4.3 30 40-69 24-67 (79)
70 PF04521 Viral_P18: ssRNA posi 38.3 1.1E+02 0.0024 23.3 5.5 37 30-66 65-104 (120)
71 PF12709 Kinetocho_Slk19: Cent 38.0 47 0.001 23.9 3.3 34 40-73 48-84 (87)
72 TIGR02449 conserved hypothetic 37.4 82 0.0018 21.4 4.2 29 42-70 8-36 (65)
73 PF05377 FlaC_arch: Flagella a 37.2 1.3E+02 0.0027 20.1 5.5 31 41-71 7-37 (55)
74 COG4467 Regulator of replicati 37.0 40 0.00088 25.6 2.9 20 42-61 23-42 (114)
75 PF05581 MCP_N: Vibrio chemota 36.2 88 0.0019 22.9 4.5 64 1-76 1-65 (103)
76 KOG4426 Arginyl-tRNA synthetas 35.9 93 0.002 29.3 5.6 52 44-95 32-85 (656)
77 KOG1760 Molecular chaperone Pr 35.8 83 0.0018 24.4 4.5 47 20-71 65-111 (131)
78 PF06120 Phage_HK97_TLTM: Tail 35.6 41 0.00088 28.6 3.1 31 37-67 84-114 (301)
79 PF07407 Seadorna_VP6: Seadorn 35.5 55 0.0012 29.4 4.0 30 43-72 34-63 (420)
80 KOG4343 bZIP transcription fac 35.1 68 0.0015 30.3 4.6 27 40-66 308-334 (655)
81 KOG3335 Predicted coiled-coil 34.3 63 0.0014 26.2 3.8 51 18-68 75-133 (181)
82 PRK11546 zraP zinc resistance 33.4 2.3E+02 0.0049 21.9 7.4 43 35-80 44-86 (143)
83 PRK00736 hypothetical protein; 32.9 1.5E+02 0.0032 19.7 5.9 22 1-22 1-22 (68)
84 PF05423 Mycobact_memb: Mycoba 32.7 12 0.00027 28.1 -0.4 27 71-97 9-35 (140)
85 COG3883 Uncharacterized protei 32.6 1.9E+02 0.004 24.5 6.4 31 38-68 70-100 (265)
86 COG5374 Uncharacterized conser 32.6 2.1E+02 0.0046 23.4 6.5 67 3-73 87-160 (192)
87 PF04102 SlyX: SlyX; InterPro 32.3 38 0.00082 22.3 1.9 48 5-60 4-51 (69)
88 TIGR03752 conj_TIGR03752 integ 32.2 75 0.0016 28.9 4.3 37 35-71 67-103 (472)
89 cd00187 TOP4c DNA Topoisomeras 32.1 1.1E+02 0.0025 26.9 5.4 45 27-72 392-443 (445)
90 PF06637 PV-1: PV-1 protein (P 31.3 1.4E+02 0.003 27.2 5.8 46 44-89 345-394 (442)
91 PF13600 DUF4140: N-terminal d 30.7 1.2E+02 0.0027 20.4 4.3 33 39-71 68-100 (104)
92 PRK00888 ftsB cell division pr 30.5 2E+02 0.0044 20.4 6.0 69 22-92 5-76 (105)
93 PF07544 Med9: RNA polymerase 30.4 71 0.0015 21.7 3.1 22 35-56 52-74 (83)
94 PF14880 COX14: Cytochrome oxi 30.2 1.5E+02 0.0033 19.0 5.4 41 2-42 4-44 (59)
95 COG3105 Uncharacterized protei 30.2 93 0.002 24.3 4.0 56 20-75 16-82 (138)
96 PRK09737 EcoKI restriction-mod 30.0 1.4E+02 0.003 24.2 5.1 41 36-76 371-415 (461)
97 PF08232 Striatin: Striatin fa 29.1 74 0.0016 23.5 3.2 34 39-72 30-63 (134)
98 PF03980 Nnf1: Nnf1 ; InterPr 28.9 1.1E+02 0.0024 21.1 3.9 33 36-68 75-107 (109)
99 PF01484 Col_cuticle_N: Nemato 28.7 1.3E+02 0.0029 17.8 5.7 27 40-66 25-51 (53)
100 PRK10265 chaperone-modulator p 28.5 80 0.0017 22.1 3.1 23 43-65 73-95 (101)
101 PF13815 Dzip-like_N: Iguana/D 28.5 1.4E+02 0.003 21.2 4.4 30 42-71 81-110 (118)
102 PF10168 Nup88: Nuclear pore c 28.4 87 0.0019 29.3 4.2 63 6-68 539-606 (717)
103 PF08286 Spc24: Spc24 subunit 28.3 18 0.00038 25.8 -0.2 33 41-73 13-45 (118)
104 PRK14160 heat shock protein Gr 28.2 1.4E+02 0.0031 24.1 4.9 20 40-59 60-79 (211)
105 KOG1760 Molecular chaperone Pr 28.1 2.5E+02 0.0054 21.8 6.0 30 44-73 91-120 (131)
106 cd01109 HTH_YyaN Helix-Turn-He 27.7 85 0.0018 21.7 3.1 26 42-67 87-112 (113)
107 PF11336 DUF3138: Protein of u 27.5 88 0.0019 28.9 3.9 25 38-62 22-46 (514)
108 KOG3863 bZIP transcription fac 27.5 92 0.002 29.2 4.1 31 41-71 518-548 (604)
109 PF06959 RecQ5: RecQ helicase 27.5 30 0.00065 28.5 0.9 16 67-82 124-140 (205)
110 KOG4005 Transcription factor X 27.0 60 0.0013 28.0 2.7 28 34-61 90-117 (292)
111 PTZ00374 dihydroxyacetone phos 27.0 1.1E+02 0.0025 30.6 4.9 52 3-54 855-906 (1108)
112 PF08172 CASP_C: CASP C termin 26.9 78 0.0017 25.9 3.3 29 42-70 94-122 (248)
113 PRK00567 mscL large-conductanc 26.8 1.1E+02 0.0023 23.3 3.7 22 18-39 78-99 (134)
114 COG0542 clpA ATP-binding subun 26.5 93 0.002 29.9 4.1 49 39-87 406-474 (786)
115 PF01401 Peptidase_M2: Angiote 26.5 3E+02 0.0064 25.3 7.1 67 5-96 170-236 (595)
116 PRK04778 septation ring format 26.2 93 0.002 27.6 3.8 33 23-55 11-43 (569)
117 PF00570 HRDC: HRDC domain Blo 26.1 78 0.0017 19.4 2.5 18 58-75 2-19 (68)
118 PRK00295 hypothetical protein; 26.0 2E+02 0.0044 19.0 5.9 16 3-18 3-18 (68)
119 PF05565 Sipho_Gp157: Siphovir 26.0 1.9E+02 0.0041 21.7 5.0 37 38-74 51-87 (162)
120 PF14197 Cep57_CLD_2: Centroso 25.8 74 0.0016 21.4 2.5 20 42-61 48-67 (69)
121 PF12597 DUF3767: Protein of u 25.6 1.6E+02 0.0034 21.7 4.4 22 24-45 71-92 (118)
122 PF13600 DUF4140: N-terminal d 25.4 1.2E+02 0.0027 20.4 3.6 25 41-65 77-101 (104)
123 PRK04325 hypothetical protein; 25.3 78 0.0017 21.4 2.6 35 34-68 16-50 (74)
124 PRK13922 rod shape-determining 25.3 3.4E+02 0.0074 21.4 7.1 13 84-96 102-114 (276)
125 PRK02793 phi X174 lysis protei 25.1 2.2E+02 0.0047 19.1 5.8 14 3-16 6-19 (72)
126 COG3264 Small-conductance mech 24.7 88 0.0019 30.4 3.6 37 38-74 150-186 (835)
127 PHA02414 hypothetical protein 24.7 48 0.001 25.0 1.5 27 33-59 53-82 (111)
128 PF11130 TraC_F_IV: F pilus as 24.7 19 0.00042 27.2 -0.6 74 3-88 44-123 (235)
129 KOG4797 Transcriptional regula 24.4 85 0.0018 24.1 2.8 40 25-64 56-97 (123)
130 cd00584 Prefoldin_alpha Prefol 24.2 1.9E+02 0.0041 20.2 4.4 32 40-71 93-124 (129)
131 COG4726 PilX Tfp pilus assembl 24.0 2.6E+02 0.0057 22.9 5.7 50 21-70 22-72 (196)
132 PRK01203 prefoldin subunit alp 24.0 83 0.0018 23.8 2.7 28 42-69 15-42 (130)
133 PF01558 POR: Pyruvate ferredo 24.0 2.5E+02 0.0054 20.3 5.1 39 8-48 114-152 (173)
134 PF13805 Pil1: Eisosome compon 23.9 2E+02 0.0044 24.3 5.2 39 39-77 163-201 (271)
135 PF15496 DUF4646: Domain of un 23.6 38 0.00082 24.7 0.8 67 2-73 54-120 (123)
136 PF13118 DUF3972: Protein of u 23.4 1.8E+02 0.0039 22.2 4.4 35 39-74 76-110 (126)
137 PF07558 Shugoshin_N: Shugoshi 23.3 1.1E+02 0.0024 19.0 2.8 30 35-64 15-44 (46)
138 PRK06798 fliD flagellar cappin 23.3 1.6E+02 0.0034 25.8 4.6 34 32-65 377-410 (440)
139 PF11932 DUF3450: Protein of u 23.2 1.8E+02 0.0038 22.9 4.5 31 42-72 57-87 (251)
140 TIGR02338 gimC_beta prefoldin, 23.1 2.7E+02 0.0058 19.4 6.4 64 8-72 39-105 (110)
141 KOG4782 Predicted membrane pro 23.0 2E+02 0.0043 21.7 4.5 40 13-52 53-96 (108)
142 PRK13954 mscL large-conductanc 22.8 1.3E+02 0.0029 22.5 3.6 23 18-40 68-90 (119)
143 PF02646 RmuC: RmuC family; I 22.5 3.8E+02 0.0083 22.0 6.5 50 22-71 214-263 (304)
144 PF01741 MscL: Large-conductan 22.4 1.7E+02 0.0038 21.7 4.1 25 18-42 75-99 (128)
145 smart00341 HRDC Helicase and R 22.4 1.2E+02 0.0026 19.0 2.9 18 57-74 4-21 (81)
146 PF10211 Ax_dynein_light: Axon 22.1 3.4E+02 0.0073 21.0 5.8 41 31-71 109-150 (189)
147 TIGR03495 phage_LysB phage lys 21.9 3.6E+02 0.0079 20.5 6.5 40 24-63 9-48 (135)
148 PF15058 Speriolin_N: Sperioli 21.7 1.6E+02 0.0034 24.3 4.0 38 43-80 7-49 (200)
149 KOG0977 Nuclear envelope prote 21.5 1.7E+02 0.0036 27.2 4.6 35 40-74 161-195 (546)
150 PRK10803 tol-pal system protei 21.3 1.6E+02 0.0035 23.7 4.0 30 40-69 60-89 (263)
151 PF14265 DUF4355: Domain of un 21.3 2.5E+02 0.0055 19.6 4.6 40 39-80 47-86 (125)
152 TIGR02894 DNA_bind_RsfA transc 21.2 1.9E+02 0.004 23.0 4.2 31 41-71 111-141 (161)
153 PF01763 Herpes_UL6: Herpesvir 21.0 3.5E+02 0.0075 25.2 6.5 36 41-76 370-405 (557)
154 PF13874 Nup54: Nucleoporin co 20.8 1.2E+02 0.0027 22.1 3.0 40 20-60 24-63 (141)
155 PF07989 Microtub_assoc: Micro 20.8 2E+02 0.0044 19.5 3.9 29 44-72 3-31 (75)
156 TIGR00219 mreC rod shape-deter 20.8 3.7E+02 0.008 22.0 6.1 46 49-96 67-112 (283)
157 PF12834 Phage_int_SAM_2: Phag 20.6 85 0.0018 21.7 2.0 51 18-69 30-80 (91)
158 PF07106 TBPIP: Tat binding pr 20.5 3.6E+02 0.0078 19.8 5.5 23 43-65 81-103 (169)
159 PRK13953 mscL large-conductanc 20.4 1.6E+02 0.0035 22.2 3.6 21 18-38 71-91 (125)
160 PF10593 Z1: Z1 domain; Inter 20.3 2.9E+02 0.0062 22.1 5.3 75 18-96 5-80 (239)
161 PF05663 DUF809: Protein of un 20.3 84 0.0018 24.1 2.1 23 18-40 22-48 (138)
162 PF06637 PV-1: PV-1 protein (P 20.3 3.7E+02 0.008 24.6 6.4 45 19-63 33-80 (442)
163 smart00143 PI3K_p85B PI3-kinas 20.3 79 0.0017 22.1 1.8 18 61-78 9-26 (78)
164 PF11683 DUF3278: Protein of u 20.0 2.1E+02 0.0046 20.7 4.1 31 40-72 88-118 (129)
No 1
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=93.92 E-value=0.31 Score=34.84 Aligned_cols=36 Identities=14% Similarity=0.137 Sum_probs=31.5
Q ss_pred hchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 35 RSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 35 RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+=..++.++++++++.+.|+++|..|+..+-.||.+
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 345678899999999999999999999999999974
No 2
>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=92.53 E-value=0.87 Score=29.80 Aligned_cols=45 Identities=20% Similarity=0.260 Sum_probs=23.1
Q ss_pred hHHHHHHHHHHHHhhhchhhhhhh-------hhhHHhHHHHHHHhHHHHHHH
Q 033431 20 VVNTCLIASFAALTLRSVKQQNDI-------EGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 20 vI~~~l~~sf~~L~~RS~~QQ~~I-------e~Leaek~SL~k~Nk~l~~~M 64 (119)
.++++++..++++|+=-+.|++.+ .+++.+.+.+..+|+.|+...
T Consensus 3 ~l~~~l~~~v~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~l~~en~~L~~ei 54 (85)
T TIGR02209 3 KLYVLLLLAILVSAISVVSAQHQTRQLNNELQKLQLEIDKLQKEWRDLQLEV 54 (85)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555555555444444444 445555555555555554433
No 3
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=90.84 E-value=0.51 Score=29.82 Aligned_cols=32 Identities=19% Similarity=0.186 Sum_probs=25.1
Q ss_pred HHHhhhchhhhhhhhhhHHhHHHHHHHhHHHH
Q 033431 30 AALTLRSVKQQNDIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 30 ~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~ 61 (119)
++..++-+.++.++..++.+.+.++++++.++
T Consensus 37 l~~~~~~~~~r~~~~~~~k~l~~le~e~~~lr 68 (68)
T PF06305_consen 37 LLSLPSRLRLRRRIRRLRKELKKLEKELEQLR 68 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 33445558899999999999999999887653
No 4
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=90.53 E-value=0.31 Score=43.69 Aligned_cols=30 Identities=30% Similarity=0.368 Sum_probs=26.3
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
|| +||+|+.|.+.|+++.+.|.+++-...+
T Consensus 30 ~q-kie~L~kql~~Lk~q~~~l~~~v~k~e~ 59 (489)
T PF11853_consen 30 LQ-KIEALKKQLEELKAQQDDLNDRVDKVEK 59 (489)
T ss_pred HH-HHHHHHHHHHHHHHhhcccccccchhhH
Confidence 44 9999999999999999999998877655
No 5
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=88.94 E-value=1.5 Score=28.02 Aligned_cols=36 Identities=31% Similarity=0.459 Sum_probs=31.4
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
..+.+|+.||.+...|..+|..|++.+-.+++++-.
