Query psy2296
Match_columns 208
No_of_seqs 105 out of 196
Neff 5.9
Searched_HMMs 46136
Date Fri Aug 16 21:05:10 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2296.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2296hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03962 Mnd1: Mnd1 family; I 100.0 1.3E-73 2.9E-78 478.5 21.4 188 16-206 1-188 (188)
2 KOG3433|consensus 100.0 1.1E-69 2.3E-74 446.8 20.3 202 1-208 1-203 (203)
3 COG5124 Protein predicted to b 100.0 2.1E-63 4.6E-68 408.2 19.8 203 1-208 1-207 (209)
4 PF07106 TBPIP: Tat binding pr 98.6 6E-06 1.3E-10 67.8 17.2 144 14-166 4-158 (169)
5 KOG4603|consensus 97.3 0.087 1.9E-06 44.2 18.6 177 14-201 10-200 (201)
6 PF08679 DsrD: Dissimilatory s 96.5 0.0046 1E-07 43.9 4.0 56 13-74 3-61 (67)
7 KOG3433|consensus 96.2 0.027 5.9E-07 47.5 7.9 41 47-87 11-53 (203)
8 PF03965 Penicillinase_R: Peni 95.8 0.032 6.9E-07 42.8 6.4 64 14-81 6-69 (115)
9 PF04703 FaeA: FaeA-like prote 95.8 0.011 2.3E-07 41.5 3.2 60 13-79 2-62 (62)
10 PF02002 TFIIE_alpha: TFIIE al 94.9 0.016 3.5E-07 43.7 2.1 60 14-81 16-80 (105)
11 PRK06266 transcription initiat 94.3 0.084 1.8E-06 44.1 5.1 39 43-81 46-89 (178)
12 cd00090 HTH_ARSR Arsenical Res 94.3 0.23 5E-06 33.2 6.4 60 10-79 6-65 (78)
13 PF13412 HTH_24: Winged helix- 94.0 0.1 2.3E-06 33.6 4.0 47 10-64 2-48 (48)
14 PF09789 DUF2353: Uncharacteri 93.6 2.2 4.8E-05 39.0 13.1 81 89-173 88-174 (319)
15 smart00418 HTH_ARSR helix_turn 93.5 0.11 2.5E-06 33.8 3.7 51 16-75 2-52 (66)
16 cd07153 Fur_like Ferric uptake 93.5 0.13 2.8E-06 38.9 4.3 62 12-76 2-65 (116)
17 smart00550 Zalpha Z-DNA-bindin 93.4 0.21 4.7E-06 35.0 5.1 53 7-66 2-55 (68)
18 PF01475 FUR: Ferric uptake re 93.0 0.12 2.6E-06 39.5 3.6 72 5-79 2-74 (120)
19 TIGR02698 CopY_TcrY copper tra 92.9 0.54 1.2E-05 37.1 7.2 64 14-81 7-70 (130)
20 COG1777 Predicted transcriptio 92.7 1.5 3.3E-05 37.8 10.1 50 11-69 15-66 (217)
21 COG2433 Uncharacterized conser 91.6 6 0.00013 39.2 13.9 107 2-115 317-457 (652)
22 TIGR00373 conserved hypothetic 91.6 0.39 8.5E-06 39.3 5.1 38 43-80 38-80 (158)
23 COG1675 TFA1 Transcription ini 91.5 2 4.3E-05 36.1 9.3 40 43-82 42-86 (176)
24 COG1579 Zn-ribbon protein, pos 90.8 10 0.00022 33.4 13.4 95 84-182 49-146 (239)
25 PF01978 TrmB: Sugar-specific 90.5 0.24 5.2E-06 34.2 2.5 56 14-78 11-66 (68)
26 PF02403 Seryl_tRNA_N: Seryl-t 90.2 3.1 6.7E-05 31.3 8.6 63 83-148 32-94 (108)
27 PF12840 HTH_20: Helix-turn-he 90.1 0.41 8.9E-06 32.5 3.4 51 11-69 10-60 (61)
28 KOG0250|consensus 89.8 7.1 0.00015 40.9 13.2 116 85-202 399-547 (1074)
29 PF09339 HTH_IclR: IclR helix- 89.7 0.42 9.2E-06 31.4 3.1 49 11-66 3-51 (52)
30 PF13730 HTH_36: Helix-turn-he 89.5 0.65 1.4E-05 30.5 3.9 52 5-63 1-55 (55)
31 PF08317 Spc7: Spc7 kinetochor 89.3 16 0.00035 33.0 14.6 45 124-168 180-224 (325)
32 TIGR02702 SufR_cyano iron-sulf 88.7 1.2 2.7E-05 37.3 5.9 64 13-84 3-70 (203)
33 PF01466 Skp1: Skp1 family, di 88.6 0.5 1.1E-05 34.0 3.1 40 164-205 18-62 (78)
34 PF15556 Zwint: ZW10 interacto 88.5 13 0.00028 32.3 11.9 112 92-203 89-213 (252)
35 PF12325 TMF_TATA_bd: TATA ele 88.2 11 0.00024 29.7 11.3 48 122-169 62-112 (120)
36 smart00531 TFIIE Transcription 88.2 0.99 2.1E-05 36.3 4.9 49 43-91 25-82 (147)
37 smart00346 HTH_ICLR helix_turn 88.1 1.3 2.8E-05 31.7 5.0 51 10-67 4-54 (91)
38 PF06476 DUF1090: Protein of u 88.1 9 0.0002 29.9 10.0 88 82-169 19-112 (115)
39 PF07061 Swi5: Swi5; InterPro 87.8 9.1 0.0002 28.2 9.8 76 125-203 4-82 (83)
40 PF05158 RNA_pol_Rpc34: RNA po 87.7 0.86 1.9E-05 41.6 4.7 69 8-83 6-76 (327)
41 COG0735 Fur Fe2+/Zn2+ uptake r 87.7 0.86 1.9E-05 36.6 4.2 73 4-79 14-87 (145)
42 PF06160 EzrA: Septation ring 87.7 10 0.00023 36.9 12.4 59 124-186 375-433 (560)
43 PRK02224 chromosome segregatio 87.6 7.4 0.00016 39.3 11.7 43 64-111 453-499 (880)
44 PRK11637 AmiB activator; Provi 87.2 26 0.00056 32.7 14.8 30 84-113 44-73 (428)
45 PRK09462 fur ferric uptake reg 86.9 1 2.2E-05 36.0 4.2 70 4-76 10-81 (148)
46 PF05008 V-SNARE: Vesicle tran 86.5 5.8 0.00013 28.0 7.6 58 83-145 21-78 (79)
47 PF13851 GAS: Growth-arrest sp 85.6 19 0.00041 30.6 11.5 87 85-171 91-196 (201)
48 COG3883 Uncharacterized protei 85.0 15 0.00033 32.7 11.0 76 68-143 19-95 (265)
49 PRK10141 DNA-binding transcrip 84.4 11 0.00024 29.4 8.8 61 10-78 15-75 (117)
50 PRK04778 septation ring format 84.0 41 0.00088 32.8 14.4 60 123-186 378-437 (569)
51 TIGR03185 DNA_S_dndD DNA sulfu 83.7 34 0.00074 33.7 13.9 47 121-167 262-314 (650)
52 PRK06474 hypothetical protein; 82.8 2.2 4.8E-05 35.4 4.6 66 11-82 11-80 (178)
53 PF10146 zf-C4H2: Zinc finger- 82.7 32 0.00069 30.0 12.5 58 122-183 40-97 (230)
54 PF13591 MerR_2: MerR HTH fami 82.7 5.2 0.00011 29.1 6.0 43 37-87 5-47 (84)
55 KOG0972|consensus 82.6 31 0.00066 31.6 11.9 101 87-193 273-380 (384)
56 smart00420 HTH_DEOR helix_turn 82.5 2.5 5.5E-05 26.5 3.8 48 14-69 3-50 (53)
57 smart00787 Spc7 Spc7 kinetocho 82.2 26 0.00057 31.8 11.6 28 135-162 253-280 (312)
58 PF05557 MAD: Mitotic checkpoi 81.9 25 0.00055 35.1 12.4 110 79-188 502-645 (722)
59 PRK11639 zinc uptake transcrip 81.6 1.5 3.2E-05 36.1 3.0 64 4-70 19-83 (169)
60 PRK11637 AmiB activator; Provi 81.5 41 0.00089 31.3 13.0 33 81-113 48-80 (428)
61 cd04766 HTH_HspR Helix-Turn-He 81.1 8.1 0.00018 28.2 6.6 38 43-86 11-48 (91)
62 PRK05431 seryl-tRNA synthetase 81.1 12 0.00027 35.2 9.4 67 80-149 28-94 (425)
63 PF12718 Tropomyosin_1: Tropom 81.0 17 0.00037 29.2 9.0 60 87-149 35-94 (143)
64 PF15188 CCDC-167: Coiled-coil 80.6 12 0.00025 27.9 7.2 56 94-149 5-64 (85)
65 smart00787 Spc7 Spc7 kinetocho 80.6 45 0.00097 30.3 14.0 40 125-164 176-215 (312)
66 COG4477 EzrA Negative regulato 80.3 33 0.00071 33.7 11.9 70 124-197 378-449 (570)
67 PRK10884 SH3 domain-containing 80.3 36 0.00079 29.1 12.1 28 84-111 90-117 (206)
68 PHA00738 putative HTH transcri 80.3 5.4 0.00012 31.0 5.5 70 7-84 8-77 (108)
69 smart00347 HTH_MARR helix_turn 80.2 14 0.00031 26.0 7.6 72 5-86 6-79 (101)
70 PRK14137 recX recombination re 80.0 3.6 7.8E-05 34.9 4.9 63 4-70 30-94 (195)
71 PF08317 Spc7: Spc7 kinetochor 79.8 46 0.001 30.0 15.7 64 128-195 216-279 (325)
72 PF03962 Mnd1: Mnd1 family; I 79.8 24 0.00053 29.6 9.8 22 85-106 74-95 (188)
73 PF08784 RPA_C: Replication pr 79.7 2.8 6E-05 31.2 3.7 49 9-64 45-96 (102)
74 PLN02678 seryl-tRNA synthetase 78.9 16 0.00034 34.9 9.4 66 80-148 33-98 (448)
75 PF07798 DUF1640: Protein of u 77.7 38 0.00083 27.8 10.4 20 154-173 139-158 (177)
76 KOG0995|consensus 77.6 25 0.00055 34.6 10.3 92 47-148 261-359 (581)
77 KOG0995|consensus 77.6 77 0.0017 31.3 14.4 31 150-180 329-359 (581)
78 PF04065 Not3: Not1 N-terminal 76.9 42 0.00092 29.4 10.7 86 83-168 118-212 (233)
79 PF15450 DUF4631: Domain of un 76.8 77 0.0017 31.0 13.3 93 94-189 419-515 (531)
80 PF09744 Jnk-SapK_ap_N: JNK_SA 76.6 41 0.00089 27.7 11.3 64 121-185 89-153 (158)
81 PRK04778 septation ring format 76.6 73 0.0016 31.0 13.4 75 124-200 444-525 (569)
82 cd07625 BAR_Vps17p The Bin/Amp 76.5 51 0.0011 28.7 11.6 98 81-178 73-189 (230)
83 COG2345 Predicted transcriptio 76.3 23 0.00049 30.8 8.8 49 43-91 35-87 (218)
84 COG1497 Predicted transcriptio 76.2 1.5 3.2E-05 38.8 1.5 71 13-94 12-82 (260)
85 PF09730 BicD: Microtubule-ass 76.2 39 0.00085 34.3 11.6 50 124-174 93-142 (717)
86 PF06005 DUF904: Protein of un 76.0 26 0.00057 25.1 10.0 20 161-180 47-66 (72)
87 COG5185 HEC1 Protein involved 76.0 21 0.00045 34.7 9.1 98 87-188 330-438 (622)
88 PRK10411 DNA-binding transcrip 76.0 16 0.00034 31.6 7.8 60 10-79 3-62 (240)
89 PF14282 FlxA: FlxA-like prote 75.6 27 0.00059 26.6 8.2 55 93-147 18-77 (106)
90 PF04111 APG6: Autophagy prote 75.5 14 0.00031 33.4 7.7 56 86-147 42-97 (314)
91 PF05701 WEMBL: Weak chloropla 75.3 72 0.0016 30.9 12.9 52 129-180 243-308 (522)
92 PF06005 DUF904: Protein of un 75.3 27 0.0006 25.0 8.7 55 84-144 8-62 (72)
93 PRK09834 DNA-binding transcrip 75.3 4.4 9.5E-05 35.2 4.3 60 1-67 1-60 (263)
94 PF04156 IncA: IncA protein; 75.2 44 0.00095 27.3 13.4 66 83-148 84-150 (191)
95 smart00529 HTH_DTXR Helix-turn 74.6 8.8 0.00019 27.6 5.1 38 43-85 9-46 (96)
96 PF04977 DivIC: Septum formati 74.5 11 0.00024 26.2 5.4 29 128-157 31-59 (80)
97 PF01726 LexA_DNA_bind: LexA D 74.2 3.7 8.1E-05 28.7 2.9 50 10-66 5-59 (65)
98 KOG1724|consensus 74.2 6.3 0.00014 32.6 4.7 57 147-205 85-146 (162)
99 KOG0933|consensus 73.9 57 0.0012 34.5 12.1 101 82-183 401-502 (1174)
100 PF13601 HTH_34: Winged helix 73.6 15 0.00033 26.4 6.1 69 14-92 3-76 (80)
101 PRK15422 septal ring assembly 73.4 29 0.00063 25.5 7.4 27 89-115 6-32 (79)
102 COG1378 Predicted transcriptio 73.2 25 0.00053 30.8 8.4 39 42-81 39-77 (247)
103 PF11559 ADIP: Afadin- and alp 73.2 44 0.00096 26.5 9.6 17 50-66 4-20 (151)
104 TIGR00606 rad50 rad50. This fa 73.1 90 0.0019 33.6 14.0 98 74-183 568-669 (1311)
105 PF10153 DUF2361: Uncharacteri 73.0 43 0.00093 26.2 9.1 79 77-170 18-99 (114)
106 KOG0250|consensus 72.5 54 0.0012 34.7 11.7 95 47-148 318-421 (1074)
107 KOG4196|consensus 72.4 49 0.0011 26.6 10.0 80 45-148 29-108 (135)
108 PRK09039 hypothetical protein; 72.3 79 0.0017 29.0 12.0 65 125-189 141-213 (343)
109 TIGR00414 serS seryl-tRNA synt 72.1 33 0.00071 32.3 9.5 68 80-149 30-97 (418)
110 PHA02562 46 endonuclease subun 72.0 50 0.0011 31.4 10.9 54 122-175 221-277 (562)
111 PRK03573 transcriptional regul 72.0 44 0.00095 25.9 10.4 69 5-82 27-96 (144)
112 PRK03918 chromosome segregatio 71.9 83 0.0018 31.7 12.9 22 163-185 707-728 (880)
113 PF01325 Fe_dep_repress: Iron 71.7 2.9 6.4E-05 28.6 1.8 27 43-69 32-58 (60)
114 cd00890 Prefoldin Prefoldin is 71.6 26 0.00056 26.6 7.4 47 67-113 74-120 (129)
115 COG1579 Zn-ribbon protein, pos 71.5 50 0.0011 29.0 9.9 38 80-117 52-89 (239)
116 PF10498 IFT57: Intra-flagella 71.4 47 0.001 30.8 10.2 49 121-169 294-344 (359)
117 PF03961 DUF342: Protein of un 71.4 44 0.00096 31.4 10.3 33 83-115 330-362 (451)
118 PF15290 Syntaphilin: Golgi-lo 71.1 60 0.0013 29.5 10.3 94 83-181 64-166 (305)
119 COG3074 Uncharacterized protei 70.8 37 0.00081 24.6 7.7 26 89-114 6-31 (79)
120 COG1522 Lrp Transcriptional re 70.8 4.7 0.0001 31.5 3.1 68 6-81 3-78 (154)
121 TIGR02168 SMC_prok_B chromosom 70.5 1E+02 0.0022 31.5 13.4 21 125-145 437-457 (1179)
122 smart00419 HTH_CRP helix_turn_ 70.3 3.8 8.3E-05 25.4 2.0 25 43-67 18-42 (48)
123 COG1422 Predicted membrane pro 70.1 28 0.0006 29.9 7.7 50 94-148 72-121 (201)
124 PF10458 Val_tRNA-synt_C: Valy 70.1 27 0.00059 24.1 6.5 60 88-147 5-65 (66)
125 TIGR00634 recN DNA repair prot 69.7 1.1E+02 0.0024 29.6 14.6 56 129-184 274-332 (563)
126 TIGR02209 ftsL_broad cell divi 69.4 16 0.00034 26.0 5.4 35 122-158 32-66 (85)
127 PF07926 TPR_MLP1_2: TPR/MLP1/ 69.3 41 0.00089 26.3 8.2 24 90-113 62-85 (132)
128 PF00392 GntR: Bacterial regul 69.1 3.5 7.6E-05 28.0 1.8 28 43-70 34-62 (64)
129 PF06657 Cep57_MT_bd: Centroso 68.9 42 0.0009 24.4 9.5 66 82-148 12-77 (79)
130 PF05732 RepL: Firmicute plasm 68.6 10 0.00022 31.3 4.7 68 11-88 55-127 (165)
131 PF14257 DUF4349: Domain of un 68.3 62 0.0013 28.0 9.9 90 44-149 101-190 (262)
132 TIGR03185 DNA_S_dndD DNA sulfu 68.2 1.3E+02 0.0028 29.7 13.7 48 68-115 361-412 (650)
133 cd07627 BAR_Vps5p The Bin/Amph 67.6 75 0.0016 26.8 13.3 64 116-179 103-169 (216)
134 PF09726 Macoilin: Transmembra 67.5 1E+02 0.0023 31.1 12.4 25 92-116 493-517 (697)
135 PHA02943 hypothetical protein; 67.3 24 0.00051 29.3 6.5 68 5-82 3-72 (165)
136 PTZ00464 SNF-7-like protein; P 67.3 81 0.0018 27.1 13.9 86 84-169 15-118 (211)
137 PF10805 DUF2730: Protein of u 67.2 21 0.00046 27.1 6.0 73 71-148 20-92 (106)
138 PRK02224 chromosome segregatio 67.1 1.5E+02 0.0032 30.1 13.7 41 132-172 624-665 (880)
139 PF06163 DUF977: Bacterial pro 67.1 17 0.00036 29.1 5.4 67 1-82 1-70 (127)
140 COG3937 Uncharacterized conser 67.0 58 0.0013 25.3 8.9 81 48-144 24-106 (108)
141 PRK03918 chromosome segregatio 66.8 1.5E+02 0.0032 29.9 14.0 19 95-113 634-652 (880)
142 KOG4403|consensus 66.7 1E+02 0.0022 29.8 11.3 89 66-157 223-339 (575)
143 PF12128 DUF3584: Protein of u 66.6 1.1E+02 0.0024 32.7 13.0 33 150-182 768-800 (1201)
144 PF14197 Cep57_CLD_2: Centroso 66.5 44 0.00095 23.7 7.8 56 87-148 5-60 (69)
145 KOG2391|consensus 66.4 88 0.0019 29.1 10.6 12 72-83 195-206 (365)
146 PRK10884 SH3 domain-containing 66.4 32 0.00069 29.4 7.5 21 93-113 92-112 (206)
147 PF02996 Prefoldin: Prefoldin 66.3 19 0.00042 27.1 5.6 53 60-113 58-110 (120)
148 PF04977 DivIC: Septum formati 66.0 41 0.00089 23.2 7.4 50 130-190 19-68 (80)
149 PF12761 End3: Actin cytoskele 66.0 85 0.0018 26.9 11.2 87 88-186 97-186 (195)
150 COG4942 Membrane-bound metallo 65.7 1.1E+02 0.0024 29.2 11.4 79 76-171 27-105 (420)
151 smart00345 HTH_GNTR helix_turn 65.6 4.8 0.0001 25.9 1.9 24 43-66 30-53 (60)
152 COG3883 Uncharacterized protei 65.5 1E+02 0.0022 27.6 11.3 73 76-148 19-93 (265)
153 PF08614 ATG16: Autophagy prot 64.8 81 0.0018 26.2 11.1 13 174-186 173-185 (194)
154 TIGR02168 SMC_prok_B chromosom 64.6 93 0.002 31.8 11.7 59 129-187 966-1027(1179)
155 PF07724 AAA_2: AAA domain (Cd 64.6 2.1 4.5E-05 35.2 -0.1 57 32-88 74-136 (171)
156 PF09789 DUF2353: Uncharacteri 64.6 1.2E+02 0.0025 27.9 14.2 50 62-116 113-162 (319)
157 PF10458 Val_tRNA-synt_C: Valy 64.5 36 0.00077 23.5 6.2 58 122-179 5-65 (66)
158 KOG0971|consensus 64.4 98 0.0021 32.6 11.4 71 104-174 307-389 (1243)
159 PLN02320 seryl-tRNA synthetase 64.2 50 0.0011 32.1 9.1 65 80-148 93-157 (502)
160 PRK15090 DNA-binding transcrip 64.2 16 0.00035 31.5 5.3 55 4-66 7-61 (257)
161 PF12777 MT: Microtubule-bindi 64.2 37 0.0008 30.9 8.0 28 43-71 165-192 (344)
162 PF08220 HTH_DeoR: DeoR-like h 64.2 12 0.00025 25.2 3.6 47 13-67 2-48 (57)
163 PF05278 PEARLI-4: Arabidopsis 64.0 1.1E+02 0.0024 27.5 11.9 45 25-82 56-100 (269)
164 PF09726 Macoilin: Transmembra 64.0 38 0.00082 34.2 8.6 62 85-146 550-612 (697)
165 cd00592 HTH_MerR-like Helix-Tu 63.7 21 0.00045 26.1 5.2 31 43-77 10-40 (100)
166 COG0640 ArsR Predicted transcr 63.7 16 0.00035 25.0 4.5 55 12-74 26-80 (110)
167 PF05837 CENP-H: Centromere pr 63.6 63 0.0014 24.5 9.9 75 97-178 6-82 (106)
168 TIGR02895 spore_sigI RNA polym 63.6 25 0.00055 30.2 6.4 73 124-201 117-189 (218)
169 PRK03947 prefoldin subunit alp 63.6 26 0.00057 27.4 6.1 46 68-113 82-127 (140)
170 PRK00767 transcriptional regul 63.3 6 0.00013 31.7 2.4 55 1-82 1-55 (197)
171 PF10562 CaM_bdg_C0: Calmoduli 62.7 9.8 0.00021 22.8 2.5 20 157-176 9-28 (29)
172 PF12325 TMF_TATA_bd: TATA ele 62.6 61 0.0013 25.4 7.9 61 89-149 18-82 (120)
173 PHA02562 46 endonuclease subun 62.6 1.4E+02 0.0031 28.3 14.2 97 81-177 214-323 (562)
174 PF12802 MarR_2: MarR family; 62.4 11 0.00025 24.7 3.3 55 6-69 2-57 (62)
175 PF08279 HTH_11: HTH domain; 62.1 16 0.00034 23.7 3.9 42 13-61 2-43 (55)
176 PRK09413 IS2 repressor TnpA; R 61.9 70 0.0015 24.5 9.5 52 4-65 10-61 (121)
177 PF13851 GAS: Growth-arrest sp 61.9 99 0.0021 26.2 13.4 56 88-149 28-83 (201)
178 PHA02599 dsbA double-stranded 61.8 25 0.00055 26.4 5.2 49 152-200 17-65 (91)
179 TIGR03545 conserved hypothetic 61.7 1E+02 0.0022 30.4 10.8 58 92-149 180-240 (555)
180 PF02388 FemAB: FemAB family; 61.6 52 0.0011 30.6 8.6 66 34-114 201-269 (406)
181 PF01022 HTH_5: Bacterial regu 61.4 12 0.00027 23.8 3.2 45 11-64 2-46 (47)
182 PRK10869 recombination and rep 61.4 1.7E+02 0.0036 28.6 13.4 62 123-184 263-327 (553)
183 cd00092 HTH_CRP helix_turn_hel 61.0 7.2 0.00016 25.9 2.1 25 43-67 35-59 (67)
184 PF08614 ATG16: Autophagy prot 61.0 96 0.0021 25.8 10.7 20 88-107 75-94 (194)
185 COG4026 Uncharacterized protei 60.8 1.2E+02 0.0026 26.9 10.9 70 127-198 162-234 (290)
186 PRK10920 putative uroporphyrin 60.7 83 0.0018 29.6 9.7 83 67-153 49-131 (390)
187 PF10211 Ax_dynein_light: Axon 60.5 40 0.00087 28.3 6.9 16 44-59 83-98 (189)
188 COG3682 Predicted transcriptio 60.4 11 0.00025 29.8 3.4 62 15-80 10-71 (123)
189 KOG3647|consensus 60.3 1.3E+02 0.0028 27.3 10.3 132 23-169 84-223 (338)
190 TIGR02404 trehalos_R_Bsub treh 60.3 4.9 0.00011 33.9 1.4 29 43-71 34-63 (233)
191 PF09440 eIF3_N: eIF3 subunit 60.2 73 0.0016 25.4 8.1 59 121-198 69-127 (133)
192 PRK00888 ftsB cell division pr 59.6 69 0.0015 24.4 7.5 30 161-190 49-78 (105)
193 PRK10636 putative ABC transpor 59.5 52 0.0011 32.5 8.5 26 123-148 600-625 (638)
194 PF05667 DUF812: Protein of un 59.3 1.4E+02 0.0031 29.6 11.5 61 121-185 440-502 (594)
195 PF02082 Rrf2: Transcriptional 59.3 10 0.00022 27.1 2.7 48 26-81 25-73 (83)
196 PRK14127 cell division protein 59.2 82 0.0018 24.4 8.7 74 43-137 21-101 (109)
197 PRK10163 DNA-binding transcrip 59.2 16 0.00035 31.9 4.5 57 4-67 18-74 (271)
198 KOG0963|consensus 59.1 1.1E+02 0.0024 30.6 10.5 94 83-183 281-381 (629)
199 TIGR03752 conj_TIGR03752 integ 58.7 74 0.0016 30.8 9.1 15 44-58 51-65 (472)
200 PRK09039 hypothetical protein; 58.5 1E+02 0.0022 28.3 9.7 29 87-115 137-165 (343)
201 cd07377 WHTH_GntR Winged helix 58.4 7.1 0.00015 25.6 1.7 24 43-66 35-58 (66)
202 TIGR01069 mutS2 MutS2 family p 58.2 1.7E+02 0.0037 29.9 12.1 84 4-93 412-510 (771)
203 KOG0981|consensus 58.1 42 0.00091 33.5 7.4 59 87-149 636-697 (759)
204 PF05667 DUF812: Protein of un 58.0 2E+02 0.0044 28.6 12.9 85 84-174 325-419 (594)
205 KOG4643|consensus 57.9 1.1E+02 0.0024 32.5 10.6 153 11-173 75-249 (1195)
206 PF09730 BicD: Microtubule-ass 57.8 2.2E+02 0.0049 29.0 12.8 107 82-194 354-474 (717)
207 PRK13729 conjugal transfer pil 57.6 81 0.0018 30.5 9.1 57 85-147 67-123 (475)
208 PF04738 Lant_dehyd_C: Lantibi 57.5 52 0.0011 30.7 7.9 142 38-190 10-168 (500)
209 PHA01750 hypothetical protein 57.3 25 0.00053 25.2 4.3 28 86-113 41-68 (75)
210 COG5124 Protein predicted to b 57.2 1.1E+02 0.0025 26.0 9.0 110 83-192 85-202 (209)
211 PRK09764 DNA-binding transcrip 57.2 6.1 0.00013 33.7 1.5 30 43-72 39-69 (240)
212 TIGR02431 pcaR_pcaU beta-ketoa 57.0 16 0.00034 31.3 4.0 56 4-66 2-57 (248)
213 COG2331 Uncharacterized protei 57.0 6.1 0.00013 29.0 1.2 21 50-70 21-41 (82)
214 PRK11147 ABC transporter ATPas 56.8 56 0.0012 32.1 8.3 19 126-144 573-591 (635)
215 cd00584 Prefoldin_alpha Prefol 56.8 42 0.00091 25.8 6.1 47 67-113 74-120 (129)
216 PF08657 DASH_Spc34: DASH comp 56.8 89 0.0019 27.7 8.8 43 75-117 173-217 (259)
217 TIGR00293 prefoldin, archaeal 56.4 44 0.00095 25.6 6.1 46 68-113 74-119 (126)
218 PHA02104 hypothetical protein 56.4 5.8 0.00013 28.9 1.0 10 71-80 34-43 (89)
219 PF11569 Homez: Homeodomain le 56.3 7.8 0.00017 26.7 1.6 34 16-54 13-46 (56)
220 TIGR00738 rrf2_super rrf2 fami 56.2 7.9 0.00017 29.6 1.9 59 14-80 11-72 (132)
221 PF07848 PaaX: PaaX-like prote 56.1 11 0.00024 26.7 2.5 47 24-74 18-64 (70)
222 PF03551 PadR: Transcriptional 56.0 17 0.00038 25.2 3.5 37 33-69 17-53 (75)
223 PF12808 Mto2_bdg: Micro-tubul 55.8 53 0.0011 22.2 5.6 45 102-148 5-49 (52)
224 PRK13509 transcriptional repre 55.7 20 0.00043 31.1 4.5 55 8-70 2-56 (251)
225 TIGR01843 type_I_hlyD type I s 55.5 94 0.002 28.0 9.0 84 52-149 182-267 (423)
226 COG5185 HEC1 Protein involved 55.4 1.9E+02 0.004 28.4 11.0 52 128-180 344-395 (622)
227 TIGR01010 BexC_CtrB_KpsE polys 54.9 1.6E+02 0.0035 26.5 11.9 79 88-167 171-256 (362)
228 PF06156 DUF972: Protein of un 54.6 97 0.0021 23.8 8.6 53 84-149 5-57 (107)
229 COG1196 Smc Chromosome segrega 54.6 2.9E+02 0.0064 29.4 13.8 18 89-106 399-416 (1163)
230 PF05010 TACC: Transforming ac 54.4 1.4E+02 0.0031 25.6 12.3 112 84-195 27-153 (207)
231 PRK10906 DNA-binding transcrip 54.4 19 0.00042 31.3 4.2 56 7-70 1-56 (252)
232 PF14197 Cep57_CLD_2: Centroso 54.3 53 0.0011 23.3 5.7 60 82-147 7-66 (69)
233 PF02403 Seryl_tRNA_N: Seryl-t 53.8 83 0.0018 23.4 7.1 57 121-177 36-98 (108)
234 TIGR00606 rad50 rad50. This fa 53.5 2.4E+02 0.0052 30.4 12.8 84 82-165 883-982 (1311)
235 PRK04863 mukB cell division pr 52.8 1.8E+02 0.0038 32.2 11.7 26 90-115 310-335 (1486)
236 PF03492 Methyltransf_7: SAM d 52.8 8.9 0.00019 34.9 1.9 37 44-80 197-233 (334)
237 PF10186 Atg14: UV radiation r 52.5 1.5E+02 0.0032 25.4 13.0 25 89-113 22-46 (302)
238 PF03961 DUF342: Protein of un 52.5 77 0.0017 29.8 8.2 25 83-107 337-361 (451)
239 PF04880 NUDE_C: NUDE protein, 52.5 28 0.00062 28.9 4.7 45 90-144 3-47 (166)
240 PF10212 TTKRSYEDQ: Predicted 52.4 2.4E+02 0.0052 27.7 12.3 61 120-180 454-514 (518)
241 KOG2264|consensus 52.3 69 0.0015 32.1 7.8 20 129-148 129-148 (907)
242 PRK05729 valS valyl-tRNA synth 52.2 48 0.001 34.0 7.2 66 83-148 807-873 (874)
243 KOG4674|consensus 52.2 3E+02 0.0065 31.2 13.2 27 144-170 1298-1324(1822)
244 PRK11546 zraP zinc resistance 52.2 1.3E+02 0.0028 24.5 10.3 70 73-142 40-110 (143)
245 PF05443 ROS_MUCR: ROS/MUCR tr 51.8 13 0.00027 29.9 2.4 27 178-204 84-110 (132)
246 PF10168 Nup88: Nuclear pore c 51.8 1.3E+02 0.0028 30.6 10.0 12 130-141 602-613 (717)
247 PLN02943 aminoacyl-tRNA ligase 51.7 53 0.0012 34.2 7.5 69 81-149 883-952 (958)
248 PRK14999 histidine utilization 51.6 8.1 0.00018 32.8 1.4 31 41-71 44-75 (241)
249 TIGR00019 prfA peptide chain r 51.6 1.4E+02 0.003 27.9 9.5 76 71-148 25-102 (360)
250 PF04375 HemX: HemX; InterPro 51.5 89 0.0019 28.8 8.3 82 68-153 43-125 (372)
251 PF05701 WEMBL: Weak chloropla 51.3 1.4E+02 0.0031 28.8 9.9 80 47-149 4-83 (522)
252 PF11932 DUF3450: Protein of u 51.3 1.6E+02 0.0035 25.4 11.6 26 122-147 50-75 (251)
253 COG2188 PhnF Transcriptional r 51.2 9.6 0.00021 32.7 1.7 30 43-73 41-70 (236)
254 PRK10225 DNA-binding transcrip 51.1 1.5E+02 0.0033 25.1 10.2 32 41-72 41-73 (257)
255 PF10168 Nup88: Nuclear pore c 51.0 2.3E+02 0.005 28.8 11.6 28 86-113 564-591 (717)
256 KOG0996|consensus 50.9 2.9E+02 0.0063 30.0 12.4 45 65-109 763-807 (1293)
257 PRK14165 winged helix-turn-hel 50.9 30 0.00064 29.9 4.7 50 43-93 31-80 (217)
258 KOG0161|consensus 50.8 3.2E+02 0.0068 31.2 13.3 51 90-140 1093-1144(1930)
259 TIGR02325 C_P_lyase_phnF phosp 50.7 8.8 0.00019 32.2 1.4 30 43-72 42-72 (238)
260 PRK11569 transcriptional repre 50.7 29 0.00063 30.3 4.7 55 5-66 22-76 (274)
261 PF10552 ORF6C: ORF6C domain; 50.6 1.1E+02 0.0024 23.3 7.7 73 126-201 6-85 (116)
262 PF07106 TBPIP: Tat binding pr 50.5 1.3E+02 0.0029 24.2 8.4 69 123-196 81-149 (169)
263 PF06810 Phage_GP20: Phage min 50.5 1.4E+02 0.003 24.3 8.9 31 85-115 18-48 (155)
264 PF04849 HAP1_N: HAP1 N-termin 50.1 1.8E+02 0.004 26.5 9.8 64 80-149 220-283 (306)
265 PRK05892 nucleoside diphosphat 50.0 1.3E+02 0.0029 24.4 8.3 60 88-147 12-73 (158)
266 cd07596 BAR_SNX The Bin/Amphip 49.9 1.4E+02 0.003 24.2 9.2 52 117-168 106-160 (218)
267 PRK05771 V-type ATP synthase s 49.9 2.4E+02 0.0052 27.8 11.5 22 48-69 16-37 (646)
268 PF05600 DUF773: Protein of un 49.9 2.5E+02 0.0055 27.2 11.8 128 63-193 76-239 (507)
269 PRK04863 mukB cell division pr 49.4 4.1E+02 0.0089 29.5 14.5 114 73-187 830-969 (1486)
270 cd07664 BAR_SNX2 The Bin/Amphi 49.3 1.8E+02 0.0038 25.3 13.0 120 44-174 46-180 (234)
271 PF08651 DASH_Duo1: DASH compl 49.3 70 0.0015 23.2 5.8 49 125-174 2-50 (78)
272 PRK10869 recombination and rep 49.3 2.6E+02 0.0057 27.2 14.2 49 134-183 323-371 (553)
273 KOG0999|consensus 49.2 1.1E+02 0.0023 30.6 8.5 89 81-170 115-211 (772)
274 PF13545 HTH_Crp_2: Crp-like h 49.1 11 0.00024 25.9 1.5 31 36-67 32-62 (76)
275 KOG0971|consensus 49.0 3.5E+02 0.0076 28.8 12.4 32 83-114 413-444 (1243)
276 PF10796 Anti-adapt_IraP: Sigm 48.7 1.1E+02 0.0024 22.8 7.0 65 125-189 7-84 (87)
277 PRK06330 transcript cleavage f 48.6 1.6E+02 0.0034 30.1 9.9 117 24-152 518-640 (718)
278 PF10146 zf-C4H2: Zinc finger- 48.5 1.8E+02 0.004 25.3 11.8 29 121-149 46-74 (230)
279 PF04728 LPP: Lipoprotein leuc 48.3 88 0.0019 21.5 7.6 45 129-177 4-48 (56)
280 PRK11546 zraP zinc resistance 48.3 1.1E+02 0.0025 24.8 7.4 43 127-169 60-105 (143)
281 PRK13169 DNA replication intia 48.2 1.3E+02 0.0028 23.4 8.5 53 84-149 5-57 (110)
282 COG0172 SerS Seryl-tRNA synthe 47.8 1.3E+02 0.0027 28.8 8.7 62 84-147 33-94 (429)
283 cd07665 BAR_SNX1 The Bin/Amphi 47.7 1.9E+02 0.0041 25.2 13.0 128 44-182 46-188 (234)
284 KOG4674|consensus 47.6 2.6E+02 0.0056 31.6 11.9 90 84-173 1171-1291(1822)
285 KOG0996|consensus 47.6 2.5E+02 0.0055 30.4 11.4 21 151-171 477-497 (1293)
286 PF09304 Cortex-I_coil: Cortex 47.2 1.3E+02 0.0029 23.3 9.7 16 129-144 59-74 (107)
287 PRK11402 DNA-binding transcrip 47.2 11 0.00023 32.0 1.4 31 43-74 43-73 (241)
288 TIGR01529 argR_whole arginine 47.2 59 0.0013 26.1 5.7 64 12-81 2-65 (146)
289 COG1340 Uncharacterized archae 47.1 1.4E+02 0.0029 27.2 8.4 82 83-165 30-119 (294)
290 PF00038 Filament: Intermediat 47.0 1.5E+02 0.0033 26.0 8.8 66 80-147 216-281 (312)
291 PRK00409 recombination and DNA 47.0 3.1E+02 0.0067 28.1 11.9 18 5-22 418-438 (782)
292 TIGR00012 L29 ribosomal protei 46.9 86 0.0019 21.0 6.4 48 123-170 7-54 (55)
293 COG4026 Uncharacterized protei 46.8 2E+02 0.0043 25.5 9.1 25 123-147 151-175 (290)
294 PF15035 Rootletin: Ciliary ro 46.7 1.7E+02 0.0038 24.4 12.4 88 86-177 15-119 (182)
295 PLN02668 indole-3-acetate carb 46.6 11 0.00024 35.3 1.5 31 50-80 259-289 (386)
296 PF00261 Tropomyosin: Tropomyo 46.5 1.1E+02 0.0023 26.4 7.5 91 80-170 15-109 (237)
297 PF13463 HTH_27: Winged helix 46.5 32 0.00069 22.8 3.5 47 14-67 6-52 (68)
298 COG1422 Predicted membrane pro 46.5 71 0.0015 27.5 6.2 40 128-167 72-112 (201)
299 COG5293 Predicted ATPase [Gene 46.0 3E+02 0.0065 27.0 12.4 61 89-149 344-407 (591)
300 PRK14549 50S ribosomal protein 46.0 1E+02 0.0023 21.7 6.6 47 124-170 15-62 (69)
301 COG1196 Smc Chromosome segrega 45.6 4E+02 0.0088 28.4 14.7 54 126-179 861-917 (1163)
302 PF07989 Microtub_assoc: Micro 45.6 1.1E+02 0.0024 21.9 8.4 60 85-149 5-64 (75)
303 PRK10265 chaperone-modulator p 45.5 99 0.0021 23.2 6.4 89 36-149 11-99 (101)
304 PRK15396 murein lipoprotein; P 45.5 1.2E+02 0.0026 22.2 7.0 47 129-179 26-72 (78)
305 PTZ00419 valyl-tRNA synthetase 45.4 73 0.0016 33.3 7.3 67 82-148 924-991 (995)
306 KOG0804|consensus 45.4 3E+02 0.0064 26.7 11.0 27 123-149 377-403 (493)
307 PF14947 HTH_45: Winged helix- 45.4 44 0.00096 23.6 4.2 25 38-63 25-49 (77)
308 PF15397 DUF4618: Domain of un 45.3 2.2E+02 0.0049 25.3 12.2 27 88-114 82-108 (258)
309 COG4957 Predicted transcriptio 45.3 24 0.00052 28.7 3.0 30 176-205 86-115 (148)
310 TIGR02018 his_ut_repres histid 45.2 12 0.00025 31.6 1.4 29 43-71 35-64 (230)
311 KOG1937|consensus 45.0 3E+02 0.0066 26.8 11.1 116 82-204 302-436 (521)
312 PF05529 Bap31: B-cell recepto 44.8 1.3E+02 0.0028 24.7 7.6 17 130-146 156-172 (192)
313 COG2433 Uncharacterized conser 44.5 3E+02 0.0064 27.7 10.8 27 80-106 345-371 (652)
314 KOG2758|consensus 44.3 1.3E+02 0.0029 28.2 8.0 38 121-163 73-110 (432)
315 PRK10079 phosphonate metabolis 44.0 16 0.00034 31.1 1.9 30 43-73 45-74 (241)
316 cd01109 HTH_YyaN Helix-Turn-He 43.8 1.4E+02 0.003 22.4 7.6 96 42-147 9-105 (113)
317 PRK11014 transcriptional repre 43.6 13 0.00027 29.3 1.2 26 42-67 34-59 (141)
318 PRK04424 fatty acid biosynthes 43.5 34 0.00074 28.4 3.9 50 7-64 3-52 (185)
319 PF03194 LUC7: LUC7 N_terminus 43.5 2.3E+02 0.005 24.9 11.0 60 93-153 122-181 (254)
320 PRK11020 hypothetical protein; 43.4 1.4E+02 0.0031 23.5 6.9 49 92-141 3-51 (118)
321 cd01279 HTH_HspR-like Helix-Tu 43.4 1.2E+02 0.0027 22.3 6.6 46 27-85 2-47 (98)
322 PF14775 NYD-SP28_assoc: Sperm 43.2 51 0.0011 22.7 4.1 27 121-147 33-59 (60)
323 KOG2587|consensus 43.2 2.8E+02 0.0061 27.3 10.3 53 12-72 398-450 (551)
324 cd00089 HR1 Protein kinase C-r 43.1 1.1E+02 0.0024 21.2 9.4 65 84-149 6-70 (72)
325 PRK14900 valS valyl-tRNA synth 42.8 86 0.0019 33.1 7.4 67 83-149 838-905 (1052)
326 KOG3215|consensus 42.7 1.6E+02 0.0034 25.7 7.7 70 92-165 101-183 (222)
327 PF08672 APC2: Anaphase promot 42.6 19 0.00042 24.8 1.9 24 43-66 31-54 (60)
328 cd00187 TOP4c DNA Topoisomeras 42.3 2.9E+02 0.0063 26.4 10.3 47 85-131 336-382 (445)
329 PF14282 FlxA: FlxA-like prote 42.2 74 0.0016 24.1 5.3 23 86-108 18-40 (106)
330 TIGR02231 conserved hypothetic 42.1 3.2E+02 0.0069 26.1 11.4 35 79-113 70-104 (525)
331 PF12128 DUF3584: Protein of u 41.9 4.7E+02 0.01 28.1 13.1 58 122-179 314-378 (1201)
332 PRK11020 hypothetical protein; 41.8 1.4E+02 0.0031 23.5 6.7 44 128-171 5-49 (118)
333 cd01106 HTH_TipAL-Mta Helix-Tu 41.6 1.4E+02 0.0031 22.0 7.1 37 27-74 1-37 (103)
334 PRK06798 fliD flagellar cappin 41.6 2.4E+02 0.0052 26.7 9.7 54 87-149 379-432 (440)
335 COG1725 Predicted transcriptio 41.5 16 0.00034 29.0 1.5 29 43-72 45-73 (125)
336 PF04999 FtsL: Cell division p 41.2 89 0.0019 22.8 5.5 35 122-158 43-77 (97)
337 PRK10046 dpiA two-component re 41.2 57 0.0012 26.9 4.9 54 5-66 157-210 (225)
338 PF04645 DUF603: Protein of un 41.1 1.6E+02 0.0034 24.9 7.3 55 89-144 107-161 (181)
339 TIGR01461 greB transcription e 41.0 1.1E+02 0.0025 24.7 6.5 65 88-152 9-76 (156)
340 PRK10434 srlR DNA-bindng trans 41.0 45 0.00097 29.0 4.4 56 7-70 1-56 (256)
341 PRK05638 threonine synthase; V 40.9 54 0.0012 30.8 5.2 67 7-82 367-435 (442)
342 PRK09464 pdhR transcriptional 40.7 1E+02 0.0023 26.1 6.6 31 40-70 41-72 (254)
343 PRK10246 exonuclease subunit S 40.6 4.3E+02 0.0093 27.9 12.1 97 77-173 774-880 (1047)
344 PF10376 Mei5: Double-strand r 40.5 2.4E+02 0.0053 24.4 10.4 80 121-206 131-219 (221)
345 PRK09802 DNA-binding transcrip 40.3 1.4E+02 0.0031 26.1 7.5 57 5-69 11-67 (269)
346 KOG0933|consensus 40.3 5E+02 0.011 27.9 13.3 31 80-110 780-810 (1174)
347 KOG1029|consensus 40.3 62 0.0013 33.5 5.6 69 79-147 436-505 (1118)
348 PF00831 Ribosomal_L29: Riboso 40.1 1.2E+02 0.0025 20.5 6.6 47 124-170 10-56 (58)
349 PRK00117 recX recombination re 40.1 47 0.001 26.4 4.1 46 19-68 18-63 (157)
350 PRK00306 50S ribosomal protein 40.1 1.2E+02 0.0027 20.9 6.6 48 123-170 11-58 (66)
351 PRK05658 RNA polymerase sigma 40.1 3.8E+02 0.0082 26.4 12.9 60 134-198 253-312 (619)
352 PF04740 LXG: LXG domain of WX 40.0 2.1E+02 0.0045 23.4 10.6 83 91-173 103-193 (204)
353 PF09325 Vps5: Vps5 C terminal 39.9 2.2E+02 0.0047 23.6 11.3 59 117-175 124-185 (236)
354 PRK00591 prfA peptide chain re 39.9 2.8E+02 0.0062 25.8 9.6 76 70-146 23-100 (359)
355 TIGR03384 betaine_BetI transcr 39.8 24 0.00052 27.9 2.4 53 4-82 2-54 (189)
356 PF07888 CALCOCO1: Calcium bin 39.7 3.9E+02 0.0084 26.5 13.1 26 122-147 207-232 (546)
357 PF05852 DUF848: Gammaherpesvi 39.7 2.1E+02 0.0045 23.4 10.2 59 124-186 57-115 (146)
358 PF10481 CENP-F_N: Cenp-F N-te 39.5 3E+02 0.0064 25.1 10.0 23 122-144 68-90 (307)
359 PLN02381 valyl-tRNA synthetase 39.5 96 0.0021 32.9 7.2 66 83-148 993-1059(1066)
360 PF09106 SelB-wing_2: Elongati 39.5 31 0.00066 23.1 2.5 24 44-67 31-54 (59)
361 cd04776 HTH_GnyR Helix-Turn-He 39.3 81 0.0018 24.2 5.2 30 24-56 34-67 (118)
362 PF11932 DUF3450: Protein of u 39.2 2.5E+02 0.0054 24.1 13.3 21 128-148 77-97 (251)
363 KOG0977|consensus 39.1 3.2E+02 0.0069 27.1 10.1 28 90-117 109-136 (546)
364 COG1724 Predicted RNA binding 38.7 33 0.0007 24.4 2.5 30 45-74 4-33 (66)
365 cd00427 Ribosomal_L29_HIP Ribo 38.7 1.2E+02 0.0026 20.3 6.5 47 124-170 9-55 (57)
366 PF15294 Leu_zip: Leucine zipp 38.6 3E+02 0.0065 24.8 10.5 46 84-135 129-174 (278)
367 cd07623 BAR_SNX1_2 The Bin/Amp 38.5 2.5E+02 0.0054 23.9 13.1 61 116-176 111-172 (224)
368 PF06717 DUF1202: Protein of u 38.4 2.2E+02 0.0049 25.9 8.3 31 82-112 147-177 (308)
369 PF02344 Myc-LZ: Myc leucine z 38.3 95 0.002 19.0 4.4 26 124-149 4-29 (32)
370 COG3661 AguA Alpha-glucuronida 38.2 1.4E+02 0.003 29.2 7.3 59 135-196 621-680 (684)
371 PF11336 DUF3138: Protein of u 38.1 1E+02 0.0023 29.7 6.5 24 152-175 82-105 (514)
372 PF10473 CENP-F_leu_zip: Leuci 37.9 2.2E+02 0.0047 23.0 11.7 19 123-141 82-100 (140)
373 PF06698 DUF1192: Protein of u 37.7 60 0.0013 22.5 3.7 29 89-117 23-51 (59)
374 PF05557 MAD: Mitotic checkpoi 37.6 1.2E+02 0.0026 30.4 7.4 75 94-182 566-646 (722)
375 PRK09954 putative kinase; Prov 37.5 33 0.00071 30.8 3.1 47 10-64 2-48 (362)
376 PF01920 Prefoldin_2: Prefoldi 37.5 1.5E+02 0.0032 21.4 6.2 62 50-114 34-96 (106)
377 COG1321 TroR Mn-dependent tran 37.5 71 0.0015 25.9 4.8 56 10-73 9-64 (154)
378 PRK00461 rpmC 50S ribosomal pr 37.5 1.7E+02 0.0037 21.7 6.6 44 125-168 12-55 (87)
379 PF07381 DUF1495: Winged helix 37.3 37 0.0008 25.5 2.8 44 13-63 11-65 (90)
380 PF01047 MarR: MarR family; I 37.0 26 0.00057 22.8 1.8 46 15-68 7-52 (59)
381 PRK07739 flgK flagellar hook-a 37.0 2.3E+02 0.0049 27.3 8.8 130 44-185 67-196 (507)
382 PRK13879 conjugal transfer pro 36.7 3E+02 0.0065 24.4 9.1 59 126-184 50-111 (253)
383 TIGR00122 birA_repr_reg BirA b 36.7 70 0.0015 21.7 4.0 44 15-67 4-47 (69)
384 PRK11179 DNA-binding transcrip 36.7 38 0.00083 26.9 3.0 57 7-71 5-68 (153)
385 PRK11281 hypothetical protein; 36.7 5.7E+02 0.012 27.5 12.8 76 83-158 76-164 (1113)
386 PRK01885 greB transcription el 36.7 1.6E+02 0.0034 24.0 6.7 65 88-152 11-78 (157)
387 COG4551 Predicted protein tyro 36.5 16 0.00035 28.0 0.7 40 169-208 47-91 (109)
388 TIGR00219 mreC rod shape-deter 36.3 86 0.0019 27.9 5.5 12 132-143 95-106 (283)
389 PRK11169 leucine-responsive tr 36.1 49 0.0011 26.7 3.6 65 5-77 8-80 (164)
390 PF14193 DUF4315: Domain of un 36.1 97 0.0021 22.8 4.8 26 88-113 2-27 (83)
391 TIGR03752 conj_TIGR03752 integ 36.0 1.8E+02 0.0039 28.2 7.8 38 78-115 57-94 (472)
392 PRK00888 ftsB cell division pr 36.0 1.1E+02 0.0024 23.2 5.4 34 81-114 28-61 (105)
393 PF08287 DASH_Spc19: Spc19; I 36.0 1.9E+02 0.0041 23.5 7.0 26 86-111 67-92 (153)
394 PF10883 DUF2681: Protein of u 35.8 46 0.00099 24.9 3.1 52 81-132 24-80 (87)
395 KOG1962|consensus 35.7 2E+02 0.0044 24.9 7.5 49 122-174 152-200 (216)
396 KOG0243|consensus 35.7 4.3E+02 0.0094 28.2 10.9 29 121-149 441-469 (1041)
397 smart00437 TOP1Ac Bacterial DN 35.7 24 0.00051 31.0 1.8 46 23-71 9-54 (259)
398 PF04420 CHD5: CHD5-like prote 35.6 2.1E+02 0.0046 23.2 7.3 55 90-146 36-91 (161)
399 PRK09990 DNA-binding transcrip 35.5 2.7E+02 0.0059 23.4 10.9 32 41-72 39-71 (251)
400 PRK14136 recX recombination re 35.4 43 0.00094 30.6 3.5 56 11-70 161-216 (309)
401 PRK09480 slmA division inhibit 35.3 1.1E+02 0.0024 24.2 5.6 51 7-82 6-56 (194)
402 PF15456 Uds1: Up-regulated Du 35.3 2.2E+02 0.0048 22.4 11.4 73 76-149 18-102 (124)
403 PF05584 Sulfolobus_pRN: Sulfo 35.1 85 0.0018 22.7 4.3 57 14-79 8-67 (72)
404 PF01638 HxlR: HxlR-like helix 35.1 36 0.00077 24.6 2.4 57 16-81 11-69 (90)
405 PF09012 FeoC: FeoC like trans 35.0 24 0.00052 24.4 1.4 27 177-203 3-29 (69)
406 TIGR02147 Fsuc_second hypothet 34.9 1.3E+02 0.0029 26.7 6.4 29 43-73 147-177 (271)
407 PRK05589 peptide chain release 34.8 2.8E+02 0.0061 25.5 8.6 67 73-141 5-73 (325)
408 KOG0963|consensus 34.7 4.9E+02 0.011 26.2 12.0 77 85-161 233-318 (629)
409 PF08280 HTH_Mga: M protein tr 34.6 66 0.0014 21.5 3.5 40 12-59 6-45 (59)
410 PRK08311 putative RNA polymera 34.5 2E+02 0.0044 24.8 7.4 64 133-201 130-200 (237)
411 PF03938 OmpH: Outer membrane 34.5 2.2E+02 0.0048 22.2 12.9 91 85-189 41-131 (158)
412 COG3398 Uncharacterized protei 34.4 56 0.0012 28.7 3.8 62 11-80 174-235 (240)
413 TIGR00634 recN DNA repair prot 34.4 4.4E+02 0.0095 25.5 11.3 41 132-173 326-366 (563)
414 PF05529 Bap31: B-cell recepto 34.3 2.6E+02 0.0057 22.9 8.9 58 91-148 122-181 (192)
415 KOG0978|consensus 34.3 4.7E+02 0.01 26.7 10.7 101 77-177 542-658 (698)
416 PF14468 DUF4427: Protein of u 34.3 54 0.0012 26.2 3.4 31 51-81 47-82 (132)
417 PRK05431 seryl-tRNA synthetase 34.2 2.2E+02 0.0048 26.8 8.2 63 121-183 35-103 (425)
418 KOG4603|consensus 34.2 2.9E+02 0.0064 23.5 10.0 73 89-161 118-196 (201)
419 PRK11642 exoribonuclease R; Pr 34.1 42 0.00091 34.4 3.5 52 13-67 21-72 (813)
420 KOG1666|consensus 34.1 3.2E+02 0.0069 23.8 8.4 28 121-148 65-92 (220)
421 PRK15178 Vi polysaccharide exp 34.1 4.3E+02 0.0093 25.3 11.5 66 84-149 239-307 (434)
422 cd04765 HTH_MlrA-like_sg2 Heli 33.9 2E+02 0.0043 21.4 7.3 89 43-144 10-99 (99)
423 KOG1962|consensus 33.6 3.2E+02 0.007 23.7 8.7 48 124-171 161-211 (216)
424 PF07851 TMPIT: TMPIT-like pro 33.6 3.9E+02 0.0084 24.7 11.4 48 132-186 43-94 (330)
425 PF11461 RILP: Rab interacting 33.5 1E+02 0.0022 21.5 4.3 28 122-149 4-31 (60)
426 PRK12423 LexA repressor; Provi 33.4 44 0.00095 27.9 3.0 55 11-72 6-65 (202)
427 PRK06665 flgK flagellar hook-a 33.4 2.1E+02 0.0046 28.4 8.2 130 44-185 67-196 (627)
428 PF09738 DUF2051: Double stran 33.3 3.7E+02 0.0081 24.4 11.9 86 95-184 78-164 (302)
429 TIGR02010 IscR iron-sulfur clu 33.3 36 0.00079 26.5 2.4 52 23-81 22-73 (135)
430 PRK10870 transcriptional repre 33.1 2.7E+02 0.0058 22.7 7.6 42 43-84 81-123 (176)
431 PF09358 UBA_e1_C: Ubiquitin-a 32.9 31 0.00067 27.1 1.9 31 47-77 42-74 (125)
432 PF03002 Somatostatin: Somatos 32.7 22 0.00048 19.0 0.7 12 65-76 2-13 (18)
433 KOG2911|consensus 32.6 4.5E+02 0.0097 25.3 9.7 116 80-198 240-379 (439)
434 PF12252 SidE: Dot/Icm substra 32.6 5.2E+02 0.011 28.1 10.8 121 60-180 1038-1192(1439)
435 TIGR00414 serS seryl-tRNA synt 32.6 2.6E+02 0.0057 26.2 8.3 63 121-183 37-106 (418)
436 TIGR02944 suf_reg_Xantho FeS a 32.5 28 0.00061 26.7 1.6 48 13-67 11-59 (130)
437 PF08461 HTH_12: Ribonuclease 32.5 55 0.0012 22.7 2.9 50 15-70 2-53 (66)
438 PF06810 Phage_GP20: Phage min 32.5 2.7E+02 0.0059 22.6 11.0 23 177-199 85-107 (155)
439 PRK13729 conjugal transfer pil 32.4 1.8E+02 0.004 28.2 7.3 19 95-113 70-88 (475)
440 COG1730 GIM5 Predicted prefold 32.3 1.6E+02 0.0034 24.0 5.9 24 88-111 95-118 (145)
441 PRK11415 hypothetical protein; 32.3 1.9E+02 0.004 20.6 6.8 22 151-172 44-65 (74)
442 PF13600 DUF4140: N-terminal d 32.2 1.9E+02 0.004 21.2 6.0 47 67-113 49-96 (104)
443 COG0255 RpmC Ribosomal protein 32.2 1.9E+02 0.0041 20.6 6.6 46 124-169 14-59 (69)
444 smart00344 HTH_ASNC helix_turn 31.9 58 0.0013 23.8 3.2 60 11-78 3-72 (108)
445 KOG0964|consensus 31.8 5.1E+02 0.011 27.8 10.6 31 13-46 323-355 (1200)
446 PLN03094 Substrate binding sub 31.7 4.4E+02 0.0094 24.7 14.6 86 91-184 260-347 (370)
447 PF01316 Arg_repressor: Argini 31.5 1.5E+02 0.0033 20.9 5.1 64 11-81 5-68 (70)
448 COG4372 Uncharacterized protei 31.4 4.8E+02 0.01 25.1 11.5 22 121-142 158-179 (499)
449 KOG0432|consensus 31.4 2.1E+02 0.0046 30.1 7.8 69 80-148 923-992 (995)
450 PF03194 LUC7: LUC7 N_terminus 31.3 3.3E+02 0.0072 23.9 8.3 64 89-153 85-149 (254)
451 CHL00154 rpl29 ribosomal prote 31.3 1.9E+02 0.0041 20.3 6.7 47 124-170 15-61 (67)
452 COG1309 AcrR Transcriptional r 31.2 81 0.0018 23.3 3.9 30 43-81 28-57 (201)
453 TIGR00019 prfA peptide chain r 31.1 4.4E+02 0.0096 24.6 9.8 27 150-176 72-98 (360)
454 TIGR01462 greA transcription e 31.1 2.4E+02 0.0051 22.5 6.8 65 89-153 7-74 (151)
455 KOG0994|consensus 31.0 7.6E+02 0.017 27.3 12.0 89 86-174 1231-1321(1758)
456 PF15070 GOLGA2L5: Putative go 31.0 5.5E+02 0.012 25.7 12.5 96 83-179 32-141 (617)
457 PRK09841 cryptic autophosphory 31.0 5.6E+02 0.012 25.7 13.2 64 92-155 272-342 (726)
458 PF14129 DUF4296: Domain of un 30.8 2.1E+02 0.0045 20.6 6.1 48 151-198 6-57 (87)
459 PRK00226 greA transcription el 30.7 2.6E+02 0.0055 22.4 7.0 65 88-153 11-79 (157)
460 COG3355 Predicted transcriptio 30.6 2.4E+02 0.0051 22.5 6.5 37 44-80 53-92 (126)
461 PF03233 Cauli_AT: Aphid trans 30.5 2.6E+02 0.0056 23.3 7.0 57 122-179 105-161 (163)
462 KOG4360|consensus 30.5 2.7E+02 0.0059 27.5 8.0 14 47-60 197-210 (596)
463 PRK03902 manganese transport t 30.5 1.2E+02 0.0026 23.6 4.9 54 8-69 5-58 (142)
464 PLN02678 seryl-tRNA synthetase 30.3 2.9E+02 0.0063 26.5 8.2 61 121-181 40-106 (448)
465 PF15619 Lebercilin: Ciliary p 30.0 3.4E+02 0.0073 22.9 11.7 79 95-186 13-94 (194)
466 PRK09239 chorismate mutase; Pr 30.0 1.4E+02 0.003 22.7 5.0 24 91-114 7-30 (104)
467 PF11853 DUF3373: Protein of u 30.0 45 0.00098 32.3 2.8 26 87-112 31-56 (489)
468 COG1695 Predicted transcriptio 29.8 2.6E+02 0.0056 21.4 6.9 69 14-84 12-85 (138)
469 PRK06746 peptide chain release 29.8 4.1E+02 0.009 24.5 8.8 67 74-141 6-74 (326)
470 cd00086 homeodomain Homeodomai 29.7 63 0.0014 20.6 2.7 42 7-54 7-48 (59)
471 KOG0946|consensus 29.4 6E+02 0.013 26.7 10.5 128 25-173 617-757 (970)
472 PRK09975 DNA-binding transcrip 29.2 41 0.00089 27.3 2.1 57 1-82 1-57 (213)
473 PRK09416 lstR lineage-specific 29.2 2.8E+02 0.006 22.3 6.8 72 14-87 46-117 (135)
474 PF04420 CHD5: CHD5-like prote 29.1 2.7E+02 0.0058 22.6 6.9 13 132-144 44-56 (161)
475 TIGR01884 cas_HTH CRISPR locus 29.1 1.2E+02 0.0025 25.3 4.8 53 5-67 139-191 (203)
476 PF04065 Not3: Not1 N-terminal 28.9 2.4E+02 0.0053 24.6 7.0 73 126-206 127-208 (233)
477 PRK10857 DNA-binding transcrip 28.9 36 0.00079 27.8 1.7 52 20-78 19-70 (164)
478 PRK04984 fatty acid metabolism 28.8 33 0.00071 28.9 1.5 29 43-71 41-70 (239)
479 PRK01156 chromosome segregatio 28.7 6.4E+02 0.014 25.7 14.0 25 89-113 638-662 (895)
480 PF06008 Laminin_I: Laminin Do 28.7 3.8E+02 0.0083 23.1 10.3 84 85-168 43-138 (264)
481 KOG0930|consensus 28.6 3E+02 0.0065 25.3 7.6 82 123-204 26-121 (395)
482 COG4985 ABC-type phosphate tra 28.6 4.3E+02 0.0093 23.6 8.5 30 119-148 212-241 (289)
483 TIGR02277 PaaX_trns_reg phenyl 28.6 51 0.0011 29.3 2.7 47 34-82 22-68 (280)
484 PTZ00034 40S ribosomal protein 28.5 96 0.0021 24.7 4.0 73 11-89 7-81 (124)
485 PRK11448 hsdR type I restricti 28.5 3.6E+02 0.0078 28.9 9.3 62 85-146 147-209 (1123)
486 PRK12901 secA preprotein trans 28.5 7.8E+02 0.017 26.6 11.5 49 118-175 75-123 (1112)
487 PF10186 Atg14: UV radiation r 28.5 3.7E+02 0.0081 22.9 14.0 30 82-111 58-87 (302)
488 KOG3990|consensus 28.4 3.2E+02 0.0069 24.6 7.6 19 130-148 276-294 (305)
489 PF09639 YjcQ: YjcQ protein; 28.3 43 0.00092 24.5 1.9 36 44-79 21-56 (88)
490 PTZ00419 valyl-tRNA synthetase 28.3 2.5E+02 0.0055 29.4 8.1 59 122-180 930-991 (995)
491 TIGR02928 orc1/cdc6 family rep 28.3 87 0.0019 27.8 4.2 60 5-68 284-352 (365)
492 PF00440 TetR_N: Bacterial reg 28.2 16 0.00034 23.2 -0.4 31 43-82 12-42 (47)
493 PF08946 Osmo_CC: Osmosensory 28.1 1.6E+02 0.0035 19.4 4.3 28 81-108 6-33 (46)
494 PTZ00446 vacuolar sorting prot 28.1 3.7E+02 0.0081 22.8 13.3 18 151-168 106-123 (191)
495 PF01920 Prefoldin_2: Prefoldi 28.0 2.3E+02 0.005 20.4 12.0 33 83-115 8-40 (106)
496 cd04761 HTH_MerR-SF Helix-Turn 28.0 58 0.0013 20.1 2.2 40 27-77 1-40 (49)
497 PF10359 Fmp27_WPPW: RNA pol I 28.0 2.5E+02 0.0054 26.8 7.4 65 85-149 161-228 (475)
498 TIGR02894 DNA_bind_RsfA transc 28.0 3.3E+02 0.0072 22.6 7.2 46 122-171 105-150 (161)
499 PF07200 Mod_r: Modifier of ru 27.9 3E+02 0.0064 21.5 11.3 90 76-176 25-115 (150)
500 COG3074 Uncharacterized protei 27.9 2.4E+02 0.0052 20.5 10.1 69 96-181 6-74 (79)
No 1
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=100.00 E-value=1.3e-73 Score=478.54 Aligned_cols=188 Identities=54% Similarity=0.946 Sum_probs=187.0
Q ss_pred HHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHH
Q psy2296 16 LLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAE 95 (208)
Q Consensus 16 il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~ 95 (208)
||+|||++++||||| ||||+|||+|||++|+||||||+|||||||++||||||||||||||++.+.+++.+++|+++
T Consensus 1 il~~f~e~~~~y~lK---ELEK~~pK~~gI~~~~VKdvlq~LvDDglV~~EKiGssn~YWsFps~~~~~~~~~~~~l~~~ 77 (188)
T PF03962_consen 1 ILEIFHESKDFYTLK---ELEKLAPKEKGIVSMSVKDVLQSLVDDGLVHVEKIGSSNYYWSFPSQAKQKRQNKLEKLQKE 77 (188)
T ss_pred ChHHHhhcCCcccHH---HHHHHcccccCCchhhHHHHHHHHhccccchhhhccCeeEEEecChHHHHHHHHHHHHHHHH
Confidence 689999999999999 99999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 96 IEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 96 i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDN 175 (208)
++.++.++.++++.|+.++.+|+++++|+.+|+++++|+.++++|+++|++|..+||+.|+++++++..+++||||||||
T Consensus 78 ~~~~~~~i~~l~~~i~~~~~~r~~~~eR~~~l~~l~~l~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~~~~anrwTDN 157 (188)
T PF03962_consen 78 IEELEKKIEELEEKIEEAKKGREESEEREELLEELEELKKELKELKKELEKYSENDPEKIEKLKEEIKIAKEAANRWTDN 157 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCHHHHhhhcCCCCCCcc
Q psy2296 176 LFSLKSWCKNKFGLEETALNKHFSIPEEMDY 206 (208)
Q Consensus 176 I~~l~~~~~~k~~~~~~~i~~~f~Ip~d~dy 206 (208)
||+|++||+++|||++++|+++||||+||||
T Consensus 158 I~~l~~~~~~k~~~~~~~i~k~f~Ip~d~dy 188 (188)
T PF03962_consen 158 IFSLKSYLKKKFGMDEEDIRKEFGIPEDFDY 188 (188)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHcCCccccCC
Confidence 9999999999999999999999999999998
No 2
>KOG3433|consensus
Probab=100.00 E-value=1.1e-69 Score=446.78 Aligned_cols=202 Identities=45% Similarity=0.732 Sum_probs=198.1
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 1 MSKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 1 MskkkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
|+++ ||.+|||.+|++|||++++||.|| ||||+||| +||+.||||||||+|||||+|.+||||||||||||||+
T Consensus 1 m~~k--ls~~ekr~~l~eIf~eskDff~Lk---elEKlG~k-KgIv~~tvKdvLQsLvDD~lV~~eKIgtSnyywsfps~ 74 (203)
T KOG3433|consen 1 MTVK--LSSDEKRMILLEIFQESKDFFQLK---ELEKLGSK-KGIVWQTVKDVLQSLVDDGLVIKEKIGTSNYYWSFPSE 74 (203)
T ss_pred CCcc--cchHHHHHHHHHHHHhhHhHHHHH---HHHHhCCc-cceehhHHHHHHHHHhccchHHHHHhcccccccccchH
Confidence 7754 999999999999999999999999 99999999 99999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHH-HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNRE-DFLQEVGNISKELELINKELEKYKNNDPDTLKLIE 159 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~-~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~ 159 (208)
+...+...+.+|+++++...+++..+.+.++..+.||+.|++|+ ++-.++..|++.++.++.++.+++++||++++.+.
T Consensus 75 a~~~~ks~~qeLe~~L~~~~qk~~tl~e~~en~K~~~e~tEer~~el~kklnslkk~~e~lr~el~k~~e~dpqv~~k~~ 154 (203)
T KOG3433|consen 75 AICDRKSVLQELESQLATGSQKKATLGESIENRKAGREETEERTDELTKKLNSLKKILESLRWELAKIQETDPQVFEKKV 154 (203)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhHhHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999 77788999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCCCCCccCC
Q psy2296 160 NTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIPEEMDYID 208 (208)
Q Consensus 160 ~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip~d~dyie 208 (208)
+..+.+.+||||||||||+|++||+++||+++.+|+++||||+||||++
T Consensus 155 ~~~K~~~eaanrwtDnI~il~dy~~rkf~~e~nqi~~~fgIPed~d~iq 203 (203)
T KOG3433|consen 155 HLEKTMAEAANRWTDNIFILIDYLYRKFGLEPNQIRKEFGIPEDFDYIQ 203 (203)
T ss_pred HHHHHHHHHHhhhhhhHHHHHHHHHHhcCCCHHHHhHhcCCCccccccC
Confidence 9999999999999999999999999999999999999999999999985
No 3
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=100.00 E-value=2.1e-63 Score=408.22 Aligned_cols=203 Identities=34% Similarity=0.520 Sum_probs=187.7
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 1 MSKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 1 MskkkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
|+ ++|||.+|||.|+++|||.|++||+|| |+|++++| +|||.||||||||+|||||+|.+||||||||||||||+
T Consensus 1 M~-~~~ls~~eKrr~L~aI~~~SKdFFqLk---EvEkLGSK-K~IVl~tVKd~lQqlVDDgvV~~EK~GtsN~YWsF~s~ 75 (209)
T COG5124 1 MP-PKGLSLAEKRRRLEAIFHDSKDFFQLK---EVEKLGSK-KQIVLMTVKDLLQQLVDDGVVSVEKCGTSNIYWSFKSQ 75 (209)
T ss_pred CC-CccccHHHHHHHHHHHHhccHHHHHHH---HHHHhccc-cccHHHHHHHHHHHHhhcCceeeeeeccceeEEecchH
Confidence 66 689999999999999999999999999 99999999 99999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC--CCCh-hHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCHHHHH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR--GDSK-NREDFLQEVGNI-SKELELINKELEKYKNNDPDTLK 156 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r--~~~~-eR~~ll~~l~~L-~~~~~~l~~el~~~~~~Dp~~i~ 156 (208)
+.+.++..+..|+++++++.+.+..+.+.|+.+++.| .-|+ +|...-..|..+ +.+..+++++|.+|.+++|.+.+
T Consensus 76 ~~qk~~~~~~~l~~~~~~~kqdi~t~~e~i~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~eqd~~k~~l~~l~~~~pi~~d 155 (209)
T COG5124 76 TLQKLYDSSELLKKKIQEVKQDIATYKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKKLNSLQKIEPIRWD 155 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhccccccCchhHH
Confidence 9999999999999999999999999999999999765 2333 455555554444 45667778899999999999999
Q ss_pred HHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCCCCCccCC
Q psy2296 157 LIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIPEEMDYID 208 (208)
Q Consensus 157 ~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip~d~dyie 208 (208)
.+..+.+..++++|+|||||++|++|+|++|++++++||++||||+||||+.
