Query 031062
Match_columns 166
No_of_seqs 99 out of 110
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 08:40:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031062.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031062hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01920 Prefoldin_2: Prefoldi 99.4 6.3E-12 1.4E-16 90.9 14.2 104 9-152 1-105 (106)
2 KOG1760 Molecular chaperone Pr 99.1 1.4E-10 3E-15 91.2 6.9 73 80-154 52-126 (131)
3 cd00632 Prefoldin_beta Prefold 98.7 2.2E-07 4.7E-12 69.1 9.1 93 8-143 4-96 (105)
4 COG1382 GimC Prefoldin, chaper 98.5 9.7E-07 2.1E-11 68.8 10.1 110 2-154 5-115 (119)
5 TIGR02338 gimC_beta prefoldin, 98.3 1.1E-05 2.4E-10 60.5 10.5 104 9-152 6-110 (110)
6 PRK03947 prefoldin subunit alp 98.2 0.00012 2.6E-09 56.4 14.0 123 5-143 5-127 (140)
7 cd00890 Prefoldin Prefoldin is 98.1 0.00017 3.7E-09 53.7 13.6 55 88-143 66-120 (129)
8 PRK09343 prefoldin subunit bet 98.1 3.8E-05 8.2E-10 59.1 10.3 99 5-143 6-104 (121)
9 TIGR00293 prefoldin, archaeal 98.0 0.0002 4.3E-09 54.1 12.7 111 16-143 9-119 (126)
10 cd00584 Prefoldin_alpha Prefol 98.0 0.00029 6.3E-09 53.4 13.4 58 88-146 66-124 (129)
11 PRK14011 prefoldin subunit alp 97.8 0.00085 1.8E-08 53.6 13.6 118 8-149 5-128 (144)
12 PF02996 Prefoldin: Prefoldin 97.6 0.00086 1.9E-08 49.7 10.1 62 81-143 49-110 (120)
13 COG1730 GIM5 Predicted prefold 97.4 0.0093 2E-07 47.9 13.5 133 1-150 1-134 (145)
14 PRK01203 prefoldin subunit alp 97.1 0.018 3.8E-07 45.6 12.5 102 25-143 19-120 (130)
15 KOG3478 Prefoldin subunit 6, K 92.7 2.2 4.8E-05 33.6 10.1 54 88-143 49-102 (120)
16 KOG3313 Molecular chaperone Pr 91.1 8.4 0.00018 32.5 12.5 121 5-141 39-159 (187)
17 PRK02224 chromosome segregatio 88.9 7.9 0.00017 37.6 12.2 15 77-91 450-464 (880)
18 PRK03918 chromosome segregatio 86.7 15 0.00034 35.4 12.7 49 80-143 437-485 (880)
19 PRK01156 chromosome segregatio 85.9 14 0.0003 36.2 12.0 49 79-142 453-501 (895)
20 KOG3048 Molecular chaperone Pr 85.2 7.2 0.00016 32.0 8.2 65 85-150 77-142 (153)
21 PF01412 ArfGap: Putative GTPa 84.5 1.4 2.9E-05 33.3 3.6 34 79-116 14-47 (116)
22 PF13793 Pribosyltran_N: N-ter 83.4 0.27 5.8E-06 37.5 -0.7 43 65-108 1-43 (116)
23 KOG4098 Molecular chaperone Pr 81.9 15 0.00033 29.7 8.7 54 88-143 59-112 (140)
24 KOG3501 Molecular chaperone Pr 80.8 1.4 3E-05 34.4 2.4 48 92-141 51-98 (114)
25 PHA02562 46 endonuclease subun 79.2 50 0.0011 30.2 12.3 40 78-134 284-323 (562)
26 COG1579 Zn-ribbon protein, pos 74.1 8.1 0.00017 33.5 5.4 78 8-85 112-204 (239)
27 KOG0706 Predicted GTPase-activ 73.5 2.2 4.7E-05 40.2 2.0 33 79-115 24-56 (454)
28 PF06632 XRCC4: DNA double-str 71.2 13 0.00027 33.7 6.2 34 118-151 152-186 (342)
29 PF09726 Macoilin: Transmembra 71.0 52 0.0011 32.5 10.8 37 107-143 535-571 (697)
30 TIGR00293 prefoldin, archaeal 70.3 42 0.00092 25.0 9.3 103 17-149 3-118 (126)
31 PRK09343 prefoldin subunit bet 66.8 22 0.00047 27.2 5.9 113 3-151 7-120 (121)
32 PF02388 FemAB: FemAB family; 65.3 21 0.00045 32.3 6.4 52 102-153 234-302 (406)
33 PF07820 TraC: TraC-like prote 63.9 15 0.00032 27.9 4.3 34 119-152 4-38 (92)
34 PRK05771 V-type ATP synthase s 63.7 1.4E+02 0.003 28.6 11.8 35 14-48 94-128 (646)
35 PF06698 DUF1192: Protein of u 57.3 35 0.00077 23.7 5.0 33 115-147 26-58 (59)
36 PF00170 bZIP_1: bZIP transcri 56.8 57 0.0012 21.8 7.7 34 110-143 26-59 (64)
37 PF07106 TBPIP: Tat binding pr 56.5 48 0.001 26.1 6.4 49 92-143 57-105 (169)
38 PF06246 Isy1: Isy1-like splic 55.1 22 0.00047 31.1 4.5 43 116-158 70-113 (255)
39 PRK03947 prefoldin subunit alp 52.8 1E+02 0.0022 23.5 10.0 107 13-148 6-125 (140)
40 PF10073 DUF2312: Uncharacteri 52.5 53 0.0012 23.9 5.5 44 121-164 8-53 (74)
41 PRK13694 hypothetical protein; 50.8 85 0.0018 23.4 6.4 48 117-164 12-61 (83)
42 cd00632 Prefoldin_beta Prefold 50.1 59 0.0013 23.8 5.6 36 108-143 68-103 (105)
43 cd04787 HTH_HMRTR_unk Helix-Tu 49.5 73 0.0016 24.3 6.2 35 109-143 78-112 (133)
44 PF03194 LUC7: LUC7 N_terminus 49.3 39 0.00085 29.1 5.2 38 7-44 131-170 (254)
45 PF13758 Prefoldin_3: Prefoldi 49.1 1.2E+02 0.0026 23.2 7.5 91 9-140 8-98 (99)
46 PF05321 HHA: Haemolysin expre 48.7 52 0.0011 22.9 4.7 28 128-155 27-56 (57)
47 KOG0985 Vesicle coat protein c 48.7 20 0.00043 37.9 3.7 76 76-155 1251-1331(1666)
48 PRK02269 ribose-phosphate pyro 48.5 8.1 0.00018 34.1 0.9 44 65-109 6-49 (320)
49 PF14954 LIX1: Limb expression 48.3 11 0.00024 33.0 1.6 14 95-108 63-76 (252)
50 PF10058 DUF2296: Predicted in 47.9 7.5 0.00016 26.3 0.5 31 60-90 1-34 (54)
51 PRK13848 conjugal transfer pro 47.5 40 0.00087 25.8 4.3 32 120-151 6-38 (98)
52 COG5347 GTPase-activating prot 47.0 28 0.0006 31.3 4.0 33 79-115 21-53 (319)
53 PF10337 DUF2422: Protein of u 46.6 38 0.00083 30.9 4.9 45 117-161 255-301 (459)
54 COG0419 SbcC ATPase involved i 46.5 3.1E+02 0.0067 27.4 11.4 12 77-88 456-467 (908)
55 PRK05431 seryl-tRNA synthetase 46.2 44 0.00096 30.6 5.3 23 27-49 28-50 (425)
56 COG3750 Uncharacterized protei 45.9 1.2E+02 0.0027 22.6 6.6 53 111-163 8-62 (85)
57 PF08946 Osmo_CC: Osmosensory 43.8 56 0.0012 21.9 4.1 26 111-136 13-38 (46)
58 PF04201 TPD52: Tumour protein 43.7 67 0.0015 26.6 5.5 38 106-144 26-63 (162)
59 TIGR00634 recN DNA repair prot 43.6 1.9E+02 0.0041 27.3 9.1 45 117-161 346-391 (563)
60 PRK02812 ribose-phosphate pyro 43.4 11 0.00023 33.7 0.9 44 65-109 22-65 (330)
61 PF04340 DUF484: Protein of un 43.3 85 0.0018 25.8 6.1 55 104-158 34-88 (225)
62 PRK04923 ribose-phosphate pyro 42.9 11 0.00024 33.4 0.9 44 65-109 7-50 (319)
63 PF10158 LOH1CR12: Tumour supp 42.9 94 0.002 24.5 6.0 44 111-154 43-86 (131)
64 TIGR02338 gimC_beta prefoldin, 42.5 89 0.0019 23.2 5.6 37 107-143 71-107 (110)
65 PF07200 Mod_r: Modifier of ru 42.4 91 0.002 23.9 5.8 20 141-160 83-102 (150)
66 COG5509 Uncharacterized small 41.9 60 0.0013 23.1 4.3 35 115-149 30-64 (65)
67 PF07106 TBPIP: Tat binding pr 41.1 39 0.00085 26.6 3.7 78 62-143 20-98 (169)
68 PLN03119 putative ADP-ribosyla 41.0 37 0.00081 33.4 4.1 52 34-115 5-56 (648)
69 PRK01259 ribose-phosphate pyro 40.7 13 0.00027 32.7 0.8 43 65-108 1-43 (309)
70 TIGR00414 serS seryl-tRNA synt 40.5 79 0.0017 29.0 6.0 24 26-49 29-52 (418)
71 PRK07199 phosphoribosylpyropho 39.6 14 0.0003 32.4 1.0 42 66-108 4-45 (301)
72 PF02318 FYVE_2: FYVE-type zin 38.8 13 0.00028 28.1 0.5 20 78-97 79-98 (118)
73 cd00890 Prefoldin Prefoldin is 38.6 1.5E+02 0.0033 21.5 9.4 27 117-143 87-113 (129)
74 TIGR01251 ribP_PPkin ribose-ph 38.6 14 0.0003 32.3 0.8 44 65-109 1-44 (308)
75 COG1730 GIM5 Predicted prefold 38.4 2.1E+02 0.0046 23.0 9.0 103 13-144 6-121 (145)
76 PRK11637 AmiB activator; Provi 38.1 3.1E+02 0.0066 24.8 13.3 50 109-158 95-145 (428)
77 PF07195 FliD_C: Flagellar hoo 37.3 58 0.0013 27.1 4.3 39 114-152 190-229 (239)
78 PF08844 DUF1815: Domain of un 37.0 20 0.00044 27.6 1.4 13 79-91 33-45 (105)
79 PRK04325 hypothetical protein; 36.9 1.4E+02 0.003 21.2 5.6 35 109-143 22-56 (74)
80 PF05864 Chordopox_RPO7: Chord 36.9 12 0.00026 26.4 0.1 14 77-90 3-16 (63)
81 PHA03082 DNA-dependent RNA pol 36.9 12 0.00026 26.4 0.1 12 77-88 3-14 (63)
82 PRK02458 ribose-phosphate pyro 36.0 16 0.00035 32.4 0.8 44 65-109 10-53 (323)
83 KOG2907 RNA polymerase I trans 35.8 18 0.00038 28.5 0.9 19 68-86 62-82 (116)
84 KOG4010 Coiled-coil protein TP 35.7 1E+02 0.0022 26.4 5.5 42 102-144 37-78 (208)
85 PRK00934 ribose-phosphate pyro 34.9 17 0.00038 31.3 0.8 40 68-108 3-42 (285)
86 KOG2196 Nuclear porin [Nuclear 34.6 1.3E+02 0.0028 26.7 6.0 45 108-152 118-162 (254)
87 PRK06266 transcription initiat 34.5 49 0.0011 27.1 3.3 28 100-127 143-170 (178)
88 PRK10945 gene expression modul 34.4 67 0.0015 23.4 3.6 28 129-156 40-69 (72)
89 PF12269 zf-CpG_bind_C: CpG bi 33.6 1.1E+02 0.0024 26.6 5.5 64 13-86 29-92 (236)
90 PF01194 RNA_pol_N: RNA polyme 33.5 17 0.00038 25.4 0.5 10 79-88 5-14 (60)
91 PF05524 PEP-utilisers_N: PEP- 32.8 50 0.0011 24.4 2.9 49 100-150 13-62 (123)
92 PLN03217 transcription factor 32.7 69 0.0015 24.3 3.6 37 124-160 56-92 (93)
93 PF10046 BLOC1_2: Biogenesis o 32.0 1.6E+02 0.0034 21.7 5.4 41 114-154 25-65 (99)
94 PF04508 Pox_A_type_inc: Viral 32.0 69 0.0015 18.5 2.7 18 125-142 2-19 (23)
95 PRK00553 ribose-phosphate pyro 31.8 21 0.00045 31.9 0.8 43 65-108 10-52 (332)
96 PLN03131 hypothetical protein; 31.6 64 0.0014 32.1 4.1 33 79-115 24-56 (705)
97 PHA02562 46 endonuclease subun 31.6 4.1E+02 0.0088 24.3 10.7 40 8-47 318-357 (562)
98 PLN00032 DNA-directed RNA poly 31.4 19 0.00042 26.1 0.4 10 79-88 5-14 (71)
99 PF13264 DUF4055: Domain of un 31.0 31 0.00067 27.0 1.6 46 93-143 42-87 (138)
100 PF09278 MerR-DNA-bind: MerR, 30.9 1.5E+02 0.0033 19.2 4.9 27 107-133 33-59 (65)
101 PF03962 Mnd1: Mnd1 family; I 30.8 1.9E+02 0.0041 23.8 6.2 34 100-133 53-92 (188)
102 PRK04016 DNA-directed RNA poly 30.7 20 0.00044 25.3 0.4 12 77-88 3-14 (62)
103 PRK10470 ribosome hibernation 30.4 1.6E+02 0.0034 20.9 5.1 42 92-133 51-92 (95)
104 PF04859 DUF641: Plant protein 30.3 1.4E+02 0.0031 23.7 5.2 35 108-142 92-126 (131)
105 COG3478 Predicted nucleic-acid 30.0 31 0.00066 24.9 1.3 17 81-97 7-23 (68)
106 PF14193 DUF4315: Domain of un 30.0 1.9E+02 0.0042 21.2 5.5 32 113-144 4-35 (83)
107 PLN02446 (5-phosphoribosyl)-5- 30.0 35 0.00075 29.9 1.9 22 27-48 60-81 (262)
108 cd04769 HTH_MerR2 Helix-Turn-H 29.5 2E+02 0.0044 21.2 5.7 37 107-143 76-112 (116)
109 KOG0704 ADP-ribosylation facto 29.2 50 0.0011 30.7 2.8 15 79-96 20-34 (386)
110 TIGR00269 conserved hypothetic 29.1 30 0.00065 25.6 1.1 58 33-91 36-93 (104)
111 smart00338 BRLZ basic region l 29.0 1.8E+02 0.0039 19.4 7.9 34 111-144 27-60 (65)
112 TIGR02047 CadR-PbrR Cd(II)/Pb( 28.5 2E+02 0.0043 21.8 5.6 34 107-140 76-109 (127)
113 cd04772 HTH_TioE_rpt1 First He 28.5 77 0.0017 23.1 3.2 25 109-133 75-99 (99)
114 KOG4552 Vitamin-D-receptor int 28.3 1.4E+02 0.0031 26.2 5.3 35 107-141 71-105 (272)
115 TIGR00741 yfiA ribosomal subun 28.1 1.7E+02 0.0036 20.4 4.8 42 93-134 52-93 (95)
116 PRK10803 tol-pal system protei 28.0 1.5E+02 0.0033 25.4 5.4 32 112-143 56-87 (263)
117 KOG3068 mRNA splicing factor [ 28.0 86 0.0019 27.8 3.9 39 118-156 70-109 (268)
118 PRK10963 hypothetical protein; 27.9 1.2E+02 0.0026 25.3 4.6 50 109-158 36-85 (223)
119 PRK05771 V-type ATP synthase s 27.8 3.8E+02 0.0083 25.7 8.5 21 29-49 45-65 (646)
120 KOG3047 Predicted transcriptio 27.7 3.4E+02 0.0074 22.2 7.7 43 89-132 85-127 (157)
121 cd01109 HTH_YyaN Helix-Turn-He 27.5 2.1E+02 0.0046 20.9 5.5 28 109-136 78-105 (113)
122 KOG0703 Predicted GTPase-activ 27.4 53 0.0012 29.4 2.6 33 78-116 25-59 (287)
123 PRK00295 hypothetical protein; 27.1 2.2E+02 0.0048 19.8 5.9 34 110-143 19-52 (68)
124 PRK10633 hypothetical protein; 26.9 38 0.00082 24.9 1.3 14 33-46 2-16 (80)
125 COG5415 Predicted integral mem 26.8 2.7E+02 0.0058 24.5 6.6 42 100-141 2-46 (251)
126 PF04977 DivIC: Septum formati 26.6 2E+02 0.0043 19.1 5.3 31 113-143 20-50 (80)
127 PF02637 GatB_Yqey: GatB domai 26.6 33 0.00072 26.4 1.1 52 13-80 92-143 (148)
128 PF12329 TMF_DNA_bd: TATA elem 26.6 2.3E+02 0.0051 19.9 5.9 35 109-143 32-66 (74)
129 PRK02793 phi X174 lysis protei 26.5 2.3E+02 0.005 19.9 5.5 34 110-143 22-55 (72)
130 PF15136 UPF0449: Uncharacteri 26.5 2.9E+02 0.0064 21.0 7.3 70 58-143 13-86 (97)
131 PRK11637 AmiB activator; Provi 26.4 4.8E+02 0.01 23.5 10.8 31 112-142 105-135 (428)
132 cd01107 HTH_BmrR Helix-Turn-He 26.2 2.1E+02 0.0046 20.9 5.3 32 109-140 74-105 (108)
133 smart00290 ZnF_UBP Ubiquitin C 26.1 43 0.00093 21.0 1.4 15 80-97 1-15 (50)
134 PF11932 DUF3450: Protein of u 26.1 2.5E+02 0.0054 23.5 6.3 53 109-161 62-114 (251)
135 PF15205 PLAC9: Placenta-speci 26.0 2.4E+02 0.0052 20.6 5.2 43 110-152 22-66 (74)
136 PRK10391 oriC-binding nucleoid 25.9 55 0.0012 23.8 2.0 23 134-156 41-68 (71)
137 PRK01156 chromosome segregatio 25.8 6.3E+02 0.014 24.9 9.8 34 114-147 466-499 (895)
138 PF08781 DP: Transcription fac 25.6 1.4E+02 0.0031 24.1 4.5 27 117-143 1-27 (142)
139 PF03962 Mnd1: Mnd1 family; I 25.6 99 0.0021 25.4 3.7 13 146-158 128-140 (188)
140 PF12481 DUF3700: Aluminium in 25.5 45 0.00097 29.0 1.7 26 40-72 108-133 (228)
141 PF05529 Bap31: B-cell recepto 25.3 1.8E+02 0.0038 23.4 5.1 26 118-143 155-180 (192)
142 cd00584 Prefoldin_alpha Prefol 25.3 2.6E+02 0.0056 20.8 5.7 37 8-48 8-44 (129)
143 PRK08032 fliD flagellar cappin 24.9 1.2E+02 0.0026 28.1 4.5 38 114-151 403-441 (462)
144 PF06196 DUF997: Protein of un 24.9 42 0.00091 24.4 1.2 12 36-47 1-12 (80)
145 PF11382 DUF3186: Protein of u 24.6 1.9E+02 0.004 25.5 5.5 50 108-157 30-79 (308)
146 PF14193 DUF4315: Domain of un 24.5 1.7E+02 0.0038 21.4 4.5 29 119-147 3-31 (83)
147 PF01920 Prefoldin_2: Prefoldi 24.4 2.1E+02 0.0046 20.0 4.9 50 92-143 53-102 (106)
148 PF08295 Sin3_corepress: Sin3 24.2 3.2E+02 0.0069 20.6 6.8 52 92-143 34-91 (101)
149 PF04041 DUF377: Domain of unk 24.2 37 0.00081 29.7 1.0 40 77-116 268-311 (312)
150 COG1644 RPB10 DNA-directed RNA 24.2 30 0.00065 24.6 0.4 9 79-87 5-13 (63)
151 PRK06798 fliD flagellar cappin 24.0 1E+02 0.0023 28.5 3.9 37 115-151 377-414 (440)
152 PF13368 Toprim_C_rpt: Topoiso 23.9 24 0.00053 23.9 -0.2 11 145-155 9-19 (61)
153 cd04790 HTH_Cfa-like_unk Helix 23.8 1.8E+02 0.0038 23.4 4.8 34 110-143 74-107 (172)
154 PF04799 Fzo_mitofusin: fzo-li 23.7 2.7E+02 0.0057 23.2 5.9 37 93-131 103-141 (171)
155 cd04784 HTH_CadR-PbrR Helix-Tu 23.6 2.8E+02 0.006 20.7 5.6 36 107-142 76-111 (127)
156 PF04102 SlyX: SlyX; InterPro 23.4 2.4E+02 0.0051 19.5 4.8 30 114-143 22-51 (69)
157 PLN02320 seryl-tRNA synthetase 23.4 2.4E+02 0.0052 27.0 6.3 40 114-153 134-174 (502)
158 PF05377 FlaC_arch: Flagella a 23.1 2.6E+02 0.0056 19.2 5.3 16 116-131 6-21 (55)
159 PF10234 Cluap1: Clusterin-ass 23.0 2.7E+02 0.0059 24.6 6.1 33 109-141 182-214 (267)
160 PRK14127 cell division protein 23.0 3.1E+02 0.0067 21.1 5.8 38 106-143 23-63 (109)
161 PF05565 Sipho_Gp157: Siphovir 22.8 2.9E+02 0.0062 22.0 5.8 34 110-143 47-80 (162)
162 TIGR01174 ftsA cell division p 22.7 1.5E+02 0.0032 25.9 4.5 25 25-49 39-63 (371)
163 cd01282 HTH_MerR-like_sg3 Heli 22.6 2.4E+02 0.0051 20.8 5.0 30 109-138 80-109 (112)
164 cd04770 HTH_HMRTR Helix-Turn-H 22.4 3.1E+02 0.0068 20.1 5.6 30 109-138 78-107 (123)
165 KOG4196 bZIP transcription fac 22.1 3.6E+02 0.0077 21.8 6.1 47 107-153 71-117 (135)
166 PF12277 DUF3618: Protein of u 21.9 1.7E+02 0.0037 18.9 3.6 24 118-141 4-27 (49)
167 PF00816 Histone_HNS: H-NS his 21.8 1.5E+02 0.0032 21.2 3.6 35 115-151 3-37 (93)
168 COG3883 Uncharacterized protei 21.8 2.7E+02 0.0059 24.6 5.9 31 113-143 48-78 (265)
169 TIGR03830 CxxCG_CxxCG_HTH puta 21.8 61 0.0013 23.7 1.6 20 124-143 68-87 (127)
170 COG3883 Uncharacterized protei 21.7 2E+02 0.0044 25.4 5.1 26 118-143 74-99 (265)
171 PRK14868 DNA topoisomerase VI 21.5 1.9E+02 0.0041 29.5 5.4 60 106-165 618-687 (795)
172 PF12761 End3: Actin cytoskele 21.4 1.9E+02 0.0041 24.6 4.6 32 112-143 162-193 (195)
173 PF00627 UBA: UBA/TS-N domain; 21.3 85 0.0018 18.8 1.9 19 27-45 7-25 (37)
174 PF06689 zf-C4_ClpX: ClpX C4-t 21.2 1E+02 0.0022 19.4 2.4 27 78-105 1-27 (41)
175 PLN02297 ribose-phosphate pyro 21.2 36 0.00078 30.6 0.3 42 65-106 17-58 (326)
176 TIGR02051 MerR Hg(II)-responsi 20.8 3.4E+02 0.0075 20.3 5.6 28 108-135 74-101 (124)
177 cd04785 HTH_CadR-PbrR-like Hel 20.8 3.5E+02 0.0075 20.3 5.6 32 109-140 78-109 (126)
178 PRK00846 hypothetical protein; 20.8 3.4E+02 0.0074 19.7 5.7 35 109-143 26-60 (77)
179 PF10458 Val_tRNA-synt_C: Valy 20.7 2.2E+02 0.0048 19.3 4.2 21 112-132 6-26 (66)
180 PF14569 zf-UDP: Zinc-binding 20.7 49 0.0011 24.5 0.9 25 75-105 6-30 (80)
181 COG5124 Protein predicted to b 20.7 2.3E+02 0.0049 24.3 4.9 37 12-49 88-134 (209)
182 cd04786 HTH_MerR-like_sg7 Heli 20.4 3.7E+02 0.008 20.6 5.8 36 108-143 76-111 (131)
183 KOG1432 Predicted DNA repair e 20.3 60 0.0013 30.2 1.5 9 93-101 321-329 (379)
184 PF05082 Rop-like: Rop-like; 20.3 2.9E+02 0.0063 19.7 4.7 34 117-150 2-36 (66)
185 KOG4070 Putative signal transd 20.2 1.2E+02 0.0027 25.3 3.2 73 79-155 41-115 (180)
186 PF02482 Ribosomal_S30AE: Sigm 20.2 91 0.002 21.6 2.2 41 93-133 54-94 (97)
187 smart00761 HDAC_interact Histo 20.1 4.1E+02 0.0088 20.3 5.9 52 92-143 34-92 (102)
188 PF08700 Vps51: Vps51/Vps67; 20.1 2.7E+02 0.0059 19.0 4.6 32 119-150 21-53 (87)
No 1
>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=99.44 E-value=6.3e-12 Score=90.95 Aligned_cols=104 Identities=19% Similarity=0.147 Sum_probs=96.1
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCC
Q 031062 9 QQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHD 88 (166)
Q Consensus 9 ~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d 88 (166)
|+.+.++..+..++-...+++..+....+.+..|+..|... +
T Consensus 1 Qe~~~~~~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~l--------------------------------------~ 42 (106)
T PF01920_consen 1 QELQNKFQELNQQLQQLEQQIQQLERQLRELELTLEELEKL--------------------------------------D 42 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTS--------------------------------------S
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--------------------------------------C
Confidence 45677888999999999999999999999999999999874 5
Q ss_pred CCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcCh
Q 031062 89 SNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISP 152 (166)
Q Consensus 89 ~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~ 152 (166)
++.++|..| |++||+.|.+.+.+.|+.+++.++.+|++|...++.....|.++ +.||.+||.