T Consensus 23 RKk~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~ 58 (64)
T PF00170_consen 23 RKKQYIEELEEKVEELESENEELKKELEQLKKEIQS 58 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999999999999999887654
No 6
>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=88.87 E-value=2.1 Score=27.97 Aligned_cols=24 Identities=25% Similarity=0.286 Sum_probs=21.5
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKK 62 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~ 62 (119)
.+.+|+.+++|-+.|+.+...|.+
T Consensus 36 ~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 36 LQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 478899999999999999998875
No 7
>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=87.99 E-value=1.1 Score=28.43 Aligned_cols=32 Identities=31% Similarity=0.414 Sum_probs=26.9
Q ss_pred hhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 37 VKQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 37 ~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
...+.+|.+|+.+.+.|+++|+.|+..+-.++
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~ 51 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERLK 51 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45566799999999999999999998887773
No 8
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=86.91 E-value=3 Score=28.18 Aligned_cols=46 Identities=20% Similarity=0.229 Sum_probs=22.1
Q ss_pred cchhhHHHHHHHHHHHHhhhchhh-------hhhhhhhHHhHHHHHHHhHHHH
Q 033431 16 NSNTVVNTCLIASFAALTLRSVKQ-------QNDIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 16 n~n~vI~~~l~~sf~~L~~RS~~Q-------Q~~Ie~Leaek~SL~k~Nk~l~ 61 (119)
+....+.++++..++++++=.+.+ .++++.++.+.+.|..+|..|+
T Consensus 10 ~~~~~l~i~l~~~v~~~a~~~v~~~~~~~~~~~~l~~l~~~~~~l~~e~~~L~ 62 (97)
T PF04999_consen 10 KRQKKLIILLVIVVLISALGVVYSRHQSRQLFYELQQLEKEIDQLQEENERLR 62 (97)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444544444444333333 4445555555555555555444
No 9
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=85.45 E-value=5.1 Score=28.42 Aligned_cols=38 Identities=16% Similarity=0.092 Sum_probs=27.6
Q ss_pred hHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHh
Q 033431 20 VVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKAN 57 (119)
Q Consensus 20 vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~N 57 (119)
+|...++.-+++|+.=++.|.++|+.|.++.+++.++-
T Consensus 4 ~~~~~l~~lvl~L~~~l~~qs~~i~~L~a~n~~q~~tI 41 (110)
T PF10828_consen 4 YIYIALAVLVLGLGGWLWYQSQRIDRLRAENKAQAQTI 41 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555577777778899999999999987655443
No 10
>PRK15396 murein lipoprotein; Provisional
Probab=83.91 E-value=8.4 Score=26.91 Aligned_cols=54 Identities=19% Similarity=0.198 Sum_probs=27.6
Q ss_pred hcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 15 INSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 15 ~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
||..+++-..++.++++|+==+.. .+++.|..+.++|......++...-+-|.+
T Consensus 1 m~~~kl~l~av~ls~~LLaGCAs~--~kvd~LssqV~~L~~kvdql~~dv~~~~~~ 54 (78)
T PRK15396 1 MNRTKLVLGAVILGSTLLAGCSSN--AKIDQLSSDVQTLNAKVDQLSNDVNAMRSD 54 (78)
T ss_pred CchhHHHHHHHHHHHHHHHHcCCc--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355556666666655555443333 245555555555555555555554444443
No 11
>PHA03162 hypothetical protein; Provisional
Probab=81.40 E-value=1.7 Score=33.62 Aligned_cols=30 Identities=37% Similarity=0.461 Sum_probs=26.8
Q ss_pred hchhhhhhhhhhHHhHHHHHHHhHHHHHHH
Q 033431 35 RSVKQQNDIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 35 RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
+-.+||-..|+|++|..-|+-|||.|++.|
T Consensus 7 ~~pk~~~tmEeLaaeL~kLqmENK~LKkkl 36 (135)
T PHA03162 7 KCPKAQPTMEDLAAEIAKLQLENKALKKKI 36 (135)
T ss_pred CCCccCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 446789999999999999999999998765
No 12
>smart00338 BRLZ basic region leucin zipper.
Probab=81.28 E-value=5.3 Score=25.43 Aligned_cols=36 Identities=31% Similarity=0.384 Sum_probs=30.5
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
.+..|+.||.+...|..+|..|...+-..++++...
T Consensus 24 Kk~~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~l 59 (65)
T smart00338 24 KKAEIEELERKVEQLEAENERLKKEIERLRRELEKL 59 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356789999999999999999999998888877643
No 13
>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=78.28 E-value=4.5 Score=25.58 Aligned_cols=48 Identities=17% Similarity=0.120 Sum_probs=38.5
Q ss_pred HHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 27 ASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 27 ~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
+.|+++++-...+..++..+..+...|.++...+++..=+.++++=..
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 3 LFLVIFLVFGISGYSRYYQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred eehhhHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345556666777888889999999999999999999988888776544
No 14
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=76.14 E-value=7.2 Score=26.58 Aligned_cols=32 Identities=31% Similarity=0.524 Sum_probs=21.2
Q ss_pred hhhhhhhHHh-------HHHHHHHhHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESE-------KESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 40 Q~~Ie~Leae-------k~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
|.+|+.|+++ ...|+.+|.-|+..--+|+..|
T Consensus 24 q~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl 62 (72)
T PF06005_consen 24 QMENEELKEKNNELKEENEELKEENEQLKQERNAWQERL 62 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666655 6677777777777777777544
No 15
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=74.44 E-value=22 Score=25.55 Aligned_cols=44 Identities=25% Similarity=0.243 Sum_probs=30.4
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchHHHHHHHHc
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALVPLARLKAIYG 92 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~asRLr~IyG 92 (119)
+.+|.+++++.+.|.++|..+...+-+.+.+ ..-...|=|.-||
T Consensus 56 ~~qi~~~~~e~~~L~~~~~~l~~ei~~L~dg---------~~~i~e~AR~~l~ 99 (117)
T COG2919 56 QRQIAAQQAELEKLSARNTALEAEIKDLKDG---------RDYIEERARSELG 99 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---------HHHHHHHHHHHhC
Confidence 4445578888888888888888888777776 2334556666666
No 16
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=74.38 E-value=7.9 Score=25.65 Aligned_cols=34 Identities=38% Similarity=0.513 Sum_probs=29.0
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
..+++.++++.+.|.+.-+.+.+.|-+|+..|.+
T Consensus 68 ~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~ 101 (106)
T PF01920_consen 68 EERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYE 101 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677888888999999999999999999988864
No 17
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=74.26 E-value=24 Score=23.80 Aligned_cols=29 Identities=21% Similarity=0.257 Sum_probs=23.8
Q ss_pred hhchhhhhhhhhhHHhHHHHHHHhHHHHH
Q 033431 34 LRSVKQQNDIEGLESEKESLVKANKDLKK 62 (119)
Q Consensus 34 ~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~ 62 (119)
..=...+.+++.|++|...|+-|...+++
T Consensus 42 ~~l~~l~~~~~~l~~e~~~L~lE~~~l~~ 70 (97)
T PF04999_consen 42 YELQQLEKEIDQLQEENERLRLEIATLSS 70 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 34467788899999999999999888765
No 18
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.12 E-value=5.6 Score=32.79 Aligned_cols=66 Identities=24% Similarity=0.314 Sum_probs=54.3
Q ss_pred HHHhhhchh-hhhhhhhhHHhHHHHH---HHhHHHHHHHHHHHHHHHHHhhccCCcchHHH-HHHHHcCCC
Q 033431 30 AALTLRSVK-QQNDIEGLESEKESLV---KANKDLKKRMWDWKQQLYAEATTESALVPLAR-LKAIYGDVP 95 (119)
Q Consensus 30 ~~L~~RS~~-QQ~~Ie~Leaek~SL~---k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~asR-Lr~IyGe~~ 95 (119)
|.|.=|=+. |..+|..||++...|. .+|..+-.++=.|-.+|+...+.+..+..+-| ++..||-+.
T Consensus 40 VSLve~ql~r~R~~~~~Le~~l~~L~~~A~~N~~lf~r~~~lq~~Ll~a~sl~d~l~~v~~~~a~~f~l~~ 110 (218)
T COG3159 40 VSLVERQLARLRNRIRELEEELAALMENARANERLFYRLHALQLDLLDARSLDDLLRRVDRSWARDFGLAA 110 (218)
T ss_pred eehHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhCCCc
Confidence 334444443 5567999999988776 48999999999999999999999999999999 999999763
No 19
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=72.43 E-value=11 Score=29.35 Aligned_cols=43 Identities=23% Similarity=0.407 Sum_probs=34.5
Q ss_pred hchhhhhhhhh----hHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhc
Q 033431 35 RSVKQQNDIEG----LESEKESLVKANKDLKKRMWDWKQQLYAEATT 77 (119)
Q Consensus 35 RS~~QQ~~Ie~----Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ 77 (119)
+=+.||+++|. |+.+.+.|+.+|..|.-..-+||+-..+.+..
T Consensus 71 KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 71 KRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34678887774 77788899999999999999999988766543
No 20
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=71.70 E-value=20 Score=25.60 Aligned_cols=46 Identities=17% Similarity=0.131 Sum_probs=35.5
Q ss_pred HHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 25 LIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 25 l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+++-+.-+.||+..=+++|+.|++|..-|+.+-+.-..-+-|-+-.
T Consensus 14 ~~~i~~y~~~k~~ka~~~~~kL~~en~qlk~Ek~~~~~qvkn~~vr 59 (87)
T PF10883_consen 14 VALILAYLWWKVKKAKKQNAKLQKENEQLKTEKAVAETQVKNAKVR 59 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445678888888889999999999999988887777776543
No 21
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=69.77 E-value=6.8 Score=25.79 Aligned_cols=23 Identities=39% Similarity=0.514 Sum_probs=19.9
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
+..+|..|+++|+++|..|+.-|
T Consensus 34 ~R~~l~~e~~~L~~qN~eLr~lL 56 (60)
T PF14775_consen 34 DRAALIQEKESLEQQNEELRSLL 56 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999866
No 22
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=69.61 E-value=18 Score=29.83 Aligned_cols=34 Identities=32% Similarity=0.395 Sum_probs=27.2
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
-|..-++.|+.+.++|+++|..|+...-.-+.++
T Consensus 29 l~~~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~ 62 (308)
T PF11382_consen 29 LQPNLIDSLEDQFDSLREENDELRAELDALQAQL 62 (308)
T ss_pred hchhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666688889999999999998888877766655
No 23
>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=68.20 E-value=14 Score=23.12 Aligned_cols=29 Identities=28% Similarity=0.468 Sum_probs=21.5
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
.-+.|.++-++|.++|..|+.-+-.-+..
T Consensus 13 ~yd~Lk~~~~~L~~E~~~L~aev~~L~~k 41 (45)
T PF02183_consen 13 SYDSLKAEYDSLKKENEKLRAEVQELKEK 41 (45)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34788888888888888888776555443
No 24
>PHA03155 hypothetical protein; Provisional
Probab=67.49 E-value=6.7 Score=29.65 Aligned_cols=23 Identities=48% Similarity=0.644 Sum_probs=20.9
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
..|+|++|..-|+-|||.|++.|
T Consensus 9 tvEeLaaeL~kL~~ENK~LKkkl 31 (115)
T PHA03155 9 DVEELEKELQKLKIENKALKKKL 31 (115)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 47999999999999999998766
No 25
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=67.08 E-value=17 Score=22.63 Aligned_cols=31 Identities=23% Similarity=0.374 Sum_probs=23.7
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
++-.+++|+.+...|..+|..|...+=..++
T Consensus 23 kk~~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 23 KKQREEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4556788889999999999888877655444
No 26
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=66.74 E-value=35 Score=22.72 Aligned_cols=50 Identities=16% Similarity=0.309 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHhhhchhh-----hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 21 VNTCLIASFAALTLRSVKQ-----QNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 21 I~~~l~~sf~~L~~RS~~Q-----Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
|.|..+..|++..++++.+ .+.++.++++.+.+.++-..+........++
T Consensus 8 iaf~vLvi~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~d 62 (90)
T PF06103_consen 8 IAFAVLVIFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLED 62 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 5567777788888888754 5667777777777777777776666665544
No 27
>PF05812 Herpes_BLRF2: Herpesvirus BLRF2 protein; InterPro: IPR008642 This family consists of several herpes virus BLRF2 tegument proteins.; PDB: 2OA5_B 2H3R_D.
Probab=65.44 E-value=8.2 Score=29.11 Aligned_cols=23 Identities=39% Similarity=0.543 Sum_probs=20.7
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
..|+|+++..-|+-|||.|++.|
T Consensus 4 t~EeLaaeL~kLqmENk~LKkkl 26 (118)
T PF05812_consen 4 TMEELAAELQKLQMENKALKKKL 26 (118)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHH
Confidence 46899999999999999998765
No 28
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=65.33 E-value=22 Score=26.09 Aligned_cols=49 Identities=16% Similarity=0.157 Sum_probs=31.5
Q ss_pred hhhHHHHHHHHHHHHhhhch-hhhhhhhhhHHhHHHHHHHhHHHHHHHHH
Q 033431 18 NTVVNTCLIASFAALTLRSV-KQQNDIEGLESEKESLVKANKDLKKRMWD 66 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~-~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~ 66 (119)
+.||-.+++|-++.=.+||. +.+.+-++++++.+.|..+...|...+-.
T Consensus 81 E~fiF~Va~~li~~E~~Rs~~ke~~Ke~~~~~~l~~L~~~i~~L~~~~~~ 130 (134)
T PF07047_consen 81 EAFIFSVAAGLIIYEYWRSARKEAKKEEELQERLEELEERIEELEEQVEK 130 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56666666666666678887 44445666667777777666666655543
No 29
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=65.18 E-value=43 Score=23.13 Aligned_cols=61 Identities=10% Similarity=0.219 Sum_probs=43.2
Q ss_pred HhhcchhhHHHHHHHHHHHHhhhchh--hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 13 KAINSNTVVNTCLIASFAALTLRSVK--QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 13 ~a~n~n~vI~~~l~~sf~~L~~RS~~--QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
.....+..+-...++.||-...-... =..+++.++.+...|.+.-+.+.+.|-++|.+|..
T Consensus 40 ~~l~~d~~vy~~VG~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~ 102 (105)
T cd00632 40 EKLADDAEVYKLVGNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQ 102 (105)
T ss_pred HcCCCcchHHHHhhhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445666665555555554443332 24678889999999999999999999999998864
No 30
>PRK15396 murein lipoprotein; Provisional
Probab=63.82 E-value=22 Score=24.84 Aligned_cols=48 Identities=15% Similarity=0.293 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHhhhchhh-hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 21 VNTCLIASFAALTLRSVKQ-QNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 21 I~~~l~~sf~~L~~RS~~Q-Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
..++|++|-.-- -.++| +.+++.|.++.+.|.....+++...-.-|+|
T Consensus 13 ls~~LLaGCAs~--~kvd~LssqV~~L~~kvdql~~dv~~~~~~~~~a~~e 61 (78)
T PRK15396 13 LGSTLLAGCSSN--AKIDQLSSDVQTLNAKVDQLSNDVNAMRSDVQAAKDD 61 (78)
T ss_pred HHHHHHHHcCCc--hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777654 48888 8999999999999999999999998887764
No 31
>PF13801 Metal_resist: Heavy-metal resistance; PDB: 3EPV_C 2Y3D_A 2Y3H_D 2Y3G_B 2Y3B_A 2Y39_A 3LAY_H.
Probab=63.24 E-value=28 Score=22.49 Aligned_cols=40 Identities=20% Similarity=0.227 Sum_probs=31.6
Q ss_pred chhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Q 033431 36 SVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTE 78 (119)
Q Consensus 36 S~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~d 78 (119)
|.+|+.+|+++..+. .++-..++..|++-+++|.++-.+|
T Consensus 43 t~eQ~~~l~~~~~~~---~~~~~~~r~~~~~~r~~l~~ll~~~ 82 (125)
T PF13801_consen 43 TPEQQAKLRALMDEF---RQEMRALRQELRAARQELRALLAAP 82 (125)
T ss_dssp THHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHCCS
T ss_pred CHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 678888888877654 4577888899999999998877664
No 32
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=63.06 E-value=38 Score=26.57 Aligned_cols=49 Identities=14% Similarity=0.165 Sum_probs=35.6
Q ss_pred chhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchH
Q 033431 36 SVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALVPL 84 (119)
Q Consensus 36 S~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~a 84 (119)
-.+|+.+|+.|+.+++++.+....|.--|-..-.+|-.-=..|.|-..-
T Consensus 79 v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L~~~v~~d~Pf~~~ 127 (251)
T PF11932_consen 79 VASQEQELASLEQQIEQIEETRQELVPLMEQMIDELEQFVELDLPFLLE 127 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCChH
Confidence 3467788888888888888888888888888877776545555554444
No 33
>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=60.63 E-value=20 Score=25.95 Aligned_cols=28 Identities=21% Similarity=0.366 Sum_probs=14.3
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
.++..|.+|-..|+-||..|+.++-.-.
T Consensus 29 ~~~~~l~EEN~~L~~EN~~Lr~~l~~~~ 56 (107)
T PF06156_consen 29 KQLQELLEENARLRIENEHLRERLEELE 56 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555555554433
No 34
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=60.33 E-value=20 Score=26.40 Aligned_cols=28 Identities=21% Similarity=0.356 Sum_probs=17.9
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDW 67 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~w 67 (119)
|.++..|.+|-..|+-||.-|+.++-.-
T Consensus 28 K~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 28 KKQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455666666666777777777776644
No 35
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=59.99 E-value=13 Score=30.99 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=33.6
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
.++..|+.|+++..-|+.+.+.|..-.||-|+..|+.
