Query psy17913
Match_columns 121
No_of_seqs 188 out of 1133
Neff 5.0
Searched_HMMs 46136
Date Fri Aug 16 17:20:40 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17913.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17913hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0336|consensus 99.0 5.2E-10 1.1E-14 97.2 4.6 46 2-47 557-602 (629)
2 KOG0335|consensus 98.9 1.5E-09 3.2E-14 94.5 5.7 48 2-49 429-476 (482)
3 KOG0339|consensus 98.9 4.3E-09 9.3E-14 93.2 7.2 49 1-49 559-607 (731)
4 PTZ00110 helicase; Provisional 98.8 8.7E-09 1.9E-13 89.7 6.1 49 1-49 468-516 (545)
5 KOG0331|consensus 98.6 7.3E-08 1.6E-12 84.7 4.9 48 2-49 433-480 (519)
6 KOG0341|consensus 98.4 2.3E-07 5E-12 80.6 4.3 45 2-46 513-558 (610)
7 PLN00206 DEAD-box ATP-dependen 98.3 8.9E-07 1.9E-11 76.5 4.9 46 2-47 460-505 (518)
8 KOG0334|consensus 97.9 2.2E-05 4.8E-10 73.4 5.8 45 2-46 705-749 (997)
9 KOG0344|consensus 97.8 2.9E-05 6.4E-10 69.2 4.9 44 2-45 480-523 (593)
10 KOG0333|consensus 97.7 2.8E-05 6.1E-10 69.4 3.8 45 2-46 609-654 (673)
11 KOG0328|consensus 96.0 0.0069 1.5E-07 51.4 3.5 42 2-43 358-399 (400)
12 PRK10590 ATP-dependent RNA hel 95.7 0.037 7.9E-07 47.0 6.7 32 2-33 337-368 (456)
13 COG0513 SrmB Superfamily II DN 95.1 0.025 5.4E-07 49.4 3.9 42 1-42 364-409 (513)
14 KOG0327|consensus 94.5 0.02 4.3E-07 49.4 1.7 42 2-43 355-396 (397)
15 PRK04837 ATP-dependent RNA hel 93.7 0.055 1.2E-06 45.2 2.9 32 2-33 347-378 (423)
16 PRK01297 ATP-dependent RNA hel 93.2 0.089 1.9E-06 44.8 3.3 41 2-42 427-469 (475)
17 PF14475 Mso1_Sec1_bdg: Sec1-b 92.4 0.11 2.5E-06 31.6 2.1 25 16-40 17-41 (41)
18 PTZ00424 helicase 45; Provisio 92.1 0.12 2.6E-06 42.2 2.6 39 2-40 359-397 (401)
19 KOG0326|consensus 90.8 0.19 4.1E-06 43.5 2.6 39 2-40 414-452 (459)
20 PRK11634 ATP-dependent RNA hel 90.7 0.2 4.4E-06 45.0 2.8 31 1-31 336-366 (629)
21 PRK04537 ATP-dependent RNA hel 90.2 0.23 5E-06 44.0 2.7 31 2-32 349-379 (572)
22 KOG0340|consensus 90.0 0.31 6.8E-06 42.4 3.3 29 2-30 346-374 (442)
23 PRK11776 ATP-dependent RNA hel 87.2 0.56 1.2E-05 39.7 2.9 33 2-34 334-366 (460)
24 KOG0329|consensus 86.2 0.34 7.3E-06 41.0 1.1 39 2-40 340-379 (387)
25 KOG0330|consensus 85.6 1.4 2.9E-05 38.9 4.5 34 2-35 392-425 (476)
26 KOG0338|consensus 85.5 0.8 1.7E-05 41.7 3.1 29 2-30 518-546 (691)
27 PRK11192 ATP-dependent RNA hel 83.4 1 2.3E-05 37.6 2.8 31 2-32 337-367 (434)
28 KOG0332|consensus 83.3 1.8 3.8E-05 38.2 4.2 43 2-44 428-472 (477)
29 KOG0346|consensus 83.3 0.88 1.9E-05 40.7 2.4 31 2-32 395-425 (569)
30 COG4371 Predicted membrane pro 78.6 3.3 7.1E-05 34.7 4.1 12 34-45 36-47 (334)
31 PF08158 NUC130_3NT: NUC130/3N 76.0 4.2 9.2E-05 25.6 3.2 26 18-43 13-38 (52)
32 PF05903 Peptidase_C97: PPPDE 71.9 1.9 4.1E-05 32.0 1.0 40 7-48 99-138 (151)
33 KOG0921|consensus 69.5 15 0.00031 36.0 6.4 18 13-30 1121-1138(1282)
34 TIGR00614 recQ_fam ATP-depende 69.3 3.2 6.9E-05 35.5 1.9 29 2-30 318-346 (470)
35 smart00581 PSP proline-rich do 68.2 3.3 7.1E-05 26.6 1.4 27 20-46 8-34 (54)
36 KOG0350|consensus 68.2 7 0.00015 35.6 3.8 37 2-38 525-565 (620)
37 KOG0337|consensus 68.1 3.8 8.1E-05 36.6 2.1 28 3-30 354-381 (529)
38 KOG0324|consensus 67.7 6.3 0.00014 31.7 3.2 39 7-47 102-140 (214)
39 PF04046 PSP: PSP; InterPro: 67.3 3.7 7.9E-05 25.8 1.4 26 21-46 5-30 (48)
40 PF08880 QLQ: QLQ; InterPro: 65.7 5.7 0.00012 23.4 1.9 31 14-44 3-35 (37)
41 KOG3703|consensus 64.8 5.6 0.00012 36.9 2.6 22 23-44 848-869 (873)
42 PF14658 EF-hand_9: EF-hand do 60.5 12 0.00026 24.8 3.0 40 10-49 3-46 (66)
43 KOG3023|consensus 59.1 11 0.00024 31.4 3.1 17 31-47 203-219 (285)
44 cd02116 ACT ACT domains are co 57.0 13 0.00028 19.7 2.4 26 12-37 2-27 (60)
45 COG4371 Predicted membrane pro 53.6 22 0.00047 29.9 4.1 14 64-77 49-62 (334)
46 PRK12900 secA preprotein trans 52.8 15 0.00032 35.6 3.4 36 1-36 695-734 (1025)
47 TIGR00789 flhB_rel flhB C-term 52.7 15 0.00033 25.0 2.6 27 17-45 45-71 (82)
48 TIGR03629 arch_S13P archaeal r 49.6 20 0.00044 26.8 3.1 25 18-42 53-77 (144)
49 PF10689 DUF2496: Protein of u 49.1 18 0.0004 22.3 2.2 17 16-32 6-22 (44)
50 cd04873 ACT_UUR-ACR-like ACT d 48.1 25 0.00053 21.1 2.8 26 11-36 3-28 (70)
51 KOG3973|consensus 47.0 1.4E+02 0.0031 26.3 8.1 11 65-75 376-386 (465)
52 PRK09200 preprotein translocas 47.0 44 0.00096 31.5 5.4 18 2-19 526-543 (790)
53 PRK12898 secA preprotein trans 46.8 34 0.00074 31.6 4.6 19 1-19 570-588 (656)
54 COG2257 Uncharacterized homolo 45.8 31 0.00067 24.4 3.3 21 25-45 54-76 (92)
55 PRK11038 hypothetical protein; 44.5 22 0.00048 22.3 2.1 21 16-38 7-27 (47)
56 cd02067 B12-binding B12 bindin 44.4 35 0.00076 23.3 3.4 28 9-36 54-82 (119)
57 TIGR02663 nifX nitrogen fixati 43.9 25 0.00055 24.6 2.7 23 21-43 95-118 (119)
58 PF06883 RNA_pol_Rpa2_4: RNA p 43.9 9.7 0.00021 24.4 0.5 30 13-42 3-33 (58)
59 PF08862 DUF1829: Domain of un 43.5 26 0.00056 23.9 2.6 31 9-39 55-85 (88)
60 PRK11057 ATP-dependent DNA hel 42.6 21 0.00046 31.8 2.6 25 2-26 328-352 (607)
61 cd04903 ACT_LSD C-terminal ACT 42.1 40 0.00087 19.8 3.1 27 11-37 2-28 (71)
62 PF12279 DUF3619: Protein of u 40.2 29 0.00062 25.7 2.6 25 17-41 2-26 (131)
63 PF11051 Mannosyl_trans3: Mann 40.1 28 0.0006 27.9 2.7 33 7-40 2-34 (271)
64 PF10978 DUF2785: Protein of u 40.1 16 0.00036 27.6 1.3 37 10-46 107-146 (175)
65 cd04926 ACT_ACR_4 C-terminal 39.9 40 0.00087 21.4 3.0 29 8-36 1-29 (72)
66 PF06012 DUF908: Domain of Unk 39.1 30 0.00064 28.6 2.8 28 17-45 262-289 (329)
67 TIGR03714 secA2 accessory Sec 38.8 75 0.0016 30.0 5.6 19 1-19 521-539 (762)
68 COG2169 Ada Adenosine deaminas 36.9 37 0.0008 26.7 2.9 29 18-48 80-108 (187)
69 cd04879 ACT_3PGDH-like ACT_3PG 36.6 53 0.0012 19.1 3.0 25 12-36 3-27 (71)
70 cd04901 ACT_3PGDH C-terminal A 36.6 48 0.001 19.9 2.9 26 11-36 2-27 (69)
71 PF07905 PucR: Purine cataboli 36.3 83 0.0018 22.1 4.4 31 18-48 57-99 (123)
72 PRK08561 rps15p 30S ribosomal 36.1 39 0.00085 25.8 2.8 25 22-46 68-94 (151)
73 cd04883 ACT_AcuB C-terminal AC 35.9 56 0.0012 19.9 3.1 29 8-36 1-29 (72)
74 TIGR00643 recG ATP-dependent D 35.9 71 0.0015 28.7 4.8 35 2-36 551-585 (630)
75 PF09345 DUF1987: Domain of un 35.4 42 0.00092 23.5 2.7 24 9-32 49-72 (99)
76 KOG0345|consensus 35.4 29 0.00062 31.5 2.2 18 2-19 349-366 (567)
77 cd02071 MM_CoA_mut_B12_BD meth 35.2 41 0.0009 23.5 2.7 27 8-34 53-79 (122)
78 PF05105 Phage_holin_4: Holin 34.8 57 0.0012 22.8 3.4 25 22-46 89-113 (118)
79 PF06479 Ribonuc_2-5A: Ribonuc 34.8 54 0.0012 24.0 3.3 28 18-45 59-89 (129)
80 KOG4700|consensus 34.7 66 0.0014 25.7 3.9 22 11-32 117-138 (207)
81 COG3092 Uncharacterized protei 34.3 21 0.00045 27.1 1.0 30 9-38 91-120 (149)
82 KOG4284|consensus 34.0 29 0.00064 32.9 2.1 39 2-40 364-410 (980)
83 PRK10917 ATP-dependent DNA hel 33.9 77 0.0017 28.8 4.8 33 2-34 574-606 (681)
84 PRK02261 methylaspartate mutas 33.9 54 0.0012 23.8 3.2 27 8-34 57-83 (137)
85 cd04882 ACT_Bt0572_2 C-termina 33.8 63 0.0014 19.0 3.0 26 11-36 2-27 (65)
86 cd04874 ACT_Af1403 N-terminal 33.5 62 0.0014 19.1 3.0 27 10-36 2-28 (72)
87 PF01913 FTR: Formylmethanofur 33.4 66 0.0014 24.5 3.6 33 5-37 68-100 (144)
88 cd04875 ACT_F4HF-DF N-terminal 33.0 67 0.0014 20.1 3.2 26 11-36 2-27 (74)
89 PF06348 DUF1059: Protein of u 33.0 1.3E+02 0.0027 18.9 4.4 38 9-46 13-52 (57)
90 PF11784 DUF3320: Protein of u 32.4 57 0.0012 20.1 2.7 28 12-39 3-30 (52)
91 PRK00194 hypothetical protein; 32.3 80 0.0017 20.5 3.6 29 9-37 4-32 (90)
92 PF05673 DUF815: Protein of un 32.3 96 0.0021 25.4 4.6 41 6-46 184-225 (249)
93 PRK08156 type III secretion sy 32.3 45 0.00097 28.6 2.8 26 17-43 302-327 (361)
94 TIGR03817 DECH_helic helicase/ 32.2 47 0.001 30.6 3.2 30 2-31 371-402 (742)
95 cd02069 methionine_synthase_B1 31.7 56 0.0012 25.5 3.1 30 8-37 142-171 (213)
96 PRK09108 type III secretion sy 31.7 37 0.0008 28.8 2.3 26 17-44 309-334 (353)
97 TIGR01404 FlhB_rel_III type II 31.5 44 0.00095 28.2 2.7 27 17-44 306-332 (342)
98 COG1938 Archaeal enzymes of AT 31.5 80 0.0017 25.9 4.1 35 11-45 178-214 (244)
99 PRK13109 flhB flagellar biosyn 31.5 45 0.00098 28.4 2.7 26 17-43 316-341 (358)
100 COG2166 sufE Cysteine desulfur 31.1 59 0.0013 24.6 3.0 24 9-32 70-93 (144)
101 cd02518 GT2_SpsF SpsF is a gly 31.0 41 0.00089 25.4 2.2 37 11-47 187-224 (233)
102 PF12853 NADH_u_ox_C: C-termin 30.9 59 0.0013 22.9 2.8 26 23-48 2-32 (90)
103 PRK13741 conjugal transfer ent 30.5 36 0.00079 26.6 1.8 29 14-42 2-31 (171)
104 cd04905 ACT_CM-PDT C-terminal 30.5 84 0.0018 20.0 3.4 28 9-36 2-29 (80)
105 cd04899 ACT_ACR-UUR-like_2 C-t 30.4 72 0.0016 19.3 2.9 27 10-36 2-28 (70)
106 cd04411 Ribosomal_P1_P2_L12p R 30.4 78 0.0017 22.5 3.4 28 19-46 16-44 (105)
107 cd04925 ACT_ACR_2 ACT domain-c 30.3 73 0.0016 20.3 3.0 27 10-36 2-28 (74)
108 COG3084 Uncharacterized protei 29.7 67 0.0015 22.3 2.8 28 22-49 6-38 (88)
109 cd04893 ACT_GcvR_1 ACT domains 29.4 83 0.0018 20.2 3.2 27 10-36 3-29 (77)
110 KOG0342|consensus 29.2 43 0.00093 30.4 2.3 27 2-28 422-448 (543)
111 cd04884 ACT_CBS C-terminal ACT 29.1 66 0.0014 20.0 2.6 26 11-36 2-27 (72)
112 PF07894 DUF1669: Protein of u 29.0 56 0.0012 27.3 2.8 28 9-36 120-150 (284)
113 PTZ00095 40S ribosomal protein 28.7 54 0.0012 25.5 2.5 24 18-41 33-57 (169)
114 PF11848 DUF3368: Domain of un 28.7 93 0.002 18.7 3.1 24 21-44 20-43 (48)
115 KOG0348|consensus 28.5 50 0.0011 30.7 2.6 25 2-26 539-563 (708)
116 cd04909 ACT_PDH-BS C-terminal 28.2 1.2E+02 0.0026 18.3 3.7 27 10-36 3-29 (69)
117 COG5182 CUS1 Splicing factor 3 28.1 42 0.00091 29.3 2.0 29 20-48 282-310 (429)
118 PRK05298 excinuclease ABC subu 28.0 76 0.0017 28.8 3.7 38 2-39 540-588 (652)
119 cd02070 corrinoid_protein_B12- 27.8 80 0.0017 24.0 3.3 29 9-37 137-167 (201)
120 PRK06298 type III secretion sy 27.8 53 0.0011 28.0 2.5 26 17-43 308-333 (356)
121 PRK13689 hypothetical protein; 27.4 1E+02 0.0022 21.1 3.4 24 19-42 13-36 (75)
122 cd04886 ACT_ThrD-II-like C-ter 27.2 69 0.0015 18.8 2.4 24 13-36 3-26 (73)
123 cd00271 Chemokine_C Chemokine_ 26.7 1E+02 0.0022 20.4 3.3 26 9-34 35-68 (72)
124 PRK12721 secretion system appa 26.6 59 0.0013 27.6 2.6 26 17-43 307-332 (349)
125 COG3082 Uncharacterized protei 26.5 1.1E+02 0.0023 20.8 3.3 25 19-43 13-37 (74)
126 PF05014 Nuc_deoxyrib_tr: Nucl 26.3 14 0.0003 25.4 -1.1 27 10-36 4-30 (113)
127 COG4840 Uncharacterized protei 26.2 1.3E+02 0.0028 20.3 3.6 30 18-47 37-66 (71)
128 KOG1283|consensus 26.1 57 0.0012 28.5 2.4 24 8-31 82-111 (414)
129 PF07197 DUF1409: Protein of u 25.6 37 0.0008 21.5 0.9 20 27-46 19-38 (51)
130 cd04889 ACT_PDH-BS-like C-term 25.5 82 0.0018 18.4 2.5 26 12-37 2-27 (56)
131 PF04877 Hairpins: HrpZ; Inte 25.3 52 0.0011 27.9 2.0 36 8-44 154-194 (308)
132 cd04900 ACT_UUR-like_1 ACT dom 25.3 1E+02 0.0022 19.4 3.0 28 9-36 2-29 (73)
133 TIGR02764 spore_ybaN_pdaB poly 25.2 1.4E+02 0.003 22.0 4.2 27 8-34 7-33 (191)
134 COG4824 Phage-related holin (L 24.8 53 0.0011 24.7 1.8 26 21-46 95-123 (133)
135 TIGR01389 recQ ATP-dependent D 24.5 60 0.0013 28.6 2.4 25 3-27 317-341 (591)
136 PF13625 Helicase_C_3: Helicas 24.2 1.1E+02 0.0025 21.5 3.4 26 22-47 57-83 (129)
137 PTZ00373 60S Acidic ribosomal 24.1 1.1E+02 0.0025 22.1 3.4 28 19-46 19-47 (112)
138 cd04878 ACT_AHAS N-terminal AC 24.0 1.1E+02 0.0023 17.8 2.8 26 11-36 3-28 (72)
139 TIGR02433 lysidine_TilS_C tRNA 24.0 1.1E+02 0.0024 17.5 2.8 20 22-43 20-39 (47)
140 KOG1891|consensus 23.9 40 0.00087 27.8 1.1 14 33-46 195-208 (271)
141 PRK12773 flhB flagellar biosyn 23.8 66 0.0014 29.9 2.5 28 17-45 606-633 (646)
142 cd00274 Chemokine_CX3C Chemoki 23.7 62 0.0013 21.9 1.8 25 9-33 37-69 (76)
143 PLN00138 large subunit ribosom 23.6 1.1E+02 0.0025 22.0 3.3 28 19-46 17-45 (113)
144 KOG0002|consensus 23.5 1E+02 0.0023 19.3 2.7 21 23-44 8-28 (48)
145 KOG3200|consensus 23.5 50 0.0011 26.5 1.5 14 33-46 63-76 (224)
146 PRK00254 ski2-like helicase; P 23.2 1.4E+02 0.003 27.2 4.4 18 1-18 367-389 (720)
147 PF03444 HrcA_DNA-bdg: Winged 23.2 63 0.0014 22.1 1.8 25 14-38 2-26 (78)
148 PF13740 ACT_6: ACT domain; PD 23.1 49 0.0011 21.2 1.2 27 10-36 4-30 (76)
149 PF01312 Bac_export_2: FlhB Hr 22.8 52 0.0011 27.6 1.6 26 17-43 309-334 (343)
150 PF09350 DUF1992: Domain of un 22.4 1.3E+02 0.0028 19.7 3.1 20 23-43 39-58 (71)
151 KOG0983|consensus 22.4 1.1E+02 0.0024 26.4 3.5 30 12-41 159-193 (391)
152 cd04908 ACT_Bt0572_1 N-termina 22.1 1.2E+02 0.0026 18.5 2.9 26 11-36 4-29 (66)
153 cd04872 ACT_1ZPV ACT domain pr 22.0 1.3E+02 0.0029 19.5 3.2 27 10-36 3-29 (88)
154 COG5094 TAF9 Transcription ini 22.0 96 0.0021 23.4 2.7 32 15-46 13-46 (145)
155 PTZ00072 40S ribosomal protein 21.8 1.1E+02 0.0024 23.3 3.1 25 22-46 65-91 (148)
156 PF01842 ACT: ACT domain; Int 21.7 87 0.0019 18.3 2.1 27 10-36 2-28 (66)
157 KOG0542|consensus 21.6 1.7E+02 0.0036 24.6 4.3 35 11-45 155-189 (280)
158 PF09814 HECT_2: HECT-like Ubi 21.5 75 0.0016 25.9 2.3 26 19-44 324-349 (354)
159 TIGR02370 pyl_corrinoid methyl 21.4 1.2E+02 0.0025 23.2 3.2 25 9-33 139-163 (197)
160 cd05111 PTK_HER3 Pseudokinase 21.3 44 0.00095 25.4 0.8 22 19-40 255-276 (279)
161 PF10281 Ish1: Putative stress 21.3 1.7E+02 0.0037 16.5 3.2 16 23-38 7-22 (38)
162 PF01894 UPF0047: Uncharacteri 21.2 1.4E+02 0.0031 21.5 3.4 18 15-32 35-53 (118)
163 PF00725 3HCDH: 3-hydroxyacyl- 21.2 74 0.0016 20.9 1.8 16 34-49 71-86 (97)
164 PF01090 Ribosomal_S19e: Ribos 21.1 36 0.00078 25.6 0.3 23 19-41 9-32 (139)
165 smart00229 RasGEFN Guanine nuc 21.1 1.4E+02 0.0031 20.4 3.3 28 18-45 93-121 (127)
166 cd04868 ACT_AK-like ACT domain 20.6 1.7E+02 0.0036 16.1 3.2 26 11-36 3-31 (60)
167 PF02310 B12-binding: B12 bind 20.6 1.2E+02 0.0026 20.2 2.9 28 9-36 55-82 (121)
168 PF15606 Toxin_55: Putative to 20.5 1.4E+02 0.0031 20.4 3.1 30 17-46 16-51 (77)
169 cd05833 Ribosomal_P2 Ribosomal 20.5 1.5E+02 0.0032 21.2 3.4 28 19-46 17-45 (109)
170 PF02603 Hpr_kinase_N: HPr Ser 20.3 72 0.0016 22.8 1.7 18 31-48 88-105 (127)
171 PF11698 V-ATPase_H_C: V-ATPas 20.2 56 0.0012 23.9 1.1 20 14-33 37-56 (119)
172 PRK09333 30S ribosomal protein 20.2 84 0.0018 23.9 2.1 23 19-41 10-33 (150)
173 PRK06719 precorrin-2 dehydroge 20.1 1.5E+02 0.0033 21.8 3.5 37 9-48 119-156 (157)
174 PF10551 MULE: MULE transposas 20.0 1.9E+02 0.0042 18.4 3.6 27 9-35 29-55 (93)
No 1
>KOG0336|consensus
Probab=98.97 E-value=5.2e-10 Score=97.23 Aligned_cols=46 Identities=26% Similarity=0.341 Sum_probs=44.4
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhc
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMS 47 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~ 47 (121)
+|||++|++|||||.+|..+|.+||++|++++|+||++|..||+..
