Query 031887
Match_columns 151
No_of_seqs 109 out of 630
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 06:44:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031887.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031887hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02996 Prefoldin: Prefoldin 100.0 1.1E-29 2.3E-34 182.2 13.7 119 20-139 1-119 (120)
2 cd00584 Prefoldin_alpha Prefol 100.0 1.5E-28 3.2E-33 178.9 18.6 123 16-139 7-129 (129)
3 TIGR00293 prefoldin, archaeal 100.0 4.4E-28 9.5E-33 175.8 17.7 117 18-136 9-125 (126)
4 PRK03947 prefoldin subunit alp 100.0 1.5E-27 3.2E-32 176.1 19.6 132 6-139 5-136 (140)
5 PRK14011 prefoldin subunit alp 100.0 1.3E-27 2.7E-32 177.5 18.8 115 18-136 13-127 (144)
6 COG1730 GIM5 Predicted prefold 100.0 1.9E-27 4.2E-32 176.2 19.4 134 4-139 3-136 (145)
7 KOG3047 Predicted transcriptio 100.0 3E-27 6.4E-32 170.4 17.2 145 4-148 12-156 (157)
8 cd00890 Prefoldin Prefoldin is 99.9 1.3E-25 2.8E-30 162.4 18.7 121 18-139 9-129 (129)
9 KOG3048 Molecular chaperone Pr 99.9 2E-25 4.4E-30 163.1 17.4 129 8-138 14-142 (153)
10 PRK01203 prefoldin subunit alp 99.9 4.2E-25 9.1E-30 160.8 16.9 118 18-139 10-127 (130)
11 KOG3313 Molecular chaperone Pr 99.8 8.8E-19 1.9E-23 132.2 12.6 116 25-140 54-171 (187)
12 KOG3130 Uncharacterized conser 99.2 1.9E-10 4.2E-15 96.8 9.6 106 24-131 12-117 (514)
13 TIGR02338 gimC_beta prefoldin, 98.9 1E-07 2.2E-12 67.7 12.2 108 2-139 2-109 (110)
14 cd00632 Prefoldin_beta Prefold 98.7 1.8E-07 3.8E-12 65.9 9.7 96 18-138 9-104 (105)
15 cd00890 Prefoldin Prefoldin is 98.6 1.1E-06 2.4E-11 63.1 10.4 113 4-130 3-127 (129)
16 cd00584 Prefoldin_alpha Prefol 98.3 1.5E-05 3.2E-10 57.7 10.6 113 4-130 3-127 (129)
17 PRK03947 prefoldin subunit alp 98.2 4.6E-05 9.9E-10 56.0 11.4 61 78-138 55-128 (140)
18 PRK09343 prefoldin subunit bet 98.2 7.1E-05 1.5E-09 54.1 11.8 113 1-139 1-113 (121)
19 TIGR00293 prefoldin, archaeal 98.1 5.3E-05 1.1E-09 54.6 10.8 107 18-139 2-121 (126)
20 PF01920 Prefoldin_2: Prefoldi 98.1 0.0003 6.5E-09 48.6 14.2 95 18-137 8-102 (106)
21 PRK14011 prefoldin subunit alp 98.1 6.5E-05 1.4E-09 56.0 11.4 125 1-138 1-136 (144)
22 COG1382 GimC Prefoldin, chaper 97.9 0.00038 8.3E-09 50.2 11.7 111 3-143 6-116 (119)
23 PRK01203 prefoldin subunit alp 97.9 0.00047 1E-08 50.5 11.8 101 19-138 4-121 (130)
24 COG1730 GIM5 Predicted prefold 97.7 0.0019 4E-08 48.2 12.5 117 5-135 11-139 (145)
25 PF13758 Prefoldin_3: Prefoldi 97.1 0.00024 5.3E-09 49.6 1.8 91 34-126 7-97 (99)
26 PF02996 Prefoldin: Prefoldin 97.0 0.004 8.7E-08 44.1 7.1 101 18-131 6-118 (120)
27 KOG3478 Prefoldin subunit 6, K 96.2 0.02 4.4E-07 40.7 6.3 53 88-140 60-112 (120)
28 KOG4098 Molecular chaperone Pr 96.0 0.094 2E-06 38.5 9.1 89 18-131 25-113 (140)
29 PRK00736 hypothetical protein; 89.6 3 6.4E-05 27.0 7.0 45 94-138 2-53 (68)
30 PRK00295 hypothetical protein; 89.5 3.1 6.7E-05 26.9 7.0 45 94-138 2-53 (68)
31 PRK09343 prefoldin subunit bet 88.8 5.3 0.00012 28.6 8.5 109 1-134 5-115 (121)
32 PF15456 Uds1: Up-regulated Du 86.3 11 0.00023 27.4 10.5 94 9-127 18-111 (124)
33 TIGR02231 conserved hypothetic 84.7 19 0.00041 31.8 11.4 101 18-140 74-174 (525)
34 PF07889 DUF1664: Protein of u 84.7 5 0.00011 29.2 6.5 44 94-137 58-101 (126)
35 PF04102 SlyX: SlyX; InterPro 84.4 5.9 0.00013 25.6 6.1 44 95-138 9-52 (69)
36 PF04102 SlyX: SlyX; InterPro 82.0 11 0.00024 24.2 6.9 50 95-144 2-51 (69)
37 PRK02793 phi X174 lysis protei 80.2 14 0.0003 24.1 6.8 40 99-138 17-56 (72)
38 KOG3478 Prefoldin subunit 6, K 78.7 21 0.00047 25.5 8.0 98 18-133 15-112 (120)
39 PF04977 DivIC: Septum formati 77.9 2.4 5.2E-05 27.3 2.6 54 94-147 21-74 (80)
40 PF02388 FemAB: FemAB family; 77.8 11 0.00023 32.4 7.2 52 89-140 234-295 (406)
41 PRK04325 hypothetical protein; 77.7 17 0.00037 23.8 6.8 42 97-138 16-57 (74)
42 TIGR02338 gimC_beta prefoldin, 76.5 11 0.00023 26.3 5.8 102 4-131 7-108 (110)
43 PF08946 Osmo_CC: Osmosensory 76.4 7.7 0.00017 23.3 4.1 34 94-127 2-35 (46)
44 PRK05771 V-type ATP synthase s 76.3 61 0.0013 29.5 15.9 35 18-52 96-130 (646)
45 PRK04406 hypothetical protein; 76.1 20 0.00042 23.7 7.6 40 99-138 20-59 (75)
46 KOG1760 Molecular chaperone Pr 75.6 29 0.00062 25.3 12.5 47 88-134 72-118 (131)
47 PF05377 FlaC_arch: Flagella a 75.5 13 0.00029 23.2 5.3 36 102-137 5-40 (55)
48 cd00632 Prefoldin_beta Prefold 74.7 13 0.00028 25.6 5.8 99 6-130 5-103 (105)
49 PRK00295 hypothetical protein; 74.6 20 0.00043 23.1 7.8 34 98-131 20-53 (68)
50 PF10498 IFT57: Intra-flagella 74.0 19 0.00041 30.7 7.6 49 4-52 252-300 (359)
51 PRK00736 hypothetical protein; 73.6 21 0.00046 23.0 7.7 35 97-131 19-53 (68)
52 COG1382 GimC Prefoldin, chaper 73.6 16 0.00035 26.3 6.1 90 18-132 23-112 (119)
53 PF13118 DUF3972: Protein of u 73.3 5.9 0.00013 28.9 3.8 75 58-134 28-122 (126)
54 PF14282 FlxA: FlxA-like prote 73.0 19 0.00042 25.1 6.3 46 94-139 16-72 (106)
55 PRK02119 hypothetical protein; 71.4 26 0.00055 22.9 6.8 43 96-138 15-57 (73)
56 cd01109 HTH_YyaN Helix-Turn-He 71.4 28 0.0006 24.2 6.9 39 93-131 58-106 (113)
57 PRK02119 hypothetical protein; 70.7 27 0.00058 22.8 7.7 43 95-137 7-49 (73)
58 PF05190 MutS_IV: MutS family 70.1 17 0.00036 23.7 5.3 20 22-41 4-23 (92)
59 COG1579 Zn-ribbon protein, pos 69.9 39 0.00085 27.3 8.2 42 95-136 94-135 (239)
60 PRK02793 phi X174 lysis protei 69.9 28 0.0006 22.7 7.0 46 93-138 4-49 (72)
61 PRK04406 hypothetical protein; 69.7 29 0.00063 22.8 7.1 43 95-137 9-51 (75)
62 COG3937 Uncharacterized conser 69.3 29 0.00062 24.6 6.4 27 92-118 38-64 (108)
63 cd04786 HTH_MerR-like_sg7 Heli 67.5 44 0.00095 24.1 8.0 39 109-147 83-121 (131)
64 PRK04325 hypothetical protein; 67.0 33 0.00071 22.4 7.0 43 95-137 7-49 (74)
65 PF08317 Spc7: Spc7 kinetochor 66.4 75 0.0016 26.4 9.8 46 95-140 221-266 (325)
66 KOG1655 Protein involved in va 66.2 17 0.00037 28.6 5.2 37 94-130 16-52 (218)
67 PHA02751 hypothetical protein; 65.7 9.5 0.00021 29.6 3.7 68 59-126 123-200 (233)
68 PF04065 Not3: Not1 N-terminal 63.9 69 0.0015 25.7 8.5 33 91-123 116-148 (233)
69 KOG3905 Dynein light intermedi 63.2 22 0.00047 30.6 5.7 102 8-122 143-258 (473)
70 PHA03386 P10 fibrous body prot 63.1 47 0.001 22.9 6.3 48 95-142 10-60 (94)
71 PF09278 MerR-DNA-bind: MerR, 62.6 29 0.00062 21.3 5.0 26 94-119 33-58 (65)
72 PTZ00464 SNF-7-like protein; P 62.6 26 0.00056 27.7 5.7 36 93-128 14-49 (211)
73 PTZ00454 26S protease regulato 62.6 1E+02 0.0022 26.5 10.2 22 85-106 106-127 (398)
74 cd01106 HTH_TipAL-Mta Helix-Tu 62.4 25 0.00054 23.9 5.1 41 93-136 58-98 (103)
75 cd04769 HTH_MerR2 Helix-Turn-H 61.8 27 0.00059 24.4 5.3 37 94-130 76-112 (116)
76 PF08172 CASP_C: CASP C termin 61.8 84 0.0018 25.4 10.1 46 97-142 86-138 (248)
77 PF09006 Surfac_D-trimer: Lung 61.5 29 0.00062 20.9 4.4 27 18-44 2-28 (46)
78 PRK11637 AmiB activator; Provi 61.2 1.1E+02 0.0023 26.3 12.4 24 18-41 43-66 (428)
79 PHA02562 46 endonuclease subun 61.0 93 0.002 27.3 9.6 34 18-51 309-342 (562)
80 PRK00846 hypothetical protein; 59.9 49 0.0011 22.0 7.7 41 98-138 21-61 (77)
81 TIGR01062 parC_Gneg DNA topois 58.4 1E+02 0.0022 28.9 9.6 89 16-130 354-443 (735)
82 PF05377 FlaC_arch: Flagella a 57.7 44 0.00096 20.8 7.1 44 4-48 4-47 (55)
83 cd04776 HTH_GnyR Helix-Turn-He 57.4 60 0.0013 22.8 6.5 34 97-130 80-113 (118)
84 KOG2577 Transcription factor E 56.5 41 0.00089 28.7 6.2 53 79-131 126-178 (354)
85 KOG3335 Predicted coiled-coil 55.9 58 0.0013 25.2 6.4 61 78-139 74-134 (181)
86 PRK00846 hypothetical protein; 54.8 61 0.0013 21.6 7.0 47 95-141 11-61 (77)
87 PRK04863 mukB cell division pr 54.8 2.5E+02 0.0055 28.7 13.8 54 95-148 440-493 (1486)
88 PF03670 UPF0184: Uncharacteri 54.7 64 0.0014 21.8 6.7 41 96-136 25-65 (83)
89 PF10805 DUF2730: Protein of u 54.2 63 0.0014 22.5 6.0 36 100-135 45-82 (106)
90 PF05783 DLIC: Dynein light in 53.5 59 0.0013 28.8 7.0 50 61-121 182-231 (472)
91 PRK13752 putative transcriptio 53.4 87 0.0019 22.9 7.5 29 107-135 87-115 (144)
92 PF14193 DUF4315: Domain of un 53.3 45 0.00098 22.4 4.9 22 109-130 6-27 (83)
93 PF13600 DUF4140: N-terminal d 52.7 70 0.0015 21.6 6.5 35 101-135 67-101 (104)
94 PF10158 LOH1CR12: Tumour supp 52.6 88 0.0019 22.8 7.4 46 4-50 53-98 (131)
95 PRK05561 DNA topoisomerase IV 52.1 1.4E+02 0.003 28.1 9.4 93 15-133 366-459 (742)
96 PF10392 COG5: Golgi transport 51.7 87 0.0019 22.4 6.7 44 8-52 66-110 (132)
97 PRK00888 ftsB cell division pr 51.6 80 0.0017 22.0 6.2 49 98-146 35-83 (105)
98 PF14131 DUF4298: Domain of un 51.4 64 0.0014 21.8 5.6 38 9-47 2-39 (90)
99 cd01109 HTH_YyaN Helix-Turn-He 51.3 63 0.0014 22.3 5.7 35 94-128 76-110 (113)
100 cd04776 HTH_GnyR Helix-Turn-He 51.1 84 0.0018 22.1 7.2 42 93-134 56-110 (118)
101 PRK11637 AmiB activator; Provi 51.0 70 0.0015 27.5 7.0 16 26-41 44-59 (428)
102 PF01920 Prefoldin_2: Prefoldi 50.9 72 0.0016 21.3 6.4 42 103-144 4-45 (106)
103 PF04949 Transcrip_act: Transc 50.5 93 0.002 23.5 6.6 44 95-138 82-125 (159)
104 KOG1760 Molecular chaperone Pr 49.4 64 0.0014 23.5 5.5 34 94-127 85-118 (131)
105 PRK13182 racA polar chromosome 49.4 74 0.0016 24.3 6.2 31 94-124 82-112 (175)
106 TIGR02047 CadR-PbrR Cd(II)/Pb( 49.2 66 0.0014 22.9 5.6 23 109-131 84-106 (127)
107 PF03962 Mnd1: Mnd1 family; I 49.0 81 0.0018 24.2 6.4 45 85-130 50-95 (188)
108 PRK04863 mukB cell division pr 48.9 27 0.00058 35.3 4.5 36 4-40 989-1024(1486)
109 cd04787 HTH_HMRTR_unk Helix-Tu 48.9 97 0.0021 22.1 7.7 48 93-140 58-115 (133)
110 TIGR02043 ZntR Zn(II)-responsi 48.1 99 0.0022 22.1 7.7 48 93-140 59-117 (131)
111 TIGR00219 mreC rod shape-deter 47.4 71 0.0015 26.2 6.2 10 78-87 131-140 (283)
112 PF02388 FemAB: FemAB family; 47.0 1.3E+02 0.0027 25.8 7.9 10 63-72 303-312 (406)
113 cd01107 HTH_BmrR Helix-Turn-He 46.9 93 0.002 21.4 6.3 11 94-104 60-70 (108)
114 cd01282 HTH_MerR-like_sg3 Heli 46.5 97 0.0021 21.4 6.6 11 93-103 57-67 (112)
115 PF10224 DUF2205: Predicted co 46.2 88 0.0019 20.9 6.8 40 1-40 1-41 (80)
116 PF08946 Osmo_CC: Osmosensory 45.7 64 0.0014 19.3 4.1 31 95-125 10-40 (46)
117 COG3883 Uncharacterized protei 45.5 1.1E+02 0.0023 25.2 6.8 26 102-127 50-75 (265)
118 cd04775 HTH_Cfa-like Helix-Tur 45.1 95 0.0021 21.1 5.7 35 93-127 58-94 (102)
119 cd01282 HTH_MerR-like_sg3 Heli 44.9 72 0.0016 22.1 5.2 34 92-125 76-109 (112)
120 PF04728 LPP: Lipoprotein leuc 44.4 78 0.0017 19.8 6.1 31 102-132 8-38 (56)
121 PF06698 DUF1192: Protein of u 44.2 81 0.0018 19.9 5.0 28 102-129 26-53 (59)
122 KOG2909 Vacuolar H+-ATPase V1 43.8 2.1E+02 0.0046 24.6 8.5 97 20-128 55-152 (381)
123 KOG1556 26S proteasome regulat 42.9 1.6E+02 0.0034 24.3 7.3 70 77-146 151-243 (309)
124 cd04779 HTH_MerR-like_sg4 Heli 42.9 1.1E+02 0.0025 22.1 6.1 42 93-134 57-104 (134)
125 cd04766 HTH_HspR Helix-Turn-He 42.6 67 0.0014 21.3 4.5 29 93-126 59-87 (91)
126 PRK10803 tol-pal system protei 42.3 1.3E+02 0.0029 24.2 7.0 31 108-138 58-88 (263)
127 cd04786 HTH_MerR-like_sg7 Heli 42.2 1.2E+02 0.0026 21.8 6.1 38 94-131 75-112 (131)
128 TIGR01837 PHA_granule_1 poly(h 41.7 1.3E+02 0.0027 21.4 6.3 18 93-110 37-54 (118)
129 cd04787 HTH_HMRTR_unk Helix-Tu 41.7 1.3E+02 0.0028 21.5 6.2 36 94-129 76-111 (133)
130 cd04783 HTH_MerR1 Helix-Turn-H 41.7 1.2E+02 0.0027 21.3 7.6 27 109-135 82-108 (126)
131 PF01330 RuvA_N: RuvA N termin 41.6 45 0.00097 20.6 3.3 30 69-98 3-35 (61)
132 PRK10780 periplasmic chaperone 41.4 1.4E+02 0.0031 22.0 7.6 38 42-81 123-160 (165)
133 cd04770 HTH_HMRTR Helix-Turn-H 41.2 1.1E+02 0.0024 21.3 5.7 11 93-103 58-68 (123)
134 PF00038 Filament: Intermediat 41.1 86 0.0019 25.4 5.8 45 90-134 181-225 (312)
135 PRK13182 racA polar chromosome 41.1 1.1E+02 0.0024 23.3 6.0 38 7-45 85-122 (175)
136 cd04783 HTH_MerR1 Helix-Turn-H 41.0 1.1E+02 0.0023 21.6 5.6 34 95-128 75-108 (126)
137 cd04785 HTH_CadR-PbrR-like Hel 40.8 1.1E+02 0.0023 21.7 5.6 26 109-134 84-109 (126)
138 TIGR02043 ZntR Zn(II)-responsi 40.5 1.2E+02 0.0026 21.6 5.9 36 94-129 78-113 (131)
139 PF11471 Sugarporin_N: Maltopo 40.5 88 0.0019 19.7 4.5 29 101-129 29-57 (60)
140 PRK09514 zntR zinc-responsive 40.3 82 0.0018 22.8 5.0 11 93-103 59-69 (140)
141 cd01107 HTH_BmrR Helix-Turn-He 40.3 81 0.0018 21.7 4.8 32 96-127 74-105 (108)
142 COG4396 Mu-like prophage host- 40.3 1.1E+02 0.0024 22.8 5.7 84 4-103 29-119 (170)
143 PF08232 Striatin: Striatin fa 40.2 1.2E+02 0.0025 22.1 5.8 36 102-137 30-65 (134)
144 PF06103 DUF948: Bacterial pro 40.0 1.1E+02 0.0024 20.2 5.9 24 106-129 28-51 (90)
145 PF07195 FliD_C: Flagellar hoo 39.8 1.4E+02 0.0031 23.4 6.8 28 97-124 193-220 (239)
146 cd01108 HTH_CueR Helix-Turn-He 39.8 1.2E+02 0.0025 21.5 5.7 27 108-134 83-109 (127)
147 PF08285 DPM3: Dolichol-phosph 39.5 30 0.00065 23.7 2.4 31 84-114 55-85 (91)
148 cd04784 HTH_CadR-PbrR Helix-Tu 39.3 1.2E+02 0.0027 21.3 5.8 45 93-137 58-112 (127)
149 cd04770 HTH_HMRTR Helix-Turn-H 39.3 1.3E+02 0.0028 20.9 7.5 31 94-124 76-106 (123)
150 PF13600 DUF4140: N-terminal d 39.2 88 0.0019 21.1 4.8 37 94-130 67-103 (104)
151 PF09726 Macoilin: Transmembra 38.9 1.7E+02 0.0036 27.3 7.8 107 6-136 544-661 (697)
152 PRK10227 DNA-binding transcrip 38.6 1.2E+02 0.0025 22.0 5.6 30 96-125 78-107 (135)
153 TIGR02894 DNA_bind_RsfA transc 38.5 1.8E+02 0.0038 22.2 6.6 12 92-103 79-90 (161)
154 PF04977 DivIC: Septum formati 38.4 1E+02 0.0022 19.4 5.4 30 101-130 21-50 (80)
155 PRK06798 fliD flagellar cappin 38.4 1.1E+02 0.0023 26.8 6.2 9 9-17 265-273 (440)
156 TIGR02044 CueR Cu(I)-responsiv 38.3 1.3E+02 0.0027 21.3 5.7 10 94-103 59-68 (127)
157 TIGR02894 DNA_bind_RsfA transc 38.1 1.5E+02 0.0032 22.5 6.2 42 99-140 113-154 (161)
158 PRK09514 zntR zinc-responsive 38.1 1.3E+02 0.0029 21.7 5.9 32 94-125 78-109 (140)
159 cd04789 HTH_Cfa Helix-Turn-Hel 38.1 94 0.002 21.2 4.8 10 94-103 59-68 (102)
160 PF02465 FliD_N: Flagellar hoo 38.0 1.2E+02 0.0027 20.2 6.3 33 21-53 18-50 (99)
161 TIGR02051 MerR Hg(II)-responsi 37.9 1.4E+02 0.0031 21.0 7.6 42 93-134 57-106 (124)
162 TIGR02051 MerR Hg(II)-responsi 37.8 1.3E+02 0.0028 21.2 5.7 38 93-130 72-109 (124)
163 PF12329 TMF_DNA_bd: TATA elem 37.7 1.1E+02 0.0025 19.8 5.8 36 96-131 32-67 (74)
164 COG3883 Uncharacterized protei 37.6 1.6E+02 0.0035 24.1 6.8 33 102-134 64-96 (265)
165 cd04784 HTH_CadR-PbrR Helix-Tu 37.4 1.5E+02 0.0032 20.9 7.6 35 94-128 76-110 (127)
166 PF13747 DUF4164: Domain of un 37.4 1.3E+02 0.0028 20.3 6.0 25 91-115 2-26 (89)
167 cd04773 HTH_TioE_rpt2 Second H 37.4 1.4E+02 0.003 20.6 5.8 48 93-140 58-107 (108)
168 PF14282 FlxA: FlxA-like prote 36.8 1.4E+02 0.0031 20.6 6.2 20 104-123 19-38 (106)
169 PRK13752 putative transcriptio 36.5 1.3E+02 0.0028 22.0 5.6 35 95-129 82-116 (144)
170 PF09789 DUF2353: Uncharacteri 36.4 2.6E+02 0.0057 23.5 11.3 101 18-141 12-116 (319)
171 PRK02224 chromosome segregatio 36.3 3.7E+02 0.0079 25.2 14.5 40 97-136 258-297 (880)
172 PF09726 Macoilin: Transmembra 36.2 99 0.0022 28.8 5.9 44 97-140 538-581 (697)
173 PRK07737 fliD flagellar cappin 36.2 1.2E+02 0.0026 26.9 6.3 40 100-139 444-487 (501)
174 PRK06664 fliD flagellar hook-a 36.2 1.1E+02 0.0024 28.3 6.2 41 98-138 601-645 (661)
175 KOG0250 DNA repair protein RAD 35.8 1.9E+02 0.0041 28.4 7.7 61 60-123 623-687 (1074)
176 PF07106 TBPIP: Tat binding pr 35.5 1E+02 0.0022 22.9 5.0 12 43-54 34-45 (169)
177 COG3879 Uncharacterized protei 35.5 2.4E+02 0.0052 22.9 7.3 31 11-42 54-84 (247)
178 TIGR01063 gyrA DNA gyrase, A s 35.4 2.9E+02 0.0063 26.1 8.9 94 15-131 353-447 (800)
179 PF04740 LXG: LXG domain of WX 35.3 1.9E+02 0.0042 21.7 6.9 52 93-144 145-196 (204)
180 KOG3048 Molecular chaperone Pr 35.3 1.9E+02 0.0042 21.7 11.6 108 4-125 17-136 (153)
181 PF10481 CENP-F_N: Cenp-F N-te 35.3 1.3E+02 0.0028 25.1 5.8 54 98-151 96-149 (307)
182 PF06156 DUF972: Protein of un 35.2 1.6E+02 0.0034 20.7 6.1 29 103-131 7-35 (107)
183 PF10234 Cluap1: Clusterin-ass 35.1 1.4E+02 0.003 24.5 6.0 50 91-140 163-219 (267)
184 PHA02107 hypothetical protein 34.7 1E+02 0.0022 23.8 4.8 37 98-134 178-214 (216)
185 PRK05560 DNA gyrase subunit A; 34.6 3.2E+02 0.0069 25.9 9.0 94 16-132 357-451 (805)
186 PF11932 DUF3450: Protein of u 34.6 2.2E+02 0.0048 22.5 7.1 35 96-130 62-96 (251)
187 PF12757 DUF3812: Protein of u 34.1 1.1E+02 0.0025 21.9 4.9 14 58-71 56-69 (126)
188 PF14385 DUF4416: Domain of un 34.1 65 0.0014 24.5 3.7 33 61-95 93-131 (164)
189 PRK13922 rod shape-determining 34.1 2.4E+02 0.0053 22.5 7.5 32 18-49 72-103 (276)
190 PF04568 IATP: Mitochondrial A 34.0 1.6E+02 0.0035 20.5 7.0 39 96-134 61-99 (100)
191 TIGR02383 Hfq RNA chaperone Hf 33.7 89 0.0019 19.8 3.7 37 48-87 8-44 (61)
192 PRK13923 putative spore coat p 33.3 2.2E+02 0.0048 21.8 7.5 43 99-141 113-155 (170)
193 PRK03918 chromosome segregatio 33.2 4E+02 0.0088 24.8 12.9 15 102-116 685-699 (880)
194 PF00170 bZIP_1: bZIP transcri 33.2 1.2E+02 0.0026 18.7 5.8 33 106-138 28-60 (64)
195 PF10158 LOH1CR12: Tumour supp 32.8 1.5E+02 0.0033 21.5 5.4 34 102-135 54-87 (131)
196 PF05529 Bap31: B-cell recepto 32.8 1.5E+02 0.0034 22.3 5.7 36 95-130 152-187 (192)
197 cd01108 HTH_CueR Helix-Turn-He 32.6 1.8E+02 0.0039 20.5 7.0 30 96-125 78-107 (127)
198 PF00384 Molybdopterin: Molybd 32.5 61 0.0013 27.1 3.7 28 85-112 12-39 (432)
199 COG5124 Protein predicted to b 32.3 2E+02 0.0043 22.5 6.1 46 85-131 63-109 (209)
200 TIGR01843 type_I_hlyD type I s 32.2 1.6E+02 0.0034 24.5 6.2 23 19-41 78-100 (423)
201 PF11932 DUF3450: Protein of u 32.1 2.6E+02 0.0055 22.1 7.5 27 18-44 73-99 (251)
202 PF05531 NPV_P10: Nucleopolyhe 32.0 1.5E+02 0.0033 19.6 5.4 47 96-142 10-66 (75)
203 PTZ00454 26S protease regulato 31.8 2.6E+02 0.0057 24.0 7.5 50 93-142 18-67 (398)
204 COG5509 Uncharacterized small 31.7 1.3E+02 0.0028 19.2 4.2 24 102-125 30-53 (65)
205 PF06156 DUF972: Protein of un 31.5 1.8E+02 0.004 20.3 8.0 52 1-53 1-57 (107)
206 cd04785 HTH_CadR-PbrR-like Hel 31.5 1.9E+02 0.0041 20.4 7.5 33 95-127 77-109 (126)
207 TIGR02132 phaR_Bmeg polyhydrox 31.3 2.5E+02 0.0055 21.8 6.6 14 4-17 83-96 (189)
208 KOG4302 Microtubule-associated 31.1 3.8E+02 0.0082 25.0 8.7 43 102-144 224-266 (660)
209 PRK00395 hfq RNA-binding prote 31.0 93 0.002 20.8 3.6 39 47-88 11-49 (79)
210 cd01106 HTH_TipAL-Mta Helix-Tu 31.0 1.5E+02 0.0033 19.9 5.0 29 96-124 72-100 (103)
211 PRK02509 hypothetical protein; 30.6 1.9E+02 0.0041 28.1 6.8 42 61-102 905-955 (973)
212 PF10498 IFT57: Intra-flagella 30.6 2.4E+02 0.0051 24.1 6.9 43 94-136 249-291 (359)
213 PF03938 OmpH: Outer membrane 30.4 2.1E+02 0.0045 20.6 5.9 31 43-75 117-147 (158)
214 cd01716 Hfq Hfq, an abundant, 30.1 95 0.0021 19.7 3.4 37 48-87 4-40 (61)
215 PF07544 Med9: RNA polymerase 30.1 1.2E+02 0.0026 20.1 4.2 23 93-115 24-46 (83)
216 PRK15002 redox-sensitivie tran 29.9 2.3E+02 0.0051 21.0 6.7 42 93-134 68-120 (154)
217 cd04765 HTH_MlrA-like_sg2 Heli 29.8 68 0.0015 21.9 3.0 34 93-126 59-98 (99)
218 PF13863 DUF4200: Domain of un 29.5 1.9E+02 0.0042 20.0 5.7 36 18-53 84-119 (126)
219 PF12841 YvrJ: YvrJ protein fa 29.4 64 0.0014 18.5 2.3 17 102-118 20-36 (38)
220 PRK10227 DNA-binding transcrip 29.2 2.2E+02 0.0048 20.5 7.0 43 93-135 58-110 (135)
221 PF04111 APG6: Autophagy prote 28.9 2.7E+02 0.0059 23.1 7.0 29 104-132 57-85 (314)
222 cd04769 HTH_MerR2 Helix-Turn-H 28.6 2E+02 0.0044 19.9 7.2 45 93-137 57-112 (116)
223 cd04777 HTH_MerR-like_sg1 Heli 28.3 1.7E+02 0.0036 19.9 4.8 12 93-104 56-67 (107)
224 PF07352 Phage_Mu_Gam: Bacteri 28.2 2.3E+02 0.0051 20.6 5.8 40 5-44 15-61 (149)
225 cd04777 HTH_MerR-like_sg1 Heli 27.9 1.2E+02 0.0026 20.6 4.0 27 95-121 79-105 (107)
226 PRK09039 hypothetical protein; 27.6 2.5E+02 0.0054 23.6 6.5 7 106-112 146-152 (343)
227 PRK13922 rod shape-determining 27.5 1.4E+02 0.003 23.9 4.8 35 16-50 77-111 (276)
228 PHA02562 46 endonuclease subun 27.3 4.2E+02 0.0091 23.1 12.6 29 96-124 298-326 (562)
229 PRK10884 SH3 domain-containing 27.3 3E+02 0.0066 21.5 12.7 31 102-132 137-167 (206)
230 PRK13169 DNA replication intia 27.2 2.3E+02 0.005 20.0 6.1 28 103-130 7-34 (110)
231 COG5185 HEC1 Protein involved 27.2 4.7E+02 0.01 23.6 9.7 42 11-53 261-302 (622)
232 PRK03992 proteasome-activating 26.7 3.2E+02 0.007 23.1 7.2 47 95-141 6-52 (389)
233 PRK00068 hypothetical protein; 26.6 2.9E+02 0.0063 26.9 7.4 46 58-103 830-885 (970)
234 smart00338 BRLZ basic region l 26.4 1.6E+02 0.0036 18.1 5.9 33 106-138 28-60 (65)
235 TIGR01070 mutS1 DNA mismatch r 26.4 4.2E+02 0.0091 25.2 8.4 10 66-75 455-464 (840)
236 PRK08032 fliD flagellar cappin 26.4 2.3E+02 0.005 24.8 6.3 38 102-139 411-452 (462)
237 PF04859 DUF641: Plant protein 26.3 2.6E+02 0.0057 20.4 7.0 43 4-47 84-126 (131)
238 TIGR02044 CueR Cu(I)-responsiv 26.3 2.4E+02 0.0051 19.9 7.0 34 94-127 76-109 (127)
239 PF13368 Toprim_C_rpt: Topoiso 26.2 1.2E+02 0.0026 18.8 3.4 15 91-105 34-48 (61)
240 PF13151 DUF3990: Protein of u 26.2 57 0.0012 24.3 2.2 28 78-105 18-45 (154)
241 PF04568 IATP: Mitochondrial A 25.9 2.3E+02 0.0051 19.7 6.1 21 13-33 63-83 (100)
242 PRK06798 fliD flagellar cappin 25.8 1.3E+02 0.0027 26.4 4.6 13 126-138 412-424 (440)
243 KOG0605 NDR and related serine 25.8 5.1E+02 0.011 23.6 8.9 102 2-111 67-190 (550)
244 PF04340 DUF484: Protein of un 25.8 2.6E+02 0.0057 21.6 6.1 39 95-133 38-76 (225)
245 TIGR02047 CadR-PbrR Cd(II)/Pb( 25.8 2.4E+02 0.0053 19.9 7.5 33 94-126 76-108 (127)
246 PRK10803 tol-pal system protei 25.4 2.4E+02 0.0052 22.7 5.9 36 101-136 58-93 (263)
247 PF09278 MerR-DNA-bind: MerR, 25.4 1.6E+02 0.0036 17.7 6.6 45 93-137 15-62 (65)
248 PF13093 FTA4: Kinetochore com 25.4 1.5E+02 0.0032 23.4 4.5 37 18-54 145-181 (213)
249 KOG2150 CCR4-NOT transcription 25.3 2.7E+02 0.0058 25.4 6.5 50 92-141 117-171 (575)
250 PF03276 Gag_spuma: Spumavirus 25.2 4.1E+02 0.009 24.2 7.6 92 41-147 85-183 (582)
251 KOG0614 cGMP-dependent protein 25.1 3E+02 0.0065 25.4 6.7 64 77-140 4-74 (732)
252 PF07195 FliD_C: Flagellar hoo 25.1 2.4E+02 0.0052 22.1 5.8 35 100-134 189-223 (239)
253 cd04772 HTH_TioE_rpt1 First He 25.0 1.1E+02 0.0024 20.7 3.4 7 96-102 60-66 (99)
254 PF08781 DP: Transcription fac 24.9 2.1E+02 0.0046 21.2 5.0 29 106-134 3-31 (142)
255 PF11068 YlqD: YlqD protein; 24.8 2.8E+02 0.006 20.2 6.7 30 118-147 67-96 (131)
256 PF03961 DUF342: Protein of un 24.7 4.3E+02 0.0094 22.8 7.7 25 60-84 287-311 (451)
257 PRK05771 V-type ATP synthase s 24.7 5.3E+02 0.012 23.4 14.6 34 95-128 213-246 (646)
258 smart00787 Spc7 Spc7 kinetocho 24.6 4.1E+02 0.009 22.1 13.2 45 96-140 217-261 (312)
259 PF10400 Vir_act_alpha_C: Viru 24.5 2E+02 0.0043 18.4 4.9 31 93-123 17-47 (90)
260 PF12709 Kinetocho_Slk19: Cent 24.4 2.4E+02 0.0051 19.2 5.8 36 102-137 47-82 (87)
261 PF11690 DUF3287: Protein of u 24.2 1.2E+02 0.0026 21.5 3.4 52 67-123 14-68 (109)
262 PF10458 Val_tRNA-synt_C: Valy 24.0 71 0.0015 20.1 2.1 34 90-123 32-65 (66)
263 PRK13842 conjugal transfer pro 23.7 4.1E+02 0.0089 21.8 7.1 45 99-143 50-94 (267)
264 PF02187 GAS2: Growth-Arrest-S 23.7 1.7E+02 0.0036 19.3 3.8 18 72-90 40-57 (73)
265 PF06120 Phage_HK97_TLTM: Tail 23.7 3.3E+02 0.0071 22.8 6.4 23 18-40 70-92 (301)
266 PF04367 DUF502: Protein of un 23.6 2.5E+02 0.0055 19.3 6.3 55 25-79 21-82 (108)
267 PF02994 Transposase_22: L1 tr 23.6 3.5E+02 0.0076 23.0 6.8 44 96-139 143-186 (370)
268 PF12018 DUF3508: Domain of un 23.6 3.3E+02 0.0071 22.1 6.4 31 8-39 56-86 (281)
269 TIGR01242 26Sp45 26S proteasom 23.4 2.9E+02 0.0063 23.0 6.2 40 102-141 4-43 (364)
270 COG2433 Uncharacterized conser 23.4 3.7E+02 0.008 24.9 7.1 24 30-53 343-366 (652)
271 PF10438 Cyc-maltodext_C: Cycl 23.3 71 0.0015 21.1 2.0 20 66-85 8-27 (78)
272 cd02755 MopB_Thiosulfate-R-lik 23.2 1.2E+02 0.0026 26.0 4.0 27 86-112 67-93 (454)
273 TIGR02231 conserved hypothetic 23.2 3.5E+02 0.0075 23.9 6.9 38 94-131 68-105 (525)
274 PRK14127 cell division protein 23.2 2.8E+02 0.006 19.6 6.5 43 93-135 23-68 (109)
275 COG2900 SlyX Uncharacterized p 23.1 2.3E+02 0.005 18.6 6.8 40 101-140 19-58 (72)
276 KOG0240 Kinesin (SMY1 subfamil 23.0 5.1E+02 0.011 23.8 7.8 41 95-135 412-452 (607)
277 COG5127 Vacuolar H+-ATPase V1 22.9 4.8E+02 0.01 22.2 8.7 109 18-142 49-157 (383)
278 cd03199 GST_C_GRX2 GST_C famil 22.7 2.2E+02 0.0047 20.7 4.6 30 90-119 28-57 (128)
279 PRK13729 conjugal transfer pil 22.6 3.9E+02 0.0084 23.9 6.9 37 5-42 74-110 (475)
280 cd02769 MopB_DMSOR-BSOR-TMAOR 22.4 1.1E+02 0.0024 27.5 3.7 27 86-112 69-95 (609)
281 PF09869 DUF2096: Uncharacteri 22.2 1.8E+02 0.0038 22.3 4.2 67 23-89 50-123 (169)
282 KOG2706 Predicted membrane pro 22.2 36 0.00077 29.0 0.5 33 61-93 12-44 (476)
283 cd04790 HTH_Cfa-like_unk Helix 22.0 3.5E+02 0.0075 20.3 7.0 41 94-134 60-104 (172)
284 PRK08032 fliD flagellar cappin 22.0 2.3E+02 0.0049 24.8 5.5 33 102-134 404-436 (462)
285 PF04025 DUF370: Domain of unk 21.7 47 0.001 21.9 0.9 12 82-93 1-12 (73)
286 TIGR01061 parC_Gpos DNA topois 21.4 6.9E+02 0.015 23.5 9.1 40 93-132 408-448 (738)
287 PF12017 Tnp_P_element: Transp 21.4 2.8E+02 0.0061 22.2 5.5 34 17-50 20-53 (236)
288 COG1139 Uncharacterized conser 21.3 76 0.0016 28.0 2.3 82 14-107 18-99 (459)
289 PF05308 Mito_fiss_reg: Mitoch 21.3 1.2E+02 0.0026 24.6 3.4 20 112-131 123-142 (253)
290 PF10359 Fmp27_WPPW: RNA pol I 21.2 3.1E+02 0.0066 24.1 6.1 31 92-122 158-188 (475)
291 cd07591 BAR_Rvs161p The Bin/Am 21.1 3.3E+02 0.0072 21.4 5.8 41 90-130 4-44 (224)
292 PF11853 DUF3373: Protein of u 21.1 91 0.002 27.9 2.8 27 105-131 32-58 (489)
293 KOG0995 Centromere-associated 21.1 6.5E+02 0.014 23.1 8.3 34 95-128 292-325 (581)
294 PF13815 Dzip-like_N: Iguana/D 21.0 3E+02 0.0065 19.2 6.6 39 99-137 75-113 (118)
295 cd02770 MopB_DmsA-EC This CD ( 20.9 1.3E+02 0.0028 27.1 3.8 38 75-112 54-97 (617)
296 PF01455 HupF_HypC: HupF/HypC 20.9 2.1E+02 0.0045 18.3 3.8 27 75-103 38-65 (68)
297 KOG1962 B-cell receptor-associ 20.8 3.3E+02 0.0071 21.7 5.6 46 95-140 163-208 (216)
298 PF12325 TMF_TATA_bd: TATA ele 20.7 3.3E+02 0.0071 19.5 7.4 40 7-47 23-62 (120)
299 PRK00888 ftsB cell division pr 20.6 3E+02 0.0065 19.0 5.6 30 101-130 31-60 (105)
300 PHA01750 hypothetical protein 20.6 2.6E+02 0.0056 18.2 6.2 32 99-130 37-68 (75)
301 PRK15002 redox-sensitivie tran 20.6 3.5E+02 0.0076 20.0 5.5 35 94-128 87-121 (154)
302 PRK09631 DNA topoisomerase IV 20.5 6.9E+02 0.015 23.2 11.9 43 92-134 384-427 (635)
303 PF10552 ORF6C: ORF6C domain; 20.5 1.8E+02 0.0038 20.3 3.7 21 97-117 8-28 (116)
304 TIGR01950 SoxR redox-sensitive 20.5 3.5E+02 0.0075 19.7 5.6 27 96-122 79-105 (142)
305 COG5613 Uncharacterized conser 20.4 4.5E+02 0.0097 22.7 6.6 48 100-150 347-395 (400)
306 KOG0977 Nuclear envelope prote 20.3 3.6E+02 0.0078 24.5 6.3 41 94-134 152-192 (546)
307 PF06305 DUF1049: Protein of u 20.2 1.3E+02 0.0028 18.5 2.7 19 103-121 47-65 (68)
308 TIGR03185 DNA_S_dndD DNA sulfu 20.2 6.6E+02 0.014 22.8 13.1 42 95-136 426-467 (650)
309 COG4942 Membrane-bound metallo 20.2 4.6E+02 0.01 23.0 6.9 35 100-134 48-82 (420)
310 PF14712 Snapin_Pallidin: Snap 20.2 2.7E+02 0.0058 18.2 5.7 28 14-42 7-34 (92)
311 cd02765 MopB_4 The MopB_4 CD i 20.1 86 0.0019 28.0 2.5 43 70-112 45-93 (567)
312 PF03148 Tektin: Tektin family 20.1 5.5E+02 0.012 21.8 10.7 45 91-135 311-355 (384)
No 1
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. 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 alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. 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: 1FXK_C 2ZDI_C.
