Query 034753
Match_columns 85
No_of_seqs 61 out of 63
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 06:06:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034753.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034753hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10152 DUF2360: Predicted co 99.7 5.2E-17 1.1E-21 114.9 6.7 49 30-78 1-49 (148)
2 KOG4496 Predicted coiled-coil 99.1 8.2E-10 1.8E-14 82.6 8.1 56 23-78 21-76 (194)
3 COG2960 Uncharacterized protei 96.5 0.041 8.8E-07 38.5 8.9 70 11-80 17-96 (103)
4 PF10393 Matrilin_ccoil: Trime 95.6 0.059 1.3E-06 32.7 5.5 33 41-73 14-46 (47)
5 PF10805 DUF2730: Protein of u 93.5 0.88 1.9E-05 30.6 7.9 61 16-79 4-64 (106)
6 PF04380 BMFP: Membrane fusoge 93.5 0.31 6.7E-06 31.4 5.4 50 25-74 24-74 (79)
7 PF04380 BMFP: Membrane fusoge 90.9 0.55 1.2E-05 30.3 4.2 29 43-72 51-79 (79)
8 TIGR01837 PHA_granule_1 poly(h 90.4 0.39 8.5E-06 32.9 3.4 36 36-71 82-117 (118)
9 PF05531 NPV_P10: Nucleopolyhe 88.6 2.2 4.7E-05 28.2 5.7 59 12-77 4-62 (75)
10 PF11471 Sugarporin_N: Maltopo 87.8 0.87 1.9E-05 28.5 3.4 31 45-75 27-57 (60)
11 PF10152 DUF2360: Predicted co 87.7 1.2 2.6E-05 31.6 4.4 23 47-69 25-47 (148)
12 PF03105 SPX: SPX domain; Int 86.0 5.3 0.00011 28.1 6.9 46 22-74 92-137 (275)
13 TIGR02976 phageshock_pspB phag 85.0 2.1 4.6E-05 27.9 4.2 31 45-75 37-67 (75)
14 PRK10697 DNA-binding transcrip 84.6 1.7 3.7E-05 30.5 3.8 32 45-76 76-107 (118)
15 TIGR02978 phageshock_pspC phag 84.2 1.4 3.1E-05 30.8 3.3 38 39-76 73-110 (121)
16 COG3937 Uncharacterized conser 84.0 2.4 5.1E-05 29.9 4.3 39 36-74 69-107 (108)
17 PF05597 Phasin: Poly(hydroxya 83.1 5.6 0.00012 28.2 6.0 56 11-71 75-130 (132)
18 cd04769 HTH_MerR2 Helix-Turn-H 82.6 3 6.6E-05 27.7 4.3 44 33-76 58-112 (116)
19 PF09177 Syntaxin-6_N: Syntaxi 80.7 3 6.5E-05 27.1 3.6 56 28-83 8-72 (97)
20 PF04740 LXG: LXG domain of WX 80.5 11 0.00023 26.6 6.7 55 24-78 67-127 (204)
21 cd01108 HTH_CueR Helix-Turn-He 80.2 13 0.00029 25.0 6.8 46 33-78 59-114 (127)
22 PF05278 PEARLI-4: Arabidopsis 80.1 7.4 0.00016 31.0 6.3 47 35-82 221-267 (269)
23 PRK10227 DNA-binding transcrip 79.6 11 0.00024 26.1 6.4 46 33-78 59-114 (135)
24 COG2960 Uncharacterized protei 79.5 5.2 0.00011 28.0 4.7 27 41-67 64-90 (103)
25 PF06667 PspB: Phage shock pro 79.0 4.8 0.0001 26.3 4.1 28 48-75 40-67 (75)
26 PRK09458 pspB phage shock prot 78.2 5.1 0.00011 26.5 4.1 29 47-75 39-67 (75)
27 TIGR02043 ZntR Zn(II)-responsi 78.1 15 0.00032 25.0 6.6 48 33-80 60-118 (131)
28 cd01282 HTH_MerR-like_sg3 Heli 78.1 7.6 0.00016 25.7 5.0 41 32-72 57-103 (112)
29 cd04770 HTH_HMRTR Helix-Turn-H 78.1 6.9 0.00015 25.9 4.8 44 33-76 59-112 (123)
30 PF14712 Snapin_Pallidin: Snap 77.8 15 0.00032 23.2 6.4 23 47-69 68-90 (92)
31 cd04786 HTH_MerR-like_sg7 Heli 77.6 13 0.00029 25.6 6.3 36 46-81 81-116 (131)
32 PF09278 MerR-DNA-bind: MerR, 77.2 12 0.00026 21.8 5.6 41 32-72 15-58 (65)
33 PF02388 FemAB: FemAB family; 76.3 25 0.00054 28.2 8.3 52 24-75 241-298 (406)
34 PF10046 BLOC1_2: Biogenesis o 76.1 19 0.00042 23.7 6.8 41 33-74 43-83 (99)
35 PF11471 Sugarporin_N: Maltopo 75.4 2.8 6E-05 26.2 2.2 25 52-76 27-51 (60)
36 PF10444 Nbl1_Borealin_N: Nbl1 74.8 16 0.00035 22.1 5.5 41 37-77 3-44 (59)
37 cd04787 HTH_HMRTR_unk Helix-Tu 74.4 14 0.0003 25.1 5.6 45 32-76 58-112 (133)
38 cd01109 HTH_YyaN Helix-Turn-He 73.8 7.4 0.00016 25.6 4.1 43 32-74 58-103 (113)
39 cd04776 HTH_GnyR Helix-Turn-He 73.6 12 0.00026 25.2 5.1 40 33-72 57-102 (118)
40 PF09006 Surfac_D-trimer: Lung 73.0 7.5 0.00016 23.7 3.6 23 53-75 2-24 (46)
41 TIGR02051 MerR Hg(II)-responsi 72.9 26 0.00056 23.6 6.9 47 33-79 58-112 (124)
42 PF14193 DUF4315: Domain of un 72.7 8 0.00017 25.7 4.0 25 47-71 12-36 (83)
43 KOG4496 Predicted coiled-coil 72.3 17 0.00036 27.7 6.1 40 35-74 22-65 (194)
44 PF06825 HSBP1: Heat shock fac 72.2 20 0.00044 22.1 5.6 29 42-70 17-48 (54)
45 PRK13752 putative transcriptio 72.1 27 0.0006 24.4 6.8 47 33-79 66-120 (144)
46 PRK09514 zntR zinc-responsive 71.9 26 0.00056 24.2 6.6 46 33-78 60-116 (140)
47 TIGR02047 CadR-PbrR Cd(II)/Pb( 71.6 18 0.0004 24.4 5.7 47 32-78 58-114 (127)
48 cd00632 Prefoldin_beta Prefold 71.4 26 0.00056 22.9 6.6 45 30-74 57-101 (105)
49 PF04977 DivIC: Septum formati 70.5 11 0.00024 22.6 4.0 34 47-80 21-54 (80)
50 PF08702 Fib_alpha: Fibrinogen 70.2 14 0.00031 26.2 5.1 31 36-66 22-52 (146)
51 PF12614 RRF_GI: Ribosome recy 70.0 7.8 0.00017 27.9 3.7 53 30-82 46-103 (128)
52 PF02090 SPAM: Salmonella surf 69.9 26 0.00057 25.9 6.5 34 42-75 15-48 (147)
53 cd04783 HTH_MerR1 Helix-Turn-H 69.8 30 0.00066 23.1 6.6 48 33-80 59-114 (126)
54 PF10241 KxDL: Uncharacterized 69.6 28 0.0006 22.6 8.1 53 22-75 30-82 (88)
55 TIGR01837 PHA_granule_1 poly(h 68.9 34 0.00074 23.4 6.7 35 42-76 77-115 (118)
56 cd04784 HTH_CadR-PbrR Helix-Tu 68.8 32 0.00069 23.0 6.4 47 32-78 58-114 (127)
57 PF09340 NuA4: Histone acetylt 68.3 8.9 0.00019 24.9 3.4 16 55-70 14-29 (80)
58 PF04210 MtrG: Tetrahydrometha 67.8 8.9 0.00019 25.2 3.4 24 52-75 14-37 (70)
59 PF10393 Matrilin_ccoil: Trime 67.3 25 0.00054 21.2 5.5 17 50-66 30-46 (47)
60 cd04785 HTH_CadR-PbrR-like Hel 66.5 21 0.00045 24.0 5.1 46 33-78 59-114 (126)
61 cd01107 HTH_BmrR Helix-Turn-He 66.4 34 0.00073 22.4 6.5 32 43-74 75-106 (108)
62 PRK15002 redox-sensitivie tran 66.3 16 0.00034 26.2 4.7 42 33-74 69-121 (154)
63 PLN02281 chlorophyllide a oxyg 66.2 23 0.00049 30.7 6.3 58 19-76 91-154 (536)
64 cd05511 Bromo_TFIID Bromodomai 65.2 15 0.00031 24.7 4.1 29 38-66 83-111 (112)
65 TIGR02894 DNA_bind_RsfA transc 65.0 16 0.00034 27.2 4.6 43 31-73 79-134 (161)
66 PF15361 RIC3: Resistance to i 65.0 10 0.00023 27.2 3.6 25 45-69 126-150 (152)
67 PF11853 DUF3373: Protein of u 64.9 16 0.00034 31.3 5.1 25 51-75 32-56 (489)
68 TIGR02044 CueR Cu(I)-responsiv 63.6 13 0.00028 25.1 3.6 46 33-78 59-114 (127)
69 cd00592 HTH_MerR-like Helix-Tu 63.5 15 0.00033 23.2 3.8 40 33-72 58-99 (100)
70 KOG3501 Molecular chaperone Pr 62.9 19 0.00041 25.7 4.4 34 44-77 68-101 (114)
71 PF04508 Pox_A_type_inc: Viral 62.4 13 0.00029 19.7 2.8 18 52-69 3-20 (23)
72 cd04772 HTH_TioE_rpt1 First He 61.7 29 0.00064 22.5 5.0 40 33-72 58-98 (99)
73 PRK13723 conjugal transfer pil 61.7 44 0.00095 28.2 7.1 51 24-78 390-440 (451)
74 PF08657 DASH_Spc34: DASH comp 61.5 16 0.00035 28.4 4.3 28 47-74 177-204 (259)
75 PF08336 P4Ha_N: Prolyl 4-Hydr 61.3 48 0.001 22.4 6.6 50 33-82 5-54 (134)
76 PF07047 OPA3: Optic atrophy 3 61.2 16 0.00034 25.4 3.8 29 48-76 103-131 (134)
77 TIGR02044 CueR Cu(I)-responsiv 60.6 23 0.0005 23.8 4.5 32 39-70 82-113 (127)
78 cd01111 HTH_MerD Helix-Turn-He 60.5 35 0.00075 22.7 5.3 45 32-76 58-106 (107)
79 KOG3684 Ca2+-activated K+ chan 60.3 55 0.0012 28.3 7.5 12 20-31 409-420 (489)
80 TIGR01834 PHA_synth_III_E poly 60.2 66 0.0014 26.2 7.7 58 23-80 251-319 (320)
81 PF05531 NPV_P10: Nucleopolyhe 60.0 14 0.00031 24.3 3.3 28 48-75 9-36 (75)
82 PF15372 DUF4600: Domain of un 59.7 19 0.00042 25.9 4.1 33 50-82 8-40 (129)
83 cd03184 GST_C_Omega GST_C fami 59.4 42 0.0009 21.5 5.4 48 20-75 3-50 (124)
84 cd01109 HTH_YyaN Helix-Turn-He 59.0 21 0.00047 23.3 4.0 29 46-74 82-110 (113)
85 cd04788 HTH_NolA-AlbR Helix-Tu 58.9 21 0.00046 23.0 3.9 36 32-70 58-93 (96)
86 cd04775 HTH_Cfa-like Helix-Tur 58.7 44 0.00095 21.7 5.4 27 47-73 75-101 (102)
87 PF10779 XhlA: Haemolysin XhlA 58.6 23 0.0005 22.0 3.9 23 50-72 13-35 (71)
88 PF15112 DUF4559: Domain of un 58.6 37 0.0008 27.6 6.0 47 26-73 258-304 (307)
89 cd04777 HTH_MerR-like_sg1 Heli 58.4 40 0.00086 21.8 5.2 42 32-73 56-104 (107)
90 PRK13182 racA polar chromosome 57.8 16 0.00034 26.9 3.5 28 47-74 82-109 (175)
91 KOG3304 Surfeit family protein 57.8 38 0.00083 25.0 5.5 33 1-39 1-37 (148)
92 cd01282 HTH_MerR-like_sg3 Heli 57.7 38 0.00081 22.4 5.0 30 45-74 83-112 (112)
93 PF07106 TBPIP: Tat binding pr 57.7 19 0.00041 25.2 3.8 18 57-74 116-133 (169)
94 COG5019 CDC3 Septin family pro 57.6 98 0.0021 25.9 8.4 57 22-78 314-370 (373)
95 TIGR02436 conserved hypothetic 57.3 56 0.0012 21.9 6.2 64 9-73 35-101 (111)
96 PRK13182 racA polar chromosome 57.0 25 0.00054 25.8 4.4 51 30-80 104-155 (175)
97 PF10458 Val_tRNA-synt_C: Valy 56.6 27 0.00059 21.3 3.9 23 47-69 43-65 (66)
98 PF02996 Prefoldin: Prefoldin 56.2 52 0.0011 21.2 5.6 40 35-74 76-115 (120)
99 cd04785 HTH_CadR-PbrR-like Hel 56.1 59 0.0013 21.8 6.2 34 37-70 80-113 (126)
100 PF14965 BRI3BP: Negative regu 56.0 12 0.00026 28.3 2.7 41 33-74 136-176 (177)
101 PF12699 phiKZ_IP: phiKZ-like 55.9 60 0.0013 25.7 6.7 53 17-69 51-105 (339)
102 PF04521 Viral_P18: ssRNA posi 55.9 17 0.00036 26.1 3.3 25 51-75 73-97 (120)
103 PF10458 Val_tRNA-synt_C: Valy 55.7 26 0.00057 21.4 3.8 24 52-75 6-29 (66)
104 COG5036 SPX domain-containing 55.5 39 0.00084 29.3 5.9 50 11-67 23-80 (509)
105 cd04779 HTH_MerR-like_sg4 Heli 55.4 48 0.001 23.1 5.5 23 48-70 79-101 (134)
106 PF04102 SlyX: SlyX; InterPro 55.3 21 0.00045 22.2 3.3 20 58-77 33-52 (69)
107 PF02185 HR1: Hr1 repeat; Int 55.0 23 0.00049 21.6 3.4 32 44-75 34-65 (70)
108 cd04773 HTH_TioE_rpt2 Second H 54.6 40 0.00086 22.2 4.8 43 33-75 59-103 (108)
109 PF04253 TFR_dimer: Transferri 54.5 37 0.00079 22.5 4.6 36 32-67 16-56 (125)
110 cd04769 HTH_MerR2 Helix-Turn-H 54.4 55 0.0012 21.6 5.4 38 35-72 78-115 (116)
111 TIGR02338 gimC_beta prefoldin, 54.3 61 0.0013 21.4 5.9 30 47-76 78-107 (110)
112 PRK13729 conjugal transfer pil 54.1 68 0.0015 27.5 7.1 64 11-74 52-121 (475)
113 PF10779 XhlA: Haemolysin XhlA 53.9 23 0.00051 21.9 3.4 22 52-73 22-43 (71)
114 PF03285 Paralemmin: Paralemmi 53.7 18 0.00039 28.8 3.5 33 50-82 10-42 (278)
115 PF12718 Tropomyosin_1: Tropom 53.4 37 0.00081 23.9 4.7 25 50-74 35-59 (143)
116 TIGR03185 DNA_S_dndD DNA sulfu 52.3 66 0.0014 27.2 6.7 44 36-79 377-420 (650)
117 PRK10093 primosomal replicatio 52.3 76 0.0016 23.7 6.4 29 42-70 142-170 (171)
118 COG1382 GimC Prefoldin, chaper 52.3 26 0.00056 24.8 3.7 26 49-74 76-101 (119)
119 PF08826 DMPK_coil: DMPK coile 52.2 50 0.0011 20.8 4.7 27 47-73 29-55 (61)
120 cd00890 Prefoldin Prefoldin is 52.2 62 0.0013 20.9 6.4 37 38-74 89-125 (129)
121 cd04770 HTH_HMRTR Helix-Turn-H 52.1 66 0.0014 21.1 6.7 33 38-70 81-113 (123)
122 cd04782 HTH_BltR Helix-Turn-He 52.0 42 0.00091 21.6 4.5 38 32-71 58-95 (97)
123 TIGR01950 SoxR redox-sensitive 51.7 42 0.00092 23.4 4.8 42 33-74 59-111 (142)
124 PF05549 Allexi_40kDa: Allexiv 51.6 1E+02 0.0022 24.8 7.4 32 50-81 118-149 (271)
125 COG3937 Uncharacterized conser 51.4 51 0.0011 23.3 5.0 37 30-66 66-106 (108)
126 PRK10884 SH3 domain-containing 51.0 1E+02 0.0022 23.1 8.2 28 48-75 137-164 (206)
127 COG4064 MtrG Tetrahydromethano 50.9 27 0.00058 23.3 3.4 23 52-74 17-39 (75)
128 TIGR02231 conserved hypothetic 50.8 1.4E+02 0.003 24.5 9.7 33 46-78 141-173 (525)
129 cd00632 Prefoldin_beta Prefold 50.0 46 0.00099 21.7 4.5 29 47-75 67-95 (105)
130 PRK02793 phi X174 lysis protei 50.0 27 0.00058 22.2 3.2 9 51-59 9-17 (72)
131 cd00890 Prefoldin Prefoldin is 49.9 32 0.0007 22.3 3.7 31 37-67 95-125 (129)
132 PF11853 DUF3373: Protein of u 49.7 15 0.00033 31.3 2.6 47 30-77 5-51 (489)
133 TIGR02169 SMC_prok_A chromosom 49.3 61 0.0013 27.9 6.1 48 24-76 156-203 (1164)
134 PF07716 bZIP_2: Basic region 49.0 50 0.0011 19.3 4.1 27 48-74 23-49 (54)
135 PF02996 Prefoldin: Prefoldin 48.9 41 0.00089 21.7 4.1 25 49-73 83-107 (120)
136 PRK08032 fliD flagellar cappin 48.8 1.2E+02 0.0026 24.9 7.5 29 45-73 408-436 (462)
137 PF00517 GP41: Retroviral enve 48.3 1.1E+02 0.0024 22.6 8.6 51 23-73 12-62 (204)
138 PF11945 WASH_WAHD: WAHD domai 48.0 1.1E+02 0.0025 24.3 7.1 27 51-77 44-70 (297)
139 PRK14127 cell division protein 48.0 91 0.002 21.6 7.2 29 50-78 44-72 (109)
140 PF06698 DUF1192: Protein of u 47.8 32 0.0007 21.6 3.3 24 52-75 23-46 (59)
141 PF13600 DUF4140: N-terminal d 47.7 36 0.00079 21.8 3.7 22 51-72 71-92 (104)
142 PF13015 PRKCSH_1: Glucosidase 47.5 25 0.00054 25.3 3.1 30 49-78 2-31 (154)
143 PF03670 UPF0184: Uncharacteri 47.1 35 0.00076 22.9 3.6 8 20-27 22-29 (83)
144 PF00261 Tropomyosin: Tropomyo 46.8 1.2E+02 0.0026 22.5 7.6 25 49-73 189-213 (237)
145 PF07195 FliD_C: Flagellar hoo 46.8 54 0.0012 24.2 4.9 30 44-73 194-223 (239)
146 PF14257 DUF4349: Domain of un 46.6 37 0.0008 25.2 4.0 49 27-75 141-194 (262)
147 PF11945 WASH_WAHD: WAHD domai 46.3 1.3E+02 0.0028 24.0 7.2 25 46-70 46-70 (297)
148 PF08393 DHC_N2: Dynein heavy 46.0 22 0.00047 27.5 2.8 31 46-76 280-311 (408)
149 PF13600 DUF4140: N-terminal d 45.5 49 0.0011 21.2 4.0 25 49-73 76-100 (104)
150 PF05377 FlaC_arch: Flagella a 45.4 21 0.00045 22.4 2.1 21 52-72 2-22 (55)
151 PF04420 CHD5: CHD5-like prote 45.1 35 0.00075 24.3 3.5 26 51-76 67-92 (161)
152 cd01106 HTH_TipAL-Mta Helix-Tu 45.0 52 0.0011 21.1 4.1 39 33-74 59-97 (103)
153 PF06705 SF-assemblin: SF-asse 45.0 1.1E+02 0.0024 22.7 6.3 36 39-74 74-109 (247)
154 TIGR01834 PHA_synth_III_E poly 44.8 27 0.00058 28.4 3.2 28 47-74 293-320 (320)
155 PF06305 DUF1049: Protein of u 44.8 34 0.00073 20.2 2.9 20 48-67 46-65 (68)
156 cd04790 HTH_Cfa-like_unk Helix 44.8 1.1E+02 0.0023 21.9 6.0 44 33-76 60-107 (172)
157 PRK15471 chain length determin 44.6 1.6E+02 0.0035 23.4 7.8 38 24-63 149-186 (325)
158 cd04781 HTH_MerR-like_sg6 Heli 44.6 92 0.002 20.6 6.6 29 46-74 77-105 (120)
159 PF04568 IATP: Mitochondrial A 44.3 78 0.0017 21.6 5.0 44 19-73 52-99 (100)
160 cd04768 HTH_BmrR-like Helix-Tu 43.5 61 0.0013 20.8 4.2 36 33-71 59-94 (96)
161 PF11690 DUF3287: Protein of u 43.3 29 0.00063 24.3 2.8 24 49-72 55-80 (109)
162 KOG1760 Molecular chaperone Pr 43.0 1.1E+02 0.0023 22.4 5.7 42 30-71 75-116 (131)
163 PRK01026 tetrahydromethanopter 42.8 44 0.00095 22.3 3.5 23 52-74 17-39 (77)
164 COG0732 HsdS Restriction endon 42.6 89 0.0019 22.7 5.4 39 34-73 349-387 (391)
165 PF04533 Herpes_U44: Herpes vi 42.2 1.6E+02 0.0035 22.8 8.1 57 10-67 48-112 (210)
166 TIGR01149 mtrG N5-methyltetrah 42.2 46 0.001 21.9 3.5 23 52-74 14-36 (70)
167 PF15205 PLAC9: Placenta-speci 42.2 45 0.00097 22.2 3.4 24 49-75 24-47 (74)
168 cd04789 HTH_Cfa Helix-Turn-Hel 42.1 59 0.0013 21.1 4.0 22 50-71 78-99 (102)
169 smart00502 BBC B-Box C-termina 41.9 85 0.0018 19.5 7.7 33 40-72 62-94 (127)
170 TIGR02978 phageshock_pspC phag 41.8 28 0.00062 24.3 2.6 21 47-67 88-108 (121)
171 PF02388 FemAB: FemAB family; 41.7 38 0.00081 27.2 3.6 27 48-74 240-266 (406)
172 PRK08453 fliD flagellar cappin 41.6 1.7E+02 0.0036 26.1 7.7 49 28-76 624-672 (673)
173 cd04776 HTH_GnyR Helix-Turn-He 41.2 1.1E+02 0.0024 20.5 6.5 28 48-75 85-112 (118)
174 PF12841 YvrJ: YvrJ protein fa 40.8 51 0.0011 19.0 3.2 20 51-70 16-35 (38)
175 PRK10920 putative uroporphyrin 40.6 1.8E+02 0.0039 24.0 7.4 38 41-78 90-127 (390)
176 PRK10697 DNA-binding transcrip 40.1 32 0.00069 24.2 2.6 21 47-67 85-105 (118)
177 PF14084 DUF4264: Protein of u 40.0 16 0.00036 22.7 1.0 10 34-43 16-25 (52)
178 PF03520 KCNQ_channel: KCNQ vo 39.9 42 0.00091 25.9 3.5 26 47-72 153-178 (202)
179 PRK08032 fliD flagellar cappin 39.9 66 0.0014 26.4 4.8 44 30-73 418-461 (462)
180 PF13851 GAS: Growth-arrest sp 39.4 1.6E+02 0.0034 21.8 7.8 57 20-76 106-169 (201)
181 PF11336 DUF3138: Protein of u 38.8 53 0.0011 28.5 4.2 34 45-78 20-53 (514)
182 PF10975 DUF2802: Protein of u 38.8 52 0.0011 20.8 3.3 21 50-70 5-25 (70)
183 KOG1853 LIS1-interacting prote 38.7 75 0.0016 26.1 4.9 41 35-75 30-70 (333)
184 TIGR02132 phaR_Bmeg polyhydrox 38.7 39 0.00085 25.9 3.1 35 39-73 61-95 (189)
185 PF07586 HXXSHH: Protein of un 38.7 1.8E+02 0.0038 22.2 7.4 48 25-75 162-209 (302)
186 cd01110 HTH_SoxR Helix-Turn-He 38.6 1.3E+02 0.0028 20.7 6.9 27 48-74 85-111 (139)
187 PF13864 Enkurin: Calmodulin-b 38.1 65 0.0014 21.0 3.8 24 47-70 71-94 (98)
188 PRK09413 IS2 repressor TnpA; R 37.9 1.2E+02 0.0026 20.1 6.2 34 13-46 22-55 (121)
189 PF04102 SlyX: SlyX; InterPro 37.6 1E+02 0.0022 19.1 4.6 39 35-73 17-55 (69)
190 PF15397 DUF4618: Domain of un 36.9 34 0.00074 27.0 2.7 30 47-76 67-100 (258)
191 COG1590 Uncharacterized conser 36.9 1.2E+02 0.0025 23.6 5.4 38 39-76 161-198 (208)
192 COG5509 Uncharacterized small 36.4 61 0.0013 21.1 3.3 27 52-78 27-53 (65)
193 PF15188 CCDC-167: Coiled-coil 36.3 68 0.0015 21.5 3.7 25 52-76 7-31 (85)
194 PF03961 DUF342: Protein of un 36.0 2.3E+02 0.0051 22.9 7.8 30 47-76 379-408 (451)
195 PRK10636 putative ABC transpor 35.8 62 0.0013 27.4 4.1 26 50-75 563-588 (638)
196 PF04645 DUF603: Protein of un 35.6 1.1E+02 0.0025 23.3 5.1 37 39-75 94-130 (181)
197 smart00803 TAF TATA box bindin 35.5 42 0.00092 20.8 2.4 42 1-51 11-53 (65)
198 PRK00736 hypothetical protein; 35.4 74 0.0016 19.9 3.5 37 35-71 18-54 (68)
199 PF09726 Macoilin: Transmembra 34.8 75 0.0016 28.1 4.6 30 44-73 539-568 (697)
200 PF14916 CCDC92: Coiled-coil d 34.3 41 0.00088 21.3 2.2 20 55-74 1-20 (60)
201 PF02403 Seryl_tRNA_N: Seryl-t 34.2 1E+02 0.0022 19.8 4.2 26 49-74 73-98 (108)
202 PF04297 UPF0122: Putative hel 34.1 1.5E+02 0.0033 20.2 5.2 45 18-66 31-75 (101)
203 PF12958 DUF3847: Protein of u 34.1 1.4E+02 0.0031 19.9 5.0 30 41-70 6-35 (86)
204 PRK09514 zntR zinc-responsive 34.0 61 0.0013 22.3 3.3 35 36-70 81-115 (140)
205 COG4476 Uncharacterized protei 34.0 47 0.001 22.8 2.6 30 17-54 7-36 (90)
206 PF10805 DUF2730: Protein of u 33.7 1.5E+02 0.0032 19.8 6.8 32 17-48 27-58 (106)
207 PF07439 DUF1515: Protein of u 33.7 71 0.0015 22.7 3.6 28 49-76 39-66 (112)
208 cd01106 HTH_TipAL-Mta Helix-Tu 33.6 1.3E+02 0.0028 19.2 5.3 30 42-71 72-101 (103)
209 PRK10381 LPS O-antigen length 33.4 2.4E+02 0.0051 22.8 6.9 38 24-63 189-226 (377)
210 KOG4196 bZIP transcription fac 33.3 1.6E+02 0.0036 21.5 5.5 9 44-52 64-72 (135)
211 PF06361 RTBV_P12: Rice tungro 33.3 40 0.00087 23.6 2.2 23 57-79 54-76 (110)
212 PF01920 Prefoldin_2: Prefoldi 32.7 1.3E+02 0.0027 18.8 6.7 38 37-74 63-100 (106)
213 PRK05892 nucleoside diphosphat 32.6 51 0.0011 23.6 2.7 20 57-76 54-73 (158)
214 PF02994 Transposase_22: L1 tr 32.3 75 0.0016 25.5 3.9 26 47-72 141-166 (370)
215 PRK08724 fliD flagellar cappin 32.2 1.8E+02 0.004 26.0 6.5 48 26-73 597-647 (673)
216 PF01420 Methylase_S: Type I r 32.2 1E+02 0.0022 19.5 3.9 12 35-46 142-153 (167)
217 smart00742 Hr1 Rho effector or 32.1 1.1E+02 0.0024 18.0 4.6 24 44-67 33-56 (57)
218 PF10796 Anti-adapt_IraP: Sigm 32.1 83 0.0018 21.1 3.6 26 49-74 9-34 (87)
219 PRK10869 recombination and rep 32.0 1.5E+02 0.0032 25.1 5.7 39 38-76 153-197 (553)
220 PF02370 M: M protein repeat; 32.0 81 0.0018 16.4 2.9 16 55-70 6-21 (21)
221 PF10400 Vir_act_alpha_C: Viru 31.9 1.2E+02 0.0026 18.4 5.0 27 35-61 20-46 (90)
222 COG5570 Uncharacterized small 31.9 37 0.00081 21.6 1.7 28 55-82 3-30 (57)
223 TIGR00414 serS seryl-tRNA synt 31.8 1.2E+02 0.0027 24.6 5.1 35 47-81 73-111 (418)
224 PRK11638 lipopolysaccharide bi 31.8 2.7E+02 0.0058 22.3 7.8 38 24-63 170-207 (342)
225 PTZ00454 26S protease regulato 31.6 2E+02 0.0043 23.3 6.3 36 49-84 35-70 (398)
226 PF07889 DUF1664: Protein of u 31.6 1.9E+02 0.0041 20.5 6.2 31 48-78 94-124 (126)
227 smart00338 BRLZ basic region l 31.6 1.2E+02 0.0025 18.1 4.0 23 52-74 28-50 (65)
228 PRK01885 greB transcription el 31.5 58 0.0012 23.2 2.9 18 58-75 55-72 (157)
229 KOG1003 Actin filament-coating 31.3 86 0.0019 24.3 3.9 33 42-75 39-71 (205)
230 PF08172 CASP_C: CASP C termin 31.2 1E+02 0.0022 23.8 4.4 31 48-78 4-34 (248)
231 PRK06664 fliD flagellar hook-a 31.1 3E+02 0.0066 24.2 7.6 43 32-74 614-656 (661)
232 PRK10227 DNA-binding transcrip 31.0 1.1E+02 0.0023 21.1 4.1 21 47-67 90-110 (135)
233 PRK05771 V-type ATP synthase s 31.0 3.3E+02 0.0072 23.1 7.7 24 50-73 100-123 (646)
234 KOG3856 Uncharacterized conser 30.9 1.2E+02 0.0027 22.1 4.5 28 46-73 13-40 (135)
235 PF04539 Sigma70_r3: Sigma-70 30.6 76 0.0016 18.9 2.9 22 57-78 1-22 (78)
236 COG5187 RPN7 26S proteasome re 30.5 1.1E+02 0.0024 25.8 4.7 41 34-74 77-120 (412)
237 PF13432 TPR_16: Tetratricopep 30.4 88 0.0019 17.4 3.1 36 45-80 30-65 (65)
238 PF08537 NBP1: Fungal Nap bind 30.4 88 0.0019 25.7 4.1 26 49-74 181-206 (323)
239 TIGR01950 SoxR redox-sensitive 30.4 1.5E+02 0.0032 20.7 4.7 35 36-70 80-114 (142)
240 PF10211 Ax_dynein_light: Axon 30.4 2.2E+02 0.0047 20.8 8.3 26 49-74 119-144 (189)
241 PF01166 TSC22: TSC-22/dip/bun 30.3 1.5E+02 0.0033 18.9 4.5 27 47-73 18-44 (59)
242 PF08287 DASH_Spc19: Spc19; I 30.2 2.1E+02 0.0045 20.5 7.2 51 24-81 56-106 (153)
243 PRK02793 phi X174 lysis protei 30.1 1.5E+02 0.0032 18.7 4.4 38 35-72 21-58 (72)
244 PRK00888 ftsB cell division pr 30.1 89 0.0019 21.0 3.5 22 52-73 36-57 (105)
245 PF14435 SUKH-4: SUKH-4 immuni 30.0 73 0.0016 22.0 3.1 52 26-78 108-162 (179)
246 PF06013 WXG100: Proteins of 1 29.7 1.1E+02 0.0025 17.4 4.7 19 51-69 19-37 (86)
247 PF00261 Tropomyosin: Tropomyo 29.7 2.3E+02 0.0051 20.9 7.0 28 47-74 173-200 (237)
248 PF05549 Allexi_40kDa: Allexiv 29.5 1.1E+02 0.0024 24.7 4.4 21 24-44 51-71 (271)
249 cd07597 BAR_SNX8 The Bin/Amphi 29.2 2.5E+02 0.0054 21.1 6.4 73 7-80 96-168 (246)
250 TIGR01461 greB transcription e 29.1 67 0.0014 22.9 2.9 17 59-75 54-70 (156)
251 PHA03385 IX capsid protein IX, 29.1 99 0.0021 22.6 3.7 32 48-79 98-129 (135)
252 PF05308 Mito_fiss_reg: Mitoch 29.0 47 0.001 25.8 2.2 18 58-75 123-140 (253)
253 PF13805 Pil1: Eisosome compon 28.8 72 0.0016 25.4 3.2 28 49-76 164-191 (271)
254 PF13093 FTA4: Kinetochore com 28.8 92 0.002 23.5 3.7 30 42-72 142-171 (213)
255 PF11841 DUF3361: Domain of un 28.7 54 0.0012 24.1 2.4 37 31-78 57-93 (160)
256 PF12329 TMF_DNA_bd: TATA elem 28.6 1.5E+02 0.0032 18.8 4.2 29 47-75 44-72 (74)
257 PRK11239 hypothetical protein; 28.3 1.1E+02 0.0024 23.8 4.1 22 53-74 186-207 (215)
258 PF04728 LPP: Lipoprotein leuc 28.3 1.2E+02 0.0026 19.0 3.6 25 50-74 3-27 (56)
259 PF10552 ORF6C: ORF6C domain; 28.2 1E+02 0.0022 20.6 3.5 19 52-70 10-28 (116)
260 PF05480 Staph_haemo: Staphylo 28.2 1.4E+02 0.003 17.9 4.0 31 12-44 11-41 (43)
261 PF12761 End3: Actin cytoskele 27.9 80 0.0017 24.1 3.3 23 53-75 163-185 (195)
262 PF07047 OPA3: Optic atrophy 3 27.8 90 0.0019 21.6 3.3 25 47-71 109-133 (134)
263 PF10046 BLOC1_2: Biogenesis o 27.7 1.8E+02 0.0039 19.0 7.5 21 51-71 67-87 (99)
264 PF12152 eIF_4G1: Eukaryotic t 27.7 46 0.00099 21.8 1.7 15 38-52 58-72 (75)
265 cd00089 HR1 Protein kinase C-r 27.6 1.5E+02 0.0033 18.0 4.2 27 45-71 44-70 (72)
266 PRK11239 hypothetical protein; 27.5 90 0.0019 24.3 3.5 27 48-74 188-214 (215)
267 cd04779 HTH_MerR-like_sg4 Heli 27.4 2.2E+02 0.0047 19.8 5.9 23 48-70 86-108 (134)
268 PF10157 DUF2365: Uncharacteri 27.4 2.4E+02 0.0053 20.4 7.1 46 27-72 101-148 (149)
269 PRK09039 hypothetical protein; 27.3 97 0.0021 24.6 3.8 28 48-75 135-162 (343)
270 PF12999 PRKCSH-like: Glucosid 27.1 2.7E+02 0.0059 20.8 7.6 30 42-71 145-174 (176)
271 PRK04863 mukB cell division pr 27.1 3.1E+02 0.0067 26.6 7.5 52 22-74 280-331 (1486)
272 PF07426 Dynactin_p22: Dynacti 26.8 75 0.0016 23.3 2.9 15 59-73 7-21 (174)
273 KOG3958 Putative dynamitin [Cy 26.6 81 0.0018 26.3 3.3 21 46-66 187-207 (371)
274 PF08172 CASP_C: CASP C termin 26.6 1.1E+02 0.0023 23.7 3.8 27 49-75 92-118 (248)
275 TIGR02043 ZntR Zn(II)-responsi 26.6 1.2E+02 0.0025 20.6 3.6 29 40-68 85-113 (131)
276 cd00584 Prefoldin_alpha Prefol 26.6 2E+02 0.0042 19.0 6.4 36 39-74 90-125 (129)
277 PF15003 HAUS2: HAUS augmin-li 26.5 3.5E+02 0.0075 21.9 7.6 27 23-49 128-154 (277)
278 PRK12765 flagellar capping pro 26.4 1.1E+02 0.0024 26.3 4.2 35 41-75 530-564 (595)
279 COG4062 MtrB Tetrahydromethano 26.4 1E+02 0.0023 21.8 3.4 22 53-74 34-55 (108)
280 PF13410 GST_C_2: Glutathione 26.2 1.3E+02 0.0029 16.9 3.9 24 54-77 3-26 (69)
281 PRK06342 transcription elongat 26.1 83 0.0018 22.7 3.0 21 56-76 63-83 (160)
282 PRK00965 tetrahydromethanopter 26.1 82 0.0018 21.6 2.8 23 52-74 33-55 (96)
283 smart00076 IFabd Interferon al 26.0 1.9E+02 0.0042 19.8 4.7 52 26-77 19-70 (117)
284 cd04766 HTH_HspR Helix-Turn-He 25.8 1.8E+02 0.0038 18.3 4.8 29 46-74 61-89 (91)
285 PF01895 PhoU: PhoU domain; I 25.8 1.4E+02 0.0031 17.1 6.3 42 25-66 3-44 (88)
286 PF14257 DUF4349: Domain of un 25.8 2.8E+02 0.006 20.5 5.9 22 54-75 166-187 (262)
287 PF12220 U1snRNP70_N: U1 small 25.8 1.6E+02 0.0035 19.1 4.1 42 34-75 37-87 (94)
288 PF10066 DUF2304: Uncharacteri 25.7 1.1E+02 0.0024 20.4 3.3 31 40-72 78-108 (115)
289 PF04816 DUF633: Family of unk 25.7 2E+02 0.0043 21.2 5.0 42 22-63 162-204 (205)
290 KOG3091 Nuclear pore complex, 25.4 4.5E+02 0.0098 23.0 7.6 47 16-66 346-392 (508)
291 PF12805 FUSC-like: FUSC-like 25.3 3E+02 0.0064 20.7 6.5 58 15-72 196-258 (284)
292 PF03750 DUF310: Protein of un 25.2 1.5E+02 0.0033 20.0 4.0 19 56-74 92-110 (119)
293 PF14063 DUF4254: Protein of u 25.0 1.4E+02 0.0029 21.5 3.8 27 47-73 110-136 (145)
294 KOG1655 Protein involved in va 24.9 2.3E+02 0.0051 22.2 5.3 35 47-81 23-57 (218)
295 cd03182 GST_C_GTT2_like GST_C 24.8 1.5E+02 0.0033 18.1 3.7 22 54-75 46-67 (117)
296 PTZ00361 26 proteosome regulat 24.7 1.2E+02 0.0027 25.0 4.1 24 59-82 83-106 (438)
297 PF13220 DUF4028: Protein of u 24.7 45 0.00099 21.5 1.2 11 15-25 45-56 (65)
298 KOG3759 Uncharacterized RUN do 24.4 2.2E+02 0.0048 25.3 5.6 43 38-81 216-258 (621)
299 PRK09737 EcoKI restriction-mod 24.4 2.9E+02 0.0064 21.2 5.8 11 36-46 377-387 (461)
300 PF09036 Bcr-Abl_Oligo: Bcr-Ab 24.3 1.8E+02 0.0038 19.6 4.0 30 46-75 36-65 (79)
301 TIGR02209 ftsL_broad cell divi 24.3 1.8E+02 0.0038 17.7 4.0 32 47-78 28-59 (85)
302 PF14586 MHC_I_2: Class I Hist 24.2 1.2E+02 0.0026 22.8 3.6 38 14-51 136-174 (174)
303 PF14643 DUF4455: Domain of un 24.1 4.1E+02 0.0089 21.9 7.1 65 16-82 327-409 (473)
304 TIGR02054 MerD mercuric resist 24.0 2.3E+02 0.0051 19.4 4.8 14 33-46 62-75 (120)
305 PF02609 Exonuc_VII_S: Exonucl 24.0 1E+02 0.0022 18.1 2.6 17 46-62 37-53 (53)
306 PRK10884 SH3 domain-containing 23.9 3.2E+02 0.0069 20.5 7.9 21 49-69 145-165 (206)
307 PF03449 GreA_GreB_N: Transcri 23.7 85 0.0018 19.9 2.4 19 57-75 53-71 (74)
308 KOG1161 Protein involved in va 23.6 3.1E+02 0.0068 22.4 6.1 39 22-67 45-83 (310)
309 KOG1419 Voltage-gated K+ chann 23.5 96 0.0021 27.8 3.3 22 48-69 567-588 (654)
310 PRK06771 hypothetical protein; 23.5 2E+02 0.0044 19.7 4.3 31 36-66 16-46 (93)
311 KOG4603 TBP-1 interacting prot 23.5 82 0.0018 24.4 2.6 30 49-78 85-114 (201)
312 PF13174 TPR_6: Tetratricopept 23.4 1E+02 0.0022 14.7 3.7 31 48-78 2-32 (33)
313 COG1345 FliD Flagellar capping 23.4 4.6E+02 0.01 22.2 7.9 52 26-77 430-481 (483)
314 PF07445 priB_priC: Primosomal 23.3 1.6E+02 0.0035 21.3 4.0 24 47-70 149-172 (173)
315 KOG0250 DNA repair protein RAD 23.3 2.2E+02 0.0048 27.0 5.7 40 36-75 380-419 (1074)
316 PF08946 Osmo_CC: Osmosensory 23.3 1.9E+02 0.0041 17.7 4.2 33 40-72 9-41 (46)
317 PRK15002 redox-sensitivie tran 23.2 2.8E+02 0.0061 19.7 7.0 32 36-67 90-121 (154)
318 PF11593 Med3: Mediator comple 23.1 95 0.002 26.1 3.1 33 47-79 69-101 (379)
319 PF06008 Laminin_I: Laminin Do 23.1 2.5E+02 0.0054 21.0 5.1 48 30-77 22-72 (264)
320 COG5521 Predicted integral mem 22.9 2E+02 0.0043 23.3 4.7 41 7-47 153-195 (275)