T Consensus 557 GRaGr~G~sis~lt~~D~~~a~eLI~ILe~aeQevPdeL~~mAery 602 (629)
T KOG0336|consen 557 GRAGRTGTSISFLTRNDWSMAEELIQILERAEQEVPDELVRMAERY 602 (629)
T ss_pred ccCCCCcceEEEEehhhHHHHHHHHHHHHHhhhhCcHHHHHHHHHH
Confidence 7999999999999999999999999999999999999999999864
No 2
>KOG0335|consensus
Probab=98.92 E-value=1.5e-09 Score=94.49 Aligned_cols=48 Identities=40% Similarity=0.439 Sum_probs=44.9
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhccC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSAM 49 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~~ 49 (121)
+|+|+.|.||+||+.++..++++|+++|+|++|+||+||.+|+.+...
T Consensus 429 GR~Gn~G~atsf~n~~~~~i~~~L~~~l~ea~q~vP~wl~~~~~~~~~ 476 (482)
T KOG0335|consen 429 GRVGNGGRATSFFNEKNQNIAKALVEILTEANQEVPQWLSELSREREL 476 (482)
T ss_pred ccCCCCceeEEEeccccchhHHHHHHHHHHhcccCcHHHHhhhhhccc
Confidence 799999999999999999999999999999999999999998877543
No 3
>KOG0339|consensus
Probab=98.88 E-value=4.3e-09 Score=93.22 Aligned_cols=49 Identities=29% Similarity=0.310 Sum_probs=46.2
Q ss_pred CCCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhccC
Q psy17913 1 MSSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSAM 49 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~~ 49 (121)
|+|||.+|+|+|++|++|.++|-+||++|+.++|.||++|.+||...++
T Consensus 559 tgRag~kGvayTlvTeKDa~fAG~LVnnLe~agQnVP~~l~dlamk~s~ 607 (731)
T KOG0339|consen 559 TGRAGEKGVAYTLVTEKDAEFAGHLVNNLEGAGQNVPDELMDLAMKSSW 607 (731)
T ss_pred cccccccceeeEEechhhHHHhhHHHHHHhhccccCChHHHHHHhhhhh
Confidence 6899999999999999999999999999999999999999999986543
No 4
>PTZ00110 helicase; Provisional
Probab=98.79 E-value=8.7e-09 Score=89.65 Aligned_cols=49 Identities=37% Similarity=0.531 Sum_probs=45.5
Q ss_pred CCCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhccC
Q psy17913 1 MSSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSAM 49 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~~ 49 (121)
.+|+|++|+||+||+++|..++++|+++|++++|+||+||++|+.....
T Consensus 468 tGR~G~~G~ai~~~~~~~~~~~~~l~~~l~~~~q~vp~~l~~~~~~~~~ 516 (545)
T PTZ00110 468 TGRAGAKGASYTFLTPDKYRLARDLVKVLREAKQPVPPELEKLSNERSN 516 (545)
T ss_pred cccCCCCceEEEEECcchHHHHHHHHHHHHHccCCCCHHHHHHHHHhcC
Confidence 3688889999999999999999999999999999999999999987654
No 5
>KOG0331|consensus
Probab=98.56 E-value=7.3e-08 Score=84.72 Aligned_cols=48 Identities=42% Similarity=0.553 Sum_probs=45.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhccC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSAM 49 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~~ 49 (121)
+||+++|+|+||||+.|..++++|+++|+|++|+||+.|.+++.....
T Consensus 433 GRa~~~G~A~tfft~~~~~~a~~l~~~l~e~~q~v~~~l~~~~~~~~~ 480 (519)
T KOG0331|consen 433 GRAGKKGTAITFFTSDNAKLARELIKVLREAGQTVPPDLLEYARVSGS 480 (519)
T ss_pred ccCCCCceEEEEEeHHHHHHHHHHHHHHHHccCCCChHHHHHHhhccc
Confidence 688889999999999999999999999999999999999999987654
No 6
>KOG0341|consensus
Probab=98.42 E-value=2.3e-07 Score=80.63 Aligned_cols=45 Identities=27% Similarity=0.319 Sum_probs=41.2
Q ss_pred CCCCCceeEEEeeCCC-ChhHHHHHHHHHHHcCCCCChHHHHHHHh
Q psy17913 2 SSQCFIGTAYAFFTPG-NARHAKQLVDVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~-n~~~a~dLv~lL~ea~QeVP~~L~~~a~~ 46 (121)
+|+|++|+|+||+|.+ +..++-||..||.|++|+|||.|.+++.+
T Consensus 513 GRsg~~GiATTfINK~~~esvLlDLK~LL~EakQ~vP~~L~~L~~~ 558 (610)
T KOG0341|consen 513 GRSGKTGIATTFINKNQEESVLLDLKHLLQEAKQEVPPVLAELAGP 558 (610)
T ss_pred CCCCCcceeeeeecccchHHHHHHHHHHHHHhhccCCHHHHHhCCC
Confidence 7999999999999987 56789999999999999999999999854
No 7
>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional
Probab=98.29 E-value=8.9e-07 Score=76.48 Aligned_cols=46 Identities=20% Similarity=0.223 Sum_probs=42.1
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhc
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMS 47 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~ 47 (121)
+|+|++|+||+|++++|..++.+|+++|++++|+||+||+++..-.
T Consensus 460 GR~g~~G~ai~f~~~~~~~~~~~l~~~l~~~~~~vp~~l~~~~~~~ 505 (518)
T PLN00206 460 SRMGEKGTAIVFVNEEDRNLFPELVALLKSSGAAIPRELANSRYLG 505 (518)
T ss_pred ccCCCCeEEEEEEchhHHHHHHHHHHHHHHcCCCCCHHHHhChhhh
Confidence 5777789999999999999999999999999999999999988543
No 8
>KOG0334|consensus
Probab=97.88 E-value=2.2e-05 Score=73.44 Aligned_cols=45 Identities=27% Similarity=0.307 Sum_probs=42.8
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHh
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~ 46 (121)
+|||++|.|+||++|.+..++.||++.|..+.|.+|..|+.|+..
T Consensus 705 gragrkg~AvtFi~p~q~~~a~dl~~al~~~~~~~P~~l~~l~~~ 749 (997)
T KOG0334|consen 705 GRAGRKGAAVTFITPDQLKYAGDLCKALELSKQPVPKLLQALSER 749 (997)
T ss_pred ccCCccceeEEEeChHHhhhHHHHHHHHHhccCCCchHHHHHHHH
Confidence 689999999999999999999999999999999999999999865
No 9
>KOG0344|consensus
Probab=97.79 E-value=2.9e-05 Score=69.24 Aligned_cols=44 Identities=14% Similarity=0.271 Sum_probs=42.4
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQ 45 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~ 45 (121)
+|||+.|.||||||+.|....+-|+++++.+++|||.|+..|..
T Consensus 480 gRag~~g~Aitfytd~d~~~ir~iae~~~~sG~evpe~~m~~~k 523 (593)
T KOG0344|consen 480 GRAGRSGKAITFYTDQDMPRIRSIAEVMEQSGCEVPEKIMGIKK 523 (593)
T ss_pred CCCCCCcceEEEeccccchhhhhHHHHHHHcCCcchHHHHhhhh
Confidence 79999999999999999999999999999999999999999885
No 10
>KOG0333|consensus
Probab=97.73 E-value=2.8e-05 Score=69.43 Aligned_cols=45 Identities=24% Similarity=0.324 Sum_probs=40.3
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHH-cCCCCChHHHHHHHh
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIE-ANQSVTPALSEMSQM 46 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~e-a~QeVP~~L~~~a~~ 46 (121)
+|||+.|+||||+|+.|..+.+||+++|.+ .+..+|++|....+.
T Consensus 609 gRAGk~GtaiSflt~~dt~v~ydLkq~l~es~~s~~P~Ela~h~~a 654 (673)
T KOG0333|consen 609 GRAGKSGTAISFLTPADTAVFYDLKQALRESVKSHCPPELANHPDA 654 (673)
T ss_pred cccccCceeEEEeccchhHHHHHHHHHHHHhhhccCChhhccChhh
Confidence 799999999999999999999999998884 577899999877653
No 11
>KOG0328|consensus
Probab=95.99 E-value=0.0069 Score=51.36 Aligned_cols=42 Identities=10% Similarity=0.131 Sum_probs=39.3
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+|.|++|+||.|++.+|.++++|+.+.+..+..|+|..+.++
T Consensus 358 GRFGRkGvainFVk~~d~~~lrdieq~yst~i~emp~nvad~ 399 (400)
T KOG0328|consen 358 GRFGRKGVAINFVKSDDLRILRDIEQYYSTQIDEMPMNVADL 399 (400)
T ss_pred cccCCcceEEEEecHHHHHHHHHHHHHHhhhcccccchhhhc
Confidence 688999999999999999999999999999999999987664
No 12
>PRK10590 ATP-dependent RNA helicase RhlE; Provisional
Probab=95.68 E-value=0.037 Score=47.05 Aligned_cols=32 Identities=9% Similarity=0.151 Sum_probs=27.4
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEAN 33 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~ 33 (121)
+|++++|.||+|++++|..++++|.++|....
T Consensus 337 GR~g~~G~ai~l~~~~d~~~~~~ie~~l~~~~ 368 (456)
T PRK10590 337 GRAAATGEALSLVCVDEHKLLRDIEKLLKKEI 368 (456)
T ss_pred ccCCCCeeEEEEecHHHHHHHHHHHHHhcCCC
Confidence 57778899999999999999999998876543
No 13
>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]
Probab=95.11 E-value=0.025 Score=49.39 Aligned_cols=42 Identities=17% Similarity=0.120 Sum_probs=34.1
Q ss_pred CCCCCCceeEEEeeCCC-ChhHHHHHHHHHHHc---CCCCChHHHH
Q psy17913 1 MSSQCFIGTAYAFFTPG-NARHAKQLVDVLIEA---NQSVTPALSE 42 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~-n~~~a~dLv~lL~ea---~QeVP~~L~~ 42 (121)
.+|||++|+||+|+++. +...+++|.+.+... .+++|.+...
T Consensus 364 TgRaG~~G~ai~fv~~~~e~~~l~~ie~~~~~~~~~~~~~~~~~~~ 409 (513)
T COG0513 364 TGRAGRKGVAISFVTEEEEVKKLKRIEKRLERKLPSAVLLPLDEPE 409 (513)
T ss_pred cccCCCCCeEEEEeCcHHHHHHHHHHHHHHhccccccccCCcchhh
Confidence 37999999999999986 889999999988665 4577765443
No 14
>KOG0327|consensus
Probab=94.48 E-value=0.02 Score=49.40 Aligned_cols=42 Identities=14% Similarity=0.204 Sum_probs=37.7
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
||+|++|+||+|+++.|.+.++++.+.+...-.|+|....++
T Consensus 355 gr~grkg~~in~v~~~d~~~lk~ie~~y~~~i~e~p~~~~~l 396 (397)
T KOG0327|consen 355 GRFGRKGVAINFVTEEDVRDLKDIEKFYNTPIEELPSNFADL 396 (397)
T ss_pred cccCCCceeeeeehHhhHHHHHhHHHhcCCcceecccchhhc
Confidence 789999999999999999999999999988888999766543
No 15
>PRK04837 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.73 E-value=0.055 Score=45.21 Aligned_cols=32 Identities=6% Similarity=-0.056 Sum_probs=26.5
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEAN 33 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~ 33 (121)
+|+|++|+||||+++++....+.|.+.+....
T Consensus 347 gR~G~~G~ai~~~~~~~~~~~~~i~~~~~~~~ 378 (423)
T PRK04837 347 GRAGASGHSISLACEEYALNLPAIETYIGHSI 378 (423)
T ss_pred cCCCCCeeEEEEeCHHHHHHHHHHHHHhCCCC
Confidence 67888999999999998888888877765554
No 16
>PRK01297 ATP-dependent RNA helicase RhlB; Provisional
Probab=93.21 E-value=0.089 Score=44.81 Aligned_cols=41 Identities=15% Similarity=0.165 Sum_probs=33.1
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcC-CCCCh-HHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEAN-QSVTP-ALSE 42 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~-QeVP~-~L~~ 42 (121)
+|+|+.|++|+|++++|..++++|.++|.... +++|+ +|.+
T Consensus 427 GR~g~~g~~i~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 469 (475)
T PRK01297 427 GRAGASGVSISFAGEDDAFQLPEIEELLGRKISCEMPPAELLK 469 (475)
T ss_pred CCCCCCceEEEEecHHHHHHHHHHHHHhCCCCcccCCcHHHhh
Confidence 56677899999999999999999999987664 67654 6655
No 17
>PF14475 Mso1_Sec1_bdg: Sec1-binding region of Mso1
Probab=92.38 E-value=0.11 Score=31.64 Aligned_cols=25 Identities=12% Similarity=0.092 Sum_probs=22.2
Q ss_pred CCChhHHHHHHHHHHHcCCCCChHH
Q psy17913 16 PGNARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 16 ~~n~~~a~dLv~lL~ea~QeVP~~L 40 (121)
+++.-+.+.|++...+..|..|+||
T Consensus 17 eddT~v~r~l~~yY~~k~~~~P~WL 41 (41)
T PF14475_consen 17 EDDTHVHRVLRKYYTEKGRPFPGWL 41 (41)
T ss_pred cchhHHHHHHHHHHHHcCCCCCCcC
Confidence 4566789999999999999999997
No 18
>PTZ00424 helicase 45; Provisional
Probab=92.07 E-value=0.12 Score=42.24 Aligned_cols=39 Identities=15% Similarity=0.156 Sum_probs=31.8
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L 40 (121)
+|.+++|.||+|+++++...++.|.+.+...-+++|+..
T Consensus 359 gR~g~~G~~i~l~~~~~~~~~~~~e~~~~~~~~~~~~~~ 397 (401)
T PTZ00424 359 GRFGRKGVAINFVTPDDIEQLKEIERHYNTQIEEMPMEV 397 (401)
T ss_pred ccCCCCceEEEEEcHHHHHHHHHHHHHHCCcccccCcch
Confidence 455678999999999999999999888887777777654
No 19
>KOG0326|consensus
Probab=90.78 E-value=0.19 Score=43.46 Aligned_cols=39 Identities=10% Similarity=0.078 Sum_probs=35.7
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L 40 (121)
+|.|..|+||+++|.+|...+.++.+-|-...++||+.+
T Consensus 414 GRFGhlGlAInLityedrf~L~~IE~eLGtEI~pip~~i 452 (459)
T KOG0326|consen 414 GRFGHLGLAINLITYEDRFNLYRIEQELGTEIKPIPSNI 452 (459)
T ss_pred ccCCCcceEEEEEehhhhhhHHHHHHHhccccccCCCcC
Confidence 678889999999999999999999999999999999754
No 20
>PRK11634 ATP-dependent RNA helicase DeaD; Provisional
Probab=90.75 E-value=0.2 Score=45.00 Aligned_cols=31 Identities=13% Similarity=0.109 Sum_probs=25.0
Q ss_pred CCCCCCceeEEEeeCCCChhHHHHHHHHHHH
Q psy17913 1 MSSQCFIGTAYAFFTPGNARHAKQLVDVLIE 31 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~~~a~dLv~lL~e 31 (121)
.+|+|++|+||+|+++.+..+++.|.+.++.
T Consensus 336 tGRaGr~G~ai~~v~~~e~~~l~~ie~~~~~ 366 (629)
T PRK11634 336 TGRAGRAGRALLFVENRERRLLRNIERTMKL 366 (629)
T ss_pred ccCCCCcceEEEEechHHHHHHHHHHHHhCC
Confidence 3688899999999999888888877766543
No 21
>PRK04537 ATP-dependent RNA helicase RhlB; Provisional
Probab=90.20 E-value=0.23 Score=43.97 Aligned_cols=31 Identities=13% Similarity=0.023 Sum_probs=26.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHc
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea 32 (121)
+|+|++|+||||+++.+...+++|.+.|...
T Consensus 349 GR~G~~G~ai~~~~~~~~~~l~~i~~~~~~~ 379 (572)
T PRK04537 349 ARLGEEGDAISFACERYAMSLPDIEAYIEQK 379 (572)
T ss_pred ccCCCCceEEEEecHHHHHHHHHHHHHHcCC
Confidence 5778889999999999888888888876544
No 22
>KOG0340|consensus
Probab=90.05 E-value=0.31 Score=42.39 Aligned_cols=29 Identities=10% Similarity=0.066 Sum_probs=25.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLI 30 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ 30 (121)
-|||+.|.||||||+.|..++..|.+.+-
T Consensus 346 ARAGR~G~aiSivt~rDv~l~~aiE~~ig 374 (442)
T KOG0340|consen 346 ARAGRKGMAISIVTQRDVELLQAIEEEIG 374 (442)
T ss_pred hcccCCcceEEEechhhHHHHHHHHHHHh
Confidence 48999999999999999988888776554
No 23
>PRK11776 ATP-dependent RNA helicase DbpA; Provisional
Probab=87.16 E-value=0.56 Score=39.66 Aligned_cols=33 Identities=18% Similarity=0.188 Sum_probs=27.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQ 34 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~Q 34 (121)
+|+|+.|.||+|++++|...+++|.++|...-+
T Consensus 334 GR~g~~G~ai~l~~~~e~~~~~~i~~~~~~~~~ 366 (460)
T PRK11776 334 GRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366 (460)
T ss_pred cCCCCcceEEEEEchhHHHHHHHHHHHhCCCCc
Confidence 577778999999999998888888887765433
No 24
>KOG0329|consensus
Probab=86.17 E-value=0.34 Score=40.96 Aligned_cols=39 Identities=13% Similarity=0.118 Sum_probs=31.9
Q ss_pred CCCCCceeEEEeeCCC-ChhHHHHHHHHHHHcCCCCChHH
Q psy17913 2 SSQCFIGTAYAFFTPG-NARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~-n~~~a~dLv~lL~ea~QeVP~~L 40 (121)
+|.|.+|+||||+..+ |..++.++-+-++...+|+|+++
T Consensus 340 grfGtkglaitfvs~e~da~iLn~vqdRf~v~i~eLpdei 379 (387)
T KOG0329|consen 340 GRFGTKGLAITFVSDENDAKILNPVQDRFEVNIKELPDEI 379 (387)
T ss_pred hccccccceeehhcchhhHHHhchhhHhhhccHhhcCccc
Confidence 6788899999999764 67788888887777788888873
No 25
>KOG0330|consensus
Probab=85.63 E-value=1.4 Score=38.92 Aligned_cols=34 Identities=12% Similarity=0.058 Sum_probs=30.4
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQS 35 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~Qe 35 (121)
.|||+.|+||||+|.-|..+...|..+|...-.+
T Consensus 392 aRaGrsG~~ItlVtqyDve~~qrIE~~~gkkl~~ 425 (476)
T KOG0330|consen 392 ARAGRSGKAITLVTQYDVELVQRIEHALGKKLPE 425 (476)
T ss_pred cccCCCcceEEEEehhhhHHHHHHHHHHhcCCCc
Confidence 6899999999999999999999999888877666
No 26
>KOG0338|consensus
Probab=85.48 E-value=0.8 Score=41.71 Aligned_cols=29 Identities=7% Similarity=0.133 Sum_probs=26.3
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLI 30 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ 30 (121)
-|||+.|.||||+.++|..+++++++.-.
T Consensus 518 ARAGRaGrsVtlvgE~dRkllK~iik~~~ 546 (691)
T KOG0338|consen 518 ARAGRAGRSVTLVGESDRKLLKEIIKSST 546 (691)
T ss_pred hhcccCcceEEEeccccHHHHHHHHhhhh
Confidence 48999999999999999999999998753
No 27
>PRK11192 ATP-dependent RNA helicase SrmB; Provisional
Probab=83.37 E-value=1 Score=37.58 Aligned_cols=31 Identities=13% Similarity=0.061 Sum_probs=26.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHc
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea 32 (121)
+|+|++|+||+|+++.|..++.+|.+.|.+.