T Consensus 156 ~~~~~~kk~~~~~n~~tDnI~ilidy~c~kf~~~~~qir~~fgIPedld~~q 207 (209)
T COG5124 156 AAKIQEKKKKVHLNKTTDNIEILIDYLCKKFFLKPEQIRKEFGIPEDLDEFQ 207 (209)
T ss_pred HHhhhHHHHHHHHHhhhhhHHHHHHHHHHHcCCCHHHHHHhcCCCcchhhhc
Confidence 9999999999999999999999999999999999999999999999999974
No 4
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=98.60 E-value=6e-06 Score=67.79 Aligned_cols=144 Identities=17% Similarity=0.370 Sum_probs=115.4
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccc-------hhhHHHH
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN-------KASDRVD 86 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps-------~~~~~~~ 86 (208)
..|++||....-+|+.- +|---..+ +|.=..|--+|.+||.+|.|.+-=+|-..+||+-.+ .....+.
T Consensus 4 ~~Il~y~~~qNRPys~~---di~~nL~~--~~~K~~v~k~Ld~L~~~g~i~~K~~GKqkiY~~~Q~~~~~~s~eel~~ld 78 (169)
T PF07106_consen 4 DAILEYMKEQNRPYSAQ---DIFDNLHN--KVGKTAVQKALDSLVEEGKIVEKEYGKQKIYFANQDELEVPSPEELAELD 78 (169)
T ss_pred HHHHHHHHHcCCCCcHH---HHHHHHHh--hccHHHHHHHHHHHHhCCCeeeeeecceEEEeeCccccCCCCchhHHHHH
Confidence 57999999999999999 88776666 777788888999999999999999999999998633 4566777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcC----CHHHHHHHHHHH
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNN----DPDTLKLIENTA 162 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~----Dp~~i~~~~~~~ 162 (208)
..+..|++++..++..+..+..++..+...- .=.++...+.+|+.++..+...|..+... +|+.++.+....
T Consensus 79 ~ei~~L~~el~~l~~~~k~l~~eL~~L~~~~----t~~el~~~i~~l~~e~~~l~~kL~~l~~~~~~vs~ee~~~~~~~~ 154 (169)
T PF07106_consen 79 AEIKELREELAELKKEVKSLEAELASLSSEP----TNEELREEIEELEEEIEELEEKLEKLRSGSKPVSPEEKEKLEKEY 154 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC----CHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Confidence 7788888888888888888888887775432 33557778888999999999999999873 477776665554
Q ss_pred HHHH
Q psy2296 163 QRAK 166 (208)
Q Consensus 163 ~~~k 166 (208)
..+.
T Consensus 155 ~~~~ 158 (169)
T PF07106_consen 155 KKWR 158 (169)
T ss_pred HHHH
Confidence 4443
No 5
>KOG4603|consensus
Probab=97.27 E-value=0.087 Score=44.19 Aligned_cols=177 Identities=14% Similarity=0.276 Sum_probs=121.1
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEee----ccc---hhhHHHH
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWS----FPN---KASDRVD 86 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWs----Fps---~~~~~~~ 86 (208)
..+|.++++..-+|+-. +.=-...+.- .-.-.|-..|.+|-+-|.|..-=-|-+.+|.+ |.. .....+.
T Consensus 10 ~ivl~~~~eqNrP~ssq---~v~~~lq~e~-lgktavqk~Ld~La~~Gki~~K~YGKqKIY~a~QDqF~~~~~eel~~ld 85 (201)
T KOG4603|consen 10 GIVLRYLQEQNRPYSSQ---DVFGNLQREH-LGKTAVQKTLDQLAQQGKIKEKMYGKQKIYFADQDQFDMVSDEELQVLD 85 (201)
T ss_pred HHHHHHHHHhcCCCchH---HHHHHHHHHh-ccchHHHHHHHHHHHcCchhHHhccceeeEeecHHhhcCCChHHHHHHh
Confidence 46788999888888777 6554444422 23467889999999999999999999999986 333 5666777
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCHHHHHHHHHHH
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN----NDPDTLKLIENTA 162 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~----~Dp~~i~~~~~~~ 162 (208)
..+..|++++.++.+.+.....+|..+...= .-..+-++.++|.++++.-.+.|.+++. ..|+..++....-
T Consensus 86 ~~i~~l~ek~q~l~~t~s~veaEik~L~s~L----t~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~y 161 (201)
T KOG4603|consen 86 GKIVALTEKVQSLQQTCSYVEAEIKELSSAL----TTEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREY 161 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc----ChHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHH
Confidence 7777777777777777777777666554321 1234455677777888888888888776 3576655544433
Q ss_pred HHHHHHHhhhhhh--HH-HHHHHHHhhcCCCHHHHhhhcCCC
Q psy2296 163 QRAKEAANRWTDN--LF-SLKSWCKNKFGLEETALNKHFSIP 201 (208)
Q Consensus 163 ~~~k~aanrwTDN--I~-~l~~~~~~k~~~~~~~i~~~f~Ip 201 (208)
+. +.+.|--- +| .|..-+....+++.+++-.++||.
T Consensus 162 ~~---~~~~wrk~krmf~ei~d~~~e~~pk~ksel~eelGIE 200 (201)
T KOG4603|consen 162 QK---YCKEWRKRKRMFREIIDKLLEGLPKKKSELYEELGIE 200 (201)
T ss_pred HH---HHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHhCcC
Confidence 33 33334321 11 244455677899999999999984
No 6
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=96.45 E-value=0.0046 Score=43.92 Aligned_cols=56 Identities=29% Similarity=0.502 Sum_probs=42.8
Q ss_pred HHHHHHHhh---hccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 13 RTGLLELFH---EKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 13 r~~il~~f~---~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
++.|++|+. .+++=|-+| |+.|+.|. .-+..||-+++.||++|...-==-||+++|
T Consensus 3 K~~Ile~L~~k~~~KskfYfk---D~~k~~pd---~k~R~vKKi~~~LV~Eg~l~yWSSGSTTmY 61 (67)
T PF08679_consen 3 KQKILEFLEAKKKKKSKFYFK---DFYKAFPD---AKPREVKKIVNELVNEGKLEYWSSGSTTMY 61 (67)
T ss_dssp HHHHHHHHSSCCCHSS-EEHH---HHHHH-TT---S-HHHHHHHHHHHHHTTSEEEEEETTEEEE
T ss_pred HHHHHHHHHhccCCCCceeHH---HHHHHCCC---cCHHHHHHHHHHHHhhCeEEEEcCCCcEEe
Confidence 578999988 367788899 99999987 348999999999999999875445555544
No 7
>KOG3433|consensus
Probab=96.18 E-value=0.027 Score=47.53 Aligned_cols=41 Identities=24% Similarity=0.250 Sum_probs=36.3
Q ss_pred cchHHHHHHHhhh-cCcccccccccc-eeEeeccchhhHHHHH
Q psy2296 47 SQSVKEILQSLVD-DGLVESEKIGTS-TYFWSFPNKASDRVDC 87 (208)
Q Consensus 47 ~~~VKdvlq~LVD-DglV~~EKiGts-N~YWsFps~~~~~~~~ 87 (208)
-|.|.++++...| ++|..+||||+- ++||+|-.+..+.+-.
T Consensus 11 r~~l~eIf~eskDff~LkelEKlG~kKgIv~~tvKdvLQsLvD 53 (203)
T KOG3433|consen 11 RMILLEIFQESKDFFQLKELEKLGSKKGIVWQTVKDVLQSLVD 53 (203)
T ss_pred HHHHHHHHHhhHhHHHHHHHHHhCCccceehhHHHHHHHHHhc
Confidence 4789999999999 799999999999 9999999887766544
No 8
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=95.84 E-value=0.032 Score=42.78 Aligned_cols=64 Identities=23% Similarity=0.477 Sum_probs=55.7
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
..||+++-+... =+.+ ||-..+|...++...||.=+|..|++-|+|..++.|..++|..--+..
T Consensus 6 ~~IM~~lW~~~~-~t~~---eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~~~gr~~~Y~p~is~~ 69 (115)
T PF03965_consen 6 LEIMEILWESGE-ATVR---EIHEALPEERSWAYSTVQTLLNRLVEKGFLTREKIGRAYVYSPLISRE 69 (115)
T ss_dssp HHHHHHHHHHSS-EEHH---HHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEEEETTCEEEEESSSHH
T ss_pred HHHHHHHHhCCC-CCHH---HHHHHHHhccccchhHHHHHHHHHHhCCceeEeecCCceEEEeCCcHH
Confidence 468899998888 8999 999999987899999999999999999999999999999998776654
No 9
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=95.80 E-value=0.011 Score=41.53 Aligned_cols=60 Identities=18% Similarity=0.401 Sum_probs=44.7
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccce-eEeeccc
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTST-YFWSFPN 79 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN-~YWsFps 79 (208)
+..||+++...+...+=- |+-. ++||+.-+|.=+|+.|.++|.|.....|-+. -||-+-|
T Consensus 2 ke~Il~~i~~~~~p~~T~---eiA~----~~gls~~~aR~yL~~Le~eG~V~~~~~~rG~~~~W~l~~ 62 (62)
T PF04703_consen 2 KEKILEYIKEQNGPLKTR---EIAD----ALGLSIYQARYYLEKLEKEGKVERSPVRRGKSTYWRLNS 62 (62)
T ss_dssp HHCHHHHHHHHTS-EEHH---HHHH----HHTS-HHHHHHHHHHHHHCTSEEEES-SSSSS-EEEES-
T ss_pred cHHHHHHHHHcCCCCCHH---HHHH----HhCCCHHHHHHHHHHHHHCCCEEEecCCCCcceeeeecC
Confidence 357899999977777777 6543 3899999999999999999999998884444 4898754
No 10
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=94.93 E-value=0.016 Score=43.71 Aligned_cols=60 Identities=33% Similarity=0.586 Sum_probs=37.2
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc-----ccccceeEeeccchh
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE-----KIGTSTYFWSFPNKA 81 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E-----KiGtsN~YWsFps~~ 81 (208)
.+|++++..... +. | |.++.. .|+.+..|.-+|..|-+||+|... .-|.+.|||.+....
T Consensus 16 ~~Il~~L~~~~~---l~---d-e~la~~-~~l~~~~vRkiL~~L~~~~lv~~~~~~d~~~~~~~~yw~i~~~~ 80 (105)
T PF02002_consen 16 VRILDALLRKGE---LT---D-EDLAKK-LGLKPKEVRKILYKLYEDGLVSYRRRKDDERGWTRYYWYIDYDQ 80 (105)
T ss_dssp HHHHHHHHHH-----B----H-HHHHHT-T-S-HHHHHHHHHHHHHHSS-EEEEE--------EEEEE-THHH
T ss_pred HHHHHHHHHcCC---cC---H-HHHHHH-hCCCHHHHHHHHHHHHHCCCeEEEEEEcCCCcEEEEEEEEcHHH
Confidence 466777765432 34 3 555555 899999999999999999999766 458889999996643
No 11
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=94.30 E-value=0.084 Score=44.12 Aligned_cols=39 Identities=28% Similarity=0.397 Sum_probs=33.2
Q ss_pred cCCccchHHHHHHHhhhcCccccc-----ccccceeEeeccchh
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE-----KIGTSTYFWSFPNKA 81 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E-----KiGtsN~YWsFps~~ 81 (208)
-||+.+.|.-+|+.|.+||||... ..|-..|||.+....
T Consensus 46 Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~~~~ 89 (178)
T PRK06266 46 TGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTWKPELEK 89 (178)
T ss_pred HCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeCHHH
Confidence 599999999999999999999832 357789999997654
No 12
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=94.26 E-value=0.23 Score=33.16 Aligned_cols=60 Identities=28% Similarity=0.494 Sum_probs=47.5
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN 79 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps 79 (208)
...+..|+.++.... .+.. ||.+. .||+..+|.-.|..|++.|+|.....| ...||++..
T Consensus 6 ~~~~~~il~~l~~~~--~~~~---ei~~~----~~i~~~~i~~~l~~L~~~g~i~~~~~~-~~~~~~~~~ 65 (78)
T cd00090 6 DPTRLRILRLLLEGP--LTVS---ELAER----LGLSQSTVSRHLKKLEEAGLVESRREG-RRVYYSLTD 65 (78)
T ss_pred ChHHHHHHHHHHHCC--cCHH---HHHHH----HCcCHhHHHHHHHHHHHCCCeEEEEec-cEEEEEeCC
Confidence 345677888777665 7888 87664 489999999999999999999998887 456677764
No 13
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=93.99 E-value=0.1 Score=33.60 Aligned_cols=47 Identities=30% Similarity=0.503 Sum_probs=37.2
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE 64 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~ 64 (208)
++...+||.++++.+. -+.+ ||-+. .|++..+|...++.|+++|+|.
T Consensus 2 ~~~~~~Il~~l~~~~~-~t~~---ela~~----~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 2 DETQRKILNYLRENPR-ITQK---ELAEK----LGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp -HHHHHHHHHHHHCTT-S-HH---HHHHH----HTS-HHHHHHHHHHHHHTTSEE
T ss_pred CHHHHHHHHHHHHcCC-CCHH---HHHHH----hCCCHHHHHHHHHHHHHCcCcC
Confidence 5678899999999666 7888 66433 7999999999999999999984
No 14
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=93.59 E-value=2.2 Score=39.01 Aligned_cols=81 Identities=17% Similarity=0.354 Sum_probs=54.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc------CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVG------RGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTA 162 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~------r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~ 162 (208)
+..|.+.+.+++..+.-|.+.+...+.+ |....+|+.++.+|+.+..++++|+-++..+-+ ..+++..+.
T Consensus 88 v~~Lrqkl~E~qGD~KlLR~~la~~r~~~~~~~~~~~~~ere~lV~qLEk~~~q~~qLe~d~qs~lD----EkeEl~~ER 163 (319)
T PF09789_consen 88 VEELRQKLNEAQGDIKLLREKLARQRVGDEGIGARHFPHEREDLVEQLEKLREQIEQLERDLQSLLD----EKEELVTER 163 (319)
T ss_pred HHHHHHHHHHHhchHHHHHHHHHhhhhhhccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHH
Confidence 3344444444444444455555554443 345589999999999999999999999988764 456666666
Q ss_pred HHHHHHHhhhh
Q psy2296 163 QRAKEAANRWT 173 (208)
Q Consensus 163 ~~~k~aanrwT 173 (208)
..++.-++|..
T Consensus 164 D~yk~K~~RLN 174 (319)
T PF09789_consen 164 DAYKCKAHRLN 174 (319)
T ss_pred HHHHHHHHHHH
Confidence 77777777774
No 15
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=93.52 E-value=0.11 Score=33.79 Aligned_cols=51 Identities=31% Similarity=0.509 Sum_probs=37.2
Q ss_pred HHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEe
Q psy2296 16 LLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFW 75 (208)
Q Consensus 16 il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YW 75 (208)
|+.++. ...-+.. ||.+. -|++..+|...|..|+++|+|..++.|...+|.
T Consensus 2 il~~l~--~~~~~~~---~i~~~----l~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~ 52 (66)
T smart00418 2 ILKLLA--EGELCVC---ELAEI----LGLSQSTVSHHLKKLREAGLVESRREGKRVYYS 52 (66)
T ss_pred HHHHhh--cCCccHH---HHHHH----HCCCHHHHHHHHHHHHHCCCeeeeecCCEEEEE
Confidence 455554 3334555 55444 489999999999999999999998877765553
No 16
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=93.48 E-value=0.13 Score=38.91 Aligned_cols=62 Identities=23% Similarity=0.329 Sum_probs=52.0
Q ss_pred HHHHHHHHhhhccchhhhcchHHHHhhcccc-cCCccchHHHHHHHhhhcCcccccccccc-eeEee
Q psy2296 12 KRTGLLELFHEKEEFFQLKLIIELEKLAPKE-KGIISQSVKEILQSLVDDGLVESEKIGTS-TYFWS 76 (208)
Q Consensus 12 Kr~~il~~f~~~~~~f~lK~~~ElEK~~pK~-~GI~~~~VKdvlq~LVDDglV~~EKiGts-N~YWs 76 (208)
-|..||++|.+....++.- ||-..+.+. .+|+..||==.|+.|++.|+|..-..|.+ ++|-.
T Consensus 2 qR~~Il~~l~~~~~~~sa~---ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y~~ 65 (116)
T cd07153 2 QRLAILEVLLESDGHLTAE---EIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARYEL 65 (116)
T ss_pred HHHHHHHHHHhCCCCCCHH---HHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEEEe
Confidence 3788999999999999999 997776653 47999999999999999999998888665 55543
No 17
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=93.42 E-value=0.21 Score=35.02 Aligned_cols=53 Identities=23% Similarity=0.302 Sum_probs=45.1
Q ss_pred CCHHHHHHHHHHHhhhccc-hhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 7 LSVEEKRTGLLELFHEKEE-FFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~-~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
.+.++-+.+||.+|.+... -++.+ ||-+. -||...+|--+|..|.++|+|..+
T Consensus 2 ~~~~~~~~~IL~~L~~~g~~~~ta~---eLa~~----lgl~~~~v~r~L~~L~~~G~V~~~ 55 (68)
T smart00550 2 LTQDSLEEKILEFLENSGDETSTAL---QLAKN----LGLPKKEVNRVLYSLEKKGKVCKQ 55 (68)
T ss_pred CCchHHHHHHHHHHHHCCCCCcCHH---HHHHH----HCCCHHHHHHHHHHHHHCCCEEec
Confidence 4567788999999999877 49999 87543 699999999999999999999764
No 18
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=93.02 E-value=0.12 Score=39.54 Aligned_cols=72 Identities=24% Similarity=0.361 Sum_probs=57.3
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccc-cCCccchHHHHHHHhhhcCcccccccccceeEeeccc
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKE-KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN 79 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~-~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps 79 (208)
+|+-+=.-|..||++|.+....+|.. ||-+.+.+. .+|+..||=-.|..|++.|+|..=-.|....+..+..
T Consensus 2 ~glr~T~~R~~Il~~l~~~~~~~ta~---ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~~~~~~Y~~~~ 74 (120)
T PF01475_consen 2 AGLRLTPQRLAILELLKESPEHLTAE---EIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFGDGESRYELST 74 (120)
T ss_dssp TTHHHHHHHHHHHHHHHHHSSSEEHH---HHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTSEEEEEESS
T ss_pred CCCCCCHHHHHHHHHHHcCCCCCCHH---HHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcCCCcceEeecC
Confidence 45666667999999999999999999 998877663 4788999999999999999999887775555555443
No 19
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=92.86 E-value=0.54 Score=37.10 Aligned_cols=64 Identities=17% Similarity=0.302 Sum_probs=52.0
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
..||.+|-.... -+.+ ||-...+...|+...||.=+|.-|++-|+|...|.|.+.+|+..=+..
T Consensus 7 ~~VM~vlW~~~~-~t~~---eI~~~l~~~~~~~~tTv~T~L~rL~~KG~v~~~k~gr~~~Y~p~vs~e 70 (130)
T TIGR02698 7 WEVMRVVWTLGE-TTSR---DIIRILAEKKDWSDSTIKTLLGRLVDKGCLTTEKEGRKFIYTALVSED 70 (130)
T ss_pred HHHHHHHHcCCC-CCHH---HHHHHHhhccCCcHHHHHHHHHHHHHCCceeeecCCCcEEEEecCCHH
Confidence 347777766554 4788 987777766799999999999999999999999999998888755543
No 20
>COG1777 Predicted transcriptional regulators [Transcription]
Probab=92.67 E-value=1.5 Score=37.82 Aligned_cols=50 Identities=34% Similarity=0.500 Sum_probs=41.6
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccc--cccc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVES--EKIG 69 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~--EKiG 69 (208)
+=|.+||.++.... +|.+= ++..=|++++.|=+.|+.|.+.|||.+ ||+-
T Consensus 15 etRR~Il~lLt~~p-~yvsE--------iS~~lgvsqkAVl~HL~~LE~AGlveS~ie~~~ 66 (217)
T COG1777 15 ETRRRILQLLTRRP-CYVSE--------ISRELGVSQKAVLKHLRILERAGLVESRIEKIP 66 (217)
T ss_pred cHHHHHHHHHhcCc-hHHHH--------HHhhcCcCHHHHHHHHHHHHHcCCchhhccccc
Confidence 34789999999998 88775 455569999999999999999999998 4443
No 21
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=91.64 E-value=6 Score=39.18 Aligned_cols=107 Identities=24% Similarity=0.381 Sum_probs=59.7
Q ss_pred CCCCCCCHHHHHH--HHHHHhhh-c----------cchhhhcc-hHHHHhhcccccC------------CccchHHHHHH
Q psy2296 2 SKKKGLSVEEKRT--GLLELFHE-K----------EEFFQLKL-IIELEKLAPKEKG------------IISQSVKEILQ 55 (208)
Q Consensus 2 skkkglS~eEKr~--~il~~f~~-~----------~~~f~lK~-~~ElEK~~pK~~G------------I~~~~VKdvlq 55 (208)
.|..-||.|||+. +.+.|=.+ + +.|..+|. +.-+|+.+|. -| |.+-++.++|-
T Consensus 317 ~P~~dLsveEK~~~~r~~~~~~~ddH~RDALAAA~kAY~~yk~kl~~vEr~~~~-~g~~~d~~rika~VIrG~~l~eal~ 395 (652)
T COG2433 317 TPDRDLSVEEKQEALRTLKISVSDDHERDALAAAYKAYLAYKPKLEKVERKLPE-LGIWKDVERIKALVIRGYPLAEALS 395 (652)
T ss_pred CCcccCCHHHHHHHHhhcCCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHhccc-ccchhhHHHHHHHeecCCcHHHHHH
Confidence 4678899999999 33222111 0 01111110 2278888887 33 45566777776
Q ss_pred HhhhcCccccccccc--------ceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 56 SLVDDGLVESEKIGT--------STYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 56 ~LVDDglV~~EKiGt--------sN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
.....-. -.|+-|+ ..|+ .....+...+++|+.++..|+..+.+++..|+.+..
T Consensus 396 ~~~e~~~-p~e~~~~~~~e~~ei~~~~-----~~i~~~~~~ve~l~~e~~~L~~~~ee~k~eie~L~~ 457 (652)
T COG2433 396 KVKEEER-PREKEGTEEEERREITVYE-----KRIKKLEETVERLEEENSELKRELEELKREIEKLES 457 (652)
T ss_pred HHHhhhc-cccccccccccccchhHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6665444 5566776 2222 233344555666666666666666666666665544
No 22
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=91.61 E-value=0.39 Score=39.27 Aligned_cols=38 Identities=29% Similarity=0.529 Sum_probs=32.2
Q ss_pred cCCccchHHHHHHHhhhcCccc-----ccccccceeEeeccch
Q psy2296 43 KGIISQSVKEILQSLVDDGLVE-----SEKIGTSTYFWSFPNK 80 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~-----~EKiGtsN~YWsFps~ 80 (208)
-||+..+|--+|..|.++|||. .+.-|-..|||.+...
T Consensus 38 Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~ 80 (158)
T TIGR00373 38 LGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYE 80 (158)
T ss_pred HCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHH
Confidence 6999999999999999999993 3344889999987554
No 23
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=91.48 E-value=2 Score=36.12 Aligned_cols=40 Identities=30% Similarity=0.506 Sum_probs=35.5
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccc-----eeEeeccchhh
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTS-----TYFWSFPNKAS 82 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGts-----N~YWsFps~~~ 82 (208)
-||...+|..+|..|-++|+|...|+++. .|||-+-++..
T Consensus 42 l~i~~~~vrriL~~L~e~~li~~~k~rd~~~~~~~y~w~~~~~~v 86 (176)
T COG1675 42 LGIKKNEVRRILYALYEDGLISYRKKRDEESGWEEYTWYINYEKV 86 (176)
T ss_pred hCccHHHHHHHHHHHHhCCceEEEeecccCCCcEEEEEEechHHH
Confidence 69999999999999999999999999876 58898888654
No 24
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=90.83 E-value=10 Score=33.39 Aligned_cols=95 Identities=15% Similarity=0.272 Sum_probs=49.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMV---GRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIEN 160 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~---~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~ 160 (208)
.++..++.++.++..++..+.++.++++.... +-.+..+..+|-.++..++.+...|..++..+.+ .++.+..
T Consensus 49 ~~~~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~e~~aL~~E~~~ak~r~~~le~el~~l~~----~~~~l~~ 124 (239)
T COG1579 49 ALEIELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDERELRALNIEIQIAKERINSLEDELAELME----EIEKLEK 124 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHH
Confidence 34444444444444444444444444443322 1123345666666777776666666666665543 4555555
Q ss_pred HHHHHHHHHhhhhhhHHHHHHH
Q psy2296 161 TAQRAKEAANRWTDNLFSLKSW 182 (208)
Q Consensus 161 ~~~~~k~aanrwTDNI~~l~~~ 182 (208)
++..++.++-+--.|+..+..=
T Consensus 125 ~i~~l~~~~~~~e~~~~e~~~~ 146 (239)
T COG1579 125 EIEDLKERLERLEKNLAEAEAR 146 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555555555544443
No 25
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=90.49 E-value=0.24 Score=34.20 Aligned_cols=56 Identities=29% Similarity=0.397 Sum_probs=40.8
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeecc
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFP 78 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFp 78 (208)
.+++..+. ...-.|.. || +.. .||+..+|-++|..|++.|+|.... |.--+|++-|
T Consensus 11 ~~vy~~Ll-~~~~~t~~---eI---a~~-l~i~~~~v~~~L~~L~~~GlV~~~~-~~~~~Y~a~~ 66 (68)
T PF01978_consen 11 AKVYLALL-KNGPATAE---EI---AEE-LGISRSTVYRALKSLEEKGLVEREE-GRPKVYRAVP 66 (68)
T ss_dssp HHHHHHHH-HHCHEEHH---HH---HHH-HTSSHHHHHHHHHHHHHTTSEEEEE-ECCEEEEEE-
T ss_pred HHHHHHHH-HcCCCCHH---HH---HHH-HCcCHHHHHHHHHHHHHCCCEEEEc-CceEEEEEeC
Confidence 34455554 44455555 54 333 7999999999999999999999999 7777777665
No 26
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=90.22 E-value=3.1 Score=31.28 Aligned_cols=63 Identities=16% Similarity=0.308 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
..+......+..+++.++.+...+...|...+... +++..+.++...++.++..+..++..+.
T Consensus 32 ~~ld~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~---~~~~~l~~e~~~lk~~i~~le~~~~~~e 94 (108)
T PF02403_consen 32 IELDQERRELQQELEELRAERNELSKEIGKLKKAG---EDAEELKAEVKELKEEIKELEEQLKELE 94 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCHTT---CCTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHhhCc---ccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555566677777777777777777777776644 5677788888888888887777776655
No 27
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=90.11 E-value=0.41 Score=32.45 Aligned_cols=51 Identities=29% Similarity=0.425 Sum_probs=39.4
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
.-|.+||..+ ......+.. ||-.. .||++.+|---|+.|.+-|+|.+.+-|
T Consensus 10 p~R~~Il~~L-~~~~~~t~~---ela~~----l~~~~~t~s~hL~~L~~aGli~~~~~g 60 (61)
T PF12840_consen 10 PTRLRILRLL-ASNGPMTVS---ELAEE----LGISQSTVSYHLKKLEEAGLIEVEREG 60 (61)
T ss_dssp HHHHHHHHHH-HHCSTBEHH---HHHHH----HTS-HHHHHHHHHHHHHTTSEEEEEET
T ss_pred HHHHHHHHHH-hcCCCCCHH---HHHHH----HCCCHHHHHHHHHHHHHCCCeEEeccC
Confidence 4678888888 444455555 55443 499999999999999999999999876
No 28
>KOG0250|consensus
Probab=89.85 E-value=7.1 Score=40.90 Aligned_cols=116 Identities=24% Similarity=0.398 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcC--------C---H
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVG-RGDSKNREDFLQEVGNISKELELINKELEKYKNN--------D---P 152 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~-r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~--------D---p 152 (208)
+.++++.|+.+++.++..+..|.++++..+.. +..-+++.....++..|+..+.....+|..+++. + |
T Consensus 399 ~e~k~~~L~~evek~e~~~~~L~~e~~~~~~~~~~~~ee~~~i~~~i~~l~k~i~~~~~~l~~lk~~k~dkvs~FG~~m~ 478 (1074)
T KOG0250|consen 399 RENKLEQLKKEVEKLEEQINSLREELNEVKEKAKEEEEEKEHIEGEILQLRKKIENISEELKDLKKTKTDKVSAFGPNMP 478 (1074)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccchhhhcchhhH
Confidence 33444444444444444444444444443331 2333455566667777777777777776666542 3 3
Q ss_pred HHHHHHHHHHHH--------------HHHHHhhhhhhHHHHHHHHHhhcCC----CHHHHhh---hcCCCC
Q psy2296 153 DTLKLIENTAQR--------------AKEAANRWTDNLFSLKSWCKNKFGL----EETALNK---HFSIPE 202 (208)
Q Consensus 153 ~~i~~~~~~~~~--------------~k~aanrwTDNI~~l~~~~~~k~~~----~~~~i~~---~f~Ip~ 202 (208)
+.+..+...... +++. +|++-|.....-|-+.|-+ |...++. .++||.
T Consensus 479 ~lL~~I~r~~~~f~~~P~GPlG~~Vtl~~~--KWa~aIE~~L~n~lnaFiv~sh~D~~~Lr~i~~~~~~~~ 547 (1074)
T KOG0250|consen 479 QLLRAIERRKRRFQTPPKGPLGKYVTLKEP--KWALAIERCLGNLLNAFIVTSHKDARILRAIMRRLKIPG 547 (1074)
T ss_pred HHHHHHHHHHhcCCCCCCCCccceeEecCc--HHHHHHHHHHHHhhhhheeCCHhhHHHHHHHHHHcCCCC
Confidence 334333333322 2334 8999999988888888855 3334443 777874
No 29
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=89.66 E-value=0.42 Score=31.43 Aligned_cols=49 Identities=31% Similarity=0.524 Sum_probs=41.8
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
+|--+||+.|.++....++. ||-.. .|++.-||--+|+.|++.|+|..+
T Consensus 3 ~ral~iL~~l~~~~~~~t~~---eia~~----~gl~~stv~r~L~tL~~~g~v~~d 51 (52)
T PF09339_consen 3 ERALRILEALAESGGPLTLS---EIARA----LGLPKSTVHRLLQTLVEEGYVERD 51 (52)
T ss_dssp HHHHHHHHCHHCTBSCEEHH---HHHHH----HTS-HHHHHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHHHHHcCCCCCCHH---HHHHH----HCcCHHHHHHHHHHHHHCcCeecC
Confidence 46778999999999999999 87543 799999999999999999999754
No 30
>PF13730 HTH_36: Helix-turn-helix domain
Probab=89.48 E-value=0.65 Score=30.49 Aligned_cols=52 Identities=25% Similarity=0.272 Sum_probs=35.6
Q ss_pred CCCCHHHHHHHHHHHhhh---ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcc
Q psy2296 5 KGLSVEEKRTGLLELFHE---KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLV 63 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~---~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV 63 (208)
++||+.+|.--+.=.-+. ...|.+.. .|-+ . +|++..||.-.+..|++-|+|
T Consensus 1 ~~Ls~~~~~v~~~l~~~~~~~~~~~pS~~---~la~---~-~g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 1 KNLSPTAKLVYLYLASYANKNGGCFPSQE---TLAK---D-LGVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CCCCHHHHHHHHHHHHhcCCCCCCCcCHH---HHHH---H-HCcCHHHHHHHHHHHHHCcCC
Confidence 478888887644322222 22233555 4443 3 699999999999999999986
No 31
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=89.28 E-value=16 Score=32.95 Aligned_cols=45 Identities=18% Similarity=0.320 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEA 168 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~a 168 (208)
..+.+.+..|..++..|++-......+||+.+..++.++......
T Consensus 180 ~~l~~~~~~L~~e~~~Lk~~~~e~~~~D~~eL~~lr~eL~~~~~~ 224 (325)
T PF08317_consen 180 PKLRERKAELEEELENLKQLVEEIESCDQEELEALRQELAEQKEE 224 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHHH
Confidence 334444444444555554444445555555555555544444333
No 32
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=88.72 E-value=1.2 Score=37.26 Aligned_cols=64 Identities=20% Similarity=0.425 Sum_probs=49.9
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc----ccccceeEeeccchhhHH
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE----KIGTSTYFWSFPNKASDR 84 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E----KiGtsN~YWsFps~~~~~ 84 (208)
|.+||..+..... -+.. ||=+. -||++++|--.|+.|+++|+|... ..|--.++|+....+...
T Consensus 3 r~~IL~~L~~~~~-~t~~---eLA~~----lgis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~ 70 (203)
T TIGR02702 3 KEDILSYLLKQGQ-ATAA---ALAEA----LAISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQ 70 (203)
T ss_pred HHHHHHHHHHcCC-CCHH---HHHHH----HCcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhh
Confidence 6788888877655 6777 66544 499999999999999999999865 257788888877665443
No 33
>PF01466 Skp1: Skp1 family, dimerisation domain; InterPro: IPR016072 SKP1 (together with SKP2) was identified as an essential component of the cyclin A-CDK2 S phase kinase complex []. It was found to bind several F-box containing proteins (e.g., Cdc4, Skp2, cyclin F) and to be involved in the ubiquitin protein degradation pathway. A yeast homologue of SKP1 (P52286) was identified in the centromere bound kinetochore complex [] and is also involved in the ubiquitin pathway []. In Dictyostelium discoideum (Slime mold) FP21 was shown to be glycosylated in the cytosol and has homology to SKP1 []. This entry represents a dimerisation domain found at the C-terminal of SKP1 proteins [], as well as in subunit D of the centromere DNA-binding protein complex Cbf3 []. This domain is multi-helical in structure, and consists of an interlocked herterodimer in F-box proteins.; GO: 0006511 ubiquitin-dependent protein catabolic process; PDB: 2P1O_A 3OGL_G 3OGM_A 3C6O_A 2P1N_A 2P1Q_A 3OGK_I 3C6N_A 3C6P_A 2P1P_A ....
Probab=88.65 E-value=0.5 Score=33.96 Aligned_cols=40 Identities=23% Similarity=0.308 Sum_probs=25.0
Q ss_pred HHHHHHhhhhhhHHHHHHHHHhh-----cCCCHHHHhhhcCCCCCCc
Q psy2296 164 RAKEAANRWTDNLFSLKSWCKNK-----FGLEETALNKHFSIPEEMD 205 (208)
Q Consensus 164 ~~k~aanrwTDNI~~l~~~~~~k-----~~~~~~~i~~~f~Ip~d~d 205 (208)
.+..|||.. ||-.|..+|++. -|.++++|++.||||.|+.
T Consensus 18 ~l~~AA~yL--~I~~L~~~~~~~iA~~i~gks~eeir~~fgi~~d~t 62 (78)
T PF01466_consen 18 DLLNAANYL--DIKGLLDLCCKYIANMIKGKSPEEIRKYFGIENDLT 62 (78)
T ss_dssp HHHHHHHHH--T-HHHHHHHHHHHHHHHTTS-HHHHHHHHT---TSS
T ss_pred HHHHHHHHH--cchHHHHHHHHHHHHHhcCCCHHHHHHHcCCCCCCC
Confidence 445566544 666777776543 4899999999999999874
No 34
>PF15556 Zwint: ZW10 interactor
Probab=88.54 E-value=13 Score=32.26 Aligned_cols=112 Identities=17% Similarity=0.248 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHH-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH
Q psy2296 92 ITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISK-----ELELINKELEKYKNNDPDTLKLIENTAQRAK 166 (208)
Q Consensus 92 l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~-----~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k 166 (208)
+--.+++...+...|++.++..........++...-..-..|+. -+.+..+|+..-....-..++.+..++..++
T Consensus 89 aL~q~eEaqrK~~qLqeA~eqlqaKKqva~eK~r~AQkqwqlqQeK~LQ~Lae~sAEvrerq~~~qqeLe~l~qeL~~lk 168 (252)
T PF15556_consen 89 ALPQVEEAQRKRTQLQEALEQLQAKKQVAMEKLRAAQKQWQLQQEKHLQHLAEVSAEVRERQTGTQQELERLYQELGTLK 168 (252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456666777777888887776655444455444444444444 3445555555555556778889999999999
Q ss_pred HHHhhhhhhHHHHHHHH------HhhcCCC--HHHHhhhcCCCCC
Q psy2296 167 EAANRWTDNLFSLKSWC------KNKFGLE--ETALNKHFSIPEE 203 (208)
Q Consensus 167 ~aanrwTDNI~~l~~~~------~~k~~~~--~~~i~~~f~Ip~d 203 (208)
..|..|-|-.---..|+ ..+.-.+ ..+....+++|+|
T Consensus 169 qQa~qeqdKLQR~qtfLqLl~tLq~k~~~~eae~e~~~~~~lp~d 213 (252)
T PF15556_consen 169 QQAGQEQDKLQRHQTFLQLLYTLQGKLLFPEAEAELPQELDLPED 213 (252)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCCCCCcccccchhhcCCCcc
Confidence 99999999664444443 4443333 3445567888877
No 35
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=88.25 E-value=11 Score=29.67 Aligned_cols=48 Identities=17% Similarity=0.245 Sum_probs=31.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNN---DPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~---Dp~~i~~~~~~~~~~k~aa 169 (208)
+-.....++..|+.+++.|+..+...-.. -.+.++.++.++...|+-.
T Consensus 62 ~~~~~~~~~~~L~~el~~l~~ry~t~LellGEK~E~veEL~~Dv~DlK~my 112 (120)
T PF12325_consen 62 ELRALKKEVEELEQELEELQQRYQTLLELLGEKSEEVEELRADVQDLKEMY 112 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHH
Confidence 33455566667777777777766654331 2677888888888777653
No 36
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=88.23 E-value=0.99 Score=36.28 Aligned_cols=49 Identities=31% Similarity=0.496 Sum_probs=35.4
Q ss_pred cCCccchHHHHHHHhhhcCccccc----c---cc-cceeEeeccch-hhHHHHHHHHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE----K---IG-TSTYFWSFPNK-ASDRVDCKLEK 91 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E----K---iG-tsN~YWsFps~-~~~~~~~~~~~ 91 (208)
-||....|.-+|..|-+|+++... + -| ..+|||.+... ....++.++..
T Consensus 25 l~i~~n~vRkiL~~L~ed~~~~~~~~~e~~~~~~~~~~~yw~i~y~~~~~vik~r~~~ 82 (147)
T smart00531 25 LGIKQKQLRKILYLLYDEKLIKIDYKREKDPETKTWYRYYWYINYDTLLDVVKYKLDK 82 (147)
T ss_pred hCCCHHHHHHHHHHHHhhhcchhheeeeeCCCCceEEEEEEEecHHHHHHHHHHHHHH
Confidence 699999999999999999886443 2 36 78899999854 33333333333
No 37
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=88.12 E-value=1.3 Score=31.67 Aligned_cols=51 Identities=24% Similarity=0.350 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
-++...||++|.......++. ||-... ||+..||--.|+.|++.|+|..+.
T Consensus 4 ~~r~~~Il~~l~~~~~~~t~~---~ia~~l----~i~~~tv~r~l~~L~~~g~l~~~~ 54 (91)
T smart00346 4 LERGLAVLRALAEEPGGLTLA---ELAERL----GLSKSTAHRLLNTLQELGYVEQDG 54 (91)
T ss_pred HHHHHHHHHHHHhCCCCcCHH---HHHHHh----CCCHHHHHHHHHHHHHCCCeeecC
Confidence 357888999999886678888 876654 999999999999999999998763
No 38
>PF06476 DUF1090: Protein of unknown function (DUF1090); InterPro: IPR009468 This family consists of several bacterial proteins of unknown function and is known as YqjC in Escherichia coli.
Probab=88.07 E-value=9 Score=29.89 Aligned_cols=88 Identities=18% Similarity=0.193 Sum_probs=64.1
Q ss_pred hHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVT-----KELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN-NDPDTL 155 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~-----~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-~Dp~~i 155 (208)
...-..+...++.+|+-.+ .++..|+..+...+..=.+..-+.....++.+.+.++.+-+.+|..-.. .||+.|
T Consensus 19 ~~gC~~K~~~Ie~qI~~Ak~~gN~~rv~GLe~AL~~v~~~Ctd~~l~~e~q~ki~~~~~kV~ere~eL~eA~~~G~~~KI 98 (115)
T PF06476_consen 19 LTGCEAKEQAIEKQIEYAKAHGNQHRVAGLEKALEEVKAHCTDEGLKAERQQKIAEKQQKVAEREAELKEAQAKGDSDKI 98 (115)
T ss_pred cCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHH
Confidence 3344555556666665553 3566677777777665556666777788888899999999999998765 899999
Q ss_pred HHHHHHHHHHHHHH
Q psy2296 156 KLIENTAQRAKEAA 169 (208)
Q Consensus 156 ~~~~~~~~~~k~aa 169 (208)
.+.+..+..++..+
T Consensus 99 ~K~~~KL~ea~~eL 112 (115)
T PF06476_consen 99 AKRQKKLAEAKAEL 112 (115)
T ss_pred HHHHHHHHHHHHHH
Confidence 99888887776654
No 39
>PF07061 Swi5: Swi5; InterPro: IPR010760 This entry represents Swi5 and is involved in meiotic DNA repair synthesis and meiotic joint molecule formation []. It is known to interact with Swi2, Rhp51 and Swi6 [].
Probab=87.81 E-value=9.1 Score=28.21 Aligned_cols=76 Identities=14% Similarity=0.271 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCC
Q psy2296 125 DFLQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIP 201 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip 201 (208)
.+..++.+|+.+..++..++..+.. .+|+.+- +.-+..++ ..|-.=|=--.|..-+...-|+.-.++..+||++
T Consensus 4 ~l~~~~~~L~~~~~~l~~~i~~~~~~l~~~~~~~v--~~hI~lLh-eYNeiKD~gQ~Lig~iA~~rgvt~~~v~~e~gl~ 80 (83)
T PF07061_consen 4 SLEAEIQELKEQIEQLEKEISELEAELIEDPEKIV--KRHIKLLH-EYNEIKDIGQGLIGLIADQRGVTVKDVYEEFGLD 80 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcccCHHHHH--HHHHHHHH-HHhHHHHHHHHHHHHHHHHcCCcHHHHHHHcCCC
Confidence 3455666666666677777766655 3454432 22222222 2344445555677888888999999999999998
Q ss_pred CC
Q psy2296 202 EE 203 (208)
Q Consensus 202 ~d 203 (208)
.+
T Consensus 81 ~~ 82 (83)
T PF07061_consen 81 MN 82 (83)
T ss_pred CC
Confidence 54
No 40
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=87.72 E-value=0.86 Score=41.59 Aligned_cols=69 Identities=23% Similarity=0.347 Sum_probs=52.6
Q ss_pred CHHHHHHHHHHHhhhc--cchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhH
Q psy2296 8 SVEEKRTGLLELFHEK--EEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASD 83 (208)
Q Consensus 8 S~eEKr~~il~~f~~~--~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~ 83 (208)
++.+-..+|++++++. ..-|+.+ ||++..| +.....+-.+||.|++.|++..=+ +...+.|...+....
T Consensus 6 ~~~~~~~~l~~~~~~~~~~~~~~~~---~L~~~~~---~~~~~~~~~~in~Ll~~~~~~~~~-~~~~l~~~~~~~~~a 76 (327)
T PF05158_consen 6 KLSELEKKLLELCRENPSPKGFSQE---DLQQLIP---GLDLQELVKAINELLSSGLLKLLK-KGGGLSYKAVSEEEA 76 (327)
T ss_dssp -HHHHHHHHHHHHHH---SS-EEHH---HHHHH-T---TS-HHHHHHHHHHHHHHTSEEEEE--SSSEEEEE--SSS-
T ss_pred hHHHHHHHHHHHHHHhcCCCCcCHH---HHHhhcC---CCCHHHHHHHHHHHHhCCCEEEEE-cCCEEEEEEeCHHHH
Confidence 6777889999999998 9999999 9999954 567888999999999999999999 555588888765443
No 41
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=87.69 E-value=0.86 Score=36.62 Aligned_cols=73 Identities=25% Similarity=0.341 Sum_probs=60.8
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccc-cCCccchHHHHHHHhhhcCcccccccccceeEeeccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKE-KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN 79 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~-~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps 79 (208)
.+|+-+=..|..||++|.++.+.++-. ||=..+.+. .+|++-||=-.|..|++-|+|+.=-.+.+-....+++
T Consensus 14 ~~glr~T~qR~~vl~~L~~~~~~~sAe---ei~~~l~~~~p~islaTVYr~L~~l~e~Glv~~~~~~~~~~~y~~~~ 87 (145)
T COG0735 14 EAGLRLTPQRLAVLELLLEADGHLSAE---ELYEELREEGPGISLATVYRTLKLLEEAGLVHRLEFEGGKTRYELNS 87 (145)
T ss_pred HcCCCcCHHHHHHHHHHHhcCCCCCHH---HHHHHHHHhCCCCCHhHHHHHHHHHHHCCCEEEEEeCCCEEEEecCC
Confidence 478878888999999999999999999 988888774 6999999999999999999999888866533333333
No 42
>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=87.66 E-value=10 Score=36.88 Aligned_cols=59 Identities=20% Similarity=0.370 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK 186 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k 186 (208)
+.+...+.++...+..+.++...+. +.+..++.+-..|++.+..|--.+..++.++.+.
T Consensus 375 S~i~~~l~~~~~~l~~ie~~q~~~~----~~l~~L~~dE~~Ar~~l~~~~~~l~~ikR~lek~ 433 (560)
T PF06160_consen 375 SEIQEELEEIEEQLEEIEEEQEEIN----ESLQSLRKDEKEAREKLQKLKQKLREIKRRLEKS 433 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4556666777777777777777665 4788888899999999999999999999998653
No 43
>PRK02224 chromosome segregation protein; Provisional
Probab=87.58 E-value=7.4 Score=39.31 Aligned_cols=43 Identities=23% Similarity=0.372 Sum_probs=19.7
Q ss_pred cccccccceeEeeccchhhH----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 64 ESEKIGTSTYFWSFPNKASD----RVDCKLEKITAEIEDVTKELAQNNEALE 111 (208)
Q Consensus 64 ~~EKiGtsN~YWsFps~~~~----~~~~~~~~l~~~i~~~~~~i~~l~~~ie 111 (208)
+|-=||+ .|+++... .....+..+..+++.++..+.+++..++
T Consensus 453 ~Cp~C~r-----~~~~~~~~~~~~~~~~~~~~~~~~~~~le~~l~~~~~~~e 499 (880)
T PRK02224 453 KCPECGQ-----PVEGSPHVETIEEDRERVEELEAELEDLEEEVEEVEERLE 499 (880)
T ss_pred cCCCCCC-----cCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4456777 56665532 2223333344444444444444444333
No 44
>PRK11637 AmiB activator; Provisional
Probab=87.16 E-value=26 Score=32.71 Aligned_cols=30 Identities=17% Similarity=0.171 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
..+.+++.++++++..+.++.+++..+...
T Consensus 44 ~~~~~l~~l~~qi~~~~~~i~~~~~~~~~~ 73 (428)
T PRK11637 44 DNRDQLKSIQQDIAAKEKSVRQQQQQRASL 73 (428)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455566666666666666666555555443
No 45
>PRK09462 fur ferric uptake regulator; Provisional
Probab=86.89 E-value=1 Score=35.95 Aligned_cols=70 Identities=23% Similarity=0.301 Sum_probs=56.3
Q ss_pred CCCCCHHHHHHHHHHHhhhc-cchhhhcchHHHHhhcccc-cCCccchHHHHHHHhhhcCcccccccccceeEee
Q psy2296 4 KKGLSVEEKRTGLLELFHEK-EEFFQLKLIIELEKLAPKE-KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWS 76 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~-~~~f~lK~~~ElEK~~pK~-~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWs 76 (208)
.+|+-+=.-|..||++|.+. ...++.- ||-..+.+. .+|...||=-.|..|++.|+|+.=..|.+..+.-
T Consensus 10 ~~glr~T~qR~~Il~~l~~~~~~h~sa~---eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~~~~~~~~~y~ 81 (148)
T PRK09462 10 KAGLKVTLPRLKILEVLQEPDNHHVSAE---DLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVFE 81 (148)
T ss_pred HcCCCCCHHHHHHHHHHHhCCCCCCCHH---HHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEEEcCCCcEEEE
Confidence 45777777899999999986 5799999 998777663 5799999999999999999998766655444433
No 46
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=86.49 E-value=5.8 Score=28.02 Aligned_cols=58 Identities=16% Similarity=0.317 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELE 145 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~ 145 (208)
..+...+..++..++++..-+..+.-++..+ +...|..+..++...+.++..++.++.
T Consensus 21 ~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~-----p~s~r~~~~~kl~~yr~~l~~lk~~l~ 78 (79)
T PF05008_consen 21 EQRKSLIREIERDLDEAEELLKQMELEVRSL-----PPSERNQYKSKLRSYRSELKKLKKELK 78 (79)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-----CHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566666666666666666666655444322 446788888888888888888888775
No 47
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=85.63 E-value=19 Score=30.56 Aligned_cols=87 Identities=18% Similarity=0.294 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---------------CCChhHHHHH-HHHHHHHHHHHHHHHHHHHHh
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGR---------------GDSKNREDFL-QEVGNISKELELINKELEKYK 148 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---------------~~~~eR~~ll-~~l~~L~~~~~~l~~el~~~~ 148 (208)
.+.++..+++++..++-+...|..++......| ..++-|.-+| ..+..|...++....+|..+-
T Consensus 91 ~k~rl~~~ek~l~~Lk~e~evL~qr~~kle~ErdeL~~kf~~~i~evqQk~~~kn~lLEkKl~~l~~~lE~keaqL~evl 170 (201)
T PF13851_consen 91 LKARLKELEKELKDLKWEHEVLEQRFEKLEQERDELYRKFESAIQEVQQKTGLKNLLLEKKLQALSEQLEKKEAQLNEVL 170 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555555555555555555444433 2234455555 457888888888888887644
Q ss_pred c---CCHHHHHHHHHHHHHHHHHHhh
Q psy2296 149 N---NDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 149 ~---~Dp~~i~~~~~~~~~~k~aanr 171 (208)
. .||..+......+..+.++-|.
T Consensus 171 ~~~nldp~~~~~v~~~l~~~l~~KN~ 196 (201)
T PF13851_consen 171 AAANLDPAALSQVSKKLEDVLDSKNQ 196 (201)
T ss_pred HHcCCCHHHHHHHHHHHHHHHHHHHH
Confidence 3 6899998888887777666554
No 48
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=85.01 E-value=15 Score=32.74 Aligned_cols=76 Identities=14% Similarity=0.215 Sum_probs=50.3
Q ss_pred cccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHH-HHHHHHHHHHHHHHHHHHH
Q psy2296 68 IGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNRE-DFLQEVGNISKELELINKE 143 (208)
Q Consensus 68 iGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~-~ll~~l~~L~~~~~~l~~e 143 (208)
++.+++|=..-++........+.+++++....+.++..|...|++....+.+..+|- ..-.+++.|+.+++.++..
T Consensus 19 ~~~t~V~a~~~~~~i~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~~~ 95 (265)
T COG3883 19 AFLTTVFAALLSDKIQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELKEN 95 (265)
T ss_pred hhcchhhhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677777777777767788888999999999999999999988888876554333332 2223344444444444333
No 49
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=84.36 E-value=11 Score=29.37 Aligned_cols=61 Identities=21% Similarity=0.265 Sum_probs=48.6
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeecc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFP 78 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFp 78 (208)
+.-|-+||.++.... ..+.- ||-. .-|++..+|--.|.-|.+-|||.+++.|...||.-=|
T Consensus 15 dptRl~IL~~L~~~~-~~~v~---ela~----~l~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~ 75 (117)
T PRK10141 15 DETRLGIVLLLRESG-ELCVC---DLCT----ALDQSQPKISRHLALLRESGLLLDRKQGKWVHYRLSP 75 (117)
T ss_pred CHHHHHHHHHHHHcC-CcCHH---HHHH----HHCcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEECc
Confidence 346778888886533 35566 6643 2599999999999999999999999999998888754
No 50
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=83.99 E-value=41 Score=32.79 Aligned_cols=60 Identities=27% Similarity=0.422 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK 186 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k 186 (208)
-+.+..++..+..++..+.++...+.+ .+..++..-..++..+..|-.-+..++.++.+.
T Consensus 378 ysel~e~leel~e~leeie~eq~ei~e----~l~~Lrk~E~eAr~kL~~~~~~L~~ikr~l~k~ 437 (569)
T PRK04778 378 YSELQEELEEILKQLEEIEKEQEKLSE----MLQGLRKDELEAREKLERYRNKLHEIKRYLEKS 437 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 455556666666666666666666653 677888888889999999999999999888765
No 51
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=83.68 E-value=34 Score=33.73 Aligned_cols=47 Identities=15% Similarity=0.266 Sum_probs=36.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcC------CHHHHHHHHHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNN------DPDTLKLIENTAQRAKE 167 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~------Dp~~i~~~~~~~~~~k~ 167 (208)
.+|..+-.++..++.++.+...++..+... -|..+....+.+.....
T Consensus 262 ~~r~~Le~ei~~le~e~~e~~~~l~~l~~~~~p~~l~~~ll~~~~~q~~~e~~ 314 (650)
T TIGR03185 262 EEREQLERQLKEIEAARKANRAQLRELAADPLPLLLIPNLLDSTKAQLQKEEQ 314 (650)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHhhhHHHHHHHHHHHHHHHH
Confidence 468888899999999999999999888852 36777777777766544
No 52
>PRK06474 hypothetical protein; Provisional
Probab=82.84 E-value=2.2 Score=35.38 Aligned_cols=66 Identities=18% Similarity=0.283 Sum_probs=50.9
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccc---c-cceeEeeccchhh
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKI---G-TSTYFWSFPNKAS 82 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKi---G-tsN~YWsFps~~~ 82 (208)
.-|.+||+++.......|.. ||-..++ +|+..||==.|..|++.|+|++.+- | ..--||.......
T Consensus 11 p~R~~Il~~L~~~~~~~ta~---el~~~l~---~is~aTvYrhL~~L~e~GLI~~~~~~~~~~~~ek~y~~~~~~~ 80 (178)
T PRK06474 11 PVRMKICQVLMRNKEGLTPL---ELVKILK---DVPQATLYRHLQTMVDSGILHVVKEKKVRSVSEKYYAINEEDA 80 (178)
T ss_pred HHHHHHHHHHHhCCCCCCHH---HHHHHhc---CCCHHHHHHHHHHHHHCCCEEEeecccccCceeEEEEecccee
Confidence 46889999999887779999 9877654 6888999999999999999998654 3 3334555555443
No 53
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=82.68 E-value=32 Score=29.99 Aligned_cols=58 Identities=26% Similarity=0.326 Sum_probs=33.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
++..|+.+.....+++.++...+..+.. .|...+.+.....+.|+|-.+=+.-|++.+
T Consensus 40 E~~~L~~Er~~h~eeLrqI~~DIn~lE~----iIkqa~~er~~~~~~i~r~~eey~~Lk~~i 97 (230)
T PF10146_consen 40 EMEELLQERMAHVEELRQINQDINTLEN----IIKQAESERNKRQEKIQRLYEEYKPLKDEI 97 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555555555442 455566666666777777666555555553
No 54
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=82.66 E-value=5.2 Score=29.12 Aligned_cols=43 Identities=30% Similarity=0.522 Sum_probs=30.0
Q ss_pred hhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHH
Q psy2296 37 KLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDC 87 (208)
Q Consensus 37 K~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~ 87 (208)
..|.- |||.+ +.|..||+-|+|...-.|. =|.|++......+.
T Consensus 5 e~~~~-~~i~~----~~l~~lve~Gli~p~~~~~---~~~f~~~~l~rl~~ 47 (84)
T PF13591_consen 5 EFCEA-CGIEP----EFLRELVEEGLIEPEGEEE---EWYFSEEDLARLRR 47 (84)
T ss_pred HHHHH-HCcCH----HHHHHHHHCCCeeecCCCC---eeeECHHHHHHHHH
Confidence 34444 67766 4678899999999987773 45599887655443
No 55
>KOG0972|consensus
Probab=82.59 E-value=31 Score=31.65 Aligned_cols=101 Identities=17% Similarity=0.305 Sum_probs=57.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHH
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN--NDPDTLKLIENTAQR 164 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~--~Dp~~i~~~~~~~~~ 164 (208)
+.+..|.++...+....++++++...+. +.-.+|++.|. +...++++++.|.+.-.. .|..-+.+.++.+..
T Consensus 273 nqL~~l~q~fr~a~~~lse~~e~y~q~~---~gv~~rT~~L~---eVm~e~E~~KqemEe~G~~msDGaplvkIkqavsK 346 (384)
T KOG0972|consen 273 NQLASLMQKFRRATDTLSELREKYKQAS---VGVSSRTETLD---EVMDEIEQLKQEMEEQGAKMSDGAPLVKIKQAVSK 346 (384)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc---ccHHHHHHHHH---HHHHHHHHHHHHHHHhcccccCCchHHHHHHHHHH
Confidence 3344444444444444444444443332 33346666554 445566666666665443 577778888888888
Q ss_pred HHHHHhhhhhhH-----HHHHHHHHhhcCCCHHH
Q psy2296 165 AKEAANRWTDNL-----FSLKSWCKNKFGLEETA 193 (208)
Q Consensus 165 ~k~aanrwTDNI-----~~l~~~~~~k~~~~~~~ 193 (208)
+++..-...=-| ..+++|++..|+++..-
T Consensus 347 Lk~et~~mnv~igv~ehs~lq~~l~~~~N~~a~l 380 (384)
T KOG0972|consen 347 LKEETQTMNVQIGVFEHSILQTYLRDHFNFSANL 380 (384)
T ss_pred HHHHHHhhhhheehhhHHHHHHHHHHHhcccccc
Confidence 887654332222 24788888888876543
No 56
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=82.49 E-value=2.5 Score=26.54 Aligned_cols=48 Identities=25% Similarity=0.439 Sum_probs=38.7
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
..|+.++.+. .+++.. +|-... |+++.+|...|+.|++.|+|....=|
T Consensus 3 ~~il~~l~~~-~~~s~~---~l~~~l----~~s~~tv~~~l~~L~~~g~i~~~~~~ 50 (53)
T smart00420 3 QQILELLAQQ-GKVSVE---ELAELL----GVSEMTIRRDLNKLEEQGLLTRVHGG 50 (53)
T ss_pred HHHHHHHHHc-CCcCHH---HHHHHH----CCCHHHHHHHHHHHHHCCCEEEeecC
Confidence 4678888765 468888 877664 89999999999999999999865533
No 57
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=82.21 E-value=26 Score=31.79 Aligned_cols=28 Identities=14% Similarity=0.228 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy2296 135 KELELINKELEKYKNNDPDTLKLIENTA 162 (208)
Q Consensus 135 ~~~~~l~~el~~~~~~Dp~~i~~~~~~~ 162 (208)
.++.+++..+...+.|++..+..++..+
T Consensus 253 ~~I~~ae~~~~~~r~~t~~Ei~~Lk~~~ 280 (312)
T smart00787 253 TEIAEAEKKLEQCRGFTFKEIEKLKEQL 280 (312)
T ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHHHH
Confidence 3333333333334444444444444433
No 58
>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.
Probab=81.86 E-value=25 Score=35.14 Aligned_cols=110 Identities=15% Similarity=0.203 Sum_probs=71.7
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-cc-------C-------CCChhHHHHHHHHHHHHHHHHHHHHH
Q psy2296 79 NKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSM-VG-------R-------GDSKNREDFLQEVGNISKELELINKE 143 (208)
Q Consensus 79 s~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~-~~-------r-------~~~~eR~~ll~~l~~L~~~~~~l~~e 143 (208)
++....++..+..|+.++..+..++..|+.+|+... .| | +.+.........+..|+.+++.|...
T Consensus 502 ~e~~~~L~~~~~~Le~e~~~L~~~~~~Le~~l~~~~L~g~~~~~~trVL~lr~NP~~~~~~~k~~~l~~L~~En~~L~~~ 581 (722)
T PF05557_consen 502 SEELNELQKEIEELERENERLRQELEELESELEKLTLQGEFNPSKTRVLHLRDNPTSKAEQIKKSTLEALQAENEDLLAR 581 (722)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCT--BTTTEEEEEESS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhccccCCCCceeeeeCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456667888999999999999999999999998621 11 1 11233445568899999999999999
Q ss_pred HHHHhcCCH---------------HHHHHHHHHHHHHHHHHh----hhhhhHHHHHHHHHhhcC
Q psy2296 144 LEKYKNNDP---------------DTLKLIENTAQRAKEAAN----RWTDNLFSLKSWCKNKFG 188 (208)
Q Consensus 144 l~~~~~~Dp---------------~~i~~~~~~~~~~k~aan----rwTDNI~~l~~~~~~k~~ 188 (208)
+..+....+ ..+..++.++..+..... -|++-+--...-|..-||
T Consensus 582 l~~le~~~~~~~~~~p~~~~~~~~~e~~~l~~~~~~~ekr~~RLkevf~~ks~eFr~av~~llG 645 (722)
T PF05557_consen 582 LRSLEEGNSQPVDAVPTSSLESQEKEIAELKAELASAEKRNQRLKEVFKAKSQEFREAVYSLLG 645 (722)
T ss_dssp HHHHTTTT----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHhcccCCCCCcccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 987765332 124445555544433332 355555555555555444
No 59
>PRK11639 zinc uptake transcriptional repressor; Provisional
Probab=81.63 E-value=1.5 Score=36.12 Aligned_cols=64 Identities=16% Similarity=0.224 Sum_probs=53.4
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccc-cCCccchHHHHHHHhhhcCccccccccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKE-KGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~-~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
..|+-.=..|..||++|.+....++-- ||-..+.+. .+|...||=-.|..|++.|+|..=..|.
T Consensus 19 ~~GlR~T~qR~~IL~~l~~~~~hlSa~---eI~~~L~~~~~~is~aTVYRtL~~L~e~Glv~~~~~~~ 83 (169)
T PRK11639 19 QRNVRLTPQRLEVLRLMSLQPGAISAY---DLLDLLREAEPQAKPPTVYRALDFLLEQGFVHKVESTN 83 (169)
T ss_pred HcCCCCCHHHHHHHHHHHhcCCCCCHH---HHHHHHHhhCCCCCcchHHHHHHHHHHCCCEEEEecCC
Confidence 356666678999999999999999998 988777663 4799999999999999999997655443
No 60
>PRK11637 AmiB activator; Provisional
Probab=81.55 E-value=41 Score=31.34 Aligned_cols=33 Identities=9% Similarity=0.093 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
....++..+..+++++..++.++.++...+...
T Consensus 48 ~l~~l~~qi~~~~~~i~~~~~~~~~~~~~l~~l 80 (428)
T PRK11637 48 QLKSIQQDIAAKEKSVRQQQQQRASLLAQLKKQ 80 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555556666665556665555555443
No 61
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=81.12 E-value=8.1 Score=28.17 Aligned_cols=38 Identities=13% Similarity=0.253 Sum_probs=26.9
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVD 86 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~ 86 (208)
.||++.+|.-. ++.|+|...+-. +=||-|+......+.
T Consensus 11 ~gvs~~tLr~y----e~~Gli~p~r~~--~g~R~y~~~dv~~l~ 48 (91)
T cd04766 11 SGMHPQTLRLY----ERLGLLSPSRTD--GGTRRYSERDIERLR 48 (91)
T ss_pred HCcCHHHHHHH----HHCCCcCCCcCC--CCCeeECHHHHHHHH
Confidence 79999998877 457999986533 346778877655433
No 62
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=81.10 E-value=12 Score=35.16 Aligned_cols=67 Identities=15% Similarity=0.286 Sum_probs=49.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+....+.....++..+++.++.+...+..+|...+..++ ++++++++..+|+++++.+.+++..+.+
T Consensus 28 d~i~~ld~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~---~~~~l~~~~~~l~~~~~~~~~~~~~~~~ 94 (425)
T PRK05431 28 DELLELDEERRELQTELEELQAERNALSKEIGQAKRKGE---DAEALIAEVKELKEEIKALEAELDELEA 94 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC---cHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455567777778888888888888888888877554442 4566777778888888887777766653
No 63
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=80.99 E-value=17 Score=29.19 Aligned_cols=60 Identities=17% Similarity=0.341 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
..+..|+..+..++..+..++..+..++..-+.++.+ ......|...+..|..+|+....
T Consensus 35 ~EI~sL~~K~~~lE~eld~~~~~l~~~k~~lee~~~~---~~~~E~l~rriq~LEeele~ae~ 94 (143)
T PF12718_consen 35 QEITSLQKKNQQLEEELDKLEEQLKEAKEKLEESEKR---KSNAEQLNRRIQLLEEELEEAEK 94 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH---HHhHHHHHhhHHHHHHHHHHHHH
Confidence 3344444444444444444444444444332222222 22333555556666655555443
No 64
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=80.56 E-value=12 Score=27.92 Aligned_cols=56 Identities=27% Similarity=0.348 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHh---ccCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 94 AEIEDVTKELAQNNEALEKSM---VGRGD-SKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 94 ~~i~~~~~~i~~l~~~ie~~~---~~r~~-~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+|+.++.+++.....++..- .+++- .+.|..+-.++..+...+....++|..+..
T Consensus 5 ~eId~lEekl~~cr~~le~ve~rL~~~eLs~e~R~~lE~E~~~l~~~l~~~E~eL~~Lrk 64 (85)
T PF15188_consen 5 KEIDGLEEKLAQCRRRLEAVESRLRRRELSPEARRSLEKELNELKEKLENNEKELKLLRK 64 (85)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHcccCCChHHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 445555555555555554432 23443 357999999999999999999999988876
No 65
>smart00787 Spc7 Spc7 kinetochore protein. This domain is found in cell division proteins which are required for kinetochore-spindle association.
Probab=80.56 E-value=45 Score=30.30 Aligned_cols=40 Identities=13% Similarity=0.287 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy2296 125 DFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQR 164 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~ 164 (208)
.+.+.+..|+.++..|+.--..+..|||+.+..+++.+..
T Consensus 176 ~l~~~~~~L~~e~~~L~~~~~e~~~~d~~eL~~lk~~l~~ 215 (312)
T smart00787 176 KLRDRKDALEEELRQLKQLEDELEDCDPTELDRAKEKLKK 215 (312)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHhCCHHHHHHHHHHHHH
Confidence 3444455555555555555555555666666555554433
No 66
>COG4477 EzrA Negative regulator of septation ring formation [Cell division and chromosome partitioning]
Probab=80.32 E-value=33 Score=33.69 Aligned_cols=70 Identities=26% Similarity=0.362 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh--cCCCHHHHhhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK--FGLEETALNKH 197 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k--~~~~~~~i~~~ 197 (208)
..+-..++.+.+.+...+.+..++++ .+..++++=-.|++-++|.---+..+..|+.+. -|+|..-+.-.
T Consensus 378 S~lq~~l~~~~~~l~~i~~~q~~~~e----~L~~LrkdEl~Are~l~~~~~~l~eikR~mek~nLPGlPe~~l~l~ 449 (570)
T COG4477 378 SELQDNLEEIEKALTDIEDEQEKVQE----HLTSLRKDELEARENLERLKSKLHEIKRYMEKSNLPGLPETFLSLF 449 (570)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCcHHHHHHH
Confidence 44455567777777777777777664 678888888899999999999999999998643 24444444333
No 67
>PRK10884 SH3 domain-containing protein; Provisional
Probab=80.30 E-value=36 Score=29.09 Aligned_cols=28 Identities=7% Similarity=0.302 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALE 111 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie 111 (208)
....++..+++++++++.++.++.....
T Consensus 90 ~~~~rlp~le~el~~l~~~l~~~~~~~~ 117 (206)
T PRK10884 90 SLRTRVPDLENQVKTLTDKLNNIDNTWN 117 (206)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHhHHH
Confidence 3456667777777777777776665543
No 68
>PHA00738 putative HTH transcription regulator
Probab=80.27 E-value=5.4 Score=30.99 Aligned_cols=70 Identities=20% Similarity=0.159 Sum_probs=53.5
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHH
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDR 84 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~ 84 (208)
+-.+.-|.+||+++..... -+.= ||-.. -|++..+|--.|.-|.+-|||.++|.|...||.-=|.....+
T Consensus 8 ~~~dptRr~IL~lL~~~e~-~~V~---eLae~----l~lSQptVS~HLKvLreAGLV~srK~Gr~vyY~Ln~~~~~~~ 77 (108)
T PHA00738 8 IRAKILRRKILELIAENYI-LSAS---LISHT----LLLSYTTVLRHLKILNEQGYIELYKEGRTLYAKIRENSKEIQ 77 (108)
T ss_pred ccCCHHHHHHHHHHHHcCC-ccHH---HHHHh----hCCCHHHHHHHHHHHHHCCceEEEEECCEEEEEECCCccHHH
Confidence 3456788999999876322 2333 44322 389999999999999999999999999999999888765433
No 69
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=80.16 E-value=14 Score=25.96 Aligned_cols=72 Identities=19% Similarity=0.311 Sum_probs=50.6
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc--cceeEeeccchhh
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG--TSTYFWSFPNKAS 82 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG--tsN~YWsFps~~~ 82 (208)
-|+|.. .-.||..+...+ ..+.+ +|-.. .+++..+|--.|..|++.|+|...+.| .-..|..+...+.
T Consensus 6 ~~l~~~--~~~il~~l~~~~-~~~~~---~la~~----~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~ 75 (101)
T smart00347 6 LGLTPT--QFLVLRILYEEG-PLSVS---ELAKR----LGVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGR 75 (101)
T ss_pred cCCCHH--HHHHHHHHHHcC-CcCHH---HHHHH----HCCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHH
Confidence 456655 456777777654 47788 77433 588999999999999999999988664 2446666655554
Q ss_pred HHHH
Q psy2296 83 DRVD 86 (208)
Q Consensus 83 ~~~~ 86 (208)
....
T Consensus 76 ~~~~ 79 (101)
T smart00347 76 ELIE 79 (101)
T ss_pred HHHH
Confidence 4433
No 70
>PRK14137 recX recombination regulator RecX; Provisional
Probab=79.96 E-value=3.6 Score=34.91 Aligned_cols=63 Identities=16% Similarity=0.225 Sum_probs=54.2
Q ss_pred CCCCCHHHHHHHHHHHhhh--ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc
Q psy2296 4 KKGLSVEEKRTGLLELFHE--KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~--~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
+++++.+|=+.+++..-.. ++--|+-+ ||.....+ +|+.+..|..||+.|...|+|+=..-.-
T Consensus 30 ~~~~~~~e~~~~~~~~Al~~Ls~R~rS~~---ELr~KL~~-kg~~~e~Ie~vI~rL~e~gyLDD~rfAe 94 (195)
T PRK14137 30 RTPPTPDEAREALLAYAFRALAARAMTAA---ELRAKLER-RSEDEALVTEVLERVQELGYQDDAQVAR 94 (195)
T ss_pred cCCCCHHHHHHHHHHHHHHHHhcchhhHH---HHHHHHHh-cCCCHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 5778999988888877655 78889999 99988888 8999999999999999999998777543
No 71
>PF08317 Spc7: Spc7 kinetochore protein; InterPro: IPR013253 This entry consists of cell division proteins which are required for kinetochore-spindle association [].