321 PF15397 DUF4618: Domain of un 22.9 2.5E+02 0.0054 22.2 5.3 36 39-74 70-105 (258)
322 PF14335 DUF4391: Domain of un 22.4 2.7E+02 0.0058 20.5 5.1 27 52-78 177-203 (221)
323 KOG4739 Uncharacterized protei 22.4 3.8E+02 0.0083 20.9 7.1 47 27-77 114-160 (233)
324 PF11559 ADIP: Afadin- and alp 22.4 2.6E+02 0.0057 19.0 9.3 58 17-74 47-104 (151)
325 PF00038 Filament: Intermediat 22.4 2.1E+02 0.0045 21.4 4.6 27 47-73 220-246 (312)
326 COG1662 InsB Transposase and i 22.1 40 0.00086 24.0 0.6 30 45-74 89-118 (121)
327 PF07334 IFP_35_N: Interferon- 22.0 2.2E+02 0.0047 18.8 4.1 17 53-69 10-26 (76)
328 PRK13752 putative transcriptio 21.9 2E+02 0.0043 20.1 4.1 28 40-67 88-115 (144)
329 TIGR02338 gimC_beta prefoldin, 21.9 2.4E+02 0.0053 18.5 7.1 25 50-74 74-98 (110)
330 PF09849 DUF2076: Uncharacteri 21.9 1.9E+02 0.004 22.6 4.3 21 48-68 53-73 (247)
331 cd00095 IFab Interferon alpha, 21.9 2.3E+02 0.0051 20.1 4.6 54 25-78 50-103 (152)
332 TIGR01010 BexC_CtrB_KpsE polys 21.9 3.8E+02 0.0082 20.7 7.9 51 23-73 141-193 (362)
333 COG1392 Phosphate transport re 21.8 3.5E+02 0.0077 20.3 7.7 51 24-74 119-171 (217)
334 PRK05771 V-type ATP synthase s 21.8 1.3E+02 0.0029 25.4 3.8 27 49-75 214-240 (646)
335 PRK09737 EcoKI restriction-mod 21.8 3.5E+02 0.0077 20.7 5.8 29 35-63 165-193 (461)
336 TIGR03185 DNA_S_dndD DNA sulfu 21.7 3.7E+02 0.008 22.8 6.4 19 48-66 396-414 (650)
337 KOG0687 26S proteasome regulat 21.7 2.2E+02 0.0048 24.1 5.0 42 34-75 66-110 (393)
338 COG2739 Uncharacterized protei 21.6 3E+02 0.0064 19.4 5.7 19 28-46 48-66 (105)
339 COG2919 Septum formation initi 21.6 2.7E+02 0.0058 18.8 7.9 53 23-75 23-82 (117)
340 PRK03947 prefoldin subunit alp 21.6 2.6E+02 0.0057 18.7 6.5 37 36-72 94-130 (140)
341 KOG3958 Putative dynamitin [Cy 21.6 3.4E+02 0.0073 22.8 5.9 37 31-67 331-367 (371)
342 PF13428 TPR_14: Tetratricopep 21.4 1.2E+02 0.0026 16.3 2.4 33 49-81 4-36 (44)
343 PRK11147 ABC transporter ATPas 21.3 1.6E+02 0.0034 24.8 4.1 24 52-75 570-593 (635)
344 cd01143 YvrC Periplasmic bindi 21.3 1.7E+02 0.0036 19.5 3.6 45 30-83 97-141 (195)
345 PHA01750 hypothetical protein 21.2 2.6E+02 0.0056 18.6 6.8 29 47-75 46-74 (75)
346 PLN02900 alanyl-tRNA synthetas 21.1 3.1E+02 0.0068 25.2 6.1 28 47-74 787-814 (936)
347 PF05557 MAD: Mitotic checkpoi 21.1 1.6E+02 0.0034 25.4 4.1 28 48-75 508-535 (722)
348 PF13851 GAS: Growth-arrest sp 20.9 1.9E+02 0.004 21.4 4.0 30 47-76 90-119 (201)
349 KOG3091 Nuclear pore complex, 20.9 4.4E+02 0.0096 23.1 6.7 47 24-71 358-404 (508)
350 cd07618 BAR_Rich1 The Bin/Amph 20.8 4.1E+02 0.0088 20.6 7.6 57 26-82 183-239 (246)
351 TIGR02168 SMC_prok_B chromosom 20.8 3.7E+02 0.008 23.1 6.1 30 47-76 176-205 (1179)
352 PF05190 MutS_IV: MutS family 20.6 2E+02 0.0044 17.1 3.6 32 51-82 5-36 (92)
353 PF12699 phiKZ_IP: phiKZ-like 20.4 4.4E+02 0.0095 20.9 7.8 55 22-76 51-105 (339)
354 PF09849 DUF2076: Uncharacteri 20.4 2.6E+02 0.0056 21.8 4.9 24 52-75 50-73 (247)
355 PHA03046 Hypothetical protein; 20.3 3.6E+02 0.0079 19.9 5.6 21 51-71 106-126 (142)
356 PF07061 Swi5: Swi5; InterPro 20.3 2.2E+02 0.0047 18.6 3.8 25 49-73 6-30 (83)
357 KOG0219 Mismatch repair ATPase 20.0 4.8E+02 0.01 24.5 7.0 55 22-76 415-485 (902)
358 PHA02562 46 endonuclease subun 20.0 4.7E+02 0.01 21.0 6.9 14 60-73 230-243 (562)
359 KOG2260 Cell division cycle 37 20.0 3.2E+02 0.0069 23.0 5.5 45 20-65 32-76 (372)
No 1
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=99.69 E-value=5.2e-17 Score=114.89 Aligned_cols=49 Identities=22% Similarity=0.444 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
|+++|.|+++|||+|...|+.||.+++.|||+||++|.+|||+|+|||+
T Consensus 1 vN~Fi~~tv~fLN~F~~~cE~kL~~~e~~Lq~~E~~l~iLEaKL~SIpg 49 (148)
T PF10152_consen 1 VNHFIVHTVQFLNRFASVCEEKLSDMEQRLQRLEATLNILEAKLSSIPG 49 (148)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 6899999999999999999999999999999999999999999999976
No 2
>KOG4496 consensus Predicted coiled-coil protein [Function unknown]
Probab=99.06 E-value=8.2e-10 Score=82.61 Aligned_cols=56 Identities=18% Similarity=0.323 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 23 NREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 23 nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
+..-+.+.+-+|+|+++|||+|...|+.+|+.++.+|+..||+|.+|||+++++|.
T Consensus 21 h~RTaaf~N~fimh~tefLN~F~n~cEd~Lad~elridq~d~kLnildaKLa~ipg 76 (194)
T KOG4496|consen 21 HHRTAAFFNCFIMHMTEFLNNFGNKCEDILADAELRIDQADRKLNILDAKLAGIPG 76 (194)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCC
Confidence 34567889999999999999999999999999999999999999999999999885
No 3
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=96.50 E-value=0.041 Score=38.45 Aligned_cols=70 Identities=20% Similarity=0.328 Sum_probs=53.8
Q ss_pred hHHHHHHHhhhhH--HHHHHHHHHHHHHHHH-HHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 11 VNVGIAVQADWEN--REFISHISLNVRRLFE-FLVQFEATTKSKL-------ALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 11 ~~v~~~iq~DW~n--RE~ie~Is~~I~~i~~-FLN~Fd~scr~KL-------a~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
..+..++.+|-.+ +++-+.|..+++.+.+ .||+.|...|.-+ .+--+||..||++++-|||++++++..+
T Consensus 17 e~~~~ql~e~~a~~~~~~~~evE~~~r~~~q~~lnkLDlVsREEFdvq~qvl~rtR~kl~~Leari~~LEarl~~~~~~a 96 (103)
T COG2960 17 EDIAAQLSEDAAGAAQEVRAEVEKAFRAQLQRQLNKLDLVSREEFDVQRQVLLRTREKLAALEARIEELEARLASAAPAA 96 (103)
T ss_pred HHHHHHHHHHccccchhhHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCc
Confidence 4556677777766 6788888888887664 7888888887765 4556899999999999999998655443
No 4
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=95.60 E-value=0.059 Score=32.71 Aligned_cols=33 Identities=42% Similarity=0.632 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 41 LVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 41 LN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
+-.|-....+.|.+|++||..+.++|+-||.++
T Consensus 14 lv~FQ~~v~~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 14 LVAFQNKVTSALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 457888889999999999999999999999876
No 5
>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=93.49 E-value=0.88 Score=30.61 Aligned_cols=61 Identities=20% Similarity=0.327 Sum_probs=41.7
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 16 AVQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 16 ~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
.|+++|.= |..+-..+--++-.+-+-.-..+..+..+.++++..+++|..||.++...|+.
T Consensus 4 ~~~~~w~i---i~a~~~~~~~~~~~~l~~~~a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~ 64 (106)
T PF10805_consen 4 FIKKNWGI---IWAVFGIAGGIFWLWLRRTYAKREDIEKLEERLDEHDRRLQALETKLEHLPTR 64 (106)
T ss_pred HHHhCcHH---HHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCH
Confidence 46777753 33333333333333222234568999999999999999999999999998874
No 6
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=93.46 E-value=0.31 Score=31.44 Aligned_cols=50 Identities=20% Similarity=0.272 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 25 EFISHISLNVRRLF-EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 25 E~ie~Is~~I~~i~-~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
...+.+..+|+..+ .+|+++|...|.=+..+.+-|.++..+++-||++|+
T Consensus 24 ~~~~e~e~~~r~~l~~~l~kldlVtREEFd~q~~~L~~~r~kl~~LEarl~ 74 (79)
T PF04380_consen 24 GPREEIEKNIRARLQSALSKLDLVTREEFDAQKAVLARTREKLEALEARLA 74 (79)
T ss_pred hhHHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555665544 578888887777666665555555555555555443
No 7
>PF04380 BMFP: Membrane fusogenic activity; InterPro: IPR007475 BMFP consists of two structural domains, a coiled-coil C-terminal domain via which the protein self-associates as a trimer, and an N-terminal domain disordered at neutral pH but adopting an amphipathic alpha-helical structure in the presence of phospholipid vesicles, high ionic strength, acidic pH or SDS. BMFP interacts with phospholipid vesicles though the predicted amphipathic alpha-helix induced in the N-terminal half of the protein and promotes aggregation and fusion of vesicles in vitro.
Probab=90.87 E-value=0.55 Score=30.29 Aligned_cols=29 Identities=48% Similarity=0.653 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 43 QFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 43 ~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.|| .-+.-|+...+||..||++|..||++
T Consensus 51 EFd-~q~~~L~~~r~kl~~LEarl~~LE~~ 79 (79)
T PF04380_consen 51 EFD-AQKAVLARTREKLEALEARLAALEAQ 79 (79)
T ss_pred HHH-HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 577 56778899999999999999999975
No 8
>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=90.39 E-value=0.39 Score=32.95 Aligned_cols=36 Identities=19% Similarity=0.342 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
++-++|+++...++.-+..|+.|+..||++++-|+.
T Consensus 82 ~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l~~ 117 (118)
T TIGR01837 82 RVEQALNRLNIPSREEIEALSAKIEQLAVQVEELRR 117 (118)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445788899999999999999999999999988763
No 9
>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=88.56 E-value=2.2 Score=28.19 Aligned_cols=59 Identities=24% Similarity=0.333 Sum_probs=38.1
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 12 NVGIAVQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 12 ~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
|+-..|.+| |..+..-+-.+-+=++....+- .+...||.||..++++|+.|+.+|.++.
T Consensus 4 NILl~Ir~d------Ik~vd~KVdaLq~~V~~l~~~~-~~v~~l~~klDa~~~~l~~l~~~V~~I~ 62 (75)
T PF05531_consen 4 NILLVIRQD------IKAVDDKVDALQTQVDDLESNL-PDVTELNKKLDAQSAQLTTLNTKVNEIQ 62 (75)
T ss_pred hHHHHHHHH------HHHHHHHHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455444 4455555555555555555433 4455688999999999999998888764
No 10
>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=87.84 E-value=0.87 Score=28.49 Aligned_cols=31 Identities=26% Similarity=0.380 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
..+-+.||+.|+.||+..|.+..--|+++..
T Consensus 27 ~ltiEqRLa~LE~rL~~ae~ra~~ae~~~~~ 57 (60)
T PF11471_consen 27 PLTIEQRLAALEQRLQAAEQRAQAAEARAKQ 57 (60)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456888888888888888888888887764
No 11
>PF10152 DUF2360: Predicted coiled-coil domain-containing protein (DUF2360); InterPro: IPR019309 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53.
Probab=87.72 E-value=1.2 Score=31.58 Aligned_cols=23 Identities=26% Similarity=0.440 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~L 69 (85)
....||.+++-+|..||.+|.-+
T Consensus 25 ~~e~~Lq~~E~~l~iLEaKL~SI 47 (148)
T PF10152_consen 25 DMEQRLQRLEATLNILEAKLSSI 47 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc
Confidence 56689999999999999999864
No 12
>PF03105 SPX: SPX domain; InterPro: IPR004331 The SPX domain is named after SYG1/Pho81/XPR1 proteins. This 180 residue length domain is found at the amino terminus of a variety of proteins. In the yeast protein SYG1, the N terminus directly binds to the G- protein beta subunit and inhibits transduction of the mating pheromone signal [] suggesting that all the members of this family are involved in G-protein associated signal transduction. The C-terminal of these proteins often have an EXS domain (IPR004342 from INTERPRO) []. The N-termini of several proteins involved in the regulation of phosphate transport, including the putative phosphate level sensors PHO81 from Saccharomyces cerevisiae and NUC-2 from Neurospora crassa, are also members of this family [, ]. NUC-2 contains several ankyrin repeats (IPR002110 from INTERPRO). Several members of this family are the XPR1 proteins: the xenotropic and polytropic retrovirus receptor confers susceptibility to infection with Murine leukemia virus (MLV) []. The similarity between SYG1, phosphate regulators and XPR1 sequences has been previously noted, as has the additional similarity to several predicted proteins, of unknown function, from Drosophila melanogaster, Arabidopsis thaliana, Caenorhabditis elegans, Schizosaccharomyces pombe, and Saccharomyces cerevisiae [, ]. In addition, given the similarities between XPR1 and SYG1 and phosphate regulatory proteins, it has been proposed that XPR1 might be involved in G-protein associated signal transduction [, , ] and may itself function as a phosphate sensor [].
Probab=85.96 E-value=5.3 Score=28.11 Aligned_cols=46 Identities=26% Similarity=0.416 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
...+|.+.+...+.++-+|-. .|...+.+++..|+.+++.++..-.
T Consensus 92 ~~~~F~~~L~~El~KVn~Fy~-------~k~~el~~~~~~L~~ql~~l~~~~~ 137 (275)
T PF03105_consen 92 SEEEFFELLDEELEKVNDFYK-------EKEKELRERLEELQKQLEELREQRS 137 (275)
T ss_pred hHHHHHHhhHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 789999999999999999976 5555555666666666665554433
No 13
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=84.99 E-value=2.1 Score=27.92 Aligned_cols=31 Identities=29% Similarity=0.372 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
+..-..+|++|-++.++||.+++.||.-|..
T Consensus 37 s~~d~~~L~~L~~~a~rm~eRI~tLE~ILd~ 67 (75)
T TIGR02976 37 STDDQALLQELYAKADRLEERIDTLERILDA 67 (75)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 3445788999999999999999999998875
No 14
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=84.59 E-value=1.7 Score=30.53 Aligned_cols=32 Identities=22% Similarity=0.285 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
..+.+..|.++++++..+|++|.-+|.-|.|-
T Consensus 76 ~~s~~~~l~~~~~~~~~~e~Rlr~mE~yVTS~ 107 (118)
T PRK10697 76 QPSSSELLDEVDRELAAGEQRLREMERYVTSD 107 (118)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 34788899999999999999999999999874
No 15
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=84.19 E-value=1.4 Score=30.82 Aligned_cols=38 Identities=24% Similarity=0.235 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
++-.+-..+.+..|.++++++..+|++|.-+|+-|.|-
T Consensus 73 ~~~~~~~~~~~~~l~~~~~~~~~~e~Rl~~mE~yVTS~ 110 (121)
T TIGR02978 73 SKPWQAGQSPRQALREVKREFRDLERRLRNMERYVTSD 110 (121)
T ss_pred hhhhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 33344556889999999999999999999999999874
No 16
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=83.98 E-value=2.4 Score=29.89 Aligned_cols=39 Identities=31% Similarity=0.501 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+|-+-+...+...++-...++++++.||+++--||+++.
T Consensus 69 ~i~~ml~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~k 107 (108)
T COG3937 69 KIEEMLSDLEVARQSEMDELTERVDALERQVADLENKLK 107 (108)
T ss_pred HHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455556666677788889999999999999999999864
No 17
>PF05597 Phasin: Poly(hydroxyalcanoate) granule associated protein (phasin); InterPro: IPR008769 Polyhydroxyalkanoates (PHAs) are storage polyesters synthesised by various bacteria as intracellular carbon and energy reserve material. PHAs are accumulated as water-insoluble inclusions within the cells. This family consists of the phasins PhaF and PhaI which act as a transcriptional regulator of PHA biosynthesis genes. PhaF has been proposed to repress expression of the phaC1 gene and the phaIF operon.
Probab=83.13 E-value=5.6 Score=28.19 Aligned_cols=56 Identities=18% Similarity=0.297 Sum_probs=41.1
Q ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 11 VNVGIAVQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 11 ~~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
..|...+..-|++=| +.+=.++...||++..-.+.=+..|+.|+..|+++|+-|..
T Consensus 75 ~~~~~~~~~~~dklE-----~~fd~rV~~aL~rLgvPs~~dv~~L~~rId~L~~~v~~l~~ 130 (132)
T PF05597_consen 75 DDVKERATGQWDKLE-----QAFDERVARALNRLGVPSRKDVEALSARIDQLTAQVERLAN 130 (132)
T ss_pred HHHHHHHHHHHHHHH-----HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345566666666433 12223577888999999999999999999999999988764
No 18
>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=82.56 E-value=3 Score=27.68 Aligned_cols=44 Identities=14% Similarity=0.193 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 33 NVRRLFEFLVQFEA-----------TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~-----------scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
++..|-++++..+. ....|+..+++++..|++.+..|+..+.+.
T Consensus 58 sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 58 TLAELKAIFAGHEGRAVLPWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred CHHHHHHHHhccccCCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 56666777765543 345566666666666666666777666554
No 19
>PF09177 Syntaxin-6_N: Syntaxin 6, N-terminal; InterPro: IPR015260 Members of this entry, which are found in the amino terminus of various SNARE proteins, adopt a structure consisting of an antiparallel three-helix bundle. Their exact function has not been determined, though it is known that they regulate the SNARE motif, as well as mediate various protein-protein interactions involved in membrane-transport []. ; GO: 0048193 Golgi vesicle transport, 0016020 membrane; PDB: 1LVF_B 2C5I_T 2C5J_A 2C5K_T 4DND_A.
Probab=80.70 E-value=3 Score=27.09 Aligned_cols=56 Identities=23% Similarity=0.298 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCc
Q 034753 28 SHISLNVRRLFEFLVQFEATTKS---------KLALLNEKLDTLERRLELLEVQVGTASANPHLF 83 (85)
Q Consensus 28 e~Is~~I~~i~~FLN~Fd~scr~---------KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~~ 83 (85)
+.|..+|.++-..+.++..-... --..|..-|+.||..|+-||.-|..+..+|+-|
T Consensus 8 ~ev~~sl~~l~~~~~~~~~~~~~~~~~~e~~~~~~eL~~~l~~ie~~L~DL~~aV~ive~np~kF 72 (97)
T PF09177_consen 8 DEVQSSLDRLESLYRRWQRLRSDTSSSEELKWLKRELRNALQSIEWDLEDLEEAVRIVEKNPSKF 72 (97)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTHCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHhcccCCCcHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccc
Confidence 44566666666666666543322 235778888899999999999998888888766
No 20
>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=80.53 E-value=11 Score=26.64 Aligned_cols=55 Identities=15% Similarity=0.276 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHH-HHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 24 REFISHISLNVRRLFEFLVQFEATT-----KSKLA-LLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~sc-----r~KLa-~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
..+++.+...++.+-+|...+|.+- +.-|. ++..+|..+.+.++.+...+.++-.
T Consensus 67 ~~~~~~~~~~l~~~~~~~~~vd~~~~a~i~e~~L~~el~~~l~~~~~~~~~~~~~~~~~~~ 127 (204)
T PF04740_consen 67 ILLLEEYQEALKFIKDFQSEVDSSSNAIIDEDFLESELKKKLNQLKEQIEDLQDEINSILS 127 (204)
T ss_pred HHHHHHHHHHHHhHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 3577777788888999999998755 67777 8889999999999888888755443
No 21
>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=80.23 E-value=13 Score=25.00 Aligned_cols=46 Identities=17% Similarity=0.256 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 33 NVRRLFEFLVQF----------EATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 33 ~I~~i~~FLN~F----------d~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++..|-+++... ......|++.+++++..|++....|+..+...+.
T Consensus 59 sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~~~ 114 (127)
T cd01108 59 SLEEIRELLALWRDPSRASADVKALALEHIAELERKIAELQAMRRTLQQLADSCHG 114 (127)
T ss_pred CHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 455556666533 3356677888888888888888888888876544
No 22
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=80.08 E-value=7.4 Score=30.95 Aligned_cols=47 Identities=15% Similarity=0.220 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
+.+.++-.++. -|+.||++++.+-++|+..+.++..+|.+--+.|-+
T Consensus 221 ke~~e~~~~i~-e~~~rl~~l~~~~~~l~k~~~~~~sKV~kf~~~sl~ 267 (269)
T PF05278_consen 221 KEVKEIKERIT-EMKGRLGELEMESTRLSKTIKSIKSKVEKFHGKSLL 267 (269)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccc
Confidence 34556666774 899999999999999999999999999998776643
No 23
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=79.63 E-value=11 Score=26.11 Aligned_cols=46 Identities=17% Similarity=0.219 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 33 NVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 33 ~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++..|-++++-++ .-...|++.+++++..|++....|+..+...+.
T Consensus 59 sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (135)
T PRK10227 59 NLEESGELVNLFNDPQRHSADVKRRTLEKVAEIERHIEELQSMRDQLLALANACPG 114 (135)
T ss_pred CHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 4566666666543 123567788888888888888888887765543
No 24
>COG2960 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=79.53 E-value=5.2 Score=28.00 Aligned_cols=27 Identities=37% Similarity=0.464 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 41 LVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 41 LN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
..+--..+|.||+.|+.|+..||.++.
T Consensus 64 q~qvl~rtR~kl~~Leari~~LEarl~ 90 (103)
T COG2960 64 QRQVLLRTREKLAALEARIEELEARLA 90 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344456899999999999999999997
No 25
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=79.01 E-value=4.8 Score=26.35 Aligned_cols=28 Identities=29% Similarity=0.440 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-+.+|.+|-++-+++|.+++.||.-+..
T Consensus 40 d~~~L~~L~~~a~rm~eRI~tLE~ILda 67 (75)
T PF06667_consen 40 DEQRLQELYEQAERMEERIETLERILDA 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4778999999999999999999999854
No 26
>PRK09458 pspB phage shock protein B; Provisional
Probab=78.20 E-value=5.1 Score=26.50 Aligned_cols=29 Identities=28% Similarity=0.478 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.-+.+|.+|-++-++++.+++.||.-+..
T Consensus 39 ~d~~~L~~L~~~A~rm~~RI~tLE~ILDa 67 (75)
T PRK09458 39 EEQQRLAQLTEKAERMRERIQALEAILDA 67 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 45678999999999999999999998875
No 27
>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=78.12 E-value=15 Score=25.04 Aligned_cols=48 Identities=21% Similarity=0.287 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 33 NVRRLFEFLVQF-----------EATTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 33 ~I~~i~~FLN~F-----------d~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
++..|.++++.. ...-..|+..+++++..|++....|+.........|
T Consensus 60 sl~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~~~ 118 (131)
T TIGR02043 60 TLDEIKELLSIKLDATEHSCAEVKAIVDAKLELVDEKINELTKIRRSLKKLSDACCGHT 118 (131)
T ss_pred CHHHHHHHHHhhccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 456666666532 233456777777777777777777777666665443
No 28
>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=78.10 E-value=7.6 Score=25.74 Aligned_cols=41 Identities=24% Similarity=0.379 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 32 LNVRRLFEFLVQFE------ATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd------~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.++..|-++++.++ .+|......+++|++.|++++.-|+..
T Consensus 57 ~sl~eI~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~ 103 (112)
T cd01282 57 LTLEEIREFLPCLRGGEPTFRPCPDLLAVLRRELARIDRQIADLTRS 103 (112)
T ss_pred CCHHHHHHHHHHhhCCCccCCccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777778887664 345566666666666666666655544
No 29
>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=78.09 E-value=6.9 Score=25.85 Aligned_cols=44 Identities=20% Similarity=0.193 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 33 NVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 33 ~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
++..|-++++..+ ..-..|+..+++++..|++....|+..+...
T Consensus 59 sl~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (123)
T cd04770 59 SLAEIRELLSLRDDGAAPCAEVRALLEEKLAEVEAKIAELQALRAELAGLLSAC 112 (123)
T ss_pred CHHHHHHHHHhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4556666665443 2335555666666666666666666655443
No 30
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=77.76 E-value=15 Score=23.18 Aligned_cols=23 Identities=30% Similarity=0.570 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~L 69 (85)
.++.|+..++++++.|..+++-|
T Consensus 68 ~ikkrm~~l~~~l~~lk~R~~~L 90 (92)
T PF14712_consen 68 NIKKRMSNLHERLQKLKKRADKL 90 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 55666666666666666665544
No 31
>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=77.56 E-value=13 Score=25.60 Aligned_cols=36 Identities=19% Similarity=0.194 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
.....|++.+++++..|++..+.|+..+..+..+|.
T Consensus 81 ~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~~~~~~ 116 (131)
T cd04786 81 AALERKVADIEALEARLAQNKAQLLVLIDLIESKPD 116 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 345677888888888888888888888877666554
No 32
>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=77.17 E-value=12 Score=21.84 Aligned_cols=41 Identities=24% Similarity=0.378 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 32 LNVRRLFEFLVQ---FEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 32 ~~I~~i~~FLN~---Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.++..|-+||.= =+..|....+-+.+|+..|+++++.|.+-
T Consensus 15 fsL~eI~~~l~l~~~~~~~~~~~~~~l~~~~~~i~~~i~~L~~~ 58 (65)
T PF09278_consen 15 FSLEEIRELLELYDQGDPPCADRRALLEEKLEEIEEQIAELQAL 58 (65)
T ss_dssp --HHHHHHHHHHCCSHCHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355666677722 14577777888888888888888777653
No 33
>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=76.34 E-value=25 Score=28.20 Aligned_cols=52 Identities=27% Similarity=0.450 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 24 REFISHISLNVRRLFEFLVQFEA------TTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~------scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.+|.+.+...+.++-.=+.+++. ..+.|+..++++|..+|++++.++.-++.
T Consensus 241 ~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~~~~ 298 (406)
T PF02388_consen 241 KEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEELIAE 298 (406)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46677777777666666666666 56789999999999999999998876554
No 34
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=76.13 E-value=19 Score=23.68 Aligned_cols=41 Identities=20% Similarity=0.174 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 33 NVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.+..+..|+++...-. ..|...-++|..+|.++.-||+-|.
T Consensus 43 ~~~~l~~~~~~l~~k~-~~l~~~l~~Id~Ie~~V~~LE~~v~ 83 (99)
T PF10046_consen 43 IAAGLEKNLEDLNQKY-EELQPYLQQIDQIEEQVTELEQTVY 83 (99)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444332 3344445555555556666665544
No 35
>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=75.42 E-value=2.8 Score=26.23 Aligned_cols=25 Identities=28% Similarity=0.407 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-.++++||..||++|.-.|.+....