T Consensus 43 ~~~~~y~~v--G~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~~~~ 105 (106)
T PF01920_consen 43 DDRKVYKSV--GKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYELFGQ 105 (106)
T ss_dssp TT-EEEEEE--TTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCS-
T ss_pred CcchhHHHH--hHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 678999999 99999999999999999999999999999999999999999999 999999985
No 2
>KOG1760 consensus Molecular chaperone Prefoldin, subunit 4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.13 E-value=1.4e-10 Score=91.18 Aligned_cols=73 Identities=21% Similarity=0.231 Sum_probs=65.3
Q ss_pred hccccCCCCCC-CceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhh
Q 031062 80 VCTTCGNHDSN-EHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGV 154 (166)
Q Consensus 80 ~c~~~g~~d~d-ekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v 154 (166)
.|--|.=.|++ +.+++.+ |++|+++|.+.+.++||..-++++++|+.|+++++..+.+|.+| ..||+|||..+
T Consensus 52 A~~EieL~Dedd~~Ip~~v--GdvF~~~~~~~~~~~LEe~ke~l~k~i~~les~~e~I~~~m~~LK~~LYaKFgdnI 126 (131)
T KOG1760|consen 52 ASNEIELLDEDDEDIPFKV--GDVFIHVKLDKLQDQLEEKKETLEKEIEELESELESISARMDELKKVLYAKFGDNI 126 (131)
T ss_pred HHhhHhhcCccccccceeh--hhhheeccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 34444444555 7899999 99999999999999999999999999999999999999999999 99999999754
No 3
>cd00632 Prefoldin_beta Prefoldin beta; Prefoldin is a hexameric molecular chaperone complex, composed of two evolutionarily related subunits (alpha and beta), which are found in both eukaryotes and archaea. Prefoldin binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The hexameric structure consists of a double beta barrel assembly with six protruding coiled-coils. The alpha prefoldin subunits have two beta hairpin structures while the beta prefoldin subunits (this CD) have only one hairpin that is most similar to the second hairpin of the alpha subunit. The prefoldin hexamer consists of two alpha and four beta subunits and is assembled from the beta hairpins of all six subunits. The alpha subunits initially dimerize providing a structural nucleus for the assembly of the beta subunits. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the st
Probab=98.66 E-value=2.2e-07 Score=69.05 Aligned_cols=93 Identities=17% Similarity=0.243 Sum_probs=74.2
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCC
Q 031062 8 FQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNH 87 (166)
Q Consensus 8 ~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~ 87 (166)
++..+..+....+.+...+ -.++-..+.|+-|+..|...
T Consensus 4 ~~~~~q~l~~~~~~l~~~~---~~l~~~~~E~~~v~~EL~~l-------------------------------------- 42 (105)
T cd00632 4 QLAQLQQLQQQLQAYIVQR---QKVEAQLNENKKALEELEKL-------------------------------------- 42 (105)
T ss_pred HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHcC--------------------------------------
Confidence 3444444444444444433 34455667777888888764
Q ss_pred CCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 88 DSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 88 d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+++.++|+.+ |++||+.|.+.|...|+...+.++.+|+++.+.++.+...|.++
T Consensus 43 ~~d~~vy~~V--G~vfv~~~~~ea~~~Le~~~e~le~~i~~l~~~~~~l~~~~~el 96 (105)
T cd00632 43 ADDAEVYKLV--GNVLVKQEKEEARTELKERLETIELRIKRLERQEEDLQEKLKEL 96 (105)
T ss_pred CCcchHHHHh--hhHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6888999999 88999999999999999999999999999999999999999998
No 4
>COG1382 GimC Prefoldin, chaperonin cofactor [Posttranslational modification, protein turnover, chaperones]
Probab=98.54 E-value=9.7e-07 Score=68.84 Aligned_cols=110 Identities=14% Similarity=0.212 Sum_probs=91.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhc
Q 031062 2 EETMKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVC 81 (166)
Q Consensus 2 ~~~~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c 81 (166)
.++++..+..+..+..-.+.|++.|+++= .+-+|+=.||.-
T Consensus 5 pp~~q~~l~q~QqLq~ql~~~~~qk~~le------~qL~E~~~al~E--------------------------------- 45 (119)
T COG1382 5 PPEVQAQLAQLQQLQQQLQKVILQKQQLE------AQLKEIEKALEE--------------------------------- 45 (119)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHH---------------------------------
Confidence 35677778888888888889998888762 334444444432
Q ss_pred cccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhh
Q 031062 82 TTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGV 154 (166)
Q Consensus 82 ~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v 154 (166)
|..-++|.++...+ |++||+.+++.|++-|+.+.+.++.+|+.|++..+....++.+| ..||++||+..
T Consensus 46 --le~l~eD~~vYk~V--G~llvk~~k~~~~~eL~er~E~Le~ri~tLekQe~~l~e~l~eLq~~i~~~l~~~~ 115 (119)
T COG1382 46 --LEKLDEDAPVYKKV--GNLLVKVSKEEAVDELEERKETLELRIKTLEKQEEKLQERLEELQSEIQKALGDAA 115 (119)
T ss_pred --HhcCCcccHHHHHh--hhHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 11237888899999 99999999999999999999999999999999999999999999 99999999853
No 5
>TIGR02338 gimC_beta prefoldin, beta subunit, archaeal. Chaperonins are cytosolic, ATP-dependent molecular chaperones, with a conserved toroidal architecture, that assist in the folding of nascent and/or denatured polypeptide chains. The group I chaperonin system consists of GroEL and GroES, and is found (usually) in bacteria and organelles of bacterial origin. The group II chaperonin system, called the thermosome in Archaea and TRiC or CCT in the Eukaryota, is structurally similar but only distantly related. Prefoldin, also called GimC, is a complex in Archaea and Eukaryota, that works with group II chaperonins. Members of this protein family are the archaeal clade of the beta class of prefoldin subunit. Closely related, but outside the scope of this family are the eukaryotic beta-class prefoldin subunits, Gim-1,3,4 and 6. The alpha class prefoldin subunits are more distantly related.
Probab=98.30 E-value=1.1e-05 Score=60.51 Aligned_cols=104 Identities=15% Similarity=0.205 Sum_probs=83.8
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCC
Q 031062 9 QQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHD 88 (166)
Q Consensus 9 ~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d 88 (166)
++.+.++..+-+++=..-+++-.++...+.+.-++..|... +
T Consensus 6 q~~~~~~q~~q~~~~~l~~q~~~le~~~~E~~~v~~eL~~l--------------------------------------~ 47 (110)
T TIGR02338 6 QNQLAQLQQLQQQLQAVATQKQQVEAQLKEAEKALEELERL--------------------------------------P 47 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC--------------------------------------C
Confidence 34444444444555555556667777888888888888874 5
Q ss_pred CCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcCh
Q 031062 89 SNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISP 152 (166)
Q Consensus 89 ~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~ 152 (166)
++.+++-.+ |.+||+-+.+.|..-|++..+.++..|+.|...++.....+.++ ..|..-++|
T Consensus 48 ~d~~vyk~V--G~vlv~~~~~e~~~~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~~~~ 110 (110)
T TIGR02338 48 DDTPVYKSV--GNLLVKTDKEEAIQELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEALAP 110 (110)
T ss_pred CcchhHHHh--chhhheecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 788899999 88999999999999999999999999999999999999999999 777666554
No 6
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=98.17 E-value=0.00012 Score=56.38 Aligned_cols=123 Identities=13% Similarity=0.123 Sum_probs=85.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhcccc
Q 031062 5 MKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTC 84 (166)
Q Consensus 5 ~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~ 84 (166)
...+.+.+..++.+-+++-.-.+++-.+.......+.++..|..-.... .. ..++-.++ .-|+-=
T Consensus 5 ~~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e~l~~l~~~~-----~~-~e~lvplg---------~~~yv~ 69 (140)
T PRK03947 5 EQELEELAAQLQALQAQIEALQQQLEELQASINELDTAKETLEELKSKG-----EG-KETLVPIG---------AGSFVK 69 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccC-----CC-CeEEEEcC---------CCcEEE
Confidence 3445555555555555555556666667777777777777776532100 00 11221222 123333
Q ss_pred CCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 85 GNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 85 g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
|.-.+.++|-+-+ |++.||.++.++|.++|++..+.++..++.+..++..+...+.++
T Consensus 70 ~~v~~~~kV~v~l-G~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~ 127 (140)
T PRK03947 70 AKVKDKDKVIVSL-GAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQL 127 (140)
T ss_pred EEecCCCeEEEEc-CCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445677888888 778999999999999999999999999999999999999999887
No 7
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=98.12 E-value=0.00017 Score=53.67 Aligned_cols=55 Identities=18% Similarity=0.279 Sum_probs=51.4
Q ss_pred CCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 88 DSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 88 d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.++++|++.+ |++.||+++.++|.++|++..+.++.+++.+++.++.+..++.++
T Consensus 66 ~~~~~v~v~i-G~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l 120 (129)
T cd00890 66 KDDDKVLVDL-GTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITEL 120 (129)
T ss_pred CCCCEEEEEe-cCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4677899999 338999999999999999999999999999999999999999998
No 8
>PRK09343 prefoldin subunit beta; Provisional
Probab=98.12 E-value=3.8e-05 Score=59.08 Aligned_cols=99 Identities=15% Similarity=0.171 Sum_probs=79.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhcccc
Q 031062 5 MKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTC 84 (166)
Q Consensus 5 ~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~ 84 (166)
+.+++..+.++..+-.++=....++--++...|.|.-++.-|.+.
T Consensus 6 ~~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~L----------------------------------- 50 (121)
T PRK09343 6 PPEVQAQLAQLQQLQQQLERLLQQKSQIDLELREINKALEELEKL----------------------------------- 50 (121)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-----------------------------------
Confidence 355666677777777766666666667777777888888888764
Q ss_pred CCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 85 GNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 85 g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+++.+|+-.+ |.+||+-|.+.|..-|++..+.++.+|+.|....+.....+.++
T Consensus 51 ---~~d~~VYk~V--G~vlv~qd~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~ 104 (121)
T PRK09343 51 ---PDDTPIYKIV--GNLLVKVDKTKVEKELKERKELLELRSRTLEKQEKKLREKLKEL 104 (121)
T ss_pred ---CCcchhHHHh--hHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788899999 99999999999999999999988888888888888777777766
No 9
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=98.04 E-value=0.0002 Score=54.09 Aligned_cols=111 Identities=11% Similarity=0.081 Sum_probs=74.8
Q ss_pred HHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCceeE
Q 031062 16 ENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWM 95 (166)
Q Consensus 16 E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi 95 (166)
+.+-+++=.--+++-++....+..+.++.+|..-..... ..+|=.++. ..+.=|.-.+.++|-+
T Consensus 9 ~ql~~~i~~l~~~i~~l~~~i~e~~~~~~~L~~l~~~~~-------~~~lv~lg~---------~~~v~~~v~~~~~v~v 72 (126)
T TIGR00293 9 QILQQQVESLQAQIAALRALIAELETAIETLEDLKGAEG-------KETLVPVGA---------GSFVKAKVKDTDKVLV 72 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCC-------CeEEEEcCC---------CeEEEEEeCCCCEEEE
Confidence 333333333445555666677777777777755311100 111211111 1122233456688999
Q ss_pred EecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 96 MFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 96 ~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
-+ |++.|+..|.++|.++|++..+.++..++.+...+..+...+..+
T Consensus 73 ~i-G~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i 119 (126)
T TIGR00293 73 SI-GSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQL 119 (126)
T ss_pred Ec-CCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99 778999999999999999999999999999999999999999887
No 10
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=98.03 E-value=0.00029 Score=53.37 Aligned_cols=58 Identities=17% Similarity=0.214 Sum_probs=52.0
Q ss_pred CCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-Hhh
Q 031062 88 DSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GAL 146 (166)
Q Consensus 88 d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~L 146 (166)
.+.+++-+.+ |++.||.+|.++|.+++++..+.++..++++...+..+..++..+ ..+
T Consensus 66 ~~~~~v~v~i-G~g~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~~~~l 124 (129)
T cd00584 66 KDTDKVLVDL-GTGYYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTLEAEL 124 (129)
T ss_pred CCCCEEEEEc-CCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556788888 778999999999999999999999999999999999999999988 444
No 11
>PRK14011 prefoldin subunit alpha; Provisional
Probab=97.84 E-value=0.00085 Score=53.55 Aligned_cols=118 Identities=13% Similarity=0.171 Sum_probs=86.1
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccC--
Q 031062 8 FQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCG-- 85 (166)
Q Consensus 8 ~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g-- 85 (166)
+++.+.+++...+.+=.-.+++-.+..-++...+|..+|.... +-..|| |+-|||
T Consensus 5 lq~~~~~l~~~~~qie~L~~si~~L~~a~~e~~~~ie~L~~l~---------~~~eiL--------------VPLg~s~y 61 (144)
T PRK14011 5 LQNQFMALEVYNQQVQKLQEELSSIDMMKMELLKSIESMEGLK---------TSEEIL--------------IPLGPGAF 61 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccC---------CCCeEE--------------EEcCCCcE
Confidence 4445555666666666666677777777888888888887431 112233 333333
Q ss_pred ---CCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-Hhhhhh
Q 031062 86 ---NHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADK 149 (166)
Q Consensus 86 ---~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~K 149 (166)
.-.+.++|-+-+ |++.||..+.++|.+++++..+.+++.+++|...+.++...+.++ ..|-.+
T Consensus 62 V~g~i~d~dkVlVdI-GtGy~VEk~~~eA~~~~~~ri~~l~~~~~~l~~~i~~~~~~~~~l~~~L~~k 128 (144)
T PRK14011 62 LKAKIVDPDKAILGV-GSDIYLEKDVSEVIEDFKKSVEELDKTKKEGNKKIEELNKEITKLRKELEKR 128 (144)
T ss_pred EeEEecCCCeEEEEc-cCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 335667899999 778999999999999999999999999999999999999998888 454443
No 12
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=97.64 E-value=0.00086 Score=49.65 Aligned_cols=62 Identities=15% Similarity=0.225 Sum_probs=55.1
Q ss_pred ccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 81 CTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 81 c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++-.|.-.+.+++-+-+ |.+.|+.+|.++|.++|++....++..+++++..++....++..+
T Consensus 49 ~~v~g~i~~~~~vlV~l-G~~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~ 110 (120)
T PF02996_consen 49 VFVPGKIPDTDKVLVSL-GAGYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQL 110 (120)
T ss_dssp EEEEEE-SSTTEEEEEE-ETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred eEEEEEeCCCCEEEEEe-eCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556677888899999 677999999999999999999999999999999999999999877
No 13
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=97.38 E-value=0.0093 Score=47.90 Aligned_cols=133 Identities=15% Similarity=0.180 Sum_probs=92.9
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhcc-ccccCcchhhhccCCCCCCCcccch
Q 031062 1 MEETMKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTK-TSVISPFESIMKDTGGPGTRPLVKE 79 (166)
Q Consensus 1 m~~~~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k-~s~~~p~~~~~~~~~~~~~~~~~~~ 79 (166)
|+...+.+.+...++..+-+.|=.-++++-.+....+..|+|+-.|+....-.. .-+.-| |+ .-+
T Consensus 1 m~~~~~~le~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~~lk~~~~g~E~LVp-------vG----ag~--- 66 (145)
T COG1730 1 MAQTQQELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLENLKGAGEGKEVLVP-------VG----AGL--- 66 (145)
T ss_pred CCchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceEEEE-------cC----CCc---
Confidence 444444455555555555555556688999999999999999999987532210 011111 11 111
Q ss_pred hccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhc
Q 031062 80 VCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKI 150 (166)
Q Consensus 80 ~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kf 150 (166)
|.=|+-.+.+++-+-+ |+...+..+.+.|.++|++..+.|++.+.++...+.+...++..+.......
T Consensus 67 --fv~~kv~~~~kviV~i-Gsg~~ae~~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~~~~~~l~~~~q~~ 134 (145)
T COG1730 67 --FVKAKVKDMDKVIVSI-GSGYYAEKSADEAIEFLKKRIEELEKAIEKLQQALAELAQRIEQLEQEAQQL 134 (145)
T ss_pred --eEEEEeccCceEEEEc-CCceeeeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1122234558899999 6679999999999999999999999999999999999999998885544433
No 14
>PRK01203 prefoldin subunit alpha; Provisional
Probab=97.13 E-value=0.018 Score=45.65 Aligned_cols=102 Identities=12% Similarity=0.071 Sum_probs=71.9
Q ss_pred hhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeE
Q 031062 25 ARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFA 104 (166)
Q Consensus 25 ~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FV 104 (166)
-++|+=.+..-++...+|+.+|......+...+.-| ++++. +-=|.-.+.++|-+-+ |+..||
T Consensus 19 l~~ql~~L~~a~se~~~~ie~L~~~~~~~~~eiLVP-------Lg~sl---------YV~gki~d~~kVlVdI-GTGy~V 81 (130)
T PRK01203 19 VDSQIDSLNKTLSEVQQTISFLSDNELDNSKELLIS-------IGSGI---------FADGNIKKDKDLIVPI-GSGVYI 81 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccccCCCCeEEEE-------ccCCc---------eEeEEecCCCeEEEEc-CCCeEE
Confidence 355555666666777778888876321111222222 22111 1113345677899999 777999
Q ss_pred eechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 105 KIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 105 klP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..+.+++.++|++.+++++.-|...+..++.....+++|
T Consensus 82 EK~~e~kie~L~~~ie~Le~~i~~K~~~l~~i~~~~~~l 120 (130)
T PRK01203 82 AEERERTIERLKENLEDLKDSIQKLNDQRKTLVDQYNTV 120 (130)
T ss_pred EecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999888888887
No 15
>KOG3478 consensus Prefoldin subunit 6, KE2 family [Posttranslational modification, protein turnover, chaperones]
Probab=92.69 E-value=2.2 Score=33.58 Aligned_cols=54 Identities=13% Similarity=0.237 Sum_probs=49.7
Q ss_pred CCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 88 DSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 88 d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++|.+|+=.| |.++|+-..+.|..-..+..+-|++||.++.+.++....++..-
T Consensus 49 e~d~~VYKli--GpvLvkqel~EAr~nV~kRlefI~~Eikr~e~~i~d~q~e~~k~ 102 (120)
T KOG3478|consen 49 EEDSNVYKLI--GPVLVKQELEEARTNVGKRLEFISKEIKRLENQIRDSQEEFEKQ 102 (120)
T ss_pred cccchHHHHh--cchhhHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6788898899 99999999999999999999999999999999999988887655
No 16
>KOG3313 consensus Molecular chaperone Prefoldin, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=91.13 E-value=8.4 Score=32.48 Aligned_cols=121 Identities=12% Similarity=0.113 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhcccc
Q 031062 5 MKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTC 84 (166)
Q Consensus 5 ~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~ 84 (166)
.+++++.+.+.-..+..+++.+..+-.-=.-=-.+=|-++-|++.. ....|+.+-|. -+. .+ -|..|
T Consensus 39 l~~~~E~~~kYkfme~~l~a~~~~l~~kIPd~entLeiv~~l~~~~-~~~~s~~t~f~-------lsd--~v---y~ka~ 105 (187)
T KOG3313|consen 39 LKKLQERYGKYKFMEASLLAQKRRLKTKIPDIENTLEIVQTLIAKK-DEGESFETTFL-------LSD--GV---YTKAS 105 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHhCc-ccCcceeEEEE-------ecc--cc---eeeee
Confidence 4677788888888888888777665432111122445566666541 11111111111 000 00 12222
Q ss_pred CCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 85 GNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 85 g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
- .+.++|-+-+ |.++++..|-+.|.++|.++.....+..+.+..++.-.-.+..