Probab=79.84 E-value=46 Score=30.03 Aligned_cols=64 Identities=17% Similarity=0.250 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHh
Q psy2296 128 QEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALN 195 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~ 195 (208)
++|..+..+++..+.++..+.. .++.+...+....+........|-.+...+...-|.+..++.
T Consensus 216 ~eL~~~~~~i~~~k~~l~el~~----el~~l~~~i~~~~~~k~~l~~eI~e~~~~~~~~r~~t~~Ev~ 279 (325)
T PF08317_consen 216 QELAEQKEEIEAKKKELAELQE----ELEELEEKIEELEEQKQELLAEIAEAEKIREECRGWTRSEVK 279 (325)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence 4444444444433333333332 333344444444444444444444555554444455555544
No 72
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=79.75 E-value=24 Score=29.60 Aligned_cols=22 Identities=14% Similarity=0.468 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQN 106 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l 106 (208)
++..++.+.++++.++.++..+
T Consensus 74 l~~~~~~~~~~i~~l~~~i~~~ 95 (188)
T PF03962_consen 74 LQKEIEELEKKIEELEEKIEEA 95 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444443
No 73
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=79.72 E-value=2.8 Score=31.20 Aligned_cols=49 Identities=18% Similarity=0.363 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhhh---ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc
Q psy2296 9 VEEKRTGLLELFHE---KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE 64 (208)
Q Consensus 9 ~eEKr~~il~~f~~---~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~ 64 (208)
...-+.+||++|++ +.+=..+. +|= .+ .|++...|++.|+.|+++|.|-
T Consensus 45 ~~~~~~~Vl~~i~~~~~~~~Gv~v~---~I~---~~-l~~~~~~v~~al~~L~~eG~IY 96 (102)
T PF08784_consen 45 LSPLQDKVLNFIKQQPNSEEGVHVD---EIA---QQ-LGMSENEVRKALDFLSNEGHIY 96 (102)
T ss_dssp S-HHHHHHHHHHHC----TTTEEHH---HHH---HH-STS-HHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHHHHHhcCCCCCcccHH---HHH---HH-hCcCHHHHHHHHHHHHhCCeEe
Confidence 44568899999999 33334444 444 34 3999999999999999999984
No 74
>PLN02678 seryl-tRNA synthetase
Probab=78.93 E-value=16 Score=34.90 Aligned_cols=66 Identities=17% Similarity=0.296 Sum_probs=48.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.....+.....++..+++.++.+...+..+|...+... +++++++++..+|.+++..+..++..+.
T Consensus 33 d~il~ld~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~---~~~~~l~~~~~~Lk~ei~~le~~~~~~~ 98 (448)
T PLN02678 33 DEVIALDKEWRQRQFELDSLRKEFNKLNKEVAKLKIAK---EDATELIAETKELKKEITEKEAEVQEAK 98 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCC---CcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566677777788888888888888888887654433 4567788888888888888777776655
No 75
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=77.69 E-value=38 Score=27.85 Aligned_cols=20 Identities=15% Similarity=0.272 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHhhhh
Q psy2296 154 TLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 154 ~i~~~~~~~~~~k~aanrwT 173 (208)
.|..++.++...|-..-||.
T Consensus 139 ei~~lr~~iE~~K~~~lr~~ 158 (177)
T PF07798_consen 139 EIANLRTEIESLKWDTLRWL 158 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46778888888888888885
No 76
>KOG0995|consensus
Probab=77.64 E-value=25 Score=34.60 Aligned_cols=92 Identities=22% Similarity=0.310 Sum_probs=46.1
Q ss_pred cchHHHHHHHhhhcCcccccccccceeEeeccc---hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----CCC
Q psy2296 47 SQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN---KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG----RGD 119 (208)
Q Consensus 47 ~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps---~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~----r~~ 119 (208)
-.+.++.--.|-||= |=|=+.=+ ...+.+...++.+..+++..+.+++.++.....++.. +-.
T Consensus 261 ~eslre~~~~L~~D~----------nK~~~y~~~~~~k~~~~~~~l~~l~~Eie~kEeE~e~lq~~~d~Lk~~Ie~Q~iS 330 (581)
T KOG0995|consen 261 EESLREKKARLQDDV----------NKFQAYVSQMKSKKQHMEKKLEMLKSEIEEKEEEIEKLQKENDELKKQIELQGIS 330 (581)
T ss_pred HHHHHHHHHHHHhHH----------HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 566666666676651 11111111 2234455666777777777777777666666666542 111
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 120 SKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 120 ~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.++=+.+-.+.++|...+..++.+++.+.
T Consensus 331 ~~dve~mn~Er~~l~r~l~~i~~~~d~l~ 359 (581)
T KOG0995|consen 331 GEDVERMNLERNKLKRELNKIQSELDRLS 359 (581)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 22223333444444444444444444444
No 77
>KOG0995|consensus
Probab=77.59 E-value=77 Score=31.33 Aligned_cols=31 Identities=13% Similarity=0.146 Sum_probs=19.9
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q psy2296 150 NDPDTLKLIENTAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 150 ~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~ 180 (208)
..|+.+++|..+...+...+|+.+--+..+.
T Consensus 329 iS~~dve~mn~Er~~l~r~l~~i~~~~d~l~ 359 (581)
T KOG0995|consen 329 ISGEDVERMNLERNKLKRELNKIQSELDRLS 359 (581)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577777777777777777666665544443
No 78
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=76.89 E-value=42 Score=29.36 Aligned_cols=86 Identities=13% Similarity=0.216 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CC-CChhHHHHHHHHHHHHHHH----HHHHHHHHHHhc--CCHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG--RG-DSKNREDFLQEVGNISKEL----ELINKELEKYKN--NDPD 153 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~--r~-~~~eR~~ll~~l~~L~~~~----~~l~~el~~~~~--~Dp~ 153 (208)
..+.....=|+.-|+.++.++..+...++.+..+ |. ....+...+.++...-..+ ..|..=|..+.. .||+
T Consensus 118 ~ek~e~~~wl~~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l~~~ierhk~Hi~kLE~lLR~L~N~~l~~e 197 (233)
T PF04065_consen 118 KEKEEARDWLKDSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEELESRIERHKFHIEKLELLLRLLDNDELDPE 197 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCHH
Confidence 4455556667778888888888888887766532 11 1122333333333333333 333333333333 5899
Q ss_pred HHHHHHHHHHHHHHH
Q psy2296 154 TLKLIENTAQRAKEA 168 (208)
Q Consensus 154 ~i~~~~~~~~~~k~a 168 (208)
.|..++..+.-+.+.
T Consensus 198 ~V~~ikedieyYve~ 212 (233)
T PF04065_consen 198 QVEDIKEDIEYYVES 212 (233)
T ss_pred HHHHHHHHHHHHHHc
Confidence 999988888877765
No 79
>PF15450 DUF4631: Domain of unknown function (DUF4631)
Probab=76.83 E-value=77 Score=31.00 Aligned_cols=93 Identities=13% Similarity=0.262 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc---cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH-HHHHHHHHHHHHHHHH
Q psy2296 94 AEIEDVTKELAQNNEALEKSMV---GRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPD-TLKLIENTAQRAKEAA 169 (208)
Q Consensus 94 ~~i~~~~~~i~~l~~~ie~~~~---~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~-~i~~~~~~~~~~k~aa 169 (208)
+.++.+-..|.++...+.-.+. .|-+++.+ +...++..++.+++.+-..+.-+.+-+|. .|..++..+. ..++
T Consensus 419 eKVd~LpqqI~~vs~Kc~~~Ksd~d~kIdtE~k-~R~~eV~~vRqELa~lLssvQ~~~e~~~~rkiaeiqg~l~--~~qi 495 (531)
T PF15450_consen 419 EKVDSLPQQIEEVSDKCDLHKSDSDTKIDTEGK-AREREVGAVRQELATLLSSVQLLKEDNPGRKIAEIQGKLA--TNQI 495 (531)
T ss_pred HHHHhhhHHHHHHHHHHHHHHhhhhhhccHHHH-HHHHHHHHHHHHHHHHHHHHHHhcCCChhhhHHHHHHHHH--HHHH
Confidence 3344444444444444433333 34455444 34456889999999999999999998998 7888877665 4444
Q ss_pred hhhhhhHHHHHHHHHhhcCC
Q psy2296 170 NRWTDNLFSLKSWCKNKFGL 189 (208)
Q Consensus 170 nrwTDNI~~l~~~~~~k~~~ 189 (208)
-....+|-.-+.-.-.||+-
T Consensus 496 ~kle~siq~nKtiqn~kfnt 515 (531)
T PF15450_consen 496 MKLENSIQTNKTIQNLKFNT 515 (531)
T ss_pred HHHHHHHHHHHHHHhcccch
Confidence 33334443334444556654
No 80
>PF09744 Jnk-SapK_ap_N: JNK_SAPK-associated protein-1; InterPro: IPR019143 This entry represents the N-terminal 200 residues of a set of proteins conserved from yeasts to humans. Most of the proteins in this entry have a RhoGEF domain (IPR000219 from INTERPRO) at their C-terminal end.
Probab=76.59 E-value=41 Score=27.66 Aligned_cols=64 Identities=17% Similarity=0.239 Sum_probs=41.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH-HHHHHHhhhhhhHHHHHHHHHh
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQ-RAKEAANRWTDNLFSLKSWCKN 185 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~-~~k~aanrwTDNI~~l~~~~~~ 185 (208)
.++..+...+..|+.+...|...+..+.+-. ..++.-..++. .....-.|.|+=+-.++.++-+
T Consensus 89 ~e~k~L~~~v~~Le~e~r~L~~~~~~~~~q~-~rlee~e~~l~~e~~~l~er~~e~l~~~~e~ver 153 (158)
T PF09744_consen 89 QERKDLQSQVEQLEEENRQLELKLKNLSDQS-SRLEEREAELKKEYNRLHERERELLRKLKEHVER 153 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhc-cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3677888889999999999988887776632 22332222222 3444556777777777777644
No 81
>PRK04778 septation ring formation regulator EzrA; Provisional
Probab=76.57 E-value=73 Score=31.04 Aligned_cols=75 Identities=19% Similarity=0.345 Sum_probs=49.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH-HH---HHHHHHHHHHHhhhhh---hHHHHHHHHHhhcCCCHHHHhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLK-LI---ENTAQRAKEAANRWTD---NLFSLKSWCKNKFGLEETALNK 196 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~-~~---~~~~~~~k~aanrwTD---NI~~l~~~~~~k~~~~~~~i~~ 196 (208)
...+..+..++.++..+..+|.. ...|+..|+ .. ......+.+..+-..+ .+.-+++| .++|--.-..|+.
T Consensus 444 ~~y~~~~~~~~~~i~~l~~~L~~-g~VNm~ai~~e~~e~~~~~~~L~~q~~dL~~~a~~lE~~Iqy-~nRfr~~~~~V~~ 521 (569)
T PRK04778 444 EDYLEMFFEVSDEIEALAEELEE-KPINMEAVNRLLEEATEDVETLEEETEELVENATLTEQLIQY-ANRYRSDNEEVAE 521 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhccCCCCHHHHH
Confidence 55667788889999999999988 777777777 22 2233333334333333 34445677 7888777788888
Q ss_pred hcCC
Q psy2296 197 HFSI 200 (208)
Q Consensus 197 ~f~I 200 (208)
.|.-
T Consensus 522 ~f~~ 525 (569)
T PRK04778 522 ALNE 525 (569)
T ss_pred HHHH
Confidence 6653
No 82
>cd07625 BAR_Vps17p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps17p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp17p forms a dimer with Vps5p, the yeast counterpart of human SNX1, and is part of the retromer complex that mediates the transport of the carboxypeptidase Y receptor Vps10p from endosomes to Golgi. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=76.53 E-value=51 Score=28.71 Aligned_cols=98 Identities=14% Similarity=0.120 Sum_probs=66.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc--
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQN---------NEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN-- 149 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l---------~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-- 149 (208)
.......++.+....+.++....+.. ..-+.....-++...+|..++.++.+.+......+....+++.
T Consensus 73 ~L~~a~~kLg~v~~~v~dl~~~QA~~d~~tl~d~L~~~~~~~~~vKealtnR~~~~re~~qAq~~~~~K~~~~~rlk~s~ 152 (230)
T cd07625 73 GLGNLYEKFGKVLTAVGDIDSIQATVDMATLYDGLEWISRDAYVVKEALTNRHLLMRELIQAQQNTKSKQEAARRLKAKR 152 (230)
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 44455556666666666655544432 2222223333456679999999999999999999999999974
Q ss_pred -CCHHHHHHHHHHHHHH-------HHHHhhhhhhHHH
Q psy2296 150 -NDPDTLKLIENTAQRA-------KEAANRWTDNLFS 178 (208)
Q Consensus 150 -~Dp~~i~~~~~~~~~~-------k~aanrwTDNI~~ 178 (208)
.+|+.+++...++..+ .....|.|.|+-.
T Consensus 153 ~i~~~KvdeA~~~l~eA~~~e~~l~~k~~rIs~nm~~ 189 (230)
T cd07625 153 DINPLKVDEAIRQLEEATKHEHDLSLKLKRITGNMLI 189 (230)
T ss_pred CCChHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4598888887777753 4456666777644
No 83
>COG2345 Predicted transcriptional regulator [Transcription]
Probab=76.35 E-value=23 Score=30.78 Aligned_cols=49 Identities=24% Similarity=0.407 Sum_probs=37.0
Q ss_pred cCCccchHHHHHHHhhhcCccccc----ccccceeEeeccchhhHHHHHHHHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE----KIGTSTYFWSFPNKASDRVDCKLEK 91 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E----KiGtsN~YWsFps~~~~~~~~~~~~ 91 (208)
=||++|.|+.-|+.|+.+|+|.+. ..|=-.+.|...-....+.-.++..
T Consensus 35 Lgis~~avR~HL~~Le~~Glv~~~~~~~g~GRP~~~y~Lt~~g~~~f~~~y~~ 87 (218)
T COG2345 35 LGISPMAVRRHLDDLEAEGLVEVERQQGGRGRPAKLYRLTEKGREQFPKRYGE 87 (218)
T ss_pred hCCCHHHHHHHHHHHHhCcceeeeeccCCCCCCceeeeecccchhhcchhhHH
Confidence 499999999999999999999988 2355577887766655544444443
No 84
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=76.19 E-value=1.5 Score=38.83 Aligned_cols=71 Identities=27% Similarity=0.395 Sum_probs=48.3
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHH
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKI 92 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l 92 (208)
+-.||..+...+---..| || .++=||++|.|-+.+..||+||+|..+.=| ++-..-+....+...+..+
T Consensus 12 ~fqIL~ei~~~qp~v~q~---eI----A~~lgiT~QaVsehiK~Lv~eG~i~~~gR~----~Y~iTkkG~e~l~~~~~dl 80 (260)
T COG1497 12 RFQILSEIAVRQPRVKQK---EI----AKKLGITLQAVSEHIKELVKEGLIEKEGRG----EYEITKKGAEWLLEQLSDL 80 (260)
T ss_pred HHHHHHHHHHhCCCCCHH---HH----HHHcCCCHHHHHHHHHHHHhccceeecCCe----eEEEehhHHHHHHHHHHHH
Confidence 345666666655555667 65 333699999999999999999999996443 4555555555555555554
Q ss_pred HH
Q psy2296 93 TA 94 (208)
Q Consensus 93 ~~ 94 (208)
..
T Consensus 81 r~ 82 (260)
T COG1497 81 RR 82 (260)
T ss_pred HH
Confidence 44
No 85
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=76.17 E-value=39 Score=34.28 Aligned_cols=50 Identities=14% Similarity=0.220 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTD 174 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTD 174 (208)
..+|+.+.+|..++-.|++++..|+.+ -..++-++.++..+.+.+..|.-
T Consensus 93 ~rll~dyselEeENislQKqvs~Lk~s-QvefE~~Khei~rl~Ee~~~l~~ 142 (717)
T PF09730_consen 93 ARLLQDYSELEEENISLQKQVSVLKQS-QVEFEGLKHEIKRLEEEIELLNS 142 (717)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHHH
Confidence 567899999999999999999999975 45677777777776666555543
No 86
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=76.03 E-value=26 Score=25.10 Aligned_cols=20 Identities=30% Similarity=0.521 Sum_probs=8.2
Q ss_pred HHHHHHHHHhhhhhhHHHHH
Q psy2296 161 TAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 161 ~~~~~k~aanrwTDNI~~l~ 180 (208)
+...++..-+-|.+=|.+|.
T Consensus 47 en~~L~~e~~~~~~rl~~LL 66 (72)
T PF06005_consen 47 ENEQLKQERNAWQERLRSLL 66 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444443
No 87
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=75.98 E-value=21 Score=34.70 Aligned_cols=98 Identities=17% Similarity=0.228 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc----CCCC-------hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVG----RGDS-------KNREDFLQEVGNISKELELINKELEKYKNNDPDTL 155 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~----r~~~-------~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i 155 (208)
+.+.+|+.+|+..+.+|+.|++.++.++.. +-.+ .||.+|-.+|+.+.-+...|.+.+..-.---.+.+
T Consensus 330 g~l~kl~~eie~kEeei~~L~~~~d~L~~q~~kq~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~k~V~~~~leaq~~~ 409 (622)
T COG5185 330 GKLEKLKSEIELKEEEIKALQSNIDELHKQLRKQGISTEQFELMNQEREKLTRELDKINIQSDKLTKSVKSRKLEAQGIF 409 (622)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHhHHHHHHHHH
Confidence 446667777777777777777776666541 2122 25666666666666666666665533221112233
Q ss_pred HHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcC
Q psy2296 156 KLIENTAQRAKEAANRWTDNLFSLKSWCKNKFG 188 (208)
Q Consensus 156 ~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~ 188 (208)
+ .+.......+...+||....+-+...-+
T Consensus 410 ~----slek~~~~~~sl~~~i~~~~~~i~~~~n 438 (622)
T COG5185 410 K----SLEKTLRQYDSLIQNITRSRSQIGHNVN 438 (622)
T ss_pred H----HHHHHHHHHHHHHHHhcccHHHHhhcCC
Confidence 3 3333444455556777766555544433
No 88
>PRK10411 DNA-binding transcriptional activator FucR; Provisional
Probab=75.98 E-value=16 Score=31.65 Aligned_cols=60 Identities=10% Similarity=0.201 Sum_probs=48.9
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN 79 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps 79 (208)
++.+.+|++++.+. .+.+.+ ||-+.. ||+.+||.--|..|...|+|.. .....+|+.++.
T Consensus 3 ~~R~~~Il~~l~~~-~~~~~~---eLa~~l----~VS~~TiRRdL~~L~~~~~l~r--~~Gga~~~~~~~ 62 (240)
T PRK10411 3 AARQQAIVDLLLNH-TSLTTE---ALAEQL----NVSKETIRRDLNELQTQGKILR--NHGRAKYIHRQN 62 (240)
T ss_pred hHHHHHHHHHHHHc-CCCcHH---HHHHHH----CcCHHHHHHHHHHHHHCCCEEE--ecCeEEEecCCC
Confidence 46788999999964 589999 998877 8999999999999999999864 455566776553
No 89
>PF14282 FlxA: FlxA-like protein
Probab=75.56 E-value=27 Score=26.57 Aligned_cols=55 Identities=11% Similarity=0.193 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCCh-----hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 93 TAEIEDVTKELAQNNEALEKSMVGRGDSK-----NREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 93 ~~~i~~~~~~i~~l~~~ie~~~~~r~~~~-----eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
...|+.|+..|..|++.|.......+-+. .+..+-.++..|+.++..++.+...-
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~~~~~~~e~k~~q~q~Lq~QI~~LqaQI~qlq~q~~~~ 77 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQDSDLDAEQKQQQIQLLQAQIQQLQAQIAQLQSQQAEQ 77 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45666777777777777776666443222 23444455556666666555555443
No 90
>PF04111 APG6: Autophagy protein Apg6; InterPro: IPR007243 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. Apg6/Vps30p has two distinct functions in the autophagic process, either associated with the membrane or in a retrieval step of the carboxypeptidase Y sorting pathway [].; GO: 0006914 autophagy; PDB: 3Q8T_A 3VP7_A 4DDP_A.
Probab=75.50 E-value=14 Score=33.44 Aligned_cols=56 Identities=29% Similarity=0.452 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
...+..+.+++..++.+..++..++..+.. ++..+.+++..|+.+.+.+..+-..|
T Consensus 42 ~~~~~~~~~el~~le~Ee~~l~~eL~~LE~------e~~~l~~el~~le~e~~~l~~eE~~~ 97 (314)
T PF04111_consen 42 EEDIEELEEELEKLEQEEEELLQELEELEK------EREELDQELEELEEELEELDEEEEEY 97 (314)
T ss_dssp HH--HHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444566666666666666666666666533 55666666666666666665554443
No 91
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=75.34 E-value=72 Score=30.86 Aligned_cols=52 Identities=25% Similarity=0.320 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHH--------------HHHHHHHHHHHHHHHhhhhhhHHHHH
Q psy2296 129 EVGNISKELELINKELEKYKNNDPDT--------------LKLIENTAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~~~Dp~~--------------i~~~~~~~~~~k~aanrwTDNI~~l~ 180 (208)
.|......+..|+.+|..+....... +...+.++..++..++.-++-++.|.
T Consensus 243 kL~~a~~~l~~Lq~El~~~~~~~l~~~~~~~~~~~~~~~~l~s~~~ELe~ak~~L~~~k~E~~~L~ 308 (522)
T PF05701_consen 243 KLAEASAELESLQAELEAAKESKLEEEAEAKEKSSELQSSLASAKKELEEAKKELEKAKEEASSLR 308 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555566666666665533333 55555555555555555555444443
No 92
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=75.27 E-value=27 Score=24.99 Aligned_cols=55 Identities=15% Similarity=0.197 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKEL 144 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el 144 (208)
.+..++..+-..|+.++.++.+|++.-.... .++..+-.+...|+.+....+.-|
T Consensus 8 ~LE~ki~~aveti~~Lq~e~eeLke~n~~L~------~e~~~L~~en~~L~~e~~~~~~rl 62 (72)
T PF06005_consen 8 QLEEKIQQAVETIALLQMENEELKEKNNELK------EENEELKEENEQLKQERNAWQERL 62 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHH------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444555555555555555554444333 344555555555554444444433
No 93
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=75.26 E-value=4.4 Score=35.20 Aligned_cols=60 Identities=18% Similarity=0.285 Sum_probs=51.4
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 1 MSKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 1 MskkkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
|.-.+|+..=++--.||+.|.+...-.++. ||-+.. |+...||=-+|+.|+..|+|..+.
T Consensus 1 ~~~~~~v~sl~ral~iL~~l~~~~~~ls~~---eia~~l----gl~kstv~RlL~tL~~~g~v~~~~ 60 (263)
T PRK09834 1 MTEYKTVRGLSRGLMVLRALNRLDGGATVG---LLAELT----GLHRTTVRRLLETLQEEGYVRRSA 60 (263)
T ss_pred CCcchhHHHHHHHHHHHHHHHhcCCCCCHH---HHHHHH----CcCHHHHHHHHHHHHHCCCEEEec
Confidence 444567777789999999998877779999 887664 999999999999999999998764
No 94
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=75.22 E-value=44 Score=27.30 Aligned_cols=66 Identities=11% Similarity=0.248 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRG-DSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~-~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
...+..+..+.+++.+++..+.++...+...+.... ..+.++..-.++..+....+.+.+++..+.
T Consensus 84 ~~~~~~l~~l~~el~~l~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~e~~~l~ 150 (191)
T PF04156_consen 84 SELQQQLQQLQEELDQLQERIQELESELEKLKEDLQELRELLKSVEERLDSLDESIKELEKEIRELQ 150 (191)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666677777777777777777777777665442 235566777777788888888887777776
No 95
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=74.63 E-value=8.8 Score=27.61 Aligned_cols=38 Identities=26% Similarity=0.322 Sum_probs=30.6
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRV 85 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~ 85 (208)
.||++.+|-..|+.|+..|+|.....+ +.+++......
T Consensus 9 l~is~stvs~~l~~L~~~glI~r~~~~-----~~~lT~~g~~~ 46 (96)
T smart00529 9 LNVSPPTVTQMLKKLEKDGLVEYEPYR-----GITLTEKGRRL 46 (96)
T ss_pred hCCChHHHHHHHHHHHHCCCEEEcCCC-----ceEechhHHHH
Confidence 699999999999999999999998753 35566555443
No 96
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=74.47 E-value=11 Score=26.21 Aligned_cols=29 Identities=38% Similarity=0.659 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHHHHH
Q psy2296 128 QEVGNISKELELINKELEKYKNNDPDTLKL 157 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~ 157 (208)
.++.+++.+...|+.+++.++. ||+.|++
T Consensus 31 ~~i~~l~~e~~~L~~ei~~l~~-~~~~ie~ 59 (80)
T PF04977_consen 31 KEIEELKKENEELKEEIERLKN-DPDYIEK 59 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC-CHHHHHH
Confidence 3344444444444444544422 4555543
No 97
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=74.24 E-value=3.7 Score=28.69 Aligned_cols=50 Identities=20% Similarity=0.383 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhhh----ccchhhhcchHHHHhhcccccCCc-cchHHHHHHHhhhcCccccc
Q psy2296 10 EEKRTGLLELFHE----KEEFFQLKLIIELEKLAPKEKGII-SQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 10 eEKr~~il~~f~~----~~~~f~lK~~~ElEK~~pK~~GI~-~~~VKdvlq~LVDDglV~~E 66 (208)
-++...||+|+.+ +.-.=|+. ||-.. -|+. +.+|-..|+.|.+.|+|..+
T Consensus 5 T~rQ~~vL~~I~~~~~~~G~~Pt~r---EIa~~----~g~~S~~tv~~~L~~Le~kG~I~r~ 59 (65)
T PF01726_consen 5 TERQKEVLEFIREYIEENGYPPTVR---EIAEA----LGLKSTSTVQRHLKALERKGYIRRD 59 (65)
T ss_dssp -HHHHHHHHHHHHHHHHHSS---HH---HHHHH----HTSSSHHHHHHHHHHHHHTTSEEEG
T ss_pred CHHHHHHHHHHHHHHHHcCCCCCHH---HHHHH----hCCCChHHHHHHHHHHHHCcCccCC
Confidence 3577888888776 33344666 66432 5886 99999999999999999865
No 98
>KOG1724|consensus
Probab=74.17 E-value=6.3 Score=32.62 Aligned_cols=57 Identities=19% Similarity=0.124 Sum_probs=45.7
Q ss_pred HhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh-----cCCCHHHHhhhcCCCCCCc
Q psy2296 147 YKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK-----FGLEETALNKHFSIPEEMD 205 (208)
Q Consensus 147 ~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k-----~~~~~~~i~~~f~Ip~d~d 205 (208)
+..||-+=+.--...+..+..|||- .||-.|..++|+. .|.++++++..||||.||-
T Consensus 85 i~~WD~~Flk~d~~tLfdli~AAny--Ldi~gLl~~~ck~va~mikgktpeEir~~f~I~~d~t 146 (162)
T KOG1724|consen 85 IPEWDAEFLKVDQGTLFDLILAANY--LDIKGLLDLTCKTVANMIKGKTPEEIREIFNIENDET 146 (162)
T ss_pred ccHHHHHHHhcCHHHHHHHHHHhhh--cccHHHHHHHHHHHHHHHccCCHHHHHHHcCCCCCCC
Confidence 7778877777334466778888885 4899999999887 4778999999999999874
No 99
>KOG0933|consensus
Probab=73.94 E-value=57 Score=34.50 Aligned_cols=101 Identities=16% Similarity=0.161 Sum_probs=76.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR-GDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIEN 160 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r-~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~ 160 (208)
....+..+..+..++.....++..++..|......- ..+.++.....++..++.+++.++++|..|. +++...+.+++
T Consensus 401 l~~aK~~~~~~~t~~k~a~~k~e~~~~elk~~e~e~~t~~~~~~~~~~~ld~~q~eve~l~~~l~~l~-~~~~~~e~l~q 479 (1174)
T KOG0933|consen 401 LRDAKITLSEASTEIKQAKLKLEHLRKELKLREGELATASAEYVKDIEELDALQNEVEKLKKRLQSLG-YKIGQEEALKQ 479 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCcchHHHHHH
Confidence 344455556666666666666666666665443322 3466788889999999999999999999886 57889999999
Q ss_pred HHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 161 TAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 161 ~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
....+....-+.-|+...|..-+
T Consensus 480 ~~~~l~~~~~~lk~~~~~l~a~~ 502 (1174)
T KOG0933|consen 480 RRAKLHEDIGRLKDELDRLLARL 502 (1174)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhh
Confidence 99999999999999988877633
No 100
>PF13601 HTH_34: Winged helix DNA-binding domain; PDB: 1UB9_A.
Probab=73.60 E-value=15 Score=26.45 Aligned_cols=69 Identities=23% Similarity=0.383 Sum_probs=45.1
Q ss_pred HHHHHHhhh--ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccc---eeEeeccchhhHHHHHH
Q psy2296 14 TGLLELFHE--KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTS---TYFWSFPNKASDRVDCK 88 (208)
Q Consensus 14 ~~il~~f~~--~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGts---N~YWsFps~~~~~~~~~ 88 (208)
-.||.++.. .-+|=.|+ +..|++..++--.|+.|.+.|+|.++|.... .-||+.-.........-
T Consensus 3 l~Il~~L~~~~~~~f~~L~----------~~l~lt~g~Ls~hL~~Le~~GyV~~~k~~~~~~p~t~~~lT~~Gr~~~~~~ 72 (80)
T PF13601_consen 3 LAILALLYANEEATFSELK----------EELGLTDGNLSKHLKKLEEAGYVEVEKEFEGRRPRTWYSLTDKGREAFERY 72 (80)
T ss_dssp HHHHHHHHHHSEEEHHHHH----------HHTT--HHHHHHHHHHHHHTTSEEEEEE-SSS--EEEEEE-HHHHHHHHHH
T ss_pred HHHHHHHhhcCCCCHHHHH----------HHhCcCHHHHHHHHHHHHHCCCEEEEEeccCCCCeEEEEECHHHHHHHHHH
Confidence 355666555 44555555 2369999999999999999999999987654 35777777766554444
Q ss_pred HHHH
Q psy2296 89 LEKI 92 (208)
Q Consensus 89 ~~~l 92 (208)
++.|
T Consensus 73 ~~~L 76 (80)
T PF13601_consen 73 VAAL 76 (80)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 4443
No 101
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=73.42 E-value=29 Score=25.53 Aligned_cols=27 Identities=15% Similarity=0.254 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
+++|.++|...-..|.-|+.+|++++.
T Consensus 6 leqLE~KIqqAvdtI~LLqmEieELKe 32 (79)
T PRK15422 6 FEKLEAKVQQAIDTITLLQMEIEELKE 32 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555554443
No 102
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=73.23 E-value=25 Score=30.81 Aligned_cols=39 Identities=28% Similarity=0.458 Sum_probs=36.6
Q ss_pred ccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 42 EKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 42 ~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
..||+-.-|=|||.+|.+-|+|..- -|.-..|=+.|-..
T Consensus 39 ~sgvP~~kvY~vl~sLe~kG~v~~~-~g~P~~y~av~p~~ 77 (247)
T COG1378 39 ASGVPRPKVYDVLRSLEKKGLVEVI-EGRPKKYRAVPPEE 77 (247)
T ss_pred HcCCCchhHHHHHHHHHHCCCEEee-CCCCceEEeCCHHH
Confidence 3699999999999999999999998 89999999999887
No 103
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=73.23 E-value=44 Score=26.47 Aligned_cols=17 Identities=24% Similarity=0.319 Sum_probs=9.5
Q ss_pred HHHHHHHhhhcCccccc
Q psy2296 50 VKEILQSLVDDGLVESE 66 (208)
Q Consensus 50 VKdvlq~LVDDglV~~E 66 (208)
+.-|.+.|+.=|+....
T Consensus 4 ~~yiN~~L~s~G~~~~~ 20 (151)
T PF11559_consen 4 IEYINQQLLSRGYPSDG 20 (151)
T ss_pred HHHHHHHHHHCCCCCCC
Confidence 34455666666665543
No 104
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=73.15 E-value=90 Score=33.58 Aligned_cols=98 Identities=15% Similarity=0.242 Sum_probs=62.0
Q ss_pred EeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--
Q psy2296 74 FWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNND-- 151 (208)
Q Consensus 74 YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D-- 151 (208)
|| |.. ...+..+..+..++..++.+...++..+..+. ..+..+..++..++.++......+. ..|+
T Consensus 568 ~~--~~~--~~l~~~~~~~~~el~~~~~~~~~~~~el~~~e------~~l~~~~~~l~~~~~eL~~~~~~i~--~~~~~~ 635 (1311)
T TIGR00606 568 YF--PNK--KQLEDWLHSKSKEINQTRDRLAKLNKELASLE------QNKNHINNELESKEEQLSSYEDKLF--DVCGSQ 635 (1311)
T ss_pred CC--CCc--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHh--cCCCch
Confidence 56 655 56677777777777777777777776665542 3566677777777777777777776 3344
Q ss_pred --HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 152 --PDTLKLIENTAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 152 --p~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
|+.+...+.++..+....+..+-.......|+
T Consensus 636 ~~~~~L~~~~~~l~~~~~~~~~~~~~~~~~~k~i 669 (1311)
T TIGR00606 636 DEESDLERLKEEIEKSSKQRAMLAGATAVYSQFI 669 (1311)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566666666666655544444444444443
No 105
>PF10153 DUF2361: Uncharacterised conserved protein (DUF2361); InterPro: IPR019310 This entry represents the rRNA-processing protein EFG1 family. EFG1 is involved in rRNA processing.
Probab=72.96 E-value=43 Score=26.17 Aligned_cols=79 Identities=19% Similarity=0.294 Sum_probs=49.1
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q psy2296 77 FPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR---GDSKNREDFLQEVGNISKELELINKELEKYKNNDPD 153 (208)
Q Consensus 77 Fps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~ 153 (208)
.|.......++.++.|+.+++..+....+ .....| .-+.||..+...+..+..++.... |+.
T Consensus 18 Lp~~vR~~~Er~L~~L~~~l~~~~~~~~~------kk~~~kYh~VRFfERkKa~R~lkql~k~l~~~~---------~~~ 82 (114)
T PF10153_consen 18 LPADVRVEKERELEALKRELEEAERKEKE------KKMAKKYHMVRFFERKKATRKLKQLEKKLEEAE---------DKK 82 (114)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---------ccc
Confidence 46666666666677776666654332222 111222 246788888888877777766655 677
Q ss_pred HHHHHHHHHHHHHHHHh
Q psy2296 154 TLKLIENTAQRAKEAAN 170 (208)
Q Consensus 154 ~i~~~~~~~~~~k~aan 170 (208)
..+.+..++..+...+|
T Consensus 83 ~~~~l~~~l~~~~~DL~ 99 (114)
T PF10153_consen 83 EIKELEKELHKLEVDLN 99 (114)
T ss_pred cHHHHHHHHHHHHHHHH
Confidence 77888788777776644
No 106
>KOG0250|consensus
Probab=72.52 E-value=54 Score=34.68 Aligned_cols=95 Identities=13% Similarity=0.236 Sum_probs=47.8
Q ss_pred cchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHhcc--C
Q psy2296 47 SQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQ-------NNEALEKSMVG--R 117 (208)
Q Consensus 47 ~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~-------l~~~ie~~~~~--r 117 (208)
.-+|+..++.++|++=+.-+.|-+. -+....+.+..+.++.++......+.+ +...|..+.+. .
T Consensus 318 ~teiea~i~~~~~e~~~~d~Ei~~~-------r~~~~~~~re~~~~~~~~~~~~n~i~~~k~~~d~l~k~I~~~~~~~~~ 390 (1074)
T KOG0250|consen 318 LTEIEAKIGELKDEVDAQDEEIEEA-------RKDLDDLRREVNDLKEEIREIENSIRKLKKEVDRLEKQIADLEKQTNN 390 (1074)
T ss_pred hhHHHHHHHHHHHhhhhhhHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678889999999888877777442 123333344334444433333333333 33333333221 1
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 118 GDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 118 ~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.-..++.+.-++++.|+.+++.++.++..+.
T Consensus 391 ~~~~~~~e~e~k~~~L~~evek~e~~~~~L~ 421 (1074)
T KOG0250|consen 391 ELGSELEERENKLEQLKKEVEKLEEQINSLR 421 (1074)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2233445555555555555555555444443
No 107
>KOG4196|consensus
Probab=72.37 E-value=49 Score=26.62 Aligned_cols=80 Identities=19% Similarity=0.295 Sum_probs=38.7
Q ss_pred CccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHH
Q psy2296 45 IISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNRE 124 (208)
Q Consensus 45 I~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~ 124 (208)
.++|||.|+.+.|-- ++-+....++++-..|+..--....++..++.+-+-+ .++.
T Consensus 29 LvsmSVReLNr~LrG-----------------~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE-------~~k~ 84 (135)
T KOG4196|consen 29 LVSMSVRELNRHLRG-----------------LSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELE-------KEKA 84 (135)
T ss_pred HHHhhHHHHHHHhcC-----------------CCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHH-------HHHH
Confidence 467788888876631 2333444444444444444333333333333222211 2344
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 125 DFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.+.++++.|..++..+.-|+..|.
T Consensus 85 ~L~qqv~~L~~e~s~~~~E~da~k 108 (135)
T KOG4196|consen 85 ELQQQVEKLKEENSRLRRELDAYK 108 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555555555555555555555544
No 108
>PRK09039 hypothetical protein; Validated
Probab=72.33 E-value=79 Score=28.95 Aligned_cols=65 Identities=14% Similarity=0.262 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHH----HHHhhhhhhHHHHH-HHHHhhcCC
Q psy2296 125 DFLQEVGNISKELELINKELEKYKNND---PDTLKLIENTAQRAK----EAANRWTDNLFSLK-SWCKNKFGL 189 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~~~D---p~~i~~~~~~~~~~k----~aanrwTDNI~~l~-~~~~~k~~~ 189 (208)
.+-+++..|+.++..++.+|...+.-+ -..|+.+...+..+. ..+.+|-+++|-=. ..+...-|+
T Consensus 141 ~L~~qI~aLr~Qla~le~~L~~ae~~~~~~~~~i~~L~~~L~~a~~~~~~~l~~~~~~~~~~l~~~~~~~~~i 213 (343)
T PRK09039 141 LLNQQIAALRRQLAALEAALDASEKRDRESQAKIADLGRRLNVALAQRVQELNRYRSEFFGRLREILGDREGI 213 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhCCCCCc
Confidence 333556666666666666666665533 345555666666553 34677777776433 344444333
No 109
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=72.06 E-value=33 Score=32.26 Aligned_cols=68 Identities=16% Similarity=0.242 Sum_probs=46.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+....+.....++..+++.++.+...+..+|...+...+ +++++++++..+|+++++.+.+++..+.+
T Consensus 30 d~i~~ld~~~r~~~~~~~~l~~erN~~sk~i~~~~~~~~--~~~~~l~~~~~~l~~~~~~~~~~~~~~~~ 97 (418)
T TIGR00414 30 EKLIALDDERKKLLSEIEELQAKRNELSKQIGKAKGQKK--DKIEEIKKELKELKEELTELSAALKALEA 97 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCc--chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445556666677777788888777777777766443321 12778888888888888888887766653
No 110
>PHA02562 46 endonuclease subunit; Provisional
Probab=72.01 E-value=50 Score=31.39 Aligned_cols=54 Identities=19% Similarity=0.342 Sum_probs=28.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcC--C-HHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNN--D-PDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~--D-p~~i~~~~~~~~~~k~aanrwTDN 175 (208)
+...+..+...++.++..++.++..+..- + ++.+..+..+...+...+......
T Consensus 221 e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l~~~~~~ 277 (562)
T PHA02562 221 KYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKV 277 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555555666666666666665431 1 344555555555555555554443
No 111
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=71.97 E-value=44 Score=25.87 Aligned_cols=69 Identities=17% Similarity=0.101 Sum_probs=44.5
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc-ceeEeeccchhh
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT-STYFWSFPNKAS 82 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt-sN~YWsFps~~~ 82 (208)
-|+|+. .-.+|..++.....-+.. ||-+. .|+.+.+|--+|..|+..|+|....... .-.+.-......
T Consensus 27 ~glt~~--q~~vL~~l~~~~~~~t~~---eLa~~----l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G 96 (144)
T PRK03573 27 LELTQT--HWVTLHNIHQLPPEQSQI---QLAKA----IGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKA 96 (144)
T ss_pred cCCCHH--HHHHHHHHHHcCCCCCHH---HHHHH----hCCChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHH
Confidence 455555 334566665544334556 55433 6999999999999999999999887632 333344444444
No 112
>PRK03918 chromosome segregation protein; Provisional
Probab=71.88 E-value=83 Score=31.72 Aligned_cols=22 Identities=14% Similarity=0.277 Sum_probs=9.1
Q ss_pred HHHHHHHhhhhhhHHHHHHHHHh
Q psy2296 163 QRAKEAANRWTDNLFSLKSWCKN 185 (208)
Q Consensus 163 ~~~k~aanrwTDNI~~l~~~~~~ 185 (208)
..+...+..+..-+..+.. +.+
T Consensus 707 ~~~~~~~~~l~~~~~~l~~-lr~ 728 (880)
T PRK03918 707 EKAKKELEKLEKALERVEE-LRE 728 (880)
T ss_pred HHHHHHHHHHHHHHHHHHH-HHH
Confidence 3334444454443333333 444
No 113
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=71.67 E-value=2.9 Score=28.64 Aligned_cols=27 Identities=37% Similarity=0.576 Sum_probs=23.5
Q ss_pred cCCccchHHHHHHHhhhcCcccccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
-||++-||-+.++.|.++|+|..++=|
T Consensus 32 L~vs~~tvt~ml~~L~~~GlV~~~~y~ 58 (60)
T PF01325_consen 32 LGVSPPTVTEMLKRLAEKGLVEYEPYK 58 (60)
T ss_dssp HTS-HHHHHHHHHHHHHTTSEEEETTT
T ss_pred HCCChHHHHHHHHHHHHCCCEEecCCC
Confidence 599999999999999999999988643
No 114
>cd00890 Prefoldin Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=71.58 E-value=26 Score=26.56 Aligned_cols=47 Identities=21% Similarity=0.354 Sum_probs=33.1
Q ss_pred ccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 67 KIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 67 KiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
.||++.|...=..++...+.++++.+++.++.++..+..+...+...
T Consensus 74 ~iG~~~~ve~~~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~l 120 (129)
T cd00890 74 DLGTGVYVEKSLEEAIEFLKKRLETLEKQIEKLEKQLEKLQDQITEL 120 (129)
T ss_pred EecCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777666666666777777777777777777777777777666554
No 115
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=71.49 E-value=50 Score=29.04 Aligned_cols=38 Identities=13% Similarity=0.320 Sum_probs=26.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR 117 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r 117 (208)
.+...+++.+..++.++.+++.++..++..+...+..|
T Consensus 52 ~e~e~le~qv~~~e~ei~~~r~r~~~~e~kl~~v~~~~ 89 (239)
T COG1579 52 IELEDLENQVSQLESEIQEIRERIKRAEEKLSAVKDER 89 (239)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccHH
Confidence 35556677777778888888888877777765555443
No 116
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=71.45 E-value=47 Score=30.80 Aligned_cols=49 Identities=24% Similarity=0.363 Sum_probs=26.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKN--NDPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~--~Dp~~i~~~~~~~~~~k~aa 169 (208)
..=+.+..+|.++..++++.+.+++.=.. .|..-+-+.++.+..++..+
T Consensus 294 ~~V~~~t~~L~~IseeLe~vK~emeerg~~mtD~sPlv~IKqAl~kLk~EI 344 (359)
T PF10498_consen 294 EGVSERTRELAEISEELEQVKQEMEERGSSMTDGSPLVKIKQALTKLKQEI 344 (359)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHHHH
Confidence 33445555566666666666666665433 34333444555555554443
No 117
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=71.36 E-value=44 Score=31.44 Aligned_cols=33 Identities=27% Similarity=0.410 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
..+..+++.|.+++..++.++..++..+.....
T Consensus 330 ~~l~~~~~~l~~~~~~~~~~l~~l~~~l~~l~~ 362 (451)
T PF03961_consen 330 PELKEKLEELEEELEELKEELEKLKKNLKKLKK 362 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 445667778888888888888888888777665
No 118
>PF15290 Syntaphilin: Golgi-localised syntaxin-1-binding clamp
Probab=71.14 E-value=60 Score=29.46 Aligned_cols=94 Identities=13% Similarity=0.174 Sum_probs=50.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHhccC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKE-------LAQNNEALEKSMVGR--GDSKNREDFLQEVGNISKELELINKELEKYKNNDPD 153 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~-------i~~l~~~ie~~~~~r--~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~ 153 (208)
+++...+..|..++.+...+ |.+|+.++..++... +++. |-+.---|++.++++++|+.-++..+.+
T Consensus 64 QQKEV~iRHLkakLkes~~~l~dRetEI~eLksQL~RMrEDWIEEECH-RVEAQLALKEARkEIkQLkQvieTmrss--- 139 (305)
T PF15290_consen 64 QQKEVCIRHLKAKLKESENRLHDRETEIDELKSQLARMREDWIEEECH-RVEAQLALKEARKEIKQLKQVIETMRSS--- 139 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHhh---
Confidence 34444455555555555444 445555554444433 2222 4333334889999999999888877753
Q ss_pred HHHHHHHHHHHHHHHHhhhhhhHHHHHH
Q psy2296 154 TLKLIENTAQRAKEAANRWTDNLFSLKS 181 (208)
Q Consensus 154 ~i~~~~~~~~~~k~aanrwTDNI~~l~~ 181 (208)
+..+-+.++.+-..+|.=+--.++|..
T Consensus 140 -L~ekDkGiQKYFvDINiQN~KLEsLLq 166 (305)
T PF15290_consen 140 -LAEKDKGIQKYFVDINIQNKKLESLLQ 166 (305)
T ss_pred -hchhhhhHHHHHhhhhhhHhHHHHHHH
Confidence 222344455555555554444444443
No 119
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=70.81 E-value=37 Score=24.57 Aligned_cols=26 Identities=15% Similarity=0.288 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
+++|.+++...-..|.-|+-.|++++
T Consensus 6 ~ekLE~KiqqAvdTI~LLQmEieELK 31 (79)
T COG3074 6 FEKLEAKVQQAIDTITLLQMEIEELK 31 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555555555555555555544
No 120
>COG1522 Lrp Transcriptional regulators [Transcription]
Probab=70.79 E-value=4.7 Score=31.55 Aligned_cols=68 Identities=21% Similarity=0.381 Sum_probs=49.9
Q ss_pred CCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccc-------cccccce-eEeec
Q psy2296 6 GLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVES-------EKIGTST-YFWSF 77 (208)
Q Consensus 6 glS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~-------EKiGtsN-~YWsF 77 (208)
...+++.-.+||++++.... -++. | +|.. -|+++.+|..-+..|.++|+|.- .++|..- .|..+
T Consensus 3 ~~~lD~~D~~IL~~L~~d~r-~~~~---e---ia~~-lglS~~~v~~Ri~~L~~~GiI~~~~~~v~~~~lg~~~~a~v~v 74 (154)
T COG1522 3 MMKLDDIDRRILRLLQEDAR-ISNA---E---LAER-VGLSPSTVLRRIKRLEEEGVIKGYTAVLDPEKLGLDLTAFVEV 74 (154)
T ss_pred cccccHHHHHHHHHHHHhCC-CCHH---H---HHHH-HCCCHHHHHHHHHHHHHCCceeeEEEEECHHHcCCCEEEEEEE
Confidence 35678899999999999776 4444 4 4444 79999999999999999997654 4455432 56666
Q ss_pred cchh
Q psy2296 78 PNKA 81 (208)
Q Consensus 78 ps~~ 81 (208)
+-..
T Consensus 75 ~~~~ 78 (154)
T COG1522 75 KLER 78 (154)
T ss_pred EecC
Confidence 5554
No 121
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=70.50 E-value=1e+02 Score=31.53 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy2296 125 DFLQEVGNISKELELINKELE 145 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~ 145 (208)
.+-.++..+..++..+..++.
T Consensus 437 ~~~~~~~~~~~~~~~l~~~~~ 457 (1179)
T TIGR02168 437 ELQAELEELEEELEELQEELE 457 (1179)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 333334444444444444433
No 122
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=70.26 E-value=3.8 Score=25.44 Aligned_cols=25 Identities=28% Similarity=0.531 Sum_probs=23.3
Q ss_pred cCCccchHHHHHHHhhhcCcccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
.|++..+|-.+++.|.+.|+|..++
T Consensus 18 l~~s~~tv~~~l~~L~~~g~l~~~~ 42 (48)
T smart00419 18 LGLTRETVSRTLKRLEKEGLISREG 42 (48)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEeC
Confidence 7999999999999999999998765
No 123
>COG1422 Predicted membrane protein [Function unknown]
Probab=70.09 E-value=28 Score=29.94 Aligned_cols=50 Identities=12% Similarity=0.170 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 94 AEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 94 ~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
++.+++++..++++++..+++..++ ...++++++-+.+....+.|+.+.+
T Consensus 72 ekm~~~qk~m~efq~e~~eA~~~~d-----~~~lkkLq~~qmem~~~Q~elmk~q 121 (201)
T COG1422 72 EKMKELQKMMKEFQKEFREAQESGD-----MKKLKKLQEKQMEMMDDQRELMKMQ 121 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCC-----HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5667777777788888877776554 4667778888888888888877654
No 124
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=70.09 E-value=27 Score=24.13 Aligned_cols=60 Identities=22% Similarity=0.390 Sum_probs=26.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSM-VGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~-~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
.+.+|+++++.++..+..++..+.... ..+.+-+=...--..+.++..++..+...|..+
T Consensus 5 E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 5 EIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344455555555555544444432211 011222223444445566666666666655543
No 125
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=69.71 E-value=1.1e+02 Score=29.62 Aligned_cols=56 Identities=25% Similarity=0.436 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q psy2296 129 EVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCK 184 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~ 184 (208)
.+++....++.+..++..|.+ .||+.++.+...+........++...+.-+..|..
T Consensus 274 ~l~~~~~~l~d~~~~l~~~~~~l~~dp~~L~ele~RL~~l~~LkrKyg~s~e~l~~~~~ 332 (563)
T TIGR00634 274 QVGNALTEVEEATRELQNYLDELEFDPERLNEIEERLAQIKRLKRKYGASVEEVLEYAE 332 (563)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 334444444555555555554 57888888888888777777777777777777754
No 126
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=69.37 E-value=16 Score=25.99 Aligned_cols=35 Identities=14% Similarity=0.267 Sum_probs=23.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLI 158 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~ 158 (208)
+...+-+++..++.+..+|+.|+..+. ||+.|+++
T Consensus 32 ~~~~~~~~~~~l~~en~~L~~ei~~l~--~~~rIe~~ 66 (85)
T TIGR02209 32 ELQKLQLEIDKLQKEWRDLQLEVAELS--RHERIEKI 66 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHc--CHHHHHHH
Confidence 445555666777777777777777766 47777753
No 127
>PF07926 TPR_MLP1_2: TPR/MLP1/MLP2-like protein; InterPro: IPR012929 This domain is found in a number of proteins, including TPR protein (P12270 from SWISSPROT) and yeast myosin-like proteins 1 (MLP1, Q02455 from SWISSPROT) and 2 (MLP2, P40457 from SWISSPROT). These proteins share a number of features; for example, they all have coiled-coil regions and all three are associated with nuclear pores [, , ]. TPR is thought to be a component of nuclear pore complex- attached intranuclear filaments [], and is implicated in nuclear protein import []. Moreover, its N-terminal region is involved in the activation of oncogenic kinases, possibly by mediating the dimerisation of kinase domains or by targeting these kinases to the nuclear pore complex []. MLP1 and MLP2 are involved in the process of telomere length regulation, where they are thought to interact with proteins such as Tel1p and modulate their activity []. ; GO: 0006606 protein import into nucleus, 0005643 nuclear pore
Probab=69.34 E-value=41 Score=26.33 Aligned_cols=24 Identities=13% Similarity=0.405 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
..+.++...++..+..++...+.+
T Consensus 62 ~~lr~e~~~~~~~~~~l~~~~~~a 85 (132)
T PF07926_consen 62 QQLREELQELQQEINELKAEAESA 85 (132)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444444444444444433
No 128
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=69.14 E-value=3.5 Score=28.00 Aligned_cols=28 Identities=36% Similarity=0.583 Sum_probs=23.2
Q ss_pred cCCccchHHHHHHHhhhcCccccc-cccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE-KIGT 70 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E-KiGt 70 (208)
-||+..+|.+.+..|.++|+|... +.|+
T Consensus 34 ~~vsr~tvr~al~~L~~~g~i~~~~~~G~ 62 (64)
T PF00392_consen 34 YGVSRTTVREALRRLEAEGLIERRPGRGT 62 (64)
T ss_dssp HTS-HHHHHHHHHHHHHTTSEEEETTTEE
T ss_pred hccCCcHHHHHHHHHHHCCcEEEECCceE
Confidence 599999999999999999999765 4443
No 129
>PF06657 Cep57_MT_bd: Centrosome microtubule-binding domain of Cep57; InterPro: IPR010597 This entry is thought to represent a centrosomal protein of 57 kDa (Cep57-related protein). It is required for spindle microtubule attachment to both kinetochores and centrosomes and functions to tether minus-ends of spindle microtubules to centrosomes. It may act by forming ring-like structures around microtubules, or by serving as a cross-linker or scaffold at the attachment site [].
Probab=68.92 E-value=42 Score=24.37 Aligned_cols=66 Identities=15% Similarity=0.216 Sum_probs=52.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
...+...+..|+.++..++-..++|++.+......- +...|..+..++..|-..++..-.++.++.
T Consensus 12 ~~~Ls~vl~~LqDE~~hm~~e~~~L~~~~~~~d~s~-~~~~R~~L~~~l~~lv~~mE~K~dQI~~L~ 77 (79)
T PF06657_consen 12 GEALSEVLKALQDEFGHMKMEHQELQDEYKQMDPSL-GRRKRRDLEQELEELVKRMEAKADQIYKLY 77 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccc-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345677788899999999999999988887765533 346899999999999988888888877664
No 130
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=68.56 E-value=10 Score=31.27 Aligned_cols=68 Identities=21% Similarity=0.203 Sum_probs=49.2
Q ss_pred HHHHHHHHHhhhccc-----hhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHH
Q psy2296 11 EKRTGLLELFHEKEE-----FFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRV 85 (208)
Q Consensus 11 EKr~~il~~f~~~~~-----~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~ 85 (208)
.|+.+||-|+-+..+ +.+.+ +| |.+ .|++..||...+..|.+-|+|..- ..+.|+-=|.-..+.-
T Consensus 55 ~k~~~Vl~~il~~~d~~N~v~~t~~---~i---a~~-l~iS~~Tv~r~ik~L~e~~iI~k~---~~G~Y~iNP~~~~kG~ 124 (165)
T PF05732_consen 55 NKAFRVLMYILENMDKDNAVVATQK---EI---AEK-LGISKPTVSRAIKELEEKNIIKKI---RNGAYMINPNFFFKGD 124 (165)
T ss_pred hhHHHHHHHHHHhcCCCCeEEeeHH---HH---HHH-hCCCHHHHHHHHHHHHhCCcEEEc---cCCeEEECcHHheeCc
Confidence 477888888877554 23445 54 333 899999999999999999999754 4457888888665444
Q ss_pred HHH
Q psy2296 86 DCK 88 (208)
Q Consensus 86 ~~~ 88 (208)
...
T Consensus 125 ~~~ 127 (165)
T PF05732_consen 125 RDK 127 (165)
T ss_pred HHH
Confidence 333
No 131
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=68.33 E-value=62 Score=28.02 Aligned_cols=90 Identities=19% Similarity=0.290 Sum_probs=58.0
Q ss_pred CCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhH
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNR 123 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR 123 (208)
.|++..+.+++..|-.-|.|....+.+.. .-..+-.++..++.++.....|.+-++++ .+.++.
T Consensus 101 RVP~~~~~~~l~~l~~~g~v~~~~~~~~D------------vT~~y~D~~arl~~l~~~~~rl~~ll~ka----~~~~d~ 164 (262)
T PF14257_consen 101 RVPADKFDSFLDELSELGKVTSRNISSED------------VTEQYVDLEARLKNLEAEEERLLELLEKA----KTVEDL 164 (262)
T ss_pred EECHHHHHHHHHHHhccCceeeeeccccc------------hHHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCHHHH
Confidence 45667777788777766666555554322 22334445555555555555555555433 245678
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
-++-.+|.+.+.++++++.++..+.+
T Consensus 165 l~ie~~L~~v~~eIe~~~~~~~~l~~ 190 (262)
T PF14257_consen 165 LEIERELSRVRSEIEQLEGQLKYLDD 190 (262)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88888999999999999999888765
No 132
>TIGR03185 DNA_S_dndD DNA sulfur modification protein DndD. This model describes the DndB protein encoded by an operon associated with a sulfur-containing modification to DNA. The operon is sporadically distributed in bacteria, much like some restriction enzyme operons. DndD is described as a putative ATPase. The small number of examples known so far include species from among the Firmicutes, Actinomycetes, Proteobacteria, and Cyanobacteria.
Probab=68.16 E-value=1.3e+02 Score=29.73 Aligned_cols=48 Identities=13% Similarity=0.144 Sum_probs=24.4
Q ss_pred cccceeEeeccchhhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 68 IGTSTYFWSFPNKASDRVDCKLEK----ITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 68 iGtsN~YWsFps~~~~~~~~~~~~----l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
++....+..++........+.++. ....+..+..++..++.+++....
T Consensus 361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~el~~l~~ 412 (650)
T TIGR03185 361 TTDSEIPHRLSGSELTQLEVLIQQVKRELQDAKSQLLKELRELEEELAEVDK 412 (650)
T ss_pred cccccccccCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455556655544444433332 334555666666666666555443
No 133
>cd07627 BAR_Vps5p The Bin/Amphiphysin/Rvs (BAR) domain of yeast Sorting Nexin Vps5p. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. Vsp5p is the yeast counterpart of human SNX1 and is part of the retromer complex, which functions in the endosome-to-Golgi retrieval of vacuolar protein sorting receptor Vps10p, the Golgi-resident membrane protein A-ALP, and endopeptidase Kex2. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in
Probab=67.62 E-value=75 Score=26.84 Aligned_cols=64 Identities=19% Similarity=0.210 Sum_probs=50.0
Q ss_pred cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 116 GRGDSKNREDFLQEVGNISKELELINKELEKYKNND---PDTLKLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 116 ~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D---p~~i~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
-|.-...|......++.+...+..++.+++++...+ |+++..++.++..+-.++..-......|
T Consensus 103 vk~~~~~R~~~~~~~~~~~~~L~k~~~~~~Kl~~~~~s~~~K~~~~~~ei~~~e~~~~~a~~~~e~i 169 (216)
T cd07627 103 VRAAFAQRQKLWQYWQSAESELSKKKAQLEKLKRQGKTQQEKLNSLLSELEEAERRASELKKEFEEV 169 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355567899999999999999999999999997643 7899888888887766665544443333
No 134
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=67.55 E-value=1e+02 Score=31.13 Aligned_cols=25 Identities=8% Similarity=0.189 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcc
Q psy2296 92 ITAEIEDVTKELAQNNEALEKSMVG 116 (208)
Q Consensus 92 l~~~i~~~~~~i~~l~~~ie~~~~~ 116 (208)
|++++.+.+.....++.++.+++..
T Consensus 493 LEkrL~eE~~~R~~lEkQL~eErk~ 517 (697)
T PF09726_consen 493 LEKRLAEERRQRASLEKQLQEERKA 517 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444555544443
No 135
>PHA02943 hypothetical protein; Provisional
Probab=67.29 E-value=24 Score=29.32 Aligned_cols=68 Identities=19% Similarity=0.376 Sum_probs=49.8
Q ss_pred CCCCHH--HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 5 KGLSVE--EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 5 kglS~e--EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
+|+|-. +....||+++ ...+=|.. ||= +.-|++--+|.-+|..|--+|.|..-++|.+.| |+.--++.
T Consensus 3 r~~sd~v~~R~~eILE~L--k~G~~Tts---eIA----kaLGlS~~qa~~~LyvLErEG~VkrV~~G~~ty-w~l~~day 72 (165)
T PHA02943 3 RGMSDTVHTRMIKTLRLL--ADGCKTTS---RIA----NKLGVSHSMARNALYQLAKEGMVLKVEIGRAAI-WCLDEDAY 72 (165)
T ss_pred cchhHHHHHHHHHHHHHH--hcCCccHH---HHH----HHHCCCHHHHHHHHHHHHHcCceEEEeecceEE-EEEChHHH
Confidence 567754 4456677777 44444555 442 336999999999999999999999999999985 66555443
No 136
>PTZ00464 SNF-7-like protein; Provisional
Probab=67.26 E-value=81 Score=27.08 Aligned_cols=86 Identities=13% Similarity=0.185 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh----ccCCCChh--HHH---HHHHHHHHHHHHHHHHHHHHHHhc-----
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSM----VGRGDSKN--RED---FLQEVGNISKELELINKELEKYKN----- 149 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~----~~r~~~~e--R~~---ll~~l~~L~~~~~~l~~el~~~~~----- 149 (208)
..+..+..+...+..+..++..+..++..++ .+|..+.+ +.. +|.+..-++.++.++...+..+..
T Consensus 15 t~~d~~~~l~~r~~~l~kKi~~ld~E~~~ak~~~k~~~~~~~~~~K~~Al~~LK~KK~~E~ql~~l~~q~~nleq~~~~i 94 (211)
T PTZ00464 15 TLEDASKRIGGRSEVVDARINKIDAELMKLKEQIQRTRGMTQSRHKQRAMQLLQQKRMYQNQQDMMMQQQFNMDQLQFTT 94 (211)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555555555555555555555444443 23322111 212 333344444444444444433332
Q ss_pred ----CCHHHHHHHHHHHHHHHHHH
Q psy2296 150 ----NDPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 150 ----~Dp~~i~~~~~~~~~~k~aa 169 (208)
.+-+++..|+.....++..-
T Consensus 95 e~a~~~~~vv~amk~g~kaLK~~~ 118 (211)
T PTZ00464 95 ESVKDTKVQVDAMKQAAKTLKKQF 118 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 24666666666666555543
No 137
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=67.18 E-value=21 Score=27.14 Aligned_cols=73 Identities=16% Similarity=0.313 Sum_probs=46.6
Q ss_pred ceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 71 STYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 71 sN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.++||..=+.. ...+..++.+.+.+.....++..++..++.+ ++..+=..+--++.+++.++..+..++....
T Consensus 20 ~~~~~~~l~~~-~a~~~~~~~l~~~~~~~~~Rl~~lE~~l~~L----Pt~~dv~~L~l~l~el~G~~~~l~~~l~~v~ 92 (106)
T PF10805_consen 20 GGIFWLWLRRT-YAKREDIEKLEERLDEHDRRLQALETKLEHL----PTRDDVHDLQLELAELRGELKELSARLQGVS 92 (106)
T ss_pred HHHHHHHHHHh-hccHHHHHHHHHHHHHHHHHHHHHHHHHHhC----CCHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34556533332 2346677778888888888888777776554 4445556666667777777777777665554
No 138
>PRK02224 chromosome segregation protein; Provisional
Probab=67.15 E-value=1.5e+02 Score=30.06 Aligned_cols=41 Identities=12% Similarity=0.110 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhh
Q psy2296 132 NISKELELINKELEKYKN-NDPDTLKLIENTAQRAKEAANRW 172 (208)
Q Consensus 132 ~L~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~aanrw 172 (208)
.+..++..++.++..+.. .|++.++.+......+...+...
T Consensus 624 ~~~~~l~~~r~~i~~l~~~~~~~~~e~l~~~~~~~~~~~~~l 665 (880)
T PRK02224 624 ERRERLAEKRERKRELEAEFDEARIEEAREDKERAEEYLEQV 665 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555555432 34555555444444444443333
No 139
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=67.08 E-value=17 Score=29.09 Aligned_cols=67 Identities=25% Similarity=0.354 Sum_probs=48.8
Q ss_pred CCCCCCCCHHHHH---HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeec
Q psy2296 1 MSKKKGLSVEEKR---TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSF 77 (208)
Q Consensus 1 MskkkglS~eEKr---~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsF 77 (208)
|+ |..++||+- .+|+++.+++ .-.|++ +++.+ .|.+-.||+.++..||.-|-|-. +.+|=.|
T Consensus 1 Ma--~~~T~eer~eLk~rIvElVRe~-GRiTi~---ql~~~----TGasR~Tvk~~lreLVa~G~l~~-----~G~~GvF 65 (127)
T PF06163_consen 1 MA--RVFTPEEREELKARIVELVREH-GRITIK---QLVAK----TGASRNTVKRYLRELVARGDLYR-----HGRSGVF 65 (127)
T ss_pred CC--CcCCHHHHHHHHHHHHHHHHHc-CCccHH---HHHHH----HCCCHHHHHHHHHHHHHcCCeEe-----CCCcccc
Confidence 66 457888775 4666666654 457888 87764 79999999999999999875543 2333479
Q ss_pred cchhh
Q psy2296 78 PNKAS 82 (208)
Q Consensus 78 ps~~~ 82 (208)
||+..
T Consensus 66 ~seqA 70 (127)
T PF06163_consen 66 PSEQA 70 (127)
T ss_pred ccHHH
Confidence 99754
No 140
>COG3937 Uncharacterized conserved protein [Function unknown]
Probab=66.97 E-value=58 Score=25.32 Aligned_cols=81 Identities=15% Similarity=0.300 Sum_probs=41.6
Q ss_pred chHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--CChhHHH
Q psy2296 48 QSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRG--DSKNRED 125 (208)
Q Consensus 48 ~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~--~~~eR~~ 125 (208)
--|.+++..||++|-++.| ++..-.+.-+..++.+-..+..+ ....|+.+..+-+ .-.+-..
T Consensus 24 ek~~klvDelVkkGeln~e-------------Eak~~vddl~~q~k~~~~e~e~K---~~r~i~~ml~~~~~~r~~~~~~ 87 (108)
T COG3937 24 EKVQKLVDELVKKGELNAE-------------EAKRFVDDLLRQAKEAQGELEEK---IPRKIEEMLSDLEVARQSEMDE 87 (108)
T ss_pred HHHHHHHHHHHHcCCCCHH-------------HHHHHHHHHHHHHHHHhhhHHHh---hhHHHHHHHhhccccccchHHH
Confidence 4578888888889988765 33333333334433333333333 2223333322111 0012355
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2296 126 FLQEVGNISKELELINKEL 144 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el 144 (208)
+-.++..|+.++..|+.++
T Consensus 88 l~~rvd~Lerqv~~Lenk~ 106 (108)
T COG3937 88 LTERVDALERQVADLENKL 106 (108)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 5566677777777776665
No 141
>PRK03918 chromosome segregation protein; Provisional
Probab=66.82 E-value=1.5e+02 Score=29.93 Aligned_cols=19 Identities=26% Similarity=0.414 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2296 95 EIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 95 ~i~~~~~~i~~l~~~ie~~ 113 (208)
++..++.++..+.+.++..
T Consensus 634 ~i~~l~~~i~~l~~~~~~l 652 (880)
T PRK03918 634 ELAETEKRLEELRKELEEL 652 (880)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333334444444444444
No 142
>KOG4403|consensus
Probab=66.68 E-value=1e+02 Score=29.83 Aligned_cols=89 Identities=21% Similarity=0.331 Sum_probs=47.8
Q ss_pred cccccceeEeeccchhhHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHhcc-C-----------------------C
Q psy2296 66 EKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDV---TKELAQNNEALEKSMVG-R-----------------------G 118 (208)
Q Consensus 66 EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~---~~~i~~l~~~ie~~~~~-r-----------------------~ 118 (208)
-=||++-++.++ ...+..+..++++.+.++.+ ++...++++++++++.. | +
T Consensus 223 ili~v~gcw~ay--~Qnk~akehv~km~kdle~Lq~aEqsl~dlQk~Lekar~e~rnvavek~~lerkl~ea~rl~elre 300 (575)
T KOG4403|consen 223 ILIGVGGCWFAY--RQNKKAKEHVNKMMKDLEGLQRAEQSLEDLQKRLEKAREEQRNVAVEKLDLERKLDEAPRLSELRE 300 (575)
T ss_pred HHHHhhhhhhhh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHhhhhhhhhhhc
Confidence 345666555433 33344455555655555444 44556666777766553 1 1
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-HHHHHH
Q psy2296 119 DSKNREDFLQEVGNISKELELINKELEKYKNND-PDTLKL 157 (208)
Q Consensus 119 ~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D-p~~i~~ 157 (208)
..+ -+...+++++|+..++.-+.||+.-+-|. |.+++.
T Consensus 301 g~e-~e~~rkelE~lR~~L~kAEkele~nS~wsaP~aLQ~ 339 (575)
T KOG4403|consen 301 GVE-NETSRKELEQLRVALEKAEKELEANSSWSAPLALQK 339 (575)
T ss_pred chh-HHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHH
Confidence 111 11122567777777777777777665443 666554
No 143
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=66.63 E-value=1.1e+02 Score=32.68 Aligned_cols=33 Identities=9% Similarity=0.291 Sum_probs=26.8
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Q psy2296 150 NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSW 182 (208)
Q Consensus 150 ~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~ 182 (208)
-||..|..+++.+..+...+.+-..+-..+..|
T Consensus 768 vD~~~I~~l~~~i~~L~~~l~~ie~~r~~V~eY 800 (1201)
T PF12128_consen 768 VDPERIQQLKQEIEQLEKELKRIEERRAEVIEY 800 (1201)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 599999999999998888877777766666655
No 144
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=66.50 E-value=44 Score=23.71 Aligned_cols=56 Identities=11% Similarity=0.236 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
..+..|+..++.+..+++........... +|...+..+...-.++..|+.|++.++
T Consensus 5 a~~~~Lr~rLd~~~rk~~~~~~~~k~L~~------ERd~~~~~l~~a~~e~~~Lk~E~e~L~ 60 (69)
T PF14197_consen 5 AEIATLRNRLDSLTRKNSVHEIENKRLRR------ERDSAERQLGDAYEENNKLKEENEALR 60 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455555555555444444433333 555555555555555555555554444
No 145
>KOG2391|consensus
Probab=66.40 E-value=88 Score=29.14 Aligned_cols=12 Identities=0% Similarity=-0.305 Sum_probs=5.9
Q ss_pred eeEeeccchhhH
Q psy2296 72 TYFWSFPNKASD 83 (208)
Q Consensus 72 N~YWsFps~~~~ 83 (208)
..||.-++....
T Consensus 195 ~~yp~n~~~~~~ 206 (365)
T KOG2391|consen 195 EPYPPNASGKLV 206 (365)
T ss_pred CcCCCCcccccc
Confidence 345555554443
No 146
>PRK10884 SH3 domain-containing protein; Provisional
Probab=66.39 E-value=32 Score=29.45 Aligned_cols=21 Identities=10% Similarity=0.278 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q psy2296 93 TAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 93 ~~~i~~~~~~i~~l~~~ie~~ 113 (208)
...+..+++++++++.+++..
T Consensus 92 ~~rlp~le~el~~l~~~l~~~ 112 (206)
T PRK10884 92 RTRVPDLENQVKTLTDKLNNI 112 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555444444
No 147
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=66.28 E-value=19 Score=27.08 Aligned_cols=53 Identities=19% Similarity=0.280 Sum_probs=39.7
Q ss_pred cCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 60 DGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 60 DglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
.+.|-+. +|+.-|-+.=+.+|..-..+++..+++.++.+...+..++..+...