T Consensus 337 gR~g~~g~ai~l~~~~d~~~~~~i~~~~~~~ 367 (434)
T PRK11192 337 GRAGRKGTAISLVEAHDHLLLGKIERYIEEP 367 (434)
T ss_pred ccCCCCceEEEEecHHHHHHHHHHHHHHhcc
Confidence 5778889999999999998888888776543
No 28
>KOG0332|consensus
Probab=83.33 E-value=1.8 Score=38.16 Aligned_cols=43 Identities=9% Similarity=0.012 Sum_probs=31.4
Q ss_pred CCCCCceeEEEeeCCC-ChhHHHHHHHHHHHc-CCCCChHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPG-NARHAKQLVDVLIEA-NQSVTPALSEMS 44 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~-n~~~a~dLv~lL~ea-~QeVP~~L~~~a 44 (121)
+|.|++|+||.|+..+ +.+++..|.+.+... .+-+|+.++++-
T Consensus 428 GRFGkkG~a~n~v~~~~s~~~mn~iq~~F~~~i~~~~~~d~~E~e 472 (477)
T KOG0332|consen 428 GRFGKKGLAINLVDDKDSMNIMNKIQKHFNMKIKRLDPDDLDELE 472 (477)
T ss_pred ccccccceEEEeecccCcHHHHHHHHHHHhhcceecCCccHHHHH
Confidence 7899999999999876 567777787777544 445566555553
No 29
>KOG0346|consensus
Probab=83.26 E-value=0.88 Score=40.73 Aligned_cols=31 Identities=23% Similarity=0.305 Sum_probs=27.1
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHc
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea 32 (121)
.|++++|+|+||+.|++.....+|.++|++.
T Consensus 395 aRg~n~GtalSfv~P~e~~g~~~le~~~~d~ 425 (569)
T KOG0346|consen 395 ARGNNKGTALSFVSPKEEFGKESLESILKDE 425 (569)
T ss_pred ccCCCCCceEEEecchHHhhhhHHHHHHhhH
Confidence 5889999999999999887778888888875
No 30
>COG4371 Predicted membrane protein [Function unknown]
Probab=78.62 E-value=3.3 Score=34.73 Aligned_cols=12 Identities=17% Similarity=0.075 Sum_probs=5.6
Q ss_pred CCCChHHHHHHH
Q psy17913 34 QSVTPALSEMSQ 45 (121)
Q Consensus 34 QeVP~~L~~~a~ 45 (121)
--+||-.++.++
T Consensus 36 l~~~p~~~a~aa 47 (334)
T COG4371 36 LFVPPLSVAAAA 47 (334)
T ss_pred HcCCchHHHHHH
Confidence 345555444443
No 31
>PF08158 NUC130_3NT: NUC130/3NT domain; InterPro: IPR012977 This N-terminal domain is found in a novel nucleolar protein family defined by NUC130/133 [].
Probab=75.98 E-value=4.2 Score=25.62 Aligned_cols=26 Identities=19% Similarity=0.363 Sum_probs=22.6
Q ss_pred ChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 18 NARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
-+.+..+|+++|++..+.++|+|..-
T Consensus 13 ~~~Fp~~L~~lL~~~~~~L~p~lR~~ 38 (52)
T PF08158_consen 13 TKDFPQELIDLLRNHHTVLDPDLRMK 38 (52)
T ss_pred HHHHHHHHHHHHHhccccCCHHHHHH
Confidence 46788999999999999999998753
No 32
>PF05903 Peptidase_C97: PPPDE putative peptidase domain; InterPro: IPR008580 This domain consists of the N-terminal portion of several eukaryotic sequences. The function of this domain is unknown.; PDB: 2WP7_A 3EBQ_A.
Probab=71.87 E-value=1.9 Score=32.02 Aligned_cols=40 Identities=10% Similarity=0.339 Sum_probs=27.9
Q ss_pred ceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhcc
Q psy17913 7 IGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMSA 48 (121)
Q Consensus 7 ~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~ 48 (121)
++.+|.+++.+.-.++.+|++.|. ...||.|+.++|....
T Consensus 99 ~~~~Y~Ll~~NCNhFs~~l~~~L~--g~~iP~~i~~~a~~~~ 138 (151)
T PF05903_consen 99 TGDSYHLLNRNCNHFSDALCQFLT--GKPIPSWINRLARIAL 138 (151)
T ss_dssp SGGG-BTTTBSHHHHHHHHHHHHH--S----HHHHTHHHHHH
T ss_pred cCCcchhhhhhhhHHHHHHHHHhC--CCCCCHHHHhhhHHhc
Confidence 455677788777889999999996 4689999999987643
No 33
>KOG0921|consensus
Probab=69.52 E-value=15 Score=35.97 Aligned_cols=18 Identities=28% Similarity=0.287 Sum_probs=8.2
Q ss_pred eeCCCChhHHHHHHHHHH
Q psy17913 13 FFTPGNARHAKQLVDVLI 30 (121)
Q Consensus 13 Fft~~n~~~a~dLv~lL~ 30 (121)
=++|-|.+|+.-|.+|-+
T Consensus 1121 qLdpvnarllnmiRdIs~ 1138 (1282)
T KOG0921|consen 1121 QLDPVNARLLNMIRDISR 1138 (1282)
T ss_pred ccCchhHHHHHHHHHhcc
Confidence 344555555444444333
No 34
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.30 E-value=3.2 Score=35.52 Aligned_cols=29 Identities=10% Similarity=0.203 Sum_probs=22.7
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLI 30 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ 30 (121)
+|.|+.+.|++|+++.|...++.|+....
T Consensus 318 GR~G~~~~~~~~~~~~d~~~~~~~~~~~~ 346 (470)
T TIGR00614 318 GRDGLPSECHLFYAPADINRLRRLLMEEP 346 (470)
T ss_pred CCCCCCceEEEEechhHHHHHHHHHhcCC
Confidence 45666789999999999888888776443
No 35
>smart00581 PSP proline-rich domain in spliceosome associated proteins.
Probab=68.25 E-value=3.3 Score=26.61 Aligned_cols=27 Identities=22% Similarity=0.238 Sum_probs=22.0
Q ss_pred hHHHHHHHHHHHcCCCCChHHHHHHHh
Q psy17913 20 RHAKQLVDVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 20 ~~a~dLv~lL~ea~QeVP~~L~~~a~~ 46 (121)
.+..+|.+.|--...++|+||..|.+-
T Consensus 8 ~lS~~LR~ALG~~~~~pPPWl~~Mq~~ 34 (54)
T smart00581 8 RISDELREALGLPPGQPPPWLYRMRRL 34 (54)
T ss_pred cCCHHHHHHcCCCCCCCChHHHHHHHH
Confidence 456788888888888999999999764
No 36
>KOG0350|consensus
Probab=68.16 E-value=7 Score=35.62 Aligned_cols=37 Identities=14% Similarity=0.019 Sum_probs=27.8
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHH----cCCCCCh
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIE----ANQSVTP 38 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~e----a~QeVP~ 38 (121)
.|||..|.|||.++..+.++..+|++.+.. ..|.+|.
T Consensus 525 ARAgq~G~a~tll~~~~~r~F~klL~~~~~~d~~~i~~~e~ 565 (620)
T KOG0350|consen 525 ARAGQDGYAITLLDKHEKRLFSKLLKKTNLWDGVEIQPIEY 565 (620)
T ss_pred ccccCCceEEEeeccccchHHHHHHHHhcccCCcceeecCc
Confidence 589999999999999998887777665443 3455554
No 37
>KOG0337|consensus
Probab=68.14 E-value=3.8 Score=36.61 Aligned_cols=28 Identities=18% Similarity=0.097 Sum_probs=23.1
Q ss_pred CCCCceeEEEeeCCCChhHHHHHHHHHH
Q psy17913 3 SQCFIGTAYAFFTPGNARHAKQLVDVLI 30 (121)
Q Consensus 3 RaG~~G~AiTFft~~n~~~a~dLv~lL~ 30 (121)
|||++|+||+|+++.+...+-||-..|-
T Consensus 354 ragrtg~aYs~V~~~~~~yl~DL~lflg 381 (529)
T KOG0337|consen 354 RAGRTGRAYSLVASTDDPYLLDLQLFLG 381 (529)
T ss_pred hccccceEEEEEecccchhhhhhhhhcC
Confidence 7899999999999988877777765443
No 38
>KOG0324|consensus
Probab=67.69 E-value=6.3 Score=31.73 Aligned_cols=39 Identities=13% Similarity=0.296 Sum_probs=30.2
Q ss_pred ceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHHhc
Q psy17913 7 IGTAYAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQMS 47 (121)
Q Consensus 7 ~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~ 47 (121)
+|.+|.+++.+--.+..+|...| +..+||.|+.+||...
T Consensus 102 ~G~~YhL~~kNCNHFsn~la~~L--tgk~IP~winrLa~~~ 140 (214)
T KOG0324|consen 102 RGNSYHLLTKNCNHFSNELALQL--TGKKIPSWVNRLARAG 140 (214)
T ss_pred CCceehhhhhccchhHHHHHHHH--cCCCccHHHHHHHHHh
Confidence 57788888877666777776655 6789999999998764
No 39
>PF04046 PSP: PSP; InterPro: IPR006568 PSP is a proline-rich domain of unknown function found in spliceosome associated proteins.
Probab=67.35 E-value=3.7 Score=25.76 Aligned_cols=26 Identities=19% Similarity=0.243 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHcCCCCChHHHHHHHh
Q psy17913 21 HAKQLVDVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 21 ~a~dLv~lL~ea~QeVP~~L~~~a~~ 46 (121)
+..+|.+.|--...++|+||..|..-
T Consensus 5 lS~~LR~ALg~~~~~~PPwl~~M~~~ 30 (48)
T PF04046_consen 5 LSDELREALGMQENDPPPWLYRMRRL 30 (48)
T ss_pred cCHHHHHHcCCCCCCCChHHHHHHhc
Confidence 45678888877788899999999764
No 40
>PF08880 QLQ: QLQ; InterPro: IPR014978 QLQ is named after the conserved Gln, Leu, Gln motif. QLQ is found at the N terminus of SWI2/SNF2 protein, which has been shown to be involved in protein-protein interactions. QLQ has been postulated to be involved in mediating protein interactions []. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=65.70 E-value=5.7 Score=23.42 Aligned_cols=31 Identities=26% Similarity=0.393 Sum_probs=18.6
Q ss_pred eCCCChhHHHHHHHHHH--HcCCCCChHHHHHH
Q psy17913 14 FTPGNARHAKQLVDVLI--EANQSVTPALSEMS 44 (121)
Q Consensus 14 ft~~n~~~a~dLv~lL~--ea~QeVP~~L~~~a 44 (121)
||+.....++.=+.+++ .+++.||++|+...
T Consensus 3 FT~~Ql~~L~~Qi~ayK~l~~~~pVP~~l~~~I 35 (37)
T PF08880_consen 3 FTPAQLQELRAQILAYKYLARNQPVPPQLQQAI 35 (37)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCCCCHHHHHhh
Confidence 55554444444333332 56999999998653
No 41
>KOG3703|consensus
Probab=64.77 E-value=5.6 Score=36.88 Aligned_cols=22 Identities=23% Similarity=0.213 Sum_probs=18.8
Q ss_pred HHHHHHHHHcCCCCChHHHHHH
Q psy17913 23 KQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 23 ~dLv~lL~ea~QeVP~~L~~~a 44 (121)
-+|.++|..-.|+||.||++--
T Consensus 848 ~eLsKlL~klgqpiPsWLre~l 869 (873)
T KOG3703|consen 848 VELSKLLHKLGQPIPSWLREEL 869 (873)
T ss_pred HHHHHHHHHcCCCCcHHHHHHh
Confidence 3688999999999999998743
No 42
>PF14658 EF-hand_9: EF-hand domain
Probab=60.45 E-value=12 Score=24.78 Aligned_cols=40 Identities=15% Similarity=0.198 Sum_probs=27.9
Q ss_pred EEEeeCCCCh-hH-HHHHHHHHHHcCCCCCh--HHHHHHHhccC
Q psy17913 10 AYAFFTPGNA-RH-AKQLVDVLIEANQSVTP--ALSEMSQMSAM 49 (121)
Q Consensus 10 AiTFft~~n~-~~-a~dLv~lL~ea~QeVP~--~L~~~a~~~~~ 49 (121)
++..|++++. .+ +++|+.+|+...+.-|+ .|++|+.+.-.
T Consensus 3 ~F~~fD~~~tG~V~v~~l~~~Lra~~~~~p~e~~Lq~l~~elDP 46 (66)
T PF14658_consen 3 AFDAFDTQKTGRVPVSDLITYLRAVTGRSPEESELQDLINELDP 46 (66)
T ss_pred chhhcCCcCCceEeHHHHHHHHHHHcCCCCcHHHHHHHHHHhCC
Confidence 3455665543 33 78999999999885553 68899887643
No 43
>KOG3023|consensus
Probab=59.10 E-value=11 Score=31.43 Aligned_cols=17 Identities=18% Similarity=0.208 Sum_probs=14.2
Q ss_pred HcCCCCChHHHHHHHhc
Q psy17913 31 EANQSVTPALSEMSQMS 47 (121)
Q Consensus 31 ea~QeVP~~L~~~a~~~ 47 (121)
..|+.|||+|+++|..+
T Consensus 203 ~~cCvvPpdLqafa~~h 219 (285)
T KOG3023|consen 203 GQCCVVPPDLQAFADRH 219 (285)
T ss_pred cccccCCHHHHHHhhhc
Confidence 34889999999999865
No 44
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=57.03 E-value=13 Score=19.71 Aligned_cols=26 Identities=23% Similarity=0.307 Sum_probs=20.1
Q ss_pred EeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 12 AFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 12 TFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
++..++++.++.+|+++|.+.+..|.
T Consensus 2 ~i~~~~~~~~l~~i~~~l~~~~~~i~ 27 (60)
T cd02116 2 TVSGPDRPGLLAKVLSVLAEAGINIT 27 (60)
T ss_pred EEEecCCCchHHHHHHHHHHCCCcEE
Confidence 55666777889999999998776653
No 45
>COG4371 Predicted membrane protein [Function unknown]
Probab=53.63 E-value=22 Score=29.94 Aligned_cols=14 Identities=43% Similarity=0.895 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCCCC
Q psy17913 64 SGGGGGGGGYKRKN 77 (121)
Q Consensus 64 ggg~fg~rd~r~~~ 77 (121)
+|+++|+..||-.+
T Consensus 49 SGGriGGgSfraps 62 (334)
T COG4371 49 SGGRIGGGSFRAPS 62 (334)
T ss_pred hCCCccCCCCCCCC
Confidence 55567777787665
No 46
>PRK12900 secA preprotein translocase subunit SecA; Reviewed
Probab=52.82 E-value=15 Score=35.63 Aligned_cols=36 Identities=8% Similarity=0.086 Sum_probs=26.2
Q ss_pred CCCCCCceeEEEeeCCCChhH---H-HHHHHHHHHcCCCC
Q psy17913 1 MSSQCFIGTAYAFFTPGNARH---A-KQLVDVLIEANQSV 36 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~~~---a-~dLv~lL~ea~QeV 36 (121)
.+|+|..|+|++|++.+|.=+ . ..|.++|.....+.
T Consensus 695 tGRqGdpGsS~ffvSleD~Lmr~f~~~~i~~~~~~~~~~e 734 (1025)
T PRK12900 695 AGRQGDPGESVFYVSLEDELMRLFGSDRVISVMDRLGHEE 734 (1025)
T ss_pred hhcCCCCcceEEEechhHHHHHhhCcHHHHHHHHHcCCCC
Confidence 378999999999999887532 2 25777887766533
No 47
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=52.66 E-value=15 Score=25.01 Aligned_cols=27 Identities=11% Similarity=0.265 Sum_probs=18.6
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEMSQ 45 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~a~ 45 (121)
.|..+|+.|.+ .+.+|+||++|-+...
T Consensus 45 ~~~~LAr~L~~--~~ig~~IP~~ly~aVA 71 (82)
T TIGR00789 45 EDPDLVDVLLK--LDLDDEIPEELYEVVA 71 (82)
T ss_pred eCHHHHHHHHh--CCCCCccCHHHHHHHH
Confidence 46777777763 4678999987765443
No 48
>TIGR03629 arch_S13P archaeal ribosomal protein S13P. This model describes exclusively the archaeal ribosomal protein S13P. It excludes the homologous eukaryotic 40S ribosomal protein S18 and bacterial 30S ribosomal protein S13.
Probab=49.56 E-value=20 Score=26.83 Aligned_cols=25 Identities=8% Similarity=0.131 Sum_probs=19.7
Q ss_pred ChhHHHHHHHHHHHcCCCCChHHHH
Q psy17913 18 NARHAKQLVDVLIEANQSVTPALSE 42 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~QeVP~~L~~ 42 (121)
+...+..|.++|++....||.||.+
T Consensus 53 t~~qi~~l~~~i~~~~~~iP~w~~N 77 (144)
T TIGR03629 53 DDEEIEKLEEAVENYEYGIPSWLLN 77 (144)
T ss_pred CHHHHHHHHHHHHhccccCCHHHhh
Confidence 4556788888888877899999964
No 49
>PF10689 DUF2496: Protein of unknown function (DUF2496); InterPro: IPR019630 This family consists of proteins from Gammaproteobacteria species. Many members are annotated as being like the Escherichia coli protein; YbaM.
Probab=49.12 E-value=18 Score=22.34 Aligned_cols=17 Identities=24% Similarity=0.362 Sum_probs=13.7
Q ss_pred CCChhHHHHHHHHHHHc
Q psy17913 16 PGNARHAKQLVDVLIEA 32 (121)
Q Consensus 16 ~~n~~~a~dLv~lL~ea 32 (121)
|.+.++|-|||-+|++.
T Consensus 6 p~evkLAVDLI~LLE~n 22 (44)
T PF10689_consen 6 PDEVKLAVDLIYLLESN 22 (44)
T ss_pred cHHHHHHHHHHHHHHhc
Confidence 45678999999988765
No 50
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=48.07 E-value=25 Score=21.08 Aligned_cols=26 Identities=12% Similarity=0.294 Sum_probs=22.3
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+++..++.+.++.+|..+|.+.+..|
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~~~I 28 (70)
T cd04873 3 VEVYAPDRPGLLADITRVLADLGLNI 28 (70)
T ss_pred EEEEeCCCCCHHHHHHHHHHHCCCeE
Confidence 56777888889999999999988766
No 51
>KOG3973|consensus
Probab=46.99 E-value=1.4e+02 Score=26.28 Aligned_cols=11 Identities=73% Similarity=1.694 Sum_probs=5.6
Q ss_pred CCCCCCCCCCC
Q psy17913 65 GGGGGGGGYKR 75 (121)
Q Consensus 65 gg~fg~rd~r~ 75 (121)
+++.|++.|-|
T Consensus 376 gG~GGGggyqq 386 (465)
T KOG3973|consen 376 GGRGGGGGYQQ 386 (465)
T ss_pred CCCCCCCCCcC
Confidence 33345566654
No 52
>PRK09200 preprotein translocase subunit SecA; Reviewed
Probab=46.99 E-value=44 Score=31.50 Aligned_cols=18 Identities=17% Similarity=0.137 Sum_probs=15.8
Q ss_pred CCCCCceeEEEeeCCCCh
Q psy17913 2 SSQCFIGTAYAFFTPGNA 19 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~ 19 (121)
+|+|++|+|++|++.+|.
T Consensus 526 GR~G~~G~s~~~is~eD~ 543 (790)
T PRK09200 526 GRQGDPGSSQFFISLEDD 543 (790)
T ss_pred cCCCCCeeEEEEEcchHH
Confidence 688899999999998764
No 53
>PRK12898 secA preprotein translocase subunit SecA; Reviewed
Probab=46.77 E-value=34 Score=31.58 Aligned_cols=19 Identities=16% Similarity=0.034 Sum_probs=16.3
Q ss_pred CCCCCCceeEEEeeCCCCh
Q psy17913 1 MSSQCFIGTAYAFFTPGNA 19 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~ 19 (121)
.+|+|++|++++|++.+|.
T Consensus 570 TGRqG~~G~s~~~is~eD~ 588 (656)
T PRK12898 570 CGRQGDPGSYEAILSLEDD 588 (656)
T ss_pred ccCCCCCeEEEEEechhHH
Confidence 3788999999999998764
No 54
>COG2257 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]
Probab=45.77 E-value=31 Score=24.44 Aligned_cols=21 Identities=29% Similarity=0.499 Sum_probs=12.1
Q ss_pred HHHHHH--HcCCCCChHHHHHHH
Q psy17913 25 LVDVLI--EANQSVTPALSEMSQ 45 (121)
Q Consensus 25 Lv~lL~--ea~QeVP~~L~~~a~ 45 (121)
|+++|. +-+.+||++|-+...
T Consensus 54 Lv~~L~~lelg~~IPeelY~vVA 76 (92)
T COG2257 54 LVELLLKLELGDEIPEELYEVVA 76 (92)
T ss_pred HHHHHHhccccccCCHHHHHHHH
Confidence 444443 336778887766544
No 55
>PRK11038 hypothetical protein; Provisional
Probab=44.47 E-value=22 Score=22.26 Aligned_cols=21 Identities=29% Similarity=0.521 Sum_probs=15.4
Q ss_pred CCChhHHHHHHHHHHHcCCCCCh
Q psy17913 16 PGNARHAKQLVDVLIEANQSVTP 38 (121)
Q Consensus 16 ~~n~~~a~dLv~lL~ea~QeVP~ 38 (121)
|.+.++|-|||-+|++. +|+|
T Consensus 7 p~evkLAVDLI~LLE~n--~i~p 27 (47)
T PRK11038 7 PDEVKLAVDLIYLLEEN--EIPP 27 (47)
T ss_pred cHHHHHHHHHHHHHHhc--CCCH
Confidence 45678999999988765 3444
No 56
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=44.38 E-value=35 Score=23.31 Aligned_cols=28 Identities=14% Similarity=0.170 Sum_probs=20.3
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCC-CC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQ-SV 36 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~Q-eV 36 (121)
+++|+........+++|++.|++... .|
T Consensus 54 V~iS~~~~~~~~~~~~~i~~l~~~~~~~~ 82 (119)
T cd02067 54 IGLSGLLTTHMTLMKEVIEELKEAGLDDI 82 (119)
T ss_pred EEEeccccccHHHHHHHHHHHHHcCCCCC
Confidence 45666666677788888888888765 44
No 57
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=43.94 E-value=25 Score=24.63 Aligned_cols=23 Identities=17% Similarity=0.196 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHcC-CCCChHHHHH
Q psy17913 21 HAKQLVDVLIEAN-QSVTPALSEM 43 (121)
Q Consensus 21 ~a~dLv~lL~ea~-QeVP~~L~~~ 43 (121)
.+.|+++.|++.- ...|+||+..