T Consensus 106 V--~~~~kV~LWL-GAnVMlEY~leEAeaLLkknl~sa~k~l~~~~~DldfLrdQvT 159 (187)
T KOG3313|consen 106 V--PPTDKVYLWL-GANVMLEYDLEEAEALLKKNLTSAVKSLDVLEEDLDFLRDQVT 159 (187)
T ss_pred c--CCcCeEEEEe-cceeEEEecHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhce
Confidence 2 4555677777 8899999999999999999988888877777777665554443
No 17
>PRK02224 chromosome segregation protein; Provisional
Probab=88.87 E-value=7.9 Score=37.58 Aligned_cols=15 Identities=20% Similarity=0.496 Sum_probs=10.3
Q ss_pred cchhccccCCCCCCC
Q 031062 77 VKEVCTTCGNHDSNE 91 (166)
Q Consensus 77 ~~~~c~~~g~~d~de 91 (166)
...+|++||.+=+++
T Consensus 450 ~~~~Cp~C~r~~~~~ 464 (880)
T PRK02224 450 EAGKCPECGQPVEGS 464 (880)
T ss_pred hcccCCCCCCcCCCc
Confidence 346899999755444
No 18
>PRK03918 chromosome segregation protein; Provisional
Probab=86.68 E-value=15 Score=35.40 Aligned_cols=49 Identities=16% Similarity=0.253 Sum_probs=27.4
Q ss_pred hccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 80 VCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 80 ~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+|++|+.+=.++ .......-++..++.++.+|..++.+++.....+..+
T Consensus 437 ~Cp~c~~~L~~~---------------~~~el~~~~~~ei~~l~~~~~~l~~~~~~l~~~~~~~ 485 (880)
T PRK03918 437 KCPVCGRELTEE---------------HRKELLEEYTAELKRIEKELKEIEEKERKLRKELREL 485 (880)
T ss_pred CCCCCCCcCCch---------------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 788888543332 2223334556666666666666666665555444433
No 19
>PRK01156 chromosome segregation protein; Provisional
Probab=85.91 E-value=14 Score=36.19 Aligned_cols=49 Identities=20% Similarity=0.380 Sum_probs=26.3
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISE 142 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~E 142 (166)
.+|++||.....+.. .....-++.....+..+|+.|..+++.....+..
T Consensus 453 ~~Cp~c~~~~~~e~~---------------~e~i~~~~~~i~~l~~~i~~l~~~~~~l~~~~~~ 501 (895)
T PRK01156 453 SVCPVCGTTLGEEKS---------------NHIINHYNEKKSRLEEKIREIEIEVKDIDEKIVD 501 (895)
T ss_pred CCCCCCCCcCChhhH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 489999987764411 1223334455555555555555555444444433
No 20
>KOG3048 consensus Molecular chaperone Prefoldin, subunit 5 [Posttranslational modification, protein turnover, chaperones]
Probab=85.16 E-value=7.2 Score=31.95 Aligned_cols=65 Identities=17% Similarity=0.229 Sum_probs=55.2
Q ss_pred CCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-Hhhhhhc
Q 031062 85 GNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKI 150 (166)
Q Consensus 85 g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kf 150 (166)
|.-++.+++.+-| |..-||.-..++|+.+..+..+.+.++|+.++.-+++|...-... .++-+|.
T Consensus 77 Gkl~d~~k~lVDI-GTGYyVEK~~e~akdyfkRKve~l~kq~e~i~~i~~eK~~~~~~v~~v~q~Kv 142 (153)
T KOG3048|consen 77 GKLSDNSKFLVDI-GTGYYVEKDAEDAKDYFKRKVEYLTKQIEQIEGILKEKTRTRASVMDVLQAKV 142 (153)
T ss_pred ceeccccceeEec-cCceEEeechHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456788999999 556899999999999999999999999999999999998877666 5554443
No 21
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=84.50 E-value=1.4 Score=33.31 Aligned_cols=34 Identities=26% Similarity=0.603 Sum_probs=22.7
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHHHH
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILE 116 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LE 116 (166)
.+|+-||..++ .|+.+.= -+||.+.-..+|.-|-
T Consensus 14 ~~CaDCg~~~p---~w~s~~~-GiflC~~Cag~HR~lg 47 (116)
T PF01412_consen 14 KVCADCGAPNP---TWASLNY-GIFLCLECAGIHRSLG 47 (116)
T ss_dssp TB-TTT-SBS-----EEETTT-TEEE-HHHHHHHHHHT
T ss_pred CcCCCCCCCCC---CEEEeec-ChhhhHHHHHHHHHhc
Confidence 48999996554 9999741 2999999888888775
No 22
>PF13793 Pribosyltran_N: N-terminal domain of ribose phosphate pyrophosphokinase; PDB: 2JI4_A 1DKU_B 1IBS_B 1DKR_B 3MBI_C 3LRT_B 3LPN_B 3NAG_B 2H07_B 2H06_B ....
Probab=83.38 E-value=0.27 Score=37.55 Aligned_cols=43 Identities=19% Similarity=0.300 Sum_probs=33.1
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeech
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPF 108 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~ 108 (166)
|+=+.|+++.+|-+.||..+|-.- ..-.|-.||+|+++++++.
T Consensus 1 m~I~~g~~~~~La~~ia~~L~~~~-~~~~~~~F~dGE~~v~i~~ 43 (116)
T PF13793_consen 1 MVIFSGSSSQDLAERIAEALGIPL-GKVETKRFPDGETYVRIPE 43 (116)
T ss_dssp EEEEESSSGHHHHHHHHHHTTS-E-E-EEEEE-TTS-EEEEESS
T ss_pred CEEEECCCCHHHHHHHHHHhCCce-eeeEEEEcCCCCEEEEecc
Confidence 455789999999999999998644 3457888999999999876
No 23
>KOG4098 consensus Molecular chaperone Prefoldin, subunit 2 [Posttranslational modification, protein turnover, chaperones]
Probab=81.92 E-value=15 Score=29.67 Aligned_cols=54 Identities=19% Similarity=0.258 Sum_probs=49.3
Q ss_pred CCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 88 DSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 88 d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
|++.|.+=++ |.++|.-....+...|+..++.|+.-|+.|-+.+..+-.+|.+-
T Consensus 59 dp~RKCfRmI--gGvLVErTVkeVlP~L~~nke~i~~~i~~l~~qL~~k~kElnkf 112 (140)
T KOG4098|consen 59 DPTRKCFRMI--GGVLVERTVKEVLPILQTNKENIEKVIKKLTDQLVQKGKELNKF 112 (140)
T ss_pred ChhhHHHHHh--ccchhhhhHHHHhHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777777889 77999999999999999999999999999999999999888765
No 24
>KOG3501 consensus Molecular chaperone Prefoldin, subunit 1 [Posttranslational modification, protein turnover, chaperones]
Probab=80.85 E-value=1.4 Score=34.38 Aligned_cols=48 Identities=15% Similarity=0.048 Sum_probs=37.5
Q ss_pred ceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 92 HTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 92 kVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
+++-.+ |.||+.-|....+.-++..++..+..|+.|+..-.=.....+
T Consensus 51 ~~Y~sv--grmF~l~dk~a~~s~leak~k~see~IeaLqkkK~YlEk~v~ 98 (114)
T KOG3501|consen 51 AVYTSV--GRMFMLSDKAAVRSHLEAKMKSSEEKIEALQKKKTYLEKTVS 98 (114)
T ss_pred HHHHHH--HHHHHcCcHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 455558 999999999999999999999999999988765443333333
No 25
>PHA02562 46 endonuclease subunit; Provisional
Probab=79.23 E-value=50 Score=30.16 Aligned_cols=40 Identities=23% Similarity=0.351 Sum_probs=21.8
Q ss_pred chhccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHH
Q 031062 78 KEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVK 134 (166)
Q Consensus 78 ~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK 134 (166)
...|++|+..=++. +.....|+.....++.+++.+.+.+.
T Consensus 284 ~~~Cp~C~~~~~~~-----------------~~~~~~l~d~i~~l~~~l~~l~~~i~ 323 (562)
T PHA02562 284 GGVCPTCTQQISEG-----------------PDRITKIKDKLKELQHSLEKLDTAID 323 (562)
T ss_pred CCCCCCCCCcCCCc-----------------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45999999554332 33444455555555555555544444
No 26
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=74.09 E-value=8.1 Score=33.51 Aligned_cols=78 Identities=22% Similarity=0.345 Sum_probs=48.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhh----hhhhHHHHHHHHh-----------hhhhccccccCcchhhhccCCCCC
Q 031062 8 FQQNLIEIENEAEHLLFARHQLVESDIV----RNGNREALTALRK-----------RARTTKTSVISPFESIMKDTGGPG 72 (166)
Q Consensus 8 ~~~~l~e~E~~ae~vL~~k~qlv~lDk~----Rn~nREAl~aL~k-----------~~~~~k~s~~~p~~~~~~~~~~~~ 72 (166)
+.+.+.+++.+...+...+..++.+-+. |+.-.+++..+++ -..++-.-+.++|+-+++.-.|.+
T Consensus 112 l~~l~~~~~~l~~~i~~l~~~~~~~e~~~~e~~~~~e~e~~~i~e~~~~~~~~~~~L~~~l~~ell~~yeri~~~~kg~g 191 (239)
T COG1579 112 LAELMEEIEKLEKEIEDLKERLERLEKNLAEAEARLEEEVAEIREEGQELSSKREELKEKLDPELLSEYERIRKNKKGVG 191 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHhcCCCce
Confidence 4444455555555555555555544332 3333344444443 122333445688999999999999
Q ss_pred CCcccchhccccC
Q 031062 73 TRPLVKEVCTTCG 85 (166)
Q Consensus 73 ~~~~~~~~c~~~g 85 (166)
--|+...+|..|+
T Consensus 192 vvpl~g~~C~GC~ 204 (239)
T COG1579 192 VVPLEGRVCGGCH 204 (239)
T ss_pred EEeecCCcccCCe
Confidence 9999999999665
No 27
>KOG0706 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=73.51 E-value=2.2 Score=40.16 Aligned_cols=33 Identities=33% Similarity=0.617 Sum_probs=25.8
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHHH
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTIL 115 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~L 115 (166)
.|||-||+.+ ++|..++=| +|+.+....+|.-|
T Consensus 24 KvCFDCgAkn---PtWaSVTYG-IFLCiDCSAvHRnL 56 (454)
T KOG0706|consen 24 KVCFDCGAKN---PTWASVTYG-IFLCIDCSAVHRNL 56 (454)
T ss_pred ceecccCCCC---CCceeecce-EEEEEecchhhhcc
Confidence 5999999776 689775435 99999888887644
No 28
>PF06632 XRCC4: DNA double-strand break repair and V(D)J recombination protein XRCC4; InterPro: IPR010585 This entry represents the DNA double-strand break repair and V(D)J recombination protein XRCC4, which is found in certain Metazoans, fungi and plants. XRCC4 binds to DNA, and to DNA ligase IV (LIG4) to form the LIG4-XRCC4 complex []. The LIG4-XRCC4 complex is responsible for the ligation step in the non-homologous end joining (NHEJ) pathway of DNA double-strand break repair. XRCC4 enhances the joining activity of LIG4. It is thought that XRCC4 and LIG4 are essential for alignment-based gap filling, as well as for final ligation of the breaks []. Binding of the LIG4-XRCC4 complex to DNA ends is dependent on the assembly of the DNA-dependent protein kinase complex DNA-PK to these DNA ends. ; GO: 0003677 DNA binding, 0006302 double-strand break repair, 0006310 DNA recombination, 0005634 nucleus; PDB: 3RWR_R 1IK9_B 3SR2_E 3Q4F_H 3II6_B 1FU1_A 3MUD_B.
Probab=71.20 E-value=13 Score=33.72 Aligned_cols=34 Identities=26% Similarity=0.229 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcC
Q 031062 118 DQTRLDFEAKKLQSYVKEKSLFISEK-GALADKIS 151 (166)
Q Consensus 118 DQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg 151 (166)
..+.+..+++++..+++..++.=.++ ..||+||-
T Consensus 152 enerL~~e~~~~~~qlE~~v~~K~~~E~~L~~KF~ 186 (342)
T PF06632_consen 152 ENERLESEANKLLKQLEKFVNAKEEHEEDLYAKFV 186 (342)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888999999999999999999 99999994
No 29
>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=70.99 E-value=52 Score=32.53 Aligned_cols=37 Identities=24% Similarity=0.205 Sum_probs=33.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
....+.+.+.....++|.||.+||.++|.+..++.+|
T Consensus 535 ~r~e~~e~~r~r~~~lE~E~~~lr~elk~kee~~~~~ 571 (697)
T PF09726_consen 535 TRQECAESCRQRRRQLESELKKLRRELKQKEEQIREL 571 (697)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3447778899999999999999999999999999988
No 30
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=70.31 E-value=42 Score=24.99 Aligned_cols=103 Identities=16% Similarity=0.158 Sum_probs=69.9
Q ss_pred HHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCceeEE
Q 031062 17 NEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMM 96 (166)
Q Consensus 17 ~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~ 96 (166)
.+.+.+=..++++=.+...++.-+.++.-++.... +.+.+ . . ..+..+.+.
T Consensus 3 ql~~q~~ql~~~i~~l~~~i~~l~~~i~e~~~~~~------------~L~~l------------~---~--~~~~~~lv~ 53 (126)
T TIGR00293 3 QLAAELQILQQQVESLQAQIAALRALIAELETAIE------------TLEDL------------K---G--AEGKETLVP 53 (126)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHhc------------c---c--cCCCeEEEE
Confidence 34444555667777788888888877777765411 11111 1 1 133457788
Q ss_pred ecCCCeeEeechhHHH-------------HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhh
Q 031062 97 FPGTDVFAKIPFHAAH-------------TILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADK 149 (166)
Q Consensus 97 ~~gGd~FVklP~~~A~-------------e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~K 149 (166)
+ |+.+|++-....+. .=++.-.+-++..++.|...++.....+.++..-+..
T Consensus 54 l-g~~~~v~~~v~~~~~v~v~iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~ 118 (126)
T TIGR00293 54 V-GAGSFVKAKVKDTDKVLVSIGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQ 118 (126)
T ss_pred c-CCCeEEEEEeCCCCEEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8 77799996666655 4467788899999999999999999999988554443
No 31
>PRK09343 prefoldin subunit beta; Provisional
Probab=66.77 E-value=22 Score=27.25 Aligned_cols=113 Identities=18% Similarity=0.123 Sum_probs=71.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhcc
Q 031062 3 ETMKQFQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCT 82 (166)
Q Consensus 3 ~~~~~~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~ 82 (166)
+..+..+..+..+..-...+...|+++---=+.-....+-|..|-..++.-|+-.
T Consensus 7 ~~~q~~~~~~q~lq~~l~~~~~q~~~le~q~~e~~~~~~EL~~L~~d~~VYk~VG------------------------- 61 (121)
T PRK09343 7 PEVQAQLAQLQQLQQQLERLLQQKSQIDLELREINKALEELEKLPDDTPIYKIVG------------------------- 61 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcchhHHHhh-------------------------
Confidence 4555556666666666666666666555444444455566666655533222221
Q ss_pred ccCCCCCCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcC
Q 031062 83 TCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKIS 151 (166)
Q Consensus 83 ~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg 151 (166)
++.|.- --.=++-...+-+++|+.+.+.+++..+.++..+++....|.++ ...|..-|
T Consensus 62 ---------~vlv~q--d~~e~~~~l~~r~E~ie~~ik~lekq~~~l~~~l~e~q~~l~~ll~~~~~~~~ 120 (121)
T PRK09343 62 ---------NLLVKV--DKTKVEKELKERKELLELRSRTLEKQEKKLREKLKELQAKINEMLSKYYPQGG 120 (121)
T ss_pred ---------HHHhhc--cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 111211 00112344577889999999999999999999999999999999 66665543
No 32
>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=65.31 E-value=21 Score=32.31 Aligned_cols=52 Identities=17% Similarity=0.142 Sum_probs=37.9
Q ss_pred eeEeechhHHHHHHHHHHHHHHHHHHHHHhH-----------------HHHHHHHHHHHHhhhhhcChh
Q 031062 102 VFAKIPFHAAHTILETDQTRLDFEAKKLQSY-----------------VKEKSLFISEKGALADKISPG 153 (166)
Q Consensus 102 ~FVklP~~~A~e~LEkDQe~lD~EI~kLRse-----------------LK~Kv~~L~EL~~Ly~Kfg~~ 153 (166)
+++.+..++..+-|++.+++++.+|++|.+. +.....++.++..+.+..|..
T Consensus 234 ~~A~l~~~~~~~~l~~~~~~~~~~i~~l~~~l~~~~k~~~k~~~~~~q~~~~~k~~~~~~~~~~~~~~~ 302 (406)
T PF02388_consen 234 FLAELNGKEYLESLQEKLEKLEKEIEKLEEKLEKNPKKKNKLKELEEQLASLEKRIEEAEELIAEYGDE 302 (406)
T ss_dssp EEEEECCHHHHHHHHHHHHHHHHHHHHHHHHHHH-THHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-SE
T ss_pred EEEEEcHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 6788999999999999988888887777665 444445555666666666665
No 33
>PF07820 TraC: TraC-like protein; InterPro: IPR012930 The members of this family are sequences that are similar to TraC (Q84HT8 from SWISSPROT) from Rhizobium etli. The gene encoding this protein is one of a group of genes found on plasmid p42a of Rhizobium etli (strain CFN 42/ATCC 51251) that are thought to be involved in the process of plasmid self-transmission. Mobilisation of plasmid p42a is of importance as it is required for transfer of plasmid p42d, the symbiotic plasmid which carries most of the genes required for nodulation and nitrogen fixation by this symbiotic bacterium. The predicted protein products of p42a are similar to known transfer proteins of Agrobacterium tumefaciens plasmid pTiC58 []. ; GO: 0000746 conjugation
Probab=63.94 E-value=15 Score=27.87 Aligned_cols=34 Identities=26% Similarity=0.293 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcCh
Q 031062 119 QTRLDFEAKKLQSYVKEKSLFISEK-GALADKISP 152 (166)
Q Consensus 119 Qe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~ 152 (166)
..+|+.+|++|+.++|....+.+|- +.++-|-|=
T Consensus 4 ~s~I~~eIekLqe~lk~~e~keaERigr~AlKaGL 38 (92)
T PF07820_consen 4 SSKIREEIEKLQEQLKQAETKEAERIGRIALKAGL 38 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc
Confidence 3578999999999999999888887 666655553
No 34
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=63.67 E-value=1.4e+02 Score=28.62 Aligned_cols=35 Identities=11% Similarity=0.114 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHh
Q 031062 14 EIENEAEHLLFARHQLVESDIVRNGNREALTALRK 48 (166)
Q Consensus 14 e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k 48 (166)
+++++.+++....+++-+++.+++..++.+..|+.
T Consensus 94 ~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~~ 128 (646)
T PRK05771 94 ELEKIEKEIKELEEEISELENEIKELEQEIERLEP 128 (646)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 34555555666666666666666666666655554
No 35
>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=57.28 E-value=35 Score=23.70 Aligned_cols=33 Identities=27% Similarity=0.251 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 031062 115 LETDQTRLDFEAKKLQSYVKEKSLFISEKGALA 147 (166)
Q Consensus 115 LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly 147 (166)
|+.-...|+.||.+++..+..|....+.-..+|
T Consensus 26 L~~RIa~L~aEI~R~~~~~~~K~a~r~AAealF 58 (59)
T PF06698_consen 26 LEERIALLEAEIARLEAAIAKKSASRAAAEALF 58 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 566778899999999999999998877665554
No 36
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=56.81 E-value=57 Score=21.82 Aligned_cols=34 Identities=18% Similarity=0.109 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.-.+-|+.....+..+...|++.+......+..|
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L 59 (64)
T PF00170_consen 26 QYIEELEEKVEELESENEELKKELEQLKKEIQSL 59 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456677777788888888887777776666666
No 37
>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=56.52 E-value=48 Score=26.13 Aligned_cols=49 Identities=14% Similarity=0.082 Sum_probs=29.4
Q ss_pred ceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 92 HTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 92 kVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++|++. -+.|-.++.+. ..-+..+..++..++..|+.+.+....+|+.|
T Consensus 57 kiY~~~--Q~~~~~~s~ee-l~~ld~ei~~L~~el~~l~~~~k~l~~eL~~L 105 (169)
T PF07106_consen 57 KIYFAN--QDELEVPSPEE-LAELDAEIKELREELAELKKEVKSLEAELASL 105 (169)
T ss_pred EEEeeC--ccccCCCCchh-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444 66665444433 45555557777777777777776666666655
No 38
>PF06246 Isy1: Isy1-like splicing family; InterPro: IPR009360 Isy1 protein is important in the optimisation of splicing [].; PDB: 1X4T_A.
Probab=55.06 E-value=22 Score=31.07 Aligned_cols=43 Identities=26% Similarity=0.148 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhhhhhh
Q 031062 116 ETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGVLRSL 158 (166)
Q Consensus 116 EkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v~ksl 158 (166)
+-....|+.+||+|=.+-.-...++.+| |.-|.++||.++.+-
T Consensus 70 E~~IRdLNDeINkL~rEK~~WE~rI~~LGG~dy~~~~~~~~d~~ 113 (255)
T PF06246_consen 70 EFQIRDLNDEINKLIREKRHWERRIKELGGPDYRRSGPKMLDSE 113 (255)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHTS--STTT--------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCcccccccccccc
Confidence 3466789999999999999999999999 999999999866543
No 39
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=52.80 E-value=1e+02 Score=23.48 Aligned_cols=107 Identities=15% Similarity=0.159 Sum_probs=72.9
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCc
Q 031062 13 IEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEH 92 (166)
Q Consensus 13 ~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dek 92 (166)
.+++.+.+.+=..++++=.+-..++.-+.++.-++.... + + +.+. ...++..
T Consensus 6 ~~l~~l~~~~~~l~~~~~~l~~~~~~l~~~~~e~~~~~e-~---l----~~l~--------------------~~~~~~e 57 (140)
T PRK03947 6 QELEELAAQLQALQAQIEALQQQLEELQASINELDTAKE-T---L----EELK--------------------SKGEGKE 57 (140)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H---H----Hhhc--------------------ccCCCCe
Confidence 466777777778888888899999988888888776421 1 1 0000 0124456
Q ss_pred eeEEecCCCeeEeechhHHHH-------------HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhh
Q 031062 93 TWMMFPGTDVFAKIPFHAAHT-------------ILETDQTRLDFEAKKLQSYVKEKSLFISEKGALAD 148 (166)
Q Consensus 93 VWi~~~gGd~FVklP~~~A~e-------------~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~ 148 (166)
+.+.+ |+++|+.-.....-. =++.-.+.++..++.|...++.....+.++..-+.
T Consensus 58 ~lvpl-g~~~yv~~~v~~~~kV~v~lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~ 125 (140)
T PRK03947 58 TLVPI-GAGSFVKAKVKDKDKVIVSLGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIA 125 (140)
T ss_pred EEEEc-CCCcEEEEEecCCCeEEEEcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77777 667898755533333 45667778899999999999998888888844333
No 40
>PF10073 DUF2312: Uncharacterized protein conserved in bacteria (DUF2312); InterPro: IPR018753 This entry is represented by Azospirillum phage Cd, Gp10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family of hypothetical bacterial proteins have no known function.
Probab=52.46 E-value=53 Score=23.90 Aligned_cols=44 Identities=20% Similarity=0.188 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHH--HhhhhhcChhhhhhhhhcccC
Q 031062 121 RLDFEAKKLQSYVKEKSLFISEK--GALADKISPGVLRSLVTLTDK 164 (166)
Q Consensus 121 ~lD~EI~kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~kslv~l~~~ 164 (166)
++=..|++|.++.+.....+++. ++-..-|.+-+++.+|+|.-+
T Consensus 8 ~~ieRiErLEeEk~~i~~dikdVyaEAK~~GfD~K~lr~ii~lRk~ 53 (74)
T PF10073_consen 8 QFIERIERLEEEKKAISDDIKDVYAEAKGNGFDTKALRQIIRLRKK 53 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHcC
Confidence 34456777777778888888887 788889999999999998643
No 41
>PRK13694 hypothetical protein; Provisional
Probab=50.77 E-value=85 Score=23.42 Aligned_cols=48 Identities=17% Similarity=0.132 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH--HhhhhhcChhhhhhhhhcccC
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK--GALADKISPGVLRSLVTLTDK 164 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~kslv~l~~~ 164 (166)
....++=..|++|..+.|.....+++. ++-..=|.+-++|.+|+|.-+
T Consensus 12 ~~Lr~fIERIERLEeEkk~i~~dikdVyaEAK~~GfD~K~~r~ii~lRK~ 61 (83)
T PRK13694 12 EQLRAFIERIERLEEEKKTISDDIKDVYAEAKGNGFDVKALKTIIRLRKK 61 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHcC
Confidence 344555567888888888888888888 788888999999999998643
No 42
>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=50.09 E-value=59 Score=23.83 Aligned_cols=36 Identities=22% Similarity=0.232 Sum_probs=32.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.++-++.|+.....++..++.+++++++.-..|.++
T Consensus 68 Le~~~e~le~~i~~l~~~~~~l~~~~~elk~~l~~~ 103 (105)
T cd00632 68 LKERLETIELRIKRLERQEEDLQEKLKELQEKIQQA 103 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467788999999999999999999999999999887
No 43
>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=49.51 E-value=73 Score=24.28 Aligned_cols=35 Identities=11% Similarity=0.088 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
....++|++..+.++.+|..|+.-.......+...
