Query psy4731
Match_columns 436
No_of_seqs 129 out of 153
Neff 2.9
Searched_HMMs 46136
Date Sat Aug 17 00:32:17 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4731.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4731hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00633 HHH: Helix-hairpin-he 96.8 0.00093 2E-08 46.3 2.6 24 114-137 7-30 (30)
2 COG0177 Nth Predicted EndoIII- 96.2 0.013 2.9E-07 56.3 7.1 61 112-201 103-163 (211)
3 PRK01229 N-glycosylase/DNA lya 95.3 0.054 1.2E-06 51.9 7.0 81 112-203 112-200 (208)
4 cd00056 ENDO3c endonuclease II 94.5 0.21 4.5E-06 43.5 8.1 38 113-151 78-115 (158)
5 PF15102 TMEM154: TMEM154 prot 94.5 0.011 2.3E-07 54.5 0.0 34 7-45 54-87 (146)
6 PHA03240 envelope glycoprotein 94.4 0.019 4.1E-07 56.4 1.5 24 30-56 220-243 (258)
7 TIGR01084 mutY A/G-specific ad 93.0 0.16 3.5E-06 50.1 5.2 36 113-149 100-135 (275)
8 PRK13913 3-methyladenine DNA g 92.8 0.54 1.2E-05 45.4 8.3 39 115-154 118-156 (218)
9 PRK10702 endonuclease III; Pro 92.6 0.19 4E-06 47.8 4.9 36 113-149 104-139 (211)
10 smart00478 ENDO3c endonuclease 92.0 0.16 3.5E-06 43.9 3.4 35 113-149 67-101 (149)
11 COG0122 AlkA 3-methyladenine D 91.9 1.3 2.7E-05 44.1 9.9 71 71-144 144-226 (285)
12 PRK02515 psbU photosystem II c 91.1 0.14 3E-06 46.7 2.1 50 115-169 58-108 (132)
13 COG1194 MutY A/G-specific DNA 90.9 0.25 5.3E-06 50.9 3.9 37 116-152 111-147 (342)
14 PRK04778 septation ring format 90.9 0.16 3.5E-06 54.1 2.7 55 31-86 14-72 (569)
15 TIGR01083 nth endonuclease III 90.8 0.4 8.7E-06 44.1 5.0 38 113-151 101-138 (191)
16 TIGR00588 ogg 8-oxoguanine DNA 90.6 0.74 1.6E-05 45.9 6.9 63 112-176 214-287 (310)
17 PRK10880 adenine DNA glycosyla 89.9 0.25 5.4E-06 50.5 3.0 35 113-149 104-139 (350)
18 PRK13910 DNA glycosylase MutY; 89.7 0.26 5.7E-06 49.2 3.0 73 70-149 29-102 (289)
19 PRK10308 3-methyl-adenine DNA 89.5 0.38 8.1E-06 47.6 3.9 34 111-144 200-235 (283)
20 TIGR03252 uncharacterized HhH- 88.7 0.37 7.9E-06 45.6 3.0 41 111-153 108-148 (177)
21 PF02371 Transposase_20: Trans 87.7 0.47 1E-05 38.7 2.7 44 118-162 2-45 (87)
22 TIGR01259 comE comEA protein. 84.4 0.76 1.6E-05 40.2 2.4 43 115-158 65-107 (120)
23 PF06160 EzrA: Septation ring 83.1 0.6 1.3E-05 49.9 1.5 57 30-86 9-68 (560)
24 smart00278 HhH1 Helix-hairpin- 81.5 1.2 2.5E-05 29.4 1.9 19 119-137 2-20 (26)
25 PF05297 Herpes_LMP1: Herpesvi 80.6 0.51 1.1E-05 48.5 0.0 8 49-56 118-125 (381)
26 PF02009 Rifin_STEVOR: Rifin/s 77.3 2.3 4.9E-05 43.1 3.4 10 81-90 287-296 (299)
27 PF11731 Cdd1: Pathogenicity l 76.3 1.9 4.1E-05 37.2 2.2 26 114-139 8-33 (93)
28 PF10717 ODV-E18: Occlusion-de 75.8 2.9 6.3E-05 35.9 3.1 7 36-42 40-46 (85)
29 PF14716 HHH_8: Helix-hairpin- 73.4 5.4 0.00012 31.3 3.9 31 105-135 33-64 (68)
30 PF05297 Herpes_LMP1: Herpesvi 72.2 1.2 2.6E-05 45.9 0.0 7 34-40 84-90 (381)
31 PF14520 HHH_5: Helix-hairpin- 72.0 7.1 0.00015 29.7 4.2 23 116-138 3-25 (60)
32 KOG1921|consensus 71.4 6 0.00013 40.1 4.6 86 53-139 76-180 (286)
33 COG2231 Uncharacterized protei 70.3 11 0.00024 37.1 6.0 37 116-153 113-149 (215)
34 PF00957 Synaptobrevin: Synapt 70.0 7 0.00015 31.8 4.0 11 13-23 61-71 (89)
35 COG1555 ComEA DNA uptake prote 69.3 2.4 5.2E-05 38.7 1.2 44 114-158 93-136 (149)
36 PRK00024 hypothetical protein; 69.3 14 0.0003 35.7 6.4 77 53-138 5-86 (224)
37 COG2003 RadC DNA repair protei 68.9 7.7 0.00017 38.3 4.7 80 50-138 2-86 (224)
38 PRK14605 ruvA Holliday junctio 68.4 3.7 8.1E-05 38.7 2.3 30 113-142 68-97 (194)
39 PRK04778 septation ring format 67.3 4.8 0.0001 43.2 3.2 13 44-56 59-71 (569)
40 PF10391 DNA_pol_lambd_f: Fing 65.8 5.8 0.00013 30.7 2.5 23 117-139 1-23 (52)
41 PF05568 ASFV_J13L: African sw 64.7 7.8 0.00017 36.9 3.6 12 127-138 133-144 (189)
42 PF06656 Tenui_PVC2: Tenuiviru 64.3 3.8 8.3E-05 45.8 1.8 23 6-28 216-238 (785)
43 PF05961 Chordopox_A13L: Chord 63.3 12 0.00027 31.1 4.1 27 20-46 3-29 (68)
44 PRK00116 ruvA Holliday junctio 62.8 7.2 0.00016 36.5 3.0 27 114-140 69-95 (192)
45 PRK14600 ruvA Holliday junctio 61.6 5.4 0.00012 37.6 2.0 29 113-141 68-96 (186)
46 TIGR00084 ruvA Holliday juncti 60.6 6.2 0.00013 37.2 2.3 28 113-140 67-94 (191)
47 PF12725 DUF3810: Protein of u 60.6 28 0.00062 35.2 7.0 43 69-111 92-147 (318)
48 PRK13901 ruvA Holliday junctio 60.5 6 0.00013 38.0 2.1 29 113-141 67-95 (196)
49 COG4741 Predicted secreted end 60.4 8.3 0.00018 36.7 3.0 20 72-91 51-72 (175)
50 PHA03393 odv-e66 occlusion-der 59.6 1.6 3.5E-05 48.7 -2.1 21 47-67 55-75 (682)
51 COG1796 POL4 DNA polymerase IV 58.9 2.1E+02 0.0045 30.1 12.8 132 71-207 2-154 (326)
52 PF12836 HHH_3: Helix-hairpin- 57.1 3.1 6.7E-05 32.4 -0.3 43 115-158 11-53 (65)
53 PF06143 Baculo_11_kDa: Baculo 56.9 17 0.00036 31.3 4.0 23 20-42 39-61 (84)
54 PRK14601 ruvA Holliday junctio 56.9 7.4 0.00016 36.8 2.1 29 113-141 68-96 (183)
55 PF12826 HHH_2: Helix-hairpin- 56.4 24 0.00052 27.6 4.5 24 115-138 32-55 (64)
56 PF14520 HHH_5: Helix-hairpin- 55.1 7.2 0.00016 29.7 1.4 38 100-137 19-57 (60)
57 TIGR00426 competence protein C 54.6 9.5 0.00021 29.7 2.0 39 117-156 15-54 (69)
58 PF15106 TMEM156: TMEM156 prot 54.3 12 0.00025 37.1 3.0 22 7-28 171-192 (226)
59 PF05399 EVI2A: Ectropic viral 54.2 17 0.00038 36.0 4.1 39 5-43 118-158 (227)
60 PF01102 Glycophorin_A: Glycop 53.1 17 0.00037 32.8 3.6 13 34-46 82-94 (122)
61 PHA03029 hypothetical protein; 53.1 23 0.00049 30.5 4.2 23 48-71 31-53 (92)
62 PHA03029 hypothetical protein; 52.5 16 0.00034 31.5 3.1 14 11-24 5-18 (92)
63 PF12575 DUF3753: Protein of u 52.3 18 0.00038 30.4 3.3 16 11-26 42-57 (72)
64 PF00416 Ribosomal_S13: Riboso 51.5 21 0.00045 30.7 3.8 41 114-154 11-54 (107)
65 TIGR01477 RIFIN variant surfac 51.4 15 0.00032 38.5 3.4 19 24-42 316-334 (353)
66 COG3462 Predicted membrane pro 51.4 47 0.001 30.2 6.0 25 57-81 88-112 (117)
67 PF10717 ODV-E18: Occlusion-de 50.5 18 0.00038 31.3 3.1 12 20-31 30-41 (85)
68 PRK14606 ruvA Holliday junctio 50.3 11 0.00024 35.6 2.1 29 113-141 68-96 (188)
69 PTZ00046 rifin; Provisional 50.3 16 0.00035 38.3 3.4 18 25-42 322-339 (358)
70 PF14584 DUF4446: Protein of u 50.1 16 0.00035 33.7 3.1 9 48-56 25-33 (151)
71 PHA02849 putative transmembran 49.9 16 0.00036 31.3 2.8 19 39-57 54-72 (82)
72 PRK14602 ruvA Holliday junctio 49.9 12 0.00026 35.7 2.3 28 114-141 70-97 (203)
73 TIGR00608 radc DNA repair prot 49.9 12 0.00026 36.1 2.4 61 70-138 12-80 (218)
74 KOG0577|consensus 49.4 58 0.0013 37.4 7.6 29 306-334 408-436 (948)
75 PF14575 EphA2_TM: Ephrin type 49.1 14 0.0003 30.4 2.2 6 37-42 20-25 (75)
76 PHA03011 hypothetical protein; 48.8 21 0.00045 32.2 3.4 20 39-58 22-43 (120)
77 PHA03049 IMV membrane protein; 47.2 24 0.00052 29.4 3.3 25 21-45 4-28 (68)
78 PRK14603 ruvA Holliday junctio 46.9 13 0.00029 35.3 2.1 29 113-141 67-95 (197)
79 PF09972 DUF2207: Predicted me 46.8 22 0.00048 35.6 3.7 10 45-54 457-466 (511)
80 PF05568 ASFV_J13L: African sw 46.5 19 0.00042 34.3 3.0 9 191-199 179-187 (189)
81 PF00558 Vpu: Vpu protein; In 46.5 29 0.00062 29.7 3.8 47 31-82 19-70 (81)
82 PF02009 Rifin_STEVOR: Rifin/s 46.3 16 0.00034 37.2 2.6 17 26-42 264-280 (299)
83 KOG1094|consensus 45.9 16 0.00034 41.3 2.7 29 6-39 384-412 (807)
84 KOG2875|consensus 45.7 39 0.00084 35.1 5.2 89 113-219 213-308 (323)
85 PF04011 LemA: LemA family; I 45.1 6 0.00013 36.3 -0.5 17 29-45 11-27 (186)
86 PHA02975 hypothetical protein; 42.9 34 0.00073 28.7 3.6 8 10-17 40-47 (69)
87 PF12729 4HB_MCP_1: Four helix 42.4 2E+02 0.0042 23.9 8.1 36 87-122 65-100 (181)
88 PF05399 EVI2A: Ectropic viral 41.9 28 0.0006 34.6 3.4 23 19-41 129-151 (227)
89 PF12877 DUF3827: Domain of un 41.2 15 0.00033 41.3 1.7 12 170-181 515-526 (684)
90 PRK14604 ruvA Holliday junctio 40.2 19 0.00041 34.2 2.0 27 114-140 69-95 (195)
91 COG0099 RpsM Ribosomal protein 40.0 22 0.00048 32.4 2.3 41 114-154 13-56 (121)
92 PHA03399 pif3 per os infectivi 39.9 38 0.00082 33.1 4.0 10 13-22 2-11 (200)
93 PHA03097 C-type lectin-like pr 38.5 39 0.00084 30.8 3.7 16 32-47 25-40 (157)
94 KOG2457|consensus 38.4 14 0.00031 39.8 1.0 23 118-140 205-228 (555)
95 PF05454 DAG1: Dystroglycan (D 37.8 11 0.00023 38.3 0.0 18 48-65 180-197 (290)
96 smart00279 HhH2 Helix-hairpin- 37.1 24 0.00052 25.4 1.7 15 122-136 20-34 (36)
97 PHA02657 hypothetical protein; 36.9 33 0.00072 30.1 2.8 14 44-57 71-84 (95)
98 PF04415 DUF515: Protein of un 36.0 68 0.0015 34.5 5.4 19 157-175 197-215 (416)
99 PTZ00134 40S ribosomal protein 35.5 20 0.00043 33.5 1.3 44 109-152 21-67 (154)
100 PRK14604 ruvA Holliday junctio 35.4 28 0.00061 33.1 2.3 61 70-139 62-129 (195)
101 PF13980 UPF0370: Uncharacteri 35.2 30 0.00064 28.5 2.1 11 13-23 7-17 (63)
102 PHA03290 envelope glycoprotein 34.9 17 0.00037 38.1 0.9 31 11-41 269-299 (357)
103 PF07431 DUF1512: Protein of u 34.8 82 0.0018 33.3 5.7 62 44-106 31-106 (355)
104 PF04277 OAD_gamma: Oxaloaceta 34.3 70 0.0015 25.4 4.1 11 32-42 21-31 (79)
105 TIGR02976 phageshock_pspB phag 34.2 1E+02 0.0022 25.8 5.1 13 70-82 34-46 (75)
106 COG0632 RuvA Holliday junction 33.9 27 0.00058 33.8 1.9 30 112-141 67-96 (201)
107 COG1704 LemA Uncharacterized c 33.9 30 0.00064 33.5 2.2 14 200-213 158-171 (185)
108 PHA02692 hypothetical protein; 33.6 58 0.0013 27.4 3.6 10 11-20 42-51 (70)
109 PF15102 TMEM154: TMEM154 prot 33.6 12 0.00027 34.8 -0.3 33 21-61 60-92 (146)
110 COG0353 RecR Recombinational D 33.3 31 0.00067 33.7 2.3 22 112-133 6-27 (198)
111 PHA02819 hypothetical protein; 33.3 55 0.0012 27.6 3.4 9 11-19 43-51 (71)
112 PHA03054 IMV membrane protein; 33.2 56 0.0012 27.6 3.4 10 11-20 45-54 (72)
113 cd00141 NT_POLXc Nucleotidyltr 33.2 35 0.00077 34.1 2.7 30 109-138 36-65 (307)
114 PRK14601 ruvA Holliday junctio 31.9 35 0.00076 32.4 2.3 59 70-137 62-127 (183)
115 PF06667 PspB: Phage shock pro 31.8 1.6E+02 0.0034 24.8 5.8 15 68-82 32-46 (75)
116 PRK07945 hypothetical protein; 31.2 98 0.0021 31.4 5.5 20 119-138 50-69 (335)
117 PF04415 DUF515: Protein of un 30.6 1.6E+02 0.0034 31.8 7.1 16 36-51 47-62 (416)
118 PF05473 Herpes_UL45: UL45 pro 30.6 81 0.0018 30.2 4.6 7 73-79 106-112 (200)
119 PF10853 DUF2650: Protein of u 30.4 26 0.00056 26.2 1.0 19 4-22 16-34 (38)
120 PRK14606 ruvA Holliday junctio 30.4 38 0.00083 32.1 2.3 60 70-138 62-128 (188)
121 PRK10755 sensor protein BasS/P 29.9 1.1E+02 0.0024 29.4 5.3 10 73-82 112-121 (356)
122 PF02969 TAF: TATA box binding 29.9 28 0.00061 28.3 1.2 48 143-201 18-65 (66)
123 COG3598 RepA RecA-family ATPas 29.8 26 0.00056 37.2 1.2 93 78-200 68-163 (402)
124 TIGR02976 phageshock_pspB phag 29.8 68 0.0015 26.8 3.4 7 37-43 21-27 (75)
125 PRK00076 recR recombination pr 29.4 39 0.00085 32.6 2.3 22 113-134 6-27 (196)
126 CHL00137 rps13 ribosomal prote 29.2 50 0.0011 29.6 2.7 39 114-152 13-54 (122)
127 PF03579 SHP: Small hydrophobi 28.9 83 0.0018 26.0 3.6 22 15-36 20-41 (64)
128 PRK08609 hypothetical protein; 28.8 1.6E+02 0.0036 32.1 7.0 31 108-138 38-68 (570)
129 PF00558 Vpu: Vpu protein; In 28.8 62 0.0013 27.7 3.1 19 25-43 10-28 (81)
130 PF14584 DUF4446: Protein of u 28.3 65 0.0014 29.8 3.4 7 148-154 121-127 (151)
131 PRK14603 ruvA Holliday junctio 28.3 44 0.00094 31.9 2.3 60 70-138 61-127 (197)
132 PF02932 Neur_chan_memb: Neuro 28.0 1.3E+02 0.0027 25.0 4.7 13 192-204 212-225 (237)
133 PHA02844 putative transmembran 27.9 86 0.0019 26.7 3.7 7 12-18 46-52 (75)
134 PRK00269 zipA cell division pr 27.9 47 0.001 34.2 2.6 37 164-200 240-277 (293)
135 PF13789 DUF4181: Domain of un 27.8 88 0.0019 26.9 3.9 14 6-19 25-38 (110)
136 PHA02650 hypothetical protein; 27.8 87 0.0019 27.0 3.7 6 12-17 47-52 (81)
137 PRK07718 fliL flagellar basal 27.7 83 0.0018 28.3 3.9 20 82-101 86-107 (142)
138 PF11798 IMS_HHH: IMS family H 27.5 39 0.00084 23.6 1.4 15 120-134 13-27 (32)
139 PHA02844 putative transmembran 27.3 76 0.0017 27.0 3.3 11 12-22 43-53 (75)
140 PF06160 EzrA: Septation ring 27.1 37 0.0008 36.7 1.8 11 46-56 57-67 (560)
141 PF08496 Peptidase_S49_N: Pept 26.9 2.3E+02 0.0049 26.5 6.7 19 130-154 120-138 (155)
142 PRK09458 pspB phage shock prot 26.9 1.3E+02 0.0028 25.6 4.5 14 69-82 33-46 (75)
143 TIGR00615 recR recombination p 26.7 47 0.001 32.2 2.3 22 113-134 6-27 (195)
144 PRK13901 ruvA Holliday junctio 26.7 48 0.001 32.0 2.3 60 70-138 61-127 (196)
145 PRK11677 hypothetical protein; 26.5 69 0.0015 29.4 3.2 8 38-45 18-25 (134)
146 PF05751 FixH: FixH; InterPro 26.4 9.2 0.0002 33.0 -2.3 28 52-86 36-63 (146)
147 PRK14602 ruvA Holliday junctio 26.4 50 0.0011 31.6 2.4 60 70-138 63-129 (203)
148 TIGR01386 cztS_silS_copS heavy 25.9 1.7E+02 0.0036 28.6 5.9 9 74-82 217-225 (457)
149 PRK09793 methyl-accepting prot 25.9 1.1E+02 0.0024 32.2 5.1 10 72-81 240-249 (533)
150 PF13314 DUF4083: Domain of un 25.7 1.5E+02 0.0032 24.3 4.5 8 34-41 26-33 (58)
151 COG1622 CyoA Heme/copper-type 25.7 1E+02 0.0022 30.7 4.4 28 12-40 30-57 (247)
152 PRK13844 recombination protein 25.4 51 0.0011 32.1 2.2 22 113-134 10-31 (200)
153 smart00483 POLXc DNA polymeras 25.3 60 0.0013 33.0 2.8 27 112-138 83-109 (334)
154 PHA02681 ORF089 virion membran 25.3 69 0.0015 28.0 2.8 19 71-96 51-69 (92)
155 KOG3637|consensus 25.3 43 0.00094 39.3 2.1 22 6-27 970-991 (1030)
156 smart00483 POLXc DNA polymeras 25.2 50 0.0011 33.5 2.3 57 87-144 16-74 (334)
157 TIGR03631 bact_S13 30S ribosom 25.2 58 0.0012 28.8 2.4 38 117-154 14-54 (113)
158 COG1059 Thermostable 8-oxoguan 25.2 5.7E+02 0.012 25.5 9.2 78 116-203 118-202 (210)
159 PHA02650 hypothetical protein; 25.2 87 0.0019 27.0 3.3 13 12-24 44-56 (81)
160 COG4768 Uncharacterized protei 25.1 50 0.0011 30.9 2.0 23 18-40 3-25 (139)
161 cd00141 NT_POLXc Nucleotidyltr 24.9 57 0.0012 32.6 2.6 54 112-170 79-134 (307)
162 PF13858 DUF4199: Protein of u 24.8 1.4E+02 0.0031 26.1 4.8 55 26-84 75-129 (163)
163 PRK03980 flap endonuclease-1; 24.8 1.7E+02 0.0037 29.4 5.9 68 122-201 193-273 (292)
164 KOG2534|consensus 24.6 73 0.0016 33.6 3.3 46 108-153 46-95 (353)
165 PF04011 LemA: LemA family; I 24.4 25 0.00055 32.3 0.0 9 44-52 21-29 (186)
166 TIGR00084 ruvA Holliday juncti 24.2 56 0.0012 30.9 2.3 21 118-138 107-127 (191)
167 PRK05179 rpsM 30S ribosomal pr 24.2 40 0.00088 30.1 1.3 38 116-153 15-55 (122)
168 COG4339 Uncharacterized protei 24.0 1.9E+02 0.0042 28.4 5.8 52 149-211 27-79 (208)
169 PRK15048 methyl-accepting chem 23.7 97 0.0021 32.5 4.1 9 74-82 244-252 (553)
170 COG4741 Predicted secreted end 23.4 78 0.0017 30.4 3.0 7 141-147 94-100 (175)
171 PRK04053 rps13p 30S ribosomal 23.2 48 0.001 30.8 1.5 59 110-168 17-80 (149)
172 PF09451 ATG27: Autophagy-rela 23.1 97 0.0021 30.4 3.7 34 30-65 216-252 (268)
173 PF04277 OAD_gamma: Oxaloaceta 23.1 1.7E+02 0.0038 23.2 4.6 6 38-43 31-36 (79)
174 cd00080 HhH2_motif Helix-hairp 23.0 56 0.0012 26.4 1.7 18 121-138 25-42 (75)
175 PF00672 HAMP: HAMP domain; I 22.9 1.2E+02 0.0026 22.5 3.4 14 31-44 11-24 (70)
176 PRK09835 sensor kinase CusS; P 22.8 1.6E+02 0.0034 29.2 5.1 13 74-86 238-250 (482)
177 PHA03093 EEV glycoprotein; Pro 22.8 1.4E+02 0.0031 29.1 4.7 8 49-56 59-66 (185)
178 PRK09470 cpxA two-component se 22.7 1.4E+02 0.0031 29.2 4.8 11 73-83 218-228 (461)
179 PF06667 PspB: Phage shock pro 22.7 1.1E+02 0.0024 25.7 3.4 6 38-43 22-27 (75)
180 PF10858 DUF2659: Protein of u 22.6 99 0.0022 30.5 3.6 34 177-210 155-188 (220)
181 TIGR03629 arch_S13P archaeal r 22.3 45 0.00099 30.7 1.2 40 114-153 17-59 (144)
182 PRK14538 putative bifunctional 22.1 1.1E+02 0.0024 35.3 4.4 15 97-111 98-112 (838)
183 PF00502 Phycobilisome: Phycob 21.9 1.4E+02 0.003 27.2 4.2 105 68-180 10-135 (157)
184 PF02439 Adeno_E3_CR2: Adenovi 21.6 1.5E+02 0.0033 22.4 3.6 11 30-40 18-28 (38)
185 PF12133 Sars6: Open reading f 21.4 1.9E+02 0.0042 23.6 4.4 24 30-53 31-54 (62)
186 KOG0510|consensus 20.9 2E+02 0.0043 33.9 6.0 35 48-94 578-612 (929)
187 PHA02909 hypothetical protein; 20.8 1.6E+02 0.0034 24.4 3.9 10 17-26 34-43 (72)
188 PF14992 TMCO5: TMCO5 family 20.7 2.5E+02 0.0054 28.9 6.1 45 15-66 214-258 (280)
189 PRK14710 hypothetical protein; 20.6 89 0.0019 26.8 2.5 14 29-42 20-33 (86)
190 PRK00116 ruvA Holliday junctio 20.1 82 0.0018 29.6 2.4 24 117-140 107-130 (192)
No 1
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=96.83 E-value=0.00093 Score=46.32 Aligned_cols=24 Identities=29% Similarity=0.497 Sum_probs=20.1
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhh
Q psy4731 114 ELALSALSNLKGVGTTLASALLAA 137 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa 137 (436)
.+.++.|++|+||||.||.+||+.