T Consensus 27 ~ltiEqRLa~LE~rL~~ae~ra~~a 51 (60)
T PF11471_consen 27 PLTIEQRLAALEQRLQAAEQRAQAA 51 (60)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3469999999999999999887654
No 36
>PF10444 Nbl1_Borealin_N: Nbl1 / Borealin N terminal; InterPro: IPR018851 This entry represents the N-terminal domain of borealin, and is also found in the N-terminal-Borealin-like (NBL; YHR199C-A) protein from Saccharomyces cerevisiae (Baker's yeast). NBL is a subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates mitotic chromosome segregation. It is not required for the kinase activity of the complex and it mediates the interaction of Sli15p and Bir1p [].; PDB: 2RAW_B 2RAX_Y 2QFA_B.
Probab=74.76 E-value=16 Score=22.08 Aligned_cols=41 Identities=20% Similarity=0.322 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhhcccC
Q 034753 37 LFEFLVQFEATTKSKLALLNEKLDTLERRLE-LLEVQVGTAS 77 (85)
Q Consensus 37 i~~FLN~Fd~scr~KLa~lneKL~~LEr~le-~LEA~v~s~~ 77 (85)
...||.+||.-...|...|...++.+=..++ -+|-.|.++|
T Consensus 3 ~~~~l~~fd~Ev~~r~~~lr~~~~~~~~~~~~~~~~~l~riP 44 (59)
T PF10444_consen 3 KQAFLQNFDLEVEERIRRLRAQYENLLQSLRNRLEMELLRIP 44 (59)
T ss_dssp STTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 4579999999999999888887776655554 4566666665
No 37
>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=74.39 E-value=14 Score=25.12 Aligned_cols=45 Identities=13% Similarity=0.223 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 32 LNVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.++..|-++|...+ ...+.|++.+++++..|.+.++.|+..+...
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 58 FSLKDIKEILSHADQGESPCPMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred CCHHHHHHHHhhhccCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35666666766543 2335677777777777777777777766543
No 38
>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=73.77 E-value=7.4 Score=25.56 Aligned_cols=43 Identities=21% Similarity=0.376 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 32 LNVRRLFEFLVQFE---ATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd---~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.++..|-++|+.-+ .+|.....-|.+++..|+++++.|+...+
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~~ 103 (113)
T cd01109 58 MSIKDIKEYAELRREGDSTIPERLELLEEHREELEEQIAELQETLA 103 (113)
T ss_pred CCHHHHHHHHHHHccCCccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666665432 23555555566666666666555555443
No 39
>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=73.60 E-value=12 Score=25.19 Aligned_cols=40 Identities=13% Similarity=0.268 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 33 NVRRLFEFLVQFEA------TTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~------scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
++..|-+++...+. .|+..+..+.++++.|+.++..|++.
T Consensus 57 ~L~~I~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~ 102 (118)
T cd04776 57 SLEEIRELLDLYDPPGGNRKQLEKMLEKIEKRRAELEQQRRDIDAA 102 (118)
T ss_pred CHHHHHHHHHhhccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666665432 23444455555555555555444443
No 40
>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=73.01 E-value=7.5 Score=23.72 Aligned_cols=23 Identities=13% Similarity=0.359 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q 034753 53 ALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 53 a~lneKL~~LEr~le~LEA~v~s 75 (85)
+.|.+++..||.+|..|++.++.
T Consensus 2 ~aLrqQv~aL~~qv~~Lq~~fs~ 24 (46)
T PF09006_consen 2 NALRQQVEALQGQVQRLQAAFSQ 24 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 56888999999999999987764
No 41
>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=72.91 E-value=26 Score=23.58 Aligned_cols=47 Identities=23% Similarity=0.240 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 33 NVRRLFEFLVQFE--------ATTKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 33 ~I~~i~~FLN~Fd--------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
++..|-++|...+ ..-..|++.+++++..|++....|+..++..+..
T Consensus 58 sl~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~~ 112 (124)
T TIGR02051 58 SLEEIGGLLGLVDGTHCREMYELASRKLKSVQAKMADLLRIERLLEELLEQCPAN 112 (124)
T ss_pred CHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 4555556664333 2335677777777777777778888888777653
No 42
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=72.66 E-value=8 Score=25.65 Aligned_cols=25 Identities=36% Similarity=0.363 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA 71 (85)
-++.|++.+..||..||++..-+|.
T Consensus 12 K~k~Kiae~Q~rlK~Le~qk~E~EN 36 (83)
T PF14193_consen 12 KTKEKIAELQARLKELEAQKTEAEN 36 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999887764
No 43
>KOG4496 consensus Predicted coiled-coil protein [Function unknown]
Probab=72.32 E-value=17 Score=27.74 Aligned_cols=40 Identities=18% Similarity=0.187 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhhc
Q 034753 35 RRLFEFLVQFEATTKSKLAL----LNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~----lneKL~~LEr~le~LEA~v~ 74 (85)
.+++-|+|+|-.....=|.. ++++|..+|.+++..|.++.
T Consensus 22 ~RTaaf~N~fimh~tefLN~F~n~cEd~Lad~elridq~d~kLn 65 (194)
T KOG4496|consen 22 HRTAAFFNCFIMHMTEFLNNFGNKCEDILADAELRIDQADRKLN 65 (194)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666666666666555443 45566666666666666553
No 44
>PF06825 HSBP1: Heat shock factor binding protein 1; InterPro: IPR009643 Heat shock factor binding protein 1 (HSBP1) appears to be a negative regulator of the heat shock response [].; PDB: 3CI9_A.
Probab=72.25 E-value=20 Score=22.14 Aligned_cols=29 Identities=17% Similarity=0.381 Sum_probs=18.0
Q ss_pred HHHHH---HHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 42 VQFEA---TTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 42 N~Fd~---scr~KLa~lneKL~~LEr~le~LE 70 (85)
++|.. ..-.|+..|..||..||+++.-|=
T Consensus 17 ~kFq~mS~~I~~riDeM~~RIDdLE~si~dl~ 48 (54)
T PF06825_consen 17 DKFQTMSDQILGRIDEMSSRIDDLEKSIADLM 48 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCHHHH----
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 34543 456788888888888888876553
No 45
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=72.11 E-value=27 Score=24.43 Aligned_cols=47 Identities=23% Similarity=0.235 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 33 NVRRLFEFLVQF--------EATTKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 33 ~I~~i~~FLN~F--------d~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
++..|.++|... ..--+.|++.+++|+..|++....|...+......
T Consensus 66 sL~eI~~ll~~~~~~~~~~~~~ll~~k~~~l~~~i~~L~~~~~~L~~~~~~~~~~ 120 (144)
T PRK13752 66 SLDEIAELLRLEDGTHCEEASSLAEHKLKDVREKMADLARMEAVLSELVCACHAR 120 (144)
T ss_pred CHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 566666776432 22335567777777777777777777777665543
No 46
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=71.92 E-value=26 Score=24.21 Aligned_cols=46 Identities=20% Similarity=0.167 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHH----HHH-------HHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 33 NVRRLFEFLVQFE----ATT-------KSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 33 ~I~~i~~FLN~Fd----~sc-------r~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++..|.+||+... .+| ..|+..+++++..|++....|+..+.....
T Consensus 60 sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 116 (140)
T PRK09514 60 TLEEIRELLSIRLDPEHHTCQEVKGIVDEKLAEVEAKIAELQHMRRSLQRLNDACCG 116 (140)
T ss_pred CHHHHHHHHHhcccCCcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 5666777775331 134 455555555555555555566665555433
No 47
>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=71.61 E-value=18 Score=24.44 Aligned_cols=47 Identities=13% Similarity=0.198 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 32 LNVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.++..|-++|...+ ..-..++..+++++..|++....|+..+...+.
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (127)
T TIGR02047 58 MSLAEIRQLLRYQDKPEKSCSDVNALLDEHISHVRARIIKLQALIEQLVDLRGRCNG 114 (127)
T ss_pred CCHHHHHHHHHhhhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 35666677765432 223457777777777777777778877766554
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=71.36 E-value=26 Score=22.92 Aligned_cols=45 Identities=13% Similarity=0.153 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
|..........|..=-..+..++..++.++..++.+|.-++.++.
T Consensus 57 v~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~ 101 (105)
T cd00632 57 VKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKELQEKIQ 101 (105)
T ss_pred hhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666666666666777777777777777777777776654
No 49
>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=70.52 E-value=11 Score=22.57 Aligned_cols=34 Identities=18% Similarity=0.368 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
..+..++.++.++..+....+.|+.++....++|
T Consensus 21 ~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l~~~~ 54 (80)
T PF04977_consen 21 QLNQEIAELQKEIEELKKENEELKEEIERLKNDP 54 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Confidence 4556777888888888888888888887763334
No 50
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=70.22 E-value=14 Score=26.23 Aligned_cols=31 Identities=19% Similarity=0.374 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
.|.+||.+++..-..+|..|+..|..++++=
T Consensus 22 ~i~~~L~k~~~~v~~~i~~L~~~L~~~~n~t 52 (146)
T PF08702_consen 22 GIQDFLDKYERDVDKDIQELENLLDQISNST 52 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHccchHHHHHHHHHHHHHHHHhh
Confidence 4678888888888888888888888777653
No 51
>PF12614 RRF_GI: Ribosome recycling factor ; InterPro: IPR022253 This family of proteins is found in bacteria and viruses. Proteins in this family are approximately 130 amino acids in length. There are two conserved sequence motifs: LPS and LKR. Overproduction of ribosome recycling factor (RRF) reduces tna operon expression and increases the rate of cleavage of TnaC-tRNA(2)(Pro), relieving the growth inhibition associated with plasmid-mediated tnaC overexpression.
Probab=70.02 E-value=7.8 Score=27.88 Aligned_cols=53 Identities=23% Similarity=0.263 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cCCCCCC
Q 034753 30 ISLNVRRLFEFLVQF----EATTKSKLALLNEKLDTLERRLELLEVQVGT-ASANPHL 82 (85)
Q Consensus 30 Is~~I~~i~~FLN~F----d~scr~KLa~lneKL~~LEr~le~LEA~v~s-~~~~p~~ 82 (85)
+++.-.++-.|+.+. +.+-...+..++..|....-++|-||.+|.. ++.+|++
T Consensus 46 l~Ge~~~l~~~~~~lk~~~~~~~~~li~kie~~L~~~~dkle~l~~~L~~Li~~nP~i 103 (128)
T PF12614_consen 46 LSGEADQLQSFLDQLKAEDYEEFQFLIKKIEAALLQHSDKLEPLEDKLARLIPQNPNI 103 (128)
T ss_pred HhhhHHHHHHHHHHHHhcchHHHHHHHHHHHHHhcccccccchHHHHHHHHHHhCCcc
Confidence 555556666666665 3344455556666666666667777777766 6777764
No 52
>PF02090 SPAM: Salmonella surface presentation of antigen gene type M protein; InterPro: IPR002954 The Salmonella typhimurium Surface Presentation of Antigens M gene (SpaM) is one of 12 that form a cluster responsible for invasion properties []. The gene product is required for entry by the bacterium into epithelial cells, and is thus considered to be a virulence factor []. Other Spa genes in the cluster are related to invasion (Inv) genes in similar Salmonella and Shigella species [], and flagella biosynthesis genes in Helicobacter pylori []. A homologue of this protein has been found recently in Salmonella enterica []. The protein, named InvI, is required by the organism to gain access to mammalian epithelial cells, and cellular mutants (InvI-) failed to successfully infect these cells. It has also been found that the inv-spa loci of this particular species encode for a type III protein secretion system, essential in the bacterium's host cell invasion process [].
Probab=69.93 E-value=26 Score=25.88 Aligned_cols=34 Identities=21% Similarity=0.233 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.-|.+-|+..|..++.+.+.|+++.+-+|.+++.
T Consensus 15 ~~~~~rCe~~L~ql~~e~~~L~~ee~~~~~Q~~~ 48 (147)
T PF02090_consen 15 EMFQSRCEQALLQLQREEQKLDAEEEAIEEQRAG 48 (147)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 3577889999999999999999999999988753
No 53
>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=69.79 E-value=30 Score=23.11 Aligned_cols=48 Identities=25% Similarity=0.295 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 33 NVRRLFEFLVQFE--------ATTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 33 ~I~~i~~FLN~Fd--------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
++..|-++|...+ .--..|++.+++++..|++....|+..+...+..|
T Consensus 59 sL~eI~~~l~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~l~~~~~~~~~~~ 114 (126)
T cd04783 59 TLDEIAELLELDDGTDCSEARELAEQKLAEVDEKIADLQRMRASLQELVSQCAATK 114 (126)
T ss_pred CHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC
Confidence 3555666665432 22356788888888888888888888887665543
No 54
>PF10241 KxDL: Uncharacterized conserved protein; InterPro: IPR019371 This entry represents a conserved region of 80 residues which defines a family of short proteins. There is a characteristic KxDL motif towards the C terminus. The function is unknown.
Probab=69.58 E-value=28 Score=22.62 Aligned_cols=53 Identities=26% Similarity=0.369 Sum_probs=47.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.|++..+....+-.+...+-.+|..+++. |.+|..-|..+-+++..|.++++.
T Consensus 30 tn~~L~~~n~~s~~rl~~~~~~f~~~~~~-l~~mK~DLd~i~krir~lk~kl~~ 82 (88)
T PF10241_consen 30 TNEELLNLNDLSQQRLAEARERFARHTKL-LKEMKKDLDYIFKRIRSLKAKLAK 82 (88)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 58899999999999999999999988875 788999999999999999999875
No 55
>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=68.89 E-value=34 Score=23.35 Aligned_cols=35 Identities=31% Similarity=0.489 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhhccc
Q 034753 42 VQFEATTKSKLALLN----EKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 42 N~Fd~scr~KLa~ln----eKL~~LEr~le~LEA~v~s~ 76 (85)
..|+..-+.=|.+|+ +.++.|+.+++-||++|...
T Consensus 77 ~~~~~~v~~~L~~lg~~tk~ev~~L~~RI~~Le~~l~~l 115 (118)
T TIGR01837 77 KAFDERVEQALNRLNIPSREEIEALSAKIEQLAVQVEEL 115 (118)
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666667776 78899999999999998764
No 56
>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=68.76 E-value=32 Score=22.97 Aligned_cols=47 Identities=13% Similarity=0.172 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 32 LNVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.++..|-+||...+ ..-..|+..+++++..|++....|+........
T Consensus 58 ~sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (127)
T cd04784 58 MSLDEIRTLLQLQDDPEASCAEVNALIDEHLAHVRARIAELQALEKQLQALRERCDG 114 (127)
T ss_pred CCHHHHHHHHHhhhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 45666777765433 223456666666666666666677766665554
No 57
>PF09340 NuA4: Histone acetyltransferase subunit NuA4; InterPro: IPR015418 The NuA4 histone acetyltransferase (HAT) multisubunit complex is responsible for acetylation of histone H4 and H2A N-terminal tails in yeast []. NuA4 complexes are highly conserved in eukaryotes and play primary roles in transcription, cellular response to DNA damage, and cell cycle control [].
Probab=68.27 E-value=8.9 Score=24.88 Aligned_cols=16 Identities=31% Similarity=0.424 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 034753 55 LNEKLDTLERRLELLE 70 (85)
Q Consensus 55 lneKL~~LEr~le~LE 70 (85)
|+++|..||+++=-+|
T Consensus 14 Le~~L~~lE~qIy~~E 29 (80)
T PF09340_consen 14 LEKDLAALEKQIYDKE 29 (80)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3445555555554333
No 58
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=67.81 E-value=8.9 Score=25.22 Aligned_cols=24 Identities=17% Similarity=0.472 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s 75 (85)
+..+++||+.+|.++|+-.+.++.
T Consensus 14 ~~~i~~rLd~iEeKvEf~~~Ei~Q 37 (70)
T PF04210_consen 14 FNEIMKRLDEIEEKVEFTNAEIAQ 37 (70)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHH
Confidence 567899999999999998887753
No 59
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=67.27 E-value=25 Score=21.21 Aligned_cols=17 Identities=41% Similarity=0.714 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034753 50 SKLALLNEKLDTLERRL 66 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~l 66 (85)
.||..|..||+.||.++
T Consensus 30 ~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 30 QKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 47999999999999886
No 60
>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=66.52 E-value=21 Score=24.02 Aligned_cols=46 Identities=20% Similarity=0.257 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 33 NVRRLFEFLVQFE----------ATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 33 ~I~~i~~FLN~Fd----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++..|-+++...+ ..-..|+..+++++..|++....|+..+.....
T Consensus 59 sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (126)
T cd04785 59 SLEEIRALLALSDRPDRSCAEADAIARAHLADVRARIADLRRLEAELKRMVAACSG 114 (126)
T ss_pred CHHHHHHHHhhhhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC
Confidence 4555566665432 223456666666776776666677776655443
No 61
>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=66.40 E-value=34 Score=22.39 Aligned_cols=32 Identities=31% Similarity=0.476 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 43 QFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 43 ~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
......+.+++.++++++.|++..+.|+..+.
T Consensus 75 ~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l~ 106 (108)
T cd01107 75 ELRKLLREKLAELEAEIEELQRILRLLEDRLK 106 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34555677788888888888888888777664
No 62
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=66.32 E-value=16 Score=26.17 Aligned_cols=42 Identities=14% Similarity=0.106 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHH----HHH-------HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 33 NVRRLFEFLVQFE----ATT-------KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 33 ~I~~i~~FLN~Fd----~sc-------r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
++..|-+||+.++ .+| ..|+..+++|+..|.+..+.|+..+.
T Consensus 69 sL~eIk~ll~~~~~~~~~~~~~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i~ 121 (154)
T PRK15002 69 PLATIGEAFGVLPEGHTLSAKEWKQLSSQWREELDRRIHTLVALRDELDGCIG 121 (154)
T ss_pred CHHHHHHHHHHhhcCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 5666777776442 223 34556666666666666667776664
No 63
>PLN02281 chlorophyllide a oxygenase
Probab=66.16 E-value=23 Score=30.65 Aligned_cols=58 Identities=28% Similarity=0.425 Sum_probs=48.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 19 ADWENREFISHISLNVRRLFEFLVQFE------ATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 19 ~DW~nRE~ie~Is~~I~~i~~FLN~Fd------~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-||.-|.=+=.|-.---|.++-||-.. .+-|+-||.|.|.|.+--.|+-.-||+|+++
T Consensus 91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 154 (536)
T PLN02281 91 LDWRARQDLLTIMILHDKVVDVLNPLAREYKSIGTVKKELAGLQEELSKAHQQVHISEARVSTA 154 (536)
T ss_pred ccchhhhhHHHHHHHhHHHHHHhhhHHHhhhhHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Confidence 499999877777666678899998664 3568889999999999999999999999875
No 64
>cd05511 Bromo_TFIID Bromodomain, TFIID-like subfamily. Human TAFII250 (or TAF250) is the largest subunit of TFIID, a large multi-domain complex, which initiates the assembly of the transcription machinery. TAFII250 contains two bromodomains that specifically bind to acetylated histone H4. Bromodomains are 110 amino acid long domains, that are found in many chromatin associated proteins. Bromodomains can interact specifically with acetylated lysine.
Probab=65.16 E-value=15 Score=24.69 Aligned_cols=29 Identities=24% Similarity=0.213 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 38 FEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 38 ~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
..--......|+.++..++++|+.||+.+
T Consensus 83 ~~~A~~l~~~~~~~~~~~~~~~~~~~~~~ 111 (112)
T cd05511 83 TKKAKEMLELAEELLAEREEKLTQLEKNI 111 (112)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHhc
Confidence 33445567788899999999999998865
No 65
>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=65.00 E-value=16 Score=27.22 Aligned_cols=43 Identities=26% Similarity=0.443 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 31 SLNVRRLFEFLVQFEATTK-------------SKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 31 s~~I~~i~~FLN~Fd~scr-------------~KLa~lneKL~~LEr~le~LEA~v 73 (85)
++.+..++.||.++...-. .-++.|.+++..||..++-|+.+.
T Consensus 79 ~ltl~~vI~fLq~l~~~~~~~~~~~~e~~~l~~e~~~l~~~~e~Le~e~~~L~~~~ 134 (161)
T TIGR02894 79 SLTLQDVISFLQNLKTTNPSDQALQKENERLKNQNESLQKRNEELEKELEKLRQRL 134 (161)
T ss_pred cCCHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3568899999999986422 334455555555555555555443
No 66
>PF15361 RIC3: Resistance to inhibitors of cholinesterase homologue 3
Probab=64.96 E-value=10 Score=27.22 Aligned_cols=25 Identities=36% Similarity=0.464 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 45 EATTKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~L 69 (85)
..-....|++|.+||...|+.|+-|
T Consensus 126 ~~~~~~eL~qLq~rL~qTE~~m~ki 150 (152)
T PF15361_consen 126 RKITDYELAQLQERLAQTERAMEKI 150 (152)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778999999999999999854
No 67
>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=64.85 E-value=16 Score=31.29 Aligned_cols=25 Identities=24% Similarity=0.391 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 51 KLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
||+.|..+|+.|+++++.|..+|.+
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v~k 56 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRVDK 56 (489)
T ss_pred HHHHHHHHHHHHHHhhcccccccch
Confidence 5555555555555555555554544
No 68
>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=63.64 E-value=13 Score=25.05 Aligned_cols=46 Identities=22% Similarity=0.266 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHH---HH-------HHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 33 NVRRLFEFLVQFE---AT-------TKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 33 ~I~~i~~FLN~Fd---~s-------cr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++..|-++|+..+ .+ -..|++.+++++..|+...+.|+..+...+.
T Consensus 59 sL~eI~~~l~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~~ 114 (127)
T TIGR02044 59 SLEECKELLNLWNDPNRTSADVKARTLEKVAEIERKISELQSMRDQLEALAQACPG 114 (127)
T ss_pred CHHHHHHHHHhhccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 4566666665332 12 2567888888888888888888888876543
No 69
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=63.53 E-value=15 Score=23.16 Aligned_cols=40 Identities=33% Similarity=0.443 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 33 NVRRLFEFLVQFEAT--TKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~s--cr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
++..+..++...+.. |......+..++..||++++.|.+.
T Consensus 58 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~ 99 (100)
T cd00592 58 SLKEIRELLDARDEELSLAALLALLDEKLAELEEKIARLEAL 99 (100)
T ss_pred CHHHHHHHHhcccccchHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 344444444433322 7788888999999999999888753
No 70
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=62.87 E-value=19 Score=25.68 Aligned_cols=34 Identities=24% Similarity=0.380 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 44 FEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 44 Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
-.+.-..|+...++++..||.+-+|||..|+-+.
T Consensus 68 ~~s~leak~k~see~IeaLqkkK~YlEk~v~eaE 101 (114)
T KOG3501|consen 68 VRSHLEAKMKSSEEKIEALQKKKTYLEKTVSEAE 101 (114)
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455677899999999999999999999987654
No 71
>PF04508 Pox_A_type_inc: Viral A-type inclusion protein repeat ; InterPro: IPR007596 The repeat is found in the A-type inclusion protein of the Poxvirus family [].; GO: 0016032 viral reproduction
Probab=62.41 E-value=13 Score=19.67 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034753 52 LALLNEKLDTLERRLELL 69 (85)
Q Consensus 52 La~lneKL~~LEr~le~L 69 (85)
+.++..|+.-||++|++.
T Consensus 3 ~~rlr~rI~dLer~L~~C 20 (23)
T PF04508_consen 3 MNRLRNRISDLERQLSEC 20 (23)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 345667788888887653
No 72
>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=61.75 E-value=29 Score=22.53 Aligned_cols=40 Identities=23% Similarity=0.233 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 33 NVRRLFEFLVQFEA-TTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~-scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
++..+-+|+..+.. .+..+++-|+++++.|+.+++.|+..
T Consensus 58 ~l~~i~~~~~~~~~~~~~~~~~ll~~~~~~l~~~i~~L~~~ 98 (99)
T cd04772 58 GYRVAQRIMRAVHAGIVASALALVDAAHALLQRYRQQLDQE 98 (99)
T ss_pred CHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 44445567766542 34588899999999999999988864
No 73
>PRK13723 conjugal transfer pilus assembly protein TraH; Provisional
Probab=61.69 E-value=44 Score=28.25 Aligned_cols=51 Identities=12% Similarity=0.302 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.+-+..+..+|...-+|+.++......| ...++.+++++.++|.+|.+.-+
T Consensus 390 ~~~~~~~~~~l~~a~~~~~~~~~~~~~~----~~~~~~i~~~~~~~eqq~~~~~s 440 (451)
T PRK13723 390 EAVMDHLRENLNQAQRQIAAFQSQVQVQ----QDALLVVDRQMSYMRQQLSARML 440 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhh
Confidence 4556677788888888999998888777 56788899999999999987544
No 74
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=61.53 E-value=16 Score=28.43 Aligned_cols=28 Identities=25% Similarity=0.488 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..+.|++.|-++-..|..++++||++|+
T Consensus 177 ga~eki~~Lr~~y~~l~~~i~~lE~~Va 204 (259)
T PF08657_consen 177 GAREKIAALRQRYNQLSNSIAYLEAEVA 204 (259)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777887777777777777777775
No 75
>PF08336 P4Ha_N: Prolyl 4-Hydroxylase alpha-subunit, N-terminal region; InterPro: IPR013547 The members found in this entry are eukaryotic proteins, and include all three isoforms of the prolyl 4-hydroxylase alpha subunit. This enzyme (1.14.11.2 from EC) is important in the post-translational modification of collagen, as it catalyses the formation of 4-hydroxyproline. In vertebrates, the complete enzyme is an alpha2-beta2 tetramer; the beta-subunit is identical to protein disulphide isomerase [, , , ]. The function of the N-terminal region featured in this family does not seem to be known. ; GO: 0004656 procollagen-proline 4-dioxygenase activity, 0016702 oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen, 0055114 oxidation-reduction process, 0005783 endoplasmic reticulum
Probab=61.25 E-value=48 Score=22.41 Aligned_cols=50 Identities=26% Similarity=0.414 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 33 NVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
++.++.+.=..|-..-+.-+..+.+||..|++-++.++.....+...|.-
T Consensus 5 ~m~~Ll~~E~~l~~~L~~Yi~~~~~kl~~l~~~~~~~~~~~~~~~~d~e~ 54 (134)
T PF08336_consen 5 DMEKLLELEEELISNLRNYIEELQEKLDTLKRFLDEMKREHEKAKSDPEE 54 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcchhh
Confidence 34455555555666666777888889999999999888888877765543
No 76
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=61.16 E-value=16 Score=25.44 Aligned_cols=29 Identities=41% Similarity=0.484 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-+.|-+.+++++..||.+++.|+.++...
T Consensus 103 e~~Ke~~~~~~l~~L~~~i~~L~~~~~~~ 131 (134)
T PF07047_consen 103 EAKKEEELQERLEELEERIEELEEQVEKQ 131 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678899999999999999999988653
No 77
>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=60.56 E-value=23 Score=23.76 Aligned_cols=32 Identities=19% Similarity=0.095 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.+|.+=-..-+.|++.|.+.++.|+..+...+
T Consensus 82 ~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (127)
T TIGR02044 82 ARTLEKVAEIERKISELQSMRDQLEALAQACP 113 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 33444445677888888888888888776444
No 78
>cd01111 HTH_MerD Helix-Turn-Helix DNA binding domain of the MerD transcription regulator. Helix-turn-helix (HTH) transcription regulator MerD. The putative secondary regulator of mercury resistance (mer) operons, MerD, has been shown to down-regulate the expression of this operon in gram-negative bacteria. It binds to the same operator DNA as MerR that activates transcription of the operon in the presence of mercury ions. The MerD protein shares the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily, which promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are conserved and contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules such as metal ions, drugs,
Probab=60.45 E-value=35 Score=22.66 Aligned_cols=45 Identities=20% Similarity=0.302 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 32 LNVRRLFEFLVQFEA----TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd~----scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.++..|.++|+.++. .|...++.+.++|....+.|..++.++...
T Consensus 58 ~~l~~I~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~~~L~~~ 106 (107)
T cd01111 58 IGLDELARLCRALDAGDGKQPEACLAQLRQKIEVRRAALNALTTQLAEM 106 (107)
T ss_pred CCHHHHHHHHHHHhCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467788888877653 478888888888888888888888887653
No 79
>KOG3684 consensus Ca2+-activated K+ channel proteins (intermediate/small conductance classes) [Inorganic ion transport and metabolism]
Probab=60.26 E-value=55 Score=28.34 Aligned_cols=12 Identities=25% Similarity=0.739 Sum_probs=9.1
Q ss_pred hhhHHHHHHHHH
Q 034753 20 DWENREFISHIS 31 (85)
Q Consensus 20 DW~nRE~ie~Is 31 (85)
.|++|.+-|..+
T Consensus 409 k~~qRkl~e~~n 420 (489)
T KOG3684|consen 409 KWEQRKLSEQAN 420 (489)
T ss_pred HHHHHHHHhhcc
Confidence 688888888744
No 80
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=60.21 E-value=66 Score=26.16 Aligned_cols=58 Identities=22% Similarity=0.339 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 23 NREFISHISLNVRRLFEFLVQFE-----------ATTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 23 nRE~ie~Is~~I~~i~~FLN~Fd-----------~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
.-||...+...+....++-..++ .-+|+=+..+.++|..|||++.-|+..+......|
T Consensus 251 S~efak~~G~lvna~m~lr~~~qe~~e~~L~~LnlPTRsElDe~~krL~ELrR~vr~L~k~l~~l~~~~ 319 (320)
T TIGR01834 251 SEENAKVHGKFINALMRLRIQQQEIVEALLKMLNLPTRSELDEAHQRIQQLRREVKSLKKRLGDLEANP 319 (320)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Confidence 35666666666666666555544 45677778888899999999998888888766665
No 81
>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=59.99 E-value=14 Score=24.30 Aligned_cols=28 Identities=18% Similarity=0.430 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-|..+..+++|.+.|+++++-|++.+..
T Consensus 9 Ir~dIk~vd~KVdaLq~~V~~l~~~~~~ 36 (75)
T PF05531_consen 9 IRQDIKAVDDKVDALQTQVDDLESNLPD 36 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 4677778888888888888877776644
No 82
>PF15372 DUF4600: Domain of unknown function (DUF4600)
Probab=59.74 E-value=19 Score=25.86 Aligned_cols=33 Identities=21% Similarity=0.297 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
+|-.+.-|.=..||+++.+|+.++.++.++|+-
T Consensus 8 tRYEtQ~E~N~QLekqi~~l~~kiek~r~n~~d 40 (129)
T PF15372_consen 8 TRYETQLELNDQLEKQIIILREKIEKIRGNPSD 40 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 444555566678999999999999999999974
No 83
>cd03184 GST_C_Omega GST_C family, Class Omega subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. The GST fold contains an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. GSH binds to the N-terminal domain while the hydrophobic substrate occupies a pocket in the C-terminal domain. Class Omega GSTs show little or no GSH-conjugating activity towards standard GST substrates. Instead, they catalyze the GSH dependent reduction of protein disulfides, dehydroascorbate and monomethylarsonate, activities which are more characteristic of glutaredoxins. They contain a conserved cysteine equivalent to the first cysteine in the CXXC motif of glutaredoxins, which is a re
Probab=59.38 E-value=42 Score=21.52 Aligned_cols=48 Identities=23% Similarity=0.239 Sum_probs=30.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 20 DWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 20 DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-+.+|=+++.++..+..+..++-. .. ...+.++.+++.+..||..++.
T Consensus 3 ra~~r~~~~~~~~~~~~~~~~~~~-----~~---~~~~~~~~~~~~l~~le~~L~~ 50 (124)
T cd03184 3 KAQQKLLLERFSKVVSAFYKLLGA-----PS---DREEKKAELRSALENLEEELTK 50 (124)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHhc-----cc---cchhhHHHHHHHHHHHHHHHHh
Confidence 356677788887666666666643 11 2334556666677777777753
No 84
>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=59.00 E-value=21 Score=23.33 Aligned_cols=29 Identities=17% Similarity=0.312 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..-+.|++.+++++..|++.++.|+.++.
T Consensus 82 ~~l~~~~~~l~~~i~~l~~~~~~l~~~~~ 110 (113)
T cd01109 82 ELLEEHREELEEQIAELQETLAYLDYKID 110 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888899999999999998887764
No 85
>cd04788 HTH_NolA-AlbR Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR. Helix-turn-helix (HTH) transcription regulators NolA and AlbR, N-terminal domain. In Bradyrhizobium (Arachis) sp. NC92, NolA is required for efficient nodulation of host plants. In Xanthomonas albilineans, AlbR regulates the expression of the pathotoxin, albicidin. These proteins are putatively comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=58.95 E-value=21 Score=22.97 Aligned_cols=36 Identities=31% Similarity=0.368 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 32 LNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.++..|..+++..+. ...+.+.+++..||++++.|.
T Consensus 58 ~~l~eI~~~l~~~~~---~~~~~l~~~~~~l~~~i~~l~ 93 (96)
T cd04788 58 FSLREIGRALDGPDF---DPLELLRRQLARLEEQLELAT 93 (96)
T ss_pred CCHHHHHHHHhCCCh---hHHHHHHHHHHHHHHHHHHHH
Confidence 356777777776543 556677888888888877665
No 86
>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=58.71 E-value=44 Score=21.69 Aligned_cols=27 Identities=19% Similarity=0.373 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.-..+++.+++++..|++.+..|+.-+
T Consensus 75 ~l~~~~~~l~~~i~~l~~~~~~l~~~l 101 (102)
T cd04775 75 ILEERLQSLNREIQRLRQQQQVLAAIL 101 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345666667777777777666666543
No 87
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=58.62 E-value=23 Score=21.98 Aligned_cols=23 Identities=35% Similarity=0.406 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 034753 50 SKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~ 72 (85)
+|+..+.++++.||+....+|.+
T Consensus 13 ~~l~~~~~~i~~lE~~~~~~e~~ 35 (71)
T PF10779_consen 13 TKLDNHEERIDKLEKRDAANEKD 35 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444443
No 88
>PF15112 DUF4559: Domain of unknown function (DUF4559)
Probab=58.59 E-value=37 Score=27.63 Aligned_cols=47 Identities=19% Similarity=0.197 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 26 FISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 26 ~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.++.|..+++.=-|..+.|..-- .||..|..|++++|..+.-++.++
T Consensus 258 ~l~~~~~fL~~NkDL~~~l~~e~-qkL~~l~~k~~~~~~~v~~~~~~~ 304 (307)
T PF15112_consen 258 RLEVLKEFLRNNKDLRSNLQEEL-QKLDSLQTKHQKLESDVKELKSQM 304 (307)
T ss_pred HHHHHHHHHHhcHHHHHHHHHHH-HHHHHHHHHhcchhhhhhHHHhhc
Confidence 33333333333333334454443 677777777777777777666654
No 89
>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=58.38 E-value=40 Score=21.84 Aligned_cols=42 Identities=17% Similarity=0.229 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 32 LNVRRLFEFLVQFEA-------TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd~-------scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.++..|-+|+..... .|....+-+.+|+..||+++.-|....