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (133)
T cd04787 78 PMVRRLIEQRLAETERRIKELLKLRDRMQQAVSQW 112 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677888888888888888877666555555443
No 44
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=49.29 E-value=39 Score=29.10 Aligned_cols=38 Identities=18% Similarity=0.156 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHH--HHHhhhHHHHhhhhhhhhHHHHH
Q 031062 7 QFQQNLIEIENEAEH--LLFARHQLVESDIVRNGNREALT 44 (166)
Q Consensus 7 ~~~~~l~e~E~~ae~--vL~~k~qlv~lDk~Rn~nREAl~ 44 (166)
++-..+.++|.++++ |=.+-..+-+.|+.+..-.+.-.
T Consensus 131 ~I~~ll~~aE~LGeeG~VdeA~~~~~~~e~Lk~ek~~le~ 170 (254)
T PF03194_consen 131 KIGELLKEAEELGEEGDVDEAQKLMEEVEKLKEEKEELEK 170 (254)
T ss_pred HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455667777877774 66666667777777766555544
No 45
>PF13758 Prefoldin_3: Prefoldin subunit
Probab=49.10 E-value=1.2e+02 Score=23.22 Aligned_cols=91 Identities=13% Similarity=0.069 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCC
Q 031062 9 QQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHD 88 (166)
Q Consensus 9 ~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d 88 (166)
+.--+|.|.+-|+|..... .++..++-|..+++. ...++ -
T Consensus 8 q~w~aEYe~LKEEi~~l~~-------~~~~~~e~l~~i~r~---f~g~l------------------------------v 47 (99)
T PF13758_consen 8 QTWEAEYEGLKEEIEALPE-------DDDATREDLLRIRRD---FGGSL------------------------------V 47 (99)
T ss_pred HHHHHHHHHHHHHHHhccc-------cCCCCHHHHHHHHHh---cCccc------------------------------c
Confidence 4445677888888877654 456667777666654 22222 1
Q ss_pred CCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 031062 89 SNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFI 140 (166)
Q Consensus 89 ~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L 140 (166)
....+-.-| |....+.-+.+++..+|.+.+.-+.+-|..|+..+..-.++|
T Consensus 48 ~~kEi~~il-G~~~~i~Rt~~Qvv~~l~RRiDYV~~Ni~tleKql~~aE~kl 98 (99)
T PF13758_consen 48 TEKEIKEIL-GEGQGITRTREQVVDVLSRRIDYVQQNIETLEKQLEAAENKL 98 (99)
T ss_pred cHHHHHHHh-CCCCCCCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 222233445 334678889999999999999999999999999888776665
No 46
>PF05321 HHA: Haemolysin expression modulating protein; InterPro: IPR007985 This family consists of haemolysin expression modulating protein (Hha) from Escherichia coli and its enterobacterial homologues, such as YmoA from Yersinia enterocolitica, and RmoA encoded on the R100 plasmid. These proteins act as modulators of bacterial gene expression. Members of the Hha/YmoA/RmoA family act in conjunction with members of the H-NS family, participating in the thermoregulation of different virulence factors and in plasmid transfer []. Hha, along with the chromatin-associated protein H-NS, is involved in the regulation of expression of the toxin alpha-haemolysin in response to osmolarity and temperature []. YmoA modulates the expression of various virulence factors, such as Yop proteins and YadA adhesin, in response to temperature. RmoA is a plasmid R100 modulator involved in plasmid transfer []. The HHA family of proteins display striking similarity to the oligomerization domain of the H-NS proteins.; PDB: 1JW2_A 2K5S_A 2JQT_A.
Probab=48.73 E-value=52 Score=22.95 Aligned_cols=28 Identities=25% Similarity=0.336 Sum_probs=18.0
Q ss_pred HHHhHHHHHHHHHHHH--HhhhhhcChhhh
Q 031062 128 KLQSYVKEKSLFISEK--GALADKISPGVL 155 (166)
Q Consensus 128 kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~ 155 (166)
++..-.-.-+.+++|| +.||||+-++|-
T Consensus 27 e~~~f~~AaDHR~AEL~~~klyDkVP~~vW 56 (57)
T PF05321_consen 27 ELEAFNSAADHRRAELTMGKLYDKVPKSVW 56 (57)
T ss_dssp HHHHHHHHHHHHHHHHHTTS--SS--CHHH
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhhCCHHhc
Confidence 4445555678899999 999999988764
No 47
>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]
Probab=48.66 E-value=20 Score=37.95 Aligned_cols=76 Identities=16% Similarity=0.213 Sum_probs=56.8
Q ss_pred ccchhccccCCCCCCCceeEEecCCCeeEeechhHHHHHHHH--HHHHHHHHHHHHHhHHHHHHHHH---HHHHhhhhhc
Q 031062 76 LVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTILET--DQTRLDFEAKKLQSYVKEKSLFI---SEKGALADKI 150 (166)
Q Consensus 76 ~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~LEk--DQe~lD~EI~kLRseLK~Kv~~L---~EL~~Ly~Kf 150 (166)
.-|+||+.|-+..+-.-..||= =.+- +--++-.++++- |-.-.+.-|.-+.+.+.---+.| -||..||+||
T Consensus 1251 tWK~VcfaCvd~~EFrlAQiCG--L~ii--vhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky 1326 (1666)
T KOG0985|consen 1251 TWKEVCFACVDKEEFRLAQICG--LNII--VHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY 1326 (1666)
T ss_pred HHHHHHHHHhchhhhhHHHhcC--ceEE--EehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc
Confidence 3589999999887776555553 2333 445566666664 55567888999999998888888 5999999999
Q ss_pred Chhhh
Q 031062 151 SPGVL 155 (166)
Q Consensus 151 g~~v~ 155 (166)
-|.-.
T Consensus 1327 kp~km 1331 (1666)
T KOG0985|consen 1327 KPEKM 1331 (1666)
T ss_pred CHHHH
Confidence 99754
No 48
>PRK02269 ribose-phosphate pyrophosphokinase; Provisional
Probab=48.49 E-value=8.1 Score=34.12 Aligned_cols=44 Identities=14% Similarity=0.140 Sum_probs=35.1
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechh
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFH 109 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~ 109 (166)
|+=+.|+++.+|.++||...|-. -..-.|-.||+|+.+++++.+
T Consensus 6 ~~i~~~~~~~~la~~ia~~lg~~-l~~~~~~~FpdGE~~v~i~~~ 49 (320)
T PRK02269 6 LKLFALSSNKELAEKVAQEIGIE-LGKSSVRQFSDGEIQVNIEES 49 (320)
T ss_pred eEEEECCCCHHHHHHHHHHhCCc-eeeeEEEECCCCCEEEEECCC
Confidence 56788999999999999988744 444577789999999887543
No 49
>PF14954 LIX1: Limb expression 1
Probab=48.30 E-value=11 Score=32.97 Aligned_cols=14 Identities=21% Similarity=0.539 Sum_probs=10.9
Q ss_pred EEecCCCeeEeech
Q 031062 95 MMFPGTDVFAKIPF 108 (166)
Q Consensus 95 i~~~gGd~FVklP~ 108 (166)
+++|||++|=-+..
T Consensus 63 VTLPGGSCFGnfq~ 76 (252)
T PF14954_consen 63 VTLPGGSCFGNFQN 76 (252)
T ss_pred EeCCCCCccCcccc
Confidence 67999999976543
No 50
>PF10058 DUF2296: Predicted integral membrane metal-binding protein (DUF2296); InterPro: IPR019273 This domain, found mainly in the eukaryotic lunapark proteins, has no known function [].
Probab=47.91 E-value=7.5 Score=26.28 Aligned_cols=31 Identities=19% Similarity=0.335 Sum_probs=22.5
Q ss_pred cchhhhccCCCCCC---CcccchhccccCCCCCC
Q 031062 60 PFESIMKDTGGPGT---RPLVKEVCTTCGNHDSN 90 (166)
Q Consensus 60 p~~~~~~~~~~~~~---~~~~~~~c~~~g~~d~d 90 (166)
+|+.|+.-+.|.++ ..-..-||..|..|+.-
T Consensus 1 W~Dki~d~L~G~d~~~~~~r~aLIC~~C~~hNGl 34 (54)
T PF10058_consen 1 WFDKILDVLLGDDPTSPSNRYALICSKCFSHNGL 34 (54)
T ss_pred ChHHHHHHHhCCCCccccCceeEECcccchhhcc
Confidence 36677777777777 66666789999988753
No 51
>PRK13848 conjugal transfer protein TraC; Provisional
Probab=47.47 E-value=40 Score=25.81 Aligned_cols=32 Identities=28% Similarity=0.317 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcC
Q 031062 120 TRLDFEAKKLQSYVKEKSLFISEK-GALADKIS 151 (166)
Q Consensus 120 e~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg 151 (166)
.+|+.+|++||.++|..+.+-+|- +-++-|-|
T Consensus 6 s~I~~eI~kLqe~lk~~e~keAERigRiAlKAG 38 (98)
T PRK13848 6 SKIREEIAKLQEQLKQAETREAERIGRIALKAG 38 (98)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 468899999999999988887776 66655554
No 52
>COG5347 GTPase-activating protein that regulates ARFs (ADP-ribosylation factors), involved in ARF-mediated vesicular transport [Intracellular trafficking and secretion]
Probab=46.96 E-value=28 Score=31.34 Aligned_cols=33 Identities=30% Similarity=0.550 Sum_probs=24.1
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHHH
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTIL 115 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~L 115 (166)
.+|+-||+.. +.|..+.=| +||.+....+|.=|
T Consensus 21 k~CaDCga~~---P~W~S~nlG-vfiCi~CagvHRsL 53 (319)
T COG5347 21 KKCADCGAPN---PTWASVNLG-VFLCIDCAGVHRSL 53 (319)
T ss_pred CccccCCCCC---CceEecccC-eEEEeecchhhhcc
Confidence 4899999766 789874213 99988877776543
No 53
>PF10337 DUF2422: Protein of unknown function (DUF2422); InterPro: IPR018823 This domain is found in proteins conserved in fungi. Their function is not known. This entry represents the N-terminal half of some member proteins which contain IPR018820 from INTERPRO at their C terminus.
Probab=46.57 E-value=38 Score=30.87 Aligned_cols=45 Identities=16% Similarity=0.194 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH--HhhhhhcChhhhhhhhhc
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK--GALADKISPGVLRSLVTL 161 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~kslv~l 161 (166)
...+++...+.++++........+.++ +.-|+|++|.-++++.++
T Consensus 255 ~~~~~L~~~~~~l~~~~~~l~~~l~~~~~Eis~grl~~~Dl~~i~~~ 301 (459)
T PF10337_consen 255 KSLKKLKATKAKLRALYAKLQAALRFLKLEISYGRLSPDDLKPIFSL 301 (459)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHeeecCCHHHHHHHHHH
Confidence 355778888888999999999999888 999999999999988754
No 54
>COG0419 SbcC ATPase involved in DNA repair [DNA replication, recombination, and repair]
Probab=46.45 E-value=3.1e+02 Score=27.44 Aligned_cols=12 Identities=33% Similarity=0.769 Sum_probs=8.7
Q ss_pred cchhccccCCCC
Q 031062 77 VKEVCTTCGNHD 88 (166)
Q Consensus 77 ~~~~c~~~g~~d 88 (166)
..+.|+.||.+=
T Consensus 456 ~~~~CPvCg~~l 467 (908)
T COG0419 456 AGEKCPVCGQEL 467 (908)
T ss_pred CCCCCCCCCCCC
Confidence 457899999443
No 55
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=46.16 E-value=44 Score=30.63 Aligned_cols=23 Identities=26% Similarity=0.313 Sum_probs=19.6
Q ss_pred hHHHHhhhhhhhhHHHHHHHHhh
Q 031062 27 HQLVESDIVRNGNREALTALRKR 49 (166)
Q Consensus 27 ~qlv~lDk~Rn~nREAl~aL~k~ 49 (166)
.+|+++|..|.+.+..+..||+.
T Consensus 28 d~i~~ld~~~r~l~~~~~~lr~~ 50 (425)
T PRK05431 28 DELLELDEERRELQTELEELQAE 50 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999998888888765
No 56
>COG3750 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=45.85 E-value=1.2e+02 Score=22.59 Aligned_cols=53 Identities=13% Similarity=0.116 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH--HhhhhhcChhhhhhhhhccc
Q 031062 111 AHTILETDQTRLDFEAKKLQSYVKEKSLFISEK--GALADKISPGVLRSLVTLTD 163 (166)
Q Consensus 111 A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~kslv~l~~ 163 (166)
++..-..+..++=+.|++|..+.+......+|. ++--.-|..-++|+.++|.-
T Consensus 8 s~tva~~QLrafIerIERlEeEk~~i~~dikdvy~eakg~GFDvKa~r~iirlrK 62 (85)
T COG3750 8 SQTVAAGQLRAFIERIERLEEEKKTIADDIKDVYAEAKGHGFDVKAVRTIIRLRK 62 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHh
Confidence 344444555666677888888888888888887 55666788889999998853
No 57
>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=43.80 E-value=56 Score=21.93 Aligned_cols=26 Identities=12% Similarity=0.087 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHH
Q 031062 111 AHTILETDQTRLDFEAKKLQSYVKEK 136 (166)
Q Consensus 111 A~e~LEkDQe~lD~EI~kLRseLK~K 136 (166)
++.-+|+..+.+|.+|..|+..-+..
T Consensus 13 ~~d~IEqkiedid~qIaeLe~KR~~L 38 (46)
T PF08946_consen 13 HYDNIEQKIEDIDEQIAELEAKRQRL 38 (46)
T ss_dssp --THHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHhHHHHHHHHHHHHHHHHHH
Confidence 34445566666666666666543333
No 58
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=43.71 E-value=67 Score=26.56 Aligned_cols=38 Identities=13% Similarity=0.180 Sum_probs=32.3
Q ss_pred echhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 031062 106 IPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKG 144 (166)
Q Consensus 106 lP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~ 144 (166)
|+.++ .+-|.....+++.||..||.-|-.|..+..||.
T Consensus 26 LsEeE-~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLK 63 (162)
T PF04201_consen 26 LSEEE-REELRSELAKVEEEIQTLRQVLAAKERHCAELK 63 (162)
T ss_pred CCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Confidence 44444 566888999999999999999999999999993
No 59
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=43.65 E-value=1.9e+02 Score=27.25 Aligned_cols=45 Identities=20% Similarity=0.239 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhhhhhhhhc
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGVLRSLVTL 161 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v~kslv~l 161 (166)
.+.+.++.+++.++..+...-..|+.. ......|...|-..|-.|
T Consensus 346 ~~le~L~~el~~l~~~l~~~a~~Ls~~R~~~a~~l~~~v~~~l~~L 391 (563)
T TIGR00634 346 ESLEALEEEVDKLEEELDKAAVALSLIRRKAAERLAKRVEQELKAL 391 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 478888889999999999999999888 777777777777766554
No 60
>PRK02812 ribose-phosphate pyrophosphokinase; Provisional
Probab=43.38 E-value=11 Score=33.68 Aligned_cols=44 Identities=18% Similarity=0.259 Sum_probs=36.8
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechh
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFH 109 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~ 109 (166)
|+=+.|+++.+|-+++|...|- .-.+-.|-.||.|+.+++++.+
T Consensus 22 ~~i~~g~~~~~la~~ia~~lg~-~l~~~~~~~FpDGE~~v~i~~~ 65 (330)
T PRK02812 22 LRLFSGSSNPALAQEVARYLGM-DLGPMIRKRFADGELYVQIQES 65 (330)
T ss_pred EEEEECCCCHHHHHHHHHHhCC-CceeeEEEECCCCCEEEEeCCC
Confidence 6788999999999999998884 3445578889999999998754
No 61
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=43.31 E-value=85 Score=25.83 Aligned_cols=55 Identities=22% Similarity=0.207 Sum_probs=40.0
Q ss_pred EeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhhhhhh
Q 031062 104 AKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGVLRSL 158 (166)
Q Consensus 104 VklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v~ksl 158 (166)
+--|...|..+.|..++.+-.++..|+..+...+..=.+=+.++.+|-.-+++.|
T Consensus 34 ~ph~~~~avSL~erQ~~~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~l~LL 88 (225)
T PF04340_consen 34 LPHPSGGAVSLVERQLERLRERNRQLEEQLEELIENARENEAIFQRLHRLVLALL 88 (225)
T ss_dssp -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4456677999999999999999999999999888777666777777766665544
No 62
>PRK04923 ribose-phosphate pyrophosphokinase; Provisional
Probab=42.86 E-value=11 Score=33.42 Aligned_cols=44 Identities=18% Similarity=0.310 Sum_probs=35.0
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechh
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFH 109 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~ 109 (166)
|+=+.|+++++|-+++|...|-. -..-.|-.||+|+.+++++..
T Consensus 7 ~~i~~g~~~~~La~~ia~~lg~~-l~~~~~~~FpdGE~~v~i~~~ 50 (319)
T PRK04923 7 LLVFSGNANKPLAQSICKELGVR-MGKALVTRFSDGEVQVEIEES 50 (319)
T ss_pred eEEEECCCCHHHHHHHHHHhCCc-eeeeEEEECCCCCEEEEECCC
Confidence 56678999999999999988743 445577889999988888643
No 63
>PF10158 LOH1CR12: Tumour suppressor protein; InterPro: IPR018780 This entry represents a region of 130 amino acids that is the most conserved part of some hypothetical proteins involved in loss of heterozygosity, and thus, tumour suppression []. The exact function of these proteins is not known.
Probab=42.85 E-value=94 Score=24.46 Aligned_cols=44 Identities=14% Similarity=0.101 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhh
Q 031062 111 AHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGV 154 (166)
Q Consensus 111 A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v 154 (166)
.-+.+-.||..|.+.|+.....+-.....+.+-...|++|..++
T Consensus 43 cA~~Va~~Q~~L~~riKevd~~~~~l~~~~~erqk~~~k~ae~L 86 (131)
T PF10158_consen 43 CAEAVAFDQNALAKRIKEVDQEIAKLLQQMVERQKRFAKFAEQL 86 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456678999999999999998888888888889999998765
No 64
>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=42.49 E-value=89 Score=23.17 Aligned_cols=37 Identities=22% Similarity=0.230 Sum_probs=31.7
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..++-++.|+...+.++..++.+++.+++....|.++
T Consensus 71 ~l~~r~e~ie~~i~~lek~~~~l~~~l~e~q~~l~~~ 107 (110)
T TIGR02338 71 ELKEKKETLELRVKTLQRQEERLREQLKELQEKIQEA 107 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788889999999999999999999999888876
No 65
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=42.44 E-value=91 Score=23.88 Aligned_cols=20 Identities=20% Similarity=0.363 Sum_probs=15.0
Q ss_pred HHHHhhhhhcChhhhhhhhh
Q 031062 141 SEKGALADKISPGVLRSLVT 160 (166)
Q Consensus 141 ~EL~~Ly~Kfg~~v~kslv~ 160 (166)
.++..++.+|+|..+...+.
T Consensus 83 ~~~~~l~~~~s~~~l~~~L~ 102 (150)
T PF07200_consen 83 QQQDELSSNYSPDALLARLQ 102 (150)
T ss_dssp HHHHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHccCCHHHHHHHHH
Confidence 44556789999999887653
No 66
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=41.91 E-value=60 Score=23.11 Aligned_cols=35 Identities=26% Similarity=0.229 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhh
Q 031062 115 LETDQTRLDFEAKKLQSYVKEKSLFISEKGALADK 149 (166)
Q Consensus 115 LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~K 149 (166)
|+..+.-+..||++|..++..|.+-=+.-++|+.+
T Consensus 30 l~eRIalLq~EIeRlkAe~~kK~~srsAAeaLFrr 64 (65)
T COG5509 30 LEERIALLQAEIERLKAELAKKKASRSAAEALFRR 64 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccHHHHHHHHhc
Confidence 45566777777888877777777666665666543
No 67
>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=41.13 E-value=39 Score=26.65 Aligned_cols=78 Identities=10% Similarity=-0.023 Sum_probs=54.6
Q ss_pred hhhhccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechhHHHH-HHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 031062 62 ESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHT-ILETDQTRLDFEAKKLQSYVKEKSLFI 140 (166)
Q Consensus 62 ~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e-~LEkDQe~lD~EI~kLRseLK~Kv~~L 140 (166)
-+|.-.+++.-+|+.|+...-+|- .++++-...- |-.=|-++..+..+ .=..+...+|.+|..|++++...-...
T Consensus 20 ~di~~nL~~~~~K~~v~k~Ld~L~---~~g~i~~K~~-GKqkiY~~~Q~~~~~~s~eel~~ld~ei~~L~~el~~l~~~~ 95 (169)
T PF07106_consen 20 QDIFDNLHNKVGKTAVQKALDSLV---EEGKIVEKEY-GKQKIYFANQDELEVPSPEELAELDAEIKELREELAELKKEV 95 (169)
T ss_pred HHHHHHHHhhccHHHHHHHHHHHH---hCCCeeeeee-cceEEEeeCccccCCCCchhHHHHHHHHHHHHHHHHHHHHHH
Confidence 367777777778888887777665 3444555531 55555555544444 334568899999999999999998888
Q ss_pred HHH
Q 031062 141 SEK 143 (166)
Q Consensus 141 ~EL 143 (166)
+.|
T Consensus 96 k~l 98 (169)
T PF07106_consen 96 KSL 98 (169)
T ss_pred HHH
Confidence 888
No 68
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=41.00 E-value=37 Score=33.41 Aligned_cols=52 Identities=13% Similarity=0.195 Sum_probs=35.3
Q ss_pred hhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechhHHHH
Q 031062 34 IVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHT 113 (166)
Q Consensus 34 k~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e 113 (166)
+....|+.+|+.|.+.. --.+|+.||.. ...|+++ .=-+||.+-..-.|.
T Consensus 5 R~qERnekILreLlklP--------------------------gNk~CADCgs~---~P~WASi-NlGIFICi~CSGIHR 54 (648)
T PLN03119 5 REEERNEKIIRGLMKLP--------------------------PNRRCINCNSL---GPQYVCT-TFWTFVCMACSGIHR 54 (648)
T ss_pred HHHHHHHHHHHHHhhCc--------------------------CCCccccCCCC---CCCceee-ccceEEeccchhhhc
Confidence 44567888899998852 12589999954 4789885 222899876655554
Q ss_pred HH
Q 031062 114 IL 115 (166)
Q Consensus 114 ~L 115 (166)
-|
T Consensus 55 sL 56 (648)
T PLN03119 55 EF 56 (648)
T ss_pred cC
Confidence 44
No 69
>PRK01259 ribose-phosphate pyrophosphokinase; Provisional
Probab=40.70 E-value=13 Score=32.74 Aligned_cols=43 Identities=16% Similarity=0.134 Sum_probs=34.4
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeech
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPF 108 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~ 108 (166)
|+=+.|+++++|-+.+|...|-.- ..-.+-.||+|+..++++.