T Consensus 7 pas~eeL~~lpGIG~~tA~~I~~~ 30 (30)
T PF00633_consen 7 PASIEELMKLPGIGPKTANAILSF 30 (30)
T ss_dssp TSSHHHHHTSTT-SHHHHHHHHHH
T ss_pred CCCHHHHHhCCCcCHHHHHHHHhC
Confidence 346889999999999999999973
No 2
>COG0177 Nth Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]
Probab=96.23 E-value=0.013 Score=56.29 Aligned_cols=61 Identities=26% Similarity=0.258 Sum_probs=45.9
Q ss_pred CHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCCCCccCHHHHHHHHHHHHHHHHHHhhhccCCCCC
Q psy4731 112 NLELALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIEGIDYTTKEYLKFVNFINNTVERLNKESKNGTGT 191 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~kIKYTlKEYlell~~vr~LakRLn~e~~~g~~~ 191 (436)
++...++.|.+|+|||+-||..+|+.+. ..|.|. .-.++.++++|++-. ..
T Consensus 103 ~vP~~~~eL~~LPGVGrKTAnvVL~~a~--g~p~i~----------------------VDTHV~Rvs~R~gl~-----~~ 153 (211)
T COG0177 103 EVPDTREELLSLPGVGRKTANVVLSFAF--GIPAIA----------------------VDTHVHRVSNRLGLV-----PG 153 (211)
T ss_pred CCCchHHHHHhCCCcchHHHHHHHHhhc--CCCccc----------------------ccchHHHHHHHhCCC-----CC
Confidence 4678999999999999999999999975 223221 114778888888543 35
Q ss_pred cChhHHHHHH
Q psy4731 192 WNAHQVELAL 201 (436)
Q Consensus 192 wT~~dVEKAL 201 (436)
.++..+|+.|
T Consensus 154 ~~p~~ve~~L 163 (211)
T COG0177 154 KTPEEVEEAL 163 (211)
T ss_pred CCHHHHHHHH
Confidence 7888888875
No 3
>PRK01229 N-glycosylase/DNA lyase; Provisional
Probab=95.26 E-value=0.054 Score=51.85 Aligned_cols=81 Identities=23% Similarity=0.347 Sum_probs=58.5
Q ss_pred CHHHHHHHhh-cCCCCcHHHHHHHH-hhcCCCCCccccHHHHHhc---CCC-CCC--ccCHHHHHHHHHHHHHHHHHHhh
Q psy4731 112 NLELALSALS-NLKGVGTTLASALL-AAATPEVAPFMADECLMAI---PEI-EGI--DYTTKEYLKFVNFINNTVERLNK 183 (436)
Q Consensus 112 DV~aAL~~LT-kLKGVGPATASAIL-Aa~~Pe~vPFFSDEAf~~l---pg~-~kI--KYTlKEYlell~~vr~LakRLn~ 183 (436)
++..+.+.|. +||||||=||+.|| .++. ..-|.-|--..-+ -|. ... .-|.+.|.+.-..+++.++.+
T Consensus 112 ~~~~~R~~Ll~~lpGIG~KTAd~vL~~~~~--~~~~iVDtHv~Ri~~RlG~~~~~~~~lt~~~y~~~E~~l~~~~~~~-- 187 (208)
T PRK01229 112 DQFEAREFLVKNIKGIGYKEASHFLRNVGY--EDLAILDRHILRFLKRYGLIEEIPKTLSKKRYLEIEEILREIAEEL-- 187 (208)
T ss_pred CchHHHHHHHHcCCCCcHHHHHHHHHHccC--CCeeeeeHHHHHHHHHhCCCcccccccCcCCHHHHHHHHHHHHHHc--
Confidence 5678999999 99999999999999 4544 2335567644322 121 111 345689999999999999986
Q ss_pred hccCCCCCcChhHHHHHHHH
Q psy4731 184 ESKNGTGTWNAHQVELALWT 203 (436)
Q Consensus 184 e~~~g~~~wT~~dVEKALWA 203 (436)
.+.+..+-..+|-
T Consensus 188 -------~~~~~~Ldl~~w~ 200 (208)
T PRK01229 188 -------GISLGELDLYIWY 200 (208)
T ss_pred -------CCCHHHHHHHHHH
Confidence 4678888888875
No 4
>cd00056 ENDO3c endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=94.51 E-value=0.21 Score=43.54 Aligned_cols=38 Identities=29% Similarity=0.224 Sum_probs=28.4
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMADECL 151 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf 151 (436)
...+.+.|++||||||-||+.+|..+.- .--|-.|-..
T Consensus 78 ~~~~~~~L~~l~GIG~~tA~~~l~~~~~-~~~~pvD~~v 115 (158)
T cd00056 78 DPDAREELLALPGVGRKTANVVLLFALG-PDAFPVDTHV 115 (158)
T ss_pred CcccHHHHHcCCCCCHHHHHHHHHHHCC-CCCCccchhH
Confidence 3678999999999999999999987653 2233336533
No 5
>PF15102 TMEM154: TMEM154 protein family
Probab=94.46 E-value=0.011 Score=54.49 Aligned_cols=34 Identities=12% Similarity=0.478 Sum_probs=15.4
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Q psy4731 7 HYHKHHLWFIIIIIIIIIIIIIIIIIIIIIIIIINRIPI 45 (436)
Q Consensus 7 ~~~~~~~~~~i~i~ii~~~ii~~i~~~~~~iiiin~ip~ 45 (436)
.|+| ++||+|+.|.+ .++|+++|++|+++.|...
T Consensus 54 q~ef---iLmIlIP~VLL--vlLLl~vV~lv~~~kRkr~ 87 (146)
T PF15102_consen 54 QLEF---ILMILIPLVLL--VLLLLSVVCLVIYYKRKRT 87 (146)
T ss_pred Ccce---EEEEeHHHHHH--HHHHHHHHHheeEEeeccc
Confidence 4555 34444443333 3334444455555566544
No 6
>PHA03240 envelope glycoprotein M; Provisional
Probab=94.40 E-value=0.019 Score=56.38 Aligned_cols=24 Identities=42% Similarity=0.632 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHhccCCcccccchhhHH
Q psy4731 30 IIIIIIIIIIINRIPIHSNISNIGWYQ 56 (436)
Q Consensus 30 i~~~~~~iiiin~ip~~~L~eLD~Wry 56 (436)
||||||||+++++|||+-+ |+|..
T Consensus 220 IIiIiIIIL~cfKiPQKl~---dKw~~ 243 (258)
T PHA03240 220 IIIIIVIILFFFKIPQKLF---DKWDL 243 (258)
T ss_pred HHHHHHHHHHHHhccHHHH---HHHhh
Confidence 4445667788999999654 56654
No 7
>TIGR01084 mutY A/G-specific adenine glycosylase. This equivalog model identifies mutY members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=92.97 E-value=0.16 Score=50.11 Aligned_cols=36 Identities=31% Similarity=0.408 Sum_probs=28.2
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMADE 149 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDE 149 (436)
+...++.|++|+||||-||++||+.+.-...| +-|-
T Consensus 100 ~p~~~~~L~~LpGIG~~TA~~Il~~a~~~~~~-~vD~ 135 (275)
T TIGR01084 100 FPQDFEDLAALPGVGRYTAGAILSFALNKPYP-ILDG 135 (275)
T ss_pred CcHHHHHHHhCCCCCHHHHHHHHHHHCCCCCC-cchH
Confidence 34578999999999999999999998743344 4555
No 8
>PRK13913 3-methyladenine DNA glycosylase; Provisional
Probab=92.78 E-value=0.54 Score=45.36 Aligned_cols=39 Identities=21% Similarity=0.253 Sum_probs=30.6
Q ss_pred HHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhc
Q psy4731 115 LALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAI 154 (436)
Q Consensus 115 aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~l 154 (436)
...+.|.+||||||-||.+||..+. .+.-|.-|--..-+
T Consensus 118 ~~re~Ll~l~GIG~kTAd~iLlya~-~rp~fvVDty~~Rv 156 (218)
T PRK13913 118 VTREWLLDQKGIGKESADAILCYVC-AKEVMVVDKYSYLF 156 (218)
T ss_pred hHHHHHHcCCCccHHHHHHHHHHHc-CCCccccchhHHHH
Confidence 4668899999999999999998876 34557778755443
No 9
>PRK10702 endonuclease III; Provisional
Probab=92.59 E-value=0.19 Score=47.80 Aligned_cols=36 Identities=28% Similarity=0.306 Sum_probs=28.5
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMADE 149 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDE 149 (436)
+..+.+.|.+|+||||-||.+||..+.- ..-|.-|-
T Consensus 104 ~p~~~~~Ll~lpGVG~ktA~~ill~a~~-~~~~~VDt 139 (211)
T PRK10702 104 VPEDRAALEALPGVGRKTANVVLNTAFG-WPTIAVDT 139 (211)
T ss_pred CCchHHHHhcCCcccHHHHHHHHHHHcC-CCcccccc
Confidence 4578999999999999999999998863 33455554
No 10
>smart00478 ENDO3c endonuclease III. includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases
Probab=91.97 E-value=0.16 Score=43.93 Aligned_cols=35 Identities=31% Similarity=0.425 Sum_probs=27.5
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMADE 149 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDE 149 (436)
+....+.|++||||||-||+++|..+.-. +||-.+
T Consensus 67 ~~~~~~~L~~l~GIG~~tA~~~l~~~~~~--~~~~~D 101 (149)
T smart00478 67 VPDDREELLKLPGVGRKTANAVLSFALGK--PFIPVD 101 (149)
T ss_pred ccHHHHHHHcCCCCcHHHHHHHHHHHCCC--CCCccc
Confidence 44678899999999999999999988644 444433
No 11
>COG0122 AlkA 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=91.89 E-value=1.3 Score=44.15 Aligned_cols=71 Identities=23% Similarity=0.151 Sum_probs=50.7
Q ss_pred CcCHHHHHHHHHHhhh--hHHHHhhcCHHHHHHHHHHHHhhCc--------CHHHHHHHhhcCCCCcHHHHHHHHhhcC-
Q psy4731 71 HLNHEELVQLMKWKQT--LNYLVKVNTPRAVMMETKKAFKKLP--------NLELALSALSNLKGVGTTLASALLAAAT- 139 (436)
Q Consensus 71 ~LTKDELVkLMEWKLt--L~kLVkSN~e~~Ve~~TkkAF~~Lp--------DV~aAL~~LTkLKGVGPATASAILAa~~- 139 (436)
+.|-+.|..+=++-|+ .+..-| .+.++.+++...+..+ +.+.+++.|++||||||-||-.+|-..-
T Consensus 144 fptpe~l~~~~~~~l~~~g~s~~K---a~yi~~~A~~~~~g~~~~~~l~~~~~e~a~e~L~~i~GIG~WTAe~~llf~lg 220 (285)
T COG0122 144 FPTPEQLAAADEEALRRCGLSGRK---AEYIISLARAAAEGELDLSELKPLSDEEAIEELTALKGIGPWTAEMFLLFGLG 220 (285)
T ss_pred CCCHHHHHhcCHHHHHHhCCcHHH---HHHHHHHHHHHHcCCccHHHhccCCHHHHHHHHHcCCCcCHHHHHHHHHHcCC
Confidence 6888888888888776 111112 3567777776665422 3578999999999999999999987653
Q ss_pred -CCCCc
Q psy4731 140 -PEVAP 144 (436)
Q Consensus 140 -Pe~vP 144 (436)
|+.+|
T Consensus 221 r~dvfP 226 (285)
T COG0122 221 RPDVFP 226 (285)
T ss_pred CCCCCC
Confidence 55544
No 12
>PRK02515 psbU photosystem II complex extrinsic protein precursor U; Provisional
Probab=91.09 E-value=0.14 Score=46.73 Aligned_cols=50 Identities=20% Similarity=0.319 Sum_probs=37.2
Q ss_pred HHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCCCC-ccCHHHHHH
Q psy4731 115 LALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIEGI-DYTTKEYLK 169 (436)
Q Consensus 115 aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~kI-KYTlKEYle 169 (436)
+..+.|..|+||||++|..|. .+.||-|=|-+..++|.... +=.++.|+.
T Consensus 58 A~~~el~~lpGigP~~A~~IV-----~nGpf~sveDL~~V~GIgekqk~~l~k~~~ 108 (132)
T PRK02515 58 SSVRAFRQFPGMYPTLAGKIV-----KNAPYDSVEDVLNLPGLSERQKELLEANLD 108 (132)
T ss_pred cCHHHHHHCCCCCHHHHHHHH-----HCCCCCCHHHHHcCCCCCHHHHHHHHHhhc
Confidence 455678889999999999999 37899998888888885432 334444443
No 13
>COG1194 MutY A/G-specific DNA glycosylase [DNA replication, recombination, and repair]
Probab=90.89 E-value=0.25 Score=50.94 Aligned_cols=37 Identities=27% Similarity=0.328 Sum_probs=28.6
Q ss_pred HHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHH
Q psy4731 116 ALSALSNLKGVGTTLASALLAAATPEVAPFMADECLM 152 (436)
Q Consensus 116 AL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~ 152 (436)
-.+.|.+|+||||.||+||||.+.-...|+..--+..
T Consensus 111 ~~~~l~~LpGiG~yTa~Ail~~a~~~~~~~lDgNV~R 147 (342)
T COG1194 111 DEEELAALPGVGPYTAGAILSFAFNQPEPVLDGNVKR 147 (342)
T ss_pred CHHHHHhCCCCcHHHHHHHHHHHhCCCCceeecchhe
Confidence 3455667999999999999999987677766554444
No 14
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=90.89 E-value=0.16 Score=54.06 Aligned_cols=55 Identities=15% Similarity=0.127 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhccCCcccccchhhHHhhcch----hHhhcCCCCCcCHHHHHHHHHHhhh
Q psy4731 31 IIIIIIIIIINRIPIHSNISNIGWYQNELPK----KIKARGKDAHLNHEELVQLMKWKQT 86 (436)
Q Consensus 31 ~~~~~~iiiin~ip~~~L~eLD~WryeELP~----~Ik~R~k~~~LTKDELVkLMEWKLt 86 (436)
||++++.+++.|--.+.+.+|+.|..+-.-. -|..- +.-+||=+-+.+.=+|+-.
T Consensus 14 i~~~~~~~~~rr~~~~~i~~Le~~k~~l~~~pv~~el~kv-k~l~l~Ges~~~f~~w~~~ 72 (569)
T PRK04778 14 IIAYLAGLILRKRNYKRIDELEERKQELENLPVNDELEKV-KKLNLTGQSEEKFEEWRQK 72 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH-hcCCCCcccHHHHHHHHHH
Confidence 3333444777788888899999998853322 23222 3568888888888889886
No 15
>TIGR01083 nth endonuclease III. This equivalog model identifes nth members of the pfam00730 superfamily (HhH-GPD: Helix-hairpin-helix and Gly/Pro rich loop followed by a conserved aspartate). The major members of the superfamily are nth and mutY.
Probab=90.85 E-value=0.4 Score=44.11 Aligned_cols=38 Identities=24% Similarity=0.261 Sum_probs=28.4
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMADECL 151 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf 151 (436)
+..+.+.|++||||||-||.+||..+.-. .-|.-|--.
T Consensus 101 ~~~~~~~L~~l~GIG~ktA~~ill~~~~~-~~~~vD~~v 138 (191)
T TIGR01083 101 VPEDREELVKLPGVGRKTANVVLNVAFGI-PAIAVDTHV 138 (191)
T ss_pred CchHHHHHHhCCCCcHHHHHHHHHHHcCC-CccccchhH
Confidence 44578899999999999999999887532 225556533
No 16
>TIGR00588 ogg 8-oxoguanine DNA-glycosylase (ogg). All proteins in this family for which functions are known are 8-oxo-guanaine DNA glycosylases that function in base excision repair. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is distantly realted to the Nth-MutY superfamily.
Probab=90.62 E-value=0.74 Score=45.93 Aligned_cols=63 Identities=24% Similarity=0.284 Sum_probs=41.0
Q ss_pred CHHHHHHHhhcCCCCcHHHHHHHHhhcC--CCCCccccHHHHHh-----cCCCCCC-c---cCHHHHHHHHHHHHH
Q psy4731 112 NLELALSALSNLKGVGTTLASALLAAAT--PEVAPFMADECLMA-----IPEIEGI-D---YTTKEYLKFVNFINN 176 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASAILAa~~--Pe~vPFFSDEAf~~-----lpg~~kI-K---YTlKEYlell~~vr~ 176 (436)
+...+.+.|+.||||||-||.+||..+. |+.+| .|-...- +....+. + =+-+.|.++.+..++
T Consensus 214 ~~~~~~~~L~~l~GIG~~tAd~vll~~l~~~d~~P--vD~~v~r~~~r~y~~~~~~~~~~~~~~~~~~~i~~~~~~ 287 (310)
T TIGR00588 214 SYEDAREALCELPGVGPKVADCICLMGLDKPQAVP--VDVHVWRIANRDYPWHPKTSRAKGPSPFARKELGNFFRS 287 (310)
T ss_pred ChHHHHHHHHhCCCccHHHHHHHHHHhCCCCCcee--ecHHHHHHHHHHhcccccccccccCChhHHHHHHHHHHH
Confidence 4668999999999999999999997764 66666 3754332 2221122 1 245677666555444
No 17
>PRK10880 adenine DNA glycosylase; Provisional
Probab=89.93 E-value=0.25 Score=50.54 Aligned_cols=35 Identities=26% Similarity=0.401 Sum_probs=28.3
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCcccc-HH
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEVAPFMA-DE 149 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFS-DE 149 (436)
+....+.|.+|+||||-||.+||+.+.-. ||+- |=
T Consensus 104 ~p~~~~~L~~LpGIG~~TA~aIl~~af~~--~~~iVD~ 139 (350)
T PRK10880 104 FPETFEEVAALPGVGRSTAGAILSLSLGK--HFPILDG 139 (350)
T ss_pred chhhHHHHhcCCCccHHHHHHHHHHHCCC--CeecccH
Confidence 45788999999999999999999988733 4544 54
No 18
>PRK13910 DNA glycosylase MutY; Provisional
Probab=89.72 E-value=0.26 Score=49.18 Aligned_cols=73 Identities=23% Similarity=0.350 Sum_probs=42.7
Q ss_pred CCcCHHHHHHHHHHhhhhHHHHhhcCHHHHHHHHHHHHhh-CcCHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccH
Q psy4731 70 AHLNHEELVQLMKWKQTLNYLVKVNTPRAVMMETKKAFKK-LPNLELALSALSNLKGVGTTLASALLAAATPEVAPFMAD 148 (436)
Q Consensus 70 ~~LTKDELVkLMEWKLtL~kLVkSN~e~~Ve~~TkkAF~~-LpDV~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSD 148 (436)
...+.+||.++ |+=- =++-| ...+.++++.-.+. .-.+....+.|.+|+||||-||.+||+.+.-.. -|.-|
T Consensus 29 a~a~~~el~~~--~~gl-Gyy~R---Ar~L~~~A~~i~~~~~g~~P~~~~~L~~LpGIG~kTA~aIl~~af~~~-~~~VD 101 (289)
T PRK13910 29 ANAPLEEVLLL--WRGL-GYYSR---AKNLKKSAEICVKEHHSQLPNDYQSLLKLPGIGAYTANAILCFGFREK-SACVD 101 (289)
T ss_pred HCCCHHHHHHH--HHcC-CcHHH---HHHHHHHHHHHHHHhCCCCChhHHHHHhCCCCCHHHHHHHHHHHCCCC-cCccc
Confidence 35677888776 5432 11111 33444444432221 112234689999999999999999999987432 23455
Q ss_pred H
Q psy4731 149 E 149 (436)
Q Consensus 149 E 149 (436)
-
T Consensus 102 ~ 102 (289)
T PRK13910 102 A 102 (289)
T ss_pred H
Confidence 4
No 19
>PRK10308 3-methyl-adenine DNA glycosylase II; Provisional
Probab=89.54 E-value=0.38 Score=47.55 Aligned_cols=34 Identities=21% Similarity=0.294 Sum_probs=27.9
Q ss_pred cCHHHHHHHhhcCCCCcHHHHHHHHhhc--CCCCCc
Q psy4731 111 PNLELALSALSNLKGVGTTLASALLAAA--TPEVAP 144 (436)
Q Consensus 111 pDV~aAL~~LTkLKGVGPATASAILAa~--~Pe~vP 144 (436)
.+...+++.|+.||||||-||..||-.+ .|+.+|
T Consensus 200 ~~~~~~~~~L~~LpGIGpwTA~~vllr~lg~~D~fp 235 (283)
T PRK10308 200 GDVEQAMKTLQTFPGIGRWTANYFALRGWQAKDVFL 235 (283)
T ss_pred CCHHHHHHHHhcCCCcCHHHHHHHHHHhCCCCCCCC
Confidence 3567899999999999999999988654 576655
No 20
>TIGR03252 uncharacterized HhH-GPD family protein. This model describes a small, well-conserved bacterial protein family. Its sequence largely consists of a domain, HhH-GPD, found in a variety of related base excision DNA repair enzymes (see pfam00730).
Probab=88.68 E-value=0.37 Score=45.60 Aligned_cols=41 Identities=24% Similarity=0.207 Sum_probs=30.7
Q ss_pred cCHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHh
Q psy4731 111 PNLELALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMA 153 (436)
Q Consensus 111 pDV~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~ 153 (436)
|+-....+.|.+|+||||-||..||+...-+ =-.-||-|.-
T Consensus 108 p~t~~lre~Ll~LpGVG~KTAnvVL~~l~~~--~~~~~~~~~~ 148 (177)
T TIGR03252 108 PDGKELLRRLKALPGFGKQKAKIFLALLGKQ--LGVTPEGWRE 148 (177)
T ss_pred CCcHHHHHHHHcCCCCCHHHHHHHHHHHHHH--hCCCCcchHH
Confidence 4556668999999999999999999976522 1245677764
No 21
>PF02371 Transposase_20: Transposase IS116/IS110/IS902 family; InterPro: IPR003346 Transposases are needed for efficient transposition of the insertion sequence or transposon DNA. This family includes transposases for IS116, IS110 and IS902. It is often found with the transposase IS111A/IS1328/IS1533 family (see IPR002525 from INTERPRO) [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=87.69 E-value=0.47 Score=38.66 Aligned_cols=44 Identities=23% Similarity=0.414 Sum_probs=32.0
Q ss_pred HHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCCCCcc
Q psy4731 118 SALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIEGIDY 162 (436)
Q Consensus 118 ~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~kIKY 162 (436)
+.|+.++||||-||..||+.. .+---|=+...|..+.|..+..|
T Consensus 2 ~~l~sipGig~~~a~~llaei-gd~~rF~~~~~l~~~~Gl~P~~~ 45 (87)
T PF02371_consen 2 ELLTSIPGIGPITAATLLAEI-GDISRFKSAKQLASYAGLAPRPY 45 (87)
T ss_pred chhcCCCCccHHHHHHHHHHH-cCchhcccchhhhhccccccccc
Confidence 468899999999999999987 33335667777777655444333
No 22
>TIGR01259 comE comEA protein. This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation.
Probab=84.35 E-value=0.76 Score=40.20 Aligned_cols=43 Identities=26% Similarity=0.376 Sum_probs=35.1
Q ss_pred HHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCC
Q psy4731 115 LALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIE 158 (436)
Q Consensus 115 aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~ 158 (436)
+....|..|+||||.+|..||.-.. ...+|-|-|-+..++|..