T Consensus 56 ~sL~eI~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~i~~l~~~~ 104 (107)
T cd04777 56 FSLIEIQKIFSYKRLTKSRTHEDQDYYKSFLKNKKDELEKEIEDLKKAI 104 (107)
T ss_pred CCHHHHHHHHHhcccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367778888865432 244456778888888888888777654
No 90
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=57.82 E-value=16 Score=26.91 Aligned_cols=28 Identities=32% Similarity=0.490 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.+..|++.|+++++.|+.++.-||..++
T Consensus 82 t~~~R~~lLe~~~~~l~~ri~eLe~~l~ 109 (175)
T PRK13182 82 ISSVDFEQLEAQLNTITRRLDELERQLQ 109 (175)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555555444
No 91
>KOG3304 consensus Surfeit family protein 5 [General function prediction only]
Probab=57.77 E-value=38 Score=25.05 Aligned_cols=33 Identities=15% Similarity=0.352 Sum_probs=21.8
Q ss_pred CccccCCcchh----HHHHHHHhhhhHHHHHHHHHHHHHHHHH
Q 034753 1 MARAGGITNAV----NVGIAVQADWENREFISHISLNVRRLFE 39 (85)
Q Consensus 1 ~~~~~~~~~~~----~v~~~iq~DW~nRE~ie~Is~~I~~i~~ 39 (85)
||.+|| |+|- .-...+++. |-..+-.+|+++.|
T Consensus 1 M~~g~G-G~s~~~~~ask~al~k~-----~~~Rl~ddIkS~~d 37 (148)
T KOG3304|consen 1 MAQGGG-GGSRPALPASKEALLKS-----YNKRLKDDIKSIMD 37 (148)
T ss_pred CCCCCC-CCCccccHHHHHHHHHH-----HHHHHHHhHHHHHH
Confidence 788776 4332 334455544 77788888888887
No 92
>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=57.69 E-value=38 Score=22.38 Aligned_cols=30 Identities=20% Similarity=0.331 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
....+.|++.+++++..|++..+.|+..++
T Consensus 83 ~~~l~~~~~~l~~~i~~L~~~~~~L~~~l~ 112 (112)
T cd01282 83 LAVLRRELARIDRQIADLTRSRDRLDAYLA 112 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 345688999999999999999999987764
No 93
>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=57.66 E-value=19 Score=25.21 Aligned_cols=18 Identities=33% Similarity=0.564 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHhhc
Q 034753 57 EKLDTLERRLELLEVQVG 74 (85)
Q Consensus 57 eKL~~LEr~le~LEA~v~ 74 (85)
..+..|+..++.||+++.
T Consensus 116 ~~i~~l~~e~~~l~~kL~ 133 (169)
T PF07106_consen 116 EEIEELEEEIEELEEKLE 133 (169)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 344444444444444443
No 94
>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]
Probab=57.59 E-value=98 Score=25.86 Aligned_cols=57 Identities=25% Similarity=0.330 Sum_probs=46.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
++|+.-...+.-|+.-=+.|-.++.--..++..||++|.....+++-+|.++.+.-.
T Consensus 314 ~~~~~k~~~~~ki~~~e~~l~~~E~~l~~e~~~~n~~Le~~~~~l~~~e~~l~~~~~ 370 (373)
T COG5019 314 EERELKKKFTEKIREKEKRLEELEQNLIEERKELNSKLEEIQKKLEDLEKRLEKLKS 370 (373)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 455555556667777778888899999999999999999999999999999887544
No 95
>TIGR02436 conserved hypothetical protein TIGR02436. This family consists of a few small, well-conserved proteins found so far in Bacteroides thetaiotaomicron VPI-5482, Nostoc sp. PCC 7120, Clostridium tetani E88, Chlorobium tepidum TLS, and Prevotella ruminicola 23. The function is unknown.
Probab=57.32 E-value=56 Score=21.86 Aligned_cols=64 Identities=11% Similarity=0.178 Sum_probs=41.7
Q ss_pred chhHHHHHHHhhh---hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 9 NAVNVGIAVQADW---ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 9 ~~~~v~~~iq~DW---~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
++++|...|-+-| .++||+.+++....+..+-.++....-+..+-. +++++.|-..++.|-..+
T Consensus 35 s~~SI~aNIAEg~~r~s~~df~~fl~ia~gs~~E~~~~L~la~~~~~l~-~~~~~~l~~e~~ei~~~L 101 (111)
T TIGR02436 35 SGTSIGANIREAQAAESTADFIHKLSIALKEGSETEYWIRLLIQTELIP-ENRYESIKGDCLELLKIL 101 (111)
T ss_pred hhccHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCC-HHHHHHHHHHHHHHHHHH
Confidence 4567778888866 489999999999999999887777655544222 233444444444444333
No 96
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=57.02 E-value=25 Score=25.83 Aligned_cols=51 Identities=22% Similarity=0.335 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 30 ISLNVRRLFEFLVQFEA-TTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~-scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
+........+=+..+.. .-|.=+..|..+|+.||.+|..+|...-.-+..|
T Consensus 104 Le~~l~~kad~vvsYqll~hr~e~ee~~~~l~~le~~~~~~e~~~~~~~~~~ 155 (175)
T PRK13182 104 LERQLQQKADDVVSYQLLQHRREMEEMLERLQKLEARLKKLEPIYITPDTEP 155 (175)
T ss_pred HHHHHHHHHhhhhhHHHHHhHHHHHHHHHHHHHHHHHHHHHHhhccCCcccc
Confidence 33444444444444443 3466688889999999999999887776655433
No 97
>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=56.62 E-value=27 Score=21.31 Aligned_cols=23 Identities=43% Similarity=0.598 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~L 69 (85)
..+.||+.+..++..|+..|.-|
T Consensus 43 ~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 43 KEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 57888999999999888888754
No 98
>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=56.16 E-value=52 Score=21.19 Aligned_cols=40 Identities=25% Similarity=0.346 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
....+||++=-...+..+..+++++..++.++..++..+.
T Consensus 76 ~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~~~~l~ 115 (120)
T PF02996_consen 76 EEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQLEQTLQ 115 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555566666666666666666666665554
No 99
>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=56.07 E-value=59 Score=21.80 Aligned_cols=34 Identities=15% Similarity=0.061 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 37 LFEFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 37 i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
..++|.+=...-+.|++.|++....|+..+...+
T Consensus 80 ~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 113 (126)
T cd04785 80 ADAIARAHLADVRARIADLRRLEAELKRMVAACS 113 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 3444544445556667776666666666554433
No 100
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=56.02 E-value=12 Score=28.32 Aligned_cols=41 Identities=24% Similarity=0.272 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 33 NVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
...-.+-||..+-.+-..+ +.+++|+..||+|++.||-+..
T Consensus 136 ~~lv~~~~l~g~~gs~~~~-~~LE~kv~~LE~qvr~L~~R~~ 176 (177)
T PF14965_consen 136 CLLVLVCFLTGLVGSYWRS-ASLEAKVRHLERQVRELNIRQR 176 (177)
T ss_pred HHHHHHHHHccccCCCCCc-ccHHHHHHHHHHHHHHHHHHhc
Confidence 3334445555554444444 8899999999999999997653
No 101
>PF12699 phiKZ_IP: phiKZ-like phage internal head proteins; InterPro: IPR024413 Phage internal head proteins (IP) are proteins that are encoded by a bacteriophage and assembled into the mature virion inside the capsid head. The most analogous characterised IP proteins are those of bacteriophage T4, which are known to be proteolytically processed during phage maturation, and then subsequently injected into the host cell during infection. The phiKZ_IP family consists of internal head proteins encoded by phiKZ-like phages. Each phage encodes three to six members of this family []. Members of the family reside in the head [] and are cleaved during phage maturation to separate an N-terminal propeptide from a C-terminal domain. The C-terminal domain remains in the mature capsid. The N-terminal propeptide domain is either mostly or completely removed from the mature capsid. In one case, an unrelated polypeptide is embedded in the propeptide and also remains in the mature capsid. The phiKZ-like IP proteins are not discernibly homologous to the T4 IP proteins, and it is not known if the phiKZ-like IP proteins are injected into the host cell, or have some other function within the head.
Probab=55.94 E-value=60 Score=25.73 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=42.9
Q ss_pred HHhhhhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 17 VQADWENR--EFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 17 iq~DW~nR--E~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~L 69 (85)
-.+||.++ +.-+.+-..|+++.+.|.++-..-.+-+..+.+|++.|.+++.-|
T Consensus 51 s~Edlk~~~k~~~~k~~e~i~kl~~~l~~~~~~~~~~~~~~~~r~~~L~~~~~~l 105 (339)
T PF12699_consen 51 SLEDLKERAKEAGKKIKEFIKKLIADLKDYAVKFMSGIERVEERIDKLQERAKKL 105 (339)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhh
Confidence 35677663 677788888899999999988888888888888888888888777
No 102
>PF04521 Viral_P18: ssRNA positive strand viral 18kD cysteine rich protein; InterPro: IPR007609 This family represents the 18kDa cysteine-rich protein from ssRNA positive strand viruses.
Probab=55.89 E-value=17 Score=26.05 Aligned_cols=25 Identities=44% Similarity=0.558 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 51 KLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-|..+|.+|+.||++.+.|=+++..
T Consensus 73 ~l~~~~~~L~~Le~r~e~Lk~~~~~ 97 (120)
T PF04521_consen 73 QLSDLNLELEKLERREEQLKTQIQV 97 (120)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 3678999999999999998875543
No 103
>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=55.71 E-value=26 Score=21.36 Aligned_cols=24 Identities=29% Similarity=0.552 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s 75 (85)
+.+|+.+|..++..++.++.+++.
T Consensus 6 ~~rL~Kel~kl~~~i~~~~~kL~n 29 (66)
T PF10458_consen 6 IERLEKELEKLEKEIERLEKKLSN 29 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC
Confidence 567888888888888888888764
No 104
>COG5036 SPX domain-containing protein involved in vacuolar polyphosphate accumulation [Inorganic ion transport and metabolism]
Probab=55.48 E-value=39 Score=29.27 Aligned_cols=50 Identities=22% Similarity=0.509 Sum_probs=39.9
Q ss_pred hHHHHHHHh-----hhhH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 11 VNVGIAVQA-----DWEN---REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 11 ~~v~~~iq~-----DW~n---RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
.++...+.+ .|.. -+|++.+-..+.+...| |.+|.+.+.+||..||.+..
T Consensus 23 e~LK~~lK~~~~~~~w~e~dEsdFVe~Ld~eLeKVY~F-------~~~k~~ev~erl~~leeq~~ 80 (509)
T COG5036 23 ENLKKLLKESEEEGSWSESDESDFVEELDKELEKVYGF-------QLSKYSEVMERLRTLEEQTD 80 (509)
T ss_pred HHHHHHHhhccccCCCcccchHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHhccH
Confidence 344444444 3654 47999999999999887 78999999999999999887
No 105
>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=55.38 E-value=48 Score=23.11 Aligned_cols=23 Identities=30% Similarity=0.564 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LE 70 (85)
+..++..++.++..||+++..|.
T Consensus 79 ~~~~~~~l~~~i~~Le~~l~~L~ 101 (134)
T cd04779 79 VAQEVQLVCDQIDGLEHRLKQLK 101 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555544443
No 106
>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=55.28 E-value=21 Score=22.22 Aligned_cols=20 Identities=30% Similarity=0.547 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHhhcccC
Q 034753 58 KLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 58 KL~~LEr~le~LEA~v~s~~ 77 (85)
+|..|++++..|..++.+..
T Consensus 33 ~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 33 QIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 34455555556666665544
No 107
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=54.97 E-value=23 Score=21.65 Aligned_cols=32 Identities=25% Similarity=0.326 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 44 FEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 44 Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.-..|..+|...+.||..|+.+|+-|.+....
T Consensus 34 ~~~~~~~~l~~s~~kI~~L~~~L~~l~~~~~~ 65 (70)
T PF02185_consen 34 VLSEAESQLRESNQKIELLREQLEKLQQRSQN 65 (70)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHCCHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC
Confidence 45678888888888999888888887766543
No 108
>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=54.61 E-value=40 Score=22.17 Aligned_cols=43 Identities=14% Similarity=0.127 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 33 NVRRLFEFLVQFE--ATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 33 ~I~~i~~FLN~Fd--~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.+..|.++|...+ .+|......++++++.|+.++.-|...++.
T Consensus 59 ~l~~I~~~l~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~ 103 (108)
T cd04773 59 LLEQIATVVEQLRHAGGTEALAAALEQRRVALTQRGRAMLDAAAA 103 (108)
T ss_pred CHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667777777664 235566677777777777777766665543
No 109
>PF04253 TFR_dimer: Transferrin receptor-like dimerisation domain; InterPro: IPR007365 This entry represents the dimerisation domain found in the transferrin receptor, as well as in a number of other proteins including glutamate carboxypeptidase II and N-acetylated-alpha-linked acidic dipeptidase like protein. The transferrin receptor (TfR) assists iron uptake into vertebrate cells through a cycle of endo- and exocytosis of the iron transport protein transferrin (Tf). TfR binds iron-loaded (diferric) Tf at the cell surface and carries it to the endosome, where the iron dissociates from Tf. The apo-Tf remains bound to TfR until it reaches the cell surface, where apo-Tf is replaced by diferric Tf from the serum to begin the cycle again. Human TfR is a homodimeric type II transmembrane protein. The crystal structure of a TfR monomer reveals a 3-domain structure: a protease-like domain that closely resembles carboxy- and amino-peptidases; an apical domain consisting of a beta-sandwich; and a helical dimerisation domain. The dimerisation domain consists of a 4-helical bundle that makes contact with each of the three domains in the dimer partner [].; PDB: 3FF3_A 3FEC_A 3FED_A 3FEE_A 3BXM_A 2C6P_A 1Z8L_C 3SJF_A 3BHX_A 2C6G_A ....
Probab=54.50 E-value=37 Score=22.48 Aligned_cols=36 Identities=17% Similarity=0.317 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHH
Q 034753 32 LNVRRLFEFLVQFE-----ATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd-----~scr~KLa~lneKL~~LEr~le 67 (85)
....+.-+...+++ .....++..+|.||..+||..-
T Consensus 16 ~aa~~f~~~~~~~~~~~~~~~~~~~~r~~N~~L~~~Er~Fl 56 (125)
T PF04253_consen 16 KAAKEFQEWIKSWDEIVGIEPDPLAVRRLNDRLMQFERAFL 56 (125)
T ss_dssp HHHHHHHHHHHHS------TT-HHHHHHHHHHHHHHHHCTB
T ss_pred HHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHHHHHh
Confidence 33344444455555 4555677778999999999653
No 110
>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=54.41 E-value=55 Score=21.59 Aligned_cols=38 Identities=16% Similarity=0.128 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.....+|.+-....+.++..|.+.++.|+..+..+++.
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~~~ 115 (116)
T cd04769 78 PHLQQALEDKKQEIRAQITELQQLLARLDAFEASLKDA 115 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 44567788888899999999999999999999888764
No 111
>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=54.32 E-value=61 Score=21.41 Aligned_cols=30 Identities=20% Similarity=0.310 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.|+.++..++.++..|+.++.-++.++...
T Consensus 78 ~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 78 TLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 336777777777777777777777766543
No 112
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=54.15 E-value=68 Score=27.53 Aligned_cols=64 Identities=11% Similarity=0.064 Sum_probs=40.0
Q ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH---HH---HHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 11 VNVGIAVQADWENREFISHISLNVRRLFEFLVQFEAT---TK---SKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 11 ~~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~s---cr---~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+++.-.|-.+.+++--...++..=.+..++=-+|+.- -. .++..+++||..||..+.-|++++.
T Consensus 52 ~~~~~vV~~~FddkVnqSALteqQ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql~ 121 (475)
T PRK13729 52 PDMTGVVDTTFDDKVRQHATTEMQVTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQVK 121 (475)
T ss_pred CCccceecchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 4444555556666555555555555555555555543 22 5666778888888888888888874
No 113
>PF10779 XhlA: Haemolysin XhlA; InterPro: IPR019715 Haemolysin XhlA is a cell-surface associated haemolysin that lyses the two most prevalent types of insect immune cells (granulocytes and plasmatocytes) as well as rabbit and horse erythrocytes [].
Probab=53.95 E-value=23 Score=21.94 Aligned_cols=22 Identities=18% Similarity=0.262 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 034753 52 LALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v 73 (85)
+..++.+....|.++.-+..++
T Consensus 22 i~~lE~~~~~~e~~i~~~~~~l 43 (71)
T PF10779_consen 22 IDKLEKRDAANEKDIKNLNKQL 43 (71)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333333
No 114
>PF03285 Paralemmin: Paralemmin; InterPro: IPR004965 Paralemmin was identified in the chicken lens as a protein with a molecular weight of 65 kDa (isoform 1) and a splice variant of 60 kDa (isoform 2). Isoform 2 is predominant during infancy and levels of isoform 1 increase with age. Paralemmin is localised to the plasma membrane of fibre cells, and was not detected in the annular pad cells. Its localisation to the short side of the fibre cell and the sites of fibre cell interlocking suggests that paralemmin may play a role in the development of such interdigitating processes []. Palmitoylation is important for localising these proteins to the filopodia of dendritic cells where they have been implicated in the regulation of membrane dynamics and process outgrowth. ; GO: 0008360 regulation of cell shape, 0016020 membrane
Probab=53.71 E-value=18 Score=28.81 Aligned_cols=33 Identities=30% Similarity=0.378 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
.|--.|++-+.+||+.++.||..-+-++++.++
T Consensus 10 qKtR~LEesI~RLEkEIe~LE~~es~iStKE~~ 42 (278)
T PF03285_consen 10 QKTRSLEESIHRLEKEIEALENGESQISTKEQL 42 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHhccCCccccccccc
Confidence 466679999999999999999988888876654
No 115
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=53.40 E-value=37 Score=23.88 Aligned_cols=25 Identities=32% Similarity=0.425 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.-+..|+.|++.||..|+-++.++.
T Consensus 35 ~EI~sL~~K~~~lE~eld~~~~~l~ 59 (143)
T PF12718_consen 35 QEITSLQKKNQQLEEELDKLEEQLK 59 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 116
>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=52.32 E-value=66 Score=27.23 Aligned_cols=44 Identities=18% Similarity=0.248 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
.+.+++++-...-..++..+..++..+|..++.|+.+++.+|.+
T Consensus 377 ~~~~~~~~~~~~~~~~~~~~~~~~~~~e~el~~l~~~l~~~~~~ 420 (650)
T TIGR03185 377 QLEVLIQQVKRELQDAKSQLLKELRELEEELAEVDKKISTIPSE 420 (650)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCh
Confidence 44445555444456778888888888888888888888888763
No 117
>PRK10093 primosomal replication protein N''; Provisional
Probab=52.32 E-value=76 Score=23.72 Aligned_cols=29 Identities=21% Similarity=0.196 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.+==...+.||++=.+-|.++|++++..|
T Consensus 142 q~el~alegRL~RCrqAl~~IE~~Ier~e 170 (171)
T PRK10093 142 HREVEAYEGRLARCRHALEKIENVLARLT 170 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 33334667777777777777787777655
No 118
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=52.29 E-value=26 Score=24.81 Aligned_cols=26 Identities=23% Similarity=0.362 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+.|+..|+-|+..||++.+.|+.++.
T Consensus 76 ~er~E~Le~ri~tLekQe~~l~e~l~ 101 (119)
T COG1382 76 EERKETLELRIKTLEKQEEKLQERLE 101 (119)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666665554
No 119
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=52.22 E-value=50 Score=20.75 Aligned_cols=27 Identities=26% Similarity=0.331 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.+.+||...+.|-..|++.|+-|+-++
T Consensus 29 ~~e~kLqeaE~rn~eL~~ei~~L~~e~ 55 (61)
T PF08826_consen 29 AFESKLQEAEKRNRELEQEIERLKKEM 55 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888888888887665
No 120
>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=52.21 E-value=62 Score=20.90 Aligned_cols=37 Identities=22% Similarity=0.376 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 38 FEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 38 ~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.+||.+=-...+.++..++..+..++.+++.|+..+.
T Consensus 89 ~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~ 125 (129)
T cd00890 89 IEFLKKRLETLEKQIEKLEKQLEKLQDQITELQEELQ 125 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555556666666666666666666666554
No 121
>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=52.09 E-value=66 Score=21.13 Aligned_cols=33 Identities=21% Similarity=0.120 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 38 FEFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 38 ~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.++|.+=-..-+.+++.|....+.|+..++..+
T Consensus 81 ~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~~ 113 (123)
T cd04770 81 RALLEEKLAEVEAKIAELQALRAELAGLLSACD 113 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 344444444556666666666666666554333
No 122
>cd04782 HTH_BltR Helix-Turn-Helix DNA binding domain of the BltR transcription regulator. Helix-turn-helix (HTH) multidrug-efflux transporter transcription regulator, BltR (BmrR-like transporter) of Bacillus subtilis, and related proteins; N-terminal domain. Blt, like Bmr, is a membrane protein which causes the efflux of a variety of toxic substances and antibiotics. These regulators are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. They share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=52.01 E-value=42 Score=21.60 Aligned_cols=38 Identities=13% Similarity=0.335 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 32 LNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
.++..|-++++.. ++......|.+++..|+.+++.|+.
T Consensus 58 ~~l~eI~~~l~~~--~~~~~~~~l~~~~~~l~~~i~~l~~ 95 (97)
T cd04782 58 ISLKEIKDYLDNR--NPDELIELLKKQEKEIKEEIEELQK 95 (97)
T ss_pred CCHHHHHHHHhcC--CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566777777653 4456667788888888888877764
No 123
>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=51.70 E-value=42 Score=23.42 Aligned_cols=42 Identities=21% Similarity=0.237 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHH----HH-------HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 33 NVRRLFEFLVQFEA----TT-------KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~----sc-------r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
++..|.+|++.+.. .| ..++..+.+|+..|++....|+..+.
T Consensus 59 sL~eI~~~l~~~~~~~~~~~~~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~ 111 (142)
T TIGR01950 59 PLATIGEALAVLPEGRTPTADDWARLSSQWREELDERIDQLNALRDQLDGCIG 111 (142)
T ss_pred CHHHHHHHHHhcccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 66778888875431 12 45677788888888888888887776
No 124
>PF05549 Allexi_40kDa: Allexivirus 40kDa protein; InterPro: IPR008398 This family of sequences contains the 40 kDa polypeptides from garlic viruses (Allexiviruses), which do not resemble any other plant virus gene products reported so far []. Rod-shaped flexuous viruses have been isolated from garlic plants, Allium sativum. Infection by this virus creates typical mosaic symptoms. The core-like sequence of a zinc finger protein preceded by a cluster of basic amino acid residues shows similarities to the corresponding 12K proteins of the potexviruses and carlaviruses []. Viral epidemics by allexiviruses are also known to be caused by aphids and eriophyid mites (Aceria tulipae) carrying Potyviruses, Carlaviruses, and Allexiviruses [].
Probab=51.57 E-value=1e+02 Score=24.83 Aligned_cols=32 Identities=28% Similarity=0.429 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
+||+.++.+|+.|-.+++.|=..+...++.|+
T Consensus 118 ~~l~~iet~L~~lh~kld~l~~~~~~~~~~P~ 149 (271)
T PF05549_consen 118 KKLASIETSLESLHIKLDELISSLTSNPAGPS 149 (271)
T ss_pred HHHHHHHhHHHHHHHHHHHHHhccccCCCCCC
Confidence 44555555555555555555555555555554
No 125
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=51.39 E-value=51 Score=23.26 Aligned_cols=37 Identities=16% Similarity=0.277 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q 034753 30 ISLNVRRLFEFLVQFE----ATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd----~scr~KLa~lneKL~~LEr~l 66 (85)
+..-|..+.+=++-|. ...+.|+..|++++..||.++
T Consensus 66 ~~r~i~~ml~~~~~~r~~~~~~l~~rvd~Lerqv~~Lenk~ 106 (108)
T COG3937 66 IPRKIEEMLSDLEVARQSEMDELTERVDALERQVADLENKL 106 (108)
T ss_pred hhHHHHHHHhhccccccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555555555555444 455566666666666665543
No 126
>PRK10884 SH3 domain-containing protein; Provisional
Probab=51.00 E-value=1e+02 Score=23.10 Aligned_cols=28 Identities=14% Similarity=0.248 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-+.+.++|+++|+.+..+++.||+++..
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~~~~~~ 164 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAANLQLDD 164 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666677777777777777766543
No 127
>COG4064 MtrG Tetrahydromethanopterin S-methyltransferase, subunit G [Coenzyme metabolism]
Probab=50.92 E-value=27 Score=23.30 Aligned_cols=23 Identities=22% Similarity=0.476 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034753 52 LALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~ 74 (85)
+..++.||+.+|+++|+.-+.|.
T Consensus 17 fne~~kRLdeieekvef~~~Ev~ 39 (75)
T COG4064 17 FNEIHKRLDEIEEKVEFVNGEVY 39 (75)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHH
Confidence 45678999999999998877664
No 128
>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=50.79 E-value=1.4e+02 Score=24.50 Aligned_cols=33 Identities=12% Similarity=0.158 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
...+.++..++.++..|++++..|+.++....+
T Consensus 141 ~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~l~~ 173 (525)
T TIGR02231 141 ERLLTEDREAERRIRELEKQLSELQNELNALLT 173 (525)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 445566677788888888888888888766554
No 129
>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=50.01 E-value=46 Score=21.72 Aligned_cols=29 Identities=24% Similarity=0.353 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
....++..++.++..|+.++++|+.++..
T Consensus 67 ~Le~~~e~le~~i~~l~~~~~~l~~~~~e 95 (105)
T cd00632 67 ELKERLETIELRIKRLERQEEDLQEKLKE 95 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666666543
No 130
>PRK02793 phi X174 lysis protein; Provisional
Probab=49.96 E-value=27 Score=22.15 Aligned_cols=9 Identities=44% Similarity=0.671 Sum_probs=3.4
Q ss_pred HHHHHHHHH
Q 034753 51 KLALLNEKL 59 (85)
Q Consensus 51 KLa~lneKL 59 (85)
||..|+.||
T Consensus 9 Ri~~LE~~l 17 (72)
T PRK02793 9 RLAELESRL 17 (72)
T ss_pred HHHHHHHHH
Confidence 333333333
No 131
>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=49.93 E-value=32 Score=22.27 Aligned_cols=31 Identities=19% Similarity=0.290 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 37 LFEFLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 37 i~~FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
=.++|..--...+..+..++.+++.|+..|.
T Consensus 95 r~~~l~~~~~~l~~~~~~~~~~~~~l~~~l~ 125 (129)
T cd00890 95 RLETLEKQIEKLEKQLEKLQDQITELQEELQ 125 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444555555555555555443
No 132
>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=49.75 E-value=15 Score=31.35 Aligned_cols=47 Identities=30% Similarity=0.415 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
|++.+....=+++-|..+.-..+..+. ||+.|+++|+-|++++....
T Consensus 5 ~~l~l~aall~~s~~~~a~~~~~~~~q-kie~L~kql~~Lk~q~~~l~ 51 (489)
T PF11853_consen 5 ISLSLAAALLFLSLPAAAMADDIDLLQ-KIEALKKQLEELKAQQDDLN 51 (489)
T ss_pred HHHHHHHHHHHhccchhhhhhhhHHHH-HHHHHHHHHHHHHHhhcccc
Confidence 333443333455556555566666666 99999999999999987543
No 133
>TIGR02169 SMC_prok_A chromosome segregation protein SMC, primarily archaeal type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. It is found in a single copy and is homodimeric in prokaryotes, but six paralogs (excluded from this family) are found in eukarotes, where SMC proteins are heterodimeric. This family represents the SMC protein of archaea and a few bacteria (Aquifex, Synechocystis, etc); the SMC of other bacteria is described by TIGR02168. The N- and C-terminal domains of this protein are well conserved, but the central hinge region is skewed in composition and highly divergent.
Probab=49.34 E-value=61 Score=27.91 Aligned_cols=48 Identities=21% Similarity=0.275 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
|+|++.|. .+..|..+.+ .+..+|.++++.+..|+.++..|+.++..+
T Consensus 156 ~~~~~~~~----g~~~~~~~~~-~~~~~l~~~~~~l~el~~~~~~L~~q~~~l 203 (1164)
T TIGR02169 156 RKIIDEIA----GVAEFDRKKE-KALEELEEVEENIERLDLIIDEKRQQLERL 203 (1164)
T ss_pred HHHHHHHh----CHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44554433 3666666655 667788888888888888888888776543
No 134
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=48.96 E-value=50 Score=19.28 Aligned_cols=27 Identities=22% Similarity=0.330 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
-+.+...|..+++.|+.....|+.+++
T Consensus 23 kk~~~~~le~~~~~L~~en~~L~~~i~ 49 (54)
T PF07716_consen 23 KKQREEELEQEVQELEEENEQLRQEIA 49 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677777777777777766654
No 135
>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=48.87 E-value=41 Score=21.69 Aligned_cols=25 Identities=36% Similarity=0.612 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v 73 (85)
..|+..+++++..++.++..+++++
T Consensus 83 ~~r~~~l~~~~~~l~~~~~~~~~~~ 107 (120)
T PF02996_consen 83 KKRIKELEEQLEKLEKELAELQAQI 107 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444443
No 136
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=48.76 E-value=1.2e+02 Score=24.95 Aligned_cols=29 Identities=7% Similarity=0.155 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
..+-..++.++++++..+|++|+.+|.++
T Consensus 408 ~~~l~~~i~~l~~~i~~~~~rl~~~e~rl 436 (462)
T PRK08032 408 TDGVNKTLKKLTKQYNAVSDSIDATIARY 436 (462)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555555555555555443
No 137
>PF00517 GP41: Retroviral envelope protein; InterPro: IPR000328 This entry represents envelope proteins from a variety of retroviruses. It includes the GP41 subunit of the envelope protein complex from Human immunodeficiency virus (HIV) and Simian-Human immunodeficiency virus (SIV), which mediate membrane fusion during viral entry []. It has a core composed of a six-helix bundle and is folded by its trimeric N- and C-terminal heptad-repeats (NHR and CHR) []. Derivatives of this protein prevent HIV-1 from entering cell lines and primary human CD4+ cells in vitro [], making it an attractive subject of gene therapy studies against HIV and related retroviruses. The entry also represents envelop proteins from Bovine immunodeficiency virus, Feline immunodeficiency virus and Equine infectious anemia virus (EIAV) [, ], as well as the Gp36 protein from Mouse mammary tumor virus (MMTV) and Human endogenous retrovirus (HERV).; GO: 0005198 structural molecule activity, 0019031 viral envelope; PDB: 2EZO_B 2EZQ_B 2EZR_A 2JNR_B 1F23_D 2EZP_A 1JEK_A 2Q7C_A 2Q5U_A 2Q3I_A ....
Probab=48.33 E-value=1.1e+02 Score=22.64 Aligned_cols=51 Identities=12% Similarity=0.108 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 23 NREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 23 nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.|+++..+..+..++.+=....+..-+.++--+++.+..|.+++..||..+
T Consensus 12 ~~~~l~~i~q~~~~ll~~~e~~~~lL~l~v~gik~~V~~L~aRV~alE~~l 62 (204)
T PF00517_consen 12 SAQLLNGIVQQQSNLLRAQEAQQHLLQLTVWGIKQGVKQLQARVLALERYL 62 (204)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhHHHHHHHh
Confidence 478889999999999888888888888777766666666666666666554
No 138
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=48.03 E-value=1.1e+02 Score=24.27 Aligned_cols=27 Identities=15% Similarity=0.418 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 51 KLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
|+..--+||+.|-++++-++|||..+-
T Consensus 44 Rv~~~~~~l~~i~~Ri~~~qaKi~~l~ 70 (297)
T PF11945_consen 44 RVERNRERLQAIQQRIEVAQAKIEKLQ 70 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444444444555555555555554443
No 139
>PRK14127 cell division protein GpsB; Provisional
Probab=48.00 E-value=91 Score=21.58 Aligned_cols=29 Identities=17% Similarity=0.284 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
..+..|.+++..|+.+|+-++++++...+
T Consensus 44 ~e~~~Lk~e~~~l~~~l~e~~~~~~~~~~ 72 (109)
T PRK14127 44 KEIEELQQENARLKAQVDELTKQVSVGAS 72 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccccc
Confidence 46788999999999999999999886543
No 140
>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=47.83 E-value=32 Score=21.59 Aligned_cols=24 Identities=25% Similarity=0.426 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s 75 (85)
+..|++++..||..+.-+|+.+.+
T Consensus 23 v~EL~~RIa~L~aEI~R~~~~~~~ 46 (59)
T PF06698_consen 23 VEELEERIALLEAEIARLEAAIAK 46 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467888999999988888887764
No 141
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=47.66 E-value=36 Score=21.79 Aligned_cols=22 Identities=36% Similarity=0.516 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHh
Q 034753 51 KLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~ 72 (85)
++..|+++|+.||.++.-++++
T Consensus 71 ~~~~l~~~l~~l~~~~~~~~~~ 92 (104)
T PF13600_consen 71 ELKELEEELEALEDELAALQDE 92 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444333
No 142
>PF13015 PRKCSH_1: Glucosidase II beta subunit-like protein
Probab=47.54 E-value=25 Score=25.34 Aligned_cols=30 Identities=20% Similarity=0.298 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
+..|..++++|+.|+.++..+|..+..--+
T Consensus 2 ~~~~~~~e~~~~~l~~~i~~~~~~l~~dyG 31 (154)
T PF13015_consen 2 EKEIDEAERKLSDLESKIRELEDDLNKDYG 31 (154)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhhcccC
Confidence 356778888888888888888888765444
No 143
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=47.07 E-value=35 Score=22.91 Aligned_cols=8 Identities=13% Similarity=0.758 Sum_probs=3.5
Q ss_pred hhhHHHHH
Q 034753 20 DWENREFI 27 (85)
Q Consensus 20 DW~nRE~i 27 (85)
++.-.||.
T Consensus 22 e~~~~E~~ 29 (83)
T PF03670_consen 22 EFDEEEYA 29 (83)
T ss_pred cccHHHHH
Confidence 34444543
No 144
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=46.84 E-value=1.2e+02 Score=22.54 Aligned_cols=25 Identities=16% Similarity=0.441 Sum_probs=12.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v 73 (85)
..|....+.+...||++++-||..+
T Consensus 189 E~Rae~aE~~v~~Le~~id~le~eL 213 (237)
T PF00261_consen 189 ENRAEFAERRVKKLEKEIDRLEDEL 213 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444455555555555555444
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=46.78 E-value=54 Score=24.18 Aligned_cols=30 Identities=27% Similarity=0.382 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 44 FEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 44 Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
...+-..++..+++++..+|++|+-.|+++
T Consensus 194 ~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l 223 (239)
T PF07195_consen 194 RIDSLNSQIKSLDKQIEDLEERLESKEERL 223 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445666666666777776666666554
No 146
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=46.59 E-value=37 Score=25.23 Aligned_cols=49 Identities=20% Similarity=0.386 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 27 ISHISLNVRRLFEFLVQFE-----ATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 27 ie~Is~~I~~i~~FLN~Fd-----~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
++.......++-++|.+=+ ..-+.+|.+....|+.++.++.+|+.+|+-
T Consensus 141 l~~l~~~~~rl~~ll~ka~~~~d~l~ie~~L~~v~~eIe~~~~~~~~l~~~v~~ 194 (262)
T PF14257_consen 141 LKNLEAEEERLLELLEKAKTVEDLLEIERELSRVRSEIEQLEGQLKYLDDRVDY 194 (262)
T ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhce
Confidence 3344444455555554222 134567777777788888888888887764
No 147
>PF11945 WASH_WAHD: WAHD domain of WASH complex; InterPro: IPR021854 This entry represents a component of the WASH complex. The WASH complex is present at the surface of endosomes and recruits and activates the Arp2/3 complex to induce actin polymerisation. The WASH complex plays a key role in the fission of tubules that serve as transport intermediates during endosome sorting []. The WASH complex's subunit structure: F-actin-capping protein subunit alpha (CAPZA1, CAPZA2 or CAPZA3), F-actin-capping protein subunit beta (CAPZB), WASH (WASH1, WASH2P, WASH3P, WASH4P, WASH5P or WASH6P), FAM21 (FAM21A, FAM21B or FAM21C), KIAA1033, KIAA0196 (strumpellin) and CCDC53. This entry represents the WASH subunit of the WASH complex. WASH genes duplicated to multiple chromosomal ends during primate evolution, with highest copy number reached in humans, whose WASH repertoires probably vary extensively among individuals []. It is therefore difficult to determine which gene is functional or not. The telomeric region of chromosome 9p is paralogous to the pericentromeric regions of chromosome 9 as well as to 2q. Paralogous regions contain 7 transcriptional units. Duplicated WASH genes are also present in the Xq/Yq pseudoautosomal region, as well as on chromosome 1 and 15. The chromosome 16 copy seems to be a pseudogene.