Probab=99.97 E-value=1.1e-29 Score=182.19 Aligned_cols=119 Identities=27% Similarity=0.521 Sum_probs=110.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHH
Q 031887 20 LKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEAL 99 (151)
Q Consensus 20 L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~ 99 (151)
|+++++.++++++.+...+.+|..++++|+.+++ ...+.+++||+|+|+||+|+|+++++|+|+||+|||||+|+++|+
T Consensus 1 l~~~l~~l~~~~~~l~~~~~e~~~~~~~l~~l~~-~~~~~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s~~eA~ 79 (120)
T PF02996_consen 1 LQEELENLQQQIEQLEEQIEEYEEAKETLEELKK-EKKEHEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMSLEEAI 79 (120)
T ss_dssp HCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHTT---TT-EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEEHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEecHHHHH
Confidence 4567889999999999999999999999999998 336889999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 100 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
+|+++|++.+++.++++++.+..++++++.+...++++++
T Consensus 80 ~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~ 119 (120)
T PF02996_consen 80 EFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQLYQ 119 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 9999999999999999999999999999999999999875
No 2
>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=99.97 E-value=1.5e-28 Score=178.92 Aligned_cols=123 Identities=28% Similarity=0.460 Sum_probs=117.3
Q ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecH
Q 031887 16 VDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTW 95 (151)
Q Consensus 16 ~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~ 95 (151)
..+.|+++++.++++++.+...+++|..++++|+.+++. ..+.++|||+|+|+|++|+|+++++|+|+||+|||||+|+
T Consensus 7 ~~~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~-~~~~~~lvplg~~~~~~~~i~~~~~v~v~iG~g~~vE~~~ 85 (129)
T cd00584 7 QLQVLQQEIEELQQELARLNEAIAEYEQAKETLETLKKA-DEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYYVEKDL 85 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCCCeEEEECCCCeEEeEEeCCCCEEEEEcCCCEEEEecH
Confidence 448899999999999999999999999999999999874 3588999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
++|++|+++|++.|++.++++.+.+..++++++.+...++++++
T Consensus 86 ~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~~~~ 129 (129)
T cd00584 86 EEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQELQQ 129 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999998863
No 3
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=99.96 E-value=4.4e-28 Score=175.78 Aligned_cols=117 Identities=21% Similarity=0.349 Sum_probs=112.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|+++++.+++++..+...+++|..++++|+.++.. .+.+++||+|+|+|++|+|+++++|+||||+|||||+|+++
T Consensus 9 ~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~--~~~~~lv~lg~~~~v~~~v~~~~~v~v~iG~g~~vE~~~~e 86 (126)
T TIGR00293 9 QILQQQVESLQAQIAALRALIAELETAIETLEDLKGA--EGKETLVPVGAGSFVKAKVKDTDKVLVSIGSGYYVEKDAEE 86 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc--CCCeEEEEcCCCeEEEEEeCCCCEEEEEcCCCEEEEecHHH
Confidence 7889999999999999999999999999999999865 57899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
|++|+++|++.|++.++++.+.+.+++++++.+...+++
T Consensus 87 A~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~~l~~ 125 (126)
T TIGR00293 87 AIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQEAQQ 125 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999888764
No 4
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=99.96 E-value=1.5e-27 Score=176.06 Aligned_cols=132 Identities=15% Similarity=0.397 Sum_probs=122.0
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEe
Q 031887 6 QEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDI 85 (151)
Q Consensus 6 ~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~v 85 (151)
+..+.++-... +.|+.+++.+..++..+...+.+|..++++|+.+++.. .+.+++||+|+|+|++|+|+++++|+|||
T Consensus 5 ~~~l~~l~~~~-~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~-~~~e~lvplg~~~yv~~~v~~~~kV~v~l 82 (140)
T PRK03947 5 EQELEELAAQL-QALQAQIEALQQQLEELQASINELDTAKETLEELKSKG-EGKETLVPIGAGSFVKAKVKDKDKVIVSL 82 (140)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC-CCCeEEEEcCCCcEEEEEecCCCeEEEEc
Confidence 44566666655 88999999999999999999999999999999998754 57899999999999999999999999999
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 86 GLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 86 G~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
|+|||||+|+++|++|+++|++.|++.++.+.+.+.++++++..+...+++++.
T Consensus 83 G~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~l~~l~~ 136 (140)
T PRK03947 83 GAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQELQQLQQ 136 (140)
T ss_pred CCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999988764
No 5
>PRK14011 prefoldin subunit alpha; Provisional
Probab=99.96 E-value=1.3e-27 Score=177.50 Aligned_cols=115 Identities=15% Similarity=0.229 Sum_probs=106.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
++|+++++.+.++++.|+..+++|..+.++|+.+. .+.++|||||+|+||+|+|.|+++|+|+||+|||||+|.++
T Consensus 13 ~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~----~~~eiLVPLg~s~yV~g~i~d~dkVlVdIGtGy~VEk~~~e 88 (144)
T PRK14011 13 EVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLK----TSEEILIPLGPGAFLKAKIVDPDKAILGVGSDIYLEKDVSE 88 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC----CCCeEEEEcCCCcEEeEEecCCCeEEEEccCCeEEEecHHH
Confidence 66789999999999999999999988888888664 36899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
|++|+++|++.|++..+++...+.++...+..+...+++
T Consensus 89 A~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~ 127 (144)
T PRK14011 89 VIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKELEK 127 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999998866543
No 6
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=1.9e-27 Score=176.24 Aligned_cols=134 Identities=19% Similarity=0.348 Sum_probs=122.7
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFV 83 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V 83 (151)
.++.++.++..-+ +.|+.+++.++++++.|+..++++..++++|+.++..+. |.++|||+|+|+|++|+|.++++|+|
T Consensus 3 ~~~~~le~l~a~l-q~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~-g~E~LVpvGag~fv~~kv~~~~kviV 80 (145)
T COG1730 3 QTQQELEELAAQL-QILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGE-GKEVLVPVGAGLFVKAKVKDMDKVIV 80 (145)
T ss_pred chhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CceEEEEcCCCceEEEEeccCceEEE
Confidence 3455666666545 788999999999999999999999999999999998754 77999999999999999999999999
Q ss_pred EecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 84 DIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 84 ~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
+||+|||||+|.++|++||++|++.|++.+.+++..++++...+..+...+++++.
T Consensus 81 ~iGsg~~ae~~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q 136 (145)
T COG1730 81 SIGSGYYAEKSADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQ 136 (145)
T ss_pred EcCCceeeeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998888763
No 7
>KOG3047 consensus Predicted transcriptional regulator UXT [Transcription]
Probab=99.96 E-value=3e-27 Score=170.39 Aligned_cols=145 Identities=27% Similarity=0.454 Sum_probs=139.0
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFV 83 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V 83 (151)
++.+.+.+||.|+.+++++++.+....++.+++++++|.+++.+|+.|....-+..+..+++||++|+...|+||++|+|
T Consensus 12 Aq~ekm~r~EdfiedVih~di~k~~d~~dKl~eQ~aeY~kLk~t~eRL~eaahkel~~ktdLGcnfFmdi~VpDTk~i~V 91 (157)
T KOG3047|consen 12 AQEEKMKRLEDFIEDVIHPDIAKEEDEFDKLQEQCAEYAKLKFTCERLLEAAHKELEGKTDLGCNFFMDIEVPDTKHIVV 91 (157)
T ss_pred HHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhccccccceeeEeeecCCcceEEE
Confidence 66778999999999999999999999999999999999999999999988766678899999999999999999999999
Q ss_pred EecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchhh
Q 031887 84 DIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQE 148 (151)
Q Consensus 84 ~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~~ 148 (151)
.+|.|||+|+++.+|++|++++.+.|.+..++|+++...++++|.+++.++..+|+.|.-++.|-
T Consensus 92 aL~~~fflElkLadAiKf~DRK~dlLkel~ekLqKdsmkiKa~ihMLLagl~elqg~~~f~ekPh 156 (157)
T KOG3047|consen 92 ALCDDFFLELKLADAIKFCDRKMDLLKELMEKLQKDSMKIKADIHMLLAGLDELQGEPFFFEKPH 156 (157)
T ss_pred EeecceeeeehHHHHHHHHHHhHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCCccccCCCC
Confidence 99999999999999999999999999999999999999999999999999999999998888774
No 8
>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=99.95 E-value=1.3e-25 Score=162.41 Aligned_cols=121 Identities=26% Similarity=0.458 Sum_probs=115.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|++++..+.+++..+...+.+|..++++|+.+.+.. .+.++++|+|+++|++|+|+++++|+|+||+|||||+|.++
T Consensus 9 ~~l~~~i~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~-~~~~~l~~~g~~~~~~~~i~~~~~v~v~iG~~~~ve~~~~e 87 (129)
T cd00890 9 QQLQQQLEALQQQLQKLEAQLTEYEKAKETLETLKKAE-EEKELLVPLGAGLFVKAEVKDDDKVLVDLGTGVYVEKSLEE 87 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-CCCeEEEecCCceEEEEEECCCCEEEEEecCCEEEEecHHH
Confidence 78899999999999999999999999999999998754 46789999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
|.+|+++|++.+++.++++++.+..++++++.+...|+++++
T Consensus 88 A~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~~~ 129 (129)
T cd00890 88 AIEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQLQQ 129 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999999999999999999999999998864
No 9
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=2e-25 Score=163.13 Aligned_cols=129 Identities=15% Similarity=0.296 Sum_probs=120.2
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecc
Q 031887 8 KVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGL 87 (151)
Q Consensus 8 ~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~ 87 (151)
.++++.... +.+.++|..++..+..|......|.+++.+|+.+.... .|.++|||+++++||||++.|.++++|+||+
T Consensus 14 sleQL~~lk-~q~dqEl~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~-eGk~~LVPLTsSlYVPGkl~d~~k~lVDIGT 91 (153)
T KOG3048|consen 14 SLEQLGALK-KQFDQELNFLQDSLNALKGAQTKYEESIAALNDVQAAN-EGKKLLVPLTSSLYVPGKLSDNSKFLVDIGT 91 (153)
T ss_pred CHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC-CCCeEEEecccceeccceeccccceeEeccC
Confidence 467788755 89999999999999999999999999999999887765 6899999999999999999999999999999
Q ss_pred eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 88 GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 88 g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
|||||+|.++|++|++||++.|.+++++++..+.+++.....+++.+++..
T Consensus 92 GYyVEK~~e~akdyfkRKve~l~kq~e~i~~i~~eK~~~~~~v~~v~q~Kv 142 (153)
T KOG3048|consen 92 GYYVEKDAEDAKDYFKRKVEYLTKQIEQIEGILKEKTRTRASVMDVLQAKV 142 (153)
T ss_pred ceEEeechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999988887654
No 10
>PRK01203 prefoldin subunit alpha; Provisional
Probab=99.94 E-value=4.2e-25 Score=160.81 Aligned_cols=118 Identities=13% Similarity=0.218 Sum_probs=106.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.++++.+.+.++++.++..+++|..+.++|+.+... ++.++|||||+|+||+|+|.|+++|+|+||+|||||+|.++
T Consensus 10 ~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~~~~~--~~~eiLVPLg~slYV~gki~d~~kVlVdIGTGy~VEK~~e~ 87 (130)
T PRK01203 10 NYIESLISSVDSQIDSLNKTLSEVQQTISFLSDNELD--NSKELLISIGSGIFADGNIKKDKDLIVPIGSGVYIAEERER 87 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccC--CCCeEEEEccCCceEeEEecCCCeEEEEcCCCeEEEecHHH
Confidence 6788889999999999999999998888887775533 57899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
|+++|+++++.|++.+...+..+..+.+++..+. |+.+.+
T Consensus 88 kie~L~~~ie~Le~~i~~K~~~l~~i~~~~~~l~--~~~~~~ 127 (130)
T PRK01203 88 TIERLKENLEDLKDSIQKLNDQRKTLVDQYNTVY--ITEATR 127 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhc
Confidence 9999999999999999999999999999998887 666543
No 11
>KOG3313 consensus Molecular chaperone Prefoldin, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.80 E-value=8.8e-19 Score=132.19 Aligned_cols=116 Identities=15% Similarity=0.251 Sum_probs=108.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC--CCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHH
Q 031887 25 TRAIAERDKVFEQQKIFSDLRKNIENLEKNSV--TSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFI 102 (151)
Q Consensus 25 ~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~--~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l 102 (151)
..+.+++..+...|+++....+.+..|.+..+ .+.++.+-|..|+|.+|.|+++++|.+|+|+++++|++++||.++|
T Consensus 54 ~~l~a~~~~l~~kIPd~entLeiv~~l~~~~~~~~s~~t~f~lsd~vy~ka~V~~~~kV~LWLGAnVMlEY~leEAeaLL 133 (187)
T KOG3313|consen 54 ASLLAQKRRLKTKIPDIENTLEIVQTLIAKKDEGESFETTFLLSDGVYTKASVPPTDKVYLWLGANVMLEYDLEEAEALL 133 (187)
T ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHHHhCcccCcceeEEEEecccceeeeecCCcCeEEEEecceeEEEecHHHHHHHH
Confidence 46677777888889999999999999987643 4589999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 103 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 103 ~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
++++..+.+.++.+..+++.+++|++.++.+++++|||
T Consensus 134 kknl~sa~k~l~~~~~DldfLrdQvTTtEVN~ArvYNw 171 (187)
T KOG3313|consen 134 KKNLTSAVKSLDVLEEDLDFLRDQVTTTEVNMARVYNW 171 (187)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHhhceeeeeeeeeeeec
Confidence 99999999999999999999999999999999999998
No 12
>KOG3130 consensus Uncharacterized conserved protein [Function unknown]
Probab=99.16 E-value=1.9e-10 Score=96.81 Aligned_cols=106 Identities=18% Similarity=0.354 Sum_probs=91.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHHH
Q 031887 24 LTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFIS 103 (151)
Q Consensus 24 L~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~ 103 (151)
+++++...+....--.+|..+.+.+..+.++. +..+|||+|.-.|++|++.+|+.|+|.+|.|||.++|.-.|.++++
T Consensus 12 ~~~~~~ete~~~~v~~dye~~~erl~~~~kkL--s~~Imvpig~~a~mpG~lVhTNevtv~~g~nyf~~CS~h~A~~I~~ 89 (514)
T KOG3130|consen 12 KARLEVETECRKKVDNDYEALRERLSTLPKKL--SYNIMVPIGPFAFMPGKLVHTNEVTVLLGDNYFAKCSAHQAVGIVE 89 (514)
T ss_pred HHHhHHHHHHHHHHhhhHHHHHHHHHHhhhhc--ccceeeecccccccccceeeechhhhhhccchHhhhhHHHHHHHHH
Confidence 35555566666666678999999999998873 7889999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 104 QREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 104 ~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
.|++..+++++++.+.+.-.-.+++...
T Consensus 90 ~R~~~~r~q~~~l~~~~~n~~~~vkf~~ 117 (514)
T KOG3130|consen 90 HRKEHVRKQIDDLKKVMKNFESRVKFTE 117 (514)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHhhhcc
Confidence 9999999999999888777666666543
No 13
>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=98.85 E-value=1e-07 Score=67.70 Aligned_cols=108 Identities=18% Similarity=0.264 Sum_probs=89.0
Q ss_pred chHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCee
Q 031887 2 DSYRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHI 81 (151)
Q Consensus 2 ~~~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V 81 (151)
.|..+..+.+| +.++.+++.+..++..+..++.+...+.+.|+.+++ +..++-++|+
T Consensus 2 ~~~~q~~~~~~-----q~~q~~~~~l~~q~~~le~~~~E~~~v~~eL~~l~~----d~~vyk~VG~-------------- 58 (110)
T TIGR02338 2 PPQVQNQLAQL-----QQLQQQLQAVATQKQQVEAQLKEAEKALEELERLPD----DTPVYKSVGN-------------- 58 (110)
T ss_pred CHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC----cchhHHHhch--------------
Confidence 34555555554 456888999999999999999998777777766653 3456666665
Q ss_pred EEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 82 FVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 82 ~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
+||+.|.++|+..+++|++.++..++.+.+.+..++.++..++..++++.+
T Consensus 59 -------vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~~ 109 (110)
T TIGR02338 59 -------LLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEALA 109 (110)
T ss_pred -------hhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999988753
No 14
>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=98.72 E-value=1.8e-07 Score=65.88 Aligned_cols=96 Identities=21% Similarity=0.219 Sum_probs=84.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|+.+++.+..++..+...+.+...+.+.|..+++ +..++.++|. +||+.|.++
T Consensus 9 q~l~~~~~~l~~~~~~l~~~~~E~~~v~~EL~~l~~----d~~vy~~VG~---------------------vfv~~~~~e 63 (105)
T cd00632 9 QQLQQQLQAYIVQRQKVEAQLNENKKALEELEKLAD----DAEVYKLVGN---------------------VLVKQEKEE 63 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC----cchHHHHhhh---------------------HHhhccHHH
Confidence 678889999999999999999998887777777653 3345555665 999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
|...|+++++.++..++.+.+.+..+..++..+...|+.++
T Consensus 64 a~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~~ 104 (105)
T cd00632 64 ARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQAQ 104 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999999999999999999999999999999999998876
No 15
>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=98.56 E-value=1.1e-06 Score=63.11 Aligned_cols=113 Identities=16% Similarity=0.283 Sum_probs=90.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC------------CCCceEEEecCCeeeE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNS------------VTSLRTLVNLGSEVYM 71 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~------------~~~~e~lVplg~~~fv 71 (151)
+......+|..-+ +.|...+.++...+..+...++.+..+........... ..+.+++|+||+|+||
T Consensus 3 ~l~~~~~~l~~~i-~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~l~~~g~~~~~~~~i~~~~~v~v~iG~~~~v 81 (129)
T cd00890 3 ELAAQLQQLQQQL-EALQQQLQKLEAQLTEYEKAKETLETLKKAEEEKELLVPLGAGLFVKAEVKDDDKVLVDLGTGVYV 81 (129)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCCeEEEecCCceEEEEEECCCCEEEEEecCCEEE
Confidence 4455666777666 78888888888888888888888777765544322110 1356799999999999
Q ss_pred eEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 72 QADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 72 ~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
...+.+. ...+++.+++++++++.+++.+.++...+..++..+..+
T Consensus 82 e~~~~eA-------------~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~~~ 127 (129)
T cd00890 82 EKSLEEA-------------IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQQL 127 (129)
T ss_pred EecHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9998875 467999999999999999999999999999999998765
No 16
>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=98.28 E-value=1.5e-05 Score=57.68 Aligned_cols=113 Identities=15% Similarity=0.280 Sum_probs=90.8
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHhhhc---------CCCCceEEEecCCeeeE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKN---IENLEKN---------SVTSLRTLVNLGSEVYM 71 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~---i~~l~~~---------~~~~~e~lVplg~~~fv 71 (151)
+......+|..-+ +.|.+++..+...+..+...++.+..+... .+.+-+. -..+.+++|++|+|+|+
T Consensus 3 ~l~~~~~~l~~~i-~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~~~~~~~i~~~~~v~v~iG~g~~v 81 (129)
T cd00584 3 QLAAQLQVLQQEI-EELQQELARLNEAIAEYEQAKETLETLKKADEGKETLVPLGAGVFVKAKVKDTDKVLVDLGTGYYV 81 (129)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCeEEeEEeCCCCEEEEEcCCCEEE
Confidence 4556677777766 899999999999999999999988777651 1111111 02356899999999999
Q ss_pred eEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 72 QADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 72 ~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
...+.+.. ..++.-++.+++.++.+++.+.++++.+..+...+...
T Consensus 82 E~~~~eA~-------------~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~~~ 127 (129)
T cd00584 82 EKDLEEAI-------------EFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQEL 127 (129)
T ss_pred EecHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 99998854 56899999999999999999999999999999988764
No 17
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=98.18 E-value=4.6e-05 Score=55.96 Aligned_cols=61 Identities=15% Similarity=0.269 Sum_probs=35.3
Q ss_pred CCeeEEEecceeEEeecHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 78 TQHIFVDIGLGFHVEFTWSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 78 ~~~V~V~vG~g~~vE~t~~eA~~-------------~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
..+++|++|+|+||.-++.+..+ .++.-++.+++.++.+.+.+..+...+..+...+.+++
T Consensus 55 ~~e~lvplg~~~yv~~~v~~~~kV~v~lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~ 128 (140)
T PRK03947 55 GKETLVPIGAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQLA 128 (140)
T ss_pred CCeEEEEcCCCcEEEEEecCCCeEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35566666666666665544433 45566666666666666666666666665555554443
No 18
>PRK09343 prefoldin subunit beta; Provisional
Probab=98.16 E-value=7.1e-05 Score=54.11 Aligned_cols=113 Identities=15% Similarity=0.231 Sum_probs=85.3
Q ss_pred CchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCe
Q 031887 1 MDSYRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQH 80 (151)
Q Consensus 1 ~~~~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~ 80 (151)
|++++++.+...-.-+ +.++.++..+..++..+..++.+...+.+-++.|++ ..+
T Consensus 1 ~~~~~~~~~q~~~~~~-q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~L~~------------------------d~~ 55 (121)
T PRK09343 1 MAENIPPEVQAQLAQL-QQLQQQLERLLQQKSQIDLELREINKALEELEKLPD------------------------DTP 55 (121)
T ss_pred ChhhhhHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC------------------------cch
Confidence 4555555554433322 678888999999999999988887666665555542 233
Q ss_pred eEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 81 IFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 81 V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
|+-.|| .+||..+.++|+.-+++|++.++..++.+.+....++.++...+..|+++..
T Consensus 56 VYk~VG-~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~ 113 (121)
T PRK09343 56 IYKIVG-NLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLS 113 (121)
T ss_pred hHHHhh-HHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455 3667779999999999999999999999999999999999999988887654
No 19
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=98.14 E-value=5.3e-05 Score=54.57 Aligned_cols=107 Identities=16% Similarity=0.214 Sum_probs=80.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|...++++.+.++.+...+..+......++...+ ++ -++++. +...++|++|.|+||.-++++
T Consensus 2 qql~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~-------~L------~~l~~~--~~~~~lv~lg~~~~v~~~v~~ 66 (126)
T TIGR00293 2 QQLAAELQILQQQVESLQAQIAALRALIAELETAIE-------TL------EDLKGA--EGKETLVPVGAGSFVKAKVKD 66 (126)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH------Hhcccc--CCCeEEEEcCCCeEEEEEeCC
Confidence 356778888888888888888886554444433321 11 111333 457899999999999999988
Q ss_pred HH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 98 AL-------------KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 98 A~-------------~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
.. .-++.-++.++++++.+.+.+..+...+..+...+.++..
T Consensus 67 ~~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i~~ 121 (126)
T TIGR00293 67 TDKVLVSIGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQLEQ 121 (126)
T ss_pred CCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 87 6779999999999999999999999999988888877653
No 20
>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=98.13 E-value=0.0003 Score=48.64 Aligned_cols=95 Identities=16% Similarity=0.315 Sum_probs=75.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
..|+.++..+..++..+...+.++..+.+.|..+++ ..+++..|| ++||+.+.++
T Consensus 8 ~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~------------------------~~~~y~~vG-~~fv~~~~~~ 62 (106)
T PF01920_consen 8 QELNQQLQQLEQQIQQLERQLRELELTLEELEKLDD------------------------DRKVYKSVG-KMFVKQDKEE 62 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSST------------------------T-EEEEEET-TEEEEEEHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC------------------------cchhHHHHh-HHHHHhhHHH
Confidence 567788888888988888888887665555555432 234455554 5689999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+...|+.+++.++..++++.+.+..+..++..+...+..+
T Consensus 63 ~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~ 102 (106)
T PF01920_consen 63 AIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYEL 102 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999988777543
No 21
>PRK14011 prefoldin subunit alpha; Provisional
Probab=98.13 E-value=6.5e-05 Score=55.97 Aligned_cols=125 Identities=14% Similarity=0.295 Sum_probs=95.3
Q ss_pred CchHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC---------CCCceEEEecCCee
Q 031887 1 MDSYRQEKVQKFEEFVD--RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNS---------VTSLRTLVNLGSEV 69 (151)
Q Consensus 1 ~~~~~~~~i~~~e~f~~--~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~---------~~~~e~lVplg~~~ 69 (151)
|+..++..+..|+.+-. +.|..++..+......+...++.+..+...-+.|-+.+ ..+.+++|++|.|+
T Consensus 1 ~~~elq~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~~~~eiLVPLg~s~yV~g~i~d~dkVlVdIGtGy 80 (144)
T PRK14011 1 MNEELQNQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLKTSEEILIPLGPGAFLKAKIVDPDKAILGVGSDI 80 (144)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCeEEEEcCCCcEEeEEecCCCeEEEEccCCe
Confidence 66777887766666543 88999999999999999988888776654433332211 23568999999999
Q ss_pred eEeEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 70 YMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 70 fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
||.=.+.+.- ..++.=++++++..+.+.+.+++++..+..+...+..-...+.+..