T Consensus 65 A~~~eL~~lpGIG~~~A~~Ii~~R~-~~g~f~s~eeL~~V~GIg 107 (120)
T TIGR01259 65 ASLEELQALPGIGPAKAKAIIEYRE-ENGAFKSVDDLTKVSGIG 107 (120)
T ss_pred CCHHHHhcCCCCCHHHHHHHHHHHH-hcCCcCCHHHHHcCCCCC
Confidence 5667899999999999999998864 577898877777777643
No 23
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=83.06 E-value=0.6 Score=49.95 Aligned_cols=57 Identities=16% Similarity=0.142 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHhccCCcccccchhhHHhhcchhHhhc---CCCCCcCHHHHHHHHHHhhh
Q psy4731 30 IIIIIIIIIIINRIPIHSNISNIGWYQNELPKKIKAR---GKDAHLNHEELVQLMKWKQT 86 (436)
Q Consensus 30 i~~~~~~iiiin~ip~~~L~eLD~WryeELP~~Ik~R---~k~~~LTKDELVkLMEWKLt 86 (436)
+|+++++++++.|--...+.+|+.|+.+-.-.-+..+ -+.-+|+-+-+.+.=.|+-.
T Consensus 9 ~l~~~~~~~~~rk~~~k~i~~Le~~k~~l~~~pv~~el~kvk~l~l~Gqt~~~fe~w~~~ 68 (560)
T PF06160_consen 9 VLIIYIIGYIYRKRYYKEIDELEERKNELMNLPVADELSKVKKLNLTGQTEEKFEEWRQK 68 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhccccHHHHHHHHHHHHH
Confidence 3344445556677777889999999885332222221 13458898888888899887
No 24
>smart00278 HhH1 Helix-hairpin-helix DNA-binding motif class 1.
Probab=81.48 E-value=1.2 Score=29.42 Aligned_cols=19 Identities=32% Similarity=0.536 Sum_probs=16.9
Q ss_pred HhhcCCCCcHHHHHHHHhh
Q psy4731 119 ALSNLKGVGTTLASALLAA 137 (436)
Q Consensus 119 ~LTkLKGVGPATASAILAa 137 (436)
.|.+++|||+.+|..|+..
T Consensus 2 ~L~~i~GiG~k~A~~il~~ 20 (26)
T smart00278 2 ELLKVPGIGPKTAEKILEA 20 (26)
T ss_pred hhhhCCCCCHHHHHHHHHh
Confidence 4789999999999999974
No 25
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=80.65 E-value=0.51 Score=48.50 Aligned_cols=8 Identities=13% Similarity=0.447 Sum_probs=0.0
Q ss_pred ccchhhHH
Q psy4731 49 ISNIGWYQ 56 (436)
Q Consensus 49 ~eLD~Wry 56 (436)
..|--|+|
T Consensus 118 LaL~vW~Y 125 (381)
T PF05297_consen 118 LALGVWFY 125 (381)
T ss_dssp --------
T ss_pred HHHHHHHH
Confidence 34444555
No 26
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=77.28 E-value=2.3 Score=43.10 Aligned_cols=10 Identities=40% Similarity=0.159 Sum_probs=6.5
Q ss_pred HHHhhhhHHH
Q psy4731 81 MKWKQTLNYL 90 (436)
Q Consensus 81 MEWKLtL~kL 90 (436)
|.|||--.+|
T Consensus 287 mkKKlQYiKL 296 (299)
T PF02009_consen 287 MKKKLQYIKL 296 (299)
T ss_pred hhHHHHHHHH
Confidence 7788874443
No 27
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=76.27 E-value=1.9 Score=37.23 Aligned_cols=26 Identities=23% Similarity=0.342 Sum_probs=22.5
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT 139 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~ 139 (436)
.+.+..|+.|+|||||||-=+..++.
T Consensus 8 ~~~~~~L~~iP~IG~a~a~DL~~LGi 33 (93)
T PF11731_consen 8 RAGLSDLTDIPNIGKATAEDLRLLGI 33 (93)
T ss_pred HHHHHHHhcCCCccHHHHHHHHHcCC
Confidence 45788999999999999998887775
No 28
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=75.84 E-value=2.9 Score=35.94 Aligned_cols=7 Identities=14% Similarity=0.648 Sum_probs=3.2
Q ss_pred HHHHHhc
Q psy4731 36 IIIIINR 42 (436)
Q Consensus 36 ~iiiin~ 42 (436)
+|++|+.
T Consensus 40 lImlfqs 46 (85)
T PF10717_consen 40 LIMLFQS 46 (85)
T ss_pred HHHHHhc
Confidence 3445544
No 29
>PF14716 HHH_8: Helix-hairpin-helix domain; PDB: 2W9M_A 1HUZ_A 1HUO_A 2BPG_B 2BPF_A 1DK3_A 1BPE_A 1BNO_A 1BNP_A 1DK2_A ....
Probab=73.41 E-value=5.4 Score=31.35 Aligned_cols=31 Identities=29% Similarity=0.394 Sum_probs=23.1
Q ss_pred HHHhhCcCHHHHHHH-hhcCCCCcHHHHHHHH
Q psy4731 105 KAFKKLPNLELALSA-LSNLKGVGTTLASALL 135 (436)
Q Consensus 105 kAF~~LpDV~aAL~~-LTkLKGVGPATASAIL 135 (436)
.+.+.+|..-..++. |.+|+|||+.+|.-|-
T Consensus 33 ~~i~~l~~~i~~~~~~~~~l~gIG~~ia~kI~ 64 (68)
T PF14716_consen 33 AAIKALPYPITSGEEDLKKLPGIGKSIAKKID 64 (68)
T ss_dssp HHHHHSSS-HHSHHHHHCTSTTTTHHHHHHHH
T ss_pred HHHHhCCHhHhhHHHHHhhCCCCCHHHHHHHH
Confidence 344567766566675 9999999999998774
No 30
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=72.19 E-value=1.2 Score=45.90 Aligned_cols=7 Identities=57% Similarity=0.961 Sum_probs=0.0
Q ss_pred HHHHHHH
Q psy4731 34 IIIIIII 40 (436)
Q Consensus 34 ~~~iiii 40 (436)
|||.|||
T Consensus 84 Ciilimi 90 (381)
T PF05297_consen 84 CIILIMI 90 (381)
T ss_dssp -------
T ss_pred HHHHHHH
Confidence 3333333
No 31
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=71.98 E-value=7.1 Score=29.74 Aligned_cols=23 Identities=26% Similarity=0.446 Sum_probs=19.3
Q ss_pred HHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 116 ALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 116 AL~~LTkLKGVGPATASAILAa~ 138 (436)
....|..++||||.+|..++..+
T Consensus 3 ~~~~L~~I~Gig~~~a~~L~~~G 25 (60)
T PF14520_consen 3 VFDDLLSIPGIGPKRAEKLYEAG 25 (60)
T ss_dssp HHHHHHTSTTCHHHHHHHHHHTT
T ss_pred HHHhhccCCCCCHHHHHHHHhcC
Confidence 45678889999999999998884
No 32
>KOG1921|consensus
Probab=71.37 E-value=6 Score=40.14 Aligned_cols=86 Identities=20% Similarity=0.224 Sum_probs=51.7
Q ss_pred hhHHhhcchhHhhcCCCCCcCHHHHHHHHHHh-hhhHHHHhhcCHHHHHHH-------HHHHH------hhC-----cCH
Q psy4731 53 GWYQNELPKKIKARGKDAHLNHEELVQLMKWK-QTLNYLVKVNTPRAVMME-------TKKAF------KKL-----PNL 113 (436)
Q Consensus 53 ~WryeELP~~Ik~R~k~~~LTKDELVkLMEWK-LtL~kLVkSN~e~~Ve~~-------TkkAF------~~L-----pDV 113 (436)
.+|+..|-+++-+.......|-.-..+|++-= |++-.+.+.+. ...... +++|- +.| .|+
T Consensus 76 ~~RfqvLv~lmLSSQTKDevt~~Am~rL~~~~gLT~e~v~~~de-~~l~~LI~~VgFy~rKA~ylkkta~IL~d~f~gDI 154 (286)
T KOG1921|consen 76 ERRFQVLVGLMLSSQTKDEVTAAAMLRLKEYGGLTLEAVLKIDE-PTLNELIYPVGFYTRKAKYLKKTAKILQDKFDGDI 154 (286)
T ss_pred hHhHHHHHHHHHhcchHHHHHHHHHHHHHHhcCCCHHHHhccCh-HhHHhhhhhccchHHHHHHHHHHHHHHHHHhCCCC
Confidence 45666666654333222355555556666666 55444444432 222221 22221 111 367
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT 139 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~ 139 (436)
-..++.|..|+||||-+|=+.|+++.
T Consensus 155 P~~v~dLlsLPGVGPKMa~L~m~~AW 180 (286)
T KOG1921|consen 155 PDTVEDLLSLPGVGPKMAHLTMQVAW 180 (286)
T ss_pred chhHHHHhcCCCCchHHHHHHHHHHh
Confidence 88999999999999999999999875
No 33
>COG2231 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]
Probab=70.26 E-value=11 Score=37.13 Aligned_cols=37 Identities=24% Similarity=0.351 Sum_probs=29.8
Q ss_pred HHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHh
Q psy4731 116 ALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMA 153 (436)
Q Consensus 116 AL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~ 153 (436)
.-+.|-++||||+=||=+||--+. ++.-|.-|..-..
T Consensus 113 ~R~~LL~iKGIG~ETaDsILlYa~-~rp~FVvD~Yt~R 149 (215)
T COG2231 113 LREELLSIKGIGKETADSILLYAL-DRPVFVVDKYTRR 149 (215)
T ss_pred HHHHHHccCCcchhhHHHHHHHHh-cCcccchhHHHHH
Confidence 457788999999999999997665 5778888885554
No 34
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=70.02 E-value=7 Score=31.76 Aligned_cols=11 Identities=27% Similarity=0.688 Sum_probs=4.4
Q ss_pred hhHHHHHHHHH
Q psy4731 13 LWFIIIIIIII 23 (436)
Q Consensus 13 ~~~~i~i~ii~ 23 (436)
.||-=+-+.+|
T Consensus 61 ~~~~~~k~~~i 71 (89)
T PF00957_consen 61 MWWRNYKLYII 71 (89)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHh
Confidence 45444333333
No 35
>COG1555 ComEA DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]
Probab=69.27 E-value=2.4 Score=38.66 Aligned_cols=44 Identities=25% Similarity=0.369 Sum_probs=33.3
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIE 158 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~ 158 (436)
.+..+.|..|+||||+.|-+|..-.. +..||=|=|=+.-++|.+
T Consensus 93 tAs~eeL~~lpgIG~~kA~aIi~yRe-~~G~f~sv~dL~~v~GiG 136 (149)
T COG1555 93 TASAEELQALPGIGPKKAQAIIDYRE-ENGPFKSVDDLAKVKGIG 136 (149)
T ss_pred ccCHHHHHHCCCCCHHHHHHHHHHHH-HcCCCCcHHHHHhccCCC
Confidence 35677889999999999999998764 566888866555555543
No 36
>PRK00024 hypothetical protein; Reviewed
Probab=69.26 E-value=14 Score=35.67 Aligned_cols=77 Identities=26% Similarity=0.466 Sum_probs=48.6
Q ss_pred hhHHhhcch-hHhhcCCCCCcCHHHHHHHHHHhhhhHHHHhhcCHHHHHHHHHHHHhhCcCH----HHHHHHhhcCCCCc
Q psy4731 53 GWYQNELPK-KIKARGKDAHLNHEELVQLMKWKQTLNYLVKVNTPRAVMMETKKAFKKLPNL----ELALSALSNLKGVG 127 (436)
Q Consensus 53 ~WryeELP~-~Ik~R~k~~~LTKDELVkLMEWKLtL~kLVkSN~e~~Ve~~TkkAF~~LpDV----~aAL~~LTkLKGVG 127 (436)
.|...+-|. .+..++. ..|+-.||..+ |+. ..++...|...+++=++...++ ....+.|++.+|||
T Consensus 5 ~~~~~~rprer~~~~G~-~~Lsd~ELLa~------lL~--~g~~~~~~~~LA~~LL~~fgsL~~l~~as~~eL~~i~GIG 75 (224)
T PRK00024 5 DWPEEERPRERLLKYGA-AALSDAELLAI------LLR--TGTKGKSVLDLARELLQRFGSLRGLLDASLEELQSIKGIG 75 (224)
T ss_pred cCchhhhHHHHHHhcCc-ccCCHHHHHHH------HHc--CCCCCCCHHHHHHHHHHHcCCHHHHHhCCHHHHhhccCcc
Confidence 343334343 4555544 58888888765 222 2344455666666555443332 34577899999999
Q ss_pred HHHHHHHHhhc
Q psy4731 128 TTLASALLAAA 138 (436)
Q Consensus 128 PATASAILAa~ 138 (436)
+|.|..|+++.
T Consensus 76 ~akA~~L~a~~ 86 (224)
T PRK00024 76 PAKAAQLKAAL 86 (224)
T ss_pred HHHHHHHHHHH
Confidence 99999998875
No 37
>COG2003 RadC DNA repair proteins [DNA replication, recombination, and repair]
Probab=68.94 E-value=7.7 Score=38.28 Aligned_cols=80 Identities=26% Similarity=0.322 Sum_probs=55.2
Q ss_pred cchhhHHhhcch-hHhhcCCCCCcCHHHHHHHHHHhhhhHHHHhhcCHHHHHHHHHHH---HhhCcCHH-HHHHHhhcCC
Q psy4731 50 SNIGWYQNELPK-KIKARGKDAHLNHEELVQLMKWKQTLNYLVKVNTPRAVMMETKKA---FKKLPNLE-LALSALSNLK 124 (436)
Q Consensus 50 eLD~WryeELP~-~Ik~R~k~~~LTKDELVkLMEWKLtL~kLVkSN~e~~Ve~~TkkA---F~~LpDV~-aAL~~LTkLK 124 (436)
.+.+|+..+.|. .+...|+ ..|+-.||.-++-- .-..-..|...++.= |..|..+. +.++.||.++
T Consensus 2 ~i~~~~~~~rPRErll~~G~-~~Lsd~ELLailLr--------tG~~~~~~~~la~~lL~~fg~L~~l~~a~~~el~~v~ 72 (224)
T COG2003 2 SIKDNPENERPRERLLKLGA-EALSDAELLAILLR--------TGTKGESVLDLAKELLQEFGSLAELLKASVEELSSVK 72 (224)
T ss_pred CccccccccchHHHHHHhCh-hhcchHHHHHHHHh--------cCCCCCCHHHHHHHHHHHcccHHHHHhCCHHHHhhCC
Confidence 467888888887 4555544 58999999877411 112234555555544 44445554 4599999999
Q ss_pred CCcHHHHHHHHhhc
Q psy4731 125 GVGTTLASALLAAA 138 (436)
Q Consensus 125 GVGPATASAILAa~ 138 (436)
|+|+|-|.=+.++.
T Consensus 73 GiG~aka~~l~a~~ 86 (224)
T COG2003 73 GIGLAKAIQIKAAI 86 (224)
T ss_pred CccHHHHHHHHHHH
Confidence 99999999988886
No 38
>PRK14605 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=68.40 E-value=3.7 Score=38.73 Aligned_cols=30 Identities=27% Similarity=0.397 Sum_probs=25.8
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPEV 142 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe~ 142 (436)
.+.-+..|.+..||||-||-+||+.+.|+.
T Consensus 68 Er~lF~~Li~V~GIGpK~Al~ILs~~~~~~ 97 (194)
T PRK14605 68 ELSLFETLIDVSGIGPKLGLAMLSAMNAEA 97 (194)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHHhCCHHH
Confidence 457888999999999999999999887653
No 39
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=67.29 E-value=4.8 Score=43.16 Aligned_cols=13 Identities=23% Similarity=0.151 Sum_probs=7.8
Q ss_pred CCcccccchhhHH
Q psy4731 44 PIHSNISNIGWYQ 56 (436)
Q Consensus 44 p~~~L~eLD~Wry 56 (436)
+..++...++|+.
T Consensus 59 ~Ges~~~f~~w~~ 71 (569)
T PRK04778 59 TGQSEEKFEEWRQ 71 (569)
T ss_pred CcccHHHHHHHHH
Confidence 3445556677765
No 40
>PF10391 DNA_pol_lambd_f: Fingers domain of DNA polymerase lambda; InterPro: IPR018944 DNA polymerases catalyse the addition of dNMPs onto the 3-prime ends of DNA chains. There is a general polymerase fold consisting of three subdomains that have been likened to the fingers, palm, and thumb of a right hand. This entry represents the central three-helical region of DNA polymerase lambda referred to as the F and G helices of the fingers domain. Contacts with DNA involve this conserved helix-hairpin-helix motif in the fingers region which interacts with the primer strand. This motif is common to several DNA binding proteins and confers a sequence-independent interaction with the DNA backbone []. ; GO: 0016779 nucleotidyltransferase activity; PDB: 1KDH_A 1KEJ_A 1JMS_A 2IHM_A 3OGU_A 1MQ2_A 2P66_A 7ICI_A 1ZQN_A 1ZQK_A ....
Probab=65.79 E-value=5.8 Score=30.67 Aligned_cols=23 Identities=26% Similarity=0.358 Sum_probs=17.6
Q ss_pred HHHhhcCCCCcHHHHHHHHhhcC
Q psy4731 117 LSALSNLKGVGTTLASALLAAAT 139 (436)
Q Consensus 117 L~~LTkLKGVGPATASAILAa~~ 139 (436)
|+.|+..-||||+||.-..+.+.
T Consensus 1 l~~f~~I~GVG~~tA~~w~~~G~ 23 (52)
T PF10391_consen 1 LKLFTGIWGVGPKTARKWYAKGI 23 (52)
T ss_dssp HHHHHTSTT--HHHHHHHHHTT-
T ss_pred CcchhhcccccHHHHHHHHHhCC
Confidence 57899999999999999888764
No 41
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=64.70 E-value=7.8 Score=36.86 Aligned_cols=12 Identities=50% Similarity=0.462 Sum_probs=7.8
Q ss_pred cHHHHHHHHhhc
Q psy4731 127 GTTLASALLAAA 138 (436)
Q Consensus 127 GPATASAILAa~ 138 (436)
|||-|||--+++
T Consensus 133 gpaaa~aaa~~~ 144 (189)
T PF05568_consen 133 GPAAASAAASAA 144 (189)
T ss_pred Ccccccchhhhh
Confidence 777777666554
No 42
>PF06656 Tenui_PVC2: Tenuivirus PVC2 protein; InterPro: IPR009547 This family consists of several Tenuivirus PVC2 proteins from Rice grassy stunt virus, Maize stripe virus and Rice hoja blanca virus. The function of this family is unknown.
Probab=64.34 E-value=3.8 Score=45.75 Aligned_cols=23 Identities=30% Similarity=0.421 Sum_probs=15.8
Q ss_pred ccccchhhhHHHHHHHHHHHHHH
Q psy4731 6 KHYHKHHLWFIIIIIIIIIIIII 28 (436)
Q Consensus 6 ~~~~~~~~~~~i~i~ii~~~ii~ 28 (436)
-||++...|+.-+||+++||+|+
T Consensus 216 y~Cs~~y~~~~Y~~il~lii~i~ 238 (785)
T PF06656_consen 216 YECSKTYRYSLYSIILLLIIIIC 238 (785)
T ss_pred ccccceeeeehhHHHHHHHHHHH
Confidence 47999888887766655554443
No 43
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=63.28 E-value=12 Score=31.11 Aligned_cols=27 Identities=37% Similarity=0.357 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCc
Q psy4731 20 IIIIIIIIIIIIIIIIIIIIINRIPIH 46 (436)
Q Consensus 20 ~ii~~~ii~~i~~~~~~iiiin~ip~~ 46 (436)
-.+|++||.++||..|+--|+||+...
T Consensus 3 ~d~iLi~ICVaii~lIlY~iYnr~~~~ 29 (68)
T PF05961_consen 3 GDFILIIICVAIIGLILYGIYNRKKTT 29 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccc
Confidence 334444444556666677788987654
No 44
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=62.75 E-value=7.2 Score=36.48 Aligned_cols=27 Identities=33% Similarity=0.517 Sum_probs=22.5
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcCC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAATP 140 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~P 140 (436)
+.....|..++||||.||-.||..+.+
T Consensus 69 k~~f~~L~~i~GIGpk~A~~il~~fg~ 95 (192)
T PRK00116 69 RELFRLLISVSGVGPKLALAILSGLSP 95 (192)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHhCCH
Confidence 344778899999999999999987654
No 45
>PRK14600 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=61.55 E-value=5.4 Score=37.65 Aligned_cols=29 Identities=31% Similarity=0.387 Sum_probs=25.0
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
.+.-+..|.+..||||-||-+||+...|+
T Consensus 68 Er~lF~~LisV~GIGpK~Al~iLs~~~~~ 96 (186)
T PRK14600 68 EQDCLRMLVKVSGVNYKTAMSILSKLTPE 96 (186)
T ss_pred HHHHHHHHhCcCCcCHHHHHHHHccCCHH
Confidence 45677889999999999999999987764
No 46
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=60.60 E-value=6.2 Score=37.17 Aligned_cols=28 Identities=32% Similarity=0.487 Sum_probs=21.1
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATP 140 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~P 140 (436)
.+.-+..|...+||||-||-+||+...|
T Consensus 67 Er~lF~~L~~V~GIGpK~Al~iL~~~~~ 94 (191)
T TIGR00084 67 ERELFKELIKVNGVGPKLALAILSNMSP 94 (191)
T ss_pred HHHHHHHHhCCCCCCHHHHHHHHhcCCH
Confidence 3566777788888888888888877655
No 47
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=60.57 E-value=28 Score=35.21 Aligned_cols=43 Identities=16% Similarity=0.331 Sum_probs=33.6
Q ss_pred CCCcCHHHHHHHHHHhhh----hHHHHhhcCH---------HHHHHHHHHHHhhCc
Q psy4731 69 DAHLNHEELVQLMKWKQT----LNYLVKVNTP---------RAVMMETKKAFKKLP 111 (436)
Q Consensus 69 ~~~LTKDELVkLMEWKLt----L~kLVkSN~e---------~~Ve~~TkkAF~~Lp 111 (436)
....|.+||.+|.++-+. |...+..++. +.+.+.+++||+.|.
T Consensus 92 ~~~~~~~eL~~l~~~li~~~N~l~~~i~~~~~~~~~~~~~~~~i~~~~~~~y~~l~ 147 (318)
T PF12725_consen 92 TEEYSTEELKELTEYLIEKANELREQITEDDNGVVDIPYDKEEIFEEAREGYENLA 147 (318)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHhcCCCccccccCCCCHHHHHHHHHHHHHHHH
Confidence 457999999999999887 5555666543 788888889998654
No 48
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=60.45 E-value=6 Score=38.00 Aligned_cols=29 Identities=17% Similarity=0.245 Sum_probs=24.3
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
-+.-+..|....||||-||-+||+...|+
T Consensus 67 Er~lF~~LisVsGIGPK~ALaILs~~~~~ 95 (196)
T PRK13901 67 EREVFEELIGVDGIGPRAALRVLSGIKYN 95 (196)
T ss_pred HHHHHHHHhCcCCcCHHHHHHHHcCCCHH
Confidence 45677888899999999999999988765
No 49
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=60.44 E-value=8.3 Score=36.75 Aligned_cols=20 Identities=15% Similarity=0.350 Sum_probs=12.0
Q ss_pred cCHHHHHHHHHHhhh--hHHHH
Q psy4731 72 LNHEELVQLMKWKQT--LNYLV 91 (436)
Q Consensus 72 LTKDELVkLMEWKLt--L~kLV 91 (436)
+......+--+|||+ +-+-+
T Consensus 51 v~ea~~~ke~~~Kl~E~iekki 72 (175)
T COG4741 51 VNEAQARKEEEWKLKEWIEKKI 72 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555678887 55554
No 50
>PHA03393 odv-e66 occlusion-derived virus envelope protein E66; Provisional
Probab=59.62 E-value=1.6 Score=48.71 Aligned_cols=21 Identities=19% Similarity=0.259 Sum_probs=18.1
Q ss_pred ccccchhhHHhhcchhHhhcC
Q psy4731 47 SNISNIGWYQNELPKKIKARG 67 (436)
Q Consensus 47 ~L~eLD~WryeELP~~Ik~R~ 67 (436)
+|....+||...|+..+++|.