T Consensus 197 ~~re~i~el~e~I~~L~~eV~~L~~~~~~~Re~iF~d 233 (258)
T PF15397_consen 197 QFREEIDELEEEIPQLRAEVEQLQAQAQDPREVIFAD 233 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcchHHHhhHH
Confidence 3567899999999999999999999999999999954
No 36
>COG4839 FtsL Protein required for the initiation of cell division [Cell division and chromosome partitioning]
Probab=58.03 E-value=33 Score=26.11 Aligned_cols=50 Identities=24% Similarity=0.299 Sum_probs=34.8
Q ss_pred cchhhHHHHHHHHHHHHhhhchh-------hhhhhhhhHHhHHHHHHHhHHHHHHHH
Q 033431 16 NSNTVVNTCLIASFAALTLRSVK-------QQNDIEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 16 n~n~vI~~~l~~sf~~L~~RS~~-------QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
--++|+-+.+.+.+++++++++. =|.+|++|+...++=..+|.+++.-+.
T Consensus 35 ~~EKvly~~~~va~L~vai~ii~~q~~~yqvq~ei~~Le~kIs~q~~e~~dlkqeV~ 91 (120)
T COG4839 35 KVEKVLYTTLAVAALVVAISIISVQTKAYQVQGEITDLESKISEQKTENDDLKQEVK 91 (120)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhHHHHHH
Confidence 34677777777777777777655 456778888887777777777665444
No 37
>PF09307 MHC2-interact: CLIP, MHC2 interacting; InterPro: IPR015386 This domain is found in MHC class II-associated invariant chain (Ii), and in class II invariant chain-associated peptide (CLIP), and is required for association with class II major histocompatibility complex (MHC II) in the MHC II processing pathway []. Ii plays a critical role in the assembly of the MHC, as well as in MHC II antigen processing by stabilising peptide-free class II alpha/beta heterodimers in a complex soon after their synthesis and directing transport of the complex from the endoplasmic reticulum to compartments where peptide loading of class II takes place []. In antigen-presenting cells (APCs), loading of MHC II molecules with peptides is regulated by Ii, which blocks MHC II antigen-binding sites in pre-endosomal compartments []. Several factors modulate the surface expression of MHC II molecules via post-Golgi mechanisms, including CLIP. The Invariant chain contains a single transmembrane domain. Ii first assembles into a trimer and then associates with three class II alpha/beta MHC heterodimers. Although the membrane-proximal region of the Ii luminal domain is structurally disordered, the C-terminal segment of the luminal domain is largely alpha-helical and contains a major interaction site for the Ii trimer []. More information about these proteins can be found at Protein of the Month: MHC [].; GO: 0042289 MHC class II protein binding, 0006886 intracellular protein transport, 0006955 immune response, 0019882 antigen processing and presentation, 0016020 membrane; PDB: 1A6A_C 3QXD_F 3QXA_F 3PDO_C 1MUJ_C 3PGD_F 3PGC_F.
Probab=57.61 E-value=3.4 Score=30.87 Aligned_cols=38 Identities=26% Similarity=0.275 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHH
Q 033431 19 TVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKA 56 (119)
Q Consensus 19 ~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~ 56 (119)
+|+-.+|++|-++...==.+||.+|+.|++.-+.|+++
T Consensus 38 tvLa~LLiAGQa~TaYfv~~Qk~qI~~Lq~~s~~l~~e 75 (114)
T PF09307_consen 38 TVLACLLIAGQAVTAYFVFQQKGQIKKLQKTSQNLQLE 75 (114)
T ss_dssp --------------------------------------
T ss_pred HHHHHHHHHhHHHHHHHHHHhHhHHHHHHHHHHHHHHH
Confidence 45556677777777777889999999999998888776
No 38
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=55.87 E-value=73 Score=22.87 Aligned_cols=47 Identities=17% Similarity=0.128 Sum_probs=28.5
Q ss_pred HHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 23 TCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 23 ~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
++++.-|..++|+=.+.-.....++.+++.+.++|..|+.+--..++
T Consensus 32 ~~~l~~f~~~~~~g~~~~~~~~~l~~qi~~~~~e~~~L~~~~~~l~~ 78 (117)
T COG2919 32 LALLALFQYLAWFGKNGAADVLQLQRQIAAQQAELEKLSARNTALEA 78 (117)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555556666777777777777777766544443
No 39
>COG4839 FtsL Protein required for the initiation of cell division [Cell division and chromosome partitioning]
Probab=55.76 E-value=83 Score=24.00 Aligned_cols=16 Identities=19% Similarity=0.347 Sum_probs=7.9
Q ss_pred hhhhhhhhhhHHhHHH
Q 033431 37 VKQQNDIEGLESEKES 52 (119)
Q Consensus 37 ~~QQ~~Ie~Leaek~S 52 (119)
.+|+.++++|+-|...
T Consensus 77 s~q~~e~~dlkqeV~d 92 (120)
T COG4839 77 SEQKTENDDLKQEVKD 92 (120)
T ss_pred HHHHhhhhhHHHHHHH
Confidence 3455555555544443
No 40
>PF00521 DNA_topoisoIV: DNA gyrase/topoisomerase IV, subunit A; InterPro: IPR002205 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type II topoisomerases are ATP-dependent enzymes, and can be subdivided according to their structure and reaction mechanisms: type IIA (topoisomerase II or gyrase, and topoisomerase IV) and type IIB (topoisomerase VI). These enzymes are responsible for relaxing supercoiled DNA as well as for introducing both negative and positive supercoils []. Type IIA topoisomerases together manage chromosome integrity and topology in cells. Topoisomerase II (called gyrase in bacteria) primarily introduces negative supercoils into DNA. In bacteria, topoisomerase II consists of two polypeptide subunits, gyrA and gyrB, which form a heterotetramer: (BA)2. In most eukaryotes, topoisomerase II consists of a single polypeptide, where the N- and C-terminal regions correspond to gyrB and gyrA, respectively; this topoisomerase II forms a homodimer that is equivalent to the bacterial heterotetramer. There are four functional domains in topoisomerase II: domain 1 (N-terminal of gyrB) is an ATPase, domain 2 (C-terminal of gyrB) is responsible for subunit interactions (differs between eukaryotic and bacterial enzymes), domain 3 (N-terminal of gyrA) is responsible for the breaking-rejoining function through its capacity to form protein-DNA bridges, and domain 4 (C-terminal of gyrA) is able to non-specifically bind DNA []. Topoisomerase IV primarily decatenates DNA and relaxes positive supercoils, which is important in bacteria, where the circular chromosome becomes catenated, or linked, during replication []. Topoisomerase IV consists of two polypeptide subunits, parE and parC, where parC is homologous to gyrA and parE is homologous to gyrB. This entry represents subunit A (gyrA and parC) of bacterial gyrase and topoisomerase IV, and the equivalent C-terminal region in eukaryotic topoisomerase II composed of a single polypeptide. This subunit has DNA-binding capacity. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003918 DNA topoisomerase (ATP-hydrolyzing) activity, 0005524 ATP binding, 0006265 DNA topological change, 0005694 chromosome; PDB: 1ZVU_A 1AB4_A 1X75_A 3NUH_A 1BJT_A 1BGW_A 2RGR_A 3KSB_B 3FOE_B 2NOV_C ....
Probab=55.58 E-value=17 Score=31.16 Aligned_cols=40 Identities=33% Similarity=0.577 Sum_probs=32.1
Q ss_pred HHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHH----HHHHH
Q 033431 31 ALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWD----WKQQL 71 (119)
Q Consensus 31 ~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~----wKq~L 71 (119)
-+-+|++-. -+++.|++|.+.|.++-+.+++..++ |+.+|
T Consensus 382 ~m~L~~LT~-~e~~kL~~e~~~l~~ei~~l~~~~~~~~~l~~~dL 425 (426)
T PF00521_consen 382 SMPLRRLTK-EEIEKLQKEIKELEKEIEELEKILPKIKDLWKKDL 425 (426)
T ss_dssp TSBGGGGSH-HHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred hchHHHhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 334455544 68999999999999999999999998 77665
No 41
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=55.21 E-value=52 Score=23.61 Aligned_cols=68 Identities=25% Similarity=0.228 Sum_probs=49.5
Q ss_pred HHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchHHHHHHHH
Q 033431 24 CLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALVPLARLKAIY 91 (119)
Q Consensus 24 ~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~asRLr~Iy 91 (119)
-++.+..-|+=+.+..+.+++.+..+...+..+-+.+......-.+++-.....-++....+||++-=
T Consensus 38 ~l~~~n~~lAe~nL~~~~~l~~~r~~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~s~~~l~~~L~~~~ 105 (150)
T PF07200_consen 38 ELLAENEELAEQNLSLEPELEELRSQLQELYEELKELESEYQEKEQQQDELSSNYSPDALLARLQAAA 105 (150)
T ss_dssp HHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHH
Confidence 35667778888888999999999999999999999998887776666666655666677777887643
No 42
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=53.13 E-value=42 Score=28.26 Aligned_cols=54 Identities=24% Similarity=0.291 Sum_probs=28.2
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH------Hhh---ccCCcchHHHHHHHHcC
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA------EAT---TESALVPLARLKAIYGD 93 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa------eAa---~ds~~v~asRLr~IyGe 93 (119)
|.+|++|..+.+++-...++.+++|-.-++++=. +.. ..-.-++-.|+|++|--
T Consensus 51 q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~~~l~~raRAmq~n 113 (265)
T COG3883 51 QNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKENIVERQELLKKRARAMQVN 113 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4455555555555555555555555444443311 111 12345678899999843
No 43
>PRK14127 cell division protein GpsB; Provisional
Probab=52.39 E-value=30 Score=25.43 Aligned_cols=32 Identities=28% Similarity=0.369 Sum_probs=28.3
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
+++.|..|...|+++|..|+..+=.|+.++-.
T Consensus 38 dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~ 69 (109)
T PRK14127 38 DYEAFQKEIEELQQENARLKAQVDELTKQVSV 69 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 67888899999999999999999999998774
No 44
>smart00338 BRLZ basic region leucin zipper.
Probab=52.31 E-value=40 Score=21.34 Aligned_cols=32 Identities=31% Similarity=0.475 Sum_probs=25.0
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
+.+++.|+++...|..+...|..-+-..|+++
T Consensus 32 e~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 32 ERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45777888888888888888888777777765
No 45
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=51.50 E-value=14 Score=34.67 Aligned_cols=34 Identities=32% Similarity=0.390 Sum_probs=17.9
Q ss_pred hhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhh
Q 033431 43 IEGLESEKESLVKANKDLKKRMWDWKQQLYAEAT 76 (119)
Q Consensus 43 Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa 76 (119)
.++||++...|-+||..|++-==..|++|+..++
T Consensus 304 ~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~ 337 (655)
T KOG4343|consen 304 MLGLEARLQALLSENEQLKKENATLKRQLDELVS 337 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence 3444444444444444444444445667776666
No 46
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=48.72 E-value=36 Score=27.75 Aligned_cols=37 Identities=22% Similarity=0.295 Sum_probs=26.8
Q ss_pred hhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 37 VKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 37 ~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
.+-+++|+.|+.|.++|+.....|++-+-..|+-++.
T Consensus 218 ~e~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~~ 254 (269)
T KOG3119|consen 218 DEMAHRVAELEKENEALRTQVEQLKKELATLRRLFLQ 254 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5566777888888888888888777777776665553
No 47
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=48.13 E-value=23 Score=22.12 Aligned_cols=22 Identities=32% Similarity=0.433 Sum_probs=9.7
Q ss_pred HhhhchhhhhhhhhhHHhHHHH
Q 033431 32 LTLRSVKQQNDIEGLESEKESL 53 (119)
Q Consensus 32 L~~RS~~QQ~~Ie~Leaek~SL 53 (119)
+..|--.-+++++.+|.|.+.|
T Consensus 46 ~r~~~~~~~k~l~~le~e~~~l 67 (68)
T PF06305_consen 46 LRRRIRRLRKELKKLEKELEQL 67 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc
Confidence 3333444444444444444443
No 48
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=48.10 E-value=57 Score=20.63 Aligned_cols=31 Identities=39% Similarity=0.507 Sum_probs=23.8
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+..++.|+.+.+.|..++..|...+-..+.+
T Consensus 32 e~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 32 EEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 5567788888888888888888877666654
No 49
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=47.84 E-value=62 Score=29.43 Aligned_cols=20 Identities=10% Similarity=0.126 Sum_probs=11.0
Q ss_pred hhhhhhhhhHHhHHHHHHHh
Q 033431 38 KQQNDIEGLESEKESLVKAN 57 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~N 57 (119)
+||.+.++||.+.++|+++.
T Consensus 73 eqQ~kasELEKqLaaLrqEl 92 (475)
T PRK13729 73 EMQVTAAQMQKQYEEIRREL 92 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34555666666666655443
No 50
>PF14077 WD40_alt: Alternative WD40 repeat motif
Probab=47.49 E-value=19 Score=23.71 Aligned_cols=21 Identities=38% Similarity=0.444 Sum_probs=18.0
Q ss_pred hhhhhhHHhHHHHHHHhHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~ 61 (119)
-++-+||+|-.+|+|-|+.|-
T Consensus 18 vrv~eLEeEV~~LrKINrdLf 38 (48)
T PF14077_consen 18 VRVSELEEEVRTLRKINRDLF 38 (48)
T ss_pred eeHHHHHHHHHHHHHHhHHHH
Confidence 367899999999999999864
No 51
>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=47.06 E-value=11 Score=29.52 Aligned_cols=24 Identities=42% Similarity=0.541 Sum_probs=9.1
Q ss_pred HhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 48 SEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 48 aek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.||+.|+.++.-|+|-+-|.||+|
T Consensus 24 dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 24 DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 579999999999999999999999
No 52
>PRK11637 AmiB activator; Provisional
Probab=46.47 E-value=95 Score=26.21 Aligned_cols=11 Identities=27% Similarity=0.350 Sum_probs=6.5
Q ss_pred hHHHHHHHHcC
Q 033431 83 PLARLKAIYGD 93 (119)
Q Consensus 83 ~asRLr~IyGe 93 (119)
...|+|..|-.
T Consensus 126 l~~rlra~Y~~ 136 (428)
T PRK11637 126 LAAQLDAAFRQ 136 (428)
T ss_pred HHHHHHHHHHc
Confidence 55566666653
No 53
>PRK11677 hypothetical protein; Provisional
Probab=45.83 E-value=80 Score=23.91 Aligned_cols=16 Identities=31% Similarity=0.298 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHH
Q 033431 58 KDLKKRMWDWKQQLYA 73 (119)
Q Consensus 58 k~l~~~Mw~wKq~Lfa 73 (119)
..|-+.|-+==++|+.
T Consensus 60 A~Ll~~L~~~Y~~Ly~ 75 (134)
T PRK11677 60 AELLDTMAKDYRQLYQ 75 (134)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3455566555555553
No 54
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=45.36 E-value=83 Score=22.92 Aligned_cols=14 Identities=29% Similarity=0.209 Sum_probs=6.2
Q ss_pred hhhhHHhHHHHHHH
Q 033431 43 IEGLESEKESLVKA 56 (119)
Q Consensus 43 Ie~Leaek~SL~k~ 56 (119)
...|+.+.+..+++
T Consensus 27 q~~l~~eL~~~k~e 40 (128)
T PF06295_consen 27 QAKLEQELEQAKQE 40 (128)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444444433
No 55
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=44.96 E-value=37 Score=27.88 Aligned_cols=43 Identities=14% Similarity=0.241 Sum_probs=34.3
Q ss_pred HHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 29 FAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 29 f~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
-|=--+|++.---.++.++++..+|+++-++++.|+-++|..-
T Consensus 104 ~veaEik~L~s~Lt~eemQe~i~~L~kev~~~~erl~~~k~g~ 146 (201)
T KOG4603|consen 104 YVEAEIKELSSALTTEEMQEEIQELKKEVAGYRERLKNIKAGT 146 (201)
T ss_pred HHHHHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3334456666667789999999999999999999999888653
No 56
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=42.57 E-value=35 Score=23.28 Aligned_cols=23 Identities=30% Similarity=0.414 Sum_probs=17.8
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKK 62 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~ 62 (119)
+.+|.+|+++...|..||.-||.
T Consensus 20 K~~I~eL~~~n~~Le~EN~~Lk~ 42 (59)
T PF01166_consen 20 KEQIAELEERNSQLEEENNLLKQ 42 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 45788888888888888877664
No 57
>PF09813 Coiled-coil_56: Coiled-coil domain-containing protein 56; InterPro: IPR018628 Members of this family of proteins have no known function.
Probab=42.34 E-value=22 Score=26.34 Aligned_cols=31 Identities=29% Similarity=0.356 Sum_probs=24.0
Q ss_pred HHHHHHHhhhchhhhhhhhhhHHhHHHHHHH
Q 033431 26 IASFAALTLRSVKQQNDIEGLESEKESLVKA 56 (119)
Q Consensus 26 ~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~ 56 (119)
+.|+-..++.|+.|-.=.++++++....+..