T Consensus 81 ~VEk~~~eA~-------------~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~k~~~~~~~~ 136 (144)
T PRK14011 81 YLEKDVSEVI-------------EDFKKSVEELDKTKKEGNKKIEELNKEITKLRKELEKRAQAIEQRQ 136 (144)
T ss_pred EEEecHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9998887732 2367788999999999999999999999999988777666664443
No 22
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=97.93 E-value=0.00038 Score=50.19 Aligned_cols=111 Identities=15% Similarity=0.300 Sum_probs=86.5
Q ss_pred hHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeE
Q 031887 3 SYRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIF 82 (151)
Q Consensus 3 ~~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~ 82 (151)
|+.++.+.+| +.|+.+++.+..++.++..++.+...+.+-|+.+.+. ..|+
T Consensus 6 p~~q~~l~q~-----QqLq~ql~~~~~qk~~le~qL~E~~~al~Ele~l~eD------------------------~~vY 56 (119)
T COG1382 6 PEVQAQLAQL-----QQLQQQLQKVILQKQQLEAQLKEIEKALEELEKLDED------------------------APVY 56 (119)
T ss_pred HHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcc------------------------cHHH
Confidence 3455555444 5678899999999999999999976666655555432 1334
Q ss_pred EEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 031887 83 VDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAE 143 (151)
Q Consensus 83 V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~ 143 (151)
=.|| +++|..+.++|.+=|++|++.|+.+++.|+++...++.++..+...|+...+=..+
T Consensus 57 k~VG-~llvk~~k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~~~~ 116 (119)
T COG1382 57 KKVG-NLLVKVSKEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGDAAN 116 (119)
T ss_pred HHhh-hHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 4455 56778899999999999999999999999999999999999999999888765443
No 23
>PRK01203 prefoldin subunit alpha; Provisional
Probab=97.89 E-value=0.00047 Score=50.53 Aligned_cols=101 Identities=11% Similarity=0.182 Sum_probs=81.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeec
Q 031887 19 RLKPDLTRAIAERDKVFEQQKIFSDLR----KNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFT 94 (151)
Q Consensus 19 ~L~~dL~~l~~~~~~l~~~i~e~~~lk----~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t 94 (151)
-+..+++-+.++++.+..+++.+.... .+++.|.. ..-.....|+|++|+|.||-=+
T Consensus 4 ~~~~~~~~~~~q~e~l~~ql~~L~~a~se~~~~ie~L~~-------------------~~~~~~~eiLVPLg~slYV~gk 64 (130)
T PRK01203 4 DVEAQLNYIESLISSVDSQIDSLNKTLSEVQQTISFLSD-------------------NELDNSKELLISIGSGIFADGN 64 (130)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc-------------------cccCCCCeEEEEccCCceEeEE
Confidence 356788889999999998888765443 33333332 1123568999999999999988
Q ss_pred HHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 95 WSEALK-------------FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 95 ~~eA~~-------------~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
+.+..+ -++++++.|+++++++++.+..++.+++.+...+++|.
T Consensus 65 i~d~~kVlVdIGTGy~VEK~~e~kie~L~~~ie~Le~~i~~K~~~l~~i~~~~~~l~ 121 (130)
T PRK01203 65 IKKDKDLIVPIGSGVYIAEERERTIERLKENLEDLKDSIQKLNDQRKTLVDQYNTVY 121 (130)
T ss_pred ecCCCeEEEEcCCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 887765 46789999999999999999999999999999999887
No 24
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=97.69 E-value=0.0019 Score=48.23 Aligned_cols=117 Identities=11% Similarity=0.164 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHhhhcC---------CCCceEEEecCCeeeEe
Q 031887 5 RQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNI---ENLEKNS---------VTSLRTLVNLGSEVYMQ 72 (151)
Q Consensus 5 ~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i---~~l~~~~---------~~~~e~lVplg~~~fv~ 72 (151)
+...+..|..-+ +.|++++..+...+..+...+.-+..++..= +.|-+.+ ....+++||||+|+|+.
T Consensus 11 l~a~lq~l~~qi-e~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LVpvGag~fv~~kv~~~~kviV~iGsg~~ae 89 (145)
T COG1730 11 LAAQLQILQSQI-ESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLVPVGAGLFVKAKVKDMDKVIVSIGSGYYAE 89 (145)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEcCCCceEEEEeccCceEEEEcCCceeee
Confidence 344555566555 7788888888887777777777655554332 2221110 12357888888888877
Q ss_pred EEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 73 ADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 73 a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
=..... -..+++=++-|++.+..++..++++...+..+.+.++.+.....
T Consensus 90 ~~~~eA-------------ie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~~q~~~ 139 (145)
T COG1730 90 KSADEA-------------IEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQLQQKQA 139 (145)
T ss_pred ecHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 665542 12367777778888888888888888888888777776655443
No 25
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=97.13 E-value=0.00024 Score=49.59 Aligned_cols=91 Identities=14% Similarity=0.250 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHH
Q 031887 34 VFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQI 113 (151)
Q Consensus 34 l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~ 113 (151)
.+.--.||..||+-|..++.....+.+=+.-++.++ .|.+.+...|=.-+|.|-.+.+|.++++.+|++|++-+.+.+
T Consensus 7 Wq~w~aEYe~LKEEi~~l~~~~~~~~e~l~~i~r~f--~g~lv~~kEi~~ilG~~~~i~Rt~~Qvv~~l~RRiDYV~~Ni 84 (99)
T PF13758_consen 7 WQTWEAEYEGLKEEIEALPEDDDATREDLLRIRRDF--GGSLVTEKEIKEILGEGQGITRTREQVVDVLSRRIDYVQQNI 84 (99)
T ss_pred HHHHHHHHHHHHHHHHhccccCCCCHHHHHHHHHhc--CcccccHHHHHHHhCCCCCCCcCHHHHHHHHHHHHHHHHHHH
Confidence 334456899999999998652223344455566554 478888888888899999999999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q 031887 114 DEYTRLIASIKAQ 126 (151)
Q Consensus 114 ~~l~~~l~~i~~~ 126 (151)
..+++.+....++
T Consensus 85 ~tleKql~~aE~k 97 (99)
T PF13758_consen 85 ETLEKQLEAAENK 97 (99)
T ss_pred HHHHHHHHHHHHh
Confidence 9999998766544
No 26
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. 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 alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. 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: 1FXK_C 2ZDI_C.
Probab=97.00 E-value=0.004 Score=44.05 Aligned_cols=101 Identities=15% Similarity=0.281 Sum_probs=72.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHhhhc---------CCCCceEEEecCCeeeEeEEeCCCCeeEEEe
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRK---NIENLEKN---------SVTSLRTLVNLGSEVYMQADVPDTQHIFVDI 85 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~---~i~~l~~~---------~~~~~e~lVplg~~~fv~a~i~~~~~V~V~v 85 (151)
+.|...+..+...++.+...+..+..+.. ..+.+-+. -..+.+++|++|+|+|+.-.+.+.-+
T Consensus 6 ~~l~~~~~~l~~~~~e~~~~~~~l~~l~~~~~~~~~lvplg~~~~v~g~i~~~~~vlV~lG~~~~vE~s~~eA~~----- 80 (120)
T PF02996_consen 6 ENLQQQIEQLEEQIEEYEEAKETLEELKKEKKEHEILVPLGSGVFVPGKIPDTDKVLVSLGAGYYVEMSLEEAIE----- 80 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTT--TT-EEEEEECTTEEEEEE-SSTTEEEEEEETTEEEEEEHHHHHH-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCceeeecCCCCeEEEEEeCCCCEEEEEeeCCeEEEecHHHHHH-----
Confidence 44566666676666666666666655554 22222111 12356899999999999999887433
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 86 GLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 86 G~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
-+..=++.+++.++.++..+..+...+..+...+..+.
T Consensus 81 --------~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~~~ 118 (120)
T PF02996_consen 81 --------FLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQQLY 118 (120)
T ss_dssp --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 36788899999999999999999999999988887654
No 27
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=96.24 E-value=0.02 Score=40.71 Aligned_cols=53 Identities=19% Similarity=0.197 Sum_probs=46.6
Q ss_pred eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 88 GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 88 g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
.+.|-.+++||..-+++|++.++..+..+...+..+..++...-..+-++|+-
T Consensus 60 pvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~ 112 (120)
T KOG3478|consen 60 PVLVKQELEEARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQREAVIKLQQA 112 (120)
T ss_pred chhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677889999999999999999999999999999999998888877777653
No 28
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=96.04 E-value=0.094 Score=38.47 Aligned_cols=89 Identities=13% Similarity=0.206 Sum_probs=72.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|+++++.+.+++..|..+..|+.-..++|+.+... .-+| -.=.|+.||+|..+
T Consensus 25 n~~r~el~~ia~ki~~LE~d~~EH~lVi~tlk~~dp~------------RKCf-------------RmIgGvLVErTVke 79 (140)
T KOG4098|consen 25 NALRSELQQIASKITDLEMDLREHKLVIETLKDLDPT------------RKCF-------------RMIGGVLVERTVKE 79 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcChh------------hHHH-------------HHhccchhhhhHHH
Confidence 6789999999999999999999997776666655432 1122 12248899999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
..=.|....+.++..+..|.+++..+...++.+.
T Consensus 80 VlP~L~~nke~i~~~i~~l~~qL~~k~kElnkfk 113 (140)
T KOG4098|consen 80 VLPILQTNKENIEKVIKKLTDQLVQKGKELNKFK 113 (140)
T ss_pred HhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999988887664
No 29
>PRK00736 hypothetical protein; Provisional
Probab=89.64 E-value=3 Score=27.02 Aligned_cols=45 Identities=16% Similarity=0.237 Sum_probs=23.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHh
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRL-------IASIKAQIKLVCEGICELL 138 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~-------l~~i~~~i~~~~~~i~~l~ 138 (151)
|.++-+.-|.-|+.+.++.++.|++. |..++.++..+...+....
T Consensus 2 ~~e~Ri~~LE~klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 2 DAEERLTELEIRVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44445555555555555555555555 4555555555544444433
No 30
>PRK00295 hypothetical protein; Provisional
Probab=89.52 E-value=3.1 Score=26.94 Aligned_cols=45 Identities=16% Similarity=0.240 Sum_probs=22.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHh
Q 031887 94 TWSEALKFISQREDKIARQIDEYT-------RLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~-------~~l~~i~~~i~~~~~~i~~l~ 138 (151)
|.++-+.-|.-|+.+.++.++.|+ +.|..++.++..+...+..+.
T Consensus 2 ~~e~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 2 SLEERVTELESRQAFQDDTIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344444445555555555555544 445555555555544444443
No 31
>PRK09343 prefoldin subunit beta; Provisional
Probab=88.79 E-value=5.3 Score=28.61 Aligned_cols=109 Identities=12% Similarity=0.173 Sum_probs=84.9
Q ss_pred CchHHHHHHHHHHHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCC
Q 031887 1 MDSYRQEKVQKFEEFVD--RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDT 78 (151)
Q Consensus 1 ~~~~~~~~i~~~e~f~~--~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~ 78 (151)
|.+.++..+.+|...-. +.+..+.+.+..++......+.++..+.+--...+.. +.+||+-...+
T Consensus 5 ~~~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~L~~d~~VYk~V------------G~vlv~qd~~e- 71 (121)
T PRK09343 5 IPPEVQAQLAQLQQLQQQLERLLQQKSQIDLELREINKALEELEKLPDDTPIYKIV------------GNLLVKVDKTK- 71 (121)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHh------------hHHHhhccHHH-
Confidence 34577887777776543 6777888999999999999999988887665666543 23566655444
Q ss_pred CeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 79 QHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 79 ~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+-.++++-++|++.+++.+++..+.+++.+...+.++..+....
T Consensus 72 ------------~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~ 115 (121)
T PRK09343 72 ------------VEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKY 115 (121)
T ss_pred ------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33468999999999999999999999999999999998876543
No 32
>PF15456 Uds1: Up-regulated During Septation
Probab=86.26 E-value=11 Score=27.38 Aligned_cols=94 Identities=16% Similarity=0.236 Sum_probs=67.6
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecce
Q 031887 9 VQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLG 88 (151)
Q Consensus 9 i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g 88 (151)
|..+|.+ +.|+.++..|..+++.++..+.--...+++-..+......+... +.| +
T Consensus 18 iLs~eEV--e~LKkEl~~L~~R~~~lr~kl~le~k~RdAa~sl~~l~~~~~~~------~~~-----------------~ 72 (124)
T PF15456_consen 18 ILSFEEV--EELKKELRSLDSRLEYLRRKLALESKIRDAAHSLSRLYSSSSRR------ARF-----------------S 72 (124)
T ss_pred ccCHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc------cCC-----------------C
Confidence 5556663 88999999999999999999986666666666665432111111 111 1
Q ss_pred eEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 89 FHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 89 ~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
-=.-...+++..-.+++++.+...+.++...+..++..+
T Consensus 73 ~~~~~~~eeel~~~~rk~ee~~~eL~~le~R~~~~~~rL 111 (124)
T PF15456_consen 73 RESSLKAEEELAESDRKCEELAQELWKLENRLAEVRQRL 111 (124)
T ss_pred cchHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 112235788999999999999999999999998888765
No 33
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=84.72 E-value=19 Score=31.81 Aligned_cols=101 Identities=17% Similarity=0.286 Sum_probs=66.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
..|+.+|+.++.+++.+..++.-+......|+.+.... .-+++.++ -.+. .+ ++ .+.+
T Consensus 74 ~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~~~~~-~~~~-~~-------------~~-~~~~ 131 (525)
T TIGR02231 74 AELRKQIRELEAELRDLEDRGDALKALAKFLEDIREGL------TEPIKDSA-KRNE-PD-------------LK-EWFQ 131 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh------cccccccc-ccCC-CC-------------HH-HHHH
Confidence 34555666666666666666666555555665554321 11233222 0000 00 00 4778
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
...|+..++..+...+..+...+.+++.++..+...++.+..-
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~~ 174 (525)
T TIGR02231 132 AFDFNGSEIERLLTEDREAERRIRELEKQLSELQNELNALLTG 174 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC
Confidence 8899999999999999999999999999999999888887663
No 34
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=84.67 E-value=5 Score=29.21 Aligned_cols=44 Identities=27% Similarity=0.442 Sum_probs=30.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
++..|++.|..||+.+..++++..+....++++...+...+.+.
T Consensus 58 ~l~~tKkhLsqRId~vd~klDe~~ei~~~i~~eV~~v~~dv~~i 101 (126)
T PF07889_consen 58 SLSSTKKHLSQRIDRVDDKLDEQKEISKQIKDEVTEVREDVSQI 101 (126)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 56777788888888887777777777666666666665555443
No 35
>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=84.45 E-value=5.9 Score=25.55 Aligned_cols=44 Identities=23% Similarity=0.327 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
++....|.++-++.|++.+-..++.|..++.+++.+...+..+.
T Consensus 9 LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 9 LEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455566666666666666666666666666666666665554
No 36
>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=81.99 E-value=11 Score=24.23 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 144 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~ 144 (151)
+++-+.-|..|+...++.++.|++.+..-..+|..+...++.+..-.++.
T Consensus 2 le~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~ 51 (69)
T PF04102_consen 2 LEERIEELEIKLAFQEDTIEELNDVVTEQQRQIDRLQRQLRLLRERLREL 51 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46778888999999999999999999999999999988887776655443
No 37
>PRK02793 phi X174 lysis protein; Provisional
Probab=80.15 E-value=14 Score=24.13 Aligned_cols=40 Identities=13% Similarity=0.217 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
..|.++-++.|++.+-..++.|..++.+++.+...+..+.
T Consensus 17 lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 17 LAFQEITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344444444444444444455555555555555554443
No 38
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=78.69 E-value=21 Score=25.51 Aligned_cols=98 Identities=15% Similarity=0.245 Sum_probs=60.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.|+.++.+.-..++.+..++.+-.-.++-++.|... ..++ -+-+-+.|+-.... +--+...
T Consensus 15 q~LQk~l~k~~~~rqkle~qL~Enk~V~~Eldlle~d----~~VY-KliGpvLvkqel~E-------------Ar~nV~k 76 (120)
T KOG3478|consen 15 QNLQKELEKYVESRQKLETQLQENKIVLEELDLLEED----SNVY-KLIGPVLVKQELEE-------------ARTNVGK 76 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhccc----chHH-HHhcchhhHHHHHH-------------HHhhHHH
Confidence 4556677777777777777776655455545444332 1111 11222233322221 1124677
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEG 133 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~ 133 (151)
-++||++.++.++.++...+++..+.+..+-.....
T Consensus 77 RlefI~~Eikr~e~~i~d~q~e~~k~R~~v~k~Q~~ 112 (120)
T KOG3478|consen 77 RLEFISKEIKRLENQIRDSQEEFEKQREAVIKLQQA 112 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999999999999999888877655543
No 39
>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=77.92 E-value=2.4 Score=27.29 Aligned_cols=54 Identities=9% Similarity=0.145 Sum_probs=30.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchh
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQ 147 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~ 147 (151)
....-+.-++++++.+....++++.++..++..-.-++...+.-.++...++..
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~~~~E~v 74 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERLKNDPDYIEKVAREKLGMVKPGEIV 74 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCcCCCCEE
Confidence 344445555555555555555555555555444455566667677776665543
No 40
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=77.78 E-value=11 Score=32.42 Aligned_cols=52 Identities=19% Similarity=0.321 Sum_probs=41.3
Q ss_pred eEEeecHHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHhCC
Q 031887 89 FHVEFTWSEALKFISQREDKIARQIDEYTRL----------IASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 89 ~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~----------l~~i~~~i~~~~~~i~~l~~l 140 (151)
++++..++++.+.++.++..+++.++++... +..+..++......+.++..+
T Consensus 234 ~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~ 295 (406)
T PF02388_consen 234 FLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEEL 295 (406)
T ss_dssp EEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578889999999999999999998888775 666677777777777666654
No 41
>PRK04325 hypothetical protein; Provisional
Probab=77.66 E-value=17 Score=23.81 Aligned_cols=42 Identities=14% Similarity=0.234 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
.-..|.++-|+.|++.+-..++.|..++.+++.+...+..+.
T Consensus 16 ~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 16 IQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334444444555555555555555555555555555554443
No 42
>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=76.49 E-value=11 Score=26.34 Aligned_cols=102 Identities=10% Similarity=0.129 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFV 83 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V 83 (151)
+......++..=+ +.+..++..+...+......+.++..+...-..+..-+ .++|.-.- .+
T Consensus 7 ~~~~~~q~~q~~~-~~l~~q~~~le~~~~E~~~v~~eL~~l~~d~~vyk~VG----~vlv~~~~-----~e--------- 67 (110)
T TIGR02338 7 NQLAQLQQLQQQL-QAVATQKQQVEAQLKEAEKALEELERLPDDTPVYKSVG----NLLVKTDK-----EE--------- 67 (110)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHhc----hhhheecH-----HH---------
Confidence 3455566666545 77778888888888888888888887766555555542 24554321 11
Q ss_pred EecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 84 DIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 84 ~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+--++++=+++++.+++.+++..+.+++.+..++.+++.+.
T Consensus 68 -------~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~ 108 (110)
T TIGR02338 68 -------AIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEAL 108 (110)
T ss_pred -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 11247778888899999999999999999999998887654
No 43
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=76.41 E-value=7.7 Score=23.28 Aligned_cols=34 Identities=24% Similarity=0.406 Sum_probs=15.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
+..||.++|..--+.++..++.+..+|+.+.+.=
T Consensus 2 d~~EAkelLqe~~d~IEqkiedid~qIaeLe~KR 35 (46)
T PF08946_consen 2 DRAEAKELLQEHYDNIEQKIEDIDEQIAELEAKR 35 (46)
T ss_dssp -------------THHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHhHHHhHHHHHHHHHHHHHHH
Confidence 3567888888777777777777777777666543
No 44
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=76.33 E-value=61 Score=29.48 Aligned_cols=35 Identities=9% Similarity=0.135 Sum_probs=24.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLE 52 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~ 52 (151)
+.+.+++..+.++++++.++++++.+..+.++-+.
T Consensus 96 ~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~~~~ 130 (646)
T PRK05771 96 EKIEKEIKELEEEISELENEIKELEQEIERLEPWG 130 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 55666777777777777777777776666666554
No 45
>PRK04406 hypothetical protein; Provisional
Probab=76.06 E-value=20 Score=23.66 Aligned_cols=40 Identities=20% Similarity=0.318 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
+.|.+.-++.|++.+-..+++|..++.++..+...+..+.
T Consensus 20 lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 20 LAFQEQTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3344444444444444444555555555555555554443
No 46
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=75.61 E-value=29 Score=25.35 Aligned_cols=47 Identities=11% Similarity=0.275 Sum_probs=35.5
Q ss_pred eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 88 GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 88 g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
.+|+-++.+...+-|....+.+.+.++.+......+..+|..+...+
T Consensus 72 dvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 72 DVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKKVL 118 (131)
T ss_pred hhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666777777888888888888888888888888888777776554
No 47
>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=75.52 E-value=13 Score=23.16 Aligned_cols=36 Identities=14% Similarity=0.254 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
|..++..++..+..++++..+++..+..+.+.++.+
T Consensus 5 lEn~~~~~~~~i~tvk~en~~i~~~ve~i~envk~l 40 (55)
T PF05377_consen 5 LENELPRIESSINTVKKENEEISESVEKIEENVKDL 40 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444445555555555555555554444443
No 48
>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=74.69 E-value=13 Score=25.63 Aligned_cols=99 Identities=14% Similarity=0.198 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEe
Q 031887 6 QEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDI 85 (151)
Q Consensus 6 ~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~v 85 (151)
.....+|..=+ +.|...+..+...+......+.++..+...-..+...+ .++|..... +
T Consensus 5 ~~~~q~l~~~~-~~l~~~~~~l~~~~~E~~~v~~EL~~l~~d~~vy~~VG----~vfv~~~~~-----e----------- 63 (105)
T cd00632 5 LAQLQQLQQQL-QAYIVQRQKVEAQLNENKKALEELEKLADDAEVYKLVG----NVLVKQEKE-----E----------- 63 (105)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchHHHHhh----hHHhhccHH-----H-----------
Confidence 33444454433 78888899999999888888888876643333333321 244433211 1
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 86 GLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 86 G~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
+.-.+++-+++++.+++.+++.++.+.+.+..++.++..+
T Consensus 64 -----a~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 64 -----ARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred -----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2345889999999999999999999999999999998765
No 49
>PRK00295 hypothetical protein; Provisional
Probab=74.64 E-value=20 Score=23.09 Aligned_cols=34 Identities=9% Similarity=0.110 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+++-|++=+......++.+...+..+..++....
T Consensus 20 tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 20 TIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3344444444444455666666666655555543
No 50
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=74.04 E-value=19 Score=30.67 Aligned_cols=49 Identities=16% Similarity=0.332 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLE 52 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~ 52 (151)
.+-++|..-|.++|+.|.+.++.+....+++......|.++...+..+.
T Consensus 252 ~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~~s~~V~~~t 300 (359)
T PF10498_consen 252 KTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQASEGVSERT 300 (359)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 3456899999999999999999999998888888888888877776654
No 51
>PRK00736 hypothetical protein; Provisional
Probab=73.62 E-value=21 Score=22.95 Aligned_cols=35 Identities=3% Similarity=0.153 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
++++-|++=+..-.+.++.+...+..+..++....
T Consensus 19 ~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 19 KTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34444444444445555666666666666665543
No 52
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=73.56 E-value=16 Score=26.35 Aligned_cols=90 Identities=8% Similarity=0.115 Sum_probs=59.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
+.+--+.+++...+..+...+.++..+-+-=...... +++||+.+-+. +--.+++
T Consensus 23 ~~~~~qk~~le~qL~E~~~al~Ele~l~eD~~vYk~V------------G~llvk~~k~~-------------~~~eL~e 77 (119)
T COG1382 23 QKVILQKQQLEAQLKEIEKALEELEKLDEDAPVYKKV------------GNLLVKVSKEE-------------AVDELEE 77 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCcccHHHHHh------------hhHHhhhhHHH-------------HHHHHHH
Confidence 3334455677777777777777766554322222221 12333332111 2235899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~ 132 (151)
=.++++.|++.|+++.++++..+.+++..|.....
T Consensus 78 r~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~ 112 (119)
T COG1382 78 RKETLELRIKTLEKQEEKLQERLEELQSEIQKALG 112 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999876653
No 53
>PF13118 DUF3972: Protein of unknown function (DUF3972)
Probab=73.27 E-value=5.9 Score=28.89 Aligned_cols=75 Identities=17% Similarity=0.212 Sum_probs=36.9
Q ss_pred CceEEEecCCeeeEeEEeCCCCeeEEEec------ceeEEeecHH--------------HHHHHHHHHHHHHHHHHHHHH
Q 031887 58 SLRTLVNLGSEVYMQADVPDTQHIFVDIG------LGFHVEFTWS--------------EALKFISQREDKIARQIDEYT 117 (151)
Q Consensus 58 ~~e~lVplg~~~fv~a~i~~~~~V~V~vG------~g~~vE~t~~--------------eA~~~l~~ri~~L~~~~~~l~ 117 (151)
+-.+++++++|.. +-|+....-+++-- ...|||+|+. |++..+..--.+|.+.+-.++
T Consensus 28 ~g~~~Ie~~~g~~--~~v~~~~~~~~~~~~~~~~~~~~fvEKTi~til~LheKvl~aKdETI~~lk~EN~fLKeAl~s~Q 105 (126)
T PF13118_consen 28 DGKIYIEASSGTK--ALVPKAENELVSMNMSSHALDPMFVEKTIGTILNLHEKVLDAKDETIEALKNENRFLKEALYSMQ 105 (126)
T ss_pred CCeEEEEcCcchH--HHhhHHHHHHHhhcccccccccchhhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578999988852 33332222222211 1249999854 444444444444444444444
Q ss_pred HHHHHHHHHHHHHHHHH
Q 031887 118 RLIASIKAQIKLVCEGI 134 (151)
Q Consensus 118 ~~l~~i~~~i~~~~~~i 134 (151)
....+-+.-|..+.+.+
T Consensus 106 E~y~ed~kTI~~L~~qL 122 (126)
T PF13118_consen 106 ELYEEDRKTIELLREQL 122 (126)
T ss_pred HHHHhhHHHHHHHHHHH
Confidence 44444444444444333
No 54
>PF14282 FlxA: FlxA-like protein
Probab=72.97 E-value=19 Score=25.09 Aligned_cols=46 Identities=17% Similarity=0.306 Sum_probs=31.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHhC
Q 031887 94 TWSEALKFISQREDKIARQIDEYTR-----------LIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~-----------~l~~i~~~i~~~~~~i~~l~~ 139 (151)
+.+.-++-|.++|..|.+.+..|.. .+..++.+|..+...|++++.
T Consensus 16 ~~~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~ 72 (106)
T PF14282_consen 16 SSDSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQS 72 (106)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478888899999999998888877 234455555566655555543
No 55
>PRK02119 hypothetical protein; Provisional
Probab=71.42 E-value=26 Score=22.92 Aligned_cols=43 Identities=9% Similarity=0.237 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
+.-..|.++-++.|++.+-.-++.|..++.++..+...+..+.
T Consensus 15 E~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 15 EMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3444555555555555555556666666666666655555544
No 56
>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=71.41 E-value=28 Score=24.15 Aligned_cols=39 Identities=10% Similarity=0.258 Sum_probs=19.5
Q ss_pred ecHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFIS----------QREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 93 ~t~~eA~~~l~----------~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+|+++..++++ .+...|.++++.+..+++.++..+..+.
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (113)
T cd01109 58 MSIKDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQETLAYLD 106 (113)
T ss_pred CCHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677776665 2334444444444444444444444433
No 57
>PRK02119 hypothetical protein; Provisional
Probab=70.69 E-value=27 Score=22.84 Aligned_cols=43 Identities=5% Similarity=0.009 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
.++-+.-|.-|+.+.++.++.|++.+..-+.+|..+...++.+
T Consensus 7 ~e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~~id~L~~ql~~L 49 (73)
T PRK02119 7 LENRIAELEMKIAFQENLLEELNQALIEQQFVIDKMQVQLRYM 49 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777888888888889999999988888888777777654
No 58
>PF05190 MutS_IV: MutS family domain IV C-terminus.; InterPro: IPR007861 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the clamp domain (domain 4) found in proteins of the MutS family. The clamp domain is inserted within the core domain at the top of the lever helices. It has a beta-sheet structure [].; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2WTU_A 1OH7_A 1OH5_B 1W7A_B 1NG9_A 1OH8_B 1WBD_A 1WB9_A 3K0S_A 1OH6_A ....
Probab=70.14 E-value=17 Score=23.66 Aligned_cols=20 Identities=15% Similarity=0.204 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 031887 22 PDLTRAIAERDKVFEQQKIF 41 (151)
Q Consensus 22 ~dL~~l~~~~~~l~~~i~e~ 41 (151)
++|+.+.+.++.+...+.++
T Consensus 4 ~~Ld~~~~~~~~~~~~l~~~ 23 (92)
T PF05190_consen 4 EELDELREEYEEIEEELEEL 23 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666666655
No 59
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=69.95 E-value=39 Score=27.25 Aligned_cols=42 Identities=12% Similarity=0.222 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
+.-.+...++|+..|+..+..+...+..+..++..+...+..
T Consensus 94 L~~E~~~ak~r~~~le~el~~l~~~~~~l~~~i~~l~~~~~~ 135 (239)
T COG1579 94 LNIEIQIAKERINSLEDELAELMEEIEKLEKEIEDLKERLER 135 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666677777777777777777777777777666555543
No 60
>PRK02793 phi X174 lysis protein; Provisional
Probab=69.88 E-value=28 Score=22.68 Aligned_cols=46 Identities=11% Similarity=0.062 Sum_probs=37.1
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
++.++-+.-|.-|+.+.++.++.|++.+..-+.+|..+...++.+.
T Consensus 4 ~~~e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~ 49 (72)
T PRK02793 4 SSLEARLAELESRLAFQEITIEELNVTVTAHEMEMAKLRDHLRLLT 49 (72)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3466777888889999999999999999999988888777775553
No 61
>PRK04406 hypothetical protein; Provisional
Probab=69.66 E-value=29 Score=22.83 Aligned_cols=43 Identities=9% Similarity=0.071 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+++-+.-|.-|+.+.++.++.|++.+..-+.+|..+...++.+
T Consensus 9 le~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~~I~~L~~ql~~L 51 (75)
T PRK04406 9 LEERINDLECQLAFQEQTIEELNDALSQQQLLITKMQDQMKYV 51 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455666777778888888888888888888887777766644
No 62
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=69.27 E-value=29 Score=24.63 Aligned_cols=27 Identities=19% Similarity=0.225 Sum_probs=19.4
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 92 EFTWSEALKFISQREDKIARQIDEYTR 118 (151)
Q Consensus 92 E~t~~eA~~~l~~ri~~L~~~~~~l~~ 118 (151)
|+|.+||..|++.=+......-..+..
T Consensus 38 eln~eEak~~vddl~~q~k~~~~e~e~ 64 (108)
T COG3937 38 ELNAEEAKRFVDDLLRQAKEAQGELEE 64 (108)
T ss_pred CCCHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 578999999998877777654444433
No 63
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=67.47 E-value=44 Score=24.09 Aligned_cols=39 Identities=15% Similarity=0.140 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchh
Q 031887 109 IARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQ 147 (151)
Q Consensus 109 L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~ 147 (151)
+...++.+...+.+++.....+...+....+-+.+..-|
T Consensus 83 l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~~~~~~ 121 (131)
T cd04786 83 LERKVADIEALEARLAQNKAQLLVLIDLIESKPDEMDCA 121 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCch
Confidence 334444444444444444444445555555444433333
No 64
>PRK04325 hypothetical protein; Provisional
Probab=67.00 E-value=33 Score=22.45 Aligned_cols=43 Identities=12% Similarity=0.091 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
.++-+.-|.-|+.+.++.++.|++.+..-..+|..+...++.+
T Consensus 7 ~e~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~~I~~L~~ql~~L 49 (74)
T PRK04325 7 MEDRITELEIQLAFQEDLIDGLNATVARQQQTLDLLQAQLRLL 49 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566788888899999999999999999998888777666554
No 65
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=66.42 E-value=75 Score=26.38 Aligned_cols=46 Identities=13% Similarity=0.206 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
....++-..+.+..++..+..+...+..+.+++..+...|+++...
T Consensus 221 ~~~~i~~~k~~l~el~~el~~l~~~i~~~~~~k~~l~~eI~e~~~~ 266 (325)
T PF08317_consen 221 QKEEIEAKKKELAELQEELEELEEKIEELEEQKQELLAEIAEAEKI 266 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666667777888888888888888888888888888777644
No 66
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=66.21 E-value=17 Score=28.62 Aligned_cols=37 Identities=22% Similarity=0.405 Sum_probs=33.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
++.+|+.-+++|-+.+++.|.+|..++...+.+|.-+
T Consensus 16 sL~dai~~v~~r~dSve~KIskLDaeL~k~~~Qi~k~ 52 (218)
T KOG1655|consen 16 SLQDAIDSVNKRSDSVEKKISKLDAELCKYKDQIKKT 52 (218)
T ss_pred hHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence 6889999999999999999999999999999998754
No 67
>PHA02751 hypothetical protein; Provisional
Probab=65.74 E-value=9.5 Score=29.59 Aligned_cols=68 Identities=12% Similarity=0.091 Sum_probs=52.3
Q ss_pred ceEEEecCCeeeEeEEeCCCCeeEEEeccee----------EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 59 LRTLVNLGSEVYMQADVPDTQHIFVDIGLGF----------HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQ 126 (151)
Q Consensus 59 ~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~----------~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~ 126 (151)
-+-.|.+|..+|+-|.+.-.+-+.=+||--+ ++|+.+.+.-+.+.-++..-++.+.++...+++.-+.
T Consensus 123 CdnvvglgR~CvIfGalVrddG~~khV~ii~eeeYleWlRam~ek~~adSweVim~~Lqi~ee~ln~l~eeLak~adk 200 (233)
T PHA02751 123 CDNVVGLGRLCVIFGALVRDDGHAKHVGIITEEEYLEWLRAMAEKNLADSWEVIMIPLQIHEELLNELEEELAKCADK 200 (233)
T ss_pred cccccccceEEEEEeeEEeecCeeeeccccCHHHHHHHHHHHHhcCcccchhheeeeHHHHHHHHHHHHHHHHHHhhh
Confidence 3456788889999998887777777787543 4567778887788888888888888888888877654
No 68
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=63.88 E-value=69 Score=25.70 Aligned_cols=33 Identities=27% Similarity=0.342 Sum_probs=27.1
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 91 VEFTWSEALKFISQREDKIARQIDEYTRLIASI 123 (151)
Q Consensus 91 vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i 123 (151)
-|....+|..||..-|+.|+.+++.+..++..+
T Consensus 116 ~e~ek~e~~~wl~~~Id~L~~QiE~~E~E~E~L 148 (233)
T PF04065_consen 116 KEKEKEEARDWLKDSIDELNRQIEQLEAEIESL 148 (233)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357788999999999999999888887776643
No 69
>KOG3905 consensus Dynein light intermediate chain [Cell motility]
Probab=63.22 E-value=22 Score=30.61 Aligned_cols=102 Identities=13% Similarity=0.220 Sum_probs=64.3
Q ss_pred HHHHHHHHHHhhhHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHH-------HhhhcCCCCceEEEecCCeeeEeE
Q 031887 8 KVQKFEEFVDRRLKPDLTRAI-------AERDKVFEQQKIFSDLRKNIE-------NLEKNSVTSLRTLVNLGSEVYMQA 73 (151)
Q Consensus 8 ~i~~~e~f~~~~L~~dL~~l~-------~~~~~l~~~i~e~~~lk~~i~-------~l~~~~~~~~e~lVplg~~~fv~a 73 (151)
-+..+..|. .+|++.++++. +-++++...-.+|.+--+-+- ++. .+..+..+++|||.+..