T Consensus 95 ~v~eal~~l~~~~~~~~~~w~~~~ 118 (119)
T TIGR02663 95 SISELLERLQKMLKGNPPPWLRKA 118 (119)
T ss_pred cHHHHHHHHHHHHcCCCCHHHHhh
Confidence 4566666666554 5788999863
No 58
>PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2. The external domains in multisubunit RNA polymerase (those most distant from the active site) are known to demonstrate more sequence variability [].; GO: 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent, 0005634 nucleus
Probab=43.90 E-value=9.7 Score=24.44 Aligned_cols=30 Identities=20% Similarity=0.358 Sum_probs=16.3
Q ss_pred eeCCCChhHHHHHHHHHHHcC-CCCChHHHH
Q psy17913 13 FFTPGNARHAKQLVDVLIEAN-QSVTPALSE 42 (121)
Q Consensus 13 Fft~~n~~~a~dLv~lL~ea~-QeVP~~L~~ 42 (121)
++++++...+.+-++.||... ..||++||-
T Consensus 3 ~~~~~~a~~~~~~LR~~Kv~~~~~vP~~lEI 33 (58)
T PF06883_consen 3 YVSPEEAEQIADQLRYLKVEGEHGVPPTLEI 33 (58)
T ss_pred eecHHHHHHHHHHHHHHHHcCCCCCCCceEE
Confidence 344444444444444444444 689988863
No 59
>PF08862 DUF1829: Domain of unknown function DUF1829; InterPro: IPR014961 This short protein is usually associated with IPR014960 from INTERPRO.
Probab=43.53 E-value=26 Score=23.90 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=24.8
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCCChH
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSVTPA 39 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~ 39 (121)
..+.|+++.+.++..+++++|++.+-+|=+|
T Consensus 55 ~~~ii~ND~e~~i~~~~~~a~~~y~I~~i~w 85 (88)
T PF08862_consen 55 KFYIILNDSEKPISEDIINALEQYNIKPIPW 85 (88)
T ss_pred eEEEEECCCCCccCHHHHHHHHHCCCceecC
Confidence 3467788888889899999999888776665
No 60
>PRK11057 ATP-dependent DNA helicase RecQ; Provisional
Probab=42.61 E-value=21 Score=31.81 Aligned_cols=25 Identities=12% Similarity=0.315 Sum_probs=18.5
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLV 26 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv 26 (121)
+|.|..+.||+||++.|...++.|+
T Consensus 328 GR~G~~~~~ill~~~~d~~~~~~~~ 352 (607)
T PRK11057 328 GRDGLPAEAMLFYDPADMAWLRRCL 352 (607)
T ss_pred cCCCCCceEEEEeCHHHHHHHHHHH
Confidence 4555567899999998876666554
No 61
>cd04903 ACT_LSD C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit. The C-terminal ACT domain of the L-serine dehydratase (LSD), iron-sulfur-dependent, beta subunit, found in various bacterial anaerobes such as Clostridium, Bacillis, and Treponema species. These enzymes catalyze the deamination of L-serine, producing pyruvate and ammonia. Unlike the eukaryotic L-serine dehydratase, which requires the pyridoxal-5'-phosphate (PLP) cofactor, the prokaryotic L-serine dehydratase contains an [4Fe-4S] cluster instead of a PLP active site. The LSD alpha and beta subunits of the 'clostridial' enzyme are encoded by the sdhA and sdhB genes. The single subunit bacterial homologs of L-serine dehydratase (LSD1, LSD2, TdcG) present in Escherichia coli, and other enterobacterials, lack the ACT domain described here. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.08 E-value=40 Score=19.82 Aligned_cols=27 Identities=7% Similarity=0.158 Sum_probs=21.4
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
++++.++.+.++.+|.++|.+++..|.
T Consensus 2 l~i~~~d~~g~l~~i~~~l~~~~~~I~ 28 (71)
T cd04903 2 LIVVHKDKPGAIAKVTSVLADHEINIA 28 (71)
T ss_pred EEEEeCCCCChHHHHHHHHHHcCcCee
Confidence 456677777889999999998887763
No 62
>PF12279 DUF3619: Protein of unknown function (DUF3619); InterPro: IPR022064 This protein is found in bacteria. Proteins in this family are about 140 amino acids in length. This protein has two conserved sequence motifs: AAR and DDLP.
Probab=40.17 E-value=29 Score=25.68 Aligned_cols=25 Identities=24% Similarity=0.469 Sum_probs=21.4
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALS 41 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~ 41 (121)
++.++++.|...|.+..++||+...
T Consensus 2 ~E~~fa~~i~~~Ld~~a~~Lp~~i~ 26 (131)
T PF12279_consen 2 NEDRFARRIARALDESADDLPPDIS 26 (131)
T ss_pred cHHHHHHHHHHHhhcccccCCHHHH
Confidence 4567899999999999999998643
No 63
>PF11051 Mannosyl_trans3: Mannosyltransferase putative; InterPro: IPR022751 Alpha-mannosyltransferase is responsible for the addition of residues to the outer chain of core N-linked polysaccharides and to O-linked mannotriose. It is implicated in late Golgi modifications [][][]. The proteins matching this entry are conserved in fungi and also found in some phototrophic organisms.; GO: 0006486 protein glycosylation
Probab=40.14 E-value=28 Score=27.94 Aligned_cols=33 Identities=15% Similarity=0.067 Sum_probs=25.4
Q ss_pred ceeEEEeeCCCChhHHHHHHHHHHHcCCCCChHH
Q psy17913 7 IGTAYAFFTPGNARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 7 ~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP~~L 40 (121)
+|+.|+.-. +...+|..||++|++.++++|-+|
T Consensus 2 rGIVi~~g~-~~~~~a~~lI~~LR~~g~~LPIEI 34 (271)
T PF11051_consen 2 RGIVITAGD-KYLWLALRLIRVLRRLGNTLPIEI 34 (271)
T ss_pred CEEEEEecC-ccHHHHHHHHHHHHHhCCCCCEEE
Confidence 466666655 667788899999999999887543
No 64
>PF10978 DUF2785: Protein of unknown function (DUF2785); InterPro: IPR021247 Some members in this family are annotated as hypothetical membrane spanning proteins however this cannot be confirmed. The family has no known function.
Probab=40.12 E-value=16 Score=27.63 Aligned_cols=37 Identities=19% Similarity=0.254 Sum_probs=29.1
Q ss_pred EEEeeCCCChhHHHHHHHHHHHc---CCCCChHHHHHHHh
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEA---NQSVTPALSEMSQM 46 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea---~QeVP~~L~~~a~~ 46 (121)
.+-|+..+|.++|.-|+.+|... .+++..||+++...
T Consensus 107 ~~~~~~~EdeRLa~~~~~~l~~~~l~~~~~~~wl~~~~~~ 146 (175)
T PF10978_consen 107 STPFIDGEDERLATALIELLNRNKLYQEELLSWLKSWRQD 146 (175)
T ss_pred CcceeCCChhHHHHHHHHHHHcCCCCHHHHHHHHHHHHHH
Confidence 45678889999999999999876 34667788888543
No 65
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=39.87 E-value=40 Score=21.36 Aligned_cols=29 Identities=17% Similarity=0.182 Sum_probs=24.5
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
|+-+++..++.+.++.+|..+|.+.+-.|
T Consensus 1 gtri~V~~~D~~Gll~~i~~~l~~~~lnI 29 (72)
T cd04926 1 GVRLELRTEDRVGLLSDVTRVFRENGLTV 29 (72)
T ss_pred CeEEEEEECCccCHHHHHHHHHHHCCcEE
Confidence 45678888999999999999999887766
No 66
>PF06012 DUF908: Domain of Unknown Function (DUF908); InterPro: IPR010309 This is a domain of unknown function found at the N terminus of a family of E3 ubiquitin protein ligases, including yeast TOM1, many of which appear to play a role in mRNA transcription and processing. This domain is found in association with and immediately N-terminal to another domain of unknown function: IPR010314 from INTERPRO.
Probab=39.09 E-value=30 Score=28.60 Aligned_cols=28 Identities=11% Similarity=0.222 Sum_probs=23.2
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEMSQ 45 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~a~ 45 (121)
.|+.++.+|+++|.-.. +||.|++..|-
T Consensus 262 ~dp~l~~eL~eLi~~~~-~v~~~i~~~Al 289 (329)
T PF06012_consen 262 QDPELVNELVELISPEE-KVPMDIQTAAL 289 (329)
T ss_pred cChHHHHHHHHHhCCCC-CCCHHHHHHHH
Confidence 46779999999988776 99999887764
No 67
>TIGR03714 secA2 accessory Sec system translocase SecA2. Members of this protein family are homologous to SecA and part of the accessory Sec system. This system, including both five core proteins for export and a variable number of proteins for glycosylation, operates in certain Gram-positive pathogens for the maturation and delivery of serine-rich glycoproteins such as the cell surface glycoprotein GspB in Streptococcus gordonii.
Probab=38.79 E-value=75 Score=29.95 Aligned_cols=19 Identities=16% Similarity=0.090 Sum_probs=16.4
Q ss_pred CCCCCCceeEEEeeCCCCh
Q psy17913 1 MSSQCFIGTAYAFFTPGNA 19 (121)
Q Consensus 1 ~~RaG~~G~AiTFft~~n~ 19 (121)
.+|+|++|++++|++.+|.
T Consensus 521 tGRqG~~G~s~~~is~eD~ 539 (762)
T TIGR03714 521 SGRQGDPGSSQFFVSLEDD 539 (762)
T ss_pred ccCCCCceeEEEEEccchh
Confidence 3789999999999998764
No 68
>COG2169 Ada Adenosine deaminase [Nucleotide transport and metabolism]
Probab=36.89 E-value=37 Score=26.75 Aligned_cols=29 Identities=7% Similarity=0.038 Sum_probs=22.9
Q ss_pred ChhHHHHHHHHHHHcCCCCChHHHHHHHhcc
Q psy17913 18 NARHAKQLVDVLIEANQSVTPALSEMSQMSA 48 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~ 48 (121)
+..++..|+.+|+++ +-|+||++++.+..
T Consensus 80 ~~~~V~~a~~~ie~~--~~~~~le~la~~lg 108 (187)
T COG2169 80 RSGLVATACRLIEQN--PEKRWLEELADELG 108 (187)
T ss_pred ccHHHHHHHHHHHcC--CCcccHHHHHHHhC
Confidence 456778888888777 88899999998654
No 69
>cd04879 ACT_3PGDH-like ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH). ACT_3PGDH-like: The ACT_3PGDH-like CD includes the C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH), with or without an extended C-terminal (xct) region found in various bacteria, archaea, fungi, and plants. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In bacteria, 3PGDH is feedback controlled by the end product L-serine in an allosteric manner. In the Escherichia coli homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active
Probab=36.61 E-value=53 Score=19.12 Aligned_cols=25 Identities=8% Similarity=0.005 Sum_probs=19.2
Q ss_pred EeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 12 AFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 12 TFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
.+..++.+.++.+|.++|.+.+-.|
T Consensus 3 ~v~~~d~~g~l~~i~~~l~~~~~nI 27 (71)
T cd04879 3 LIVHKDVPGVIGKVGTILGEHGINI 27 (71)
T ss_pred EEEecCCCCHHHHHHHHHHhcCCCe
Confidence 4556677788999999998886655
No 70
>cd04901 ACT_3PGDH C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. The C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria. 3PGDH is an enzyme that belongs to the D-isomer specific, 2-hydroxyacid dehydrogenase family and catalyzes the oxidation of D-3-phosphoglycerate to 3- phosphohydroxypyruvate, which is the first step in the biosynthesis of L-serine, using NAD+ as the oxidizing agent. In Escherichia coli, the SerA 3PGDH is feedback-controlled by the end product L-serine in an allosteric manner. In the homotetrameric enzyme, the interface at adjacent ACT (regulatory) domains couples to create an extended beta-sheet. Each regulatory interface forms two serine-binding sites. The mechanism by which serine transmits inhibition to the active site is postulated to involve the tethering of the regulatory domains together to create a rigid quaternary structure with a solvent-
Probab=36.59 E-value=48 Score=19.94 Aligned_cols=26 Identities=15% Similarity=0.125 Sum_probs=22.0
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+.++.++.+.+..++.++|.+.+..|
T Consensus 2 ~~~~~~d~~g~l~~i~~~l~~~~~nI 27 (69)
T cd04901 2 ILHIHKNVPGVLGQINTILAEHNINI 27 (69)
T ss_pred EEEEecCCCcHHHHHHHHHHHcCCCH
Confidence 56777888889999999999887776
No 71
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=36.31 E-value=83 Score=22.05 Aligned_cols=31 Identities=10% Similarity=0.239 Sum_probs=23.9
Q ss_pred ChhHHHHHHHHHHHc------------CCCCChHHHHHHHhcc
Q psy17913 18 NARHAKQLVDVLIEA------------NQSVTPALSEMSQMSA 48 (121)
Q Consensus 18 n~~~a~dLv~lL~ea------------~QeVP~~L~~~a~~~~ 48 (121)
+.....++++-|.++ -.+||+++.++|++..
T Consensus 57 ~~~~~~~~i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~~~ 99 (123)
T PF07905_consen 57 DEEELREFIRELAEKGAAGLGIKTGRYLDEIPEEIIELADELG 99 (123)
T ss_pred CHHHHHHHHHHHHHCCCeEEEEeccCccccCCHHHHHHHHHcC
Confidence 566678888888765 3379999999998764
No 72
>PRK08561 rps15p 30S ribosomal protein S15P; Reviewed
Probab=36.12 E-value=39 Score=25.84 Aligned_cols=25 Identities=16% Similarity=0.361 Sum_probs=20.0
Q ss_pred HHHHHHHHHHcC--CCCChHHHHHHHh
Q psy17913 22 AKQLVDVLIEAN--QSVTPALSEMSQM 46 (121)
Q Consensus 22 a~dLv~lL~ea~--QeVP~~L~~~a~~ 46 (121)
-+.|.++|++.+ .|||++|..|.+.
T Consensus 68 G~ki~~iLk~~gl~p~iPEDL~~L~~r 94 (151)
T PRK08561 68 GKKITEILEENGLAPEIPEDLRNLIKK 94 (151)
T ss_pred cchHHHHHHHcCCCCCCcHHHHHHHHH
Confidence 356888999886 5899999988764
No 73
>cd04883 ACT_AcuB C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. This CD includes the C-terminal ACT domain of the Bacillus subtilis acetoin utilization protein, AcuB. AcuB is putatively involved in the anaerobic catabolism of acetoin, and related proteins. Studies report the induction of AcuB by nitrate respiration and also by fermentation. Since acetoin can be secreted and later serve as a source of carbon, it has been proposed that, during anaerobic growth when other carbon sources are exhausted, the induction of the AcuB protein results in acetoin catabolism. AcuB-like proteins have two N-terminal tandem CBS domains and a single C-terminal ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=35.93 E-value=56 Score=19.86 Aligned_cols=29 Identities=3% Similarity=0.189 Sum_probs=22.3
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
|+-+++.-++.+..+.+|+++|.+++..|
T Consensus 1 g~~~~v~~~d~pG~l~~i~~~l~~~~inI 29 (72)
T cd04883 1 SSQIEVRVPDRPGQLADIAAIFKDRGVNI 29 (72)
T ss_pred CcEEEEEECCCCCHHHHHHHHHHHcCCCE
Confidence 35577777777778888999998886655
No 74
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=35.92 E-value=71 Score=28.66 Aligned_cols=35 Identities=9% Similarity=0.099 Sum_probs=23.4
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+|.+++|.||.|+.+.....+.+.+++|.++..-+
T Consensus 551 GR~g~~g~~il~~~~~~~~~~~~rl~~~~~~~dgf 585 (630)
T TIGR00643 551 GRGDHQSYCLLVYKNPKSESAKKRLRVMADTLDGF 585 (630)
T ss_pred ccCCCCcEEEEEECCCCCHHHHHHHHHHHhhcccH
Confidence 45666899999994434445566667787765544
No 75
>PF09345 DUF1987: Domain of unknown function (DUF1987); InterPro: IPR018530 This family of proteins are functionally uncharacterised.
Probab=35.45 E-value=42 Score=23.54 Aligned_cols=24 Identities=17% Similarity=0.412 Sum_probs=20.8
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHc
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea 32 (121)
..+++||....+.+-+|+++|+++
T Consensus 49 ~~L~YfNTSSsk~l~~i~~~Le~~ 72 (99)
T PF09345_consen 49 FKLSYFNTSSSKALMDIFDLLEDA 72 (99)
T ss_pred EEEEEEecHhHHHHHHHHHHHHHH
Confidence 357889999999999999999887
No 76
>KOG0345|consensus
Probab=35.41 E-value=29 Score=31.52 Aligned_cols=18 Identities=22% Similarity=0.348 Sum_probs=15.4
Q ss_pred CCCCCceeEEEeeCCCCh
Q psy17913 2 SSQCFIGTAYAFFTPGNA 19 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~ 19 (121)
.|+|+.|.||.|++|++.
T Consensus 349 aR~gr~G~Aivfl~p~E~ 366 (567)
T KOG0345|consen 349 ARAGREGNAIVFLNPREE 366 (567)
T ss_pred hhccCccceEEEecccHH
Confidence 588999999999999543
No 77
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=35.23 E-value=41 Score=23.49 Aligned_cols=27 Identities=11% Similarity=0.177 Sum_probs=21.6
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQ 34 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~Q 34 (121)
=++||+..+.....+++|++.|++...
T Consensus 53 ~V~iS~~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 53 VIGLSSLSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred EEEEcccchhhHHHHHHHHHHHHhcCC
Confidence 356777777788889999999998844
No 78
>PF05105 Phage_holin_4: Holin family ; InterPro: IPR006480 This group of sequences describe one of the many mutually dissimilar families of holins, phage proteins that act together with lytic enzymes in bacterial lysis. This family includes, besides phage holins, the protein TcdE/UtxA involved in toxin secretion in Clostridium difficile and related species []. This entry is represented by the Bacteriophage phi-29, Gp14 (holin). The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=34.82 E-value=57 Score=22.82 Aligned_cols=25 Identities=12% Similarity=0.158 Sum_probs=19.2
Q ss_pred HHHHHHHHHHcCCCCChHHHHHHHh
Q psy17913 22 AKQLVDVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 22 a~dLv~lL~ea~QeVP~~L~~~a~~ 46 (121)
+-.|++.|.+.+-++|++|.++-+.
T Consensus 89 ~~SI~EN~~~~G~~iP~~l~~~l~~ 113 (118)
T PF05105_consen 89 LISILENLAEMGVPIPKWLKKFLKQ 113 (118)
T ss_pred HHHHHHHHHHhCCCchHHHHHHHHH
Confidence 3456677778888999999988664
No 79
>PF06479 Ribonuc_2-5A: Ribonuclease 2-5A; InterPro: IPR010513 The proteins listed below share a common architecture with a protein kinase homology domain (see PDOC00100 from PROSITEDOC) followed by an ~135-residue globular kinase-extension nuclease (KEN) domain made of eight helices []: - Mammalian 2-5A-dependent RNase or RNase L (EC 3.1.26.-), an interferon- induced enzyme implicated in both the molecular mechanisms of interferon action and the fundamental control of RNA stability. 2-5A-dependent RNase is a unique enzyme in that it requires 2-5A, unusual oligoadenylates with 2',5'-phosphodiester linkages. RNase L is catalytically active only after binding to an unusual activator molecule containing a 5'-phosphorylated 2', 5'-linked oligoadenylate (2-5A), in the N-terminal half. RNase L consists of three domains, namely the N-terminal ankyrin repeat domain (see PDOC50088 from PROSITEDOC), the protein kinase homology domain, and the C-terminal KEN domain [, , ]. - Eukaryotic Ire1/Ern1, an ancient transmembrane sensor of endoplasmic reticulum (ER) stress with dual protein kinase and ribonuclease activities. In response to ER stress Ire1/Ern1 catalyzes the splicing of target mRNAs in a spliceosome-independent manner. Ire1/Ern1 is a type 1 transmembrane receptor consisting of an N-terminal ER luminal domain, a transmembrane segment and a cytoplasmic region. The cytoplasmic region encompasses a protein kinase domain followed by a C-terminal KEN domain [, ]. The dimerisation of the kinase domain activates the ribonuclease function of the KEN domain [].; GO: 0016891 endoribonuclease activity, producing 5'-phosphomonoesters, 0006397 mRNA processing; PDB: 3SDJ_D 3FBV_L 3LJ2_A 3SDM_A 3LJ0_A 2RIO_A 3LJ1_A 3P23_A.
Probab=34.76 E-value=54 Score=23.98 Aligned_cols=28 Identities=11% Similarity=0.232 Sum_probs=19.0
Q ss_pred ChhHHHHHHHHHH---HcCCCCChHHHHHHH
Q psy17913 18 NARHAKQLVDVLI---EANQSVTPALSEMSQ 45 (121)
Q Consensus 18 n~~~a~dLv~lL~---ea~QeVP~~L~~~a~ 45 (121)
+..-++||+++|+ .+-+|+|++++++..