Probab=46.28 E-value=1.3e+02 Score=23.98 Aligned_cols=25 Identities=12% Similarity=0.461 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LE 70 (85)
..-|.||+.+++|+..++++++.|=
T Consensus 46 ~~~~~~l~~i~~Ri~~~qaKi~~l~ 70 (297)
T PF11945_consen 46 ERNRERLQAIQQRIEVAQAKIEKLQ 70 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3568999999999999999999774
No 148
>PF08393 DHC_N2: Dynein heavy chain, N-terminal region 2; InterPro: IPR013602 Dyneins are described as motor proteins of eukaryotic cells, as they can convert energy derived from the hydrolysis of ATP to force and movement along cytoskeletal polymers, such as microtubules. Dyneins generally contain one to three heavy chains, where each heavy chain consists of a C-terminal globular head, a flexible microtubule-binding stalk, and a flexible N-terminal tail known as the cargo-binding domain []. The two categories of dyneins are the axonemal dyneins, which produce the bending motions that propagate along cilia and flagella, and the cytosolic dyneins, which drive a variety of fundamental cellular processes including nuclear migration, organisation of the mitotic spindle, chromosome separation during mitosis, and the positioning and function of many intracellular organelles. Cytoplasmic dyneins contain several accessory subunits ranging from light to intermediate chains. This entry represents a region found C-terminal to the dynein heavy chain N-terminal region 1 (IPR013594 from INTERPRO) in many members of this family. No functions seem to have been attributed specifically to this region. ; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.
Probab=45.97 E-value=22 Score=27.55 Aligned_cols=31 Identities=26% Similarity=0.375 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHhhccc
Q 034753 46 ATTKSKLALLNEKLDTLERRLE-LLEVQVGTA 76 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le-~LEA~v~s~ 76 (85)
..+...|..+++.|..++++|. |||.+=..-
T Consensus 280 ~~~~~~l~~~~~~l~~i~k~L~~~Le~kR~~F 311 (408)
T PF08393_consen 280 PDLLEKLESINESLEKIQKSLNDYLESKREAF 311 (408)
T ss_dssp TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred hhHHHHHHHHHHHHHHHHHHHhHHHHHHHhhc
Confidence 4578999999999999999996 888874433
No 149
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=45.45 E-value=49 Score=21.17 Aligned_cols=25 Identities=28% Similarity=0.549 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v 73 (85)
+.+|..++.++..++.++..+++++
T Consensus 76 ~~~l~~l~~~~~~~~~~~~~~~~~~ 100 (104)
T PF13600_consen 76 EEELEALEDELAALQDEIQALEAQI 100 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555555444
No 150
>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=45.41 E-value=21 Score=22.36 Aligned_cols=21 Identities=14% Similarity=0.338 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 034753 52 LALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~ 72 (85)
+..++.++.++|..++.++..
T Consensus 2 i~elEn~~~~~~~~i~tvk~e 22 (55)
T PF05377_consen 2 IDELENELPRIESSINTVKKE 22 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444443
No 151
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=45.14 E-value=35 Score=24.30 Aligned_cols=26 Identities=46% Similarity=0.565 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 51 KLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
|=+.+|+|++++|..++-+....++.
T Consensus 67 kwaKl~Rk~~kl~~el~~~~~~~~~~ 92 (161)
T PF04420_consen 67 KWAKLNRKLDKLEEELEKLNKSLSSE 92 (161)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56678889999998888887776653
No 152
>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=45.02 E-value=52 Score=21.14 Aligned_cols=39 Identities=23% Similarity=0.318 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 33 NVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.|..|-..+..++ ....+.|.+++..|+.++..|++...
T Consensus 59 ~l~~i~~~~~~~~---~~~~~~l~~~~~~l~~~i~~l~~~~~ 97 (103)
T cd01106 59 SLKEIKELLKDPS---EDLLEALREQKELLEEKKERLDKLIK 97 (103)
T ss_pred CHHHHHHHHHcCc---HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555543 44455555566666666555555443
No 153
>PF06705 SF-assemblin: SF-assemblin/beta giardin
Probab=45.00 E-value=1.1e+02 Score=22.74 Aligned_cols=36 Identities=28% Similarity=0.422 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
++.+++...-..|...++..++.|..++.-|+..|.
T Consensus 74 ~~~~~v~~~~~~~~~~~~~~l~~L~~ri~~L~~~i~ 109 (247)
T PF06705_consen 74 NMQERVENQISEKQEQLQSRLDSLNDRIEALEEEIQ 109 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555556666666666666666655543
No 154
>TIGR01834 PHA_synth_III_E poly(R)-hydroxyalkanoic acid synthase, class III, PhaE subunit. This model represents the PhaE subunit of the heterodimeric class (class III) of polymerase for poly(R)-hydroxyalkanoic acids (PHAs), carbon and energy storage polymers of many bacteria. The most common PHA is polyhydroxybutyrate but about 150 different constituent hydroxyalkanoic acids (HAs) have been identified in various species. This model must be designated subfamily to indicate the heterogeneity of PHAs.
Probab=44.83 E-value=27 Score=28.35 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..-.||..|+.++..|++.|..||++++
T Consensus 293 e~~krL~ELrR~vr~L~k~l~~l~~~~~ 320 (320)
T TIGR01834 293 EAHQRIQQLRREVKSLKKRLGDLEANPG 320 (320)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 4457899999999999999999998763
No 155
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=44.78 E-value=34 Score=20.22 Aligned_cols=20 Identities=30% Similarity=0.559 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le 67 (85)
.+.++.+++.++..+|++++
T Consensus 46 ~r~~~~~~~k~l~~le~e~~ 65 (68)
T PF06305_consen 46 LRRRIRRLRKELKKLEKELE 65 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 34444455555555555443
No 156
>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=44.77 E-value=1.1e+02 Score=21.92 Aligned_cols=44 Identities=16% Similarity=0.265 Sum_probs=28.8
Q ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 33 NVRRLFEFLVQ----FEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 33 ~I~~i~~FLN~----Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
++..|-.+|+. ....-+.+++.+++++..|......|+..+...
T Consensus 60 sL~eI~~ll~~~~~~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~ 107 (172)
T cd04790 60 SLEDIRSLLQQPGDDATDVLRRRLAELNREIQRLRQQQRAIATLLKQP 107 (172)
T ss_pred CHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555542 223456788888888888888888888776543
No 157
>PRK15471 chain length determinant protein WzzB; Provisional
Probab=44.64 E-value=1.6e+02 Score=23.44 Aligned_cols=38 Identities=16% Similarity=0.280 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLE 63 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LE 63 (85)
++||.+++..+.+-. .+++...-..|...+.++++..|
T Consensus 149 ~~YI~fv~~~v~~~l--~~~i~~~i~~~~~~l~~~~~~~~ 186 (325)
T PRK15471 149 AQYIQQVDDQVAKEL--EKDLKDNIALRTKTLQDSLETQE 186 (325)
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 579999988877644 47777777778888887777766
No 158
>cd04781 HTH_MerR-like_sg6 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 6) with at least two conserved cysteines present in the C-terminal portion of the protein. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, an
Probab=44.63 E-value=92 Score=20.64 Aligned_cols=29 Identities=28% Similarity=0.287 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..-..+++.+++++..|++..++|+..+.
T Consensus 77 ~~l~~~~~~l~~~i~~l~~~~~~L~~~~~ 105 (120)
T cd04781 77 QLLKAKAAELDQQIQRLQAMRELLRHVAQ 105 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34567889999999999999999998775
No 159
>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=44.29 E-value=78 Score=21.63 Aligned_cols=44 Identities=25% Similarity=0.388 Sum_probs=27.7
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhh
Q 034753 19 ADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDT----LERRLELLEVQV 73 (85)
Q Consensus 19 ~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~----LEr~le~LEA~v 73 (85)
.-|..||=.+-=.- |-..-+.+|..|.+||.. -+.+|+-||..+
T Consensus 52 ~~f~krE~A~E~~Y-----------~r~~EkEqL~~Lk~kl~~e~~~~~k~i~~le~~I 99 (100)
T PF04568_consen 52 GAFGKREAAQEEQY-----------FRKKEKEQLKKLKEKLKEEIEHHRKEIDELEKHI 99 (100)
T ss_dssp HHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CccchHHHhhHHHH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45777776553211 333456677777777777 777777777665
No 160
>cd04768 HTH_BmrR-like Helix-Turn-Helix DNA binding domain of BmrR-like transcription regulators. Helix-turn-helix (HTH) BmrR-like transcription regulators (TipAL, Mta, SkgA, BmrR, and BltR), N-terminal domain. These proteins have been shown to regulate expression of specific regulons in response to various toxic substances, antibiotics, or oxygen radicals in Bacillus subtilis, Streptomyces, and Caulobacter crescentus. They are comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain HTH motifs that mediate DNA binding, while the C-terminal domains are often unrelated and bind specific coactivator molecules. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements.
Probab=43.51 E-value=61 Score=20.79 Aligned_cols=36 Identities=19% Similarity=0.287 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 33 NVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
.+..|.++++.- +......|++++..|+++++-|+.
T Consensus 59 ~l~~I~~~l~~~---~~~~~~~l~~~~~~l~~~i~~l~~ 94 (96)
T cd04768 59 SLAEIKELLDTE---MEELTAMLLEKKQAIQQKIDRLQQ 94 (96)
T ss_pred CHHHHHHHHhcC---cHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456666666543 236677788888888888887764
No 161
>PF11690 DUF3287: Protein of unknown function (DUF3287); InterPro: IPR021704 This eukaryotic family of proteins has no known function.
Probab=43.27 E-value=29 Score=24.28 Aligned_cols=24 Identities=29% Similarity=0.434 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHH--HHHHHHHHHh
Q 034753 49 KSKLALLNEKLDTL--ERRLELLEVQ 72 (85)
Q Consensus 49 r~KLa~lneKL~~L--Er~le~LEA~ 72 (85)
+.+.+.|-.|++.| ||+|..||+.
T Consensus 55 ~~e~r~L~kKi~~l~veRkmr~Les~ 80 (109)
T PF11690_consen 55 CDERRKLRKKIQDLRVERKMRALESH 80 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 34567888888888 9999999863
No 162
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=43.01 E-value=1.1e+02 Score=22.38 Aligned_cols=42 Identities=19% Similarity=0.361 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
|+++.-++-+-|-.=..+....+..++.++..++++|+-|-+
T Consensus 75 ~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~ 116 (131)
T KOG1760|consen 75 IHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKK 116 (131)
T ss_pred eeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555666666666666666666666665443
No 163
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=42.76 E-value=44 Score=22.30 Aligned_cols=23 Identities=17% Similarity=0.450 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034753 52 LALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~ 74 (85)
+..+.+||+.+|.++|+-=+.+.
T Consensus 17 ~~~i~~rLD~iEeKVEftn~Ei~ 39 (77)
T PRK01026 17 FKEIQKRLDEIEEKVEFTNAEIF 39 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56789999999999998776654
No 164
>COG0732 HsdS Restriction endonuclease S subunits [Defense mechanisms]
Probab=42.56 E-value=89 Score=22.70 Aligned_cols=39 Identities=15% Similarity=0.257 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 34 VRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 34 I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.++++++|.+++.-|...... .+++..+|..++++-.++
T Consensus 349 Q~~i~~~l~~l~~~i~~~~~~-~~~~~~~~~~~~~~l~~l 387 (391)
T COG0732 349 QQKIAEILSALDKLIDILNRK-PAELEALKKQLDYLLNKL 387 (391)
T ss_pred HHHHHHHHHHHHHHHHHhhcc-HHHHHHHHHHHHHHHHHh
Confidence 467888888888777666665 668888888887766554
No 165
>PF04533 Herpes_U44: Herpes virus U44 protein; InterPro: IPR007619 This entry represents proteins from dsDNA beta-herpesvirinae and gamma-herpesvirinae viruses. The function is not known, and the proteins are named variously as U44, BSRF1, UL71, and M71. The entry also includes BSRF1.
Probab=42.24 E-value=1.6e+02 Score=22.82 Aligned_cols=57 Identities=18% Similarity=0.333 Sum_probs=35.8
Q ss_pred hhHHHHHHHhhhhHHHHHH---HHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHH
Q 034753 10 AVNVGIAVQADWENREFIS---HISLNVRRLFEFLVQFEA-----TTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 10 ~~~v~~~iq~DW~nRE~ie---~Is~~I~~i~~FLN~Fd~-----scr~KLa~lneKL~~LEr~le 67 (85)
.|.++.-+|-+=++ |-+. .+...-..+++||.+|+. +||.=...=..||+.+=.-|+
T Consensus 48 GV~~gDl~~~~~d~-e~l~q~~LLalQ~n~~~~~L~Rf~~~~cp~h~r~~ve~ei~Klk~I~~vi~ 112 (210)
T PF04533_consen 48 GVTVGDLLQNERDT-EVLKQAHLLALQCNNITDYLKRFLSAKCPPHCRPAVETEIQKLKRIQEVIW 112 (210)
T ss_pred CCCHHHHHHhcccH-HHHHHHHHHHHHHHHHHHHHHHhhhccCChhhHHHHHHHHHHHHHHHHHHH
Confidence 44555555544332 2333 566678899999999998 777766666666665544443
No 166
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=42.20 E-value=46 Score=21.89 Aligned_cols=23 Identities=22% Similarity=0.478 Sum_probs=18.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034753 52 LALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~ 74 (85)
+..+.+||+.+|.++|+-=+.+.
T Consensus 14 ~~~i~~rLd~iEeKVEf~~~E~~ 36 (70)
T TIGR01149 14 FNEVMKRLDEIEEKVEFVNGEVA 36 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788999999999998777654
No 167
>PF15205 PLAC9: Placenta-specific protein 9
Probab=42.15 E-value=45 Score=22.17 Aligned_cols=24 Identities=33% Similarity=0.562 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.+||..++++ +|..+|-||+.|++
T Consensus 24 ~~RLdviEe~---veKTVEhLeaEvk~ 47 (74)
T PF15205_consen 24 HSRLDVIEET---VEKTVEHLEAEVKG 47 (74)
T ss_pred HHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 3445555543 35667789998875
No 168
>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=42.12 E-value=59 Score=21.15 Aligned_cols=22 Identities=23% Similarity=0.397 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 034753 50 SKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA 71 (85)
.|+..+++++..|++..+.|+.
T Consensus 78 ~~~~~l~~~i~~l~~~~~~l~~ 99 (102)
T cd04789 78 ERLSSLAEQIARKQQARDLLAA 99 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555544
No 169
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=41.93 E-value=85 Score=19.51 Aligned_cols=33 Identities=27% Similarity=0.483 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 40 FLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 40 FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.|.+.+..++.|...|.+++..+|..+.-|..-
T Consensus 62 ll~~l~~~~~~~~~~l~~q~~~l~~~l~~l~~~ 94 (127)
T smart00502 62 LLEDLEEQKENKLKVLEQQLESLTQKQEKLSHA 94 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677788888888888887777777655443
No 170
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=41.76 E-value=28 Score=24.28 Aligned_cols=21 Identities=24% Similarity=0.393 Sum_probs=16.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le 67 (85)
.-+.+|.++++||+.+|+-+.
T Consensus 88 ~~~~~~~~~e~Rl~~mE~yVT 108 (121)
T TIGR02978 88 EVKREFRDLERRLRNMERYVT 108 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 346788888888888888654
No 171
>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=41.75 E-value=38 Score=27.18 Aligned_cols=27 Identities=41% Similarity=0.539 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
|...+..+++++..|+.+++-|++++.
T Consensus 240 ~~~~~~~l~~~~~~~~~~i~~l~~~l~ 266 (406)
T PF02388_consen 240 GKEYLESLQEKLEKLEKEIEKLEEKLE 266 (406)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455555566666666665555555543
No 172
>PRK08453 fliD flagellar capping protein; Validated
Probab=41.64 E-value=1.7e+02 Score=26.11 Aligned_cols=49 Identities=6% Similarity=0.185 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 28 SHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 28 e~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
+.++..++++-+-..+++..-..|-++|..+...+|..|--|-++.+++
T Consensus 624 ~sL~~q~k~L~~q~~~~e~rL~~ry~rl~~qFsAmDs~IsqmNsq~~~~ 672 (673)
T PRK08453 624 DSLTRDAKSLTKDKENAQELLKTRYDIMAERFAAYDSQISKANQKFNSV 672 (673)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Confidence 4577777777777777777777777777777777777777777766554
No 173
>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=41.15 E-value=1.1e+02 Score=20.50 Aligned_cols=28 Identities=14% Similarity=0.188 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-+.+++.+++++..|+..++.|+..+..
T Consensus 85 l~~~~~~l~~~~~~l~~~~~~L~~~~~~ 112 (118)
T cd04776 85 IEKRRAELEQQRRDIDAALAELDAAEER 112 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666666666655543
No 174
>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=40.81 E-value=51 Score=19.01 Aligned_cols=20 Identities=30% Similarity=0.429 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034753 51 KLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LE 70 (85)
=|-+++.||+.|..+++-|-
T Consensus 16 LL~R~E~kld~L~~~i~~L~ 35 (38)
T PF12841_consen 16 LLVRIEKKLDELTESINELS 35 (38)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 35566666666666666554
No 175
>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional
Probab=40.63 E-value=1.8e+02 Score=24.04 Aligned_cols=38 Identities=24% Similarity=0.261 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 41 LVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 41 LN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
|.+--..-..++..++.+++.++.++..|+.++.+.++
T Consensus 90 l~~~~~~~~~~l~~~e~~~~~l~~q~~~Lq~~~~~ls~ 127 (390)
T PRK10920 90 LEGILKQQAKALDQANRQQAALAKQLDELQQKVATISG 127 (390)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 44444456678888888999999999999999987653
No 176
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=40.10 E-value=32 Score=24.16 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le 67 (85)
.-+.+|.++++||+.+|+-+.
T Consensus 85 ~~~~~~~~~e~Rlr~mE~yVT 105 (118)
T PRK10697 85 EVDRELAAGEQRLREMERYVT 105 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 456788888888888888654
No 177
>PF14084 DUF4264: Protein of unknown function (DUF4264)
Probab=39.96 E-value=16 Score=22.68 Aligned_cols=10 Identities=20% Similarity=0.587 Sum_probs=8.4
Q ss_pred HHHHHHHHHH
Q 034753 34 VRRLFEFLVQ 43 (85)
Q Consensus 34 I~~i~~FLN~ 43 (85)
+-+++||||+
T Consensus 16 lYKvVDfLNk 25 (52)
T PF14084_consen 16 LYKVVDFLNK 25 (52)
T ss_pred HHHHHHHHhh
Confidence 5689999997
No 178
>PF03520 KCNQ_channel: KCNQ voltage-gated potassium channel; InterPro: IPR013821 Potassium channels are the most diverse group of the ion channel family [, ]. They are important in shaping the action potential, and in neuronal excitability and plasticity []. The potassium channel family is composed of several functionally distinct isoforms, which can be broadly separated into 2 groups []: the practically non-inactivating 'delayed' group and the rapidly inactivating 'transient' group. These are all highly similar proteins, with only small amino acid changes causing the diversity of the voltage-dependent gating mechanism, channel conductance and toxin binding properties. Each type of K+ channel is activated by different signals and conditions depending on their type of regulation: some open in response to depolarisation of the plasma membrane; others in response to hyperpolarisation or an increase in intracellular calcium concentration; some can be regulated by binding of a transmitter, together with intracellular kinases; while others are regulated by GTP-binding proteins or other second messengers []. In eukaryotic cells, K+ channels are involved in neural signalling and generation of the cardiac rhythm, act as effectors in signal transduction pathways involving G protein-coupled receptors (GPCRs) and may have a role in target cell lysis by cytotoxic T-lymphocytes []. In prokaryotic cells, they play a role in the maintenance of ionic homeostasis []. All K+ channels discovered so far possess a core of alpha subunits, each comprising either one or two copies of a highly conserved pore loop domain (P-domain). The P-domain contains the sequence (T/SxxTxGxG), which has been termed the K+ selectivity sequence. In families that contain one P-domain, four subunits assemble to form a selective pathway for K+ across the membrane. However, it remains unclear how the 2 P-domain subunits assemble to form a selective pore. The functional diversity of these families can arise through homo- or hetero-associations of alpha subunits or association with auxiliary cytoplasmic beta subunits. K+ channel subunits containing one pore domain can be assigned into one of two superfamilies: those that possess six transmembrane (TM) domains and those that possess only two TM domains. The six TM domain superfamily can be further subdivided into conserved gene families: the voltage-gated (Kv) channels; the KCNQ channels (originally known as KvLQT channels); the EAG-like K+ channels; and three types of calcium (Ca)-activated K+ channels (BK, IK and SK) []. The 2TM domain family comprises inward-rectifying K+ channels. In addition, there are K+ channel alpha-subunits that possess two P-domains. These are usually highly regulated K+ selective leak channels. KCNQ channels (also known as KQT-like channels) differ from other voltage-gated 6 TM helix channels, chiefly in that they possess no tetramerisation domain. Consequently, they rely on interaction with accessory subunits, or form heterotetramers with other members of the family []. Currently, 5 members of the KCNQ family are known. These have been found to be widely distributed within the body, having been shown to be expressed in the heart, brain, pancreas, lung, placenta and ear. They were initially cloned as a result of a search for proteins involved in cardiac arhythmia. Subsequently, mutations in other KCNQ family members have been shown to be responsible for some forms of hereditary deafness [] and benign familial neonatal epilepsy []. This entry represents a region found at the C terminus of these proteins.; PDB: 3HFE_B 3HFC_C 3BJ4_B 2OVC_A.
Probab=39.89 E-value=42 Score=25.93 Aligned_cols=26 Identities=12% Similarity=0.390 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
|--+||..++.+++.+|++|+.|---
T Consensus 153 sm~~Rl~kvE~qV~~md~KLD~l~~~ 178 (202)
T PF03520_consen 153 SMMGRLVKVERQVQSMDKKLDFLVDI 178 (202)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 44568888899999999998876543
No 179
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=39.86 E-value=66 Score=26.43 Aligned_cols=44 Identities=14% Similarity=0.151 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
|...|..+-+=|.+.+..=+.+++.|+.-+.++..+..+|+.++
T Consensus 418 l~~~i~~~~~rl~~~e~rl~~qF~ame~~~s~mns~~s~L~~q~ 461 (462)
T PRK08032 418 LTKQYNAVSDSIDATIARYKAQFTQLDKLMTSLNSTSSYLTQQF 461 (462)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33333333444444444444555555555555555555555544
No 180
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=39.36 E-value=1.6e+02 Score=21.80 Aligned_cols=57 Identities=28% Similarity=0.353 Sum_probs=40.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 20 DWENREFISHISLNVRRLFEFLVQFEAT-------TKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 20 DW~nRE~ie~Is~~I~~i~~FLN~Fd~s-------cr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.|++...-+.+.---..--++..+|..+ |.-|-.-|+.||..|...+|.-||++..+
T Consensus 106 k~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~ev 169 (201)
T PF13851_consen 106 KWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNEV 169 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5777666666665555556666666654 45566778888888888888888888753
No 181
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=38.79 E-value=53 Score=28.53 Aligned_cols=34 Identities=21% Similarity=0.375 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
..+.-.++..|..+|+.|-++|.-||++|++.|+
T Consensus 20 a~a~a~~i~~L~~ql~aLq~~v~eL~~~laa~~~ 53 (514)
T PF11336_consen 20 AAATADQIKALQAQLQALQDQVNELRAKLAAKPA 53 (514)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 3345678899999999999999999999988765
No 182
>PF10975 DUF2802: Protein of unknown function (DUF2802); InterPro: IPR021244 This bacterial family of proteins has no known function.
Probab=38.78 E-value=52 Score=20.83 Aligned_cols=21 Identities=43% Similarity=0.551 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 50 SKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LE 70 (85)
.|+..++++|..|+.+++-++
T Consensus 5 ~~l~~l~~~l~~l~~~~~~~~ 25 (70)
T PF10975_consen 5 QRLAELEQQLKQLEDQQEELE 25 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777777665
No 183
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=38.75 E-value=75 Score=26.08 Aligned_cols=41 Identities=29% Similarity=0.289 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
..+-+=||.|..+.|.==+.|+-.|+.||.+..-||+++..
T Consensus 30 ~~~reEl~EFQegSrE~EaelesqL~q~etrnrdl~t~nqr 70 (333)
T KOG1853|consen 30 LQMREELNEFQEGSREIEAELESQLDQLETRNRDLETRNQR 70 (333)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556789999999999999999999999999999988754
No 184
>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=38.71 E-value=39 Score=25.91 Aligned_cols=35 Identities=26% Similarity=0.381 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.||-++-..+|.-++++-+.+..||-+++-||..+
T Consensus 61 kYLe~lNlPSr~DiarvA~lvinlE~kvD~lee~f 95 (189)
T TIGR02132 61 NYLEQVNVPTKEDIANVASLVINLEEKVDLIEEFF 95 (189)
T ss_pred HHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555666667777777888888877777654
No 185
>PF07586 HXXSHH: Protein of unknown function (DUF1552); InterPro: IPR011447 This is a family of proteins identified in Rhodopirellula baltica.
Probab=38.68 E-value=1.8e+02 Score=22.20 Aligned_cols=48 Identities=17% Similarity=0.267 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 25 EFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 25 E~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.....|....+++- .+....=|.||.+.=+-|..||++|+-.++....
T Consensus 162 SvLD~v~~d~~~L~---~~Lg~~Dr~kLd~yl~sireiE~rl~~~~~~~~~ 209 (302)
T PF07586_consen 162 SVLDLVREDAKSLR---RRLGAEDRQKLDQYLDSIREIEKRLQQAEAWADC 209 (302)
T ss_pred cHHHHHHHHHHHHH---hhcCHHHHHHHHHHHHHHHHHHHHHHhhhhcccc
Confidence 44556666666664 4445555999999999999999999988888765
No 186
>cd01110 HTH_SoxR Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator. Helix-turn-helix (HTH) transcriptional regulator SoxR. The global regulator, SoxR, up-regulates gene expression of another transcription activator, SoxS, which directly stimulates the oxidative stress regulon genes in E. coli. The soxRS response renders the bacterial cell resistant to superoxide-generating agents, macrophage-generated nitric oxide, organic solvents, and antibiotics. The SoxR proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the unusually long spacer between the -35 and -10 promoter elements. They also harbor a regulatory C-terminal domain containing an iron-sulfur center.
Probab=38.58 E-value=1.3e+02 Score=20.72 Aligned_cols=27 Identities=19% Similarity=0.330 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
...+++.+++++..|++....|+..+.
T Consensus 85 l~~~~~~l~~~i~~L~~~~~~L~~~i~ 111 (139)
T cd01110 85 SRAWRDRLDERIAELQQLRDQLDGCIG 111 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345677888888888888888888776
No 187
>PF13864 Enkurin: Calmodulin-binding
Probab=38.15 E-value=65 Score=20.96 Aligned_cols=24 Identities=25% Similarity=0.398 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LE 70 (85)
+-+.|=+.|+.+|..||..+.+|+
T Consensus 71 ~~~~rK~~lE~~L~qlE~dI~~ls 94 (98)
T PF13864_consen 71 RKKRRKEELEKELKQLEKDIKKLS 94 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHc
Confidence 345555666666666666666654
No 188
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=37.94 E-value=1.2e+02 Score=20.13 Aligned_cols=34 Identities=12% Similarity=0.162 Sum_probs=23.8
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 13 VGIAVQADWENREFISHISLNVRRLFEFLVQFEA 46 (85)
Q Consensus 13 v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~ 46 (85)
|...+..++.=++.......+-..+..++++|..
T Consensus 22 V~~~~~~g~sv~evA~e~gIs~~tl~~W~r~y~~ 55 (121)
T PRK09413 22 VQQSFEPGMTVSLVARQHGVAASQLFLWRKQYQE 55 (121)
T ss_pred HHHHHcCCCCHHHHHHHHCcCHHHHHHHHHHHhh
Confidence 3444555666677777777777788888888863
No 189
>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=37.65 E-value=1e+02 Score=19.10 Aligned_cols=39 Identities=23% Similarity=0.238 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
-++++=||+--..=-.++..|.+.|..|..+|.-+++..
T Consensus 17 e~~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~~ 55 (69)
T PF04102_consen 17 EDTIEELNDVVTEQQRQIDRLQRQLRLLRERLRELEDPS 55 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT--------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 345566666666667788889999999999988887543
No 190
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=36.92 E-value=34 Score=26.96 Aligned_cols=30 Identities=27% Similarity=0.458 Sum_probs=18.9
Q ss_pred HHHHHHHHH----HHHHHHHHHHHHHHHHhhccc
Q 034753 47 TTKSKLALL----NEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 47 scr~KLa~l----neKL~~LEr~le~LEA~v~s~ 76 (85)
.++..|... +.++..|+++++.|+|++.+.
T Consensus 67 ~ak~eLqe~eek~e~~l~~Lq~ql~~l~akI~k~ 100 (258)
T PF15397_consen 67 QAKAELQEWEEKEESKLSKLQQQLEQLDAKIQKT 100 (258)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 344445443 345667888888888887653
No 191
>COG1590 Uncharacterized conserved protein [Function unknown]
Probab=36.92 E-value=1.2e+02 Score=23.59 Aligned_cols=38 Identities=34% Similarity=0.316 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
++|.....-|-++|.+.-+||..|+..++-|....+.-
T Consensus 161 eyl~~lv~~~n~~l~r~k~kl~rl~~~le~l~~~~~e~ 198 (208)
T COG1590 161 EYLKFLVEIANEKLRRGKEKLARLEERLEELVEKCMED 198 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 44555556788888888899999998888887766543
No 192
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=36.39 E-value=61 Score=21.07 Aligned_cols=27 Identities=26% Similarity=0.433 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 52 LALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.+.|++|+-.|-..++-|||++.+-..
T Consensus 27 V~El~eRIalLq~EIeRlkAe~~kK~~ 53 (65)
T COG5509 27 VAELEERIALLQAEIERLKAELAKKKA 53 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 467899999999999999998876544
No 193
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=36.28 E-value=68 Score=21.47 Aligned_cols=25 Identities=36% Similarity=0.456 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s~ 76 (85)
+..+++||...-++|+-+|.++.+.
T Consensus 7 Id~lEekl~~cr~~le~ve~rL~~~ 31 (85)
T PF15188_consen 7 IDGLEEKLAQCRRRLEAVESRLRRR 31 (85)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHccc
Confidence 3444445555555555554444443
No 194
>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=35.99 E-value=2.3e+02 Score=22.87 Aligned_cols=30 Identities=27% Similarity=0.328 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
..+.++..+.++++.|+.++..|+..+...
T Consensus 379 ~l~~~~~~l~~~~~~l~~~~~~l~~~l~~~ 408 (451)
T PF03961_consen 379 KLKEKKKELKEELKELKEELKELKEELERS 408 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445556777788888888888888777665
No 195
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=35.83 E-value=62 Score=27.38 Aligned_cols=26 Identities=23% Similarity=0.460 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.++..+++++..||.++.-||++++.
T Consensus 563 ~~~~~~e~~i~~le~~~~~l~~~l~~ 588 (638)
T PRK10636 563 KEIARLEKEMEKLNAQLAQAEEKLGD 588 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 46777888888888888888888865
No 196
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=35.56 E-value=1.1e+02 Score=23.30 Aligned_cols=37 Identities=14% Similarity=0.367 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.|+..|..-+.-=|+.++.++..||.+++-|-....+
T Consensus 94 ~FI~sf~~Y~~leL~s~~~ei~~L~~kI~~L~~~in~ 130 (181)
T PF04645_consen 94 SFIDSFNQYKNLELKSIKKEIEILRLKISSLQKEINK 130 (181)
T ss_pred HHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 5888888877788889999999999998888776654
No 197
>smart00803 TAF TATA box binding protein associated factor. TAFs (TATA box binding protein associated factors) are part of the transcription initiation factor TFIID multimeric protein complex. TFIID is composed of the TATA box binding protein (TBP) and a number of TAFs. The TAFs provide binding sites for many different transcriptional activators and co-activators that modulate transcription initiation by Pol II. TAF proteins adopt a histone-like fold.
Probab=35.45 E-value=42 Score=20.79 Aligned_cols=42 Identities=14% Similarity=0.296 Sum_probs=27.0
Q ss_pred CccccCCcc-hhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 1 MARAGGITN-AVNVGIAVQADWENREFISHISLNVRRLFEFLVQFEATTKSK 51 (85)
Q Consensus 1 ~~~~~~~~~-~~~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~K 51 (85)
+|+.||+.. +..+- .++.+.+.-.++.+++-..+|..+++-|
T Consensus 11 ia~~~Gi~ris~~a~---------~~l~~~~e~rl~~i~~~A~k~~~hakRk 53 (65)
T smart00803 11 VAESLGIGNLSDEAA---------KLLAEDVEYRIKEIVQEALKFMRHSKRT 53 (65)
T ss_pred HHHHCCCccccHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 366777762 33333 4555566666788888888888877654
No 198
>PRK00736 hypothetical protein; Provisional
Probab=35.40 E-value=74 Score=19.91 Aligned_cols=37 Identities=27% Similarity=0.261 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
-++++=||+-=..=-..|..|..+|..|=.++.-+++
T Consensus 18 e~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~~ 54 (68)
T PRK00736 18 EKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLEE 54 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3455566665555555556666666666555555544
No 199
>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=34.85 E-value=75 Score=28.05 Aligned_cols=30 Identities=23% Similarity=0.344 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 44 FEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 44 Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
=..+||.|..+|+..+.+|++.|--.|.++
T Consensus 539 ~~e~~r~r~~~lE~E~~~lr~elk~kee~~ 568 (697)
T PF09726_consen 539 CAESCRQRRRQLESELKKLRRELKQKEEQI 568 (697)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345899999999999999988887666544
No 200
>PF14916 CCDC92: Coiled-coil domain of unknown function
Probab=34.30 E-value=41 Score=21.30 Aligned_cols=20 Identities=20% Similarity=0.481 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 034753 55 LNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 55 lneKL~~LEr~le~LEA~v~ 74 (85)
|+.|+..+|+.|.||..+-+
T Consensus 1 l~~qv~s~e~~i~FLq~eH~ 20 (60)
T PF14916_consen 1 LEQQVQSLEKSILFLQQEHA 20 (60)
T ss_pred ChHHHHHHHHHHHHHHHHHH
Confidence 46789999999999976643
No 201
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=34.18 E-value=1e+02 Score=19.82 Aligned_cols=26 Identities=31% Similarity=0.493 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..+...+.+++..+|.++..+|.++.
T Consensus 73 ~~e~~~lk~~i~~le~~~~~~e~~l~ 98 (108)
T PF02403_consen 73 KAEVKELKEEIKELEEQLKELEEELN 98 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34667788888888888888777664
No 202
>PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT). Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B.
Probab=34.15 E-value=1.5e+02 Score=20.19 Aligned_cols=45 Identities=18% Similarity=0.316 Sum_probs=20.8
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 18 QADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 18 q~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
.+||.=.|-.+...-+-.-+.|-+.+ |+.+|..+++||..+++..