T Consensus 55 ~L~~FE~yy~~TL~~~f~qka 75 (682)
T PHA03393 55 DLDTFERYYKNTLTQKFLQKA 75 (682)
T ss_pred HHHHHHHHHHHHHHHHHHhhh
Confidence 466777899999999999986
No 51
>COG1796 POL4 DNA polymerase IV (family X) [DNA replication, recombination, and repair]
Probab=58.89 E-value=2.1e+02 Score=30.14 Aligned_cols=132 Identities=15% Similarity=0.181 Sum_probs=69.8
Q ss_pred CcCHHHHHHHHHHhhhhHHHHhhcCHHHHH-HHHHHHHhhC----cCHHHHHHH--hhcCCCCcHHHHHHHHhhcCCCCC
Q psy4731 71 HLNHEELVQLMKWKQTLNYLVKVNTPRAVM-METKKAFKKL----PNLELALSA--LSNLKGVGTTLASALLAAATPEVA 143 (436)
Q Consensus 71 ~LTKDELVkLMEWKLtL~kLVkSN~e~~Ve-~~TkkAF~~L----pDV~aAL~~--LTkLKGVGPATASAILAa~~Pe~v 143 (436)
++.+.++..+.+=--.+|.+-.-|+ ++ ++=++|-+.+ .|+....+. +|+|+|||++||..|--..+--.+
T Consensus 2 ~~~n~~ia~~le~iA~~me~~Gen~---fk~~aYr~Aa~sle~~~e~~~ei~e~~~~t~l~gIGk~ia~~I~e~l~tG~~ 78 (326)
T COG1796 2 AMNNHDIARLLERIADYMELEGENP---FKIRAYRKAAQSLENLTEDLEEIEERGRLTELPGIGKGIAEKISEYLDTGEV 78 (326)
T ss_pred CcchHHHHHHHHHHHHHHHhcCCCc---cchHHHHHHHHhhhhcccchHHHHhhcccCCCCCccHHHHHHHHHHHHcCcc
Confidence 4556666666543222666655553 22 2223444433 357777777 999999999999998776654344
Q ss_pred ccccHHHH----------HhcCCCCCCccCHHHHHHH-HHHHHHHHHHHhh---hccCCCCCcChhHHHHHHHHHHHH
Q psy4731 144 PFMADECL----------MAIPEIEGIDYTTKEYLKF-VNFINNTVERLNK---ESKNGTGTWNAHQVELALWTHYVA 207 (436)
Q Consensus 144 PFFSDEAf----------~~lpg~~kIKYTlKEYlel-l~~vr~LakRLn~---e~~~g~~~wT~~dVEKALWAa~Vl 207 (436)
+ +-++.- +-+||.++.| -.+-|.+| +..+.++.+.+.. ..--|-+..+..++=+.+|-+.-.
T Consensus 79 ~-~le~lk~~~P~gl~~Ll~v~GlGpkK-i~~Ly~elgi~~~e~l~~a~~~~~~~~l~GfG~kse~~il~~i~~~~~~ 154 (326)
T COG1796 79 K-KLEALKKEVPEGLEPLLKVPGLGPKK-IVSLYKELGIKDLEELQEALENGKIRGLRGFGKKSEAKILENIEFAEES 154 (326)
T ss_pred H-HHHHHHHhCCcchHHHhhCCCCCcHH-HHHHHHHHCcccHHHHHHHHHhCCccccCCccchhHHHHHHHHHHHhhh
Confidence 4 222222 2235544432 24456555 3333333333322 111244566666666666655433
No 52
>PF12836 HHH_3: Helix-hairpin-helix motif; PDB: 2EDU_A 2OCE_A 3BZK_A 3BZC_A 2DUY_A.
Probab=57.08 E-value=3.1 Score=32.43 Aligned_cols=43 Identities=28% Similarity=0.417 Sum_probs=29.6
Q ss_pred HHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCCCC
Q psy4731 115 LALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPEIE 158 (436)
Q Consensus 115 aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg~~ 158 (436)
+..+.|..|+|+|+.+|-.|+.... ...||-|=|=+..++|..
T Consensus 11 as~~eL~~lpgi~~~~A~~Iv~~R~-~~G~f~s~~dL~~v~gi~ 53 (65)
T PF12836_consen 11 ASAEELQALPGIGPKQAKAIVEYRE-KNGPFKSLEDLKEVPGIG 53 (65)
T ss_dssp S-HHHHHTSTT--HHHHHHHHHHHH-HH-S-SSGGGGGGSTT--
T ss_pred CCHHHHHHcCCCCHHHHHHHHHHHH-hCcCCCCHHHHhhCCCCC
Confidence 4567899999999999999998864 467888877777777643
No 53
>PF06143 Baculo_11_kDa: Baculovirus 11 kDa family; InterPro: IPR009313 This is a family of uncharacterised Baculovirus proteins that are all about 11 kDa in size.
Probab=56.93 E-value=17 Score=31.26 Aligned_cols=23 Identities=26% Similarity=0.727 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q psy4731 20 IIIIIIIIIIIIIIIIIIIIINR 42 (436)
Q Consensus 20 ~ii~~~ii~~i~~~~~~iiiin~ 42 (436)
+|.+++++++|+..|+.+..|+.
T Consensus 39 Vic~~lVfVii~lFi~ll~~i~~ 61 (84)
T PF06143_consen 39 VICCFLVFVIIVLFILLLYNINK 61 (84)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666555555555544443
No 54
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=56.88 E-value=7.4 Score=36.78 Aligned_cols=29 Identities=17% Similarity=0.264 Sum_probs=24.5
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
-+.-+..|.+..||||-||=+||+...|+
T Consensus 68 Er~lF~~Li~VsGIGpK~Al~ILs~~~~~ 96 (183)
T PRK14601 68 EQKMFEMLLKVNGIGANTAMAVCSSLDVN 96 (183)
T ss_pred HHHHHHHHhccCCccHHHHHHHHcCCCHH
Confidence 45677888999999999999999988775
No 55
>PF12826 HHH_2: Helix-hairpin-helix motif; PDB: 1X2I_B 1DGS_A 1V9P_B.
Probab=56.41 E-value=24 Score=27.61 Aligned_cols=24 Identities=21% Similarity=0.434 Sum_probs=16.8
Q ss_pred HHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 115 LALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 115 aAL~~LTkLKGVGPATASAILAa~ 138 (436)
+..+.|+.++||||.+|..|....
T Consensus 32 a~~e~L~~i~gIG~~~A~si~~ff 55 (64)
T PF12826_consen 32 ASVEELSAIPGIGPKIAQSIYEFF 55 (64)
T ss_dssp --HHHHCTSTT--HHHHHHHHHHH
T ss_pred cCHHHHhccCCcCHHHHHHHHHHH
Confidence 567889999999999999887654
No 56
>PF14520 HHH_5: Helix-hairpin-helix domain; PDB: 3AUO_B 3AU6_A 3AU2_A 3B0X_A 3B0Y_A 1SZP_C 3LDA_A 1WCN_A 2JZB_B 2ZTC_A ....
Probab=55.05 E-value=7.2 Score=29.70 Aligned_cols=38 Identities=21% Similarity=0.326 Sum_probs=25.0
Q ss_pred HHHHHHHHhhCcCHH-HHHHHhhcCCCCcHHHHHHHHhh
Q psy4731 100 MMETKKAFKKLPNLE-LALSALSNLKGVGTTLASALLAA 137 (436)
Q Consensus 100 e~~TkkAF~~LpDV~-aAL~~LTkLKGVGPATASAILAa 137 (436)
++.-..+|..+.++. ...+.|..++|||+.+|--|...
T Consensus 19 ~~L~~~G~~t~~~l~~a~~~~L~~i~Gig~~~a~~i~~~ 57 (60)
T PF14520_consen 19 EKLYEAGIKTLEDLANADPEELAEIPGIGEKTAEKIIEA 57 (60)
T ss_dssp HHHHHTTCSSHHHHHTSHHHHHHTSTTSSHHHHHHHHHH
T ss_pred HHHHhcCCCcHHHHHcCCHHHHhcCCCCCHHHHHHHHHH
Confidence 333333344433432 35678999999999999988765
No 57
>TIGR00426 competence protein ComEA helix-hairpin-helix repeat region. Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model.
Probab=54.65 E-value=9.5 Score=29.68 Aligned_cols=39 Identities=31% Similarity=0.469 Sum_probs=29.1
Q ss_pred HHHhhc-CCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCC
Q psy4731 117 LSALSN-LKGVGTTLASALLAAATPEVAPFMADECLMAIPE 156 (436)
Q Consensus 117 L~~LTk-LKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg 156 (436)
...|.. ++|||+.+|-+||.-.. ...+|-+-+-+..++|
T Consensus 15 ~~~L~~~ipgig~~~a~~Il~~R~-~~g~~~s~~dL~~v~g 54 (69)
T TIGR00426 15 AEELQRAMNGVGLKKAEAIVSYRE-EYGPFKTVEDLKQVPG 54 (69)
T ss_pred HHHHHhHCCCCCHHHHHHHHHHHH-HcCCcCCHHHHHcCCC
Confidence 346667 99999999999998853 3456767666666665
No 58
>PF15106 TMEM156: TMEM156 protein family
Probab=54.26 E-value=12 Score=37.14 Aligned_cols=22 Identities=18% Similarity=0.777 Sum_probs=16.4
Q ss_pred cccchhhhHHHHHHHHHHHHHH
Q psy4731 7 HYHKHHLWFIIIIIIIIIIIII 28 (436)
Q Consensus 7 ~~~~~~~~~~i~i~ii~~~ii~ 28 (436)
.|.-.+.|++.++.|+||.||+
T Consensus 171 ~CsmKITWYvLVllVfiflii~ 192 (226)
T PF15106_consen 171 TCSMKITWYVLVLLVFIFLIIL 192 (226)
T ss_pred eeehhhHHHHHHHHHHHHHHHH
Confidence 5888899988877777765553
No 59
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=54.21 E-value=17 Score=36.02 Aligned_cols=39 Identities=18% Similarity=0.521 Sum_probs=17.3
Q ss_pred cccccchhhhH-HHH-HHHHHHHHHHHHHHHHHHHHHHhcc
Q psy4731 5 KKHYHKHHLWF-III-IIIIIIIIIIIIIIIIIIIIIINRI 43 (436)
Q Consensus 5 ~~~~~~~~~~~-~i~-i~ii~~~ii~~i~~~~~~iiiin~i 43 (436)
|..||-.-.-+ |+| +|||..+++|..+.++--+++-|++
T Consensus 118 k~~CEen~~K~amLIClIIIAVLfLICT~LfLSTVVLANKV 158 (227)
T PF05399_consen 118 KEICEENNNKMAMLICLIIIAVLFLICTLLFLSTVVLANKV 158 (227)
T ss_pred hhhhhcCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55687763322 222 2222222333333334446677773
No 60
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=53.09 E-value=17 Score=32.76 Aligned_cols=13 Identities=23% Similarity=0.396 Sum_probs=5.0
Q ss_pred HHHHHHHhccCCc
Q psy4731 34 IIIIIIINRIPIH 46 (436)
Q Consensus 34 ~~~iiiin~ip~~ 46 (436)
++|...|.|.-++
T Consensus 82 lli~y~irR~~Kk 94 (122)
T PF01102_consen 82 LLISYCIRRLRKK 94 (122)
T ss_dssp HHHHHHHHHHS--
T ss_pred HHHHHHHHHHhcc
Confidence 3444444554443
No 61
>PHA03029 hypothetical protein; Provisional
Probab=53.08 E-value=23 Score=30.54 Aligned_cols=23 Identities=17% Similarity=0.108 Sum_probs=12.1
Q ss_pred cccchhhHHhhcchhHhhcCCCCC
Q psy4731 48 NISNIGWYQNELPKKIKARGKDAH 71 (436)
Q Consensus 48 L~eLD~WryeELP~~Ik~R~k~~~ 71 (436)
|.+..+=|- .+-..+++|.++-|
T Consensus 31 llsi~k~ra-ai~qnirsrrkg~y 53 (92)
T PHA03029 31 LLSINKIRA-AIDQNIRSRRKGLY 53 (92)
T ss_pred HHHHHHHHH-HHHHHHHHHhhhHH
Confidence 334444333 55566777766533
No 62
>PHA03029 hypothetical protein; Provisional
Probab=52.53 E-value=16 Score=31.48 Aligned_cols=14 Identities=50% Similarity=0.764 Sum_probs=6.0
Q ss_pred hhhhHHHHHHHHHH
Q psy4731 11 HHLWFIIIIIIIII 24 (436)
Q Consensus 11 ~~~~~~i~i~ii~~ 24 (436)
+++.++|.|||-||
T Consensus 5 ei~~~ii~~iiyii 18 (92)
T PHA03029 5 EIVFLIIAIIIYII 18 (92)
T ss_pred hhhHHHHHHHHHHH
Confidence 44444444333333
No 63
>PF12575 DUF3753: Protein of unknown function (DUF3753); InterPro: IPR009175 This group represents an uncharacterised conserved protein belonging to poxvirus family I2.
Probab=52.33 E-value=18 Score=30.44 Aligned_cols=16 Identities=44% Similarity=0.524 Sum_probs=7.1
Q ss_pred hhhhHHHHHHHHHHHH
Q psy4731 11 HHLWFIIIIIIIIIII 26 (436)
Q Consensus 11 ~~~~~~i~i~ii~~~i 26 (436)
..-|+-++++||.+|+
T Consensus 42 ~~~~~~~~~~ii~ii~ 57 (72)
T PF12575_consen 42 NNKNFNWIILIISIIF 57 (72)
T ss_pred CCCcchHHHHHHHHHH
Confidence 3345555444444333
No 64
>PF00416 Ribosomal_S13: Ribosomal protein S13/S18; InterPro: IPR001892 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 [, ]. Ribosomal protein S13 is one of the proteins from the small ribosomal subunit. In Escherichia coli, S13 is known to be involved in binding fMet-tRNA and, hence, in the initiation of translation. It is a basic protein of 115 to 177 amino-acid residues that contains thee helices and a beta-hairpin in the core of the protein, forming a helix-two turns-helix (H2TH) motif, and a non-globular C-terminal extension. This family of ribosomal proteins is present in prokaryotes, eukaryotes and archaea [, ].; GO: 0003723 RNA binding, 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3BBN_M 2QBB_M 3I1M_M 3OFP_M 3OFX_M 3OFO_M 1VS5_M 3OAQ_M 2QAL_M 3J18_M ....
Probab=51.52 E-value=21 Score=30.71 Aligned_cols=41 Identities=20% Similarity=0.268 Sum_probs=30.8
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHhc
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMAI 154 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~l 154 (436)
+...-+|++++|||+.+|..|+..+. |. .+=.++|+-+..+
T Consensus 11 k~i~~aLt~IyGIG~~~A~~Ic~~lgi~~~~~~~~Ls~~~i~~l 54 (107)
T PF00416_consen 11 KPIYIALTKIYGIGRRKAKQICKKLGINPNKKVGDLSDEQIDKL 54 (107)
T ss_dssp SBHHHHHTTSTTBCHHHHHHHHHHTTS-SSSBTTTSTHHHHHHH
T ss_pred cchHhHHhhhhccCHHHHHHHHHHcCCChhhhcccCCHHHHHHH
Confidence 34556789999999999999998874 53 5666777766543
No 65
>TIGR01477 RIFIN variant surface antigen, rifin family. This model represents the rifin branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of rifin sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 20 bits.
Probab=51.42 E-value=15 Score=38.47 Aligned_cols=19 Identities=53% Similarity=0.934 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHHHHHhc
Q psy4731 24 IIIIIIIIIIIIIIIIINR 42 (436)
Q Consensus 24 ~~ii~~i~~~~~~iiiin~ 42 (436)
||.|++||+|.+||-+|.|
T Consensus 316 iIAIvvIVLIMvIIYLILR 334 (353)
T TIGR01477 316 IIAILIIVLIMVIIYLILR 334 (353)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333344444455556665
No 66
>COG3462 Predicted membrane protein [Function unknown]
Probab=51.41 E-value=47 Score=30.22 Aligned_cols=25 Identities=16% Similarity=0.296 Sum_probs=19.9
Q ss_pred hhcchhHhhcCCCCCcCHHHHHHHH
Q psy4731 57 NELPKKIKARGKDAHLNHEELVQLM 81 (436)
Q Consensus 57 eELP~~Ik~R~k~~~LTKDELVkLM 81 (436)
...-..++.|.....+|.||..+..
T Consensus 88 sRA~eIlkER~AkGEItEEEY~r~~ 112 (117)
T COG3462 88 SRAEEILKERYAKGEITEEEYRRII 112 (117)
T ss_pred cHHHHHHHHHHhcCCCCHHHHHHHH
Confidence 4555678899888899999988764
No 67
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=50.48 E-value=18 Score=31.31 Aligned_cols=12 Identities=50% Similarity=1.148 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q psy4731 20 IIIIIIIIIIII 31 (436)
Q Consensus 20 ~ii~~~ii~~i~ 31 (436)
|.|..||||++|
T Consensus 30 ILivLVIIiLlI 41 (85)
T PF10717_consen 30 ILIVLVIIILLI 41 (85)
T ss_pred HHHHHHHHHHHH
Confidence 333344443333
No 68
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=50.30 E-value=11 Score=35.64 Aligned_cols=29 Identities=14% Similarity=0.241 Sum_probs=23.5
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
-+.-+..|.+..||||-||-+||+...|+
T Consensus 68 Er~lF~~Li~V~GIGpK~AL~iLs~~~~~ 96 (188)
T PRK14606 68 KKELFLSLTKVSRLGPKTALKIISNEDAE 96 (188)
T ss_pred HHHHHHHHhccCCccHHHHHHHHcCCCHH
Confidence 35677788899999999999999887764
No 69
>PTZ00046 rifin; Provisional
Probab=50.27 E-value=16 Score=38.32 Aligned_cols=18 Identities=39% Similarity=0.885 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHhc
Q psy4731 25 IIIIIIIIIIIIIIIINR 42 (436)
Q Consensus 25 ~ii~~i~~~~~~iiiin~ 42 (436)
|.|++||+|.+||-+|.|
T Consensus 322 iAIvVIVLIMvIIYLILR 339 (358)
T PTZ00046 322 VAIVVIVLIMVIIYLILR 339 (358)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333334444455556655
No 70
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=50.11 E-value=16 Score=33.72 Aligned_cols=9 Identities=11% Similarity=-0.156 Sum_probs=5.8
Q ss_pred cccchhhHH
Q psy4731 48 NISNIGWYQ 56 (436)
Q Consensus 48 L~eLD~Wry 56 (436)
+..|-+.|.
T Consensus 25 l~kl~r~Y~ 33 (151)
T PF14584_consen 25 LRKLKRRYD 33 (151)
T ss_pred HHHHHHHHH
Confidence 566766665
No 71
>PHA02849 putative transmembrane protein; Provisional
Probab=49.95 E-value=16 Score=31.29 Aligned_cols=19 Identities=21% Similarity=0.055 Sum_probs=13.1
Q ss_pred HHhccCCcccccchhhHHh
Q psy4731 39 IINRIPIHSNISNIGWYQN 57 (436)
Q Consensus 39 iin~ip~~~L~eLD~Wrye 57 (436)
|+|--+.+.|.+||.=||.
T Consensus 54 iin~TTRRsF~~Ld~VYYT 72 (82)
T PHA02849 54 LINLTTRRSFTHLNNVYYT 72 (82)
T ss_pred HHhhhhhhhHHHhcCEEec
Confidence 4555577778888887774
No 72
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=49.89 E-value=12 Score=35.68 Aligned_cols=28 Identities=25% Similarity=0.385 Sum_probs=20.5
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
+.-+..|....||||-||-+||+...|+
T Consensus 70 r~lF~~Li~V~GIGpK~Al~iLs~~~~~ 97 (203)
T PRK14602 70 RQTFIVLISISKVGAKTALAILSQFRPD 97 (203)
T ss_pred HHHHHHHhCCCCcCHHHHHHHHhhCCHH
Confidence 4566677778888888888888776654
No 73
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.86 E-value=12 Score=36.10 Aligned_cols=61 Identities=25% Similarity=0.280 Sum_probs=40.2
Q ss_pred CCcCHHHHHHHHHHhhhhHHHHhhcCHH-HHHHHHHHHHhh------CcCH-HHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 70 AHLNHEELVQLMKWKQTLNYLVKVNTPR-AVMMETKKAFKK------LPNL-ELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 70 ~~LTKDELVkLMEWKLtL~kLVkSN~e~-~Ve~~TkkAF~~------LpDV-~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
..|+-.||..|+ +. ...+.. .|...+++-++. |.++ .+..+.|++.+|||+|.|..|+++.
T Consensus 12 ~~Lsd~ELLail------L~--~g~~~~~~~~~lA~~ll~~f~~~g~l~~l~~a~~~eL~~i~GiG~aka~~l~a~~ 80 (218)
T TIGR00608 12 EALSDYELLAII------LR--TGTPKGLDVLSLSKRLLDVFGRQDSLGHLLSAPPEELSSVPGIGEAKAIQLKAAV 80 (218)
T ss_pred ccCCHHHHHHHH------Hh--CCCCCCCCHHHHHHHHHHHhcccCCHHHHHhCCHHHHHhCcCCcHHHHHHHHHHH
Confidence 478888877652 22 222233 455555544433 3333 3578889999999999999999886
No 74
>KOG0577|consensus
Probab=49.35 E-value=58 Score=37.38 Aligned_cols=29 Identities=21% Similarity=0.163 Sum_probs=17.5
Q ss_pred CCCcccccccccCCCCCCCCCCCCCCCCC
Q psy4731 306 TNDSVMTLGAESDTNTNDLPDPSTPTNNP 334 (436)
Q Consensus 306 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (436)
+-.+.++.+.--++..|-+||+-+|.-.|
T Consensus 408 tV~s~ss~i~~~p~~~~~~p~~~~~~~~P 436 (948)
T KOG0577|consen 408 TVTSSSSIIHRLPGPDPLYPDDYQPEIDP 436 (948)
T ss_pred cccccceeeecCCCCCcCCCccccCCCCC
Confidence 34466677776666666666665554433
No 75
>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A ....
Probab=49.12 E-value=14 Score=30.38 Aligned_cols=6 Identities=33% Similarity=0.595 Sum_probs=2.2
Q ss_pred HHHHhc
Q psy4731 37 IIIINR 42 (436)
Q Consensus 37 iiiin~ 42 (436)
++++.|
T Consensus 20 ~~~~~r 25 (75)
T PF14575_consen 20 VIVCFR 25 (75)
T ss_dssp HHCCCT
T ss_pred EEEEEe
Confidence 333333
No 76
>PHA03011 hypothetical protein; Provisional
Probab=48.84 E-value=21 Score=32.18 Aligned_cols=20 Identities=25% Similarity=0.036 Sum_probs=10.8
Q ss_pred HHhccC--CcccccchhhHHhh
Q psy4731 39 IINRIP--IHSNISNIGWYQNE 58 (436)
Q Consensus 39 iin~ip--~~~L~eLD~WryeE 58 (436)
|||+=| ...|-.+|.=|-..
T Consensus 22 iIN~p~y~sN~LnkfddEYLan 43 (120)
T PHA03011 22 IINIPPYESNILNKFDDEYLAN 43 (120)
T ss_pred HhcCCcccchHHHhccHHHHHh
Confidence 677654 23466666655433
No 77
>PHA03049 IMV membrane protein; Provisional
Probab=47.17 E-value=24 Score=29.43 Aligned_cols=25 Identities=36% Similarity=0.515 Sum_probs=14.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCC
Q psy4731 21 IIIIIIIIIIIIIIIIIIIINRIPI 45 (436)
Q Consensus 21 ii~~~ii~~i~~~~~~iiiin~ip~ 45 (436)
.++++||.+.||..|+--|+||...
T Consensus 4 d~~l~iICVaIi~lIvYgiYnkk~~ 28 (68)
T PHA03049 4 DIILVIICVVIIGLIVYGIYNKKTT 28 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcccc
Confidence 3344444445555666778888653
No 78
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=46.92 E-value=13 Score=35.30 Aligned_cols=29 Identities=38% Similarity=0.436 Sum_probs=22.4
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
-+.-+..|....||||-||-+||+...|+
T Consensus 67 Er~lF~~L~~V~GIGpK~AL~iLs~~~~~ 95 (197)
T PRK14603 67 SLELFELLLGVSGVGPKLALALLSALPPA 95 (197)
T ss_pred HHHHHHHHhCcCCcCHHHHHHHHcCCCHH
Confidence 34567778888888888888888877664
No 79
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=46.79 E-value=22 Score=35.62 Aligned_cols=10 Identities=10% Similarity=0.139 Sum_probs=3.7
Q ss_pred Ccccccchhh
Q psy4731 45 IHSNISNIGW 54 (436)
Q Consensus 45 ~~~L~eLD~W 54 (436)
++-...+++|
T Consensus 457 ~~G~~~~~~~ 466 (511)
T PF09972_consen 457 PEGAELYAQW 466 (511)
T ss_pred hhHHHHHHHH
Confidence 3333333333
No 80
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=46.49 E-value=19 Score=34.30 Aligned_cols=9 Identities=22% Similarity=0.379 Sum_probs=4.9
Q ss_pred CcChhHHHH
Q psy4731 191 TWNAHQVEL 199 (436)
Q Consensus 191 ~wT~~dVEK 199 (436)
.++-.|+|.