T Consensus 62 v~gIY~YTi~sV~Qe~F~D~~eeeak~~~~~ 92 (100)
T PF09813_consen 62 VVGIYAYTIYSVKQEDFLDELEEEAKAARAR 92 (100)
T ss_pred HHHHHhheeeeechhhhHHHhhhHHHHhhhh
Confidence 3455567899999999999999888766553
No 58
>COG1792 MreC Cell shape-determining protein [Cell envelope biogenesis, outer membrane]
Probab=42.29 E-value=26 Score=28.82 Aligned_cols=24 Identities=42% Similarity=0.432 Sum_probs=13.3
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
+++.++.+..+|+++|+.|++-+|
T Consensus 84 ~~~~~~~~~~~l~~EN~~Lr~lL~ 107 (284)
T COG1792 84 ELEQLLEEVESLEEENKRLKELLD 107 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhC
Confidence 444555555666666666555443
No 59
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=42.12 E-value=65 Score=21.95 Aligned_cols=32 Identities=25% Similarity=0.413 Sum_probs=25.4
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
+++|+.|+.+.+.|.++-+.+++.|-.++..|
T Consensus 93 ~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l 124 (129)
T cd00890 93 KKRLETLEKQIEKLEKQLEKLQDQITELQEEL 124 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888888888877765
No 60
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=41.82 E-value=1e+02 Score=21.80 Aligned_cols=49 Identities=14% Similarity=0.070 Sum_probs=25.4
Q ss_pred HHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHH
Q 033431 8 TNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKA 56 (119)
Q Consensus 8 ~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~ 56 (119)
.+...+...=.+-.++++..+++++-+-+..+--++..+|++...|.++
T Consensus 53 ~~~vA~~lGi~~~~n~lf~~~i~~ll~~~~~l~~~is~le~~i~~L~qe 101 (115)
T PF10066_consen 53 LDWVAKLLGIGRPPNLLFYLGILFLLVIIFSLYVRISRLEEKIKRLAQE 101 (115)
T ss_pred HHHHHHHHCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555666666666655444444444444444444444433
No 61
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=40.87 E-value=56 Score=28.43 Aligned_cols=43 Identities=28% Similarity=0.214 Sum_probs=33.4
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHH------HHHHHHHHHHHHhhccCC
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKK------RMWDWKQQLYAEATTESA 80 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~------~Mw~wKq~LfaeAa~ds~ 80 (119)
=.|++|++|+++...+.++-...++ ...+|=|.||.+|-.|+.
T Consensus 179 LLqkk~~~l~~~l~~~~~eL~~~~k~L~faqekn~LlqslLddaniD~~ 227 (323)
T PF08537_consen 179 LLQKKIDELEERLNDLEKELEITKKDLKFAQEKNALLQSLLDDANIDSE 227 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccHH
Confidence 3578888888888777766555544 468999999999999885
No 62
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=40.77 E-value=1.5e+02 Score=22.58 Aligned_cols=52 Identities=17% Similarity=0.261 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhhchhhhhh----------------hhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 21 VNTCLIASFAALTLRSVKQQND----------------IEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 21 I~~~l~~sf~~L~~RS~~QQ~~----------------Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
+.++++..++++..|-...+++ |.++..+.+.++++++.+++++-..++.+-
T Consensus 10 l~iilli~~~~~~~kl~kl~r~Y~~lm~g~~~~~lE~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 77 (151)
T PF14584_consen 10 LVIILLILIIILNIKLRKLKRRYDALMRGKDGKNLEDLLNELFDQIDELKEELEELEKRIEELEEKLR 77 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555444443 445556777888888888888887777653
No 63
>PF09602 PhaP_Bmeg: Polyhydroxyalkanoic acid inclusion protein (PhaP_Bmeg); InterPro: IPR011728 This entry describes a protein found in polyhydroxyalkanoic acid (PHA) gene regions and incorporated into PHA inclusions in Bacillus cereus and Bacillus megaterium. The role of the protein may include amino acid storage [].
Probab=40.28 E-value=80 Score=25.12 Aligned_cols=44 Identities=27% Similarity=0.345 Sum_probs=35.1
Q ss_pred HHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHh
Q 033431 30 AALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEA 75 (119)
Q Consensus 30 ~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeA 75 (119)
==+..++++||+++ +-.-.+.|.++++.++....+|-++.....
T Consensus 32 e~~~l~~lkqqqd~--itk~veeLe~~~~q~~~~~s~~~~~~vk~L 75 (165)
T PF09602_consen 32 EQQTLKKLKQQQDW--ITKQVEELEKELKQFKREFSDLYEEYVKQL 75 (165)
T ss_pred HHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678899999987 777888888888888888888887776665
No 64
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=40.00 E-value=41 Score=23.70 Aligned_cols=24 Identities=25% Similarity=0.029 Sum_probs=10.3
Q ss_pred chhhHHHHHHHHHHHHhhhchhhh
Q 033431 17 SNTVVNTCLIASFAALTLRSVKQQ 40 (119)
Q Consensus 17 ~n~vI~~~l~~sf~~L~~RS~~QQ 40 (119)
.-+|-.+|---|+--=.++.|-+|
T Consensus 29 g~sv~evA~e~gIs~~tl~~W~r~ 52 (121)
T PRK09413 29 GMTVSLVARQHGVAASQLFLWRKQ 52 (121)
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHH
Confidence 335555554444433333334333
No 65
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=39.99 E-value=1.1e+02 Score=20.25 Aligned_cols=31 Identities=16% Similarity=0.379 Sum_probs=28.1
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
-.|+.+.+...+|+++|..|..+|=.-.++|
T Consensus 14 P~l~~~~~~l~el~~sQ~~L~~~i~~~~~~L 44 (92)
T PF14712_consen 14 PDLDRLDQQLQELRQSQEELLQQIDRLNEKL 44 (92)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3588899999999999999999999999888
No 66
>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=39.56 E-value=64 Score=25.47 Aligned_cols=35 Identities=29% Similarity=0.447 Sum_probs=29.5
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
.-+..|+.|+.+.++|+..|.+|.+++-+..+.+=
T Consensus 220 ~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~~ 254 (312)
T PF00038_consen 220 ELRRQIQSLQAELESLRAKNASLERQLRELEQRLD 254 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhHhhhhhhccccchhhhhhhHHHHHHHHH
Confidence 45678999999999999999999999987776553
No 67
>PF10018 Med4: Vitamin-D-receptor interacting Mediator subunit 4; InterPro: IPR019258 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Members of this family represent the Med4 subunit of the Mediator (Med) complex [, ]. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=39.46 E-value=64 Score=24.62 Aligned_cols=36 Identities=25% Similarity=0.319 Sum_probs=32.5
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHh
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEA 75 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeA 75 (119)
+.+|..|+++..+|...-+.+-+.+|.-+++|-..-
T Consensus 28 ~~~I~~L~~e~~~ld~~i~~~~~~L~~~~~~L~~~~ 63 (188)
T PF10018_consen 28 QARIQQLRAEIEELDEQIRDILKQLKEARKELRTLP 63 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999999999999999997654
No 68
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=39.37 E-value=21 Score=24.03 Aligned_cols=23 Identities=43% Similarity=0.632 Sum_probs=18.8
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~ 61 (119)
++.-+.+|-+|++.|++.|+.|+
T Consensus 19 H~~tL~~LH~EIe~Lq~~~~dL~ 41 (60)
T PF14916_consen 19 HAQTLKGLHAEIERLQKRNKDLT 41 (60)
T ss_pred HHHHHHHHHHHHHHHHHhccccc
Confidence 34457899999999999999875
No 69
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=38.56 E-value=76 Score=22.66 Aligned_cols=30 Identities=33% Similarity=0.591 Sum_probs=18.5
Q ss_pred hhhhhhhHHhHHH--------------HHHHhHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKES--------------LVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 40 Q~~Ie~Leaek~S--------------L~k~Nk~l~~~Mw~wKq 69 (119)
|-+|+.|.++..+ |..+|.-|+.---.|..
T Consensus 24 qmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~~~Wqe 67 (79)
T PRK15422 24 QMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQNGWQE 67 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHH
Confidence 4567777766444 44466666666666654
No 70
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=38.32 E-value=1.1e+02 Score=23.27 Aligned_cols=37 Identities=22% Similarity=0.181 Sum_probs=28.5
Q ss_pred HHHhhhch---hhhhhhhhhHHhHHHHHHHhHHHHHHHHH
Q 033431 30 AALTLRSV---KQQNDIEGLESEKESLVKANKDLKKRMWD 66 (119)
Q Consensus 30 ~~L~~RS~---~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~ 66 (119)
..|.||+. +++.+++.||.+.++|+-+.+.++.+--.
T Consensus 65 ~Sla~r~~~l~~~~~~L~~Le~r~e~Lk~~~~~~~~~~~~ 104 (120)
T PF04521_consen 65 ESLAWRHAQLSDLNLELEKLERREEQLKTQIQVLTAAAKL 104 (120)
T ss_pred HHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhH
Confidence 46788864 78889999999999998887776665433
No 71
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=38.00 E-value=47 Score=23.91 Aligned_cols=34 Identities=32% Similarity=0.569 Sum_probs=26.2
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHH---HHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRM---WDWKQQLYA 73 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~M---w~wKq~Lfa 73 (119)
+++|+.|+.++.+|..+|..|+..+ -.=|++|+.
T Consensus 48 ek~v~~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~Ll~ 84 (87)
T PF12709_consen 48 EKKVDELENENKALKRENEQLKKKLDTEREEKQELLK 84 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999999999999998753 444555553
No 72
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=37.38 E-value=82 Score=21.42 Aligned_cols=29 Identities=24% Similarity=0.389 Sum_probs=23.6
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+|+.|-..-.-|+.+|..|+...=.|.++
T Consensus 8 kle~Li~~~~~L~~EN~~Lr~q~~~~~~E 36 (65)
T TIGR02449 8 QVEHLLEYLERLKSENRLLRAQEKTWREE 36 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57777777788888999999888888765
No 73
>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=37.24 E-value=1.3e+02 Score=20.09 Aligned_cols=31 Identities=16% Similarity=0.359 Sum_probs=24.3
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.++..++....+++++|..+++.+=.+++-.
T Consensus 7 n~~~~~~~~i~tvk~en~~i~~~ve~i~env 37 (55)
T PF05377_consen 7 NELPRIESSINTVKKENEEISESVEKIEENV 37 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566677778888999999999888887754
No 74
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=37.00 E-value=40 Score=25.57 Aligned_cols=20 Identities=35% Similarity=0.589 Sum_probs=11.0
Q ss_pred hhhhhHHhHHHHHHHhHHHH
Q 033431 42 DIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~ 61 (119)
+|.+|.+...||.++|..|+
T Consensus 23 el~~lK~~l~~lvEEN~~L~ 42 (114)
T COG4467 23 ELGGLKQHLGSLVEENTALR 42 (114)
T ss_pred HHHHHHHHHHHHHHhhHHHH
Confidence 45555555555555555543
No 75
>PF05581 MCP_N: Vibrio chemotaxis protein N terminus; InterPro: IPR008762 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the N-terminal domain found in chemotaxis methyl-accepting proteins primarily from from Vibrio species.; PDB: 3C8C_A.
Probab=36.25 E-value=88 Score=22.89 Aligned_cols=64 Identities=14% Similarity=0.233 Sum_probs=20.3
Q ss_pred ChhHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhH-HHHHHHhHHHHHHHHHHHHHHHHHhh
Q 033431 1 MDLANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEK-ESLVKANKDLKKRMWDWKQQLYAEAT 76 (119)
Q Consensus 1 m~~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek-~SL~k~Nk~l~~~Mw~wKq~LfaeAa 76 (119)
|.|.+||+.++ +++|+..|.+|++-=+.+++ .+++++. .|+.+--++.+.++-+|=++=...|.
T Consensus 1 MKFshKIv~As----------S~lLlvt~slls~~q~~~vr--~~i~~~ve~sv~Ei~~~v~~tI~~~l~~k~~La~ 65 (103)
T PF05581_consen 1 MKFSHKIVLAS----------SLLLLVTVSLLSLQQYSTVR--NEIRSQVESSVNEIVDGVANTIQSWLNGKKSLAQ 65 (103)
T ss_dssp ----------------------------------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchhHHHHHHH----------HHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78999998776 36777777777664333332 2334443 46777788999999999665544443
No 76
>KOG4426 consensus Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=35.89 E-value=93 Score=29.28 Aligned_cols=52 Identities=25% Similarity=0.211 Sum_probs=44.8
Q ss_pred hhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhcc--CCcchHHHHHHHHcCCC
Q 033431 44 EGLESEKESLVKANKDLKKRMWDWKQQLYAEATTE--SALVPLARLKAIYGDVP 95 (119)
Q Consensus 44 e~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~d--s~~v~asRLr~IyGe~~ 95 (119)
+-|+.....|+++|+.++-|..-.+..+-++|+.+ -+.....||-.+|+-+.
T Consensus 32 e~L~~~l~~~q~~n~klk~r~sil~KSia~~~a~~~~~~~ni~~~L~~lF~~ai 85 (656)
T KOG4426|consen 32 ELLEHILVQLQKENDKLKYRLSILEKSIAEEAAKNEKFTSNIFRRLQSLFDVAI 85 (656)
T ss_pred chhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCccccccHHHHHHHHHHHHH
Confidence 45777788999999999999999999999999885 67888999999987543
No 77
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=35.79 E-value=83 Score=24.40 Aligned_cols=47 Identities=19% Similarity=0.219 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 20 VVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 20 vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
-|. |.+|..++ |.+|-.--+.||+.|.+|.++-..+.+.+=.+..+|
T Consensus 65 ~Ip-~~vGdvF~----~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m 111 (131)
T KOG1760|consen 65 DIP-FKVGDVFI----HVKLDKLQDQLEEKKETLEKEIEELESELESISARM 111 (131)
T ss_pred ccc-eehhhhhe----eccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344 44554333 455555555666666666655555544444444333
No 78
>PF06120 Phage_HK97_TLTM: Tail length tape measure protein; InterPro: IPR009302 This entry consists of the tail length tape measure protein from Bacteriophage HK97 and related sequences from Escherichia coli (strain K12).
Probab=35.60 E-value=41 Score=28.63 Aligned_cols=31 Identities=23% Similarity=0.319 Sum_probs=24.7
Q ss_pred hhhhhhhhhhHHhHHHHHHHhHHHHHHHHHH
Q 033431 37 VKQQNDIEGLESEKESLVKANKDLKKRMWDW 67 (119)
Q Consensus 37 ~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~w 67 (119)
.+|++.|++|+.+.++|+.+-+.....++++
T Consensus 84 ~~q~~~i~~l~~~i~~l~~~i~~y~~~~~~~ 114 (301)
T PF06120_consen 84 AAQKRAIEDLQKKIDSLKDQIKNYQQQLAEK 114 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3688899999999999988887776666654
No 79
>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=35.49 E-value=55 Score=29.36 Aligned_cols=30 Identities=30% Similarity=0.299 Sum_probs=20.9
Q ss_pred hhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 43 IEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 43 Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
.-+|+.|-++|++||..|+.-+=..+.+.+
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 347788888888888888776655444444
No 80
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=35.09 E-value=68 Score=30.35 Aligned_cols=27 Identities=33% Similarity=0.474 Sum_probs=24.5
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWD 66 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~ 66 (119)
.-+|++|+.|-++|++||.+|+.++-.
T Consensus 308 e~rLq~ll~Ene~Lk~ENatLk~qL~~ 334 (655)
T KOG4343|consen 308 EARLQALLSENEQLKKENATLKRQLDE 334 (655)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence 457999999999999999999999864
No 81
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=34.34 E-value=63 Score=26.17 Aligned_cols=51 Identities=18% Similarity=0.104 Sum_probs=35.0
Q ss_pred hhhHHHHHHHHHHHHhhhch--------hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 18 NTVVNTCLIASFAALTLRSV--------KQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~--------~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
+.||-...+|.||.=-||+- .||.+|++|+.+..+|..+-..|++..-...
T Consensus 75 E~~iF~vggg~lv~Ey~R~~~~e~~kee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~ 133 (181)
T KOG3335|consen 75 ELFIFSVGGGVLVFEYWRQARKERKKEEKRKQEIMELRLKVEKLENAIAELTKFFSQLH 133 (181)
T ss_pred hHHheeecceeeeehhHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555555666666677875 3566788888888888887777777665544
No 82
>PRK11546 zraP zinc resistance protein; Provisional
Probab=33.38 E-value=2.3e+02 Score=21.89 Aligned_cols=43 Identities=12% Similarity=0.138 Sum_probs=30.1
Q ss_pred hchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCC
Q 033431 35 RSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESA 80 (119)
Q Consensus 35 RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~ 80 (119)
=+-+||..++.+-.+- ..+-..|+..||.=+.+|=++-+++.+
T Consensus 44 LT~EQQa~~q~I~~~f---~~~t~~LRqqL~aKr~ELnALl~~~~p 86 (143)
T PRK11546 44 LTTEQQAAWQKIHNDF---YAQTSALRQQLVSKRYEYNALLTANPP 86 (143)
T ss_pred CCHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHcCCCC
Confidence 3567887777666554 345567888899988888887665443
No 83
>PRK00736 hypothetical protein; Provisional
Probab=32.91 E-value=1.5e+02 Score=19.68 Aligned_cols=22 Identities=27% Similarity=0.530 Sum_probs=12.2
Q ss_pred ChhHHHHHHHHHHhhcchhhHH
Q 033431 1 MDLANKLTNLAIKAINSNTVVN 22 (119)
Q Consensus 1 m~~~n~~~~~a~~a~n~n~vI~ 22 (119)
|.+-+||.++=+|.+.-+..|.