T Consensus 31 ~eDlSlsEIAe~~~iSRqaV~d~ikr----~~~~L~~yE~kL~l~~k~~ 75 (101)
T PF04297_consen 31 EEDLSLSEIAEELGISRQAVYDSIKR----AEKKLEEYEEKLGLVEKFQ 75 (101)
T ss_dssp TS---HHHHHHHCTS-HHHHHHHHHH----HHHHHHHHHHHH-HHHHHH
T ss_pred ccCCCHHHHHHHHCCCHHHHHHHHHH----HHHHHHHHHHHHhhHHHHH
Confidence 34566566555444444444444433 5566666666666666443
No 203
>PF12958 DUF3847: Protein of unknown function (DUF3847); InterPro: IPR024215 This entry represents a family of uncharacterised proteins that were found by clustering human gut metagenomic sequences [].
Probab=34.13 E-value=1.4e+02 Score=19.89 Aligned_cols=30 Identities=30% Similarity=0.303 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 41 LVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 41 LN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
|+.=-...+.||....+++..|+.+.-+|+
T Consensus 6 l~~e~e~~~~kl~q~e~~~k~L~nr~k~l~ 35 (86)
T PF12958_consen 6 LQAEIEKAEKKLEQAEHKIKQLENRKKKLE 35 (86)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445667788888888888888888887
No 204
>PRK09514 zntR zinc-responsive transcriptional regulator; Provisional
Probab=34.05 E-value=61 Score=22.35 Aligned_cols=35 Identities=17% Similarity=0.085 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.+.++|.+=...-+.+++.|++..+.|+.......
T Consensus 81 ~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~~~ 115 (140)
T PRK09514 81 EVKGIVDEKLAEVEAKIAELQHMRRSLQRLNDACC 115 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34556666666677788877777777766665443
No 205
>COG4476 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.04 E-value=47 Score=22.83 Aligned_cols=30 Identities=23% Similarity=0.472 Sum_probs=23.2
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 17 VQADWENREFISHISLNVRRLFEFLVQFEATTKSKLAL 54 (85)
Q Consensus 17 iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~ 54 (85)
+.-||.+-|.+.+| .|+|.-+..-+++...
T Consensus 7 ldldWsTEE~~~Vl--------~Ffn~VE~aYE~gv~~ 36 (90)
T COG4476 7 LDLDWSTEEMISVL--------HFFNAVELAYEKGVDA 36 (90)
T ss_pred CCCCccHHHHHHHH--------HHHHHHHHHHHccccH
Confidence 34699999988776 5888888887777654
No 206
>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=33.67 E-value=1.5e+02 Score=19.80 Aligned_cols=32 Identities=16% Similarity=0.176 Sum_probs=19.4
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 17 VQADWENREFISHISLNVRRLFEFLVQFEATT 48 (85)
Q Consensus 17 iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~sc 48 (85)
+...+.+|+=++.+..-+.+.-+=|..-+...
T Consensus 27 l~~~~a~~~~~~~l~~~~~~~~~Rl~~lE~~l 58 (106)
T PF10805_consen 27 LRRTYAKREDIEKLEERLDEHDRRLQALETKL 58 (106)
T ss_pred HHHhhccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667777777777666665555555444433
No 207
>PF07439 DUF1515: Protein of unknown function (DUF1515); InterPro: IPR010889 This family consists of several hypothetical bacterial proteins of around 130 residues in length. Members of this family seem to be found exclusively in Rhizobium species. The function of this family is unknown.
Probab=33.67 E-value=71 Score=22.71 Aligned_cols=28 Identities=29% Similarity=0.400 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-.|+..|-+++..||..+..|.+.|+..
T Consensus 39 hrRlDElV~Rv~~lEs~~~~lk~dVsem 66 (112)
T PF07439_consen 39 HRRLDELVERVTTLESSVSTLKADVSEM 66 (112)
T ss_pred HHhHHHHHHHHHHHHHHHHHHHhhHHhc
Confidence 3578888888888888888888888754
No 208
>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=33.64 E-value=1.3e+02 Score=19.24 Aligned_cols=30 Identities=17% Similarity=0.327 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
..+..--..+.+.|++++..|++.+..|+.
T Consensus 72 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 101 (103)
T cd01106 72 EDLLEALREQKELLEEKKERLDKLIKTIDR 101 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555667888888888888888888875
No 209
>PRK10381 LPS O-antigen length regulator; Provisional
Probab=33.44 E-value=2.4e+02 Score=22.82 Aligned_cols=38 Identities=24% Similarity=0.181 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLE 63 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LE 63 (85)
++||.+++..+.+-. ++++...-..|...++++++..|
T Consensus 189 ~~YI~fv~~~~~~~l--~~~i~~~~~~k~~~~~~~~~~~~ 226 (377)
T PRK10381 189 SGYINYISTIVVKEV--LENIRNKLEIKTQFEKEKLAMDR 226 (377)
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 478888888776543 56666666667777777666655
No 210
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=33.33 E-value=1.6e+02 Score=21.50 Aligned_cols=9 Identities=11% Similarity=0.320 Sum_probs=5.6
Q ss_pred HHHHHHHHH
Q 034753 44 FEATTKSKL 52 (85)
Q Consensus 44 Fd~scr~KL 52 (85)
+..|||.|=
T Consensus 64 YA~sCR~KR 72 (135)
T KOG4196|consen 64 YAQSCRVKR 72 (135)
T ss_pred HHHHHHHHH
Confidence 566777663
No 211
>PF06361 RTBV_P12: Rice tungro bacilliform virus P12 protein; InterPro: IPR009417 This family consists of several Rice tungro bacilliform virus P12 proteins. The function of this family is unknown [].
Probab=33.25 E-value=40 Score=23.55 Aligned_cols=23 Identities=17% Similarity=0.362 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHhhcccCCC
Q 034753 57 EKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 57 eKL~~LEr~le~LEA~v~s~~~~ 79 (85)
.-||.+..+++-|-|+|+++|++
T Consensus 54 yalqeidkkinnl~aqv~k~ptt 76 (110)
T PF06361_consen 54 YALQEIDKKINNLSAQVSKIPTT 76 (110)
T ss_pred HHHHHHHhhhhhhHhhhhcCccC
Confidence 45888999999999999999874
No 212
>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=32.70 E-value=1.3e+02 Score=18.75 Aligned_cols=38 Identities=21% Similarity=0.242 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 37 LFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 37 i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+.+-|..=...|...+..|+.++..++.++.-++..+.
T Consensus 63 ~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~ 100 (106)
T PF01920_consen 63 AIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLY 100 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444455666666666666666666666666554
No 213
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=32.56 E-value=51 Score=23.60 Aligned_cols=20 Identities=25% Similarity=0.491 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHhhccc
Q 034753 57 EKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 57 eKL~~LEr~le~LEA~v~s~ 76 (85)
+++..+|+++.+||.+++++
T Consensus 54 ~~q~~~e~RI~~L~~~L~~A 73 (158)
T PRK05892 54 DELARLDDRINELDRRLRTG 73 (158)
T ss_pred HHHHHHHHHHHHHHHHHHhC
Confidence 44555666666666666654
No 214
>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=32.32 E-value=75 Score=25.54 Aligned_cols=26 Identities=31% Similarity=0.518 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
+..+|+..++++++.||.+++-++..
T Consensus 141 ~l~~Ri~e~Eeris~lEd~~~~i~~~ 166 (370)
T PF02994_consen 141 SLNSRIDELEERISELEDRIEEIEQA 166 (370)
T ss_dssp ---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHHHHHHHHHHhhH
Confidence 34456666666666666555544443
No 215
>PRK08724 fliD flagellar capping protein; Validated
Probab=32.20 E-value=1.8e+02 Score=25.97 Aligned_cols=48 Identities=21% Similarity=0.281 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 26 FISHISLNVRRLF---EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 26 ~ie~Is~~I~~i~---~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
|...+..-+..+. -.|..-..+-...+.+++.++..||++|+.+|+++
T Consensus 597 lA~rL~~~L~~~~~t~G~I~~R~~sL~~~i~~l~dqi~~Le~Rle~~E~Ry 647 (673)
T PRK08724 597 FAKRVEDAIQSMTGVTGSIRTREKSLREQNYRLNDDQVALDRRMESLEKRT 647 (673)
T ss_pred HHHHHHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 216
>PF01420 Methylase_S: Type I restriction modification DNA specificity domain; InterPro: IPR000055 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type I restriction endonucleases are components of prokaryotic DNA restriction-modification mechanisms that protects the organism against invading foreign DNA. Type I enzymes have three different subunits subunits - M (modification), S (specificity) and R (restriction) - that form multifunctional enzymes with restriction (3.1.21.3 from EC), methylase (2.1.1.72 from EC) and ATPase activities [, ]. The S subunit is required for both restriction and modification and is responsible for recognition of the DNA sequence specific for the system. The M subunit is necessary for modification, and the R subunit is required for restriction. These enzymes use S-Adenosyl-L-methionine (AdoMet) as the methyl group donor in the methylation reaction, and have a requirement for ATP. They recognise asymmetric DNA sequences split into two domains of specific sequence, one 3-4 bp long and another 4-5 bp long, separated by a nonspecific spacer 6-8 bp in length. Cleavage occurs a considerable distance from the recognition sites, rarely less than 400 bp away and up to 7000 bp away. Adenosyl residues are methylated, one on each strand of the recognition sequence. These enzymes are widespread in eubacteria and archaea. In enteric bacteria they have been subdivide into four families: types IA, IB, IC and ID. This entry represents the S subunit of type I restriction endonucleases (3.1.21.3 from EC). The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence: when the target site is unmodified, the DNA is cut; when the target site is hemi-methylated, the complex acts as a maintenance methyltransferase to modify the DNA, methylating both strands []. Most of the proteins in this family have two copies of the domain.; GO: 0003677 DNA binding, 0006304 DNA modification; PDB: 1YF2_B 2Y7H_A 2Y7C_A 3OKG_A 1YDX_A.
Probab=32.17 E-value=1e+02 Score=19.51 Aligned_cols=12 Identities=25% Similarity=0.551 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHH
Q 034753 35 RRLFEFLVQFEA 46 (85)
Q Consensus 35 ~~i~~FLN~Fd~ 46 (85)
..|+++|++++.
T Consensus 142 ~~i~~~l~~~~~ 153 (167)
T PF01420_consen 142 QKIVEILDQLDK 153 (167)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 456666776664
No 217
>smart00742 Hr1 Rho effector or protein kinase C-related kinase homology region 1 homologues. Alpha-helical domain found in vertebrate PRK1 and yeast PKC1 protein kinases C. The HR1 in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Also called RBD - Rho-binding domain
Probab=32.11 E-value=1.1e+02 Score=18.04 Aligned_cols=24 Identities=38% Similarity=0.409 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 44 FEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 44 Fd~scr~KLa~lneKL~~LEr~le 67 (85)
.-..|.++|..-+.||+.|+.+|.
T Consensus 33 ~~~~a~~~l~es~~ki~~L~~~L~ 56 (57)
T smart00742 33 VLSEAQSMLRESNQKLDLLKEELE 56 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 555777777888888877777663
No 218
>PF10796 Anti-adapt_IraP: Sigma-S stabilisation anti-adaptor protein ; InterPro: IPR019732 This entry is conserved in Enterobacteriaceae. It is one of a series of proteins, expressed by these bacteria in response to stress, that help to regulate Sigma-S, the stationary phase sigma factor of Escherichia coli and Salmonella. IraP is essential for Sigma-S stabilisation in some but not all starvation conditions []. ; GO: 0005737 cytoplasm
Probab=32.06 E-value=83 Score=21.11 Aligned_cols=26 Identities=27% Similarity=0.313 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
--||+.+++.-..|.+++|-||.=|+
T Consensus 9 L~KlA~~e~esKeL~AqVEAleivit 34 (87)
T PF10796_consen 9 LAKLAEKEAESKELTAQVEALEIVIT 34 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35899999999999999998886654
No 219
>PRK10869 recombination and repair protein; Provisional
Probab=32.01 E-value=1.5e+02 Score=25.06 Aligned_cols=39 Identities=21% Similarity=0.223 Sum_probs=29.8
Q ss_pred HHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 38 FEFLVQFEAT------TKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 38 ~~FLN~Fd~s------cr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-.++..|... ++.+|..+..+-+..++++++|+-++..+
T Consensus 153 ~~~~~~~~~~y~~~~~~~~~l~~l~~~~~~~~~~~d~l~fql~Ei 197 (553)
T PRK10869 153 TSLLQEMRAAYQLWHQSCRDLAQHQQQSQERAARKQLLQYQLKEL 197 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 3566666654 78888888888888888899998887654
No 220
>PF02370 M: M protein repeat; InterPro: IPR003345 This short repeat is found in multiple copies in bacterial M proteins. The M proteins bind to IgA and are closely associated with virulence. The M protein has been postulated to be a major group A streptococcal (GAS) virulence factor because of its contribution to the bacterial resistance to opsonophagocytosis [].; PDB: 2KK9_A.
Probab=31.99 E-value=81 Score=16.36 Aligned_cols=16 Identities=25% Similarity=0.331 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 034753 55 LNEKLDTLERRLELLE 70 (85)
Q Consensus 55 lneKL~~LEr~le~LE 70 (85)
|+-+++.||....++|
T Consensus 6 lEa~~qkLe~e~q~~e 21 (21)
T PF02370_consen 6 LEADHQKLEAEKQISE 21 (21)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhhcC
Confidence 4445555555544443
No 221
>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=31.92 E-value=1.2e+02 Score=18.36 Aligned_cols=27 Identities=19% Similarity=0.187 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDT 61 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~ 61 (85)
..+...|.++...|+.+|+.+++..+.
T Consensus 20 ~~~~~~l~~~~~~~~~~l~~~~~~~~~ 46 (90)
T PF10400_consen 20 EEAIELLEERREQHEERLAEYEEIEQE 46 (90)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666666777777766665544
No 222
>COG5570 Uncharacterized small protein [Function unknown]
Probab=31.90 E-value=37 Score=21.56 Aligned_cols=28 Identities=25% Similarity=0.378 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 55 LNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 55 lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
++..|..||++-.-||-.+.-+.+.|+.
T Consensus 3 ieshl~eL~kkHg~le~ei~ea~n~Ps~ 30 (57)
T COG5570 3 IESHLAELEKKHGNLEREIQEAMNSPSS 30 (57)
T ss_pred HHHHHHHHHHhhchHHHHHHHHhcCCCc
Confidence 3445555666666666666666777764
No 223
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=31.85 E-value=1.2e+02 Score=24.64 Aligned_cols=35 Identities=31% Similarity=0.415 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh----hcccCCCCC
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQ----VGTASANPH 81 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~----v~s~~~~p~ 81 (85)
..+.+...+.+++..||.++..+|++ +.++|+-|+
T Consensus 73 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~lPN~~~ 111 (418)
T TIGR00414 73 EIKKELKELKEELTELSAALKALEAELQDKLLSIPNIPH 111 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCC
Confidence 55567788899999999999887775 455666553
No 224
>PRK11638 lipopolysaccharide biosynthesis protein WzzE; Provisional
Probab=31.84 E-value=2.7e+02 Score=22.32 Aligned_cols=38 Identities=8% Similarity=0.183 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLE 63 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LE 63 (85)
++||.+++..+.+-. .+++...-..|...+.++++..|
T Consensus 170 ~~YI~fv~~~~~~~l--~~~i~~~~~~~~~~l~~~~~~~~ 207 (342)
T PRK11638 170 RQYVAFASQRAASHL--NDELKGAWAARTIQMKAQVKRQE 207 (342)
T ss_pred HHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Confidence 578888888776543 36777776777777777776665
No 225
>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional
Probab=31.65 E-value=2e+02 Score=23.35 Aligned_cols=36 Identities=17% Similarity=0.207 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCcc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTASANPHLFT 84 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~~~ 84 (85)
+.|...+..++..++++++.++.++....++|....
T Consensus 35 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (398)
T PTZ00454 35 DIQEEYIKEEQKNLKRELIRAKEEVKRIQSVPLVIG 70 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCceEE
Confidence 456677777778888888888888888888887643
No 226
>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=31.62 E-value=1.9e+02 Score=20.45 Aligned_cols=31 Identities=13% Similarity=0.342 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.+..++++...+..+.+.+.-||.++..+..
T Consensus 94 v~~dv~~i~~dv~~v~~~V~~Le~ki~~ie~ 124 (126)
T PF07889_consen 94 VREDVSQIGDDVDSVQQMVEGLEGKIDEIEE 124 (126)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4455566666666666666666666655443
No 227
>smart00338 BRLZ basic region leucin zipper.
Probab=31.60 E-value=1.2e+02 Score=18.06 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034753 52 LALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~ 74 (85)
+..|+.++..|+..-..|.++|+
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~ 50 (65)
T smart00338 28 IEELERKVEQLEAENERLKKEIE 50 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555444444443
No 228
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=31.48 E-value=58 Score=23.23 Aligned_cols=18 Identities=22% Similarity=0.567 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 034753 58 KLDTLERRLELLEVQVGT 75 (85)
Q Consensus 58 KL~~LEr~le~LEA~v~s 75 (85)
++..||+++.+||..+++
T Consensus 55 ~~~~~e~rI~~L~~~L~~ 72 (157)
T PRK01885 55 RLREIDRRVRFLTKRLEN 72 (157)
T ss_pred HHHHHHHHHHHHHHHHcc
Confidence 444566666666666665
No 229
>KOG1003 consensus Actin filament-coating protein tropomyosin [Cytoskeleton]
Probab=31.28 E-value=86 Score=24.34 Aligned_cols=33 Identities=15% Similarity=0.321 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
..=+.+||.+ -.|+.|.+++|-+++.+|++++-
T Consensus 39 q~~dE~er~~-Kv~enr~~kdEE~~e~~e~qLkE 71 (205)
T KOG1003|consen 39 QAADESERGM-KVIENRAQKLEEKMEAQEAQLKE 71 (205)
T ss_pred hcccHHHHHH-HHHHHHHHhhHHHHHHHHHHHHH
Confidence 3345667665 56777788888888888887753
No 230
>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=31.22 E-value=1e+02 Score=23.79 Aligned_cols=31 Identities=23% Similarity=0.245 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
-+.+++.++.+++..+.-++-||..|.++..
T Consensus 4 lq~~l~~l~~~~~~~~~L~~kLE~DL~~~~~ 34 (248)
T PF08172_consen 4 LQKELSELEAKLEEQKELNAKLENDLAKVQA 34 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4567777777777777777777777776654
No 231
>PRK06664 fliD flagellar hook-associated protein FliD; Validated
Probab=31.05 E-value=3e+02 Score=24.20 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 32 LNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 32 ~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..|..+-+-|.+.+..=+.++..|+.-|.+|..+..||...+.
T Consensus 614 ~~i~~~e~rl~~~e~rl~~QFtaME~~msqmnsqss~L~~~~~ 656 (661)
T PRK06664 614 KKIEEYEKKLESKERKLKGKYLTMDQTVKKMKEQSNYLKNFNK 656 (661)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3333333334444444444444444444444444445544443
No 232
>PRK10227 DNA-binding transcriptional regulator CueR; Provisional
Probab=30.98 E-value=1.1e+02 Score=21.15 Aligned_cols=21 Identities=14% Similarity=0.082 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le 67 (85)
.-+.+++.|.+..+.|+..+.
T Consensus 90 ~l~~~i~~L~~~~~~L~~~~~ 110 (135)
T PRK10227 90 EIERHIEELQSMRDQLLALAN 110 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455666666666666655444
No 233
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=30.98 E-value=3.3e+02 Score=23.09 Aligned_cols=24 Identities=25% Similarity=0.476 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 50 SKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.++..++++++.|+.+++.|+.+.
T Consensus 100 ~~i~~l~~~~~~L~~~~~~l~~~~ 123 (646)
T PRK05771 100 KEIKELEEEISELENEIKELEQEI 123 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555554443
No 234
>KOG3856 consensus Uncharacterized conserved protein [Function unknown]
Probab=30.94 E-value=1.2e+02 Score=22.13 Aligned_cols=28 Identities=43% Similarity=0.430 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
..||.-|+.|=+|-+.||.+|.-||-++
T Consensus 13 e~~kaEL~elikkrqe~eetl~nLe~qI 40 (135)
T KOG3856|consen 13 EDTKAELAELIKKRQELEETLANLERQI 40 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4688888888888888888888887665
No 235
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=30.58 E-value=76 Score=18.91 Aligned_cols=22 Identities=36% Similarity=0.508 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHhhcccCC
Q 034753 57 EKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 57 eKL~~LEr~le~LEA~v~s~~~ 78 (85)
||+.++++...-|+.++...|+
T Consensus 1 E~l~~i~~a~~~L~~~lgr~Pt 22 (78)
T PF04539_consen 1 EKLRKIERARRELEQELGREPT 22 (78)
T ss_dssp HHHHHHHHHHHHHHHHHSS--B
T ss_pred ChHHHHHHHHHHHHHHhCCCCC
Confidence 5788888888888888877654
No 236
>COG5187 RPN7 26S proteasome regulatory complex component, contains PCI domain [Posttranslational modification, protein turnover, chaperones]
Probab=30.50 E-value=1.1e+02 Score=25.85 Aligned_cols=41 Identities=15% Similarity=0.100 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHhhc
Q 034753 34 VRRLFEFLVQFEATTKSKLALLNEKLDTLER---RLELLEVQVG 74 (85)
Q Consensus 34 I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr---~le~LEA~v~ 74 (85)
|+==..|+|..-..-++|++.|++|++.+|- ..+.+||...
T Consensus 77 ikfD~~~~n~l~kkneeki~Elde~i~~~eedngE~e~~ea~~n 120 (412)
T COG5187 77 IKFDRGRMNTLLKKNEEKIEELDERIREKEEDNGETEGSEADRN 120 (412)
T ss_pred eehhhHHHHHHHHhhHHHHHHHHHHHHHHhhcccchHHHHHHHH
Confidence 4444567777777778999999999999886 4567777543
No 237
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=30.44 E-value=88 Score=17.42 Aligned_cols=36 Identities=14% Similarity=0.115 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
+..+...|+.+-.+....+..+.+++.-+...|++|
T Consensus 30 ~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p 65 (65)
T PF13432_consen 30 NPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP 65 (65)
T ss_dssp HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence 566788889999999999999999999998888876
No 238
>PF08537 NBP1: Fungal Nap binding protein NBP1; InterPro: IPR013743 NBP1 is a nuclear protein which has been shown in Saccharomyces cerevisiae (Bakers yeast) to be essential for the G2/M transition of the cell cycle.
Probab=30.43 E-value=88 Score=25.70 Aligned_cols=26 Identities=31% Similarity=0.549 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..|+..|+++|..+|.+|+++-.+|.
T Consensus 181 qkk~~~l~~~l~~~~~eL~~~~k~L~ 206 (323)
T PF08537_consen 181 QKKIDELEERLNDLEKELEITKKDLK 206 (323)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35677777777777777776655543
No 239
>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=30.42 E-value=1.5e+02 Score=20.72 Aligned_cols=35 Identities=14% Similarity=0.101 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LE 70 (85)
.+...|.+=...-+.|++.|++..+.|+..+..-+
T Consensus 80 ~~~~~l~~~~~~l~~ki~~L~~~~~~L~~~~~~~~ 114 (142)
T TIGR01950 80 DWARLSSQWREELDERIDQLNALRDQLDGCIGCGC 114 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 33445555555677888888888888887776433
No 240
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=30.41 E-value=2.2e+02 Score=20.82 Aligned_cols=26 Identities=35% Similarity=0.365 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+.....+.+++..||...+.|+.++.
T Consensus 119 e~~~~~l~~~i~~L~~e~~~L~~~~~ 144 (189)
T PF10211_consen 119 EQGKQELEEEIEELEEEKEELEKQVQ 144 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33345566666666666666655554
No 241
>PF01166 TSC22: TSC-22/dip/bun family; InterPro: IPR000580 Several eukaryotic proteins are evolutionary related and are thought to be involved in transcriptional regulation. These proteins are highly similar in a region of about 50 residues that include a conserved leucine-zipper domain most probably involved in homo- or hetero-dimerisation. Proteins containing this signature include: Vertebrate protein TSC-22 [], a transcriptional regulator which seems to act on C-type natriuretic peptide (CNP) promoter. Mammalian protein DIP (DSIP-immunoreactive peptide) [], a protein whose function is not yet known. Drosophila protein bunched [] (gene bun) (also known as shortsighted), a probable transcription factor required for peripheral nervous system morphogenesis, eye development and oogenesis. Caenorhabditis elegans hypothetical protein T18D3.7. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1DIP_B.
Probab=30.29 E-value=1.5e+02 Score=18.91 Aligned_cols=27 Identities=30% Similarity=0.366 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.+|.+++.|.+|...||..=.+|-..+
T Consensus 18 vLK~~I~eL~~~n~~Le~EN~~Lk~~~ 44 (59)
T PF01166_consen 18 VLKEQIAELEERNSQLEEENNLLKQNA 44 (59)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 568899999999999998877776554
No 242
>PF08287 DASH_Spc19: Spc19; InterPro: IPR013251 Spc19 is a component of the DASH complex. The DASH complex associates with the spindle pole body and is important for spindle and kinetochore integrity during cell division [, ].
Probab=30.21 E-value=2.1e+02 Score=20.54 Aligned_cols=51 Identities=16% Similarity=0.298 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
..+.+.|.=.|.+..+ -++.=|..|..|.+.|.++.|-.+.++...++.+.
T Consensus 56 ~~l~~EI~P~I~~Ll~-------k~e~~l~kL~Rr~~tL~ak~EL~~~RL~~~~~~~~ 106 (153)
T PF08287_consen 56 QSLRDEIEPQINHLLD-------KAEKHLEKLQRREETLKAKCELQQGRLSNYESTDS 106 (153)
T ss_pred HHHHHhccHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccCCc
Confidence 3444555554444433 56677888999999999999999999988776553
No 243
>PRK02793 phi X174 lysis protein; Provisional
Probab=30.14 E-value=1.5e+02 Score=18.74 Aligned_cols=38 Identities=18% Similarity=0.156 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
-++++=||+-=..-...+..|..+|..|=.+|.-++..
T Consensus 21 e~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~~~ 58 (72)
T PRK02793 21 EITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQPS 58 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 45566667666666666666666666666666665543
No 244
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=30.11 E-value=89 Score=20.98 Aligned_cols=22 Identities=18% Similarity=0.200 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh
Q 034753 52 LALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v 73 (85)
++.++++++.|+++-+.|+.+|
T Consensus 36 ~~~~~~e~~~l~~~n~~L~~eI 57 (105)
T PRK00888 36 VAAQQQTNAKLKARNDQLFAEI 57 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3333333334444444444333
No 245
>PF14435 SUKH-4: SUKH-4 immunity protein
Probab=29.97 E-value=73 Score=21.97 Aligned_cols=52 Identities=21% Similarity=0.208 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhhcccCC
Q 034753 26 FISHISLNVRRLFEFLVQFEATTKSKLALLNE---KLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 26 ~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lne---KL~~LEr~le~LEA~v~s~~~ 78 (85)
-...|+.+|-+.+.||..|.. +..++...+. --...|+-.+.|..++..+..
T Consensus 108 ~~~~vNssl~~f~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~iDp 162 (179)
T PF14435_consen 108 EPVFVNSSLSSFARCLALFER-MIRELAELNDEDIDFDEPEALAERLREELRAIDP 162 (179)
T ss_pred cceeccCCHHHHHHHHHHHHH-HHHHHhhccccccchhhHHHHHHHHHHHHHHhCh
Confidence 345789999999999999984 4555555554 256777777777777777654
No 246
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=29.70 E-value=1.1e+02 Score=17.38 Aligned_cols=19 Identities=26% Similarity=0.406 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034753 51 KLALLNEKLDTLERRLELL 69 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~L 69 (85)
....++..++.|+..++.|
T Consensus 19 ~~~~l~~~~~~l~~~~~~l 37 (86)
T PF06013_consen 19 QADELQSQLQQLESSIDSL 37 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444
No 247
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=29.69 E-value=2.3e+02 Score=20.94 Aligned_cols=28 Identities=36% Similarity=0.393 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.-+.|+..|.++|...|.+.++.|.+|.
T Consensus 173 ~~e~~i~~L~~~lkeaE~Rae~aE~~v~ 200 (237)
T PF00261_consen 173 EYEEKIRDLEEKLKEAENRAEFAERRVK 200 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455667777777777766666666654
No 248
>PF05549 Allexi_40kDa: Allexivirus 40kDa protein; InterPro: IPR008398 This family of sequences contains the 40 kDa polypeptides from garlic viruses (Allexiviruses), which do not resemble any other plant virus gene products reported so far []. Rod-shaped flexuous viruses have been isolated from garlic plants, Allium sativum. Infection by this virus creates typical mosaic symptoms. The core-like sequence of a zinc finger protein preceded by a cluster of basic amino acid residues shows similarities to the corresponding 12K proteins of the potexviruses and carlaviruses []. Viral epidemics by allexiviruses are also known to be caused by aphids and eriophyid mites (Aceria tulipae) carrying Potyviruses, Carlaviruses, and Allexiviruses [].
Probab=29.54 E-value=1.1e+02 Score=24.72 Aligned_cols=21 Identities=29% Similarity=0.566 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 24 REFISHISLNVRRLFEFLVQF 44 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~F 44 (85)
=|+.-.|++++..|.+.||-|
T Consensus 51 LEWLTHI~h~~d~ii~~ln~~ 71 (271)
T PF05549_consen 51 LEWLTHINHNVDQIINMLNPI 71 (271)
T ss_pred HHHHHhcCccHHHHHHHhCcc
Confidence 366677888888888888877
No 249
>cd07597 BAR_SNX8 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 8. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX8 and the yeast counterpart Mvp1p are involved in sorting and delivery of late-Golgi proteins, such as carboxypeptidase Y, to vacuoles. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=29.22 E-value=2.5e+02 Score=21.09 Aligned_cols=73 Identities=15% Similarity=0.197 Sum_probs=44.2
Q ss_pred CcchhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCC
Q 034753 7 ITNAVNVGIAVQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANP 80 (85)
Q Consensus 7 ~~~~~~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p 80 (85)
|++..+.-..+.+|...++--. +-.-.+...|-|..+-.-|.-+=--.=..++.|+++++..|.++.+..+.|
T Consensus 96 ~s~~~~~~s~~~~~~a~~~~~~-vlE~Lk~~~d~l~S~r~lf~R~~k~~~~~i~~l~~ri~~~~~kl~~l~~~~ 168 (246)
T cd07597 96 LSKHFQLLSDLSEDEARAEEDG-VLEKLKLQLDLLVSLRDLFERHEKLSLNNIQRLLKRIELNKKKLESLRAKP 168 (246)
T ss_pred HHHHHHHHHHHHHHHHHHHHhh-hhHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhhcCC
Confidence 3444444555666666555443 445567777888888777763322222346677777777777777765554
No 250
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=29.08 E-value=67 Score=22.88 Aligned_cols=17 Identities=24% Similarity=0.548 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHhhcc
Q 034753 59 LDTLERRLELLEVQVGT 75 (85)
Q Consensus 59 L~~LEr~le~LEA~v~s 75 (85)
+..||+++.+||..+++
T Consensus 54 ~~~le~rI~~L~~~L~~ 70 (156)
T TIGR01461 54 LREIDRRVRFLTKRLEN 70 (156)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 33455555555555543
No 251
>PHA03385 IX capsid protein IX,hexon associated protein IX; Provisional
Probab=29.07 E-value=99 Score=22.62 Aligned_cols=32 Identities=28% Similarity=0.403 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
.+.||..|=.+|..|-++|..|-.+|.-...+
T Consensus 98 ~ed~L~~llaqLealsqqL~~ls~qv~~L~~~ 129 (135)
T PHA03385 98 AEDKLLVLLAQLEALSQQLQELSQQVAQLREQ 129 (135)
T ss_pred hHhHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 47788888888888888888888887765443
No 252
>PF05308 Mito_fiss_reg: Mitochondrial fission regulator; InterPro: IPR007972 This family consists of several uncharacterised eukaryotic proteins of unknown function.
Probab=28.96 E-value=47 Score=25.84 Aligned_cols=18 Identities=33% Similarity=0.514 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHhhcc
Q 034753 58 KLDTLERRLELLEVQVGT 75 (85)
Q Consensus 58 KL~~LEr~le~LEA~v~s 75 (85)
|+..||..|..|=+++++
T Consensus 123 KIsALEdELs~LRaQIA~ 140 (253)
T PF05308_consen 123 KISALEDELSRLRAQIAK 140 (253)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455555555555555544
No 253
>PF13805 Pil1: Eisosome component PIL1; PDB: 3PLT_B.
Probab=28.83 E-value=72 Score=25.40 Aligned_cols=28 Identities=25% Similarity=0.283 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
-.||+.|++.|-..|+....-||++..+
T Consensus 164 s~kl~~LeqELvraEae~lvaEAqL~n~ 191 (271)
T PF13805_consen 164 SPKLVVLEQELVRAEAENLVAEAQLSNI 191 (271)
T ss_dssp TTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHhhHHHHHHHHh
Confidence 3478888888888888888888887654
No 254
>PF13093 FTA4: Kinetochore complex Fta4 of Sim4 subunit, or CENP-50
Probab=28.75 E-value=92 Score=23.46 Aligned_cols=30 Identities=27% Similarity=0.406 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.+|+ .-+.+|..|+++++.+..++++|..=
T Consensus 142 ~rY~-~l~~~L~~l~~~r~~~~~rl~~lr~L 171 (213)
T PF13093_consen 142 ERYA-ELRERLIELSEQRQYLQQRLEYLRRL 171 (213)
T ss_pred HHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4565 66889999999999999999987643
No 255
>PF11841 DUF3361: Domain of unknown function (DUF3361)
Probab=28.68 E-value=54 Score=24.12 Aligned_cols=37 Identities=16% Similarity=0.280 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 31 SLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 31 s~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
..+|+|++.|+|.=. + ....+++.|.+||.-|.+.+.
T Consensus 57 ~~FI~Kia~~Vn~~~---------~--d~~i~q~sLaILEs~Vl~S~~ 93 (160)
T PF11841_consen 57 DSFIKKIASYVNSSA---------M--DASILQRSLAILESIVLNSPK 93 (160)
T ss_pred HHHHHHHHHHHcccc---------c--cchHHHHHHHHHHHHHhCCHH
Confidence 457888999888211 0 345677999999999886554
No 256
>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=28.64 E-value=1.5e+02 Score=18.77 Aligned_cols=29 Identities=31% Similarity=0.469 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-.++-+..+..++..+|..++-|+.+++.
T Consensus 44 e~e~~~~~l~~~~~~~e~~~~~l~~~l~~ 72 (74)
T PF12329_consen 44 ELEKQIKELKKKLEELEKELESLEERLKR 72 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34566777888888888888888877754
No 257
>PRK11239 hypothetical protein; Provisional
Probab=28.27 E-value=1.1e+02 Score=23.81 Aligned_cols=22 Identities=18% Similarity=0.315 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034753 53 ALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 53 a~lneKL~~LEr~le~LEA~v~ 74 (85)
..|++++..||..+.-|+++|.
T Consensus 186 ~~Le~rv~~Le~eva~L~~~l~ 207 (215)
T PRK11239 186 GDLQARVEALEIEVAELKQRLD 207 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555555555443
No 258
>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=28.27 E-value=1.2e+02 Score=18.96 Aligned_cols=25 Identities=24% Similarity=0.457 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.|+..|+..++.|-.+++-|...|.