T Consensus 179 tythkdlen 187 (189)
T PF05568_consen 179 TYTHKDLEN 187 (189)
T ss_pred ccchhhhhc
Confidence 455555553
No 81
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=46.45 E-value=29 Score=29.67 Aligned_cols=47 Identities=23% Similarity=0.311 Sum_probs=15.1
Q ss_pred HHHHHHHHHHhccCCcccccchhhHHhhcchhHhhcCCC----CCcCHHH-HHHHHH
Q psy4731 31 IIIIIIIIIINRIPIHSNISNIGWYQNELPKKIKARGKD----AHLNHEE-LVQLMK 82 (436)
Q Consensus 31 ~~~~~~iiiin~ip~~~L~eLD~WryeELP~~Ik~R~k~----~~LTKDE-LVkLME 82 (436)
.|++-.|..+-|-..++-.+.|+- -..++.|.++ .-=..+| |..||+
T Consensus 19 aIvvW~iv~ieYrk~~rqrkId~l-----i~RIreraEDSGnES~Gd~EeeL~~Lv~ 70 (81)
T PF00558_consen 19 AIVVWTIVYIEYRKIKRQRKIDRL-----IERIRERAEDSGNESDGDEEEELSALVE 70 (81)
T ss_dssp HHHHHHHH------------CHHH-----HHHHHCTTTCCHCTTTTCCHH-CHCCHH
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHH-----HHHHHcccccCCCCCCCcHHHHHHHHHH
Confidence 333333344444333333444433 2345666532 2223333 666655
No 82
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=46.26 E-value=16 Score=37.23 Aligned_cols=17 Identities=47% Similarity=0.888 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHhc
Q psy4731 26 IIIIIIIIIIIIIIINR 42 (436)
Q Consensus 26 ii~~i~~~~~~iiiin~ 42 (436)
.|+|||+|++||-+|-|
T Consensus 264 aIliIVLIMvIIYLILR 280 (299)
T PF02009_consen 264 AILIIVLIMVIIYLILR 280 (299)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 33334444444445543
No 83
>KOG1094|consensus
Probab=45.87 E-value=16 Score=41.35 Aligned_cols=29 Identities=31% Similarity=0.561 Sum_probs=14.9
Q ss_pred ccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4731 6 KHYHKHHLWFIIIIIIIIIIIIIIIIIIIIIIII 39 (436)
Q Consensus 6 ~~~~~~~~~~~i~i~ii~~~ii~~i~~~~~~iii 39 (436)
|||.-... |.||||+.||+|+.+||.+++
T Consensus 384 ~~~~~~t~-----~~~~~f~~if~iva~ii~~~L 412 (807)
T KOG1094|consen 384 KVDGSPTA-----ILIIIFVAIFLIVALIIALML 412 (807)
T ss_pred EEcCCCce-----ehHHHHHHHHHHHHHHHHHHH
Confidence 55655443 334445555555555555554
No 84
>KOG2875|consensus
Probab=45.66 E-value=39 Score=35.10 Aligned_cols=89 Identities=22% Similarity=0.292 Sum_probs=54.1
Q ss_pred HHHHHHHhhcCCCCcHHHHHHHHhhc--CCCCCcc---ccHHHHH-hcCCCCCCc-cCHHHHHHHHHHHHHHHHHHhhhc
Q psy4731 113 LELALSALSNLKGVGTTLASALLAAA--TPEVAPF---MADECLM-AIPEIEGID-YTTKEYLKFVNFINNTVERLNKES 185 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAILAa~--~Pe~vPF---FSDEAf~-~lpg~~kIK-YTlKEYlell~~vr~LakRLn~e~ 185 (436)
.+.|-++||.|+||||-.|-.|+-.. -+..+|. +.+=+=. ++|+....| -+-|=|.++-...+.+--
T Consensus 213 yeear~~L~~lpGVG~KVADCI~Lm~l~~~~~VPVDvHi~ria~~y~l~~~~g~k~l~~ki~~ev~~~f~~~~G------ 286 (323)
T KOG2875|consen 213 YEEAREALCSLPGVGPKVADCICLMSLDKLSAVPVDVHIWRIAQDYILPGLSGAKELTPKINGEVSNFFRSLWG------ 286 (323)
T ss_pred HHHHHHHHhcCCCCcchHhhhhhhhhcCCCCcccchhhHHHHhhcccCCCccccccCCcchhHHHHHHHHHHhc------
Confidence 46799999999999999998776443 3455552 2221111 446655555 677777777655554211
Q ss_pred cCCCCCcChhHHHHHHHHHHHHhhcCcchhcccc
Q psy4731 186 KNGTGTWNAHQVELALWTHYVAAELKPELLEDIR 219 (436)
Q Consensus 186 ~~g~~~wT~~dVEKALWAa~Vl~kl~P~lL~~v~ 219 (436)
|.|.|+-.|+.--+...+...+
T Consensus 287 ------------~YAGwAQ~~lfsa~~~m~~~~s 308 (323)
T KOG2875|consen 287 ------------EYAGWAQAVLFSAQKSMVQSTS 308 (323)
T ss_pred ------------ccccchhheeeccchhhhcccc
Confidence 3466776666654555554444
No 85
>PF04011 LemA: LemA family; InterPro: IPR007156 The members of this family are related to the LemA protein P71452 from SWISSPROT. The exact molecular function of this protein is uncertain. It is predicted to be a transmembrane protein with an extracellular N terminus [].; PDB: 2ETD_A.
Probab=45.06 E-value=6 Score=36.29 Aligned_cols=17 Identities=29% Similarity=0.518 Sum_probs=1.2
Q ss_pred HHHHHHHHHHHHhccCC
Q psy4731 29 IIIIIIIIIIIINRIPI 45 (436)
Q Consensus 29 ~i~~~~~~iiiin~ip~ 45 (436)
++++++..+...|++..
T Consensus 11 ~i~l~~~~~~~yN~L~~ 27 (186)
T PF04011_consen 11 VIILIVWFIMSYNSLVR 27 (186)
T ss_dssp --------------HHH
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455556667788433
No 86
>PHA02975 hypothetical protein; Provisional
Probab=42.88 E-value=34 Score=28.66 Aligned_cols=8 Identities=38% Similarity=0.471 Sum_probs=3.6
Q ss_pred chhhhHHH
Q psy4731 10 KHHLWFII 17 (436)
Q Consensus 10 ~~~~~~~i 17 (436)
+...|+++
T Consensus 40 ~~~~~~~~ 47 (69)
T PHA02975 40 KSSLSIIL 47 (69)
T ss_pred CCchHHHH
Confidence 34445444
No 87
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=42.42 E-value=2e+02 Score=23.88 Aligned_cols=36 Identities=14% Similarity=0.115 Sum_probs=17.3
Q ss_pred hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhc
Q psy4731 87 LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSN 122 (436)
Q Consensus 87 L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTk 122 (436)
+..++-..+++..++..++-=.....+...++.+.+
T Consensus 65 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (181)
T PF12729_consen 65 LRRYLLATDPEERQEIEKEIDEARAEIDEALEEYEK 100 (181)
T ss_pred HHHhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555665555544433222222334555555544
No 88
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=41.89 E-value=28 Score=34.64 Aligned_cols=23 Identities=22% Similarity=0.602 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q psy4731 19 IIIIIIIIIIIIIIIIIIIIIIN 41 (436)
Q Consensus 19 i~ii~~~ii~~i~~~~~~iiiin 41 (436)
.++|.+|||-..++||.+.+|--
T Consensus 129 amLIClIIIAVLfLICT~LfLST 151 (227)
T PF05399_consen 129 AMLICLIIIAVLFLICTLLFLST 151 (227)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444433
No 89
>PF12877 DUF3827: Domain of unknown function (DUF3827); InterPro: IPR024606 The function of the proteins in this entry is not currently known, but one of the human proteins (Q9HCM3 from SWISSPROT) has been implicated in pilocytic astrocytomas [, , ]. In the majority of cases of pilocytic astrocytomas a tandem duplication produces an in-frame fusion of the gene encoding this protein and the BRAF oncogene. The resulting fusion protein has constitutive BRAF kinase activity and is capable of transforming cells.
Probab=41.16 E-value=15 Score=41.29 Aligned_cols=12 Identities=17% Similarity=0.216 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHH
Q psy4731 170 FVNFINNTVERL 181 (436)
Q Consensus 170 ll~~vr~LakRL 181 (436)
|..++|-++||=
T Consensus 515 yRNKlRlkAKRK 526 (684)
T PF12877_consen 515 YRNKLRLKAKRK 526 (684)
T ss_pred HHHHHHHHHHhc
Confidence 334556666663
No 90
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=40.20 E-value=19 Score=34.24 Aligned_cols=27 Identities=33% Similarity=0.489 Sum_probs=15.8
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcCC
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAATP 140 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~P 140 (436)
+.-+..|.+..||||-||-+||+...|
T Consensus 69 r~lF~~Li~V~GIGpK~Al~iLs~~~~ 95 (195)
T PRK14604 69 RQLFELLIGVSGVGPKAALNLLSSGTP 95 (195)
T ss_pred HHHHHHHhCcCCcCHHHHHHHHcCCCH
Confidence 344555666666666666666665544
No 91
>COG0099 RpsM Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]
Probab=40.01 E-value=22 Score=32.40 Aligned_cols=41 Identities=20% Similarity=0.302 Sum_probs=30.8
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHhc
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMAI 154 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~l 154 (436)
+.-.=+|+.++|||.++|=+|+..+. |+ .+=..+||-+..+
T Consensus 13 K~v~iALt~IyGIG~~~a~~I~~~~gi~~~~r~~eLteeei~~i 56 (121)
T COG0099 13 KRVVIALTYIYGIGRRRAKEICKKAGIDPDKRVGELTEEEIERL 56 (121)
T ss_pred ceEeehhhhhccccHHHHHHHHHHcCCCHhHhhccCCHHHHHHH
Confidence 34445789999999999999999874 43 5666777766544
No 92
>PHA03399 pif3 per os infectivity factor 3; Provisional
Probab=39.89 E-value=38 Score=33.08 Aligned_cols=10 Identities=30% Similarity=1.135 Sum_probs=4.6
Q ss_pred hhHHHHHHHH
Q psy4731 13 LWFIIIIIII 22 (436)
Q Consensus 13 ~~~~i~i~ii 22 (436)
+||+++++|+
T Consensus 2 ~~~~~~~liv 11 (200)
T PHA03399 2 IWGLLVLLII 11 (200)
T ss_pred cHHHHHHHHH
Confidence 4555544333
No 93
>PHA03097 C-type lectin-like protein; Provisional
Probab=38.51 E-value=39 Score=30.83 Aligned_cols=16 Identities=19% Similarity=0.449 Sum_probs=8.5
Q ss_pred HHHHHHHHHhccCCcc
Q psy4731 32 IIIIIIIIINRIPIHS 47 (436)
Q Consensus 32 ~~~~~iiiin~ip~~~ 47 (436)
.|+++|++.|+....+
T Consensus 25 ~~~~~~~~~~~~~~~~ 40 (157)
T PHA03097 25 LIALVIILSCKLSPGD 40 (157)
T ss_pred HHHHHHHHhhcCCCCC
Confidence 3344555667765443
No 94
>KOG2457|consensus
Probab=38.41 E-value=14 Score=39.78 Aligned_cols=23 Identities=35% Similarity=0.403 Sum_probs=18.8
Q ss_pred HHhhc-CCCCcHHHHHHHHhhcCC
Q psy4731 118 SALSN-LKGVGTTLASALLAAATP 140 (436)
Q Consensus 118 ~~LTk-LKGVGPATASAILAa~~P 140 (436)
..|.+ ++|||+.||-||+|.+.-
T Consensus 205 ~~l~kgvpGVG~YTAGAiaSIAf~ 228 (555)
T KOG2457|consen 205 SSLMKGVPGVGQYTAGAIASIAFN 228 (555)
T ss_pred HHHHhhCCCCCccchhhhhhhhhc
Confidence 34444 999999999999999863
No 95
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=37.77 E-value=11 Score=38.33 Aligned_cols=18 Identities=6% Similarity=0.074 Sum_probs=0.0
Q ss_pred cccchhhHHhhcchhHhh
Q psy4731 48 NISNIGWYQNELPKKIKA 65 (436)
Q Consensus 48 L~eLD~WryeELP~~Ik~ 65 (436)
+.+=..|+...+|-.|+.
T Consensus 180 ~ee~~~f~~KGiPvIF~d 197 (290)
T PF05454_consen 180 LEEQKTFISKGIPVIFQD 197 (290)
T ss_dssp ------------------
T ss_pred cchhHHHHhcCCceeccc
Confidence 334455666666666654
No 96
>smart00279 HhH2 Helix-hairpin-helix class 2 (Pol1 family) motifs.
Probab=37.13 E-value=24 Score=25.39 Aligned_cols=15 Identities=40% Similarity=0.620 Sum_probs=13.3
Q ss_pred cCCCCcHHHHHHHHh
Q psy4731 122 NLKGVGTTLASALLA 136 (436)
Q Consensus 122 kLKGVGPATASAILA 136 (436)
.++||||.||-.+|.
T Consensus 20 Gv~giG~ktA~~ll~ 34 (36)
T smart00279 20 GVKGIGPKTALKLLR 34 (36)
T ss_pred CCCcccHHHHHHHHH
Confidence 589999999998885
No 97
>PHA02657 hypothetical protein; Provisional
Probab=36.89 E-value=33 Score=30.05 Aligned_cols=14 Identities=14% Similarity=-0.052 Sum_probs=10.6
Q ss_pred CCcccccchhhHHh
Q psy4731 44 PIHSNISNIGWYQN 57 (436)
Q Consensus 44 p~~~L~eLD~Wrye 57 (436)
+...|.+||.=||.
T Consensus 71 TRRsF~qLD~VYYT 84 (95)
T PHA02657 71 SKTHFTRLDGVYYT 84 (95)
T ss_pred hHHHHHhhcceEEc
Confidence 67778888887774
No 98
>PF04415 DUF515: Protein of unknown function (DUF515) ; InterPro: IPR007509 This is a family of hypothetical archaeal proteins.
Probab=36.02 E-value=68 Score=34.49 Aligned_cols=19 Identities=21% Similarity=-0.024 Sum_probs=11.9
Q ss_pred CCCCccCHHHHHHHHHHHH
Q psy4731 157 IEGIDYTTKEYLKFVNFIN 175 (436)
Q Consensus 157 ~~kIKYTlKEYlell~~vr 175 (436)
..+.-||..+=+.|+..+.
T Consensus 197 ~~~~imtk~ea~~iv~~~~ 215 (416)
T PF04415_consen 197 GKKKIMTKDEAKKIVSKAD 215 (416)
T ss_pred CeEEEEEHHHHHHHHhhcC
Confidence 3556677776666666655
No 99
>PTZ00134 40S ribosomal protein S18; Provisional
Probab=35.47 E-value=20 Score=33.47 Aligned_cols=44 Identities=20% Similarity=0.180 Sum_probs=30.8
Q ss_pred hCcCHHHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHH
Q psy4731 109 KLPNLELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLM 152 (436)
Q Consensus 109 ~LpDV~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~ 152 (436)
.|++-+...-+|+.++|||+.+|-.|+..+. |. .+--.+|+=..
T Consensus 21 ~l~~~K~v~~aLt~I~GIG~~~A~~I~~~lgi~~~~~~~~Lt~~qi~ 67 (154)
T PTZ00134 21 NVDGKRKVPYALTAIKGIGRRFAYLVCKKAGIDVTKRAGELTAEEIE 67 (154)
T ss_pred cCCCCCEEEEeecccccccHHHHHHHHHHcCcCcCCCcccCCHHHHH
Confidence 3455556667889999999999999999874 33 33445555333
No 100
>PRK14604 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=35.38 E-value=28 Score=33.13 Aligned_cols=61 Identities=11% Similarity=0.135 Sum_probs=36.6
Q ss_pred CCcCHHHHHHHHHHhh-h------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhcC
Q psy4731 70 AHLNHEELVQLMKWKQ-T------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAAT 139 (436)
Q Consensus 70 ~~LTKDELVkLMEWKL-t------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~~ 139 (436)
+++|++|..-...-.- . -+.+.+..+++.+.++... .=.+.|++++|||+-||--|+.-..
T Consensus 62 GF~~~~Er~lF~~Li~V~GIGpK~Al~iLs~~~~~el~~aI~~---------~D~~~L~kvpGIGkKtAerIilELk 129 (195)
T PRK14604 62 GFSTPAQRQLFELLIGVSGVGPKAALNLLSSGTPDELQLAIAG---------GDVARLARVPGIGKKTAERIVLELK 129 (195)
T ss_pred CCCCHHHHHHHHHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHh---------CCHHHHhhCCCCCHHHHHHHHHHHH
Confidence 5889998654422211 0 3344444444444443322 2346899999999999998875553
No 101
>PF13980 UPF0370: Uncharacterised protein family (UPF0370)
Probab=35.22 E-value=30 Score=28.48 Aligned_cols=11 Identities=36% Similarity=1.114 Sum_probs=5.4
Q ss_pred hhHHHHHHHHH
Q psy4731 13 LWFIIIIIIII 23 (436)
Q Consensus 13 ~~~~i~i~ii~ 23 (436)
.||||+|+.++
T Consensus 7 YWWiiLl~lvG 17 (63)
T PF13980_consen 7 YWWIILLILVG 17 (63)
T ss_pred HHHHHHHHHHH
Confidence 36665444433
No 102
>PHA03290 envelope glycoprotein I; Provisional
Probab=34.87 E-value=17 Score=38.12 Aligned_cols=31 Identities=39% Similarity=0.447 Sum_probs=17.2
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy4731 11 HHLWFIIIIIIIIIIIIIIIIIIIIIIIIIN 41 (436)
Q Consensus 11 ~~~~~~i~i~ii~~~ii~~i~~~~~~iiiin 41 (436)
.-..+||+|+|-+++.|++.||+.||+-++-
T Consensus 269 ~~~~~~ivipi~~~llilla~i~~i~~~~~R 299 (357)
T PHA03290 269 PADNFLIAIPITASLLIILAIIIVITIGIKR 299 (357)
T ss_pred CcceEEEEehHHHHHHHHHHHHHHHHhhhhh
Confidence 3456777777776665554444444444443
No 103
>PF07431 DUF1512: Protein of unknown function (DUF1512); InterPro: IPR009995 This family consists of several archaeal proteins of around 370 residues in length. The function of this family is unknown.
Probab=34.81 E-value=82 Score=33.30 Aligned_cols=62 Identities=13% Similarity=0.043 Sum_probs=32.9
Q ss_pred CCcccccchhhHHhhcchhHhhcCCCCCcC-HHHHHHHHHHhhh-------------hHHHHhhcCHHHHHHHHHHH
Q psy4731 44 PIHSNISNIGWYQNELPKKIKARGKDAHLN-HEELVQLMKWKQT-------------LNYLVKVNTPRAVMMETKKA 106 (436)
Q Consensus 44 p~~~L~eLD~WryeELP~~Ik~R~k~~~LT-KDELVkLMEWKLt-------------L~kLVkSN~e~~Ve~~TkkA 106 (436)
-...|..|++++.+.--..+.--.+...-+ .+-+.+++++..- +..|+++. ++..++..++.
T Consensus 31 I~~~l~~L~~~~~~a~~~~~~~l~~~~~~~~e~~i~r~~dffvI~Pv~ldP~gIv~k~~hll~t~-e~~~~~~v~~~ 106 (355)
T PF07431_consen 31 IEGKLSELEQYRNEARKKVIEYLKKNGSEDPESLIDRLLDFFVIEPVDLDPTGIVRKLKHLLRTY-EDRFEKEVKRL 106 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCccchHHHHHHHHhheecCcCCCCchhhHHHHHHHHHhh-HHHHHHHHHHh
Confidence 345678888887654433332211111111 4455778887764 66666665 45566655543
No 104
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=34.29 E-value=70 Score=25.42 Aligned_cols=11 Identities=18% Similarity=0.806 Sum_probs=4.7
Q ss_pred HHHHHHHHHhc
Q psy4731 32 IIIIIIIIINR 42 (436)
Q Consensus 32 ~~~~~iiiin~ 42 (436)
+++++|.++.+
T Consensus 21 lL~~~i~l~~~ 31 (79)
T PF04277_consen 21 LLILVISLMSK 31 (79)
T ss_pred HHHHHHHHHHH
Confidence 33344444444
No 105
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=34.25 E-value=1e+02 Score=25.81 Aligned_cols=13 Identities=23% Similarity=0.342 Sum_probs=8.2
Q ss_pred CCcCHHHHHHHHH
Q psy4731 70 AHLNHEELVQLMK 82 (436)
Q Consensus 70 ~~LTKDELVkLME 82 (436)
.-++.+|-.+|-+
T Consensus 34 ~~ls~~d~~~L~~ 46 (75)
T TIGR02976 34 ASLSTDDQALLQE 46 (75)
T ss_pred CCCCHHHHHHHHH
Confidence 3477777766643
No 106
>COG0632 RuvA Holliday junction resolvasome, DNA-binding subunit [DNA replication, recombination, and repair]
Probab=33.93 E-value=27 Score=33.81 Aligned_cols=30 Identities=30% Similarity=0.463 Sum_probs=25.9
Q ss_pred CHHHHHHHhhcCCCCcHHHHHHHHhhcCCC
Q psy4731 112 NLELALSALSNLKGVGTTLASALLAAATPE 141 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASAILAa~~Pe 141 (436)
+-+.-+..|.+.-||||-||=+||+..+|+
T Consensus 67 ~ER~lF~~LisVnGIGpK~ALaiLs~~~~~ 96 (201)
T COG0632 67 EERELFRLLISVNGIGPKLALAILSNLDPE 96 (201)
T ss_pred HHHHHHHHHHccCCccHHHHHHHHcCCCHH
Confidence 356778889999999999999999998774
No 107
>COG1704 LemA Uncharacterized conserved protein [Function unknown]
Probab=33.89 E-value=30 Score=33.51 Aligned_cols=14 Identities=14% Similarity=0.266 Sum_probs=8.5
Q ss_pred HHHHHHHHhhcCcc
Q psy4731 200 ALWTHYVAAELKPE 213 (436)
Q Consensus 200 ALWAa~Vl~kl~P~ 213 (436)
.+|+.....+-.|-
T Consensus 158 ~ivA~~~gf~~~~~ 171 (185)
T COG1704 158 NIVAKLFGFKAKPN 171 (185)
T ss_pred HHHHHHhCCCcCcc
Confidence 56776666655553
No 108
>PHA02692 hypothetical protein; Provisional
Probab=33.65 E-value=58 Score=27.38 Aligned_cols=10 Identities=20% Similarity=0.554 Sum_probs=4.8
Q ss_pred hhhhHHHHHH
Q psy4731 11 HHLWFIIIII 20 (436)
Q Consensus 11 ~~~~~~i~i~ 20 (436)
...|+++||+
T Consensus 42 ~~~~~~~ii~ 51 (70)
T PHA02692 42 GVPWTTVFLI 51 (70)
T ss_pred CcchHHHHHH
Confidence 4455555433
No 109
>PF15102 TMEM154: TMEM154 protein family
Probab=33.61 E-value=12 Score=34.82 Aligned_cols=33 Identities=9% Similarity=0.399 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCcccccchhhHHhhcch
Q psy4731 21 IIIIIIIIIIIIIIIIIIIINRIPIHSNISNIGWYQNELPK 61 (436)
Q Consensus 21 ii~~~ii~~i~~~~~~iiiin~ip~~~L~eLD~WryeELP~ 61 (436)
+|+|-.|.+.++|+++|++|-+. -+||...-|.