T Consensus 1 ~~i~~~~~~~~la~~ia~~lg~~~-~~~~~~~FpdGE~~vri~~ 43 (309)
T PRK01259 1 MKLFAGNANPELAEKIAKYLGIPL-GKASVGRFSDGEISVEINE 43 (309)
T ss_pred CEEEECCCCHHHHHHHHHHhCCce-eeeEEEECCCCCEEEEeCC
Confidence 445678999999999999888554 3457778999999999864
No 70
>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=40.47 E-value=79 Score=28.97 Aligned_cols=24 Identities=17% Similarity=0.191 Sum_probs=19.8
Q ss_pred hhHHHHhhhhhhhhHHHHHHHHhh
Q 031062 26 RHQLVESDIVRNGNREALTALRKR 49 (166)
Q Consensus 26 k~qlv~lDk~Rn~nREAl~aL~k~ 49 (166)
=.+|+++|..|......+..||..
T Consensus 29 vd~i~~ld~~~r~~~~~~~~l~~e 52 (418)
T TIGR00414 29 LEKLIALDDERKKLLSEIEELQAK 52 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 367899999999988888888764
No 71
>PRK07199 phosphoribosylpyrophosphate synthetase; Provisional
Probab=39.65 E-value=14 Score=32.40 Aligned_cols=42 Identities=12% Similarity=0.203 Sum_probs=33.9
Q ss_pred ccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeech
Q 031062 66 KDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPF 108 (166)
Q Consensus 66 ~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~ 108 (166)
+=+.|+++.+|..++|...|-. -..-.|-.||+|+..++++.
T Consensus 4 ~i~~~~~~~~la~~ia~~lg~~-~~~~~~~~F~dGE~~v~i~~ 45 (301)
T PRK07199 4 LLLALPGNEAAAGRLAAALGVE-VGRIELHRFPDGESYVRLDS 45 (301)
T ss_pred EEEECCCCHHHHHHHHHHhCCc-eeeeEEEECCCCCEEEEECC
Confidence 3467999999999999988854 34457888999999999864
No 72
>PF02318 FYVE_2: FYVE-type zinc finger; InterPro: IPR003315 This entry represents the zinc-binding domain found in rabphilin Rab3A. The small G protein Rab3A plays an important role in the regulation of neurotransmitter release. The crystal structure of the small G protein Rab3A complexed with the effector domain of rabphilin-3A shows that the effector domain of rabphilin-3A contacts Rab3A in two distinct areas. The first interface involves the Rab3A switch I and switch II regions, which are sensitive to the nucleotide-binding state of Rab3A. The second interface consists of a deep pocket in Rab3A that interacts with a SGAWFF structural element of rabphilin-3A. Sequence and structure analysis, and biochemical data suggest that this pocket, or Rab complementarity-determining region (RabCDR), establishes a specific interaction between each Rab protein and its effectors. It has been suggested that RabCDRs could be major determinants of effector specificity during vesicle trafficking and fusion [].; GO: 0008270 zinc ion binding, 0017137 Rab GTPase binding, 0006886 intracellular protein transport; PDB: 2CSZ_A 2ZET_C 1ZBD_B 3BC1_B 2CJS_C 2A20_A.
Probab=38.77 E-value=13 Score=28.13 Aligned_cols=20 Identities=30% Similarity=0.765 Sum_probs=16.9
Q ss_pred chhccccCCCCCCCceeEEe
Q 031062 78 KEVCTTCGNHDSNEHTWMMF 97 (166)
Q Consensus 78 ~~~c~~~g~~d~dekVWi~~ 97 (166)
..||..||-....++.|+|-
T Consensus 79 ~~VC~~C~~~~~~~~~WlC~ 98 (118)
T PF02318_consen 79 HRVCKKCGVYSKKEPIWLCK 98 (118)
T ss_dssp EEEETTSEEETSSSCCEEEH
T ss_pred ccccCccCCcCCCCCCEECh
Confidence 46899999888888999984
No 73
>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=38.57 E-value=1.5e+02 Score=21.53 Aligned_cols=27 Identities=7% Similarity=0.017 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.-.+.++..++.++..++...+.+..+
T Consensus 87 eA~~~l~~r~~~l~~~~~~l~~~~~~~ 113 (129)
T cd00890 87 EAIEFLKKRLETLEKQIEKLEKQLEKL 113 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334555666666666666666665555
No 74
>TIGR01251 ribP_PPkin ribose-phosphate pyrophosphokinase. In some systems, close homologs lacking enzymatic activity exist and perform regulatory functions. The model is designated subfamily rather than equivalog for this reason.
Probab=38.57 E-value=14 Score=32.27 Aligned_cols=44 Identities=20% Similarity=0.317 Sum_probs=33.5
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechh
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFH 109 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~ 109 (166)
|+=+.|+++.+|-.++|...|- .-..-.|-.||+|+.+++++.+
T Consensus 1 ~~i~~~~~~~~la~~ia~~lg~-~~~~~~~~~FpdGE~~v~i~~~ 44 (308)
T TIGR01251 1 MKIFSGSSNQELAQKVAKNLGL-PLGDVEVKRFPDGELYVRINES 44 (308)
T ss_pred CEEEECCCCHHHHHHHHHHhCC-eeeeeEEEECCCCCEEEEECCC
Confidence 4456789999999999998873 3334477789999999888643
No 75
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=38.41 E-value=2.1e+02 Score=23.02 Aligned_cols=103 Identities=15% Similarity=0.182 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCCc
Q 031062 13 IEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEH 92 (166)
Q Consensus 13 ~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dek 92 (166)
.++|.++..+=...+|+=.|+..=-.-+.+++-++....|-+ + +|.. +++..
T Consensus 6 ~~le~l~a~lq~l~~qie~L~~~i~~l~~~~~e~~~~~~tl~-~--------lk~~-------------------~~g~E 57 (145)
T COG1730 6 QELEELAAQLQILQSQIESLQAQIAALNAAISELQTAIETLE-N--------LKGA-------------------GEGKE 57 (145)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-H--------HHhc-------------------CCCce
Confidence 467888888888888888888777766777766665432211 1 1111 11225
Q ss_pred eeEEecCCCeeEeechhHH-------------HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 031062 93 TWMMFPGTDVFAKIPFHAA-------------HTILETDQTRLDFEAKKLQSYVKEKSLFISEKG 144 (166)
Q Consensus 93 VWi~~~gGd~FVklP~~~A-------------~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~ 144 (166)
+.+-+ |+..|++...... ..=.+.-.+.++++++.|.+.++..-+.|.+|.
T Consensus 58 ~LVpv-Gag~fv~~kv~~~~kviV~iGsg~~ae~~~~eAie~l~k~~~~l~~~~~~l~~~l~~l~ 121 (145)
T COG1730 58 VLVPV-GAGLFVKAKVKDMDKVIVSIGSGYYAEKSADEAIEFLKKRIEELEKAIEKLQQALAELA 121 (145)
T ss_pred EEEEc-CCCceEEEEeccCceEEEEcCCceeeeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77777 6779999777663 333456677888888888888888777777773
No 76
>PRK11637 AmiB activator; Provisional
Probab=38.10 E-value=3.1e+02 Score=24.80 Aligned_cols=50 Identities=12% Similarity=0.099 Sum_probs=30.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhhhhhh
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGVLRSL 158 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v~ksl 158 (166)
.+...-+++++..++.+|..++.++...-..|..+ ...|..=+.+.+.-|
T Consensus 95 ~~~i~~~~~ei~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~~g~~~~l~vL 145 (428)
T PRK11637 95 QNTLNQLNKQIDELNASIAKLEQQQAAQERLLAAQLDAAFRQGEHTGLQLI 145 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCcHHHHH
Confidence 34455666677777777777777777777777777 666653333334333
No 77
>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=37.29 E-value=58 Score=27.11 Aligned_cols=39 Identities=15% Similarity=0.206 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcCh
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISP 152 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~ 152 (166)
.|...+..++.+|..+.++++....+|..+ ..|+.+|+.
T Consensus 190 ~i~~~~~~l~~~~~~~~~~i~~~~~rl~~~~~~l~~qf~~ 229 (239)
T PF07195_consen 190 SITSRIDSLNSQIKSLDKQIEDLEERLESKEERLRKQFSA 229 (239)
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444566777778888888888888888777 777777753
No 78
>PF08844 DUF1815: Domain of unknown function (DUF1815); InterPro: IPR014943 This entry is about 100 amino acids in length and is functionally uncharacterised.
Probab=37.04 E-value=20 Score=27.60 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=8.7
Q ss_pred hhccccCCCCCCC
Q 031062 79 EVCTTCGNHDSNE 91 (166)
Q Consensus 79 ~~c~~~g~~d~de 91 (166)
--|-||||.++..
T Consensus 33 AsCYtC~dG~~~~ 45 (105)
T PF08844_consen 33 ASCYTCGDGRDMN 45 (105)
T ss_pred eEEEecCCCCCCC
Confidence 3699997655433
No 79
>PRK04325 hypothetical protein; Provisional
Probab=36.93 E-value=1.4e+02 Score=21.18 Aligned_cols=35 Identities=11% Similarity=-0.002 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+++.+-|-.-..+-..+|.+|+..++....+|.++
T Consensus 22 E~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~ 56 (74)
T PRK04325 22 EDLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDA 56 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34444455555555566666666666666666665
No 80
>PF05864 Chordopox_RPO7: Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7); InterPro: IPR008448 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and 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 []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. This family consists of several Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide sequences. DNA-dependent RNA polymerase catalyses the transcription of DNA into RNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=36.88 E-value=12 Score=26.42 Aligned_cols=14 Identities=43% Similarity=0.847 Sum_probs=9.4
Q ss_pred cchhccccCCCCCC
Q 031062 77 VKEVCTTCGNHDSN 90 (166)
Q Consensus 77 ~~~~c~~~g~~d~d 90 (166)
.+-||+|||-.-++
T Consensus 3 f~lvCSTCGrDlSe 16 (63)
T PF05864_consen 3 FQLVCSTCGRDLSE 16 (63)
T ss_pred eeeeecccCCcchH
Confidence 35689999954433
No 81
>PHA03082 DNA-dependent RNA polymerase subunit; Provisional
Probab=36.86 E-value=12 Score=26.42 Aligned_cols=12 Identities=42% Similarity=0.902 Sum_probs=8.6
Q ss_pred cchhccccCCCC
Q 031062 77 VKEVCTTCGNHD 88 (166)
Q Consensus 77 ~~~~c~~~g~~d 88 (166)
.+-||+|||-.=
T Consensus 3 f~lVCsTCGrDl 14 (63)
T PHA03082 3 FQLVCSTCGRDL 14 (63)
T ss_pred eeeeecccCcch
Confidence 356899999543
No 82
>PRK02458 ribose-phosphate pyrophosphokinase; Provisional
Probab=35.98 E-value=16 Score=32.39 Aligned_cols=44 Identities=9% Similarity=0.096 Sum_probs=35.1
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeechh
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPFH 109 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~~ 109 (166)
|.=+.|+++.+|.+++|...|-. -..-.|-.||+|+.+++++.+
T Consensus 10 ~~i~~~~~~~~la~~ia~~lg~~-l~~~~~~~FpdGE~~v~i~~~ 53 (323)
T PRK02458 10 IKLFSLNSNLEIAEKIAQAAGVP-LGKLSSRQFSDGEIMINIEES 53 (323)
T ss_pred eEEEECCCCHHHHHHHHHHhCCc-eeeeEEEECCCCCEEEEecCC
Confidence 56678999999999999988743 344577889999999888644
No 83
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=35.79 E-value=18 Score=28.51 Aligned_cols=19 Identities=21% Similarity=0.669 Sum_probs=14.3
Q ss_pred CCCCCC--CcccchhccccCC
Q 031062 68 TGGPGT--RPLVKEVCTTCGN 86 (166)
Q Consensus 68 ~~~~~~--~~~~~~~c~~~g~ 86 (166)
|+..+. -|.|++.|+.||+
T Consensus 62 ve~~~~~~ga~I~~kCpkCgh 82 (116)
T KOG2907|consen 62 VENESSADGAVIKHKCPKCGH 82 (116)
T ss_pred hcccccccccchhccCcccCC
Confidence 344444 4999999999996
No 84
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=35.72 E-value=1e+02 Score=26.43 Aligned_cols=42 Identities=17% Similarity=0.185 Sum_probs=34.2
Q ss_pred eeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 031062 102 VFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKG 144 (166)
Q Consensus 102 ~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~ 144 (166)
-|.-|+.+ -++.|.....+++.||..||.-|-.|.....||+
T Consensus 37 ~~~~LSe~-Ekeelr~EL~kvEeEI~TLrqVLaAKerH~~ELK 78 (208)
T KOG4010|consen 37 EFEALSEE-EKEELRTELAKVEEEIVTLRQVLAAKERHAAELK 78 (208)
T ss_pred HHhhhcHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445444 4668889999999999999999999999999883
No 85
>PRK00934 ribose-phosphate pyrophosphokinase; Provisional
Probab=34.94 E-value=17 Score=31.33 Aligned_cols=40 Identities=20% Similarity=0.294 Sum_probs=31.4
Q ss_pred CCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeech
Q 031062 68 TGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPF 108 (166)
Q Consensus 68 ~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~ 108 (166)
+.|+++.+|-+++|...|- .-..-.|-.||+|+.+++++.
T Consensus 3 ~~~~~~~~la~~ia~~l~~-~~~~~~~~~FpdGE~~v~i~~ 42 (285)
T PRK00934 3 IGGSASQLLASEVARLLNT-ELALVETKRFPDGELYVRILG 42 (285)
T ss_pred EeCCCCHHHHHHHHHHHCC-ceEeeEEEECCCCCEEEEECC
Confidence 4588899999999997763 344457888999999999864
No 86
>KOG2196 consensus Nuclear porin [Nuclear structure]
Probab=34.62 E-value=1.3e+02 Score=26.69 Aligned_cols=45 Identities=20% Similarity=0.103 Sum_probs=36.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcCh
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISP 152 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~ 152 (166)
-.....+++.||.+||++++-+-+.+++..+.|..|+-..--+.+
T Consensus 118 Ly~e~~~vk~~qkrLdq~L~~I~sqQ~ELE~~L~~lE~k~~~~~g 162 (254)
T KOG2196|consen 118 LYNEVVKVKLDQKRLDQELEFILSQQQELEDLLDPLETKLELQSG 162 (254)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 356678899999999999999999999999999999544444443
No 87
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=34.48 E-value=49 Score=27.06 Aligned_cols=28 Identities=14% Similarity=0.106 Sum_probs=19.0
Q ss_pred CCeeEeechhHHHHHHHHHHHHHHHHHH
Q 031062 100 TDVFAKIPFHAAHTILETDQTRLDFEAK 127 (166)
Q Consensus 100 Gd~FVklP~~~A~e~LEkDQe~lD~EI~ 127 (166)
|.+++.+...+..+.|++..++|++++.
T Consensus 143 g~~L~~~dn~~~~~~l~~~I~~l~~~~~ 170 (178)
T PRK06266 143 GEMLEEYDNSELIKELKEQIKELEEELK 170 (178)
T ss_pred CCCCeecccHHHHHHHHHHHHHHHHHhc
Confidence 5577777777777777776666666554
No 88
>PRK10945 gene expression modulator; Provisional
Probab=34.38 E-value=67 Score=23.37 Aligned_cols=28 Identities=25% Similarity=0.330 Sum_probs=20.5
Q ss_pred HHhHHHHHHHHHHHH--HhhhhhcChhhhh
Q 031062 129 LQSYVKEKSLFISEK--GALADKISPGVLR 156 (166)
Q Consensus 129 LRseLK~Kv~~L~EL--~~Ly~Kfg~~v~k 156 (166)
+..-...-+.+++|| +.||||+-++|-+
T Consensus 40 ~~~f~~AaDHR~AEL~~~KLyDkVP~~vW~ 69 (72)
T PRK10945 40 LAVFYSAADHRLAELTMNKLYDKIPSSVWK 69 (72)
T ss_pred HHHHHHHHHHHHHHHHhchhHhhcCHHHhh
Confidence 333444556789999 9999999887743
No 89
>PF12269 zf-CpG_bind_C: CpG binding protein zinc finger C terminal domain; InterPro: IPR022056 This domain family is found in eukaryotes, and is approximately 240 amino acids in length. This domain is the zinc finger domain of a CpG binding DNA methyltransferase protein. It contains a CxxC motif which forms the zinc finger and binds to DNA.
Probab=33.59 E-value=1.1e+02 Score=26.62 Aligned_cols=64 Identities=20% Similarity=0.222 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCC
Q 031062 13 IEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGN 86 (166)
Q Consensus 13 ~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~ 86 (166)
..+|++-++....+..+.+||++... |.++-..++ .....|.+.- -...++-......|.|||.
T Consensus 29 ~~Le~Ir~kq~~v~~~l~eLe~~~~e----l~~~i~~~k---~~~~~~~~~~---~~~e~~D~~~~~~Cv~Cg~ 92 (236)
T PF12269_consen 29 KLLEEIRKKQQKVRNRLQELEKRFKE----LEAIIARAK---QFTVDQDEEQ---NDDESEDDDLSIYCVTCGH 92 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH---hcccCccccc---ccccccccceeeeeeeCCC
Confidence 34566677788889999999987654 333322222 1222232211 1112223346778999995
No 90
>PF01194 RNA_pol_N: RNA polymerases N / 8 kDa subunit; InterPro: IPR000268 In eukaryotes, there are three different forms of DNA-dependent RNA polymerases (2.7.7.6 from EC) transcribing different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. In archaebacteria, there is generally a single form of RNA polymerase which also consists of an oligomeric assemblage of 10 to 13 polypeptides. Archaebacterial subunit N (gene rpoN) [] is a small protein of about 8 kDa, it is evolutionary related [] to a 8.3 kDa component shared by all three forms of eukaryotic RNA polymerases (gene RPB10 in yeast and POLR2J in mammals) as well as to African swine fever virus (ASFV) protein CP80R []. There is a conserved region which is located at the N-terminal extremity of these polymerase subunits; this region contains two cysteines that binds a zinc ion [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_N 3HKZ_N 1EF4_A 3H0G_V 2Y0S_N 2R92_J 3M4O_J 3S2D_J 1R9S_J 1Y1W_J ....
Probab=33.46 E-value=17 Score=25.41 Aligned_cols=10 Identities=40% Similarity=0.700 Sum_probs=6.5
Q ss_pred hhccccCCCC
Q 031062 79 EVCTTCGNHD 88 (166)
Q Consensus 79 ~~c~~~g~~d 88 (166)
-.|||||.--
T Consensus 5 VRCFTCGkvi 14 (60)
T PF01194_consen 5 VRCFTCGKVI 14 (60)
T ss_dssp SS-STTTSBT
T ss_pred eecCCCCCCh
Confidence 4699999543
No 91
>PF05524 PEP-utilisers_N: PEP-utilising enzyme, N-terminal; InterPro: IPR008731 This sequence identifies proteins which are a component of the phosphoenolpyruvate:sugar phosphotransferase system (PTS), a major carbohydrate active transport system. The PTS system is found throughout the bacterial kingdom, and is responsible for the coupled phosphorylation and translocation of numerous sugars across the cytoplasmic membrane []. This entry represents the N-terminal domain of enzyme I (EIN) which transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein (HPr) which in turn phosphorylates a group of membrane-associated proteins, known as enzyme II. The N-terminal domain of EI (EIN) extends from residues 1 to 259 and can be phosphorylated in a fully reversible manner by phosphorylated HPr. EIN, however, cannot be autophosphorylated by PEP [, ].; GO: 0005351 sugar:hydrogen symporter activity, 0008965 phosphoenolpyruvate-protein phosphotransferase activity, 0009401 phosphoenolpyruvate-dependent sugar phosphotransferase system, 0005737 cytoplasm; PDB: 2WQD_A 2XDF_B 2HWG_A 3EZB_A 2L5H_A 3EZA_A 1EZB_A 2EZA_A 1EZA_A 1EZC_A ....
Probab=32.85 E-value=50 Score=24.42 Aligned_cols=49 Identities=14% Similarity=0.167 Sum_probs=22.4
Q ss_pred CCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-Hhhhhhc
Q 031062 100 TDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKI 150 (166)
Q Consensus 100 Gd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kf 150 (166)
|.+|+.-|.. ...-+.-....+.|+.+++.-++.-..+|..| ..+-.+.
T Consensus 13 G~~~~~~~~~--~~~~~~~~~~~~~E~~rl~~Al~~~~~eL~~l~~~~~~~~ 62 (123)
T PF05524_consen 13 GPAFVLRPPE--PEIPERHIDDIEAEIERLEQALEKAREELEQLAERAESKL 62 (123)
T ss_dssp EEEEE-----------TTB-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred EEEEEEeccc--CcccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6666665554 22222222456666666766666666666666 4433333
No 92
>PLN03217 transcription factor ATBS1; Provisional
Probab=32.73 E-value=69 Score=24.28 Aligned_cols=37 Identities=30% Similarity=0.248 Sum_probs=30.0
Q ss_pred HHHHHHHhHHHHHHHHHHHHHhhhhhcChhhhhhhhh
Q 031062 124 FEAKKLQSYVKEKSLFISEKGALADKISPGVLRSLVT 160 (166)
Q Consensus 124 ~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v~kslv~ 160 (166)
.=|..|..++.....+|++|-.-.+--.+.+++||+.
T Consensus 56 ~YIrsLhrEvDdLSerLs~LL~t~~s~~a~iIRSlL~ 92 (93)
T PLN03217 56 NYIRNLHREVDDLSERLSELLANSDTAQAALIRSLLT 92 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCchHHHHHHHhc
Confidence 3478889999999999999944477778899999873
No 93
>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=32.03 E-value=1.6e+02 Score=21.65 Aligned_cols=41 Identities=12% Similarity=0.184 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhh
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGV 154 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v 154 (166)
+|++--...-....++..........+.+|...|..|.|++
T Consensus 25 LLe~mN~~~~~kY~~~~~~~~~l~~~~~~l~~k~~~l~~~l 65 (99)
T PF10046_consen 25 LLENMNKATSLKYKKMKDIAAGLEKNLEDLNQKYEELQPYL 65 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444555555555555555556666666666654
No 94
>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=31.97 E-value=69 Score=18.53 Aligned_cols=18 Identities=22% Similarity=0.350 Sum_probs=10.3
Q ss_pred HHHHHHhHHHHHHHHHHH
Q 031062 125 EAKKLQSYVKEKSLFISE 142 (166)
Q Consensus 125 EI~kLRseLK~Kv~~L~E 142 (166)
||+++|+.+.+...+|++
T Consensus 2 E~~rlr~rI~dLer~L~~ 19 (23)
T PF04508_consen 2 EMNRLRNRISDLERQLSE 19 (23)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 455666666665555543
No 95
>PRK00553 ribose-phosphate pyrophosphokinase; Provisional
Probab=31.77 E-value=21 Score=31.90 Aligned_cols=43 Identities=12% Similarity=0.151 Sum_probs=34.9
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEeech
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKIPF 108 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVklP~ 108 (166)
|+=+.|+++.+|-+++|...|- .-..-.|-.||+|+.+++++.