T Consensus 1 ~~~e~Ri~~LE~klafqe~tie 22 (68)
T PRK00736 1 MDAEERLTELEIRVAEQEKTIE 22 (68)
T ss_pred CCHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666555444443
No 84
>PF05423 Mycobact_memb: Mycobacterium membrane protein; InterPro: IPR008693 This family contains several membrane proteins from Mycobacterium species [].
Probab=32.72 E-value=12 Score=28.13 Aligned_cols=27 Identities=26% Similarity=0.412 Sum_probs=21.4
Q ss_pred HHHHhhccCCcchHHHHHHHHcCCCCC
Q 033431 71 LYAEATTESALVPLARLKAIYGDVPTP 97 (119)
Q Consensus 71 LfaeAa~ds~~v~asRLr~IyGe~~~p 97 (119)
|..-+..--.++...|||.+||.++.+
T Consensus 9 lv~v~v~~~~g~~V~rl~~~fg~~~~~ 35 (140)
T PF05423_consen 9 LVIVAVVAVGGFAVARLRGVFGSDDRP 35 (140)
T ss_pred HHHHhheeeeEEEEEEEecccCcccCc
Confidence 555566667888999999999998754
No 85
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=32.58 E-value=1.9e+02 Score=24.47 Aligned_cols=31 Identities=23% Similarity=0.334 Sum_probs=19.4
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
+.|.+|+.++++...|.++-+.++.++-.=+
T Consensus 70 ~~~~~i~~~~~eik~l~~eI~~~~~~I~~r~ 100 (265)
T COG3883 70 ELQKEIDQSKAEIKKLQKEIAELKENIVERQ 100 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666666666665533
No 86
>COG5374 Uncharacterized conserved protein [Function unknown]
Probab=32.55 E-value=2.1e+02 Score=23.45 Aligned_cols=67 Identities=21% Similarity=0.222 Sum_probs=46.8
Q ss_pred hHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhH-------HHHHHHhHHHHHHHHHHHHHHHH
Q 033431 3 LANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEK-------ESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 3 ~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek-------~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
+.-||..+|+++.|- -|..+-|+++.|+.=+..|....+++-++. |++++....++.+.. =+|.+++
T Consensus 87 ~~~~i~~las~fy~q---rnmyl~g~~L~l~~~v~~~~~~v~~ml~~~~~~~~k~D~~eA~~t~lk~~~~-~~~~~le 160 (192)
T COG5374 87 AVTRIAVLASRFYAQ---RNMYLSGSALFLSIVVMRVMSIVEEMLEENAKKGGKIDKMEADSTDLKARLR-KAQILLE 160 (192)
T ss_pred chhHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccchhhhhcchHHHHHHHh-hhhHHHH
Confidence 345677777777653 244556688888988999988888888877 777777777777766 3344443
No 87
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=32.31 E-value=38 Score=22.34 Aligned_cols=48 Identities=19% Similarity=0.229 Sum_probs=22.9
Q ss_pred HHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHH
Q 033431 5 NKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDL 60 (119)
Q Consensus 5 n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l 60 (119)
.||.++=++.+.-+..|.-+= --=..||++|+.|+.+..-|...-+++
T Consensus 4 ~Ri~~LE~~la~qe~~ie~Ln--------~~v~~Qq~~I~~L~~~l~~L~~rl~~~ 51 (69)
T PF04102_consen 4 ERIEELEIKLAFQEDTIEELN--------DVVTEQQRQIDRLQRQLRLLRERLREL 51 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555555554444443321 111357777777766666655544443
No 88
>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=32.22 E-value=75 Score=28.91 Aligned_cols=37 Identities=30% Similarity=0.329 Sum_probs=26.6
Q ss_pred hchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 35 RSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 35 RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
+.-+=..+++.|+.+-+.|+++|+.|++|--++.++.
T Consensus 67 ~~k~~r~~~~~l~~~N~~l~~eN~~L~~r~~~id~~i 103 (472)
T TIGR03752 67 EVKELRKRLAKLISENEALKAENERLQKREQSIDQQI 103 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 3334456788889999999999999988665554443
No 89
>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=32.10 E-value=1.1e+02 Score=26.93 Aligned_cols=45 Identities=27% Similarity=0.336 Sum_probs=34.0
Q ss_pred HHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHH-------HHHHHHHH
Q 033431 27 ASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRM-------WDWKQQLY 72 (119)
Q Consensus 27 ~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~M-------w~wKq~Lf 72 (119)
-.++-+-+|++- +-+++.|++|.+.|.++-+.+.+.. --|+++|-
T Consensus 392 ~~IL~m~L~~LT-~~e~~kL~~E~~~l~~ei~~l~~~l~~~~~~~~~i~~eL~ 443 (445)
T cd00187 392 DAILDMRLRRLT-KLEREKLLKELKELEAEIEDLEKILASEERPKDLWKEELD 443 (445)
T ss_pred HHHHHhHHHHhh-hhHHHHHHHHHHHHHHHHHHHHHHhcChHHHHHHHHHHHH
Confidence 344556667776 5678999999999999999998887 34777774
No 90
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=31.28 E-value=1.4e+02 Score=27.17 Aligned_cols=46 Identities=28% Similarity=0.214 Sum_probs=31.9
Q ss_pred hhhHHhHHHHHHHhHHHHHHHHHHHHHHHH----HhhccCCcchHHHHHH
Q 033431 44 EGLESEKESLVKANKDLKKRMWDWKQQLYA----EATTESALVPLARLKA 89 (119)
Q Consensus 44 e~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa----eAa~ds~~v~asRLr~ 89 (119)
+-..+||..|+|+.++|.+.|=.=|++|=. .|-..|+.-+-.|-|.
T Consensus 345 qlaLEEKaaLrkerd~L~keLeekkreleql~~q~~v~~saLdtCikaKs 394 (442)
T PF06637_consen 345 QLALEEKAALRKERDSLAKELEEKKRELEQLKMQLAVKTSALDTCIKAKS 394 (442)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhcc
Confidence 345577899999999999999988887643 3334555555555443
No 91
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=30.75 E-value=1.2e+02 Score=20.39 Aligned_cols=33 Identities=21% Similarity=0.312 Sum_probs=25.1
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
...++..|+++.+.|+.+-..+.+++-..+.++
T Consensus 68 ~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~ 100 (104)
T PF13600_consen 68 DSPELKELEEELEALEDELAALQDEIQALEAQI 100 (104)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455778888888888888888888777776654
No 92
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=30.46 E-value=2e+02 Score=20.43 Aligned_cols=69 Identities=14% Similarity=0.016 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHhhhchhhh---hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchHHHHHHHHc
Q 033431 22 NTCLIASFAALTLRSVKQQ---NDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALVPLARLKAIYG 92 (119)
Q Consensus 22 ~~~l~~sf~~L~~RS~~QQ---~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~asRLr~IyG 92 (119)
-+++++-++.|+.+=+-+. .....++++.+.++++|+.++.+-=.+++++-..=..+ -.--.+-|.-||
T Consensus 5 ~~vll~ll~~l~y~l~~g~~G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~--dyiEe~AR~~Lg 76 (105)
T PRK00888 5 TLLLLALLVWLQYSLWFGKNGILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQ--EAIEERARNELG 76 (105)
T ss_pred HHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcH--HHHHHHHHHHcC
Confidence 3344444445555544333 48999999999999999999999888888876443221 233344555454
No 93
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=30.36 E-value=71 Score=21.73 Aligned_cols=22 Identities=36% Similarity=0.477 Sum_probs=12.2
Q ss_pred hch-hhhhhhhhhHHhHHHHHHH
Q 033431 35 RSV-KQQNDIEGLESEKESLVKA 56 (119)
Q Consensus 35 RS~-~QQ~~Ie~Leaek~SL~k~ 56 (119)
||. +|+.+|+.|+++....++-
T Consensus 52 ~s~eeq~~~i~~Le~~i~~k~~~ 74 (83)
T PF07544_consen 52 RSVEEQEEEIEELEEQIRKKREV 74 (83)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 443 3556666666666554443
No 94
>PF14880 COX14: Cytochrome oxidase c assembly
Probab=30.25 E-value=1.5e+02 Score=19.00 Aligned_cols=41 Identities=15% Similarity=0.097 Sum_probs=24.9
Q ss_pred hhHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhh
Q 033431 2 DLANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQND 42 (119)
Q Consensus 2 ~~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~ 42 (119)
...+|+.|++-|..=---|--.+.+|+.++.++.+..+.++
T Consensus 4 ~~~~r~~D~~HR~tV~~Lig~T~~~g~~~~~~~y~~~~~~r 44 (59)
T PF14880_consen 4 AWGRRLADIAHRTTVLGLIGFTVYGGGLTVYTVYSYFKYNR 44 (59)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35678888887765443333344455666666677666554
No 95
>COG3105 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.19 E-value=93 Score=24.33 Aligned_cols=56 Identities=29% Similarity=0.312 Sum_probs=36.2
Q ss_pred hHHHHHHHHHHHHhhhchhhh----hhhhhhHHhHHHHH-------HHhHHHHHHHHHHHHHHHHHh
Q 033431 20 VVNTCLIASFAALTLRSVKQQ----NDIEGLESEKESLV-------KANKDLKKRMWDWKQQLYAEA 75 (119)
Q Consensus 20 vI~~~l~~sf~~L~~RS~~QQ----~~Ie~Leaek~SL~-------k~Nk~l~~~Mw~wKq~LfaeA 75 (119)
|+-++++.-|+=|+=||+.|| ++++.++.+.++-+ .+-.+|-|+|=.==|+|+.--
T Consensus 16 vvGi~IG~li~Rlt~~~~k~q~~~q~ELe~~K~~ld~~rqel~~HFa~sAeLlktl~~dYqklyqHm 82 (138)
T COG3105 16 VVGIIIGALIARLTNRKLKQQQKLQYELEKVKAQLDEYRQELVKHFARSAELLKTLAQDYQKLYQHM 82 (138)
T ss_pred HHHHHHHHHHHHHcchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555666888999994 55555555555443 345678888877777777543
No 96
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=30.04 E-value=1.4e+02 Score=24.21 Aligned_cols=41 Identities=20% Similarity=0.233 Sum_probs=24.2
Q ss_pred chhhhhhhhh----hHHhHHHHHHHhHHHHHHHHHHHHHHHHHhh
Q 033431 36 SVKQQNDIEG----LESEKESLVKANKDLKKRMWDWKQQLYAEAT 76 (119)
Q Consensus 36 S~~QQ~~Ie~----Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa 76 (119)
+++.|.+|-+ +.+..+.+.+......+.+-+.||.|+.+|=
T Consensus 371 pl~EQ~kI~~~l~~l~~~~d~i~~~~~~~l~~L~~lKqslLqk~f 415 (461)
T PRK09737 371 PLEEQAEIVRRVEQLFAYADTIEKQVNNALARVNNLTQSILAKAF 415 (461)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455666543 3333455555434455667789999998764
No 97
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=29.08 E-value=74 Score=23.53 Aligned_cols=34 Identities=29% Similarity=0.293 Sum_probs=27.3
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
=|.+|-.||-|..+++.-|+.|..|+--.-..|=
T Consensus 30 mkarIa~LEGE~r~~e~l~~dL~rrIkMLE~aLk 63 (134)
T PF08232_consen 30 MKARIAFLEGERRGQENLKKDLKRRIKMLEYALK 63 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788999999999999999999999854444433
No 98
>PF03980 Nnf1: Nnf1 ; InterPro: IPR007128 NNF1 is an essential yeast gene required for proper spindle orientation, nucleolar and nuclear envelope structure and mRNA export [].
Probab=28.93 E-value=1.1e+02 Score=21.11 Aligned_cols=33 Identities=15% Similarity=0.262 Sum_probs=27.0
Q ss_pred chhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 36 SVKQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 36 S~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
...-+..++.|.+....+.++|..|.+++=.=|
T Consensus 75 ~~~~~~~~~~L~~~l~~l~~eN~~L~~~i~~~r 107 (109)
T PF03980_consen 75 APYKKKEREQLNARLQELEEENEALAEEIQEQR 107 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344578899999999999999999998875443
No 99
>PF01484 Col_cuticle_N: Nematode cuticle collagen N-terminal domain; InterPro: IPR002486 The function of this domain is unknown. It is found in the N-terminal region of nematode cuticle collagens (see IPR008160 from INTERPRO). Cuticle is a tough elastic structure secreted by hypodermal cells and is primarily composed of collagen proteins [, ].; GO: 0042302 structural constituent of cuticle
Probab=28.70 E-value=1.3e+02 Score=17.77 Aligned_cols=27 Identities=26% Similarity=0.558 Sum_probs=21.7
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWD 66 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~ 66 (119)
-++|+.++.+.+.=-++=|..++.+|+
T Consensus 25 ~~~i~~~~~~~~~em~~fk~~s~d~W~ 51 (53)
T PF01484_consen 25 YNDIQNFQSELDDEMEEFKEISDDAWN 51 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 357888888888878888888888885
No 100
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=28.47 E-value=80 Score=22.06 Aligned_cols=23 Identities=26% Similarity=0.248 Sum_probs=17.7
Q ss_pred hhhhHHhHHHHHHHhHHHHHHHH
Q 033431 43 IEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 43 Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
|.+|-++.+.|++++..|++++-
T Consensus 73 vl~LLd~i~~Lr~el~~L~~~l~ 95 (101)
T PRK10265 73 ALTLLDEIAHLKQENRLLRQRLS 95 (101)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778888888888888887654
No 101
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=28.46 E-value=1.4e+02 Score=21.22 Aligned_cols=30 Identities=23% Similarity=0.391 Sum_probs=21.2
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.++.|+++..++.++++.++..+-.+++++
T Consensus 81 ~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~ 110 (118)
T PF13815_consen 81 QLEQLEERLQELQQEIEKLKQKLKKQKEEI 110 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367777777777777777777776666654
No 102
>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=28.44 E-value=87 Score=29.31 Aligned_cols=63 Identities=21% Similarity=0.250 Sum_probs=41.6
Q ss_pred HHHHHHHHhhcchhhHHHHHHHHHH-----HHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 6 KLTNLAIKAINSNTVVNTCLIASFA-----ALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 6 ~~~~~a~~a~n~n~vI~~~l~~sf~-----~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
+++.-|++-..++++...-++-.-+ +|-.--..|..+|++|++++.+|+...+.|.+|+=+.+
T Consensus 539 ~lL~~a~~vlreeYi~~~~~ar~ei~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l~~~ae~LaeR~e~a~ 606 (717)
T PF10168_consen 539 ELLSQATKVLREEYIEKQDLAREEIQRRVKLLKQQKEQQLKELQELQEERKSLRESAEKLAERYEEAK 606 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555556666655443322221 23333446777899999999999999999999988775
No 103
>PF08286 Spc24: Spc24 subunit of Ndc80; InterPro: IPR013252 Spc24 is a component of the evolutionarily conserved kinetochore-associated Ndc80 complex and is involved in chromosome segregation [].; PDB: 2VE7_D 2FV4_B 2FTX_B.
Probab=28.30 E-value=18 Score=25.76 Aligned_cols=33 Identities=30% Similarity=0.387 Sum_probs=1.4
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
+.+.+||.+..+|+.+-..|+..+=++.++.-.
T Consensus 13 K~~~~LE~~l~~l~~el~~L~~~l~eLe~~~~~ 45 (118)
T PF08286_consen 13 KELSDLESELESLQSELEELKEELEELEEQEVE 45 (118)
T ss_dssp ------------------------------HT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 568888999999998888888888888887766
No 104
>PRK14160 heat shock protein GrpE; Provisional
Probab=28.21 E-value=1.4e+02 Score=24.13 Aligned_cols=20 Identities=15% Similarity=0.257 Sum_probs=8.3
Q ss_pred hhhhhhhHHhHHHHHHHhHH
Q 033431 40 QNDIEGLESEKESLVKANKD 59 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~ 59 (119)
|.+++.|+++...|+++.+.