T Consensus 60 mIlIP~VLLvlLLl~vV~lv~~~--------kRkr~K~~~s 92 (146)
T PF15102_consen 60 MILIPLVLLVLLLLSVVCLVIYY--------KRKRTKQEPS 92 (146)
T ss_pred EEeHHHHHHHHHHHHHHHheeEE--------eecccCCCCc
Confidence 34444466667777777777663 4566644443
No 110
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=33.34 E-value=31 Score=33.72 Aligned_cols=22 Identities=36% Similarity=0.499 Sum_probs=18.7
Q ss_pred CHHHHHHHhhcCCCCcHHHHHH
Q psy4731 112 NLELALSALSNLKGVGTTLASA 133 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASA 133 (436)
.+..-|..|.+|+||||-+|.=
T Consensus 6 ~i~~LI~~l~kLPGvG~KsA~R 27 (198)
T COG0353 6 PIEKLIDALKKLPGVGPKSAQR 27 (198)
T ss_pred HHHHHHHHHhhCCCCChhHHHH
Confidence 4667889999999999999863
No 111
>PHA02819 hypothetical protein; Provisional
Probab=33.27 E-value=55 Score=27.58 Aligned_cols=9 Identities=33% Similarity=0.641 Sum_probs=4.2
Q ss_pred hhhhHHHHH
Q psy4731 11 HHLWFIIII 19 (436)
Q Consensus 11 ~~~~~~i~i 19 (436)
...|+++||
T Consensus 43 ~~~~~~~ii 51 (71)
T PHA02819 43 SFLRYYLII 51 (71)
T ss_pred ChhHHHHHH
Confidence 445555433
No 112
>PHA03054 IMV membrane protein; Provisional
Probab=33.25 E-value=56 Score=27.60 Aligned_cols=10 Identities=40% Similarity=0.860 Sum_probs=4.7
Q ss_pred hhhhHHHHHH
Q psy4731 11 HHLWFIIIII 20 (436)
Q Consensus 11 ~~~~~~i~i~ 20 (436)
...|+++||+
T Consensus 45 ~~~~~~~ii~ 54 (72)
T PHA03054 45 CWGWYWLIII 54 (72)
T ss_pred CchHHHHHHH
Confidence 4455554333
No 113
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=33.16 E-value=35 Score=34.10 Aligned_cols=30 Identities=23% Similarity=0.365 Sum_probs=14.4
Q ss_pred hCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 109 KLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 109 ~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
.++..-..+..+.+|+|||+++|+.|--..
T Consensus 36 ~l~~~i~~~~~~~~ipgiG~~ia~kI~E~~ 65 (307)
T cd00141 36 SLPEPIESLEEAKKLPGIGKKIAEKIEEIL 65 (307)
T ss_pred hCCcccCCHHHhcCCCCccHHHHHHHHHHH
Confidence 334333333444555555555555554444
No 114
>PRK14601 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=31.88 E-value=35 Score=32.37 Aligned_cols=59 Identities=14% Similarity=0.111 Sum_probs=35.6
Q ss_pred CCcCHHHHHHHHHHhh-h------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhh
Q psy4731 70 AHLNHEELVQLMKWKQ-T------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAA 137 (436)
Q Consensus 70 ~~LTKDELVkLMEWKL-t------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa 137 (436)
.|.|++|..-...-.- . -+.+.+.-+++.+.++... .=.+.|++++|||+-||.=|+-=
T Consensus 62 GF~~~~Er~lF~~Li~VsGIGpK~Al~ILs~~~~~el~~aI~~---------~D~~~L~~vpGIGkKtAeRIilE 127 (183)
T PRK14601 62 GFLDKDEQKMFEMLLKVNGIGANTAMAVCSSLDVNSFYKALSL---------GDESVLKKVPGIGPKSAKRIIAE 127 (183)
T ss_pred CCCCHHHHHHHHHHhccCCccHHHHHHHHcCCCHHHHHHHHHh---------CCHHHHhhCCCCCHHHHHHHHHH
Confidence 5888888654422211 1 3344444455555443322 13467999999999999987643
No 115
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=31.81 E-value=1.6e+02 Score=24.81 Aligned_cols=15 Identities=20% Similarity=0.268 Sum_probs=9.5
Q ss_pred CCCCcCHHHHHHHHH
Q psy4731 68 KDAHLNHEELVQLMK 82 (436)
Q Consensus 68 k~~~LTKDELVkLME 82 (436)
...-|+.+|..+|-+
T Consensus 32 ~~~gLs~~d~~~L~~ 46 (75)
T PF06667_consen 32 SSQGLSEEDEQRLQE 46 (75)
T ss_pred cCCCCCHHHHHHHHH
Confidence 345688888666643
No 116
>PRK07945 hypothetical protein; Provisional
Probab=31.17 E-value=98 Score=31.40 Aligned_cols=20 Identities=30% Similarity=0.522 Sum_probs=16.6
Q ss_pred HhhcCCCCcHHHHHHHHhhc
Q psy4731 119 ALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 119 ~LTkLKGVGPATASAILAa~ 138 (436)
.|++|+|||..||..|--..
T Consensus 50 ~l~~~~giG~~~a~~i~e~~ 69 (335)
T PRK07945 50 SLTSLPGIGPKTAKVIAQAL 69 (335)
T ss_pred CcccCCCcCHHHHHHHHHHH
Confidence 68899999999999876554
No 117
>PF04415 DUF515: Protein of unknown function (DUF515) ; InterPro: IPR007509 This is a family of hypothetical archaeal proteins.
Probab=30.64 E-value=1.6e+02 Score=31.83 Aligned_cols=16 Identities=6% Similarity=-0.108 Sum_probs=8.0
Q ss_pred HHHHHhccCCcccccc
Q psy4731 36 IIIIINRIPIHSNISN 51 (436)
Q Consensus 36 ~iiiin~ip~~~L~eL 51 (436)
.+.+++++-...+.+|
T Consensus 47 ~~~~Y~~~~~~~~~eL 62 (416)
T PF04415_consen 47 VYNIYYFLQNQPAQEL 62 (416)
T ss_pred HHHHHHHhhhhHHHHH
Confidence 4455555555454444
No 118
>PF05473 Herpes_UL45: UL45 protein; InterPro: IPR008646 This family consists several UL45 proteins and homologues found in the herpes simplex virus family. The herpes simplex virus UL45 gene encodes an 18 kDa virion envelope protein whose function remains unknown. It has been suggested that the 18 kDa UL45 gene product is required for efficient growth in the central nervous system at low doses and may play an important role under the conditions of a naturally acquired infection []. The Equine herpesvirus 1 UL45 protein represents a type II membrane glycoprotein which has found to be non-essential for EHV-1 growth in vitro but deletion reduces the viruses' replication efficiency [].
Probab=30.60 E-value=81 Score=30.20 Aligned_cols=7 Identities=29% Similarity=0.212 Sum_probs=3.1
Q ss_pred CHHHHHH
Q psy4731 73 NHEELVQ 79 (436)
Q Consensus 73 TKDELVk 79 (436)
|.+|..+
T Consensus 106 t~~eA~~ 112 (200)
T PF05473_consen 106 TWEEARN 112 (200)
T ss_pred CHHHHHH
Confidence 4444433
No 119
>PF10853 DUF2650: Protein of unknown function (DUF2650); InterPro: IPR022559 This region is found in proteins with unknown function in metazoa.
Probab=30.40 E-value=26 Score=26.17 Aligned_cols=19 Identities=11% Similarity=0.235 Sum_probs=11.3
Q ss_pred ccccccchhhhHHHHHHHH
Q psy4731 4 NKKHYHKHHLWFIIIIIII 22 (436)
Q Consensus 4 ~~~~~~~~~~~~~i~i~ii 22 (436)
+.+.|=+++-.|++++++|
T Consensus 16 ~~~eCCf~lq~Wv~v~l~v 34 (38)
T PF10853_consen 16 LNKECCFRLQIWVIVLLAV 34 (38)
T ss_pred ChHhHHHHHHHHHHHHHHH
Confidence 3456777777776644443
No 120
>PRK14606 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.36 E-value=38 Score=32.07 Aligned_cols=60 Identities=10% Similarity=0.153 Sum_probs=36.2
Q ss_pred CCcCHHHHHHHHHHh-hh------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 70 AHLNHEELVQLMKWK-QT------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 70 ~~LTKDELVkLMEWK-Lt------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
+|.|++|..-...-. .. -+.+++..+++.+.++... .=.+.||+++|||+-||--|.-=.
T Consensus 62 GF~~~~Er~lF~~Li~V~GIGpK~AL~iLs~~~~~el~~aI~~---------~D~~~L~~vpGIGkKtAerIilEL 128 (188)
T PRK14606 62 GFSNERKKELFLSLTKVSRLGPKTALKIISNEDAETLVTMIAS---------QDVEGLSKLPGISKKTAERIVMEL 128 (188)
T ss_pred CCCCHHHHHHHHHHhccCCccHHHHHHHHcCCCHHHHHHHHHh---------CCHHHHhhCCCCCHHHHHHHHHHH
Confidence 588888865432221 11 4444455455554443322 235689999999999999876433
No 121
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=29.89 E-value=1.1e+02 Score=29.38 Aligned_cols=10 Identities=10% Similarity=0.115 Sum_probs=5.6
Q ss_pred CHHHHHHHHH
Q psy4731 73 NHEELVQLMK 82 (436)
Q Consensus 73 TKDELVkLME 82 (436)
..+|+..|.+
T Consensus 112 ~~~E~~~l~~ 121 (356)
T PRK10755 112 STLEIEAVTS 121 (356)
T ss_pred ChHHHHHHHH
Confidence 4466665544
No 122
>PF02969 TAF: TATA box binding protein associated factor (TAF); InterPro: IPR004823 The TATA box binding protein associated factor (TAF) is part of the transcription initiation factor TFIID multimeric protein complex. TFIID plays a central role in mediating promoter responses to various activators and repressors. It binds tightly to TAFII-250 and directly interacts with TAFII-40. TFIID is composed of TATA binding protein (TBP)and a number of TBP-associated factors (TAFS). TAF proteins adopt a histone-like fold.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus; PDB: 1TAF_B.
Probab=29.87 E-value=28 Score=28.32 Aligned_cols=48 Identities=19% Similarity=0.282 Sum_probs=29.5
Q ss_pred CccccHHHHHhcCCCCCCccCHHHHHHHHHHHHHHHHHHhhhccCCCCCcChhHHHHHH
Q psy4731 143 APFMADECLMAIPEIEGIDYTTKEYLKFVNFINNTVERLNKESKNGTGTWNAHQVELAL 201 (436)
Q Consensus 143 vPFFSDEAf~~lpg~~kIKYTlKEYlell~~vr~LakRLn~e~~~g~~~wT~~dVEKAL 201 (436)
+...+||+...+.. .+.|.+++-.+-..+.-...+| ...+..||+.||
T Consensus 18 i~~l~de~a~~La~--dveyrlreiiq~a~kfm~hskR---------~~Lt~~Di~~AL 65 (66)
T PF02969_consen 18 ISNLSDEAAKALAE--DVEYRLREIIQEALKFMRHSKR---------TKLTTDDINSAL 65 (66)
T ss_dssp ---B-HHHHHHHHH--HHHHHHHHHHHHHHHHHHHTT----------SSB-HHHHHHHH
T ss_pred CCCCCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhCC---------CCCCHHHHHHHh
Confidence 45678888877653 5677777766554444444445 579999999986
No 123
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=29.85 E-value=26 Score=37.21 Aligned_cols=93 Identities=18% Similarity=0.278 Sum_probs=65.6
Q ss_pred HHHHHHhhhhHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHH-hcCC
Q psy4731 78 VQLMKWKQTLNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAATPEVAPFMADECLM-AIPE 156 (436)
Q Consensus 78 VkLMEWKLtL~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~-~lpg 156 (436)
+.+=+|+ +||.++.+...-++.+.. .|..+-|+|=.|+++.|+.+.-. .-+.|- |+++
T Consensus 68 ~~~~eWd-------rs~~P~lId~~fr~g~~~---------~~~gdsg~GKttllL~l~Ialaa-----G~~lfG~~v~e 126 (402)
T COG3598 68 MRLSEWD-------RSNSPQLIDEFFRKGYVS---------ILYGDSGVGKTTLLLYLCIALAA-----GKNLFGNKVKE 126 (402)
T ss_pred cChhhcC-------cccChhhhhHHhhcCeeE---------EEecCCcccHhHHHHHHHHHHHh-----hHHHhcccccC
Confidence 5566787 788888887776666643 23478899999999999887421 122333 5555
Q ss_pred CCCCcc-CHHHHHH-HHHHHHHHHHHHhhhccCCCCCcChhHHHHH
Q psy4731 157 IEGIDY-TTKEYLK-FVNFINNTVERLNKESKNGTGTWNAHQVELA 200 (436)
Q Consensus 157 ~~kIKY-TlKEYle-ll~~vr~LakRLn~e~~~g~~~wT~~dVEKA 200 (436)
.+++=| |+..|++ ++.+++.++++++ .++.+|+..
T Consensus 127 pGkvlyvslEl~re~~L~Rl~~v~a~mg---------LsPadvrn~ 163 (402)
T COG3598 127 PGKVLYVSLELYREDILERLEPVRARMG---------LSPADVRNM 163 (402)
T ss_pred CCeEEEEEeccChHHHHHHHHHHHHHcC---------CChHhhhhe
Confidence 556666 8888887 9999999999983 566666553
No 124
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=29.79 E-value=68 Score=26.82 Aligned_cols=7 Identities=14% Similarity=0.230 Sum_probs=2.9
Q ss_pred HHHHhcc
Q psy4731 37 IIIINRI 43 (436)
Q Consensus 37 iiiin~i 43 (436)
-++.-|.
T Consensus 21 wl~lHY~ 27 (75)
T TIGR02976 21 WLILHYR 27 (75)
T ss_pred HHHHHHH
Confidence 3344444
No 125
>PRK00076 recR recombination protein RecR; Reviewed
Probab=29.39 E-value=39 Score=32.65 Aligned_cols=22 Identities=36% Similarity=0.560 Sum_probs=18.0
Q ss_pred HHHHHHHhhcCCCCcHHHHHHH
Q psy4731 113 LELALSALSNLKGVGTTLASAL 134 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAI 134 (436)
+..-++.|.+|+|||+-||-=+
T Consensus 6 ~~~Li~~l~~LPGIG~KsA~Rl 27 (196)
T PRK00076 6 IEKLIEALRKLPGIGPKSAQRL 27 (196)
T ss_pred HHHHHHHHHHCCCCCHHHHHHH
Confidence 5667888999999999998643
No 126
>CHL00137 rps13 ribosomal protein S13; Validated
Probab=29.24 E-value=50 Score=29.60 Aligned_cols=39 Identities=28% Similarity=0.364 Sum_probs=27.0
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHH
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLM 152 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~ 152 (436)
+...-+|+.++|||+.+|-.|+.... |. .+--++|+-+.
T Consensus 13 k~v~~aLt~i~GIG~~~A~~ic~~lgi~~~~~~~~Lt~~qi~ 54 (122)
T CHL00137 13 KRIEYALTYIYGIGLTSAKEILEKANIDPDIRTKDLTDEQIS 54 (122)
T ss_pred CEeeeeecccccccHHHHHHHHHHcCcCcCcCcccCCHHHHH
Confidence 33445789999999999999998874 33 34445555443
No 127
>PF03579 SHP: Small hydrophobic protein; InterPro: IPR005327 The small hydrophobic integral membrane protein, SH (previously designated 1A) is found to have a variety of glycosylated forms [, ]. This protein is a component of the mature respiratory syncytial virion [] where it may form complexes and appears to play a structural role.; GO: 0016020 membrane, 0016021 integral to membrane, 0048222 glycoprotein network
Probab=28.90 E-value=83 Score=25.96 Aligned_cols=22 Identities=23% Similarity=0.502 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy4731 15 FIIIIIIIIIIIIIIIIIIIII 36 (436)
Q Consensus 15 ~~i~i~ii~~~ii~~i~~~~~~ 36 (436)
++.|+..||+.+||+-+++.|.
T Consensus 20 Li~M~lti~~~~Iv~si~~AIL 41 (64)
T PF03579_consen 20 LIFMMLTIGFFFIVTSIMAAIL 41 (64)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
No 128
>PRK08609 hypothetical protein; Provisional
Probab=28.84 E-value=1.6e+02 Score=32.10 Aligned_cols=31 Identities=16% Similarity=0.190 Sum_probs=18.4
Q ss_pred hhCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 108 KKLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 108 ~~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
+.|+..-..+..|++|+|||+++|+-|--..
T Consensus 38 ~~l~~~i~~~~~l~~ipgIG~~ia~kI~Eil 68 (570)
T PRK08609 38 ELDERSLSEIDDFTKLKGIGKGTAEVIQEYR 68 (570)
T ss_pred HhCchhhhhhhhhccCCCcCHHHHHHHHHHH
Confidence 4455433445566777777777777665444
No 129
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=28.83 E-value=62 Score=27.70 Aligned_cols=19 Identities=37% Similarity=0.599 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHhcc
Q psy4731 25 IIIIIIIIIIIIIIIINRI 43 (436)
Q Consensus 25 ~ii~~i~~~~~~iiiin~i 43 (436)
+.+++.+||.|++..|.+|
T Consensus 10 ialiv~~iiaIvvW~iv~i 28 (81)
T PF00558_consen 10 IALIVALIIAIVVWTIVYI 28 (81)
T ss_dssp HHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333455555555566554
No 130
>PF14584 DUF4446: Protein of unknown function (DUF4446)
Probab=28.34 E-value=65 Score=29.80 Aligned_cols=7 Identities=14% Similarity=0.031 Sum_probs=3.3
Q ss_pred HHHHHhc
Q psy4731 148 DECLMAI 154 (436)
Q Consensus 148 DEAf~~l 154 (436)
|+|+.+.
T Consensus 121 e~s~~Ya 127 (151)
T PF14584_consen 121 EESRTYA 127 (151)
T ss_pred CCcEEEE
Confidence 4455443
No 131
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=28.33 E-value=44 Score=31.87 Aligned_cols=60 Identities=15% Similarity=0.107 Sum_probs=36.0
Q ss_pred CCcCHHHHHHHHHHh-hh------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 70 AHLNHEELVQLMKWK-QT------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 70 ~~LTKDELVkLMEWK-Lt------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
++.|++|..-...-. .. -+.+.+..+++.+.++... .=.+.|++++|||+-||--|..-.
T Consensus 61 GF~~~~Er~lF~~L~~V~GIGpK~AL~iLs~~~~~~l~~aI~~---------~D~~~L~kvpGIGkKtAerIilEL 127 (197)
T PRK14603 61 GFPDEDSLELFELLLGVSGVGPKLALALLSALPPALLARALLE---------GDARLLTSASGVGKKLAERIALEL 127 (197)
T ss_pred CcCCHHHHHHHHHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHh---------CCHHHHhhCCCCCHHHHHHHHHHH
Confidence 578888865432221 11 3444455555555443332 134679999999999999877444
No 132
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=27.99 E-value=1.3e+02 Score=24.96 Aligned_cols=13 Identities=8% Similarity=-0.049 Sum_probs=7.9
Q ss_pred cChhHHHHH-HHHH
Q psy4731 192 WNAHQVELA-LWTH 204 (436)
Q Consensus 192 wT~~dVEKA-LWAa 204 (436)
+.+..|.|. +|.+
T Consensus 212 ~~A~viDR~~~~~F 225 (237)
T PF02932_consen 212 FVAMVIDRLFRILF 225 (237)
T ss_dssp STSHHHHHHHHHHH
T ss_pred ccHHHHHHHHHHHH
Confidence 456777774 4443
No 133
>PHA02844 putative transmembrane protein; Provisional
Probab=27.95 E-value=86 Score=26.69 Aligned_cols=7 Identities=29% Similarity=-0.135 Sum_probs=3.1
Q ss_pred hhhHHHH
Q psy4731 12 HLWFIII 18 (436)
Q Consensus 12 ~~~~~i~ 18 (436)
..|+++|
T Consensus 46 ~~~~~~i 52 (75)
T PHA02844 46 SSTKIWI 52 (75)
T ss_pred hhHHHHH
Confidence 4454443
No 134
>PRK00269 zipA cell division protein ZipA; Reviewed
Probab=27.89 E-value=47 Score=34.19 Aligned_cols=37 Identities=19% Similarity=0.201 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhccC-CCCCcChhHHHHH
Q psy4731 164 TKEYLKFVNFINNTVERLNKESKN-GTGTWNAHQVELA 200 (436)
Q Consensus 164 lKEYlell~~vr~LakRLn~e~~~-g~~~wT~~dVEKA 200 (436)
..-|..+++.++.++.+|+-.--+ +...+|...+|..
T Consensus 240 ~~aFd~Ml~~A~~LA~eLgG~VlDD~R~~LT~q~ie~y 277 (293)
T PRK00269 240 KQAFDVMVAAARKLAHELNGELKDDQRSVLTAQTIEHY 277 (293)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEECCCCCcCCHHHHHHH
Confidence 455666777777777777543111 2346777777764
No 135
>PF13789 DUF4181: Domain of unknown function (DUF4181)
Probab=27.83 E-value=88 Score=26.94 Aligned_cols=14 Identities=43% Similarity=0.223 Sum_probs=8.8
Q ss_pred ccccchhhhHHHHH
Q psy4731 6 KHYHKHHLWFIIII 19 (436)
Q Consensus 6 ~~~~~~~~~~~i~i 19 (436)
||-|+.|.|+=++|
T Consensus 25 ~~vn~~h~~~e~~i 38 (110)
T PF13789_consen 25 KHVNKLHKKGEWII 38 (110)
T ss_pred CchhHHHHHHHHHh
Confidence 67777777655433
No 136
>PHA02650 hypothetical protein; Provisional
Probab=27.75 E-value=87 Score=27.01 Aligned_cols=6 Identities=0% Similarity=-0.634 Sum_probs=2.7
Q ss_pred hhhHHH
Q psy4731 12 HLWFII 17 (436)
Q Consensus 12 ~~~~~i 17 (436)
..|+++
T Consensus 47 ~~~~~~ 52 (81)
T PHA02650 47 FNGQNF 52 (81)
T ss_pred chHHHH
Confidence 344444
No 137
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=27.69 E-value=83 Score=28.26 Aligned_cols=20 Identities=0% Similarity=-0.145 Sum_probs=10.8
Q ss_pred HHhhh--hHHHHhhcCHHHHHH
Q psy4731 82 KWKQT--LNYLVKVNTPRAVMM 101 (436)
Q Consensus 82 EWKLt--L~kLVkSN~e~~Ve~ 101 (436)
.|+++ +..++++-+.+.+..
T Consensus 86 ~p~Ird~ii~~L~~~~~~~l~~ 107 (142)
T PRK07718 86 DFQVKNIIIEELADMNAEDFKG 107 (142)
T ss_pred ChhhHHHHHHHHHcCCHHHhcC
Confidence 45555 555556555555553
No 138
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=27.51 E-value=39 Score=23.59 Aligned_cols=15 Identities=27% Similarity=0.516 Sum_probs=11.4
Q ss_pred hhcCCCCcHHHHHHH
Q psy4731 120 LSNLKGVGTTLASAL 134 (436)
Q Consensus 120 LTkLKGVGPATASAI 134 (436)
+.++.|||+.|+--+
T Consensus 13 i~~~~GIG~kt~~kL 27 (32)
T PF11798_consen 13 IRKFWGIGKKTAKKL 27 (32)
T ss_dssp GGGSTTS-HHHHHHH
T ss_pred HHhhCCccHHHHHHH
Confidence 468999999998754
No 139
>PHA02844 putative transmembrane protein; Provisional
Probab=27.33 E-value=76 Score=27.01 Aligned_cols=11 Identities=18% Similarity=-0.152 Sum_probs=5.1
Q ss_pred hhhHHHHHHHH
Q psy4731 12 HLWFIIIIIII 22 (436)
Q Consensus 12 ~~~~~i~i~ii 22 (436)
..++--.+.||
T Consensus 43 ~~~~~~~~~ii 53 (75)
T PHA02844 43 VCSSSTKIWIL 53 (75)
T ss_pred cCChhHHHHHH
Confidence 34555544443
No 140
>PF06160 EzrA: Septation ring formation regulator, EzrA ; InterPro: IPR010379 During the bacterial cell cycle, the tubulin-like cell-division protein FtsZ polymerises into a ring structure that establishes the location of the nascent division site. EzrA modulates the frequency and position of FtsZ ring formation [].; GO: 0000921 septin ring assembly, 0005940 septin ring, 0016021 integral to membrane
Probab=27.11 E-value=37 Score=36.73 Aligned_cols=11 Identities=18% Similarity=0.290 Sum_probs=5.4
Q ss_pred cccccchhhHH
Q psy4731 46 HSNISNIGWYQ 56 (436)
Q Consensus 46 ~~L~eLD~Wry 56 (436)
.++....+|+.