T Consensus 59 ~~~sv~DLLR~IRNk~~Hy~el~~~~k~~lg 89 (129)
T PF06479_consen 59 DGDSVRDLLRAIRNKKHHYQELPEEVKEILG 89 (129)
T ss_dssp -TT-HHHHHHHHHHHHHTCCCS-HHHHHHC-
T ss_pred CccCHHHHHHHHHcchHhHHHCCHHHHHHhC
Confidence 4455789888776 667899999988753
No 80
>KOG4700|consensus
Probab=34.75 E-value=66 Score=25.72 Aligned_cols=22 Identities=18% Similarity=0.152 Sum_probs=17.5
Q ss_pred EEeeCCCChhHHHHHHHHHHHc
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea 32 (121)
|-|+-++-.-.+.+|-+||.++
T Consensus 117 IkFV~DK~~~~l~e~d~ll~~a 138 (207)
T KOG4700|consen 117 IKFVGDKALLMLQEMDKLLREA 138 (207)
T ss_pred eEEecchHHHHHHHHHHHHHHh
Confidence 6788877777788888888865
No 81
>COG3092 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.32 E-value=21 Score=27.08 Aligned_cols=30 Identities=27% Similarity=0.266 Sum_probs=24.9
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCCCh
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSVTP 38 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeVP~ 38 (121)
.|||=+.|.-..+..||.+-|+|++|.+|+
T Consensus 91 raiTpl~p~la~Wfyev~~kl~e~g~al~p 120 (149)
T COG3092 91 RAITPLPPQLAVWFYEVREKLKEAGQALAP 120 (149)
T ss_pred ccCCCCChHHHHHHHHHHHHHHHhCCCCCc
Confidence 466667777778899999999999998875
No 82
>KOG4284|consensus
Probab=33.99 E-value=29 Score=32.95 Aligned_cols=39 Identities=13% Similarity=0.162 Sum_probs=23.7
Q ss_pred CCCCCceeEEEeeCCCCh-hHHHHH-------HHHHHHcCCCCChHH
Q psy17913 2 SSQCFIGTAYAFFTPGNA-RHAKQL-------VDVLIEANQSVTPAL 40 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~-~~a~dL-------v~lL~ea~QeVP~~L 40 (121)
+|.|.+|.||||+..+.. .-.+.| ++++.+-..++|-.|
T Consensus 364 gRFG~~G~aVT~~~~~~e~~~f~~m~~ria~~~~~~~~p~~p~P~~~ 410 (980)
T KOG4284|consen 364 GRFGAHGAAVTLLEDERELKGFTAMAYRIAVTVKRVVEPVHPLPGDL 410 (980)
T ss_pred ccccccceeEEEeccchhhhhhHHHHHHHhhhheeeeccCCCCCccc
Confidence 567789999999987543 222333 234444455566554
No 83
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=33.90 E-value=77 Score=28.82 Aligned_cols=33 Identities=9% Similarity=0.149 Sum_probs=24.3
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHHHHHcCC
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDVLIEANQ 34 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~lL~ea~Q 34 (121)
+|.+++|.||.|+++.....+.+.+++|+++..
T Consensus 574 GR~g~~g~~ill~~~~~~~~~~~rl~~~~~~~d 606 (681)
T PRK10917 574 GRGAAQSYCVLLYKDPLSETARERLKIMRETND 606 (681)
T ss_pred cCCCCceEEEEEECCCCChhHHHHHHHHHHhcc
Confidence 566678999999975545567777888887654
No 84
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=33.87 E-value=54 Score=23.83 Aligned_cols=27 Identities=15% Similarity=0.051 Sum_probs=23.0
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQ 34 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~Q 34 (121)
=+++|+........+++|++.|++.+.
T Consensus 57 ~V~lS~~~~~~~~~~~~~~~~L~~~~~ 83 (137)
T PRK02261 57 AILVSSLYGHGEIDCRGLREKCIEAGL 83 (137)
T ss_pred EEEEcCccccCHHHHHHHHHHHHhcCC
Confidence 467899888889999999999998844
No 85
>cd04882 ACT_Bt0572_2 C-terminal ACT domain of a novel protein composed of just two ACT domains. Included in this CD is the C-terminal ACT domain of a novel protein composed of just two ACT domains, as seen in the yet uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related proteins. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.80 E-value=63 Score=19.00 Aligned_cols=26 Identities=15% Similarity=0.296 Sum_probs=21.0
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+++..++.+..+.+|+++|.+++-.|
T Consensus 2 i~v~~~d~pG~L~~i~~~l~~~~~nI 27 (65)
T cd04882 2 LAVEVPDKPGGLHEILQILSEEGINI 27 (65)
T ss_pred EEEEeCCCCcHHHHHHHHHHHCCCCh
Confidence 45667778888999999999987766
No 86
>cd04874 ACT_Af1403 N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, and related domains. This CD includes the N-terminal ACT domain of the yet uncharacterized, small (~133 a.a.), putative amino acid binding protein, Af1403, from Archaeoglobus fulgidus and other related archeal ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.46 E-value=62 Score=19.07 Aligned_cols=27 Identities=15% Similarity=0.272 Sum_probs=21.2
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
++++.-++.+.++.+|+++|.+.+..|
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i 28 (72)
T cd04874 2 ALSIIAEDKPGVLRDLTGVIAEHGGNI 28 (72)
T ss_pred eEEEEeCCCCChHHHHHHHHHhCCCCE
Confidence 466777777888999999998886655
No 87
>PF01913 FTR: Formylmethanofuran-tetrahydromethanopterin formyltransferase; InterPro: IPR022667 Formylmethanofuran:tetrahyromethanopterin formyltransferase (Ftr) is involved in C1 metabolism in methanogenic archaea, sulphate-reducing archaea and methylotrophic bacteria. It catalyses the following reversible reaction: N-formylmethanofuran + 5,6,7,8-tetrahydromethanopterin = methanofuran + 5-formyl-5,6,7,8-tetrahydromethanopterin Ftr from the thermophilic methanogen Methanopyrus kandleri (optimum growth temperature 98 degrees C) is a hyperthermophilic enzyme that is absolutely dependent on the presence of lyotropic salts for activity and thermostability. The crystal structure of Ftr, determined to a reveals a homotetramer composed essentially of two dimers. Each subunit is subdivided into two tightly associated lobes both consisting of a predominantly antiparallel beta sheet flanked by alpha helices forming an alpha/beta sandwich structure. The approximate location of the active site was detected in a region close to the dimer interface []. Ftr from the mesophilic methanogen Methanosarcina barkeri and the sulphate-reducing archaeon Archaeoglobus fulgidus have a similar structure []. In the methylotrophic bacterium Methylobacterium extorquens, Ftr interacts with three other polypeptides to form an Ftr/cyclohydrolase complex which catalyses the hydrolysis of formyl-tetrahydromethanopterin to formate during growth on C1 substrates [].; GO: 0016740 transferase activity, 0006730 one-carbon metabolic process; PDB: 1M5H_E 1M5S_C 1FTR_C 2FHJ_B 2FHK_D.
Probab=33.36 E-value=66 Score=24.47 Aligned_cols=33 Identities=15% Similarity=0.169 Sum_probs=26.2
Q ss_pred CCceeEEEeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 5 CFIGTAYAFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 5 G~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
|+.|++|-||+.+-+.+.++|++-+.++--..|
T Consensus 68 GRPGv~il~f~~~~~~L~~~l~~RigQcVLT~P 100 (144)
T PF01913_consen 68 GRPGVSILIFAMSKKKLEKQLLERIGQCVLTCP 100 (144)
T ss_dssp SS-EEEEEEEESSHHHHHHHHHHHHHHHTTTST
T ss_pred CCCcEEEEEEeCCHHHHHHHHHHHccCcccCCh
Confidence 788999999988888888888887777655555
No 88
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=33.01 E-value=67 Score=20.10 Aligned_cols=26 Identities=12% Similarity=0.185 Sum_probs=22.7
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+|+..++.+.++.+|.++|.+.+..|
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI 27 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNI 27 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCE
Confidence 67888999999999999999887765
No 89
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=32.98 E-value=1.3e+02 Score=18.88 Aligned_cols=38 Identities=11% Similarity=0.128 Sum_probs=26.7
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCC--CCChHHHHHHHh
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQ--SVTPALSEMSQM 46 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~Q--eVP~~L~~~a~~ 46 (121)
..+++--+.+..+++.+++-+++... +||++|.+....
T Consensus 13 C~~~~~a~tedEll~~~~~Ha~~~Hg~~~~~~el~~~ir~ 52 (57)
T PF06348_consen 13 CGFVIRAETEDELLEAVVEHAREVHGMTEIPEELREKIRS 52 (57)
T ss_pred CCeEEeeCCHHHHHHHHHHHHHHhcCCccCCHHHHHHHHH
Confidence 34455555677888999888888744 579887776553
No 90
>PF11784 DUF3320: Protein of unknown function (DUF3320); InterPro: IPR021754 This family is conserved in Proteobacteria and Chlorobi families. Many members are annotated as being putative DNA helicase-related proteins.
Probab=32.37 E-value=57 Score=20.07 Aligned_cols=28 Identities=11% Similarity=0.388 Sum_probs=22.8
Q ss_pred EeeCCCChhHHHHHHHHHHHcCCCCChH
Q psy17913 12 AFFTPGNARHAKQLVDVLIEANQSVTPA 39 (121)
Q Consensus 12 TFft~~n~~~a~dLv~lL~ea~QeVP~~ 39 (121)
.||.+.....+.++|.-+.++.-+|...
T Consensus 3 ~f~~~~~~~~L~~~i~~Iv~~EgPI~~~ 30 (52)
T PF11784_consen 3 DFYHPEYRPQLARMIRQIVEVEGPIHED 30 (52)
T ss_pred chhhhhHHHHHHHHHHHHHHHcCCccHH
Confidence 4788888888888888888888888864
No 91
>PRK00194 hypothetical protein; Validated
Probab=32.34 E-value=80 Score=20.47 Aligned_cols=29 Identities=14% Similarity=0.111 Sum_probs=24.6
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
.-+|++-++.+.++.+|.++|.+.+..|-
T Consensus 4 ~~ltv~g~DrpGiva~vt~~la~~g~nI~ 32 (90)
T PRK00194 4 AIITVIGKDKVGIIAGVSTVLAELNVNIL 32 (90)
T ss_pred EEEEEEcCCCCCHHHHHHHHHHHcCCCEE
Confidence 35888999999999999999998877653
No 92
>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function.
Probab=32.28 E-value=96 Score=25.43 Aligned_cols=41 Identities=10% Similarity=0.096 Sum_probs=32.9
Q ss_pred CceeEEEeeCCCChhHHHHHHHHHHHcCCCCC-hHHHHHHHh
Q psy17913 6 FIGTAYAFFTPGNARHAKQLVDVLIEANQSVT-PALSEMSQM 46 (121)
Q Consensus 6 ~~G~AiTFft~~n~~~a~dLv~lL~ea~QeVP-~~L~~~a~~ 46 (121)
+-|+.|+|..++....+.-+..+++..+-+++ ++|...|-.
T Consensus 184 RFGL~l~F~~~~q~~YL~IV~~~~~~~g~~~~~e~l~~~Al~ 225 (249)
T PF05673_consen 184 RFGLWLSFYPPDQEEYLAIVRHYAERYGLELDEEELRQEALQ 225 (249)
T ss_pred hCCcEEEecCCCHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 46899999999988888777778888899998 467666654
No 93
>PRK08156 type III secretion system protein SpaS; Validated
Probab=32.25 E-value=45 Score=28.56 Aligned_cols=26 Identities=12% Similarity=0.032 Sum_probs=20.0
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+|+.+|+.|.+.. +.+|+||++|-+-
T Consensus 302 en~pLARaLY~~v-evg~~IP~ely~A 327 (361)
T PRK08156 302 RDIKLARRLYKTH-RRYSFVSLEDLDE 327 (361)
T ss_pred eCHHHHHHHHHhC-CCCCcCCHHHHHH
Confidence 5788888888754 7899999876543
No 94
>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase. A conserved gene neighborhood widely spread in the Actinobacteria contains this uncharacterized DEAH-box family helicase encoded convergently towards an operon of genes for protein homologous to type II secretion and pilus formation proteins. The context suggests that this helicase may play a role in conjugal transfer of DNA.
Probab=32.22 E-value=47 Score=30.63 Aligned_cols=30 Identities=0% Similarity=-0.230 Sum_probs=21.2
Q ss_pred CCCCCceeEEEeeCC--CChhHHHHHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTP--GNARHAKQLVDVLIE 31 (121)
Q Consensus 2 ~RaG~~G~AiTFft~--~n~~~a~dLv~lL~e 31 (121)
+|+|+.|+||+|+++ .|..++.++.++|+.
T Consensus 371 GR~G~~g~ai~v~~~~~~d~~~~~~~~~~~~~ 402 (742)
T TIGR03817 371 GRRGQGALVVLVARDDPLDTYLVHHPEALFDR 402 (742)
T ss_pred CCCCCCcEEEEEeCCChHHHHHHhCHHHHhcC
Confidence 577778999999974 456666666666653
No 95
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=31.75 E-value=56 Score=25.51 Aligned_cols=30 Identities=0% Similarity=-0.086 Sum_probs=24.9
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
=+++|+....+...++++++.|++....||
T Consensus 142 ~V~lS~~~~~~~~~~~~~i~~L~~~~~~~~ 171 (213)
T cd02069 142 IIGLSGLLVPSLDEMVEVAEEMNRRGIKIP 171 (213)
T ss_pred EEEEccchhccHHHHHHHHHHHHhcCCCCe
Confidence 467888888888899999999998866665
No 96
>PRK09108 type III secretion system protein HrcU; Validated
Probab=31.67 E-value=37 Score=28.83 Aligned_cols=26 Identities=27% Similarity=0.399 Sum_probs=20.6
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~a 44 (121)
+|+.+|+.|.+ .+.+|+||++|-+-.
T Consensus 309 en~pLARaLy~--~~vg~~IP~ely~aV 334 (353)
T PRK09108 309 GNPPVARALYR--VELDEPIPEELFETV 334 (353)
T ss_pred eCHHHHHHHhc--CCCCCcCCHHHHHHH
Confidence 58899999983 688999998765443
No 97
>TIGR01404 FlhB_rel_III type III secretion protein, YscU/HrpY family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FlhB (TIGRFAMs model TIGR00328). This model may not identify all type III secretion system FlhB homologs.
Probab=31.53 E-value=44 Score=28.21 Aligned_cols=27 Identities=22% Similarity=0.183 Sum_probs=19.9
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~a 44 (121)
+|+.+|+.|.+. .|.+|+||++|-+-.
T Consensus 306 en~pLAR~Ly~~-~evg~~IP~ely~aV 332 (342)
T TIGR01404 306 RDIPLARQLYRT-ARVGQYIPEELFEAV 332 (342)
T ss_pred eCHHHHHHHHHc-CCCCCcCCHHHHHHH
Confidence 578888888873 457899998765543
No 98
>COG1938 Archaeal enzymes of ATP-grasp superfamily [General function prediction only]
Probab=31.49 E-value=80 Score=25.85 Aligned_cols=35 Identities=20% Similarity=0.240 Sum_probs=25.1
Q ss_pred EEeeCCCChhHHHHHHHHHHHc-CCCCC-hHHHHHHH
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEA-NQSVT-PALSEMSQ 45 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea-~QeVP-~~L~~~a~ 45 (121)
.||.+.-|++-|..+|++|.+. +-.|+ +.|+++|+
T Consensus 178 et~~~~PDP~AAa~vve~lnk~~~l~V~td~L~keAe 214 (244)
T COG1938 178 ETFGDRPDPRAAARVVEALNKMLGLNVDTDKLEKEAE 214 (244)
T ss_pred cccCCCCChHHHHHHHHHHHHHhcCccCHHHHHHHHH
Confidence 4555555899999999988765 56676 46776665
No 99
>PRK13109 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=31.45 E-value=45 Score=28.41 Aligned_cols=26 Identities=15% Similarity=0.262 Sum_probs=19.7
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+|+.+|+.|.+.. +.+|+||++|-+-
T Consensus 316 en~pLARaLy~~~-evg~~IP~ely~A 341 (358)
T PRK13109 316 EDKPLARSLYDAV-QVDQVIPAEFYRP 341 (358)
T ss_pred eCHHHHHHHHHhC-CCCCcCCHHHHHH
Confidence 4788888888755 6899999876543
No 100
>COG2166 sufE Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]
Probab=31.13 E-value=59 Score=24.63 Aligned_cols=24 Identities=29% Similarity=0.529 Sum_probs=21.0
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHc
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEA 32 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea 32 (121)
..+.|+.+.|..|++-|+-||-+.
T Consensus 70 ~~~~F~gdSdA~ivrGL~aill~~ 93 (144)
T COG2166 70 GTLHFFGDSDARIVRGLLAILLAA 93 (144)
T ss_pred ceEEEeccchhHHHHHHHHHHHHH
Confidence 458899999999999999988765
No 101
>cd02518 GT2_SpsF SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat. Spore coat polysaccharide biosynthesis protein F (spsF) is a glycosyltransferase implicated in the synthesis of the spore coat in a variety of bacteria challenged by stress as starvation. The spsF gene is expressed in the late stage of coat development responsible for a terminal step in coat formation that involves the glycosylation of the coat. SpsF gene mutation resulted in spores that appeared normal. But, the spores tended to aggregate and had abnormal adsorption properties, indicating a surface alteration.
Probab=30.97 E-value=41 Score=25.42 Aligned_cols=37 Identities=16% Similarity=0.231 Sum_probs=25.8
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCCC-hHHHHHHHhc
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSVT-PALSEMSQMS 47 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeVP-~~L~~~a~~~ 47 (121)
++.=|++|...++.|.+.|.+.+.+++ .|+.++.+++
T Consensus 187 ~DiDt~eD~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 224 (233)
T cd02518 187 LTVDTPEDFELIKEIYEALYPKNPDFSLEDIIELLDKN 224 (233)
T ss_pred EecCCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHhC
Confidence 333366788889999888877666666 4677766554
No 102
>PF12853 NADH_u_ox_C: C-terminal of NADH-ubiquinone oxidoreductase 21 kDa subunit; InterPro: IPR024549 This domain is found in the C-terminal region of fungal NADH-ubiquinone oxidoreductase 21 kDa subunits [].
Probab=30.95 E-value=59 Score=22.91 Aligned_cols=26 Identities=12% Similarity=0.304 Sum_probs=19.3
Q ss_pred HHHHHHHHHc-----CCCCChHHHHHHHhcc
Q psy17913 23 KQLVDVLIEA-----NQSVTPALSEMSQMSA 48 (121)
Q Consensus 23 ~dLv~lL~ea-----~QeVP~~L~~~a~~~~ 48 (121)
++|++.|++- ...+|+||+.+|...+
T Consensus 2 ~Em~~k~k~GkplYgeS~l~~~~Q~vA~RNS 32 (90)
T PF12853_consen 2 REMKKKVKEGKPLYGESSLDPYMQGVAARNS 32 (90)
T ss_pred hHHHHHHHCCCCCCCCccCCHHHHHHHHhhh
Confidence 5677777765 4468999999998643
No 103
>PRK13741 conjugal transfer entry exclusion protein TraS; Provisional
Probab=30.51 E-value=36 Score=26.55 Aligned_cols=29 Identities=17% Similarity=0.239 Sum_probs=21.5
Q ss_pred eCCCChh-HHHHHHHHHHHcCCCCChHHHH
Q psy17913 14 FTPGNAR-HAKQLVDVLIEANQSVTPALSE 42 (121)
Q Consensus 14 ft~~n~~-~a~dLv~lL~ea~QeVP~~L~~ 42 (121)
+|.++-. =+.+|.++|+...-+||+.++-
T Consensus 2 IT~k~I~~E~e~Lk~~Lk~gev~IPS~~~c 31 (171)
T PRK13741 2 ITHKDIKTETEKLKDVLSVGEVNIPSLWQV 31 (171)
T ss_pred cchHHHHHHHHHHHHHhhcCCccCCCHHHh
Confidence 4554432 3788999999999999997764
No 104
>cd04905 ACT_CM-PDT C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme. The C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme, found in plants, fungi, bacteria, and archaea. The P-protein of E. coli (CM-PDT, PheA) catalyzes the conversion of chorismate to prephenate and then the decarboxylation and dehydration to form phenylpyruvate. These are the first two steps in the biosynthesis of L-Phe and L-Tyr via the shikimate pathway in microorganisms and plants. The E. coli P-protein (CM-PDT) has three domains with an N-terminal domain with chorismate mutase activity, a middle domain with prephenate dehydratase activity, and an ACT regulatory C-terminal domain. The prephenate dehydratase enzyme has a PDT and ACT domain. The ACT domain is essential to bring about the negative allosteric regulation by L-Phe bindi
Probab=30.47 E-value=84 Score=19.99 Aligned_cols=28 Identities=18% Similarity=0.286 Sum_probs=22.3
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
++++|..++.+..+.+++++|.+.+-.|
T Consensus 2 ~sl~~~~~d~~G~L~~il~~f~~~~ini 29 (80)
T cd04905 2 TSIVFTLPNKPGALYDVLGVFAERGINL 29 (80)
T ss_pred EEEEEEECCCCCHHHHHHHHHHHCCcCE
Confidence 4677877778888999999999886654
No 105
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.39 E-value=72 Score=19.25 Aligned_cols=27 Identities=11% Similarity=0.108 Sum_probs=21.9
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
-+..+.++.+.++.+|+.+|.+.+..|
T Consensus 2 ~l~v~~~d~~gll~~i~~~l~~~~~~I 28 (70)
T cd04899 2 VLELTALDRPGLLADVTRVLAELGLNI 28 (70)
T ss_pred EEEEEEcCCccHHHHHHHHHHHCCCeE
Confidence 356677788889999999999887766
No 106
>cd04411 Ribosomal_P1_P2_L12p Ribosomal protein P1, P2, and L12p. Ribosomal proteins P1 and P2 are the eukaryotic proteins that are functionally equivalent to bacterial L7/L12. L12p is the archaeal homolog. Unlike other ribosomal proteins, the archaeal L12p and eukaryotic P1 and P2 do not share sequence similarity with their bacterial counterparts. They are part of the ribosomal stalk (called the L7/L12 stalk in bacteria), along with 28S rRNA and the proteins L11 and P0 in eukaryotes (23S rRNA, L11, and L10e in archaea). In bacterial ribosomes, L7/L12 homodimers bind the extended C-terminal helix of L10 to anchor the L7/L12 molecules to the ribosome. Eukaryotic P1/P2 heterodimers and archaeal L12p homodimers are believed to bind the L10 equivalent proteins, eukaryotic P0 and archaeal L10e, in a similar fashion. P1 and P2 (L12p, L7/L12) are the only proteins in the ribosome to occur as multimers, always appearing as sets of dimers. Recent data indicate that most archaeal species contain
Probab=30.38 E-value=78 Score=22.45 Aligned_cols=28 Identities=11% Similarity=0.218 Sum_probs=22.7
Q ss_pred hhHHHHHHHHHHHcCCCCCh-HHHHHHHh
Q psy17913 19 ARHAKQLVDVLIEANQSVTP-ALSEMSQM 46 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~-~L~~~a~~ 46 (121)
..-+.+|.+||+.++.+|.+ |+..++..