T Consensus 58 ~~~vlV~-lG~~~~vE~s~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~~~~ 110 (120)
T PF02996_consen 58 TDKVLVS-LGAGYYVEMSLEEAIEFLKKRIKELEEQLEKLEKELAELQAQIEQL 110 (120)
T ss_dssp TTEEEEE-EETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCH
T ss_pred CCEEEEE-eeCCeEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443 7877777777778888888888888888888888888877776543
No 148
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=66.03 E-value=41 Score=23.20 Aligned_cols=50 Identities=18% Similarity=0.325 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCC
Q psy2296 130 VGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLE 190 (208)
Q Consensus 130 l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~ 190 (208)
+..++.++..++++++ +++.+...+...+.+++.+-.-+..+..+++||.
T Consensus 19 ~~~~~~ei~~l~~~i~-----------~l~~e~~~L~~ei~~l~~~~~~ie~~AR~~lgm~ 68 (80)
T PF04977_consen 19 YYQLNQEIAELQKEIE-----------ELKKENEELKEEIERLKNDPDYIEKVAREKLGMV 68 (80)
T ss_pred HHHHHHHHHHHHHHHH-----------HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcCCc
Confidence 4445555555555443 4444555666777777556667788888899985
No 149
>PF12761 End3: Actin cytoskeleton-regulatory complex protein END3
Probab=66.01 E-value=85 Score=26.86 Aligned_cols=87 Identities=16% Similarity=0.327 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh--c-CCHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK--N-NDPDTLKLIENTAQR 164 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~--~-~Dp~~i~~~~~~~~~ 164 (208)
....|..++++++.++...+...+.. +.++.....++.+ +++.-+.=.+.+|..+. . ..+.-+...++++..
T Consensus 97 EevrLkrELa~Le~~l~~~~~~~~~~---~~~~~~~~~lvk~--e~EqLL~YK~~ql~~~~~~~~~~~~~l~~v~~Dl~~ 171 (195)
T PF12761_consen 97 EEVRLKRELAELEEKLSKVEQAAESR---RSDTDSKPALVKR--EFEQLLDYKERQLRELEEGRSKSGKNLKSVREDLDT 171 (195)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc---ccCCcchHHHHHH--HHHHHHHHHHHHHHhhhccCCCCCCCHHHHHHHHHH
Confidence 34456666666666666665555443 2333444455432 33333444444444443 2 335566666666666
Q ss_pred HHHHHhhhhhhHHHHHHHHHhh
Q psy2296 165 AKEAANRWTDNLFSLKSWCKNK 186 (208)
Q Consensus 165 ~k~aanrwTDNI~~l~~~~~~k 186 (208)
..+. +..|.+|+.++
T Consensus 172 ie~Q-------V~~Le~~L~~k 186 (195)
T PF12761_consen 172 IEEQ-------VDGLESHLSSK 186 (195)
T ss_pred HHHH-------HHHHHHHHHHH
Confidence 5555 44788888765
No 150
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=65.73 E-value=1.1e+02 Score=29.20 Aligned_cols=79 Identities=15% Similarity=0.243 Sum_probs=0.0
Q ss_pred eccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Q psy2296 76 SFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTL 155 (208)
Q Consensus 76 sFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i 155 (208)
.+++.......+++...+.+|+.++.++.... ..+..+..++.+++.++..+..+|..... .+
T Consensus 27 ~~~s~s~~a~~~~l~q~q~ei~~~~~~i~~~~-------------~~~~kL~~~lk~~e~~i~~~~~ql~~s~~----~l 89 (420)
T COG4942 27 LAAAFSAAADDKQLKQIQKEIAALEKKIREQQ-------------DQRAKLEKQLKSLETEIASLEAQLIETAD----DL 89 (420)
T ss_pred cccchhHHhHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHh----HH
Q ss_pred HHHHHHHHHHHHHHhh
Q psy2296 156 KLIENTAQRAKEAANR 171 (208)
Q Consensus 156 ~~~~~~~~~~k~aanr 171 (208)
.++.+.+..+-..++.
T Consensus 90 ~~~~~~I~~~~~~l~~ 105 (420)
T COG4942 90 KKLRKQIADLNARLNA 105 (420)
T ss_pred HHHHhhHHHHHHHHHH
No 151
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=65.56 E-value=4.8 Score=25.90 Aligned_cols=24 Identities=33% Similarity=0.562 Sum_probs=21.9
Q ss_pred cCCccchHHHHHHHhhhcCccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
.||+..+|...++.|.++|+|...
T Consensus 30 ~~vs~~tv~~~l~~L~~~g~i~~~ 53 (60)
T smart00345 30 LGVSRTTVREALSRLEAEGLVQRR 53 (60)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEe
Confidence 699999999999999999999653
No 152
>COG3883 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=65.48 E-value=1e+02 Score=27.59 Aligned_cols=73 Identities=12% Similarity=0.231 Sum_probs=36.5
Q ss_pred eccchhhHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhccCCC-ChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 76 SFPNKASDRVDCK-LEKITAEIEDVTKELAQNNEALEKSMVGRGD-SKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 76 sFps~~~~~~~~~-~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~-~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
+|++-.....-.. +..-+.++..++.....++..|+.+...=++ ...+..+-.+..+++.++++++.++..+.
T Consensus 19 ~~~t~V~a~~~~~~i~~~ds~l~~~~~~~~~~q~ei~~L~~qi~~~~~k~~~~~~~i~~~~~eik~l~~eI~~~~ 93 (265)
T COG3883 19 AFLTTVFAALLSDKIQNQDSKLSELQKEKKNIQNEIESLDNQIEEIQSKIDELQKEIDQSKAEIKKLQKEIAELK 93 (265)
T ss_pred hhcchhhhhhhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555444444333 6666667777777777777777666443211 12233333344444444444444444333
No 153
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=64.78 E-value=81 Score=26.20 Aligned_cols=13 Identities=23% Similarity=0.498 Sum_probs=8.4
Q ss_pred hhHHHHHHHHHhh
Q psy2296 174 DNLFSLKSWCKNK 186 (208)
Q Consensus 174 DNI~~l~~~~~~k 186 (208)
+|-..+..|+.++
T Consensus 173 En~~Lv~Rwm~~k 185 (194)
T PF08614_consen 173 ENRELVERWMQRK 185 (194)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 4666777776654
No 154
>TIGR02168 SMC_prok_B chromosome segregation protein SMC, common bacterial type. SMC (structural maintenance of chromosomes) proteins bind DNA and act in organizing and segregating chromosomes for partition. SMC proteins are found in bacteria, archaea, and eukaryotes. This family represents the SMC protein of most bacteria. The smc gene is often associated with scpB (TIGR00281) and scpA genes, where scp stands for segregation and condensation protein. SMC was shown (in Caulobacter crescentus) to be induced early in S phase but present and bound to DNA throughout the cell cycle.
Probab=64.62 E-value=93 Score=31.83 Aligned_cols=59 Identities=5% Similarity=0.049 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhc
Q psy2296 129 EVGNISKELELINKELEKYKNND---PDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKF 187 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~~~D---p~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~ 187 (208)
++..|+.++..|...++.|..-. .++++.+..+...+..+...-.+.|..|..-+...|
T Consensus 966 ~~~~l~~~i~~lg~aiee~~~~~~~a~er~~~l~~q~~dL~~~~~~L~~~i~~i~~~~~~~f 1027 (1179)
T TIGR02168 966 DEEEARRRLKRLENKIKELGPVNLAAIEEYEELKERYDFLTAQKEDLTEAKETLEEAIEEID 1027 (1179)
T ss_pred CHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45677777777777777776532 367777777777777777777777776666666665
No 155
>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []. The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....
Probab=64.59 E-value=2.1 Score=35.17 Aligned_cols=57 Identities=16% Similarity=0.286 Sum_probs=44.8
Q ss_pred hHHHHhhccc---ccCCccchHHHHHHHhhhcCcccc---cccccceeEeeccchhhHHHHHH
Q psy2296 32 IIELEKLAPK---EKGIISQSVKEILQSLVDDGLVES---EKIGTSTYFWSFPNKASDRVDCK 88 (208)
Q Consensus 32 ~~ElEK~~pK---~~GI~~~~VKdvlq~LVDDglV~~---EKiGtsN~YWsFps~~~~~~~~~ 88 (208)
++|+||..|. .+.++...|-+.|-.++|+|.|.- ..|.++|..|-|-|-........
T Consensus 74 lDEidKa~~~~~~~~~v~~~~V~~~LL~~le~g~~~d~~g~~vd~~n~ifI~Tsn~~~~~~~~ 136 (171)
T PF07724_consen 74 LDEIDKAHPSNSGGADVSGEGVQNSLLQLLEGGTLTDSYGRTVDTSNIIFIMTSNFGAEEIID 136 (171)
T ss_dssp EETGGGCSHTTTTCSHHHHHHHHHHHHHHHHHSEEEETTCCEEEGTTEEEEEEESSSTHHHHH
T ss_pred hHHHhhccccccccchhhHHHHHHHHHHHhcccceecccceEEEeCCceEEEecccccchhhh
Confidence 3499999993 247778899999999999999963 36889999999999766554433
No 156
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=64.56 E-value=1.2e+02 Score=27.93 Aligned_cols=50 Identities=22% Similarity=0.324 Sum_probs=27.0
Q ss_pred cccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q psy2296 62 LVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG 116 (208)
Q Consensus 62 lV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~ 116 (208)
-+..+.+|+.++. .....+-..++++.++++.++..+..+-++.++....
T Consensus 113 r~~~~~~~~~~~~-----~ere~lV~qLEk~~~q~~qLe~d~qs~lDEkeEl~~E 162 (319)
T PF09789_consen 113 RVGDEGIGARHFP-----HEREDLVEQLEKLREQIEQLERDLQSLLDEKEELVTE 162 (319)
T ss_pred hhhhccccccccc-----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555677877655 3344444455555555555555555555444444443
No 157
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=64.46 E-value=36 Score=23.53 Aligned_cols=58 Identities=17% Similarity=0.305 Sum_probs=35.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH--Hh-cCCHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEK--YK-NNDPDTLKLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~--~~-~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
++..+-.++..++.++..+...|.. |- ...|+.++.-+.....+...+.+....|..|
T Consensus 5 E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~~~l~~L 65 (66)
T PF10458_consen 5 EIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLEEALEQL 65 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4555555566666666666555543 22 2457788877777777777777776666554
No 158
>KOG0971|consensus
Probab=64.35 E-value=98 Score=32.61 Aligned_cols=71 Identities=25% Similarity=0.383 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhccCCCChhHHHHH-HHHHHHHHHHHHHHHHHHHHhc-----------CCHHHHHHHHHHHHHHHHHHhh
Q psy2296 104 AQNNEALEKSMVGRGDSKNREDFL-QEVGNISKELELINKELEKYKN-----------NDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 104 ~~l~~~ie~~~~~r~~~~eR~~ll-~~l~~L~~~~~~l~~el~~~~~-----------~Dp~~i~~~~~~~~~~k~aanr 171 (208)
+++.+.|+-+...++=-+||.+-| .+++.+++++.+|..+|+-++. ...-.+.++..+...+++++.|
T Consensus 307 ad~ad~iEmaTldKEmAEERaesLQ~eve~lkEr~deletdlEILKaEmeekG~~~~~~ss~qfkqlEqqN~rLKdalVr 386 (1243)
T KOG0971|consen 307 ADTADAIEMATLDKEMAEERAESLQQEVEALKERVDELETDLEILKAEMEEKGSDGQAASSYQFKQLEQQNARLKDALVR 386 (1243)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccchHHHHHHHHHHHHHHHHHHH
Confidence 334444444433333335665544 5677777777777777766653 1245677777777777877777
Q ss_pred hhh
Q psy2296 172 WTD 174 (208)
Q Consensus 172 wTD 174 (208)
.-|
T Consensus 387 LRD 389 (1243)
T KOG0971|consen 387 LRD 389 (1243)
T ss_pred HHh
Confidence 766
No 159
>PLN02320 seryl-tRNA synthetase
Probab=64.19 E-value=50 Score=32.12 Aligned_cols=65 Identities=14% Similarity=0.232 Sum_probs=48.1
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
+....+......+..+++.++.+...+..+|... . ...++++++++..+|++++..+.+++..+.
T Consensus 93 d~l~~ld~~~r~~~~~~~~lr~ern~~sk~i~~~-~---~~~~~~~l~~~~k~lk~~i~~le~~~~~~~ 157 (502)
T PLN02320 93 ELVLELYENMLALQKEVERLRAERNAVANKMKGK-L---EPSERQALVEEGKNLKEGLVTLEEDLVKLT 157 (502)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-h---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666677777778888888888888888777552 1 124678888888888888888888776665
No 160
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=64.19 E-value=16 Score=31.46 Aligned_cols=55 Identities=24% Similarity=0.275 Sum_probs=46.6
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
+.+++.=++--.||+.|.+.. ..++. ||=+ ..|++.-||--+|+.|++.|+|..+
T Consensus 7 ~~~v~sl~r~l~IL~~l~~~~-~l~l~---eia~----~lgl~kstv~Rll~tL~~~G~l~~~ 61 (257)
T PRK15090 7 PDSVSSVLKVFGILQALGEER-EIGIT---ELSQ----RVMMSKSTVYRFLQTMKTLGYVAQE 61 (257)
T ss_pred ccccHHHHHHHHHHHHhhcCC-CCCHH---HHHH----HHCcCHHHHHHHHHHHHHCCCEEEc
Confidence 356777789999999998764 58999 7744 3799999999999999999999876
No 161
>PF12777 MT: Microtubule-binding stalk of dynein motor; InterPro: IPR024743 The 380 kDa motor unit of dynein belongs to the AAA class of chaperone-like ATPases. The core of the 380 kDa motor unit contains a concatenated chain of six AAA modules (D1-6), of which four correspond to the ATP binding sites with P-loop signatures, and two are modules in which the P loop has been lost in evolution. This domain occurs between D4 and D5 and includes the two predicted alpha-helical coiled coil segments that form the stalk supporting the ATP-sensitive microtubule binding component [].; PDB: 3VKH_A 3VKG_A 3ERR_A 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 2RR7_A.
Probab=64.18 E-value=37 Score=30.87 Aligned_cols=28 Identities=14% Similarity=0.312 Sum_probs=15.1
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTS 71 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGts 71 (208)
-.|++.+++-+ +..+.+---..++|+..
T Consensus 165 ~~i~~~~~~~l-~~~~~~p~F~~e~v~~~ 192 (344)
T PF12777_consen 165 DNIPEATIKKL-KKYLKNPDFNPEKVRKA 192 (344)
T ss_dssp GG--HHHHHHH-HCTTTSTTSSHHHHHHH
T ss_pred ccccHHHHHHH-HHHhcCCCCCHHHHHHH
Confidence 46776665554 66776555555666543
No 162
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=64.18 E-value=12 Score=25.18 Aligned_cols=47 Identities=28% Similarity=0.446 Sum_probs=38.0
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
+..|++++.+. .+.+++ ||-.. -||+++||.==|+.|.+.|+|..-.
T Consensus 2 ~~~Il~~l~~~-~~~s~~---ela~~----~~VS~~TiRRDl~~L~~~g~i~r~~ 48 (57)
T PF08220_consen 2 QQQILELLKEK-GKVSVK---ELAEE----FGVSEMTIRRDLNKLEKQGLIKRTH 48 (57)
T ss_pred HHHHHHHHHHc-CCEEHH---HHHHH----HCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 46788888764 677888 77654 5999999999999999999976543
No 163
>PF05278 PEARLI-4: Arabidopsis phospholipase-like protein (PEARLI 4); InterPro: IPR007942 This family contains several phospholipase-like proteins from Arabidopsis thaliana and other members of the Streptophyta which are homologous to PEARLI 4.
Probab=64.03 E-value=1.1e+02 Score=27.46 Aligned_cols=45 Identities=24% Similarity=0.423 Sum_probs=32.9
Q ss_pred chhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 25 EFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 25 ~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
.=|||+ +++.. +|+-.-...|.+++.+.|..|.+ |=||-.||+..
T Consensus 56 ~sftl~---~~~~~----~~~~~~~~~~e~~Sv~ses~V~V------ngY~Vk~S~~s 100 (269)
T PF05278_consen 56 QSFTLS---EIECM----KGLKTNEGDEEMSSVISESIVSV------NGYQVKPSQVS 100 (269)
T ss_pred ccccHH---HHHHH----hcccccccchhhhhccccceeeE------CCEEEcHhHHH
Confidence 347788 77765 46666678888888888877654 44999998764
No 164
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=64.02 E-value=38 Score=34.19 Aligned_cols=62 Identities=11% Similarity=0.272 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-CCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVG-RGDSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~-r~~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
+...+.+|..++...+..+..++..+..++.- ++...+-+.|+..|..++.+...|+.-|..
T Consensus 550 lE~E~~~lr~elk~kee~~~~~e~~~~~lr~~~~e~~~~~e~L~~aL~amqdk~~~LE~sLsa 612 (697)
T PF09726_consen 550 LESELKKLRRELKQKEEQIRELESELQELRKYEKESEKDTEVLMSALSAMQDKNQHLENSLSA 612 (697)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 33344445555555555555555555555443 554567899999999999999999887754
No 165
>cd00592 HTH_MerR-like Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators. Helix-turn-helix (HTH) MerR-like transcription regulator, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=63.72 E-value=21 Score=26.11 Aligned_cols=31 Identities=16% Similarity=0.291 Sum_probs=23.3
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeec
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSF 77 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsF 77 (208)
+||++.+|.-.. ..|++...+-+++.++|++
T Consensus 10 ~gi~~~tlr~~~----~~Gll~~~~~~~g~r~y~~ 40 (100)
T cd00592 10 LGVSVRTLRYYE----EKGLLPPERSENGYRLYSE 40 (100)
T ss_pred HCcCHHHHHHHH----HCCCcCCCcCCCCCcccCH
Confidence 899999998774 5799998887765555444
No 166
>COG0640 ArsR Predicted transcriptional regulators [Transcription]
Probab=63.66 E-value=16 Score=25.04 Aligned_cols=55 Identities=27% Similarity=0.407 Sum_probs=40.3
Q ss_pred HHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 12 KRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 12 Kr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
.|.+|+..+... .-.+.- +|-... |+...+|--.|..|.+.|+|.....|...+|
T Consensus 26 ~r~~il~~l~~~-~~~~~~---~l~~~~----~~~~~~v~~hL~~L~~~glv~~~~~~~~~~~ 80 (110)
T COG0640 26 TRLEILSLLAEG-GELTVG---ELAEAL----GLSQSTVSHHLKVLREAGLVELRREGRLRLY 80 (110)
T ss_pred HHHHHHHHHHhc-CCccHH---HHHHHH----CCChhHHHHHHHHHHHCCCeEEEecccEEEE
Confidence 677777777775 111123 443333 8899999999999999999999999988444
No 167
>PF05837 CENP-H: Centromere protein H (CENP-H); InterPro: IPR008426 Chromosome segregation in eukaryotes requires the kinetochore, a multi-protein structure that assembles on centromeric DNA, and which acts to link chromosomes to spindle microtubules. Kinetochore structure and composition is highly conserved among vertebrates. The inner kinetochore is essential for kinetochore assembly, and is involved in chromosome segregation via regulation of the spindle. Inner kinetochore components include the multi-subunit CENP-H/I complex, which may function, in part, in directing centromere protein A (CENP-A) deposition to centromeres, where CENP-A is a centromere-specific histone H3 variant required for the organisation of centromeric chromatin during interphase. The CENP-H/I complex contains three functional classes of proteins [, ]: CENP-H class (includes CENP-H, -I, -K, -L) CENP-M class (includes CENP-M) CENP-O class (includes CENP-O, -P, -Q, -R, -50) CENP-H is required for the localisation of CENP-C, but not CENP-A, to the centromere. However, it may be involved in the incorporation of newly synthesised CENP-A into centromeres via its interaction with the CENP-A/CENP-HI complex. CENP-H contains a coiled-coil structure and a nuclear localisation signal. CENP-H is specifically and constitutively localised in kinetochores throughout the cell cycle, and may play a role in kinetochore organisation and function throughout the cell cycle []. Studies show that CENP-H may be associated with certain human cancers [, ]. This entry also includes Kinetochore protein Fta3 which is a subunit of the Sim4 complex. This complex is required for loading the DASH complex onto the kinetochore via interaction with dad1. Fta2, Fta3 and Fta4 associate with the central core and inner repeat region of the centromere [].; GO: 0043515 kinetochore binding, 0007059 chromosome segregation, 0051301 cell division, 0000777 condensed chromosome kinetochore, 0005634 nucleus
Probab=63.64 E-value=63 Score=24.54 Aligned_cols=75 Identities=17% Similarity=0.286 Sum_probs=39.4
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhh--
Q psy2296 97 EDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTD-- 174 (208)
Q Consensus 97 ~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTD-- 174 (208)
..+......+.+.+...+. +|-.+...-.++-.++..+..+...-.. ||+.-..+...-..++..-.+|+=
T Consensus 6 ~~~~~~~~~l~~~L~~v~~------~~l~l~~~n~el~~el~~l~~~~~~~~~-~~~~~~~l~~~~~~lk~~r~~~~v~k 78 (106)
T PF05837_consen 6 LNLQQESRSLQEKLSDVEK------KRLRLKRRNQELAQELLELAEKQKSQRE-DEELSEKLEKLEKELKKSRQRWRVMK 78 (106)
T ss_pred HHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHhhhhcc-chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444444444433 2233333333333333333333333333 788888888888888888888873
Q ss_pred hHHH
Q psy2296 175 NLFS 178 (208)
Q Consensus 175 NI~~ 178 (208)
|||.
T Consensus 79 ~v~q 82 (106)
T PF05837_consen 79 NVFQ 82 (106)
T ss_pred HHHH
Confidence 5554
No 168
>TIGR02895 spore_sigI RNA polymerase sigma-I factor. Members of this sigma factor protein family are strictly limited to endospore-forming species in the Firmicutes lineage of bacteria, but are not universally present among such species. Sigma-I was shown to be induced by heat shock (PubMed:11157964) in Bacillus subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation (PubMed:16311624).
Probab=63.62 E-value=25 Score=30.20 Aligned_cols=73 Identities=16% Similarity=0.121 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCC
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIP 201 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip 201 (208)
....+++..+++++.+-.=.++.+-++.|.-=+.....+.. |....+|= .|.+|+.++-.+|-+++...+|++
T Consensus 117 ~~~~eEI~~~~~~L~~~gi~~~dLv~~sPkh~d~r~~~i~i----a~~~~~~~-~l~~~l~~kk~LP~k~l~~~~~v~ 189 (218)
T TIGR02895 117 ENRRLEILEYKKLLKQFGIEFVELVKVSPKHRDTRKKAIKI----AKVIVENE-ELLEYLIRKKKLPIKEIEERVRIS 189 (218)
T ss_pred ccHHHHHHHHHHHHHHcCCcHHHHhhcCCCCHHHHHHHHHH----HHHHhcCH-HHHHHHHHhCCCCHHHHHHHcCCC
Confidence 33334566666666666666666667788655555444444 44445554 457888888899999999999887
No 169
>PRK03947 prefoldin subunit alpha; Reviewed
Probab=63.61 E-value=26 Score=27.42 Aligned_cols=46 Identities=13% Similarity=0.166 Sum_probs=34.7
Q ss_pred cccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 68 IGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 68 iGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+|++-|-.--..++..-+..+++.|.+.++.+...+..++..++..
T Consensus 82 lG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~~~~~~~~~ 127 (140)
T PRK03947 82 LGAGYSAEKDLDEAIEILDKRKEELEKALEKLEEALQKLASRIAQL 127 (140)
T ss_pred cCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 6777777777778888888888888888888777777777665443
No 170
>PRK00767 transcriptional regulator BetI; Validated
Probab=63.29 E-value=6 Score=31.69 Aligned_cols=55 Identities=18% Similarity=0.273 Sum_probs=38.7
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 1 MSKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 1 MskkkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
|+ |.+.+ +++|.+||+-- ...|.- .|....|+.+|.+.. -++.+.+||.|||+
T Consensus 1 ~~-~~~~~-~~~r~~Il~aA---~~lf~~-------------~G~~~~s~~~Ia~~a---------Gvs~gslY~~F~~K 53 (197)
T PRK00767 1 MP-KVGME-PIRRQQLIDAT---LRAIGE-------------VGLLDATIAQIARRA---------GVSTGIISHYFGGK 53 (197)
T ss_pred CC-CCccc-hhHHHHHHHHH---HHHHHH-------------cCcccCCHHHHHHHh---------CCCHHHHHHHhCCH
Confidence 66 44455 56888887542 223333 499999999987754 46778899999998
Q ss_pred hh
Q psy2296 81 AS 82 (208)
Q Consensus 81 ~~ 82 (208)
..
T Consensus 54 e~ 55 (197)
T PRK00767 54 DG 55 (197)
T ss_pred HH
Confidence 65
No 171
>PF10562 CaM_bdg_C0: Calmodulin-binding domain C0 of NMDA receptor NR1 subunit; InterPro: IPR018882 This is a very short highly conserved domain that is C-terminal to the cytosolic transmembrane region IV of the NMDA-receptor 1. It has been shown to bind Calmodulin-Calcium with high affinity. The ionotropic N-methyl-D-aspartate receptor (NMDAR) is a major source of calcium flux into neurons in the brain and plays a critical role in learning, memory, neural development, and synaptic plasticity. Calmodulin (CaM) regulates NMDARs by binding tightly to the C0 and C1 regions of their NR1 subunit. The conserved tryptophan is considered to be the anchor residue [].
Probab=62.65 E-value=9.8 Score=22.78 Aligned_cols=20 Identities=25% Similarity=0.541 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHhhhhhhH
Q psy2296 157 LIENTAQRAKEAANRWTDNL 176 (208)
Q Consensus 157 ~~~~~~~~~k~aanrwTDNI 176 (208)
..+++++.++.++++|--||
T Consensus 9 ~kqk~~elAr~a~dkWR~~i 28 (29)
T PF10562_consen 9 RKQKQLELARHAADKWRGNI 28 (29)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 35677889999999999887
No 172
>PF12325 TMF_TATA_bd: TATA element modulatory factor 1 TATA binding; InterPro: IPR022091 This is the C-terminal conserved coiled coil region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes []. The proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMF1_TATA_bd is the most conserved part of the TMFs []. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant cells. The Rab6-binding domain appears to be the same region as this C-terminal family [].
Probab=62.63 E-value=61 Score=25.44 Aligned_cols=61 Identities=23% Similarity=0.432 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCC-ChhHHHHH---HHHHHHHHHHHHHHHHHHHHhc
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVGRGD-SKNREDFL---QEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~-~~eR~~ll---~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+++|.+.|..++.++..++..+......|.. ..+=-.++ .++.....++..|+.++..+..
T Consensus 18 ve~L~s~lr~~E~E~~~l~~el~~l~~~r~~l~~Eiv~l~~~~e~~~~~~~~~~~L~~el~~l~~ 82 (120)
T PF12325_consen 18 VERLQSQLRRLEGELASLQEELARLEAERDELREEIVKLMEENEELRALKKEVEELEQELEELQQ 82 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555666666666666655555443321 11111122 2233344555555555555554
No 173
>PHA02562 46 endonuclease subunit; Provisional
Probab=62.61 E-value=1.4e+02 Score=28.27 Aligned_cols=97 Identities=13% Similarity=0.271 Sum_probs=61.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCh-hHHHHHHHHHHHHHHHHHHHHHHHHHhc----------
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSK-NREDFLQEVGNISKELELINKELEKYKN---------- 149 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~-eR~~ll~~l~~L~~~~~~l~~el~~~~~---------- 149 (208)
.....+..++.+..+...++.++..+++.+........+-. .-..+-.++..++..+..++..+..|..
T Consensus 214 ~i~~l~~e~~~l~~~~~~l~~~l~~l~~~i~~l~~~i~~~~~~L~~l~~~~~~~~~~l~~~~~~~~~~~~~~~Cp~C~~~ 293 (562)
T PHA02562 214 NIARKQNKYDELVEEAKTIKAEIEELTDELLNLVMDIEDPSAALNKLNTAAAKIKSKIEQFQKVIKMYEKGGVCPTCTQQ 293 (562)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCCc
Confidence 35566677777777777777777777777777766543322 2334445566666777777777666643
Q ss_pred --CCHHHHHHHHHHHHHHHHHHhhhhhhHH
Q psy2296 150 --NDPDTLKLIENTAQRAKEAANRWTDNLF 177 (208)
Q Consensus 150 --~Dp~~i~~~~~~~~~~k~aanrwTDNI~ 177 (208)
.+|..+..+...+..+...+....+-|.
T Consensus 294 ~~~~~~~~~~l~d~i~~l~~~l~~l~~~i~ 323 (562)
T PHA02562 294 ISEGPDRITKIKDKLKELQHSLEKLDTAID 323 (562)
T ss_pred CCCcHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1366666666666666665555555554
No 174
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=62.44 E-value=11 Score=24.67 Aligned_cols=55 Identities=27% Similarity=0.344 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHHHHhhhccch-hhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 6 GLSVEEKRTGLLELFHEKEEF-FQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 6 glS~eEKr~~il~~f~~~~~~-f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
|||..+ -++|.++.....- -+.. ||-.. .|+.+++|--+|..|+..|+|..+...
T Consensus 2 glt~~q--~~vL~~l~~~~~~~~t~~---~la~~----l~~~~~~vs~~v~~L~~~Glv~r~~~~ 57 (62)
T PF12802_consen 2 GLTPSQ--FRVLMALARHPGEELTQS---ELAER----LGISKSTVSRIVKRLEKKGLVERERDP 57 (62)
T ss_dssp TSTHHH--HHHHHHHHHSTTSGEEHH---HHHHH----HTS-HHHHHHHHHHHHHTTSEEEEE-S
T ss_pred ccCHHH--HHHHHHHHHCCCCCcCHH---HHHHH----HCcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 455442 4556666555542 4777 66543 699999999999999999999987653
No 175
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=62.14 E-value=16 Score=23.71 Aligned_cols=42 Identities=24% Similarity=0.382 Sum_probs=35.3
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcC
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDG 61 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDg 61 (208)
...||.+|.++..+++.+ ||-.. .||+..||.-.+..|-+.|
T Consensus 2 ~~~il~~L~~~~~~it~~---eLa~~----l~vS~rTi~~~i~~L~~~~ 43 (55)
T PF08279_consen 2 QKQILKLLLESKEPITAK---ELAEE----LGVSRRTIRRDIKELREWG 43 (55)
T ss_dssp HHHHHHHHHHTTTSBEHH---HHHHH----CTS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHcCCCcCHH---HHHHH----hCCCHHHHHHHHHHHHHCC
Confidence 467899998888889999 76443 7999999999999999988
No 176
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=61.89 E-value=70 Score=24.49 Aligned_cols=52 Identities=12% Similarity=0.146 Sum_probs=38.0
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVES 65 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~ 65 (208)
++--|.|.|...+...+.... +.. ++ |.. -||++.+|--=+...-+.|....
T Consensus 10 rr~ys~EfK~~aV~~~~~~g~---sv~---ev---A~e-~gIs~~tl~~W~r~y~~~~~~~~ 61 (121)
T PRK09413 10 RRRRTTQEKIAIVQQSFEPGM---TVS---LV---ARQ-HGVAASQLFLWRKQYQEGSLTAV 61 (121)
T ss_pred CCCCCHHHHHHHHHHHHcCCC---CHH---HH---HHH-HCcCHHHHHHHHHHHhhcccccc
Confidence 466999999999888776543 444 44 333 79999999999998877665433
No 177
>PF13851 GAS: Growth-arrest specific micro-tubule binding
Probab=61.85 E-value=99 Score=26.17 Aligned_cols=56 Identities=16% Similarity=0.354 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
-+..|.+++++++.+.......+..... +-..+..-|..+..++..|+.+|..|..
T Consensus 28 lIksLKeei~emkk~e~~~~k~m~ei~~------eN~~L~epL~~a~~e~~eL~k~L~~y~k 83 (201)
T PF13851_consen 28 LIKSLKEEIAEMKKKEERNEKLMAEISQ------ENKRLSEPLKKAEEEVEELRKQLKNYEK 83 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555444444433322 3344444555555555555555555553
No 178
>PHA02599 dsbA double-stranded DNA binding protein; Provisional
Probab=61.83 E-value=25 Score=26.40 Aligned_cols=49 Identities=18% Similarity=0.342 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCC
Q psy2296 152 PDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSI 200 (208)
Q Consensus 152 p~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~I 200 (208)
.+++.+|.++....+..+..+.|=|=-|.+-.+.-||++++.|++-|.|
T Consensus 17 g~~l~~lIkEAS~~kt~ie~y~e~iKdIk~rAK~E~GvdGK~Fnkl~kl 65 (91)
T PHA02599 17 GERLAQLIKEASDHKTQIEAYGEMIKDIKDRAKTELGVDGKMFNKLFKL 65 (91)
T ss_pred HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence 4568889999999999999999999999999999999999999997754
No 179
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=61.74 E-value=1e+02 Score=30.38 Aligned_cols=58 Identities=16% Similarity=0.172 Sum_probs=32.9
Q ss_pred HHHHHHHH--HHHHHHHHHHHHHHhccCCCC-hhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 92 ITAEIEDV--TKELAQNNEALEKSMVGRGDS-KNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 92 l~~~i~~~--~~~i~~l~~~ie~~~~~r~~~-~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+++.++++ ..++.+.+.++++.+.+.-.+ .+.....+++..|+.+.+..+..+..+++
T Consensus 180 w~~~~~~Lp~~~~~~~yk~~v~~i~~~~ik~p~~i~~~~~e~d~lk~e~~~~~~~i~~~~~ 240 (555)
T TIGR03545 180 WKKRKKDLPNKQDLEEYKKRLEAIKKKDIKNPLELQKIKEEFDKLKKEGKADKQKIKSAKN 240 (555)
T ss_pred HHHHHHhcCCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444455 566677777888777764333 24555555666665555555555554443
No 180
>PF02388 FemAB: FemAB family; InterPro: IPR003447 The femAB operon codes for two nearly identical approximately 50kDa proteins involved in the formation of the Staphylococcal pentaglycine interpeptide bridge in peptidoglycan []. These proteins are also considered as a factor influencing the level of methicillin resistance [].; GO: 0016755 transferase activity, transferring amino-acyl groups; PDB: 1XE4_A 1NE9_A 3GKR_A 1XIX_A 1P4N_A 1XF8_A 1LRZ_A.
Probab=61.63 E-value=52 Score=30.62 Aligned_cols=66 Identities=30% Similarity=0.423 Sum_probs=36.0
Q ss_pred HHHhhcccccCCccchHHHHHHHhhh---cCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 34 ELEKLAPKEKGIISQSVKEILQSLVD---DGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEAL 110 (208)
Q Consensus 34 ElEK~~pK~~GI~~~~VKdvlq~LVD---DglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~i 110 (208)
+|-+.-....|+...+- ++-+.|.+ |+ +. +|=+.=. ....++.++++++.++.++.++.+.+
T Consensus 201 ~l~~~T~~R~~f~~r~~-~Yf~~l~~~f~d~-a~--------~~~A~l~-----~~~~~~~l~~~~~~~~~~i~~l~~~l 265 (406)
T PF02388_consen 201 DLYKETAERKGFSIRSL-EYFENLYDAFGDK-AK--------FFLAELN-----GKEYLESLQEKLEKLEKEIEKLEEKL 265 (406)
T ss_dssp HHHHHHHHHTT-----H-HHHHHHHHHCCCC-EE--------EEEEEEC-----CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhCCCcccCH-HHHHHHHHhcCCC-eE--------EEEEEEc-----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44455555567777654 66666666 33 11 2322222 23456678888888888888888887
Q ss_pred HHHh
Q psy2296 111 EKSM 114 (208)
Q Consensus 111 e~~~ 114 (208)
++..
T Consensus 266 ~~~~ 269 (406)
T PF02388_consen 266 EKNP 269 (406)
T ss_dssp HH-T
T ss_pred HhCc
Confidence 7665
No 181
>PF01022 HTH_5: Bacterial regulatory protein, arsR family; InterPro: IPR001845 Bacterial transcription regulatory proteins that bind DNA via a helix-turn-helix (HTH) motif can be grouped into families on the basis of sequence similarities. One such group, termed arsR, includes several proteins that appear to dissociate from DNA in the presence of metal ions: arsR, which functions as a transcriptional repressor of an arsenic resistance operon; smtB from Synechococcus sp. (strain PCC 7942), which acts as a transcriptional repressor of the smtA gene that codes for a metallothionein; cadC, a protein required for cadmium-resistance; and hypothetical protein yqcJ from Bacillus subtilis. The HTH motif is thought to be located in the central part of these proteins []. The motif is characterised by a number of well-conserved residues: at its N-terminal extremity is a cysteine residue; a second Cys is found in arsR and cadC, but not in smtA; and at the C terminus lie one or two histidines. These residues may be involved in metal-binding (Zn in smtB; metal-oxyanions such as arsenite, antimonite and arsenate for arsR; and cadmium for cadC) []. It is believed that binding of a metal ion could induce a conformational change that would prevent the protein from binding DNA []. The crystal structure of the cyanobacterial smtB shows a fold of five alpha-helices (H) and a pair of antiparallel beta-strands (B) in the topology H1-H2-H3-H4-B1-B2-H5. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing as in other wHTH, such as the dtxR-type or the merR-type. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. Most arsR/smtB-like metalloregulators form homodimers []. The dimer interface is formed by helix 5 and an N-terminal part []. Two distinct metal-binding sites have been identified. The first site comprises cysteine thiolates located in the HTH in helix 3 and for some cases in the N terminus, called the alpha3(N) site []. The second metal-binding site is located in helix 5 (and C terminus) and is called the alpha5(C) site. The alpha3N site binds large thiophilic, toxic metals including Cd, Pb, and Bi, as in S. aureus cadC. ArsR lacks the N-terminal arm and its alpha3 site coordinates smaller thiophilic ions like As and Sb. The alpha5 site contains carboxylate and imidazole ligands and interacts preferentially with biologically required metal ions including Zn, Co, and Ni. ArsR-type metalloregulators contain one of these sites, both, or other potential metal-binding sites [, ]. Binding of metal ions to these sites leads to allosteric changes that can derepress the operator/promotor DNA. The metal-inducible operons contain one or two imperfect 12-2-12 inverted repeats, which can be recognised by multimeric arsR-type metalloregulators. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3CUO_A 1U2W_C 3F72_C 3F6V_A 3JTH_B 2P4W_B 1KU9_B 2LKP_B 1SMT_A 1R22_B ....
Probab=61.43 E-value=12 Score=23.80 Aligned_cols=45 Identities=33% Similarity=0.501 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE 64 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~ 64 (208)
+.|.+|+..+.+. .++.- ||-+ ..|++..+|--.|..|.+.|+|.
T Consensus 2 ~~R~~Il~~L~~~--~~~~~---el~~----~l~~s~~~vs~hL~~L~~~glV~ 46 (47)
T PF01022_consen 2 PTRLRILKLLSEG--PLTVS---ELAE----ELGLSQSTVSHHLKKLREAGLVE 46 (47)
T ss_dssp HHHHHHHHHHTTS--SEEHH---HHHH----HHTS-HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHhC--CCchh---hHHH----hccccchHHHHHHHHHHHCcCee
Confidence 5688888888883 34444 5543 26999999999999999999996
No 182
>PRK10869 recombination and repair protein; Provisional
Probab=61.36 E-value=1.7e+02 Score=28.61 Aligned_cols=62 Identities=16% Similarity=0.191 Sum_probs=50.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCK 184 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~ 184 (208)
-..+...+.++...++.+..+|..|.+ .||++++.+.+.+..+.....+|.-.+.-+..|..
T Consensus 263 ~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~dp~~l~~ie~Rl~~l~~L~rKyg~~~~~~~~~~~ 327 (553)
T PRK10869 263 LSGVLDMLEEALIQIQEASDELRHYLDRLDLDPNRLAELEQRLSKQISLARKHHVSPEELPQHHQ 327 (553)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence 356777788888888888888888775 68999999999988888888888877777777754
No 183
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=61.01 E-value=7.2 Score=25.92 Aligned_cols=25 Identities=24% Similarity=0.523 Sum_probs=23.5
Q ss_pred cCCccchHHHHHHHhhhcCcccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
.|++..+|-.+++.|+++|+|....
T Consensus 35 ~g~s~~tv~r~l~~L~~~g~i~~~~ 59 (67)
T cd00092 35 LGLTRETVSRTLKELEEEGLISRRG 59 (67)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEecC
Confidence 7999999999999999999998875
No 184
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=60.96 E-value=96 Score=25.76 Aligned_cols=20 Identities=20% Similarity=0.366 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNN 107 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~ 107 (208)
.+..+++++..+.....++.
T Consensus 75 ~~~~l~~ELael~r~~~el~ 94 (194)
T PF08614_consen 75 KLAKLQEELAELYRSKGELA 94 (194)
T ss_dssp --------------------
T ss_pred cccccccccccccccccccc
Confidence 33333444444333333333
No 185
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=60.83 E-value=1.2e+02 Score=26.86 Aligned_cols=70 Identities=9% Similarity=0.072 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhc
Q psy2296 127 LQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 127 l~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f 198 (208)
-.++++++.+++.|..+.+.+.+ --|..+.+++.....+-..+..- .-+.+.+-.+..||..+.++..+.
T Consensus 162 e~e~ee~~erlk~le~E~s~LeE~~~~l~~ev~~L~~r~~ELe~~~El~--e~~~i~dl~~et~~l~p~die~~~ 234 (290)
T COG4026 162 EAEYEEVQERLKRLEVENSRLEEMLKKLPGEVYDLKKRWDELEPGVELP--EEELISDLVKETLNLAPKDIEGQG 234 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhchhHHHHHHHHHHHhcccccch--HHHHHHHHHHHHhccCchhcccee
Confidence 34444444444444444444443 12545555555444443332221 123444444668999988887643
No 186
>PRK10920 putative uroporphyrinogen III C-methyltransferase; Provisional
Probab=60.67 E-value=83 Score=29.58 Aligned_cols=83 Identities=11% Similarity=0.279 Sum_probs=49.5
Q ss_pred ccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 67 KIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 67 KiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
=+|.+-|||. .+...........|+.++..+..........++.... .-+..-..+-.++.++..++..|+..+..
T Consensus 49 a~g~g~y~~~--~qq~~~~~~~~~~L~~ql~~~~~~~~~~~~~l~~~~~--~~~~~l~~~e~~~~~l~~q~~~Lq~~~~~ 124 (390)
T PRK10920 49 AAGAGLYYHG--KQQAQNQTATNDALANQLTALQKAQESQKQELEGILK--QQAKALDQANRQQAALAKQLDELQQKVAT 124 (390)
T ss_pred HHhhHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4678888883 3444445666677777776665554443333332211 11122334445677888888888888888
Q ss_pred HhcCCHH
Q psy2296 147 YKNNDPD 153 (208)
Q Consensus 147 ~~~~Dp~ 153 (208)
+...+|.
T Consensus 125 ls~~~~~ 131 (390)
T PRK10920 125 ISGSDAK 131 (390)
T ss_pred HhCCChh
Confidence 8877765
No 187
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=60.47 E-value=40 Score=28.28 Aligned_cols=16 Identities=19% Similarity=0.412 Sum_probs=7.6
Q ss_pred CCccchHHHHHHHhhh
Q psy2296 44 GIISQSVKEILQSLVD 59 (208)
Q Consensus 44 GI~~~~VKdvlq~LVD 59 (208)
|.-..-|-|-.+.+++
T Consensus 83 GlLL~rvrde~~~~l~ 98 (189)
T PF10211_consen 83 GLLLLRVRDEYRMTLD 98 (189)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 4444444444444444
No 188
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=60.35 E-value=11 Score=29.83 Aligned_cols=62 Identities=19% Similarity=0.347 Sum_probs=49.2
Q ss_pred HHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 15 GLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 15 ~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
-+|+++=... .=|.. |+=-.+|+.+..+.-||+=+|.-|++-|+|.+.|=|-.-+|=+.=+.
T Consensus 10 eVM~ilW~~~-~~t~~---eI~~~l~~~~ews~sTV~TLl~RL~KKg~l~~~kdgr~~~y~pL~~~ 71 (123)
T COG3682 10 EVMEILWSRG-PATVR---EIIEELPADREWSYSTVKTLLNRLVKKGLLTRKKDGRAFRYSPLLTR 71 (123)
T ss_pred HHHHHHHHcC-CccHH---HHHHHHhhcccccHHHHHHHHHHHHhccchhhhhcCCeeeeecccCH
Confidence 3555555544 45667 88888888899999999999999999999999999987666555543
No 189
>KOG3647|consensus
Probab=60.33 E-value=1.3e+02 Score=27.33 Aligned_cols=132 Identities=17% Similarity=0.193 Sum_probs=0.0
Q ss_pred ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHH
Q psy2296 23 KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKE 102 (208)
Q Consensus 23 ~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~ 102 (208)
++..|.-- -++..|+. .+....|.-||++-|-..+|.+.+. +...+........|.++|+.-+.+
T Consensus 84 s~~~~~~~---~~~~aa~R--plel~e~Ekvlk~aIq~i~~~~q~~----------~~~Lnnvasdea~L~~Kierrk~E 148 (338)
T KOG3647|consen 84 SKELLHKE---SLMSAAQR--PLELLEVEKVLKSAIQAIQVRLQSS----------RAQLNNVASDEAALGSKIERRKAE 148 (338)
T ss_pred HHHHHHHH---HHHHHHcC--CccHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHhhHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHhccC-------CCChhH-HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy2296 103 LAQNNEALEKSMVGR-------GDSKNR-EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 103 i~~l~~~ie~~~~~r-------~~~~eR-~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aa 169 (208)
+..++.+++.+..-| +++++| .++-+.+=.--.-+.-|+.+|.......|.+.+..++..--+.+.+
T Consensus 149 lEr~rkRle~LqsiRP~~MdEyE~~EeeLqkly~~Y~l~f~nl~yL~~qldd~~rse~~rqeeaensm~~i~ekl 223 (338)
T KOG3647|consen 149 LERTRKRLEALQSIRPAHMDEYEDCEEELQKLYQRYFLRFHNLDYLKSQLDDRTRSEPIRQEEAENSMPFIPEKL 223 (338)
T ss_pred HHHHHHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhhhhHHHHHHHHhcchhhHHHh
No 190
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=60.28 E-value=4.9 Score=33.91 Aligned_cols=29 Identities=21% Similarity=0.402 Sum_probs=25.5
Q ss_pred cCCccchHHHHHHHhhhcCcccccc-cccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK-IGTS 71 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK-iGts 71 (208)
-||+-+||..-|+.|+++|+|...+ .||.
T Consensus 34 ~gVSR~TVR~Al~~L~~eGli~r~~G~GTf 63 (233)
T TIGR02404 34 YGASRETVRKALNLLTEAGYIQKIQGKGSI 63 (233)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEeCCceEE
Confidence 5999999999999999999998875 5553
No 191
>PF09440 eIF3_N: eIF3 subunit 6 N terminal domain; InterPro: IPR019010 This entry represents the N-terminal domain of subunit 6 (or e) (eIF3e) of the translation initiation factor eIF3. EIF3 is required in protein synthesis in mammalian cells and, together with other initiation factors, stimulates binding of initiator methionyl-tRNAi and mRNA to the 40S ribosomal subunit to form the 48 S initiation complex []. The eIF3 complex also prevents premature association of the 40 and 60 S ribosomal subunits and interacts with other initiation factors involved in start codon selection. EIF3 has at least 13 protein components (eIF3a-m or 1-13), where subunits h, i, k, and m are likely to be on the periphery of the complex []. Subunit 6 is produced by the int6 gene, one of the frequent integration sites for mouse mammary tumor viruses [].
Probab=60.24 E-value=73 Score=25.41 Aligned_cols=59 Identities=20% Similarity=0.421 Sum_probs=40.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhc
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f 198 (208)
..|...++++.+|+.+...+-.=+ .||+.+..++. |.- ...+|+.+.+|+..+.++.-|
T Consensus 69 ~kr~~Vl~~l~~l~~~~~~v~~~~-----~~~ev~~~l~~-------------dk~-~nl~~L~~~h~it~e~id~LY 127 (133)
T PF09440_consen 69 EKREEVLAELKELEEETEPVLELL-----EDPEVVKNLRS-------------DKK-QNLEYLEENHGITPEMIDALY 127 (133)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-----cCHHHHHHHHc-------------cHH-HHHHHHHHhcCCCHHHHHHHH
Confidence 357777777777776665554322 27988887765 332 346799999999999988743
No 192
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=59.56 E-value=69 Score=24.37 Aligned_cols=30 Identities=7% Similarity=0.161 Sum_probs=15.4
Q ss_pred HHHHHHHHHhhhhhhHHHHHHHHHhhcCCC
Q psy2296 161 TAQRAKEAANRWTDNLFSLKSWCKNKFGLE 190 (208)
Q Consensus 161 ~~~~~k~aanrwTDNI~~l~~~~~~k~~~~ 190 (208)
+...+...+.+|.|+-..+.......+|+-
T Consensus 49 ~n~~L~~eI~~L~~~~dyiEe~AR~~Lg~v 78 (105)
T PRK00888 49 RNDQLFAEIDDLKGGQEAIEERARNELGMV 78 (105)
T ss_pred HHHHHHHHHHHhhCcHHHHHHHHHHHcCCC
Confidence 333444445555555455555555666653
No 193
>PRK10636 putative ABC transporter ATP-binding protein; Provisional
Probab=59.51 E-value=52 Score=32.46 Aligned_cols=26 Identities=15% Similarity=0.050 Sum_probs=15.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 123 REDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
-..+..++.+++.+++.+..+.+.+.
T Consensus 600 ~~~~~~~~~~~~~~l~~~~~~w~~l~ 625 (638)
T PRK10636 600 LTACLQQQASAKSGLEECEMAWLEAQ 625 (638)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555566666666666666665555
No 194
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=59.35 E-value=1.4e+02 Score=29.62 Aligned_cols=61 Identities=16% Similarity=0.330 Sum_probs=29.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh--hhhhHHHHHHHHHh
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANR--WTDNLFSLKSWCKN 185 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanr--wTDNI~~l~~~~~~ 185 (208)
.+...++.+++.++.+.+.+..++....+ .+.+|..+....-..+|| +|.=|+-|+.-++|
T Consensus 440 ~e~~~~~~~ik~~r~~~k~~~~e~~~Kee----~~~qL~~e~e~~~k~~~Rs~Yt~RIlEIv~NI~K 502 (594)
T PF05667_consen 440 SESKQKLQEIKELREEIKEIEEEIRQKEE----LYKQLVKELEKLPKDVNRSAYTRRILEIVKNIRK 502 (594)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhHHH
Confidence 34555666666666666666555544332 333333333333333333 45555555444443
No 195
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=59.31 E-value=10 Score=27.13 Aligned_cols=48 Identities=31% Similarity=0.472 Sum_probs=34.9
Q ss_pred hhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc-ceeEeeccchh
Q psy2296 26 FFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT-STYFWSFPNKA 81 (208)
Q Consensus 26 ~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt-sN~YWsFps~~ 81 (208)
+.+.+ ||=+ ..|+++-.|..+++.|+..|+|.+.+ |. +-|+=+-|.+.
T Consensus 25 ~~s~~---eiA~----~~~i~~~~l~kil~~L~~~Gli~s~~-G~~GGy~L~~~~~~ 73 (83)
T PF02082_consen 25 PVSSK---EIAE----RLGISPSYLRKILQKLKKAGLIESSR-GRGGGYRLARPPEE 73 (83)
T ss_dssp -BEHH---HHHH----HHTS-HHHHHHHHHHHHHTTSEEEET-STTSEEEESS-CCG
T ss_pred CCCHH---HHHH----HHCcCHHHHHHHHHHHhhCCeeEecC-CCCCceeecCCHHH
Confidence 57777 6533 37999999999999999999999887 64 66665555543
No 196
>PRK14127 cell division protein GpsB; Provisional
Probab=59.16 E-value=82 Score=24.41 Aligned_cols=74 Identities=15% Similarity=0.312 Sum_probs=48.4
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-----
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR----- 117 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r----- 117 (208)
.|..+--|-+.|+..++| ...+...+..|++++..++.++.+++.++.......
T Consensus 21 RGYd~~EVD~FLd~V~~d---------------------ye~l~~e~~~Lk~e~~~l~~~l~e~~~~~~~~~~~~~~~~~ 79 (109)
T PRK14127 21 RGYDQDEVDKFLDDVIKD---------------------YEAFQKEIEELQQENARLKAQVDELTKQVSVGASSSSVATT 79 (109)
T ss_pred CCCCHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccc
Confidence 599999999999988873 333455666777777777777777776665432211
Q ss_pred --CCChhHHHHHHHHHHHHHHH
Q psy2296 118 --GDSKNREDFLQEVGNISKEL 137 (208)
Q Consensus 118 --~~~~eR~~ll~~l~~L~~~~ 137 (208)
..+..-=.+|+++..|++.+
T Consensus 80 ~~~~~~tn~DiLKRls~LEk~V 101 (109)
T PRK14127 80 QPSSSATNYDILKRLSNLEKHV 101 (109)
T ss_pred CCCCCcchHHHHHHHHHHHHHH
Confidence 11234556777777776654
No 197
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=59.16 E-value=16 Score=31.88 Aligned_cols=57 Identities=12% Similarity=0.202 Sum_probs=48.9
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
..|++.=+|--.||++|..+..-.++. ||= +..|++.-||=-+|++|++.|+|..+.
T Consensus 18 ~~~~~sl~r~l~IL~~~~~~~~~~tl~---eIa----~~lglpkStv~RlL~tL~~~G~l~~~~ 74 (271)
T PRK10163 18 QKGAQALERGIAILQYLEKSGGSSSVS---DIS----LNLDLPLSTTFRLLKVLQAADFVYQDS 74 (271)
T ss_pred cccchHHHHHHHHHHHHHhCCCCcCHH---HHH----HHHCcCHHHHHHHHHHHHHCCCEEEcC
Confidence 357888889999999999887778999 764 337999999999999999999997763
No 198
>KOG0963|consensus
Probab=59.07 E-value=1.1e+02 Score=30.56 Aligned_cols=94 Identities=17% Similarity=0.194 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTA 162 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~ 162 (208)
.+....++.....|..+...+..++.....+...- ...=..+-++++.....+++++++|..++ -++.+++++
T Consensus 281 ~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~e~~--~~qI~~le~~l~~~~~~leel~~kL~~~s-----DYeeIK~EL 353 (629)
T KOG0963|consen 281 DALGSVLNQKDSEIAQLSNDIERLEASLVEEREKH--KAQISALEKELKAKISELEELKEKLNSRS-----DYEEIKKEL 353 (629)
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhhc-----cHHHHHHHH
Confidence 33333444444444444444444444433222110 01123344445555555556666665554 356677788
Q ss_pred HHHHH-------HHhhhhhhHHHHHHHH
Q psy2296 163 QRAKE-------AANRWTDNLFSLKSWC 183 (208)
Q Consensus 163 ~~~k~-------aanrwTDNI~~l~~~~ 183 (208)
.+++. .|+-|.++...+-+-+
T Consensus 354 siLk~ief~~se~a~~~~~~~~~leslL 381 (629)
T KOG0963|consen 354 SILKAIEFGDSEEANDEDETAKTLESLL 381 (629)
T ss_pred HHHHHhhcCCcccccccccccchHHHHH
Confidence 87765 5667766666666655
No 199
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=58.72 E-value=74 Score=30.77 Aligned_cols=15 Identities=33% Similarity=0.556 Sum_probs=7.4
Q ss_pred CCccchHHHHHHHhh
Q psy2296 44 GIISQSVKEILQSLV 58 (208)
Q Consensus 44 GI~~~~VKdvlq~LV 58 (208)
||-.-|=.|-|-.||
T Consensus 51 GiegDTP~DTlrTlv 65 (472)
T TIGR03752 51 GIEGDTPADTLRTLV 65 (472)
T ss_pred CCCCCCccchHHHHH
Confidence 555544444444444
No 200
>PRK09039 hypothetical protein; Validated
Probab=58.48 E-value=1e+02 Score=28.29 Aligned_cols=29 Identities=24% Similarity=0.359 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
..+..|+.+|+.++..+..++..|+.+..
T Consensus 137 ~~V~~L~~qI~aLr~Qla~le~~L~~ae~ 165 (343)
T PRK09039 137 AQVELLNQQIAALRRQLAALEAALDASEK 165 (343)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555666777777777777777766654
No 201
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=58.35 E-value=7.1 Score=25.59 Aligned_cols=24 Identities=38% Similarity=0.612 Sum_probs=21.9
Q ss_pred cCCccchHHHHHHHhhhcCccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
.||+..+|-..+..|.+.|+|...
T Consensus 35 ~~is~~~v~~~l~~L~~~G~i~~~ 58 (66)
T cd07377 35 LGVSRTTVREALRELEAEGLVERR 58 (66)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEec
Confidence 599999999999999999998754
No 202
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=58.22 E-value=1.7e+02 Score=29.86 Aligned_cols=84 Identities=18% Similarity=0.151 Sum_probs=39.2
Q ss_pred CCCCCHHHHHHH---HHHHhhhcc-------chhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccccee
Q psy2296 4 KKGLSVEEKRTG---LLELFHEKE-------EFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTY 73 (208)
Q Consensus 4 kkglS~eEKr~~---il~~f~~~~-------~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~ 73 (208)
-.|+++.+-..- +++.|+... -+..|| .+ +....||...+|-=-...|.-.-.+...-+|+||=
T Consensus 412 g~GtD~~eg~ala~aiLe~l~~~g~~viitTH~~eL~---~~---~~~~~~v~~~~~~~d~~~l~p~Ykl~~G~~g~S~a 485 (771)
T TIGR01069 412 GAGTDPDEGSALAISILEYLLKQNAQVLITTHYKELK---AL---MYNNEGVENASVLFDEETLSPTYKLLKGIPGESYA 485 (771)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhcCCEEEEECChHHHH---HH---hcCCCCeEEeEEEEcCCCCceEEEECCCCCCCcHH
Confidence 368888887644 677776522 123344 43 33335766555521011222222333334566554
Q ss_pred Eee-----ccchhhHHHHHHHHHHH
Q psy2296 74 FWS-----FPNKASDRVDCKLEKIT 93 (208)
Q Consensus 74 YWs-----Fps~~~~~~~~~~~~l~ 93 (208)
+.. ||..-....+..+....
T Consensus 486 ~~iA~~~Glp~~ii~~A~~~~~~~~ 510 (771)
T TIGR01069 486 FEIAQRYGIPHFIIEQAKTFYGEFK 510 (771)
T ss_pred HHHHHHhCcCHHHHHHHHHHHHhhH
Confidence 332 55554444444443333
No 203
>KOG0981|consensus
Probab=58.09 E-value=42 Score=33.45 Aligned_cols=59 Identities=24% Similarity=0.380 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGR---GDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
...++|+..|.+++..+.+++..+..++.++ ..+.++. ..+.+++.+.+|+.+|.+++-
T Consensus 636 ~smekl~~kI~~~keql~e~~~~l~~ak~~~~~~~~~~~~k----~~Ek~~k~~~~l~eqi~kl~~ 697 (759)
T KOG0981|consen 636 KSMEKLAEKIKAKKEQLKEAEAELKSAKADEKKQEGSKEKK----EVEKKEKKLERLEEQLKKLEI 697 (759)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccccccccc----cHHHHHHHHHHHHHHHHHHhh
Confidence 4467788888888888888888888887765 2333333 567777777777777777663
No 204
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=58.05 E-value=2e+02 Score=28.56 Aligned_cols=85 Identities=14% Similarity=0.304 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh------cCCHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK------NNDPDTLKL 157 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~------~~Dp~~i~~ 157 (208)
.....+++|+++++.+...+..+...++.... +...+..++.+.+.+...+..++.-.+ ...++-|++
T Consensus 325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~------~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~e~ni~k 398 (594)
T PF05667_consen 325 EQEQELEELQEQLDELESQIEELEAEIKMLKS------SLKQLEEELEEKEAENEELEEELKLKKKTVELLPDAEENIAK 398 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence 44555666666666666666666666655543 233444445555555555554444332 234566666
Q ss_pred HHHHHH----HHHHHHhhhhh
Q psy2296 158 IENTAQ----RAKEAANRWTD 174 (208)
Q Consensus 158 ~~~~~~----~~k~aanrwTD 174 (208)
+..-+. ....-++.|..
T Consensus 399 L~~~v~~s~~rl~~L~~qWe~ 419 (594)
T PF05667_consen 399 LQALVEASEQRLVELAQQWEK 419 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 655443 34445566653
No 205
>KOG4643|consensus
Probab=57.91 E-value=1.1e+02 Score=32.47 Aligned_cols=153 Identities=20% Similarity=0.243 Sum_probs=87.2
Q ss_pred HHHHHHHHHhhh-ccchhhhcchHHHH---hhccccc--CCccc--hHHHHHHHhhhcCcccccc--------cccceeE
Q psy2296 11 EKRTGLLELFHE-KEEFFQLKLIIELE---KLAPKEK--GIISQ--SVKEILQSLVDDGLVESEK--------IGTSTYF 74 (208)
Q Consensus 11 EKr~~il~~f~~-~~~~f~lK~~~ElE---K~~pK~~--GI~~~--~VKdvlq~LVDDglV~~EK--------iGtsN~Y 74 (208)
|+..+++..+.+ +..--+++ ||+ +.-++.- .|.+- -.++.+-+++||--+.+|+ ||-.--|
T Consensus 75 ete~a~~~~iaevtd~~~~vl---eld~~er~~~~q~~~hir~llk~r~~~~k~~id~~qe~se~i~e~~le~vGl~~~~ 151 (1195)
T KOG4643|consen 75 ETEMAQMRTIAEVTDEECQVL---ELDNEERAQKIQILEHIRLLLKDRKKKWKSVIDDLQEASEKIAEKLLELVGLEKKY 151 (1195)
T ss_pred HHHHHHHHHHHHhhhhHHhhh---hhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccee
Confidence 355666665555 44444445 444 3344410 11111 2356667777765555554 4766666
Q ss_pred eeccchh------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 75 WSFPNKA------SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 75 WsFps~~------~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
-.=|+.. +...-..-..|.-+++.++.+|..|+.++++- ++.-..+-++|..++.++..|+.+...+-
T Consensus 152 ~~s~s~~~~~~sp~~~~~~~~~hL~velAdle~kir~LrqElEEK------~enll~lr~eLddleae~~klrqe~~e~l 225 (1195)
T KOG4643|consen 152 RESRSGKELYKSPYDIVVKKNLHLEVELADLEKKIRTLRQELEEK------FENLLRLRNELDDLEAEISKLRQEIEEFL 225 (1195)
T ss_pred eccccCCCCCCCcchhhcchhHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555422 22233344567788888888888888777543 23334444556666666666666665554
Q ss_pred cCCHHHHHHHHHHHHHHHHHHhhhh
Q psy2296 149 NNDPDTLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 149 ~~Dp~~i~~~~~~~~~~k~aanrwT 173 (208)
. +..+...-+.++..+++.|.||.
T Consensus 226 ~-ea~ra~~yrdeldalre~aer~d 249 (1195)
T KOG4643|consen 226 D-EAHRADRYRDELDALREQAERPD 249 (1195)
T ss_pred H-HHHhhhhhhhHHHHHHHhhhcCC
Confidence 3 34455555667778888888885
No 206
>PF09730 BicD: Microtubule-associated protein Bicaudal-D; InterPro: IPR018477 BicD proteins consist of three coiled-coiled domains and are involved in dynein-mediated minus end-directed transport from the Golgi apparatus to the endoplasmic reticulum (ER) []. Glycogen synthase kinase-3beta (GSK-3beta) is required for the binding of BICD to dynein but not to dynactin, acting to maintain the anchoring of microtubules to the centromere []. It appears that amino-acid residues 437-617 of BicD and the kinase activity of GSK-3 are necessary for the formation of a complex between BicD and GSK-3beta in intact cells [].; GO: 0006810 transport, 0005794 Golgi apparatus
Probab=57.85 E-value=2.2e+02 Score=29.01 Aligned_cols=107 Identities=12% Similarity=0.172 Sum_probs=65.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHH-------HHHHHHHH-------HHHHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFL-------QEVGNISK-------ELELINKELEKY 147 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll-------~~l~~L~~-------~~~~l~~el~~~ 147 (208)
...+++++.....++..++.++..|+..+......-. .+..... .++..+.+ ++..|+++|...
T Consensus 354 ~eiLe~Ky~vav~Ev~~Lk~ELk~Lk~k~~~~~~~~~--~ek~~~~~e~q~L~ekl~~lek~~re~qeri~~LE~ELr~l 431 (717)
T PF09730_consen 354 LEILECKYKVAVSEVIQLKAELKALKSKYNELEERYK--QEKDRLESEVQNLKEKLMSLEKSSREDQERISELEKELRAL 431 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHH
Confidence 4456777777777777777777777776666555221 2223333 33333333 444455555444
Q ss_pred hcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHH
Q psy2296 148 KNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETAL 194 (208)
Q Consensus 148 ~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i 194 (208)
.. ....-...+..+.+.+--..|.+..|-+++|---|..|..+
T Consensus 432 ~~----~A~E~q~~LnsAQDELvtfSEeLAqLYHHVC~cNgeTPnRV 474 (717)
T PF09730_consen 432 SK----LAGESQGSLNSAQDELVTFSEELAQLYHHVCMCNGETPNRV 474 (717)
T ss_pred HH----HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCCCCccH
Confidence 43 23334445667778888889999999999987777766554
No 207
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=57.58 E-value=81 Score=30.53 Aligned_cols=57 Identities=7% Similarity=0.143 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
-+.++..-+...++++++++.++.+.+.+.. .+..+-+++++|+.++..|+.+++..
T Consensus 67 nqSALteqQ~kasELEKqLaaLrqElq~~sa------q~~dle~KIkeLEaE~~~Lk~Ql~a~ 123 (475)
T PRK13729 67 RQHATTEMQVTAAQMQKQYEEIRRELDVLNK------QRGDDQRRIEKLGQDNAALAEQVKAL 123 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh------hhhhHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444555555556666666655544443322 34455666778888888888887543
No 208
>PF04738 Lant_dehyd_C: Lantibiotic dehydratase, C terminus; InterPro: IPR006827 Lantibiotics are ribosomally synthesised antimicrobial agents derived from ribosomally synthesised peptides []. They are produced by bacteria of the Firmicutes phylum, and include mutacin, subtilin, and nisin. Lantibiotic peptides contain thioether bridges termed lanthionines that are thought to be generated by dehydration of serine and threonine residues followed by addition of cysteine residues []. This family constitutes the C terminus of the enzyme proposed to catalyse the dehydration step [, ].
Probab=57.53 E-value=52 Score=30.70 Aligned_cols=142 Identities=17% Similarity=0.177 Sum_probs=82.5
Q ss_pred hcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHH
Q psy2296 38 LAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKI----TAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 38 ~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l----~~~i~~~~~~i~~l~~~ie~~ 113 (208)
++..-.++.+..|..+|..||+.|++.++ |-.|.....-...-++.| ....+..-..+.++...++.-
T Consensus 10 L~~~~~~~~~~~v~~~L~~Li~~~~L~~~--------l~~p~~~~dpl~~L~~~L~~~~~~~~~~~~~~L~~l~~~~~~~ 81 (500)
T PF04738_consen 10 LAKEFPEAEAERVENYLRQLIEQGFLISE--------LRPPLTGPDPLEYLIERLAPEDIPAAAEWLARLEELQALIDEY 81 (500)
T ss_pred HHHhCCCCCHHHHHHHHHHHHHCCEEEec--------CCCCCCCcCHHHHHHHHhcccCCchHHHHHHHHHHHHHHHHHh
Confidence 33332489999999999999999999887 777777777777777776 112333444555555555444
Q ss_pred hccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH--Hh---------cCCHHHHHHHHHHHHHHHHHHhh--hhhhHHHHH
Q psy2296 114 MVGRGDSKNREDFLQEVGNISKELELINKELEK--YK---------NNDPDTLKLIENTAQRAKEAANR--WTDNLFSLK 180 (208)
Q Consensus 114 ~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~--~~---------~~Dp~~i~~~~~~~~~~k~aanr--wTDNI~~l~ 180 (208)
.. .+-.+|...+.++.+.-.++...... .. |. ..+...++.+.+.+..+..-.-. |..-.....
T Consensus 82 ~~--~~~~~~~~~l~~i~~~~~~l~~~~~~-~~~l~~D~~~~~~~~~l~~~~~~~l~~~l~~l~~l~~~~~~~~~l~~~~ 158 (500)
T PF04738_consen 82 ED--ADLGERIAALAEIEERFSELTGEPAR-RNLLYVDRTLDYEEITLGRNVLDELEEALELLLRLSPWYAGNQYLEEYK 158 (500)
T ss_pred hc--CCcccchhHHHHHHHHHHHHhccccc-CcceEEEEeeccccccCCHHHHHHHHHHHHHHHHhccCcCccHHHHHHH
Confidence 33 34567777777766665555411110 11 11 13455556665555544432222 223344555
Q ss_pred HHHHhhcCCC
Q psy2296 181 SWCKNKFGLE 190 (208)
Q Consensus 181 ~~~~~k~~~~ 190 (208)
..+..+||..
T Consensus 159 ~~F~e~yg~~ 168 (500)
T PF04738_consen 159 EAFIERYGEG 168 (500)
T ss_pred HHHHHHhCCC
Confidence 5567788763
No 209
>PHA01750 hypothetical protein
Probab=57.27 E-value=25 Score=25.21 Aligned_cols=28 Identities=18% Similarity=0.383 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+..+.+|..++++++.++.++++++.+.
T Consensus 41 ~~ELdNL~~ei~~~kikqDnl~~qv~ei 68 (75)
T PHA01750 41 NSELDNLKTEIEELKIKQDELSRQVEEI 68 (75)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 3344445555555555555555444443
No 210
>COG5124 Protein predicted to be involved in meiotic recombination [Cell division and chromosome partitioning / General function prediction only]
Probab=57.23 E-value=1.1e+02 Score=26.01 Aligned_cols=110 Identities=15% Similarity=0.238 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCHHHHHHH--
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN--NDPDTLKLI-- 158 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~--~Dp~~i~~~-- 158 (208)
..++.+++++...+..+...|......-.+.-...+.+..|.+|++..+.-+.+++.--..|+...- ||...++..
T Consensus 85 ~~l~~~~~~~kqdi~t~~e~i~~ek~~r~k~~Te~~~n~~~~~Ll~~~k~eqd~~k~~l~~l~~~~pi~~d~~~~~~kk~ 164 (209)
T COG5124 85 ELLKKKIQEVKQDIATYKEEIDKEKATRRKKFTEGQKNYNREALLEKRKKEQDEIKKKLNSLQKIEPIRWDAAKIQEKKK 164 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHhhhcccccchhhHHHHHHHHHHHHHHHHHHHHhccccccCchhHHHHhhhHHHH
Confidence 3467788899999999999888877664444444456789999998888888777755555666553 665555544
Q ss_pred HHHHHHHHHHHhhhhhhHH----HHHHHHHhhcCCCHH
Q psy2296 159 ENTAQRAKEAANRWTDNLF----SLKSWCKNKFGLEET 192 (208)
Q Consensus 159 ~~~~~~~k~aanrwTDNI~----~l~~~~~~k~~~~~~ 192 (208)
...++...+.+...-|=++ +=.+-+.+-||+++.
T Consensus 165 ~~~~n~~tDnI~ilidy~c~kf~~~~~qir~~fgIPed 202 (209)
T COG5124 165 KVHLNKTTDNIEILIDYLCKKFFLKPEQIRKEFGIPED 202 (209)
T ss_pred HHHHHhhhhhHHHHHHHHHHHcCCCHHHHHHhcCCCcc
Confidence 4455666777777666333 334455677899764
No 211
>PRK09764 DNA-binding transcriptional repressor MngR; Provisional
Probab=57.15 E-value=6.1 Score=33.67 Aligned_cols=30 Identities=30% Similarity=0.464 Sum_probs=25.8
Q ss_pred cCCccchHHHHHHHhhhcCcccccc-cccce
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK-IGTST 72 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK-iGtsN 72 (208)
-||+-+||...|+.|+.+|+|...+ .||..