T Consensus 143 ~lesLqkWa-~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~-~~~~de~~llPL~~dtL--- 217 (473)
T KOG3905|consen 143 LLESLQKWA-SVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVV-GSSADEHVLLPLGQDTL--- 217 (473)
T ss_pred HHHHHHHHH-HHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccc-cCccccccccccCCcch---
Confidence 356677777 66666665443 344444445555544333220 011 11234568888887654
Q ss_pred EeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 74 DVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIAS 122 (151)
Q Consensus 74 ~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~ 122 (151)
.-++|..|.|-+|--+|...|.+..+.-.+..+.++..+..
T Consensus 218 --------t~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRk 258 (473)
T KOG3905|consen 218 --------THNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRK 258 (473)
T ss_pred --------hhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHH
Confidence 34699999999999999999988888777777766665543
No 70
>PHA03386 P10 fibrous body protein; Provisional
Probab=63.10 E-value=47 Score=22.93 Aligned_cols=48 Identities=10% Similarity=0.217 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHhCCCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRL---IASIKAQIKLVCEGICELLQLPA 142 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~---l~~i~~~i~~~~~~i~~l~~l~~ 142 (151)
+-.|++-++.|++.|+.+++.++.. +..+.+++..+...++..+++-.
T Consensus 10 Ir~dIkavd~KVdaLQ~qV~dv~~n~~~LDa~~~qL~~l~tkV~~Iq~iLn 60 (94)
T PHA03386 10 ILDAVQEVDTKVDALQTQLNGLEEDSQPLDGLPAQLTELDTKVSDIQSILT 60 (94)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHhcchhhhhHHHHHHHHHHHHHHHHHhcC
Confidence 3468888999999999999888864 44555666777777777777654
No 71
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=62.65 E-value=29 Score=21.30 Aligned_cols=26 Identities=19% Similarity=0.360 Sum_probs=13.6
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRL 119 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~ 119 (151)
+++++...+..+++.++++++.++..
T Consensus 33 ~~~~~~~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 33 PCADRRALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555554443
No 72
>PTZ00464 SNF-7-like protein; Provisional
Probab=62.59 E-value=26 Score=27.66 Aligned_cols=36 Identities=25% Similarity=0.315 Sum_probs=31.4
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
-|+.+|+.-+++|.+.|.++++++..++...+.++.
T Consensus 14 ~t~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k 49 (211)
T PTZ00464 14 PTLEDASKRIGGRSEVVDARINKIDAELMKLKEQIQ 49 (211)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999999988888877764
No 73
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=62.59 E-value=1e+02 Score=26.52 Aligned_cols=22 Identities=0% Similarity=-0.023 Sum_probs=10.7
Q ss_pred ecceeEEeecHHHHHHHHHHHH
Q 031887 85 IGLGFHVEFTWSEALKFISQRE 106 (151)
Q Consensus 85 vG~g~~vE~t~~eA~~~l~~ri 106 (151)
.|+-+-+......+.+.+....
T Consensus 106 ~~~~v~~~~~~~~~~~~l~~~~ 127 (398)
T PTZ00454 106 PNASVALHRHSHAVVDILPPEA 127 (398)
T ss_pred CCCEEEeeccchhHHHhccccc
Confidence 4444444444555555554433
No 74
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=62.35 E-value=25 Score=23.94 Aligned_cols=41 Identities=7% Similarity=0.098 Sum_probs=21.2
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
+|++++.++++... .+....+......+.+++..+...++.
T Consensus 58 ~~l~~i~~~~~~~~---~~~~~~l~~~~~~l~~~i~~l~~~~~~ 98 (103)
T cd01106 58 FSLKEIKELLKDPS---EDLLEALREQKELLEEKKERLDKLIKT 98 (103)
T ss_pred CCHHHHHHHHHcCc---HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 67888888876553 333333444444444444444444433
No 75
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=61.78 E-value=27 Score=24.39 Aligned_cols=37 Identities=22% Similarity=0.404 Sum_probs=22.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
+.+....++..+.+.++++++.++...+.+..-+..+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 76 PWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4455566666666666666666666666655554443
No 76
>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=61.76 E-value=84 Score=25.36 Aligned_cols=46 Identities=15% Similarity=0.238 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHhCCCC
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLV-------CEGICELLQLPA 142 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~-------~~~i~~l~~l~~ 142 (151)
.=.+-+..|..+|++.+.+....+..++.++..+ -+-|+=+|+++.
T Consensus 86 sQRDRFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqSY~~ 138 (248)
T PF08172_consen 86 SQRDRFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQSYNN 138 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcc
Confidence 3456778888888888888888877777777544 667888899985
No 77
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=61.52 E-value=29 Score=20.89 Aligned_cols=27 Identities=4% Similarity=0.101 Sum_probs=23.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDL 44 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~l 44 (151)
+.|++++..|+.++..|+...+.|+.+
T Consensus 2 ~aLrqQv~aL~~qv~~Lq~~fs~yKKa 28 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRLQAAFSQYKKA 28 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568999999999999999999998665
No 78
>PRK11637 AmiB activator; Provisional
Probab=61.17 E-value=1.1e+02 Score=26.34 Aligned_cols=24 Identities=4% Similarity=-0.101 Sum_probs=13.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIF 41 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~ 41 (151)
..++.+|+.+.++++++..++.+.
T Consensus 43 ~~~~~~l~~l~~qi~~~~~~i~~~ 66 (428)
T PRK11637 43 SDNRDQLKSIQQDIAAKEKSVRQQ 66 (428)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHH
Confidence 345566666666666665555543
No 79
>PHA02562 46 endonuclease subunit; Provisional
Probab=61.02 E-value=93 Score=27.26 Aligned_cols=34 Identities=21% Similarity=0.274 Sum_probs=16.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENL 51 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l 51 (151)
+.|+.++..+...+..+.....++.++...+..+
T Consensus 309 ~~l~~~l~~l~~~i~~~~~~~~~~~~~~~~i~el 342 (562)
T PHA02562 309 KELQHSLEKLDTAIDELEEIMDEFNEQSKKLLEL 342 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555554444444444444444333
No 80
>PRK00846 hypothetical protein; Provisional
Probab=59.90 E-value=49 Score=22.02 Aligned_cols=41 Identities=15% Similarity=0.132 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
-..|-+.-++.|++.+-..+..++.++.++..+...+..+.
T Consensus 21 rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 21 RLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455555555555555556666666666666666666655
No 81
>TIGR01062 parC_Gneg DNA topoisomerase IV, A subunit, proteobacterial. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=58.44 E-value=1e+02 Score=28.92 Aligned_cols=89 Identities=13% Similarity=0.185 Sum_probs=57.9
Q ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecH
Q 031887 16 VDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTW 95 (151)
Q Consensus 16 ~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~ 95 (151)
+..+.+-+|.+++.++.-+..-+--|..+-+.|+-+.... .+...|+. .-..|-
T Consensus 354 ~~rR~~~~l~k~~~rl~il~Gl~ia~~~iDevI~iIR~s~-~~k~~L~~-------------------------~f~ls~ 407 (735)
T TIGR01062 354 VIRRLTYRLNKVLQRLHILEGLRIAFLNIDEVIEIIREED-EPKTILME-------------------------RFKLSA 407 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHcCh-hhHHHHHH-------------------------hcCCCH
Confidence 4466666777777777777777767777778888887653 22221110 024788
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~-~~~~l~~~l~~i~~~i~~~ 130 (151)
.+|..+|+-|+..|.. ...++.++.+++..++..+
T Consensus 408 ~QaeaIL~mrL~~L~~le~~~i~~E~~~l~~e~~~l 443 (735)
T TIGR01062 408 IQAEAILNLRLRHLAKLEEHAIIDEQSELEKERAIL 443 (735)
T ss_pred HHHHHHHHhHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 9999999999988865 4455555555555555444
No 82
>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=57.74 E-value=44 Score=20.84 Aligned_cols=44 Identities=14% Similarity=0.157 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNI 48 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i 48 (151)
+++.++.+++.-+ +.++.+.+.+...++.+...+.+...+=+.+
T Consensus 4 elEn~~~~~~~~i-~tvk~en~~i~~~ve~i~envk~ll~lYE~V 47 (55)
T PF05377_consen 4 ELENELPRIESSI-NTVKKENEEISESVEKIEENVKDLLSLYEVV 47 (55)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677788888766 7777777777777777777776654444433
No 83
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=57.38 E-value=60 Score=22.83 Aligned_cols=34 Identities=18% Similarity=0.255 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
+..+.+..++..|+.++..++..++.+...+..+
T Consensus 80 ~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~~~~ 113 (118)
T cd04776 80 KMLEKIEKRRAELEQQRRDIDAALAELDAAEERC 113 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344445555555555554444444444444433
No 84
>KOG2577 consensus Transcription factor E2F/dimerization partner (TDP) [Transcription]
Probab=56.47 E-value=41 Score=28.71 Aligned_cols=53 Identities=17% Similarity=0.248 Sum_probs=43.4
Q ss_pred CeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 79 QHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 79 ~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
.+-+-|+|.|+.--....+=...++.+++.|...-+.|.+.+.+.+.++..+.
T Consensus 126 KN~IqW~G~~~~~~~~~~e~~~~l~~e~~~L~~~E~~LD~~i~~~q~~L~~lt 178 (354)
T KOG2577|consen 126 KNNIQWIGGDFNSTGGVPERLNGLEAEVEDLSQEEDDLDQLIRDCQQNLRLLT 178 (354)
T ss_pred ccceeeecCCCccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34567999999976667777888889999998888888888888888887764
No 85
>KOG3335 consensus Predicted coiled-coil protein [General function prediction only]
Probab=55.86 E-value=58 Score=25.16 Aligned_cols=61 Identities=20% Similarity=0.217 Sum_probs=31.5
Q ss_pred CCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 78 TQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 78 ~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
.+-|+-.||.|++|=...-.+..-=.+ .+.-...+.+|+..+..+..++......+++|++
T Consensus 74 gE~~iF~vggg~lv~Ey~R~~~~e~~k-ee~~~~e~~elr~~~~~l~~~i~~~~~~~~~L~~ 134 (181)
T KOG3335|consen 74 GELFIFSVGGGVLVFEYWRQARKERKK-EEKRKQEIMELRLKVEKLENAIAELTKFFSQLHS 134 (181)
T ss_pred hhHHheeecceeeeehhHHhhhcchhh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777888888886544444332222 2222334444555555555555555555555543
No 86
>PRK00846 hypothetical protein; Provisional
Probab=54.84 E-value=61 Score=21.56 Aligned_cols=47 Identities=15% Similarity=0.068 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHhCCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC----ELLQLP 141 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~----~l~~l~ 141 (151)
.++-+.-|.-|+.+.++.++.|++.+..-...|..+...++ ++....
T Consensus 11 le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 11 LEARLVELETRLSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44556667777777778888888888887778877776665 444444
No 87
>PRK04863 mukB cell division protein MukB; Provisional
Probab=54.80 E-value=2.5e+02 Score=28.66 Aligned_cols=54 Identities=11% Similarity=0.091 Sum_probs=45.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchhh
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQE 148 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~~ 148 (151)
+++-..-+..+++.++..+..++.++...++.+..+....+.+.......+++.
T Consensus 440 Le~~LenF~aklee~e~qL~elE~kL~~lea~leql~~~~~~l~~~~Gkv~~~~ 493 (1486)
T PRK04863 440 AEDWLEEFQAKEQEATEELLSLEQKLSVAQAAHSQFEQAYQLVRKIAGEVSRSE 493 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcCHHH
Confidence 677777788999999999999999999999999999988888887765555543
No 88
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=54.72 E-value=64 Score=21.81 Aligned_cols=41 Identities=17% Similarity=0.186 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
.+-..-|+..++.|+..++.|.+.-..+..++..+++.-++
T Consensus 25 ~~E~~~ins~LD~Lns~LD~LE~rnD~l~~~L~~LLesnrq 65 (83)
T PF03670_consen 25 EEEYAAINSMLDQLNSCLDHLEQRNDHLHAQLQELLESNRQ 65 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 34467889999999999999999999999988877665544
No 89
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=54.19 E-value=63 Score=22.45 Aligned_cols=36 Identities=3% Similarity=0.090 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHH
Q 031887 100 KFISQREDKIARQIDEY--TRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l--~~~l~~i~~~i~~~~~~i~ 135 (151)
.-.++|+..++..++.+ .++++.++-.+..+...+.
T Consensus 45 ~~~~~Rl~~lE~~l~~LPt~~dv~~L~l~l~el~G~~~ 82 (106)
T PF10805_consen 45 DEHDRRLQALETKLEHLPTRDDVHDLQLELAELRGELK 82 (106)
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhHHH
Confidence 33478888887777776 6666666666655554443
No 90
>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins. The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].
Probab=53.53 E-value=59 Score=28.75 Aligned_cols=50 Identities=20% Similarity=0.284 Sum_probs=35.0
Q ss_pred EEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 61 TLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIA 121 (151)
Q Consensus 61 ~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~ 121 (151)
+..|+|.|++ -.++|.-+.|-++-.+++..|.+....=++.++-++.-+.
T Consensus 182 ~~lpl~~g~l-----------~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR 231 (472)
T PF05783_consen 182 VLLPLGEGVL-----------TENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLR 231 (472)
T ss_pred ccCCCCCccc-----------ccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHH
Confidence 6678887753 2458999999999999999888876544455555444433
No 91
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=53.40 E-value=87 Score=22.94 Aligned_cols=29 Identities=10% Similarity=0.269 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 107 DKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 107 ~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
..++++++.+..++++++.....+...+.
T Consensus 87 ~ll~~k~~~l~~~i~~L~~~~~~L~~~~~ 115 (144)
T PRK13752 87 SLAEHKLKDVREKMADLARMEAVLSELVC 115 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444444444444443333
No 92
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=53.30 E-value=45 Score=22.45 Aligned_cols=22 Identities=27% Similarity=0.436 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 031887 109 IARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 109 L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
+...+++....++..+++++.+
T Consensus 6 i~~eieK~k~Kiae~Q~rlK~L 27 (83)
T PF14193_consen 6 IRAEIEKTKEKIAELQARLKEL 27 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333
No 93
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=52.72 E-value=70 Score=21.63 Aligned_cols=35 Identities=11% Similarity=0.197 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
....++..|++.++.++.++..++++++.+...+.
T Consensus 67 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~ 101 (104)
T PF13600_consen 67 SDSPELKELEEELEALEDELAALQDEIQALEAQIA 101 (104)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666666666666666666555443
No 94
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=52.63 E-value=88 Score=22.78 Aligned_cols=46 Identities=11% Similarity=0.208 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIEN 50 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~ 50 (151)
++..+|...+..+ ..+-..+..-+++.+...+.+++..++...|..
T Consensus 53 ~L~~riKevd~~~-~~l~~~~~erqk~~~k~ae~L~kv~els~~L~~ 98 (131)
T PF10158_consen 53 ALAKRIKEVDQEI-AKLLQQMVERQKRFAKFAEQLEKVNELSQQLSR 98 (131)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555666666655 555555665566666666666655555544443
No 95
>PRK05561 DNA topoisomerase IV subunit A; Validated
Probab=52.15 E-value=1.4e+02 Score=28.05 Aligned_cols=93 Identities=13% Similarity=0.099 Sum_probs=54.8
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeec
Q 031887 15 FVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFT 94 (151)
Q Consensus 15 f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t 94 (151)
++..+.+-+|+++++++.-+..-+.-+......|+.+.++.. ...-++. + . .+|
T Consensus 366 ~~~rr~~~~l~k~~~r~~~l~g~~~~~~~id~vI~iir~s~~-ak~~l~~---------------~----f------~~~ 419 (742)
T PRK05561 366 VVTRRSQFRLDKVEKRLHILEGLLIAFLNIDEVIRIIRESDE-PKANLMA---------------R----F------DLS 419 (742)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHhcCcc-HHHHHHH---------------H----h------CCC
Confidence 344666667777777777666655555555566665554321 1111100 0 0 247
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIA-RQIDEYTRLIASIKAQIKLVCEG 133 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~-~~~~~l~~~l~~i~~~i~~~~~~ 133 (151)
-.+|..+++-|+..|. ...+++.+++.+++..|..++..
T Consensus 420 ~~qa~~Il~m~L~~Lt~le~~kl~~E~~~l~~ei~~l~~i 459 (742)
T PRK05561 420 EIQAEAILELRLRRLAKLEEIEIRKEQDELRKEIAELEAI 459 (742)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999888876 35566666666666666554433
No 96
>PF10392 COG5: Golgi transport complex subunit 5; InterPro: IPR019465 The conserved oligomeric Golgi (COG) complex is a peripheral membrane complex involved in intra-Golgi protein trafficking. Subunit 5 is located in the smaller, B lobe, together with subunits 6-8, and has been shown to bind subunits 1 and 7 [].
Probab=51.73 E-value=87 Score=22.43 Aligned_cols=44 Identities=11% Similarity=0.254 Sum_probs=32.9
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhh
Q 031887 8 KVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKI-FSDLRKNIENLE 52 (151)
Q Consensus 8 ~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e-~~~lk~~i~~l~ 52 (151)
.+..++. +-+.+++.+..+...++.+..++.+ |..+......|.
T Consensus 66 ~~~~~~~-~l~~v~~~v~~L~~s~~RL~~eV~~Py~~~~~~~~~L~ 110 (132)
T PF10392_consen 66 SIEELES-VLQAVRSSVESLQSSYERLRSEVIEPYEKIQKLTSQLE 110 (132)
T ss_pred hHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 4677777 4489999999999999999988864 666655444443
No 97
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=51.59 E-value=80 Score=21.97 Aligned_cols=49 Identities=14% Similarity=0.088 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCch
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSV 146 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~ 146 (151)
=+.-+..+++.++..-+.|..++..++.....+++..+.-.++...++.
T Consensus 35 q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~vk~gEi 83 (105)
T PRK00888 35 QVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERARNELGMVKPGET 83 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHcCCCCCCCE
Confidence 3444555566666666666666776666566777777877787766654
No 98
>PF14131 DUF4298: Domain of unknown function (DUF4298)
Probab=51.42 E-value=64 Score=21.77 Aligned_cols=38 Identities=21% Similarity=0.176 Sum_probs=25.3
Q ss_pred HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 9 VQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKN 47 (151)
Q Consensus 9 i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~ 47 (151)
|.++|.-. +...+-+.++.+.+++++...+.|.+|.+-
T Consensus 2 I~eme~~y-~~~~~~l~~le~~l~~~~~~~~~~~~L~~Y 39 (90)
T PF14131_consen 2 IQEMEKIY-NEWCELLEELEEALEKWQEAQPDYRKLRDY 39 (90)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55566644 555566677777777777777777777653
No 99
>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=51.29 E-value=63 Score=22.31 Aligned_cols=35 Identities=23% Similarity=0.416 Sum_probs=29.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
++++...++..++..++.+++.++..++.+...+.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 76 TIPERLELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788899999999999999999998888877654
No 100
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=51.14 E-value=84 Score=22.08 Aligned_cols=42 Identities=17% Similarity=0.192 Sum_probs=22.8
Q ss_pred ecHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ-------------REDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 93 ~t~~eA~~~l~~-------------ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+|+++..++++. ++..+.+++..+..++..++..++.+...+
T Consensus 56 ~~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~L~~~~ 110 (118)
T cd04776 56 FSLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAALAELDAAE 110 (118)
T ss_pred CCHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367777777764 333455555555555555555554444443
No 101
>PRK11637 AmiB activator; Provisional
Probab=51.01 E-value=70 Score=27.48 Aligned_cols=16 Identities=0% Similarity=-0.132 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHH
Q 031887 26 RAIAERDKVFEQQKIF 41 (151)
Q Consensus 26 ~l~~~~~~l~~~i~e~ 41 (151)
.+.++++++..++.+.
T Consensus 44 ~~~~~l~~l~~qi~~~ 59 (428)
T PRK11637 44 DNRDQLKSIQQDIAAK 59 (428)
T ss_pred hhHHHHHHHHHHHHHH
Confidence 4555555555555443
No 102
>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=50.89 E-value=72 Score=21.26 Aligned_cols=42 Identities=14% Similarity=0.264 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 031887 103 SQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 144 (151)
Q Consensus 103 ~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~ 144 (151)
-.+...+...+..+...+..+..++..+..++..|..++.+.
T Consensus 4 ~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l~~~~ 45 (106)
T PF01920_consen 4 QNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKLDDDR 45 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSSTT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 356778888999999999999999999999999999996663
No 103
>PF04949 Transcrip_act: Transcriptional activator; InterPro: IPR007033 Golgins are a family of coiled-coil proteins associated with the Golgi apparatus necessary for tethering events in membrane fusion and as structural supports for Golgi cisternae []. This entry represents proteins annotated as RAB6-interacting golgins.
Probab=50.51 E-value=93 Score=23.46 Aligned_cols=44 Identities=11% Similarity=0.179 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
.-.+...+.++|+.++..++-+...-.+....+...+++.+...
T Consensus 82 ~RkEv~~vRkkID~vNreLkpl~~~cqKKEkEykealea~nEkn 125 (159)
T PF04949_consen 82 MRKEVEMVRKKIDSVNRELKPLGQSCQKKEKEYKEALEAFNEKN 125 (159)
T ss_pred hHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778899999999999999999999999999998888877654
No 104
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=49.44 E-value=64 Score=23.54 Aligned_cols=34 Identities=6% Similarity=0.227 Sum_probs=31.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
-++++.+-+.+.++.|+...+.+...++.++..+
T Consensus 85 ~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~L 118 (131)
T KOG1760|consen 85 QLEEKKETLEKEIEELESELESISARMDELKKVL 118 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3899999999999999999999999999999875
No 105
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=49.42 E-value=74 Score=24.30 Aligned_cols=31 Identities=19% Similarity=0.278 Sum_probs=17.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIK 124 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~ 124 (151)
|+++-.+.+..+.+.+..+++.|+..++.+.
T Consensus 82 t~~~R~~lLe~~~~~l~~ri~eLe~~l~~ka 112 (175)
T PRK13182 82 ISSVDFEQLEAQLNTITRRLDELERQLQQKA 112 (175)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455566666666666666655555544443
No 106
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=49.21 E-value=66 Score=22.87 Aligned_cols=23 Identities=17% Similarity=0.273 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 031887 109 IARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 109 L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+..+++.+..++++++.....+.
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~ 106 (127)
T TIGR02047 84 LDEHISHVRARIIKLQALIEQLV 106 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444443
No 107
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=49.01 E-value=81 Score=24.23 Aligned_cols=45 Identities=22% Similarity=0.395 Sum_probs=29.2
Q ss_pred ecc-eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 85 IGL-GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 85 vG~-g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
+|+ +||=-++ .+|..-...+++.|.+.++.+...+..++..+...
T Consensus 50 iGssn~YWsFp-s~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i~~~ 95 (188)
T PF03962_consen 50 IGSSNYYWSFP-SQAKQKRQNKLEKLQKEIEELEKKIEELEEKIEEA 95 (188)
T ss_pred ccCeeEEEecC-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 776 5666664 45555666777777777777777766666666544
No 108
>PRK04863 mukB cell division protein MukB; Provisional
Probab=48.86 E-value=27 Score=35.27 Aligned_cols=36 Identities=14% Similarity=0.140 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKI 40 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e 40 (151)
.++.++.+.+. ..+.++.++++.++++++....+..
T Consensus 989 ~Le~~Le~iE~-~~~~areql~qaq~q~~q~~q~l~s 1024 (1486)
T PRK04863 989 KLRQRLEQAEQ-ERTRAREQLRQAQAQLAQYNQVLAS 1024 (1486)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555 2356666666666666555555433
No 109
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=48.85 E-value=97 Score=22.12 Aligned_cols=48 Identities=15% Similarity=0.235 Sum_probs=26.8
Q ss_pred ecHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 93 FTWSEALKFISQ----------REDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 93 ~t~~eA~~~l~~----------ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
+|++|..++++. ....+..++..+..++..++.....+...+......
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~ 115 (133)
T cd04787 58 FSLKDIKEILSHADQGESPCPMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQWQQM 115 (133)
T ss_pred CCHHHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 456666666653 234455556666666666655555555555555444
No 110
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=48.12 E-value=99 Score=22.06 Aligned_cols=48 Identities=10% Similarity=0.065 Sum_probs=24.3
Q ss_pred ecHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 93 FTWSEALKFISQR-----------EDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 93 ~t~~eA~~~l~~r-----------i~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
+|+++..++++.. ...+..+++.++.+++++......+...+....+.
T Consensus 59 ~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~~ 117 (131)
T TIGR02043 59 FTLDEIKELLSIKLDATEHSCAEVKAIVDAKLELVDEKINELTKIRRSLKKLSDACCGH 117 (131)
T ss_pred CCHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 3566666666522 33445555555555555555555555444444443
No 111
>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=47.44 E-value=71 Score=26.15 Aligned_cols=10 Identities=10% Similarity=0.590 Sum_probs=6.7
Q ss_pred CCeeEEEecc
Q 031887 78 TQHIFVDIGL 87 (151)
Q Consensus 78 ~~~V~V~vG~ 87 (151)
.+.++++.|.
T Consensus 131 ~~~i~IdkGs 140 (283)
T TIGR00219 131 STQVVINKGF 140 (283)
T ss_pred ccEEEEcCcc
Confidence 4567777775
No 112
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=47.00 E-value=1.3e+02 Score=25.84 Aligned_cols=10 Identities=10% Similarity=0.494 Sum_probs=7.8
Q ss_pred EecCCeeeEe
Q 031887 63 VNLGSEVYMQ 72 (151)
Q Consensus 63 Vplg~~~fv~ 72 (151)
+||++++|+.
T Consensus 303 ~~la~~l~~~ 312 (406)
T PF02388_consen 303 IPLAGALFIY 312 (406)
T ss_dssp EEEEEEEEEE
T ss_pred ceEEEEEEEE
Confidence 7888888764
No 113
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=46.89 E-value=93 Score=21.35 Aligned_cols=11 Identities=9% Similarity=0.172 Sum_probs=6.3
Q ss_pred cHHHHHHHHHH
Q 031887 94 TWSEALKFISQ 104 (151)
Q Consensus 94 t~~eA~~~l~~ 104 (151)
|++++..+++.
T Consensus 60 sl~~i~~l~~~ 70 (108)
T cd01107 60 PLEEIKEILDA 70 (108)
T ss_pred CHHHHHHHHhc
Confidence 56666666543
No 114
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=46.47 E-value=97 Score=21.44 Aligned_cols=11 Identities=27% Similarity=0.486 Sum_probs=6.7
Q ss_pred ecHHHHHHHHH
Q 031887 93 FTWSEALKFIS 103 (151)
Q Consensus 93 ~t~~eA~~~l~ 103 (151)
+|+++...+++
T Consensus 57 ~sl~eI~~~l~ 67 (112)
T cd01282 57 LTLEEIREFLP 67 (112)
T ss_pred CCHHHHHHHHH
Confidence 45666666655
No 115
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=46.19 E-value=88 Score=20.91 Aligned_cols=40 Identities=13% Similarity=0.183 Sum_probs=23.5
Q ss_pred Cch-HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHH
Q 031887 1 MDS-YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKI 40 (151)
Q Consensus 1 ~~~-~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e 40 (151)
|+| -+...+.+++.=.++.|..+...|+..++.|...+..
T Consensus 1 msp~~~~~d~e~~~~e~k~~Li~ei~~LQ~sL~~L~~Rve~ 41 (80)
T PF10224_consen 1 MSPRRNSEDIEKLEKEEKEELIQEILELQDSLEALSDRVEE 41 (80)
T ss_pred CCCCCchHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455 4455566666555566666666666666655555543
No 116
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=45.72 E-value=64 Score=19.34 Aligned_cols=31 Identities=23% Similarity=0.207 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
+.++-..+..+++.+..++..|++.-..+-+
T Consensus 10 Lqe~~d~IEqkiedid~qIaeLe~KR~~Lv~ 40 (46)
T PF08946_consen 10 LQEHYDNIEQKIEDIDEQIAELEAKRQRLVD 40 (46)
T ss_dssp -----THHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3455566677777777777766665544433
No 117
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.50 E-value=1.1e+02 Score=25.17 Aligned_cols=26 Identities=23% Similarity=0.408 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
+...++.|..+++.+...+...++++
T Consensus 50 ~q~ei~~L~~qi~~~~~k~~~~~~~i 75 (265)
T COG3883 50 IQNEIESLDNQIEEIQSKIDELQKEI 75 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333333
No 118
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=45.06 E-value=95 Score=21.10 Aligned_cols=35 Identities=14% Similarity=0.248 Sum_probs=16.3
Q ss_pred ecHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ--REDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 93 ~t~~eA~~~l~~--ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
+|++++..++.. ....+..+++.+..++..++...
T Consensus 58 ~~l~ei~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~ 94 (102)
T cd04775 58 LPLEEIAGCLAQPHVQAILEERLQSLNREIQRLRQQQ 94 (102)
T ss_pred CCHHHHHHHHcCCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666666643 22333444444444444443333
No 119
>cd01282 HTH_MerR-like_sg3 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 3). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=44.93 E-value=72 Score=22.09 Aligned_cols=34 Identities=24% Similarity=0.267 Sum_probs=25.2
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 92 EFTWSEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 92 E~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
+.++++..+++..++..++.++..++...+.+..
T Consensus 76 ~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (112)
T cd01282 76 FRPCPDLLAVLRRELARIDRQIADLTRSRDRLDA 109 (112)
T ss_pred CCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556777888888888888888887777666554
No 120
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=44.43 E-value=78 Score=19.79 Aligned_cols=31 Identities=13% Similarity=0.341 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~ 132 (151)
|...+..|+..++.|..++..++..+.....
T Consensus 8 Ls~dVq~L~~kvdqLs~dv~~lr~~v~~ak~ 38 (56)
T PF04728_consen 8 LSSDVQTLNSKVDQLSSDVNALRADVQAAKE 38 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444455555555555555555555544433
No 121
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=44.15 E-value=81 Score=19.89 Aligned_cols=28 Identities=18% Similarity=0.163 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
|+.||..|+..|..++..+..+++.-..
T Consensus 26 L~~RIa~L~aEI~R~~~~~~~K~a~r~A 53 (59)
T PF06698_consen 26 LEERIALLEAEIARLEAAIAKKSASRAA 53 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6667777777777777777666665443
No 122
>KOG2909 consensus Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=43.79 E-value=2.1e+02 Score=24.58 Aligned_cols=97 Identities=13% Similarity=0.203 Sum_probs=55.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeE-EeCCCCeeEEEecceeEEeecHHHH
Q 031887 20 LKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQA-DVPDTQHIFVDIGLGFHVEFTWSEA 98 (151)
Q Consensus 20 L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a-~i~~~~~V~V~vG~g~~vE~t~~eA 98 (151)
+-.+|-++....+.+-..+.+| +++.++.-... ++.++-+.+ .++.--.-+.|=-+-|-+-.|+.++
T Consensus 55 ~se~L~Kld~~~e~~i~ki~~~--~~~~le~~s~~----------~~~~l~~n~~~~~ey~t~F~Wd~akf~~~~si~~i 122 (381)
T KOG2909|consen 55 LSEELGKLDTFVEGLIKKIAGY--LKEVLEDSSGK----------VGENLMANGVPLPEYLTRFQWDMAKFPTNQSIKEI 122 (381)
T ss_pred HHHHHhhHHHHHHHHHHHHHHH--HHHHHhhcccc----------hhhceeeCCcCHHHHHhHheehhhhccccccHHHH
Confidence 3345666666666666677666 33444433221 233333333 1222233456666778888899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
+..|.+.+..+++-++.-...-+.++.+++
T Consensus 123 id~I~~e~~qie~Dlk~r~a~yn~ak~nl~ 152 (381)
T KOG2909|consen 123 IDLISKEIAQIENDLKTRAAAYNNAKGNLQ 152 (381)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHH
Confidence 999988887777665555555444444433
No 123
>KOG1556 consensus 26S proteasome regulatory complex, subunit RPN8/PSMD7 [Posttranslational modification, protein turnover, chaperones]
Probab=42.92 E-value=1.6e+02 Score=24.27 Aligned_cols=70 Identities=11% Similarity=0.130 Sum_probs=49.8
Q ss_pred CCCeeEEEecceeEEee------------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHH
Q 031887 77 DTQHIFVDIGLGFHVEF------------TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV-----------CEG 133 (151)
Q Consensus 77 ~~~~V~V~vG~g~~vE~------------t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~-----------~~~ 133 (151)
++++.|++||+..=+|- ..+.|...|..|+...-..++-|+..+.+++..+..+ ...
T Consensus 151 ~t~ktF~Hvps~I~AeEAEEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~Vi~g~lpiNh~Il~~ 230 (309)
T KOG1556|consen 151 PTSKTFVHVPSEIEAEEAEEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDKVIDGKLPINHEILYQ 230 (309)
T ss_pred CccceeEecCcccchhHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcHHHHHH
Confidence 47789999999887765 3455666777888888888888888888888877654 444
Q ss_pred HHHHhCCCCCCch
Q 031887 134 ICELLQLPAETSV 146 (151)
Q Consensus 134 i~~l~~l~~~~~~ 146 (151)
+|.+-|+-.+-..
T Consensus 231 lQdvfNllP~l~~ 243 (309)
T KOG1556|consen 231 LQDVFNLLPNLTR 243 (309)
T ss_pred HHHHHhhCccccc
Confidence 5555555444433
No 124
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=42.89 E-value=1.1e+02 Score=22.12 Aligned_cols=42 Identities=10% Similarity=0.166 Sum_probs=19.7
Q ss_pred ecHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQRE------DKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 93 ~t~~eA~~~l~~ri------~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+|+++..++++..- ..+...++.+...+..+..++..+....