T Consensus 3 akid~Ls~dVq~L~~kvdqLs~dv~ 27 (56)
T PF04728_consen 3 AKIDQLSSDVQTLNSKVDQLSSDVN 27 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566666555556555555555554
No 259
>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=28.20 E-value=1e+02 Score=20.60 Aligned_cols=19 Identities=37% Similarity=0.501 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034753 52 LALLNEKLDTLERRLELLE 70 (85)
Q Consensus 52 La~lneKL~~LEr~le~LE 70 (85)
+..+++|++.+|..++.||
T Consensus 10 ~~~~~~ki~~ve~~V~~l~ 28 (116)
T PF10552_consen 10 TEEHNEKIEEVENRVDDLE 28 (116)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4456666666666666665
No 260
>PF05480 Staph_haemo: Staphylococcus haemolytic protein; InterPro: IPR008846 This family consists of several different short Staphylococcal proteins, it contains SLUSH A, B and C proteins as well as haemolysin and gonococcal growth inhibitor. Some strains of the coagulase-negative Staphylococcus lugdunensis produce a synergistic hemolytic activity (SLUSH), phenotypically similar to the delta-hemolysin of S. aureus []. Gonococcal growth inhibitor from Staphylococcus acts on the cytoplasmic membrane of the gonococcal cell causing cytoplasmic leakage and, eventually, death [].; GO: 0009405 pathogenesis
Probab=28.17 E-value=1.4e+02 Score=17.88 Aligned_cols=31 Identities=19% Similarity=0.325 Sum_probs=20.1
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHH
Q 034753 12 NVGIAVQADWENREFISHISLNVRRLFEFLVQF 44 (85)
Q Consensus 12 ~v~~~iq~DW~nRE~ie~Is~~I~~i~~FLN~F 44 (85)
.|...+.+||.. +-..|-.-+.+-++++.+|
T Consensus 11 ~V~Ag~~~Dwa~--lgtsIv~iv~ngv~~i~k~ 41 (43)
T PF05480_consen 11 TVQAGQNQDWAK--LGTSIVDIVENGVDIISKF 41 (43)
T ss_pred HHHHHHhccHHH--HHHHHHHHHHHHHHHHHHH
Confidence 466677999985 4445555555666666665
No 261
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=27.94 E-value=80 Score=24.09 Aligned_cols=23 Identities=30% Similarity=0.505 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcc
Q 034753 53 ALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 53 a~lneKL~~LEr~le~LEA~v~s 75 (85)
..+.+-|..+|.|++.||.-+++
T Consensus 163 ~~v~~Dl~~ie~QV~~Le~~L~~ 185 (195)
T PF12761_consen 163 KSVREDLDTIEEQVDGLESHLSS 185 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556789999999999988754
No 262
>PF07047 OPA3: Optic atrophy 3 protein (OPA3); InterPro: IPR010754 OPA3 deficiency causes type III 3-methylglutaconic aciduria (MGA) in humans. This disease manifests with early bilateral optic atrophy, spasticity, extrapyramidal dysfunction, ataxia, and cognitive deficits, but normal longevity []. This family consists of several optic atrophy 3 (OPA3) proteins and related proteins from other eukaryotic species, the function is unknown.
Probab=27.85 E-value=90 Score=21.63 Aligned_cols=25 Identities=24% Similarity=0.425 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA 71 (85)
.-..++..|++++..|+.+++-+++
T Consensus 109 ~~~~~l~~L~~~i~~L~~~~~~~~~ 133 (134)
T PF07047_consen 109 ELQERLEELEERIEELEEQVEKQQE 133 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3446777777777777777776654
No 263
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=27.72 E-value=1.8e+02 Score=19.02 Aligned_cols=21 Identities=19% Similarity=0.365 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 51 KLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA 71 (85)
+|..++.+++.||..+..|++
T Consensus 67 ~Id~Ie~~V~~LE~~v~~LD~ 87 (99)
T PF10046_consen 67 QIDQIEEQVTELEQTVYELDE 87 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444466666666654443
No 264
>PF12152 eIF_4G1: Eukaryotic translation initiation factor 4G1; InterPro: IPR022745 The eukaryotic initiation factor 4G (eIF4G) is the core of a multicomponent switch controlling gene expression at the level of translation initiation. It interacts with the small ribosomal subunit interacting protein, eIF3, and the eIF4E/cap-mRNA complex in order to load the ribosome onto mRNA during cap-dependent translation. This entry represents the eIF4E-binding domain of eIF4G []. Binding of this domain to its substrate triggers a coupled folding transition where it forms a right-handed helical ring that wraps around the N terminus of eIF4E.; PDB: 1RF8_B.
Probab=27.71 E-value=46 Score=21.79 Aligned_cols=15 Identities=40% Similarity=0.554 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHH
Q 034753 38 FEFLVQFEATTKSKL 52 (85)
Q Consensus 38 ~~FLN~Fd~scr~KL 52 (85)
-+||-+|...|..|-
T Consensus 58 ~~FLLQF~~v~~~kp 72 (75)
T PF12152_consen 58 PDFLLQFQDVFKEKP 72 (75)
T ss_dssp HHHHHHHHHHH----
T ss_pred HHHHHHHHHHhccCC
Confidence 489999999998764
No 265
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=27.58 E-value=1.5e+02 Score=18.04 Aligned_cols=27 Identities=30% Similarity=0.297 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
-.++..+|...+.||+.|-.+|+-+.+
T Consensus 44 ~~~~~~~l~es~~ki~~Lr~~L~k~~~ 70 (72)
T cd00089 44 LAEAEQMLRESKQKLELLKMQLEKLKQ 70 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 458888999999999999888876543
No 266
>PRK11239 hypothetical protein; Provisional
Probab=27.54 E-value=90 Score=24.30 Aligned_cols=27 Identities=22% Similarity=0.449 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
-+.|++.|+.++..|+++++.|..+++
T Consensus 188 Le~rv~~Le~eva~L~~~l~~l~~~~~ 214 (215)
T PRK11239 188 LQARVEALEIEVAELKQRLDSLLAHLG 214 (215)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 578999999999999999999888765
No 267
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.39 E-value=2.2e+02 Score=19.80 Aligned_cols=23 Identities=13% Similarity=0.154 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LE 70 (85)
...++..+++++..|.+-.+.||
T Consensus 86 l~~~i~~Le~~l~~L~~~~~~l~ 108 (134)
T cd04779 86 VCDQIDGLEHRLKQLKPIASQTD 108 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555555443
No 268
>PF10157 DUF2365: Uncharacterized conserved protein (DUF2365); InterPro: IPR019314 This entry is found in a highly conserved family of proteins which have no known function.
Probab=27.39 E-value=2.4e+02 Score=20.37 Aligned_cols=46 Identities=15% Similarity=0.400 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHh
Q 034753 27 ISHISLNVRRLFEFLVQFEATTKS--KLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 27 ie~Is~~I~~i~~FLN~Fd~scr~--KLa~lneKL~~LEr~le~LEA~ 72 (85)
-+.+-.+|+.+-.++|+.+.--++ =+..|..++..|-+.|+.||.-
T Consensus 101 cdsvD~sik~~y~liakceELn~~M~~v~~La~qIK~Ik~~lD~lE~~ 148 (149)
T PF10157_consen 101 CDSVDASIKSMYTLIAKCEELNESMKPVYKLAQQIKDIKKLLDLLESL 148 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345778999999999998876553 4667788899999999999863
No 269
>PRK09039 hypothetical protein; Validated
Probab=27.33 E-value=97 Score=24.64 Aligned_cols=28 Identities=29% Similarity=0.529 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
...++..||+.+..|++++.-||+.+..
T Consensus 135 ~~~~V~~L~~qI~aLr~Qla~le~~L~~ 162 (343)
T PRK09039 135 ALAQVELLNQQIAALRRQLAALEAALDA 162 (343)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666677777777776666666654
No 270
>PF12999 PRKCSH-like: Glucosidase II beta subunit-like
Probab=27.12 E-value=2.7e+02 Score=20.83 Aligned_cols=30 Identities=23% Similarity=0.334 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 42 VQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 42 N~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
.++-...+.+...+..+|..||..|.-.++
T Consensus 145 ~~~i~~a~~~~~e~~~~l~~l~~ei~~~~~ 174 (176)
T PF12999_consen 145 QELIEEAKKKREELEKKLEELEKEIQAAKQ 174 (176)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344445667778888888888887776654
No 271
>PRK04863 mukB cell division protein MukB; Provisional
Probab=27.09 E-value=3.1e+02 Score=26.58 Aligned_cols=52 Identities=19% Similarity=0.168 Sum_probs=24.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+=|.++|.++..=.+.-+=+.+++ .++.||.++++.+..|+.++.-||.+..
T Consensus 280 ERR~liEEAag~r~rk~eA~kkLe-~tE~nL~rI~diL~ELe~rL~kLEkQaE 331 (1486)
T PRK04863 280 ERRVHLEEALELRRELYTSRRQLA-AEQYRLVEMARELAELNEAESDLEQDYQ 331 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666666433333333233332 3444455555555555555555554443
No 272
>PF07426 Dynactin_p22: Dynactin subunit p22; InterPro: IPR009991 This family contains p22, the smallest subunit of dynactin, a complex that binds to cytoplasmic dynein and is a required activator for cytoplasmic dynein-mediated vesicular transport. Dynactin localises to the cleavage furrow and to the midbodies of dividing cells, suggesting that it may function in cytokinesis [].
Probab=26.84 E-value=75 Score=23.27 Aligned_cols=15 Identities=60% Similarity=0.826 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHhh
Q 034753 59 LDTLERRLELLEVQV 73 (85)
Q Consensus 59 L~~LEr~le~LEA~v 73 (85)
|..||.+++-||.+|
T Consensus 7 l~~Le~Ri~~LE~~v 21 (174)
T PF07426_consen 7 LDILEKRIEELERRV 21 (174)
T ss_pred HHHHHHHHHHHHHHH
Confidence 556666666666666
No 273
>KOG3958 consensus Putative dynamitin [Cytoskeleton]
Probab=26.63 E-value=81 Score=26.34 Aligned_cols=21 Identities=29% Similarity=0.389 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 46 ATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~l 66 (85)
.|.-.|.|.|+.||+.||.-+
T Consensus 187 ~s~~akVA~LE~Rlt~lE~vv 207 (371)
T KOG3958|consen 187 FSQAAKVAELEKRLTELETVV 207 (371)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 455689999999999988754
No 274
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=26.58 E-value=1.1e+02 Score=23.70 Aligned_cols=27 Identities=22% Similarity=0.325 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
|.|.+.|++.|..+...+.-|.+.|.+
T Consensus 92 R~Rn~ELE~elr~~~~~~~~L~~Ev~~ 118 (248)
T PF08172_consen 92 RQRNAELEEELRKQQQTISSLRREVES 118 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677888888888888888888777765
No 275
>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=26.56 E-value=1.2e+02 Score=20.61 Aligned_cols=29 Identities=10% Similarity=0.044 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 40 FLVQFEATTKSKLALLNEKLDTLERRLEL 68 (85)
Q Consensus 40 FLN~Fd~scr~KLa~lneKL~~LEr~le~ 68 (85)
+|.+=-..-+.|++.|+...+.|+..+..
T Consensus 85 ~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 113 (131)
T TIGR02043 85 IVDAKLELVDEKINELTKIRRSLKKLSDA 113 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333334456666665555555554443
No 276
>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=26.56 E-value=2e+02 Score=19.00 Aligned_cols=36 Identities=22% Similarity=0.354 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
+|+.+=-..-+..+..+++.+..+.++++.+++.++
T Consensus 90 ~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l~ 125 (129)
T cd00584 90 EFLDKKIEELTKQIEKLQKELAKLKDQINTLEAELQ 125 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444433334444455555555555555555555443
No 277
>PF15003 HAUS2: HAUS augmin-like complex subunit 2
Probab=26.50 E-value=3.5e+02 Score=21.85 Aligned_cols=27 Identities=7% Similarity=0.127 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 23 NREFISHISLNVRRLFEFLVQFEATTK 49 (85)
Q Consensus 23 nRE~ie~Is~~I~~i~~FLN~Fd~scr 49 (85)
+++|=..+.+-+..++.|+.+++.+|.
T Consensus 128 EA~yHr~vVeLL~laa~fi~~Le~~Le 154 (277)
T PF15003_consen 128 EAQYHRYVVELLELAASFIEKLEEHLE 154 (277)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 456777777888889999999999988
No 278
>PRK12765 flagellar capping protein; Provisional
Probab=26.44 E-value=1.1e+02 Score=26.29 Aligned_cols=35 Identities=6% Similarity=0.205 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 41 LVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 41 LN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
|..+..+-...+.+|+++...++++|+-+|+++.+
T Consensus 530 l~~~~~~l~~~~~~l~~~~~~~~~rl~~~~~r~~~ 564 (595)
T PRK12765 530 LTKYDESLTNEIKSLTTSKESTQELIDTKYETMAN 564 (595)
T ss_pred chhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
No 279
>COG4062 MtrB Tetrahydromethanopterin S-methyltransferase, subunit B [Coenzyme metabolism]
Probab=26.37 E-value=1e+02 Score=21.76 Aligned_cols=22 Identities=23% Similarity=0.347 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 034753 53 ALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 53 a~lneKL~~LEr~le~LEA~v~ 74 (85)
.-++||+.+||.-.+-||..+.
T Consensus 34 ~pi~Eqi~kLe~~vddl~~sld 55 (108)
T COG4062 34 DPIEEQIKKLETLVDDLENSLD 55 (108)
T ss_pred cHHHHHHHHHHHHHHHHHhccC
Confidence 4578999999999999988775
No 280
>PF13410 GST_C_2: Glutathione S-transferase, C-terminal domain; PDB: 4DEJ_H 3IC8_A 2JL4_A 2V6K_B 3CBU_B 1JLW_B 3F6D_B 3G7I_A 3F63_A 3G7J_B ....
Probab=26.17 E-value=1.3e+02 Score=16.94 Aligned_cols=24 Identities=21% Similarity=0.279 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccC
Q 034753 54 LLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 54 ~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
.+++-.+.+++.++.||..++.-+
T Consensus 3 ~~~~~~~~~~~~l~~le~~L~~~~ 26 (69)
T PF13410_consen 3 AVERARAQLEAALDALEDHLADGP 26 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSS
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCC
Confidence 355667788888899999888644
No 281
>PRK06342 transcription elongation factor regulatory protein; Validated
Probab=26.12 E-value=83 Score=22.68 Aligned_cols=21 Identities=24% Similarity=0.251 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHhhccc
Q 034753 56 NEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 56 neKL~~LEr~le~LEA~v~s~ 76 (85)
.+++..+|+++.+||.+++.+
T Consensus 63 k~~~~~~e~rI~~L~~~L~~A 83 (160)
T PRK06342 63 RRQMARPLRDLRYLAARRRTA 83 (160)
T ss_pred HHHHHHHHHHHHHHHHHHccC
Confidence 356666777777777777664
No 282
>PRK00965 tetrahydromethanopterin S-methyltransferase subunit B; Provisional
Probab=26.10 E-value=82 Score=21.64 Aligned_cols=23 Identities=22% Similarity=0.343 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhc
Q 034753 52 LALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~ 74 (85)
+.-++||+++||.-.+-||..++
T Consensus 33 ~~pi~E~i~kLe~~addL~nsLd 55 (96)
T PRK00965 33 MDPIEEEINKLEALADDLENSLD 55 (96)
T ss_pred chHHHHHHHHHHHHHHHHHhccC
Confidence 56789999999999999998775
No 283
>smart00076 IFabd Interferon alpha, beta and delta. Interferons produce antiviral and antiproliferative responses in cells. They are classified into five groups, all of them related but gamma-interferon.
Probab=26.02 E-value=1.9e+02 Score=19.82 Aligned_cols=52 Identities=19% Similarity=0.234 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 26 FISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 26 ~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
-+.++..-..+|+...+.-++++-=.-..+++=|+.|-++++.||+-+....
T Consensus 19 a~~~~~emlqqif~lF~~~~ssa~W~~t~le~~l~~L~~Ql~~Le~Cl~~~~ 70 (117)
T smart00076 19 AASVIHEMLQQIFNIFSSPSSSAAWNETLLESLLNELHQQLNHLEACLKQEM 70 (117)
T ss_pred HHHHHHHHHHHHHHHHcCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3677777788888888877777655556677778889999999998776543
No 284
>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=25.82 E-value=1.8e+02 Score=18.25 Aligned_cols=29 Identities=21% Similarity=0.305 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
..--..+..|.+++..|+++++-|..++.
T Consensus 61 l~~i~~~l~l~~~~~~l~~~l~~l~~~~~ 89 (91)
T cd04766 61 LAGVKRILELEEELAELRAELDELRARLR 89 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33444555688888888888888877764
No 285
>PF01895 PhoU: PhoU domain; InterPro: IPR008170 This family contains phosphate regulatory proteins including PhoU. PhoU proteins are known to play a role in the regulation of phosphate uptake. The PhoU domain is composed of a three helix bundle []. The PhoU protein contains two copies of this domain. The domain binds to an iron cluster via its conserved E/DXXXD motif. Deletion of PhoU activates constitutive expression of the phosphate ABC transporter and allows phosphate transport, but causes a growth defect; suggesting that the protein has some secondary function []. ; PDB: 2I0M_A 1T72_B 1T8B_A 1SUM_B 1VCT_A 2BKN_A 2BKP_A 2BKO_A.
Probab=25.81 E-value=1.4e+02 Score=17.14 Aligned_cols=42 Identities=17% Similarity=0.226 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 25 EFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 25 E~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
++.+.+...+..+.+-+..-+...-.++..+++++..+..++
T Consensus 3 ~m~~~~~~~l~~~~~~~~~~d~~~a~~i~~~e~~id~~~~~~ 44 (88)
T PF01895_consen 3 EMGELVEEMLDDAIEAFEERDSELAQEIIQLEEEIDELYREI 44 (88)
T ss_dssp HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhHHHHHHHHHHH
Confidence 344555566666666666666666677777777777777666
No 286
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=25.80 E-value=2.8e+02 Score=20.54 Aligned_cols=22 Identities=23% Similarity=0.302 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034753 54 LLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 54 ~lneKL~~LEr~le~LEA~v~s 75 (85)
.++.+|..++.++|.++.++..
T Consensus 166 ~ie~~L~~v~~eIe~~~~~~~~ 187 (262)
T PF14257_consen 166 EIERELSRVRSEIEQLEGQLKY 187 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5556666666666666666543
No 287
>PF12220 U1snRNP70_N: U1 small nuclear ribonucleoprotein of 70kDa MW N terminal; InterPro: IPR022023 This domain is found in eukaryotes. This domain is about 90 amino acids in length. This domain is found associated with PF00076 from PFAM. This domain is part of U1 snRNP, which is the pre-mRNA binding protein of the penta-snRNP spliceosome complex. It extends over a distance of 180 A from its RNA binding domain, wraps around the core domain of U1 snRNP consisting of the seven Sm proteins and finally contacts U1-C, which is crucial for 5'-splice-site recognition.
Probab=25.79 E-value=1.6e+02 Score=19.12 Aligned_cols=42 Identities=19% Similarity=0.275 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHH--------HHHH-HHHHHHHHHHHHHHHHHHHhhcc
Q 034753 34 VRRLFEFLVQFEATT--------KSKL-ALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 34 I~~i~~FLN~Fd~sc--------r~KL-a~lneKL~~LEr~le~LEA~v~s 75 (85)
|.-|++||+.|+.-+ +++. .....+-.+.|+.-+.|+..+..
T Consensus 37 itGvs~~l~~~~~~~~~~~~~~~et~~e~~~r~~~ek~~~~~~~l~~~l~~ 87 (94)
T PF12220_consen 37 ITGVSQYLSEFEDYKDEPPPEPTETKEERRERKRKEKKEKNEEKLEEELKE 87 (94)
T ss_pred CCcHHHHHHHHhccccCCCCCCccCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 556788888887666 3333 33445556666666777776654
No 288
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=25.74 E-value=1.1e+02 Score=20.36 Aligned_cols=31 Identities=26% Similarity=0.532 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 40 FLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 40 FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
|+--|..+ .|+.++++|++.|=|.+-.+|+.
T Consensus 78 l~~~~~l~--~~is~le~~i~~L~qeiAl~e~~ 108 (115)
T PF10066_consen 78 LVIIFSLY--VRISRLEEKIKRLAQEIALLEAE 108 (115)
T ss_pred HHHHHHHH--HHHHHHHHHHHHHHHHHHHHhhh
Confidence 33444444 46888999999999998888765
No 289
>PF04816 DUF633: Family of unknown function (DUF633) ; InterPro: IPR006901 This is a family of uncharacterised bacterial proteins.; GO: 0016429 tRNA (adenine-N1-)-methyltransferase activity; PDB: 3LEC_A 3KU1_G 3KR9_A 3GNL_B.
Probab=25.69 E-value=2e+02 Score=21.25 Aligned_cols=42 Identities=21% Similarity=0.377 Sum_probs=28.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHH
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATT-KSKLALLNEKLDTLE 63 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~sc-r~KLa~lneKL~~LE 63 (85)
.+..|.+.+..-+.+.-..+++...+. ..|.+.+.++|..+|
T Consensus 162 ~~~~~~~~l~~~~~~~~~i~~~l~~~~~~~~~~~~~~~i~~i~ 204 (205)
T PF04816_consen 162 KDPLLKEYLQRKLRKLKRILQQLESSQAQKKYEELKEEIEQIE 204 (205)
T ss_dssp T-HHHHHHHHHHHHHHHHHHHHSHTCHHHHHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHhh
Confidence 345677788888888888777776433 346777777776665
No 290
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=25.43 E-value=4.5e+02 Score=23.03 Aligned_cols=47 Identities=21% Similarity=0.179 Sum_probs=25.7
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 16 AVQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 16 ~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
++|+-=..|++|..|...+..+ ++-+.++-.|++....|+..|+.++
T Consensus 346 Q~q~~~~~r~ri~~i~e~v~eL----qk~~ad~~~KI~~~k~r~~~Ls~Ri 392 (508)
T KOG3091|consen 346 QDQEVKQHRIRINAIGERVTEL----QKHHADAVAKIEEAKNRHVELSHRI 392 (508)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----HhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 4444455677777777666543 3455555455555555555444443
No 291
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=25.27 E-value=3e+02 Score=20.66 Aligned_cols=58 Identities=19% Similarity=0.255 Sum_probs=46.0
Q ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH----H-HHHHHHHHHHHHHHHHHHHHHh
Q 034753 15 IAVQADWENREFISHISLNVRRLFEFLVQFEATTK----S-KLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 15 ~~iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr----~-KLa~lneKL~~LEr~le~LEA~ 72 (85)
..+++++.+.+....+...+..+++=|.+...+-+ . ...+++..++.|+.+++.++.+
T Consensus 196 ~~l~~~f~~~~~l~~~~~~l~~~a~~l~~ia~ai~~~~~~~~~~~l~~~l~~l~~~l~~~~~~ 258 (284)
T PF12805_consen 196 EELREQFKHSDVLFRFQRLLEQLAQALRQIAQAILRGRPYHHRNRLKRALEALEESLEFLRQQ 258 (284)
T ss_pred HHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCchHHHHHHHHHHHHHHHHHHh
Confidence 46778888889888888888888888887776655 2 2456888899999999988887
No 292
>PF03750 DUF310: Protein of unknown function (DUF310); InterPro: IPR010149 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents the C-terminal domain of a minor family of CRISPR-associated proteins. These proteins are found adjacent to a characteristic short, palindromic repeat cluster termed CRISPR, a probable mobile DNA element.
Probab=25.15 E-value=1.5e+02 Score=20.02 Aligned_cols=19 Identities=21% Similarity=0.300 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHhhc
Q 034753 56 NEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 56 neKL~~LEr~le~LEA~v~ 74 (85)
.+....+++=..++||-|+
T Consensus 92 ~~~~~~f~~F~~~fEAiVA 110 (119)
T PF03750_consen 92 GKDKKDFERFCKFFEAIVA 110 (119)
T ss_pred hCCHHHHHHHHHHHHHHHH
Confidence 3344456777778888765
No 293
>PF14063 DUF4254: Protein of unknown function (DUF4254)
Probab=24.97 E-value=1.4e+02 Score=21.47 Aligned_cols=27 Identities=30% Similarity=0.384 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.|..||..++++...|-+.++-|=..+
T Consensus 110 ~~~~kl~vl~~qradL~~~i~~Ll~d~ 136 (145)
T PF14063_consen 110 RCARKLYVLNEQRADLKRAIDQLLGDI 136 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999999999998764443
No 294
>KOG1655 consensus Protein involved in vacuolar protein sorting [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.87 E-value=2.3e+02 Score=22.20 Aligned_cols=35 Identities=14% Similarity=0.264 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
+--+|=..++.|+++|+++|.-+--++++.-..|+
T Consensus 23 ~v~~r~dSve~KIskLDaeL~k~~~Qi~k~R~gpa 57 (218)
T KOG1655|consen 23 SVNKRSDSVEKKISKLDAELCKYKDQIKKTRPGPA 57 (218)
T ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCCcc
Confidence 34456667788888888888888888887665564
No 295
>cd03182 GST_C_GTT2_like GST_C family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins, and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal thioredoxin-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. GSH binds to the N-terminal domain while the hydrophobic substrate occupies a pocket in the C-terminal domain. GTT2, a homodimer, exhibits GST activity with standard substrates. Strains with deleted GTT2 genes are viable but exhibit increased sensiti
Probab=24.76 E-value=1.5e+02 Score=18.12 Aligned_cols=22 Identities=9% Similarity=0.039 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc
Q 034753 54 LLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 54 ~lneKL~~LEr~le~LEA~v~s 75 (85)
..++-.+.+++.+.+||+.++.
T Consensus 46 ~~~~~~~~l~~~l~~le~~L~~ 67 (117)
T cd03182 46 WGERSKARAADFLAYLDTRLAG 67 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC
Confidence 4567778899999999999964
No 296
>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional
Probab=24.70 E-value=1.2e+02 Score=25.05 Aligned_cols=24 Identities=13% Similarity=0.048 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHhhcccCCCCCC
Q 034753 59 LDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 59 L~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
+..|+++++.+..+|...-++|.+
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~ 106 (438)
T PTZ00361 83 QKPAQEKNEAELKKVDDLRGSPLS 106 (438)
T ss_pred hhhHHHHHHHHHHHHHHhhCCCcE
Confidence 334455555555555555555543
No 297
>PF13220 DUF4028: Protein of unknown function (DUF4028)
Probab=24.69 E-value=45 Score=21.48 Aligned_cols=11 Identities=55% Similarity=1.054 Sum_probs=8.0
Q ss_pred HHHHhhhh-HHH
Q 034753 15 IAVQADWE-NRE 25 (85)
Q Consensus 15 ~~iq~DW~-nRE 25 (85)
..+..||. |||
T Consensus 45 kevekdwkenre 56 (65)
T PF13220_consen 45 KEVEKDWKENRE 56 (65)
T ss_pred HHHHHHHHHhhh
Confidence 46889994 665
No 298
>KOG3759 consensus Uncharacterized RUN domain protein [Signal transduction mechanisms]
Probab=24.43 E-value=2.2e+02 Score=25.29 Aligned_cols=43 Identities=23% Similarity=0.416 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 38 FEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 38 ~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
-+|+|-|.. -+.=.++|.-+++-|||-+++|--.+.+-+++|.
T Consensus 216 ~q~VnP~k~-KeQLV~QLkTQItDLErFInFlQ~e~~e~s~~p~ 258 (621)
T KOG3759|consen 216 KQLVNPFKE-KEQLVDQLKTQITDLERFINFLQDEVGENSNQPL 258 (621)
T ss_pred HHHhChHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCCCC
Confidence 456777763 3444678999999999999999999999888775
No 299
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=24.40 E-value=2.9e+02 Score=21.16 Aligned_cols=11 Identities=18% Similarity=0.111 Sum_probs=5.9
Q ss_pred HHHHHHHHHHH
Q 034753 36 RLFEFLVQFEA 46 (85)
Q Consensus 36 ~i~~FLN~Fd~ 46 (85)
+|++||.+++.
T Consensus 377 kI~~~l~~l~~ 387 (461)
T PRK09737 377 EIVRRVEQLFA 387 (461)
T ss_pred HHHHHHHHHHH
Confidence 45566655543
No 300
>PF09036 Bcr-Abl_Oligo: Bcr-Abl oncoprotein oligomerisation domain; InterPro: IPR015123 This entry represents the oligomerisation domain of the breakpoint cluster region oncoprotein Bcr, and the Bcr/Abl (Abelson-leukemia-virus) fusion protein created by a reciprocal (9;22) fusion []. Brc displays serine/threonine protein kinase activity (2.7.11.1 from EC), acting as a GTPase-activating protein for RAC1 and CDC42. Brc promotes the exchange of RAC or CDC42-bound GDP by GTP, thereby activating them []. The Bcr/Abl fusion protein loses some of the regulatory function of Bcr with regards to small Rho-like GTPases with negative consequences on cell motility, in particular on the capacity to adhere to endothelial cells []. The Bcr, Bcr/Abl oncoprotein oligomerisation domain consists of a short N-terminal helix (alpha-1), a flexible loop and a long C-terminal helix (alpha-2). Together these form an N-shaped structure, with the loop allowing the two helices to assume a parallel orientation. The monomeric domains associate into a dimer through the formation of an antiparallel coiled coil between the alpha-2 helices and domain swapping of two alpha-1 helices, where one alpha-1 helix swings back and packs against the alpha-2 helix from the second monomer. Two dimers then associate into a tetramer. The oligomerisation domain is essential for the oncogenicity of the Bcr-Abl protein []. ; GO: 0004674 protein serine/threonine kinase activity, 0005096 GTPase activator activity, 0006468 protein phosphorylation, 0007165 signal transduction; PDB: 1K1F_C.
Probab=24.33 E-value=1.8e+02 Score=19.59 Aligned_cols=30 Identities=13% Similarity=0.238 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 46 ATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 46 ~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.-|+..|-+|++.+.+=-=+|-||++-+++
T Consensus 36 erCK~sirrLeqevnkERFrmiYLQTlLAk 65 (79)
T PF09036_consen 36 ERCKASIRRLEQEVNKERFRMIYLQTLLAK 65 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 379999999999888877789999988875
No 301
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=24.30 E-value=1.8e+02 Score=17.73 Aligned_cols=32 Identities=22% Similarity=0.334 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.....+++++.++..++..-+-|..+++.-.+
T Consensus 28 ~~~~~~~~~~~~~~~l~~en~~L~~ei~~l~~ 59 (85)
T TIGR02209 28 QLNNELQKLQLEIDKLQKEWRDLQLEVAELSR 59 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 45566777777777777777777777776554
No 302
>PF14586 MHC_I_2: Class I Histocompatibility antigen, NKG2D ligand, domains 1 and 2; PDB: 1JFM_E.
Probab=24.23 E-value=1.2e+02 Score=22.80 Aligned_cols=38 Identities=24% Similarity=0.559 Sum_probs=26.9
Q ss_pred HHHHHhhhhH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 14 GIAVQADWEN-REFISHISLNVRRLFEFLVQFEATTKSK 51 (85)
Q Consensus 14 ~~~iq~DW~n-RE~ie~Is~~I~~i~~FLN~Fd~scr~K 51 (85)
-+.|.+-|+| |++.+.+...|..-...|+.|=..++.|
T Consensus 136 a~~i~e~We~d~~L~~~l~~~~gDc~~wl~eFL~~~kE~ 174 (174)
T PF14586_consen 136 ARGIKEEWENDRDLAQHLKFSMGDCSHWLKEFLKHSKEK 174 (174)
T ss_dssp HHHHHHHHHTBHHHHHHHHHHHHHHHHHHHHHHHCTS--
T ss_pred hhhHHHHhhccHHHHHHHHHHhcccHHHHHHHHHhhccC
Confidence 3568889985 6777788777777777788887666654
No 303
>PF14643 DUF4455: Domain of unknown function (DUF4455)
Probab=24.07 E-value=4.1e+02 Score=21.88 Aligned_cols=65 Identities=22% Similarity=0.331 Sum_probs=40.9
Q ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHhhcccC
Q 034753 16 AVQADWENREFISHISLNVRRLFEFLV---QFEATTKSKLALLNEKL---------------DTLERRLELLEVQVGTAS 77 (85)
Q Consensus 16 ~iq~DW~nRE~ie~Is~~I~~i~~FLN---~Fd~scr~KLa~lneKL---------------~~LEr~le~LEA~v~s~~ 77 (85)
.+...|+... ......+.+++.|+. .+=..++.+++.+++.+ +..|.+|+.+-.++...+
T Consensus 327 ~l~~~~E~~a--~~~~~~~~~L~~f~~~~~~lwd~h~~~l~~~e~~l~~~l~~~r~~~~~~~q~~E~~Ld~~~d~lRq~s 404 (473)
T PF14643_consen 327 KLDKSFEELA--KQTEAQSEDLFKFFQEAAQLWDEHRKKLSKQEEELEKRLEQCREKHDQENQEKEAKLDIALDRLRQAS 404 (473)
T ss_pred HHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHhCC
Confidence 3445565553 223344444555543 33445567777776666 888999999999988888
Q ss_pred CCCCC
Q 034753 78 ANPHL 82 (85)
Q Consensus 78 ~~p~~ 82 (85)
+.|.|
T Consensus 405 ~ee~L 409 (473)
T PF14643_consen 405 SEEKL 409 (473)
T ss_pred CHHHH
Confidence 76654
No 304
>TIGR02054 MerD mercuric resistence transcriptional repressor protein MerD. This model represents a transcriptional repressor protein of the MerR family (pfam00376) whose expression is regulated by the mercury-sensitive transcriptional activator, MerR. MerD has been shown to repress the transcription of the mer operon.
Probab=24.01 E-value=2.3e+02 Score=19.36 Aligned_cols=14 Identities=14% Similarity=0.218 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHHHH
Q 034753 33 NVRRLFEFLVQFEA 46 (85)
Q Consensus 33 ~I~~i~~FLN~Fd~ 46 (85)
++..|-++|+-.+.
T Consensus 62 ~L~eI~~ll~~~~~ 75 (120)
T TIGR02054 62 GLGELARLCRALDA 75 (120)
T ss_pred CHHHHHHHHHhhcc
Confidence 56666666664443
No 305
>PF02609 Exonuc_VII_S: Exonuclease VII small subunit; InterPro: IPR003761 Exonuclease VII is composed of two non-identical subunits; one large subunit and 4 small ones []. This enzyme catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield nucleoside 5'-phosphates.; GO: 0008855 exodeoxyribonuclease VII activity, 0006308 DNA catabolic process, 0009318 exodeoxyribonuclease VII complex; PDB: 1VP7_F.