T Consensus 60 ~~e~~~l~~~l~~l~~e~~e 79 (211)
T PRK14160 60 KDENNKLKEENKKLENELEA 79 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444443333
No 105
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=28.05 E-value=2.5e+02 Score=21.81 Aligned_cols=30 Identities=40% Similarity=0.469 Sum_probs=26.2
Q ss_pred hhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 44 EGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 44 e~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
+.|+.+.+.|+.+..++..+|=+.|-.||+
T Consensus 91 e~l~k~i~~les~~e~I~~~m~~LK~~LYa 120 (131)
T KOG1760|consen 91 ETLEKEIEELESELESISARMDELKKVLYA 120 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568888888888999999999999998884
No 106
>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=27.72 E-value=85 Score=21.66 Aligned_cols=26 Identities=19% Similarity=0.133 Sum_probs=13.4
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDW 67 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~w 67 (119)
+++.|+++...|......|...++.|
T Consensus 87 ~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (113)
T cd01109 87 HREELEEQIAELQETLAYLDYKIDYY 112 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44555555555555555555544433
No 107
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=27.51 E-value=88 Score=28.92 Aligned_cols=25 Identities=16% Similarity=0.372 Sum_probs=17.8
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKK 62 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~ 62 (119)
.|-.+|++|+++..+|+++-+.|++
T Consensus 22 a~a~~i~~L~~ql~aLq~~v~eL~~ 46 (514)
T PF11336_consen 22 ATADQIKALQAQLQALQDQVNELRA 46 (514)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445788888888887776666654
No 108
>KOG3863 consensus bZIP transcription factor NRF1 [Transcription]
Probab=27.48 E-value=92 Score=29.24 Aligned_cols=31 Identities=35% Similarity=0.547 Sum_probs=27.5
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.+|++|+.||+.|.+|...+.++|--.||+|
T Consensus 518 ~ev~~l~~eKeqLl~Er~~~d~~L~~~kqql 548 (604)
T KOG3863|consen 518 DEVEKLQKEKEQLLRERDELDSTLGVMKQQL 548 (604)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688999999999999999999999888876
No 109
>PF06959 RecQ5: RecQ helicase protein-like 5 (RecQ5); InterPro: IPR010716 This family represents a conserved region approximately 200 residues long within eukaryotic RecQ helicase protein-like 5 (RecQ5). The RecQ helicases have been implicated in DNA repair and recombination, and RecQ5 may have an important role in DNA metabolism [].
Probab=27.48 E-value=30 Score=28.50 Aligned_cols=16 Identities=50% Similarity=0.480 Sum_probs=12.6
Q ss_pred HHHHHHHHhhc-cCCcc
Q 033431 67 WKQQLYAEATT-ESALV 82 (119)
Q Consensus 67 wKq~LfaeAa~-ds~~v 82 (119)
=|||||++|+. ||.-|
T Consensus 124 KKQQLLA~AA~KdSQnI 140 (205)
T PF06959_consen 124 KKQQLLAEAAKKDSQNI 140 (205)
T ss_pred HHHHHHHHHHhhhhhhH
Confidence 48999999994 66654
No 110
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=27.04 E-value=60 Score=27.95 Aligned_cols=28 Identities=29% Similarity=0.404 Sum_probs=19.6
Q ss_pred hhchhhhhhhhhhHHhHHHHHHHhHHHH
Q 033431 34 LRSVKQQNDIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 34 ~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~ 61 (119)
.|+.+=-|+|-||++|..-|..+|..|+
T Consensus 90 aRm~eme~~i~dL~een~~L~~en~~Lr 117 (292)
T KOG4005|consen 90 ARMEEMEYEIKDLTEENEILQNENDSLR 117 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677777888888877766666665554
No 111
>PTZ00374 dihydroxyacetone phosphate acyltransferase; Provisional
Probab=27.01 E-value=1.1e+02 Score=30.63 Aligned_cols=52 Identities=8% Similarity=0.074 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHH
Q 033431 3 LANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLV 54 (119)
Q Consensus 3 ~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~ 54 (119)
++++|..-....+|++++|+...+.|.++|+.|+..+-=..++|.+..+.|.
T Consensus 855 ~V~~LA~~Vm~rIN~aa~VtPtaLVAt~LL~L~~~~~~lt~~eL~~~V~wLl 906 (1108)
T PTZ00374 855 VLTNIAWHLTHKLQRNTIITPTALVAAVLECLGPTAGAMPLAEVQQGMTWLR 906 (1108)
T ss_pred HHHHHHHHHHHHHhccccccHHHHHHHHHHhcccccCCCCHHHHHHHHHHHH
Confidence 4566666677889999999999999999999988666555566666654444
No 112
>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=26.89 E-value=78 Score=25.86 Aligned_cols=29 Identities=14% Similarity=0.152 Sum_probs=20.3
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+..+||+|...+..+...|+..+-..|.+
T Consensus 94 Rn~ELE~elr~~~~~~~~L~~Ev~~L~~D 122 (248)
T PF08172_consen 94 RNAELEEELRKQQQTISSLRREVESLRAD 122 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777777777777766655
No 113
>PRK00567 mscL large-conductance mechanosensitive channel; Reviewed
Probab=26.81 E-value=1.1e+02 Score=23.26 Aligned_cols=22 Identities=23% Similarity=0.318 Sum_probs=18.4
Q ss_pred hhhHHHHHHHHHHHHhhhchhh
Q 033431 18 NTVVNTCLIASFAALTLRSVKQ 39 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~Q 39 (119)
+.+|+|++++-++.+-++..+.
T Consensus 78 ~avI~FlIia~vvF~ivk~~n~ 99 (134)
T PRK00567 78 NAVIDFLIIAFAIFLLVKLINK 99 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5789999999988888888875
No 114
>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]
Probab=26.48 E-value=93 Score=29.91 Aligned_cols=49 Identities=29% Similarity=0.392 Sum_probs=37.6
Q ss_pred hhhhhhhhHHhHHHHHHHh----HHHHHHHHHHHH----------------HHHHHhhccCCcchHHHH
Q 033431 39 QQNDIEGLESEKESLVKAN----KDLKKRMWDWKQ----------------QLYAEATTESALVPLARL 87 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~N----k~l~~~Mw~wKq----------------~LfaeAa~ds~~v~asRL 87 (119)
..++|..|+.|+.+|.+++ +.+.+.....|+ +-.++.-+.-+++|..+|
T Consensus 406 ~~~~~~~l~~e~~~~~~e~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~v~~~~Ia~vv~~~TgIPv~~l 474 (786)
T COG0542 406 LERELAQLEIEKEALEREQDEKEKKLIDEIIKLKEGRIPELEKELEAEVDEDDIAEVVARWTGIPVAKL 474 (786)
T ss_pred HHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhHHHHHhhccCHHHHHHHHHHHHCCChhhh
Confidence 3567888888888888887 566666666663 457888888899999876
No 115
>PF01401 Peptidase_M2: Angiotensin-converting enzyme This Prosite motif covers only the active site.; InterPro: IPR001548 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to the MEROPS peptidase family M2 (clan MA(E)). The protein fold of the peptidase domain for members of this family resembles that of thermolysin, the type example for clan MA. The catalytic residues and zinc ligands have been identified, the zinc ion being ligated to two His residues within the motif HEXXH, showing that the enzyme belongs to the E sub-group of metalloproteases []. Pepetidyl-dipeptidase A (angiotensin-converting enzyme) is a mammalian enzyme responsible for cleavage of dipeptides from the C-termini of proteins, notably converting angiotensin I to angiotensin II []. The enzyme exists in two differentially transcribed forms, the most common of which is from lung endothelium; this contains two homologous domains that have arisen by gene duplication []. The testis-specific form contains only the C-terminal domain, arising from a duplicated promoter region present in intron 12 of the gene []. Both enzymatic forms are membrane proteins that are anchored by means of a C-terminal transmembrane domain. Both domains of the endothelial enzyme are active, but have differing kinetic constants []. ]. A number of insect enzymes have been shown to be similar to peptidyl-dipeptidase A, these containing a single catalytic domain.; GO: 0008237 metallopeptidase activity, 0008241 peptidyl-dipeptidase activity, 0006508 proteolysis, 0016020 membrane; PDB: 2YDM_A 3BKL_A 2C6N_B 1UZE_A 3BKK_A 2C6F_B 2IUX_A 2IUL_A 2XYD_B 3NXQ_B ....
Probab=26.48 E-value=3e+02 Score=25.35 Aligned_cols=67 Identities=25% Similarity=0.293 Sum_probs=42.8
Q ss_pred HHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchH
Q 033431 5 NKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALVPL 84 (119)
Q Consensus 5 n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~a 84 (119)
.++|.++-+|+..|-+-.+.- -|||. |+.+.++++.+.|-++-+-|-+-+=..= =
T Consensus 170 ~~~V~L~N~aA~~nG~~d~g~-------~Wr~~---ye~~~~~~~~~~lw~~i~PLY~~LHayV---------------R 224 (595)
T PF01401_consen 170 ERYVELSNEAARLNGFKDTGE-------YWRSS---YEMPNFEQELERLWQQIKPLYKQLHAYV---------------R 224 (595)
T ss_dssp HHHHHHHHHHHHHTTSSSHHH-------HHHGG---G-CTTHHHHHHHHHHHHHHHHHHHHHHH---------------H
T ss_pred HHHHHHHHHHHHHcCCCCHHH-------HHHHH---hccccHHHHHHHHHHHHHHHHHHHHHHH---------------H
Confidence 467777777777665544432 37776 6788888888887766665554443332 2
Q ss_pred HHHHHHHcCCCC
Q 033431 85 ARLKAIYGDVPT 96 (119)
Q Consensus 85 sRLr~IyGe~~~ 96 (119)
.||+..||++-.
T Consensus 225 ~~L~~~Yg~~~v 236 (595)
T PF01401_consen 225 RKLREKYGDDVV 236 (595)
T ss_dssp HHHHHHHTTTTS
T ss_pred HHHHHHcCcccC
Confidence 478888887643
No 116
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=26.21 E-value=93 Score=27.60 Aligned_cols=33 Identities=21% Similarity=0.301 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHH
Q 033431 23 TCLIASFAALTLRSVKQQNDIEGLESEKESLVK 55 (119)
Q Consensus 23 ~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k 55 (119)
+++++++++.-+.--...++|+.|+++|.+|..
T Consensus 11 ii~i~~~~~~~~~rr~~~~~i~~Le~~k~~l~~ 43 (569)
T PRK04778 11 VIIIIAYLAGLILRKRNYKRIDELEERKQELEN 43 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334444444444446677899999999999864
No 117
>PF00570 HRDC: HRDC domain Bloom syndrome. Werner syndrome.; InterPro: IPR002121 The HRDC (Helicase and RNase D C-terminal) domain has a putative role in nucleic acid binding. Mutations in the HRDC domain associated with the human BLM gene result in Bloom Syndrome (BS), an autosomal recessive disorder characterised by proportionate pre- and postnatal growth deficiency; sun-sensitive, telangiectatic, hypo- and hyperpigmented skin; predisposition to malignancy; and chromosomal instability [].; GO: 0003676 nucleic acid binding, 0005622 intracellular; PDB: 3SAG_B 3SAH_B 2CPR_A 3SAF_B 3CYM_A 1WUD_A 2HBK_A 2HBJ_A 2HBM_A 2HBL_A ....
Probab=26.11 E-value=78 Score=19.40 Aligned_cols=18 Identities=28% Similarity=0.542 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 033431 58 KDLKKRMWDWKQQLYAEA 75 (119)
Q Consensus 58 k~l~~~Mw~wKq~LfaeA 75 (119)
..+-+.+|.||+++-.+-
T Consensus 2 ~~~~~~L~~~R~~~A~~~ 19 (68)
T PF00570_consen 2 LALLKALKEWREELAREE 19 (68)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHc
Confidence 456788999999986544
No 118
>PRK00295 hypothetical protein; Provisional
Probab=26.05 E-value=2e+02 Score=19.03 Aligned_cols=16 Identities=19% Similarity=0.335 Sum_probs=7.0
Q ss_pred hHHHHHHHHHHhhcch
Q 033431 3 LANKLTNLAIKAINSN 18 (119)
Q Consensus 3 ~~n~~~~~a~~a~n~n 18 (119)
+-.||.++=++.+.-+
T Consensus 3 ~e~Ri~~LE~kla~qE 18 (68)
T PRK00295 3 LEERVTELESRQAFQD 18 (68)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344444444444333
No 119
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=25.97 E-value=1.9e+02 Score=21.72 Aligned_cols=37 Identities=24% Similarity=0.373 Sum_probs=31.0
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
+.+-+|+++.+|...|.+-.+++.++.=.+|+-|+..
T Consensus 51 ~~ea~~e~~k~E~krL~~rkk~~e~~~~~Lk~yL~~~ 87 (162)
T PF05565_consen 51 NLEADIEAIKAEIKRLQERKKSIENRIDRLKEYLLDA 87 (162)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577888888999999888899999888888888765
No 120
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=25.78 E-value=74 Score=21.43 Aligned_cols=20 Identities=30% Similarity=0.451 Sum_probs=15.3
Q ss_pred hhhhhHHhHHHHHHHhHHHH
Q 033431 42 DIEGLESEKESLVKANKDLK 61 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~ 61 (119)
+|..|.+|.++|+++++..+
T Consensus 48 e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 48 ENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHhh
Confidence 57788888888888877654
No 121
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=25.56 E-value=1.6e+02 Score=21.67 Aligned_cols=22 Identities=18% Similarity=-0.028 Sum_probs=16.2
Q ss_pred HHHHHHHHHhhhchhhhhhhhh
Q 033431 24 CLIASFAALTLRSVKQQNDIEG 45 (119)
Q Consensus 24 ~l~~sf~~L~~RS~~QQ~~Ie~ 45 (119)
..+|||++.++=|+++=+....
T Consensus 71 wavgsF~l~s~~~we~Cr~~r~ 92 (118)
T PF12597_consen 71 WAVGSFFLGSLGSWEYCRYNRR 92 (118)
T ss_pred hhhHHHHHHHHHHHHHHHHHHH
Confidence 4688999999999887544433
No 122
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=25.43 E-value=1.2e+02 Score=20.39 Aligned_cols=25 Identities=24% Similarity=0.372 Sum_probs=14.1
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
.+|++|+.++..+..+.+.+..++-
T Consensus 77 ~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 77 EELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455566666666666555555543
No 123
>PRK04325 hypothetical protein; Provisional
Probab=25.35 E-value=78 Score=21.36 Aligned_cols=35 Identities=14% Similarity=0.120 Sum_probs=15.5
Q ss_pred hhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHH
Q 033431 34 LRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWK 68 (119)
Q Consensus 34 ~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wK 68 (119)
.|=.-|.+-|+.|-.-.....+.-..|+..+-...
T Consensus 16 ~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~ 50 (74)
T PRK04325 16 IQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLY 50 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344555555554444444444444444443333
No 124
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=25.31 E-value=3.4e+02 Score=21.36 Aligned_cols=13 Identities=23% Similarity=0.240 Sum_probs=9.2
Q ss_pred HHHHHHHHcCCCC
Q 033431 84 LARLKAIYGDVPT 96 (119)
Q Consensus 84 asRLr~IyGe~~~ 96 (119)
..|||.+.+-...
T Consensus 102 n~~L~~lL~~~~~ 114 (276)
T PRK13922 102 NARLRELLNLKES 114 (276)
T ss_pred HHHHHHHhcCccc
Confidence 4788888776554
No 125
>PRK02793 phi X174 lysis protein; Provisional
Probab=25.08 E-value=2.2e+02 Score=19.08 Aligned_cols=14 Identities=21% Similarity=0.280 Sum_probs=6.2
Q ss_pred hHHHHHHHHHHhhc
Q 033431 3 LANKLTNLAIKAIN 16 (119)
Q Consensus 3 ~~n~~~~~a~~a~n 16 (119)
+-.||.++=++.+.
T Consensus 6 ~e~Ri~~LE~~laf 19 (72)
T PRK02793 6 LEARLAELESRLAF 19 (72)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444443
No 126
>COG3264 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]
Probab=24.70 E-value=88 Score=30.42 Aligned_cols=37 Identities=22% Similarity=0.384 Sum_probs=31.7
Q ss_pred hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 38 KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 38 ~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
.||.+|.+++.+-+.+..+...+-+++++-|++||..
T Consensus 150 ~e~~~in~~~~~~e~ls~~~~~~ld~I~~~RReLf~~ 186 (835)
T COG3264 150 AEKAYINALEGQAEQLTAEVRDILDQILDTRRELLNS 186 (835)
T ss_pred hhHHHHHHHhcchhhhCHHHHHHHHHHHHHHHHHHHH
Confidence 4667788888888888888999999999999999953
No 127
>PHA02414 hypothetical protein
Probab=24.67 E-value=48 Score=25.04 Aligned_cols=27 Identities=37% Similarity=0.462 Sum_probs=21.5
Q ss_pred hhhchhhh---hhhhhhHHhHHHHHHHhHH
Q 033431 33 TLRSVKQQ---NDIEGLESEKESLVKANKD 59 (119)
Q Consensus 33 ~~RS~~QQ---~~Ie~Leaek~SL~k~Nk~ 59 (119)
++.|-.|- |+|+.||+..+.|..+|+.