T Consensus 16 ~~ta~~I~~IL~aaGveVe~~~~~~~~~a 44 (105)
T cd04411 16 ELTEDKIKELLSAAGAEIEPERVKLFLSA 44 (105)
T ss_pred CCCHHHHHHHHHHcCCCcCHHHHHHHHHH
Confidence 35678999999999999976 77777654
No 107
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.26 E-value=73 Score=20.30 Aligned_cols=27 Identities=15% Similarity=0.147 Sum_probs=23.3
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
-++.++++.+.++.+|..+|.+.+..|
T Consensus 2 ~~~v~~~Dr~gLl~~i~~~l~~~~lnI 28 (74)
T cd04925 2 AIELTGTDRPGLLSEVFAVLADLHCNV 28 (74)
T ss_pred EEEEEECCCCCHHHHHHHHHHHCCCcE
Confidence 467888888999999999999887766
No 108
>COG3084 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.71 E-value=67 Score=22.27 Aligned_cols=28 Identities=18% Similarity=0.272 Sum_probs=21.4
Q ss_pred HHHHHHHHHHcCCCCC-----hHHHHHHHhccC
Q psy17913 22 AKQLVDVLIEANQSVT-----PALSEMSQMSAM 49 (121)
Q Consensus 22 a~dLv~lL~ea~QeVP-----~~L~~~a~~~~~ 49 (121)
+.+++++|+.+=|.-| ++|+.+|.++.+
T Consensus 6 lnevlellqp~w~k~~dlnl~q~lqkla~eagf 38 (88)
T COG3084 6 LNEVIELLQPAWQKEPDLNLLQFLQKLAKESGF 38 (88)
T ss_pred HHHHHHHhhHHhccCCCccHHHHHHHHHHHhcc
Confidence 5788999998866555 478888888764
No 109
>cd04893 ACT_GcvR_1 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR int
Probab=29.37 E-value=83 Score=20.20 Aligned_cols=27 Identities=7% Similarity=0.107 Sum_probs=23.7
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
-+|+.-|+.+.++..|.++|.+.+..|
T Consensus 3 iltv~g~Dr~GiVa~vs~~la~~g~nI 29 (77)
T cd04893 3 VISALGTDRPGILNELTRAVSESGCNI 29 (77)
T ss_pred EEEEEeCCCChHHHHHHHHHHHcCCCE
Confidence 478889999999999999999887765
No 110
>KOG0342|consensus
Probab=29.18 E-value=43 Score=30.40 Aligned_cols=27 Identities=15% Similarity=0.171 Sum_probs=24.0
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLVDV 28 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv~l 28 (121)
+|.|++|.|+-|+.|.+..+++.|.+|
T Consensus 422 aR~gk~G~alL~l~p~El~Flr~LK~l 448 (543)
T KOG0342|consen 422 AREGKEGKALLLLAPWELGFLRYLKKL 448 (543)
T ss_pred cccCCCceEEEEeChhHHHHHHHHhhC
Confidence 588999999999999999999988854
No 111
>cd04884 ACT_CBS C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This CD includes the C-terminal ACT domain of the cystathionine beta-synthase (CBS) domain protein found in Thermotoga maritima, Tm0935, and delta proteobacteria. This protein has two N-terminal tandem CBS domains and a single C-terminal ACT domain. The CBS domain is found in a wide range of proteins, often in tandem arrangements and together with a variety of other functional domains. It has been proposed that the CBS domain may play a regulatory role, although its exact function is unknown. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=29.07 E-value=66 Score=19.95 Aligned_cols=26 Identities=27% Similarity=0.436 Sum_probs=21.2
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
++++-++.+..+.+|+++|.+++-.|
T Consensus 2 l~v~~~d~pG~L~~l~~~i~~~g~nI 27 (72)
T cd04884 2 FTFLLEDKPGTLKPVVDTLREFNARI 27 (72)
T ss_pred EEEEecCCCccHHHHHHHHHHCCCeE
Confidence 45677788888999999999987766
No 112
>PF07894 DUF1669: Protein of unknown function (DUF1669); InterPro: IPR012461 This family is composed of sequences derived from hypothetical eukaryotic proteins of unknown function. Some members of this family are annotated as being potential phospholipases but no literature was found to support this.
Probab=28.97 E-value=56 Score=27.29 Aligned_cols=28 Identities=25% Similarity=0.541 Sum_probs=18.3
Q ss_pred eEEEeeCC--CChhHHHHHHH-HHHHcCCCC
Q psy17913 9 TAYAFFTP--GNARHAKQLVD-VLIEANQSV 36 (121)
Q Consensus 9 ~AiTFft~--~n~~~a~dLv~-lL~ea~QeV 36 (121)
.|+.+|.| ++.+.+||||. ++++|.|.|
T Consensus 120 r~~vy~qPp~~~~p~IKE~vR~~I~~A~kVI 150 (284)
T PF07894_consen 120 RATVYFQPPKDGQPHIKEVVRRMIQQAQKVI 150 (284)
T ss_pred eEEEEeCCCCCCCCCHHHHHHHHHHHhccee
Confidence 46677776 56666788775 556666655
No 113
>PTZ00095 40S ribosomal protein S19; Provisional
Probab=28.75 E-value=54 Score=25.51 Aligned_cols=24 Identities=13% Similarity=0.027 Sum_probs=17.7
Q ss_pred ChhHHHHHHHHHHHcCC-CCChHHH
Q psy17913 18 NARHAKQLVDVLIEANQ-SVTPALS 41 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~Q-eVP~~L~ 41 (121)
-..+...|.+.|++..+ +||+|..
T Consensus 33 a~~fI~~~A~~LK~~gki~~P~W~d 57 (169)
T PTZ00095 33 PWRFIKAFAQHFKLEGKIFVPKCTE 57 (169)
T ss_pred HHHHHHHHHHHHHHcCCCCCCcchh
Confidence 35678888999997754 6777765
No 114
>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised. This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.
Probab=28.68 E-value=93 Score=18.67 Aligned_cols=24 Identities=33% Similarity=0.412 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHcCCCCChHHHHHH
Q psy17913 21 HAKQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 21 ~a~dLv~lL~ea~QeVP~~L~~~a 44 (121)
-++++++.|++++--||+.|.+.+
T Consensus 20 ~~~~~l~~l~~~g~~is~~l~~~~ 43 (48)
T PF11848_consen 20 EVKPLLDRLQQAGFRISPKLIEEI 43 (48)
T ss_pred hHHHHHHHHHHcCcccCHHHHHHH
Confidence 467888888889988988776654
No 115
>KOG0348|consensus
Probab=28.51 E-value=50 Score=30.67 Aligned_cols=25 Identities=24% Similarity=0.256 Sum_probs=20.8
Q ss_pred CCCCCceeEEEeeCCCChhHHHHHH
Q psy17913 2 SSQCFIGTAYAFFTPGNARHAKQLV 26 (121)
Q Consensus 2 ~RaG~~G~AiTFft~~n~~~a~dLv 26 (121)
-|+|.+|.|+-|+.|.+...+..|.
T Consensus 539 ARaG~kG~alLfL~P~Eaey~~~l~ 563 (708)
T KOG0348|consen 539 ARAGEKGEALLFLLPSEAEYVNYLK 563 (708)
T ss_pred hhccCCCceEEEecccHHHHHHHHH
Confidence 4899999999999999887665554
No 116
>cd04909 ACT_PDH-BS C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH). The C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback-inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.23 E-value=1.2e+02 Score=18.29 Aligned_cols=27 Identities=15% Similarity=0.171 Sum_probs=21.2
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
.+++.-++.+..+.+|+++|.+.+..|
T Consensus 3 ~~~v~~~d~~G~L~~l~~~l~~~~i~i 29 (69)
T cd04909 3 DLYVDVPDEPGVIAEVTQILGDAGISI 29 (69)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCc
Confidence 456666777778899999999888776
No 117
>COG5182 CUS1 Splicing factor 3b, subunit 2 [RNA processing and modification]
Probab=28.13 E-value=42 Score=29.27 Aligned_cols=29 Identities=17% Similarity=0.130 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHHcCCCCChHHHHHHHhcc
Q psy17913 20 RHAKQLVDVLIEANQSVTPALSEMSQMSA 48 (121)
Q Consensus 20 ~~a~dLv~lL~ea~QeVP~~L~~~a~~~~ 48 (121)
.|..+|.++|--.--.+||||-.|-.-..
T Consensus 282 ~IS~eLrealgi~~g~pPPWlf~Mq~~G~ 310 (429)
T COG5182 282 AISAELREALGIDSGTPPPWLFNMQKHGM 310 (429)
T ss_pred chHHHHHHHhCCCCCCCChHHHhhhhcCC
Confidence 56778888888888899999999976443
No 118
>PRK05298 excinuclease ABC subunit B; Provisional
Probab=28.03 E-value=76 Score=28.80 Aligned_cols=38 Identities=5% Similarity=0.034 Sum_probs=24.9
Q ss_pred CCCC--CceeEEEeeCCC---------ChhHHHHHHHHHHHcCCCCChH
Q psy17913 2 SSQC--FIGTAYAFFTPG---------NARHAKQLVDVLIEANQSVTPA 39 (121)
Q Consensus 2 ~RaG--~~G~AiTFft~~---------n~~~a~dLv~lL~ea~QeVP~~ 39 (121)
||++ +.|+||+|++.. +....+++.+.+...+..||..
T Consensus 540 GR~gR~~~G~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ 588 (652)
T PRK05298 540 GRAARNVNGKVILYADKITDSMQKAIDETERRREIQIAYNEEHGITPKT 588 (652)
T ss_pred ccccCCCCCEEEEEecCCCHHHHHHHHHHHHHHHHHHHhhhccCCCChh
Confidence 4444 469999999953 4445555656666667777754
No 119
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=27.80 E-value=80 Score=23.97 Aligned_cols=29 Identities=17% Similarity=0.209 Sum_probs=22.3
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCC--CCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQ--SVT 37 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~Q--eVP 37 (121)
+++|+........++++++.|++... .||
T Consensus 137 v~lS~~~~~~~~~~~~~i~~lr~~~~~~~~~ 167 (201)
T cd02070 137 LGLSALMTTTMGGMKEVIEALKEAGLRDKVK 167 (201)
T ss_pred EEEeccccccHHHHHHHHHHHHHCCCCcCCe
Confidence 56787777777888999999998865 553
No 120
>PRK06298 type III secretion system protein; Validated
Probab=27.78 E-value=53 Score=27.99 Aligned_cols=26 Identities=23% Similarity=0.134 Sum_probs=19.0
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
.|+.+|+.|.+. .|.+|+||++|-+-
T Consensus 308 en~pLARaLy~~-~evg~~IP~ely~A 333 (356)
T PRK06298 308 RNVPLAHQLLDE-GKELKFIPESTYEA 333 (356)
T ss_pred eCHHHHHHHHHc-CCCCCcCCHHHHHH
Confidence 477888888763 35789999876544
No 121
>PRK13689 hypothetical protein; Provisional
Probab=27.38 E-value=1e+02 Score=21.09 Aligned_cols=24 Identities=17% Similarity=0.152 Sum_probs=17.8
Q ss_pred hhHHHHHHHHHHHcCCCCChHHHH
Q psy17913 19 ARHAKQLVDVLIEANQSVTPALSE 42 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~~L~~ 42 (121)
..++.||+.+|++.+.++---|..
T Consensus 13 E~il~el~~VLeKH~Ap~DLSLMv 36 (75)
T PRK13689 13 EQLLAELLAVLEKHKAPTDLSLMV 36 (75)
T ss_pred HHHHHHHHHHHHhcCCCccHHHHH
Confidence 468899999999887666554443
No 122
>cd04886 ACT_ThrD-II-like C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. This CD includes the C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains. The Escherichia coli tdcB gene product, ThrD-II, anaerobically catalyzes the pyridoxal phosphate-dependent dehydration of L-threonine and L-serine to ammonia and to alpha-ketobutyrate and pyruvate, respectively. Tetrameric ThrD-II is subject to allosteric activation by AMP, inhibition by alpha-keto acids, and catabolite inactivation by several metabolites of glycolysis and the citric acid cycle. Also included in this CD are N-terminal ACT domains present in smaller (~170 a.a.) archaeal proteins of unknown function. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=27.15 E-value=69 Score=18.80 Aligned_cols=24 Identities=21% Similarity=0.340 Sum_probs=18.9
Q ss_pred eeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 13 FFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 13 Fft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+..++.+..+.+|+++|.+++-.|
T Consensus 3 v~~~d~~G~L~~i~~~i~~~~~nI 26 (73)
T cd04886 3 VELPDRPGQLAKLLAVIAEAGANI 26 (73)
T ss_pred EEeCCCCChHHHHHHHHHHcCCCE
Confidence 445677888999999999887665
No 123
>cd00271 Chemokine_C Chemokine_C, C or lymphotactin subgroup, 1 of 4 subgroup designations of chemokines based on the arrangement of two N-terminal, conserved cysteine residues. Most of the known chemokines (cd00169) belong to either the CC (cd00272) or CXC (cd00273) subclass. The two other subclasses each have a single known member: fractalkine for the CX3C (cd00274) class and lymphotactin for the C (cd00271) class. Chemokine_Cs differ structurally since they contain only one of the two disulfide bridges that are conserved in all other chemokines and they possess a unique C-terminal extension, which is required for biological activity and thought to play a role in receptor binding. Lymphotactin, a mediator of mucosal immunity, has been found to chemoattract neutrophils and B cells through the XCR1 receptor and thought to be a factor in acute allograft rejection and inflammatory bowel disease.
Probab=26.66 E-value=1e+02 Score=20.37 Aligned_cols=26 Identities=23% Similarity=0.247 Sum_probs=17.7
Q ss_pred eEEEeeCCC--------ChhHHHHHHHHHHHcCC
Q psy17913 9 TAYAFFTPG--------NARHAKQLVDVLIEANQ 34 (121)
Q Consensus 9 ~AiTFft~~--------n~~~a~dLv~lL~ea~Q 34 (121)
.||-|+|.+ +..+++++++.|.+..+
T Consensus 35 ~AVIF~Tkkgr~iCadP~~~WVq~~i~~ld~~~~ 68 (72)
T cd00271 35 RAVIFITKRGLKICADPQAKWVKSAVKTIDRRAS 68 (72)
T ss_pred CeEEEEecCCCEEeCCCChHHHHHHHHHHHhhcc
Confidence 477787754 45688888887775543
No 124
>PRK12721 secretion system apparatus protein SsaU; Reviewed
Probab=26.61 E-value=59 Score=27.59 Aligned_cols=26 Identities=19% Similarity=0.152 Sum_probs=18.9
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+|+.+|+.|.+..+ .+|+||++|-+-
T Consensus 307 en~pLARaLY~~~~-vg~~IP~ely~a 332 (349)
T PRK12721 307 ENIPLARALFKEVE-CGDYIPETLFEP 332 (349)
T ss_pred eCHHHHHHHHHhCC-CCCcCCHHHHHH
Confidence 47888888887444 779999876543
No 125
>COG3082 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.48 E-value=1.1e+02 Score=20.83 Aligned_cols=25 Identities=16% Similarity=0.213 Sum_probs=19.2
Q ss_pred hhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 19 ARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
..|+.||+.+|++.+.++.-.|..+
T Consensus 13 e~il~e~iaVLeKH~ap~dLsLmvl 37 (74)
T COG3082 13 EQILNELIAVLEKHKAPTDLSLMVL 37 (74)
T ss_pred HHHHHHHHHHHHhcCCCcchhHHHH
Confidence 4578999999999988776655543
No 126
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=26.33 E-value=14 Score=25.40 Aligned_cols=27 Identities=22% Similarity=0.303 Sum_probs=21.4
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
|=.||++.+..+...|.++|++...+|
T Consensus 4 Agp~F~~~~~~~~~~~~~~L~~~g~~v 30 (113)
T PF05014_consen 4 AGPFFSEEQKARVERLREALEKNGFEV 30 (113)
T ss_dssp ESGGSSHHHHHHHHHHHHHHHTTTTEE
T ss_pred eCCcCCHHHHHHHHHHHHHHHhCCCEE
Confidence 345788888899999999999886543
No 127
>COG4840 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.16 E-value=1.3e+02 Score=20.34 Aligned_cols=30 Identities=7% Similarity=0.140 Sum_probs=24.5
Q ss_pred ChhHHHHHHHHHHHcCCCCChHHHHHHHhc
Q psy17913 18 NARHAKQLVDVLIEANQSVTPALSEMSQMS 47 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~ 47 (121)
+.+-+.||.++++....--|.+++.+|.+-
T Consensus 37 ~~edLtdiy~mvkkkenfSpsEmqaiA~eL 66 (71)
T COG4840 37 NYEDLTDIYDMVKKKENFSPSEMQAIADEL 66 (71)
T ss_pred cHHHHHHHHHHHHHhccCCHHHHHHHHHHH
Confidence 445678888988888888899999998864
No 128
>KOG1283|consensus
Probab=26.09 E-value=57 Score=28.52 Aligned_cols=24 Identities=25% Similarity=0.508 Sum_probs=18.9
Q ss_pred eeEEEeeC------CCChhHHHHHHHHHHH
Q psy17913 8 GTAYAFFT------PGNARHAKQLVDVLIE 31 (121)
Q Consensus 8 G~AiTFft------~~n~~~a~dLv~lL~e 31 (121)
|..+||++ .+++.+|.||+++|+.
T Consensus 82 GaGfSyVdg~~~Y~~~~~qia~Dl~~llk~ 111 (414)
T KOG1283|consen 82 GAGFSYVDGSSAYTTNNKQIALDLVELLKG 111 (414)
T ss_pred cCceeeecCcccccccHHHHHHHHHHHHHH
Confidence 56677775 4578999999999984
No 129
>PF07197 DUF1409: Protein of unknown function (DUF1409); InterPro: IPR010811 This represents a short conserved region (approximately 50 residues long), sometimes repeated, within a number of hypothetical Oryza sativa proteins of unknown function.
Probab=25.60 E-value=37 Score=21.53 Aligned_cols=20 Identities=15% Similarity=0.215 Sum_probs=16.4
Q ss_pred HHHHHcCCCCChHHHHHHHh
Q psy17913 27 DVLIEANQSVTPALSEMSQM 46 (121)
Q Consensus 27 ~lL~ea~QeVP~~L~~~a~~ 46 (121)
.-|+|.+.+||.++.+++..
T Consensus 19 arleE~qa~i~~e~~~l~~~ 38 (51)
T PF07197_consen 19 ARLEEIQAQIPDELAKLATP 38 (51)
T ss_pred HHHHHHHHHhhHHHHHhcCh
Confidence 55788999999999888754
No 130
>cd04889 ACT_PDH-BS-like C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate. Included in this CD is the C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH) enzyme that catalyzes the formation of 4-hydroxyphenylpyruvate from prephenate, found in Bacillus subtilis (BS) and other Firmicutes, Deinococci, and Bacteroidetes. PDH is the first enzyme in the aromatic amino acid pathway specific for the biosynthesis of tyrosine. This enzyme is feedback inhibited by tyrosine in B. subtilis and other microorganisms. Both phenylalanine and tryptophan have been shown to be inhibitors of this activity in B. subtilis. Bifunctional chorismate mutase-PDH (TyrA) enzymes such as those seen in Escherichia coli do not contain an ACT domain. Also included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem A
Probab=25.45 E-value=82 Score=18.43 Aligned_cols=26 Identities=15% Similarity=0.364 Sum_probs=20.6
Q ss_pred EeeCCCChhHHHHHHHHHHHcCCCCC
Q psy17913 12 AFFTPGNARHAKQLVDVLIEANQSVT 37 (121)
Q Consensus 12 TFft~~n~~~a~dLv~lL~ea~QeVP 37 (121)
++..++.+..+.++.++|.+++..|.
T Consensus 2 ~v~~~d~~G~l~~i~~~l~~~~inI~ 27 (56)
T cd04889 2 SVFVENKPGRLAEVTEILAEAGINIK 27 (56)
T ss_pred EEEeCCCCChHHHHHHHHHHcCCCEe
Confidence 45667778888999999999987763
No 131
>PF04877 Hairpins: HrpZ; InterPro: IPR006961 HrpZ (harpin elicitor) from the plant pathogen Pseudomonas syringae binds to lipid bilayers and forms a cation-conducting pore in vivo. This pore-forming activity may allow nutrient release or delivery of virulence factors during bacterial colonisation of host plants []. The entry also represents hairpinN which is a virulence determinant which elicits lesion formation in Arabidopsis and tobacco and triggers systemic resistance in Arabidopsis [].
Probab=25.34 E-value=52 Score=27.90 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=27.5
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCCCCC-----hHHHHHH
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQSVT-----PALSEMS 44 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~QeVP-----~~L~~~a 44 (121)
+--.+| .++|..++++|.++|...-.+.| .|-.+|.