T Consensus 10 ~~i~~~~~~~~La~~ia~~lg~-~l~~~~~~~FpdGE~~v~i~~ 52 (332)
T PRK00553 10 HVIFSLSKAKKLVDSICRKLSM-KPGEIVIQKFADGETYIRFDE 52 (332)
T ss_pred eEEEECCCCHHHHHHHHHHhCC-ceeeeEEEECCCCCEEEEECC
Confidence 5567899999999999998773 445568888999999999853
No 96
>PLN03131 hypothetical protein; Provisional
Probab=31.61 E-value=64 Score=32.14 Aligned_cols=33 Identities=12% Similarity=0.215 Sum_probs=21.9
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHHH
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTIL 115 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~L 115 (166)
.+|+-||.. ...|.++.=| +||.+-..-.|.-|
T Consensus 24 k~CADCga~---~P~WASiNlG-IFICi~CSGIHRsL 56 (705)
T PLN03131 24 RRCINCNSL---GPQFVCTNFW-TFICMTCSGIHREF 56 (705)
T ss_pred CccccCCCC---CCCeeEeccc-eEEchhchhhhccc
Confidence 589999954 4789884213 89976555555443
No 97
>PHA02562 46 endonuclease subunit; Provisional
Probab=31.57 E-value=4.1e+02 Score=24.29 Aligned_cols=40 Identities=18% Similarity=0.210 Sum_probs=19.3
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHH
Q 031062 8 FQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALR 47 (166)
Q Consensus 8 ~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~ 47 (166)
+.+.+.+++..-++.-.....+-++...-+..|+++..+.
T Consensus 318 l~~~i~~~~~~~~~~~~~~~~i~el~~~i~~~~~~i~~~~ 357 (562)
T PHA02562 318 LDTAIDELEEIMDEFNEQSKKLLELKNKISTNKQSLITLV 357 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444445555555555555555554443
No 98
>PLN00032 DNA-directed RNA polymerase; Provisional
Probab=31.40 E-value=19 Score=26.06 Aligned_cols=10 Identities=40% Similarity=0.700 Sum_probs=7.4
Q ss_pred hhccccCCCC
Q 031062 79 EVCTTCGNHD 88 (166)
Q Consensus 79 ~~c~~~g~~d 88 (166)
--|||||.--
T Consensus 5 VRCFTCGkvi 14 (71)
T PLN00032 5 VRCFTCGKVI 14 (71)
T ss_pred eeecCCCCCc
Confidence 4699999543
No 99
>PF13264 DUF4055: Domain of unknown function (DUF4055)
Probab=30.97 E-value=31 Score=26.97 Aligned_cols=46 Identities=7% Similarity=0.023 Sum_probs=36.0
Q ss_pred eeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 93 TWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 93 VWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
--+.| |...++.+|......++|-. -+-|...++.++.+.++|..+
T Consensus 42 ~~i~v-G~~~~~~lp~~~~~~yve~~----g~~i~a~~~~l~~~e~qM~~l 87 (138)
T PF13264_consen 42 DGIVV-GSSSALDLPEGGDAGYVEHT----GSAIAAGREALDDLENQMRQL 87 (138)
T ss_pred CCeEE-eCCcceeCCCCCceeEEecC----chhHHHHHHHHHHHHHHHHHh
Confidence 34777 55689999998877777765 355677888899999999998
No 100
>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=30.92 E-value=1.5e+02 Score=19.18 Aligned_cols=27 Identities=19% Similarity=0.309 Sum_probs=18.4
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYV 133 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseL 133 (166)
|...+..+++...++++.+|+.|+.-.
T Consensus 33 ~~~~~~~~l~~~~~~i~~~i~~L~~~~ 59 (65)
T PF09278_consen 33 PCADRRALLEEKLEEIEEQIAELQALR 59 (65)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666777777777777777776443
No 101
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=30.77 E-value=1.9e+02 Score=23.80 Aligned_cols=34 Identities=15% Similarity=0.287 Sum_probs=16.0
Q ss_pred CCeeEeechhH------HHHHHHHHHHHHHHHHHHHHhHH
Q 031062 100 TDVFAKIPFHA------AHTILETDQTRLDFEAKKLQSYV 133 (166)
Q Consensus 100 Gd~FVklP~~~------A~e~LEkDQe~lD~EI~kLRseL 133 (166)
|+.|=.+|... ..+.|+++.+.+..+|..|+..+
T Consensus 53 sn~YWsFps~~~~~~~~~~~~l~~~~~~~~~~i~~l~~~i 92 (188)
T PF03962_consen 53 SNYYWSFPSQAKQKRQNKLEKLQKEIEELEKKIEELEEKI 92 (188)
T ss_pred eeEEEecChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444455443 33444445555555555544443
No 102
>PRK04016 DNA-directed RNA polymerase subunit N; Provisional
Probab=30.74 E-value=20 Score=25.29 Aligned_cols=12 Identities=33% Similarity=0.653 Sum_probs=8.4
Q ss_pred cchhccccCCCC
Q 031062 77 VKEVCTTCGNHD 88 (166)
Q Consensus 77 ~~~~c~~~g~~d 88 (166)
+.-.|||||..-
T Consensus 3 iPvRCFTCGkvi 14 (62)
T PRK04016 3 IPVRCFTCGKVI 14 (62)
T ss_pred CCeEecCCCCCh
Confidence 345799999543
No 103
>PRK10470 ribosome hibernation promoting factor HPF; Provisional
Probab=30.38 E-value=1.6e+02 Score=20.91 Aligned_cols=42 Identities=10% Similarity=0.070 Sum_probs=32.7
Q ss_pred ceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHH
Q 031062 92 HTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYV 133 (166)
Q Consensus 92 kVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseL 133 (166)
.+.+.+||+.+++.-..++....+..=.+.++..|.+..+.+
T Consensus 51 ei~~~~~g~~l~a~~~~~d~y~Aid~a~~klerqL~k~k~k~ 92 (95)
T PRK10470 51 DATLHVNGGEIHASAEGQDMYAAIDGLIDKLARQLTKHKDKL 92 (95)
T ss_pred EEEEEeCCCEEEEEEecCcHHHHHHHHHHHHHHHHHHHHHHh
Confidence 388999999999998877777777777777777777766554
No 104
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=30.34 E-value=1.4e+02 Score=23.65 Aligned_cols=35 Identities=17% Similarity=0.158 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISE 142 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~E 142 (166)
.+.+.+-|+.+...=|.||..||.+|.+....=..
T Consensus 92 yE~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~ 126 (131)
T PF04859_consen 92 YEIVVKKLEAELRAKDSEIDRLREKLDELNRANKS 126 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555555555555555555555555444333
No 105
>COG3478 Predicted nucleic-acid-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=30.05 E-value=31 Score=24.87 Aligned_cols=17 Identities=29% Similarity=0.651 Sum_probs=14.7
Q ss_pred ccccCCCCCCCceeEEe
Q 031062 81 CTTCGNHDSNEHTWMMF 97 (166)
Q Consensus 81 c~~~g~~d~dekVWi~~ 97 (166)
|++||+++=.++--.+-
T Consensus 7 CpKCgn~~~~ekei~~t 23 (68)
T COG3478 7 CPKCGNTNYEEKEIAAT 23 (68)
T ss_pred CCCcCCcchhhceeecc
Confidence 99999999888776666
No 106
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=30.01 E-value=1.9e+02 Score=21.18 Aligned_cols=32 Identities=16% Similarity=0.129 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 031062 113 TILETDQTRLDFEAKKLQSYVKEKSLFISEKG 144 (166)
Q Consensus 113 e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~ 144 (166)
+-|.+|.++....|..++..+|....+..|++
T Consensus 4 eKi~~eieK~k~Kiae~Q~rlK~Le~qk~E~E 35 (83)
T PF14193_consen 4 EKIRAEIEKTKEKIAELQARLKELEAQKTEAE 35 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777777777777777777777776663
No 107
>PLN02446 (5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase
Probab=29.98 E-value=35 Score=29.91 Aligned_cols=22 Identities=23% Similarity=0.157 Sum_probs=18.2
Q ss_pred hHHHHhhhhhhhhHHHHHHHHh
Q 031062 27 HQLVESDIVRNGNREALTALRK 48 (166)
Q Consensus 27 ~qlv~lDk~Rn~nREAl~aL~k 48 (166)
=-+||||--+..|.++++++++
T Consensus 60 lHvVDLdgg~~~n~~~i~~i~~ 81 (262)
T PLN02446 60 GHVIMLGADDASLAAALEALRA 81 (262)
T ss_pred EEEEECCCCCcccHHHHHHHHh
Confidence 3589999988888889888875
No 108
>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=29.49 E-value=2e+02 Score=21.22 Aligned_cols=37 Identities=16% Similarity=0.275 Sum_probs=28.0
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+.+...++|+...+.++.+|+.++..+......+.-+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~~~~~ 112 (116)
T cd04769 76 PWPHLQQALEDKKQEIRAQITELQQLLARLDAFEASL 112 (116)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456778888888888888888888777766666554
No 109
>KOG0704 consensus ADP-ribosylation factor GTPase activator [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]
Probab=29.25 E-value=50 Score=30.70 Aligned_cols=15 Identities=27% Similarity=0.942 Sum_probs=11.1
Q ss_pred hhccccCCCCCCCceeEE
Q 031062 79 EVCTTCGNHDSNEHTWMM 96 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~ 96 (166)
.+|+-||.+++ .|+.
T Consensus 20 k~CfeC~a~NP---QWvS 34 (386)
T KOG0704|consen 20 KKCFECGAPNP---QWVS 34 (386)
T ss_pred CceeecCCCCC---CeEe
Confidence 48999998775 4554
No 110
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=29.07 E-value=30 Score=25.59 Aligned_cols=58 Identities=24% Similarity=0.281 Sum_probs=36.5
Q ss_pred hhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchhccccCCCCCCC
Q 031062 33 DIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNE 91 (166)
Q Consensus 33 Dk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~de 91 (166)
+-.|...||-|+-|.+..+.+|.+...-++.+-+.+...... -....|..||.....+
T Consensus 36 ~a~R~~~k~~L~~LE~~~P~~k~~i~~s~~~~~~~~~~~~~~-~~~~~C~~CG~pss~~ 93 (104)
T TIGR00269 36 LSVRARIRDFLYDLENKKPGVKFSVLRGFEKLIPLLKELSEQ-EDLRRCERCGEPTSGR 93 (104)
T ss_pred CCchHHHHHHHHHHHHHCcChHHHHHHHHHHHHHHhhccccc-ccCCcCCcCcCcCCcc
Confidence 467888888999888877777766666655554333221111 1123599999776655
No 111
>smart00338 BRLZ basic region leucin zipper.
Probab=29.04 E-value=1.8e+02 Score=19.36 Aligned_cols=34 Identities=15% Similarity=0.145 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Q 031062 111 AHTILETDQTRLDFEAKKLQSYVKEKSLFISEKG 144 (166)
Q Consensus 111 A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~ 144 (166)
-..-|+.....+..+...|++.+......+..|.
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk 60 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRRELEKLK 60 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777777888888888877777777766663
No 112
>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=28.54 E-value=2e+02 Score=21.77 Aligned_cols=34 Identities=12% Similarity=0.171 Sum_probs=24.2
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFI 140 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L 140 (166)
+..+..++|+...+.++.+|++|+.........+
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (127)
T TIGR02047 76 SCSDVNALLDEHISHVRARIIKLQALIEQLVDLR 109 (127)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888888888888888877666555433
No 113
>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=28.52 E-value=77 Score=23.07 Aligned_cols=25 Identities=12% Similarity=0.191 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYV 133 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseL 133 (166)
..+.++|+..++.++.+|+.|+.++
T Consensus 75 ~~~~~ll~~~~~~l~~~i~~L~~~~ 99 (99)
T cd04772 75 ASALALVDAAHALLQRYRQQLDQEL 99 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4788999999999999999987653
No 114
>KOG4552 consensus Vitamin-D-receptor interacting protein complex component [Transcription]
Probab=28.34 E-value=1.4e+02 Score=26.21 Aligned_cols=35 Identities=17% Similarity=0.185 Sum_probs=30.5
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
..+++...|++..+.-|.+|..|+..||.+.--|.
T Consensus 71 k~e~~m~~Lea~VEkrD~~IQqLqk~LK~aE~iLt 105 (272)
T KOG4552|consen 71 KREQLMRTLEAHVEKRDEVIQQLQKNLKSAEVILT 105 (272)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 46788899999999999999999999999876554
No 115
>TIGR00741 yfiA ribosomal subunit interface protein. The member of this family from E. coli is now recognized as a protein at the interace between ribosomal large and small subunits, with about 1/3 as many copies per cell as the number of ribosomes.
Probab=28.14 E-value=1.7e+02 Score=20.40 Aligned_cols=42 Identities=17% Similarity=0.199 Sum_probs=34.1
Q ss_pred eeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHH
Q 031062 93 TWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVK 134 (166)
Q Consensus 93 VWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK 134 (166)
+.+.+|||.+++.-..++....+..=.+.++..+.+..+.++
T Consensus 52 i~v~~~g~~l~a~~~~~d~~~Aid~a~~klerql~k~k~k~~ 93 (95)
T TIGR00741 52 ATIYTPGGVIRASAEHEDMYAAIDLAIDKLERQLRKLKEKRK 93 (95)
T ss_pred EEEEcCCCEEEEEEecCcHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 888999998888888888888888888888888877776554
No 116
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=28.01 E-value=1.5e+02 Score=25.36 Aligned_cols=32 Identities=13% Similarity=0.179 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 112 HTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 112 ~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.--|....+.+..||.+||..+.+..++|..+
T Consensus 56 ~~~l~~ql~~lq~ev~~LrG~~E~~~~~l~~~ 87 (263)
T PRK10803 56 LTQLQQQLSDNQSDIDSLRGQIQENQYQLNQV 87 (263)
T ss_pred HHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence 33456788899999999999999999988876
No 117
>KOG3068 consensus mRNA splicing factor [RNA processing and modification]
Probab=28.00 E-value=86 Score=27.81 Aligned_cols=39 Identities=23% Similarity=0.119 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhhhh
Q 031062 118 DQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGVLR 156 (166)
Q Consensus 118 DQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v~k 156 (166)
....|+.|||+|=.+-.....++.+| |..|.|+||-.+-
T Consensus 70 rirDLNDEiNkLlrEk~~WE~rI~elGG~~y~k~~~Kmld 109 (268)
T KOG3068|consen 70 RIRDLNDEINKLLREKHHWEVRIRELGGPNYRKYKAKMLD 109 (268)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhh
Confidence 45678999999999999999999999 9999999987653
No 118
>PRK10963 hypothetical protein; Provisional
Probab=27.87 E-value=1.2e+02 Score=25.29 Aligned_cols=50 Identities=12% Similarity=-0.009 Sum_probs=40.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhhhhhh
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGVLRSL 158 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v~ksl 158 (166)
..|..+.|..++.+-.+|..|+..+...+..=.+=..++.+|-.-+++.|
T Consensus 36 ~gaVSL~ErQ~~~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~l~l~Ll 85 (223)
T PRK10963 36 RGTVSLVEWQMARQRNHIHVLEEEMTLLMEQAIANEDLFYRLLPLQSRLA 85 (223)
T ss_pred CCeecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34888999999999999999999998888776666777777776655543
No 119
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=27.79 E-value=3.8e+02 Score=25.66 Aligned_cols=21 Identities=29% Similarity=0.183 Sum_probs=14.7
Q ss_pred HHHhhhhhhhhHHHHHHHHhh
Q 031062 29 LVESDIVRNGNREALTALRKR 49 (166)
Q Consensus 29 lv~lDk~Rn~nREAl~aL~k~ 49 (166)
+-+..++.+...++++.|++.
T Consensus 45 ~~~~~~~~~~~~~~l~~L~~~ 65 (646)
T PRK05771 45 LRKLRSLLTKLSEALDKLRSY 65 (646)
T ss_pred HhHHHHHHHHHHHHHHHHHHh
Confidence 445566677778888888765
No 120
>KOG3047 consensus Predicted transcriptional regulator UXT [Transcription]
Probab=27.70 E-value=3.4e+02 Score=22.20 Aligned_cols=43 Identities=19% Similarity=0.203 Sum_probs=31.4
Q ss_pred CCCceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhH
Q 031062 89 SNEHTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSY 132 (166)
Q Consensus 89 ~dekVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRse 132 (166)
+...+.+.+ |-+.|+.+...+|...+.+.+.-+-.-.++|+.+
T Consensus 85 DTk~i~VaL-~~~fflElkLadAiKf~DRK~dlLkel~ekLqKd 127 (157)
T KOG3047|consen 85 DTKHIVVAL-CDDFFLELKLADAIKFCDRKMDLLKELMEKLQKD 127 (157)
T ss_pred CcceEEEEe-ecceeeeehHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 344677777 5679999999999999888776665555555543
No 121
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=27.51 E-value=2.1e+02 Score=20.90 Aligned_cols=28 Identities=18% Similarity=0.179 Sum_probs=17.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEK 136 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~K 136 (166)
.....+|+...+.++.+|+.|+..+...
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l 105 (113)
T cd01109 78 PERLELLEEHREELEEQIAELQETLAYL 105 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455666666666666666666555443
No 122
>KOG0703 consensus Predicted GTPase-activating protein [Signal transduction mechanisms]
Probab=27.39 E-value=53 Score=29.39 Aligned_cols=33 Identities=30% Similarity=0.684 Sum_probs=23.1
Q ss_pred chhccccCCCCCCCceeE--EecCCCeeEeechhHHHHHHH
Q 031062 78 KEVCTTCGNHDSNEHTWM--MFPGTDVFAKIPFHAAHTILE 116 (166)
Q Consensus 78 ~~~c~~~g~~d~dekVWi--~~~gGd~FVklP~~~A~e~LE 116 (166)
-.+|.-||.. .+-|- .+ | +||.+...-.|.-|=
T Consensus 25 N~~CADC~a~---~P~WaSwnl-G--vFiC~~C~giHR~lg 59 (287)
T KOG0703|consen 25 NKVCADCGAK---GPRWASWNL-G--VFICLRCAGIHRSLG 59 (287)
T ss_pred cCcccccCCC---CCCeEEeec-C--eEEEeeccccccccc
Confidence 3589999976 46787 56 3 888877666665443
No 123
>PRK00295 hypothetical protein; Provisional
Probab=27.08 E-value=2.2e+02 Score=19.79 Aligned_cols=34 Identities=12% Similarity=-0.087 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++.+-|-.-..+-..+|+.|+..++....+|.++
T Consensus 19 ~tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~ 52 (68)
T PRK00295 19 DTIQALNDVLVEQQRVIERLQLQMAALIKRQEEM 52 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444445555566666666666666666665
No 124
>PRK10633 hypothetical protein; Provisional
Probab=26.88 E-value=38 Score=24.91 Aligned_cols=14 Identities=36% Similarity=0.285 Sum_probs=10.9
Q ss_pred hhh-hhhhHHHHHHH
Q 031062 33 DIV-RNGNREALTAL 46 (166)
Q Consensus 33 Dk~-Rn~nREAl~aL 46 (166)
|+| +|.||||+-+|
T Consensus 2 d~Rf~Qa~kEA~~al 16 (80)
T PRK10633 2 DTRFVQAHKEARWAL 16 (80)
T ss_pred chHHHHHHHHHHHHH
Confidence 444 89999999776
No 125
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=26.77 E-value=2.7e+02 Score=24.50 Aligned_cols=42 Identities=26% Similarity=0.279 Sum_probs=34.7
Q ss_pred CCeeEe---echhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 100 TDVFAK---IPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 100 Gd~FVk---lP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
|..|=+ +|.-.-...||....++|..|+++|+.++....++-
T Consensus 2 G~~f~K~~~~~~~~~L~rle~qi~q~~~~~~~~qs~l~~~~~r~t 46 (251)
T COG5415 2 GSRFDKDFVTKYTADLSRLESQIHQLDVALKKSQSILSQWQSRLT 46 (251)
T ss_pred CccccccccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444444 677788899999999999999999999999888774
No 126
>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=26.61 E-value=2e+02 Score=19.13 Aligned_cols=31 Identities=19% Similarity=0.099 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 113 TILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 113 e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..+.....+++++|+.++.+......++..|
T Consensus 20 ~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 20 YQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444445555555555555544444444443
No 127
>PF02637 GatB_Yqey: GatB domain; InterPro: IPR018027 The GatB domain, the function of which is uncertain, is associated with aspartyl/glutamyl amidotransferase subunit B and glutamyl amidotransferase subunit E. These are involved in the formation of correctly charged Asn-tRNA(Asn) or Gln-tRNA(Gln) through the transamidation of misacylated Asp-tRNA(Asn) or Glu-tRNA(Gln) in organisms which lack either or both of asparaginyl-tRNA or glutaminyl-tRNA synthetases. The reaction takes place in the presence of glutamine and ATP through an activated phospho-Asp-tRNA(Asn) or phospho-Glu-tRNA(Gln). ; GO: 0016884 carbon-nitrogen ligase activity, with glutamine as amido-N-donor; PDB: 2D6F_D 3H0M_H 3H0R_K 3H0L_K 3KFU_F 3AL0_B 3IP4_B 2DF4_B 2G5I_B 2F2A_B ....
Probab=26.58 E-value=33 Score=26.39 Aligned_cols=52 Identities=33% Similarity=0.398 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHhhhhhccccccCcchhhhccCCCCCCCcccchh
Q 031062 13 IEIENEAEHLLFARHQLVESDIVRNGNREALTALRKRARTTKTSVISPFESIMKDTGGPGTRPLVKEV 80 (166)
Q Consensus 13 ~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~~~~~~~~~ 80 (166)
.+++.+.++|+..-.+.|+ .-|+++.-++..|-- .+||...|...-..|.++
T Consensus 92 ~el~~~v~~vi~~n~~~v~--~~~~Gk~k~~~~LvG--------------qvMk~t~G~adp~~v~~~ 143 (148)
T PF02637_consen 92 EELEALVEEVIAENPKEVE--DYRNGKKKAIGFLVG--------------QVMKETKGRADPKEVKEL 143 (148)
T ss_dssp CHHHHHHHHHHHC-HHHHH--HHCTT-TTCCHHHHH--------------HHHHCTTS-C-HHHHHHH
T ss_pred HHHHHHHHHHHHHCHHHHH--HHHcChHHHHHHHHH--------------HHHHHcCCCCCHHHHHHH
Confidence 3678888888887777765 456666666666654 488888887766666554
No 128
>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=26.57 E-value=2.3e+02 Score=19.93 Aligned_cols=35 Identities=14% Similarity=0.130 Sum_probs=15.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..+..-|.......+.+|..+...+......+..|
T Consensus 32 ~~~IKKLr~~~~e~e~~~~~l~~~~~~~e~~~~~l 66 (74)
T PF12329_consen 32 NNTIKKLRAKIKELEKQIKELKKKLEELEKELESL 66 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444444444444444444
No 129
>PRK02793 phi X174 lysis protein; Provisional
Probab=26.51 E-value=2.3e+02 Score=19.88 Aligned_cols=34 Identities=15% Similarity=0.100 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++.+-|-+-..+-..+|..|+..++....+|.++
T Consensus 22 ~tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~ 55 (72)
T PRK02793 22 ITIEELNVTVTAHEMEMAKLRDHLRLLTEKLKAS 55 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444444455555566666666666666666665
No 130
>PF15136 UPF0449: Uncharacterised protein family UPF0449
Probab=26.47 E-value=2.9e+02 Score=21.03 Aligned_cols=70 Identities=10% Similarity=0.176 Sum_probs=40.1
Q ss_pred cCcchhhhccCCCCCCCcccchhccccCCCCCCCceeEEe--cCCCeeEeechhHHHHHHHHHH--HHHHHHHHHHHhHH
Q 031062 58 ISPFESIMKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMF--PGTDVFAKIPFHAAHTILETDQ--TRLDFEAKKLQSYV 133 (166)
Q Consensus 58 ~~p~~~~~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~--~gGd~FVklP~~~A~e~LEkDQ--e~lD~EI~kLRseL 133 (166)
|+.+|.|+.||.|-.. ++.|...+ +++..--.-|..+......+-+ -.++..+..+++.|
T Consensus 13 PPTvEqILEDv~~A~~----------------~DpVFt~l~~~~~~~~~~~~~~~~e~~Y~Qs~~Yv~~NerLqqa~~~L 76 (97)
T PF15136_consen 13 PPTVEQILEDVRGAPP----------------DDPVFTILDSPDPSNKNEDSESEREQQYQQSRTYVAMNERLQQARDQL 76 (97)
T ss_pred CCCHHHHHHHHhcCCC----------------CCCeeeeeccCccccccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667999999987633 33344333 2222211233333333333322 24567888888888
Q ss_pred HHHHHHHHHH
Q 031062 134 KEKSLFISEK 143 (166)
Q Consensus 134 K~Kv~~L~EL 143 (166)
+.+-..|.-.