Probab=24.01 E-value=1e+02 Score=18.05 Aligned_cols=17 Identities=18% Similarity=0.370 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034753 46 ATTKSKLALLNEKLDTL 62 (85)
Q Consensus 46 ~scr~KLa~lneKL~~L 62 (85)
..|+.+|.....|++.|
T Consensus 37 ~~c~~~L~~~e~~i~~l 53 (53)
T PF02609_consen 37 KKCQERLEEAEQKIEEL 53 (53)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhC
Confidence 35666666666665543
No 306
>PRK10884 SH3 domain-containing protein; Provisional
Probab=23.90 E-value=3.2e+02 Score=20.51 Aligned_cols=21 Identities=24% Similarity=0.338 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 49 KSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~L 69 (85)
+..|+.+..++..||++++.+
T Consensus 145 ~~~l~~~~~~~~~l~~~~~~~ 165 (206)
T PRK10884 145 KNQLIVAQKKVDAANLQLDDK 165 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333444444444444443333
No 307
>PF03449 GreA_GreB_N: Transcription elongation factor, N-terminal; InterPro: IPR022691 Bacterial proteins greA and greB are necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites. Arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked DNA/RNA/ polymerase ternary complexes. Cleavage of the nascent transcript by cleavage factors, such as greA or greB, allows the resumption of elongation from the new 3' terminus [, ]. Escherichia coli GreA and GreB are sequence homologues and have homologues in every known bacterial genome []. GreA induces cleavage two or three nucleotides behind the terminus and can only prevent the formation of arrested complexes while greB releases longer sequences up to eighteen nucleotides in length and can rescue preexisting arrested complexes. These functional differences correlate with a distinctive structural feature, the distribution of positively charged residues on one face of the N-terminal coiled coil. Remarkably, despite close functional similarity, the prokaryotic Gre factors have no sequence or structural similarity with eukaryotic TFIIS. ; GO: 0003677 DNA binding, 0032784 regulation of transcription elongation, DNA-dependent; PDB: 1GRJ_A 2EUL_C 3AOH_Y 3AOI_X 2F23_A 2ETN_C 2P4V_B.
Probab=23.69 E-value=85 Score=19.93 Aligned_cols=19 Identities=32% Similarity=0.415 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHhhcc
Q 034753 57 EKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 57 eKL~~LEr~le~LEA~v~s 75 (85)
++...+|+++.+||..++.
T Consensus 53 e~q~~le~rI~~Le~~l~~ 71 (74)
T PF03449_consen 53 ERQAFLEARIRELEERLAR 71 (74)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3444555555555555543
No 308
>KOG1161 consensus Protein involved in vacuolar polyphosphate accumulation, contains SPX domain [Inorganic ion transport and metabolism]
Probab=23.60 E-value=3.1e+02 Score=22.36 Aligned_cols=39 Identities=18% Similarity=0.390 Sum_probs=28.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
..-+|++.+...|.++..| |..|-..+..||+.||-+.+
T Consensus 45 ~e~dFv~~Ld~ELEKv~~F-------~lek~~el~~Rl~~L~e~~~ 83 (310)
T KOG1161|consen 45 DESDFVRLLDAELEKVNGF-------QLEKESELIIRLKELEEKID 83 (310)
T ss_pred hHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHhh
Confidence 5668888888888888776 45666777777777776664
No 309
>KOG1419 consensus Voltage-gated K+ channel KCNQ [Inorganic ion transport and metabolism]
Probab=23.55 E-value=96 Score=27.77 Aligned_cols=22 Identities=27% Similarity=0.613 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRLELL 69 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~L 69 (85)
--.||..++.+.+.||++++.|
T Consensus 567 m~~Rl~~vEkqv~~le~Kld~l 588 (654)
T KOG1419|consen 567 MMGRLVKVEKQVQSLEKKLDLL 588 (654)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3457777777777777777754
No 310
>PRK06771 hypothetical protein; Provisional
Probab=23.52 E-value=2e+02 Score=19.68 Aligned_cols=31 Identities=19% Similarity=0.439 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~l 66 (85)
=+..-|++-+..+..|+.+++.||+.+=.++
T Consensus 16 ~i~~~l~~~~~~~~~~~k~ie~~L~~I~~~~ 46 (93)
T PRK06771 16 YIVEKLTKIEKKTDARLKRMEDRLQLITKEM 46 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 3455566677777777777777777665443
No 311
>KOG4603 consensus TBP-1 interacting protein [Signal transduction mechanisms]
Probab=23.49 E-value=82 Score=24.35 Aligned_cols=30 Identities=23% Similarity=0.426 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
..+++.|.+|++.|-....+.||.+.+.++
T Consensus 85 d~~i~~l~ek~q~l~~t~s~veaEik~L~s 114 (201)
T KOG4603|consen 85 DGKIVALTEKVQSLQQTCSYVEAEIKELSS 114 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346666777777777777788988765443
No 312
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=23.44 E-value=1e+02 Score=14.68 Aligned_cols=31 Identities=16% Similarity=0.151 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
+..+++..-.++...+..+++++.-+..-|.
T Consensus 2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~ 32 (33)
T PF13174_consen 2 ALYRLARCYYKLGDYDEAIEYFQRLIKRYPD 32 (33)
T ss_dssp HHHHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence 4567788888888888888888887776654
No 313
>COG1345 FliD Flagellar capping protein [Cell motility and secretion]
Probab=23.38 E-value=4.6e+02 Score=22.24 Aligned_cols=52 Identities=17% Similarity=0.234 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 26 FISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 26 ~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
++..+...|+.+.+=|..-+.--+.|+..|.+-++++..+..+|-..+.+++
T Consensus 430 ~i~~l~~~i~~~~~rl~~~e~~~~~qf~~m~~~~~~m~sq~~~L~q~l~~~~ 481 (483)
T COG1345 430 QIKSLDKDIKSLDKRLEAAEERYKTQFNTLDDMMTQMNSQSSYLTQQLVSVS 481 (483)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 4555666666666666666666667777777777777777777777776654
No 314
>PF07445 priB_priC: Primosomal replication protein priB and priC; InterPro: IPR010890 This family contains the bacterial primosomal replication proteins priB and priC (approximately 180 residues long). In Escherichia coli, these function in the assembly of the primosome [].
Probab=23.30 E-value=1.6e+02 Score=21.25 Aligned_cols=24 Identities=13% Similarity=0.317 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 47 TTKSKLALLNEKLDTLERRLELLE 70 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LE 70 (85)
..+.||++-.+=+..||+++++.|
T Consensus 149 a~e~RL~RCr~Ai~~iE~~I~~~E 172 (173)
T PF07445_consen 149 ALEQRLQRCRQAIEKIEEQIQRRE 172 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445555555555566666666555
No 315
>KOG0250 consensus DNA repair protein RAD18 (SMC family protein) [Replication, recombination and repair]
Probab=23.27 E-value=2.2e+02 Score=27.02 Aligned_cols=40 Identities=25% Similarity=0.334 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.|.++=.++..+..+.+..+..|+..|+.+++-||..+++
T Consensus 380 ~I~~~~~~~~~~~~~~~~e~e~k~~~L~~evek~e~~~~~ 419 (1074)
T KOG0250|consen 380 QIADLEKQTNNELGSELEERENKLEQLKKEVEKLEEQINS 419 (1074)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555666677788888889999999999999888876654
No 316
>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=23.26 E-value=1.9e+02 Score=17.67 Aligned_cols=33 Identities=21% Similarity=0.282 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 40 FLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 40 FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
.|......-+.|+..+++.+..||++-..|-.+
T Consensus 9 lLqe~~d~IEqkiedid~qIaeLe~KR~~Lv~q 41 (46)
T PF08946_consen 9 LLQEHYDNIEQKIEDIDEQIAELEAKRQRLVDQ 41 (46)
T ss_dssp ------THHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHhHHHHHHHHHHHHHHHHHHHHh
Confidence 345555667778888888888888777666554
No 317
>PRK15002 redox-sensitivie transcriptional activator SoxR; Provisional
Probab=23.23 E-value=2.8e+02 Score=19.71 Aligned_cols=32 Identities=13% Similarity=0.144 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
.....|.+=...-+.|++.|...++.|+..+.
T Consensus 90 ~~~~ll~~k~~~l~~~I~~L~~~~~~L~~~i~ 121 (154)
T PRK15002 90 EWKQLSSQWREELDRRIHTLVALRDELDGCIG 121 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34555556556777788888888888877654
No 318
>PF11593 Med3: Mediator complex subunit 3 fungal; InterPro: IPR020998 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 the subunit Med3, which is a physical target for Cyc8-Tup1, a yeast transcriptional co-repressor []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=23.09 E-value=95 Score=26.10 Aligned_cols=33 Identities=27% Similarity=0.266 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTASAN 79 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~ 79 (85)
+-|.||-+|..||+.|-+.++-|-.-+..++.+
T Consensus 69 ~IR~KlleL~~~lQ~lS~df~~LqPLF~Ti~ey 101 (379)
T PF11593_consen 69 LIRSKLLELYNKLQELSSDFQKLQPLFDTIPEY 101 (379)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhchHHhhhHHH
Confidence 789999999999999999998776666555543
No 319
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=23.07 E-value=2.5e+02 Score=20.96 Aligned_cols=48 Identities=23% Similarity=0.358 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 30 ISLNVRRLFEFLVQFEA---TTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~---scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
|..++..+.+-|..+.. ..+.++..++..+..|+..++.|.-++..+.
T Consensus 22 l~~~~e~~~~~L~~~~~~~~~~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~ 72 (264)
T PF06008_consen 22 LLSSIEDLTNQLRSYRSKLNPQKQQLDPLEKELESLEQDVENLQEKATKVS 72 (264)
T ss_pred HHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555555443 5778899999999999999999988876543
No 320
>COG5521 Predicted integral membrane protein [Function unknown]
Probab=22.92 E-value=2e+02 Score=23.30 Aligned_cols=41 Identities=20% Similarity=0.364 Sum_probs=32.1
Q ss_pred CcchhHHHHHHHhhh--hHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 7 ITNAVNVGIAVQADW--ENREFISHISLNVRRLFEFLVQFEAT 47 (85)
Q Consensus 7 ~~~~~~v~~~iq~DW--~nRE~ie~Is~~I~~i~~FLN~Fd~s 47 (85)
+++-.+|...|.+|| +||-||-..---+.....+|+.|-.+
T Consensus 153 ~tsv~sv~d~is~qWy~qnka~i~lflvl~~s~i~~l~tfiva 195 (275)
T COG5521 153 KTSVHSVEDLISTQWYAQNKAMIMLFLVLVVSMIQLLLTFIVA 195 (275)
T ss_pred cCchhHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788999999999 67888776666667777888888654
No 321
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=22.91 E-value=2.5e+02 Score=22.21 Aligned_cols=36 Identities=22% Similarity=0.421 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 39 EFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 39 ~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.=|+.|+.--.+|++.|.+.+..|++++.-.=..|+
T Consensus 70 ~eLqe~eek~e~~l~~Lq~ql~~l~akI~k~~~el~ 105 (258)
T PF15397_consen 70 AELQEWEEKEESKLSKLQQQLEQLDAKIQKTQEELN 105 (258)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347788888888888888888888888775544443
No 322
>PF14335 DUF4391: Domain of unknown function (DUF4391)
Probab=22.45 E-value=2.7e+02 Score=20.46 Aligned_cols=27 Identities=15% Similarity=0.225 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 52 LALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
.....+++..||+++..|++++++...
T Consensus 177 ~~~~~~~i~~L~kei~~L~~~~~kEkq 203 (221)
T PF14335_consen 177 RIERLEQIEKLEKEIAKLKKKIKKEKQ 203 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 344556789999999999999987543
No 323
>KOG4739 consensus Uncharacterized protein involved in synaptonemal complex formation [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=22.43 E-value=3.8e+02 Score=20.95 Aligned_cols=47 Identities=15% Similarity=0.159 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034753 27 ISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTAS 77 (85)
Q Consensus 27 ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~ 77 (85)
.+..+..+.+ +..|...-|+|++.-+++=+++|+...-+|.++++.+
T Consensus 114 ~~e~~~ql~k----e~a~~~~nrk~~~~~E~~nrka~~~~~~~e~~~~ss~ 160 (233)
T KOG4739|consen 114 TQEETQQLSK----EEAFIENNRKKLQASELENRKAERLISALELKSASSF 160 (233)
T ss_pred HHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHhchhhhhhccccch
Confidence 3344444554 6788999999999999999999999999999998876
No 324
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=22.38 E-value=2.6e+02 Score=19.01 Aligned_cols=58 Identities=26% Similarity=0.204 Sum_probs=30.6
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 17 VQADWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 17 iq~DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.+.|=+.||-...--.....-.+.|+..-.-.+.+++.+..++..++.+..-|+.++.
T Consensus 47 ~~r~~~~~e~l~~~~~~l~~d~~~l~~~~~rL~~~~~~~ere~~~~~~~~~~l~~~~~ 104 (151)
T PF11559_consen 47 RDRDMEQREDLSDKLRRLRSDIERLQNDVERLKEQLEELERELASAEEKERQLQKQLK 104 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445445544444444444455555555555556666666555555555555555443
No 325
>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=22.37 E-value=2.1e+02 Score=21.37 Aligned_cols=27 Identities=22% Similarity=0.356 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
.++.++..|+.+|..|+.+...||..|
T Consensus 220 ~~r~~~~~l~~el~~l~~~~~~Le~~l 246 (312)
T PF00038_consen 220 ELRRQIQSLQAELESLRAKNASLERQL 246 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhhhhHhhhhhhccccchhhhhhhH
Confidence 345555555555555555555555444
No 326
>COG1662 InsB Transposase and inactivated derivatives, IS1 family [DNA replication, recombination, and repair]
Probab=22.05 E-value=40 Score=23.97 Aligned_cols=30 Identities=30% Similarity=0.444 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 45 EATTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 45 d~scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
-+.||.+|++++.|-...-+++++++--|+
T Consensus 89 N~~~R~~LaR~~RkTk~~srS~~m~~~sl~ 118 (121)
T COG1662 89 NLSLRHHLARLARKTKCFTRSLEMHDYSVG 118 (121)
T ss_pred CchHHHHHHHhcCcceeeehhHHHHHHHHH
Confidence 468999999999999999999999886553
No 327
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=22.01 E-value=2.2e+02 Score=18.81 Aligned_cols=17 Identities=35% Similarity=0.434 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034753 53 ALLNEKLDTLERRLELL 69 (85)
Q Consensus 53 a~lneKL~~LEr~le~L 69 (85)
++|.++|++||+.|.-+
T Consensus 10 ~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 10 ARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45556666666555543
No 328
>PRK13752 putative transcriptional regulator MerR; Provisional
Probab=21.94 E-value=2e+02 Score=20.10 Aligned_cols=28 Identities=14% Similarity=0.023 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 40 FLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 40 FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
.|.+=-..-+.|++.|++-...|...+.
T Consensus 88 ll~~k~~~l~~~i~~L~~~~~~L~~~~~ 115 (144)
T PRK13752 88 LAEHKLKDVREKMADLARMEAVLSELVC 115 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334555666666665555555443
No 329
>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=21.94 E-value=2.4e+02 Score=18.49 Aligned_cols=25 Identities=32% Similarity=0.348 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 50 SKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 50 ~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
.|+..++.++..||.++++|+.++.
T Consensus 74 ~r~e~ie~~i~~lek~~~~l~~~l~ 98 (110)
T TIGR02338 74 EKKETLELRVKTLQRQEERLREQLK 98 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444445555555555555544443
No 330
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=21.92 E-value=1.9e+02 Score=22.55 Aligned_cols=21 Identities=19% Similarity=0.341 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRLEL 68 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~ 68 (85)
=+.=|.+++.|++.||++|.-
T Consensus 53 QE~AL~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 53 QEQALKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHh
Confidence 344444555555555555433
No 331
>cd00095 IFab Interferon alpha, beta. Includes also interferon omega and tau. Different from interferon gamma family. Type I interferons(alpha, beta) belong to the larger helical cytokine superfamily, which includes growth hormones, interleukins, several colony-stimulating factors and several other regulatory molecules. All function as regulators of cellular activty by interacting with cell-surface receptors and activating various signalling pathways. Interferons produce antiviral and antiproliferative responses in cells. Receptor specificity determines function of the various members of the family.
Probab=21.89 E-value=2.3e+02 Score=20.14 Aligned_cols=54 Identities=17% Similarity=0.231 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034753 25 EFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASA 78 (85)
Q Consensus 25 E~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~ 78 (85)
+-+.++..-+.+|+...+.-.+++-=.-..++.=|+.|-++++.||+-+.....
T Consensus 50 ~a~~~~~emlqqif~LF~~~~ssa~Wnet~le~fl~~L~~Ql~~Le~C~~~~~~ 103 (152)
T cd00095 50 QAASVLHEMLQQIFNIFSTPSSSAAWNETLLESLLNELHQQLNHLETCLEQEMG 103 (152)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 336777777788888887766665545557788889999999999998766443
No 332
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=21.87 E-value=3.8e+02 Score=20.68 Aligned_cols=51 Identities=14% Similarity=0.247 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 23 NREFISHISLNVRR-LFEFLVQFEA-TTKSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 23 nRE~ie~Is~~I~~-i~~FLN~Fd~-scr~KLa~lneKL~~LEr~le~LEA~v 73 (85)
+.+....|...+.+ .-.|+|.... ..+..+.-++++|..++.+++-.|.++
T Consensus 141 dP~~A~~ian~l~~~~~~~i~~~~~~~~~~a~~fl~~ql~~~~~~l~~ae~~l 193 (362)
T TIGR01010 141 DAEEAQKINQRLLKEGERLINRLNERARKDTIAFAENEVKEAEQRLNATKAEL 193 (362)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444433 2334444321 122334444555555555555444443
No 333
>COG1392 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]
Probab=21.81 E-value=3.5e+02 Score=20.32 Aligned_cols=51 Identities=14% Similarity=0.139 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKS--KLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~--KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
++|++.+...+..+.+=++.++..-++ |+..+..+++.+|..-+-++-++-
T Consensus 119 ~~~~~~~~~a~~~~~~ai~~L~~~~e~~~~~~~i~~eI~~~E~e~D~i~~~l~ 171 (217)
T COG1392 119 LRLVDLSLKAAELLAEAIELLEDLLESADRLLEIIKEIEALEHECDDIQRELL 171 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 356666666666666666666655555 788888999999999888876653
No 334
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=21.78 E-value=1.3e+02 Score=25.38 Aligned_cols=27 Identities=19% Similarity=0.286 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
...+..++++++.+|+.++.+++++.+
T Consensus 214 ~~~l~~l~~~l~~l~~~~~~~~~~l~~ 240 (646)
T PRK05771 214 SELIREIKEELEEIEKERESLLEELKE 240 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556666666666666666666665554
No 335
>PRK09737 EcoKI restriction-modification system protein HsdS; Provisional
Probab=21.77 E-value=3.5e+02 Score=20.73 Aligned_cols=29 Identities=24% Similarity=0.145 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 35 RRLFEFLVQFEATTKSKLALLNEKLDTLE 63 (85)
Q Consensus 35 ~~i~~FLN~Fd~scr~KLa~lneKL~~LE 63 (85)
++|+++|.++...+....+.+++.++.|+
T Consensus 165 ~~I~~~Ld~~~~~i~~~~~~l~~~~~~l~ 193 (461)
T PRK09737 165 KIIAEKLDTLLAQVDSTKARLEQIPQILK 193 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666555444444444444333
No 336
>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=21.72 E-value=3.7e+02 Score=22.82 Aligned_cols=19 Identities=21% Similarity=0.431 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034753 48 TKSKLALLNEKLDTLERRL 66 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~l 66 (85)
++.++..++++|..|+++|
T Consensus 396 ~~~~~~~~e~el~~l~~~l 414 (650)
T TIGR03185 396 LLKELRELEEELAEVDKKI 414 (650)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444433
No 337
>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]
Probab=21.69 E-value=2.2e+02 Score=24.09 Aligned_cols=42 Identities=19% Similarity=0.301 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHhhcc
Q 034753 34 VRRLFEFLVQFEATTKSKLALLNEKLDTLERR---LELLEVQVGT 75 (85)
Q Consensus 34 I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~---le~LEA~v~s 75 (85)
|+==.++||..-..-+.|+..|+++++..|.- .|..||.+.+
T Consensus 66 i~~D~~~l~~m~~~neeki~eld~~iedaeenlGE~ev~ea~~~k 110 (393)
T KOG0687|consen 66 IKLDQDLLNSMKKANEEKIKELDEKIEDAEENLGESEVREAMLRK 110 (393)
T ss_pred eeccHHHHHHHHHhhHHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 33345788888888889999999999888875 5666766654
No 338
>COG2739 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.65 E-value=3e+02 Score=19.37 Aligned_cols=19 Identities=26% Similarity=0.361 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034753 28 SHISLNVRRLFEFLVQFEA 46 (85)
Q Consensus 28 e~Is~~I~~i~~FLN~Fd~ 46 (85)
+.|..||+++..-|.+|+.
T Consensus 48 qAIyDnIKr~~~~L~~YE~ 66 (105)
T COG2739 48 QAIYDNIKRTEKILEDYEE 66 (105)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5789999999999988874
No 339
>COG2919 Septum formation initiator [Cell division and chromosome partitioning]
Probab=21.61 E-value=2.7e+02 Score=18.81 Aligned_cols=53 Identities=23% Similarity=0.411 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHhhcc
Q 034753 23 NREFISHISLNVRRLFEFLVQFEATTKSKLALLN-------EKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 23 nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~ln-------eKL~~LEr~le~LEA~v~s 75 (85)
+|..+..+-..+...+.|+.-|-..--...-.++ .++..|.+.-..||+.+..
T Consensus 23 ~~~~l~~~l~~~l~~f~~~~~~g~~~~~~~~~l~~qi~~~~~e~~~L~~~~~~l~~ei~~ 82 (117)
T COG2919 23 RRRILTLVLLALLALFQYLAWFGKNGAADVLQLQRQIAAQQAELEKLSARNTALEAEIKD 82 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555556666666555444444444444 4444444444455555544
No 340
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=21.61 E-value=2.6e+02 Score=18.75 Aligned_cols=37 Identities=24% Similarity=0.306 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 034753 36 RLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQ 72 (85)
Q Consensus 36 ~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~ 72 (85)
...+||++=-..+...+..+++.|..+..+++-+...
T Consensus 94 eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~~~~ 130 (140)
T PRK03947 94 EAIEILDKRKEELEKALEKLEEALQKLASRIAQLAQE 130 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444444444444433
No 341
>KOG3958 consensus Putative dynamitin [Cytoskeleton]
Probab=21.56 E-value=3.4e+02 Score=22.79 Aligned_cols=37 Identities=24% Similarity=0.407 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 31 SLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLE 67 (85)
Q Consensus 31 s~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le 67 (85)
..+++.=.+.|.+..+.-|.-|++.+.|+-.+|.+|-
T Consensus 331 ~~sl~~n~ell~~vqtt~~qnl~tV~~k~a~ie~rva 367 (371)
T KOG3958|consen 331 ANSLKDNTELLTQVQTTMRQNLATVEGKFASIEERVA 367 (371)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344555566777777777777777777777777664
No 342
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=21.42 E-value=1.2e+02 Score=16.25 Aligned_cols=33 Identities=18% Similarity=0.182 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQVGTASANPH 81 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~ 81 (85)
...|+..-.++...++-...++.-|+..|.+|.
T Consensus 4 ~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~ 36 (44)
T PF13428_consen 4 WLALARAYRRLGQPDEAERLLRRALALDPDDPE 36 (44)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence 346788888889999999999999999998874
No 343
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=21.32 E-value=1.6e+02 Score=24.80 Aligned_cols=24 Identities=38% Similarity=0.512 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s 75 (85)
+..+++++..||.++.-||+.++.
T Consensus 570 ~~~~e~~i~~le~~~~~~~~~~~~ 593 (635)
T PRK11147 570 LEQLPQLLEDLEAEIEALQAQVAD 593 (635)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcC
Confidence 777888888888888888888764
No 344
>cd01143 YvrC Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains.
Probab=21.29 E-value=1.7e+02 Score=19.53 Aligned_cols=45 Identities=7% Similarity=0.154 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCCc
Q 034753 30 ISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPHLF 83 (85)
Q Consensus 30 Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~~ 83 (85)
+...++.+.+.+++ +.-++ +-++.++++++.++++++.. ..|.+|
T Consensus 97 ~~~~~~~lg~~~g~-~~~a~-------~~~~~~~~~~~~v~~~~~~~-~~~~v~ 141 (195)
T cd01143 97 IYDQIELIGKITGA-EEEAE-------KLVKEMKQKIDKVKDKGKTI-KKSKVY 141 (195)
T ss_pred HHHHHHHHHHHhCC-hHHHH-------HHHHHHHHHHHHHHHHhcCC-CCceEE
Confidence 34455555555554 22333 33455555666666666665 445543
No 345
>PHA01750 hypothetical protein
Probab=21.24 E-value=2.6e+02 Score=18.56 Aligned_cols=29 Identities=24% Similarity=0.368 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
.-+.-+..++-|.+.||+++.-+--+|.+
T Consensus 46 NL~~ei~~~kikqDnl~~qv~eik~k~dk 74 (75)
T PHA01750 46 NLKTEIEELKIKQDELSRQVEEIKRKLDK 74 (75)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhhcc
Confidence 55677888888888888888888777654
No 346
>PLN02900 alanyl-tRNA synthetase
Probab=21.13 E-value=3.1e+02 Score=25.22 Aligned_cols=28 Identities=11% Similarity=0.340 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVG 74 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~ 74 (85)
....|+..|.+.+..+++++..|+.+++
T Consensus 787 el~~~v~~l~~e~k~l~k~~~~l~~~la 814 (936)
T PLN02900 787 EIRARVSALQKELRAAQKEAAALRAKLA 814 (936)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777666667766666655553
No 347
>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.
Probab=21.06 E-value=1.6e+02 Score=25.40 Aligned_cols=28 Identities=21% Similarity=0.335 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 48 TKSKLALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 48 cr~KLa~lneKL~~LEr~le~LEA~v~s 75 (85)
-+.++..|+..+..|++.+..||.+|.+
T Consensus 508 L~~~~~~Le~e~~~L~~~~~~Le~~l~~ 535 (722)
T PF05557_consen 508 LQKEIEELERENERLRQELEELESELEK 535 (722)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4668888888888999999999999986
No 348
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=20.91 E-value=1.9e+02 Score=21.39 Aligned_cols=30 Identities=27% Similarity=0.358 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
..+.|+..+.++|..|+..-+.|+-++.++
T Consensus 90 ~~k~rl~~~ek~l~~Lk~e~evL~qr~~kl 119 (201)
T PF13851_consen 90 NLKARLKELEKELKDLKWEHEVLEQRFEKL 119 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888888888888888888777653
No 349
>KOG3091 consensus Nuclear pore complex, p54 component (sc Nup57) [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.88 E-value=4.4e+02 Score=23.08 Aligned_cols=47 Identities=11% Similarity=0.139 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 24 REFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 24 RE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA 71 (85)
++..|.|+.-=++-.|+.-+-+ -.|.|+++|++|+=++=.++++|+-
T Consensus 358 ~~i~e~v~eLqk~~ad~~~KI~-~~k~r~~~Ls~RiLRv~ikqeilr~ 404 (508)
T KOG3091|consen 358 NAIGERVTELQKHHADAVAKIE-EAKNRHVELSHRILRVMIKQEILRK 404 (508)
T ss_pred HHHHHHHHHHHhhhhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455555544488888888887 5799999999999999888888764
No 350
>cd07618 BAR_Rich1 The Bin/Amphiphysin/Rvs (BAR) domain of RhoGAP interacting with CIP4 homologs protein 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. RhoGAP interacting with CIP4 homologs protein 1 (Rich1) is also called Neuron-associated developmentally-regulated protein (Nadrin) or Rho GTPase activating protein 17 (ARHGAP17). It is a Cdc42- and Rac-specific GAP that binds to polarity proteins through the scaffold protein angiomotin and plays a role in maintaining the integrity of tight junctions. It may be a component of a sorting mechanism in the recycling of tight junction transmembrane proteins. Rich1 contains an N-terminal BAR domain followed by a Rho GAP domain and a C-terminal proline-rich domain. It interacts with the BAR domain proteins endophilin and amphiphysin through its proline-rich region. The BAR domain of Rich1 forms oligomers and can bind membranes and induce membrane tubulation.
Probab=20.85 E-value=4.1e+02 Score=20.64 Aligned_cols=57 Identities=11% Similarity=0.110 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 26 FISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 26 ~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
|...+-.++-+-.++++.|-.-....+.=..+=++.||.-+-.++..+.+.+..|+.
T Consensus 183 ~~~dm~~~l~~e~e~~~~l~~lv~aQ~eYHr~a~e~Le~~~p~i~~~~~~~~~k~~f 239 (246)
T cd07618 183 LAADMYNFASKEGEYAKFFVLLLEAQADYHRKALAVIEKVLPEIQAHQDKWMEKPAF 239 (246)
T ss_pred HHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCC
Confidence 444444556777888888888888888888888999999999999999999998864
No 351
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=20.78 E-value=3.7e+02 Score=23.11 Aligned_cols=30 Identities=40% Similarity=0.408 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 47 TTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 47 scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.++..|.++++.+..++.++..|+.+..++
T Consensus 176 ~t~~nL~r~~d~l~el~~ql~~L~~q~~~a 205 (1179)
T TIGR02168 176 ETERKLERTRENLDRLEDILNELERQLKSL 205 (1179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567788888888888888888887776554
No 352
>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=20.60 E-value=2e+02 Score=17.10 Aligned_cols=32 Identities=28% Similarity=0.372 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034753 51 KLALLNEKLDTLERRLELLEVQVGTASANPHL 82 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA~v~s~~~~p~~ 82 (85)
-|..+.++++.++..|+-+-.++...-..|.+
T Consensus 5 ~Ld~~~~~~~~~~~~l~~~~~~~~~~~~~~~l 36 (92)
T PF05190_consen 5 ELDELREEYEEIEEELEELLEEIRKKLGIPSL 36 (92)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCT-TTB
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcE
Confidence 46677777788888887777776665554544
No 353
>PF12699 phiKZ_IP: phiKZ-like phage internal head proteins; InterPro: IPR024413 Phage internal head proteins (IP) are proteins that are encoded by a bacteriophage and assembled into the mature virion inside the capsid head. The most analogous characterised IP proteins are those of bacteriophage T4, which are known to be proteolytically processed during phage maturation, and then subsequently injected into the host cell during infection. The phiKZ_IP family consists of internal head proteins encoded by phiKZ-like phages. Each phage encodes three to six members of this family []. Members of the family reside in the head [] and are cleaved during phage maturation to separate an N-terminal propeptide from a C-terminal domain. The C-terminal domain remains in the mature capsid. The N-terminal propeptide domain is either mostly or completely removed from the mature capsid. In one case, an unrelated polypeptide is embedded in the propeptide and also remains in the mature capsid. The phiKZ-like IP proteins are not discernibly homologous to the T4 IP proteins, and it is not known if the phiKZ-like IP proteins are injected into the host cell, or have some other function within the head.
Probab=20.44 E-value=4.4e+02 Score=20.87 Aligned_cols=55 Identities=13% Similarity=0.196 Sum_probs=44.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
..+.+-+.+..--.++.+|+.++-.--..-...+..-+..++.+++.|.-++.+.
T Consensus 51 s~Edlk~~~k~~~~k~~e~i~kl~~~l~~~~~~~~~~~~~~~~r~~~L~~~~~~l 105 (339)
T PF12699_consen 51 SLEDLKERAKEAGKKIKEFIKKLIADLKDYAVKFMSGIERVEERIDKLQERAKKL 105 (339)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhh
Confidence 4566666777777788888888888888888888888888888888888888887
No 354
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=20.44 E-value=2.6e+02 Score=21.76 Aligned_cols=24 Identities=21% Similarity=0.349 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034753 52 LALLNEKLDTLERRLELLEVQVGT 75 (85)
Q Consensus 52 La~lneKL~~LEr~le~LEA~v~s 75 (85)
.-..++-|..+..+++.||++|..
T Consensus 50 vlvQE~AL~~a~~ri~eLe~ql~q 73 (247)
T PF09849_consen 50 VLVQEQALKQAQARIQELEAQLQQ 73 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345788999999999999999943
No 355
>PHA03046 Hypothetical protein; Provisional
Probab=20.29 E-value=3.6e+02 Score=19.87 Aligned_cols=21 Identities=24% Similarity=0.294 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 034753 51 KLALLNEKLDTLERRLELLEV 71 (85)
Q Consensus 51 KLa~lneKL~~LEr~le~LEA 71 (85)
+-..++..|.+||+.+|.|-.
T Consensus 106 ~c~~~~~~i~RLE~H~ETlRk 126 (142)
T PHA03046 106 RCKSLNNIIKRLENHTETVRK 126 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344677888888888887643
No 356
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=20.26 E-value=2.2e+02 Score=18.58 Aligned_cols=25 Identities=24% Similarity=0.545 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Q 034753 49 KSKLALLNEKLDTLERRLELLEVQV 73 (85)
Q Consensus 49 r~KLa~lneKL~~LEr~le~LEA~v 73 (85)
+.+++.|.++...+++.+.-+++.+
T Consensus 6 ~~~~~~L~~~~~~l~~~i~~~~~~l 30 (83)
T PF07061_consen 6 EAEIQELKEQIEQLEKEISELEAEL 30 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4556667777777777777777765
No 357
>KOG0219 consensus Mismatch repair ATPase MSH2 (MutS family) [Replication, recombination and repair]
Probab=20.04 E-value=4.8e+02 Score=24.49 Aligned_cols=55 Identities=35% Similarity=0.472 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH----------------HHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034753 22 ENREFISHISLNVRRLFEFLVQFEATT----------------KSKLALLNEKLDTLERRLELLEVQVGTA 76 (85)
Q Consensus 22 ~nRE~ie~Is~~I~~i~~FLN~Fd~sc----------------r~KLa~lneKL~~LEr~le~LEA~v~s~ 76 (85)
.||-....++.+.++...|++--+... -.+|..|++||..||++|+-+=-++++.
T Consensus 415 ~~~ll~~~l~~~~~~~~kf~~~ve~t~D~da~ee~ey~VR~eFdeeL~eLrq~LdeL~~~m~~~hkrv~~d 485 (902)
T KOG0219|consen 415 HNRLLKSPLTEHLKKLEKFQEMVETTVDLDAEEENEYRVRVDFDEELQELREKLDELERKMEKLHKKVSAD 485 (902)
T ss_pred hhhhhhhhhhhhhhhHHHHHHHHHHHhhHhHHhcCcEEEecccCHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 355555577777777777776544322 2589999999999999999887777763
No 358
>PHA02562 46 endonuclease subunit; Provisional
Probab=20.03 E-value=4.7e+02 Score=21.03 Aligned_cols=14 Identities=21% Similarity=0.356 Sum_probs=5.2
Q ss_pred HHHHHHHHHHHHhh
Q 034753 60 DTLERRLELLEVQV 73 (85)
Q Consensus 60 ~~LEr~le~LEA~v 73 (85)
..++.+++.|+.++
T Consensus 230 ~~l~~~l~~l~~~i 243 (562)
T PHA02562 230 KTIKAEIEELTDEL 243 (562)
T ss_pred HHHHHHHHHHHHHH
Confidence 33333333333333
No 359
>KOG2260 consensus Cell division cycle 37 protein, CDC37 [Cell cycle control, cell division, chromosome partitioning]
Probab=20.02 E-value=3.2e+02 Score=23.04 Aligned_cols=45 Identities=16% Similarity=0.107 Sum_probs=36.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 034753 20 DWENREFISHISLNVRRLFEFLVQFEATTKSKLALLNEKLDTLERR 65 (85)
Q Consensus 20 DW~nRE~ie~Is~~I~~i~~FLN~Fd~scr~KLa~lneKL~~LEr~ 65 (85)
-|.+|-+.+.+..-=+++=++-..=+ .|+.+|++..++|..|+-.
T Consensus 32 rWr~Q~r~Err~~~~q~~eei~k~~~-~~~~ll~e~~e~l~~l~~~ 76 (372)
T KOG2260|consen 32 RWRQQARHERRAERKQEQEEIKKSKD-MYSRLLEEVQEILSNLEVS 76 (372)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhccCcc
Confidence 49999999998887777777655544 7999999999999988743
Done!