T Consensus 154 g~g~~F-~~~D~~lL~eIaqFMD~nPe~FgkPd~~sW~~eLk 194 (308)
T PF04877_consen 154 GGGATF-SKEDMPLLKEIAQFMDQNPEQFGKPDRKSWADELK 194 (308)
T ss_pred CCCccc-CcccHHHHHHHHHHHhcCHhhcCCCCCchHHHHhh
Confidence 334567 88999999999999997755443 3888774
No 132
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=25.30 E-value=1e+02 Score=19.35 Aligned_cols=28 Identities=14% Similarity=0.222 Sum_probs=23.5
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+-+.+++++.+.++.+|..+|...+-.|
T Consensus 2 ~~i~v~~~Dr~gLl~~i~~~l~~~~l~I 29 (73)
T cd04900 2 TEVFIYTPDRPGLFARIAGALDQLGLNI 29 (73)
T ss_pred EEEEEEecCCCCHHHHHHHHHHHCCCCe
Confidence 3477888999999999999999887665
No 133
>TIGR02764 spore_ybaN_pdaB polysaccharide deacetylase family sporulation protein PdaB. This model describes the YbaN protein family, also called PdaB and SpoVIE, of Gram-positive bacteria. Although ybaN null mutants have only a mild sporulation defect, ybaN/ytrI double mutants show drastically reducted sporulation efficiencies. This synthetic defect suggests the role of this sigmaE-controlled gene in sporulation had been masked by functional redundancy. Members of this family are homologous to a characterized polysaccharide deacetylase; the exact function this protein family is unknown.
Probab=25.23 E-value=1.4e+02 Score=21.96 Aligned_cols=27 Identities=19% Similarity=0.151 Sum_probs=15.2
Q ss_pred eeEEEeeCCCChhHHHHHHHHHHHcCC
Q psy17913 8 GTAYAFFTPGNARHAKQLVDVLIEANQ 34 (121)
Q Consensus 8 G~AiTFft~~n~~~a~dLv~lL~ea~Q 34 (121)
=+|+||=.--+......|+++|++.+-
T Consensus 7 ~V~LTFDDgp~~~~t~~~l~~L~~~~i 33 (191)
T TIGR02764 7 KIALTFDISWGNDYTEPILDTLKEYDV 33 (191)
T ss_pred EEEEEEECCCCcccHHHHHHHHHHcCC
Confidence 366666443333455666777776644
No 134
>COG4824 Phage-related holin (Lysis protein) [General function prediction only]
Probab=24.77 E-value=53 Score=24.68 Aligned_cols=26 Identities=19% Similarity=0.254 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHc---CCCCChHHHHHHHh
Q psy17913 21 HAKQLVDVLIEA---NQSVTPALSEMSQM 46 (121)
Q Consensus 21 ~a~dLv~lL~ea---~QeVP~~L~~~a~~ 46 (121)
+|.|++++|+.+ .-+||+.|.+.-+.
T Consensus 95 iaNE~isI~EN~s~lGlpvPe~L~~~l~~ 123 (133)
T COG4824 95 IANEGISILENASRLGLPVPEMLKDLLET 123 (133)
T ss_pred HHhhhHHHHHHHHHhCCCchHHHHHHHHH
Confidence 688899998877 45899988877654
No 135
>TIGR01389 recQ ATP-dependent DNA helicase RecQ. The ATP-dependent DNA helicase RecQ of E. coli is about 600 residues long. This model represents bacterial proteins with a high degree of similarity in domain architecture and in primary sequence to E. coli RecQ. The model excludes eukaryotic and archaeal proteins with RecQ-like regions, as well as more distantly related bacterial helicases related to RecQ.
Probab=24.49 E-value=60 Score=28.61 Aligned_cols=25 Identities=12% Similarity=0.291 Sum_probs=17.9
Q ss_pred CCCCceeEEEeeCCCChhHHHHHHH
Q psy17913 3 SQCFIGTAYAFFTPGNARHAKQLVD 27 (121)
Q Consensus 3 RaG~~G~AiTFft~~n~~~a~dLv~ 27 (121)
|.|+.+.|+.|+++.|..+.+.|++
T Consensus 317 R~G~~~~~il~~~~~d~~~~~~~i~ 341 (591)
T TIGR01389 317 RDGLPAEAILLYSPADIALLKRRIE 341 (591)
T ss_pred CCCCCceEEEecCHHHHHHHHHHHh
Confidence 3445678999999888766665553
No 136
>PF13625 Helicase_C_3: Helicase conserved C-terminal domain
Probab=24.24 E-value=1.1e+02 Score=21.47 Aligned_cols=26 Identities=8% Similarity=0.166 Sum_probs=20.1
Q ss_pred HHHHHHHHHHcC-CCCChHHHHHHHhc
Q psy17913 22 AKQLVDVLIEAN-QSVTPALSEMSQMS 47 (121)
Q Consensus 22 a~dLv~lL~ea~-QeVP~~L~~~a~~~ 47 (121)
+.+|+++|++.. .+||+.|+.+..+.
T Consensus 57 ~e~i~~~L~~~S~~~lP~~v~~~i~~w 83 (129)
T PF13625_consen 57 AEEIIEFLERYSKNPLPQNVEQSIEDW 83 (129)
T ss_pred HHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence 678889888765 68999888777653
No 137
>PTZ00373 60S Acidic ribosomal protein P2; Provisional
Probab=24.07 E-value=1.1e+02 Score=22.07 Aligned_cols=28 Identities=21% Similarity=0.265 Sum_probs=22.2
Q ss_pred hhHHHHHHHHHHHcCCCCCh-HHHHHHHh
Q psy17913 19 ARHAKQLVDVLIEANQSVTP-ALSEMSQM 46 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~-~L~~~a~~ 46 (121)
..-+.||.+||+.++-+|.+ |+..++..
T Consensus 19 ~pTaddI~kIL~AaGveVd~~~~~l~~~~ 47 (112)
T PTZ00373 19 NPTKKEVKNVLSAVNADVEDDVLDNFFKS 47 (112)
T ss_pred CCCHHHHHHHHHHcCCCccHHHHHHHHHH
Confidence 35588999999999999975 77766654
No 138
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=23.98 E-value=1.1e+02 Score=17.84 Aligned_cols=26 Identities=0% Similarity=0.116 Sum_probs=18.4
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+.+..++.+.++.+|.++|.+.+-.|
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~~~i 28 (72)
T cd04878 3 LSVLVENEPGVLNRISGLFARRGFNI 28 (72)
T ss_pred EEEEEcCCCcHHHHHHHHHHhCCCCE
Confidence 34455666778899999998775544
No 139
>TIGR02433 lysidine_TilS_C tRNA(Ile)-lysidine synthetase, C-terminal domain. TIGRFAMs model TIGR02432 describes the family of the N-terminal domain of tRNA(Ile)-lysidine synthetase. This family (TIGR02433) describes a small C-terminal domain of about 50 residues present in about half the members of family TIGR02432,and in no other protein. Characterized examples of tRNA(Ile)-lysidine synthetase from E. coli and Bacillus subtilis both contain this domain.
Probab=23.97 E-value=1.1e+02 Score=17.55 Aligned_cols=20 Identities=30% Similarity=0.522 Sum_probs=14.3
Q ss_pred HHHHHHHHHHcCCCCChHHHHH
Q psy17913 22 AKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 22 a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
.+.|.++|+| +.||+|+.+.
T Consensus 20 ~k~lkk~~~e--~kiP~~~R~~ 39 (47)
T TIGR02433 20 SKKLKKLFID--AKVPPWLRDR 39 (47)
T ss_pred CchHHHHHHH--cCCCHHHHcC
Confidence 4567777775 4799998654
No 140
>KOG1891|consensus
Probab=23.92 E-value=40 Score=27.84 Aligned_cols=14 Identities=21% Similarity=0.304 Sum_probs=11.5
Q ss_pred CCCCChHHHHHHHh
Q psy17913 33 NQSVTPALSEMSQM 46 (121)
Q Consensus 33 ~QeVP~~L~~~a~~ 46 (121)
..|||+||+..|..
T Consensus 195 ~~EiP~WL~vYa~a 208 (271)
T KOG1891|consen 195 EKEIPPWLLVYAQA 208 (271)
T ss_pred hhhcCHHHHHHhcC
Confidence 45999999998864
No 141
>PRK12773 flhB flagellar biosynthesis protein FlhB; Reviewed
Probab=23.84 E-value=66 Score=29.89 Aligned_cols=28 Identities=14% Similarity=0.173 Sum_probs=20.2
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEMSQ 45 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~a~ 45 (121)
+|+.+|+.|.+. .|.+|+||++|-+-.+
T Consensus 606 ENpPLARALY~~-veVGq~IP~eLYeAVA 633 (646)
T PRK12773 606 EDRLQARGLYEE-VELGAEVPQQFYRAIA 633 (646)
T ss_pred ECHHHHHHHHHc-CCCCCcCCHHHHHHHH
Confidence 477888888873 4578999998765443
No 142
>cd00274 Chemokine_CX3C Chemokine_CX3C: 1 of 4 subgroup designations based on the arrangement of the two N-terminal cysteines; differ structurally from the other subgroups in that they are attached to a membrane-spanning domain via a mucin-like stalk and can be proteolytically cleaved to a freely diffusible form; chemotatic for T cells, monocytes, and natural killer cells; function as monomers and are found only in vertebrates and a few viruses; currently only fractalkine (sometimes called neurotactin) has been identified as a member of this subfamily; the primary source of fractalkine is neurons, and they exhibit cell adhesion and chemoattractive properties in the central nervous system. See CDs: Chemokine (cd00169) for the general alignment of chemokines, or Chemokine_CXC (cd00273), Chemokine_CC (cd00272), and Chemokine_C (cd00271) for the additional chemokine subgroups.
Probab=23.73 E-value=62 Score=21.93 Aligned_cols=25 Identities=16% Similarity=0.062 Sum_probs=17.6
Q ss_pred eEEEeeCCC--------ChhHHHHHHHHHHHcC
Q psy17913 9 TAYAFFTPG--------NARHAKQLVDVLIEAN 33 (121)
Q Consensus 9 ~AiTFft~~--------n~~~a~dLv~lL~ea~ 33 (121)
-||-|+|.+ +..++.++++.|....
T Consensus 37 ~AVIF~Tkkgr~iCAdP~~~WVq~~mk~Ld~k~ 69 (76)
T cd00274 37 RAIILETRQHRLFCADPKEQWVKDAMQHLDRQA 69 (76)
T ss_pred CeEEEEECCCCEEeCCCChHHHHHHHHHHHHHH
Confidence 477888754 4578888888886543
No 143
>PLN00138 large subunit ribosomal protein LP2; Provisional
Probab=23.55 E-value=1.1e+02 Score=21.96 Aligned_cols=28 Identities=14% Similarity=0.150 Sum_probs=22.6
Q ss_pred hhHHHHHHHHHHHcCCCCCh-HHHHHHHh
Q psy17913 19 ARHAKQLVDVLIEANQSVTP-ALSEMSQM 46 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~-~L~~~a~~ 46 (121)
..-+.+|.+||+.++-+|.+ |+..++..
T Consensus 17 ~pta~dI~~IL~AaGvevd~~~~~~f~~~ 45 (113)
T PLN00138 17 CPSAEDLKDILGSVGADADDDRIELLLSE 45 (113)
T ss_pred CCCHHHHHHHHHHcCCcccHHHHHHHHHH
Confidence 45678999999999999975 77777654
No 144
>KOG0002|consensus
Probab=23.54 E-value=1e+02 Score=19.29 Aligned_cols=21 Identities=14% Similarity=0.210 Sum_probs=12.8
Q ss_pred HHHHHHHHHcCCCCChHHHHHH
Q psy17913 23 KQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 23 ~dLv~lL~ea~QeVP~~L~~~a 44 (121)
..|.+.++ .|-+||+|+.-+.
T Consensus 8 ~kl~k~~k-qnr~iP~WiRm~~ 28 (48)
T KOG0002|consen 8 QKLAKKLK-QNRPIPQWIRMRT 28 (48)
T ss_pred HHHHHHHH-ccCCccHHHhhcc
Confidence 34444433 4668999987554
No 145
>KOG3200|consensus
Probab=23.49 E-value=50 Score=26.46 Aligned_cols=14 Identities=14% Similarity=0.161 Sum_probs=11.7
Q ss_pred CCCCChHHHHHHHh
Q psy17913 33 NQSVTPALSEMSQM 46 (121)
Q Consensus 33 ~QeVP~~L~~~a~~ 46 (121)
-+|+|+||+.+.++
T Consensus 63 peelP~wLq~~v~k 76 (224)
T KOG3200|consen 63 PEELPPWLQYYVDK 76 (224)
T ss_pred ccccCHHHHHHHHH
Confidence 37899999998765
No 146
>PRK00254 ski2-like helicase; Provisional
Probab=23.17 E-value=1.4e+02 Score=27.22 Aligned_cols=18 Identities=22% Similarity=0.189 Sum_probs=14.3
Q ss_pred CCCCCC-----ceeEEEeeCCCC
Q psy17913 1 MSSQCF-----IGTAYAFFTPGN 18 (121)
Q Consensus 1 ~~RaG~-----~G~AiTFft~~n 18 (121)
+||||+ .|.||.|+++++
T Consensus 367 ~GRAGR~~~d~~G~~ii~~~~~~ 389 (720)
T PRK00254 367 MGRAGRPKYDEVGEAIIVATTEE 389 (720)
T ss_pred hhccCCCCcCCCceEEEEecCcc
Confidence 478887 489999998755
No 147
>PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress. Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent
Probab=23.17 E-value=63 Score=22.08 Aligned_cols=25 Identities=28% Similarity=0.380 Sum_probs=22.0
Q ss_pred eCCCChhHHHHHHHHHHHcCCCCCh
Q psy17913 14 FTPGNARHAKQLVDVLIEANQSVTP 38 (121)
Q Consensus 14 ft~~n~~~a~dLv~lL~ea~QeVP~ 38 (121)
+|+....+++.||++..+.+++|..
T Consensus 2 Lt~rq~~IL~alV~~Y~~~~~PVgS 26 (78)
T PF03444_consen 2 LTERQREILKALVELYIETGEPVGS 26 (78)
T ss_pred CCHHHHHHHHHHHHHHHhcCCCcCH
Confidence 5677889999999999999999975
No 148
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=23.05 E-value=49 Score=21.19 Aligned_cols=27 Identities=15% Similarity=0.212 Sum_probs=20.6
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
-||++-++.+.++.+|.++|.+.+..|
T Consensus 4 vItv~G~DrpGiv~~v~~~l~~~g~ni 30 (76)
T PF13740_consen 4 VITVVGPDRPGIVAAVTGVLAEHGCNI 30 (76)
T ss_dssp EEEEEEE--TTHHHHHHHHHHCTT-EE
T ss_pred EEEEEecCCCcHHHHHHHHHHHCCCcE
Confidence 478888899999999999999887655
No 149
>PF01312 Bac_export_2: FlhB HrpN YscU SpaS Family; InterPro: IPR006135 Salmonella, and related proteobacteria, secrete large amounts of proteins into the culture media. The major secreted proteins are either flagellar proteins or virulence factors [], secreted through the flagellar or virulence export structures respectively. Both secretion systems penetrate the inner and outer membranes and their components bear substantial sequence similarity. Both the flagellar and needle like pilus look fairly similar to each other []. The type III secretion system is of great interest, as it is used to transport virulence factors from the pathogen directly into the host cell [] and is only triggered when the bacterium comes into close contact with the host. It is believed that the family of type III flagellar and pilus inner membrane proteins are used as structural moieties in a complex with several other subunits []. One such set of inner membrane proteins, labeled "S" here for nomenclature purposes, includes the Salmonella and Shigella SpaS, the Yersinia YscU, Rhizobium Y4YO, and the Erwinia HrcU genes, Salmonella FlhB and Escherichia coli EscU [, , , ]. Many of the proteins, in this entry, undergo autocatalytic cleavage promoted by cyclization of a conserved asparagine. These proteins belong to the MEROPS peptidase family N6. ; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3C03_C 3BZT_A 3BZV_B 3BZP_A 3BZX_B 3BZL_B 3C00_A 3BZR_A 3BZY_A 3BZO_A ....
Probab=22.83 E-value=52 Score=27.64 Aligned_cols=26 Identities=23% Similarity=0.235 Sum_probs=15.4
Q ss_pred CChhHHHHHHHHHHHcCCCCChHHHHH
Q psy17913 17 GNARHAKQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+|+.+|+.|.+..+ -+|+||++|-+-
T Consensus 309 en~pLARaLy~~~~-~g~~IP~ely~a 334 (343)
T PF01312_consen 309 ENPPLARALYRTVE-VGQEIPEELYEA 334 (343)
T ss_dssp E-HHHHHHHHHHS--TTSB--GGGHHH
T ss_pred eCHHHHHHHHhcCC-CCCcCCHHHHHH
Confidence 46778888876544 688999875543
No 150
>PF09350 DUF1992: Domain of unknown function (DUF1992); InterPro: IPR018961 This entry represents a family of proteins that may have a role in protein folding or as a chaperone. DnaJ is a member of the J-protein family, which are defined by the presence of a J domain that can regulate the activity of 70kDa heat-shock proteins []. Some of the proteins in this entry contain a J domain.
Probab=22.42 E-value=1.3e+02 Score=19.73 Aligned_cols=20 Identities=15% Similarity=0.159 Sum_probs=13.2
Q ss_pred HHHHHHHHHcCCCCChHHHHH
Q psy17913 23 KQLVDVLIEANQSVTPALSEM 43 (121)
Q Consensus 23 ~dLv~lL~ea~QeVP~~L~~~ 43 (121)
+-+-++|+.++. +|+||+..
T Consensus 39 ~~~~~iLk~~g~-lPp~i~l~ 58 (71)
T PF09350_consen 39 RMANRILKNAGY-LPPWIELR 58 (71)
T ss_pred HHHHHhhcccCC-CCHHHHHH
Confidence 445566666665 89987754
No 151
>KOG0983|consensus
Probab=22.37 E-value=1.1e+02 Score=26.43 Aligned_cols=30 Identities=13% Similarity=0.184 Sum_probs=23.9
Q ss_pred EeeCCCChhHHHHHH-----HHHHHcCCCCChHHH
Q psy17913 12 AFFTPGNARHAKQLV-----DVLIEANQSVTPALS 41 (121)
Q Consensus 12 TFft~~n~~~a~dLv-----~lL~ea~QeVP~~L~ 41 (121)
.|+++.|..++-+|. +||+...++||+.+.
T Consensus 159 yFi~n~dV~IcMelMs~C~ekLlkrik~piPE~il 193 (391)
T KOG0983|consen 159 YFITNTDVFICMELMSTCAEKLLKRIKGPIPERIL 193 (391)
T ss_pred EEeeCchHHHHHHHHHHHHHHHHHHhcCCchHHhh
Confidence 477888888777765 799999999998754
No 152
>cd04908 ACT_Bt0572_1 N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains. Included in this CD is the N-terminal ACT domain of a novel protein composed almost entirely of two tandem ACT domains as seen in the uncharacterized structure (pdb 2F06) of the Bt0572 protein from Bacteroides thetaiotaomicron and related ACT domains. These tandem ACT domain proteins belong to the superfamily of ACT regulatory domains.
Probab=22.06 E-value=1.2e+02 Score=18.46 Aligned_cols=26 Identities=15% Similarity=0.309 Sum_probs=20.2
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
|+...++.+..+.+|.++|.+++-.|
T Consensus 4 i~v~v~d~pG~La~v~~~l~~~~inI 29 (66)
T cd04908 4 LSVFLENKPGRLAAVTEILSEAGINI 29 (66)
T ss_pred EEEEEcCCCChHHHHHHHHHHCCCCE
Confidence 45566777888899999999887765
No 153
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.02 E-value=1.3e+02 Score=19.48 Aligned_cols=27 Identities=11% Similarity=0.070 Sum_probs=23.6
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
.+++.-++.+.++.+|.++|-+.+..|
T Consensus 3 vl~i~g~D~pGiva~vt~~la~~g~nI 29 (88)
T cd04872 3 VITVVGKDRVGIVAGVSTKLAELNVNI 29 (88)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCE
Confidence 478888999999999999999887766
No 154
>COG5094 TAF9 Transcription initiation factor TFIID, subunit TAF9 (also component of histone acetyltransferase SAGA) [Transcription]
Probab=21.99 E-value=96 Score=23.40 Aligned_cols=32 Identities=22% Similarity=0.255 Sum_probs=24.0
Q ss_pred CCCChhHHHHHHHHH--HHcCCCCChHHHHHHHh
Q psy17913 15 TPGNARHAKQLVDVL--IEANQSVTPALSEMSQM 46 (121)
Q Consensus 15 t~~n~~~a~dLv~lL--~ea~QeVP~~L~~~a~~ 46 (121)
-|+|.+++.-|+.-| .+..+.||-.|.++|..
T Consensus 13 gPrDvrlihliL~Slgi~~ye~~VplQLl~FAhR 46 (145)
T COG5094 13 GPRDVRLIHLILRSLGIEEYEPKVPLQLLEFAHR 46 (145)
T ss_pred CCcchhHHHHHHHhcCchhhCccchHHHHHHHHH
Confidence 477887777666543 46788999999999854
No 155
>PTZ00072 40S ribosomal protein S13; Provisional
Probab=21.81 E-value=1.1e+02 Score=23.33 Aligned_cols=25 Identities=8% Similarity=0.194 Sum_probs=19.6
Q ss_pred HHHHHHHHHHcC--CCCChHHHHHHHh
Q psy17913 22 AKQLVDVLIEAN--QSVTPALSEMSQM 46 (121)
Q Consensus 22 a~dLv~lL~ea~--QeVP~~L~~~a~~ 46 (121)
-+.|.++|++.+ -|||++|..|...