T Consensus 57 qt~~~fe~w~~ 67 (560)
T PF06160_consen 57 QTEEKFEEWRQ 67 (560)
T ss_pred HHHHHHHHHHH
Confidence 34444555653
No 141
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=26.94 E-value=2.3e+02 Score=26.46 Aligned_cols=19 Identities=53% Similarity=0.723 Sum_probs=14.8
Q ss_pred HHHHHHhhcCCCCCccccHHHHHhc
Q psy4731 130 LASALLAAATPEVAPFMADECLMAI 154 (436)
Q Consensus 130 TASAILAa~~Pe~vPFFSDEAf~~l 154 (436)
--||||+++.|+ ||++..+
T Consensus 120 eisail~~a~~~------DeV~~rL 138 (155)
T PF08496_consen 120 EISAILSVATPE------DEVLVRL 138 (155)
T ss_pred HHHHHHHhCCCC------CeEEEEE
Confidence 358999998874 7887776
No 142
>PRK09458 pspB phage shock protein B; Provisional
Probab=26.91 E-value=1.3e+02 Score=25.60 Aligned_cols=14 Identities=29% Similarity=0.368 Sum_probs=9.0
Q ss_pred CCCcCHHHHHHHHH
Q psy4731 69 DAHLNHEELVQLMK 82 (436)
Q Consensus 69 ~~~LTKDELVkLME 82 (436)
..-||.+|..+|.+
T Consensus 33 ~~~Ls~~d~~~L~~ 46 (75)
T PRK09458 33 SQGLSQEEQQRLAQ 46 (75)
T ss_pred CCCCCHHHHHHHHH
Confidence 45688888666643
No 143
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.69 E-value=47 Score=32.18 Aligned_cols=22 Identities=27% Similarity=0.493 Sum_probs=18.0
Q ss_pred HHHHHHHhhcCCCCcHHHHHHH
Q psy4731 113 LELALSALSNLKGVGTTLASAL 134 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAI 134 (436)
+..-++.|.+|+||||-||-=+
T Consensus 6 ~~~Li~~l~~LPGIG~KsA~Rl 27 (195)
T TIGR00615 6 ISKLIESLKKLPGIGPKSAQRL 27 (195)
T ss_pred HHHHHHHHHHCCCCCHHHHHHH
Confidence 5667888999999999998644
No 144
>PRK13901 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=26.68 E-value=48 Score=32.00 Aligned_cols=60 Identities=13% Similarity=0.133 Sum_probs=36.5
Q ss_pred CCcCHHHHHHHHHHh-hh------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 70 AHLNHEELVQLMKWK-QT------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 70 ~~LTKDELVkLMEWK-Lt------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
++.|++|..-...-. .. -+.+++..+++.+.++... .=.+.||+++|||+-||.=|.-=.
T Consensus 61 GF~t~~Er~lF~~LisVsGIGPK~ALaILs~~~~~el~~aI~~---------~D~~~L~~vpGIGkKtAeRIIlEL 127 (196)
T PRK13901 61 GFLNSSEREVFEELIGVDGIGPRAALRVLSGIKYNEFRDAIDR---------EDIELISKVKGIGNKMAGKIFLKL 127 (196)
T ss_pred CCCCHHHHHHHHHHhCcCCcCHHHHHHHHcCCCHHHHHHHHHh---------CCHHHHhhCCCCCHHHHHHHHHHH
Confidence 588998865442221 11 3444455555555443322 235689999999999999776433
No 145
>PRK11677 hypothetical protein; Provisional
Probab=26.52 E-value=69 Score=29.36 Aligned_cols=8 Identities=13% Similarity=0.027 Sum_probs=3.3
Q ss_pred HHHhccCC
Q psy4731 38 IIINRIPI 45 (436)
Q Consensus 38 iiin~ip~ 45 (436)
.++.|...
T Consensus 18 ~~~~R~~~ 25 (134)
T PRK11677 18 AVAMRFGN 25 (134)
T ss_pred HHHHhhcc
Confidence 34444433
No 146
>PF05751 FixH: FixH; InterPro: IPR008620 This family consists of several Rhizobium FixH like proteins. It has been suggested that the four proteins FixG, FixH, FixI, and FixS may participate in a membrane-bound complex coupling the FixI cation pump with a redox process catalysed by FixG [].
Probab=26.41 E-value=9.2 Score=33.04 Aligned_cols=28 Identities=18% Similarity=0.507 Sum_probs=16.5
Q ss_pred hhhHHhhcchhHhhcCCCCCcCHHHHHHHHHHhhh
Q psy4731 52 IGWYQNELPKKIKARGKDAHLNHEELVQLMKWKQT 86 (436)
Q Consensus 52 D~WryeELP~~Ik~R~k~~~LTKDELVkLMEWKLt 86 (436)
|+||..++ .=+..+.+.+..+=+.|+..
T Consensus 36 ~dYY~~g~-------~y~~~i~~~~~a~~lg~~~~ 63 (146)
T PF05751_consen 36 DDYYEKGL-------AYNQDIDRERAAEALGWKAE 63 (146)
T ss_pred ccHHHhhh-------hhhhhhHHHHHHHhcCccce
Confidence 88887553 11234556666666667765
No 147
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=26.40 E-value=50 Score=31.55 Aligned_cols=60 Identities=12% Similarity=0.154 Sum_probs=36.7
Q ss_pred CCcCHHHHHHHHHHh-hh------hHHHHhhcCHHHHHHHHHHHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 70 AHLNHEELVQLMKWK-QT------LNYLVKVNTPRAVMMETKKAFKKLPNLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 70 ~~LTKDELVkLMEWK-Lt------L~kLVkSN~e~~Ve~~TkkAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
.|.|++|..-...-. .. -+.+.+..+++.+.++... .=.+.|++++|||+-||--|+.=.
T Consensus 63 GF~~~~Er~lF~~Li~V~GIGpK~Al~iLs~~~~~~l~~aI~~---------~D~~~L~~ipGIGkKtAerIilEL 129 (203)
T PRK14602 63 GFATWDERQTFIVLISISKVGAKTALAILSQFRPDDLRRLVAE---------EDVAALTRVSGIGKKTAQHIFLEL 129 (203)
T ss_pred CCCCHHHHHHHHHHhCCCCcCHHHHHHHHhhCCHHHHHHHHHh---------CCHHHHhcCCCcCHHHHHHHHHHH
Confidence 578888865443321 11 4444455555544443322 235689999999999999887544
No 148
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=25.95 E-value=1.7e+02 Score=28.57 Aligned_cols=9 Identities=33% Similarity=0.409 Sum_probs=6.4
Q ss_pred HHHHHHHHH
Q psy4731 74 HEELVQLMK 82 (436)
Q Consensus 74 KDELVkLME 82 (436)
.+|+-+|..
T Consensus 217 ~dEi~~l~~ 225 (457)
T TIGR01386 217 PAELRELAQ 225 (457)
T ss_pred hHHHHHHHH
Confidence 588887754
No 149
>PRK09793 methyl-accepting protein IV; Provisional
Probab=25.92 E-value=1.1e+02 Score=32.16 Aligned_cols=10 Identities=10% Similarity=0.418 Sum_probs=6.2
Q ss_pred cCHHHHHHHH
Q psy4731 72 LNHEELVQLM 81 (436)
Q Consensus 72 LTKDELVkLM 81 (436)
-.+||+-+|.
T Consensus 240 ~~~dE~g~l~ 249 (533)
T PRK09793 240 YGRNEITAIF 249 (533)
T ss_pred CCCCHHHHHH
Confidence 3567776664
No 150
>PF13314 DUF4083: Domain of unknown function (DUF4083)
Probab=25.74 E-value=1.5e+02 Score=24.27 Aligned_cols=8 Identities=50% Similarity=0.617 Sum_probs=3.1
Q ss_pred HHHHHHHh
Q psy4731 34 IIIIIIIN 41 (436)
Q Consensus 34 ~~~iiiin 41 (436)
+|=++.+|
T Consensus 26 ~IRri~~~ 33 (58)
T PF13314_consen 26 FIRRILIN 33 (58)
T ss_pred HHHHHHHh
Confidence 33334444
No 151
>COG1622 CyoA Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]
Probab=25.66 E-value=1e+02 Score=30.69 Aligned_cols=28 Identities=14% Similarity=0.502 Sum_probs=13.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy4731 12 HLWFIIIIIIIIIIIIIIIIIIIIIIIII 40 (436)
Q Consensus 12 ~~~~~i~i~ii~~~ii~~i~~~~~~iiii 40 (436)
..|+++.+++++.+ |.+.|+.++++.++
T Consensus 30 ~~~~~~~~~~~~~~-I~~~V~~~~~~~~~ 57 (247)
T COG1622 30 QRDLIILSTLLMLV-IVLPVIVLLVYFAW 57 (247)
T ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHHh
Confidence 34444444444443 54555555555554
No 152
>PRK13844 recombination protein RecR; Provisional
Probab=25.40 E-value=51 Score=32.12 Aligned_cols=22 Identities=18% Similarity=0.386 Sum_probs=17.9
Q ss_pred HHHHHHHhhcCCCCcHHHHHHH
Q psy4731 113 LELALSALSNLKGVGTTLASAL 134 (436)
Q Consensus 113 V~aAL~~LTkLKGVGPATASAI 134 (436)
+..-+..|.+|+||||-||-=+
T Consensus 10 ~~~LI~~l~~LPGIG~KsA~Rl 31 (200)
T PRK13844 10 ISAVIESLRKLPTIGKKSSQRL 31 (200)
T ss_pred HHHHHHHHHHCCCCCHHHHHHH
Confidence 5667888999999999998643
No 153
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=25.32 E-value=60 Score=32.96 Aligned_cols=27 Identities=22% Similarity=0.311 Sum_probs=23.5
Q ss_pred CHHHHHHHhhcCCCCcHHHHHHHHhhc
Q psy4731 112 NLELALSALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASAILAa~ 138 (436)
.+..+|..|.++.||||.||-.+...+
T Consensus 83 ~~p~~l~~l~~i~GiGpk~a~~l~~lG 109 (334)
T smart00483 83 EVYKSLKLFTNVFGVGPKTAAKWYRKG 109 (334)
T ss_pred cHHHHHHHHHccCCcCHHHHHHHHHhC
Confidence 467899999999999999999887743
No 154
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=25.31 E-value=69 Score=28.02 Aligned_cols=19 Identities=11% Similarity=0.288 Sum_probs=10.7
Q ss_pred CcCHHHHHHHHHHhhhhHHHHhhcCH
Q psy4731 71 HLNHEELVQLMKWKQTLNYLVKVNTP 96 (436)
Q Consensus 71 ~LTKDELVkLMEWKLtL~kLVkSN~e 96 (436)
.||-|++.-| -.||.+-++
T Consensus 51 ~lTpDQVrAl-------HRlvTsSpe 69 (92)
T PHA02681 51 KMTDDQVRAF-------HALVTSSPE 69 (92)
T ss_pred cCCHHHHHHH-------HHHHhCCCC
Confidence 5777776544 445555543
No 155
>KOG3637|consensus
Probab=25.26 E-value=43 Score=39.29 Aligned_cols=22 Identities=14% Similarity=0.276 Sum_probs=13.8
Q ss_pred ccccchhhhHHHHHHHHHHHHH
Q psy4731 6 KHYHKHHLWFIIIIIIIIIIII 27 (436)
Q Consensus 6 ~~~~~~~~~~~i~i~ii~~~ii 27 (436)
++.+..+-|||||+-||+-+++
T Consensus 970 ~~~~~~vp~wiIi~svl~GLLl 991 (1030)
T KOG3637|consen 970 QEEERPVPLWIIILSVLGGLLL 991 (1030)
T ss_pred cccCCccceeeehHHHHHHHHH
Confidence 3455568888887666555444
No 156
>smart00483 POLXc DNA polymerase X family. includes vertebrate polymerase beta and terminal deoxynucleotidyltransferases
Probab=25.24 E-value=50 Score=33.49 Aligned_cols=57 Identities=18% Similarity=0.183 Sum_probs=34.3
Q ss_pred hHHHHhhcCHHHHHHHHH--HHHhhCcCHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCc
Q psy4731 87 LNYLVKVNTPRAVMMETK--KAFKKLPNLELALSALSNLKGVGTTLASALLAAATPEVAP 144 (436)
Q Consensus 87 L~kLVkSN~e~~Ve~~Tk--kAF~~LpDV~aAL~~LTkLKGVGPATASAILAa~~Pe~vP 144 (436)
|+.+-.-|+ -.|..--+ .+.+.++..-..+..|++|+|||+++|.-|--...-...+
T Consensus 16 l~el~gen~-~k~~ay~~Aa~~i~~l~~~i~~~~~l~~lpgIG~~ia~kI~Eil~tG~~~ 74 (334)
T smart00483 16 NYEVFGENK-RKCSYFRKAASVLKSLPFPINSMKDLKGLPGIGDKIKKKIEEIIETGKSS 74 (334)
T ss_pred HHHHhcccH-HHHHHHHHHHHHHHhCCCCCCCHHHHhcCCCccHHHHHHHHHHHHhCcHH
Confidence 555544442 33332222 2334566444455688999999999999998776543433
No 157
>TIGR03631 bact_S13 30S ribosomal protein S13. This model describes bacterial ribosomal protein S13, to the exclusion of the homologous archaeal S13P and eukaryotic ribosomal protein S18. This model identifies some (but not all) instances of chloroplast and mitochondrial S13, which is of bacterial type.
Probab=25.23 E-value=58 Score=28.75 Aligned_cols=38 Identities=34% Similarity=0.411 Sum_probs=27.7
Q ss_pred HHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHhc
Q psy4731 117 LSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMAI 154 (436)
Q Consensus 117 L~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~l 154 (436)
.-+|+.++|||+.+|-.|+..+. |. .+-.++|+-+..+
T Consensus 14 ~~aL~~i~GIG~~~a~~i~~~lgi~~~~~~~~L~~~qi~~l 54 (113)
T TIGR03631 14 EIALTYIYGIGRTRARKILEKAGIDPDKRVKDLTEEELNAI 54 (113)
T ss_pred eeeeeeeecccHHHHHHHHHHhCcCcccccccCCHHHHHHH
Confidence 34689999999999999998874 43 4556666655443
No 158
>COG1059 Thermostable 8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]
Probab=25.19 E-value=5.7e+02 Score=25.52 Aligned_cols=78 Identities=24% Similarity=0.336 Sum_probs=51.7
Q ss_pred HHHHhh-cCCCCcHHHHHHHHhhcCCCCCccccHH-HHHhcC-----CCCCCccCHHHHHHHHHHHHHHHHHHhhhccCC
Q psy4731 116 ALSALS-NLKGVGTTLASALLAAATPEVAPFMADE-CLMAIP-----EIEGIDYTTKEYLKFVNFINNTVERLNKESKNG 188 (436)
Q Consensus 116 AL~~LT-kLKGVGPATASAILAa~~Pe~vPFFSDE-Af~~lp-----g~~kIKYTlKEYlell~~vr~LakRLn~e~~~g 188 (436)
|=+.|. +.||+|=--||=+|-=.-=+.+... |. .+.|+. ...+...|.|-|+..-+.+|.+++.++
T Consensus 118 aRE~Lv~nikGiGyKEASHFLRNVG~~D~AIl-DrHIlr~l~r~g~i~e~~kt~t~K~YLe~E~ilr~iae~~g------ 190 (210)
T COG1059 118 ARELLVENIKGIGYKEASHFLRNVGFEDLAIL-DRHILRWLVRYGLIDENPKTLTRKLYLEIEEILRSIAEEVG------ 190 (210)
T ss_pred HHHHHHHHcccccHHHHHHHHHhcChhHHHHH-HHHHHHHHHHhcccccCcccccHHHHHHHHHHHHHHHHHhC------
Confidence 555666 9999999999999843211222212 33 334541 122347889999999999999999984
Q ss_pred CCCcChhHHHHHHHH
Q psy4731 189 TGTWNAHQVELALWT 203 (436)
Q Consensus 189 ~~~wT~~dVEKALWA 203 (436)
.++..+-.-+|-
T Consensus 191 ---~s~gelDL~IWY 202 (210)
T COG1059 191 ---ISLGELDLYIWY 202 (210)
T ss_pred ---CCcchhHHHHHH
Confidence 456666666664
No 159
>PHA02650 hypothetical protein; Provisional
Probab=25.15 E-value=87 Score=27.00 Aligned_cols=13 Identities=31% Similarity=0.460 Sum_probs=7.2
Q ss_pred hhhHHHHHHHHHH
Q psy4731 12 HLWFIIIIIIIII 24 (436)
Q Consensus 12 ~~~~~i~i~ii~~ 24 (436)
..|+--.+.||+|
T Consensus 44 ~~~~~~~~~ii~i 56 (81)
T PHA02650 44 VSWFNGQNFIFLI 56 (81)
T ss_pred cCCchHHHHHHHH
Confidence 5566665555543
No 160
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=25.13 E-value=50 Score=30.86 Aligned_cols=23 Identities=35% Similarity=0.681 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy4731 18 IIIIIIIIIIIIIIIIIIIIIII 40 (436)
Q Consensus 18 ~i~ii~~~ii~~i~~~~~~iiii 40 (436)
|+-|-.+||-|-+++++|.+|+.
T Consensus 3 ilyIs~~iiAiAf~vL~I~li~t 25 (139)
T COG4768 3 ILYISLAIIAIAFLVLVIYLIIT 25 (139)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333344444444443
No 161
>cd00141 NT_POLXc Nucleotidyltransferase (NT) domain of family X DNA Polymerases. X family polymerases fill in short gaps during DNA repair. They are relatively inaccurate enzymes and play roles in base excision repair, in non-homologous end joining (NHEJ) which acts mainly to repair damage due to ionizing radiation, and in V(D)J recombination. This family includes eukaryotic Pol beta, Pol lambda, Pol mu, and terminal deoxyribonucleotidyl transferase (TdT). Pol beta and Pol lambda are primarily DNA template-dependent polymerases. TdT is a DNA template-independent polymerase. Pol mu has both template dependent and template independent activities. This subgroup belongs to the Pol beta-like NT superfamily. In the majority of enzymes in this superfamily, two carboxylates, Dx[D/E], together with a third more distal carboxylate, coordinate two divalent metal cations involved in a two-metal ion mechanism of nucleotide addition. These three carboxylate residues are fairly well conserved in this
Probab=24.93 E-value=57 Score=32.64 Aligned_cols=54 Identities=20% Similarity=0.195 Sum_probs=33.9
Q ss_pred CHHHHHHHhhcCCCCcHHHHHHHHhhcCCCCCccccHHHHHhcCC--CCCCccCHHHHHHH
Q psy4731 112 NLELALSALSNLKGVGTTLASALLAAATPEVAPFMADECLMAIPE--IEGIDYTTKEYLKF 170 (436)
Q Consensus 112 DV~aAL~~LTkLKGVGPATASAILAa~~Pe~vPFFSDEAf~~lpg--~~kIKYTlKEYlel 170 (436)
+...+|..|++++||||.||-.+...+.- . =||...+.+. ...++..++.|.++
T Consensus 79 ~~~~~l~~l~~i~GiGpk~a~~l~~lGi~-s----l~dL~~a~g~k~~~~i~~gl~~~~~~ 134 (307)
T cd00141 79 DVPPGLLLLLRVPGVGPKTARKLYELGIR-T----LEDLRKAAGAKLEQNILIGLEYYEDF 134 (307)
T ss_pred cchHHHHHHHcCCCCCHHHHHHHHHcCCC-C----HHHHHHHhccccHHHHHHHHHHHHHh
Confidence 35679999999999999999998844431 1 1444444321 12344555555544
No 162
>PF13858 DUF4199: Protein of unknown function (DUF4199)
Probab=24.85 E-value=1.4e+02 Score=26.08 Aligned_cols=55 Identities=22% Similarity=0.208 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHhccCCcccccchhhHHhhcchhHhhcCCCCCcCHHHHHHHHHHh
Q psy4731 26 IIIIIIIIIIIIIIINRIPIHSNISNIGWYQNELPKKIKARGKDAHLNHEELVQLMKWK 84 (436)
Q Consensus 26 ii~~i~~~~~~iiiin~ip~~~L~eLD~WryeELP~~Ik~R~k~~~LTKDELVkLMEWK 84 (436)
++.-++..+...+.+++|.++-+.++-+...+++ ++-+.....+.++..+.+++|
T Consensus 75 ~ia~li~~v~~~i~~~~IdP~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 129 (163)
T PF13858_consen 75 LIAGLISAVFQYIYFNYIDPDFFENYIEAQIEEM----KESGSNPEMIEEQIEQELEMK 129 (163)
T ss_pred HHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHH----HHcccCHhhHHHHHHHHHHHH
Confidence 3334555566677788887766666655554422 223333455556777766665
No 163
>PRK03980 flap endonuclease-1; Provisional
Probab=24.78 E-value=1.7e+02 Score=29.43 Aligned_cols=68 Identities=18% Similarity=0.250 Sum_probs=40.4
Q ss_pred cCCCCcHHHHHHHHhhcCC-------CCCcccc-HHHHHhc--CC---CCCCccCHHHHHHHHHHHHHHHHHHhhhccCC
Q psy4731 122 NLKGVGTTLASALLAAATP-------EVAPFMA-DECLMAI--PE---IEGIDYTTKEYLKFVNFINNTVERLNKESKNG 188 (436)
Q Consensus 122 kLKGVGPATASAILAa~~P-------e~vPFFS-DEAf~~l--pg---~~kIKYTlKEYlell~~vr~LakRLn~e~~~g 188 (436)
.++||||-||.-++.-+-- ....|-. +|+...+ |. ...++|.......+.+.+.+ +
T Consensus 193 GI~GIG~ktA~kLi~~~~sle~i~~~~~~~~~~~~~~r~~f~~p~v~~~~~~~~~~pd~~~l~~fl~~---e-------- 261 (292)
T PRK03980 193 GIKGIGPKTALKLIKKHGDLEKVLEERGFEIENYDEIREFFLNPPVTDDYELKWKEPDKEGIIEFLVE---E-------- 261 (292)
T ss_pred CCCCccHHHHHHHHHHCCCHHHHHHhccCCCCCHHHHHHHhcCCCCCCCCCccCCCCCHHHHHHHHhc---c--------
Confidence 4899999999999977631 0112223 5666654 32 23445544455554444321 2
Q ss_pred CCCcChhHHHHHH
Q psy4731 189 TGTWNAHQVELAL 201 (436)
Q Consensus 189 ~~~wT~~dVEKAL 201 (436)
..|+..+|++++
T Consensus 262 -~~f~~~rv~~~~ 273 (292)
T PRK03980 262 -HDFSEERVKKAL 273 (292)
T ss_pred -CCCCHHHHHHHH
Confidence 469999999884
No 164
>KOG2534|consensus
Probab=24.58 E-value=73 Score=33.61 Aligned_cols=46 Identities=22% Similarity=0.242 Sum_probs=31.5
Q ss_pred hhCcCHHHHHHHhhcCCCCcHHHHHHHHhhcC----CCCCccccHHHHHh
Q psy4731 108 KKLPNLELALSALSNLKGVGTTLASALLAAAT----PEVAPFMADECLMA 153 (436)
Q Consensus 108 ~~LpDV~aAL~~LTkLKGVGPATASAILAa~~----Pe~vPFFSDEAf~~ 153 (436)
+.+|-.-.+.+.+++|+||||-.|=.|=-... ++.--|--||.+..
T Consensus 46 k~~p~~I~S~~ea~~lP~iG~kia~ki~EiletG~l~ele~v~~de~~~~ 95 (353)
T KOG2534|consen 46 KSLPFPITSGEEAEKLPGIGPKIAEKIQEILETGVLRELEAVRNDERSQS 95 (353)
T ss_pred HhCCCCcccHHHhcCCCCCCHHHHHHHHHHHHcCCchhHHHHhcchhHHH
Confidence 44555556778889999999999988765553 44444566775543
No 165
>PF04011 LemA: LemA family; InterPro: IPR007156 The members of this family are related to the LemA protein P71452 from SWISSPROT. The exact molecular function of this protein is uncertain. It is predicted to be a transmembrane protein with an extracellular N terminus [].; PDB: 2ETD_A.
Probab=24.37 E-value=25 Score=32.27 Aligned_cols=9 Identities=11% Similarity=-0.086 Sum_probs=2.5
Q ss_pred CCcccccch
Q psy4731 44 PIHSNISNI 52 (436)
Q Consensus 44 p~~~L~eLD 52 (436)
.-.+|..|+
T Consensus 21 ~yN~L~~~~ 29 (186)
T PF04011_consen 21 SYNSLVRLR 29 (186)
T ss_dssp ----HHHHH
T ss_pred HHHHHHHHH
Confidence 344455544
No 166
>TIGR00084 ruvA Holliday junction DNA helicase, RuvA subunit. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.