T Consensus 57 ~sL~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~i~~Le~~l~~L~~~~ 104 (134)
T cd04779 57 LSLAEIKDQLEEVQRSDKEQREVAQEVQLVCDQIDGLEHRLKQLKPIA 104 (134)
T ss_pred CCHHHHHHHHHhhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666665332 2334444444444444444444443333
No 125
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=42.65 E-value=67 Score=21.28 Aligned_cols=29 Identities=7% Similarity=0.282 Sum_probs=14.3
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQ 126 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~ 126 (151)
+|++++..+++ |.++++.++.++..++++
T Consensus 59 ~~l~~i~~~l~-----l~~~~~~l~~~l~~l~~~ 87 (91)
T cd04766 59 VNLAGVKRILE-----LEEELAELRAELDELRAR 87 (91)
T ss_pred CCHHHHHHHHH-----HHHHHHHHHHHHHHHHHH
Confidence 34555555554 444445555444444443
No 126
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=42.27 E-value=1.3e+02 Score=24.21 Aligned_cols=31 Identities=16% Similarity=0.260 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 108 KIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 108 ~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
.|..+++.++.++.+++.++......+++++
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~ 88 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVV 88 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence 5566777777777777777766665555543
No 127
>cd04786 HTH_MerR-like_sg7 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 7) with a conserved cysteine present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic su
Probab=42.21 E-value=1.2e+02 Score=21.78 Aligned_cols=38 Identities=16% Similarity=0.138 Sum_probs=26.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+.++....+..++..++..++.|+.....+..-+..+.
T Consensus 75 ~~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~ 112 (131)
T cd04786 75 QHDELLAALERKVADIEALEARLAQNKAQLLVLIDLIE 112 (131)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44667777888888888877777777666665555443
No 128
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=41.75 E-value=1.3e+02 Score=21.38 Aligned_cols=18 Identities=11% Similarity=0.034 Sum_probs=12.4
Q ss_pred ecHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIA 110 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~ 110 (151)
.+.++|.++++..++.++
T Consensus 37 ~~~ee~k~~~~e~~~~~~ 54 (118)
T TIGR01837 37 LAEKRGQKRFDESVDAAR 54 (118)
T ss_pred ccHHHHHHHHHHHHHHHH
Confidence 345777777777766666
No 129
>cd04787 HTH_HMRTR_unk Helix-Turn-Helix DNA binding domain of putative Heavy Metal Resistance transcription regulators. Putative helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR), unknown subgroup. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules, such as, metal ions, drugs, and organic substrates. This subgroup lacks one of the c
Probab=41.73 E-value=1.3e+02 Score=21.48 Aligned_cols=36 Identities=19% Similarity=0.290 Sum_probs=29.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
+..+...++..++..++.++..++...+.+...+..
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~ 111 (133)
T cd04787 76 PCPMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQ 111 (133)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778999999999999999988887777665544
No 130
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=41.72 E-value=1.2e+02 Score=21.28 Aligned_cols=27 Identities=15% Similarity=0.150 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 109 IARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 109 L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
+..+++.+..+++.++.....+...+.
T Consensus 82 l~~~~~~l~~~i~~L~~~~~~l~~~~~ 108 (126)
T cd04783 82 AEQKLAEVDEKIADLQRMRASLQELVS 108 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444443
No 131
>PF01330 RuvA_N: RuvA N terminal domain; InterPro: IPR013849 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. This entry represents domain I of RuvA, which has an OB-fold structure. This domain forms the RuvA tetramer contacts [].; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJP_A 1D8L_B 1CUK_A 1C7Y_A 1IXR_B 2ZTC_A 2ZTD_B 2H5X_A 2ZTE_A 1BVS_E ....
Probab=41.61 E-value=45 Score=20.58 Aligned_cols=30 Identities=17% Similarity=0.379 Sum_probs=21.2
Q ss_pred eeEeEEeC--CCCeeEEEecc-eeEEeecHHHH
Q 031887 69 VYMQADVP--DTQHIFVDIGL-GFHVEFTWSEA 98 (151)
Q Consensus 69 ~fv~a~i~--~~~~V~V~vG~-g~~vE~t~~eA 98 (151)
.|++|+|. +++.|++++|. ||-|-.|....
T Consensus 3 ~~l~G~v~~~~~~~vvi~~~GvGy~v~v~~~~~ 35 (61)
T PF01330_consen 3 AYLKGKVVEKNPDYVVIDVNGVGYEVFVPSNTL 35 (61)
T ss_dssp EEEEEEEEEEESSEEEEEETTEEEEEEE-HHHH
T ss_pred cEEEEEEEEEcCCEEEEEECCEEEEEEeCCchH
Confidence 37788876 47889999875 88877766543
No 132
>PRK10780 periplasmic chaperone; Provisional
Probab=41.45 E-value=1.4e+02 Score=22.03 Aligned_cols=38 Identities=11% Similarity=0.263 Sum_probs=24.9
Q ss_pred HHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCee
Q 031887 42 SDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHI 81 (151)
Q Consensus 42 ~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V 81 (151)
..+.++|+.+-+. .|..+.++-++.+|+...++=|+.|
T Consensus 123 ~ki~~ai~~vak~--~gy~~Vld~~~v~Y~~~~~DIT~~V 160 (165)
T PRK10780 123 TRIQTAVKSVANK--QGYDLVVDANAVAYNSSDKDITADV 160 (165)
T ss_pred HHHHHHHHHHHHH--cCCeEEEeCCceeeeCCCCCchHHH
Confidence 3455666666554 5788888888888876665545443
No 133
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=41.24 E-value=1.1e+02 Score=21.28 Aligned_cols=11 Identities=27% Similarity=0.537 Sum_probs=5.8
Q ss_pred ecHHHHHHHHH
Q 031887 93 FTWSEALKFIS 103 (151)
Q Consensus 93 ~t~~eA~~~l~ 103 (151)
+|+++...+++
T Consensus 58 ~sl~eI~~~l~ 68 (123)
T cd04770 58 FSLAEIRELLS 68 (123)
T ss_pred CCHHHHHHHHH
Confidence 35555555554
No 134
>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=41.11 E-value=86 Score=25.38 Aligned_cols=45 Identities=13% Similarity=0.182 Sum_probs=29.5
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 90 HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 90 ~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
.+.....++..++..++..+......-...+...+..+..+...+
T Consensus 181 ~~~~~~~e~e~~y~~k~~~l~~~~~~~~~~~~~~~~E~~~~r~~~ 225 (312)
T PF00038_consen 181 IAQKNREELEEWYQSKLEELRQQSEKSSEELESAKEELKELRRQI 225 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhhhhhhhhhcccccccccccccccccccchhHhHHHHHHhhh
Confidence 455677788888888888887766665555555555554444444
No 135
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=41.09 E-value=1.1e+02 Score=23.33 Aligned_cols=38 Identities=8% Similarity=0.105 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 7 EKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLR 45 (151)
Q Consensus 7 ~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk 45 (151)
++..-++.-. +.+...++.++..++.+...+..|+-|+
T Consensus 85 ~R~~lLe~~~-~~l~~ri~eLe~~l~~kad~vvsYqll~ 122 (175)
T PRK13182 85 VDFEQLEAQL-NTITRRLDELERQLQQKADDVVSYQLLQ 122 (175)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 4455555555 7777888888888888888888876543
No 136
>cd04783 HTH_MerR1 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator. Helix-turn-helix (HTH) transcription regulator MerR1. MerR1 transcription regulators, such as Tn21 MerR and Tn501 MerR, mediate response to mercury exposure in eubacteria. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines that define a mercury binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=40.96 E-value=1.1e+02 Score=21.60 Aligned_cols=34 Identities=24% Similarity=0.372 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
.++...++..+++.+++++..++.....+...+.
T Consensus 75 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~ 108 (126)
T cd04783 75 CSEARELAEQKLAEVDEKIADLQRMRASLQELVS 108 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556666666666666666666665555554443
No 137
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=40.75 E-value=1.1e+02 Score=21.65 Aligned_cols=26 Identities=8% Similarity=0.048 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 109 IARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 109 L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+..+++.+..++..++.....+...+
T Consensus 84 l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (126)
T cd04785 84 ARAHLADVRARIADLRRLEAELKRMV 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444333
No 138
>TIGR02043 ZntR Zn(II)-responsive transcriptional regulator. This model represents the zinc and cadmium (II) responsive transcriptional activator of the gamma proteobacterial zinc efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-Cys-X(8-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=40.51 E-value=1.2e+02 Score=21.63 Aligned_cols=36 Identities=17% Similarity=0.288 Sum_probs=29.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
++++...++..+++.++.++..++.....+..-+..
T Consensus 78 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 113 (131)
T TIGR02043 78 SCAEVKAIVDAKLELVDEKINELTKIRRSLKKLSDA 113 (131)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567889999999999999999987777776665543
No 139
>PF11471 Sugarporin_N: Maltoporin periplasmic N-terminal extension; InterPro: IPR021570 This N-terminal domain is found in members of the sugar porin family 1.B.3 from TC, They are related to LamB - the well characterised maltoporin of Escherichia coli for which the three-dimensional structures with and without its substrate have been obtained by X-ray diffraction. The protein consists of an 18 beta-stranded beta-barrel in contrast to proteins of the general bacterial porin family (GBP) and the Rhodobacter PorCa Porin (RPP) family which consist of 16 beta-stranded beta-barrels. Although maltoporin contains a wider beta-barrel than the porins of the GBP and RPP families (1.B.1 from TC and 1.B.7 from TC), it exhibits a narrower channel, showing only 5% of the ionic conductance of the latter porins.
Probab=40.51 E-value=88 Score=19.67 Aligned_cols=29 Identities=17% Similarity=0.204 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
.++.|+..|+..+...++....-+.+++.
T Consensus 29 tiEqRLa~LE~rL~~ae~ra~~ae~~~~~ 57 (60)
T PF11471_consen 29 TIEQRLAALEQRLQAAEQRAQAAEARAKQ 57 (60)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36667777777776666666666665543
No 140
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=40.31 E-value=82 Score=22.84 Aligned_cols=11 Identities=36% Similarity=0.540 Sum_probs=6.2
Q ss_pred ecHHHHHHHHH
Q 031887 93 FTWSEALKFIS 103 (151)
Q Consensus 93 ~t~~eA~~~l~ 103 (151)
+|+++..++++
T Consensus 59 ~sL~eI~~~l~ 69 (140)
T PRK09514 59 FTLEEIRELLS 69 (140)
T ss_pred CCHHHHHHHHH
Confidence 35566666554
No 141
>cd01107 HTH_BmrR Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BmrR and YdfL of Bacillus subtilis, and related proteins; N-terminal domain. Bmr is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. BmrR is comprised of two distinct domains that harbor a regulatory (effector-binding) site and an active (DNA-binding) site. The conserved N-terminal domain contains a winged HTH motif that mediates DNA binding, while the C-terminal domain binds coactivating, toxic compounds. BmrR shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=40.30 E-value=81 Score=21.65 Aligned_cols=32 Identities=16% Similarity=0.426 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
+++..++..+++.++.++..++.....+..-+
T Consensus 74 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 74 DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888888888888888888777766665443
No 142
>COG4396 Mu-like prophage host-nuclease inhibitor protein Gam [General function prediction only]
Probab=40.29 E-value=1.1e+02 Score=22.84 Aligned_cols=84 Identities=14% Similarity=0.229 Sum_probs=51.6
Q ss_pred HHHHHHHHHHHHHH-------hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeC
Q 031887 4 YRQEKVQKFEEFVD-------RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVP 76 (151)
Q Consensus 4 ~~~~~i~~~e~f~~-------~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~ 76 (151)
++|.++.+++.-+| +..-+++..+...+..|...+.+|++... +.|... |..--++++-|. |+=.+.
T Consensus 29 DlqRE~~RLeTemnDk~aai~e~Yapq~~~lk~EI~~L~k~vq~yCeanr--DELTe~---GKTKTanftTG~-v~WR~r 102 (170)
T COG4396 29 DLQREVKRLETEMNDKKAAIEEEYAPQAAPLKAEIMSLTKRVQAYCEANR--DELTEN---GKTKTANFTTGL-VKWRIR 102 (170)
T ss_pred HHHHHHHHHHHHhcchHhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHhCH--HHHhcC---CCceeeeeeeee-EEEeec
Confidence 45667888887776 45678888899999999999999876532 344443 333334554443 233444
Q ss_pred CCCeeEEEecceeEEeecHHHHHHHHH
Q 031887 77 DTQHIFVDIGLGFHVEFTWSEALKFIS 103 (151)
Q Consensus 77 ~~~~V~V~vG~g~~vE~t~~eA~~~l~ 103 (151)
+++ +-| +..+-..++|.
T Consensus 103 pPS---------v~v-rgveaV~e~L~ 119 (170)
T COG4396 103 PPS---------VKV-RGVEAVLEWLS 119 (170)
T ss_pred CCc---------cee-ccHHHHHHHHH
Confidence 444 122 44555666665
No 143
>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=40.20 E-value=1.2e+02 Score=22.07 Aligned_cols=36 Identities=14% Similarity=0.129 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+..||..|+........--.++..+|++++.++.+-
T Consensus 30 mkarIa~LEGE~r~~e~l~~dL~rrIkMLE~aLkqE 65 (134)
T PF08232_consen 30 MKARIAFLEGERRGQENLKKDLKRRIKMLEYALKQE 65 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788888888777777778899999999888543
No 144
>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=40.02 E-value=1.1e+02 Score=20.18 Aligned_cols=24 Identities=21% Similarity=0.354 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 106 EDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 106 i~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
++.+++.++.+++++..+..+++.
T Consensus 28 l~~~~~ti~~l~~~~~~i~~e~~~ 51 (90)
T PF06103_consen 28 LDEVNKTIDTLQEQVDPITKEIND 51 (90)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Confidence 333333334444443333333333
No 145
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=39.83 E-value=1.4e+02 Score=23.38 Aligned_cols=28 Identities=11% Similarity=0.274 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIK 124 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~ 124 (151)
....-++++++.++++++.++..+....
T Consensus 193 ~~~~~l~~~~~~~~~~i~~~~~rl~~~~ 220 (239)
T PF07195_consen 193 SRIDSLNSQIKSLDKQIEDLEERLESKE 220 (239)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444445555555544444444433
No 146
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=39.75 E-value=1.2e+02 Score=21.48 Aligned_cols=27 Identities=22% Similarity=0.181 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 108 KIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 108 ~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
.+..++..+..++..++.....+...+
T Consensus 83 ~l~~~~~~l~~~i~~L~~~~~~l~~~~ 109 (127)
T cd01108 83 LALEHIAELERKIAELQAMRRTLQQLA 109 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444333
No 147
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=39.52 E-value=30 Score=23.67 Aligned_cols=31 Identities=16% Similarity=0.188 Sum_probs=26.0
Q ss_pred EecceeEEeecHHHHHHHHHHHHHHHHHHHH
Q 031887 84 DIGLGFHVEFTWSEALKFISQREDKIARQID 114 (151)
Q Consensus 84 ~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~ 114 (151)
.||-|++.-.+++||.+-|.+.|++.++.+.
T Consensus 55 ~lgy~v~tFnDcpeA~~eL~~eI~eAK~dLr 85 (91)
T PF08285_consen 55 TLGYGVATFNDCPEAAKELQKEIKEAKADLR 85 (91)
T ss_pred HHHHhhhccCCCHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999988888887776554
No 148
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=39.34 E-value=1.2e+02 Score=21.26 Aligned_cols=45 Identities=13% Similarity=0.078 Sum_probs=21.5
Q ss_pred ecHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQR----------EDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 93 ~t~~eA~~~l~~r----------i~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+|+++..++++.. ...+..++..+.+++.+++.....+...+...
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 112 (127)
T cd04784 58 MSLDEIRTLLQLQDDPEASCAEVNALIDEHLAHVRARIAELQALEKQLQALRERC 112 (127)
T ss_pred CCHHHHHHHHHhhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4666666666421 23344444555555544444444444433333
No 149
>cd04770 HTH_HMRTR Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators. Helix-turn-helix (HTH) heavy metal resistance transcription regulators (HMRTR): MerR1 (mercury), CueR (copper), CadR (cadmium), PbrR (lead), ZntR (zinc), and other related proteins. These transcription regulators mediate responses to heavy metal stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=39.32 E-value=1.3e+02 Score=20.89 Aligned_cols=31 Identities=16% Similarity=0.282 Sum_probs=20.5
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIK 124 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~ 124 (151)
+.++...++..++..++.+++.++.....+.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 106 (123)
T cd04770 76 PCAEVRALLEEKLAEVEAKIAELQALRAELA 106 (123)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777777777777777655544443
No 150
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=39.18 E-value=88 Score=21.11 Aligned_cols=37 Identities=19% Similarity=0.280 Sum_probs=32.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
...++..-++.+++.++..+..++..+.-.+.++..+
T Consensus 67 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~L 103 (104)
T PF13600_consen 67 SDSPELKELEEELEALEDELAALQDEIQALEAQIAFL 103 (104)
T ss_pred cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4678899999999999999999999999999988754
No 151
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=38.88 E-value=1.7e+02 Score=27.34 Aligned_cols=107 Identities=10% Similarity=0.182 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHhhhcCCCCceEEEecCCeeeEeEE
Q 031887 6 QEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDL-----------RKNIENLEKNSVTSLRTLVNLGSEVYMQAD 74 (151)
Q Consensus 6 ~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~l-----------k~~i~~l~~~~~~~~e~lVplg~~~fv~a~ 74 (151)
..+..++|.=+ ..|+.||...+++...+..++.++... ..+|..|++.. . .| .-.
T Consensus 544 r~r~~~lE~E~-~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~---~----~L------E~s 609 (697)
T PF09726_consen 544 RQRRRQLESEL-KKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKN---Q----HL------ENS 609 (697)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHH---H----HH------HHh
Confidence 34677777644 889999998888888888877655443 23444454431 0 00 001
Q ss_pred eCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 75 VPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 75 i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
+-+.-=+.+++-.|..--.+.++.++..+.+=.++|.++++.|..++..|..
T Consensus 610 ----------LsaEtriKldLfsaLg~akrq~ei~~~~~~~~d~ei~~lk~ki~~~~av~p~ 661 (697)
T PF09726_consen 610 ----------LSAETRIKLDLFSALGDAKRQLEIAQGQLRKKDKEIEELKAKIAQLLAVMPS 661 (697)
T ss_pred ----------hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 1112223456778888889999999999999999999999999998887765
No 152
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=38.64 E-value=1.2e+02 Score=21.98 Aligned_cols=30 Identities=17% Similarity=0.284 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
++..+++..++..++.+++.|+.....+..
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 107 (135)
T PRK10227 78 ADVKRRTLEKVAEIERHIEELQSMRDQLLA 107 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555555554444444433
No 153
>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=38.50 E-value=1.8e+02 Score=22.16 Aligned_cols=12 Identities=17% Similarity=0.553 Sum_probs=8.8
Q ss_pred eecHHHHHHHHH
Q 031887 92 EFTWSEALKFIS 103 (151)
Q Consensus 92 E~t~~eA~~~l~ 103 (151)
.+|+++.+.||.
T Consensus 79 ~ltl~~vI~fLq 90 (161)
T TIGR02894 79 SLTLQDVISFLQ 90 (161)
T ss_pred cCCHHHHHHHHH
Confidence 477888877774
No 154
>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=38.43 E-value=1e+02 Score=19.37 Aligned_cols=30 Identities=17% Similarity=0.330 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
-++..+..++..++.++++...++.++..+
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444555555555555555555555555444
No 155
>PRK06798 fliD flagellar capping protein; Validated
Probab=38.36 E-value=1.1e+02 Score=26.80 Aligned_cols=9 Identities=22% Similarity=0.438 Sum_probs=5.0
Q ss_pred HHHHHHHHH
Q 031887 9 VQKFEEFVD 17 (151)
Q Consensus 9 i~~~e~f~~ 17 (151)
...++.|++
T Consensus 265 ~~~i~~FV~ 273 (440)
T PRK06798 265 ANLIKKMVD 273 (440)
T ss_pred HHHHHHHHH
Confidence 455666663
No 156
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=38.33 E-value=1.3e+02 Score=21.27 Aligned_cols=10 Identities=10% Similarity=0.331 Sum_probs=4.9
Q ss_pred cHHHHHHHHH
Q 031887 94 TWSEALKFIS 103 (151)
Q Consensus 94 t~~eA~~~l~ 103 (151)
|+++..++++
T Consensus 59 sL~eI~~~l~ 68 (127)
T TIGR02044 59 SLEECKELLN 68 (127)
T ss_pred CHHHHHHHHH
Confidence 4555555443
No 157
>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=38.10 E-value=1.5e+02 Score=22.53 Aligned_cols=42 Identities=7% Similarity=0.272 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
..-+..+++.|+....+|.+.+..++..+..+...|.+...+
T Consensus 113 ~~~l~~~~e~Le~e~~~L~~~~~~~~eDY~~L~~Im~RARkl 154 (161)
T TIGR02894 113 NESLQKRNEELEKELEKLRQRLSTIEEDYQTLIDIMDRARKL 154 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555667777777777777777777777777777665543
No 158
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=38.09 E-value=1.3e+02 Score=21.72 Aligned_cols=32 Identities=16% Similarity=0.282 Sum_probs=23.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
++++...++.++++.+++++..++.....+..
T Consensus 78 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (140)
T PRK09514 78 TCQEVKGIVDEKLAEVEAKIAELQHMRRSLQR 109 (140)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888888876655444433
No 159
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=38.07 E-value=94 Score=21.15 Aligned_cols=10 Identities=20% Similarity=0.361 Sum_probs=4.6
Q ss_pred cHHHHHHHHH
Q 031887 94 TWSEALKFIS 103 (151)
Q Consensus 94 t~~eA~~~l~ 103 (151)
|+++...+++
T Consensus 59 ~l~ei~~~l~ 68 (102)
T cd04789 59 SLKECLACLQ 68 (102)
T ss_pred CHHHHHHHHc
Confidence 4445544443
No 160
>PF02465 FliD_N: Flagellar hook-associated protein 2 N-terminus; InterPro: IPR003481 The flagellar hook-associated protein 2 (HAP2 or FliD) is the capping protein for the flagella and forms the distal end of the flagella. The protein plays a role in mucin specific adhesion of the bacteria [].; GO: 0009296 flagellum assembly, 0009288 bacterial-type flagellum
Probab=38.01 E-value=1.2e+02 Score=20.22 Aligned_cols=33 Identities=12% Similarity=0.286 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031887 21 KPDLTRAIAERDKVFEQQKIFSDLRKNIENLEK 53 (151)
Q Consensus 21 ~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~ 53 (151)
+..+.++.++...+..+++.|..++..+..|..
T Consensus 18 ~~~~~~l~~~~~~~~~k~sa~~~l~s~l~~l~~ 50 (99)
T PF02465_consen 18 RAPIDRLQQKKTSLEWKQSAYGSLNSKLSTLQS 50 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334467777777777777777777777776664
No 161
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=37.94 E-value=1.4e+02 Score=20.97 Aligned_cols=42 Identities=14% Similarity=0.158 Sum_probs=20.3
Q ss_pred ecHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ--------REDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 93 ~t~~eA~~~l~~--------ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+|+++..++++. ....++.+++.++.++++++.....+...+
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 106 (124)
T TIGR02051 57 FSLEEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIERLLEELL 106 (124)
T ss_pred CCHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666666642 234444445555555554444444444333
No 162
>TIGR02051 MerR Hg(II)-responsive transcriptional regulator. This model represents the mercury (II) responsive transcriptional activator of the mer organomercurial resistance operon. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(8)-Cys-Pro, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=37.83 E-value=1.3e+02 Score=21.17 Aligned_cols=38 Identities=8% Similarity=0.178 Sum_probs=30.0
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
.++++...++..++..++.+++.++.....+...+...
T Consensus 72 ~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~ 109 (124)
T TIGR02051 72 THCREMYELASRKLKSVQAKMADLLRIERLLEELLEQC 109 (124)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34678899999999999999999888777776655443
No 163
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=37.75 E-value=1.1e+02 Score=19.80 Aligned_cols=36 Identities=11% Similarity=0.327 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
...++=|...+..++..+..+...+......+..+.
T Consensus 32 ~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l~ 67 (74)
T PF12329_consen 32 NNTIKKLRAKIKELEKQIKELKKKLEELEKELESLE 67 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444444444444444333
No 164
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=37.65 E-value=1.6e+02 Score=24.12 Aligned_cols=33 Identities=24% Similarity=0.401 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+..+++.+.+.+++++..+..++.+|..+.+.|
T Consensus 64 ~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~I 96 (265)
T COG3883 64 IQSKIDELQKEIDQSKAEIKKLQKEIAELKENI 96 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444444
No 165
>cd04784 HTH_CadR-PbrR Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators. Helix-turn-helix (HTH) CadR and PbrR transcription regulators including Pseudomonas aeruginosa CadR and Ralstonia metallidurans PbrR that regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which form a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=37.40 E-value=1.5e+02 Score=20.88 Aligned_cols=35 Identities=17% Similarity=0.224 Sum_probs=27.2
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
+.++...++..++..++++++.++.....+..-+.
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (127)
T cd04784 76 SCAEVNALIDEHLAHVRARIAELQALEKQLQALRE 110 (127)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788889999999999998887777666655443
No 166
>PF13747 DUF4164: Domain of unknown function (DUF4164)
Probab=37.39 E-value=1.3e+02 Score=20.31 Aligned_cols=25 Identities=20% Similarity=0.442 Sum_probs=18.6
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHH
Q 031887 91 VEFTWSEALKFISQREDKIARQIDE 115 (151)
Q Consensus 91 vE~t~~eA~~~l~~ri~~L~~~~~~ 115 (151)
+..++++|..-|+..++.|+..++.
T Consensus 2 ~~~~le~al~rL~~aid~LE~~v~~ 26 (89)
T PF13747_consen 2 VTYSLEAALTRLEAAIDRLEKAVDR 26 (89)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHH
Confidence 4567888888888888888775543
No 167
>cd04773 HTH_TioE_rpt2 Second Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD mainly contains the C-terminal or second repeat (rpt2) of these tandem MerR-like domain proteins.
Probab=37.36 E-value=1.4e+02 Score=20.56 Aligned_cols=48 Identities=4% Similarity=0.053 Sum_probs=32.2
Q ss_pred ecHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 93 FTWSEALKFISQRE--DKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 93 ~t~~eA~~~l~~ri--~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
+++++...+++.-- .......+.+.+....+..++..+...+++++.+
T Consensus 58 ~~l~~I~~~l~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~ 107 (108)
T cd04773 58 YLLEQIATVVEQLRHAGGTEALAAALEQRRVALTQRGRAMLDAAAALAAY 107 (108)
T ss_pred CCHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47888888887521 1124455667777777788888888887777654
No 168
>PF14282 FlxA: FlxA-like protein
Probab=36.83 E-value=1.4e+02 Score=20.63 Aligned_cols=20 Identities=10% Similarity=0.365 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 031887 104 QREDKIARQIDEYTRLIASI 123 (151)
Q Consensus 104 ~ri~~L~~~~~~l~~~l~~i 123 (151)
..|+.|++++..|.+++..+
T Consensus 19 ~~I~~L~~Qi~~Lq~ql~~l 38 (106)
T PF14282_consen 19 SQIEQLQKQIKQLQEQLQEL 38 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444443333
No 169
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=36.51 E-value=1.3e+02 Score=22.04 Aligned_cols=35 Identities=11% Similarity=0.223 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKL 129 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~ 129 (151)
.+++..++..++..++.+++.++.....+...+..
T Consensus 82 ~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~ 116 (144)
T PRK13752 82 CEEASSLAEHKLKDVREKMADLARMEAVLSELVCA 116 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35667777777777777777777766666655543
No 170
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=36.37 E-value=2.6e+02 Score=23.55 Aligned_cols=101 Identities=16% Similarity=0.215 Sum_probs=67.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEee
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFS----DLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEF 93 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~----~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~ 93 (151)
--|..+|++++.+++++....+.++ .++.....+.-.. ...|..-+.+.+ =..
T Consensus 12 ~IL~~eLe~cq~ErDqyKlMAEqLqer~q~LKkk~~el~~~~-------~~~~d~~~~~~~----------------~~~ 68 (319)
T PF09789_consen 12 LILSQELEKCQSERDQYKLMAEQLQERYQALKKKYRELIQEA-------AGFGDPSIPPEK----------------ENK 68 (319)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh-------cccCCccCCccc----------------chh
Confidence 4678899999999999888776543 4444443332110 000111111111 124
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 141 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~ 141 (151)
++.....=...+...|...++.|++.+.+++..++.+-+.+++.....
T Consensus 69 ~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD~KlLR~~la~~r~~~ 116 (319)
T PF09789_consen 69 NLAQLLSESREQNKKLKEEVEELRQKLNEAQGDIKLLREKLARQRVGD 116 (319)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHhhhhhh
Confidence 567777777888999999999999999999999999999887766554
No 171
>PRK02224 chromosome segregation protein; Provisional
Probab=36.28 E-value=3.7e+02 Score=25.18 Aligned_cols=40 Identities=8% Similarity=0.165 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
+..+.+..++..++..+..+...+..++..+..+...+..
T Consensus 258 ~~~~~l~~~i~~~e~~~~~l~~~i~~~~~~~~~le~e~~~ 297 (880)
T PRK02224 258 AEIEDLRETIAETEREREELAEEVRDLRERLEELEEERDD 297 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555666666555555666666666655555544433
No 172
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=36.23 E-value=99 Score=28.78 Aligned_cols=44 Identities=18% Similarity=0.254 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 97 EALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
|.-+-+..|...|+..+++|+.++....+++..++..++++..+
T Consensus 538 e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~ 581 (697)
T PF09726_consen 538 ECAESCRQRRRQLESELKKLRRELKQKEEQIRELESELQELRKY 581 (697)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66667899999999999999999999999999999999888887
No 173
>PRK07737 fliD flagellar capping protein; Validated
Probab=36.20 E-value=1.2e+02 Score=26.92 Aligned_cols=40 Identities=18% Similarity=0.212 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHhC
Q 031887 100 KFISQREDKIARQIDEYTRLIASI----KAQIKLVCEGICELLQ 139 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l~~~l~~i----~~~i~~~~~~i~~l~~ 139 (151)
..|+++++.++++++.++..+... +.|+..++..|+++++
T Consensus 444 ~~l~~~i~~l~~~i~~~~~rl~~~e~ry~~qf~ale~~~s~mns 487 (501)
T PRK07737 444 FAIGKDLNQIETQIDRFQDRLKQIEDRYYKKFSAMEKAIQKANE 487 (501)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555543 4445566666666653
No 174
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=36.18 E-value=1.1e+02 Score=28.27 Aligned_cols=41 Identities=17% Similarity=0.297 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHh
Q 031887 98 ALKFISQREDKIARQIDEYTRLIAS----IKAQIKLVCEGICELL 138 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~----i~~~i~~~~~~i~~l~ 138 (151)
-.+-++++++.++++++.++..+.. ++.|+..++..|++++
T Consensus 601 r~~~l~~~i~~l~~~i~~~e~rl~~~e~rl~~QFtaME~~msqmn 645 (661)
T PRK06664 601 KVKGLDERIADNNKKIEEYEKKLESKERKLKGKYLTMDQTVKKMK 645 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555433 3334445555555554
No 175
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=35.77 E-value=1.9e+02 Score=28.41 Aligned_cols=61 Identities=10% Similarity=0.209 Sum_probs=33.6
Q ss_pred eEEEecCCeeeEeEEeCCCCeeEEEecc----eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 60 RTLVNLGSEVYMQADVPDTQHIFVDIGL----GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASI 123 (151)
Q Consensus 60 e~lVplg~~~fv~a~i~~~~~V~V~vG~----g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i 123 (151)
+.+.|=|..+|.+|-. -.|+...|. +-+++.+.+..++.+++-...++..+..++....+.
T Consensus 623 ~aytldg~~~~~~g~~---~~~ySt~~~~~r~~~~~~~s~d~~ie~le~e~~~l~~~~~~l~~~~~~~ 687 (1074)
T KOG0250|consen 623 KAYTLDGRQIFAGGPN---YRVYSTRGTRARRPGVDEFSFDDEIEDLEREASRLQKEILELENQRREA 687 (1074)
T ss_pred eeeccCccccccCCCC---cceeccCCCCCCCccccchhHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555555555555542 122222222 347888999999888877766666444443333333
No 176
>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=35.54 E-value=1e+02 Score=22.91 Aligned_cols=12 Identities=17% Similarity=0.459 Sum_probs=6.7
Q ss_pred HHHHHHHHhhhc
Q 031887 43 DLRKNIENLEKN 54 (151)
Q Consensus 43 ~lk~~i~~l~~~ 54 (151)
.+..+|+.|-..
T Consensus 34 ~v~k~Ld~L~~~ 45 (169)
T PF07106_consen 34 AVQKALDSLVEE 45 (169)
T ss_pred HHHHHHHHHHhC
Confidence 345566666554
No 177
>COG3879 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=35.51 E-value=2.4e+02 Score=22.92 Aligned_cols=31 Identities=13% Similarity=0.155 Sum_probs=20.2
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 031887 11 KFEEFVDRRLKPDLTRAIAERDKVFEQQKIFS 42 (151)
Q Consensus 11 ~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~ 42 (151)
.+..-+ ..++++..+|.+++..++..++.|.
T Consensus 54 ~L~~e~-~s~Q~~~~~L~~ev~~~~~~~~s~~ 84 (247)
T COG3879 54 DLVKEL-RSLQKKVNTLAAEVEDLENKLDSVR 84 (247)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444433 6667777777777777777777666
No 178
>TIGR01063 gyrA DNA gyrase, A subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV.
Probab=35.44 E-value=2.9e+02 Score=26.14 Aligned_cols=94 Identities=10% Similarity=0.073 Sum_probs=51.6
Q ss_pred HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeec
Q 031887 15 FVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFT 94 (151)
Q Consensus 15 f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t 94 (151)
++..+.+-+|.+++.++.-+...+--+......|+.+....+ ..+..-.|-.. ..++
T Consensus 353 ~~~~r~~~~l~~~~~~~~~~~g~~~~~~~~d~vi~~ir~~~~-~~~~~~~L~~~----------------------~~~~ 409 (800)
T TIGR01063 353 VITRRTIFELRKAEERAHILEGLLIALDNIDEVIALIRASQN-TEEAKTRLVER----------------------FSLS 409 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhCCC-HHHHHHHHHHh----------------------cCCC
Confidence 344666667777777777776666656566666665554321 11111111110 0134
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~-~~~~l~~~l~~i~~~i~~~~ 131 (151)
-.+|..+++-|+..|.. .+++|.+++.+++.+++.+.