T Consensus 39 ~~VSR~TvR~Al~~L~~eGli~r~~G~GtfV 69 (240)
T PRK09764 39 FGVSRVTVRQALRQLVEQQILESIQGSGTYV 69 (240)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEecCceeEE
Confidence 6999999999999999999998654 66644
No 212
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=57.04 E-value=16 Score=31.26 Aligned_cols=56 Identities=18% Similarity=0.352 Sum_probs=48.3
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
+.|++.=+|--.||++|.....-.++. ||=+ ..|++.-||=-+|++|++.|+|..+
T Consensus 2 ~~~v~sl~ral~IL~~l~~~~~~~~l~---eia~----~lglpksT~~RlL~tL~~~G~l~~~ 57 (248)
T TIGR02431 2 RDFVASLARGLAVIEAFGAERPRLTLT---DVAE----ATGLTRAAARRFLLTLVELGYVTSD 57 (248)
T ss_pred cchHHHHHHHHHHHHHHhcCCCCCCHH---HHHH----HHCcCHHHHHHHHHHHHHCCCEEeC
Confidence 356666678999999999988899999 8754 3799999999999999999999875
No 213
>COG2331 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=56.96 E-value=6.1 Score=29.00 Aligned_cols=21 Identities=29% Similarity=0.502 Sum_probs=19.6
Q ss_pred HHHHHHHhhhcCccccccccc
Q psy2296 50 VKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 50 VKdvlq~LVDDglV~~EKiGt 70 (208)
..||||.+-||-++.++.||.
T Consensus 21 ~~dvvq~~~ddplt~ce~c~a 41 (82)
T COG2331 21 RFDVVQAMTDDPLTTCEECGA 41 (82)
T ss_pred HHHHHHhcccCccccChhhCh
Confidence 589999999999999999985
No 214
>PRK11147 ABC transporter ATPase component; Reviewed
Probab=56.81 E-value=56 Score=32.11 Aligned_cols=19 Identities=16% Similarity=0.366 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2296 126 FLQEVGNISKELELINKEL 144 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el 144 (208)
+-+++..|..+++.+.+++
T Consensus 573 ~e~~i~~le~~~~~~~~~~ 591 (635)
T PRK11147 573 LPQLLEDLEAEIEALQAQV 591 (635)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3444555555555555555
No 215
>cd00584 Prefoldin_alpha Prefoldin alpha subunit; Prefoldin is a hexameric molecular chaperone complex, found in both eukaryotes and archaea, that binds and stabilizes newly synthesized polypeptides allowing them to fold correctly. The complex contains two alpha and four beta subunits, the two subunits being evolutionarily related. In archaea, there is usually only one gene for each subunit while in eukaryotes there two or more paralogous genes encoding each subunit adding heterogeneity to the structure of the hexamer. The structure of the complex consists of a double beta barrel assembly with six protruding coiled-coils.
Probab=56.76 E-value=42 Score=25.77 Aligned_cols=47 Identities=30% Similarity=0.410 Sum_probs=35.4
Q ss_pred ccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 67 KIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 67 KiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
.+|++-|-..=..++..-..++++.|++.++.++..+..+++.+...
T Consensus 74 ~iG~g~~vE~~~~eA~~~l~~r~~~l~~~~~~l~~~l~~l~~~~~~~ 120 (129)
T cd00584 74 DLGTGYYVEKDLEEAIEFLDKKIEELTKQIEKLQKELAKLKDQINTL 120 (129)
T ss_pred EcCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36876666666667888888888888888888888888877776654
No 216
>PF08657 DASH_Spc34: DASH complex subunit Spc34 ; InterPro: IPR013966 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ]. Components of the DASH complex, including Dam1, Duo1, Spc34, Dad1 and Ask1, are essential and connect the centromere to the plus end of spindle microtubules [].
Probab=56.75 E-value=89 Score=27.72 Aligned_cols=43 Identities=14% Similarity=0.306 Sum_probs=33.0
Q ss_pred eeccc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q psy2296 75 WSFPN--KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR 117 (208)
Q Consensus 75 WsFps--~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r 117 (208)
|-.|+ +....++.+++.+..+|+.++.++++-+.+++......
T Consensus 173 YP~~ga~eki~~Lr~~y~~l~~~i~~lE~~VaeQ~~qL~~~n~~~ 217 (259)
T PF08657_consen 173 YPLPGAREKIAALRQRYNQLSNSIAYLEAEVAEQEAQLERMNRSS 217 (259)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 44444 45566777888888999999999999888888886654
No 217
>TIGR00293 prefoldin, archaeal alpha subunit/eukaryotic subunit 5. This model finds a set of small proteins from the Archaea and from Aquifex aeolicus that may represent two orthologous groups. The proteins are predicted to be mostly coiled coil, and may hit large numbers of proteins that contain coiled coil regions.
Probab=56.40 E-value=44 Score=25.56 Aligned_cols=46 Identities=20% Similarity=0.290 Sum_probs=33.2
Q ss_pred cccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 68 IGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 68 iGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+|++-|-..=..++..-+.++++.|.+.++.++..+..+++.+...
T Consensus 74 iG~g~~vE~~~~eA~~~l~~~~~~l~~~~~~l~~~l~~l~~~~~~i 119 (126)
T TIGR00293 74 IGSGYYVEKDAEEAIEFLKKRIEELEKAIEKLQEALAELASRAQQL 119 (126)
T ss_pred cCCCEEEEecHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555567777788888888888888888888877776554
No 218
>PHA02104 hypothetical protein
Probab=56.40 E-value=5.8 Score=28.87 Aligned_cols=10 Identities=60% Similarity=1.318 Sum_probs=8.3
Q ss_pred ceeEeeccch
Q psy2296 71 STYFWSFPNK 80 (208)
Q Consensus 71 sN~YWsFps~ 80 (208)
+.+||.||.-
T Consensus 34 ~ti~w~fp~i 43 (89)
T PHA02104 34 STIFWTFPGI 43 (89)
T ss_pred eEEEEecCCc
Confidence 5789999974
No 219
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=56.33 E-value=7.8 Score=26.69 Aligned_cols=34 Identities=24% Similarity=0.391 Sum_probs=21.9
Q ss_pred HHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHH
Q psy2296 16 LLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEIL 54 (208)
Q Consensus 16 il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvl 54 (208)
+.++|. ++-+..=. ||+.++.| .|++.+.|++--
T Consensus 13 L~~Yy~-~h~~L~E~---DL~~L~~k-S~ms~qqVr~WF 46 (56)
T PF11569_consen 13 LEDYYL-KHKQLQEE---DLDELCDK-SRMSYQQVRDWF 46 (56)
T ss_dssp HHHHHH-HT----TT---HHHHHHHH-TT--HHHHHHHH
T ss_pred HHHHHH-HcCCccHh---hHHHHHHH-HCCCHHHHHHHH
Confidence 445555 55555559 99999999 999999998753
No 220
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=56.18 E-value=7.9 Score=29.63 Aligned_cols=59 Identities=29% Similarity=0.380 Sum_probs=40.1
Q ss_pred HHHHHHhhhc--cchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc-ceeEeeccch
Q psy2296 14 TGLLELFHEK--EEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT-STYFWSFPNK 80 (208)
Q Consensus 14 ~~il~~f~~~--~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt-sN~YWsFps~ 80 (208)
-++|-++... ....+.. ||- .. .||++.+|..+++.|++.|+|.... |. ..|.++-|..
T Consensus 11 l~~l~~la~~~~~~~~s~~---eia---~~-~~i~~~~v~~il~~L~~~gli~~~~-g~~ggy~l~~~~~ 72 (132)
T TIGR00738 11 LRALLDLALNPDEGPVSVK---EIA---ER-QGISRSYLEKILRTLRRAGLVESVR-GPGGGYRLARPPE 72 (132)
T ss_pred HHHHHHHHhCCCCCcCcHH---HHH---HH-HCcCHHHHHHHHHHHHHCCcEEecc-CCCCCccCCCCHH
Confidence 3445555433 3477777 663 23 7999999999999999999998754 43 3455554443
No 221
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=56.09 E-value=11 Score=26.73 Aligned_cols=47 Identities=28% Similarity=0.488 Sum_probs=35.9
Q ss_pred cchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 24 EEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 24 ~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
..--.+. +|=.++.. -||.+.+|.=-|--|+.+|++..++.|-..+|
T Consensus 18 g~~i~~~---~Li~ll~~-~Gv~e~avR~alsRl~~~G~L~~~r~Gr~~~Y 64 (70)
T PF07848_consen 18 GGWIWVA---SLIRLLAA-FGVSESAVRTALSRLVRRGWLESERRGRRSYY 64 (70)
T ss_dssp TS-EEHH---HHHHHHCC-TT--HHHHHHHHHHHHHTTSEEEECCCTEEEE
T ss_pred CCceeHH---HHHHHHHH-cCCChHHHHHHHHHHHHcCceeeeecCccceE
Confidence 3334555 66666666 79999999999999999999999999986555
No 222
>PF03551 PadR: Transcriptional regulator PadR-like family; InterPro: IPR005149 Phenolic acids, also called substituted hydroxycinnamic acids, are abundant in the plant kingdom because they are involved in the structure of plant cell walls and are present in some vacuoles. In plant-soil ecosystems they are released as free acids by hemicellulases produced by several fungi and bacteria. Of these weak acids, the most abundant are p-coumaric, ferulic, and caffeic acids, considered to be natural toxins that inhibit the growth of microorganisms, especially at low pHs. In spite of this chemical stress, some bacteria can use phenolic acids as a sole source of carbon. For other microorganisms, these compounds induce a specific response by which the organism adapts to its environment. The ubiquitous lactic acid bacterium Lactobacillus plantarum exhibits an inducible phenolic acid decarboxylase (PAD) activity which converts these substrates into less-toxic vinyl phenol derivatives. PadR acts as a repressor of padA gene expression in the phenolic acid stress response [].; PDB: 1XMA_B 2ESH_A 2DQL_B 3L9F_C 3ELK_B 4EJO_B 3L7W_A 3HHH_A 1YG2_A 3F8B_A ....
Probab=55.97 E-value=17 Score=25.23 Aligned_cols=37 Identities=30% Similarity=0.233 Sum_probs=31.3
Q ss_pred HHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 33 IELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 33 ~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
.+|+...+....|++-+|=-.|+.|.++|+|.+.-..
T Consensus 17 ~~l~~~~~~~~~i~~g~lY~~L~~Le~~gli~~~~~~ 53 (75)
T PF03551_consen 17 QELEERTGGFWKISPGSLYPALKRLEEEGLIESRWEE 53 (75)
T ss_dssp HHHHHCSTTTEETTHHHHHHHHHHHHHTTSEEEEEEE
T ss_pred HHHHHHhCCCcccChhHHHHHHHHHHhCCCEEEeeec
Confidence 3788776665789999999999999999999987655
No 223
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=55.81 E-value=53 Score=22.24 Aligned_cols=45 Identities=20% Similarity=0.315 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 102 ELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 102 ~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.+.++...+..+..+|. -+|...-.++.+|..++..|..+|...+
T Consensus 5 Rl~ELe~klkaerE~R~--~d~~~a~~rl~~l~~EN~~Lr~eL~~~r 49 (52)
T PF12808_consen 5 RLEELERKLKAEREARS--LDRSAARKRLSKLEGENRLLRAELERLR 49 (52)
T ss_pred HHHHHHHHHHHhHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45566666666666663 4677888899999999999999997654
No 224
>PRK13509 transcriptional repressor UlaR; Provisional
Probab=55.71 E-value=20 Score=31.09 Aligned_cols=55 Identities=18% Similarity=0.322 Sum_probs=45.9
Q ss_pred CHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc
Q psy2296 8 SVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 8 S~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
..+|.+.+|++++.+ +.+.+++ ||-.. -||+.+||.--|..|...|+|..-.-|.
T Consensus 2 ~~~~R~~~Il~~l~~-~~~~~~~---ela~~----l~vS~~TirRdL~~Le~~g~i~r~~gga 56 (251)
T PRK13509 2 TEAQRHQILLELLAQ-LGFVTVE---KVIER----LGISPATARRDINKLDESGKLKKVRNGA 56 (251)
T ss_pred CHHHHHHHHHHHHHH-cCCcCHH---HHHHH----HCcCHHHHHHHHHHHHHCCCEEEecCCc
Confidence 467899999999996 6788888 87665 5899999998899999999997655554
No 225
>TIGR01843 type_I_hlyD type I secretion membrane fusion protein, HlyD family. Type I secretion is an ABC transport process that exports proteins, without cleavage of any signal sequence, from the cytosol to extracellular medium across both inner and outer membranes. The secretion signal is found in the C-terminus of the transported protein. This model represents the adaptor protein between the ATP-binding cassette (ABC) protein of the inner membrane and the outer membrane protein, and is called the membrane fusion protein. This model selects a subfamily closely related to HlyD; it is defined narrowly and excludes, for example, colicin V secretion protein CvaA and multidrug efflux proteins.
Probab=55.51 E-value=94 Score=28.00 Aligned_cols=84 Identities=19% Similarity=0.280 Sum_probs=0.0
Q ss_pred HHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC--CCChhHHHHHHH
Q psy2296 52 EILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR--GDSKNREDFLQE 129 (208)
Q Consensus 52 dvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r--~~~~eR~~ll~~ 129 (208)
+-.+.|+++|+|. .......+..+..++.++..++..+..++..++...... .....+.....+
T Consensus 182 ~~~~~L~~~g~is--------------~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 247 (423)
T TIGR01843 182 EARRKLKEKGLVS--------------RLELLELERERAEAQGELGRLEAELEVLKRQIDELQLERQQIEQTFREEVLEE 247 (423)
T ss_pred HHHHHHHHcCCCC--------------HHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHHHHHhc
Q psy2296 130 VGNISKELELINKELEKYKN 149 (208)
Q Consensus 130 l~~L~~~~~~l~~el~~~~~ 149 (208)
+.+++.++..++.++..+..
T Consensus 248 l~~~~~~l~~~~~~l~~~~~ 267 (423)
T TIGR01843 248 LTEAQARLAELRERLNKARD 267 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHH
No 226
>COG5185 HEC1 Protein involved in chromosome segregation, interacts with SMC proteins [Cell division and chromosome partitioning]
Probab=55.41 E-value=1.9e+02 Score=28.43 Aligned_cols=52 Identities=12% Similarity=0.262 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q psy2296 128 QEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~ 180 (208)
++++.|+.....|..++.+- ...|+.++.|..+-..+-..+|+..--+..|.
T Consensus 344 eei~~L~~~~d~L~~q~~kq-~Is~e~fe~mn~Ere~L~reL~~i~~~~~~L~ 395 (622)
T COG5185 344 EEIKALQSNIDELHKQLRKQ-GISTEQFELMNQEREKLTRELDKINIQSDKLT 395 (622)
T ss_pred HHHHHHHhhHHHHHHHHHhc-CCCHHHHHHHHHHHHHHHHHHHHhcchHHHHH
Confidence 34444444444444444432 24577777777666666666666554444433
No 227
>TIGR01010 BexC_CtrB_KpsE polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family. This family contains gamma proteobacterial proteins involved in capsule polysaccharide export.
Probab=54.86 E-value=1.6e+02 Score=26.52 Aligned_cols=79 Identities=13% Similarity=0.251 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCC--C-ChhHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSMVGRG--D-SKNREDFLQEVGNISKELELINKELEKYKN----NDPDTLKLIEN 160 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~--~-~~eR~~ll~~l~~L~~~~~~l~~el~~~~~----~Dp~~i~~~~~ 160 (208)
.+.-+++++..++.++.+.+.++..-+.... + ..........+.+|+.++..++.++..+.. ..|..+ .++.
T Consensus 171 a~~fl~~ql~~~~~~l~~ae~~l~~fr~~~~~~d~~~~~~~~~~~i~~L~~~l~~~~~~l~~l~~~~~~~~P~v~-~l~~ 249 (362)
T TIGR01010 171 TIAFAENEVKEAEQRLNATKAELLKYQIKNKVFDPKAQSSAQLSLISTLEGELIRVQAQLAQLRSITPEQNPQVP-SLQA 249 (362)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCCCCchH-HHHH
Confidence 3344556666666666666666665554332 2 233556778899999999999999988764 246543 3333
Q ss_pred HHHHHHH
Q psy2296 161 TAQRAKE 167 (208)
Q Consensus 161 ~~~~~k~ 167 (208)
++..+..
T Consensus 250 ~i~~l~~ 256 (362)
T TIGR01010 250 RIKSLRK 256 (362)
T ss_pred HHHHHHH
Confidence 4333333
No 228
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=54.57 E-value=97 Score=23.81 Aligned_cols=53 Identities=19% Similarity=0.371 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+...+..+++.+..+-.++.+|+..+ ..++++-..|+-++..|...|.....
T Consensus 5 ~l~~~l~~le~~l~~l~~~~~~LK~~~-------------~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 5 ELFDRLDQLEQQLGQLLEELEELKKQL-------------QELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344556666666666666666666555 55677777777888888777777654
No 229
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=54.57 E-value=2.9e+02 Score=29.38 Aligned_cols=18 Identities=33% Similarity=0.530 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQN 106 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l 106 (208)
+..+..+++.++.+...+
T Consensus 399 l~~l~~~i~~l~~~~~~~ 416 (1163)
T COG1196 399 LEELKREIESLEERLERL 416 (1163)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 333333333333333333
No 230
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=54.40 E-value=1.4e+02 Score=25.63 Aligned_cols=112 Identities=13% Similarity=0.224 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC------------CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcC-
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR------------GDSKNREDFLQEVGNISKELELINKELEKYKNN- 150 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r------------~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~- 150 (208)
.+..++..+......+..-+.+....|..+.... .-..+|..+...|..+......|...+++++..
T Consensus 27 ~l~~k~~e~~~~~~~m~~i~~e~Ek~i~~~i~e~~~~~~~~~~~i~~~~~erdq~~~dL~s~E~sfsdl~~ryek~K~vi 106 (207)
T PF05010_consen 27 ELKKKYEELHKENQEMRKIMEEYEKTIAQMIEEKQKQKELSEAEIQKLLKERDQAYADLNSLEKSFSDLHKRYEKQKEVI 106 (207)
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhhHHhHHHHHHHHHhhHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555444433221 012356666666666665555555555544431
Q ss_pred -C-HHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHh
Q psy2296 151 -D-PDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALN 195 (208)
Q Consensus 151 -D-p~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~ 195 (208)
+ -.--+.+++.+..+.+.+..|+.-+-+|+.|.-.+...-..+|.
T Consensus 107 ~~~k~NEE~Lkk~~~ey~~~l~~~eqry~aLK~hAeekL~~ANeei~ 153 (207)
T PF05010_consen 107 EGYKKNEETLKKCIEEYEERLKKEEQRYQALKAHAEEKLEKANEEIA 153 (207)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 01113455666777777888888888998888777655554443
No 231
>PRK10906 DNA-binding transcriptional repressor GlpR; Provisional
Probab=54.39 E-value=19 Score=31.27 Aligned_cols=56 Identities=14% Similarity=0.329 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
|..++.+..|++++.+ +.+.+++ ||-... ||+.+||.=-|..|-+.|+|.--.=|.
T Consensus 1 m~~~~R~~~Il~~l~~-~~~~~~~---ela~~l----~vS~~TiRRdL~~Le~~g~l~r~~GGa 56 (252)
T PRK10906 1 MKQTQRHDAIIELVKQ-QGYVSTE---ELVEHF----SVSPQTIRRDLNDLAEQNKILRHHGGA 56 (252)
T ss_pred CCHHHHHHHHHHHHHH-cCCEeHH---HHHHHh----CCCHHHHHHHHHHHHHCCCEEEecCCE
Confidence 3467899999999955 5578899 988755 999999988899999999997554454
No 232
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=54.28 E-value=53 Score=23.28 Aligned_cols=60 Identities=18% Similarity=0.171 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
...+++.++.+..+++........|...=+.+.. .=.....+...|+.+++.|.++|+.+
T Consensus 7 ~~~Lr~rLd~~~rk~~~~~~~~k~L~~ERd~~~~------~l~~a~~e~~~Lk~E~e~L~~el~~~ 66 (69)
T PF14197_consen 7 IATLRNRLDSLTRKNSVHEIENKRLRRERDSAER------QLGDAYEENNKLKEENEALRKELEEL 66 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456667777777766666666655544333211 11223344555555555555555443
No 233
>PF02403 Seryl_tRNA_N: Seryl-tRNA synthetase N-terminal domain; InterPro: IPR015866 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the N-terminal domain of Seryl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Seryl-tRNA synthetase (6.1.1.11 from EC) exists as monomer and belongs to class IIa [].; GO: 0000166 nucleotide binding, 0004828 serine-tRNA ligase activity, 0005524 ATP binding, 0006434 seryl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3QO8_A 3QO5_A 3QO7_A 3QNE_A 3LSQ_A 3LSS_A 2DQ3_B 1SET_A 1SER_A 1SRY_B ....
Probab=53.80 E-value=83 Score=23.35 Aligned_cols=57 Identities=19% Similarity=0.324 Sum_probs=37.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC--H----HHHHHHHHHHHHHHHHHhhhhhhHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNND--P----DTLKLIENTAQRAKEAANRWTDNLF 177 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D--p----~~i~~~~~~~~~~k~aanrwTDNI~ 177 (208)
.+|..+..+++.|+.+...+.+++....... . +....++.++..+...+..+.+.+.
T Consensus 36 ~~~r~l~~~~e~lr~~rN~~sk~I~~~~~~~~~~~~l~~e~~~lk~~i~~le~~~~~~e~~l~ 98 (108)
T PF02403_consen 36 QERRELQQELEELRAERNELSKEIGKLKKAGEDAEELKAEVKELKEEIKELEEQLKELEEELN 98 (108)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCHTTCCTHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4789999999999999999999999988752 2 2233334444444444444444433
No 234
>TIGR00606 rad50 rad50. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=53.54 E-value=2.4e+02 Score=30.43 Aligned_cols=84 Identities=15% Similarity=0.210 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-------C--------CChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR-------G--------DSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r-------~--------~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
...+...++.+..+++.+...+.++...++...... . ...+-...+..+...-..+..+..++..
T Consensus 883 r~~le~~L~el~~el~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 962 (1311)
T TIGR00606 883 RQQFEEQLVELSTEVQSLIREIKDAKEQDSPLETFLEKDQQEKEELISSKETSNKKAQDKVNDIKEKVKNIHGYMKDIEN 962 (1311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444555555555555555555544444332211 0 0011122233344444555666666666
Q ss_pred HhcCC-HHHHHHHHHHHHHH
Q psy2296 147 YKNND-PDTLKLIENTAQRA 165 (208)
Q Consensus 147 ~~~~D-p~~i~~~~~~~~~~ 165 (208)
|-..+ |..++.+..++..+
T Consensus 963 y~~~~~~~qL~~~e~el~~~ 982 (1311)
T TIGR00606 963 KIQDGKDDYLKQKETELNTV 982 (1311)
T ss_pred HHHcCCHHHHHHHHHHHHHH
Confidence 66654 66677666655444
No 235
>PRK04863 mukB cell division protein MukB; Provisional
Probab=52.77 E-value=1.8e+02 Score=32.19 Aligned_cols=26 Identities=4% Similarity=0.143 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
.++...+.++..++..|+...+.+..
T Consensus 310 ~rI~diL~ELe~rL~kLEkQaEkA~k 335 (1486)
T PRK04863 310 VEMARELAELNEAESDLEQDYQAASD 335 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344444444444445544444443
No 236
>PF03492 Methyltransf_7: SAM dependent carboxyl methyltransferase; InterPro: IPR005299 This family of plant methyltransferases contains enzymes that act on a variety of substrates including salicylic acid, jasmonic acid and 7-Methylxanthine. Caffeine is synthesized through sequential three-step methylation of xanthine derivatives at positions 7-N, 3-N, and 1-N. The protein 7-methylxanthine methyltransferase (designated as CaMXMT) catalyses the second step to produce theobromine [].; GO: 0008168 methyltransferase activity; PDB: 2EFJ_A 1M6E_X 2EG5_C 3B5I_B.
Probab=52.77 E-value=8.9 Score=34.92 Aligned_cols=37 Identities=22% Similarity=0.422 Sum_probs=27.7
Q ss_pred CCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
+..--.+.+++..||++|+|..||+-+.|+=..+|+.
T Consensus 197 ~~~~~~l~~~l~dMv~eGlI~~ek~dsfniP~Y~ps~ 233 (334)
T PF03492_consen 197 CMLWDLLADALRDMVAEGLISEEKVDSFNIPIYFPSP 233 (334)
T ss_dssp CCHHHHHHHHHHHHHHTTSS-HCCCCTG--SBB---H
T ss_pred chHHHHHHHHHHHHHHcCCcCHHHhhceeCCccCCCH
Confidence 4445689999999999999999999999999999996
No 237
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=52.53 E-value=1.5e+02 Score=25.39 Aligned_cols=25 Identities=16% Similarity=0.314 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+..+...+..+......++.+++..
T Consensus 22 L~~~~~~l~~~~~~~~~l~~~i~~~ 46 (302)
T PF10186_consen 22 LLELRSELQQLKEENEELRRRIEEI 46 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444444443
No 238
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=52.51 E-value=77 Score=29.84 Aligned_cols=25 Identities=24% Similarity=0.493 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNN 107 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~ 107 (208)
..+...+..+..+++.++..+..+.
T Consensus 337 ~~l~~~~~~~~~~l~~l~~~l~~l~ 361 (451)
T PF03961_consen 337 EELEEELEELKEELEKLKKNLKKLK 361 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4445555555555555555544443
No 239
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=52.46 E-value=28 Score=28.94 Aligned_cols=45 Identities=22% Similarity=0.377 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKEL 144 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el 144 (208)
+.++.++...-.+-+-|+.+| +||+.|..+++.|+.++..|+.|+
T Consensus 3 eD~EsklN~AIERnalLE~EL----------dEKE~L~~~~QRLkDE~RDLKqEl 47 (166)
T PF04880_consen 3 EDFESKLNQAIERNALLESEL----------DEKENLREEVQRLKDELRDLKQEL 47 (166)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHCH--------------
T ss_pred HHHHHHHHHHHHHhHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555555555555555555 678888888999999999998888
No 240
>PF10212 TTKRSYEDQ: Predicted coiled-coil domain-containing protein; InterPro: IPR019348 This entry represents a C-terminal 500 residue region, which contains a conserved TTKRSYEDQ motif. It is found in a family of coiled-coil domain-containing proteins that are conserved from nematodes to humans. These proteins also contain an N-terminal domain with a KLRAQ motif (IPR019343 from INTERPRO). The function of these proteins is not known.
Probab=52.41 E-value=2.4e+02 Score=27.70 Aligned_cols=61 Identities=18% Similarity=0.346 Sum_probs=49.5
Q ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q psy2296 120 SKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 120 ~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~ 180 (208)
..+|..+..++..+...+..|+.||..-+.+=-+.|.-|-+-+....+.+-.=+|-|..|+
T Consensus 454 E~ek~~l~eeL~~a~~~i~~LqDEL~TTr~NYE~QLs~MSEHLasmNeqL~~Q~eeI~~LK 514 (518)
T PF10212_consen 454 EKEKESLEEELKEANQNISRLQDELETTRRNYEEQLSMMSEHLASMNEQLAKQREEIQTLK 514 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3578889999999999999999999987776667777777777777777777777777766
No 241
>KOG2264|consensus
Probab=52.26 E-value=69 Score=32.07 Aligned_cols=20 Identities=25% Similarity=0.526 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q psy2296 129 EVGNISKELELINKELEKYK 148 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~ 148 (208)
+|..|+.++++-+-.++.+.
T Consensus 129 eL~~Lk~~ieqaq~~~~El~ 148 (907)
T KOG2264|consen 129 ELSALKGEIEQAQRQLEELR 148 (907)
T ss_pred HHHHHHhHHHHHHHHHHHHH
Confidence 34455555555555444443
No 242
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=52.25 E-value=48 Score=34.02 Aligned_cols=66 Identities=15% Similarity=0.289 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMV-GRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
......+.+|+++++.++.+++.++..+....= .+.+.+-.+.--+++.+++.++..+++.|+.++
T Consensus 807 id~~~e~~rL~K~l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e~~kl~~~~~~~~~l~~~l~~l~ 873 (874)
T PRK05729 807 IDVEAELARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKERLARLK 873 (874)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 345666777777777777777777777665432 334444566666667778888888888777664
No 243
>KOG4674|consensus
Probab=52.24 E-value=3e+02 Score=31.17 Aligned_cols=27 Identities=33% Similarity=0.550 Sum_probs=16.7
Q ss_pred HHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 144 LEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 144 l~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
+.+|++.||..+.++..++..+++...
T Consensus 1298 ~~k~k~~d~~~~~kL~~ei~~Lk~el~ 1324 (1822)
T KOG4674|consen 1298 LEKYKDSDKNDYEKLKSEISRLKEELE 1324 (1822)
T ss_pred HHHhhcCCHHHHHHHHHHHHHHHHHHH
Confidence 344555667777777766666666544
No 244
>PRK11546 zraP zinc resistance protein; Provisional
Probab=52.23 E-value=1.3e+02 Score=24.51 Aligned_cols=70 Identities=7% Similarity=0.081 Sum_probs=48.7
Q ss_pred eEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChh-HHHHHHHHHHHHHHHHHHHH
Q psy2296 73 YFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKN-REDFLQEVGNISKELELINK 142 (208)
Q Consensus 73 ~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~e-R~~ll~~l~~L~~~~~~l~~ 142 (208)
+|=..+.+...+.+.-.++...+...+++++-..+.++..+..+-.+..+ =.++-.|+..|+.++.++..
T Consensus 40 ~~~~LT~EQQa~~q~I~~~f~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~r~ 110 (143)
T PRK11546 40 NAAPLTTEQQAAWQKIHNDFYAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSLDELRV 110 (143)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33347777778888888888889999999999988888888776544444 34455556666555554433
No 245
>PF05443 ROS_MUCR: ROS/MUCR transcriptional regulator protein; InterPro: IPR008807 This family consists of several ROS/MUCR transcriptional regulator proteins. The ros chromosomal gene is present in octopine and nopaline strains of Agrobacterium tumefaciens as well as in Rhizobium meliloti (Sinorhizobium meliloti). This gene encodes a 15.5 kDa protein that specifically represses the virC and virD operons in the virulence region of the Ti plasmid [] and is necessary for succinoglycan production []. S. meliloti can produce two types of acidic exopolysaccharides, succinoglycan and galactoglucan, that are interchangeable for infection of Medicago sativa (Alfalfa) nodules. MucR from S. meliloti acts as a transcriptional repressor that blocks the expression of the exp genes responsible for galactoglucan production therefore allowing the exclusive production of succinoglycan [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2JSP_A.
Probab=51.82 E-value=13 Score=29.87 Aligned_cols=27 Identities=19% Similarity=0.475 Sum_probs=21.3
Q ss_pred HHHHHHHhhcCCCHHHHhhhcCCCCCC
Q psy2296 178 SLKSWCKNKFGLEETALNKHFSIPEEM 204 (208)
Q Consensus 178 ~l~~~~~~k~~~~~~~i~~~f~Ip~d~ 204 (208)
+|..|+...+|+++++-+.-||+|.|+
T Consensus 84 ~LkrHL~~~~gltp~eYR~kwGlp~dy 110 (132)
T PF05443_consen 84 TLKRHLRTHHGLTPEEYRAKWGLPKDY 110 (132)
T ss_dssp BHHHHHHHTT-S-HHHHHHHTT-GGG-
T ss_pred hHHHHHHHccCCCHHHHHHHhCcCCCC
Confidence 468999999999999999999999886
No 246
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=51.78 E-value=1.3e+02 Score=30.56 Aligned_cols=12 Identities=8% Similarity=0.017 Sum_probs=4.4
Q ss_pred HHHHHHHHHHHH
Q psy2296 130 VGNISKELELIN 141 (208)
Q Consensus 130 l~~L~~~~~~l~ 141 (208)
++.+....+.|.
T Consensus 602 ~e~a~d~Qe~L~ 613 (717)
T PF10168_consen 602 YEEAKDKQEKLM 613 (717)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 247
>PLN02943 aminoacyl-tRNA ligase
Probab=51.73 E-value=53 Score=34.24 Aligned_cols=69 Identities=9% Similarity=0.184 Sum_probs=45.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMV-GRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
..........+|.++++.++.+++.++..+....= .+...+-.+.-.+++.+++.+++.+++.|+.+..
T Consensus 883 ~~iD~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~~l~~l~~ 952 (958)
T PLN02943 883 DMVDISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKNRLAFLKS 952 (958)
T ss_pred ccccHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33345566677777777777777777766654432 2344445566666777888888888888877764
No 248
>PRK14999 histidine utilization repressor; Provisional
Probab=51.65 E-value=8.1 Score=32.85 Aligned_cols=31 Identities=23% Similarity=0.427 Sum_probs=25.7
Q ss_pred cccCCccchHHHHHHHhhhcCcccccc-cccc
Q psy2296 41 KEKGIISQSVKEILQSLVDDGLVESEK-IGTS 71 (208)
Q Consensus 41 K~~GI~~~~VKdvlq~LVDDglV~~EK-iGts 71 (208)
..-||+-+||..-|..|+++|+|...+ -||.
T Consensus 44 ~~~gVSR~TVR~Al~~L~~eGli~r~~GkGTf 75 (241)
T PRK14999 44 AQYGFSRMTINRALRELTDEGWLVRLQGVGTF 75 (241)
T ss_pred HHHCCCHHHHHHHHHHHHHCCCEEEecCcEEE
Confidence 336999999999999999999997654 5553
No 249
>TIGR00019 prfA peptide chain release factor 1. This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift.
Probab=51.56 E-value=1.4e+02 Score=27.87 Aligned_cols=76 Identities=18% Similarity=0.140 Sum_probs=44.4
Q ss_pred ceeEeeccchhhHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 71 STYFWSFPNKASDR--VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 71 sN~YWsFps~~~~~--~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.--||.-|..+... ....+..+-..+..+.....++.+..+-... +|.+-+..+..++..|..+++.+..+|..+-
T Consensus 25 ~p~~w~d~~~~~~~~k~~~~l~~~v~~~~~~~~~~~~~~~~~el~~~--~D~e~~~~a~~e~~~l~~~~~~~e~~l~~~l 102 (360)
T TIGR00019 25 DPEVISDQDKLRKLSKEYSQLEEIVDCYREYQQAQEDIKEAKEILEE--SDPEMREMAKEELEELEEKIEELEEQLKVLL 102 (360)
T ss_pred CCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33489988865543 2233333334444444444444444433322 4555577777888888888888888776633
No 250
>PF04375 HemX: HemX; InterPro: IPR007470 The majority of proteins in this family are annotated as uroporphyrin-III C-methyltransferase (2.1.1.107 from EC) []; however, there is no direct evidence to support this annotation for these proteins, which come from mainly pathogenic Gram-negative organisms. There is some evidence to suggest that the proteins are membrane anchored as they have a predicted N-terminal signal peptide and transmembrane domain and may be involved in haem transport [].
Probab=51.48 E-value=89 Score=28.81 Aligned_cols=82 Identities=13% Similarity=0.414 Sum_probs=42.5
Q ss_pred cccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 68 IGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELA-QNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 68 iGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~-~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
+|.+-||| -.+.....+.++..|..++..+..... .....+...... ....-..+-.++..++..+..++..+..
T Consensus 43 lg~~~~~~--~~~q~~~~~~~~~~L~~ql~~~~~~~~~~~~~~l~~~~~~--~~~~~~~l~~~l~~~~~~l~~l~~~~~~ 118 (372)
T PF04375_consen 43 LGAGGWYW--QQQQLQQLQQQLQALQQQLQQLQQQLEAQQAQQLRQLQKQ--QQEQLQQLQQELAQLQQQLAELQQQLAA 118 (372)
T ss_pred HHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45556666 222223344455555555555555554 333333322211 1111233445567777788888888887
Q ss_pred HhcCCHH
Q psy2296 147 YKNNDPD 153 (208)
Q Consensus 147 ~~~~Dp~ 153 (208)
+...+|.
T Consensus 119 l~~~~~~ 125 (372)
T PF04375_consen 119 LSQRSRD 125 (372)
T ss_pred HhcCChH
Confidence 7765555
No 251
>PF05701 WEMBL: Weak chloroplast movement under blue light; InterPro: IPR008545 This family consists of several plant proteins of unknown function. Several sequences in this family are described as being myosin heavy chain-like.
Probab=51.31 E-value=1.4e+02 Score=28.84 Aligned_cols=80 Identities=25% Similarity=0.375 Sum_probs=49.9
Q ss_pred cchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHH
Q psy2296 47 SQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDF 126 (208)
Q Consensus 47 ~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~l 126 (208)
.+|||+-|. +-| +-++|.=| +.. ......+.++..++..+..++..+.... .+|...
T Consensus 4 f~SVk~Avs-----------~FG-~~~~~k~~-~~~----e~~~~~e~eL~~~qeel~~~k~~l~~~E------~~k~~~ 60 (522)
T PF05701_consen 4 FESVKEAVS-----------LFG-GSIDWKKH-QSL----ERVKEKETELEKAQEELAKLKEQLEAAE------REKAQA 60 (522)
T ss_pred ChHHHHHHH-----------HcC-CccccccC-Cch----hhhhHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHH
Confidence 467877653 455 45588755 111 2233344555555555555555555442 367888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 127 LQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 127 l~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+.+|..-+..+..|+..|+....
T Consensus 61 l~ELe~akr~veel~~kLe~~~~ 83 (522)
T PF05701_consen 61 LSELESAKRTVEELKLKLEKAQA 83 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 88888888888888888876553
No 252
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=51.30 E-value=1.6e+02 Score=25.36 Aligned_cols=26 Identities=19% Similarity=0.387 Sum_probs=11.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
++..++.++..|..+++.|+.....+
T Consensus 50 e~~~L~~e~~~l~~e~e~L~~~~~~l 75 (251)
T PF11932_consen 50 EKQELLAEYRQLEREIENLEVYNEQL 75 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444433333
No 253
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=51.16 E-value=9.6 Score=32.65 Aligned_cols=30 Identities=30% Similarity=0.639 Sum_probs=25.2
Q ss_pred cCCccchHHHHHHHhhhcCccccccccccee
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTY 73 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~ 73 (208)
-||+.|||.--|+.|+++|+|.... |.++|
T Consensus 41 f~VSR~TvRkAL~~L~~eGli~r~~-G~Gtf 70 (236)
T COG2188 41 FGVSRMTVRKALDELVEEGLIVRRQ-GKGTF 70 (236)
T ss_pred HCCcHHHHHHHHHHHHHCCcEEEEe-cCeeE
Confidence 5999999999999999999998753 44444
No 254
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=51.06 E-value=1.5e+02 Score=25.11 Aligned_cols=32 Identities=28% Similarity=0.274 Sum_probs=26.5
Q ss_pred cccCCccchHHHHHHHhhhcCccccc-ccccce
Q psy2296 41 KEKGIISQSVKEILQSLVDDGLVESE-KIGTST 72 (208)
Q Consensus 41 K~~GI~~~~VKdvlq~LVDDglV~~E-KiGtsN 72 (208)
..-||+-.+|.|.|+.|..+|||... .-|+..
T Consensus 41 ~~~gVSRtpVREAL~~L~~eGlV~~~~~~G~~V 73 (257)
T PRK10225 41 EMLDVTRTVVREALIMLEIKGLVEVRRGAGIYV 73 (257)
T ss_pred HHhCCCHHHHHHHHHHHHHCCCEEEecCCEEEE
Confidence 33699999999999999999999876 455544
No 255
>PF10168 Nup88: Nuclear pore component; InterPro: IPR019321 Nup88 can be divided into two structural domains; the N-terminal two-thirds of the protein have no obvious structural motifs. It is, however, where it binds to Nup98; one of the components of the nuclear pore. The C-terminal end is a predicted coiled-coil domain []. Nup88 is over expressed in tumour cells [].
Probab=51.01 E-value=2.3e+02 Score=28.78 Aligned_cols=28 Identities=18% Similarity=0.203 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+.++..|+.+.+..-.++.+++++++..
T Consensus 564 ~~rv~~Lk~~~e~Ql~~L~~l~e~~~~l 591 (717)
T PF10168_consen 564 QRRVKLLKQQKEQQLKELQELQEERKSL 591 (717)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333334444444334444444444433
No 256
>KOG0996|consensus
Probab=50.94 E-value=2.9e+02 Score=29.97 Aligned_cols=45 Identities=16% Similarity=0.299 Sum_probs=22.0
Q ss_pred ccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 65 SEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEA 109 (208)
Q Consensus 65 ~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ 109 (208)
--++||++=-=-....+...+.+.+.+..........+.-.+++.
T Consensus 763 ~g~mg~~~~~t~~s~~~v~~le~~l~~~~~~~~~~~~~~~~~ee~ 807 (1293)
T KOG0996|consen 763 GGRMGTSIRVTGVSKESVEKLERALSKMSDKARQHQEQLHELEER 807 (1293)
T ss_pred CCCCCCccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347788775222233455555666555554444444443333333
No 257
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=50.91 E-value=30 Score=29.91 Aligned_cols=50 Identities=18% Similarity=0.283 Sum_probs=39.4
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKIT 93 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~ 93 (208)
-|+++++|--.|+.|.+.|+|.....+ .+.+|+.-......+......+.
T Consensus 31 L~iS~~Tvsr~Lk~LEe~GlI~R~~~~-r~~~v~LTekG~~ll~~~~~d~~ 80 (217)
T PRK14165 31 TGTSSKTAARILKQLEDEGYITRTIVP-RGQLITITEKGLDVLYNEYADYS 80 (217)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEEEEcC-CceEEEECHHHHHHHHHHHHHHH
Confidence 499999999999999999999988776 45777777777666555555543
No 258
>KOG0161|consensus
Probab=50.79 E-value=3.2e+02 Score=31.23 Aligned_cols=51 Identities=22% Similarity=0.418 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCC-ChhHHHHHHHHHHHHHHHHHH
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKSMVGRGD-SKNREDFLQEVGNISKELELI 140 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~-~~eR~~ll~~l~~L~~~~~~l 140 (208)
..+++.+.++...|.++.+.++..+..|.. ...|.++-.++++|+.++...
T Consensus 1093 ~~l~k~i~eL~~~i~el~e~le~er~~r~K~ek~r~dL~~ele~l~~~Lee~ 1144 (1930)
T KOG0161|consen 1093 AQLQKQIKELEARIKELEEELEAERASRAKAERQRRDLSEELEELKEELEEQ 1144 (1930)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555532 234666666666666665555
No 259
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=50.70 E-value=8.8 Score=32.23 Aligned_cols=30 Identities=30% Similarity=0.536 Sum_probs=25.6
Q ss_pred cCCccchHHHHHHHhhhcCcccccc-cccce
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK-IGTST 72 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK-iGtsN 72 (208)
-||+-+||..-|+.|+++|+|...+ -||..
T Consensus 42 ~~VSR~TvR~Al~~L~~eGli~r~~G~GtfV 72 (238)
T TIGR02325 42 FGVNRHTVRRAIAALVERGLLRAEQGRGTFV 72 (238)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEecCCEEEE
Confidence 5999999999999999999998864 45533
No 260
>PRK11569 transcriptional repressor IclR; Provisional
Probab=50.69 E-value=29 Score=30.27 Aligned_cols=55 Identities=20% Similarity=0.331 Sum_probs=47.1
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
.+++.=+|--.||++|.+...-.++. ||=+ ..|+..-||=-+|++|++.|+|..+
T Consensus 22 ~~v~sl~ral~IL~~l~~~~~~~~ls---eia~----~lglpksTv~RlL~tL~~~G~l~~~ 76 (274)
T PRK11569 22 GQVQSLTRGLKLLEWIAESNGSVALT---ELAQ----QAGLPNSTTHRLLTTMQQQGFVRQV 76 (274)
T ss_pred cCccHHHHHHHHHHHHHhCCCCcCHH---HHHH----HHCcCHHHHHHHHHHHHHCCCEEEc
Confidence 45666679999999999988889999 8744 3699999999999999999999765
No 261
>PF10552 ORF6C: ORF6C domain; InterPro: IPR018878 This entry represents the carboxy-terminal domain from ORF6 (Q9B012 from SWISSPROT), an antirepressor protein from Lactococcus phage bIL285 [].
Probab=50.60 E-value=1.1e+02 Score=23.33 Aligned_cols=73 Identities=19% Similarity=0.298 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhhhhhhHHH----HHHHHHhhcCCCHHHHhhhc
Q psy2296 126 FLQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANRWTDNLFS----LKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanrwTDNI~~----l~~~~~~k~~~~~~~i~~~f 198 (208)
+++...++.+++..+...+..+.+ .||..-..+++.+.... ..+.++..+ -.+.=.+-|.-=-..|+++|
T Consensus 6 ~~~~~~~~~~ki~~ve~~V~~l~~~~~i~~~q~~~i~~~v~~rv---~~~lgg~~s~ay~~~~~~~k~f~~i~~~lk~~F 82 (116)
T PF10552_consen 6 LMQATEEHNEKIEEVENRVDDLEENMPIDPGQQKEIQKAVKSRV---YELLGGKGSPAYKDKSFRRKLFSDIYRDLKRHF 82 (116)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHH---HHHHhccccchhhhhHHhHHHHHHHHHHHHHHh
Confidence 445566777777777777777766 35555555555444332 233332221 11122222333355667777
Q ss_pred CCC
Q psy2296 199 SIP 201 (208)
Q Consensus 199 ~Ip 201 (208)
|+|
T Consensus 83 ~V~ 85 (116)
T PF10552_consen 83 GVP 85 (116)
T ss_pred CCc
Confidence 776
No 262
>PF07106 TBPIP: Tat binding protein 1(TBP-1)-interacting protein (TBPIP); InterPro: IPR010776 This family consists of several eukaryotic TBP-1 interacting protein (TBPIP) sequences. TBP-1 has been demonstrated to interact with the human immunodeficiency virus type 1 (HIV-1) viral protein Tat, then modulate the essential replication process of HIV. In addition, TBP-1 has been shown to be a component of the 26S proteasome, a basic multiprotein complex that degrades ubiquitinated proteins in an ATP-dependent fashion. Human TBPIP interacts with human TBP-1 then modulates the inhibitory action of human TBP-1 on HIV-Tat-mediated transactivation [].
Probab=50.51 E-value=1.3e+02 Score=24.21 Aligned_cols=69 Identities=16% Similarity=0.247 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhh
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNK 196 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~ 196 (208)
-..+-+++.+|+.++..|..+|..+...- ..+++...+..+...+....+-+..+.+ ..-.++++++.+
T Consensus 81 i~~L~~el~~l~~~~k~l~~eL~~L~~~~--t~~el~~~i~~l~~e~~~l~~kL~~l~~---~~~~vs~ee~~~ 149 (169)
T PF07106_consen 81 IKELREELAELKKEVKSLEAELASLSSEP--TNEELREEIEELEEEIEELEEKLEKLRS---GSKPVSPEEKEK 149 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCC--CHHHHHHHHHHHHHHHHHHHHHHHHHHh---CCCCCCHHHHHH
Confidence 44555666667777777777777777632 2233444444444444444444444443 233455555443
No 263
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=50.46 E-value=1.4e+02 Score=24.32 Aligned_cols=31 Identities=13% Similarity=0.331 Sum_probs=17.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
.+.++..+..++..++.++......|+..+.
T Consensus 18 ~K~~~~~~~~e~~~~k~ql~~~d~~i~~Lk~ 48 (155)
T PF06810_consen 18 PKAKVDKVKEERDNLKTQLKEADKQIKDLKK 48 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444555555666666666665555555554
No 264
>PF04849 HAP1_N: HAP1 N-terminal conserved region; InterPro: IPR006933 This family is defined by an N-terminal conserved region found in several huntingtin-associated protein 1 (HAP1) homologues. HAP1 binds to huntingtin in a polyglutamine repeat-length-dependent manner. However, its possible role in the pathogenesis of Huntingtons disease is unclear. This family also includes a similar N-terminal conserved region from hypothetical protein products of ALS2CR3 genes found in the human juvenile amyotrophic lateral sclerosis critical region 2q33-2q34 [].
Probab=50.05 E-value=1.8e+02 Score=26.53 Aligned_cols=64 Identities=11% Similarity=0.183 Sum_probs=30.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+....+...+...+++|..+..++.+++.++.... .+-+.+...|...+.-...|..||..+++
T Consensus 220 eELa~k~Ee~~rQQEEIt~LlsqivdlQ~r~k~~~------~EnEeL~q~L~~ske~Q~~L~aEL~elqd 283 (306)
T PF04849_consen 220 EELARKTEENRRQQEEITSLLSQIVDLQQRCKQLA------AENEELQQHLQASKESQRQLQAELQELQD 283 (306)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh------hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444444444443332 23445555555555555555666555553
No 265
>PRK05892 nucleoside diphosphate kinase regulator; Provisional
Probab=50.04 E-value=1.3e+02 Score=24.41 Aligned_cols=60 Identities=10% Similarity=0.171 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSMVG--RGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~~~--r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
-+++|+++++.+..+..++...|..+... +.+..+=...-+++..+..++..|...|...
T Consensus 12 g~~~L~~EL~~L~~~r~~i~~~i~~Ar~~GDlsENaey~aak~~q~~~e~RI~~L~~~L~~A 73 (158)
T PRK05892 12 ARDHLEAELARLRARRDRLAVEVNDRGMIGDHGDQAEAIQRADELARLDDRINELDRRLRTG 73 (158)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHhCCCcchhhhHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 35667788888877777777777777663 3333333333355666677777777766643
No 266
>cd07596 BAR_SNX The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=49.93 E-value=1.4e+02 Score=24.16 Aligned_cols=52 Identities=25% Similarity=0.387 Sum_probs=39.2
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHH
Q psy2296 117 RGDSKNREDFLQEVGNISKELELINKELEKYKNN---DPDTLKLIENTAQRAKEA 168 (208)
Q Consensus 117 r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~---Dp~~i~~~~~~~~~~k~a 168 (208)
|.-...|..++.++..++..+...++++.++... .|+.++.++.++..+..+
T Consensus 106 k~~l~~R~~~~~~~~~~~~~l~~k~~~~~kl~~~~~~~~~ki~~l~~~i~~~e~~ 160 (218)
T cd07596 106 KETLDDRADALLTLQSLKKDLASKKAQLEKLKAAPGIKPAKVEELEEELEEAESA 160 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCchhHHHHHHHHHHHHHHH
Confidence 4455689999999999999999999999999863 567766666655544433
No 267
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=49.93 E-value=2.4e+02 Score=27.81 Aligned_cols=22 Identities=27% Similarity=0.418 Sum_probs=18.6
Q ss_pred chHHHHHHHhhhcCcccccccc
Q psy2296 48 QSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 48 ~~VKdvlq~LVDDglV~~EKiG 69 (208)
....++|+.|.+-|.||.+...
T Consensus 16 ~~~~~~l~~L~~lg~vhi~~~~ 37 (646)
T PRK05771 16 SYKDEVLEALHELGVVHIEDLK 37 (646)
T ss_pred HHHHHHHHHHHhCCCEEEeecc
Confidence 5678899999999999998653
No 268
>PF05600 DUF773: Protein of unknown function (DUF773); InterPro: IPR008491 This family contains several eukaryotic sequences which are thought to be CDK5 activator-binding proteins, however, the function of this family is unknown.
Probab=49.87 E-value=2.5e+02 Score=27.24 Aligned_cols=128 Identities=13% Similarity=0.170 Sum_probs=67.3
Q ss_pred ccccccccceeEeeccchhhHHHHHHHHH-------------------------HHHHHHHHHHHHHHHHHHHHHHhccC
Q psy2296 63 VESEKIGTSTYFWSFPNKASDRVDCKLEK-------------------------ITAEIEDVTKELAQNNEALEKSMVGR 117 (208)
Q Consensus 63 V~~EKiGtsN~YWsFps~~~~~~~~~~~~-------------------------l~~~i~~~~~~i~~l~~~ie~~~~~r 117 (208)
-.+|. ||-|+|=.+.|+....-+.-+.. +++++..+++.+.++..+..+.....
T Consensus 76 ~~te~-~skn~fG~yss~rmk~W~~Iv~~yeK~n~~L~E~a~~L~r~v~YeIP~lkKqi~k~~q~~~d~~kk~~e~~~~~ 154 (507)
T PF05600_consen 76 KQTEA-DSKNIFGRYSSQRMKDWQEIVKLYEKDNLYLAEAAQILVRNVNYEIPALKKQIAKCQQQLEDLDKKEEELQRSA 154 (507)
T ss_pred hCCCc-cccceeccccchhHHHHHHHHHHHHhccchHHHHHHHHHHHhcccchHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 34554 78899998888844433333211 33444444444444444443333222
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhh-----------hhHHHHHHHHHhh
Q psy2296 118 GDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWT-----------DNLFSLKSWCKNK 186 (208)
Q Consensus 118 ~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwT-----------DNI~~l~~~~~~k 186 (208)
..-|...-..++++.-+-..++.||..+-..=|..+.+.-+.+..+..|++.+. ..+.-+..|+..+
T Consensus 155 --~~~~~~~~~~c~~lGI~G~nir~ELl~l~~~LP~~~~~i~~~i~~l~~aie~Y~~f~~~~~~~~~~~~Lp~L~~v~~~ 232 (507)
T PF05600_consen 155 --AEARERYKKACKQLGIKGENIREELLELVKELPSLFDEIVEAISDLQEAIEYYQAFVEFVHDESESEVLPLLRFVQEH 232 (507)
T ss_pred --HHHHHHHHHHHHHhCCccchhHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCccchhhHHHHHHHhC
Confidence 123344444455555555556666665555457777777666666555554443 2355566776655
Q ss_pred cCCCHHH
Q psy2296 187 FGLEETA 193 (208)
Q Consensus 187 ~~~~~~~ 193 (208)
-+...-+
T Consensus 233 gn~tvye 239 (507)
T PF05600_consen 233 GNTTVYE 239 (507)
T ss_pred CCCcHhH
Confidence 5444333
No 269
>PRK04863 mukB cell division protein MukB; Provisional
Probab=49.42 E-value=4.1e+02 Score=29.51 Aligned_cols=114 Identities=14% Similarity=0.223 Sum_probs=78.7
Q ss_pred eEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc---------------CCCChhHHHHH----------
Q psy2296 73 YFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG---------------RGDSKNREDFL---------- 127 (208)
Q Consensus 73 ~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~---------------r~~~~eR~~ll---------- 127 (208)
+|=.=|-.+....+.+..++...+.............++.++.+ ++.-.+|-.-+
T Consensus 830 ~f~~~pe~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~a 909 (1486)
T PRK04863 830 AFEADPEAELRQLNRRRVELERALADHESQEQQQRSQLEQAKEGLSALNRLLPRLNLLADETLADRVEEIREQLDEAEEA 909 (1486)
T ss_pred hcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhchhhhhcCCccHHHHHHHHHHHHHHHHHH
Confidence 34444666777777778888877777777777666666655532 12223332221
Q ss_pred -HHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhc
Q psy2296 128 -QEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKF 187 (208)
Q Consensus 128 -~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~ 187 (208)
.-..+....+.++...+..+.. ||+.++.++.+...+......----+|+|.+-+.+..
T Consensus 910 ~~y~~~~~~~L~qLE~~l~~L~~-Dp~~~e~lr~e~~~~~~~~~~~~~~~~~l~~~~~~~~ 969 (1486)
T PRK04863 910 KRFVQQHGNALAQLEPIVSVLQS-DPEQFEQLKQDYQQAQQTQRDAKQQAFALTEVVQRRA 969 (1486)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1144556777777777777764 8999999999999999998888889999888776664
No 270
>cd07664 BAR_SNX2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX2 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=49.33 E-value=1.8e+02 Score=25.30 Aligned_cols=120 Identities=16% Similarity=0.151 Sum_probs=73.8
Q ss_pred CCccchHHHHHHHhhh-----cCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHH---------HHHH
Q psy2296 44 GIISQSVKEILQSLVD-----DGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQ---------NNEA 109 (208)
Q Consensus 44 GI~~~~VKdvlq~LVD-----DglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~---------l~~~ 109 (208)
+.+...=+|+..++-+ +.|-.+|= |......-..+..+...+..+..+.+. +.+-
T Consensus 46 ~~lv~~rkela~~~~efa~s~~~L~~~E~-----------~~~ls~~l~~laev~~ki~~~~~~qa~~d~~~l~e~L~eY 114 (234)
T cd07664 46 ESLVCHRKELSANTAAFAKSAAMLGNSED-----------HTALSRALSQLAEVEEKIDQLHQDQAFADFYLFSELLGDY 114 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCcc-----------cchHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhHHHH
Confidence 4445555788887777 44555551 122333333444444444444444332 1122
Q ss_pred HHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhhhh
Q psy2296 110 LEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN-NDPDTLKLIENTAQRAKEAANRWTD 174 (208)
Q Consensus 110 ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~aanrwTD 174 (208)
+-....-|.-...|......+...+..+...+..+.++.. +-|+.++.++.++..+..++..-+-
T Consensus 115 iR~i~svK~~f~~R~k~~~~~~~a~~~L~kkr~~~~Kl~~~~k~dK~~~~~~ev~~~e~~~~~a~~ 180 (234)
T cd07664 115 IRLIAAVKGVFDQRMKCWQKWQDAQVTLQKKREAEAKLQYANKPDKLQQAKDEIKEWEAKVQQGER 180 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHHHHHHH
Confidence 2222223455678999999999999999999999999854 4588998888888776665554443
No 271
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=49.30 E-value=70 Score=23.20 Aligned_cols=49 Identities=12% Similarity=0.326 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhh
Q psy2296 125 DFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTD 174 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTD 174 (208)
+|.++|..|++-+.-+..=.+.++..- .-++...+.+..+-.-+|.||+
T Consensus 2 aL~kEL~~Lr~IN~~ie~~~~~L~~a~-~~~~~v~~~~~~t~~LLd~w~~ 50 (78)
T PF08651_consen 2 ALEKELEQLRKINPVIEGLIETLRSAK-SNMNRVQETVESTNTLLDKWIR 50 (78)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHH
Confidence 466777777777777666666666543 6777777888888888888886
No 272
>PRK10869 recombination and repair protein; Provisional
Probab=49.29 E-value=2.6e+02 Score=27.25 Aligned_cols=49 Identities=10% Similarity=0.178 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 134 SKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 134 ~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
-.-.++++.+|+.+... .+.++.+..+...+++.+...+..+.....-.
T Consensus 323 ~~~~~~l~~eL~~L~~~-e~~l~~Le~e~~~l~~~l~~~A~~LS~~R~~a 371 (553)
T PRK10869 323 PQHHQQLLEEQQQLDDQ-EDDLETLALAVEKHHQQALETAQKLHQSRQRY 371 (553)
T ss_pred HHHHHHHHHHHHHhhCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445777777777764 56778888888877777777776666444433
No 273
>KOG0999|consensus
Probab=49.24 E-value=1.1e+02 Score=30.62 Aligned_cols=89 Identities=13% Similarity=0.153 Sum_probs=0.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC--------CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR--------GDSKNREDFLQEVGNISKELELINKELEKYKNNDP 152 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r--------~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp 152 (208)
...++++.+.+.+++.+.+.+..+++.+.-+.....| +.-..-..+|.++.+|..++-.|++.++.++.+ .
T Consensus 115 eLKq~r~el~~~q~E~erl~~~~sd~~e~~~~~E~qR~rlr~elKe~KfRE~RllseYSELEEENIsLQKqVs~LR~s-Q 193 (772)
T KOG0999|consen 115 ELKQLRQELTNVQEENERLEKVHSDLKESNAAVEDQRRRLRDELKEYKFREARLLSEYSELEEENISLQKQVSNLRQS-Q 193 (772)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHhhh-h
Q ss_pred HHHHHHHHHHHHHHHHHh
Q psy2296 153 DTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 153 ~~i~~~~~~~~~~k~aan 170 (208)
..++-++.+++.+-+.+.
T Consensus 194 VEyEglkheikRleEe~e 211 (772)
T KOG0999|consen 194 VEYEGLKHEIKRLEEETE 211 (772)
T ss_pred hhhhHHHHHHHHHHHHHH
No 274
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=49.10 E-value=11 Score=25.87 Aligned_cols=31 Identities=32% Similarity=0.631 Sum_probs=25.8
Q ss_pred HhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 36 EKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 36 EK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
+-+|.- .|++..+|--++..|.++|+|...+
T Consensus 32 ~~iA~~-~g~sr~tv~r~l~~l~~~g~I~~~~ 62 (76)
T PF13545_consen 32 EEIADM-LGVSRETVSRILKRLKDEGIIEVKR 62 (76)
T ss_dssp HHHHHH-HTSCHHHHHHHHHHHHHTTSEEEET
T ss_pred HHHHHH-HCCCHHHHHHHHHHHHHCCCEEEcC
Confidence 344444 8999999999999999999999643
No 275
>KOG0971|consensus
Probab=48.96 E-value=3.5e+02 Score=28.78 Aligned_cols=32 Identities=13% Similarity=0.388 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
..+.+.-+.|..+++.++..|.++++.++.+.
T Consensus 413 ~eL~r~kE~Lsr~~d~aEs~iadlkEQVDAAl 444 (1243)
T KOG0971|consen 413 EELRRQKERLSRELDQAESTIADLKEQVDAAL 444 (1243)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33444456667777777777888888877664
No 276
>PF10796 Anti-adapt_IraP: Sigma-S stabilisation anti-adaptor protein ; InterPro: IPR019732 This entry is conserved in Enterobacteriaceae. It is one of a series of proteins, expressed by these bacteria in response to stress, that help to regulate Sigma-S, the stationary phase sigma factor of Escherichia coli and Salmonella. IraP is essential for Sigma-S stabilisation in some but not all starvation conditions []. ; GO: 0005737 cytoplasm
Probab=48.70 E-value=1.1e+02 Score=22.80 Aligned_cols=65 Identities=15% Similarity=0.185 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh--------cCCHHHHHHHHHHHHHHHHHHhhhhh-----hHHHHHHHHHhhcCC
Q psy2296 125 DFLQEVGNISKELELINKELEKYK--------NNDPDTLKLIENTAQRAKEAANRWTD-----NLFSLKSWCKNKFGL 189 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~--------~~Dp~~i~~~~~~~~~~k~aanrwTD-----NI~~l~~~~~~k~~~ 189 (208)
.+|.++.+...+-++|..+++.++ ..++.....+...+..+.+.+..=.| +...+..|+.+-..+
T Consensus 7 ~lL~KlA~~e~esKeL~AqVEAleivitALL~~l~~~~~~~~i~~I~~Ai~~a~~~~~~~~~sd~eLL~~~~~~Ll~~ 84 (87)
T PF10796_consen 7 ELLAKLAEKEAESKELTAQVEALEIVITALLRTLDQGGRQEMIESIEKAIEDASPSSDVPLKSDAELLLQYVKKLLRH 84 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHhcccCCccchHHHHHHHHHHHHHHhc
Confidence 344555555555555555555543 35788888888888888887766444 477888888765443
No 277
>PRK06330 transcript cleavage factor/unknown domain fusion protein; Validated
Probab=48.57 E-value=1.6e+02 Score=30.08 Aligned_cols=117 Identities=16% Similarity=0.254 Sum_probs=75.9
Q ss_pred cchhhhcchHHHHhhcccccCCccchHHHHHHHhhh---cCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHH
Q psy2296 24 EEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVD---DGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVT 100 (208)
Q Consensus 24 ~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVD---DglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~ 100 (208)
.+.=.+| ||=.++.+ |..-+..-|.+|+||.- -+++..+-.|..+-.|--|. -+++|+++++.+.
T Consensus 518 ad~e~~k---~l~~l~~~-~~~F~~~dk~~L~sLa~~v~P~l~~~~~~~~~~~~~vT~e--------G~~kLkeEL~~L~ 585 (718)
T PRK06330 518 ASLEYLK---EFLLLSSK-CPQFSSSDLGVLRSLAEVVQPSLKKGTSEVEEEILWTTSE--------SFTRMKNKLQSLV 585 (718)
T ss_pred CCHHHHH---HHHHHHhc-CCCCChHhHHHHHHHHHHhCcchhcCcccCCCCCceeCHH--------HHHHHHHHHHHHH
Confidence 4556788 89999999 76667778888888876 46655455555554453332 2455667777776
Q ss_pred H-HHHHHHHHHHHHhccCCCChhH--HHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q psy2296 101 K-ELAQNNEALEKSMVGRGDSKNR--EDFLQEVGNISKELELINKELEKYKNNDP 152 (208)
Q Consensus 101 ~-~i~~l~~~ie~~~~~r~~~~eR--~~ll~~l~~L~~~~~~l~~el~~~~~~Dp 152 (208)
. ++-+..++|..++....-+++. ...-++...+..++..|..+|....=.||
T Consensus 586 ~v~rpei~k~I~eAR~~GDLsENaEY~aAKe~q~~le~RI~~Le~~L~rA~VVd~ 640 (718)
T PRK06330 586 GKEMVENAKEIEDARALGDLRENSEYKFALEKRARLQEEIRVLSEEINRARILTK 640 (718)
T ss_pred hcchHHHHHHHHHHHHCCCcccchhhHHHHHHHHHHHHHHHHHHHHHccCEEECC
Confidence 4 5666677787777644333332 34445677778888888888877665444
No 278
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=48.50 E-value=1.8e+02 Score=25.26 Aligned_cols=29 Identities=10% Similarity=0.369 Sum_probs=19.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.||...+++|..+...+..|...+.....
T Consensus 46 ~Er~~h~eeLrqI~~DIn~lE~iIkqa~~ 74 (230)
T PF10146_consen 46 QERMAHVEELRQINQDINTLENIIKQAES 74 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46777777777777777777666666553
No 279
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=48.33 E-value=88 Score=21.52 Aligned_cols=45 Identities=20% Similarity=0.372 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHH
Q psy2296 129 EVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLF 177 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~ 177 (208)
.+.+|...+..|..++.+++. .+..++.++..+++.|.|-..=|.
T Consensus 4 kid~Ls~dVq~L~~kvdqLs~----dv~~lr~~v~~ak~EAaRAN~RlD 48 (56)
T PF04728_consen 4 KIDQLSSDVQTLNSKVDQLSS----DVNALRADVQAAKEEAARANQRLD 48 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355566666666666666653 455566667777777766654333
No 280
>PRK11546 zraP zinc resistance protein; Provisional
Probab=48.32 E-value=1.1e+02 Score=24.79 Aligned_cols=43 Identities=7% Similarity=0.168 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHH
Q psy2296 127 LQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 127 l~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aa 169 (208)
..+-..|+.++-..+.||..+.. -||++|.++.+++..++..+
T Consensus 60 ~~~t~~LRqqL~aKr~ELnALl~~~~pD~~kI~aL~kEI~~Lr~kL 105 (143)
T PRK11546 60 YAQTSALRQQLVSKRYEYNALLTANPPDSSKINAVAKEMENLRQSL 105 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHH
Confidence 34455666666666677766654 58999999999999888764
No 281
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=48.18 E-value=1.3e+02 Score=23.36 Aligned_cols=53 Identities=19% Similarity=0.291 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+..++..+.+.+..+-.++.+|+..+ ..++++-..|+-++..|+..|..+..
T Consensus 5 elfd~l~~le~~l~~l~~el~~LK~~~-------------~el~EEN~~L~iEN~~Lr~~l~~~~~ 57 (110)
T PRK13169 5 EIFDALDDLEQNLGVLLKELGALKKQL-------------AELLEENTALRLENDKLRERLEELEA 57 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 344556666666666666666666555 56677778888888888888877643
No 282
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=47.75 E-value=1.3e+02 Score=28.84 Aligned_cols=62 Identities=18% Similarity=0.380 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
.+..+..++..+.+.++.+...+...|........+ ....++++.+.|..+++.+..++...
T Consensus 33 ~ld~~~r~~~~~~e~l~~~rn~~sk~ig~~~~~~~~--~~~~l~~e~~~l~~~l~~~e~~~~~~ 94 (429)
T COG0172 33 ELDEERRKLLRELEELQAERNELSKEIGRALKRGED--DAEELIAEVKELKEKLKELEAALDEL 94 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccch--hHHHHHHHHHHHHHHHHhccHHHHHH
Confidence 344444556666666666666666666633332111 55666666666666666665555443
No 283
>cd07665 BAR_SNX1 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexin 1. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. SNX1 is a component of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), which ensures effcient cargo sorting by facilitating proper membrane localization
Probab=47.71 E-value=1.9e+02 Score=25.21 Aligned_cols=128 Identities=17% Similarity=0.167 Sum_probs=79.3
Q ss_pred CCccchHHHHHHHhhh-----cCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHH---------HHHH
Q psy2296 44 GIISQSVKEILQSLVD-----DGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQ---------NNEA 109 (208)
Q Consensus 44 GI~~~~VKdvlq~LVD-----DglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~---------l~~~ 109 (208)
..+...=+|+.+++-| +.|-.+| -+......-..+......+..+..+.+. +.+-
T Consensus 46 ~~lv~~r~eLa~~~~eFa~s~~~L~~~E-----------~~~~Ls~als~laev~~~i~~~~~~qa~qd~~~f~e~l~eY 114 (234)
T cd07665 46 ETLVNHRKELALNTALFAKSLAMLGSSE-----------DNTALSRALSQLAEVEEKIEQLHQEQANNDFFLLAELLADY 114 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc-----------cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence 3344445777777776 4454555 1233333334444444455444444432 1122
Q ss_pred HHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHH
Q psy2296 110 LEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYK-NNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSW 182 (208)
Q Consensus 110 ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~-~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~ 182 (208)
|--...-|.....|.........++..+...+..+.++. .+-|+++...+.++..+...+..-+-...-|-.-
T Consensus 115 iRli~SVK~~f~~R~k~~~~~~~~~~~l~kKr~~~~Kl~~~~~~dK~~~a~~Ev~e~e~k~~~a~~~fe~is~~ 188 (234)
T cd07665 115 IRLLSAVRGAFDQRMKTWQRWQDAQAMLQKKREAEARLLWANKPDKLQQAKDEIAEWESRVTQYERDFERISAT 188 (234)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 222222345668999999999999999999999999985 4568899998888888777766666544444333
No 284
>KOG4674|consensus
Probab=47.62 E-value=2.6e+02 Score=31.63 Aligned_cols=90 Identities=14% Similarity=0.293 Sum_probs=55.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCC----------------------------hhHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDS----------------------------KNREDFLQEVGNISK 135 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~----------------------------~eR~~ll~~l~~L~~ 135 (208)
.++.....|..+++.++..+.+|+..+......-..+ +++...+..+.+|..
T Consensus 1171 ~lk~e~~~L~qq~~~~~k~i~dL~~sL~~~r~~~q~~a~s~~e~~~i~~~v~~vNll~EsN~~LRee~~~~~~k~qEl~~ 1250 (1822)
T KOG4674|consen 1171 TLKRENARLKQQVASLNRTIDDLQRSLTAERASSQKSAVSDDEHKEILEKVEEVNLLRESNKVLREENEANLEKIQELRD 1250 (1822)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 3344445566666666666666666665554421000 255666677777777
Q ss_pred HHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHhhhh
Q psy2296 136 ELELINKELEKYKNN---DPDTLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 136 ~~~~l~~el~~~~~~---Dp~~i~~~~~~~~~~k~aanrwT 173 (208)
++..++.++.-|... -...+.....++..++..+.||=
T Consensus 1251 ~i~kl~~el~plq~~l~el~~e~~~~~ael~~l~~e~~~wK 1291 (1822)
T KOG4674|consen 1251 KIEKLNFELAPLQNELKELKAELQEKVAELKKLEEENDRWK 1291 (1822)
T ss_pred HHHHHHhhHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 777777777777652 24566777777777777777775
No 285
>KOG0996|consensus
Probab=47.55 E-value=2.5e+02 Score=30.38 Aligned_cols=21 Identities=10% Similarity=0.094 Sum_probs=9.1
Q ss_pred CHHHHHHHHHHHHHHHHHHhh
Q psy2296 151 DPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 151 Dp~~i~~~~~~~~~~k~aanr 171 (208)
..+.+..+.+++.-+....|.