Probab=24.22 E-value=56 Score=30.88 Aligned_cols=21 Identities=38% Similarity=0.502 Sum_probs=17.6
Q ss_pred HHhhcCCCCcHHHHHHHHhhc
Q psy4731 118 SALSNLKGVGTTLASALLAAA 138 (436)
Q Consensus 118 ~~LTkLKGVGPATASAILAa~ 138 (436)
..|++++|||+-||.-|+--.
T Consensus 107 ~~L~~ipGiGkKtAerIileL 127 (191)
T TIGR00084 107 KALVKIPGVGKKTAERLLLEL 127 (191)
T ss_pred HHHHhCCCCCHHHHHHHHHHH
Confidence 468999999999999998443
No 167
>PRK05179 rpsM 30S ribosomal protein S13; Validated
Probab=24.20 E-value=40 Score=30.12 Aligned_cols=38 Identities=37% Similarity=0.454 Sum_probs=26.8
Q ss_pred HHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHh
Q psy4731 116 ALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMA 153 (436)
Q Consensus 116 AL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~ 153 (436)
..-+|+.++|||+.+|-.|+..+. |. .+-..+||-+..
T Consensus 15 v~~aL~~I~GIG~~~a~~i~~~lgi~~~~~~~~L~~~qi~~ 55 (122)
T PRK05179 15 VVIALTYIYGIGRTRAKEILAAAGIDPDTRVKDLTDEELDK 55 (122)
T ss_pred EEeeecccccccHHHHHHHHHHhCcCcccccccCCHHHHHH
Confidence 344689999999999999998874 33 344555554443
No 168
>COG4339 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.97 E-value=1.9e+02 Score=28.39 Aligned_cols=52 Identities=23% Similarity=0.242 Sum_probs=34.5
Q ss_pred HHHHhcCCCCCCcc-CHHHHHHHHHHHHHHHHHHhhhccCCCCCcChhHHHHHHHHHHHHhhcC
Q psy4731 149 ECLMAIPEIEGIDY-TTKEYLKFVNFINNTVERLNKESKNGTGTWNAHQVELALWTHYVAAELK 211 (436)
Q Consensus 149 EAf~~lpg~~kIKY-TlKEYlell~~vr~LakRLn~e~~~g~~~wT~~dVEKALWAa~Vl~kl~ 211 (436)
+....+.+ +..-| |+|+-.-.++.++.++.-+ -++.-||.++|.|.+.-.-+
T Consensus 27 ~L~aaY~~-~dRHYH~l~HI~a~L~~~~~~r~la----------~dp~~VElA~WfHD~iYDtq 79 (208)
T COG4339 27 HLIAAYSS-PDRHYHTLKHISAVLQTIQTLRTLA----------QDPPGVELAAWFHDVIYDTQ 79 (208)
T ss_pred HHHHHhcC-CccchhhHHHHHHHHHHHHHHHHHh----------cCCchhHHHHHHHHHHhhhh
Confidence 33333433 56666 7888777777776655443 24778999999999876543
No 169
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=23.70 E-value=97 Score=32.46 Aligned_cols=9 Identities=22% Similarity=0.357 Sum_probs=5.6
Q ss_pred HHHHHHHHH
Q psy4731 74 HEELVQLMK 82 (436)
Q Consensus 74 KDELVkLME 82 (436)
+||+-+|..
T Consensus 244 ~DEig~l~~ 252 (553)
T PRK15048 244 RSEMGDLAQ 252 (553)
T ss_pred CCHHHHHHH
Confidence 567666654
No 170
>COG4741 Predicted secreted endonuclease distantly related to archaeal Holliday junction resolvase [Nucleotide transport and metabolism]
Probab=23.36 E-value=78 Score=30.43 Aligned_cols=7 Identities=43% Similarity=1.065 Sum_probs=4.2
Q ss_pred CCCcccc
Q psy4731 141 EVAPFMA 147 (436)
Q Consensus 141 e~vPFFS 147 (436)
.-+|||-
T Consensus 94 qlaPffp 100 (175)
T COG4741 94 QLAPFFP 100 (175)
T ss_pred hhccccc
Confidence 4567665
No 171
>PRK04053 rps13p 30S ribosomal protein S13P; Reviewed
Probab=23.16 E-value=48 Score=30.79 Aligned_cols=59 Identities=22% Similarity=0.322 Sum_probs=38.0
Q ss_pred CcCHHHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHhcCC--CCCCccCHHHHH
Q psy4731 110 LPNLELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMAIPE--IEGIDYTTKEYL 168 (436)
Q Consensus 110 LpDV~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~lpg--~~kIKYTlKEYl 168 (436)
+++-+...-+|+.++|||+.+|-.|+.... |. .+--++++-...+-. ..+.+|.+++|.
T Consensus 17 i~~~k~i~~aLt~IyGIG~~~a~~Ic~~lgi~~~~~~~~Lt~~qi~~l~~~i~~~~~~~iP~w~ 80 (149)
T PRK04053 17 LDGTKPVEYALTGIKGIGRRTARAIARKLGLDPNAKLGYLSDEEIEKIEEALEDPAEEGIPSWM 80 (149)
T ss_pred CCCCCEEeeeccccccccHHHHHHHHHHcCcCCCCccCcCCHHHHHHHHHHHHhhccccCchhh
Confidence 344445556789999999999999998874 43 455566665543321 123456666655
No 172
>PF09451 ATG27: Autophagy-related protein 27; InterPro: IPR018939 Autophagy is a degradative transport pathway that delivers cytosolic proteins to the lysosome (vacuole) [] and is induced by starvation []. Cytosolic proteins appear inside the vacuole enclosed in autophagic vesicles. Autophagy significantly differs from other transport pathways by using double membrane layered transport intermediates, called autophagosomes [, ]. The breakdown of vesicular transport intermediates is a unique feature of autophagy []. Autophagy can also function in the elimination of invading bacteria and antigens []. There are more than 25 AuTophaGy-related (ATG) genes that are essential for autophagy, although it is still not known how the autophagosome is made. Atg9 is a potential membrane carrier to deliver lipids that are used to form the vesicle. Atg27 is another transmembrane protein, and is a cycling protein []. It acts as an effector of VPS34 phosphatidylinositol 3-phosphate kinase signalling and regulates the cytoplasm to vacuole transport (Cvt) vesicle formation. It is also required for autophagy-dependent cycling of ATG9.
Probab=23.11 E-value=97 Score=30.42 Aligned_cols=34 Identities=24% Similarity=0.070 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHhccCC---cccccchhhHHhhcchhHhh
Q psy4731 30 IIIIIIIIIIINRIPI---HSNISNIGWYQNELPKKIKA 65 (436)
Q Consensus 30 i~~~~~~iiiin~ip~---~~L~eLD~WryeELP~~Ik~ 65 (436)
+-+|+.+++-.|+--. +=+...|-|| +||..++.
T Consensus 216 ~Y~i~g~~~n~~~~g~~g~e~iP~~dfw~--~lP~l~kd 252 (268)
T PF09451_consen 216 AYLIFGSWYNYNRYGARGFELIPHFDFWR--SLPYLIKD 252 (268)
T ss_pred HHhhhhhheeeccCCCCCceecccHhHHH--hchHHHHH
Confidence 4444444444444221 1223335554 36666654
No 173
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=23.11 E-value=1.7e+02 Score=23.16 Aligned_cols=6 Identities=17% Similarity=0.484 Sum_probs=2.9
Q ss_pred HHHhcc
Q psy4731 38 IIINRI 43 (436)
Q Consensus 38 iiin~i 43 (436)
.++++.
T Consensus 31 ~~~~~~ 36 (79)
T PF04277_consen 31 KLIRKF 36 (79)
T ss_pred HHHHhh
Confidence 335554
No 174
>cd00080 HhH2_motif Helix-hairpin-helix class 2 (Pol1 family) motif. HhH2 domains are found in Rad2 family of prokaryotic and eukaryotic replication and repair nucleases, i.e., DNA polymerase I, Taq DNA polymerase, DNA repair protein Rad2 endonuclease, flap endonuclease, exonuclease I and IX, 5'-3' exonuclease and also bacteriophage Rnase H. These nucleases degrade RNA-DNA or DNA-DNA duplexes, or both and play essential roles in DNA duplication, repair, and recombination.
Probab=22.95 E-value=56 Score=26.39 Aligned_cols=18 Identities=28% Similarity=0.418 Sum_probs=15.6
Q ss_pred hcCCCCcHHHHHHHHhhc
Q psy4731 121 SNLKGVGTTLASALLAAA 138 (436)
Q Consensus 121 TkLKGVGPATASAILAa~ 138 (436)
-.++||||-||.-+|.-+
T Consensus 25 ~gv~giG~k~A~~ll~~~ 42 (75)
T cd00080 25 PGVPGIGPKTALKLLKEY 42 (75)
T ss_pred CCCCcccHHHHHHHHHHh
Confidence 358999999999999775
No 175
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=22.91 E-value=1.2e+02 Score=22.49 Aligned_cols=14 Identities=14% Similarity=0.494 Sum_probs=5.3
Q ss_pred HHHHHHHHHHhccC
Q psy4731 31 IIIIIIIIIINRIP 44 (436)
Q Consensus 31 ~~~~~~iiiin~ip 44 (436)
+.+++...+.++|.
T Consensus 11 ~~~~~~~~~~~~i~ 24 (70)
T PF00672_consen 11 LSLLLAWLLARRIT 24 (70)
T ss_dssp HHHHHHHH--HTTC
T ss_pred HHHHHHHHHHHHHH
Confidence 33344444555544
No 176
>PRK09835 sensor kinase CusS; Provisional
Probab=22.84 E-value=1.6e+02 Score=29.24 Aligned_cols=13 Identities=31% Similarity=0.051 Sum_probs=9.3
Q ss_pred HHHHHHHHHHhhh
Q psy4731 74 HEELVQLMKWKQT 86 (436)
Q Consensus 74 KDELVkLMEWKLt 86 (436)
+|||.+|.+--=.
T Consensus 238 ~dEl~~l~~~~n~ 250 (482)
T PRK09835 238 PIELEQLVLSFNH 250 (482)
T ss_pred ChHHHHHHHHHHH
Confidence 6899988765444
No 177
>PHA03093 EEV glycoprotein; Provisional
Probab=22.76 E-value=1.4e+02 Score=29.05 Aligned_cols=8 Identities=0% Similarity=-0.280 Sum_probs=4.5
Q ss_pred ccchhhHH
Q psy4731 49 ISNIGWYQ 56 (436)
Q Consensus 49 ~eLD~Wry 56 (436)
++||+-+.
T Consensus 59 lqln~Ck~ 66 (185)
T PHA03093 59 LQLNKCKS 66 (185)
T ss_pred HHHHHHHH
Confidence 45666544
No 178
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=22.73 E-value=1.4e+02 Score=29.18 Aligned_cols=11 Identities=18% Similarity=-0.031 Sum_probs=8.5
Q ss_pred CHHHHHHHHHH
Q psy4731 73 NHEELVQLMKW 83 (436)
Q Consensus 73 TKDELVkLMEW 83 (436)
.+||+-+|.+.
T Consensus 218 ~~dEi~~l~~~ 228 (461)
T PRK09470 218 GPQEFRQAGAS 228 (461)
T ss_pred ChHHHHHHHHH
Confidence 68999888664
No 179
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=22.70 E-value=1.1e+02 Score=25.67 Aligned_cols=6 Identities=17% Similarity=0.368 Sum_probs=2.4
Q ss_pred HHHhcc
Q psy4731 38 IIINRI 43 (436)
Q Consensus 38 iiin~i 43 (436)
++..|+
T Consensus 22 L~lHY~ 27 (75)
T PF06667_consen 22 LILHYR 27 (75)
T ss_pred HHHHHH
Confidence 334443
No 180
>PF10858 DUF2659: Protein of unknown function (DUF2659); InterPro: IPR022588 This bacterial family of proteins has no known function.
Probab=22.63 E-value=99 Score=30.45 Aligned_cols=34 Identities=15% Similarity=0.219 Sum_probs=22.6
Q ss_pred HHHHHhhhccCCCCCcChhHHHHHHHHHHHHhhc
Q psy4731 177 TVERLNKESKNGTGTWNAHQVELALWTHYVAAEL 210 (436)
Q Consensus 177 LakRLn~e~~~g~~~wT~~dVEKALWAa~Vl~kl 210 (436)
|.+.|+-.+....+-|.-..+=+|.|.+.-.++-
T Consensus 155 L~kyL~yfdd~~kPFWatAtI~kaiwdik~nm~~ 188 (220)
T PF10858_consen 155 LIKYLNYFDDEKKPFWATATIIKAIWDIKNNMKN 188 (220)
T ss_pred HHHHHhhccCCCCchHHHHHHHHHHHHHHcCCcH
Confidence 3445555555555778889999999887654433
No 181
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=22.29 E-value=45 Score=30.68 Aligned_cols=40 Identities=25% Similarity=0.390 Sum_probs=28.2
Q ss_pred HHHHHHhhcCCCCcHHHHHHHHhhcC--CC-CCccccHHHHHh
Q psy4731 114 ELALSALSNLKGVGTTLASALLAAAT--PE-VAPFMADECLMA 153 (436)
Q Consensus 114 ~aAL~~LTkLKGVGPATASAILAa~~--Pe-~vPFFSDEAf~~ 153 (436)
+...-+|+.++|||+.+|-.|+.... |. .+--++||-...
T Consensus 17 k~v~~aLt~I~GIG~~~a~~I~~~lgi~~~~~~~~Lt~~qi~~ 59 (144)
T TIGR03629 17 KPVEYALTGIKGIGRRFARAIARKLGVDPNAKLGYLDDEEIEK 59 (144)
T ss_pred CEEEEeecceeccCHHHHHHHHHHcCcCCCCCcccCCHHHHHH
Confidence 33445689999999999999998874 33 455566664443
No 182
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=22.11 E-value=1.1e+02 Score=35.32 Aligned_cols=15 Identities=20% Similarity=0.253 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHhhCc
Q psy4731 97 RAVMMETKKAFKKLP 111 (436)
Q Consensus 97 ~~Ve~~TkkAF~~Lp 111 (436)
..+.+.++.|+..+|
T Consensus 98 ~~~~~~~~~~l~~~p 112 (838)
T PRK14538 98 FHVSQIGEEVLNELP 112 (838)
T ss_pred HHHhHHHHHHHHhCC
Confidence 345555556665544
No 183
>PF00502 Phycobilisome: Phycobilisome protein; InterPro: IPR012128 Cyanobacteria and red algae harvest light through water-soluble complexes, called phycobilisomes, which are attached to the outer face of the thylakoid membrane []. These complexes are capable of transferring the absorbed energy to the photosynthetic reaction centre with greater than 95% efficiency. Phycobilisomes contain various photosynthetic light harvesting proteins known as biliproteins, and linker proteins which help assemble the structure. The two main structural elements of the complex are a core located near the photosynthetic reaction centre, and rods attached to this core. Allophycocyanin is the major component of the core, while the rods contain phycocyanins, phycoerythrins and linker proteins. The rod biliproteins harvest photons, with the excitation energy being passed through the rods into the allophycocyanin in the core. Other core biliproteins subsequently pass this energy to chlorophyll within the thylakoid membrane. This entry represents the alpha and beta subunits found in biliproteins from cyanobacteria and red algae. Structural studies indicate that the basic structural unit of most biliproteins is a heterodimer composed of these alpha and beta subunits [, , , ]. The full protein is a ring-like trimer assembly of these heterodimers. Each subunit of the heterodimer has eight helices and binds chromophores through thioester bonds formed at particular cysteine residues. These chromophores, also known as bilins, are open-chain tetrapyrroles whose number and type vary with the particular biliprotein eg R-phyocerythrin binds five phycoerythrobilins per heterodimer, while allophycocyanin binds two phycocyanobilins per heterodimer.; GO: 0015979 photosynthesis, 0030089 phycobilisome; PDB: 2VML_I 2VJR_A 1KTP_B 3L0F_B 1JBO_B 3KVS_B 1PHN_B 3BRP_B 2C7K_B 2C7L_B ....
Probab=21.90 E-value=1.4e+02 Score=27.24 Aligned_cols=105 Identities=20% Similarity=0.280 Sum_probs=63.9
Q ss_pred CCCCcCHHHHHHHHHHhhh------hHHHHhhcCHHHHHHHHHHHHhhCcCH-------------HHHHHHhh-cCCCCc
Q psy4731 68 KDAHLNHEELVQLMKWKQT------LNYLVKVNTPRAVMMETKKAFKKLPNL-------------ELALSALS-NLKGVG 127 (436)
Q Consensus 68 k~~~LTKDELVkLMEWKLt------L~kLVkSN~e~~Ve~~TkkAF~~LpDV-------------~aAL~~LT-kLKGVG 127 (436)
.++||+..||..|-.+--+ .-+.++.|.+.-|+++..+-|..-|++ .++++-+. =||=
T Consensus 10 egRyls~~EL~~l~~~~~~~~~Rl~aa~~L~~~a~~IV~~A~~~l~~~~P~l~~~gg~~y~~~~~~~C~RD~~~~LR~-- 87 (157)
T PF00502_consen 10 EGRYLSDGELQALKGYFQSANARLEAAEKLRDNASEIVDQAAQKLFEKYPDLTQPGGNLYPSRRREACWRDIWHYLRY-- 87 (157)
T ss_dssp TTSECEHHHHHHHHHHHHTHHHHHHHHHHHHHTHHHHHHHHHHHHHHHSGGGGSTTSTTSSHHHHHHHHHHHHHHHHH--
T ss_pred cCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHhHHHHHHHHHHHHHHhccccccccccccchHHHHHHHHHHHHHHHH--
Confidence 4689999999999876443 777889999999999999999877753 22333221 1321
Q ss_pred HHHHHHHHhhcCCCCCccccHHHHHhcCCC-CCCccCHHHHHHHHHHHHHHHHH
Q psy4731 128 TTLASALLAAATPEVAPFMADECLMAIPEI-EGIDYTTKEYLKFVNFINNTVER 180 (436)
Q Consensus 128 PATASAILAa~~Pe~vPFFSDEAf~~lpg~-~kIKYTlKEYlell~~vr~LakR 180 (436)
.+-++| +.++ =++.|..+.|+... ........-|..-+..+++.+.+
T Consensus 88 --i~ya~l-~gd~---~~l~~~~l~~l~ei~~al~vp~~~~v~al~~lk~~~~~ 135 (157)
T PF00502_consen 88 --ITYAML-AGDT---DPLDERGLNGLREIYRALGVPIDAYVEALQCLKEAALQ 135 (157)
T ss_dssp --HHHHHH-HTSS---HHHHHHTTTTHHHHHHHHT--HHHHHHHHHHHHHHHHH
T ss_pred --HHHHHH-hcch---hHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHH
Confidence 122222 4443 45777777776431 12344555666666666665544
No 184
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=21.60 E-value=1.5e+02 Score=22.38 Aligned_cols=11 Identities=36% Similarity=0.458 Sum_probs=4.7
Q ss_pred HHHHHHHHHHH
Q psy4731 30 IIIIIIIIIII 40 (436)
Q Consensus 30 i~~~~~~iiii 40 (436)
+++|||.+-+.
T Consensus 18 iiii~~~~YaC 28 (38)
T PF02439_consen 18 IIIICMFYYAC 28 (38)
T ss_pred HHHHHHHHHHH
Confidence 44444444433
No 185
>PF12133 Sars6: Open reading frame 6 from SARS coronavirus; InterPro: IPR022736 This entry represents small proteins, typically between 42 to 63 amino acids in length, which are uncharacterised.
Probab=21.38 E-value=1.9e+02 Score=23.62 Aligned_cols=24 Identities=21% Similarity=0.137 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhccCCcccccchh
Q psy4731 30 IIIIIIIIIIINRIPIHSNISNIG 53 (436)
Q Consensus 30 i~~~~~~iiiin~ip~~~L~eLD~ 53 (436)
|+|.-+.=+++|+.+++.+.+||+
T Consensus 31 i~i~s~~~~l~~~l~k~~ys~ld~ 54 (62)
T PF12133_consen 31 IIISSIVRQLFNPLDKKNYSELDD 54 (62)
T ss_pred hHHHHHHHHHhcccccccccccCc
Confidence 455556678999999999999885
No 186
>KOG0510|consensus
Probab=20.91 E-value=2e+02 Score=33.86 Aligned_cols=35 Identities=20% Similarity=0.296 Sum_probs=24.6
Q ss_pred cccchhhHHhhcchhHhhcCCCCCcCHHHHHHHHHHhhhhHHHHhhc
Q psy4731 48 NISNIGWYQNELPKKIKARGKDAHLNHEELVQLMKWKQTLNYLVKVN 94 (436)
Q Consensus 48 L~eLD~WryeELP~~Ik~R~k~~~LTKDELVkLMEWKLtL~kLVkSN 94 (436)
+.|.=+||| +.| .|++ +++.+|||=+--..+|-.-
T Consensus 578 ~~E~iQifq-------qk~---~Y~~--~i~Nimew~iyts~li~v~ 612 (929)
T KOG0510|consen 578 LRECIQIFQ-------QKR---HYFM--DIENIMEWFIYTSALITVY 612 (929)
T ss_pred HHHHHHHHH-------HHH---HHHh--hhHHHHHHHHHhhhhheee
Confidence 578889998 444 5665 6889999999744444433
No 187
>PHA02909 hypothetical protein; Provisional
Probab=20.76 E-value=1.6e+02 Score=24.42 Aligned_cols=10 Identities=30% Similarity=0.790 Sum_probs=3.7
Q ss_pred HHHHHHHHHH
Q psy4731 17 IIIIIIIIII 26 (436)
Q Consensus 17 i~i~ii~~~i 26 (436)
||.-.|.|+|
T Consensus 34 imvsfilfvi 43 (72)
T PHA02909 34 IMVSFILFVI 43 (72)
T ss_pred HHHHHHHHHH
Confidence 3333333333
No 188
>PF14992 TMCO5: TMCO5 family
Probab=20.66 E-value=2.5e+02 Score=28.92 Aligned_cols=45 Identities=13% Similarity=0.326 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCcccccchhhHHhhcchhHhhc
Q psy4731 15 FIIIIIIIIIIIIIIIIIIIIIIIIINRIPIHSNISNIGWYQNELPKKIKAR 66 (436)
Q Consensus 15 ~~i~i~ii~~~ii~~i~~~~~~iiiin~ip~~~L~eLD~WryeELP~~Ik~R 66 (436)
|.-++=+++|.|++.|-.++-+..-+.+|-+ .++.+.||..++.|
T Consensus 214 wkr~lr~l~f~vL~f~~LL~y~~f~~~fInp-------dll~~~LP~~L~R~ 258 (280)
T PF14992_consen 214 WKRALRLLFFMVLFFTRLLGYLLFYIQFINP-------DLLEDVLPKMLSRR 258 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCc-------HHHHHHhHHhcchh
Confidence 3333444556666666666666666777765 34556899988766
No 189
>PRK14710 hypothetical protein; Provisional
Probab=20.64 E-value=89 Score=26.79 Aligned_cols=14 Identities=21% Similarity=0.453 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHhc
Q psy4731 29 IIIIIIIIIIIINR 42 (436)
Q Consensus 29 ~i~~~~~~iiiin~ 42 (436)
||+.+|.+--+.-+
T Consensus 20 i~v~lcv~tylyl~ 33 (86)
T PRK14710 20 IIVVLCVITYLYLY 33 (86)
T ss_pred HHHHHHHhhheeee
Confidence 46677776555443
No 190
>PRK00116 ruvA Holliday junction DNA helicase RuvA; Reviewed
Probab=20.09 E-value=82 Score=29.56 Aligned_cols=24 Identities=21% Similarity=0.426 Sum_probs=20.8
Q ss_pred HHHhhcCCCCcHHHHHHHHhhcCC
Q psy4731 117 LSALSNLKGVGTTLASALLAAATP 140 (436)
Q Consensus 117 L~~LTkLKGVGPATASAILAa~~P 140 (436)
.+.|++++|||+.||-.|+..+..
T Consensus 107 ~~~L~~v~Gig~k~A~~I~~~l~~ 130 (192)
T PRK00116 107 VKALTKVPGIGKKTAERIVLELKD 130 (192)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHH
Confidence 557999999999999999987753
Done!