T Consensus 53 Av~sEKqshi~yQi~~Lee~i~aL~~~n~k 82 (111)
T PHA02414 53 AVNSEKQSHIYYQIERLEEKISALAESNKK 82 (111)
T ss_pred hhhHHHhhHHHHHHHHHHHHHHHHHhcccc
Confidence 44555554 6999999999999999874
No 128
>PF11130 TraC_F_IV: F pilus assembly Type-IV secretion system for plasmid transfer
Probab=24.65 E-value=19 Score=27.19 Aligned_cols=74 Identities=18% Similarity=0.269 Sum_probs=51.9
Q ss_pred hHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhc-----
Q 033431 3 LANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATT----- 77 (119)
Q Consensus 3 ~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~----- 77 (119)
.++.|..+.+...-.++|||+++.++ ..|++.-+.-..++..+..+-..+|..+.+-+..+..
T Consensus 44 ~~~~L~~~l~~~lP~~t~iQ~~l~~s------------p~i~~~l~~~~~~r~~~~~~~~~~~~~r~~~~~~~~~~~~~~ 111 (235)
T PF11130_consen 44 TQEALESLLNDDLPEGTVIQFYLFAS------------PDIDPILDRYEALRSRQGPILRELAKRRAEFLRRGAWKGLGG 111 (235)
T ss_pred HHHHHHHHHcccCCCCCeEEEEEEeC------------CCHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHHhhcCCCc
Confidence 34556666666667788999887765 3566666666666766667889999999999998887
Q ss_pred -cCCcchHHHHH
Q 033431 78 -ESALVPLARLK 88 (119)
Q Consensus 78 -ds~~v~asRLr 88 (119)
++.++++.+.|
T Consensus 112 ~~~~~~~~R~~r 123 (235)
T PF11130_consen 112 LDDSPTPLRNFR 123 (235)
T ss_pred ccCCCceeEEEE
Confidence 44555444443
No 129
>KOG4797 consensus Transcriptional regulator [Transcription]
Probab=24.41 E-value=85 Score=24.10 Aligned_cols=40 Identities=23% Similarity=0.307 Sum_probs=26.1
Q ss_pred HHHHHHHHhhhch--hhhhhhhhhHHhHHHHHHHhHHHHHHH
Q 033431 25 LIASFAALTLRSV--KQQNDIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 25 l~~sf~~L~~RS~--~QQ~~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
|+-+-+..++|=- .=+.+|-+|++.-..|+.||.-|+...
T Consensus 56 LVKtHLmfAVREEVe~Lk~qI~eL~er~~~Le~EN~lLk~~~ 97 (123)
T KOG4797|consen 56 LVKTHLMFAVREEVEVLKEQIRELEERNSALERENSLLKTLA 97 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 4444555555531 235678888888888888887776544
No 130
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=24.20 E-value=1.9e+02 Score=20.18 Aligned_cols=32 Identities=28% Similarity=0.347 Sum_probs=22.4
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
+++|+.|++..+.|.++-..+++.+-.+...+
T Consensus 93 ~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l 124 (129)
T cd00584 93 DKKIEELTKQIEKLQKELAKLKDQINTLEAEL 124 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777777777777776665543
No 131
>COG4726 PilX Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=24.03 E-value=2.6e+02 Score=22.86 Aligned_cols=50 Identities=16% Similarity=0.200 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHhhhchhhhhhhhhhHHhHH-HHHHHhHHHHHHHHHHHHH
Q 033431 21 VNTCLIASFAALTLRSVKQQNDIEGLESEKE-SLVKANKDLKKRMWDWKQQ 70 (119)
Q Consensus 21 I~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~-SL~k~Nk~l~~~Mw~wKq~ 70 (119)
+.+++|+=|.+-++||..=|.+|-+.+-|+. +......+|++.=|.+.+.
T Consensus 22 ~~LvvltLl~l~~~r~~llqeRiSaN~~D~~lAfqaAEaaLr~~E~~i~n~ 72 (196)
T COG4726 22 MVLVVLTLLGLAAARSVLLQERISANERDRSLAFQAAEAALREGELQINNA 72 (196)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3455667777778999999999999987764 6677889999999988776
No 132
>PRK01203 prefoldin subunit alpha; Provisional
Probab=23.98 E-value=83 Score=23.84 Aligned_cols=28 Identities=18% Similarity=0.202 Sum_probs=19.4
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
+|+.|+.+.++|+.....+...+-..+.
T Consensus 15 q~e~l~~ql~~L~~a~se~~~~ie~L~~ 42 (130)
T PRK01203 15 LISSVDSQIDSLNKTLSEVQQTISFLSD 42 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4777777777777777777666655555
No 133
>PF01558 POR: Pyruvate ferredoxin/flavodoxin oxidoreductase; InterPro: IPR019752 This domain is found in prokaryotes. It includes a region of the large protein pyruvate-flavodoxin oxidoreductase and the whole pyruvate ferredoxin oxidoreductase gamma subunit protein. It is not known whether the gamma subunit has a catalytic or regulatory role. Pyruvate oxidoreductase (POR) catalyses the final step in the fermentation of carbohydrates in anaerobic microorganisms []. This involves the oxidative decarboxylation of pyruvate with the participation of thiamine followed by the transfer of an acetyl moiety to coenzyme A for the synthesis of acetyl-CoA []. The family also includes pyruvate flavodoxin oxidoreductase as encoded by the nifJ gene in cyanobacterium which is required for growth on molecular nitrogen when iron is limited [].; GO: 0016903 oxidoreductase activity, acting on the aldehyde or oxo group of donors, 0055114 oxidation-reduction process; PDB: 2RAA_A 3ON3_A 3G2E_A 2PDA_B 2C3Y_A 2C3P_B 2UZA_A 2C3U_B 2C42_A 1B0P_B ....
Probab=23.96 E-value=2.5e+02 Score=20.26 Aligned_cols=39 Identities=15% Similarity=0.164 Sum_probs=26.6
Q ss_pred HHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHH
Q 033431 8 TNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLES 48 (119)
Q Consensus 8 ~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Lea 48 (119)
..+|.+..++..+.|.+++|.++.++= +..+.-.+.+++
T Consensus 114 ~~ia~~~~~~~~~~N~~~lGa~~~~~~--l~~e~~~~~i~~ 152 (173)
T PF01558_consen 114 TEIAKELGGNPRFANMVMLGALAKLLG--LPLESLEEAIKE 152 (173)
T ss_dssp HHHHHHTTS-GGGHHHHHHHHHHHHHT--S-HHHHHHHHHH
T ss_pred HHHHHhhhcchhhHHHHHHHHHHHHcC--CCHHHHHHHHHH
Confidence 567888888899999999999987765 444333333433
No 134
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=23.88 E-value=2e+02 Score=24.32 Aligned_cols=39 Identities=23% Similarity=0.123 Sum_probs=33.8
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhc
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATT 77 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ 77 (119)
|-.+|..||.|...+..++-.-=..+-|.|++-|.||-.
T Consensus 163 ~s~kl~~LeqELvraEae~lvaEAqL~n~kR~~lKEa~~ 201 (271)
T PF13805_consen 163 QSPKLVVLEQELVRAEAENLVAEAQLSNIKRQKLKEAYS 201 (271)
T ss_dssp TTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CChHHHHHHHHHHHHHHHhhHHHHHHHHhhHHHHHHHHH
Confidence 456799999999998888888888899999999999854
No 135
>PF15496 DUF4646: Domain of unknown function (DUF4646)
Probab=23.62 E-value=38 Score=24.74 Aligned_cols=67 Identities=13% Similarity=0.196 Sum_probs=41.7
Q ss_pred hhHHHHHHHHHHhhcchhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHH
Q 033431 2 DLANKLTNLAIKAINSNTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYA 73 (119)
Q Consensus 2 ~~~n~~~~~a~~a~n~n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfa 73 (119)
.|.|-|...|.-..++..+.+++.+.+.+.+|+=..-=.+.|+....++. ...+...+-.|-+..|.
T Consensus 54 ~F~~dl~~aa~ls~~~~~~~~~~~~~~~v~~Gi~~~~v~~~~~~~~~~~k-----~~~v~~~i~~WN~~FF~ 120 (123)
T PF15496_consen 54 RFLNDLSEAASLSPSQSIVAGVGPIVMGVGFGIPAYLVAKAIRKAMKEKK-----RGEVESTIDQWNEGFFR 120 (123)
T ss_pred HHHHHHHHHHhcCcccceeeeeccccccccccchhhhhhHhhhhcccccc-----hHHHHHHHHHHHHHhcc
Confidence 57888888777777776677777776666655322222334444444333 56677777778777763
No 136
>PF13118 DUF3972: Protein of unknown function (DUF3972)
Probab=23.41 E-value=1.8e+02 Score=22.19 Aligned_cols=35 Identities=26% Similarity=0.470 Sum_probs=27.8
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
+.+=+.+.++-..+|+.+|+-||+++-.. |++|.+
T Consensus 76 heKvl~aKdETI~~lk~EN~fLKeAl~s~-QE~y~e 110 (126)
T PF13118_consen 76 HEKVLDAKDETIEALKNENRFLKEALYSM-QELYEE 110 (126)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHHH-HHHHHh
Confidence 56677888888899999999999998775 556643
No 137
>PF07558 Shugoshin_N: Shugoshin N-terminal coiled-coil region; InterPro: IPR011516 This entry represents the N-terminal domain of Shugoshin (Sgo1) kinetochore-attachment proteins. Shugoshin has a conserved coiled-coil N-terminal domain and a highly conserved C-terminal basic region (IPR011515 from INTERPRO). Shugoshin is a crucial target of Bub1 kinase that plays a central role in chromosome cohesion during mitosis and meiosis divisions by preventing premature dissociation of cohesin complex from centromeres after prophase, when most of cohesin complex dissociates from chromosomes arms [, ]. Shugoshin is thought to act by protecting Rec8 and Rad21 at the centromeres from separase degradation during anaphase I (during meiosis) so that sister chromatids remain tethered []. Shugoshin also acts as a spindle checkpoint component required for sensing tension between sister chromatids during mitosis, its degradation when they separate preventing cell cycle arrest and chromosome loss in anaphase, a time when sister chromatids are no longer under tension. Human shugoshin is diffusible and mediates kinetochore-driven formation of kinetochore-microtubules during bipolar spindle assembly []. Further, the primary role of shugoshin is to ensure bipolar attachment of kinetochores, and its role in protecting cohesion has co-developed to facilitate this process [].; GO: 0045132 meiotic chromosome segregation, 0000775 chromosome, centromeric region, 0005634 nucleus; PDB: 3FGA_D.
Probab=23.30 E-value=1.1e+02 Score=19.04 Aligned_cols=30 Identities=27% Similarity=0.382 Sum_probs=13.1
Q ss_pred hchhhhhhhhhhHHhHHHHHHHhHHHHHHH
Q 033431 35 RSVKQQNDIEGLESEKESLVKANKDLKKRM 64 (119)
Q Consensus 35 RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~M 64 (119)
+..-|--+|.+||.+...|..+|-.++...
T Consensus 15 ~Ns~l~~ki~~le~~~s~L~~en~~lR~~~ 44 (46)
T PF07558_consen 15 RNSALSIKIQELENEVSKLLNENVNLRELV 44 (46)
T ss_dssp ---------------HHHHHHHHHHHHHHH
T ss_pred HhHHHHhHHHHHHhHHHHHHHHHHHHHHHh
Confidence 344556688999999999999999998764
No 138
>PRK06798 fliD flagellar capping protein; Validated
Probab=23.26 E-value=1.6e+02 Score=25.76 Aligned_cols=34 Identities=18% Similarity=0.206 Sum_probs=21.4
Q ss_pred HhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHH
Q 033431 32 LTLRSVKQQNDIEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 32 L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
++-|+-.-+.+|..|+.+.+.+...-....+|+|
T Consensus 377 i~~r~~~l~~~i~~l~~~~~~~e~rl~~~e~~l~ 410 (440)
T PRK06798 377 IGERSKSIDNRVSKLDLKITDIDTQNKQKQDNIV 410 (440)
T ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666777777766666655555555544
No 139
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=23.20 E-value=1.8e+02 Score=22.89 Aligned_cols=31 Identities=29% Similarity=0.340 Sum_probs=18.3
Q ss_pred hhhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 42 DIEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 42 ~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
+|+.|+.+.++|+..|+.+.+.+-+=++++-
T Consensus 57 e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~ 87 (251)
T PF11932_consen 57 EYRQLEREIENLEVYNEQLERQVASQEQELA 87 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666666665555555443
No 140
>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=23.10 E-value=2.7e+02 Score=19.40 Aligned_cols=64 Identities=11% Similarity=0.194 Sum_probs=39.2
Q ss_pred HHHHHHhhcchhhHHHHHHHHHHHH-hhhc--hhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 8 TNLAIKAINSNTVVNTCLIASFAAL-TLRS--VKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 8 ~~~a~~a~n~n~vI~~~l~~sf~~L-~~RS--~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
|.-.....+.+..+-- ++|+.++. ..-. .+=..+|+.++++..+|.+.-+.+.+.+-+-.++|-
T Consensus 39 v~~eL~~l~~d~~vyk-~VG~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~ 105 (110)
T TIGR02338 39 ALEELERLPDDTPVYK-SVGNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQ 105 (110)
T ss_pred HHHHHHcCCCcchhHH-HhchhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444433 34444433 2111 134678888888889999888888888888777653
No 141
>KOG4782 consensus Predicted membrane protein [Function unknown]
Probab=23.04 E-value=2e+02 Score=21.65 Aligned_cols=40 Identities=20% Similarity=0.247 Sum_probs=26.9
Q ss_pred HhhcchhhHHHHHHHHHHH----HhhhchhhhhhhhhhHHhHHH
Q 033431 13 KAINSNTVVNTCLIASFAA----LTLRSVKQQNDIEGLESEKES 52 (119)
Q Consensus 13 ~a~n~n~vI~~~l~~sf~~----L~~RS~~QQ~~Ie~Leaek~S 52 (119)
++-|-.-.|++.-+|+.|+ ..+=|+.|.+-++.+++|...
T Consensus 53 ~aknykN~is~a~i~alViaIY~YTfYSikQErFLdEiddEaaA 96 (108)
T KOG4782|consen 53 FAKNYKNHISFAGIGALVIAIYGYTFYSIKQERFLDEIDDEAAA 96 (108)
T ss_pred HHhhhhhhhhhHHHHHHHHHhhhheeeehhHHHHHHHHHHHHHh
Confidence 3444334455555554443 467899999999999988765
No 142
>PRK13954 mscL large-conductance mechanosensitive channel; Provisional
Probab=22.81 E-value=1.3e+02 Score=22.49 Aligned_cols=23 Identities=13% Similarity=0.158 Sum_probs=18.7
Q ss_pred hhhHHHHHHHHHHHHhhhchhhh
Q 033431 18 NTVVNTCLIASFAALTLRSVKQQ 40 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~QQ 40 (119)
+.+|||++++..+.+-++..+.-
T Consensus 68 ~avinFlIiA~vvF~~vk~~~k~ 90 (119)
T PRK13954 68 QSVIDFIIIAFALFIFVKIANTL 90 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56889999998888888887753
No 143
>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=22.51 E-value=3.8e+02 Score=21.97 Aligned_cols=50 Identities=12% Similarity=0.076 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 22 NTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 22 ~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.++++-..+..+||...|.++++.+.+.-..|...=..+..+|-+....|
T Consensus 214 tL~a~L~~v~~~w~~~~~~~na~~I~~~~~~l~~~~~~~~~~~~~l~k~l 263 (304)
T PF02646_consen 214 TLMALLRTVAYLWRQEAQNKNAEEIAELAGKLYDRFGKFVEHLEKLGKSL 263 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777888999999999999999999988888888887777777766655
No 144
>PF01741 MscL: Large-conductance mechanosensitive channel, MscL; InterPro: IPR001185 Mechanosensitive ion channels (MscL) play a critical role in transducing physical stresses at the cell membrane into an electrochemical response. MscL is a protein which forms a channel organised as a homopentamer, with each subunit containing two transmembrane regions []. Prokaryotes harbor a large-conductance mechanosensitive channel (gene mscL) that opens in response to stretch forces in the membrane lipid bilayer and may participate in the regulation of osmotic pressure changes within the cell [].; GO: 0005216 ion channel activity, 0006810 transport, 0016021 integral to membrane; PDB: 3HZQ_A 2OAR_A.
Probab=22.44 E-value=1.7e+02 Score=21.71 Aligned_cols=25 Identities=20% Similarity=0.363 Sum_probs=18.9
Q ss_pred hhhHHHHHHHHHHHHhhhchhhhhh
Q 033431 18 NTVVNTCLIASFAALTLRSVKQQND 42 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~QQ~~ 42 (119)
+.+|+|++++.++.+-+|-.+.-++
T Consensus 75 ~a~I~FlIiA~vvFlivk~~nk~~~ 99 (128)
T PF01741_consen 75 NALINFLIIAFVVFLIVKPINKLKK 99 (128)
T ss_dssp HHHHHHHHHHHHHHHCHHHHHHCHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999888888877665433
No 145
>smart00341 HRDC Helicase and RNase D C-terminal. Hypothetical role in nucleic acid binding. Mutations in the HRDC domain cause human disease.