T Consensus 77 kkk~e~L~~a 86 (97)
T PF15136_consen 77 KKKCEELRQA 86 (97)
T ss_pred HHHHHHHHHH
Confidence 8888888755
No 131
>PRK11637 AmiB activator; Provisional
Probab=26.43 E-value=4.8e+02 Score=23.52 Aligned_cols=31 Identities=6% Similarity=-0.013 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 031062 112 HTILETDQTRLDFEAKKLQSYVKEKSLFISE 142 (166)
Q Consensus 112 ~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~E 142 (166)
..-++.++..++.+|+..+..++.....++.
T Consensus 105 i~~l~~eI~~~q~~l~~~~~~l~~rlra~Y~ 135 (428)
T PRK11637 105 IDELNASIAKLEQQQAAQERLLAAQLDAAFR 135 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555555555555555555555544
No 132
>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=26.18 E-value=2.1e+02 Score=20.89 Aligned_cols=32 Identities=16% Similarity=0.186 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFI 140 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L 140 (166)
+++..+++..++.++.+|..++.-.+.....+
T Consensus 74 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~~l 105 (108)
T cd01107 74 DELRKLLREKLAELEAEIEELQRILRLLEDRL 105 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 77888888888888888888877766554443
No 133
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=26.14 E-value=43 Score=20.96 Aligned_cols=15 Identities=27% Similarity=1.068 Sum_probs=11.1
Q ss_pred hccccCCCCCCCceeEEe
Q 031062 80 VCTTCGNHDSNEHTWMMF 97 (166)
Q Consensus 80 ~c~~~g~~d~dekVWi~~ 97 (166)
.|..|+..+ .+|+++
T Consensus 1 ~C~~C~~~~---~l~~CL 15 (50)
T smart00290 1 RCSVCGTIE---NLWLCL 15 (50)
T ss_pred CcccCCCcC---CeEEec
Confidence 388888555 399998
No 134
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=26.08 E-value=2.5e+02 Score=23.51 Aligned_cols=53 Identities=11% Similarity=0.069 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhhhhhhhhc
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGVLRSLVTL 161 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v~kslv~l 161 (166)
.+-.+.|+...++++..++.++.++.....++.++......+-|.+.+.+-.|
T Consensus 62 ~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi~~~~~~~~~l~p~m~~m~~~L 114 (251)
T PF11932_consen 62 EREIENLEVYNEQLERQVASQEQELASLEQQIEQIEETRQELVPLMEQMIDEL 114 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566677777788888888888888888888888777777777666555444
No 135
>PF15205 PLAC9: Placenta-specific protein 9
Probab=26.00 E-value=2.4e+02 Score=20.58 Aligned_cols=43 Identities=21% Similarity=0.236 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH--HhhhhhcCh
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK--GALADKISP 152 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL--~~Ly~Kfg~ 152 (166)
..+..|.-=-+.+++.++-|.+++|.....|.|| -.=.+.|+|
T Consensus 22 av~~RLdviEe~veKTVEhLeaEvk~LLg~leelawnlP~gp~sp 66 (74)
T PF15205_consen 22 AVHSRLDVIEETVEKTVEHLEAEVKGLLGLLEELAWNLPPGPFSP 66 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCCCC
Confidence 4455555555677788888888888888888888 222344444
No 136
>PRK10391 oriC-binding nucleoid-associated protein; Provisional
Probab=25.91 E-value=55 Score=23.76 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=17.6
Q ss_pred HHHHHHHHHH--H-hhhh--hcChhhhh
Q 031062 134 KEKSLFISEK--G-ALAD--KISPGVLR 156 (166)
Q Consensus 134 K~Kv~~L~EL--~-~Ly~--Kfg~~v~k 156 (166)
..-+.+++|| + .||| |+-+.|-+
T Consensus 41 ~AaDHR~AEL~~~~kLyD~gkVP~sVW~ 68 (71)
T PRK10391 41 RAADHRRAELVSGGRLFDLGQVPKSVWH 68 (71)
T ss_pred HHHHHHHHHHHhCccccccccCCHHHHH
Confidence 4467889999 4 9999 88777644
No 137
>PRK01156 chromosome segregation protein; Provisional
Probab=25.81 E-value=6.3e+02 Score=24.90 Aligned_cols=34 Identities=6% Similarity=0.050 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEKGALA 147 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly 147 (166)
....=...+..+|+.+..+++..-..+.++..-.
T Consensus 466 ~~~e~i~~~~~~i~~l~~~i~~l~~~~~~l~~~~ 499 (895)
T PRK01156 466 KSNHIINHYNEKKSRLEEKIREIEIEVKDIDEKI 499 (895)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333377888999999999999988888884433
No 138
>PF08781 DP: Transcription factor DP; InterPro: IPR014889 DP forms a heterodimer with E2F and regulates genes involved in cell cycle progression. The transcriptional activity of E2F is inhibited by the retinoblastoma protein which binds to the E2F-DP heterodimer [] and negatively regulates the G1-S transition. ; PDB: 2AZE_A.
Probab=25.62 E-value=1.4e+02 Score=24.05 Aligned_cols=27 Identities=19% Similarity=0.229 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+|.+.|+.|-.++++.++.|...|.||
T Consensus 1 q~~~~Le~ek~~~~~rI~~K~~~LqEL 27 (142)
T PF08781_consen 1 QECEELEEEKQRRRERIKKKKEQLQEL 27 (142)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356677777777777777777777777
No 139
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=25.60 E-value=99 Score=25.43 Aligned_cols=13 Identities=15% Similarity=0.194 Sum_probs=9.0
Q ss_pred hhhhcChhhhhhh
Q 031062 146 LADKISPGVLRSL 158 (166)
Q Consensus 146 Ly~Kfg~~v~ksl 158 (166)
.|....|..+..+
T Consensus 128 ~~~~~Dp~~i~~~ 140 (188)
T PF03962_consen 128 KYSENDPEKIEKL 140 (188)
T ss_pred HHHhcCHHHHHHH
Confidence 5677788777655
No 140
>PF12481 DUF3700: Aluminium induced protein ; InterPro: IPR024286 This entry represents a domain found in plant proteins that is approximately 120 amino acids in length. There are two conserved sequence motifs: YGL and LRDR.
Probab=25.49 E-value=45 Score=29.03 Aligned_cols=26 Identities=35% Similarity=0.393 Sum_probs=22.3
Q ss_pred HHHHHHHHhhhhhccccccCcchhhhccCCCCC
Q 031062 40 REALTALRKRARTTKTSVISPFESIMKDTGGPG 72 (166)
Q Consensus 40 REAl~aL~k~~~~~k~s~~~p~~~~~~~~~~~~ 72 (166)
-||.|.||.+ .|.|-+.|.++++|+=
T Consensus 108 IEAYrtLRDR-------gPyPadqvv~~L~G~F 133 (228)
T PF12481_consen 108 IEAYRTLRDR-------GPYPADQVVKDLEGSF 133 (228)
T ss_pred HHHHHHhhcc-------CCCChHHHHHhccCce
Confidence 5899999987 4889999999999863
No 141
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=25.27 E-value=1.8e+02 Score=23.36 Aligned_cols=26 Identities=23% Similarity=0.266 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 118 DQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 118 DQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+.+..+.||++|..+++.+...+..|
T Consensus 155 ~~~~~~~ei~~lk~el~~~~~~~~~L 180 (192)
T PF05529_consen 155 ENKKLSEEIEKLKKELEKKEKEIEAL 180 (192)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 33456677777777777777776666
No 142
>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=25.27 E-value=2.6e+02 Score=20.79 Aligned_cols=37 Identities=27% Similarity=0.293 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhHHHHhhhhhhhhHHHHHHHHh
Q 031062 8 FQQNLIEIENEAEHLLFARHQLVESDIVRNGNREALTALRK 48 (166)
Q Consensus 8 ~~~~l~e~E~~ae~vL~~k~qlv~lDk~Rn~nREAl~aL~k 48 (166)
..++-.+++.+...+=.-+.++-++ +.+.++|..|.+
T Consensus 8 ~~~l~~~i~~l~~~~~~l~~~~~e~----~~~~~~l~~l~~ 44 (129)
T cd00584 8 LQVLQQEIEELQQELARLNEAIAEY----EQAKETLETLKK 44 (129)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhc
Confidence 3344444555555444444444444 334555555544
No 143
>PRK08032 fliD flagellar capping protein; Reviewed
Probab=24.93 E-value=1.2e+02 Score=28.11 Aligned_cols=38 Identities=18% Similarity=0.165 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcC
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKIS 151 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg 151 (166)
+|...+..++.+|.++.++++....+|..+ +.||.+|.
T Consensus 403 ~l~~~~~~l~~~i~~l~~~i~~~~~rl~~~e~rl~~qF~ 441 (462)
T PRK08032 403 IIKTATDGVNKTLKKLTKQYNAVSDSIDATIARYKAQFT 441 (462)
T ss_pred cchhHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344466678888888888888888888888 77887775
No 144
>PF06196 DUF997: Protein of unknown function (DUF997); InterPro: IPR010398 This is a family of predicted bacterial membrane protein with unknown function.
Probab=24.85 E-value=42 Score=24.37 Aligned_cols=12 Identities=42% Similarity=0.454 Sum_probs=9.6
Q ss_pred hhhhHHHHHHHH
Q 031062 36 RNGNREALTALR 47 (166)
Q Consensus 36 Rn~nREAl~aL~ 47 (166)
||.||||+.++=
T Consensus 1 kqa~rEA~~tl~ 12 (80)
T PF06196_consen 1 KQANREARWTLG 12 (80)
T ss_pred ChHHHHHHHHHH
Confidence 688999987763
No 145
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=24.64 E-value=1.9e+02 Score=25.49 Aligned_cols=50 Identities=12% Similarity=0.134 Sum_probs=39.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChhhhhh
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPGVLRS 157 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~v~ks 157 (166)
......-|+.+...+..+.+.|+.++.....++.........++|.+|+-
T Consensus 30 ~~~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f~~~~~~~lv~g 79 (308)
T PF11382_consen 30 QPNLIDSLEDQFDSLREENDELRAELDALQAQLNAADQFIAAVAPRLVAG 79 (308)
T ss_pred chhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34456667778888888888888888888888888877777788877763
No 146
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=24.54 E-value=1.7e+02 Score=21.41 Aligned_cols=29 Identities=17% Similarity=0.125 Sum_probs=23.0
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHhhh
Q 031062 119 QTRLDFEAKKLQSYVKEKSLFISEKGALA 147 (166)
Q Consensus 119 Qe~lD~EI~kLRseLK~Kv~~L~EL~~Ly 147 (166)
.++|+.+|.+.+..+-+...+|.+|+.-+
T Consensus 3 leKi~~eieK~k~Kiae~Q~rlK~Le~qk 31 (83)
T PF14193_consen 3 LEKIRAEIEKTKEKIAELQARLKELEAQK 31 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888888888888885443
No 147
>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=24.40 E-value=2.1e+02 Score=20.01 Aligned_cols=50 Identities=18% Similarity=0.096 Sum_probs=39.2
Q ss_pred ceeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 92 HTWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 92 kVWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
++++.. .---+.---..-.+.++.+.+.++..++.+...+++.-..|.++
T Consensus 53 ~~fv~~--~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~~~l~~~ 102 (106)
T PF01920_consen 53 KMFVKQ--DKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELKKKLYEL 102 (106)
T ss_dssp TEEEEE--EHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred HHHHHh--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466666 33445555677788899999999999999999999988888775
No 148
>PF08295 Sin3_corepress: Sin3 family co-repressor; InterPro: IPR013194 This domain is found on transcriptional regulators. It forms interactions with histone deacetylases [].
Probab=24.20 E-value=3.2e+02 Score=20.62 Aligned_cols=52 Identities=19% Similarity=0.263 Sum_probs=37.7
Q ss_pred ceeEEecCC---CeeEee---chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 92 HTWMMFPGT---DVFAKI---PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 92 kVWi~~~gG---d~FVkl---P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..|+.+|.| ..|..+ +.+.++-..|.|.=++|--|+..++-++....-...+
T Consensus 34 D~wvs~p~~sEd~~f~~~kKnqyEE~lf~~EDeR~E~D~~ie~~~~tI~~Le~l~~~i 91 (101)
T PF08295_consen 34 DTWVSVPSWSEDSSFKAMKKNQYEEALFRCEDERFELDMLIESNRSTIKLLEELQEKI 91 (101)
T ss_pred CEEEEeCCccccccccchhhhHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 689999866 346554 4566666777799999999999998877655544443
No 149
>PF04041 DUF377: Domain of unknown function (DUF377); InterPro: IPR007184 Glycosidases or glycosyl hydrolases are a big and widespread family of enzymes that hydrolyse the glycosidic bonds between carbohydrates or between a carbohydrate and an aglycone moiety. On the basis of sequence and structural similarity, the glycoside hydrolase family belongs to the beta-fructosidase (furanosidase) superfamily of glycosyl hydrolases. This leads to the prediction that proteins of this family have a glycosidase (glycoside hydrolase) activity and, most probably, act on a furanoside residue (fructose, arabinose and ribose). Crystal structure from Thermotoga maritima a member of this family, determined to high-resolution by Structural Genomics initiatives, reveals a five-bladed beta-propeller fold with three acidic residues forming the active site.; PDB: 1VKD_A 3TAW_A 3QC2_B 3R67_B.
Probab=24.18 E-value=37 Score=29.74 Aligned_cols=40 Identities=18% Similarity=0.304 Sum_probs=28.3
Q ss_pred cchhccccCCCCCC-CceeEEecCCCeeEe---echhHHHHHHH
Q 031062 77 VKEVCTTCGNHDSN-EHTWMMFPGTDVFAK---IPFHAAHTILE 116 (166)
Q Consensus 77 ~~~~c~~~g~~d~d-ekVWi~~~gGd~FVk---lP~~~A~e~LE 116 (166)
|.-|||+||---.+ +++++..|++|+.|. ++-++..+.|+
T Consensus 268 v~nVVF~~g~~~~~~~~~~iyYG~AD~~igvA~~~l~~ll~~~~ 311 (312)
T PF04041_consen 268 VPNVVFPCGGLVDDDGRLLIYYGAADTRIGVATAPLDELLDYLK 311 (312)
T ss_dssp STTBEEEEEEEEEETTEEEEEEEETTTEEEEEEEEHHHHHHHHH
T ss_pred cCCEEEECCCEEccCCEEEEEEeecceeEEEEEEEHHHHHHHHh
Confidence 55699999975444 478888988999887 45555554443
No 150
>COG1644 RPB10 DNA-directed RNA polymerase, subunit N (RpoN/RPB10) [Transcription]
Probab=24.16 E-value=30 Score=24.58 Aligned_cols=9 Identities=33% Similarity=0.881 Sum_probs=7.0
Q ss_pred hhccccCCC
Q 031062 79 EVCTTCGNH 87 (166)
Q Consensus 79 ~~c~~~g~~ 87 (166)
--|||||..
T Consensus 5 iRCFsCGkv 13 (63)
T COG1644 5 VRCFSCGKV 13 (63)
T ss_pred eEeecCCCC
Confidence 469999954
No 151
>PRK06798 fliD flagellar capping protein; Validated
Probab=24.03 E-value=1e+02 Score=28.50 Aligned_cols=37 Identities=16% Similarity=0.212 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcC
Q 031062 115 LETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKIS 151 (166)
Q Consensus 115 LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg 151 (166)
|...+..++.+|+++...+.....+|... ..||.+|.
T Consensus 377 i~~r~~~l~~~i~~l~~~~~~~e~rl~~~e~~l~~qf~ 414 (440)
T PRK06798 377 IGERSKSIDNRVSKLDLKITDIDTQNKQKQDNIVDKYQ 414 (440)
T ss_pred eehhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567788888888888888888888888 88888886
No 152
>PF13368 Toprim_C_rpt: Topoisomerase C-terminal repeat
Probab=23.87 E-value=24 Score=23.86 Aligned_cols=11 Identities=18% Similarity=0.208 Sum_probs=8.5
Q ss_pred hhhhhcChhhh
Q 031062 145 ALADKISPGVL 155 (166)
Q Consensus 145 ~Ly~Kfg~~v~ 155 (166)
+..++|||||-
T Consensus 9 v~~GRfGPYv~ 19 (61)
T PF13368_consen 9 VKNGRFGPYVK 19 (61)
T ss_pred EeECCCCceEE
Confidence 35689999983
No 153
>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=23.81 E-value=1.8e+02 Score=23.37 Aligned_cols=34 Identities=15% Similarity=0.267 Sum_probs=27.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.+..+|+.....++.+|..|+...+.....+...
T Consensus 74 ~~~~~L~~~~~~l~~ei~~L~~~~~~l~~ll~~~ 107 (172)
T cd04790 74 DATDVLRRRLAELNREIQRLRQQQRAIATLLKQP 107 (172)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667888899999999999998888877766544
No 154
>PF04799 Fzo_mitofusin: fzo-like conserved region; InterPro: IPR006884 This entry represents the heptad repeat domain which is conserved at the C terminus of Fzo/mitofusion family of GTPases. Fzo is a mediator of mitochondrial fusion during spermatogenesis []. This conserved region is also found in the human mitofusin protein []. This domain forms a dimeric antiparallel coiled coil structure, which has been proposed to act as a mitochodrial tether before vesicle fusion [].; GO: 0003924 GTPase activity, 0006184 GTP catabolic process, 0008053 mitochondrial fusion, 0005741 mitochondrial outer membrane, 0016021 integral to membrane; PDB: 1T3J_A.
Probab=23.74 E-value=2.7e+02 Score=23.23 Aligned_cols=37 Identities=19% Similarity=0.349 Sum_probs=17.4
Q ss_pred eeEEecCCCeeEee--chhHHHHHHHHHHHHHHHHHHHHHh
Q 031062 93 TWMMFPGTDVFAKI--PFHAAHTILETDQTRLDFEAKKLQS 131 (166)
Q Consensus 93 VWi~~~gGd~FVkl--P~~~A~e~LEkDQe~lD~EI~kLRs 131 (166)
|+--+ ..+|-++ -.+.++.=|+.+..+++.+|+.|.+
T Consensus 103 VqqeL--~~tf~rL~~~Vd~~~~eL~~eI~~L~~~i~~le~ 141 (171)
T PF04799_consen 103 VQQEL--SSTFARLCQQVDQTKNELEDEIKQLEKEIQRLEE 141 (171)
T ss_dssp ---------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55556 5577664 3455666666666666666555543
No 155
>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=23.55 E-value=2.8e+02 Score=20.72 Aligned_cols=36 Identities=8% Similarity=0.154 Sum_probs=25.3
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISE 142 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~E 142 (166)
+.+....+|+...+.++.+|..|+.-.+.....+..
T Consensus 76 ~~~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~~~ 111 (127)
T cd04784 76 SCAEVNALIDEHLAHVRARIAELQALEKQLQALRER 111 (127)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888888888888888877666555444433
No 156
>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=23.44 E-value=2.4e+02 Score=19.47 Aligned_cols=30 Identities=17% Similarity=0.038 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
-|-.-..+-..+|++|+..++....+|.++
T Consensus 22 ~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~ 51 (69)
T PF04102_consen 22 ELNDVVTEQQRQIDRLQRQLRLLRERLREL 51 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 333333334444444444444444444444
No 157
>PLN02320 seryl-tRNA synthetase
Probab=23.37 E-value=2.4e+02 Score=27.05 Aligned_cols=40 Identities=10% Similarity=0.073 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChh
Q 031062 114 ILETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPG 153 (166)
Q Consensus 114 ~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~ 153 (166)
-|......+..+|..|..+++....++.++ -.+..-..|.
T Consensus 134 ~l~~~~k~lk~~i~~le~~~~~~~~~l~~~~l~iPN~~h~~ 174 (502)
T PLN02320 134 ALVEEGKNLKEGLVTLEEDLVKLTDELQLEAQSIPNMTHPD 174 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCcc
Confidence 344466777788888888887777777766 4444444443
No 158
>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=23.09 E-value=2.6e+02 Score=19.24 Aligned_cols=16 Identities=13% Similarity=0.343 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHHHHh
Q 031062 116 ETDQTRLDFEAKKLQS 131 (166)
Q Consensus 116 EkDQe~lD~EI~kLRs 131 (166)
|.+...++..|+.+|+
T Consensus 6 En~~~~~~~~i~tvk~ 21 (55)
T PF05377_consen 6 ENELPRIESSINTVKK 21 (55)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 159
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=23.00 E-value=2.7e+02 Score=24.60 Aligned_cols=33 Identities=12% Similarity=0.180 Sum_probs=24.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
.+...-|..|...++..|++-+.++.--..+|.
T Consensus 182 ~~~l~~l~~de~~Le~KIekkk~ELER~qKRL~ 214 (267)
T PF10234_consen 182 QQQLNNLASDEANLEAKIEKKKQELERNQKRLQ 214 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344556677888888888888888877777765
No 160
>PRK14127 cell division protein GpsB; Provisional
Probab=22.96 E-value=3.1e+02 Score=21.09 Aligned_cols=38 Identities=16% Similarity=0.118 Sum_probs=29.8
Q ss_pred echhHHHHHHH---HHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 106 IPFHAAHTILE---TDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 106 lP~~~A~e~LE---kDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
...+++-++|+ .|.+.+..++..|+.++.....+|.++
T Consensus 23 Yd~~EVD~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~ 63 (109)
T PRK14127 23 YDQDEVDKFLDDVIKDYEAFQKEIEELQQENARLKAQVDEL 63 (109)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55556655555 588888899999999998888888888
No 161
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=22.81 E-value=2.9e+02 Score=22.00 Aligned_cols=34 Identities=26% Similarity=0.162 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 110 AAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 110 ~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.....++.|.+.++.|+++|+.-.|...++..-|
T Consensus 47 ~~Ik~~ea~~e~~k~E~krL~~rkk~~e~~~~~L 80 (162)
T PF05565_consen 47 KVIKNLEADIEAIKAEIKRLQERKKSIENRIDRL 80 (162)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567788999999999999999888888877766
No 162
>TIGR01174 ftsA cell division protein FtsA. This bacterial cell division protein interacts with FtsZ, the bacterial homolog of tubulin. It is an ATP-binding protein and shows structural similarities to actin and heat shock cognate protein 70.