T Consensus 410 ~~qa~~il~m~L~~Lt~~e~~kl~~e~~~l~~ei~~l~ 447 (800)
T TIGR01063 410 EIQAQAILDMRLQRLTGLEREKLQEEYKELLELIADLE 447 (800)
T ss_pred HHHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888877777653 45566666666665555443
No 179
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=35.34 E-value=1.9e+02 Score=21.71 Aligned_cols=52 Identities=12% Similarity=0.164 Sum_probs=39.7
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 144 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~ 144 (151)
-.+.+|.+.++..++.|..-=.........+.+.+..+...++++.+.-.+|
T Consensus 145 ~~~~~~~~~l~~~lekL~~fd~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~g 196 (204)
T PF04740_consen 145 DSLEKAKKKLQETLEKLRAFDQQSSSIFSEIEELLQALQSGLSQLQSMWNNG 196 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence 3466777777777777766555556678888889999999999998887666
No 180
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=35.32 E-value=1.9e+02 Score=21.68 Aligned_cols=108 Identities=19% Similarity=0.299 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------Hhhh------cCCCCceEEEecCCeeeE
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIE------NLEK------NSVTSLRTLVNLGSEVYM 71 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~------~l~~------~~~~~~e~lVplg~~~fv 71 (151)
++.+-..++++=+ +-|...+..|....-...+.++.+..++-.=+ -|.. .-....+.||+||-|-||
T Consensus 17 QL~~lk~q~dqEl-~~lq~Sl~~L~~aq~k~~~~~~aln~~~~~~eGk~~LVPLTsSlYVPGkl~d~~k~lVDIGTGYyV 95 (153)
T KOG3048|consen 17 QLGALKKQFDQEL-NFLQDSLNALKGAQTKYEESIAALNDVQAANEGKKLLVPLTSSLYVPGKLSDNSKFLVDIGTGYYV 95 (153)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCeEEEecccceeccceeccccceeEeccCceEE
Confidence 3344456666544 56666666666666666666655543322111 0111 112356799999999999
Q ss_pred eEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 72 QADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 72 ~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
.-...+ +.+| +..=+++|++.++.+++-+.+=....+.+..
T Consensus 96 EK~~e~--------akdy-----fkRKve~l~kq~e~i~~i~~eK~~~~~~v~~ 136 (153)
T KOG3048|consen 96 EKDAED--------AKDY-----FKRKVEYLTKQIEQIEGILKEKTRTRASVMD 136 (153)
T ss_pred eechHH--------HHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 876554 2344 3567889999999999887776666555553
No 181
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=35.31 E-value=1.3e+02 Score=25.06 Aligned_cols=54 Identities=11% Similarity=0.143 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCchhhhcC
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAETSVQEAIF 151 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~~~~~ 151 (151)
-..|++..+....++++.|..++...+.++.-..........-..--+-|+++|
T Consensus 96 qv~~lEgQl~s~Kkqie~Leqelkr~KsELErsQ~~~~~~~~sl~~~stpqk~f 149 (307)
T PF10481_consen 96 QVNFLEGQLNSCKKQIEKLEQELKRCKSELERSQQAASSGDVSLNPCSTPQKSF 149 (307)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCccccccCCchhhc
Confidence 345666666666667777777766666666554444432221111235666665
No 182
>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=35.24 E-value=1.6e+02 Score=20.67 Aligned_cols=29 Identities=17% Similarity=0.314 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 103 SQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 103 ~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
-.++..++.++..+..++..++.++..+.
T Consensus 7 ~~~l~~le~~l~~l~~~~~~LK~~~~~l~ 35 (107)
T PF06156_consen 7 FDRLDQLEQQLGQLLEELEELKKQLQELL 35 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666666666666666665553
No 183
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=35.11 E-value=1.4e+02 Score=24.54 Aligned_cols=50 Identities=18% Similarity=0.235 Sum_probs=35.1
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhCC
Q 031887 91 VEFTWSEALKFISQREDKIARQIDEYTRL-------IASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 91 vE~t~~eA~~~l~~ri~~L~~~~~~l~~~-------l~~i~~~i~~~~~~i~~l~~l 140 (151)
+|..+.+|+.-+..++...+..++.+..+ |.+.+..+....-.++.|++.
T Consensus 163 iE~~l~~ai~~~~~~~~~~~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~sLq~v 219 (267)
T PF10234_consen 163 IEKALKEAIKAVQQQLQQTQQQLNNLASDEANLEAKIEKKKQELERNQKRLQSLQSV 219 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 78888888888888888887777776665 455555555555556666655
No 184
>PHA02107 hypothetical protein
Probab=34.69 E-value=1e+02 Score=23.80 Aligned_cols=37 Identities=27% Similarity=0.346 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
|..|-.+|++++...+.+|+..-.++.++|+.+...|
T Consensus 178 ~~~F~S~Ri~EID~EI~~LQA~RKEiEDN~K~IKN~I 214 (216)
T PHA02107 178 VFHFASVRISEIDEEIKELQARRKEIEDNIKSIKNAI 214 (216)
T ss_pred HhhhhhhhHhHHhHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3445567777777777777777777777777766544
No 185
>PRK05560 DNA gyrase subunit A; Validated
Probab=34.62 E-value=3.2e+02 Score=25.89 Aligned_cols=94 Identities=12% Similarity=0.127 Sum_probs=51.1
Q ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecH
Q 031887 16 VDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTW 95 (151)
Q Consensus 16 ~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~ 95 (151)
+..+.+-+|.+++.++.-+...+--+......|+.+.+... ..+..-.|-.. | .+|-
T Consensus 357 ~~~r~~~~l~~~~~~~~~l~g~~~~~~~~d~vI~iir~s~~-~~~~~~~L~~~-f---------------------~~~~ 413 (805)
T PRK05560 357 ITRRTRFELRKAEERAHILEGLLIALDNIDEVIALIRASPT-PAEAKEGLMER-F---------------------GLSE 413 (805)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHcCCC-HHHHHHHHHHh-c---------------------CCCH
Confidence 44566666677777766665555545555556665554321 11111111111 1 1245
Q ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~-~~~~l~~~l~~i~~~i~~~~~ 132 (151)
.+|..+++-|+..|.. .+.+|++++..++.++..+..
T Consensus 414 ~qa~~IL~m~L~~LT~~e~~kL~~E~~~l~~ei~~l~~ 451 (805)
T PRK05560 414 IQAQAILDMRLQRLTGLERDKIEDEYKELLALIADLKD 451 (805)
T ss_pred HHHHHHHHhHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888888888877763 566666666666666655433
No 186
>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=34.57 E-value=2.2e+02 Score=22.50 Aligned_cols=35 Identities=17% Similarity=0.354 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
..-++-++...+.++..++..++++.+++.++..+
T Consensus 62 ~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~ 96 (251)
T PF11932_consen 62 EREIENLEVYNEQLERQVASQEQELASLEQQIEQI 96 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444455555555555555555555555444
No 187
>PF12757 DUF3812: Protein of unknown function (DUF3812); InterPro: IPR024527 This family of fungal proteins represents the eisosome 1 family. Eisosome protein 1 is required for normal formation of eisosomes, large cytoplasmic protein assemblies that localize to specialised domains on plasma membrane and mark the site of endocytosis [].
Probab=34.14 E-value=1.1e+02 Score=21.92 Aligned_cols=14 Identities=36% Similarity=0.525 Sum_probs=8.8
Q ss_pred CceEEEecCCeeeE
Q 031887 58 SLRTLVNLGSEVYM 71 (151)
Q Consensus 58 ~~e~lVplg~~~fv 71 (151)
...-.|+||+|.|+
T Consensus 56 ~~~gkV~lGGGl~m 69 (126)
T PF12757_consen 56 ENAGKVNLGGGLFM 69 (126)
T ss_pred cCCCeeeCCCCccc
Confidence 33456677777775
No 188
>PF14385 DUF4416: Domain of unknown function (DUF4416)
Probab=34.12 E-value=65 Score=24.46 Aligned_cols=33 Identities=24% Similarity=0.405 Sum_probs=19.3
Q ss_pred EEEecCCe-----eeEeEEeCC-CCeeEEEecceeEEeecH
Q 031887 61 TLVNLGSE-----VYMQADVPD-TQHIFVDIGLGFHVEFTW 95 (151)
Q Consensus 61 ~lVplg~~-----~fv~a~i~~-~~~V~V~vG~g~~vE~t~ 95 (151)
-.|+|-.| =+|=|+-++ +.+|+ +|.|+|+|.|+
T Consensus 93 R~VNiDPGYl~~~~lVLAt~K~~~HRIY--L~~GIyaE~tL 131 (164)
T PF14385_consen 93 RRVNIDPGYLTLERLVLATTKNFSHRIY--LGDGIYAELTL 131 (164)
T ss_pred ceEEeCceecccCeEEEEecCCCCccee--ccCCEEEEEEE
Confidence 44555444 344444443 55544 78999999864
No 189
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=34.10 E-value=2.4e+02 Score=22.47 Aligned_cols=32 Identities=9% Similarity=-0.002 Sum_probs=15.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIE 49 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~ 49 (151)
..++++-+.|.++...+.....++..++.-.+
T Consensus 72 ~~l~~en~~L~~e~~~l~~~~~~~~~l~~en~ 103 (276)
T PRK13922 72 FDLREENEELKKELLELESRLQELEQLEAENA 103 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555554444443333
No 190
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=34.04 E-value=1.6e+02 Score=20.47 Aligned_cols=39 Identities=13% Similarity=0.215 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
.|..-|-++..+.|.+.-+++.+++..-+.+|+.++..|
T Consensus 61 ~E~~Y~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 61 QEEQYFRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344445555567777777777777777888888887765
No 191
>TIGR02383 Hfq RNA chaperone Hfq. This model represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria. It helps pair regulatory noncoding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor (see PubMed:8197116). The name hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.
Probab=33.70 E-value=89 Score=19.84 Aligned_cols=37 Identities=16% Similarity=0.172 Sum_probs=28.3
Q ss_pred HHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecc
Q 031887 48 IENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGL 87 (151)
Q Consensus 48 i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~ 87 (151)
++.+.+. ...+-|-|-+|+=++|.|..-|+..|-+..
T Consensus 8 ln~~r~~---~~~Vti~L~nG~~l~G~I~~fD~ftVll~~ 44 (61)
T TIGR02383 8 LNTLRKE---RIPVTVFLVNGVQLKGVIESFDNFTVLLES 44 (61)
T ss_pred HHHHHHc---CCcEEEEEeCCcEEEEEEEEEeeeEEEEEE
Confidence 4444443 567888999999999999988887777654
No 192
>PRK13923 putative spore coat protein regulator protein YlbO; Provisional
Probab=33.27 E-value=2.2e+02 Score=21.78 Aligned_cols=43 Identities=7% Similarity=0.127 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 141 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~ 141 (151)
+.-+..+.+.|+.....|..+...+...+..+...|.+...+.
T Consensus 113 ~~kl~~~~e~L~~e~~~L~~~~~~~~eDy~~Li~Im~rark~~ 155 (170)
T PRK13923 113 IGKLQEEEEKLSWENQTLKQELAITEEDYRALIVIMNRARRMA 155 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 4445666667777777777777777777777777776655543
No 193
>PRK03918 chromosome segregation protein; Provisional
Probab=33.24 E-value=4e+02 Score=24.78 Aligned_cols=15 Identities=13% Similarity=0.589 Sum_probs=5.7
Q ss_pred HHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEY 116 (151)
Q Consensus 102 l~~ri~~L~~~~~~l 116 (151)
+..+++.+...++.+
T Consensus 685 l~~~i~~l~~~i~~~ 699 (880)
T PRK03918 685 LEKRREEIKKTLEKL 699 (880)
T ss_pred HHHHHHHHHHHHHHH
Confidence 333333333333333
No 194
>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=33.19 E-value=1.2e+02 Score=18.69 Aligned_cols=33 Identities=12% Similarity=0.228 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 106 EDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 106 i~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
+..|+..+..|......++..+..+...+..|.
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~ 60 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLK 60 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445566666666666666666666665555543
No 195
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=32.83 E-value=1.5e+02 Score=21.52 Aligned_cols=34 Identities=9% Similarity=0.228 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
|..|++..+..+.++-..+.+.+..+....+.++
T Consensus 54 L~~riKevd~~~~~l~~~~~erqk~~~k~ae~L~ 87 (131)
T PF10158_consen 54 LAKRIKEVDQEIAKLLQQMVERQKRFAKFAEQLE 87 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444444433333333
No 196
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=32.80 E-value=1.5e+02 Score=22.33 Aligned_cols=36 Identities=19% Similarity=0.294 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
.++..+-.+..++.+++.+++.+.++..++.|+..+
T Consensus 152 ~~~~~~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l 187 (192)
T PF05529_consen 152 LKEENKKLSEEIEKLKKELEKKEKEIEALKKQSEGL 187 (192)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444455555555555555555555555555443
No 197
>cd01108 HTH_CueR Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators. Helix-turn-helix (HTH) transcription regulators CueR and ActP, copper efflux regulators. In Bacillus subtilis, copper induced CueR regulates the copZA operon, preventing copper toxicity. In Rhizobium leguminosarum, ActP controls copper homeostasis; it detects cytoplasmic copper stress and activates transcription in response to increasing copper concentrations. These proteins are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain winged HTH motifs that mediate DNA binding, while the C-terminal domains have two conserved cysteines that define a monovalent copper ion binding site. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements
Probab=32.61 E-value=1.8e+02 Score=20.51 Aligned_cols=30 Identities=10% Similarity=0.247 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
++...++..++..+++++..++.....+..
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~ 107 (127)
T cd01108 78 ADVKALALEHIAELERKIAELQAMRRTLQQ 107 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444444444433
No 198
>PF00384 Molybdopterin: Molybdopterin oxidoreductase; InterPro: IPR006656 This domain is found in a number of molybdopterin-containing oxidoreductases, tungsten formylmethanofuran dehydrogenase subunit d (FwdD) and molybdenum formylmethanofuran dehydrogenase subunit (FmdD); where a single domain constitutes almost the entire subunit. The formylmethanofuran dehydrogenase catalyses the first step in methane formation from CO2 in methanogenic archaea and has a molybdopterin dinucleotide cofactor []. ; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1TI2_G 1VLE_M 1VLD_U 1VLF_O 1TI4_I 1TI6_E 3DMR_A 4DMR_A 1H5N_C 1E5V_A ....
Probab=32.48 E-value=61 Score=27.08 Aligned_cols=28 Identities=32% Similarity=0.522 Sum_probs=22.9
Q ss_pred ecceeEEeecHHHHHHHHHHHHHHHHHH
Q 031887 85 IGLGFHVEFTWSEALKFISQREDKIARQ 112 (151)
Q Consensus 85 vG~g~~vE~t~~eA~~~l~~ri~~L~~~ 112 (151)
-|.|=|++-|.+||.+.+.++++.+.+.
T Consensus 12 rg~~~~~~isWdeAl~~ia~~l~~~~~~ 39 (432)
T PF00384_consen 12 RGDGKFVRISWDEALDEIAEKLKEIIDK 39 (432)
T ss_dssp TTSSSEEE--HHHHHHHHHHHHHHHHHH
T ss_pred CCCCCEEEccHHHHHHHhhhhccccccc
Confidence 5889999999999999999999987654
No 199
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=32.29 E-value=2e+02 Score=22.48 Aligned_cols=46 Identities=22% Similarity=0.255 Sum_probs=36.0
Q ss_pred ecc-eeEEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 85 IGL-GFHVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 85 vG~-g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+|+ |||=-+ ..+|+.-...+...|.+.++.+..++...++.|.--.
T Consensus 63 ~GtsN~YWsF-~s~~~qk~~~~~~~l~~~~~~~kqdi~t~~e~i~~ek 109 (209)
T COG5124 63 CGTSNIYWSF-KSQTLQKLYDSSELLKKKIQEVKQDIATYKEEIDKEK 109 (209)
T ss_pred eccceeEEec-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 565 777777 4677888888888889999999998888888876544
No 200
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=32.18 E-value=1.6e+02 Score=24.49 Aligned_cols=23 Identities=4% Similarity=0.008 Sum_probs=13.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Q 031887 19 RLKPDLTRAIAERDKVFEQQKIF 41 (151)
Q Consensus 19 ~L~~dL~~l~~~~~~l~~~i~e~ 41 (151)
.++.++..+..++..+...+..+
T Consensus 78 ~~~~~l~~l~~~~~~l~a~~~~l 100 (423)
T TIGR01843 78 DVEADAAELESQVLRLEAEVARL 100 (423)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666555543
No 201
>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=32.13 E-value=2.6e+02 Score=22.13 Aligned_cols=27 Identities=11% Similarity=0.122 Sum_probs=15.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDL 44 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~l 44 (151)
+.+...+....+.++++..++.+....
T Consensus 73 ~~l~~~v~~q~~el~~L~~qi~~~~~~ 99 (251)
T PF11932_consen 73 EQLERQVASQEQELASLEQQIEQIEET 99 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555556666666666666554433
No 202
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=32.00 E-value=1.5e+02 Score=19.57 Aligned_cols=47 Identities=15% Similarity=0.295 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHhCCCC
Q 031887 96 SEALKFISQREDKIARQIDEYTRL----------IASIKAQIKLVCEGICELLQLPA 142 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~----------l~~i~~~i~~~~~~i~~l~~l~~ 142 (151)
-++++-++.|++.|+..++.++.. +....++++.+...+...+.+-.
T Consensus 10 r~dIk~vd~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~~l~~l~~~V~~I~~iL~ 66 (75)
T PF05531_consen 10 RQDIKAVDDKVDALQTQVDDLESNLPDVTELNKKLDAQSAQLTTLNTKVNEIQDILN 66 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 356666677776666666555543 44455556666666666665544
No 203
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=31.84 E-value=2.6e+02 Score=23.99 Aligned_cols=50 Identities=14% Similarity=0.095 Sum_probs=38.7
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 142 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~ 142 (151)
+.+.+..+-+.+++..++.+...+......++.++......+.+++..|.
T Consensus 18 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (398)
T PTZ00454 18 RDLYEKLKELEKELEFLDIQEEYIKEEQKNLKRELIRAKEEVKRIQSVPL 67 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 34555566667788888888888888888888888888888888877754
No 204
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=31.72 E-value=1.3e+02 Score=19.18 Aligned_cols=24 Identities=21% Similarity=0.288 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKA 125 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~ 125 (151)
|+.||..|+..++.+..++..+++
T Consensus 30 l~eRIalLq~EIeRlkAe~~kK~~ 53 (65)
T COG5509 30 LEERIALLQAEIERLKAELAKKKA 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhc
Confidence 455666666666665555555444
No 205
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=31.53 E-value=1.8e+02 Score=20.32 Aligned_cols=52 Identities=21% Similarity=0.390 Sum_probs=33.0
Q ss_pred Cch-HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhh
Q 031887 1 MDS-YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIF----SDLRKNIENLEK 53 (151)
Q Consensus 1 ~~~-~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~----~~lk~~i~~l~~ 53 (151)
|+. ++-+++.++|+=+ ..|-.++..+...+..+.++-..+ ..|++.|..+..
T Consensus 1 Mdk~~l~~~l~~le~~l-~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 1 MDKKELFDRLDQLEQQL-GQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred CchHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 565 7777888888766 666666666666666666555433 356666666543
No 206
>cd04785 HTH_CadR-PbrR-like Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators. Helix-turn-helix (HTH) CadR- and PbrR-like transcription regulators. CadR and PbrR regulate expression of the cadmium and lead resistance operons, respectively. These proteins are comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains have three conserved cysteines which comprise a putative metal binding site. Some members in this group have a histidine-rich C-terminal extension. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=31.47 E-value=1.9e+02 Score=20.38 Aligned_cols=33 Identities=21% Similarity=0.256 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
.+++..++..+++.++.+++.++.....+...+
T Consensus 77 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (126)
T cd04785 77 CAEADAIARAHLADVRARIADLRRLEAELKRMV 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555544444444333
No 207
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=31.28 E-value=2.5e+02 Score=21.80 Aligned_cols=14 Identities=50% Similarity=0.646 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHH
Q 031887 4 YRQEKVQKFEEFVD 17 (151)
Q Consensus 4 ~~~~~i~~~e~f~~ 17 (151)
+++.++..+|.++.
T Consensus 83 nlE~kvD~lee~fd 96 (189)
T TIGR02132 83 NLEEKVDLIEEFFD 96 (189)
T ss_pred HHHHHHHHHHHHHH
Confidence 34556666665554
No 208
>KOG4302 consensus Microtubule-associated protein essential for anaphase spindle elongation [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=31.11 E-value=3.8e+02 Score=24.97 Aligned_cols=43 Identities=9% Similarity=0.129 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAET 144 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~~ 144 (151)
.+.+++.|.+.+.++..+-.+--+.++-+...+..|=++..-+
T Consensus 224 s~etl~~L~~~v~~l~~~k~qr~~kl~~l~~~~~~LWn~l~ts 266 (660)
T KOG4302|consen 224 SDETLDRLDKMVKKLKEEKKQRLQKLQDLRTKLLELWNLLDTS 266 (660)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 3444555555555555555555555666666666666666555
No 209
>PRK00395 hfq RNA-binding protein Hfq; Provisional
Probab=31.01 E-value=93 Score=20.84 Aligned_cols=39 Identities=13% Similarity=0.171 Sum_probs=29.9
Q ss_pred HHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecce
Q 031887 47 NIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLG 88 (151)
Q Consensus 47 ~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g 88 (151)
.++.+.+. ...+-|-|-+|+=++|.|..-|+..|-++.+
T Consensus 11 fLn~lr~~---~~~VtifL~NG~~l~G~I~~fD~ftVll~~~ 49 (79)
T PRK00395 11 FLNALRKE---RVPVTIYLVNGIKLQGQIESFDNFVVLLRNT 49 (79)
T ss_pred HHHHHHHc---CCCEEEEEeCCcEEEEEEEEEccEEEEEEEC
Confidence 34445443 5578889999999999999988888887653
No 210
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=31.01 E-value=1.5e+02 Score=19.93 Aligned_cols=29 Identities=14% Similarity=0.394 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIK 124 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~ 124 (151)
++...++..+...|+.+++.++..++.+.
T Consensus 72 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~ 100 (103)
T cd01106 72 EDLLEALREQKELLEEKKERLDKLIKTID 100 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66777777777777777777666655544
No 211
>PRK02509 hypothetical protein; Provisional
Probab=30.59 E-value=1.9e+02 Score=28.15 Aligned_cols=42 Identities=21% Similarity=0.343 Sum_probs=33.7
Q ss_pred EEEecCCe-eeE-----eE---EeCCCCeeEEEecceeEEeecHHHHHHHH
Q 031887 61 TLVNLGSE-VYM-----QA---DVPDTQHIFVDIGLGFHVEFTWSEALKFI 102 (151)
Q Consensus 61 ~lVplg~~-~fv-----~a---~i~~~~~V~V~vG~g~~vE~t~~eA~~~l 102 (151)
.-+|+|.| +|| +| .++.-.+|+|.-|..+-.+-|+++|.+-+
T Consensus 905 LviPI~~sLLYVEPvYlqA~~~~lP~L~RVIVs~g~~vvm~~TL~eAL~~l 955 (973)
T PRK02509 905 LVIPIEQSLLYVEPLYLEAEQNSLPTLARVIVAYENRIVMAPTLEEALQAI 955 (973)
T ss_pred EEEEeCCeeEEEeeEEEecCCCCCCeeEEEEEEECCEEEEccCHHHHHHHH
Confidence 45699977 444 43 46667899999999999999999998754
No 212
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=30.57 E-value=2.4e+02 Score=24.09 Aligned_cols=43 Identities=23% Similarity=0.233 Sum_probs=25.3
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
.+..+.+-|..|.+.++.+++.+-.+....++++..+....++
T Consensus 249 ~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~y~~ 291 (359)
T PF10498_consen 249 DISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEKYKQ 291 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566667777777777776666655555555555444444433
No 213
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=30.35 E-value=2.1e+02 Score=20.58 Aligned_cols=31 Identities=13% Similarity=0.319 Sum_probs=18.0
Q ss_pred HHHHHHHHhhhcCCCCceEEEecCCeeeEeEEe
Q 031887 43 DLRKNIENLEKNSVTSLRTLVNLGSEVYMQADV 75 (151)
Q Consensus 43 ~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i 75 (151)
.+..+++.+-+. .|..+.++-++-+|....+
T Consensus 117 ~i~~~v~~~a~~--~g~~~Vl~~~~vly~~~~~ 147 (158)
T PF03938_consen 117 KINKAVEEYAKE--NGYDLVLDKNAVLYADPAY 147 (158)
T ss_dssp HHHHHHHHHHHH--TT-SEEEEGGGEEEE-TTS
T ss_pred HHHHHHHHHHHH--cCCeEEEeCCceEeeCCCC
Confidence 344555555544 4788888877766665443
No 214
>cd01716 Hfq Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that modulate the stability or translation efficiency of RNA transcripts. Hfq binds preferentially to unstructured A/U-rich RNA sequences and is similar to the eukaryotic Sm proteins in both sequence and structure. Hfq forms a homo-hexameric ring similar to the heptameric ring of the Sm proteins.
Probab=30.10 E-value=95 Score=19.69 Aligned_cols=37 Identities=11% Similarity=0.168 Sum_probs=28.2
Q ss_pred HHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecc
Q 031887 48 IENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGL 87 (151)
Q Consensus 48 i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~ 87 (151)
++.+.+. ...+.|-|-+|+=++|.|.+-|+..|-+..
T Consensus 4 ln~~r~~---~~~Vtv~L~NG~~l~G~I~~fD~ftVll~~ 40 (61)
T cd01716 4 LNAARKE---KIPVTIYLVNGVQLKGQIESFDNFTVLLES 40 (61)
T ss_pred HHHHHHc---CCcEEEEEeCCcEEEEEEEEEcceEEEEEE
Confidence 3444443 567889999999999999988887776654
No 215
>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=30.05 E-value=1.2e+02 Score=20.05 Aligned_cols=23 Identities=17% Similarity=0.101 Sum_probs=16.8
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDE 115 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~ 115 (151)
..++.|...|..|+......+..
T Consensus 24 kd~~~~~~~lk~Klq~ar~~i~~ 46 (83)
T PF07544_consen 24 KDLDTATGSLKHKLQKARAAIRE 46 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 35677788888888887776655
No 216
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=29.89 E-value=2.3e+02 Score=20.99 Aligned_cols=42 Identities=12% Similarity=0.025 Sum_probs=22.9
Q ss_pred ecHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFIS-----------QREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 93 ~t~~eA~~~l~-----------~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+|+++-.++++ .....+...+..+..++..++.....+...+
T Consensus 68 ~sL~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i 120 (154)
T PRK15002 68 IPLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELDGCI 120 (154)
T ss_pred CCHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777664 2334455555555555555555555554444
No 217
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=29.81 E-value=68 Score=21.86 Aligned_cols=34 Identities=9% Similarity=0.165 Sum_probs=20.1
Q ss_pred ecHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDK------IARQIDEYTRLIASIKAQ 126 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~------L~~~~~~l~~~l~~i~~~ 126 (151)
+|++++.++++..-+. +...+..+.+++..++++
T Consensus 59 ~~l~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 98 (99)
T cd04765 59 YTIEGAKQALKEDGAAAIREEEAEERLPSIRAELLDLRDQ 98 (99)
T ss_pred CCHHHHHHHHHhccccccchhhHHHHHHHHHHHHHHHHhc
Confidence 5777888887764443 445555555555555543
No 218
>PF13863 DUF4200: Domain of unknown function (DUF4200)
Probab=29.55 E-value=1.9e+02 Score=19.96 Aligned_cols=36 Identities=19% Similarity=0.309 Sum_probs=21.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEK 53 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~ 53 (151)
..|..+|..+...+..+...+..|......|+.+.+
T Consensus 84 ~~l~~~l~~l~~~~~k~e~~l~~~~~Y~~fL~~v~~ 119 (126)
T PF13863_consen 84 KKLKAELEELKSEISKLEEKLEEYKKYEEFLEKVVP 119 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 345555555666666666666666666666666544
No 219
>PF12841 YvrJ: YvrJ protein family; InterPro: IPR024419 This entry is represents a family of uncharacterised protein. The function of the Bacillus subtilis YvrJ protein is not known, but its expression is regulated by the cell envelope stress-inducible sigma factor YvrI [].
Probab=29.45 E-value=64 Score=18.48 Aligned_cols=17 Identities=24% Similarity=0.534 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTR 118 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~ 118 (151)
+++|++.|.+.+.+|..
T Consensus 20 ~E~kld~L~~~i~~L~~ 36 (38)
T PF12841_consen 20 IEKKLDELTESINELSE 36 (38)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 45566666666665544
No 220
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=29.17 E-value=2.2e+02 Score=20.49 Aligned_cols=43 Identities=12% Similarity=0.168 Sum_probs=26.9
Q ss_pred ecHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ----------REDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 93 ~t~~eA~~~l~~----------ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
+|+++..++++- ....+.+++..+..+++.+......+...+.
T Consensus 58 ~sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~ 110 (135)
T PRK10227 58 FNLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQSMRDQLLALAN 110 (135)
T ss_pred CCHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888752 3445566666666666666666665554443
No 221
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=28.90 E-value=2.7e+02 Score=23.08 Aligned_cols=29 Identities=14% Similarity=0.352 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 104 QREDKIARQIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 104 ~ri~~L~~~~~~l~~~l~~i~~~i~~~~~ 132 (151)
...+.+.+.+..++++-..+.+++..++.
T Consensus 57 ~Ee~~l~~eL~~LE~e~~~l~~el~~le~ 85 (314)
T PF04111_consen 57 QEEEELLQELEELEKEREELDQELEELEE 85 (314)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33334444444444444444444444333
No 222
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.58 E-value=2e+02 Score=19.85 Aligned_cols=45 Identities=13% Similarity=0.136 Sum_probs=31.4
Q ss_pred ecHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ-----------REDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 93 ~t~~eA~~~l~~-----------ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+|+++...+++. ....+++..+.+.+++.+++...+.+...+..+
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 57 FTLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred CCHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 577888888754 345677777777777777777777766665554
No 223
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.27 E-value=1.7e+02 Score=19.88 Aligned_cols=12 Identities=33% Similarity=0.360 Sum_probs=6.9
Q ss_pred ecHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ 104 (151)
Q Consensus 93 ~t~~eA~~~l~~ 104 (151)
+|++|-.++++-
T Consensus 56 ~sL~eI~~~l~~ 67 (107)
T cd04777 56 FSLIEIQKIFSY 67 (107)
T ss_pred CCHHHHHHHHHh
Confidence 456666666643
No 224
>PF07352 Phage_Mu_Gam: Bacteriophage Mu Gam like protein; InterPro: IPR009951 The Gam protein, originally characterised in Bacteriophage Mu, protects linear double stranded DNA from exonuclease degradation in vitro and in vivo []. This protein is also found in many bacterial species as part of a suspected prophage. Further studies have shown that Gam is a functional counterpart of the eukaryotic Ku protein, which has key roles in DNA repair and in certain transposition events. Gam displays DNA binding characteristics remarkably similar to those of human Ku []. In addition, Gam can interfere with Ty1 retrotransposition in Saccharomyces cerevisiae (Baker's yeast). These data reveal structural and functional parallels between bacteriophage Gam and eukaryotic Ku and suggest that their functions have been evolutionarily conserved [].; GO: 0003690 double-stranded DNA binding, 0042262 DNA protection; PDB: 2P2U_B.
Probab=28.23 E-value=2.3e+02 Score=20.58 Aligned_cols=40 Identities=5% Similarity=0.116 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHH-------hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 5 RQEKVQKFEEFVD-------RRLKPDLTRAIAERDKVFEQQKIFSDL 44 (151)
Q Consensus 5 ~~~~i~~~e~f~~-------~~L~~dL~~l~~~~~~l~~~i~e~~~l 44 (151)
++.++.+++.-+| +.+.+++..++.+++.+...+..|.+.
T Consensus 15 l~~~~~~i~~~~~~~I~~i~~~~~~~~~~l~~~i~~l~~~l~~y~e~ 61 (149)
T PF07352_consen 15 LQREIARIEAEANDEIARIKEWYEAEIAPLQNRIEYLEGLLQAYAEA 61 (149)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445666666555 445566667777777777777777544
No 225
>cd04777 HTH_MerR-like_sg1 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 1), N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.93 E-value=1.2e+02 Score=20.63 Aligned_cols=27 Identities=15% Similarity=0.412 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIA 121 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~ 121 (151)
+++..+++.+++..++.+++.++..+.
T Consensus 79 ~~~~~~~l~~~~~~l~~~i~~l~~~~~ 105 (107)
T cd04777 79 QDYYKSFLKNKKDELEKEIEDLKKAIQ 105 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 355667777777777777777666543
No 226
>PRK09039 hypothetical protein; Validated
Probab=27.60 E-value=2.5e+02 Score=23.63 Aligned_cols=7 Identities=29% Similarity=0.297 Sum_probs=2.5
Q ss_pred HHHHHHH
Q 031887 106 EDKIARQ 112 (151)
Q Consensus 106 i~~L~~~ 112 (151)
|..|+.+
T Consensus 146 I~aLr~Q 152 (343)
T PRK09039 146 IAALRRQ 152 (343)
T ss_pred HHHHHHH
Confidence 3333333
No 227
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=27.51 E-value=1.4e+02 Score=23.94 Aligned_cols=35 Identities=14% Similarity=0.125 Sum_probs=28.6
Q ss_pred HHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 16 VDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIEN 50 (151)
Q Consensus 16 ~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~ 50 (151)
-|+.|+.++..+..+..++.....|...|++.++.
T Consensus 77 en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL~~ 111 (276)
T PRK13922 77 ENEELKKELLELESRLQELEQLEAENARLRELLNL 111 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 45899999999999999888888888888877654
No 228
>PHA02562 46 endonuclease subunit; Provisional
Probab=27.34 E-value=4.2e+02 Score=23.13 Aligned_cols=29 Identities=7% Similarity=0.292 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIK 124 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~ 124 (151)
+.....++..++.++..++.+...+..++
T Consensus 298 ~~~~~~l~d~i~~l~~~l~~l~~~i~~~~ 326 (562)
T PHA02562 298 PDRITKIKDKLKELQHSLEKLDTAIDELE 326 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555566666666666666666655333
No 229
>PRK10884 SH3 domain-containing protein; Provisional
Probab=27.28 E-value=3e+02 Score=21.48 Aligned_cols=31 Identities=10% Similarity=0.130 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~ 132 (151)
|+.+.+.|.+++..++.++..++++......