T Consensus 477 ~~~e~~~~ekel~~~~~~~n~ 497 (1293)
T KOG0996|consen 477 IREEIEKLEKELMPLLKQVNE 497 (1293)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444443333333
No 286
>PF09304 Cortex-I_coil: Cortexillin I, coiled coil; InterPro: IPR015383 This domain is predominantly found in the actin-bundling protein cortexillin I from Dictyostelium discoideum (Slime mold). The domain has a structure consisting of an 18-heptad-repeat alpha-helical coiled-coil, and is a prerequisite for the assembly of Cortexillin I []. ; PDB: 1D7M_A.
Probab=47.23 E-value=1.3e+02 Score=23.30 Aligned_cols=16 Identities=6% Similarity=0.387 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHHHHHH
Q psy2296 129 EVGNISKELELINKEL 144 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el 144 (208)
++.+|+.++..+...+
T Consensus 59 r~~eLqaki~ea~~~l 74 (107)
T PF09304_consen 59 RIAELQAKIDEARRNL 74 (107)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333333333333333
No 287
>PRK11402 DNA-binding transcriptional regulator FrlR; Provisional
Probab=47.17 E-value=11 Score=32.03 Aligned_cols=31 Identities=19% Similarity=0.429 Sum_probs=25.8
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
=||+-+||..-|..|++||+|.... |.++|-
T Consensus 43 ~~VSR~TvR~Al~~L~~eGli~r~~-G~GTfV 73 (241)
T PRK11402 43 YNVSRITIRKAISDLVADGVLIRWQ-GKGTFV 73 (241)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEec-CceeEE
Confidence 4999999999999999999999764 444444
No 288
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=47.17 E-value=59 Score=26.09 Aligned_cols=64 Identities=20% Similarity=0.316 Sum_probs=46.9
Q ss_pred HHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 12 KRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 12 Kr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
.|..++.-+.+++.+.+.- ||=....+ .|+. .|.==|=--|.+-|+|.+-- |.+.++++.|...
T Consensus 2 ~R~~~i~~Li~~~~i~tqe---eL~~~L~~-~G~~-vsqaTIsRdL~elglvk~~~-~~g~~~Y~~~~~~ 65 (146)
T TIGR01529 2 QRQERIKEIITEEKISTQE---ELVALLKA-EGIE-VTQATVSRDLRELGAVKVRD-EDGSYVYSLPADG 65 (146)
T ss_pred hHHHHHHHHHHcCCCCCHH---HHHHHHHH-hCCC-cCHHHHHHHHHHcCCEEEEC-CCCcEEEeecccc
Confidence 5777888888999999999 99888866 6776 22222223555579987544 8888888998865
No 289
>COG1340 Uncharacterized archaeal coiled-coil protein [Function unknown]
Probab=47.15 E-value=1.4e+02 Score=27.25 Aligned_cols=82 Identities=11% Similarity=0.259 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCC--------hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDS--------KNREDFLQEVGNISKELELINKELEKYKNNDPDT 154 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~--------~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~ 154 (208)
..+...+..+-++.+.+..+..++.+.+...+..|... .+|..+-..+++|......+......+. ..|-.
T Consensus 30 ~El~~~~~~~~ekRdeln~kvrE~~e~~~elr~~rdeineev~elK~kR~ein~kl~eL~~~~~~l~e~~~~~~-~~~~~ 108 (294)
T COG1340 30 DELRKEASELAEKRDELNAKVRELREKAQELREERDEINEEVQELKEKRDEINAKLQELRKEYRELKEKRNEFN-LGGRS 108 (294)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh-ccCCC
Q ss_pred HHHHHHHHHHH
Q psy2296 155 LKLIENTAQRA 165 (208)
Q Consensus 155 i~~~~~~~~~~ 165 (208)
+..+...+..+
T Consensus 109 ~~~ler~i~~L 119 (294)
T COG1340 109 IKSLEREIERL 119 (294)
T ss_pred HHHHHHHHHHH
No 290
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope. They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
Probab=47.02 E-value=1.5e+02 Score=25.96 Aligned_cols=66 Identities=17% Similarity=0.323 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
......+..+..|..+++.++.....|...|....... ..++...-..+..+..++..++.++...
T Consensus 216 ~E~~~~r~~~~~l~~el~~l~~~~~~Le~~l~~le~~~--~~~~~~~~~~i~~le~el~~l~~~~~~~ 281 (312)
T PF00038_consen 216 EELKELRRQIQSLQAELESLRAKNASLERQLRELEQRL--DEEREEYQAEIAELEEELAELREEMARQ 281 (312)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHhhhhHhhhhhhccccchhhhhhhHHHHHHHH--HHHHHHHHHhhhccchhHHHHHHHHHHH
No 291
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=46.97 E-value=3.1e+02 Score=28.07 Aligned_cols=18 Identities=22% Similarity=0.346 Sum_probs=11.6
Q ss_pred CCCCHHHHHHH---HHHHhhh
Q psy2296 5 KGLSVEEKRTG---LLELFHE 22 (208)
Q Consensus 5 kglS~eEKr~~---il~~f~~ 22 (208)
.|+++.+-..- +++.|+.
T Consensus 418 ~GtDp~eg~ala~aile~l~~ 438 (782)
T PRK00409 418 AGTDPDEGAALAISILEYLRK 438 (782)
T ss_pred CCCCHHHHHHHHHHHHHHHHH
Confidence 67888776644 5566655
No 292
>TIGR00012 L29 ribosomal protein L29. called L29 in prokaryotic (50S) large subunits and L35 in eukaryotic (60S) large subunits.
Probab=46.93 E-value=86 Score=20.97 Aligned_cols=48 Identities=13% Similarity=0.221 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
..++.+++.++++++-.|.-+...=.-.+|..|...++++...+.-++
T Consensus 7 ~~EL~~~l~~lr~eLf~Lr~~~~~~~~~~~~~i~~~Rk~IARi~Tvl~ 54 (55)
T TIGR00012 7 KEELAKKLDELKKELFELRFQKATGQLAKPHRIRQVRRDIARLLTVLR 54 (55)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHHHHHHHh
Confidence 355666666677776666655444334579999999998888776543
No 293
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=46.80 E-value=2e+02 Score=25.53 Aligned_cols=25 Identities=24% Similarity=0.565 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 123 REDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
.++++.++.+|+.++..++..|..+
T Consensus 151 keeL~~eleele~e~ee~~erlk~l 175 (290)
T COG4026 151 KEELLKELEELEAEYEEVQERLKRL 175 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444444444333
No 294
>PF15035 Rootletin: Ciliary rootlet component, centrosome cohesion
Probab=46.67 E-value=1.7e+02 Score=24.44 Aligned_cols=88 Identities=19% Similarity=0.243 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-----c-C----CCChhHHHHHHHHHHHHHHHHH-------HHHHHHHHh
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALEKSMV-----G-R----GDSKNREDFLQEVGNISKELEL-------INKELEKYK 148 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-----~-r----~~~~eR~~ll~~l~~L~~~~~~-------l~~el~~~~ 148 (208)
..-+.+|+.++...+.++.++...+..... . + +.+.+=...+..|++=+...+. |..+|+...
T Consensus 15 a~Lv~~LQ~KV~qYr~rc~ele~~l~~~~~l~~~~~~~~~~~e~s~dLe~~l~rLeEEqqR~~~L~qvN~lLReQLEq~~ 94 (182)
T PF15035_consen 15 AQLVQRLQAKVLQYRKRCAELEQQLSASQVLESPSQRRRSEEEHSPDLEEALIRLEEEQQRSEELAQVNALLREQLEQAR 94 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccCcCcccccccccccCcccHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 344678899999999999999988854311 0 1 1234555677777766666666 555555554
Q ss_pred cCCHHHHHHHHHHHHHHHHHHhhhhhhHH
Q psy2296 149 NNDPDTLKLIENTAQRAKEAANRWTDNLF 177 (208)
Q Consensus 149 ~~Dp~~i~~~~~~~~~~k~aanrwTDNI~ 177 (208)
. .-+.+..++..+.....+-.|.+.
T Consensus 95 ~----~N~~L~~dl~klt~~~~~l~~eL~ 119 (182)
T PF15035_consen 95 K----ANEALQEDLQKLTQDWERLRDELE 119 (182)
T ss_pred H----HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3 224455555555555555555444
No 295
>PLN02668 indole-3-acetate carboxyl methyltransferase
Probab=46.62 E-value=11 Score=35.35 Aligned_cols=31 Identities=29% Similarity=0.325 Sum_probs=29.4
Q ss_pred HHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 50 VKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 50 VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
+.+.++.||++|+|..||.-+.|+=..+||.
T Consensus 259 l~~al~dlv~eGlI~eek~dsFniP~Y~ps~ 289 (386)
T PLN02668 259 FQDAWDDLVQEGLVTSEKRDSFNIPVYAPSL 289 (386)
T ss_pred HHHHHHHHHHcCCCCHHHHhcccCcccCCCH
Confidence 7789999999999999999999999999996
No 296
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=46.53 E-value=1.1e+02 Score=26.35 Aligned_cols=91 Identities=15% Similarity=0.212 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhH-HHHHHHHHHHHHHHHHHHHHHHHHhc---CCHHHH
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNR-EDFLQEVGNISKELELINKELEKYKN---NDPDTL 155 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR-~~ll~~l~~L~~~~~~l~~el~~~~~---~Dp~~i 155 (208)
.........+.............+..++.+|...-..=+.+.+| ......|..+.+........+..+.. .+-++|
T Consensus 15 ~~~~~~~~~l~~~~~~~~~aE~e~~~l~rri~~lE~~le~~eerL~~~~~kL~~~e~~~de~er~~k~lE~r~~~~eeri 94 (237)
T PF00261_consen 15 ERLEEAEEKLKEAEKRAEKAEAEVASLQRRIQLLEEELERAEERLEEATEKLEEAEKRADESERARKVLENREQSDEERI 94 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Q ss_pred HHHHHHHHHHHHHHh
Q psy2296 156 KLIENTAQRAKEAAN 170 (208)
Q Consensus 156 ~~~~~~~~~~k~aan 170 (208)
+.+...+..++..+.
T Consensus 95 ~~lE~~l~ea~~~~e 109 (237)
T PF00261_consen 95 EELEQQLKEAKRRAE 109 (237)
T ss_dssp HHCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
No 297
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=46.48 E-value=32 Score=22.85 Aligned_cols=47 Identities=26% Similarity=0.434 Sum_probs=30.5
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
-.+|..++.....-+++ +|-. . -|+...+|-.+|+.|++.|+|....
T Consensus 6 ~~vL~~l~~~~~~~t~~---~l~~---~-~~~~~~~vs~~i~~L~~~glv~~~~ 52 (68)
T PF13463_consen 6 WQVLRALAHSDGPMTQS---DLAE---R-LGISKSTVSRIIKKLEEKGLVEKER 52 (68)
T ss_dssp HHHHHHHT--TS-BEHH---HHHH---H-TT--HHHHHHHHHHHHHTTSEEEEE
T ss_pred HHHHHHHHccCCCcCHH---HHHH---H-HCcCHHHHHHHHHHHHHCCCEEecC
Confidence 35666666555555556 5433 2 6999999999999999999995543
No 298
>COG1422 Predicted membrane protein [Function unknown]
Probab=46.47 E-value=71 Score=27.48 Aligned_cols=40 Identities=15% Similarity=0.299 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHH
Q psy2296 128 QEVGNISKELELINKELEKYKN-NDPDTLKLIENTAQRAKE 167 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~ 167 (208)
+++++++++-++++++..+.++ +|+..++++++.-....+
T Consensus 72 ekm~~~qk~m~efq~e~~eA~~~~d~~~lkkLq~~qmem~~ 112 (201)
T COG1422 72 EKMKELQKMMKEFQKEFREAQESGDMKKLKKLQEKQMEMMD 112 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 5677888888888888887665 899999988876655543
No 299
>COG5293 Predicted ATPase [General function prediction only]
Probab=46.05 E-value=3e+02 Score=26.97 Aligned_cols=61 Identities=16% Similarity=0.316 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh---ccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSM---VGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~---~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+.+++..+.+++.++.++..+.++.. +.|+-.++=+.+.++.-.+..+++++...++.|.+
T Consensus 344 i~~i~~dLk~~n~~~~~l~~~rae~l~~Lk~~g~~e~y~~l~ee~~~~~~elae~~~rie~l~k 407 (591)
T COG5293 344 IAEIEGDLKEVNAELDDLGKRRAEGLAFLKNRGVFEKYQTLCEEIIALRGELAELEYRIEPLRK 407 (591)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhhHHHHHHhhhHHHH
Confidence 33344444444444444444433332 24555666677777777777788887777777665
No 300
>PRK14549 50S ribosomal protein L29P; Provisional
Probab=46.00 E-value=1e+02 Score=21.68 Aligned_cols=47 Identities=15% Similarity=0.140 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYK-NNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~-~~Dp~~i~~~~~~~~~~k~aan 170 (208)
.++.+++.+|++++-.|.-+...=. -.+|..|...+.++...+..++
T Consensus 15 ~eL~~~l~elk~eLf~LR~q~~~~~~l~n~~~ir~~Rk~IARi~Tvl~ 62 (69)
T PRK14549 15 EEREEKLEELKLELLKERAQAAMGGAPENPGRIREIRRTIARILTIQR 62 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCcCccccHHHHHHHHHHHHHHHHHH
Confidence 4555666666666666665544444 4578889888888888776554
No 301
>COG1196 Smc Chromosome segregation ATPases [Cell division and chromosome partitioning]
Probab=45.59 E-value=4e+02 Score=28.36 Aligned_cols=54 Identities=20% Similarity=0.365 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc--CC-HHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 126 FLQEVGNISKELELINKELEKYKN--ND-PDTLKLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el~~~~~--~D-p~~i~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
+..++..++.+...+...+..+.. .+ -..+..+......++....++...+..+
T Consensus 861 ~~~~l~~~~~~~~~l~~~l~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~l 917 (1163)
T COG1196 861 LKEELEELEAEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEEL 917 (1163)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444443332 00 2344444445555555555555555444
No 302
>PF07989 Microtub_assoc: Microtubule associated; InterPro: IPR012943 Proteins with this domain associate with the spindle body during cell division [].
Probab=45.59 E-value=1.1e+02 Score=21.93 Aligned_cols=60 Identities=22% Similarity=0.304 Sum_probs=44.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
....++.|.++.=.++-+|--+.+.+... ..+....++.+.-+|+.++..|+.++..+..
T Consensus 5 qe~~i~~L~KENF~LKLrI~fLee~l~~~-----~~~~~~~~~keNieLKve~~~L~~el~~~~~ 64 (75)
T PF07989_consen 5 QEEQIDKLKKENFNLKLRIYFLEERLQKL-----GPESIEELLKENIELKVEVESLKRELQEKKK 64 (75)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHHhc-----ccccHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567778888888888888888777632 1234567778888888888888888877764
No 303
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=45.53 E-value=99 Score=23.17 Aligned_cols=89 Identities=19% Similarity=0.350 Sum_probs=53.5
Q ss_pred HhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 36 EKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 36 EK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
+.+|.. |||.+. .|..||+-|+|.-+-.|. ==|.|++......+... .|...++---.
T Consensus 11 ~Elc~~-~gi~~~----~l~eLve~GlIep~~~~~--~~~~F~~~~l~r~~~a~---------------rL~~dl~in~~ 68 (101)
T PRK10265 11 TEFCLH-TGVSEE----ELNEIVGLGVIEPREIQE--TTWVFDDHAAIVVQRAV---------------RLRHELALDWP 68 (101)
T ss_pred HHHHHH-HCcCHH----HHHHHHHCCCeecCCCCc--ccceECHHHHHHHHHHH---------------HHHHHcCCCHH
Confidence 334444 688875 456788899999865553 45788886654433221 12211110000
Q ss_pred cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 116 GRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 116 ~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
| -.==-.++.+++.|+.++..|+..|..|.+
T Consensus 69 g---ialvl~LLd~i~~Lr~el~~L~~~l~~~~~ 99 (101)
T PRK10265 69 G---IAVALTLLDEIAHLKQENRLLRQRLSRFVA 99 (101)
T ss_pred H---HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 0 011356788888889999999888887764
No 304
>PRK15396 murein lipoprotein; Provisional
Probab=45.48 E-value=1.2e+02 Score=22.17 Aligned_cols=47 Identities=19% Similarity=0.367 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 129 EVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 129 ~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
++++|+.++..|..+..+++. .+..++.++..+++.|+|-.+=|..+
T Consensus 26 kvd~LssqV~~L~~kvdql~~----dv~~~~~~~~~a~~eA~raN~RlDn~ 72 (78)
T PRK15396 26 KIDQLSSDVQTLNAKVDQLSN----DVNAMRSDVQAAKDDAARANQRLDNQ 72 (78)
T ss_pred hHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777777777777664 45667777777888887776544443
No 305
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=45.43 E-value=73 Score=33.30 Aligned_cols=67 Identities=12% Similarity=0.185 Sum_probs=40.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSM-VGRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~-~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.......+.+|+++++.++.+++.++..+.... ..+.+.+-.+.--+.+.+++.+++.+++.|+.++
T Consensus 924 ~id~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 991 (995)
T PTZ00419 924 FIDLKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELK 991 (995)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334566677777777777777777776665433 1233333344444556667777777777766654
No 306
>KOG0804|consensus
Probab=45.35 E-value=3e+02 Score=26.74 Aligned_cols=27 Identities=15% Similarity=0.282 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
+...-..+.+++..++.+.+|+...++
T Consensus 377 kk~~e~k~~q~q~k~~k~~kel~~~~E 403 (493)
T KOG0804|consen 377 KKIVERKLQQLQTKLKKCQKELKEERE 403 (493)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445566666666666666655544
No 307
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=45.35 E-value=44 Score=23.62 Aligned_cols=25 Identities=24% Similarity=0.430 Sum_probs=20.3
Q ss_pred hcccccCCccchHHHHHHHhhhcCcc
Q psy2296 38 LAPKEKGIISQSVKEILQSLVDDGLV 63 (208)
Q Consensus 38 ~~pK~~GI~~~~VKdvlq~LVDDglV 63 (208)
++-. +|++..++..+|..|++.|||
T Consensus 25 i~~~-~~L~~~~~~~yL~~L~~~gLI 49 (77)
T PF14947_consen 25 IMYK-ANLNYSTLKKYLKELEEKGLI 49 (77)
T ss_dssp HHTT-ST--HHHHHHHHHHHHHTTSE
T ss_pred HHHH-hCcCHHHHHHHHHHHHHCcCe
Confidence 3434 899999999999999999999
No 308
>PF15397 DUF4618: Domain of unknown function (DUF4618)
Probab=45.29 E-value=2.2e+02 Score=25.33 Aligned_cols=27 Identities=22% Similarity=0.394 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
.+..|+.++..++.+|...++.+.-+.
T Consensus 82 ~l~~Lq~ql~~l~akI~k~~~el~~L~ 108 (258)
T PF15397_consen 82 KLSKLQQQLEQLDAKIQKTQEELNFLS 108 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555555555555555443
No 309
>COG4957 Predicted transcriptional regulator [Transcription]
Probab=45.29 E-value=24 Score=28.68 Aligned_cols=30 Identities=20% Similarity=0.424 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhcCCCHHHHhhhcCCCCCCc
Q psy2296 176 LFSLKSWCKNKFGLEETALNKHFSIPEEMD 205 (208)
Q Consensus 176 I~~l~~~~~~k~~~~~~~i~~~f~Ip~d~d 205 (208)
.-+|+.|+...|||.+++-+.-.|+|.|+-
T Consensus 86 fKSLKRHL~t~~gmTPd~YR~KW~LP~dYP 115 (148)
T COG4957 86 FKSLKRHLTTHYGLTPDEYRAKWGLPPDYP 115 (148)
T ss_pred hHHHHHHHhcccCCCHHHHHHhcCCCCCCC
Confidence 347899999999999999999999999963
No 310
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=45.20 E-value=12 Score=31.58 Aligned_cols=29 Identities=34% Similarity=0.540 Sum_probs=25.3
Q ss_pred cCCccchHHHHHHHhhhcCcccccc-cccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEK-IGTS 71 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EK-iGts 71 (208)
-||+-+||..-|+.|+++|+|...+ .||.
T Consensus 35 ~~VSR~TVR~Al~~L~~eGli~r~~G~Gtf 64 (230)
T TIGR02018 35 YGCSRMTVNRALRELTDAGLLERRQGVGTF 64 (230)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEecCCEEE
Confidence 5999999999999999999998874 5554
No 311
>KOG1937|consensus
Probab=45.03 E-value=3e+02 Score=26.75 Aligned_cols=116 Identities=17% Similarity=0.351 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHH-----------HHhcC
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELE-----------KYKNN 150 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~-----------~~~~~ 150 (208)
....+.+...|+...++.+.-...-...+-.+...++...+| +.+++++...+..+..++. .++..
T Consensus 302 l~~~~~~~~~ltqqwed~R~pll~kkl~Lr~~l~~~e~e~~e---~~~IqeleqdL~a~~eei~~~eel~~~Lrsele~l 378 (521)
T KOG1937|consen 302 LAELNKQMEELTQQWEDTRQPLLQKKLQLREELKNLETEDEE---IRRIQELEQDLEAVDEEIESNEELAEKLRSELEKL 378 (521)
T ss_pred HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccchHHH---HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHhcC
Q ss_pred CH--------HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCCCCC
Q psy2296 151 DP--------DTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIPEEM 204 (208)
Q Consensus 151 Dp--------~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip~d~ 204 (208)
+| .+|.++...+....+.+-+.-+..-.|+ +.-+.-.+.+++.|.+.+++
T Consensus 379 p~dv~rk~ytqrikEi~gniRKq~~DI~Kil~etreLq----kq~ns~se~L~Rsfavtdel 436 (521)
T KOG1937|consen 379 PDDVQRKVYTQRIKEIDGNIRKQEQDIVKILEETRELQ----KQENSESEALNRSFAVTDEL 436 (521)
T ss_pred CchhHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHhhhHHHHHHH
No 312
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=44.77 E-value=1.3e+02 Score=24.73 Aligned_cols=17 Identities=47% Similarity=0.644 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy2296 130 VGNISKELELINKELEK 146 (208)
Q Consensus 130 l~~L~~~~~~l~~el~~ 146 (208)
...++++++++++||++
T Consensus 156 ~~~~~~ei~~lk~el~~ 172 (192)
T PF05529_consen 156 NKKLSEEIEKLKKELEK 172 (192)
T ss_pred hhhhHHHHHHHHHHHHH
Confidence 34444444444444444
No 313
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=44.54 E-value=3e+02 Score=27.72 Aligned_cols=27 Identities=15% Similarity=0.111 Sum_probs=17.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQN 106 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l 106 (208)
++.......+..+...+...+.++..+
T Consensus 345 DALAAA~kAY~~yk~kl~~vEr~~~~~ 371 (652)
T COG2433 345 DALAAAYKAYLAYKPKLEKVERKLPEL 371 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 555666666777777777777766543
No 314
>KOG2758|consensus
Probab=44.31 E-value=1.3e+02 Score=28.15 Aligned_cols=38 Identities=26% Similarity=0.487 Sum_probs=26.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQ 163 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~ 163 (208)
+.|+..++++.+|+.+.+-+-+=++ +|+.++.++..-.
T Consensus 73 ekr~~Vla~lkeLe~ev~piv~~le-----~Pd~~~~~~~~k~ 110 (432)
T KOG2758|consen 73 EKRTEVLAELKELEEEVAPIVKVLE-----NPDLIAALRSDKD 110 (432)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHc-----CHHHHHHHHhhhh
Confidence 3578888888888877777655442 6888888766543
No 315
>PRK10079 phosphonate metabolism transcriptional regulator PhnF; Provisional
Probab=44.02 E-value=16 Score=31.11 Aligned_cols=30 Identities=17% Similarity=0.426 Sum_probs=25.1
Q ss_pred cCCccchHHHHHHHhhhcCccccccccccee
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTY 73 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~ 73 (208)
-||+-+||..-|+.|+++|+|..-. |.++|
T Consensus 45 ~~VSR~TVR~Al~~L~~eGli~r~~-G~Gtf 74 (241)
T PRK10079 45 YEVNRHTLRRAIDQLVEKGWVQRRQ-GVGVL 74 (241)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEec-CCEEE
Confidence 5999999999999999999998653 44444
No 316
>cd01109 HTH_YyaN Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB. Putative helix-turn-helix (HTH) MerR-like transcription regulators of Bacillus subtilis, YyaN and YraB, and related proteins; N-terminal domain. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=43.77 E-value=1.4e+02 Score=22.42 Aligned_cols=96 Identities=10% Similarity=0.165 Sum_probs=45.7
Q ss_pred ccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCh
Q psy2296 42 EKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSK 121 (208)
Q Consensus 42 ~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~ 121 (208)
.+||++.|+.-+- +-|++..-.... |=|+.|.......+ ..+..+.+ +---+++.+.-+.....+.....
T Consensus 9 ~~gvs~~tlr~ye----~~gll~~~~r~~-~gyR~Y~~~~l~~l-~~I~~lr~----~G~sL~eI~~~l~~~~~~~~~~~ 78 (113)
T cd01109 9 KTGLSADTLRYYE----KEGLLPPVKRDE-NGIRDFTEEDLEWL-EFIKCLRN----TGMSIKDIKEYAELRREGDSTIP 78 (113)
T ss_pred HHCcCHHHHHHHH----HCCCCCCCCcCC-CCCccCCHHHHHHH-HHHHHHHH----cCCCHHHHHHHHHHHccCCccHH
Confidence 3799999998774 459995433333 33555665544433 22223322 11122233333332222222223
Q ss_pred hHHH-HHHHHHHHHHHHHHHHHHHHHH
Q psy2296 122 NRED-FLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 122 eR~~-ll~~l~~L~~~~~~l~~el~~~ 147 (208)
++.. +...+..|..+++.|+..++.+
T Consensus 79 ~~~~~l~~~~~~l~~~i~~l~~~~~~l 105 (113)
T cd01109 79 ERLELLEEHREELEEQIAELQETLAYL 105 (113)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333 3345666666666666555443
No 317
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=43.62 E-value=13 Score=29.31 Aligned_cols=26 Identities=19% Similarity=0.350 Sum_probs=24.2
Q ss_pred ccCCccchHHHHHHHhhhcCcccccc
Q psy2296 42 EKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 42 ~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
.-||+...|..+++.|...|+|.+-+
T Consensus 34 ~~~is~~~vrk~l~~L~~~Glv~s~~ 59 (141)
T PRK11014 34 VYGVSRNHMVKIINQLSRAGYVTAVR 59 (141)
T ss_pred HHCcCHHHHHHHHHHHHhCCEEEEec
Confidence 37999999999999999999999876
No 318
>PRK04424 fatty acid biosynthesis transcriptional regulator; Provisional
Probab=43.54 E-value=34 Score=28.40 Aligned_cols=50 Identities=28% Similarity=0.232 Sum_probs=41.3
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE 64 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~ 64 (208)
|+.++.+..|+++++..... +++ ||-.. -||+.+||.==|+.|..+|+|.
T Consensus 3 m~~~~R~~~Il~~l~~~~~~-~~~---~La~~----~~vS~~TiRRDl~~L~~~g~~~ 52 (185)
T PRK04424 3 LSKKERQKALQELIEENPFI-TDE---ELAEK----FGVSIQTIRLDRMELGIPELRE 52 (185)
T ss_pred CCHHHHHHHHHHHHHHCCCE-EHH---HHHHH----HCcCHHHHHHHHHHHhcchHHH
Confidence 56788999999999996654 667 66433 6999999999999999999875
No 319
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=43.51 E-value=2.3e+02 Score=24.91 Aligned_cols=60 Identities=23% Similarity=0.426 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q psy2296 93 TAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPD 153 (208)
Q Consensus 93 ~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~ 153 (208)
.+.|..+..+|..+-.+++.+... ++-++-..++.+.+.|+.+...+..++..+....|.
T Consensus 122 ~~~i~~l~~~I~~ll~~aE~LGee-G~VdeA~~~~~~~e~Lk~ek~~le~~~~~~~~~~~~ 181 (254)
T PF03194_consen 122 AEKIDELDEKIGELLKEAEELGEE-GDVDEAQKLMEEVEKLKEEKEELEKELEEYRNSIEN 181 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhh
Confidence 344555555555555555444331 223445566666666666666666655555544443
No 320
>PRK11020 hypothetical protein; Provisional
Probab=43.40 E-value=1.4e+02 Score=23.52 Aligned_cols=49 Identities=20% Similarity=0.323 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHH
Q psy2296 92 ITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELIN 141 (208)
Q Consensus 92 l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~ 141 (208)
++.+|..+..++..++..++.+ ..|+|.+-=.....++..|.+++..++
T Consensus 3 ~K~Eiq~L~drLD~~~~Klaaa-~~rgd~~~i~qf~~E~~~l~k~I~~lk 51 (118)
T PRK11020 3 EKNEIKRLSDRLDAIRHKLAAA-SLRGDAEKYAQFEKEKATLEAEIARLK 51 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-HhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555555555555555444 335554444444444444444444443
No 321
>cd01279 HTH_HspR-like Helix-Turn-Helix DNA binding domain of HspR-like transcription regulators. Helix-turn-helix (HTH) transcription regulator HspR and related proteins, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=43.39 E-value=1.2e+02 Score=22.31 Aligned_cols=46 Identities=17% Similarity=0.173 Sum_probs=30.7
Q ss_pred hhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHH
Q psy2296 27 FQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRV 85 (208)
Q Consensus 27 f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~ 85 (208)
|++. |+-+ ..||++.++.-. ...|+|... .+.+=||.|.......+
T Consensus 2 ~~i~---eva~----~~gVs~~tLR~y----e~~Gli~p~--r~~~g~R~Ys~~dv~~l 47 (98)
T cd01279 2 YPIS---VAAE----LLGIHPQTLRVY----DRLGLVSPA--RTNGGGRRYSNNDLELL 47 (98)
T ss_pred cCHH---HHHH----HHCcCHHHHHHH----HHCCCCCCC--cCCCCCeeECHHHHHHH
Confidence 5566 5544 379999988876 568999874 34445677776655443
No 322
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=43.25 E-value=51 Score=22.70 Aligned_cols=27 Identities=22% Similarity=0.407 Sum_probs=23.0
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
.+|.+++.+...|++++.+|+.=|.+|
T Consensus 33 ~~R~~l~~e~~~L~~qN~eLr~lLkqY 59 (60)
T PF14775_consen 33 LDRAALIQEKESLEQQNEELRSLLKQY 59 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 378899999999999999998887765
No 323
>KOG2587|consensus
Probab=43.24 E-value=2.8e+02 Score=27.30 Aligned_cols=53 Identities=19% Similarity=0.429 Sum_probs=39.8
Q ss_pred HHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccce
Q psy2296 12 KRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTST 72 (208)
Q Consensus 12 Kr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN 72 (208)
-..||+.++...+ +-.-| -+|+.| =+...-.+++|++|+.+|-|+.-++|-++
T Consensus 398 rAiRl~R~l~~k~-~veek---qv~~~A----lm~~Kd~r~~L~~m~~~g~v~lQeVprTa 450 (551)
T KOG2587|consen 398 RAIRLFRLLLQKK-HVEEK---QVEDFA----LMPAKDARDMLYKMLEEGYVELQEVPRTA 450 (551)
T ss_pred HHHHHHHHHHhcc-cchHH---HHHHhh----ccccccHHHHHHHHHHcCceeeeecCCCC
Confidence 3467777777777 55556 555544 33446678999999999999999999888
No 324
>cd00089 HR1 Protein kinase C-related kinase homology region 1 domain; also known as the ACC (antiparallel coiled-coil) finger domain or Rho-binding domain. Found in vertebrate PRK1 and yeast PKC1 protein kinases C; those found in rhophilin bind RhoGTP; those in PRK1 bind RhoA and RhoB. Rho family members function as molecular switches, cycling between inactive and active forms, controlling a variety of cellular processes. HR1 repeats often occur in tandem repeat arrangments, seperated by a short linker region.
Probab=43.07 E-value=1.1e+02 Score=21.20 Aligned_cols=65 Identities=22% Similarity=0.241 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
..+..++.|..++..-.+-..-+..-+.....+. ....+...-.++.+-...+..|+.+|.+|..
T Consensus 6 ~~~~~l~~L~~~l~~E~~~r~Gaenm~~~~~~~~-~~~~~~~~~~~l~es~~ki~~Lr~~L~k~~~ 70 (72)
T cd00089 6 KLQSRLERLEKELSIELKVKEGAENLLRLYSDEK-KKKLLAEAEQMLRESKQKLELLKMQLEKLKQ 70 (72)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-CccCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455566666666555444444444343333333 2357888889999999999999999998864
No 325
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=42.85 E-value=86 Score=33.12 Aligned_cols=67 Identities=10% Similarity=0.100 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMV-GRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
......+.+|.++++.+++++..++..+....- .+...+-.+.--.++++++.++.++++.+..+..
T Consensus 838 iD~~~e~~rLekel~kl~Kel~kl~~~L~n~~f~~kap~~~veka~~kl~~~~~~l~~le~~l~~L~~ 905 (1052)
T PRK14900 838 IDLAAETARVDKEIGKVDQDLAVLERKLQNPSFVQNAPPAVVEKDRARAEELREKRGKLEAHRAMLSG 905 (1052)
T ss_pred cCHHHHHhhHHHHHHHHHHHHHHHHHHhcCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 346667778888888888888888888877554 2333344444455557777888888888877765
No 326
>KOG3215|consensus
Probab=42.70 E-value=1.6e+02 Score=25.65 Aligned_cols=70 Identities=19% Similarity=0.305 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccC-------------CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy2296 92 ITAEIEDVTKELAQNNEALEKSMVGR-------------GDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLI 158 (208)
Q Consensus 92 l~~~i~~~~~~i~~l~~~ie~~~~~r-------------~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~ 158 (208)
....|.....++..+..+|..++..| .+.+.|.+-...+.+|.++++.+.. .....|..++--
T Consensus 101 iersi~~a~~kie~lkkql~eaKi~r~nrqe~~~l~kvis~~p~RsEt~k~l~el~keleel~~----~~~s~~~klelr 176 (222)
T KOG3215|consen 101 IERSIQKARNKIELLKKQLHEAKIVRLNRQEYSALSKVISDCPARSETDKDLNELKKELEELDD----LNNSTETKLELR 176 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHHHHH----HhhhhHHHHHHH
Confidence 44455555555556666665555532 4556677777777777777766544 344456666665
Q ss_pred HHHHHHH
Q psy2296 159 ENTAQRA 165 (208)
Q Consensus 159 ~~~~~~~ 165 (208)
+++...+
T Consensus 177 Rkqf~~l 183 (222)
T KOG3215|consen 177 RKQFKYL 183 (222)
T ss_pred hhcchHH
Confidence 5555443
No 327
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=42.61 E-value=19 Score=24.82 Aligned_cols=24 Identities=29% Similarity=0.495 Sum_probs=18.6
Q ss_pred cCCccchHHHHHHHhhhcCccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
.+++...++.+|+.||.||.+.+.
T Consensus 31 ~~~s~~eL~~fL~~lv~e~~L~~~ 54 (60)
T PF08672_consen 31 YDISLEELQEFLDRLVEEGKLECS 54 (60)
T ss_dssp TT--HHHHHHHHHHHHHTTSEE--
T ss_pred CCCCHHHHHHHHHHHHHCCcEEec
Confidence 577889999999999999999887
No 328
>cd00187 TOP4c DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA topology by catalysing the concerted breakage and rejoining of DNA strands during normal cellular growth.
Probab=42.34 E-value=2.9e+02 Score=26.40 Aligned_cols=47 Identities=15% Similarity=0.128 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVG 131 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~ 131 (208)
.+-.+.++++++.-++..+.-+..-.+-...-|...+-|..+++++.
T Consensus 336 ~~~~l~k~~~rl~il~g~~~~i~~id~vi~~ir~s~~ak~~L~~~l~ 382 (445)
T cd00187 336 KEYELGKAEARLHILEGLLKAILNIDEVINLIRSSDEAKKALIEELE 382 (445)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence 33445566666665555555444433333334443444667766663
No 329
>PF14282 FlxA: FlxA-like protein
Probab=42.22 E-value=74 Score=24.14 Aligned_cols=23 Identities=17% Similarity=0.497 Sum_probs=10.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNE 108 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~ 108 (208)
...+..|++.|..+..++..+..
T Consensus 18 ~~~I~~L~~Qi~~Lq~ql~~l~~ 40 (106)
T PF14282_consen 18 DSQIEQLQKQIKQLQEQLQELSQ 40 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHc
Confidence 34444444555555444444443
No 330
>TIGR02231 conserved hypothetical protein. This family consists of proteins over 500 amino acids long in Caenorhabditis elegans and several bacteria (Pseudomonas aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans, etc.). The function is unknown.
Probab=42.06 E-value=3.2e+02 Score=26.15 Aligned_cols=35 Identities=9% Similarity=0.077 Sum_probs=22.3
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 79 NKASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 79 s~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+.....++.++..++.+++.++.++..++..+.-.
T Consensus 70 ~~~~~~l~~~l~~l~~~~~~~~~~~~~~~~~~~~l 104 (525)
T TIGR02231 70 PERLAELRKQIRELEAELRDLEDRGDALKALAKFL 104 (525)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666777777777777777776666665433
No 331
>PF12128 DUF3584: Protein of unknown function (DUF3584); InterPro: IPR021979 This family consist of uncharacterised bacterial proteins.
Probab=41.90 E-value=4.7e+02 Score=28.06 Aligned_cols=58 Identities=17% Similarity=0.257 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH-------HHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLK-------LIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~-------~~~~~~~~~k~aanrwTDNI~~l 179 (208)
++..+-..+..++.++..+..+...|.+.|-+.+. .++.+...+....+..|...-.|
T Consensus 314 ~~~~~~~~l~~~~~~L~~i~~~~~~ye~~~i~~~~~~~~~l~~~~~~~~~l~~~~~~Lt~~~~di 378 (1201)
T PF12128_consen 314 ELSALNADLARIKSELDEIEQQKKDYEDADIEQLIARVDQLPEWRNELENLQEQLDLLTSKHQDI 378 (1201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555566666777777777777777776643333 33334444444444444444333
No 332
>PRK11020 hypothetical protein; Provisional
Probab=41.78 E-value=1.4e+02 Score=23.49 Aligned_cols=44 Identities=18% Similarity=0.281 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhh
Q psy2296 128 QEVGNISKELELINKELEKYKN-NDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~aanr 171 (208)
++++.|..++..++-.+..... .|++.|.+...++..+...+++
T Consensus 5 ~Eiq~L~drLD~~~~Klaaa~~rgd~~~i~qf~~E~~~l~k~I~~ 49 (118)
T PRK11020 5 NEIKRLSDRLDAIRHKLAAASLRGDAEKYAQFEKEKATLEAEIAR 49 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHH
Confidence 4566666666666666666544 6777777776666655544443
No 333
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=41.63 E-value=1.4e+02 Score=21.96 Aligned_cols=37 Identities=19% Similarity=0.372 Sum_probs=24.2
Q ss_pred hhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 27 FQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 27 f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
|+++ |+-++ +||++.|+.-+ ...|++...+-+.+|+.
T Consensus 1 ~ti~---eva~~----~gvs~~tlR~y----e~~Gll~~~~~~~~g~R 37 (103)
T cd01106 1 YTVG---EVAKL----TGVSVRTLHYY----DEIGLLKPSRRTENGYR 37 (103)
T ss_pred CCHH---HHHHH----HCcCHHHHHHH----HHCCCCCCCccCCCCce
Confidence 4555 55543 79999998855 45799876555544544
No 334
>PRK06798 fliD flagellar capping protein; Validated
Probab=41.57 E-value=2.4e+02 Score=26.75 Aligned_cols=54 Identities=7% Similarity=0.259 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+...|..++..++.++..++.+++. .++.+..++..|...+.+|+.+...+..
T Consensus 379 ~r~~~l~~~i~~l~~~~~~~e~rl~~---------~e~~l~~qf~ale~~ms~lnsQ~s~l~~ 432 (440)
T PRK06798 379 ERSKSIDNRVSKLDLKITDIDTQNKQ---------KQDNIVDKYQKLESTLAALDSQLKTIKA 432 (440)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566777777777777777776652 3466778888888888888888766553
No 335
>COG1725 Predicted transcriptional regulators [Transcription]
Probab=41.49 E-value=16 Score=29.05 Aligned_cols=29 Identities=31% Similarity=0.583 Sum_probs=25.0
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccce
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTST 72 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN 72 (208)
.||+|.||.-.-+.|..+|.|.+.+ |.+.
T Consensus 45 ~~VNpnTv~raY~eLE~eG~i~t~r-g~G~ 73 (125)
T COG1725 45 LGVNPNTVQRAYQELEREGIVETKR-GKGT 73 (125)
T ss_pred hCCCHHHHHHHHHHHHHCCCEEEec-CeeE
Confidence 7999999999999999999998864 4443
No 336
>PF04999 FtsL: Cell division protein FtsL; InterPro: IPR007082 In Escherichia coli, nine gene products are known to be essential for assembly of the division septum. One of these, FtsL, is a bitopic membrane protein whose precise function is not understood. It has been proposed that FtsL interacts with the DivIC protein IPR007060 from INTERPRO [], however this interaction may be indirect [].; GO: 0007049 cell cycle, 0016021 integral to membrane
Probab=41.25 E-value=89 Score=22.80 Aligned_cols=35 Identities=17% Similarity=0.358 Sum_probs=23.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLI 158 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~ 158 (208)
+-..+..+...|+.+...|.-|.+.+. +|.+|+..
T Consensus 43 ~l~~l~~~~~~l~~e~~~L~lE~~~l~--~~~rIe~i 77 (97)
T PF04999_consen 43 ELQQLEKEIDQLQEENERLRLEIATLS--SPSRIERI 77 (97)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhh--CHHHHHHH
Confidence 345555666677777777777777776 48777753
No 337
>PRK10046 dpiA two-component response regulator DpiA; Provisional
Probab=41.20 E-value=57 Score=26.94 Aligned_cols=54 Identities=15% Similarity=0.182 Sum_probs=40.4
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE 66 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E 66 (208)
+|++.--.| .++.++.+...=++.| ||-.. -||++.||+-.+..|+.-|++..+
T Consensus 157 ~~~~~Lt~r-~Vl~~~~~g~~g~s~~---eIa~~----l~iS~~Tv~~~~~~~~~~~~~~~~ 210 (225)
T PRK10046 157 TGIDPLTLN-AVRKLFKEPGVQHTAE---TVAQA----LTISRTTARRYLEYCASRHLIIAE 210 (225)
T ss_pred CCCCHHHHH-HHHHHHHcCCCCcCHH---HHHHH----hCccHHHHHHHHHHHHhCCeEEEE
Confidence 344433334 6788887665557788 65432 599999999999999999999988
No 338
>PF04645 DUF603: Protein of unknown function, DUF603; InterPro: IPR006739 This family includes several uncharacterised proteins from Borrelia species.
Probab=41.14 E-value=1.6e+02 Score=24.89 Aligned_cols=55 Identities=24% Similarity=0.323 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKEL 144 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el 144 (208)
+..+..++..++.+|..|+.++..... |.-.++=+.+..+|.++.++.+..+.+|
T Consensus 107 L~s~~~ei~~L~~kI~~L~~~in~~~k-~~~n~~i~slk~EL~d~iKe~e~~emeL 161 (181)
T PF04645_consen 107 LKSIKKEIEILRLKISSLQKEINKNKK-KDLNEEIESLKSELNDLIKEREIREMEL 161 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhh-hhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 444555666666666666665544322 1122234566666777777776666665
No 339
>TIGR01461 greB transcription elongation factor GreB. The GreA and GreB transcription elongation factors enable to continuation of RNA transcription past template-encoded arresting sites. Among the Proteobacteria, distinct clades of GreA and GreB are found. GreB differs functionally in that it releases larger oligonucleotides. This model describes proteobacterial GreB.
Probab=41.04 E-value=1.1e+02 Score=24.75 Aligned_cols=65 Identities=15% Similarity=0.176 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHHhccCC--CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q psy2296 88 KLEKITAEIEDVT-KELAQNNEALEKSMVGRG--DSKNREDFLQEVGNISKELELINKELEKYKNNDP 152 (208)
Q Consensus 88 ~~~~l~~~i~~~~-~~i~~l~~~ie~~~~~r~--~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp 152 (208)
-+++|+++++.+. .+.-++.+.|..+..... +..+=...-.++..+..++..|...|....=.||
T Consensus 9 G~~~L~~El~~L~~~~r~~~~~~i~~Ar~~GDlsENaeY~aak~~~~~le~rI~~L~~~L~~A~iid~ 76 (156)
T TIGR01461 9 GYEKLKQELNYLWREERPEVTQKVTWAASLGDRSENADYQYGKKRLREIDRRVRFLTKRLENLKVVDY 76 (156)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHcCCcchhhhhHHHHHHHHHHHHHHHHHHHHHhcCEEeCC
Confidence 3567888888886 467778888877766433 3344444555677778888888888876554443
No 340
>PRK10434 srlR DNA-bindng transcriptional repressor SrlR; Provisional
Probab=41.02 E-value=45 Score=28.98 Aligned_cols=56 Identities=16% Similarity=0.267 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
|..+|.+.+|++++.+... -+++ ||-+. -||+.+||.-=|..|-..|+|.--.=|.
T Consensus 1 m~~~eR~~~Il~~L~~~~~-v~v~---eLa~~----l~VS~~TIRRDL~~Le~~g~l~r~~Gga 56 (256)
T PRK10434 1 MKPRQRQAAILEYLQKQGK-TSVE---ELAQY----FDTTGTTIRKDLVILEHAGTVIRTYGGV 56 (256)
T ss_pred CCHHHHHHHHHHHHHHcCC-EEHH---HHHHH----HCCCHHHHHHHHHHHHHCCCEEEEECCE
Confidence 4568999999999999664 6777 77654 5999999988899999999988776554
No 341
>PRK05638 threonine synthase; Validated
Probab=40.94 E-value=54 Score=30.76 Aligned_cols=67 Identities=21% Similarity=0.379 Sum_probs=49.1
Q ss_pred CCHHHHHHHHHHHhhhcc-chhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc-ccccceeEeeccchhh
Q psy2296 7 LSVEEKRTGLLELFHEKE-EFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE-KIGTSTYFWSFPNKAS 82 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~-~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E-KiGtsN~YWsFps~~~ 82 (208)
|.....|-.||.++.... .+| ||-+..+. .|+..+|--.|+.|.+.|||... +-|- ..||+.-....
T Consensus 367 ~~~~~~r~~IL~~L~~~~~~~~------el~~~l~~--~~s~~~v~~hL~~Le~~GLV~~~~~~g~-~~~Y~Lt~~g~ 435 (442)
T PRK05638 367 FTIGGTKLEILKILSEREMYGY------EIWKALGK--PLKYQAVYQHIKELEELGLIEEAYRKGR-RVYYKLTEKGR 435 (442)
T ss_pred hcccchHHHHHHHHhhCCccHH------HHHHHHcc--cCCcchHHHHHHHHHHCCCEEEeecCCC-cEEEEECcHHH
Confidence 446677999999988643 345 44444443 58899999999999999999874 5675 55777766554
No 342
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=40.68 E-value=1e+02 Score=26.06 Aligned_cols=31 Identities=29% Similarity=0.359 Sum_probs=26.0
Q ss_pred ccccCCccchHHHHHHHhhhcCccccc-cccc
Q psy2296 40 PKEKGIISQSVKEILQSLVDDGLVESE-KIGT 70 (208)
Q Consensus 40 pK~~GI~~~~VKdvlq~LVDDglV~~E-KiGt 70 (208)
...-||+-.+|.|.|+.|..+|||.+. ..|+
T Consensus 41 a~~lgVSRtpVREAL~~L~~eGlv~~~~~~G~ 72 (254)
T PRK09464 41 AKQFDVSRPSLREAIQRLEAKGLLLRRQGGGT 72 (254)
T ss_pred HHHhCCCHHHHHHHHHHHHHCCCEEEecCcee
Confidence 333799999999999999999999977 4444
No 343
>PRK10246 exonuclease subunit SbcC; Provisional
Probab=40.60 E-value=4.3e+02 Score=27.89 Aligned_cols=97 Identities=11% Similarity=0.232 Sum_probs=54.6
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC----ChhHHHHHHHHHHHHHHHHHHHHHHHHHhc---
Q psy2296 77 FPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGD----SKNREDFLQEVGNISKELELINKELEKYKN--- 149 (208)
Q Consensus 77 Fps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~----~~eR~~ll~~l~~L~~~~~~l~~el~~~~~--- 149 (208)
.+......++..+..+...+..+...+.+++..++....++.. ..+...+...+..++.++..+...+..+..
T Consensus 774 ~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~ 853 (1047)
T PRK10246 774 LDEETLTQLEQLKQNLENQRQQAQTLVTQTAQALAQHQQHRPDGLDLTVTVEQIQQELAQLAQQLRENTTRQGEIRQQLK 853 (1047)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555566667777777777777777777776666664444421 233444455555555555444444433332
Q ss_pred ---CCHHHHHHHHHHHHHHHHHHhhhh
Q psy2296 150 ---NDPDTLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 150 ---~Dp~~i~~~~~~~~~~k~aanrwT 173 (208)
..-..+..+..++..+....+.|.
T Consensus 854 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 880 (1047)
T PRK10246 854 QDADNRQQQQALMQQIAQATQQVEDWG 880 (1047)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 113455555566666666666664
No 344
>PF10376 Mei5: Double-strand recombination repair protein ; InterPro: IPR018468 Mei5 is one of a pair of meiosis-specific proteins which facilitate the loading of Dmc1 on to Rad51 on DNA at double-strand breaks during recombination. Recombination is carried out by a large protein complex based around the two RecA homologues, Rad51 and Dmc1 []. This complex may play both a catalytic and a structural role in the interaction between homologous chromosomes during meiosis. Mei5 is seen to contain a coiled-coli region.
Probab=40.50 E-value=2.4e+02 Score=24.37 Aligned_cols=80 Identities=19% Similarity=0.233 Sum_probs=44.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhc-------CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHh--hcCCCH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKN-------NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKN--KFGLEE 191 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~-------~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~--k~~~~~ 191 (208)
..+.++..+...|..++.....+|..+.. +|...++.+...-..+.+. -+.-|..-+.. .--+.-
T Consensus 131 ~~~~el~~ek~kL~~q~~e~~e~lr~L~~~k~~r~Kn~~~~Lq~lI~Kwr~~~q~------~l~eL~~~~~~~e~~~~TM 204 (221)
T PF10376_consen 131 LKQQELEEEKRKLEKQVDEKEEELRRLKLVKQYRSKNDLEQLQSLIKKWRSASQE------ALYELQSEMSEEEGEKFTM 204 (221)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhccHHHHHHHHHHHHHHHHH------HHHHHHHHHhhccccCccH
Confidence 45666777777777777776666665542 3444444443333332222 23344555444 224455
Q ss_pred HHHhhhcCCCCCCcc
Q psy2296 192 TALNKHFSIPEEMDY 206 (208)
Q Consensus 192 ~~i~~~f~Ip~d~dy 206 (208)
.++-+.|||+.++=|
T Consensus 205 ~eL~~~l~ID~~LI~ 219 (221)
T PF10376_consen 205 GELIKRLGIDYDLIH 219 (221)
T ss_pred HHHHHHhCCCccccC
Confidence 688899999987643
No 345
>PRK09802 DNA-binding transcriptional regulator AgaR; Provisional
Probab=40.34 E-value=1.4e+02 Score=26.11 Aligned_cols=57 Identities=18% Similarity=0.334 Sum_probs=45.8
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
+.-...|.+.+|++++.+... -+.+ ||-+.. ||+.+||.==|..|-+.|++.--.=|
T Consensus 11 ~~~~~~eR~~~Il~~L~~~~~-vtv~---eLa~~l----~VS~~TIRRDL~~Le~~G~l~r~~GG 67 (269)
T PRK09802 11 RVTGTSERREQIIQRLRQQGS-VQVN---DLSALY----GVSTVTIRNDLAFLEKQGIAVRAYGG 67 (269)
T ss_pred hhccHHHHHHHHHHHHHHcCC-EeHH---HHHHHH----CCCHHHHHHHHHHHHhCCCeEEEeCC
Confidence 345567888999999998766 7888 887765 99999998888999999999854433
No 346
>KOG0933|consensus
Probab=40.32 E-value=5e+02 Score=27.90 Aligned_cols=31 Identities=16% Similarity=0.331 Sum_probs=16.7
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEAL 110 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~i 110 (208)
++...+.++++.++++|..+.++.++-....
T Consensus 780 d~~~~re~rlkdl~keik~~k~~~e~~~~~~ 810 (1174)
T KOG0933|consen 780 DAKANRERRLKDLEKEIKTAKQRAEESSKEL 810 (1174)
T ss_pred HhhhhhHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444555666666666666655555444333
No 347
>KOG1029|consensus
Probab=40.31 E-value=62 Score=33.48 Aligned_cols=69 Identities=14% Similarity=0.298 Sum_probs=0.0
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CCChhHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 79 NKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR-GDSKNREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 79 s~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r-~~~~eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
+....+++..++.|+.++..+..++.+.+..+...+..- +-+..|+-.+.+..+|+.++++++..|.++
T Consensus 436 nak~~ql~~eletLn~k~qqls~kl~Dvr~~~tt~kt~ie~~~~q~e~~isei~qlqarikE~q~kl~~l 505 (1118)
T KOG1029|consen 436 NAKKKQLQQELETLNFKLQQLSGKLQDVRVDITTQKTEIEEVTKQRELMISEIDQLQARIKELQEKLQKL 505 (1118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhheeccchHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHhh
No 348
>PF00831 Ribosomal_L29: Ribosomal L29 protein; InterPro: IPR001854 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 L29 is one of the proteins from the large ribosomal subunit. L29 belongs to a family of ribosomal proteins of 63 to 138 amino-acid residues which, on the basis of sequence similarities [], groups: Red algal L29. Bacterial L29. Mammalian L35 Caenorhabditis elegans L35 (ZK652.4). Yeast L35. ; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 1VSP_W 3MS1_Y 3MRZ_Y 3F1H_2 3PYT_Y 3PYO_Y 3D5D_2 3D5B_2 3PYR_Y 1VSA_W ....
Probab=40.13 E-value=1.2e+02 Score=20.53 Aligned_cols=47 Identities=15% Similarity=0.218 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
.++.+++.+++.++-.|.-+...=.-.+|..|...+.++..++.-.+
T Consensus 10 ~eL~~~l~elk~eL~~Lr~q~~~~~l~n~~~ir~~Rr~IARi~Tvl~ 56 (58)
T PF00831_consen 10 EELQEKLEELKKELFNLRFQKATGQLENPHRIREIRRDIARILTVLR 56 (58)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHSSSSCCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHh
Confidence 45556666666666666666665333579999999999888776543
No 349
>PRK00117 recX recombination regulator RecX; Reviewed
Probab=40.12 E-value=47 Score=26.37 Aligned_cols=46 Identities=22% Similarity=0.364 Sum_probs=38.4
Q ss_pred HhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccc
Q psy2296 19 LFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKI 68 (208)
Q Consensus 19 ~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKi 68 (208)
+-+=+.-.|+-+ ||-....+ +|+.+..|.++|..|.+.|.|+-.+.
T Consensus 18 l~~L~~r~~s~~---el~~kL~~-kg~~~~~i~~vl~~l~~~~~ldD~~~ 63 (157)
T PRK00117 18 LRLLARREHSRA---ELRRKLAA-KGFSEEVIEAVLDRLKEEGLLDDERF 63 (157)
T ss_pred HHHHccchhHHH---HHHHHHHh-cCCCHHHHHHHHHHHHHcCCCCHHHH
Confidence 334466688889 99888888 89999999999999999999976654
No 350
>PRK00306 50S ribosomal protein L29; Reviewed
Probab=40.09 E-value=1.2e+02 Score=20.89 Aligned_cols=48 Identities=15% Similarity=0.152 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
..++..++.++++++-.|.-+...=.-.+|..|...+..+..++...+
T Consensus 11 ~~eL~~~l~~lkkeL~~lR~~~~~~~~~n~~~i~~~rk~IARi~Tvl~ 58 (66)
T PRK00306 11 VEELNEKLLELKKELFNLRFQKATGQLENTHRLREVRRDIARIKTVLR 58 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCcCcHHHHHHHHHHHHHHHHHH
Confidence 355666666666666666654433333568888888888887776554
No 351
>PRK05658 RNA polymerase sigma factor RpoD; Validated
Probab=40.09 E-value=3.8e+02 Score=26.44 Aligned_cols=60 Identities=12% Similarity=0.158 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhc
Q psy2296 134 SKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 134 ~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f 198 (208)
.+...++...+..++ ..|..|+.+-..+......+....-. |.. |..++||+..+|.+.|
T Consensus 253 ~~~r~~i~~~l~~lk-L~~k~id~Lv~~lr~~~~rIr~~Er~---i~~-~~~~~~m~R~~Fi~~f 312 (619)
T PRK05658 253 AKLREKLKEELKSLR-LTSKQIDELVEQLRDINKRVRGQERE---LLR-LVERLKMPRKDFLKLF 312 (619)
T ss_pred HHHHHHHHHHHHHcC-CCHHHHHHHHHHHHHHHHHHHHHHHH---HHH-HHHHcCCCHHHHHHHc
Confidence 333444444444443 46889998888777776666666664 455 8889999999999998
No 352
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=39.99 E-value=2.1e+02 Score=23.42 Aligned_cols=83 Identities=7% Similarity=0.209 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCC-----ChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHH---HHHHHH
Q psy2296 91 KITAEIEDVTKELAQNNEALEKSMVGRGD-----SKNREDFLQEVGNISKELELINKELEKYKNNDPDTLK---LIENTA 162 (208)
Q Consensus 91 ~l~~~i~~~~~~i~~l~~~ie~~~~~r~~-----~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~---~~~~~~ 162 (208)
.+...+......+..+...+.....+-.+ ...=......+...++.+......|..|-...|..+. .+...+
T Consensus 103 el~~~l~~~~~~~~~~~~~~~~~~~~vsdiv~~~~~~~~~~~~~~~~~~~~l~~~lekL~~fd~~~~~~~~~~~~~~~~l 182 (204)
T PF04740_consen 103 ELKKKLNQLKEQIEDLQDEINSILSSVSDIVSLPKPSSSSFIDSLEKAKKKLQETLEKLRAFDQQSSSIFSEIEELLQAL 182 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhccchHHHHhhccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 45555666666666666665444433111 1122455555666666666666666666554454444 444444
Q ss_pred HHHHHHHhhhh
Q psy2296 163 QRAKEAANRWT 173 (208)
Q Consensus 163 ~~~k~aanrwT 173 (208)
......++.|+
T Consensus 183 ~~~l~~l~~~~ 193 (204)
T PF04740_consen 183 QSGLSQLQSMW 193 (204)
T ss_pred HHHHHHHHHhh
Confidence 44445554444
No 353
>PF09325 Vps5: Vps5 C terminal like; InterPro: IPR015404 Vps5 is a sorting nexin that functions in membrane trafficking. This is the C-terminal dimerisation domain [].
Probab=39.95 E-value=2.2e+02 Score=23.64 Aligned_cols=59 Identities=27% Similarity=0.332 Sum_probs=44.5
Q ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 117 RGDSKNREDFLQEVGNISKELELINKELEKYKNN---DPDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 117 r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~---Dp~~i~~~~~~~~~~k~aanrwTDN 175 (208)
|.--..|..++..++.+...+...+.++.++... .|++++.+..++..+...++.-.+.
T Consensus 124 k~~l~~R~~~~~~~~~a~~~l~kkk~~~~kl~~~~~~~~~k~~~~~~ei~~~~~~~~~~~~~ 185 (236)
T PF09325_consen 124 KEALNRRDKKLIEYQNAEKELQKKKAQLEKLKASGKNRQDKVEQAENEIEEAERRVEQAKDE 185 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445689999999999999999999999998875 4677777777776666555444433
No 354
>PRK00591 prfA peptide chain release factor 1; Validated
Probab=39.89 E-value=2.8e+02 Score=25.79 Aligned_cols=76 Identities=20% Similarity=0.170 Sum_probs=44.2
Q ss_pred cceeEeeccchhhHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 70 TSTYFWSFPNKASDRV--DCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 70 tsN~YWsFps~~~~~~--~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
+.-=||.-|..+.... ...+..+-..+..+.....++.+..+-+. .-.|.+-++.+..++..|...+..+..+|..
T Consensus 23 ~~~~~w~d~~~~~~~~~e~~~L~~~v~~~~~~~~~~~~~~~~~~l~~-~e~D~~~~~~~~~e~~~l~~~l~~~e~~l~~ 100 (359)
T PRK00591 23 SDPEVISDQKRFRKLSKEYAELEPIVEAYREYKQAQEDLEEAKEMLE-EESDPEMREMAKEELKELEERLEELEEELKI 100 (359)
T ss_pred cCCCcccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-ccCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344898888655432 23333333444444444444444333332 1234455777778889999999999887765
No 355
>TIGR03384 betaine_BetI transcriptional repressor BetI. BetI is a DNA-binding transcriptional repressor of the bet (betaine) regulon. In sequence, it is related to TetR (pfam00440). Choline, through BetI, induces the expression of the betaine biosynthesis genes betA and betB by derepression. The choline porter gene betT is also part of this regulon in Escherichia coli. Note that a different transcriptional regulator, ArcA, controls the expression of bet regulon genes in response to oxygen, as BetA is an oxygen-dependent enzyme.
Probab=39.82 E-value=24 Score=27.85 Aligned_cols=53 Identities=17% Similarity=0.256 Sum_probs=37.2
Q ss_pred CCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 4 KKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 4 kkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
+.+++. ++|.+|++-.. ..|.- .|....||.+|-+.. -|+-+.+|+.|||+..
T Consensus 2 ~~~~~~-~rr~~Il~aA~---~lf~~-------------~G~~~~s~~~IA~~a---------gvsk~~ly~~F~sK~~ 54 (189)
T TIGR03384 2 KVGMEP-IRRAELIDATI---ESIGE-------------RGSLDVTIAQIARRA---------GVSSGIISHYFGGKQG 54 (189)
T ss_pred CCcchh-HHHHHHHHHHH---HHHHh-------------cCcccCCHHHHHHHh---------CCCHHHHHHHcCCHHH
Confidence 444544 68888876432 23333 499999999987754 4667789999999865
No 356
>PF07888 CALCOCO1: Calcium binding and coiled-coil domain (CALCOCO1) like; InterPro: IPR012852 Proteins found in this family are similar to the coiled-coil transcriptional coactivator protein expressed by Mus musculus (CoCoA, Q8CGU1 from SWISSPROT). This protein binds to a highly conserved N-terminal domain of p160 coactivators, such as GRIP1 (Q61026 from SWISSPROT), and thus enhances transcriptional activation by a number of nuclear receptors. CoCoA has a central coiled-coil region with three leucine zipper motifs, which is required for its interaction with GRIP1 and may regulate the autonomous transcriptional activation activity of the C-terminal region [].
Probab=39.73 E-value=3.9e+02 Score=26.46 Aligned_cols=26 Identities=8% Similarity=0.376 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKY 147 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~ 147 (208)
++..+..++.++..++.+|..++..+
T Consensus 207 E~~~L~~q~~e~~~ri~~LEedi~~l 232 (546)
T PF07888_consen 207 ERESLKEQLAEARQRIRELEEDIKTL 232 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444444444444433
No 357
>PF05852 DUF848: Gammaherpesvirus protein of unknown function (DUF848); InterPro: IPR008566 This family consists of several uncharacterised proteins from the Gammaherpesvirinae.
Probab=39.70 E-value=2.1e+02 Score=23.38 Aligned_cols=59 Identities=14% Similarity=0.176 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK 186 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k 186 (208)
..+..-+..+...+...++|+..+..+|+..++.. ..+.+++.-..|+|..-.+++..-
T Consensus 57 ~~~~~~v~~~~~~i~~k~~El~~L~~~d~~kv~~~----E~L~d~v~eLkeel~~el~~l~~~ 115 (146)
T PF05852_consen 57 CEIKNKVSSLETEISEKKKELSHLKKFDRKKVEDL----EKLTDRVEELKEELEFELERLQSA 115 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34445567788899999999999999999888754 445555555588888888887644
No 358
>PF10481 CENP-F_N: Cenp-F N-terminal domain; InterPro: IPR018463 Mitosin or centromere-associated protein-F (Cenp-F) is found bound across the centromere as one of the proteins of the outer layer of the kinetochore []. Most of the kinetochore/centromere functions appear to depend upon binding of the C-terminal part of the molecule, whereas the N-terminal part, here, may be a cytoplasmic player in controlling the function of microtubules and dynein [].
Probab=39.54 E-value=3e+02 Score=25.07 Aligned_cols=23 Identities=13% Similarity=0.401 Sum_probs=12.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKEL 144 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el 144 (208)
+...++..++.|.+....|.-+|
T Consensus 68 Enq~l~e~c~~lek~rqKlshdl 90 (307)
T PF10481_consen 68 ENQSLMESCENLEKTRQKLSHDL 90 (307)
T ss_pred hhhhHHHHHHHHHHHHHHhhHHH
Confidence 34455555555555555555444
No 359
>PLN02381 valyl-tRNA synthetase
Probab=39.52 E-value=96 Score=32.85 Aligned_cols=66 Identities=17% Similarity=0.315 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMV-GRGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
......+.+|.++++.++.+++.++..+....= .+.+.+-.+.-.+.+.+++.+++.++..|..+.
T Consensus 993 iD~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 1059 (1066)
T PLN02381 993 VNAEAELEKLRNKMDEIQKQQEKLEKKMNASGYKEKVPANIQEEDARKLTKLLQELEFFEKESKRLE 1059 (1066)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777777777777776666654431 233444455555566677777777777666654
No 360
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=39.50 E-value=31 Score=23.15 Aligned_cols=24 Identities=21% Similarity=0.393 Sum_probs=20.5
Q ss_pred CCccchHHHHHHHhhhcCcccccc
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
++....+--+|+.||.+|.|.++.
T Consensus 31 ~l~~k~~~~ll~~l~~~g~l~~~g 54 (59)
T PF09106_consen 31 RLPPKLFNALLEALVAEGRLKVEG 54 (59)
T ss_dssp TS-HCCHHHHHHHHHHTTSEEEES
T ss_pred cCCHHHHHHHHHHHHHCCCeeeEC
Confidence 788899999999999999998763
No 361
>cd04776 HTH_GnyR Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR. Putative helix-turn-helix (HTH) regulatory protein, GnyR, and other related proteins. GnyR belongs to the gnyRDBHAL cluster, which is involved in acyclic isoprenoid degradation in Pseudomonas aeruginosa. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=39.33 E-value=81 Score=24.18 Aligned_cols=30 Identities=17% Similarity=0.374 Sum_probs=19.0
Q ss_pred cchhhhcchHHHHhhc----ccccCCccchHHHHHHH
Q psy2296 24 EEFFQLKLIIELEKLA----PKEKGIISQSVKEILQS 56 (208)
Q Consensus 24 ~~~f~lK~~~ElEK~~----pK~~GI~~~~VKdvlq~ 56 (208)
.-+|+-. +++.+. -+..|++...|++++..
T Consensus 34 yR~Y~~~---~l~~l~~I~~lr~~G~~L~~I~~~l~~ 67 (118)
T cd04776 34 TRVYSRR---DRARLKLILRGKRLGFSLEEIRELLDL 67 (118)
T ss_pred ccccCHH---HHHHHHHHHHHHHCCCCHHHHHHHHHh
Confidence 4455555 555442 23469888888888864
No 362
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=39.22 E-value=2.5e+02 Score=24.13 Aligned_cols=21 Identities=19% Similarity=0.455 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q psy2296 128 QEVGNISKELELINKELEKYK 148 (208)
Q Consensus 128 ~~l~~L~~~~~~l~~el~~~~ 148 (208)
..+..++.++..|+.+++...
T Consensus 77 ~~v~~q~~el~~L~~qi~~~~ 97 (251)
T PF11932_consen 77 RQVASQEQELASLEQQIEQIE 97 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555554444444
No 363
>KOG0977|consensus
Probab=39.06 E-value=3.2e+02 Score=27.06 Aligned_cols=28 Identities=32% Similarity=0.418 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccC
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKSMVGR 117 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~~~~r 117 (208)
.+++.++..+..++.++...++++..++
T Consensus 109 a~~e~ei~kl~~e~~elr~~~~~~~k~~ 136 (546)
T KOG0977|consen 109 AKLEIEITKLREELKELRKKLEKAEKER 136 (546)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 3344444444444555555554444333
No 364
>COG1724 Predicted RNA binding protein (dsRBD-like fold), HicA family [General function prediction only]
Probab=38.70 E-value=33 Score=24.44 Aligned_cols=30 Identities=20% Similarity=0.401 Sum_probs=27.4
Q ss_pred CccchHHHHHHHhhhcCcccccccccceeE
Q psy2296 45 IISQSVKEILQSLVDDGLVESEKIGTSTYF 74 (208)
Q Consensus 45 I~~~~VKdvlq~LVDDglV~~EKiGtsN~Y 74 (208)
+.+|++||++..|-.||-..+---||-..|
T Consensus 4 lp~~~~ke~ik~Le~~Gf~~vrqkGSH~q~ 33 (66)
T COG1724 4 LPRMKAKEVIKALEKDGFQLVRQKGSHRQY 33 (66)
T ss_pred CCcCCHHHHHHHHHhCCcEEEEeecceeEE
Confidence 578999999999999999999999988777
No 365
>cd00427 Ribosomal_L29_HIP Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it participates in forming a protein ring that surrounds the polypeptide exit channel, providing structural support for the ribosome. L29 is involved in forming the translocon binding site, along with L19, L22, L23, L24, and L31e. In addition, L29 and L23 form the interaction site for trigger factor (TF) on the ribosomal surface, adjacent to the exit tunnel. L29 forms numerous interactions with L23 and with the 23S rRNA. In some eukaryotes, L29 is referred to as L35, which is distinct from L35 found in bacteria and some eukaryotes (primarily plastids and mitochondria). The mammalian homolog, HIP, is found on the surface of many tissues and cell lines. It is believed to play a role in cell adhesion and modulat
Probab=38.65 E-value=1.2e+02 Score=20.32 Aligned_cols=47 Identities=17% Similarity=0.289 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
.++..++.++++++-.|.-+...=+-.+|..+..++.++...+..++
T Consensus 9 ~eL~~~l~~l~~elf~Lr~q~~~~~~~~~~~~~~~Rr~IARi~Til~ 55 (57)
T cd00427 9 EELQEKLDELKKELFNLRFQKATGQLENPHRIRKVRKDIARIKTVLN 55 (57)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCcCcHHHHHHHHHHHHHHHHHH
Confidence 44555566666666666544443334579999999888888776543
No 366
>PF15294 Leu_zip: Leucine zipper
Probab=38.62 E-value=3e+02 Score=24.84 Aligned_cols=46 Identities=7% Similarity=0.260 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHH
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISK 135 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~ 135 (208)
.+...+..|+++.+.++.++..++....... +++.++-..|++|+.