Probab=22.40 E-value=1.2e+02 Score=19.00 Aligned_cols=18 Identities=17% Similarity=0.549 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 033431 57 NKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 57 Nk~l~~~Mw~wKq~Lfae 74 (119)
+..+-..+|.||+++..+
T Consensus 4 ~~~~~~~L~~wR~~~A~~ 21 (81)
T smart00341 4 QLRLLRRLRQWRDEIARR 21 (81)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 446678899999997544
No 146
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=22.15 E-value=3.4e+02 Score=21.03 Aligned_cols=41 Identities=24% Similarity=0.403 Sum_probs=29.1
Q ss_pred HHhhhch-hhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 31 ALTLRSV-KQQNDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 31 ~L~~RS~-~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
..|+|-. .+.....+++.++..|++++..|.+.+-+|+...
T Consensus 109 ~f~~rk~l~~e~~~~~l~~~i~~L~~e~~~L~~~~~~l~~~~ 150 (189)
T PF10211_consen 109 AFGMRKALQAEQGKQELEEEIEELEEEKEELEKQVQELKNKC 150 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466653 3334467888888888888888888888887654
No 147
>TIGR03495 phage_LysB phage lysis regulatory protein, LysB family. Members of this protein family are phage lysis regulatory protein, including the well-studied protein LysB (lysis protein B) of Enterobacteria phage P2. For members of this family, genes are found in phage or in prophage regions of bacterial genomes, typically near a phage lysozyme or phage holin.
Probab=21.92 E-value=3.6e+02 Score=20.49 Aligned_cols=40 Identities=13% Similarity=0.080 Sum_probs=15.6
Q ss_pred HHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHH
Q 033431 24 CLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKR 63 (119)
Q Consensus 24 ~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~ 63 (119)
+++++...+++|=.+=+..++.-+.........+......
T Consensus 9 ~a~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~l~~~~~q 48 (135)
T TIGR03495 9 LLVAGLGWQSQRLRNARADLERANRVLKAQQAELASKANQ 48 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 3334444445543333333333333333333333333333
No 148
>PF15058 Speriolin_N: Speriolin N terminus
Probab=21.68 E-value=1.6e+02 Score=24.32 Aligned_cols=38 Identities=34% Similarity=0.462 Sum_probs=29.1
Q ss_pred hhhhHHhHHHHHHHhHHHHHHHHHHHHH-----HHHHhhccCC
Q 033431 43 IEGLESEKESLVKANKDLKKRMWDWKQQ-----LYAEATTESA 80 (119)
Q Consensus 43 Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~-----LfaeAa~ds~ 80 (119)
.|.|-..++-|.-||..|||..+=+|+. ++.||+.+..
T Consensus 7 yeGlrhqierLv~ENeeLKKlVrLirEN~eLksaL~ea~~~~~ 49 (200)
T PF15058_consen 7 YEGLRHQIERLVRENEELKKLVRLIRENHELKSALGEACAEPS 49 (200)
T ss_pred hHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 4678888889999999999999999874 3445555443
No 149
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=21.47 E-value=1.7e+02 Score=27.17 Aligned_cols=35 Identities=29% Similarity=0.366 Sum_probs=29.2
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAE 74 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lfae 74 (119)
+.+|..||+|+.-|+++|..|...+-..|.+|=.|
T Consensus 161 krr~~~le~e~~~Lk~en~rl~~~l~~~r~~ld~E 195 (546)
T KOG0977|consen 161 KRRIKALEDELKRLKAENSRLREELARARKQLDDE 195 (546)
T ss_pred HHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence 56789999999999999999999998888655443
No 150
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=21.33 E-value=1.6e+02 Score=23.74 Aligned_cols=30 Identities=13% Similarity=0.128 Sum_probs=24.5
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
|.+|++|+.|...|+-....+.-.|-..++
T Consensus 60 ~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~ 89 (263)
T PRK10803 60 QQQLSDNQSDIDSLRGQIQENQYQLNQVVE 89 (263)
T ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHHHHH
Confidence 789999999999999888777777766654
No 151
>PF14265 DUF4355: Domain of unknown function (DUF4355)
Probab=21.30 E-value=2.5e+02 Score=19.57 Aligned_cols=40 Identities=23% Similarity=0.263 Sum_probs=24.5
Q ss_pred hhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCC
Q 033431 39 QQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESA 80 (119)
Q Consensus 39 QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~ 80 (119)
++++++.++++.+.|.++... ..|-.-....+.++-.|..
T Consensus 47 ~~~e~~~~~~el~~~~~e~~~--~e~~~~~~~~l~e~GLp~~ 86 (125)
T PF14265_consen 47 AQEELEELEKELEELEAELAR--RELRSEAKKVLAEKGLPAE 86 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHcCCCHH
Confidence 457778888888877666552 2333445666666555444
No 152
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=21.17 E-value=1.9e+02 Score=22.99 Aligned_cols=31 Identities=26% Similarity=0.379 Sum_probs=20.8
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHH
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQL 71 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~L 71 (119)
.+++.|+.+...|.++|..|.+..-.++++-
T Consensus 111 ~e~~~l~~~~e~Le~e~~~L~~~~~~~~eDY 141 (161)
T TIGR02894 111 NQNESLQKRNEELEKELEKLRQRLSTIEEDY 141 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466667777777777777777666666554
No 153
>PF01763 Herpes_UL6: Herpesvirus UL6 like; InterPro: IPR002660 This family consists of various proteins from the Herpesviridae that are similar to Human herpesvirus 1 (HHV-1) UL6 virion protein. UL6 is essential for cleavage and packaging of the viral genome [].; GO: 0006323 DNA packaging
Probab=21.02 E-value=3.5e+02 Score=25.16 Aligned_cols=36 Identities=22% Similarity=0.303 Sum_probs=28.5
Q ss_pred hhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhh
Q 033431 41 NDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEAT 76 (119)
Q Consensus 41 ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa 76 (119)
.+|+.+=.+++.|+++|+.+.+++-+.+.+|-+-..
T Consensus 370 ~qIn~qf~tIe~Lk~~n~~~~~kl~~~e~~L~r~~~ 405 (557)
T PF01763_consen 370 GQINNQFDTIEDLKEENQDLEKKLRELESELSRYRE 405 (557)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788888888888888888888888888876544
No 154
>PF13874 Nup54: Nucleoporin complex subunit 54; PDB: 3T97_B.
Probab=20.78 E-value=1.2e+02 Score=22.13 Aligned_cols=40 Identities=18% Similarity=0.255 Sum_probs=10.1
Q ss_pred hHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHH
Q 033431 20 VVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDL 60 (119)
Q Consensus 20 vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l 60 (119)
+|-+ ++-||=-|.-|.--|+..+..+....+++...-+.|
T Consensus 24 ~~Pv-~i~GF~dL~~R~~~Q~~~~~~~~~~l~~i~~~l~~L 63 (141)
T PF13874_consen 24 LIPV-PIIGFEDLKKRVEAQEEEIAQHRERLKEINDKLEEL 63 (141)
T ss_dssp -----------------------HHHHHHHHHHHHHHHHHH
T ss_pred eeee-hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4443 457899999999999988777666655555444333
No 155
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=20.77 E-value=2e+02 Score=19.54 Aligned_cols=29 Identities=28% Similarity=0.350 Sum_probs=22.1
Q ss_pred hhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 44 EGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 44 e~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
-+.|+..+.|+++|=+|+=++.--.+.|-
T Consensus 3 rEqe~~i~~L~KENF~LKLrI~fLee~l~ 31 (75)
T PF07989_consen 3 REQEEQIDKLKKENFNLKLRIYFLEERLQ 31 (75)
T ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence 35677788888888888888877777665
No 156
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=20.76 E-value=3.7e+02 Score=22.02 Aligned_cols=46 Identities=17% Similarity=0.164 Sum_probs=23.3
Q ss_pred hHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcchHHHHHHHHcCCCC
Q 033431 49 EKESLVKANKDLKKRMWDWKQQLYAEATTESALVPLARLKAIYGDVPT 96 (119)
Q Consensus 49 ek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v~asRLr~IyGe~~~ 96 (119)
+...|++||+.|++.+=.-++++-.... .-----.|||.+.+=...
T Consensus 67 ~~~~l~~EN~~Lr~e~~~l~~~~~~~~~--~l~~EN~rLr~LL~~~~~ 112 (283)
T TIGR00219 67 DVNNLEYENYKLRQELLKKNQQLEILTQ--NLKQENVRLRELLNSPLS 112 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhcCccc
Confidence 3445566666666654333333222110 011124789999987764
No 157
>PF12834 Phage_int_SAM_2: Phage integrase, N-terminal; InterPro: IPR024457 Phage integrase proteins cleave DNA substrates by a series of staggered cuts, during which the protein becomes covalently linked to the DNA through a catalytic tyrosine residue at the carboxy end of the alignment [, ]. This entry represents the N-terminal predicted alpha-helical domain found in a family of putative prophage DNA-binding integrases.
Probab=20.61 E-value=85 Score=21.70 Aligned_cols=51 Identities=14% Similarity=0.158 Sum_probs=36.3
Q ss_pred hhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHH
Q 033431 18 NTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQ 69 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq 69 (119)
..|+..+.-.+|-+-.++++..+| |++|=....+--.+...+...|..+|-
T Consensus 30 ~~~~~~L~~~g~~i~~~~~lk~kH-I~~lv~~w~~~gis~~TiqN~ms~lR~ 80 (91)
T PF12834_consen 30 KRFARFLRELGFQIRSIRNLKPKH-IEALVQHWKAQGISPRTIQNEMSALRW 80 (91)
T ss_pred HHHHHHHHHCCCCcCCHHHhhHHH-HHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 345666666788888999998876 666655555546667788888887763
No 158
>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=20.46 E-value=3.6e+02 Score=19.85 Aligned_cols=23 Identities=30% Similarity=0.322 Sum_probs=10.5
Q ss_pred hhhhHHhHHHHHHHhHHHHHHHH
Q 033431 43 IEGLESEKESLVKANKDLKKRMW 65 (119)
Q Consensus 43 Ie~Leaek~SL~k~Nk~l~~~Mw 65 (119)
|..|+++..+|+++.+.++..+-
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~ 103 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELA 103 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444333
No 159
>PRK13953 mscL large-conductance mechanosensitive channel; Provisional
Probab=20.39 E-value=1.6e+02 Score=22.19 Aligned_cols=21 Identities=14% Similarity=0.227 Sum_probs=15.0
Q ss_pred hhhHHHHHHHHHHHHhhhchh
Q 033431 18 NTVVNTCLIASFAALTLRSVK 38 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~ 38 (119)
+.+|+|+.++-.+.+-++..+
T Consensus 71 ~avinFlIia~vvF~~vk~~n 91 (125)
T PRK13953 71 QSIVDFLIIAFAIFIFVKVLT 91 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467888888777777666655
No 160
>PF10593 Z1: Z1 domain; InterPro: IPR018310 This entry represents the Z1 domain of unknown function that is found in a group of putative endonucleases. This domain is found associated with a helicase domain of superfamily type II [].
Probab=20.34 E-value=2.9e+02 Score=22.09 Aligned_cols=75 Identities=11% Similarity=0.128 Sum_probs=39.2
Q ss_pred hhhHHHHHHHHHHHHhhhchhhhhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHHHHhhccCCcc-hHHHHHHHHcCCCC
Q 033431 18 NTVVNTCLIASFAALTLRSVKQQNDIEGLESEKESLVKANKDLKKRMWDWKQQLYAEATTESALV-PLARLKAIYGDVPT 96 (119)
Q Consensus 18 n~vI~~~l~~sf~~L~~RS~~QQ~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~LfaeAa~ds~~v-~asRLr~IyGe~~~ 96 (119)
+.+..|++.+++..+- +|..+=...-=-.+-.+..++.+++.+-+|-.++-..-....... .+.+|+.+|-++-.
T Consensus 5 ~Ai~~Fll~~Air~~r----g~~~~~~SMLIH~S~~~~~h~~~~~~I~~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~~ 80 (239)
T PF10593_consen 5 DAIRWFLLACAIRRLR----GQGNKHNSMLIHTSRFVDVHEQVADWIEEYLNELKKALRYNDDDPEELNELRELWEEDFE 80 (239)
T ss_pred HHHHHHHHHHHHHHHh----CCCCCCceeEEECcccHHHHHHHHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHhh
Confidence 3455566555554432 332221111122233455666666666666555555444433332 28899999887664
No 161
>PF05663 DUF809: Protein of unknown function (DUF809); InterPro: IPR008527 This family consists of several proteins of unknown function Raphanus sativus (Radish) and Brassica napus (Rape).
Probab=20.33 E-value=84 Score=24.14 Aligned_cols=23 Identities=26% Similarity=0.218 Sum_probs=17.1
Q ss_pred hhhHHHHHHHHH----HHHhhhchhhh
Q 033431 18 NTVVNTCLIASF----AALTLRSVKQQ 40 (119)
Q Consensus 18 n~vI~~~l~~sf----~~L~~RS~~QQ 40 (119)
-+||+|||++-. .-|+|-|-+|.
T Consensus 22 vsvisffllayllmahiwlswfsnnqh 48 (138)
T PF05663_consen 22 VSVISFFLLAYLLMAHIWLSWFSNNQH 48 (138)
T ss_pred eehHHHHHHHHHHHHHHHHHHHcCcHH
Confidence 479999987644 45888888874
No 162
>PF06637 PV-1: PV-1 protein (PLVAP); InterPro: IPR009538 This family consists of several PV-1 (PLVAP) proteins, which seem to be specific to mammals. PV-1 is a novel protein component of the endothelial fenestral and stomatal diaphragms []. The function of this family is unknown.
Probab=20.32 E-value=3.7e+02 Score=24.58 Aligned_cols=45 Identities=11% Similarity=0.246 Sum_probs=28.7
Q ss_pred hhHHHHHHHHHHHHhhhc---hhhhhhhhhhHHhHHHHHHHhHHHHHH
Q 033431 19 TVVNTCLIASFAALTLRS---VKQQNDIEGLESEKESLVKANKDLKKR 63 (119)
Q Consensus 19 ~vI~~~l~~sf~~L~~RS---~~QQ~~Ie~Leaek~SL~k~Nk~l~~~ 63 (119)
+.||++.+.|.|+.-+=- ..--..++++|..-+.|...|..|+..
T Consensus 33 SLIQ~LIIlgLVLFmVYGn~h~~te~~lq~~e~ra~~L~~q~~~L~~~ 80 (442)
T PF06637_consen 33 SLIQFLIILGLVLFMVYGNVHVSTESRLQATEQRADRLYSQVVGLRAS 80 (442)
T ss_pred HHHHHHHHHHHHHHHhhCCcchhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678999988877654431 111267888887777666555555443
No 163
>smart00143 PI3K_p85B PI3-kinase family, p85-binding domain. Region of p110 PI3K that binds the p85 subunit.
Probab=20.29 E-value=79 Score=22.10 Aligned_cols=18 Identities=17% Similarity=0.281 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 033431 61 KKRMWDWKQQLYAEATTE 78 (119)
Q Consensus 61 ~~~Mw~wKq~LfaeAa~d 78 (119)
..|+-++|++|+.+|..-
T Consensus 9 ~aTl~~IK~~lw~~A~~~ 26 (78)
T smart00143 9 EATLSTIKHELFKQARKM 26 (78)
T ss_pred cccHHHHHHHHHHHHHhC
Confidence 457889999999999864
No 164
>PF11683 DUF3278: Protein of unknown function (DUF3278); InterPro: IPR021697 This bacterial family of proteins has no known function.
Probab=20.02 E-value=2.1e+02 Score=20.65 Aligned_cols=31 Identities=23% Similarity=0.286 Sum_probs=19.7
Q ss_pred hhhhhhhHHhHHHHHHHhHHHHHHHHHHHHHHH
Q 033431 40 QNDIEGLESEKESLVKANKDLKKRMWDWKQQLY 72 (119)
Q Consensus 40 Q~~Ie~Leaek~SL~k~Nk~l~~~Mw~wKq~Lf 72 (119)
+..+.+.|-+..+-.|++|.+ +.|-|+++++
T Consensus 88 ~~~l~~~Ev~~~~~~k~~k~~--~~~~i~~Gi~ 118 (129)
T PF11683_consen 88 KLHLDDNEVSAKEYSKAKKKL--RKKGIKAGIF 118 (129)
T ss_pred HhCCCccccCcccHHHHHHHH--HHHHHHHHHH
Confidence 444455555555656677765 4667888876
Done!