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~ 167 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDDKQR 167 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666666666666666666665555554443
No 230
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=27.22 E-value=2.3e+02 Score=20.04 Aligned_cols=28 Identities=11% Similarity=0.223 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 103 SQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 103 ~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
-.++..++.++..+..++..++.++..+
T Consensus 7 fd~l~~le~~l~~l~~el~~LK~~~~el 34 (110)
T PRK13169 7 FDALDDLEQNLGVLLKELGALKKQLAEL 34 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456666666666666666666666554
No 231
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=27.17 E-value=4.7e+02 Score=23.65 Aligned_cols=42 Identities=21% Similarity=0.462 Sum_probs=30.6
Q ss_pred HHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 031887 11 KFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEK 53 (151)
Q Consensus 11 ~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~ 53 (151)
.+++|. .-+-.|++.+..+.+.+.+++.+-.++.+.++++..
T Consensus 261 ~f~~~~-~~i~~~i~~lk~~n~~l~e~i~ea~k~s~~i~~l~e 302 (622)
T COG5185 261 GFEKFV-HIINTDIANLKTQNDNLYEKIQEAMKISQKIKTLRE 302 (622)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455655 556677788888888888888887777777777654
No 232
>PRK03992 proteasome-activating nucleotidase; Provisional
Probab=26.69 E-value=3.2e+02 Score=23.12 Aligned_cols=47 Identities=6% Similarity=0.110 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 141 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~ 141 (151)
+.+...-+.++...+......+..++..++.++..+...+..++..+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 52 (389)
T PRK03992 6 LEERNSELEEQIRQLELKLRDLEAENEKLERELERLKSELEKLKSPP 52 (389)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 34455556778888888888888888888888888888888887754
No 233
>PRK00068 hypothetical protein; Validated
Probab=26.64 E-value=2.9e+02 Score=26.94 Aligned_cols=46 Identities=20% Similarity=0.250 Sum_probs=36.2
Q ss_pred CceEEEecCCe-e-----eEeEE----eCCCCeeEEEecceeEEeecHHHHHHHHH
Q 031887 58 SLRTLVNLGSE-V-----YMQAD----VPDTQHIFVDIGLGFHVEFTWSEALKFIS 103 (151)
Q Consensus 58 ~~e~lVplg~~-~-----fv~a~----i~~~~~V~V~vG~g~~vE~t~~eA~~~l~ 103 (151)
|.=.-+|+|.| + |++++ ++.-.+|+|.-|..+-.+-|+++|.+-+-
T Consensus 830 GNLLvlPi~~~lLYVePvYlqa~~~~~~P~L~rVivs~g~~v~~~~TL~eAL~~lf 885 (970)
T PRK00068 830 GNLLTLPVGGSLLYVEPVYLRAGGQNSYPELKRVLVSYNDKVGYAPTIREALTQLF 885 (970)
T ss_pred cceEEEEeCCeeEEEEeEEEecCCCCCCceeEEEEEEECCEeEeccCHHHHHHHHh
Confidence 33355699977 3 44553 56678999999999999999999998873
No 234
>smart00338 BRLZ basic region leucin zipper.
Probab=26.41 E-value=1.6e+02 Score=18.08 Aligned_cols=33 Identities=12% Similarity=0.240 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 031887 106 EDKIARQIDEYTRLIASIKAQIKLVCEGICELL 138 (151)
Q Consensus 106 i~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~ 138 (151)
+..|+..+..|......++.++..+...+..+-
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666666666665555543
No 235
>TIGR01070 mutS1 DNA mismatch repair protein MutS.
Probab=26.40 E-value=4.2e+02 Score=25.25 Aligned_cols=10 Identities=10% Similarity=0.072 Sum_probs=5.5
Q ss_pred CCeeeEeEEe
Q 031887 66 GSEVYMQADV 75 (151)
Q Consensus 66 g~~~fv~a~i 75 (151)
..|.|++..-
T Consensus 455 ~~gy~iev~~ 464 (840)
T TIGR01070 455 VFGYYIEVTR 464 (840)
T ss_pred CceEEEEEeh
Confidence 4566665543
No 236
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=26.35 E-value=2.3e+02 Score=24.77 Aligned_cols=38 Identities=18% Similarity=0.223 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhC
Q 031887 102 ISQREDKIARQIDEYTRLIAS----IKAQIKLVCEGICELLQ 139 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~----i~~~i~~~~~~i~~l~~ 139 (151)
++.+++.++++++.++..+.. ++.|+..++..|+++++
T Consensus 411 l~~~i~~l~~~i~~~~~rl~~~e~rl~~qF~ame~~~s~mns 452 (462)
T PRK08032 411 VNKTLKKLTKQYNAVSDSIDATIARYKAQFTQLDKLMTSLNS 452 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444443333 33344455555655553
No 237
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=26.30 E-value=2.6e+02 Score=20.40 Aligned_cols=43 Identities=21% Similarity=0.325 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 4 YRQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKN 47 (151)
Q Consensus 4 ~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~ 47 (151)
..+..+.-||..+ +.|+.++..=...+..|..++.+.......
T Consensus 84 e~qsli~~yE~~~-~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~ 126 (131)
T PF04859_consen 84 EQQSLIKTYEIVV-KKLEAELRAKDSEIDRLREKLDELNRANKS 126 (131)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445688888877 678888887777777777777776544333
No 238
>TIGR02044 CueR Cu(I)-responsive transcriptional regulator. This model represents the copper-, silver- and gold- (I) responsive transcriptional activator of the gamma proteobacterial copper efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X7-Cys. This family also lacks a conserved cysteine at the N-terminal end of the dimerization helix which is required for the binding of divalent metals such as zinc; here it is replaced by a serine residue.
Probab=26.30 E-value=2.4e+02 Score=19.85 Aligned_cols=34 Identities=18% Similarity=0.203 Sum_probs=23.8
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQI 127 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i 127 (151)
+.++...++..++..++.++..++...+.+...+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02044 76 TSADVKARTLEKVAEIERKISELQSMRDQLEALA 109 (127)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777788888888777777777666655443
No 239
>PF13368 Toprim_C_rpt: Topoisomerase C-terminal repeat
Probab=26.24 E-value=1.2e+02 Score=18.77 Aligned_cols=15 Identities=27% Similarity=0.534 Sum_probs=11.1
Q ss_pred EeecHHHHHHHHHHH
Q 031887 91 VEFTWSEALKFISQR 105 (151)
Q Consensus 91 vE~t~~eA~~~l~~r 105 (151)
.+.|+++|.+++..+
T Consensus 34 ~~itle~a~~ll~~~ 48 (61)
T PF13368_consen 34 EEITLEEAVELLAEK 48 (61)
T ss_pred ccCCHHHHHHHHhch
Confidence 456888888877655
No 240
>PF13151 DUF3990: Protein of unknown function (DUF3990)
Probab=26.18 E-value=57 Score=24.33 Aligned_cols=28 Identities=18% Similarity=0.304 Sum_probs=25.0
Q ss_pred CCeeEEEecceeEEeecHHHHHHHHHHH
Q 031887 78 TQHIFVDIGLGFHVEFTWSEALKFISQR 105 (151)
Q Consensus 78 ~~~V~V~vG~g~~vE~t~~eA~~~l~~r 105 (151)
.++-..+-|.|||+=-..+.|.++..++
T Consensus 18 ~~r~~~DFG~GFY~T~~~~qA~~wA~~~ 45 (154)
T PF13151_consen 18 KGRPNLDFGKGFYLTTDKEQAKRWAKRK 45 (154)
T ss_pred cCcccCccCceeEcccCHHHHHHHHHhc
Confidence 4566788999999999999999999988
No 241
>PF04568 IATP: Mitochondrial ATPase inhibitor, IATP; InterPro: IPR007648 ATP synthase inhibitor prevents the enzyme from switching to ATP hydrolysis during collapse of the electrochemical gradient, for example during oxygen deprivation [] ATP synthase inhibitor forms a one to one complex with the F1 ATPase, possibly by binding at the alpha-beta interface. It is thought to inhibit ATP synthesis by preventing the release of ATP []. The minimum inhibitory region for bovine inhibitor (P01096 from SWISSPROT) is from residues 39 to 72 []. The inhibitor has two oligomeric states, dimer (the active state) and tetramer. At low pH , the inhibitor forms a dimer via antiparallel coiled coil interactions between the C-terminal regions of two monomers. At high pH, the inhibitor forms tetramers and higher oligomers by coiled coil interactions involving the N terminus and inhibitory region, thus preventing the inhibitory activity []. ; GO: 0004857 enzyme inhibitor activity, 0045980 negative regulation of nucleotide metabolic process, 0005739 mitochondrion; PDB: 1GMJ_B 1OHH_H 1HF9_B 2V7Q_J.
Probab=25.92 E-value=2.3e+02 Score=19.68 Aligned_cols=21 Identities=14% Similarity=0.328 Sum_probs=14.2
Q ss_pred HHHHHhhhHHHHHHHHHHHHH
Q 031887 13 EEFVDRRLKPDLTRAIAERDK 33 (151)
Q Consensus 13 e~f~~~~L~~dL~~l~~~~~~ 33 (151)
+.|+.+.-+.+|++|..++..
T Consensus 63 ~~Y~r~~EkEqL~~Lk~kl~~ 83 (100)
T PF04568_consen 63 EQYFRKKEKEQLKKLKEKLKE 83 (100)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 456667777777777766655
No 242
>PRK06798 fliD flagellar capping protein; Validated
Probab=25.82 E-value=1.3e+02 Score=26.36 Aligned_cols=13 Identities=8% Similarity=0.038 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHh
Q 031887 126 QIKLVCEGICELL 138 (151)
Q Consensus 126 ~i~~~~~~i~~l~ 138 (151)
++..++..|++++
T Consensus 412 qf~ale~~ms~ln 424 (440)
T PRK06798 412 KYQKLESTLAALD 424 (440)
T ss_pred HHHHHHHHHHHHH
Confidence 3444455555544
No 243
>KOG0605 consensus NDR and related serine/threonine kinases [General function prediction only]
Probab=25.80 E-value=5.1e+02 Score=23.58 Aligned_cols=102 Identities=9% Similarity=0.165 Sum_probs=52.6
Q ss_pred chHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH---HHHHHHH----HHHHHHHH--------hh----hcCCCCceEE
Q 031887 2 DSYRQEKVQKFEEFVDRRLKPDLTRAIAERDKVF---EQQKIFS----DLRKNIEN--------LE----KNSVTSLRTL 62 (151)
Q Consensus 2 ~~~~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~---~~i~e~~----~lk~~i~~--------l~----~~~~~~~e~l 62 (151)
.+.|++++.....|+.+.+..++..+..+.+... ..++.-. +..+.++. |. ...-.++++|
T Consensus 67 s~~T~~k~~~~k~~ien~Y~~~~~~~~~R~er~~~le~~l~~~~~s~~~~~~~~~~~~~kEte~lR~~R~r~~~~DFe~L 146 (550)
T KOG0605|consen 67 SNKTKRKVAAAKQYIENHYSSQIKYLNERKERRKELEEKLASEDVSEEEQNELLKSLLSKETEYLRLRRTRLSLDDFELL 146 (550)
T ss_pred CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHhhHHHHHHHhccccCCcccchhh
Confidence 3467777777777777666666665554443322 2222110 01111111 11 1123589999
Q ss_pred EecCCeeeEeEEeC---CCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHH
Q 031887 63 VNLGSEVYMQADVP---DTQHIFVDIGLGFHVEFTWSEALKFISQREDKIAR 111 (151)
Q Consensus 63 Vplg~~~fv~a~i~---~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~ 111 (151)
.+||.|+|-...+. +|++ ||+=+.+..+.=+=..+++.+..
T Consensus 147 k~IgkGAfGeVrLarKk~Tg~--------iyAmK~LkKS~M~~~~Qv~hV~a 190 (550)
T KOG0605|consen 147 KVIGKGAFGEVRLARKKDTGE--------IYAMKILKKSEMLKKNQVEHVRA 190 (550)
T ss_pred eeeccccceeEEEEEEccCCc--------EEeeecccHHHHHhhhhHHHHHH
Confidence 99999999776655 4544 45444444444333334444333
No 244
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=25.79 E-value=2.6e+02 Score=21.63 Aligned_cols=39 Identities=3% Similarity=0.060 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEG 133 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~ 133 (151)
...|+.+..+++..|+++...++.++..+-..-..=+..
T Consensus 38 ~~~avSL~erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~ 76 (225)
T PF04340_consen 38 SGGAVSLVERQLERLRERNRQLEEQLEELIENARENEAI 76 (225)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345899999999999999999998888877655443333
No 245
>TIGR02047 CadR-PbrR Cd(II)/Pb(II)-responsive transcriptional regulator. This model represents the cadmium(II) and/or lead(II) responsive transcriptional activator of the proteobacterial metal efflux system. This protein is a member of the MerR family of transcriptional activators (pfam00376) and contains a distinctive pattern of cysteine residues in its metal binding loop, Cys-X(6-9)-Cys, as well as a conserved and critical cysteine at the N-terminal end of the dimerization helix.
Probab=25.76 E-value=2.4e+02 Score=19.87 Aligned_cols=33 Identities=12% Similarity=0.201 Sum_probs=19.7
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQ 126 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~ 126 (151)
++++...++..++..++.+++.++...+.+...
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~ 108 (127)
T TIGR02047 76 SCSDVNALLDEHISHVRARIIKLQALIEQLVDL 108 (127)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666666666666665555555543
No 246
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=25.43 E-value=2.4e+02 Score=22.70 Aligned_cols=36 Identities=19% Similarity=0.139 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
=+..+++.|+..+..|+.++.+..-++..+...=++
T Consensus 58 ~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~~~rq~~ 93 (263)
T PRK10803 58 QLQQQLSDNQSDIDSLRGQIQENQYQLNQVVERQKQ 93 (263)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888887777777776554433
No 247
>PF09278 MerR-DNA-bind: MerR, DNA binding; InterPro: IPR015358 This entry represents a family of DNA-binding domains that are predominantly found in the prokaryotic transcriptional regulator MerR. They adopt a structure consisting of a core of three alpha helices, with an architecture that is similar to that of the 'winged helix' fold []. ; PDB: 3QAO_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q09_A 1Q08_B 1Q0A_B 1Q07_A ....
Probab=25.37 E-value=1.6e+02 Score=17.73 Aligned_cols=45 Identities=16% Similarity=0.145 Sum_probs=20.8
Q ss_pred ecHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQ---REDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 93 ~t~~eA~~~l~~---ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
+|++|-.+++.- .-.......+-+...+..+.++|..+......+
T Consensus 15 fsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~L~~~~~~L 62 (65)
T PF09278_consen 15 FSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAELQALRAQL 62 (65)
T ss_dssp --HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888822 112222233444444555555555444444433
No 248
>PF13093 FTA4: Kinetochore complex Fta4 of Sim4 subunit, or CENP-50
Probab=25.37 E-value=1.5e+02 Score=23.39 Aligned_cols=37 Identities=16% Similarity=0.269 Sum_probs=32.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKN 54 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~ 54 (151)
..|+.+|..+.+++..+...++-|..++..|+-+...
T Consensus 145 ~~l~~~L~~l~~~r~~~~~rl~~lr~L~~lLepf~~~ 181 (213)
T PF13093_consen 145 AELRERLIELSEQRQYLQQRLEYLRRLRSLLEPFDSP 181 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccCC
Confidence 4567899999999999999999999999999877654
No 249
>KOG2150 consensus CCR4-NOT transcriptional regulation complex, NOT5 subunit [Transcription]
Probab=25.30 E-value=2.7e+02 Score=25.44 Aligned_cols=50 Identities=18% Similarity=0.187 Sum_probs=41.0
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHhCCC
Q 031887 92 EFTWSEALKFISQREDKIARQIDEYTR-----LIASIKAQIKLVCEGICELLQLP 141 (151)
Q Consensus 92 E~t~~eA~~~l~~ri~~L~~~~~~l~~-----~l~~i~~~i~~~~~~i~~l~~l~ 141 (151)
|+--.+...+|..-|+.|+.+++.++. .+.+-+.|+..++-.++-|.|=-
T Consensus 117 Ekek~d~~~wi~~~ideLe~q~d~~ea~~~e~~~erh~~H~~~lEliLr~L~N~E 171 (575)
T KOG2150|consen 117 EKEKRDTMDWISNQIDELERQVDSFEAEELERFIERHRWHQQKLELILRLLDNDE 171 (575)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 567789999999999999999887766 56777778888888888887753
No 250
>PF03276 Gag_spuma: Spumavirus gag protein; InterPro: IPR004957 The Spumavirus gag protein is a core viral polyprotein that undergoes specific enzymatic cleavages in vivo to yield the mature protein.; GO: 0019028 viral capsid
Probab=25.19 E-value=4.1e+02 Score=24.23 Aligned_cols=92 Identities=14% Similarity=0.216 Sum_probs=53.5
Q ss_pred HHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHHHHHHHHHHHHHHHHHHH-
Q 031887 41 FSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQREDKIARQIDEYTRL- 119 (151)
Q Consensus 41 ~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~- 119 (151)
|.+++.+.+.|.-. .+-.-+=||..|-|++| .+|..++-.-.|.|+-+-.-++|++.++.....
T Consensus 85 ~~~lr~aF~~idla--~G~~R~GPLanG~~~~g-------------D~ys~~F~P~s~~Eia~m~~~el~~~L~~~~~i~ 149 (582)
T PF03276_consen 85 WNELRRAFDNIDLA--EGPLRFGPLANGNYIPG-------------DPYSLSFNPVSAQEIAQMQRDELEDVLNFQGQIL 149 (582)
T ss_pred HHHHHHHHhcCCCC--CCccccCccCCCccccC-------------CccccccCCccHHHHHhhhHHHHHHHHHHHHHHH
Confidence 45666777766654 34456668888888754 456666655566666655555666655554444
Q ss_pred ------HHHHHHHHHHHHHHHHHHhCCCCCCchh
Q 031887 120 ------IASIKAQIKLVCEGICELLQLPAETSVQ 147 (151)
Q Consensus 120 ------l~~i~~~i~~~~~~i~~l~~l~~~~~~~ 147 (151)
+.-.+.+++.+.+.+.+++.....+.-|
T Consensus 150 ~~mi~~i~~~~~Eir~Lr~~~~~l~~~~~~~~~P 183 (582)
T PF03276_consen 150 EQMIDDIGMQQREIRDLRETIQRLQIRGLGGNIP 183 (582)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCC
Confidence 3334445555556666665444433333
No 251
>KOG0614 consensus cGMP-dependent protein kinase [Signal transduction mechanisms]
Probab=25.13 E-value=3e+02 Score=25.40 Aligned_cols=64 Identities=16% Similarity=0.235 Sum_probs=42.3
Q ss_pred CCCeeEEEecceeEEee-------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 77 DTQHIFVDIGLGFHVEF-------TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 77 ~~~~V~V~vG~g~~vE~-------t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
++..-.|++|+|-.--. .+++|..-.+..+..-+..+..+.++++.....++.+...+...+++
T Consensus 4 p~~~~hvd~~~g~~t~~~~~~~v~~l~~~v~~kd~elr~rqt~~~~l~~~~~~~~~~i~~ltnel~k~r~~ 74 (732)
T KOG0614|consen 4 PPANAHVDVGTGMGTARELQNLVPQLEEAVQRKDAELRQRQTILEELIKEISKLEGEIAKLTNELDKLRSV 74 (732)
T ss_pred CCcCCCCccccCccchHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhhhhcC
Confidence 34444567777766555 55666666665555556666777777777777777777777777664
No 252
>PF07195 FliD_C: Flagellar hook-associated protein 2 C-terminus; InterPro: IPR010809 The flagellar hook-associated protein 2 (HAP2 or FliD) forms the distal end of the flagella, and plays a role in mucin specific adhesion of the bacteria []. This alignment covers the C-terminal region of the flagellar hook-associated protein 2.; GO: 0007155 cell adhesion, 0009288 bacterial-type flagellum
Probab=25.11 E-value=2.4e+02 Score=22.10 Aligned_cols=35 Identities=20% Similarity=0.306 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 100 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
..+..+...++.++..+.+++..+..++...+..+
T Consensus 189 G~i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l 223 (239)
T PF07195_consen 189 GSITSRIDSLNSQIKSLDKQIEDLEERLESKEERL 223 (239)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666666666666665555444
No 253
>cd04772 HTH_TioE_rpt1 First Helix-Turn-Helix DNA binding domain of the regulatory protein TioE. Putative helix-turn-helix (HTH) regulatory protein, TioE, and related proteins. TioE is part of the thiocoraline gene cluster, which is involved in the biosynthesis of the antitumor thiocoraline from the marine actinomycete, Micromonospora. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. Proteins in this family are unique within the MerR superfamily in that they are composed of just two adjacent MerR-like N-terminal domains; this CD contains the N-terminal or first repeat (rpt1) of these tandem MerR-like domain proteins.
Probab=24.97 E-value=1.1e+02 Score=20.70 Aligned_cols=7 Identities=14% Similarity=0.235 Sum_probs=2.8
Q ss_pred HHHHHHH
Q 031887 96 SEALKFI 102 (151)
Q Consensus 96 ~eA~~~l 102 (151)
+++.+++
T Consensus 60 ~~i~~~~ 66 (99)
T cd04772 60 RVAQRIM 66 (99)
T ss_pred HHHHHHH
Confidence 4443443
No 254
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=24.93 E-value=2.1e+02 Score=21.20 Aligned_cols=29 Identities=10% Similarity=0.062 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 106 EDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 106 i~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
++.|+....++...|..++++++.+....
T Consensus 3 ~~~Le~ek~~~~~rI~~K~~~LqEL~~Q~ 31 (142)
T PF08781_consen 3 CEELEEEKQRRRERIKKKKEQLQELILQQ 31 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555566666666666665554433
No 255
>PF11068 YlqD: YlqD protein; InterPro: IPR021297 This bacterial family of proteins has no known function. ; PDB: 4DCI_C.
Probab=24.75 E-value=2.8e+02 Score=20.17 Aligned_cols=30 Identities=10% Similarity=0.016 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCCCchh
Q 031887 118 RLIASIKAQIKLVCEGICELLQLPAETSVQ 147 (151)
Q Consensus 118 ~~l~~i~~~i~~~~~~i~~l~~l~~~~~~~ 147 (151)
.+.++..++.+.+...+.+++.|+-+.+.+
T Consensus 67 ~e~~~r~e~k~~l~~ql~qv~~L~lgsEv~ 96 (131)
T PF11068_consen 67 QEKQERLEQKNQLLQQLEQVQKLELGSEVV 96 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS-TT-EEE
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCCCCEEe
Confidence 334444455567778888888887766544
No 256
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=24.72 E-value=4.3e+02 Score=22.82 Aligned_cols=25 Identities=16% Similarity=0.186 Sum_probs=12.8
Q ss_pred eEEEecCCeeeEeEEeCCCCeeEEE
Q 031887 60 RTLVNLGSEVYMQADVPDTQHIFVD 84 (151)
Q Consensus 60 e~lVplg~~~fv~a~i~~~~~V~V~ 84 (151)
.+.+.-+.|..+-|.+.-...|.+.
T Consensus 287 ~i~v~~~~g~IiGG~i~a~~~i~a~ 311 (451)
T PF03961_consen 287 SIIVNGGKGRIIGGEIKAGNGIEAK 311 (451)
T ss_pred eEEEeCCCCEEECcEEEEcccEEEE
Confidence 4555444555555555555555443
No 257
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=24.69 E-value=5.3e+02 Score=23.42 Aligned_cols=34 Identities=12% Similarity=0.169 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
.+++.+-++.+++.+++.++.+++++.+...+..
T Consensus 213 p~~~l~~l~~~l~~l~~~~~~~~~~l~~~~~~~~ 246 (646)
T PRK05771 213 PSELIREIKEELEEIEKERESLLEELKELAKKYL 246 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777777777777777777766666543
No 258
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=24.62 E-value=4.1e+02 Score=22.11 Aligned_cols=45 Identities=9% Similarity=0.153 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
...+....+++..++.++..+...+....+++..+...|+.+.+.
T Consensus 217 ~~ei~~~~~~l~e~~~~l~~l~~~I~~~~~~k~e~~~~I~~ae~~ 261 (312)
T smart00787 217 LQEIMIKVKKLEELEEELQELESKIEDLTNKKSELNTEIAEAEKK 261 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666677778888888888888888888888888888777663
No 259
>PF10400 Vir_act_alpha_C: Virulence activator alpha C-term; InterPro: IPR018309 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response []. This entry represents the C-terminal domain.; PDB: 1YG2_A.
Probab=24.54 E-value=2e+02 Score=18.44 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=25.0
Q ss_pred ecHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIARQIDEYTRLIASI 123 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i 123 (151)
.+.+.++..|.++.+..+..++.+......+
T Consensus 17 ~~~~~~~~~l~~~~~~~~~~l~~~~~~~~~~ 47 (90)
T PF10400_consen 17 LDPEEAIELLEERREQHEERLAEYEEIEQEI 47 (90)
T ss_dssp S-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5688999999999999999988888866553
No 260
>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=24.42 E-value=2.4e+02 Score=19.24 Aligned_cols=36 Identities=17% Similarity=0.182 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
..++++.|......+..++..++.++......-+.+
T Consensus 47 wek~v~~L~~e~~~l~~E~e~L~~~l~~e~~Ek~~L 82 (87)
T PF12709_consen 47 WEKKVDELENENKALKRENEQLKKKLDTEREEKQEL 82 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667888888888888888888888777665554444
No 261
>PF11690 DUF3287: Protein of unknown function (DUF3287); InterPro: IPR021704 This eukaryotic family of proteins has no known function.
Probab=24.16 E-value=1.2e+02 Score=21.53 Aligned_cols=52 Identities=13% Similarity=0.194 Sum_probs=28.6
Q ss_pred CeeeEeEEeCCCCeeEEEecceeEEeecHHHHHHHHHH---HHHHHHHHHHHHHHHHHHH
Q 031887 67 SEVYMQADVPDTQHIFVDIGLGFHVEFTWSEALKFISQ---REDKIARQIDEYTRLIASI 123 (151)
Q Consensus 67 ~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~eA~~~l~~---ri~~L~~~~~~l~~~l~~i 123 (151)
..-|++|.|..+-.++ =++-...-++|..|+++ +-..+.....+|.+.++++
T Consensus 14 ~r~F~p~~V~~P~~~f-----~~~~~kd~~ea~~F~~kV~~qH~~~~~e~r~L~kKi~~l 68 (109)
T PF11690_consen 14 PRGFEPGQVLFPHAVF-----RHLPSKDKKEAYDFIDKVVDQHQRYCDERRKLRKKIQDL 68 (109)
T ss_pred ccccccccccCHHHHH-----ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457788777776665 22344567788888774 2233333344444443333
No 262
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=24.04 E-value=71 Score=20.07 Aligned_cols=34 Identities=9% Similarity=0.217 Sum_probs=18.6
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 90 HVEFTWSEALKFISQREDKIARQIDEYTRLIASI 123 (151)
Q Consensus 90 ~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i 123 (151)
|++.-+++-++--..++..+...+..+...+..+
T Consensus 32 F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 32 FVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4444455555555666666666666666555543
No 263
>PRK13842 conjugal transfer protein TrbJ; Provisional
Probab=23.73 E-value=4.1e+02 Score=21.78 Aligned_cols=45 Identities=22% Similarity=0.406 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPAE 143 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~~ 143 (151)
+.-..+-++.++..+..+......++.++++.+..++.+.+||..
T Consensus 50 i~~a~r~leQInnQi~ql~q~~~QlQnQ~q~y~Nm~rNl~sLp~s 94 (267)
T PRK13842 50 ISLVGQSAEQINNQITQISQLAEQIQNQLNIYQNMLQNTAQLPNH 94 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCHH
Confidence 344566677777777777777777788888888888877777643
No 264
>PF02187 GAS2: Growth-Arrest-Specific Protein 2 Domain; InterPro: IPR003108 The growth-arrest-specific protein 2 domain is found associated with the spectrin repeat, calponin homology domain and EF hand in many proteins. It is found among others in the growth arrest-specific protein 2 [].; GO: 0007050 cell cycle arrest; PDB: 1V5R_A.
Probab=23.69 E-value=1.7e+02 Score=19.32 Aligned_cols=18 Identities=22% Similarity=0.514 Sum_probs=13.3
Q ss_pred eEEeCCCCeeEEEecceeE
Q 031887 72 QADVPDTQHIFVDIGLGFH 90 (151)
Q Consensus 72 ~a~i~~~~~V~V~vG~g~~ 90 (151)
-..|. .++|+|-||.|+-
T Consensus 40 ~~ril-~~~vMVRVGGGW~ 57 (73)
T PF02187_consen 40 FVRIL-RSHVMVRVGGGWD 57 (73)
T ss_dssp EEEET-TTEEEEEETTEEE
T ss_pred EEEEe-CCEEEEEeCCcHH
Confidence 33444 3689999999984
No 265
>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=23.67 E-value=3.3e+02 Score=22.75 Aligned_cols=23 Identities=9% Similarity=0.065 Sum_probs=10.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKI 40 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e 40 (151)
-.|+.-+.++...+......|.+
T Consensus 70 ~ql~~~~~k~~~si~~q~~~i~~ 92 (301)
T PF06120_consen 70 TQLRANIAKAEESIAAQKRAIED 92 (301)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444555554444444443
No 266
>PF04367 DUF502: Protein of unknown function (DUF502); InterPro: IPR007462 This entry contains proteins that are predicted to be integral membrane proteins.
Probab=23.60 E-value=2.5e+02 Score=19.28 Aligned_cols=55 Identities=13% Similarity=0.267 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHHHHHH----HHHHHHHHHHhhhcCCCC--ceEEEec-CCeeeEeEEeCCCC
Q 031887 25 TRAIAERDKVFEQQKI----FSDLRKNIENLEKNSVTS--LRTLVNL-GSEVYMQADVPDTQ 79 (151)
Q Consensus 25 ~~l~~~~~~l~~~i~e----~~~lk~~i~~l~~~~~~~--~e~lVpl-g~~~fv~a~i~~~~ 79 (151)
+++.+..+.+-..+.- |.-.|+.++.+.....++ .-++|+. +.|+|+-|=+...+
T Consensus 21 ~~l~~~~e~ll~riP~v~~iY~~~k~~~~~~~~~~~~~f~~vVlV~~p~~g~~~igFvT~~~ 82 (108)
T PF04367_consen 21 KWLLNWLERLLQRIPLVKSIYSSIKQLVESFSGDKKKSFKKVVLVEFPRPGMYVIGFVTGED 82 (108)
T ss_pred HHHHHHHHHHHHHCCchHHHHHHHHHHHHHHhhcccccCCeEEEEEecCCCcEEEEEEeccC
Confidence 4555666667777776 888899998887654332 3588888 68899888877544
No 267
>PF02994 Transposase_22: L1 transposable element; InterPro: IPR004244 Many human L1 elements are capable of retrotransposition. Some of these have been shown to exhibit reverse transcriptase (RT) activity [] although the function of many are, as yet, unknown. More information about these proteins can be found at Protein of the Month: Transposase [].; PDB: 2LDY_A 3SOO_A 2YKQ_A 2YKO_C 2YKP_B 2W7A_B 2JRB_A.
Probab=23.56 E-value=3.5e+02 Score=22.97 Aligned_cols=44 Identities=16% Similarity=0.310 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQ 139 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~ 139 (151)
..-+.-+..|+..+++.+..+...+..+..++..+...+..+.+
T Consensus 143 ~~Ri~e~Eeris~lEd~~~~i~~~~~~~~k~i~~l~~kl~DlEn 186 (370)
T PF02994_consen 143 NSRIDELEERISELEDRIEEIEQAIKELEKRIKKLEDKLDDLEN 186 (370)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Confidence 34455556666666666666666666666666666666665543
No 268
>PF12018 DUF3508: Domain of unknown function (DUF3508); InterPro: IPR021897 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is about 280 amino acids in length. This domain has two conserved sequence motifs: GFC and GLL. This family is also known as UPF0704.
Probab=23.55 E-value=3.3e+02 Score=22.15 Aligned_cols=31 Identities=19% Similarity=0.378 Sum_probs=22.9
Q ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 031887 8 KVQKFEEFVDRRLKPDLTRAIAERDKVFEQQK 39 (151)
Q Consensus 8 ~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~ 39 (151)
.+-||+.|+ ..|..|+....+..+.+.....
T Consensus 56 n~RQ~e~fL-r~ll~dl~~~~~~V~~l~~~~~ 86 (281)
T PF12018_consen 56 NRRQYEIFL-RILLSDLITCAQRVEELIKRFE 86 (281)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 367888888 7888888877777766666554
No 269
>TIGR01242 26Sp45 26S proteasome subunit P45 family. Many proteins may score above the trusted cutoff because an internal
Probab=23.42 E-value=2.9e+02 Score=22.95 Aligned_cols=40 Identities=13% Similarity=0.169 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLP 141 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~ 141 (151)
+..+++.|+.++..++.+....+.++..+...+.+++..+
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (364)
T TIGR01242 4 LDVRIRKLEDEKRSLEKEKIRLERELERLRSEIERLRSPP 43 (364)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3456777777777888887777777877777777776654
No 270
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=23.42 E-value=3.7e+02 Score=24.89 Aligned_cols=24 Identities=25% Similarity=0.466 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhh
Q 031887 30 ERDKVFEQQKIFSDLRKNIENLEK 53 (151)
Q Consensus 30 ~~~~l~~~i~e~~~lk~~i~~l~~ 53 (151)
+++.+.+++.-|...+..+..+..
T Consensus 343 ~RDALAAA~kAY~~yk~kl~~vEr 366 (652)
T COG2433 343 ERDALAAAYKAYLAYKPKLEKVER 366 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666655544
No 271
>PF10438 Cyc-maltodext_C: Cyclo-malto-dextrinase C-terminal domain; InterPro: IPR019492 This domain is at the very C terminus of cyclo-malto-dextrinase proteins and consists of 8 beta strands, is largely globular and appears to help stabilise the active sites created by upstream domains, IPR015171 from INTERPRO, and IPR006047 from INTERPRO. Cyclo-malto-dextrinases hydrolyse cyclodextrans to maltose and glucose and catalyse trans-glycosylation of oligosaccharides to the C3-, C4- or C6-hydroxyl groups of various acceptor sugar molecules. ; PDB: 3EDK_B 3EDD_A 3EDJ_B 3EDE_A 1H3G_B 3EDF_B.