T Consensus 129 ll~kEi~rLq~EN~kLk~rl~~le~~at~~l------~Ek~kl~~~L~~lq~ 174 (278)
T PF15294_consen 129 LLNKEIDRLQEENEKLKERLKSLEKQATSAL------DEKSKLEAQLKELQD 174 (278)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHH
Confidence 3555566666666666666665554443332 244444444444444
No 367
>cd07623 BAR_SNX1_2 The Bin/Amphiphysin/Rvs (BAR) domain of Sorting Nexins 1 and 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. Sorting nexins (SNXs) are Phox homology (PX) domain containing proteins that are involved in regulating membrane traffic and protein sorting in the endosomal system. SNXs differ from each other in their lipid-binding specificity, subcellular localization and specific function in the endocytic pathway. A subset of SNXs also contain BAR domains. The PX-BAR structural unit determines the specific membrane targeting of SNXs. This subfamily consists of SNX1, SNX2, and similar proteins. SNX1 and SNX2 are components of the retromer complex, a membrane coat multimeric complex required for endosomal retrieval of lysosomal hydrolase receptors to the Golgi. The retromer consists of a cargo-recognition subcomplex and a subcomplex formed by a dimer of sorting nexins (SNX1 and/or SNX2), wh
Probab=38.48 E-value=2.5e+02 Score=23.87 Aligned_cols=61 Identities=13% Similarity=0.090 Sum_probs=47.9
Q ss_pred cCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhhhhhH
Q psy2296 116 GRGDSKNREDFLQEVGNISKELELINKELEKYKN-NDPDTLKLIENTAQRAKEAANRWTDNL 176 (208)
Q Consensus 116 ~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~aanrwTDNI 176 (208)
-|.-...|...+..++.+...+...+..++++.. .-|+++..++.++..+..++..-....
T Consensus 111 vk~~f~~R~~a~~~~q~a~~~l~kkr~~~~Kl~~~~~~~K~~~~~~ev~~~e~~~~~a~~~f 172 (224)
T cd07623 111 IKDVFHERVKVWQNWQNAQQTLTKKREAKAKLELSGRTDKLDQAQQEIKEWEAKVDRGQKEF 172 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3555678999999999999999999999999975 347889988888877766555444433
No 368
>PF06717 DUF1202: Protein of unknown function (DUF1202); InterPro: IPR009592 This family consists of several hypothetical bacterial proteins of around 335 residues in length. Members of this family are found exclusively in Escherichia coli and Salmonella species and are often referred to as YggM proteins. The function of this family is unknown.
Probab=38.35 E-value=2.2e+02 Score=25.90 Aligned_cols=31 Identities=16% Similarity=0.370 Sum_probs=16.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALEK 112 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~ 112 (208)
....++.+..|++++.+++.++..++++|..
T Consensus 147 ~~~kK~~I~~L~~qisaLdkqi~ai~Kkid~ 177 (308)
T PF06717_consen 147 YNRKKNKIPGLNKQISALDKQIVAINKKIDR 177 (308)
T ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344444555555555555555555555543
No 369
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=38.32 E-value=95 Score=19.00 Aligned_cols=26 Identities=19% Similarity=0.456 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
..++.+.+.|+...++|+-.|+.+..
T Consensus 4 qkL~sekeqLrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 4 QKLISEKEQLRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56788888899999999888888764
No 370
>COG3661 AguA Alpha-glucuronidase [Carbohydrate transport and metabolism]
Probab=38.21 E-value=1.4e+02 Score=29.23 Aligned_cols=59 Identities=14% Similarity=0.318 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhh
Q psy2296 135 KELELINKELEKYKN-NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNK 196 (208)
Q Consensus 135 ~~~~~l~~el~~~~~-~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~ 196 (208)
+..+++......+.. -||++.++..+.+..-.+.|--|-| ++..|+.++.|++.+.-+.
T Consensus 621 e~ve~~~~~W~~L~~~Vd~~rf~~V~erL~~Q~ehAkeWRD---vintyFyrr~GiPdEk~r~ 680 (684)
T COG3661 621 EYVEGMNRTWAGLAPYVDARRFREVSERLKIQREHAKEWRD---VINTYFYRRAGIPDEKYRA 680 (684)
T ss_pred HHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHhcCCchhhccc
Confidence 556666666777776 6999999999999999999999999 6677988888877655444
No 371
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=38.07 E-value=1e+02 Score=29.67 Aligned_cols=24 Identities=13% Similarity=0.112 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 152 PDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 152 p~~i~~~~~~~~~~k~aanrwTDN 175 (208)
|+.+.++++++...--.+...+|+
T Consensus 82 ~d~~~~~~qqiAn~~lKv~~l~da 105 (514)
T PF11336_consen 82 NDDATEMRQQIANAQLKVESLEDA 105 (514)
T ss_pred hHHHHHHHHHHHhhhhhHHHHhhH
Confidence 566666666665554444444444
No 372
>PF10473 CENP-F_leu_zip: Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; InterPro: IPR019513 Cenp-F, a centromeric kinetochore, microtubule-binding protein consisting of two 1,600-amino acid-long coils, is essential for the full functioning of the mitotic checkpoint pathway [, ]. There are several leucine-rich repeats along the sequence of LEK1 that are considered to be zippers, though they do not appear to be binding DNA directly in this instance []. ; GO: 0008134 transcription factor binding, 0042803 protein homodimerization activity, 0045502 dynein binding
Probab=37.91 E-value=2.2e+02 Score=23.03 Aligned_cols=19 Identities=11% Similarity=0.293 Sum_probs=7.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2296 123 REDFLQEVGNISKELELIN 141 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~ 141 (208)
+..+.+.++..+.++..|.
T Consensus 82 k~~L~k~lq~~q~kv~eLE 100 (140)
T PF10473_consen 82 KENLDKELQKKQEKVSELE 100 (140)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3333333333333333333
No 373
>PF06698 DUF1192: Protein of unknown function (DUF1192); InterPro: IPR009579 This family consists of several short, hypothetical, bacterial proteins of around 60 residues in length. The function of this family is unknown.
Probab=37.70 E-value=60 Score=22.52 Aligned_cols=29 Identities=24% Similarity=0.363 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccC
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVGR 117 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~r 117 (208)
+++|++.|+.++.+|..++..+..-..+|
T Consensus 23 v~EL~~RIa~L~aEI~R~~~~~~~K~a~r 51 (59)
T PF06698_consen 23 VEELEERIALLEAEIARLEAAIAKKSASR 51 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56777888888888888877777665554
No 374
>PF05557 MAD: Mitotic checkpoint protein; InterPro: IPR008672 This family consists of several eukaryotic mitotic checkpoint (Mitotic arrest deficient or MAD) proteins. The mitotic spindle checkpoint monitors proper attachment of the bipolar spindle to the kinetochores of aligned sister chromatids and causes a cell cycle arrest in prometaphase when failures occur. Multiple components of the mitotic spindle checkpoint have been identified in Saccharomyces cerevisiae and higher eukaryotes. In Saccharomyces cerevisiae, the existence of a Mad1-dependent complex containing Mad2, Mad3, Bub3 and Cdc20 has been demonstrated [].; PDB: 1GO4_F 4DZO_A.
Probab=37.61 E-value=1.2e+02 Score=30.35 Aligned_cols=75 Identities=17% Similarity=0.252 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhccCC------CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH
Q psy2296 94 AEIEDVTKELAQNNEALEKSMVGRG------DSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKE 167 (208)
Q Consensus 94 ~~i~~~~~~i~~l~~~ie~~~~~r~------~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~ 167 (208)
+.++.++.+...|...+.....|.. +.......-.++.+|+.+++.+.+....+++ ++..
T Consensus 566 ~~l~~L~~En~~L~~~l~~le~~~~~~~~~~p~~~~~~~~~e~~~l~~~~~~~ekr~~RLke--------------vf~~ 631 (722)
T PF05557_consen 566 STLEALQAENEDLLARLRSLEEGNSQPVDAVPTSSLESQEKEIAELKAELASAEKRNQRLKE--------------VFKA 631 (722)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTTT----------------HHHHHHHHHHHHHHHHHHHHHH--------------HHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCcccccchhhhhhHHHHHHHHHHHHHHHHHHHHHHH--------------HHHH
Confidence 3444444444444444443333221 1122333344566666666666655554443 4445
Q ss_pred HHhhhhhhHHHHHHH
Q psy2296 168 AANRWTDNLFSLKSW 182 (208)
Q Consensus 168 aanrwTDNI~~l~~~ 182 (208)
.+.-+-+=|++|..|
T Consensus 632 ks~eFr~av~~llGy 646 (722)
T PF05557_consen 632 KSQEFREAVYSLLGY 646 (722)
T ss_dssp HHHHHHHHHHHHHSE
T ss_pred HHHHHHHHHHHHhcc
Confidence 555566667777777
No 375
>PRK09954 putative kinase; Provisional
Probab=37.55 E-value=33 Score=30.82 Aligned_cols=47 Identities=15% Similarity=0.343 Sum_probs=38.6
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE 64 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~ 64 (208)
++...+||+++++.. +-+.. ||-+. -||+..+|...+..|+.+|+|.
T Consensus 2 ~~~~~~il~~l~~~~-~~s~~---~la~~----l~~s~~~v~~~i~~L~~~g~i~ 48 (362)
T PRK09954 2 NNREKEILAILRRNP-LIQQN---EIADI----LQISRSRVAAHIMDLMRKGRIK 48 (362)
T ss_pred ChHHHHHHHHHHHCC-CCCHH---HHHHH----HCCCHHHHHHHHHHHHHCCCcC
Confidence 467778999999876 66777 66543 4799999999999999999884
No 376
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=37.53 E-value=1.5e+02 Score=21.42 Aligned_cols=62 Identities=24% Similarity=0.337 Sum_probs=33.8
Q ss_pred HHHHHHHhhhcCcccccccccceeEeeccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 50 VKEILQSLVDDGLVESEKIGTSTYFWSFPN-KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 50 VKdvlq~LVDDglV~~EKiGtsN~YWsFps-~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
|.+-|..| +++-...-.||.. |=..|. .....+....+.++.+++.++..+..+...+.+.+
T Consensus 34 ~~~eL~~l-~~~~~~y~~vG~~--fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~l~~~~ 96 (106)
T PF01920_consen 34 TLEELEKL-DDDRKVYKSVGKM--FVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKKLKELK 96 (106)
T ss_dssp HHHHHHTS-STT-EEEEEETTE--EEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhC-CCcchhHHHHhHH--HHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445554 4555555667665 333333 44455556666666666666666666666555543
No 377
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=37.49 E-value=71 Score=25.93 Aligned_cols=56 Identities=30% Similarity=0.394 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccccee
Q psy2296 10 EEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTY 73 (208)
Q Consensus 10 eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~ 73 (208)
+.=...|..++. .+.+=..+ +|.+. =||.|.||.+.++-|-.+|+|..++=|-..+
T Consensus 9 edYL~~Iy~l~~-~~~~~~~~---diA~~----L~Vsp~sVt~ml~rL~~~GlV~~~~y~gi~L 64 (154)
T COG1321 9 EDYLETIYELLE-EKGFARTK---DIAER----LKVSPPSVTEMLKRLERLGLVEYEPYGGVTL 64 (154)
T ss_pred HHHHHHHHHHHh-ccCcccHH---HHHHH----hCCCcHHHHHHHHHHHHCCCeEEecCCCeEE
Confidence 333445555555 55555666 66544 3899999999999999999999987765544
No 378
>PRK00461 rpmC 50S ribosomal protein L29; Reviewed
Probab=37.45 E-value=1.7e+02 Score=21.72 Aligned_cols=44 Identities=14% Similarity=0.067 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Q psy2296 125 DFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEA 168 (208)
Q Consensus 125 ~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~a 168 (208)
++.+++.+|++++-.|.-+...=.-.+|..|...+.++..++.-
T Consensus 12 EL~e~L~elkkELf~LR~q~atgql~n~~~ir~iRR~IARilTv 55 (87)
T PRK00461 12 ELEKLVIELKAELFTLRFKNATGSLDQTHKIKEIRKDIARILTI 55 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCcccccHHHHHHHHHHHHHHHH
Confidence 33444444444444444333222223466666666665555443
No 379
>PF07381 DUF1495: Winged helix DNA-binding domain (DUF1495); InterPro: IPR010863 This family consists of several hypothetical archaeal proteins of around 110 residues in length. The function of this family is unknown, although one sequence (Q8U3W1 from SWISSPROT) is described as a putative HTH transcription regulator.
Probab=37.35 E-value=37 Score=25.45 Aligned_cols=44 Identities=32% Similarity=0.289 Sum_probs=36.7
Q ss_pred HHHHHHHhhhc-cchhhhcchHHHHhhcccccCCccchHHHHHH----------HhhhcCcc
Q psy2296 13 RTGLLELFHEK-EEFFQLKLIIELEKLAPKEKGIISQSVKEILQ----------SLVDDGLV 63 (208)
Q Consensus 13 r~~il~~f~~~-~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq----------~LVDDglV 63 (208)
|.++|.||+.. +..+++- || ++..|+.+..|+..|- |||.=|||
T Consensus 11 R~~vl~~L~~~yp~~~~~~---eI----ar~v~~~~snV~GaL~G~g~rY~~e~SLv~lGLV 65 (90)
T PF07381_consen 11 RKKVLEYLCSIYPEPAYPS---EI----ARSVGSDYSNVLGALRGDGKRYNKEDSLVGLGLV 65 (90)
T ss_pred HHHHHHHHHHcCCCcCCHH---HH----HHHHCCCHHHHHHHHhcCCCCcCcchhHHHcCCe
Confidence 67899999998 7778888 65 4447899999999885 69999999
No 380
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=37.01 E-value=26 Score=22.78 Aligned_cols=46 Identities=28% Similarity=0.441 Sum_probs=32.7
Q ss_pred HHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccc
Q psy2296 15 GLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKI 68 (208)
Q Consensus 15 ~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKi 68 (208)
.+|.++++... -++. ||-+. -|+.+.+|--++..|++.|+|.....
T Consensus 7 ~iL~~l~~~~~-~~~~---~la~~----~~~~~~~~t~~i~~L~~~g~I~r~~~ 52 (59)
T PF01047_consen 7 RILRILYENGG-ITQS---ELAEK----LGISRSTVTRIIKRLEKKGLIERERD 52 (59)
T ss_dssp HHHHHHHHHSS-EEHH---HHHHH----HTS-HHHHHHHHHHHHHTTSEEEEEE
T ss_pred HHHHHHHHcCC-CCHH---HHHHH----HCCChhHHHHHHHHHHHCCCEEeccC
Confidence 45666666555 4555 44322 59999999999999999999987654
No 381
>PRK07739 flgK flagellar hook-associated protein FlgK; Validated
Probab=36.99 E-value=2.3e+02 Score=27.29 Aligned_cols=130 Identities=13% Similarity=0.182 Sum_probs=83.7
Q ss_pred CCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhH
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNR 123 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR 123 (208)
|+....|.-+....++.-+... .+.-=||.-.+.....+...+..... ..+...+...-..+..+-..=.+...|
T Consensus 67 Gv~v~~i~r~~D~fl~~q~r~~---~s~~~~~~~~~~~l~~le~~f~~~~~--~gl~~~l~~ff~a~~~la~~P~~~~~r 141 (507)
T PRK07739 67 GVEAGSVERIRDQFLDIQYRRE---NNKLGYWETKADALSQMEDIMNEPSD--TGLNKVLDQFWNSLQELSKNPENLGAR 141 (507)
T ss_pred CEeeeEEEehHHHHHHHHHHHH---HhhhhhHHHHHHHHHHHHHHhCCCCc--chHHHHHHHHHHHHHHHHhCcCCHHHH
Confidence 5666666655555555332221 11112555444444444444332211 234555666666666665555667789
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKN 185 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~ 185 (208)
..++..-+.|-.....+..+|..++. ....++....+.+|..+.+|-.|-.=+..
T Consensus 142 ~~vl~~a~~La~~~n~~~~~L~~~~~-------~~~~~i~~~V~~iN~ll~~Ia~LN~~I~~ 196 (507)
T PRK07739 142 SVVRQRAQALAETFNYLSQSLTDIQN-------DLKSEIDVTVKEINSLASQISDLNKQIAK 196 (507)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999885 45566778888899999998888666654
No 382
>PRK13879 conjugal transfer protein TrbJ; Provisional
Probab=36.75 E-value=3e+02 Score=24.35 Aligned_cols=59 Identities=15% Similarity=0.115 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhh---HHHHHHHHH
Q psy2296 126 FLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDN---LFSLKSWCK 184 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDN---I~~l~~~~~ 184 (208)
..+.+..++.++..++..+..+...+.-....+...+..+...++..+-. +-.+-+|+.
T Consensus 50 ~~~Qi~Qlq~Qiqqy~nql~Nl~~lp~~~w~~~~~~i~~L~~~a~~iay~~~q~~~~d~~l~ 111 (253)
T PRK13879 50 TLKQIEQYQTQLQQYENMLQNTMAPAAYIWDQAQSTINGLMNAVDTLNYYKNQLGSLDSYLG 111 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence 44555666667777777777777667777777777888888888777764 555677765
No 383
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=36.74 E-value=70 Score=21.72 Aligned_cols=44 Identities=23% Similarity=0.298 Sum_probs=34.0
Q ss_pred HHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 15 GLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 15 ~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
+|+.++.+.. ++.+ ||-.. -||+..+|...++.|.++|++-..+
T Consensus 4 ~il~~L~~~~--~~~~---eLa~~----l~vS~~tv~~~l~~L~~~g~~i~~~ 47 (69)
T TIGR00122 4 RLLALLADNP--FSGE---KLGEA----LGMSRTAVNKHIQTLREWGVDVLTV 47 (69)
T ss_pred HHHHHHHcCC--cCHH---HHHHH----HCCCHHHHHHHHHHHHHCCCeEEec
Confidence 5777777553 4577 66544 4999999999999999999976665
No 384
>PRK11179 DNA-binding transcriptional regulator AsnC; Provisional
Probab=36.68 E-value=38 Score=26.90 Aligned_cols=57 Identities=18% Similarity=0.395 Sum_probs=41.3
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc-------ccccccc
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE-------SEKIGTS 71 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~-------~EKiGts 71 (208)
.++++.-.+||+.++...-. +.. | +|.. .|+++.+|..=++.|.++|.|. -.+.|-.
T Consensus 5 ~~lD~~D~~Il~~Lq~d~R~-s~~---e---iA~~-lglS~~tV~~Ri~rL~~~GvI~~~~~~v~~~~lg~~ 68 (153)
T PRK11179 5 YQIDNLDRGILEALMENART-PYA---E---LAKQ-FGVSPGTIHVRVEKMKQAGIITGTRVDVNPKQLGYD 68 (153)
T ss_pred cccCHHHHHHHHHHHHcCCC-CHH---H---HHHH-HCcCHHHHHHHHHHHHHCCCeeeEEEEECHHHcCCC
Confidence 55677788899999885222 112 2 3333 7999999999999999999885 2577753
No 385
>PRK11281 hypothetical protein; Provisional
Probab=36.67 E-value=5.7e+02 Score=27.53 Aligned_cols=76 Identities=14% Similarity=0.246 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-------CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc------
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR-------GDSKNREDFLQEVGNISKELELINKELEKYKN------ 149 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r-------~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~------ 149 (208)
...+.+.+.+++.++..-+++.+.+.+++..+..- .+...=..+-+.+.++..++.+.++.|..+..
T Consensus 76 ~~~~~~~~~L~k~l~~Ap~~l~~a~~~Le~Lk~~~~~~~~~~~~~~Sl~qLEq~L~q~~~~Lq~~Q~~La~~NsqLi~~q 155 (1113)
T PRK11281 76 DRQKEETEQLKQQLAQAPAKLRQAQAELEALKDDNDEETRETLSTLSLRQLESRLAQTLDQLQNAQNDLAEYNSQLVSLQ 155 (1113)
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhhccccccccccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 33445556667777777777777777777665521 11111123555556666666666666666532
Q ss_pred CCHHHHHHH
Q psy2296 150 NDPDTLKLI 158 (208)
Q Consensus 150 ~Dp~~i~~~ 158 (208)
.-|++.+..
T Consensus 156 T~PERAQ~~ 164 (1113)
T PRK11281 156 TQPERAQAA 164 (1113)
T ss_pred cchHHHHHH
Confidence 346655544
No 386
>PRK01885 greB transcription elongation factor GreB; Reviewed
Probab=36.66 E-value=1.6e+02 Score=23.99 Aligned_cols=65 Identities=12% Similarity=0.153 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHhccC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q psy2296 88 KLEKITAEIEDVTK-ELAQNNEALEKSMVGR--GDSKNREDFLQEVGNISKELELINKELEKYKNNDP 152 (208)
Q Consensus 88 ~~~~l~~~i~~~~~-~i~~l~~~ie~~~~~r--~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp 152 (208)
-+++|+++++.+.. +..++.+.|..++... .+..+=...-.+...+..++..|...|....=.||
T Consensus 11 g~~~L~~EL~~L~~~~r~e~~~~i~~Ar~~GDl~ENaeY~aAk~~~~~~e~rI~~L~~~L~~A~iid~ 78 (157)
T PRK01885 11 GYARLKQELDYLWREERPEVTQKVSWAASLGDRSENADYIYGKKRLREIDRRVRFLTKRLENLKVVDY 78 (157)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHcCCcchhhcHHHHHHHHHHHHHHHHHHHHHHccCEEECC
Confidence 35678888888865 6777778888886533 22233334445566677788888888876554443
No 387
>COG4551 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=36.47 E-value=16 Score=27.98 Aligned_cols=40 Identities=18% Similarity=0.485 Sum_probs=24.5
Q ss_pred HhhhhhhHHHHHHH----HHhhcCCCHHHHh-hhcCCCCCCccCC
Q psy2296 169 ANRWTDNLFSLKSW----CKNKFGLEETALN-KHFSIPEEMDYID 208 (208)
Q Consensus 169 anrwTDNI~~l~~~----~~~k~~~~~~~i~-~~f~Ip~d~dyie 208 (208)
+--|.|=||++..- +.++|+-.-+--+ --+.||+||.|++
T Consensus 47 ~leWAdiIfVMEr~HrqkL~krf~~~lk~kRviCLDIPDdy~yMq 91 (109)
T COG4551 47 QLEWADIIFVMERVHRQKLQKRFKASLKGKRVICLDIPDDYEYMQ 91 (109)
T ss_pred HhhhhhhhhhHHHHHHHHHHHHhhHHhcCCeEEEEeCCchHhhcC
Confidence 45699999998754 3344432111000 0578999999974
No 388
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=36.30 E-value=86 Score=27.92 Aligned_cols=12 Identities=17% Similarity=0.174 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHH
Q psy2296 132 NISKELELINKE 143 (208)
Q Consensus 132 ~L~~~~~~l~~e 143 (208)
+++.++++|++-
T Consensus 95 ~l~~EN~rLr~L 106 (283)
T TIGR00219 95 NLKQENVRLREL 106 (283)
T ss_pred HHHHHHHHHHHH
Confidence 355555555443
No 389
>PRK11169 leucine-responsive transcriptional regulator; Provisional
Probab=36.14 E-value=49 Score=26.66 Aligned_cols=65 Identities=15% Similarity=0.291 Sum_probs=48.7
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc-------ccccccce-eEee
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE-------SEKIGTST-YFWS 76 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~-------~EKiGtsN-~YWs 76 (208)
-+..+++.=.+||..++...-. +.. || |.. .|+++.+|..=++.|.++|.|. -.+.|-.- .|+.
T Consensus 8 ~~~~lD~~D~~IL~~Lq~d~R~-s~~---ei---A~~-lglS~~tv~~Ri~rL~~~GvI~~~~~~v~p~~lg~~~~a~v~ 79 (164)
T PRK11169 8 PGKDLDRIDRNILNELQKDGRI-SNV---EL---SKR-VGLSPTPCLERVRRLERQGFIQGYTALLNPHYLDASLLVFVE 79 (164)
T ss_pred chhhHHHHHHHHHHHhccCCCC-CHH---HH---HHH-HCcCHHHHHHHHHHHHHCCCeEEEEEEECHHHhCCCEEEEEE
Confidence 4667899999999999885443 224 33 333 7999999999999999999986 35777654 4565
Q ss_pred c
Q psy2296 77 F 77 (208)
Q Consensus 77 F 77 (208)
+
T Consensus 80 i 80 (164)
T PRK11169 80 I 80 (164)
T ss_pred E
Confidence 5
No 390
>PF14193 DUF4315: Domain of unknown function (DUF4315)
Probab=36.13 E-value=97 Score=22.84 Aligned_cols=26 Identities=42% Similarity=0.548 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+++++.++|+..+.+|.+++.++..+
T Consensus 2 KleKi~~eieK~k~Kiae~Q~rlK~L 27 (83)
T PF14193_consen 2 KLEKIRAEIEKTKEKIAELQARLKEL 27 (83)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46677777777777777777665554
No 391
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=36.04 E-value=1.8e+02 Score=28.18 Aligned_cols=38 Identities=8% Similarity=0.129 Sum_probs=22.1
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 78 PNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 78 ps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
|.+..+.+-.++..+..+++.+..+-+.|.++.+.++.
T Consensus 57 P~DTlrTlva~~k~~r~~~~~l~~~N~~l~~eN~~L~~ 94 (472)
T TIGR03752 57 PADTLRTLVAEVKELRKRLAKLISENEALKAENERLQK 94 (472)
T ss_pred ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555555666666666666655555555555543
No 392
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=36.00 E-value=1.1e+02 Score=23.20 Aligned_cols=34 Identities=9% Similarity=-0.038 Sum_probs=18.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
....++.++..++++++.++.+...|..+|+..+
T Consensus 28 ~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~ 61 (105)
T PRK00888 28 DYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLK 61 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444555555555555555555555555555444
No 393
>PF08287 DASH_Spc19: Spc19; InterPro: IPR013251 Spc19 is a component of the DASH complex. The DASH complex associates with the spindle pole body and is important for spindle and kinetochore integrity during cell division [, ].
Probab=35.96 E-value=1.9e+02 Score=23.54 Aligned_cols=26 Identities=15% Similarity=0.211 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALE 111 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie 111 (208)
..-+.++.+.+..++.+...|+..++
T Consensus 67 ~~Ll~k~e~~l~kL~Rr~~tL~ak~E 92 (153)
T PF08287_consen 67 NHLLDKAEKHLEKLQRREETLKAKCE 92 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456777888888888888887777
No 394
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=35.82 E-value=46 Score=24.87 Aligned_cols=52 Identities=13% Similarity=0.217 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---C--CChhHHHHHHHHHH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR---G--DSKNREDFLQEVGN 132 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---~--~~~eR~~ll~~l~~ 132 (208)
...+.+.+.++|+++.+.+..+++..+.++...+... + .+-.|..++.+|.+
T Consensus 24 k~~ka~~~~~kL~~en~qlk~Ek~~~~~qvkn~~vrqknee~~~~~sr~~V~d~L~q 80 (87)
T PF10883_consen 24 KVKKAKKQNAKLQKENEQLKTEKAVAETQVKNAKVRQKNEENTRRLSRDSVIDQLQQ 80 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhhccCCHHHHHHHHHH
Confidence 4455566688888888888888888888877766532 1 12357777777653
No 395
>KOG1962|consensus
Probab=35.67 E-value=2e+02 Score=24.94 Aligned_cols=49 Identities=16% Similarity=0.348 Sum_probs=26.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhh
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTD 174 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTD 174 (208)
+-....+++..|+.+++....+|+.... ....++++.+......+|-++
T Consensus 152 ~~~~~~~~~~kL~~el~~~~~~Le~~~~----~~~al~Kq~e~~~~EydrLle 200 (216)
T KOG1962|consen 152 ENDKLKADLEKLETELEKKQKKLEKAQK----KVDALKKQSEGLQDEYDRLLE 200 (216)
T ss_pred hHHHHHhhHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHcccHHHHHHH
Confidence 3455555666666666666666665543 334444455555555555443
No 396
>KOG0243|consensus
Probab=35.67 E-value=4.3e+02 Score=28.23 Aligned_cols=29 Identities=21% Similarity=0.523 Sum_probs=20.5
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+|......++++..++..+..++..+.+
T Consensus 441 ~e~~~~~~~ieele~el~~~~~~l~~~~e 469 (1041)
T KOG0243|consen 441 KEKKEMAEQIEELEEELENLEKQLKDLTE 469 (1041)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36667777777777777777777776665
No 397
>smart00437 TOP1Ac Bacterial DNA topoisomerase I DNA-binding domain. Bacterial DNA topoisomerase I and III, Eukaryotic DNA topoisomeraes III, reverse gyrase alpha subunit
Probab=35.66 E-value=24 Score=31.00 Aligned_cols=46 Identities=20% Similarity=0.336 Sum_probs=38.7
Q ss_pred ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccc
Q psy2296 23 KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTS 71 (208)
Q Consensus 23 ~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGts 71 (208)
..-.|+|= +|-+.|.+.-|++++.+-++.|+|-+.|+|.=-+-.|.
T Consensus 9 pP~pf~l~---~Lq~~a~~~~g~sa~~tl~iaQ~LYe~g~iTYPRTds~ 54 (259)
T smart00437 9 PPPPFTTS---TLQQEASRKLGFSAKKTMQIAQKLYEKGLITYPRTDST 54 (259)
T ss_pred CCCCccHH---HHHHHHHHhcCCCHHHHHHHHHHHHhCCeeEecCCCCC
Confidence 34578888 99999999669999999999999999999975555444
No 398
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=35.57 E-value=2.1e+02 Score=23.18 Aligned_cols=55 Identities=24% Similarity=0.326 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhH-HHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 90 EKITAEIEDVTKELAQNNEALEKSMVGRGDSKNR-EDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 90 ~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR-~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
.....+..+++.++.+++++...... .|+.-| .++-.++..+.++++++++++..
T Consensus 36 ~~~~~~~~~l~~Ei~~l~~E~~~iS~--qDeFAkwaKl~Rk~~kl~~el~~~~~~~~~ 91 (161)
T PF04420_consen 36 SKSSKEQRQLRKEILQLKRELNAISA--QDEFAKWAKLNRKLDKLEEELEKLNKSLSS 91 (161)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHTTS-T--TTSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHcCCc--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44556666677777766665543322 233333 33334455555555555554443
No 399
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=35.49 E-value=2.7e+02 Score=23.44 Aligned_cols=32 Identities=22% Similarity=0.366 Sum_probs=26.5
Q ss_pred cccCCccchHHHHHHHhhhcCccccc-ccccce
Q psy2296 41 KEKGIISQSVKEILQSLVDDGLVESE-KIGTST 72 (208)
Q Consensus 41 K~~GI~~~~VKdvlq~LVDDglV~~E-KiGtsN 72 (208)
..=||+-.+|.|.|+.|..+|||.+- ..|+..
T Consensus 39 ~~~gVSRtpVREAL~~L~~eGlV~~~~~~G~~V 71 (251)
T PRK09990 39 EKLGFSRSALREGLTVLRGRGIIETAQGRGSFV 71 (251)
T ss_pred HHHCCCHHHHHHHHHHHHHCCCEEEeCCCeeEE
Confidence 33699999999999999999999877 555543
No 400
>PRK14136 recX recombination regulator RecX; Provisional
Probab=35.44 E-value=43 Score=30.58 Aligned_cols=56 Identities=16% Similarity=0.126 Sum_probs=43.9
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccccccc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGt 70 (208)
++..+-..+-+=++--|+-+ ||...+.+ +|+.+..|..||+.|...|+|+=+.---
T Consensus 161 ~~~lk~kAL~lLSrReRSe~---ELr~KL~k-kG~~ee~IE~VIerLke~gYLDDeRFAe 216 (309)
T PRK14136 161 ARSLKGRALGYLSRREYSRA---ELARKLAP-YADESDSVEPLLDALEREGWLSDARFAE 216 (309)
T ss_pred HHHHHHHHHHHhhcccccHH---HHHHHHHH-cCCCHHHHHHHHHHHHHcCCcCHHHHHH
Confidence 34444444444577788899 99998888 8999999999999999999998776433
No 401
>PRK09480 slmA division inhibitor protein; Provisional
Probab=35.29 E-value=1.1e+02 Score=24.16 Aligned_cols=51 Identities=16% Similarity=0.333 Sum_probs=36.1
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
-+.+++|.+|++-..+ +.-+..| ..-||.||.... -|+-+++|..|||+..
T Consensus 6 ~~~~~~r~~Il~aa~~---------------l~~~~~G-~~~ti~~Ia~~a---------gvs~gt~Y~~F~~K~~ 56 (194)
T PRK09480 6 PKKGERREQILQALAQ---------------MLESPPG-ERITTAKLAARV---------GVSEAALYRHFPSKAR 56 (194)
T ss_pred CCchhHHHHHHHHHHH---------------HHHhcCC-CccCHHHHHHHh---------CCCHhHHHHHCCCHHH
Confidence 4789999999875432 2222148 888998886542 4667789999999764
No 402
>PF15456 Uds1: Up-regulated During Septation
Probab=35.28 E-value=2.2e+02 Score=22.39 Aligned_cols=73 Identities=14% Similarity=0.216 Sum_probs=38.2
Q ss_pred eccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-----CCC-------ChhHHHHHHHHHHHHHHHHHHHHH
Q psy2296 76 SFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG-----RGD-------SKNREDFLQEVGNISKELELINKE 143 (208)
Q Consensus 76 sFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~-----r~~-------~~eR~~ll~~l~~L~~~~~~l~~e 143 (208)
....+....++..+..|...++.++.++. ++..+-.+-.. +.. .+.-.....++..+...++++..+
T Consensus 18 iLs~eEVe~LKkEl~~L~~R~~~lr~kl~-le~k~RdAa~sl~~l~~~~~~~~~~~~~~~~~~eeel~~~~rk~ee~~~e 96 (124)
T PF15456_consen 18 ILSFEEVEELKKELRSLDSRLEYLRRKLA-LESKIRDAAHSLSRLYSSSSRRARFSRESSLKAEEELAESDRKCEELAQE 96 (124)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhcCCCccccCCCcchHHHHHHHHHHHHhhHHHHHHH
Confidence 34445555555555555555555555554 33333222110 011 123344456677777888888888
Q ss_pred HHHHhc
Q psy2296 144 LEKYKN 149 (208)
Q Consensus 144 l~~~~~ 149 (208)
|..+..
T Consensus 97 L~~le~ 102 (124)
T PF15456_consen 97 LWKLEN 102 (124)
T ss_pred HHHHHH
Confidence 877765
No 403
>PF05584 Sulfolobus_pRN: Sulfolobus plasmid regulatory protein; InterPro: IPR008848 This family consists of several plasmid regulatory proteins from the extreme thermophilic and acidophilic archaea Sulfolobus.
Probab=35.14 E-value=85 Score=22.66 Aligned_cols=57 Identities=25% Similarity=0.452 Sum_probs=42.4
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccccc--cccccee-Eeeccc
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESE--KIGTSTY-FWSFPN 79 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~E--KiGtsN~-YWsFps 79 (208)
++||..+... +.||- ||+.. +||+-.++.=.|-.|.+.|+|.-. ++|...| -||.+.
T Consensus 8 ~~IL~~ls~~--c~TLe---eL~ek----Tgi~k~~LlV~LsrL~k~GiI~Rkw~~~~gkk~R~YclK~ 67 (72)
T PF05584_consen 8 QKILIILSKR--CCTLE---ELEEK----TGISKNTLLVYLSRLAKRGIIERKWRKFGGKKYREYCLKY 67 (72)
T ss_pred HHHHHHHHhc--cCCHH---HHHHH----HCCCHHHHHHHHHHHHHCCCeeeeeEEecCeEEEEEEecc
Confidence 3455555444 88888 88753 899999999999999999999987 7764333 256554
No 404
>PF01638 HxlR: HxlR-like helix-turn-helix; InterPro: IPR002577 The hxlR-type HTH domain is a domain of ~90-100 amino acids present in putative transcription regulators with a winged helix-turn-helix (wHTH) structure. The domain is named after Bacillus subtilis hxlR, a transcription activator of the hxlAB operon involved in the detoxification of formaldehyde []. The hxlR-type domain forms the core of putative transcription regulators and of hypothetical proteins occurring in eubacteria as well as in archaea. The sequence and structure of hxlR-type proteins show similarities with the marR-type wHTH []. The crystal structure of ytfH resembles the DNA-binding domains of winged helix proteins, containing a three helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-H2-B1-H3-H4-B2-B3-H5-H6. This topology corresponds with that of the marR-type DNA-binding domain, wherein helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. ; PDB: 2F2E_B 3DF8_A 1Z7U_B 1YYV_A 4A5M_D 4A5N_B 2FSW_A 2HZT_D.
Probab=35.06 E-value=36 Score=24.65 Aligned_cols=57 Identities=30% Similarity=0.437 Sum_probs=36.1
Q ss_pred HHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc--cceeEeeccchh
Q psy2296 16 LLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG--TSTYFWSFPNKA 81 (208)
Q Consensus 16 il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG--tsN~YWsFps~~ 81 (208)
+..+++....|= ||.+..| ||++.++-+-|..|+++|||...-.. ...+.++.-...
T Consensus 11 L~~l~~g~~rf~------el~~~l~---~is~~~L~~~L~~L~~~GLv~r~~~~~~p~~v~Y~LT~~G 69 (90)
T PF01638_consen 11 LRALFQGPMRFS------ELQRRLP---GISPKVLSQRLKELEEAGLVERRVYPEVPPRVEYSLTEKG 69 (90)
T ss_dssp HHHHTTSSEEHH------HHHHHST---TS-HHHHHHHHHHHHHTTSEEEEEESSSSSEEEEEE-HHH
T ss_pred HHHHHhCCCcHH------HHHHhcc---hhHHHHHHHHHHHHHHcchhhcccccCCCCCCccCCCcCH
Confidence 344555444444 5555554 89999999999999999999776432 233455655443
No 405
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=35.01 E-value=24 Score=24.35 Aligned_cols=27 Identities=15% Similarity=0.345 Sum_probs=20.9
Q ss_pred HHHHHHHHhhcCCCHHHHhhhcCCCCC
Q psy2296 177 FSLKSWCKNKFGLEETALNKHFSIPEE 203 (208)
Q Consensus 177 ~~l~~~~~~k~~~~~~~i~~~f~Ip~d 203 (208)
..|..|+..+-.++..+|..+|++|.+
T Consensus 3 ~~i~~~l~~~~~~S~~eLa~~~~~s~~ 29 (69)
T PF09012_consen 3 QEIRDYLRERGRVSLAELAREFGISPE 29 (69)
T ss_dssp HHHHHHHHHS-SEEHHHHHHHTT--HH
T ss_pred HHHHHHHHHcCCcCHHHHHHHHCcCHH
Confidence 468899999999999999999999865
No 406
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=34.90 E-value=1.3e+02 Score=26.69 Aligned_cols=29 Identities=31% Similarity=0.315 Sum_probs=23.7
Q ss_pred cC--CccchHHHHHHHhhhcCccccccccccee
Q psy2296 43 KG--IISQSVKEILQSLVDDGLVESEKIGTSTY 73 (208)
Q Consensus 43 ~G--I~~~~VKdvlq~LVDDglV~~EKiGtsN~ 73 (208)
|| |+.-.|++.|+-|+.=|||..+ |+++|
T Consensus 147 l~p~is~~ev~~sL~~L~~~glikk~--~~g~y 177 (271)
T TIGR02147 147 CFPKISAEQVKESLDLLERLGLIKKN--EDGFY 177 (271)
T ss_pred hCCCCCHHHHHHHHHHHHHCCCeeEC--CCCcE
Confidence 55 8888999999999999999865 54443
No 407
>PRK05589 peptide chain release factor 2; Provisional
Probab=34.75 E-value=2.8e+02 Score=25.52 Aligned_cols=67 Identities=16% Similarity=0.278 Sum_probs=35.7
Q ss_pred eEeeccchhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHH
Q psy2296 73 YFWSFPNKASD--RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELIN 141 (208)
Q Consensus 73 ~YWsFps~~~~--~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~ 141 (208)
-+|.-|..+.. +....+..+-..+..+.....++.+..+-+.. ++.+.+..+..++..|+..+..+.
T Consensus 5 ~~w~d~~~~~~~~ke~~~l~~~v~~~~~~~~~~~~~~~~~~l~~~--~d~e~~~~a~~e~~~l~~~l~~~e 73 (325)
T PRK05589 5 NFWNDIKEAQEITSEEKYLKDKLDKYNHLRNRIEDIEVLCEMMSE--EDDEMKKEIISEVKNIKEEIDRFK 73 (325)
T ss_pred hhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--cCHHHHHHHHHHHHHHHHHHHHHH
Confidence 36877776543 33333444444555555555555544444322 133455666667777777666665
No 408
>KOG0963|consensus
Probab=34.72 E-value=4.9e+02 Score=26.19 Aligned_cols=77 Identities=9% Similarity=0.165 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-------cC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMV-------GR--GDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTL 155 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~-------~r--~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i 155 (208)
+...+.-+..+++..+.++..++.+++.... +- ...++=..+-..|.....++.+|.++++..+..-.+.+
T Consensus 233 k~aev~lim~eLe~aq~ri~~lE~e~e~L~~ql~~~N~~~~~~~~~~i~~~~~~L~~kd~~i~~L~~di~~~~~S~~~e~ 312 (629)
T KOG0963|consen 233 KAAEVSLIMTELEDAQQRIVFLEREVEQLREQLAKANSSKKLAKIDDIDALGSVLNQKDSEIAQLSNDIERLEASLVEER 312 (629)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhccCCchHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444555555555555555555544332 21 11123333334444455555566555555554433333
Q ss_pred HHHHHH
Q psy2296 156 KLIENT 161 (208)
Q Consensus 156 ~~~~~~ 161 (208)
+....+
T Consensus 313 e~~~~q 318 (629)
T KOG0963|consen 313 EKHKAQ 318 (629)
T ss_pred HHHHHH
Confidence 333333
No 409
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=34.56 E-value=66 Score=21.50 Aligned_cols=40 Identities=30% Similarity=0.473 Sum_probs=32.8
Q ss_pred HHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhh
Q psy2296 12 KRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVD 59 (208)
Q Consensus 12 Kr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVD 59 (208)
.+-+||+++.+ ..-++++ ||.+. -|++.-||+..+..|-+
T Consensus 6 rq~~Ll~~L~~-~~~~~~~---ela~~----l~~S~rti~~~i~~L~~ 45 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLK---ELAKK----LNISERTIKNDINELNE 45 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHH---HHHHH----CTS-HHHHHHHHHHHHT
T ss_pred HHHHHHHHHHc-CCCCcHH---HHHHH----HCCCHHHHHHHHHHHHH
Confidence 45689999999 8888999 87654 59999999999988875
No 410
>PRK08311 putative RNA polymerase sigma factor SigI; Reviewed
Probab=34.54 E-value=2e+02 Score=24.83 Aligned_cols=64 Identities=25% Similarity=0.262 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHH-------HhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhcCCC
Q psy2296 133 ISKELELINKELEK-------YKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHFSIP 201 (208)
Q Consensus 133 L~~~~~~l~~el~~-------~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f~Ip 201 (208)
.+.++..++++|.. +-++.|.-=+.....++ .|....+|= .|..|+.++-.+|-+++.+.+|++
T Consensus 130 ~~~ei~~~~~~L~~~gi~~~dL~~~sPkh~d~r~~~i~----ia~~~~~~~-~l~~~l~~kk~LP~k~l~~~~~v~ 200 (237)
T PRK08311 130 RREEIEEFKKELKEFGITFEDLVKESPKHRDTRENAIK----IAKTIAENE-ELLEKLKRKKKLPLKELEKRVKVS 200 (237)
T ss_pred HHHHHHHHHHHHHHcCCcHHHHhhcCCCCHHHHHHHHH----HHHHHHcCH-HHHHHHHHhCCCCHHHHHHHcCCC
Confidence 44555555555555 44567755554444444 444445554 457888889999999999999987
No 411
>PF03938 OmpH: Outer membrane protein (OmpH-like); InterPro: IPR005632 This entry includes outer membrane proteins such as OmpH (Skp) among others. OmpH (outer membrane protein H) is a major structural protein of the outer membrane. In Pasteurella multocida it acts as a channel-forming transmembrane porin []. Porins act as molecular sieves to allow the diffusion of small hydrophilic solutes through the outer membrane and also acts as a receptor for bacteriophages and bacteriocins. Porins are highly immunogenic and are conserved in bacterial families, making them attractive vaccine candidates []. The 17kDa protein (Skp, OmpH) of Escherichia coli is a homotrimeric periplasmic chaperone for newly synthesised outer-membrane proteins, the X-ray structure of which has been reported at resolutions of 2.35 A and 2.30 A [, ]. Three hairpin-shaped alpha-helical extensions reach out by approximately 60 A from a trimerisation domain, which is composed of three intersubunit beta-sheets that wind around a central axis. The alpha-helical extensions approach each other at their distal turns, resulting in a fold that resembles a 'three-pronged grasping forcep'. The overall shape of Skp is reminiscent of the cytosolic chaperone prefoldin (IPR009053 from INTERPRO), although it is based on a radically different topology. The peculiar architecture, with apparent plasticity of the prongs and distinct electrostatic and hydrophobic surface properties, supports the recently proposed biochemical mechanism of this chaperone: formation of a Skp(3)-Omp complex protects the outer membrane protein from aggregation during passage through the bacterial periplasm. The ability of Skp to prevent the aggregation of model substrates in vitro is independent of ATP. Skp can interact directly with membrane lipids and lipopolysaccharide. These interactions are needed for efficient Skp-assisted folding of membrane proteins [].; GO: 0051082 unfolded protein binding; PDB: 1SG2_C 1U2M_C.
Probab=34.54 E-value=2.2e+02 Score=22.19 Aligned_cols=91 Identities=16% Similarity=0.209 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQR 164 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~ 164 (208)
++.....+++++.....++..+...++.... .-..++|...-.++.....++......+.. .+...+
T Consensus 41 l~~~~~~~~~~l~~~~~el~~~~~~l~~~~~-~ls~~~~~~~~~~l~~~~~~l~~~~~~~~~-------~l~~~~----- 107 (158)
T PF03938_consen 41 LQEKFKALQKELQAKQKELQKLQQKLQSQKA-TLSEEERQKRQQELQQKEQELQQFQQQAQQ-------QLQQEE----- 107 (158)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTTS-----SSHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHH-----
Confidence 3344444444555554444444444433311 123355666666665555555544443331 111111
Q ss_pred HHHHHhhhhhhHHHHHHHHHhhcCC
Q psy2296 165 AKEAANRWTDNLFSLKSWCKNKFGL 189 (208)
Q Consensus 165 ~k~aanrwTDNI~~l~~~~~~k~~~ 189 (208)
....+...+.|.....-+.+..|+
T Consensus 108 -~~~~~~i~~~i~~~v~~~a~~~g~ 131 (158)
T PF03938_consen 108 -QELLQPIQKKINKAVEEYAKENGY 131 (158)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred -HHHHHHHHHHHHHHHHHHHHHcCC
Confidence 224555566666666666555554
No 412
>COG3398 Uncharacterized protein conserved in archaea [Function unknown]
Probab=34.44 E-value=56 Score=28.73 Aligned_cols=62 Identities=18% Similarity=0.200 Sum_probs=50.7
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
++..+|+..+++++.-..++ +.++=|++.-||-=.+..|-+=|+|..+++|.+-.|-+-||-
T Consensus 174 ~~~k~I~~eiq~~~~~t~~~--------ia~~l~ls~aTV~~~lk~l~~~Gii~~~~~Gr~iiy~in~s~ 235 (240)
T COG3398 174 ETSKAIIYEIQENKCNTNLL--------IAYELNLSVATVAYHLKKLEELGIIPEDREGRSIIYSINPSI 235 (240)
T ss_pred hhHHHHHHHHhcCCcchHHH--------HHHHcCccHHHHHHHHHHHHHcCCCcccccCceEEEEeCHHH
Confidence 45566777777776665555 445469999999999999999999999999999999999884
No 413
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=34.40 E-value=4.4e+02 Score=25.54 Aligned_cols=41 Identities=17% Similarity=0.366 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhh
Q psy2296 132 NISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 132 ~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwT 173 (208)
++....++++.+|..+... .+.++.+.+++..+.+.+..-.
T Consensus 326 ~l~~~~~~l~~eL~~l~~~-~~~le~L~~el~~l~~~l~~~a 366 (563)
T TIGR00634 326 EVLEYAEKIKEELDQLDDS-DESLEALEEEVDKLEEELDKAA 366 (563)
T ss_pred HHHHHHHHHHHHHHHHhCC-HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666665543 3456666666665555444333
No 414
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=34.32 E-value=2.6e+02 Score=22.92 Aligned_cols=58 Identities=21% Similarity=0.293 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCC--CChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 91 KITAEIEDVTKELAQNNEALEKSMVGRG--DSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 91 ~l~~~i~~~~~~i~~l~~~ie~~~~~r~--~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
.+-.++..++.+......+.+....... ..++-...-+++++|+++++..+.+++.++
T Consensus 122 ~li~~l~~~~~~~~~~~kq~~~~~~~~~~~~~~~~~~~~~ei~~lk~el~~~~~~~~~Lk 181 (192)
T PF05529_consen 122 SLIKELIKLEEKLEALKKQAESASEAAEKLLKEENKKLSEEIEKLKKELEKKEKEIEALK 181 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444445555554444444433322211 112333444555666666666555555444
No 415
>KOG0978|consensus
Probab=34.28 E-value=4.7e+02 Score=26.70 Aligned_cols=101 Identities=20% Similarity=0.234 Sum_probs=56.0
Q ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--------CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 77 FPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVG--------RGDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 77 Fps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~--------r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
+-+.....+...++.+.....++......|+...+..-.. ++...+....-.....|+.+++.|+..|+..+
T Consensus 542 ~l~~el~~~~~~le~~kk~~~e~~~~~~~Lq~~~ek~~~~le~i~~~~~e~~~ele~~~~k~~rleEE~e~L~~kle~~k 621 (698)
T KOG0978|consen 542 KLIKELTTLTQSLEMLKKKAQEAKQSLEDLQIELEKSEAKLEQIQEQYAELELELEIEKFKRKRLEEELERLKRKLERLK 621 (698)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4445555555555555555555555555554444433221 11123444444556667777777777777776
Q ss_pred cCC--HHHHHHHHHHHHHHHHHH------hhhhhhHH
Q psy2296 149 NND--PDTLKLIENTAQRAKEAA------NRWTDNLF 177 (208)
Q Consensus 149 ~~D--p~~i~~~~~~~~~~k~aa------nrwTDNI~ 177 (208)
..+ +...+.+.+++..++.-+ .||=|=+-
T Consensus 622 ~~~~~~s~d~~L~EElk~yK~~LkCs~Cn~R~Kd~vI 658 (698)
T KOG0978|consen 622 KEESGASADEVLAEELKEYKELLKCSVCNTRWKDAVI 658 (698)
T ss_pred cccccccccHHHHHHHHHHHhceeCCCccCchhhHHH
Confidence 644 244666777777776632 68888543
No 416
>PF14468 DUF4427: Protein of unknown function (DUF4427)
Probab=34.25 E-value=54 Score=26.23 Aligned_cols=31 Identities=29% Similarity=0.496 Sum_probs=26.4
Q ss_pred HHHHHHhhhcCcccccccc----cceeEee-ccchh
Q psy2296 51 KEILQSLVDDGLVESEKIG----TSTYFWS-FPNKA 81 (208)
Q Consensus 51 Kdvlq~LVDDglV~~EKiG----tsN~YWs-Fps~~ 81 (208)
-+|+-+|+.+|+|.+-|=| ..+.+|| ||=-.
T Consensus 47 ~~~vRALl~~grV~v~~eGRYLl~l~~~~s~~plr~ 82 (132)
T PF14468_consen 47 SEVVRALLQAGRVKVNKEGRYLLDLDLFDSDWPLRK 82 (132)
T ss_pred CHHHHHHHHcCceeeccCceeeeecccccCCCchHH
Confidence 4799999999999999998 5788998 87543
No 417
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=34.24 E-value=2.2e+02 Score=26.78 Aligned_cols=63 Identities=16% Similarity=0.261 Sum_probs=41.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CHH----HHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNN--DPD----TLKLIENTAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~--Dp~----~i~~~~~~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
.+|.+++.++++|+.+...+.+++...... +.+ ....+++++..+.+.....-+.+..+...+
T Consensus 35 ~~~r~l~~~~~~lr~~rn~~sk~i~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~i 103 (425)
T PRK05431 35 EERRELQTELEELQAERNALSKEIGQAKRKGEDAEALIAEVKELKEEIKALEAELDELEAELEELLLRI 103 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 467888888888888888888888774432 222 334555666666666666666665555444
No 418
>KOG4603|consensus
Probab=34.18 E-value=2.9e+02 Score=23.46 Aligned_cols=73 Identities=18% Similarity=0.262 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CChh-HHHHHH----HHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVGRG-DSKN-REDFLQ----EVGNISKELELINKELEKYKNNDPDTLKLIENT 161 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~-~~~e-R~~ll~----~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~ 161 (208)
+.++++++.++.+.+....++|...+.|+. -+++ ....-. .+++-+++..-...=+.++.++-|.....+.++
T Consensus 118 ~eemQe~i~~L~kev~~~~erl~~~k~g~~~vtpedk~~v~~~y~~~~~~wrk~krmf~ei~d~~~e~~pk~ksel~ee 196 (201)
T KOG4603|consen 118 TEEMQEEIQELKKEVAGYRERLKNIKAGTNHVTPEDKEQVYREYQKYCKEWRKRKRMFREIIDKLLEGLPKKKSELYEE 196 (201)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchHHHHHHH
Confidence 467888888888888888899999988862 3332 222221 133334444444555666666666655555443
No 419
>PRK11642 exoribonuclease R; Provisional
Probab=34.13 E-value=42 Score=34.45 Aligned_cols=52 Identities=19% Similarity=0.176 Sum_probs=39.4
Q ss_pred HHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 13 RTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 13 r~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
+..||++|......++.+ +|++...-...-....+..+|..|+.+|.|...+
T Consensus 21 ~~~Il~~l~~~~~~~~~~---~L~~~l~l~~~~~~~~l~~~L~~L~~~g~l~~~~ 72 (813)
T PRK11642 21 REFILEHLTKREKPASRE---ELAVELNIEGEEQLEALRRRLRAMERDGQLVFTR 72 (813)
T ss_pred HHHHHHHHHhcCCCCCHH---HHHHHhCCCChHHHHHHHHHHHHHHHCCCEEEcC
Confidence 457999998877889999 9998764411123466899999999999987443
No 420
>KOG1666|consensus
Probab=34.07 E-value=3.2e+02 Score=23.85 Aligned_cols=28 Identities=18% Similarity=0.437 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
..|...+.++.+.+..++.++.++...-
T Consensus 65 ~~Rs~~~~KlR~yksdl~~l~~e~k~~~ 92 (220)
T KOG1666|consen 65 NFRSSYLSKLREYKSDLKKLKRELKRTT 92 (220)
T ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3499999999999999999999988765
No 421
>PRK15178 Vi polysaccharide export inner membrane protein VexD; Provisional
Probab=34.06 E-value=4.3e+02 Score=25.32 Aligned_cols=66 Identities=9% Similarity=0.065 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 84 RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR---GDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 84 ~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+...+.-.+++++..+.+..+.+..+..-+... .+...=+..+.-+..|+.++..++.+|..+..
T Consensus 239 ar~D~v~~Ae~ev~~Ae~rl~~Ar~aL~~fRn~~gvlDP~~~a~~~~~lI~~Le~qLa~~~aeL~~L~~ 307 (434)
T PRK15178 239 MQKERILWLENDVKSAQENLGAARLELLKIQHIQKDIDPKETITAIYQLIAGFETQLAEAKAEYAQLMV 307 (434)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444455566677777777777777776666544 23445677788899999999999999998754
No 422
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=33.89 E-value=2e+02 Score=21.36 Aligned_cols=89 Identities=11% Similarity=0.147 Sum_probs=48.5
Q ss_pred cCCccchHHHHHHHhhhc-CcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCh
Q psy2296 43 KGIISQSVKEILQSLVDD-GLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSK 121 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDD-glV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~ 121 (208)
.||++.++.=. .+. |++...+-++..-||+. .....+.. +..+ +...--.+++...-+. .......
T Consensus 10 ~gVs~~tLR~y----e~~~gli~p~r~~~g~R~Yt~--~di~~l~~-I~~l---lr~~G~~l~~i~~~l~---~~~~~~~ 76 (99)
T cd04765 10 LGLPPHVLRYW----ETEFPQLKPVKRAGGRRYYRP--KDVELLLL-IKHL---LYEKGYTIEGAKQALK---EDGAAAI 76 (99)
T ss_pred HCcCHHHHHHH----HHHcCCCCCcCCCCCCeeeCH--HHHHHHHH-HHHH---HHHCCCCHHHHHHHHH---hcccccc
Confidence 69998888755 344 67777665555444443 33322211 1111 0111112233333332 1223346
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKEL 144 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el 144 (208)
.|+.++..+.++..++..|+.++
T Consensus 77 ~~~~~~~~~~~~~~~~~~l~~~~ 99 (99)
T cd04765 77 REEEAEERLPSIRAELLDLRDQL 99 (99)
T ss_pred chhhHHHHHHHHHHHHHHHHhcC
Confidence 78999999999999999888753
No 423
>KOG1962|consensus
Probab=33.65 E-value=3.2e+02 Score=23.74 Aligned_cols=48 Identities=19% Similarity=0.233 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc---CCHHHHHHHHHHHHHHHHHHhh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKN---NDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~---~Dp~~i~~~~~~~~~~k~aanr 171 (208)
..+-.+++..+.+++..+++...+.. .--..++.+-++-..+.+.++.
T Consensus 161 ~kL~~el~~~~~~Le~~~~~~~al~Kq~e~~~~EydrLlee~~~Lq~~i~~ 211 (216)
T KOG1962|consen 161 EKLETELEKKQKKLEKAQKKVDALKKQSEGLQDEYDRLLEEYSKLQEQIES 211 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHhc
Confidence 33444444444444444443333222 2223455666666666665554
No 424
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=33.63 E-value=3.9e+02 Score=24.69 Aligned_cols=48 Identities=19% Similarity=0.418 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhh
Q psy2296 132 NISKELELINKELEKYKN----NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNK 186 (208)
Q Consensus 132 ~L~~~~~~l~~el~~~~~----~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k 186 (208)
.-+++++.+...+..++. -+++.++++++++..+.. .++-+.+++-++
T Consensus 43 ~QkkrLk~L~~sLk~~~~~~~~e~~~~i~~L~~~Ik~r~~-------~l~DmEa~LPkk 94 (330)
T PF07851_consen 43 HQKKRLKELKKSLKRCKKSLSAEERELIEKLEEDIKERRC-------QLFDMEAFLPKK 94 (330)
T ss_pred HHHHHHHHHHHHHHHhccCCChhHHHHHHHHHHHHHHHHh-------hHHHHHhhCCCC
Confidence 334445555555555543 246666666665554433 344566777555
No 425
>PF11461 RILP: Rab interacting lysosomal protein; InterPro: IPR021563 RILP contains a domain which contains two coiled-coil regions and is found mainly in the cytosol. RILP is recruited onto late endosomal and lysosomal membranes by Rab7 and acts as a downstream effector of Rab7. This recruitment process is important for phagosome maturation and fusion with late endosomes and lysosomes. ; PDB: 1YHN_B.
Probab=33.52 E-value=1e+02 Score=21.50 Aligned_cols=28 Identities=29% Similarity=0.461 Sum_probs=24.4
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
|=..+|.+.++|+.++-.|+.||+-|+.
T Consensus 4 ELr~VL~ERNeLK~~v~~leEEL~~yk~ 31 (60)
T PF11461_consen 4 ELREVLQERNELKARVFLLEEELAYYKS 31 (60)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4467889999999999999999999985
No 426
>PRK12423 LexA repressor; Provisional
Probab=33.43 E-value=44 Score=27.93 Aligned_cols=55 Identities=22% Similarity=0.320 Sum_probs=40.2
Q ss_pred HHHHHHHHHhhhccch----hhhcchHHHHhhcccccCC-ccchHHHHHHHhhhcCcccccccccce
Q psy2296 11 EKRTGLLELFHEKEEF----FQLKLIIELEKLAPKEKGI-ISQSVKEILQSLVDDGLVESEKIGTST 72 (208)
Q Consensus 11 EKr~~il~~f~~~~~~----f~lK~~~ElEK~~pK~~GI-~~~~VKdvlq~LVDDglV~~EKiGtsN 72 (208)
.++..||+++.+.-.- =+.. ||-. ..|+ +.++|.+.|+.|...|+|....=|+..
T Consensus 6 ~~q~~il~~l~~~i~~~g~~Ps~~---eia~----~~g~~s~~~v~~~l~~L~~~G~l~~~~~~~~~ 65 (202)
T PRK12423 6 PKRAAILAFIRERIAQAGQPPSLA---EIAQ----AFGFASRSVARKHVQALAEAGLIEVVPNQARG 65 (202)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCHH---HHHH----HhCCCChHHHHHHHHHHHHCCCEEecCCCcce
Confidence 6889999998873111 1445 5543 3695 688999999999999999987665433
No 427
>PRK06665 flgK flagellar hook-associated protein FlgK; Validated
Probab=33.39 E-value=2.1e+02 Score=28.41 Aligned_cols=130 Identities=14% Similarity=0.215 Sum_probs=81.9
Q ss_pred CCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhH
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNR 123 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR 123 (208)
||....|.=+....++--+... .+..=||.-.+.....++.-+.+... ..+...+..+-..+..+-..=.+...|
T Consensus 67 GV~v~~V~R~~D~fl~~q~r~~---~s~~~~~~~~~~~l~~le~if~e~~~--~gl~~~l~~ff~al~~ls~~P~~~a~R 141 (627)
T PRK06665 67 GVEIQSIERIRDELLDSRIIEE---SGRLGYWKTKDKYLSQLEQVYNEPED--QSLRTRLDDFWDSWQDLSNYPEGLAER 141 (627)
T ss_pred CeeeeeEEEhhhHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHhCCCCC--CcHHHHHHHHHHHHHHHHhCCCCHHHH
Confidence 5555555555555554222111 11112555555544444444332111 234445555666666655555566789
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKN 185 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~ 185 (208)
..++..-+.|-.....+..+|..++. ....++......+|..+.+|-.|-.=+..
T Consensus 142 ~~vl~~A~~La~~~n~~~~~L~~~~~-------~~~~~i~~~V~~iN~ll~qIa~LN~qI~~ 196 (627)
T PRK06665 142 QVVLERAQSLGERIHDRYRSLERIRD-------MANDEIEITVEEINNILRNIADLNEQIVK 196 (627)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999998885 55566777788888888888887776654
No 428
>PF09738 DUF2051: Double stranded RNA binding protein (DUF2051); InterPro: IPR019139 This entry represents transcriptional repressors which preferentially bind to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA. They may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. They interact with the leucine-rich repeat domain of human flightless-I (FliI) protein.
Probab=33.32 E-value=3.7e+02 Score=24.39 Aligned_cols=86 Identities=20% Similarity=0.302 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCC-CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhh
Q psy2296 95 EIEDVTKELAQNNEALEKSMVGRG-DSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWT 173 (208)
Q Consensus 95 ~i~~~~~~i~~l~~~ie~~~~~r~-~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwT 173 (208)
.+.++...+.++++.+.+++..-. =.-+++.++-++.-|+..+..++..+..+.. .+.++..++...|......+
T Consensus 78 s~r~lk~~l~evEekyrkAMv~naQLDNek~~l~yqvd~Lkd~lee~eE~~~~~~r----e~~eK~~elEr~K~~~d~L~ 153 (302)
T PF09738_consen 78 SLRDLKDSLAEVEEKYRKAMVSNAQLDNEKSALMYQVDLLKDKLEELEETLAQLQR----EYREKIRELERQKRAHDSLR 153 (302)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHhhhchHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHH
Confidence 445556677777777777776432 2347888888888888888888888877765 22344445555555555555
Q ss_pred hhHHHHHHHHH
Q psy2296 174 DNLFSLKSWCK 184 (208)
Q Consensus 174 DNI~~l~~~~~ 184 (208)
.-...|+.=+.
T Consensus 154 ~e~~~Lre~L~ 164 (302)
T PF09738_consen 154 EELDELREQLK 164 (302)
T ss_pred HHHHHHHHHHH
Confidence 55555554443
No 429
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=33.32 E-value=36 Score=26.49 Aligned_cols=52 Identities=19% Similarity=0.295 Sum_probs=38.2
Q ss_pred ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 23 KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 23 ~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
....++.. ||-. .-||++..|..|++.|+.-|+|.+-+=..+-|.++=|...
T Consensus 22 ~~~~~s~~---~ia~----~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~~~~ 73 (135)
T TIGR02010 22 ETGPVTLA---DISE----RQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRPAED 73 (135)
T ss_pred CCCcCcHH---HHHH----HHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCCHHH
Confidence 34578888 7633 3699999999999999999999984433445666665543
No 430
>PRK10870 transcriptional repressor MprA; Provisional
Probab=33.14 E-value=2.7e+02 Score=22.69 Aligned_cols=42 Identities=12% Similarity=0.143 Sum_probs=31.4
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccc-eeEeeccchhhHH
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTS-TYFWSFPNKASDR 84 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGts-N~YWsFps~~~~~ 84 (208)
.|+...+|--+|+.|+..|+|.....++- -.+.-...++...
T Consensus 81 l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~ 123 (176)
T PRK10870 81 LGSSRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHE 123 (176)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHH
Confidence 58999999999999999999998887663 3334444444433
No 431
>PF09358 UBA_e1_C: Ubiquitin-activating enzyme e1 C-terminal domain; InterPro: IPR018965 This presumed domain found at the C terminus of Ubiquitin-activating enzyme e1 proteins is functionally uncharacterised. ; PDB: 3CMM_A.
Probab=32.90 E-value=31 Score=27.09 Aligned_cols=31 Identities=26% Similarity=0.457 Sum_probs=24.7
Q ss_pred cchHHHHHHHhhhc-Cc-ccccccccceeEeec
Q psy2296 47 SQSVKEILQSLVDD-GL-VESEKIGTSTYFWSF 77 (208)
Q Consensus 47 ~~~VKdvlq~LVDD-gl-V~~EKiGtsN~YWsF 77 (208)
.||++|+++.+-+. |+ |.+=-+|.+-+|++|
T Consensus 42 ~~Tl~~li~~~~~~~~lev~ml~~g~~~LY~~f 74 (125)
T PF09358_consen 42 DMTLQELIDYFKEKYGLEVTMLSQGVSLLYSSF 74 (125)
T ss_dssp --BHHHHHHHHHHTTS-EEEEEEETTEEEEETT
T ss_pred CCCHHHHHHHHHHHhCceEEEEEeCCEEEEecC
Confidence 59999999999996 33 566688999999999
No 432
>PF03002 Somatostatin: Somatostatin/Cortistatin family; InterPro: IPR018142 Somatostatin inhibits the release of the pituitary growth hormone, somatotropin and inhibits the release of glucagon and insulin from the pancreas of fasted animals. Cortistatin is a cortical neuropeptide with neuronal depressant and sleep-modulating properties [].; GO: 0005179 hormone activity, 0005576 extracellular region
Probab=32.73 E-value=22 Score=18.96 Aligned_cols=12 Identities=33% Similarity=1.002 Sum_probs=9.8
Q ss_pred ccccccceeEee
Q psy2296 65 SEKIGTSTYFWS 76 (208)
Q Consensus 65 ~EKiGtsN~YWs 76 (208)
.+|-|--||||-
T Consensus 2 ~~k~~CknffWK 13 (18)
T PF03002_consen 2 ERKAGCKNFFWK 13 (18)
T ss_pred cccccccceeec
Confidence 367899999994
No 433
>KOG2911|consensus
Probab=32.64 E-value=4.5e+02 Score=25.30 Aligned_cols=116 Identities=17% Similarity=0.289 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC---------CCChhHHHHHHHHHHHHHHHHHHHHH---HHHH
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR---------GDSKNREDFLQEVGNISKELELINKE---LEKY 147 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r---------~~~~eR~~ll~~l~~L~~~~~~l~~e---l~~~ 147 (208)
++..++.++++.|.++++....+.-..-.+-.+-.+-| .+-+.+...+..++.+-.++..-+.. +..|
T Consensus 240 ~~~~~L~kqie~L~qeie~~~~~~r~~~k~g~K~iA~~ylr~rk~~eK~~er~~~~l~~l~~vl~~Id~s~~nkvvl~Ay 319 (439)
T KOG2911|consen 240 QARAKLAKQIEFLEQEIEKSKEKLRQALKEGKKQIAITYLRARKLLEKDLERKVSSLNNLETVLSQIDNSQTNKVVLQAY 319 (439)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHhhcccHHHHHHH
Q ss_pred hcC------------CHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhhhc
Q psy2296 148 KNN------------DPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 148 ~~~------------Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~~f 198 (208)
+.. .|+.++..-.+++...+.-.-.-| +|.+|..+.-+.+.++|.+++
T Consensus 320 ksGs~alK~il~~~~s~ekVed~Ldev~et~d~~~EV~~---~la~~~~~~~d~~de~lEkEL 379 (439)
T KOG2911|consen 320 KSGSEALKAILAQGGSTEKVEDVLDEVNETLDRQEEVED---ALASYNVNNIDFEDEDLEKEL 379 (439)
T ss_pred HHhHHHHHHHHhccCChhhHHHHHHHHHHHHhhHHHHHH---HHhcCCCCCCccchHHHHHHH
No 434
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=32.59 E-value=5.2e+02 Score=28.09 Aligned_cols=121 Identities=13% Similarity=0.230 Sum_probs=68.9
Q ss_pred cCcccccccccceeEeeccch-----hhHHHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHhc
Q psy2296 60 DGLVESEKIGTSTYFWSFPNK-----ASDRVDCKLEKITAEIEDVTKEL-------------------AQNNEALEKSMV 115 (208)
Q Consensus 60 DglV~~EKiGtsN~YWsFps~-----~~~~~~~~~~~l~~~i~~~~~~i-------------------~~l~~~ie~~~~ 115 (208)
|.|=...=.|..-=+=++||+ -...++.++.++.++++.++.-+ ..+..+|.....
T Consensus 1038 dALeKqnIa~AL~ALn~IPSdKEms~Is~eLReQIq~~KQ~LesLQRAV~TPVvtd~eKvr~rYe~LI~~iTKrIt~LEk 1117 (1439)
T PF12252_consen 1038 DALEKQNIAGALQALNNIPSDKEMSKISSELREQIQSVKQDLESLQRAVVTPVVTDAEKVRVRYETLITDITKRITDLEK 1117 (1439)
T ss_pred HHHHhhhHHHHHHHHhcCCchhhhhhhhHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 444444445555556667776 33444455555555554444222 123333333332
Q ss_pred c-CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc----CCHHHHHHHHHHHHHHHH-----HHhhhhhhHHHHH
Q psy2296 116 G-RGDSKNREDFLQEVGNISKELELINKELEKYKN----NDPDTLKLIENTAQRAKE-----AANRWTDNLFSLK 180 (208)
Q Consensus 116 ~-r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~----~Dp~~i~~~~~~~~~~k~-----aanrwTDNI~~l~ 180 (208)
. ..+...=.+.+..++.|++++.-|+.|-..+-. .|-..|+++.++++.+.. -+...|--|.+|.