Probab=22.66 E-value=1.5e+02 Score=25.92 Aligned_cols=25 Identities=8% Similarity=0.052 Sum_probs=20.4
Q ss_pred hhhHHHHhhhhhhhhHHHHHHHHhh
Q 031062 25 ARHQLVESDIVRNGNREALTALRKR 49 (166)
Q Consensus 25 ~k~qlv~lDk~Rn~nREAl~aL~k~ 49 (166)
.+-.|++.|.--+.-|+|+..+.+.
T Consensus 39 ~~G~I~d~~~~~~~i~~al~~~e~~ 63 (371)
T TIGR01174 39 KKGVINDIEAAVGSIQRAIEAAELM 63 (371)
T ss_pred cCcEEEcHHHHHHHHHHHHHHHHHH
Confidence 3557888999999999999988765
No 163
>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=22.58 E-value=2.4e+02 Score=20.82 Aligned_cols=30 Identities=13% Similarity=0.148 Sum_probs=18.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSL 138 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~ 138 (166)
.+..++|+.....++.+|..|+.-......
T Consensus 80 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~ 109 (112)
T cd01282 80 PDLLAVLRRELARIDRQIADLTRSRDRLDA 109 (112)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777777777777777665554443
No 164
>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=22.36 E-value=3.1e+02 Score=20.13 Aligned_cols=30 Identities=17% Similarity=0.199 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSL 138 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~ 138 (166)
.....+|+...++++.+|+.|+.-......
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~l~~~~~~l~~ 107 (123)
T cd04770 78 AEVRALLEEKLAEVEAKIAELQALRAELAG 107 (123)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 556777777788888877777666554443
No 165
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=22.12 E-value=3.6e+02 Score=21.83 Aligned_cols=47 Identities=11% Similarity=0.055 Sum_probs=34.1
Q ss_pred chhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcChh
Q 031062 107 PFHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKISPG 153 (166)
Q Consensus 107 P~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg~~ 153 (166)
..-.-+.-||++-..+..+|+.|+.+...-.-++..+..-|.+.-++
T Consensus 71 KRv~Qk~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~~ 117 (135)
T KOG4196|consen 71 KRVQQKHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQNS 117 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34445667888888999999999998888888888774444444333
No 166
>PF12277 DUF3618: Protein of unknown function (DUF3618); InterPro: IPR022062 This domain family is found in bacteria, and is approximately 50 amino acids in length.
Probab=21.90 E-value=1.7e+02 Score=18.95 Aligned_cols=24 Identities=4% Similarity=0.106 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHH
Q 031062 118 DQTRLDFEAKKLQSYVKEKSLFIS 141 (166)
Q Consensus 118 DQe~lD~EI~kLRseLK~Kv~~L~ 141 (166)
+-++|+.+|+..|.+|-.-+..|.
T Consensus 4 ~~~~ie~dIe~tR~~La~tvd~L~ 27 (49)
T PF12277_consen 4 SPDEIERDIERTRAELAETVDELA 27 (49)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346778888888887777666554
No 167
>PF00816 Histone_HNS: H-NS histone family Partial NMR structure.; InterPro: IPR001801 The histone-like nucleoid-structuring (H-NS) protein belongs to a family of bacterial proteins that play a role in the formation of nucleoid structure and affect gene expression under certain conditions [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2LEV_A 1HNS_A 1LR1_B 1HNR_A 1NI8_A 1OV9_A 2JR1_A 3NR7_A 2L93_A 2L92_A.
Probab=21.83 E-value=1.5e+02 Score=21.16 Aligned_cols=35 Identities=20% Similarity=0.187 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhhhhcC
Q 031062 115 LETDQTRLDFEAKKLQSYVKEKSLFISEKGALADKIS 151 (166)
Q Consensus 115 LEkDQe~lD~EI~kLRseLK~Kv~~L~EL~~Ly~Kfg 151 (166)
|+..+++++.+|+..+... +...+.++..+...||
T Consensus 3 L~~~~~~l~~~~~~~~~~e--~~~~~~~i~~~~~~~G 37 (93)
T PF00816_consen 3 LEAQIKELEKEIEERRKQE--REEAIAEIRELMAEYG 37 (93)
T ss_dssp HHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHhC
Confidence 6677778888887766544 3334455555555555
No 168
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.79 E-value=2.7e+02 Score=24.65 Aligned_cols=31 Identities=19% Similarity=0.248 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 113 TILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 113 e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.-++.+.+.++.+|+.+.+.+++...++.++
T Consensus 48 ~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~ 78 (265)
T COG3883 48 KNIQNEIESLDNQIEEIQSKIDELQKEIDQS 78 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444544444444444444444333
No 169
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=21.76 E-value=61 Score=23.65 Aligned_cols=20 Identities=10% Similarity=0.012 Sum_probs=13.7
Q ss_pred HHHHHHHhHHHHHHHHHHHH
Q 031062 124 FEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 124 ~EI~kLRseLK~Kv~~L~EL 143 (166)
.+|..+|....--...++++
T Consensus 68 ~~i~~~r~~~gltq~~lA~~ 87 (127)
T TIGR03830 68 PEIRRIRKKLGLSQREAAEL 87 (127)
T ss_pred HHHHHHHHHcCCCHHHHHHH
Confidence 36777777776666666665
No 170
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.72 E-value=2e+02 Score=25.45 Aligned_cols=26 Identities=31% Similarity=0.251 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 118 DQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 118 DQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+..++..+|++|+.+++..-+.+.+.
T Consensus 74 ~i~~~~~eik~l~~eI~~~~~~I~~r 99 (265)
T COG3883 74 EIDQSKAEIKKLQKEIAELKENIVER 99 (265)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444555554444444444
No 171
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=21.53 E-value=1.9e+02 Score=29.47 Aligned_cols=60 Identities=15% Similarity=0.329 Sum_probs=40.0
Q ss_pred echhHHHHHHHHHHHHHHHHHH--------HHHhHHHHHHHHHHHH--HhhhhhcChhhhhhhhhcccCC
Q 031062 106 IPFHAAHTILETDQTRLDFEAK--------KLQSYVKEKSLFISEK--GALADKISPGVLRSLVTLTDKS 165 (166)
Q Consensus 106 lP~~~A~e~LEkDQe~lD~EI~--------kLRseLK~Kv~~L~EL--~~Ly~Kfg~~v~kslv~l~~~~ 165 (166)
+|+..+=.---.|..+|+.||. +|++.|..+-....+. ...+.++-|-+-++|..++++|
T Consensus 618 VPfts~sKeaIA~vpEI~~EI~lAl~~~aR~Lk~yl~k~~~~~~~~~k~~~~~kylp~~a~~l~~i~~~~ 687 (795)
T PRK14868 618 VPFTSESKDAIANVPEIEDEIELAIREAARELKSYLNKRRSMQKRREKQDVLGTILPEMATKVAEVTGRE 687 (795)
T ss_pred CCCCCcchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 6665433222237777777775 3555555444433333 8899999999999999999886
No 172
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=21.42 E-value=1.9e+02 Score=24.60 Aligned_cols=32 Identities=13% Similarity=0.131 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 112 HTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 112 ~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..-+..|.+.++..++.|++.|..+-..|..|
T Consensus 162 l~~v~~Dl~~ie~QV~~Le~~L~~k~~eL~~L 193 (195)
T PF12761_consen 162 LKSVREDLDTIEEQVDGLESHLSSKKQELQQL 193 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 35678899999999999999999999888876
No 173
>PF00627 UBA: UBA/TS-N domain; InterPro: IPR000449 UBA domains are a commonly occurring sequence motif of approximately 45 amino acid residues that are found in diverse proteins involved in the ubiquitin/proteasome pathway, DNA excision-repair, and cell signalling via protein kinases []. The human homologue of yeast Rad23A is one example of a nucleotide excision-repair protein that contains both an internal and a C-terminal UBA domain. The solution structure of human Rad23A UBA(2) showed that the domain forms a compact three-helix bundle []. Comparison of the structures of UBA(1) and UBA(2) reveals that both form very similar folds and have a conserved large hydrophobic surface patch which may be a common protein-interacting surface present in diverse UBA domains. Evidence that ubiquitin binds to UBA domains leads to the prediction that the hydrophobic surface patch of UBA domains interacts with the hydrophobic surface on the five-stranded beta-sheet of ubiquitin []. This domain is similar in sequence to the N-terminal domain of translation elongation factor EF1B (or EF-Ts) from bacteria, mitochondria and chloroplasts. More information about EF1B (EF-Ts) proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005515 protein binding; PDB: 2DAI_A 2OO9_C 2JUJ_A 1WHC_A 1YLA_A 2O25_B 3K9O_A 3K9P_A 3F92_A 3E46_A ....
Probab=21.34 E-value=85 Score=18.79 Aligned_cols=19 Identities=47% Similarity=0.580 Sum_probs=13.4
Q ss_pred hHHHHhhhhhhhhHHHHHH
Q 031062 27 HQLVESDIVRNGNREALTA 45 (166)
Q Consensus 27 ~qlv~lDk~Rn~nREAl~a 45 (166)
++|+++--.++.+|+||++
T Consensus 7 ~~L~~mGf~~~~~~~AL~~ 25 (37)
T PF00627_consen 7 QQLMEMGFSREQAREALRA 25 (37)
T ss_dssp HHHHHHTS-HHHHHHHHHH
T ss_pred HHHHHcCCCHHHHHHHHHH
Confidence 4677787788888887754
No 174
>PF06689 zf-C4_ClpX: ClpX C4-type zinc finger; InterPro: IPR010603 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The ClpX heat shock protein of Escherichia coli is a member of the universally conserved Hsp100 family of proteins, and possesses a putative zinc finger motif of the C4 type []. This presumed zinc binding domain (ZBD) is found at the N terminus of the ClpX protein. ClpX is an ATPase which functions both as a substrate specificity component of the ClpXP protease and as a molecular chaperone. ZBD is a member of the treble clef zinc finger family, a motif known to facilitate protein-ligand, protein-DNA, and protein-protein interactions and forms a constitutive dimer that is essential for the degradation of some, but not all, ClpX substrates []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0016887 ATPase activity, 0046983 protein dimerization activity, 0006200 ATP catabolic process, 0019538 protein metabolic process; PDB: 2DS8_B 2DS6_B 2DS5_A 1OVX_A 2DS7_A.
Probab=21.18 E-value=1e+02 Score=19.36 Aligned_cols=27 Identities=19% Similarity=0.442 Sum_probs=14.9
Q ss_pred chhccccCCCCCCCceeEEecCCCeeEe
Q 031062 78 KEVCTTCGNHDSNEHTWMMFPGTDVFAK 105 (166)
Q Consensus 78 ~~~c~~~g~~d~dekVWi~~~gGd~FVk 105 (166)
+..|+=||...++....+.-|+ ++||-
T Consensus 1 ~~~CSFCgr~~~~v~~li~g~~-~~~IC 27 (41)
T PF06689_consen 1 EKRCSFCGRPESEVGRLISGPN-GAYIC 27 (41)
T ss_dssp --B-TTT--BTTTSSSEEEES--SEEEE
T ss_pred CCCccCCCCCHHHHhceecCCC-CcEEC
Confidence 3579999988887766665432 37765
No 175
>PLN02297 ribose-phosphate pyrophosphokinase
Probab=21.17 E-value=36 Score=30.56 Aligned_cols=42 Identities=14% Similarity=0.123 Sum_probs=32.8
Q ss_pred hccCCCCCCCcccchhccccCCCCCCCceeEEecCCCeeEee
Q 031062 65 MKDTGGPGTRPLVKEVCTTCGNHDSNEHTWMMFPGTDVFAKI 106 (166)
Q Consensus 65 ~~~~~~~~~~~~~~~~c~~~g~~d~dekVWi~~~gGd~FVkl 106 (166)
|+=+.|+++.+|-+.+|..++...-..-.|-.||.|+.-+++
T Consensus 17 ~~i~~g~~~~~LA~~ia~~l~g~~l~~~~~~~FpDGE~~v~v 58 (326)
T PLN02297 17 VHLFYCEETEELARKIAAESDAIELGSINWRKFPDGFPNLFI 58 (326)
T ss_pred eEEEECCCCHHHHHHHHHHhCCCceeeeEEEECCCCCEEEEE
Confidence 778899999999999999885555666678889988544443
No 176
>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=20.83 E-value=3.4e+02 Score=20.31 Aligned_cols=28 Identities=4% Similarity=-0.025 Sum_probs=19.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKE 135 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~ 135 (166)
......+|+...+.++.+|+.|+.-...
T Consensus 74 ~~~~~~~l~~~~~~l~~~i~~L~~~~~~ 101 (124)
T TIGR02051 74 CREMYELASRKLKSVQAKMADLLRIERL 101 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3566778888888888888776655433
No 177
>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=20.81 E-value=3.5e+02 Score=20.31 Aligned_cols=32 Identities=13% Similarity=0.122 Sum_probs=22.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFI 140 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L 140 (166)
.++..+|+...+.++.+|..|+.-.+.....+
T Consensus 78 ~~~~~~l~~~~~~l~~~i~~L~~~~~~L~~~~ 109 (126)
T cd04785 78 AEADAIARAHLADVRARIADLRRLEAELKRMV 109 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55677888888888888888776665554444
No 178
>PRK00846 hypothetical protein; Provisional
Probab=20.80 E-value=3.4e+02 Score=19.71 Aligned_cols=35 Identities=9% Similarity=0.008 Sum_probs=26.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 109 HAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 109 ~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
+++.+-|-+-+.+....|++|+..++-.+.+|.++
T Consensus 26 e~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~ 60 (77)
T PRK00846 26 EQALTELSEALADARLTGARNAELIRHLLEDLGKV 60 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45666666667777788888888888888888887
No 179
>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=20.73 E-value=2.2e+02 Score=19.25 Aligned_cols=21 Identities=24% Similarity=0.327 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhH
Q 031062 112 HTILETDQTRLDFEAKKLQSY 132 (166)
Q Consensus 112 ~e~LEkDQe~lD~EI~kLRse 132 (166)
...|+++++.++.+|..++..
T Consensus 6 ~~rL~Kel~kl~~~i~~~~~k 26 (66)
T PF10458_consen 6 IERLEKELEKLEKEIERLEKK 26 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555443
No 180
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=20.71 E-value=49 Score=24.52 Aligned_cols=25 Identities=24% Similarity=0.563 Sum_probs=9.6
Q ss_pred cccchhccccCCCCCCCceeEEecCCCeeEe
Q 031062 75 PLVKEVCTTCGNHDSNEHTWMMFPGTDVFAK 105 (166)
Q Consensus 75 ~~~~~~c~~~g~~d~dekVWi~~~gGd~FVk 105 (166)
.|--.+|..||+.-.-. ..|++||-
T Consensus 6 ~~~~qiCqiCGD~VGl~------~~Ge~FVA 30 (80)
T PF14569_consen 6 NLNGQICQICGDDVGLT------ENGEVFVA 30 (80)
T ss_dssp --SS-B-SSS--B--B-------SSSSB--S
T ss_pred hcCCcccccccCccccC------CCCCEEEE
Confidence 34456999999754332 24888875
No 181
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=20.66 E-value=2.3e+02 Score=24.32 Aligned_cols=37 Identities=24% Similarity=0.346 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHhhhHHHHhhh----------hhhhhHHHHHHHHhh
Q 031062 12 LIEIENEAEHLLFARHQLVESDI----------VRNGNREALTALRKR 49 (166)
Q Consensus 12 l~e~E~~ae~vL~~k~qlv~lDk----------~Rn~nREAl~aL~k~ 49 (166)
..+++++-.+|-..|++| +.-+ .||.||+||-++|+.
T Consensus 88 ~~~~~~~kqdi~t~~e~i-~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~ 134 (209)
T COG5124 88 KKKIQEVKQDIATYKEEI-DKEKATRRKKFTEGQKNYNREALLEKRKK 134 (209)
T ss_pred HHHHHHHHHHHHHHHHHH-hHHHHhhhcccccchhhHHHHHHHHHHHH
Confidence 346677777777766654 4444 579999999999874
No 182
>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=20.39 E-value=3.7e+02 Score=20.63 Aligned_cols=36 Identities=11% Similarity=0.074 Sum_probs=25.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 108 FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 108 ~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
.+....+|+...+.++.+|++|+.-.......+..+
T Consensus 76 ~~~~~~~l~~k~~~i~~~i~~L~~~~~~L~~~i~~~ 111 (131)
T cd04786 76 HDELLAALERKVADIEALEARLAQNKAQLLVLIDLI 111 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 356777888888888888888877766655555444
No 183
>KOG1432 consensus Predicted DNA repair exonuclease SIA1 [General function prediction only]
Probab=20.28 E-value=60 Score=30.18 Aligned_cols=9 Identities=22% Similarity=0.870 Sum_probs=7.6
Q ss_pred eeEEecCCC
Q 031062 93 TWMMFPGTD 101 (166)
Q Consensus 93 VWi~~~gGd 101 (166)
+|+|++||-
T Consensus 321 ~wlCygGga 329 (379)
T KOG1432|consen 321 LWLCYGGGA 329 (379)
T ss_pred EEEEecCCC
Confidence 999997764
No 184
>PF05082 Rop-like: Rop-like; InterPro: IPR007774 This family contains several uncharacterised bacterial proteins. These proteins are found in nitrogen fixation operons, so are likely to play a role in this process.; PDB: 3CSX_A 2JS5_B.
Probab=20.26 E-value=2.9e+02 Score=19.67 Aligned_cols=34 Identities=21% Similarity=0.233 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHH-Hhhhhhc
Q 031062 117 TDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKI 150 (166)
Q Consensus 117 kDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kf 150 (166)
.|.+.+..+|.+|.+.--..--.|.+| +-|...+
T Consensus 2 ~d~~eLk~evkKL~~~A~~~kmdLHDLaEdLP~~w 36 (66)
T PF05082_consen 2 SDIEELKKEVKKLNRKATQAKMDLHDLAEDLPTNW 36 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTTTG
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhH
Confidence 477888889999888887777778887 5565443
No 185
>KOG4070 consensus Putative signal transduction protein p25 [General function prediction only; Signal transduction mechanisms]
Probab=20.23 E-value=1.2e+02 Score=25.31 Aligned_cols=73 Identities=27% Similarity=0.255 Sum_probs=39.6
Q ss_pred hhccccCCCCCCCceeEEecCCCeeEeechhHHHHH-HHHHHHHHHHHHHHHHhHHHHHHHHHHHH-HhhhhhcChhhh
Q 031062 79 EVCTTCGNHDSNEHTWMMFPGTDVFAKIPFHAAHTI-LETDQTRLDFEAKKLQSYVKEKSLFISEK-GALADKISPGVL 155 (166)
Q Consensus 79 ~~c~~~g~~d~dekVWi~~~gGd~FVklP~~~A~e~-LEkDQe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kfg~~v~ 155 (166)
.-|-.|+-.|...-+-... |-+|-++.-..+... .++=++.| .|+..-|-.-|.+...|.++ +.|..+ .|.|+
T Consensus 41 KlcKdc~V~DgK~vT~tdt--~i~fsKvkg~~~~~~tf~~fkkal-~ela~~R~k~Ks~ee~l~~I~~llagk-aP~~~ 115 (180)
T KOG4070|consen 41 KLCKDCKVIDGKSVTGTDT--DIVFSKVKGKKARTITFEEFKKAL-EELATKRFKGKSKEEALDAICQLLAGK-APAVV 115 (180)
T ss_pred HHHhhcCcccCCccccccc--ceeeeeccccccccccHHHHHHHH-HHHHHhhhcCCCHHHHHHHHHHHHhcc-CCccc
Confidence 4688888877665444444 448866544444221 12222222 23333344447777888888 555555 77765
No 186
>PF02482 Ribosomal_S30AE: Sigma 54 modulation protein / S30EA ribosomal protein; InterPro: IPR003489 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family contains the sigma-54 modulation protein family and the S30Ae family of ribosomal proteins which includes the light-repressed protein (lrtA) [].; GO: 0005488 binding, 0044238 primary metabolic process; PDB: 1L4S_A 1VOX_a 1VOV_a 3V2E_Y 3V2C_Y 1N3G_A 1VOS_a 1VOZ_a 1VOQ_a 1IMU_A ....
Probab=20.20 E-value=91 Score=21.65 Aligned_cols=41 Identities=12% Similarity=0.182 Sum_probs=33.9
Q ss_pred eeEEecCCCeeEeechhHHHHHHHHHHHHHHHHHHHHHhHH
Q 031062 93 TWMMFPGTDVFAKIPFHAAHTILETDQTRLDFEAKKLQSYV 133 (166)
Q Consensus 93 VWi~~~gGd~FVklP~~~A~e~LEkDQe~lD~EI~kLRseL 133 (166)
+.+.+||+.++++-..+.....+..=...++.++.+.++.+
T Consensus 54 i~i~~~~~~l~a~~~~~d~~~Aid~a~dkl~rql~k~k~k~ 94 (97)
T PF02482_consen 54 ITIHVPGHVLVAEESAEDLYAAIDEAFDKLERQLRKYKEKL 94 (97)
T ss_dssp EEEEETTEEEEEEEEESSHHHHHHHHHHHHHHHHHHHHHCC
T ss_pred EEEEeCCceEEEEEecCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 67788999999999888888888888888888887776543
No 187
>smart00761 HDAC_interact Histone deacetylase (HDAC) interacting. This domain is found on transcriptional regulators. It forms interactions with histone deacetylases.
Probab=20.11 E-value=4.1e+02 Score=20.33 Aligned_cols=52 Identities=19% Similarity=0.232 Sum_probs=37.6
Q ss_pred ceeEEecCC----CeeEeec---hhHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Q 031062 92 HTWMMFPGT----DVFAKIP---FHAAHTILETDQTRLDFEAKKLQSYVKEKSLFISEK 143 (166)
Q Consensus 92 kVWi~~~gG----d~FVklP---~~~A~e~LEkDQe~lD~EI~kLRseLK~Kv~~L~EL 143 (166)
..|+.+|.| ..|+.+. .++++=.+|.|.=++|--|+..++-++.....+..+
T Consensus 34 D~wvsvps~~SED~~F~~~rKNqyEE~Lfr~EDeR~E~D~~ie~~~~ti~~le~l~~~~ 92 (102)
T smart00761 34 DTWVSHPTWASEDSGFVAHRKNQYEEALFRCEDERFELDMVIESNSSTIKLLEEILNKI 92 (102)
T ss_pred CceEeecCCcccccchhhhhccHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 589999998 2566654 455666677888899999999888777655544433
No 188
>PF08700 Vps51: Vps51/Vps67; InterPro: IPR014812 The VFT tethering complex (also known as GARP complex, Golgi associated retrograde protein complex, Vps53 tethering complex) is a conserved eukaryotic docking complex which is involved in recycling of proteins from endosomes to the late Golgi. Vps51 (also known as Vps67) is a subunit of VFT and interacts with the SNARE Tlg1 [].
Probab=20.09 E-value=2.7e+02 Score=19.00 Aligned_cols=32 Identities=13% Similarity=0.016 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHhHHHHHHHHHHHH-Hhhhhhc
Q 031062 119 QTRLDFEAKKLQSYVKEKSLFISEK-GALADKI 150 (166)
Q Consensus 119 Qe~lD~EI~kLRseLK~Kv~~L~EL-~~Ly~Kf 150 (166)
..++..--++|+.++..+...|..+ +..|..|
T Consensus 21 ~~~i~~~~~~L~~~i~~~~~eLr~~V~~nY~~f 53 (87)
T PF08700_consen 21 IKEIRQLENKLRQEIEEKDEELRKLVYENYRDF 53 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHH
Confidence 3344444455555555555555555 5555444
Done!