Probab=23.30 E-value=71 Score=21.12 Aligned_cols=20 Identities=20% Similarity=0.250 Sum_probs=17.5
Q ss_pred CCeeeEeEEeCCCCeeEEEe
Q 031887 66 GSEVYMQADVPDTQHIFVDI 85 (151)
Q Consensus 66 g~~~fv~a~i~~~~~V~V~v 85 (151)
-.|+|+.++..+...|+|=+
T Consensus 8 ~~gvYvYfR~~~~~tVmVil 27 (78)
T PF10438_consen 8 QDGVYVYFRYYDGKTVMVIL 27 (78)
T ss_dssp BTTEEEEEEEESSEEEEEEE
T ss_pred cCCEEEEEEEcCCCEEEEEE
Confidence 57999999999999998854
No 272
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=23.25 E-value=1.2e+02 Score=26.04 Aligned_cols=27 Identities=37% Similarity=0.651 Sum_probs=24.1
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 031887 86 GLGFHVEFTWSEALKFISQREDKIARQ 112 (151)
Q Consensus 86 G~g~~vE~t~~eA~~~l~~ri~~L~~~ 112 (151)
|.|=|.+-|.+||.+++.++++.+.+.
T Consensus 67 G~g~~~~iSWdeAl~~ia~~l~~~~~~ 93 (454)
T cd02755 67 GEGKFREASWDEALQYIASKLKEIKEQ 93 (454)
T ss_pred CCCeEEEeCHHHHHHHHHHHHHHHHHh
Confidence 578899999999999999999887763
No 273
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=23.21 E-value=3.5e+02 Score=23.85 Aligned_cols=38 Identities=13% Similarity=0.130 Sum_probs=21.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
..++++.-++++++.++..+..++.+++-+++++..+.
T Consensus 68 ~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l~ 105 (525)
T TIGR02231 68 PDPERLAELRKQIRELEAELRDLEDRGDALKALAKFLE 105 (525)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555555555555555554443
No 274
>PRK14127 cell division protein GpsB; Provisional
Probab=23.18 E-value=2.8e+02 Score=19.60 Aligned_cols=43 Identities=21% Similarity=0.325 Sum_probs=24.3
Q ss_pred ecHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKI---ARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L---~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
++.+|--.||+.=++.+ .+.+..|+.++..++.++......+.
T Consensus 23 Yd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~ 68 (109)
T PRK14127 23 YDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDELTKQVS 68 (109)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 36778888887554433 34455555555555555555554444
No 275
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.07 E-value=2.3e+02 Score=18.62 Aligned_cols=40 Identities=23% Similarity=0.370 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
|=++=|+.|+..+......+++.+.+++.+-+.+..+++-
T Consensus 19 fQE~tieeLn~~laEq~~~i~k~q~qlr~L~~kl~~~~~~ 58 (72)
T COG2900 19 FQEQTIEELNDALAEQQLVIDKLQAQLRLLTEKLKDLQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 3344445555555555566666677777766666666554
No 276
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=22.96 E-value=5.1e+02 Score=23.82 Aligned_cols=41 Identities=15% Similarity=0.224 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
.++-.+++++++..|..+++....+++...+-+..+.+.+.
T Consensus 412 ~~~~~~~~~e~~~~L~qqlD~kd~~~n~~sqL~~~lk~q~~ 452 (607)
T KOG0240|consen 412 LEEEEDILTERIESLYQQLDQKDDQINKQSQLMEKLKEQLL 452 (607)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56677788888888888777777777766665555544443
No 277
>COG5127 Vacuolar H+-ATPase V1 sector, subunit C [Energy production and conversion]
Probab=22.95 E-value=4.8e+02 Score=22.23 Aligned_cols=109 Identities=12% Similarity=0.013 Sum_probs=61.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEeecHHH
Q 031887 18 RRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEFTWSE 97 (151)
Q Consensus 18 ~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~t~~e 97 (151)
++|-.+.++|...-.++...|+.+. +.+..+......+. + .-.-+.+..+.....+-|=-.-|..-+|+++
T Consensus 49 d~lI~qsE~L~k~d~qc~~aIsKi~---~i~~g~~~ss~gd~---~---~~~iv~~~~pEy~~~f~W~~~~F~~nKsI~~ 119 (383)
T COG5127 49 DGLINQSERLGKLDKQCEGAISKIL---KIFMGYCRSSNGDR---V---GKGIVYGSTPEYGDFFEWDRQSFVTNKSIEK 119 (383)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHH---HHHHhhhccccccc---c---ccccccCCchhhhhhhhcchhheeccccHHH
Confidence 4455556666666666666666653 33333332210111 1 1123455666655666677778888899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Q 031887 98 ALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQLPA 142 (151)
Q Consensus 98 A~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l~~ 142 (151)
|+..|+.....+.+-+.. ..+..+......+.+|...+
T Consensus 120 ~i~li~~E~~~~~~d~r~-------~~~~f~~Ak~~~~~~qrk~~ 157 (383)
T COG5127 120 AILLIDGEYRRISKDYRE-------KAEEFDGAKRECEKLQRKTR 157 (383)
T ss_pred HHHHhhhHHHHHHHHHHH-------HHHHhhHHHHHHHHHHhhcc
Confidence 999888877766655444 44444444444444444433
No 278
>cd03199 GST_C_GRX2 GST_C family, Glutaredoxin 2 (GRX2) subfamily; composed of bacterial proteins similar to E. coli GRX2, an atypical GRX with a molecular mass of about 24kD (most GRXs range from 9-12kD). GRX2 adopts a GST fold containing an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain. It contains a redox active CXXC motif located in the N-terminal domain, but is not able to reduce ribonucleotide reductase like other GRXs. However, it catalyzes GSH-dependent protein disulfide reduction of other substrates efficiently. GRX2 is thought to function primarily in catalyzing the reversible glutathionylation of proteins in cellular redox regulation including stress responses.
Probab=22.65 E-value=2.2e+02 Score=20.69 Aligned_cols=30 Identities=17% Similarity=0.205 Sum_probs=20.5
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 90 HVEFTWSEALKFISQREDKIARQIDEYTRL 119 (151)
Q Consensus 90 ~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~ 119 (151)
+-|+..++|+.++..|.+.--...+.+-++
T Consensus 28 lpEFaT~~A~~yf~~kKe~~~G~F~~~l~~ 57 (128)
T cd03199 28 LPEFATQSARDYFIEKKEKSIGSFDALLAN 57 (128)
T ss_pred CCccCCHHHHHHHHHHHHhhhCCHHHHHHc
Confidence 568899999988888876654444444333
No 279
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=22.62 E-value=3.9e+02 Score=23.88 Aligned_cols=37 Identities=8% Similarity=0.093 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 031887 5 RQEKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFS 42 (151)
Q Consensus 5 ~~~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~ 42 (151)
.|.+...+|.=+ +.|+.+++.+....+.+..+|+++.
T Consensus 74 qQ~kasELEKqL-aaLrqElq~~saq~~dle~KIkeLE 110 (475)
T PRK13729 74 MQVTAAQMQKQY-EEIRRELDVLNKQRGDDQRRIEKLG 110 (475)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHHhhhhhhHHHHHHHHH
Confidence 344566666544 5556666655555555555555443
No 280
>cd02769 MopB_DMSOR-BSOR-TMAOR The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its cellular location and oligomerization state are organism-dependent. For example, in Rhodobacter sphaeriodes and Rhodobacter capsulatus, it is an 82-kDa monomeric soluble protein found in the periplasmic space; in E. coli, it is membrane-bound and exists as a heterotrimer. BSOR catalyzes the reduction of biotin sulfixode to biotin, and is unique among Mo enzymes because no additional auxiliary proteins or cofactors are required. TMAOR is similar to DMSOR, but its only natural substrate is TMAO. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=22.36 E-value=1.1e+02 Score=27.49 Aligned_cols=27 Identities=22% Similarity=0.523 Sum_probs=24.3
Q ss_pred cceeEEeecHHHHHHHHHHHHHHHHHH
Q 031887 86 GLGFHVEFTWSEALKFISQREDKIARQ 112 (151)
Q Consensus 86 G~g~~vE~t~~eA~~~l~~ri~~L~~~ 112 (151)
|.|=|++-|.+||.+.+..|++.+.+.
T Consensus 69 G~g~~~~ISWdEAld~IA~kl~~i~~~ 95 (609)
T cd02769 69 GKEEFVRVSWDEALDLVAAELKRVRKT 95 (609)
T ss_pred CCCCeEEecHHHHHHHHHHHHHHHHHh
Confidence 578899999999999999999998763
No 281
>PF09869 DUF2096: Uncharacterized protein conserved in archaea (DUF2096); InterPro: IPR017098 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.23 E-value=1.8e+02 Score=22.32 Aligned_cols=67 Identities=19% Similarity=0.135 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-----HHHHHHHhhhcCCCCceEEEecCCeee--EeEEeCCCCeeEEEeccee
Q 031887 23 DLTRAIAERDKVFEQQKIFSD-----LRKNIENLEKNSVTSLRTLVNLGSEVY--MQADVPDTQHIFVDIGLGF 89 (151)
Q Consensus 23 dL~~l~~~~~~l~~~i~e~~~-----lk~~i~~l~~~~~~~~e~lVplg~~~f--v~a~i~~~~~V~V~vG~g~ 89 (151)
.|.+....+..++..+-++++ .++-++.+.++.......-.|+..+-| +.+.-++.+.+=|.+-.-.
T Consensus 50 ~L~~ae~~Ln~vQ~~L~~l~d~~~d~~~~~l~km~kA~rgE~~~~fp~~kS~Fn~~v~~p~~~~~iRv~l~~~i 123 (169)
T PF09869_consen 50 ELKDAEKELNSVQSILFDLCDEGEDYRKKWLDKMKKASRGELVFEFPLKKSKFNPEVKAPPGFETIRVKLKKPI 123 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhccchhhcCcchhhhhhhhcCCCCCceeEEEecCccc
Confidence 344455555555555544444 456666666654445567778888888 7777677666666654433
No 282
>KOG2706 consensus Predicted membrane protein [Function unknown]
Probab=22.19 E-value=36 Score=28.98 Aligned_cols=33 Identities=24% Similarity=0.446 Sum_probs=26.6
Q ss_pred EEEecCCeeeEeEEeCCCCeeEEEecceeEEee
Q 031887 61 TLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEF 93 (151)
Q Consensus 61 ~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~ 93 (151)
.+..+|+|+||+---+...+++++-|.||.+-.
T Consensus 12 LL~c~GAg~YVkKIadegqr~LaS~~LG~~m~l 44 (476)
T KOG2706|consen 12 LLFCFGAGCYVKKIADEGQRILASGALGFAMSL 44 (476)
T ss_pred HHhhcccchhhhhhccCCceEEeeccccceehe
Confidence 456789999998665557899999999997754
No 283
>cd04790 HTH_Cfa-like_unk Helix-Turn-Helix DNA binding domain of putative Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulator; conserved, Cfa-like, unknown proteins (~172 a.a.). The N-terminal domain of these proteins appears to be related to the HTH domain of Cfa, a cyclopropane fatty acid synthase. These Cfa-like proteins have a unique C-terminal domain with conserved histidines (motif HXXFX7HXXF). Based on sequence similarity of the N-terminal domains, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domain
Probab=22.02 E-value=3.5e+02 Score=20.27 Aligned_cols=41 Identities=17% Similarity=0.331 Sum_probs=18.7
Q ss_pred cHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQR----EDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 94 t~~eA~~~l~~r----i~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
|+++...+++.. ...|.++++.+..++..++...+.+...+
T Consensus 60 sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll 104 (172)
T cd04790 60 SLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATLL 104 (172)
T ss_pred CHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555422 23344444444555544444444444333
No 284
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=22.00 E-value=2.3e+02 Score=24.82 Aligned_cols=33 Identities=12% Similarity=0.247 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 102 ISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 102 l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+..|.+.|...+..+.+++..+..+|...++.+
T Consensus 404 l~~~~~~l~~~i~~l~~~i~~~~~rl~~~e~rl 436 (462)
T PRK08032 404 IKTATDGVNKTLKKLTKQYNAVSDSIDATIARY 436 (462)
T ss_pred chhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555555555555555555555555555444
No 285
>PF04025 DUF370: Domain of unknown function (DUF370); InterPro: IPR007169 This is a bacterial family of unknown function.
Probab=21.65 E-value=47 Score=21.90 Aligned_cols=12 Identities=42% Similarity=0.841 Sum_probs=9.9
Q ss_pred EEEecceeEEee
Q 031887 82 FVDIGLGFHVEF 93 (151)
Q Consensus 82 ~V~vG~g~~vE~ 93 (151)
+|++|.|.||-.
T Consensus 1 ~inIGfgn~V~~ 12 (73)
T PF04025_consen 1 FINIGFGNFVNA 12 (73)
T ss_pred CeEecCCcEEEc
Confidence 588999999865
No 286
>TIGR01061 parC_Gpos DNA topoisomerase IV, A subunit, Gram-positive. Operationally, topoisomerase IV is a type II topoisomerase required for the decatenation of chromosome segregation. Not every bacterium has both a topo II and a topo IV. The topo IV families of the Gram-positive bacteria and the Gram-negative bacteria appear not to represent a single clade among the type II topoisomerases, and are represented by separate models for this reason.
Probab=21.41 E-value=6.9e+02 Score=23.49 Aligned_cols=40 Identities=20% Similarity=0.184 Sum_probs=25.3
Q ss_pred ecHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Q 031887 93 FTWSEALKFISQREDKIA-RQIDEYTRLIASIKAQIKLVCE 132 (151)
Q Consensus 93 ~t~~eA~~~l~~ri~~L~-~~~~~l~~~l~~i~~~i~~~~~ 132 (151)
++-.+|..+++-|+..|. ..+.++.+++.+++..|..+..
T Consensus 408 ~~~~q~~~il~m~l~~lt~~e~~kl~~e~~~l~~~i~~l~~ 448 (738)
T TIGR01061 408 FTENQAEAIVSLRLYRLTNTDIFELKEEQNELEKKIISLEQ 448 (738)
T ss_pred CCHHHHHHHHhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345688888888887775 3555666666665555554443
No 287
>PF12017 Tnp_P_element: Transposase protein; InterPro: IPR021896 Protein in this family are transposases found in insects. This region is about 230 amino acids in length and is found associated with PF05485 from PFAM.
Probab=21.35 E-value=2.8e+02 Score=22.20 Aligned_cols=34 Identities=18% Similarity=0.380 Sum_probs=25.5
Q ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 17 DRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIEN 50 (151)
Q Consensus 17 ~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~ 50 (151)
+..|+..+.++......+...+..+.++++.|..
T Consensus 20 ~~~Lk~kir~le~~l~~Lk~~l~~~~~l~~~L~~ 53 (236)
T PF12017_consen 20 NKKLKKKIRRLEKELKKLKQKLEKYQKLENSLKQ 53 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677777788888888888888777777776644
No 288
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=21.33 E-value=76 Score=28.01 Aligned_cols=82 Identities=15% Similarity=0.179 Sum_probs=53.6
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCceEEEecCCeeeEeEEeCCCCeeEEEecceeEEee
Q 031887 14 EFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKNIENLEKNSVTSLRTLVNLGSEVYMQADVPDTQHIFVDIGLGFHVEF 93 (151)
Q Consensus 14 ~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~i~~l~~~~~~~~e~lVplg~~~fv~a~i~~~~~V~V~vG~g~~vE~ 93 (151)
.++.+.|..-...+..++..+.....++.++++.++..+...-+.++. | |....+-+-..|..+|.=.
T Consensus 18 ~~~~~~l~~~~~~~~~~r~~~~~~~~~~~elr~~~~eik~~~lenLd~--------~----l~~~~~~v~~~Gg~vy~A~ 85 (459)
T COG1139 18 KQLREALRKAQDTLRANREKVLDELPDWEELRDLAREIKLHVLENLDE--------Y----LEQLEENVTRNGGHVYFAK 85 (459)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHhHHH--------H----HHHHHHHHHHcCCEEEEeC
Confidence 444455666667777888888888888888888877766532112211 1 1112222334788899999
Q ss_pred cHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQRED 107 (151)
Q Consensus 94 t~~eA~~~l~~ri~ 107 (151)
|.+||.+++.+=+.
T Consensus 86 ~aedA~~ii~~iv~ 99 (459)
T COG1139 86 DAEDAREIIGEIVG 99 (459)
T ss_pred CHHHHHHHHHHHHh
Confidence 99999999887655
No 289
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=21.25 E-value=1.2e+02 Score=24.59 Aligned_cols=20 Identities=20% Similarity=0.363 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 031887 112 QIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 112 ~~~~l~~~l~~i~~~i~~~~ 131 (151)
+|..|+.++..+++||..+.
T Consensus 123 KIsALEdELs~LRaQIA~IV 142 (253)
T PF05308_consen 123 KISALEDELSRLRAQIAKIV 142 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33445555666666665554
No 290
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=21.16 E-value=3.1e+02 Score=24.13 Aligned_cols=31 Identities=16% Similarity=0.277 Sum_probs=22.5
Q ss_pred eecHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 92 EFTWSEALKFISQREDKIARQIDEYTRLIAS 122 (151)
Q Consensus 92 E~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~ 122 (151)
.-+..==.+.+++|+..|++++..+...+..
T Consensus 158 ~~p~~vQ~~L~~~Rl~~L~~qi~~~~~~l~~ 188 (475)
T PF10359_consen 158 NDPRRVQIELIQERLDELEEQIEKHEEKLGE 188 (475)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3445555678888998888888877776555
No 291
>cd07591 BAR_Rvs161p The Bin/Amphiphysin/Rvs (BAR) domain of Saccharomyces cerevisiae Reduced viability upon starvation protein 161 and similar proteins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. This subfamily is composed of fungal proteins with similarity to Saccharomyces cerevisiae Reduced viability upon starvation protein 161 (Rvs161p) and Schizosaccharomyces pombe Hob3 (homolog of Bin3). S. cerevisiae Rvs161p plays a role in regulating cell polarity, actin cytoskeleton polarization, vesicle trafficking, endocytosis, bud formation, and the mating response. It forms a heterodimer with another BAR domain protein Rvs167p. Rvs161p and Rvs167p share common functions but are not interchangeable. Their BAR domains cannot be replaced with each other and the overexpression of one cannot suppress the mutant phenotypes of the other. S. pombe Hob3 is important in regulating filamentous actin localization an
Probab=21.15 E-value=3.3e+02 Score=21.36 Aligned_cols=41 Identities=12% Similarity=0.193 Sum_probs=34.2
Q ss_pred EEeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 90 HVEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 90 ~vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
.+|.|.|+.=+...+|...++....+|.+.+..-.+.++.+
T Consensus 4 ~~e~T~D~~F~~~e~~f~~~e~~~~kL~k~~k~y~da~~~l 44 (224)
T cd07591 4 QVERTVDREFEFEERRYRTMEKASTKLQKEAKGYLDSLRAL 44 (224)
T ss_pred cccccCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 37889999999999999999999999988887777776544
No 292
>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=21.08 E-value=91 Score=27.85 Aligned_cols=27 Identities=11% Similarity=0.274 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 105 REDKIARQIDEYTRLIASIKAQIKLVC 131 (151)
Q Consensus 105 ri~~L~~~~~~l~~~l~~i~~~i~~~~ 131 (151)
+|+.|++++++|+++...+++++..++
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k~e 58 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDKVE 58 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccchhh
Confidence 666666666666666666655555444
No 293
>KOG0995 consensus Centromere-associated protein HEC1 [Cell cycle control, cell division, chromosome partitioning]
Probab=21.07 E-value=6.5e+02 Score=23.08 Aligned_cols=34 Identities=15% Similarity=0.295 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
.+.+.+-+...+..-+..++.++...++++.+|.
T Consensus 292 ~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie 325 (581)
T KOG0995|consen 292 MEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIE 325 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444455555555555555555555555443
No 294
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=21.01 E-value=3e+02 Score=19.21 Aligned_cols=39 Identities=21% Similarity=0.375 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICEL 137 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l 137 (151)
.+++...+..+++.+.....+..+++..+....+.+..+
T Consensus 75 q~~L~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~k~l 113 (118)
T PF13815_consen 75 QEYLSSQLEQLEERLQELQQEIEKLKQKLKKQKEEIKKL 113 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555555566655555555555555555555555444
No 295
>cd02770 MopB_DmsA-EC This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted N-terminal iron-sulfur [4Fe-4S] cluster binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=20.92 E-value=1.3e+02 Score=27.11 Aligned_cols=38 Identities=26% Similarity=0.461 Sum_probs=29.4
Q ss_pred eCCCCeeEEE---e---cceeEEeecHHHHHHHHHHHHHHHHHH
Q 031887 75 VPDTQHIFVD---I---GLGFHVEFTWSEALKFISQREDKIARQ 112 (151)
Q Consensus 75 i~~~~~V~V~---v---G~g~~vE~t~~eA~~~l~~ri~~L~~~ 112 (151)
+.+++|+.-. . |.|=|.+-|.+||.+.+.+|++.+.+.
T Consensus 54 ~y~p~Rl~~Pl~R~g~rG~g~~~~isWDeAl~~ia~kl~~i~~~ 97 (617)
T cd02770 54 VYNPDRLKYPMKRVGKRGEGKFVRISWDEALDTIASELKRIIEK 97 (617)
T ss_pred hcChhHhcCCceecCcCCCCCeEEecHHHHHHHHHHHHHHHHHH
Confidence 4455555433 4 478999999999999999999888763
No 296
>PF01455 HupF_HypC: HupF/HypC family; InterPro: IPR001109 The large subunit of [NiFe]-hydrogenase, as well as other nickel metalloenzymes, is synthesised as a precursor devoid of the metalloenzyme active site. This precursor then undergoes a complex post-translational maturation process that requires a number of accessory proteins. The hydrogenase expression/formation proteins (HupF/HypC) form a family of small proteins that are hydrogenase precursor-specific chaperones required for this maturation process []. They are believed to keep the hydrogenase precursor in a conformation accessible for metal incorporation [, ].; PDB: 3D3R_A 2Z1C_C 2OT2_A.
Probab=20.91 E-value=2.1e+02 Score=18.28 Aligned_cols=27 Identities=26% Similarity=0.341 Sum_probs=16.7
Q ss_pred eCCCCeeEEEecceeEEe-ecHHHHHHHHH
Q 031887 75 VPDTQHIFVDIGLGFHVE-FTWSEALKFIS 103 (151)
Q Consensus 75 i~~~~~V~V~vG~g~~vE-~t~~eA~~~l~ 103 (151)
+...+.|+|+.| |-++ .+-++|.+.++
T Consensus 38 v~~Gd~VLVHaG--~Ai~~ideeeA~e~l~ 65 (68)
T PF01455_consen 38 VKVGDYVLVHAG--FAIEKIDEEEAEETLD 65 (68)
T ss_dssp B-TT-EEEEETT--EEEEEE-HHHHHHHHH
T ss_pred CCCCCEEEEecC--hhheeCCHHHHHHHHH
Confidence 556789999988 4444 47777777654
No 297
>KOG1962 consensus B-cell receptor-associated protein and related proteins [Defense mechanisms]
Probab=20.79 E-value=3.3e+02 Score=21.69 Aligned_cols=46 Identities=11% Similarity=0.198 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICELLQL 140 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~l~~l 140 (151)
+++..+--.+.++.+++....+.++...+...+..+.+.-+.+|+=
T Consensus 163 L~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~ 208 (216)
T KOG1962|consen 163 LETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQ 208 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence 4555555566666666677777777777777777777666666643
No 298
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=20.67 E-value=3.3e+02 Score=19.48 Aligned_cols=40 Identities=23% Similarity=0.338 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 7 EKVQKFEEFVDRRLKPDLTRAIAERDKVFEQQKIFSDLRKN 47 (151)
Q Consensus 7 ~~i~~~e~f~~~~L~~dL~~l~~~~~~l~~~i~e~~~lk~~ 47 (151)
..|.+.|.=+ ..|+.++..+...++.+..++.......+.
T Consensus 23 s~lr~~E~E~-~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~ 62 (120)
T PF12325_consen 23 SQLRRLEGEL-ASLQEELARLEAERDELREEIVKLMEENEE 62 (120)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555533 677777777777777777777665433333
No 299
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.59 E-value=3e+02 Score=19.02 Aligned_cols=30 Identities=7% Similarity=-0.015 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 101 FISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 101 ~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
-+..++..++...++++.+-..++.++..+
T Consensus 31 ~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L 60 (105)
T PRK00888 31 RVNDQVAAQQQTNAKLKARNDQLFAEIDDL 60 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344555555555555555555555555444
No 300
>PHA01750 hypothetical protein
Probab=20.57 E-value=2.6e+02 Score=18.21 Aligned_cols=32 Identities=13% Similarity=0.260 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 99 LKFISQREDKIARQIDEYTRLIASIKAQIKLV 130 (151)
Q Consensus 99 ~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~ 130 (151)
.+++++.++.|..++..+....+.+..++..+
T Consensus 37 keIV~~ELdNL~~ei~~~kikqDnl~~qv~ei 68 (75)
T PHA01750 37 KEIVNSELDNLKTEIEELKIKQDELSRQVEEI 68 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 35666667777777776666666655555444
No 301
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=20.56 E-value=3.5e+02 Score=20.04 Aligned_cols=35 Identities=20% Similarity=0.225 Sum_probs=28.0
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIK 128 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~ 128 (151)
+.++...++..++..++.++..++.....+...+.
T Consensus 87 ~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i~ 121 (154)
T PRK15002 87 SAKEWKQLSSQWREELDRRIHTLVALRDELDGCIG 121 (154)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 45667888888888999988888888888877664
No 302
>PRK09631 DNA topoisomerase IV subunit A; Provisional
Probab=20.54 E-value=6.9e+02 Score=23.17 Aligned_cols=43 Identities=16% Similarity=0.237 Sum_probs=29.2
Q ss_pred eecHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHH
Q 031887 92 EFTWSEALKFISQREDKIAR-QIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 92 E~t~~eA~~~l~~ri~~L~~-~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+.|-++|..+++-|+..|.. .+++++++++++.+.|..+...+
T Consensus 384 ~~t~~qa~ail~mrl~rlt~~e~~k~~~e~~~l~~~i~~~~~~L 427 (635)
T PRK09631 384 DVTEEDIENLLKIPIRRISLFDIDKNQKEIRILNKELKSVEKNL 427 (635)
T ss_pred CCCHHHHHHHHHhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 68899999999999887743 45555555555555555444433
No 303
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=20.45 E-value=1.8e+02 Score=20.35 Aligned_cols=21 Identities=10% Similarity=0.314 Sum_probs=10.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 031887 97 EALKFISQREDKIARQIDEYT 117 (151)
Q Consensus 97 eA~~~l~~ri~~L~~~~~~l~ 117 (151)
+|.+=++.|+..++..+++|.
T Consensus 8 ~~~~~~~~ki~~ve~~V~~l~ 28 (116)
T PF10552_consen 8 QATEEHNEKIEEVENRVDDLE 28 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555554443
No 304
>TIGR01950 SoxR redox-sensitive transcriptional activator SoxR. SoxR is a MerR-family homodimeric transcription factor with a 2Fe-2S cluster in each monomer. The motif CIGCGCxxxxxC is conserved. Oxidation of the iron-sulfur cluster activates SoxR. The physiological role in E. coli is response to oxidative stress. It is activated by superoxide, singlet oxygen, nitric oxide (NO), and hydrogen peroxide. In E. coli, SoxR increases expression of transcription factor SoxS; different downstream targets may exist in other species.
Probab=20.45 E-value=3.5e+02 Score=19.67 Aligned_cols=27 Identities=19% Similarity=0.311 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 96 SEALKFISQREDKIARQIDEYTRLIAS 122 (151)
Q Consensus 96 ~eA~~~l~~ri~~L~~~~~~l~~~l~~ 122 (151)
++...++..+...++.+++.|+.....
T Consensus 79 ~~~~~~l~~~~~~l~~ki~~L~~~~~~ 105 (142)
T TIGR01950 79 DDWARLSSQWREELDERIDQLNALRDQ 105 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444444444444333
No 305
>COG5613 Uncharacterized conserved protein [Function unknown]
Probab=20.41 E-value=4.5e+02 Score=22.73 Aligned_cols=48 Identities=13% Similarity=0.046 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhCCCCCCchhhhc
Q 031887 100 KFISQREDKIARQIDEYTRLIASIKAQIK-LVCEGICELLQLPAETSVQEAI 150 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l~~~l~~i~~~i~-~~~~~i~~l~~l~~~~~~~~~~ 150 (151)
.+|+.-++.|.+.+....+...++-+.+- ++.....-+++| -++|-||
T Consensus 347 ~~Lq~iierlkeelk~e~e~~qe~me~ifamLqavgdtlhnl---asvparI 395 (400)
T COG5613 347 QNLQRIIERLKEELKLELEKAQEEMENIFAMLQAVGDTLHNL---ASVPARI 395 (400)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh---hcCchHh
Confidence 45555555555555554444444433332 222222334444 5777776
No 306
>KOG0977 consensus Nuclear envelope protein lamin, intermediate filament superfamily [Cell cycle control, cell division, chromosome partitioning; Nuclear structure]
Probab=20.31 E-value=3.6e+02 Score=24.53 Aligned_cols=41 Identities=2% Similarity=0.151 Sum_probs=33.4
Q ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 94 TWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 94 t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
.++-...++.++++.+++....|.++..++..++..+...+
T Consensus 152 ~leAe~~~~krr~~~le~e~~~Lk~en~rl~~~l~~~r~~l 192 (546)
T KOG0977|consen 152 ELEAEINTLKRRIKALEDELKRLKAENSRLREELARARKQL 192 (546)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence 36677889999999999999999999888888887765433
No 307
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.24 E-value=1.3e+02 Score=18.52 Aligned_cols=19 Identities=5% Similarity=0.342 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 031887 103 SQREDKIARQIDEYTRLIA 121 (151)
Q Consensus 103 ~~ri~~L~~~~~~l~~~l~ 121 (151)
.+++..+++++++++++++
T Consensus 47 r~~~~~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 47 RRRIRRLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444555555555554444
No 308
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=20.21 E-value=6.6e+02 Score=22.84 Aligned_cols=42 Identities=19% Similarity=0.193 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 95 WSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGICE 136 (151)
Q Consensus 95 ~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~~ 136 (151)
+.+..+-+++++..++..+..+..++..++.++..+...+..
T Consensus 426 l~e~l~~l~~~l~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~ 467 (650)
T TIGR03185 426 LLEELGEAQNELFRSEAEIEELLRQLETLKEAIEALRKTLDE 467 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555555666666666666555655555555555554433
No 309
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=20.20 E-value=4.6e+02 Score=23.00 Aligned_cols=35 Identities=9% Similarity=0.150 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 100 KFISQREDKIARQIDEYTRLIASIKAQIKLVCEGI 134 (151)
Q Consensus 100 ~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i 134 (151)
+-+++++....+...+|++.+.+++..|..+...+
T Consensus 48 ~~~~~~i~~~~~~~~kL~~~lk~~e~~i~~~~~ql 82 (420)
T COG4942 48 AALEKKIREQQDQRAKLEKQLKSLETEIASLEAQL 82 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444333
No 310
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=20.18 E-value=2.7e+02 Score=18.24 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=22.6
Q ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Q 031887 14 EFVDRRLKPDLTRAIAERDKVFEQQKIFS 42 (151)
Q Consensus 14 ~f~~~~L~~dL~~l~~~~~~l~~~i~e~~ 42 (151)
.|+ ..|.|.++.+.+++..+......+.
T Consensus 7 Gl~-~~l~P~l~~~~~~l~el~~sQ~~L~ 34 (92)
T PF14712_consen 7 GLL-SLLEPDLDRLDQQLQELRQSQEELL 34 (92)
T ss_pred HHH-HHHhhhHHHHHHHHHHHHHHHHHHH
Confidence 444 8889999999999998888887753
No 311
>cd02765 MopB_4 The MopB_4 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=20.08 E-value=86 Score=27.96 Aligned_cols=43 Identities=23% Similarity=0.324 Sum_probs=32.2
Q ss_pred eEeEEeCCCCeeEEEe------cceeEEeecHHHHHHHHHHHHHHHHHH
Q 031887 70 YMQADVPDTQHIFVDI------GLGFHVEFTWSEALKFISQREDKIARQ 112 (151)
Q Consensus 70 fv~a~i~~~~~V~V~v------G~g~~vE~t~~eA~~~l~~ri~~L~~~ 112 (151)
+..-.+.+++|+.-.+ |.|=|++-|.+||.+++.+|+..+.+.
T Consensus 45 ~~~~~~y~pdRl~~Pl~R~g~rG~g~~~~iSWdEAl~~ia~kl~~~~~~ 93 (567)
T cd02765 45 SHLQRVYSPDRLKYPMKRVGERGEGKFERITWDEALDTIADKLTEAKRE 93 (567)
T ss_pred hhhhhhcChhhhcCCeeecCCCCCCcEEEecHHHHHHHHHHHHHHHHHH
Confidence 3334456666665554 578999999999999999999887653
No 312
>PF03148 Tektin: Tektin family; InterPro: IPR000435 Tektin heteropolymers form unique protofilaments of flagellar microtubules []. The proteins are predicted to form extended rods composed of 2 alpha- helical segments (~180 residues long) capable of forming coiled coils, interrupted by non-helical linkers []. The 2 segments are similar in sequence, indicating a gene duplication event. Along each tektin rod, cysteine residues occur with a periodicity of ~8nm, coincident with the axial repeat of tubulin dimers in microtubules []. It is proposed that the assembly of tektin heteropolymers produces filaments with repeats of 8, 16, 24, 32, 40, 48 and 96nm, generating the basis for the complex spatial arrangements of axonemal components [].; GO: 0000226 microtubule cytoskeleton organization, 0005874 microtubule
Probab=20.06 E-value=5.5e+02 Score=21.84 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=31.6
Q ss_pred EeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 031887 91 VEFTWSEALKFISQREDKIARQIDEYTRLIASIKAQIKLVCEGIC 135 (151)
Q Consensus 91 vE~t~~eA~~~l~~ri~~L~~~~~~l~~~l~~i~~~i~~~~~~i~ 135 (151)
||...+.|-.-|-..+..|.+.+..|+..+...+..++.+.....
T Consensus 311 vElcrD~~q~~L~~Ev~~l~~~i~~L~~~L~~a~~~l~~L~~~~~ 355 (384)
T PF03148_consen 311 VELCRDPPQYGLIEEVKELRESIEALQEKLDEAEASLQKLERTRL 355 (384)
T ss_pred hHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777777777777777777777777666554443
Done!