T Consensus 1118 ~k~~~l~~ikK~ia~lnnlqqElklLRnEK~Rmh~~~dkVDFSDIEkLE~qLq~~~~kL~dAyl~eitKqIsaLe 1192 (1439)
T PF12252_consen 1118 AKLDNLDSIKKAIANLNNLQQELKLLRNEKIRMHSGTDKVDFSDIEKLEKQLQVIHTKLYDAYLVEITKQISALE 1192 (1439)
T ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHhHHHhhccCCCcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence 2 344556778889999999999999998766543 466677777777665543 2333444444444
No 435
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=32.58 E-value=2.6e+02 Score=26.25 Aligned_cols=63 Identities=16% Similarity=0.194 Sum_probs=37.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-H------HHHHHHHHHHHHHHHHHhhhhhhHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNND-P------DTLKLIENTAQRAKEAANRWTDNLFSLKSWC 183 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D-p------~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~ 183 (208)
.+|.++..+++.|+.+...+.+++....... + +.+..+++++..+...+....+.+..+...+
T Consensus 37 ~~~r~~~~~~~~l~~erN~~sk~i~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l 106 (418)
T TIGR00414 37 DERKKLLSEIEELQAKRNELSKQIGKAKGQKKDKIEEIKKELKELKEELTELSAALKALEAELQDKLLSI 106 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4577778888888888888888877654321 1 1234455555555555555555555555444
No 436
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=32.50 E-value=28 Score=26.69 Aligned_cols=48 Identities=25% Similarity=0.403 Sum_probs=35.9
Q ss_pred HHHHHHHhhh-ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 13 RTGLLELFHE-KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 13 r~~il~~f~~-~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
--++|..+.. .....+.. || +.. -||++.+|..+++.|+..|+|...+
T Consensus 11 al~~l~~la~~~~~~~s~~---ei---a~~-l~is~~~v~~~l~~L~~~Gli~~~~ 59 (130)
T TIGR02944 11 ATLVLTTLAQNDSQPYSAA---EI---AEQ-TGLNAPTVSKILKQLSLAGIVTSKR 59 (130)
T ss_pred HHHHHHHHHhCCCCCccHH---HH---HHH-HCcCHHHHHHHHHHHHHCCcEEecC
Confidence 3455666654 34567777 66 333 6999999999999999999998754
No 437
>PF08461 HTH_12: Ribonuclease R winged-helix domain; InterPro: IPR013668 This domain is found at the amino terminus of Ribonuclease R and a number of presumed transcriptional regulatory proteins from archaea.
Probab=32.48 E-value=55 Score=22.73 Aligned_cols=50 Identities=24% Similarity=0.377 Sum_probs=41.2
Q ss_pred HHHHHhhhccchhhhcchHHHHhhcccccCCcc--chHHHHHHHhhhcCccccccccc
Q psy2296 15 GLLELFHEKEEFFQLKLIIELEKLAPKEKGIIS--QSVKEILQSLVDDGLVESEKIGT 70 (208)
Q Consensus 15 ~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~--~~VKdvlq~LVDDglV~~EKiGt 70 (208)
-||+++.++..+-+-+ .|-+.... .|... .+|.=.|..|=.||++. |.|.
T Consensus 2 ~IL~~L~~~~~P~g~~---~l~~~L~~-~g~~~se~avRrrLr~me~~Glt~--~~g~ 53 (66)
T PF08461_consen 2 FILRILAESDKPLGRK---QLAEELKL-RGEELSEEAVRRRLRAMERDGLTR--KVGR 53 (66)
T ss_pred HHHHHHHHcCCCCCHH---HHHHHHHh-cChhhhHHHHHHHHHHHHHCCCcc--ccCC
Confidence 3889999999988888 88887777 46664 99999999999999776 5553
No 438
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=32.47 E-value=2.7e+02 Score=22.56 Aligned_cols=23 Identities=17% Similarity=0.080 Sum_probs=13.2
Q ss_pred HHHHHHHHhhcCCCHHHHhhhcC
Q psy2296 177 FSLKSWCKNKFGLEETALNKHFS 199 (208)
Q Consensus 177 ~~l~~~~~~k~~~~~~~i~~~f~ 199 (208)
++|..++..--+-++..|...|.
T Consensus 85 ~ai~~al~~akakn~~av~allD 107 (155)
T PF06810_consen 85 SAIKSALKGAKAKNPKAVKALLD 107 (155)
T ss_pred HHHHHHHHHcCCCCHHHHHHhcC
Confidence 35566666544556666666554
No 439
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=32.37 E-value=1.8e+02 Score=28.16 Aligned_cols=19 Identities=16% Similarity=0.146 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q psy2296 95 EIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 95 ~i~~~~~~i~~l~~~ie~~ 113 (208)
.+++.+.+..+|+.+|+.+
T Consensus 70 ALteqQ~kasELEKqLaaL 88 (475)
T PRK13729 70 ATTEMQVTAAQMQKQYEEI 88 (475)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4444444555555555544
No 440
>COG1730 GIM5 Predicted prefoldin, molecular chaperone implicated in de novo protein folding [Posttranslational modification, protein turnover, chaperones]
Probab=32.31 E-value=1.6e+02 Score=23.98 Aligned_cols=24 Identities=25% Similarity=0.430 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 88 KLEKITAEIEDVTKELAQNNEALE 111 (208)
Q Consensus 88 ~~~~l~~~i~~~~~~i~~l~~~ie 111 (208)
.++.|+++++.+...+..++..|+
T Consensus 95 Aie~l~k~~~~l~~~~~~l~~~l~ 118 (145)
T COG1730 95 AIEFLKKRIEELEKAIEKLQQALA 118 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444444444444444443
No 441
>PRK11415 hypothetical protein; Provisional
Probab=32.31 E-value=1.9e+02 Score=20.60 Aligned_cols=22 Identities=5% Similarity=-0.002 Sum_probs=12.0
Q ss_pred CHHHHHHHHHHHHHHHHHHhhh
Q psy2296 151 DPDTLKLIENTAQRAKEAANRW 172 (208)
Q Consensus 151 Dp~~i~~~~~~~~~~k~aanrw 172 (208)
|+..++.|+.+--.+|+.+.+.
T Consensus 44 ~d~~i~~LKk~KL~LKDeI~~~ 65 (74)
T PRK11415 44 YNAEVVRMKKQKLQLKDEMLKI 65 (74)
T ss_pred CHHHHHHHHHHHHHhHHHHHHH
Confidence 3455666665555555555443
No 442
>PF13600 DUF4140: N-terminal domain of unknown function (DUF4140)
Probab=32.25 E-value=1.9e+02 Score=21.24 Aligned_cols=47 Identities=17% Similarity=0.253 Sum_probs=24.8
Q ss_pred ccccceeEeeccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 67 KIGTSTYFWSFPN-KASDRVDCKLEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 67 KiGtsN~YWsFps-~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
.|++.+|-..|.. .........+..|.++++.++.++..++.+++.+
T Consensus 49 ~i~~v~~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~~~~~~~~~ 96 (104)
T PF13600_consen 49 TILSVRFRRDFLPEPEKESDSPELKELEEELEALEDELAALQDEIQAL 96 (104)
T ss_pred EEEEEEEEEeccCccccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777633 1122233355556666666666655555554433
No 443
>COG0255 RpmC Ribosomal protein L29 [Translation, ribosomal structure and biogenesis]
Probab=32.23 E-value=1.9e+02 Score=20.62 Aligned_cols=46 Identities=17% Similarity=0.265 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAA 169 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aa 169 (208)
+++..++.+|+.++-.|.-+...=.--.|..|...++++..++.-+
T Consensus 14 eeL~~~l~eLK~ELf~LR~q~a~g~l~n~~~ir~vRr~IARi~Tv~ 59 (69)
T COG0255 14 EELEEELRELKKELFNLRFQLATGQLENPHRIREVRRDIARILTVL 59 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHHHHH
Confidence 4555666677777777776665544446999999999888876543
No 444
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=31.87 E-value=58 Score=23.81 Aligned_cols=60 Identities=27% Similarity=0.464 Sum_probs=40.9
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCccc-------ccccccc-eeE--eecc
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVE-------SEKIGTS-TYF--WSFP 78 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~-------~EKiGts-N~Y--WsFp 78 (208)
+.-.+||..++.... =+.. ||- .. .|+++.+|-..++.|.+.|+|. ..++|-. +.+ |.+|
T Consensus 3 ~~D~~il~~L~~~~~-~~~~---~la---~~-l~~s~~tv~~~l~~L~~~g~i~~~~~~~~~~~~g~~~~~~v~i~~~ 72 (108)
T smart00344 3 EIDRKILEELQKDAR-ISLA---ELA---KK-VGLSPSTVHNRVKRLEEEGVIKGYTAVINPKKLGLSVTAFVGVDLE 72 (108)
T ss_pred HHHHHHHHHHHHhCC-CCHH---HHH---HH-HCcCHHHHHHHHHHHHHCCCeeceEEEeCHHHcCCCEEEEEEEEEC
Confidence 344678888887543 3344 443 33 6999999999999999999886 2456642 333 5665
No 445
>KOG0964|consensus
Probab=31.76 E-value=5.1e+02 Score=27.80 Aligned_cols=31 Identities=23% Similarity=0.327 Sum_probs=18.8
Q ss_pred HHHHHHHhhh--ccchhhhcchHHHHhhcccccCCc
Q psy2296 13 RTGLLELFHE--KEEFFQLKLIIELEKLAPKEKGII 46 (208)
Q Consensus 13 r~~il~~f~~--~~~~f~lK~~~ElEK~~pK~~GI~ 46 (208)
|..-|+.+++ +.-+=... ||.++-|+...++
T Consensus 323 r~~~l~~l~~~~~ki~e~~~---EL~~I~Pky~~l~ 355 (1200)
T KOG0964|consen 323 RNLALHVLQKVKDKIEEKKD---ELSKIEPKYNSLV 355 (1200)
T ss_pred hhhHHHHHHHHHHHHHHHHH---HHHHhhhHHHHHH
Confidence 4444555554 33444556 9999999965554
No 446
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=31.68 E-value=4.4e+02 Score=24.67 Aligned_cols=86 Identities=13% Similarity=0.207 Sum_probs=55.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCHHHHHHHHHHHHHHHHH
Q psy2296 91 KITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN--NDPDTLKLIENTAQRAKEA 168 (208)
Q Consensus 91 ~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~--~Dp~~i~~~~~~~~~~k~a 168 (208)
.+.+....+-..+..+-+.+...-.... ...++..++.+..-+.+-..++..+.. ++|+.+..+++.+..+..+
T Consensus 260 ~~~~~~~~ll~~l~~l~~~l~~ll~~l~----~~~lL~Nle~lt~~LA~as~~l~~l~~~l~~p~~~~~L~qtl~sl~~t 335 (370)
T PLN03094 260 DLMEEARPLLLKIQAMAEDLQPLLSEVR----DSGLLKEVEKLTRVAAEASEDLRRLNSSILTPENTELLRQSIYTLTKT 335 (370)
T ss_pred HHHhhcHHHHHHHHHHHHHHHHHHhhcc----hhhHHHHHHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHH
Confidence 3333333444444444444444422111 158999999999999999999999876 7899998888777777665
Q ss_pred HhhhhhhHHHHHHHHH
Q psy2296 169 ANRWTDNLFSLKSWCK 184 (208)
Q Consensus 169 anrwTDNI~~l~~~~~ 184 (208)
+.||..+-+=+.
T Consensus 336 ----~~ni~~vs~dv~ 347 (370)
T PLN03094 336 ----LKHIESISSDIS 347 (370)
T ss_pred ----HHHHHHHHHHHH
Confidence 555555555443
No 447
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=31.46 E-value=1.5e+02 Score=20.95 Aligned_cols=64 Identities=23% Similarity=0.350 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
.-...|.+++. ++.+.+-- ||-....+ .||..- =--|=.-|-.=|+|.+- -|.+.|++++|.+.
T Consensus 5 ~R~~~I~~li~-~~~i~sQ~---eL~~~L~~-~Gi~vT-QaTiSRDLkeL~~vKv~-~~~g~~~Y~l~~~~ 68 (70)
T PF01316_consen 5 KRQELIKELIS-EHEISSQE---ELVELLEE-EGIEVT-QATISRDLKELGAVKVP-DGNGKYRYVLPEET 68 (70)
T ss_dssp HHHHHHHHHHH-HS---SHH---HHHHHHHH-TT-T---HHHHHHHHHHHT-EEEE-CTTSSEEEE-TTST
T ss_pred HHHHHHHHHHH-HCCcCCHH---HHHHHHHH-cCCCcc-hhHHHHHHHHcCcEEee-CCCCCEEEEecCcC
Confidence 33444555554 45599999 99999988 688721 11122222233888865 78889999999864
No 448
>COG4372 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]
Probab=31.43 E-value=4.8e+02 Score=25.06 Aligned_cols=22 Identities=5% Similarity=0.191 Sum_probs=15.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINK 142 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~ 142 (208)
++|..+..++..|..+.++|+.
T Consensus 158 ~qr~ql~aq~qsl~a~~k~LQ~ 179 (499)
T COG4372 158 EQRRQLEAQAQSLQASQKQLQA 179 (499)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 5677777777777777766663
No 449
>KOG0432|consensus
Probab=31.38 E-value=2.1e+02 Score=30.06 Aligned_cols=69 Identities=17% Similarity=0.265 Sum_probs=46.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC-CCChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 80 KASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR-GDSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 80 ~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r-~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
++..-...++.+|.+++.+++++...++.++..+.-.+ .+..-++.-.+.+.++..+++.++.++..++
T Consensus 923 ~g~vd~~~e~~kl~kkl~klqk~~~~l~~r~~~~~~~~k~p~~v~~~~~~Kl~~~~~ei~~~~~~~~~l~ 992 (995)
T KOG0432|consen 923 KGLVDPDSEIQKLAKKLEKLQKQLDKLQARISSSDYQEKAPLEVKEKNKEKLKELEAEIENLKAALANLK 992 (995)
T ss_pred ccCcCcHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 33333446667777777888888888887775554433 3445566667778888888888888777655
No 450
>PF03194 LUC7: LUC7 N_terminus; InterPro: IPR004882 This family consists of several LUC7 protein homologues that are restricted to eukaryotes. LUC7 has been shown to be a U1 snRNA associated protein [] with a role in splice site recognition []. The entry contains human and mouse LUC7 like (LUC7L) proteins [] and human cisplatin resistance-associated overexpressed protein (CROP) [].
Probab=31.33 E-value=3.3e+02 Score=23.87 Aligned_cols=64 Identities=17% Similarity=0.322 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN-NDPD 153 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-~Dp~ 153 (208)
+..|+.=|.++..+|...+++++...........- ....++..|..++..+..+.+.+.. .+.+
T Consensus 85 ~~~L~~~i~d~drrI~~~k~RL~~~~~~~~~~~~~-~~~~~i~~l~~~I~~ll~~aE~LGeeG~Vd 149 (254)
T PF03194_consen 85 LRYLQRLIRDCDRRIERAKERLEQTQEEQAKEADE-EKAEKIDELDEKIGELLKEAEELGEEGDVD 149 (254)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCccccccchhh-hHHHHHHHHHHHHHHHHHHHHHHHHCCCHH
Confidence 45677778888888888888887766554332221 1277889999999999999999887 4444
No 451
>CHL00154 rpl29 ribosomal protein L29; Validated
Probab=31.30 E-value=1.9e+02 Score=20.35 Aligned_cols=47 Identities=15% Similarity=0.111 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHh
Q psy2296 124 EDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAAN 170 (208)
Q Consensus 124 ~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aan 170 (208)
.++.+++.+|++++=.|.-+...=+-.+|..|...+.++...+...+
T Consensus 15 ~eL~~~l~elk~elf~LRfq~atgql~n~~~ir~~RrdIARikTil~ 61 (67)
T CHL00154 15 SEISEEIIKTKKELFDLRLKKATRQNFKPHLFKHKKHRLAQLLTLLS 61 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHHHHHH
Confidence 44455555555555555544333333578899888888888776554
No 452
>COG1309 AcrR Transcriptional regulator [Transcription]
Probab=31.16 E-value=81 Score=23.33 Aligned_cols=30 Identities=30% Similarity=0.556 Sum_probs=27.2
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchh
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKA 81 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~ 81 (208)
.|....|+.++...+ -|+.+.+||-||+..
T Consensus 28 ~G~~~~t~~~Ia~~a---------gvs~~~~Y~~f~~K~ 57 (201)
T COG1309 28 KGYAATTVDEIAKAA---------GVSKGTLYRHFPSKE 57 (201)
T ss_pred cCcCCCCHHHHHHHh---------CCCcchhHHHcCCHH
Confidence 499999999999988 788999999999975
No 453
>TIGR00019 prfA peptide chain release factor 1. This model describes peptide chain release factor 1 (PrfA, RF-1), and excludes the related peptide chain release factor 2 (PrfB, RF-2). RF-1 helps recognize and terminate translation at UAA and UAG stop codons. The mitochondrial release factors are prfA-like, although not included above the trusted cutoff for this model. RF-1 does not have a translational frameshift.
Probab=31.11 E-value=4.4e+02 Score=24.57 Aligned_cols=27 Identities=15% Similarity=0.366 Sum_probs=20.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHhhhhhhH
Q psy2296 150 NDPDTLKLIENTAQRAKEAANRWTDNL 176 (208)
Q Consensus 150 ~Dp~~i~~~~~~~~~~k~aanrwTDNI 176 (208)
.||+..+....++..+...+..+.+++
T Consensus 72 ~D~e~~~~a~~e~~~l~~~~~~~e~~l 98 (360)
T TIGR00019 72 SDPEMREMAKEELEELEEKIEELEEQL 98 (360)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 588888888888887777777766654
No 454
>TIGR01462 greA transcription elongation factor GreA. In the Chlamydias and some spirochetes, the region described by this model is found as the C-terminal region of a much larger protein.
Probab=31.10 E-value=2.4e+02 Score=22.50 Aligned_cols=65 Identities=14% Similarity=0.146 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHH-HHHHHHHHHHHHhccC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q psy2296 89 LEKITAEIEDVTK-ELAQNNEALEKSMVGR--GDSKNREDFLQEVGNISKELELINKELEKYKNNDPD 153 (208)
Q Consensus 89 ~~~l~~~i~~~~~-~i~~l~~~ie~~~~~r--~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~ 153 (208)
+++|+++++.+.. +.-++-..+..+.... .++.+=..--.+...+..++..|..+|..+.-.||.
T Consensus 7 ~~~L~~el~~L~~~~r~~~~~~~~~a~~~gDl~Ena~y~aak~~~~~~e~ri~~L~~~L~~a~iv~~~ 74 (151)
T TIGR01462 7 YEKLKEELEYLKTVKRPEISEEIAEAREHGDLSENAEYHAAKEEQGFNEGRIAELEDLLANAQVIDDS 74 (151)
T ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHHCCChhhccchHHHHHHHHHHHHHHHHHHHHHHhCcccCcc
Confidence 4567777777763 5566666666665432 122222333445666788888888888888766543
No 455
>KOG0994|consensus
Probab=31.02 E-value=7.6e+02 Score=27.30 Aligned_cols=89 Identities=19% Similarity=0.288 Sum_probs=50.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH-HHHHHHHHHHH
Q psy2296 86 DCKLEKITAEIEDVTKELAQNNEALEKSMVGRG-DSKNREDFLQEVGNISKELELINKELEKYKNNDP-DTLKLIENTAQ 163 (208)
Q Consensus 86 ~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~-~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp-~~i~~~~~~~~ 163 (208)
-..++.|..+|..+...+.+++..|......-. .-.+-+.|-.+...|....++|..+++++++.|+ .++.-.++...
T Consensus 1231 ~~~~~~lr~~l~~~~e~L~~~E~~Lsdi~~~~~~a~~~LesLq~~~~~l~~~~keL~e~~~~ik~sdi~GA~~~~r~a~~ 1310 (1758)
T KOG0994|consen 1231 ASATESLRRQLQALTEDLPQEEETLSDITNSLPLAGKDLESLQREFNGLLTTYKELREQLEKIKESDILGAFNSTRHAYE 1310 (1758)
T ss_pred HHHHHHHHHHHHHHHhhhhhhhhhhhhhhhccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHhhccCchhHHHHHHHHHH
Confidence 333444444444444444444444443332211 1135566777778888888999999999999884 35555555555
Q ss_pred HHHHHHhhhhh
Q psy2296 164 RAKEAANRWTD 174 (208)
Q Consensus 164 ~~k~aanrwTD 174 (208)
..-+|..|-.+
T Consensus 1311 ~s~ea~~r~~~ 1321 (1758)
T KOG0994|consen 1311 QSAEAERRVDA 1321 (1758)
T ss_pred HHHHHHHhhhh
Confidence 55444444333
No 456
>PF15070 GOLGA2L5: Putative golgin subfamily A member 2-like protein 5
Probab=31.01 E-value=5.5e+02 Score=25.67 Aligned_cols=96 Identities=16% Similarity=0.212 Sum_probs=57.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC----------CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCH
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGR----------GDSKNREDFLQEVGNISKELELINKELEKYKNNDP 152 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r----------~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp 152 (208)
..+...+..|.++.......+.+|...|..++..- ..++.=..+-.++..|++++..|..++...-. |-
T Consensus 32 ~qmseev~~L~eEk~~~~~~V~eLE~sL~eLk~q~~~~~~~~~pa~pse~E~~Lq~E~~~L~kElE~L~~qlqaqv~-~n 110 (617)
T PF15070_consen 32 QQMSEEVRTLKEEKEHDISRVQELERSLSELKNQMAEPPPPEPPAGPSEVEQQLQAEAEHLRKELESLEEQLQAQVE-NN 110 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccCCccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
Confidence 34455556666666666666667777776665321 11222235566777788888888888876543 22
Q ss_pred HHH----HHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 153 DTL----KLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 153 ~~i----~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
+.+ ...+..+..+-..+.+|-+...-.
T Consensus 111 e~Ls~L~~EqEerL~ELE~~le~~~e~~~D~ 141 (617)
T PF15070_consen 111 EQLSRLNQEQEERLAELEEELERLQEQQEDR 141 (617)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333 344555666666788887765433
No 457
>PRK09841 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional
Probab=30.98 E-value=5.6e+02 Score=25.73 Aligned_cols=64 Identities=20% Similarity=0.314 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhccC---CCChhHHHHHHHHHHHHHHHHHHHHHHHH----HhcCCHHHH
Q psy2296 92 ITAEIEDVTKELAQNNEALEKSMVGR---GDSKNREDFLQEVGNISKELELINKELEK----YKNNDPDTL 155 (208)
Q Consensus 92 l~~~i~~~~~~i~~l~~~ie~~~~~r---~~~~eR~~ll~~l~~L~~~~~~l~~el~~----~~~~Dp~~i 155 (208)
|++++..++.+....+.+++.-+... ..+.+-...+.++.+|+.++..++.++.. |....|...
T Consensus 272 L~~qL~~l~~~L~~aE~~l~~fr~~~~~~d~~~ea~~~l~~~~~l~~ql~~l~~~~~~l~~~~~~~hP~v~ 342 (726)
T PRK09841 272 LQRQLPEVRSELDQAEEKLNVYRQQRDSVDLNLEAKAVLEQIVNVDNQLNELTFREAEISQLYKKDHPTYR 342 (726)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCchHH
Confidence 44566666666666666666655533 22345566778888888888777755544 555667653
No 458
>PF14129 DUF4296: Domain of unknown function (DUF4296)
Probab=30.78 E-value=2.1e+02 Score=20.64 Aligned_cols=48 Identities=15% Similarity=0.278 Sum_probs=34.5
Q ss_pred CHHHHHHHHHHHHHHHHHHh----hhhhhHHHHHHHHHhhcCCCHHHHhhhc
Q psy2296 151 DPDTLKLIENTAQRAKEAAN----RWTDNLFSLKSWCKNKFGLEETALNKHF 198 (208)
Q Consensus 151 Dp~~i~~~~~~~~~~k~aan----rwTDNI~~l~~~~~~k~~~~~~~i~~~f 198 (208)
.|+.+..+--++..+-.+++ .-..+-.....++-+|+|++..+|.+.+
T Consensus 6 ~~~kM~~IL~D~~l~~a~~~~~~~~~~~~~~~~~~~I~kKy~Ids~~f~~S~ 57 (87)
T PF14129_consen 6 PEDKMEDILYDLHLAEAMKSSNQDSSDDNMIAYYQYIFKKYGIDSAQFDSSM 57 (87)
T ss_pred CHHHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 46666666666666665553 2345667788999999999999999843
No 459
>PRK00226 greA transcription elongation factor GreA; Reviewed
Probab=30.68 E-value=2.6e+02 Score=22.39 Aligned_cols=65 Identities=20% Similarity=0.273 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHHHHhccC---CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHH
Q psy2296 88 KLEKITAEIEDVTK-ELAQNNEALEKSMVGR---GDSKNREDFLQEVGNISKELELINKELEKYKNNDPD 153 (208)
Q Consensus 88 ~~~~l~~~i~~~~~-~i~~l~~~ie~~~~~r---~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~ 153 (208)
-+.+|+++++.+.. +..++...+..+.... +..+-.. --.....+..++.+|...|..+.-.||.
T Consensus 11 g~~~L~~eL~~l~~~~r~~~~~~~~~A~~~gdl~En~~y~~-a~~~~~~~~~ri~~l~~~L~~a~ii~~~ 79 (157)
T PRK00226 11 GYEKLEEELEELKTVERPEIIEAIAEAREHGDLSENAEYHA-AKEEQGFIEGRIRELEDKLSNAEVIDPS 79 (157)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHHHHHHHcCCccccccchH-HHHHHHHHHHHHHHHHHHHHhCeecCcc
Confidence 35567777777765 5556666776665432 2221122 2233556788888888888888876654
No 460
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=30.59 E-value=2.4e+02 Score=22.47 Aligned_cols=37 Identities=32% Similarity=0.583 Sum_probs=27.6
Q ss_pred CCccchHHHHHHHhhhcCcccccccc--cceeEeec-cch
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIG--TSTYFWSF-PNK 80 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiG--tsN~YWsF-ps~ 80 (208)
++.--||-=-||.|++-|||.-+|.. .+-||.-+ |-.
T Consensus 53 nr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~ 92 (126)
T COG3355 53 NRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPID 92 (126)
T ss_pred CccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCC
Confidence 55667888889999999999999986 34444444 443
No 461
>PF03233 Cauli_AT: Aphid transmission protein; InterPro: IPR004917 This protein is found in various caulimoviruses. It codes for an 18 kDa protein (PII), which is dispensable for infection but which is required for aphid transmission of the virus []. This protein interacts with the PIII protein []. ; GO: 0019089 transmission of virus
Probab=30.48 E-value=2.6e+02 Score=23.31 Aligned_cols=57 Identities=25% Similarity=0.328 Sum_probs=42.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDNLFSL 179 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l 179 (208)
.-.+++.-|.+++.++..|+++...+.+. -..-..++..++...+.++..-|.|-.|
T Consensus 105 k~~~~l~~L~e~snki~kLe~~~k~L~d~-Iv~~~~i~e~IKd~de~L~~I~d~iK~I 161 (163)
T PF03233_consen 105 KQLKLLPTLEEISNKIRKLETEVKKLKDN-IVTEKLIEELIKDFDERLKEIRDKIKKI 161 (163)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhHhhh-ccccHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34467777888888999999999888885 5555667777777777777777766544
No 462
>KOG4360|consensus
Probab=30.46 E-value=2.7e+02 Score=27.49 Aligned_cols=14 Identities=21% Similarity=0.249 Sum_probs=10.1
Q ss_pred cchHHHHHHHhhhc
Q psy2296 47 SQSVKEILQSLVDD 60 (208)
Q Consensus 47 ~~~VKdvlq~LVDD 60 (208)
.++|-|+++.|-|-
T Consensus 197 q~~y~~~~Kelrdt 210 (596)
T KOG4360|consen 197 QQLYGDCVKELRDT 210 (596)
T ss_pred HHHHHHHHHHHHHH
Confidence 46777888888773
No 463
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=30.46 E-value=1.2e+02 Score=23.61 Aligned_cols=54 Identities=22% Similarity=0.305 Sum_probs=37.3
Q ss_pred CHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccc
Q psy2296 8 SVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIG 69 (208)
Q Consensus 8 S~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiG 69 (208)
+.|+=...|+.+.... .+=+++ ||-.. -||++.||-..|+.|.+.|+|..++.|
T Consensus 5 ~~edyL~~I~~l~~~~-~~~~~~---ela~~----l~vs~~svs~~l~~L~~~Gli~~~~~~ 58 (142)
T PRK03902 5 SMEDYIEQIYLLIEEK-GYARVS---DIAEA----LSVHPSSVTKMVQKLDKDEYLIYEKYR 58 (142)
T ss_pred hHHHHHHHHHHHHhcC-CCcCHH---HHHHH----hCCChhHHHHHHHHHHHCCCEEEecCc
Confidence 3455555555555433 344666 55433 689999999999999999999876543
No 464
>PLN02678 seryl-tRNA synthetase
Probab=30.30 E-value=2.9e+02 Score=26.46 Aligned_cols=61 Identities=18% Similarity=0.149 Sum_probs=37.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC------HHHHHHHHHHHHHHHHHHhhhhhhHHHHHH
Q psy2296 121 KNREDFLQEVGNISKELELINKELEKYKNND------PDTLKLIENTAQRAKEAANRWTDNLFSLKS 181 (208)
Q Consensus 121 ~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D------p~~i~~~~~~~~~~k~aanrwTDNI~~l~~ 181 (208)
.+|.+++.+++.|+.+..++.+++....... .+.+..+++++..+...+....+-|..+..
T Consensus 40 ~~~r~l~~~~e~lr~erN~~sk~I~~~k~~~~~~~~l~~~~~~Lk~ei~~le~~~~~~~~~l~~~~~ 106 (448)
T PLN02678 40 KEWRQRQFELDSLRKEFNKLNKEVAKLKIAKEDATELIAETKELKKEITEKEAEVQEAKAALDAKLK 106 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4788888889999999888888887744322 122344445555555555555554444333
No 465
>PF15619 Lebercilin: Ciliary protein causing Leber congenital amaurosis disease
Probab=30.04 E-value=3.4e+02 Score=22.90 Aligned_cols=79 Identities=20% Similarity=0.318 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHHhh
Q psy2296 95 EIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNND---PDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 95 ~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~D---p~~i~~~~~~~~~~k~aanr 171 (208)
+|..++..+.+++..+ ..+..+..-|+.-.....+.|.+|...+ |..|....+++..++.-+.+
T Consensus 13 ki~~L~n~l~elq~~l-------------~~l~~ENk~Lk~lq~Rq~kAL~k~e~~e~~Lpqll~~h~eEvr~Lr~~LR~ 79 (194)
T PF15619_consen 13 KIKELQNELAELQRKL-------------QELRKENKTLKQLQKRQEKALQKYEDTEAELPQLLQRHNEEVRVLRERLRK 79 (194)
T ss_pred HHHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHH
Q ss_pred hhhhHHHHHHHHHhh
Q psy2296 172 WTDNLFSLKSWCKNK 186 (208)
Q Consensus 172 wTDNI~~l~~~~~~k 186 (208)
-.+..-.+..=++.+
T Consensus 80 ~q~~~r~~~~klk~~ 94 (194)
T PF15619_consen 80 SQEQERELERKLKDK 94 (194)
T ss_pred HHHHHHHHHHHHHHH
No 466
>PRK09239 chorismate mutase; Provisional
Probab=30.02 E-value=1.4e+02 Score=22.69 Aligned_cols=24 Identities=17% Similarity=0.308 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 91 KITAEIEDVTKELAQNNEALEKSM 114 (208)
Q Consensus 91 ~l~~~i~~~~~~i~~l~~~ie~~~ 114 (208)
++...++.++.+|..+-..|-.+.
T Consensus 7 ~~~~~L~~lR~~ID~ID~eIv~LL 30 (104)
T PRK09239 7 RAPAELAALRQSIDNIDAALIHML 30 (104)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345566677777777666665443
No 467
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=30.01 E-value=45 Score=32.35 Aligned_cols=26 Identities=19% Similarity=0.423 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 87 CKLEKITAEIEDVTKELAQNNEALEK 112 (208)
Q Consensus 87 ~~~~~l~~~i~~~~~~i~~l~~~ie~ 112 (208)
++++.|++++++++++..++++++++
T Consensus 31 qkie~L~kql~~Lk~q~~~l~~~v~k 56 (489)
T PF11853_consen 31 QKIEALKKQLEELKAQQDDLNDRVDK 56 (489)
T ss_pred HHHHHHHHHHHHHHHhhcccccccch
Confidence 36666666666666666655555543
No 468
>COG1695 Predicted transcriptional regulators [Transcription]
Probab=29.77 E-value=2.6e+02 Score=21.43 Aligned_cols=69 Identities=20% Similarity=0.289 Sum_probs=45.7
Q ss_pred HHHHHHhhh-ccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccce----eEeeccchhhHH
Q psy2296 14 TGLLELFHE-KEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTST----YFWSFPNKASDR 84 (208)
Q Consensus 14 ~~il~~f~~-~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN----~YWsFps~~~~~ 84 (208)
--||.++.. ...-|.+. -++|....-.-.+++-||=-+|..|.++|+|.+...++.+ =|.+.-......
T Consensus 12 ~~iL~~L~~~~~~Gyei~--k~~~~~~~~~~~~s~gtiYp~L~~Le~~Gli~~~~~~~~~g~~rk~Y~lTe~G~~~ 85 (138)
T COG1695 12 LLILSLLSEKPSHGYEII--KELEELSGGLWEPSPGTIYPLLKRLEKEGLIESRWEESGGGPPRKYYRLTEKGKEE 85 (138)
T ss_pred HHHHHHHhcCCchHHHHH--HHHHHHcCCCCcCCCCcHHHHHHHHHHCCCeEEEecccCCCCCceEEEECHHHHHH
Confidence 445555543 33334332 2666666544468999999999999999999998777764 455555544433
No 469
>PRK06746 peptide chain release factor 2; Provisional
Probab=29.75 E-value=4.1e+02 Score=24.45 Aligned_cols=67 Identities=15% Similarity=0.207 Sum_probs=38.9
Q ss_pred EeeccchhhH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHH
Q psy2296 74 FWSFPNKASD--RVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELIN 141 (208)
Q Consensus 74 YWsFps~~~~--~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~ 141 (208)
||.=|..+.. +....+..+-..+..+.....++.+..+-+.. -.|.+-+..+..++..|...+..+.
T Consensus 6 fw~d~~~~~~~~ke~~~l~~~v~~~~~~~~~~~d~~~~~el~~~-~~d~e~~~~a~~e~~~l~~~l~~le 74 (326)
T PRK06746 6 FWDDQQGAQAVINEANALKDMVGKFRQLDETFENLEITHELLKE-EYDEDLHEELESEVKGLIQEMNEYE 74 (326)
T ss_pred hhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 7887776443 33344444445555555555555554444432 2344556677777777777777775
No 470
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=29.72 E-value=63 Score=20.62 Aligned_cols=42 Identities=24% Similarity=0.309 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHH
Q psy2296 7 LSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEIL 54 (208)
Q Consensus 7 lS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvl 54 (208)
.|.+ -...|.++|.. ..+-+-. +++.++.. +|++...|..-.
T Consensus 7 ~~~~-~~~~Le~~f~~-~~~P~~~---~~~~la~~-~~l~~~qV~~WF 48 (59)
T cd00086 7 FTPE-QLEELEKEFEK-NPYPSRE---EREELAKE-LGLTERQVKIWF 48 (59)
T ss_pred CCHH-HHHHHHHHHHh-CCCCCHH---HHHHHHHH-HCcCHHHHHHHH
Confidence 4444 46677777777 4477888 99999999 998888876543
No 471
>KOG0946|consensus
Probab=29.40 E-value=6e+02 Score=26.68 Aligned_cols=128 Identities=19% Similarity=0.223 Sum_probs=0.0
Q ss_pred chhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 25 EFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCKLEKITAEIEDVTKELA 104 (208)
Q Consensus 25 ~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~~~~l~~~i~~~~~~i~ 104 (208)
+||-.|+.+++|..+.| -+.+.+=-|=...++-.-+=.-+.+-+. .+..+.++.-+++.+++...
T Consensus 617 D~~f~kL~kele~~i~k--~ls~~~eee~~~~~~~k~~e~l~~~~~k-------------yK~lI~~lD~~~e~lkQ~~~ 681 (970)
T KOG0946|consen 617 DFEFKKLFKELEGLIAK--LLSSKTEEEEQTQLAEKYHEELDDIQQK-------------YKGLIRELDYQIENLKQMEK 681 (970)
T ss_pred hHHHHHHHHHHHHHHHH--HhcCCCccchhhHHHHHHHHHHHHHHHH-------------HHHHHHHHhhHHHHHHHHHH
Q ss_pred HHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHH----------HHhc---CCHHHHHHHHHHHHHHHHHHhh
Q psy2296 105 QNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELE----------KYKN---NDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 105 ~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~----------~~~~---~Dp~~i~~~~~~~~~~k~aanr 171 (208)
+++...+.... +=.....+..+|..+..-|+.+|. ...+ .-|+.+....-+.+.+...-++
T Consensus 682 ~l~~e~eeL~~------~vq~~~s~hsql~~q~~~Lk~qLg~~~~~~~~~~q~~e~~~t~~eel~a~~~e~k~l~~~q~~ 755 (970)
T KOG0946|consen 682 ELQVENEELEE------EVQDFISEHSQLKDQLDLLKNQLGIISSKQRDLLQGAEASKTQNEELNAALSENKKLENDQEL 755 (970)
T ss_pred HHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHhHHHhccCChHHHHHHHHHHHHHHHHHHH
Q ss_pred hh
Q psy2296 172 WT 173 (208)
Q Consensus 172 wT 173 (208)
-|
T Consensus 756 l~ 757 (970)
T KOG0946|consen 756 LT 757 (970)
T ss_pred HH
No 472
>PRK09975 DNA-binding transcriptional regulator EnvR; Provisional
Probab=29.24 E-value=41 Score=27.32 Aligned_cols=57 Identities=21% Similarity=0.405 Sum_probs=39.0
Q ss_pred CCCCCCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccch
Q psy2296 1 MSKKKGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNK 80 (208)
Q Consensus 1 MskkkglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~ 80 (208)
|++++.-...++|.+|++-.- .+... +|+...||.||.... -+.-+.+|.-|||+
T Consensus 1 m~~~~~~~~~~~r~~Il~aa~---------------~lf~~-~G~~~~ti~~Ia~~a---------gvsk~t~Y~~F~sK 55 (213)
T PRK09975 1 MAKKTKAEALKTRQELIETAI---------------AQFAL-RGVSNTTLNDIADAA---------NVTRGAIYWHFENK 55 (213)
T ss_pred CCCCchHHHHHHHHHHHHHHH---------------HHHHH-cCcccCCHHHHHHHc---------CCCHHHHHHHcCCH
Confidence 676555667788888766332 22222 599999999987532 34566789999998
Q ss_pred hh
Q psy2296 81 AS 82 (208)
Q Consensus 81 ~~ 82 (208)
..
T Consensus 56 e~ 57 (213)
T PRK09975 56 TQ 57 (213)
T ss_pred HH
Confidence 65
No 473
>PRK09416 lstR lineage-specific thermal regulator protein; Provisional
Probab=29.18 E-value=2.8e+02 Score=22.32 Aligned_cols=72 Identities=13% Similarity=0.143 Sum_probs=48.5
Q ss_pred HHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHH
Q psy2296 14 TGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDC 87 (208)
Q Consensus 14 ~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~ 87 (208)
--||.++.+...=|-|. .+|+....-..-+++-+|=-+|+.|..+|+|.+.-.|..-=|++.-......+..
T Consensus 46 l~IL~lL~~~~yGYeI~--k~I~e~~~g~~~~s~GtIYp~L~RLE~~GlI~s~~~~~~RK~Y~ITe~Gre~L~e 117 (135)
T PRK09416 46 LAILQLLMNEKTGYELL--QLLRQRGILTFEGNEGSLYTLLHRLEQNRFIQSSWDHEGAKYYQLTDKGNKMLRK 117 (135)
T ss_pred HHHHHHHhCCCCHHHHH--HHHHHhcCCcccCCCccHHHHHHHHHHCCCeEEeecCCCceEEEECHHHHHHHHH
Confidence 34677776653333332 3677654332356789999999999999999998777766777776666544433
No 474
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=29.09 E-value=2.7e+02 Score=22.60 Aligned_cols=13 Identities=31% Similarity=0.575 Sum_probs=4.8
Q ss_pred HHHHHHHHHHHHH
Q psy2296 132 NISKELELINKEL 144 (208)
Q Consensus 132 ~L~~~~~~l~~el 144 (208)
+|+.|+.+++.|+
T Consensus 44 ~l~~Ei~~l~~E~ 56 (161)
T PF04420_consen 44 QLRKEILQLKREL 56 (161)
T ss_dssp HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH
Confidence 3333333333333
No 475
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=29.06 E-value=1.2e+02 Score=25.27 Aligned_cols=53 Identities=26% Similarity=0.347 Sum_probs=40.2
Q ss_pred CCCCHHHHHHHHHHHhhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccc
Q psy2296 5 KGLSVEEKRTGLLELFHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEK 67 (208)
Q Consensus 5 kglS~eEKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EK 67 (208)
.++|. ...+||.++.... .=+++ ||-+. .|++..||--.|+.|.+.|+|...+
T Consensus 139 ~~ls~--~~~~IL~~l~~~g-~~s~~---eia~~----l~is~stv~r~L~~Le~~GlI~r~~ 191 (203)
T TIGR01884 139 AGLSR--EELKVLEVLKAEG-EKSVK---NIAKK----LGKSLSTISRHLRELEKKGLVEQKG 191 (203)
T ss_pred cCCCH--HHHHHHHHHHHcC-CcCHH---HHHHH----HCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 35554 4468899987643 23566 66543 5999999999999999999999875
No 476
>PF04065 Not3: Not1 N-terminal domain, CCR4-Not complex component ; InterPro: IPR007207 The Ccr4-Not complex (Not1, Not2, Not3, Not4 and Not5) is a global regulator of transcription that affects genes positively and negatively and is thought to regulate transcription factor TFIID []. This domain is the N-terminal region of the Not proteins.; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=28.93 E-value=2.4e+02 Score=24.63 Aligned_cols=73 Identities=15% Similarity=0.338 Sum_probs=48.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhc---------CCHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhcCCCHHHHhh
Q psy2296 126 FLQEVGNISKELELINKELEKYKN---------NDPDTLKLIENTAQRAKEAANRWTDNLFSLKSWCKNKFGLEETALNK 196 (208)
Q Consensus 126 ll~~l~~L~~~~~~l~~el~~~~~---------~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~~~~~~k~~~~~~~i~~ 196 (208)
+-.-+.+|..+++.+..+++.+.. ..+++++.+ ....+--+....++..|...+.+- .+++..|..
T Consensus 127 l~~~Id~L~~QiE~~E~E~E~L~~~~kKkk~~~~~~~r~~~l----~~~ierhk~Hi~kLE~lLR~L~N~-~l~~e~V~~ 201 (233)
T PF04065_consen 127 LKDSIDELNRQIEQLEAEIESLSSQKKKKKKDSTKQERIEEL----ESRIERHKFHIEKLELLLRLLDND-ELDPEQVED 201 (233)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhccCccCccchhHHHHH----HHHHHHHHHHHHHHHHHHHHHHcC-CCCHHHHHH
Confidence 335678899999999999998763 134444444 444444445578888888888875 578888775
Q ss_pred hcCCCCCCcc
Q psy2296 197 HFSIPEEMDY 206 (208)
Q Consensus 197 ~f~Ip~d~dy 206 (208)
|-++++|
T Consensus 202 ---ikediey 208 (233)
T PF04065_consen 202 ---IKEDIEY 208 (233)
T ss_pred ---HHHHHHH
Confidence 4444443
No 477
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=28.87 E-value=36 Score=27.84 Aligned_cols=52 Identities=17% Similarity=0.300 Sum_probs=37.5
Q ss_pred hhhccchhhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeecc
Q psy2296 20 FHEKEEFFQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFP 78 (208)
Q Consensus 20 f~~~~~~f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFp 78 (208)
|+....+.+.+ || +..-||+...|..|++.|...|||.+-+=..+-|.=+=|
T Consensus 19 ~~~~~~~vs~~---eI----A~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~ 70 (164)
T PRK10857 19 LNSEAGPVPLA---DI----SERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKD 70 (164)
T ss_pred hCCCCCcCcHH---HH----HHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCC
Confidence 45556678888 76 333799999999999999999999984333344443333
No 478
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=28.84 E-value=33 Score=28.87 Aligned_cols=29 Identities=28% Similarity=0.459 Sum_probs=25.1
Q ss_pred cCCccchHHHHHHHhhhcCccccc-ccccc
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESE-KIGTS 71 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~E-KiGts 71 (208)
-||+-.+|.|.|+.|..+|+|... ..||.
T Consensus 41 ~gVSRt~VReAL~~L~~eGlv~~~~g~G~~ 70 (239)
T PRK04984 41 IGVTRTTLREVLQRLARDGWLTIQHGKPTK 70 (239)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEEeCCCeeE
Confidence 599999999999999999999975 45544
No 479
>PRK01156 chromosome segregation protein; Provisional
Probab=28.72 E-value=6.4e+02 Score=25.70 Aligned_cols=25 Identities=8% Similarity=0.202 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 89 LEKITAEIEDVTKELAQNNEALEKS 113 (208)
Q Consensus 89 ~~~l~~~i~~~~~~i~~l~~~ie~~ 113 (208)
+..+..+++.+...+..+...+...
T Consensus 638 l~~~~~~i~~~~~~i~~l~~~i~~l 662 (895)
T PRK01156 638 IQENKILIEKLRGKIDNYKKQIAEI 662 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444455555555544444
No 480
>PF06008 Laminin_I: Laminin Domain I; InterPro: IPR009254 Laminins are glycoproteins that are major constituents of the basement membrane of cells. Laminins are trimeric molecules; laminin-1 is an alpha1 beta1 gamma1 trimer. It has been suggested that the domains I and II from laminin A, B1 and B2 may come together to form a triple helical coiled-coil structure []. Binding to cells via a high affinity receptor, laminin is thought to mediate the attachment, migration and organisation of cells into tissues during embryonic development by interacting with other extracellular matrix components.; GO: 0005102 receptor binding, 0030155 regulation of cell adhesion, 0030334 regulation of cell migration, 0045995 regulation of embryonic development, 0005606 laminin-1 complex
Probab=28.72 E-value=3.8e+02 Score=23.12 Aligned_cols=84 Identities=18% Similarity=0.248 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-------CCCChhH-HHHHHHHHHHHHHHHHHHHHHHHHhc----CCH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVG-------RGDSKNR-EDFLQEVGNISKELELINKELEKYKN----NDP 152 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~-------r~~~~eR-~~ll~~l~~L~~~~~~l~~el~~~~~----~Dp 152 (208)
.+..+..+..++..+...+..|..+....... -+.+-.| ..+...+..+...+..+-.++..|.. .++
T Consensus 43 ~~~~~~~~e~~l~~L~~d~~~L~~k~~~~~~~~~~l~~~t~~t~~~a~~L~~~i~~l~~~i~~l~~~~~~l~~~~~~~~~ 122 (264)
T PF06008_consen 43 QKQQLDPLEKELESLEQDVENLQEKATKVSRKAQQLNNNTERTLQRAQDLEQFIQNLQDNIQELIEQVESLNENGDQLPS 122 (264)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcccCCCCH
Confidence 34445555555666666665555555444331 1233344 44556788888899999999988887 346
Q ss_pred HHHHHHHHHHHHHHHH
Q psy2296 153 DTLKLIENTAQRAKEA 168 (208)
Q Consensus 153 ~~i~~~~~~~~~~k~a 168 (208)
..+..+-+++......
T Consensus 123 ~~l~~~l~ea~~mL~e 138 (264)
T PF06008_consen 123 EDLQRALAEAQRMLEE 138 (264)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6676666655544443
No 481
>KOG0930|consensus
Probab=28.64 E-value=3e+02 Score=25.33 Aligned_cols=82 Identities=12% Similarity=0.278 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--------------HHhhhhhhHHHHHHHHHhhcC
Q psy2296 123 REDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKE--------------AANRWTDNLFSLKSWCKNKFG 188 (208)
Q Consensus 123 R~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~--------------aanrwTDNI~~l~~~~~~k~~ 188 (208)
+..++.+++.|+.++.+..+|+..+....|-...+..+.+..-+. .-+..+-.-..|-.|+.+--|
T Consensus 26 k~qL~deIq~Lk~Ei~ev~~eid~~~~~e~skt~q~~k~~~~GRKKFNmDP~Kgiq~l~e~~ll~~dpq~iA~flykGEG 105 (395)
T KOG0930|consen 26 KQELLDEIQRLKDEIAEVMEEIDNLESTEESKTKQRNKQVAMGRKKFNMDPKKGIQFLIENDLLQNDPEDIARFLYKGEG 105 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhccccchhhHHHhHHHhhchhhcCCChHHHhHHHHHcccccCCHHHHHHHHHhcCC
Confidence 344555555555555555555555554444333332222222111 112223334556667777777
Q ss_pred CCHHHHhhhcCCCCCC
Q psy2296 189 LEETALNKHFSIPEEM 204 (208)
Q Consensus 189 ~~~~~i~~~f~Ip~d~ 204 (208)
+....|-..+|=-++|
T Consensus 106 LnKtaIG~yLGer~~~ 121 (395)
T KOG0930|consen 106 LNKTAIGDYLGERDEF 121 (395)
T ss_pred cchhhHhhhhccCchh
Confidence 7777777666654443
No 482
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=28.61 E-value=4.3e+02 Score=23.62 Aligned_cols=30 Identities=20% Similarity=0.468 Sum_probs=16.9
Q ss_pred CChhHHHHHHHHHHHHHHHHHHHHHHHHHh
Q psy2296 119 DSKNREDFLQEVGNISKELELINKELEKYK 148 (208)
Q Consensus 119 ~~~eR~~ll~~l~~L~~~~~~l~~el~~~~ 148 (208)
+++--..+..++.+|+++++.|+.+|..+.
T Consensus 212 d~~~q~~~~ae~seLq~r~~~l~~~L~~L~ 241 (289)
T COG4985 212 DDEFQQHYVAEKSELQKRLAQLQTELDALR 241 (289)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444445555566666666666666655544
No 483
>TIGR02277 PaaX_trns_reg phenylacetic acid degradation operon negative regulatory protein PaaX. This transcriptional regulator is always found in association with operons believed to be involved in the degradation of phenylacetic acid. The gene product has been shown to bind to the promoter sites and repress their transcription.
Probab=28.57 E-value=51 Score=29.29 Aligned_cols=47 Identities=26% Similarity=0.474 Sum_probs=38.4
Q ss_pred HHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 34 ELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 34 ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
.|=.++.- .||+..+|-=.|--|+.+|+|..++.|--.|| +.--...
T Consensus 22 ~Li~l~~~-~gi~~~~vr~al~RL~~~G~l~~~~~grr~~Y-~LT~~g~ 68 (280)
T TIGR02277 22 SLIEFLAG-LGINERLVRTAVSRLVAQGWLQSERKGRRSFY-SLTDKGR 68 (280)
T ss_pred HHHHHHHh-cCCCcchHHHHHHHHHHCCCEEeeecCCCCEE-EECHHHH
Confidence 55555655 89999999999999999999999999887777 6555443
No 484
>PTZ00034 40S ribosomal protein S10; Provisional
Probab=28.55 E-value=96 Score=24.70 Aligned_cols=73 Identities=16% Similarity=0.305 Sum_probs=51.0
Q ss_pred HHHHHHHHHhhhccchhhhcchHHHHhhccccc--CCccchHHHHHHHhhhcCcccccccccceeEeeccchhhHHHHHH
Q psy2296 11 EKRTGLLELFHEKEEFFQLKLIIELEKLAPKEK--GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKASDRVDCK 88 (208)
Q Consensus 11 EKr~~il~~f~~~~~~f~lK~~~ElEK~~pK~~--GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~~~~~~~ 88 (208)
+.|..|.+.+....-..--| |. -+|++. +|.--.|.-++|||.+-|.|. |..-=..|||.+-++...=+++-
T Consensus 7 ~~r~~Iye~LfkeGVlvakK---d~--~~~~h~el~vpNL~Vik~mqSL~Srg~Vk-e~f~WrhyYw~LT~eGieyLR~y 80 (124)
T PTZ00034 7 ANRKAIYRYLFKEGVIVCKK---DP--KGPWHPELNVPNLHVMMLMRSLKSRGLVK-EQFAWQHYYYYLTDEGIEYLRTY 80 (124)
T ss_pred HHHHHHHHHHhhCceEEEec---CC--CCCCCCccCCccHHHHHHHHccccCCceE-EEEeeEEEEEEEchHHHHHHHHH
Confidence 36778888777655444444 43 233332 666688999999999999996 55666789999999877655544
Q ss_pred H
Q psy2296 89 L 89 (208)
Q Consensus 89 ~ 89 (208)
+
T Consensus 81 L 81 (124)
T PTZ00034 81 L 81 (124)
T ss_pred h
Confidence 3
No 485
>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional
Probab=28.50 E-value=3.6e+02 Score=28.94 Aligned_cols=62 Identities=11% Similarity=0.112 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC-CChhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSMVGRG-DSKNREDFLQEVGNISKELELINKELEK 146 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~-~~~eR~~ll~~l~~L~~~~~~l~~el~~ 146 (208)
...++..|.++++...+.....+..++.....+. ...-+..+.++..+|++++++++++..+
T Consensus 147 ~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 209 (1123)
T PRK11448 147 LQQEVLTLKQQLELQAREKAQSQALAEAQQQELVALEGLAAELEEKQQELEAQLEQLQEKAAE 209 (1123)
T ss_pred hHHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555555544333334443333333322111 1112334445555555555555544433
No 486
>PRK12901 secA preprotein translocase subunit SecA; Reviewed
Probab=28.50 E-value=7.8e+02 Score=26.60 Aligned_cols=49 Identities=27% Similarity=0.372 Sum_probs=32.4
Q ss_pred CCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 118 GDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 118 ~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDN 175 (208)
.+-++|+.+-.++..|.++......+ .+.+.=|+++. .+++|+-|...|
T Consensus 75 ~~~~~~e~~~~~id~~~~~~~~~~~~--~Ld~iLpEAFA-------vvREaarR~lg~ 123 (1112)
T PRK12901 75 LDIDEREDIYAQIDKLEKEAYEILEK--VLDEILPEAFA-------IVKETARRFAEN 123 (1112)
T ss_pred cchhhhhHHHHHHHHHHHHHHHHHHh--HHHHhHHHHHH-------HHHHHHHHHhcC
Confidence 34567888888888887766554443 13333366665 788888888865
No 487
>PF10186 Atg14: UV radiation resistance protein and autophagy-related subunit 14; InterPro: IPR018791 Class III phosphatidylinositol 3-kinase (PI3-kinase) regulates multiple membrane trafficking. In yeast, two distinct PI3-kinase complexes are known: complex I (Vps34, Vps15, Vps30/Atg6, and Atg14) is involved in autophagy, and complex II (Vps34, Vps15, Vps30/Atg6, and Vps38) functions in the vacuolar protein sorting pathway. In mammals, the counterparts of Vps34, Vps15, and Vps30/Atg6 are Vps34, p150, and Beclin 1, respectively. Mammalian UV irradiation resistance-associated gene (UVRAG) has been identified as identical to yeast Vps38 []. The Atg14 (autophagy-related protein 14) proteins are hydrophilic proteins and have a coiled-coil motif at the N terminus region. Yeast cells with mutant Atg14 are defective not only in autophagy but also in sorting of carboxypeptidase Y (CPY), a vacuolar-soluble hydrolase, to the vacuole []. This entry represents Atg14 and UVRAG, which bind Beclin 1 to forms two distinct PI3-kinase complexes. This entry also includes Bakor (beclin-1-associated autophagy-related key regulator), also known as autophagy-related protein 14-like protein, which share sequence similarity to the yeast Atg14 protein []. Barkor positively regulates autophagy through its interaction with Beclin-1, with decreased levels of autophagosome formation observed when Barkor expression is eliminated []. Autophagy mediates the cellular response to nutrient deprivation, protein aggregation, and pathogen invasion in humans, and malfunction of autophagy has been implicated in multiple human diseases including cancer. ; GO: 0010508 positive regulation of autophagy
Probab=28.46 E-value=3.7e+02 Score=22.89 Aligned_cols=30 Identities=10% Similarity=0.339 Sum_probs=13.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 82 SDRVDCKLEKITAEIEDVTKELAQNNEALE 111 (208)
Q Consensus 82 ~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie 111 (208)
...+...+..++..+..++..+..++.+++
T Consensus 58 ~~~~~~~~~~~~~r~~~l~~~i~~~~~~i~ 87 (302)
T PF10186_consen 58 IQQLKREIEELRERLERLRERIERLRKRIE 87 (302)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444443
No 488
>KOG3990|consensus
Probab=28.45 E-value=3.2e+02 Score=24.63 Aligned_cols=19 Identities=21% Similarity=0.258 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHh
Q psy2296 130 VGNISKELELINKELEKYK 148 (208)
Q Consensus 130 l~~L~~~~~~l~~el~~~~ 148 (208)
.++|+.+.+++-++++.++
T Consensus 276 v~qL~~k~~~~lk~~a~l~ 294 (305)
T KOG3990|consen 276 VQQLQKKKEESLKAIAQLR 294 (305)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 4445555555555555444
No 489
>PF09639 YjcQ: YjcQ protein; InterPro: IPR018597 YjcQ is a protein of approx. 100 residues containing four alpha helices and three beta strands. It is found in bacteria and also in the Lactococcus phage Tuc2009. In bacteria it appears to be under the regulation of SigD RNA polymerase which is responsible for the expression of many genes encoding cell-surface proteins related to flagellar assembly, motility, chemotaxis and autolysis in the late exponential growth phase. The exact function of YjcQ is unknown []. However, it is thought to be the major head protein in viruses [] and is found in prophage in bacteria. ; PDB: 2HGC_A.
Probab=28.34 E-value=43 Score=24.54 Aligned_cols=36 Identities=17% Similarity=0.319 Sum_probs=23.9
Q ss_pred CCccchHHHHHHHhhhcCcccccccccceeEeeccc
Q psy2296 44 GIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPN 79 (208)
Q Consensus 44 GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps 79 (208)
|+..--.-++++.|+|||+|.-=.+-.+..++++-+
T Consensus 21 ~~~~~~~~~il~~L~d~GyI~G~~~~~~~~~~~~~~ 56 (88)
T PF09639_consen 21 DITDSYWSDILRMLQDEGYIKGVSVVRYSPYVALSD 56 (88)
T ss_dssp TS-HHHHHHHHHHHHHHTSEE--EESSSSEE--SS-
T ss_pred chhHHHHHHHHHHHHHCCCccceEEEeccceeecCC
Confidence 566677889999999999998666666566666643
No 490
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=28.31 E-value=2.5e+02 Score=29.37 Aligned_cols=59 Identities=19% Similarity=0.258 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH--H-hcCCHHHHHHHHHHHHHHHHHHhhhhhhHHHHH
Q psy2296 122 NREDFLQEVGNISKELELINKELEK--Y-KNNDPDTLKLIENTAQRAKEAANRWTDNLFSLK 180 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~--~-~~~Dp~~i~~~~~~~~~~k~aanrwTDNI~~l~ 180 (208)
++..+.++++.++++++.+++.|.+ | .+..|+.+++-++.+..+.+.+......|-.+.
T Consensus 930 E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l~~~l~~l~ 991 (995)
T PTZ00419 930 ELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQLEQAIEELK 991 (995)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555555566666666666555543 2 235678888888888888888777777666654
No 491
>TIGR02928 orc1/cdc6 family replication initiation protein. Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.
Probab=28.31 E-value=87 Score=27.81 Aligned_cols=60 Identities=25% Similarity=0.396 Sum_probs=40.0
Q ss_pred CCCCHHHH--HHHHHHHhhhccchhhhcchHHHHh----hcccccC---CccchHHHHHHHhhhcCccccccc
Q psy2296 5 KGLSVEEK--RTGLLELFHEKEEFFQLKLIIELEK----LAPKEKG---IISQSVKEILQSLVDDGLVESEKI 68 (208)
Q Consensus 5 kglS~eEK--r~~il~~f~~~~~~f~lK~~~ElEK----~~pK~~G---I~~~~VKdvlq~LVDDglV~~EKi 68 (208)
+|||..+| ...|..........++.- ++-. ++.. -| +....+.++++.|.+-|+|....-
T Consensus 284 ~~l~~~~~~~l~ai~~~~~~~~~~~~~~---~~~~~y~~~~~~-~~~~~~~~~~~~~~l~~l~~~gli~~~~~ 352 (365)
T TIGR02928 284 RGLPTHSKLVLLAIANLAANDEDPFRTG---EVYEVYKEVCED-IGVDPLTQRRISDLLNELDMLGLVEAEER 352 (365)
T ss_pred HcCCHHHHHHHHHHHHHHhcCCCCccHH---HHHHHHHHHHHh-cCCCCCcHHHHHHHHHHHHhcCCeEEEEE
Confidence 57888887 445555554444455666 5554 3332 35 555789999999999999998744
No 492
>PF00440 TetR_N: Bacterial regulatory proteins, tetR family; InterPro: IPR001647 This entry represents a DNA-binding domain with a helix-turn-helix (HTH) structure that is found in several bacterial and archaeal transcriptional regulators, such as TetR, the tetracycline resistance repressor. Numerous other transcriptional regulatory proteins also contain HTH-type DNA-binding domains, and can be grouped into subfamiles based on sequence similarity. The domain represented by this entry is found in a subfamily of proteins that includes the transcriptional regulators TetR, TetC, AcrR, BetI, Bm3R1, EnvR, QacR, MtrR, TcmR, Ttk, YbiH, and YhgD [, , ]. Many of these proteins function as repressors that control the level of susceptibility to hydrophobic antibiotics and detergents. They all have similar molecular weights, ranging from 21 to 25 kDa. The helix-turn-helix motif is located in the initial third of the protein. The 3D structure of the homodimeric TetR protein complexed with 7-chloro-tetracycline-magnesium has been determined to 2.1 A resolution []. TetR folds into ten alpha-helices with connecting turns and loops. The three N-terminal alpha-helices of the repressor form the DNA-binding domain: this structural motif encompasses an HTH fold with an inverse orientation compared with that of other DNA-binding proteins.; GO: 0003677 DNA binding; PDB: 3NPI_B 3IUV_A 3CCY_A 2JK3_A 2FX0_A 2JJ7_A 2WV1_B 3BTI_D 3BR6_E 3BR5_A ....
Probab=28.20 E-value=16 Score=23.22 Aligned_cols=31 Identities=23% Similarity=0.534 Sum_probs=25.4
Q ss_pred cCCccchHHHHHHHhhhcCcccccccccceeEeeccchhh
Q psy2296 43 KGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSFPNKAS 82 (208)
Q Consensus 43 ~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsFps~~~ 82 (208)
.|+...||.+|.+.+ .|..+.+|+.|||...
T Consensus 12 ~G~~~~s~~~Ia~~~---------gvs~~~~y~~f~~k~~ 42 (47)
T PF00440_consen 12 KGYEAVSIRDIARRA---------GVSKGSFYRYFPSKDD 42 (47)
T ss_dssp HHTTTSSHHHHHHHH---------TSCHHHHHHHCSSHHH
T ss_pred hCHHhCCHHHHHHHH---------ccchhhHHHHcCCHHH
Confidence 588889998887765 6888999999999753
No 493
>PF08946 Osmo_CC: Osmosensory transporter coiled coil; InterPro: IPR015041 The osmosensory transporter coiled coil is a C-terminal domain found in various bacterial osmoprotective transporters, such as ProP, Proline/betaine transporter, Proline permease 2 and the citrate proton symporters. It adopts an antiparallel coiled-coil structure, and is essential for osmosensory and osmoprotectant transporter function []. ; PDB: 1R48_B.
Probab=28.14 E-value=1.6e+02 Score=19.45 Aligned_cols=28 Identities=21% Similarity=0.416 Sum_probs=11.4
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q psy2296 81 ASDRVDCKLEKITAEIEDVTKELAQNNE 108 (208)
Q Consensus 81 ~~~~~~~~~~~l~~~i~~~~~~i~~l~~ 108 (208)
+...++.-.+.++.+++++..+|++|+.
T Consensus 6 AkelLqe~~d~IEqkiedid~qIaeLe~ 33 (46)
T PF08946_consen 6 AKELLQEHYDNIEQKIEDIDEQIAELEA 33 (46)
T ss_dssp ---------THHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhHHHhHHHHHHHHHHHHH
Confidence 3344444555566666666666666553
No 494
>PTZ00446 vacuolar sorting protein SNF7-like; Provisional
Probab=28.06 E-value=3.7e+02 Score=22.77 Aligned_cols=18 Identities=11% Similarity=0.104 Sum_probs=9.7
Q ss_pred CHHHHHHHHHHHHHHHHH
Q psy2296 151 DPDTLKLIENTAQRAKEA 168 (208)
Q Consensus 151 Dp~~i~~~~~~~~~~k~a 168 (208)
+-+++..|+.....++..
T Consensus 106 ~~ev~~aLk~g~~aLK~~ 123 (191)
T PTZ00446 106 HKIAVNALSYAANTHKKL 123 (191)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 455566665555555443
No 495
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=28.03 E-value=2.3e+02 Score=20.36 Aligned_cols=33 Identities=15% Similarity=0.328 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 83 DRVDCKLEKITAEIEDVTKELAQNNEALEKSMV 115 (208)
Q Consensus 83 ~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~ 115 (208)
..+...+..+..++..+...+.++...++.+..
T Consensus 8 ~~l~~~l~~~~~q~~~l~~~~~~~~~~~~eL~~ 40 (106)
T PF01920_consen 8 QELNQQLQQLEQQIQQLERQLRELELTLEELEK 40 (106)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344455555556666666666655555555544
No 496
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.00 E-value=58 Score=20.09 Aligned_cols=40 Identities=20% Similarity=0.339 Sum_probs=0.0
Q ss_pred hhhcchHHHHhhcccccCCccchHHHHHHHhhhcCcccccccccceeEeec
Q psy2296 27 FQLKLIIELEKLAPKEKGIISQSVKEILQSLVDDGLVESEKIGTSTYFWSF 77 (208)
Q Consensus 27 f~lK~~~ElEK~~pK~~GI~~~~VKdvlq~LVDDglV~~EKiGtsN~YWsF 77 (208)
|++. |+.++ .||++.+|.-. ++.|++...+.+...++++.
T Consensus 1 ~~~~---e~a~~----~gv~~~tlr~~----~~~g~l~~~~~~~~~~~y~~ 40 (49)
T cd04761 1 YTIG---ELAKL----TGVSPSTLRYY----ERIGLLSPARTEGGYRLYSD 40 (49)
T ss_pred CcHH---HHHHH----HCcCHHHHHHH----HHCCCCCCCcCCCCCEEeCH
No 497
>PF10359 Fmp27_WPPW: RNA pol II promoter Fmp27 protein domain; InterPro: IPR019449 The function of the FMP27 protein is not known. FMP27 is the product of a nuclear encoded gene but it is detected in highly purified mitochondria in high-throughput studies []. This entry represents a domain within FMP27 that contains characteristic HQR and WPPW sequence motifs.
Probab=27.96 E-value=2.5e+02 Score=26.83 Aligned_cols=65 Identities=12% Similarity=0.313 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh---ccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q psy2296 85 VDCKLEKITAEIEDVTKELAQNNEALEKSM---VGRGDSKNREDFLQEVGNISKELELINKELEKYKN 149 (208)
Q Consensus 85 ~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~---~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~ 149 (208)
.+..+.=+++.+..++.++..+++.+..+. ..-+...+.+.+..++..|+..+.-|+.-+..+..
T Consensus 161 ~~vQ~~L~~~Rl~~L~~qi~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~l~~~l~~l~~ 228 (475)
T PF10359_consen 161 RRVQIELIQERLDELEEQIEKHEEKLGELELNPDDPELKSDIEELERHISSLKERIEFLENMLEDLED 228 (475)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
No 498
>TIGR02894 DNA_bind_RsfA transcription factor, RsfA family. In a subset of endospore-forming members of the Firmcutes, members of this protein family are found, several to a genome. Two very strongly conserved sequences regions are separated by a highly variable linker region. Much of the linker region was excised from the seed alignment for this model. A characterized member is the prespore-specific transcription RsfA from Bacillus subtilis, previously called YwfN, which is controlled by sigma factor F and seems to fine-tune expression of some genes in the sigma-F regulon. A paralog in Bacillus subtilis is designated YlbO.
Probab=27.95 E-value=3.3e+02 Score=22.63 Aligned_cols=46 Identities=28% Similarity=0.364 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhh
Q psy2296 122 NREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANR 171 (208)
Q Consensus 122 eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanr 171 (208)
+...+-.++.+|+.+++.|.+++..+.. .+..+.++-..+..-++|
T Consensus 105 e~~~l~~e~~~l~~~~e~Le~e~~~L~~----~~~~~~eDY~~L~~Im~R 150 (161)
T TIGR02894 105 ENERLKNQNESLQKRNEELEKELEKLRQ----RLSTIEEDYQTLIDIMDR 150 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH
No 499
>PF07200 Mod_r: Modifier of rudimentary (Mod(r)) protein; InterPro: IPR009851 This entry represents a conserved region approximately 150 residues long within a number of eukaryotic proteins that show homology with Drosophila melanogaster Modifier of rudimentary (Mod(r)) proteins. The N-terminal half of Mod(r) proteins is acidic, whereas the C-terminal half is basic [], and both of these regions are represented in this family.; PDB: 2CAZ_F 2P22_C 2F66_F.
Probab=27.93 E-value=3e+02 Score=21.55 Aligned_cols=90 Identities=19% Similarity=0.280 Sum_probs=0.0
Q ss_pred eccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCHHH
Q psy2296 76 SFPNKASDRVDCKLEKITAEIEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKN-NDPDT 154 (208)
Q Consensus 76 sFps~~~~~~~~~~~~l~~~i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~-~Dp~~ 154 (208)
.+|. ........+.+..+...+-...-.++..++..+. +=.....++..|..+...+..++..+.. ++|..
T Consensus 25 ~l~~--~~~~~~~~~~l~~~n~~lAe~nL~~~~~l~~~r~------~l~~~~~~~~~L~~~~~~k~~~~~~l~~~~s~~~ 96 (150)
T PF07200_consen 25 SLPQ--VQELQQEREELLAENEELAEQNLSLEPELEELRS------QLQELYEELKELESEYQEKEQQQDELSSNYSPDA 96 (150)
T ss_dssp GGS----HHHHHHHHHHHHHHHHHHHHH----HHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHH
T ss_pred cCHH--HHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHccCCHHH
Q ss_pred HHHHHHHHHHHHHHHhhhhhhH
Q psy2296 155 LKLIENTAQRAKEAANRWTDNL 176 (208)
Q Consensus 155 i~~~~~~~~~~k~aanrwTDNI 176 (208)
+-.. +..+...++-=+|+|
T Consensus 97 l~~~---L~~~~~e~eeeSe~l 115 (150)
T PF07200_consen 97 LLAR---LQAAASEAEEESEEL 115 (150)
T ss_dssp HHHH---HHHHHHHHHHHHHHH
T ss_pred HHHH---HHHHHHHHHHHHHHH
No 500
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.90 E-value=2.4e+02 Score=20.47 Aligned_cols=69 Identities=16% Similarity=0.333 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHhccCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhhhhhh
Q psy2296 96 IEDVTKELAQNNEALEKSMVGRGDSKNREDFLQEVGNISKELELINKELEKYKNNDPDTLKLIENTAQRAKEAANRWTDN 175 (208)
Q Consensus 96 i~~~~~~i~~l~~~ie~~~~~r~~~~eR~~ll~~l~~L~~~~~~l~~el~~~~~~Dp~~i~~~~~~~~~~k~aanrwTDN 175 (208)
++.++.+++..-+.| +-+--++++|+.+...|..+....+. ..+.+..+...++..-+-|-+-
T Consensus 6 ~ekLE~KiqqAvdTI-------------~LLQmEieELKEknn~l~~e~q~~q~----~reaL~~eneqlk~e~~~WQer 68 (79)
T COG3074 6 FEKLEAKVQQAIDTI-------------TLLQMEIEELKEKNNSLSQEVQNAQH----QREALERENEQLKEEQNGWQER 68 (79)
T ss_pred HHHHHHHHHHHHHHH-------------HHHHHHHHHHHHHhhHhHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHH
Q ss_pred HHHHHH
Q psy2296 176 LFSLKS 181 (208)
Q Consensus 176 I~~l~~ 181 (208)
|-+|..
T Consensus 69 lrsLLG 74 (79)
T COG3074 69 LRALLG 74 (79)
T ss_pred HHHHHh
Done!