T Consensus 65 G~kI~rILk~~Glap~iPeDly~LikK 91 (148)
T PTZ00072 65 GSKILRILKKNGLAPEIPEDLYFLIKK 91 (148)
T ss_pred chHHHHHHHhcCCCCCCchHHHHHHHH
Confidence 355888999988 4899999888654
No 156
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=21.67 E-value=87 Score=18.31 Aligned_cols=27 Identities=7% Similarity=0.229 Sum_probs=20.7
Q ss_pred EEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 10 AYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 10 AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
-+++..++.+.++.+|.++|.+.+-.|
T Consensus 2 ~v~v~~~drpG~l~~v~~~la~~~inI 28 (66)
T PF01842_consen 2 RVRVIVPDRPGILADVTEILADHGINI 28 (66)
T ss_dssp EEEEEEETSTTHHHHHHHHHHHTTEEE
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCH
Confidence 356667788889999999998876443
No 157
>KOG0542|consensus
Probab=21.60 E-value=1.7e+02 Score=24.58 Aligned_cols=35 Identities=17% Similarity=0.081 Sum_probs=30.4
Q ss_pred EEeeCCCChhHHHHHHHHHHHcCCCCChHHHHHHH
Q psy17913 11 YAFFTPGNARHAKQLVDVLIEANQSVTPALSEMSQ 45 (121)
Q Consensus 11 iTFft~~n~~~a~dLv~lL~ea~QeVP~~L~~~a~ 45 (121)
.+|+|..+..+.+-|..-.+-.+-++|+|+.+...
T Consensus 155 ~Afvtdg~wDl~~~l~~qck~~~i~~P~~f~qwIn 189 (280)
T KOG0542|consen 155 FAFVTDGDWDLWVFLQYQCKLKNIRIPAFFNQWIN 189 (280)
T ss_pred eEEEeCchhhHHHHHHHHHHHhcCCCcHHHHHHhH
Confidence 68999999988888888888889999999887764
No 158
>PF09814 HECT_2: HECT-like Ubiquitin-conjugating enzyme (E2)-binding; InterPro: IPR019193 This entry consists of E3 ubiquitin-protein ligases which accept ubiquitin from specific E2 ubiquitin-conjugating enzymes, and transfer it to substrates, generally promoting their degradation by the proteasome [].
Probab=21.46 E-value=75 Score=25.88 Aligned_cols=26 Identities=15% Similarity=0.396 Sum_probs=22.8
Q ss_pred hhHHHHHHHHHHHcCCCCChHHHHHH
Q psy17913 19 ARHAKQLVDVLIEANQSVTPALSEMS 44 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~~L~~~a 44 (121)
..+..+|+++|++.+..+|+.+..|.
T Consensus 324 ~~~~~~l~~~L~~s~~~lP~s~R~~~ 349 (354)
T PF09814_consen 324 PEMCDELIELLESSNSLLPPSCRKFN 349 (354)
T ss_pred HHHHHHHHHHHHHHhhhCCHhHhhhC
Confidence 56789999999999999999888764
No 159
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=21.38 E-value=1.2e+02 Score=23.16 Aligned_cols=25 Identities=16% Similarity=0.062 Sum_probs=20.0
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEAN 33 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~ 33 (121)
+++|+....+...++++++.|++..
T Consensus 139 v~lS~~~~~~~~~~~~~i~~l~~~~ 163 (197)
T TIGR02370 139 LTGSALMTTTMYGQKDINDKLKEEG 163 (197)
T ss_pred EEEccccccCHHHHHHHHHHHHHcC
Confidence 5677777777778899999999883
No 160
>cd05111 PTK_HER3 Pseudokinase domain of the Protein Tyrosine Kinase, HER3. Protein Tyrosine Kinase (PTK) family; HER3 (ErbB3); pseudokinase domain. The PTKc (catalytic domain) family to which this subfamily belongs, is part of a larger superfamily that includes the catalytic domains of other kinases such as protein serine/threonine kinases, RIO kinases, and phosphoinositide 3-kinase (PI3K). PTKs catalyze the transfer of the gamma-phosphoryl group from ATP to tyrosine (tyr) residues in protein substrates. HER3 is a member of the EGFR (HER, ErbB) subfamily of proteins, which are receptor tyr kinases (RTKs) containing an extracellular EGF-related ligand-binding region, a transmembrane helix, and a cytoplasmic region with a tyr kinase domain and a regulatory C-terminal tail. Unlike other tyr kinases, phosphorylation of the activation loop of EGFR proteins is not critical to their activation. Instead, they are activated by ligand-induced dimerization, leading to the phosphorylation of tyr r
Probab=21.35 E-value=44 Score=25.37 Aligned_cols=22 Identities=14% Similarity=0.111 Sum_probs=10.1
Q ss_pred hhHHHHHHHHHHHcCCCCChHH
Q psy17913 19 ARHAKQLVDVLIEANQSVTPAL 40 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~~L 40 (121)
.+-+.+|++.|+...++.|+||
T Consensus 255 Rps~~el~~~l~~~~~~~~~~~ 276 (279)
T cd05111 255 RPTFKELANEFTRMARDPPRYL 276 (279)
T ss_pred CcCHHHHHHHHHHHHhCCccee
Confidence 3344444444444444444444
No 161
>PF10281 Ish1: Putative stress-responsive nuclear envelope protein; InterPro: IPR018803 This group of proteins, found primarily in fungi, consists of putative stress-responsive nuclear envelope protein Ish1 and homologues [].
Probab=21.30 E-value=1.7e+02 Score=16.51 Aligned_cols=16 Identities=19% Similarity=0.092 Sum_probs=13.5
Q ss_pred HHHHHHHHHcCCCCCh
Q psy17913 23 KQLVDVLIEANQSVTP 38 (121)
Q Consensus 23 ~dLv~lL~ea~QeVP~ 38 (121)
.+|.+-|++.+.++|+
T Consensus 7 ~~L~~wL~~~gi~~~~ 22 (38)
T PF10281_consen 7 SDLKSWLKSHGIPVPK 22 (38)
T ss_pred HHHHHHHHHcCCCCCC
Confidence 5788999999888875
No 162
>PF01894 UPF0047: Uncharacterised protein family UPF0047; InterPro: IPR001602 This family contains small uncharacterised proteins of 14 to 16 kDa mainly from bacteria although the signatures also occur in a hypothetical protein from archaea and from yeast.; PDB: 1VPH_E 2P6C_A 2CU5_A 1VMJ_A 1XBF_B 1VMH_A 1VE0_A 2P6H_B 1VMF_C.
Probab=21.22 E-value=1.4e+02 Score=21.45 Aligned_cols=18 Identities=11% Similarity=0.237 Sum_probs=14.9
Q ss_pred CCC-ChhHHHHHHHHHHHc
Q psy17913 15 TPG-NARHAKQLVDVLIEA 32 (121)
Q Consensus 15 t~~-n~~~a~dLv~lL~ea 32 (121)
++. |+.+.+||.+.|++-
T Consensus 35 nE~~dp~v~~Dl~~~l~~l 53 (118)
T PF01894_consen 35 NENADPDVRRDLLEALERL 53 (118)
T ss_dssp EESSSHHHHHHHHHHHHHH
T ss_pred eecCChhHHHhHHHHHHHh
Confidence 344 899999999999865
No 163
>PF00725 3HCDH: 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; InterPro: IPR006108 3-hydroxyacyl-CoA dehydrogenase (1.1.1.35 from EC) (HCDH) [] is an enzyme involved in fatty acid metabolism, it catalyzes the reduction of 3-hydroxyacyl-CoA to 3-oxoacyl-CoA. Most eukaryotic cells have 2 fatty-acid beta-oxidation systems, one located in mitochondria and the other in peroxisomes. In peroxisomes 3-hydroxyacyl-CoA dehydrogenase forms, with enoyl-CoA hydratase (ECH) and 3,2-trans-enoyl-CoA isomerase (ECI) a multifunctional enzyme where the N-terminal domain bears the hydratase/isomerase activities and the C-terminal domain the dehydrogenase activity. There are two mitochondrial enzymes: one which is monofunctional and the other which is, like its peroxisomal counterpart, multifunctional. In Escherichia coli (gene fadB) and Pseudomonas fragi (gene faoA) HCDH is part of a multifunctional enzyme which also contains an ECH/ECI domain as well as a 3-hydroxybutyryl-CoA epimerase domain []. There are two major region of similarities in the sequences of proteins of the HCDH family, the first one located in the N-terminal, corresponds to the NAD-binding site, the second one is located in the centre of the sequence. This represents the C-terminal domain which is also found in lambda crystallin. Some proteins include two copies of this domain.; GO: 0003857 3-hydroxyacyl-CoA dehydrogenase activity, 0016491 oxidoreductase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 3MOG_A 2WTB_A 3ADP_A 3ADO_A 1WDL_B 2D3T_B 1WDK_A 1WDM_B 3K6J_A 1ZCJ_A ....
Probab=21.16 E-value=74 Score=20.88 Aligned_cols=16 Identities=25% Similarity=0.347 Sum_probs=10.1
Q ss_pred CCCChHHHHHHHhccC
Q psy17913 34 QSVTPALSEMSQMSAM 49 (121)
Q Consensus 34 QeVP~~L~~~a~~~~~ 49 (121)
.++|++|++|.++..-
T Consensus 71 ~~~~~~l~~mv~~g~~ 86 (97)
T PF00725_consen 71 FRPSPLLKEMVEEGRL 86 (97)
T ss_dssp GSS-HHHHHHHHTT--
T ss_pred CCchHHHHHHHHCCCC
Confidence 3567899999986544
No 164
>PF01090 Ribosomal_S19e: Ribosomal protein S19e; InterPro: IPR001266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes a number of eukaryotic and archaebacterial ribosomal proteins; mammalian S19, Drosophila S19, Ascaris lumbricoides S19g (ALEP-1) and S19s, yeast YS16 (RP55A and RP55B), Aspergillus S16 and Haloarcula marismortui HS12.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 3IZ6_S 3U5G_T 3U5C_T 3O30_M 3O2Z_M 3IZB_S 2XZN_T 2XZM_T 2V7F_A.
Probab=21.12 E-value=36 Score=25.59 Aligned_cols=23 Identities=13% Similarity=0.131 Sum_probs=14.9
Q ss_pred hhHHHHHHHHHHHcCC-CCChHHH
Q psy17913 19 ARHAKQLVDVLIEANQ-SVTPALS 41 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~Q-eVP~~L~ 41 (121)
..+.+.|.+.|++.++ ++|+|..
T Consensus 9 ~~fI~~~A~~LK~~gki~~P~w~d 32 (139)
T PF01090_consen 9 DEFIKALAEFLKKSGKIEPPEWAD 32 (139)
T ss_dssp HHHHHHHHHHHTCSSTS--TSCGG
T ss_pred HHHHHHHHHHHHHcCCcCCcchHH
Confidence 3567888889988755 5666654
No 165
>smart00229 RasGEFN Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif. A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this domain N-terminal to the RasGef (Cdc25-like) domain. The recent crystal structureof Sos shows that this domain is alpha-helical and plays a "purely structural role" (Nature 394, 337-343).
Probab=21.08 E-value=1.4e+02 Score=20.40 Aligned_cols=28 Identities=11% Similarity=0.184 Sum_probs=18.3
Q ss_pred ChhHHHHHHHHHHHcCCC-CChHHHHHHH
Q psy17913 18 NARHAKQLVDVLIEANQS-VTPALSEMSQ 45 (121)
Q Consensus 18 n~~~a~dLv~lL~ea~Qe-VP~~L~~~a~ 45 (121)
++.+...|.+++.+..++ +|.|...++.
T Consensus 93 ~~~l~~~l~~f~~~~~~~~~~~~~~~l~~ 121 (127)
T smart00229 93 DPKLILRLLEFLDLVDQEKGPGLVTSLQE 121 (127)
T ss_pred CHHHHHHHHHHHHHHhhCcCCCHHHHHHH
Confidence 444667777777766555 7777666654
No 166
>cd04868 ACT_AK-like ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes each of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). Typically, AK consists of two ACT domains in a tandem repeat, but the second ACT domain is inserted within the first, resulting in, what is normally the terminal beta strand of ACT2, formed from a region N-terminal of ACT1. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. Aspartokinase is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of aspartokinase with different repressors and allosteric inhibitors. Pairs of ACT domains are proposed to specifically bind am
Probab=20.62 E-value=1.7e+02 Score=16.08 Aligned_cols=26 Identities=23% Similarity=0.279 Sum_probs=17.5
Q ss_pred EEeeCCC---ChhHHHHHHHHHHHcCCCC
Q psy17913 11 YAFFTPG---NARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 11 iTFft~~---n~~~a~dLv~lL~ea~QeV 36 (121)
++++... +..++.++.++|.+.+-+|
T Consensus 3 i~v~g~~~~~~~~~~~~i~~~l~~~~i~i 31 (60)
T cd04868 3 VSIVGVGMRGTPGVAAKIFSALAEAGINV 31 (60)
T ss_pred EEEECCCCCCCCCHHHHHHHHHHHCCCcE
Confidence 5666443 5667888999998775443
No 167
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=20.61 E-value=1.2e+02 Score=20.19 Aligned_cols=28 Identities=21% Similarity=0.246 Sum_probs=17.1
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQSV 36 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~QeV 36 (121)
+++|.....+...+.+|++.+++.+..+
T Consensus 55 V~iS~~~~~~~~~~~~l~~~~k~~~p~~ 82 (121)
T PF02310_consen 55 VGISVSMTPNLPEAKRLARAIKERNPNI 82 (121)
T ss_dssp EEEEESSSTHHHHHHHHHHHHHTTCTTS
T ss_pred EEEEccCcCcHHHHHHHHHHHHhcCCCC
Confidence 4566644455556677777777665543
No 168
>PF15606 Toxin_55: Putative toxin 55
Probab=20.52 E-value=1.4e+02 Score=20.40 Aligned_cols=30 Identities=13% Similarity=0.254 Sum_probs=21.9
Q ss_pred CChhHHHHHHHHHHHc------CCCCChHHHHHHHh
Q psy17913 17 GNARHAKQLVDVLIEA------NQSVTPALSEMSQM 46 (121)
Q Consensus 17 ~n~~~a~dLv~lL~ea------~QeVP~~L~~~a~~ 46 (121)
-|..|+.++-+++.++ ++...+||++|.+.
T Consensus 16 aDTgI~~~v~~~~~~~~~~~GK~~drCd~Lqelid~ 51 (77)
T PF15606_consen 16 ADTGIVQQVYEIISDAFQSGGKAPDRCDVLQELIDC 51 (77)
T ss_pred hhHHHHHHHHHHHHHHHhhcCCCCcHHHHHHHHHHc
Confidence 3667888888877755 44677899998763
No 169
>cd05833 Ribosomal_P2 Ribosomal protein P2. This subfamily represents the eukaryotic large ribosomal protein P2. Eukaryotic P1 and P2 are functionally equivalent to the bacterial protein L7/L12, but are not homologous to L7/L12. P2 is located in the L12 stalk, with proteins P1, P0, L11, and 28S rRNA. P1 and P2 are the only proteins in the ribosome to occur as multimers, always appearing as sets of heterodimers. Recent data indicate that eukaryotes have four copies (two heterodimers), while most archaeal species contain six copies of L12p (three homodimers). Bacteria may have four or six copies of L7/L12 (two or three homodimers) depending on the species. Experiments using S. cerevisiae P1 and P2 indicate that P1 proteins are positioned more internally with limited reactivity in the C-terminal domains, while P2 proteins seem to be more externally located and are more likely to interact with other cellular components. In lower eukaryotes, P1 and P2 are further subdivided into P1A, P1B, P2
Probab=20.51 E-value=1.5e+02 Score=21.17 Aligned_cols=28 Identities=14% Similarity=0.144 Sum_probs=22.1
Q ss_pred hhHHHHHHHHHHHcCCCCCh-HHHHHHHh
Q psy17913 19 ARHAKQLVDVLIEANQSVTP-ALSEMSQM 46 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~QeVP~-~L~~~a~~ 46 (121)
..-+.+|.+||+.++-+|.+ |+..++..
T Consensus 17 ~pTa~dI~~IL~AaGveVe~~~~~lf~~~ 45 (109)
T cd05833 17 SPSAADVKKILGSVGVEVDDEKLNKVISE 45 (109)
T ss_pred CCCHHHHHHHHHHcCCCccHHHHHHHHHH
Confidence 45678999999999999965 77766653
No 170
>PF02603 Hpr_kinase_N: HPr Serine kinase N terminus; InterPro: IPR011126 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents the N-terminal region of Hpr Serine/threonine kinase PtsK. This kinase is the sensor in a multicomponent phosphorelay system in control of carbon catabolic repression in bacteria []. This kinase in unusual in that it recognises the tertiary structure of its target and is a member of a novel family unrelated to any previously described protein phosphorylating enzymes []. X-ray analysis of the full-length crystalline enzyme from Staphylococcus xylosus at a resolution of 1.95 A shows the enzyme to consist of two clearly separated domains that are assembled in a hexameric structure resembling a three-bladed propeller. The blades are formed by two N-terminal domains each, and the compact central hub assembles the C-terminal kinase domains []. ; GO: 0000155 two-component sensor activity, 0004672 protein kinase activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006109 regulation of carbohydrate metabolic process; PDB: 1KNX_B 1KO7_A.
Probab=20.31 E-value=72 Score=22.75 Aligned_cols=18 Identities=17% Similarity=0.224 Sum_probs=12.0
Q ss_pred HcCCCCChHHHHHHHhcc
Q psy17913 31 EANQSVTPALSEMSQMSA 48 (121)
Q Consensus 31 ea~QeVP~~L~~~a~~~~ 48 (121)
..++++|++|.++|++..
T Consensus 88 t~~~~~p~~l~e~a~~~~ 105 (127)
T PF02603_consen 88 TRGLEPPPELIELAEKYN 105 (127)
T ss_dssp ETTT---HHHHHHHHHCT
T ss_pred ECcCCCCHHHHHHHHHhC
Confidence 448899999999998753
No 171
>PF11698 V-ATPase_H_C: V-ATPase subunit H; InterPro: IPR011987 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. This entry represents the C-terminal domain of subunit H (also known as Vma13p) found in the V1 complex of V-ATPases. This subunit has a regulatory function, being responsible for activating ATPase activity and coupling ATPase activity to proton flow []. The yeast enzyme contains five motifs similar to the HEAT or Armadillo repeats seen in the importins, and can be divided into two distinct domains: a large N-terminal domain consisting of stacked alpha helices, and a smaller C-terminal alpha-helical domain with a similar superhelical topology to an armadillo repeat []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0015991 ATP hydrolysis coupled proton transport, 0000221 vacuolar proton-transporting V-type ATPase, V1 domain; PDB: 1HO8_A.
Probab=20.22 E-value=56 Score=23.86 Aligned_cols=20 Identities=25% Similarity=0.408 Sum_probs=15.8
Q ss_pred eCCCChhHHHHHHHHHHHcC
Q psy17913 14 FTPGNARHAKQLVDVLIEAN 33 (121)
Q Consensus 14 ft~~n~~~a~dLv~lL~ea~ 33 (121)
|+++|..+++.|+++|..+.
T Consensus 37 f~~~~~~llk~L~~lL~~s~ 56 (119)
T PF11698_consen 37 FEENNFELLKKLIKLLDKSD 56 (119)
T ss_dssp GSSGGGHHHHHHHHHH-SHH
T ss_pred HHHcccHHHHHHHHHHccCC
Confidence 47788999999999996554
No 172
>PRK09333 30S ribosomal protein S19e; Provisional
Probab=20.16 E-value=84 Score=23.94 Aligned_cols=23 Identities=9% Similarity=0.063 Sum_probs=16.3
Q ss_pred hhHHHHHHHHHHHcCC-CCChHHH
Q psy17913 19 ARHAKQLVDVLIEANQ-SVTPALS 41 (121)
Q Consensus 19 ~~~a~dLv~lL~ea~Q-eVP~~L~ 41 (121)
..+...|.+.|++..+ ++|+|..
T Consensus 10 ~~~I~~~A~~LK~~~ki~~P~W~~ 33 (150)
T PRK09333 10 DLLIERLAEYLKNVDEIKPPEWAA 33 (150)
T ss_pred HHHHHHHHHHHHhcCCcCCCcchh
Confidence 3567888888987755 6666755
No 173
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=20.08 E-value=1.5e+02 Score=21.79 Aligned_cols=37 Identities=16% Similarity=0.229 Sum_probs=27.1
Q ss_pred eEEEeeCCC-ChhHHHHHHHHHHHcCCCCChHHHHHHHhcc
Q psy17913 9 TAYAFFTPG-NARHAKQLVDVLIEANQSVTPALSEMSQMSA 48 (121)
Q Consensus 9 ~AiTFft~~-n~~~a~dLv~lL~ea~QeVP~~L~~~a~~~~ 48 (121)
+-|+.-|.. ++.+++.|.+.|++ .+|+.+.++|.++.
T Consensus 119 l~iaisT~G~sP~la~~lr~~ie~---~l~~~~~~~a~~~~ 156 (157)
T PRK06719 119 YVVTISTSGKDPSFTKRLKQELTS---ILPKLIKKISRTHK 156 (157)
T ss_pred eEEEEECCCcChHHHHHHHHHHHH---HhhHHHHHHHhhcc
Confidence 455555654 77888888887774 57889999998763
No 174
>PF10551 MULE: MULE transposase domain; InterPro: IPR018289 This entry represents a domain found in Mutator-like elements (MULE)-encoded tranposases, some of which also contain a zinc-finger motif [, ]. This domain is also found in a transposase for the insertion sequence element IS256 in transposon Tn4001 [].
Probab=20.05 E-value=1.9e+02 Score=18.38 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=19.3
Q ss_pred eEEEeeCCCChhHHHHHHHHHHHcCCC
Q psy17913 9 TAYAFFTPGNARHAKQLVDVLIEANQS 35 (121)
Q Consensus 9 ~AiTFft~~n~~~a~dLv~lL~ea~Qe 35 (121)
+|+.++..++......+++.|+++.++
T Consensus 29 v~~~l~~~e~~~~~~~~l~~~~~~~~~ 55 (93)
T PF10551_consen 29 VAFALVSSESEESYEWFLEKLKEAMPQ 55 (93)
T ss_pred EEEEEEcCCChhhhHHHHHHhhhcccc
Confidence 466777777777777777777777653
Done!