Query 022691
Match_columns 293
No_of_seqs 134 out of 222
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 05:27:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022691.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022691hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07574 SMC_Nse1: Nse1 non-SM 100.0 7.1E-48 1.5E-52 343.2 12.9 181 6-188 1-200 (200)
2 KOG4718 Non-SMC (structural ma 100.0 6.7E-45 1.5E-49 320.1 13.7 207 3-229 2-234 (235)
3 PF01454 MAGE: MAGE family; I 98.1 1.5E-05 3.3E-10 70.4 7.9 161 9-190 3-192 (195)
4 PF08746 zf-RING-like: RING-li 94.8 0.0039 8.5E-08 42.5 -1.5 23 200-223 1-25 (43)
5 KOG4562 Uncharacterized conser 94.6 0.57 1.2E-05 45.3 12.0 129 42-189 148-286 (329)
6 PF10571 UPF0547: Uncharacteri 92.7 0.057 1.2E-06 33.0 1.1 25 198-222 1-25 (26)
7 PF06163 DUF977: Bacterial pro 91.9 0.72 1.6E-05 38.6 7.0 70 89-186 1-72 (127)
8 smart00346 HTH_ICLR helix_turn 91.1 1.5 3.3E-05 33.1 7.8 44 151-194 31-75 (91)
9 TIGR02431 pcaR_pcaU beta-ketoa 91.0 0.57 1.2E-05 42.7 6.2 39 150-190 34-72 (248)
10 PF07848 PaaX: PaaX-like prote 90.8 1.1 2.3E-05 33.7 6.4 33 151-183 34-69 (70)
11 PRK06266 transcription initiat 90.7 0.85 1.8E-05 40.2 6.7 74 150-223 46-148 (178)
12 cd00092 HTH_CRP helix_turn_hel 89.6 1.9 4.2E-05 30.5 6.8 33 150-182 35-67 (67)
13 PRK11569 transcriptional repre 89.3 0.92 2E-05 42.2 6.2 38 150-188 53-91 (274)
14 PRK15090 DNA-binding transcrip 88.8 1 2.3E-05 41.2 6.1 39 150-189 38-77 (257)
15 PRK10163 DNA-binding transcrip 88.8 1.1 2.5E-05 41.5 6.3 42 150-192 50-92 (271)
16 COG1414 IclR Transcriptional r 88.4 0.46 1E-05 43.7 3.4 45 150-194 29-74 (246)
17 PF03646 FlaG: FlaG protein; 88.1 0.85 1.8E-05 36.5 4.4 49 40-88 34-82 (107)
18 PF15615 TerB-C: TerB-C domain 87.3 1.2 2.6E-05 37.7 5.1 54 3-64 73-127 (144)
19 PRK09834 DNA-binding transcrip 86.2 2 4.3E-05 39.6 6.3 44 150-193 36-80 (263)
20 TIGR00373 conserved hypothetic 85.8 2.7 5.8E-05 36.3 6.5 73 150-222 38-139 (158)
21 smart00531 TFIIE Transcription 85.2 1.4 3.1E-05 37.4 4.5 72 150-221 25-133 (147)
22 PRK08452 flagellar protein Fla 85.1 1.7 3.8E-05 36.3 4.8 49 40-88 50-98 (124)
23 PF10122 Mu-like_Com: Mu-like 84.5 0.38 8.3E-06 34.1 0.5 25 199-223 6-36 (51)
24 COG4416 Com Mu-like prophage p 83.9 0.54 1.2E-05 33.8 1.1 23 199-221 6-34 (60)
25 smart00529 HTH_DTXR Helix-turn 83.1 2.1 4.6E-05 32.8 4.3 43 151-193 10-52 (96)
26 PF14569 zf-UDP: Zinc-binding 81.7 0.66 1.4E-05 35.7 0.9 34 197-230 36-70 (80)
27 PF13248 zf-ribbon_3: zinc-rib 79.9 0.6 1.3E-05 28.2 0.1 23 198-220 3-25 (26)
28 PRK07738 flagellar protein Fla 79.8 3.6 7.8E-05 34.1 4.7 49 40-88 43-91 (117)
29 COG1321 TroR Mn-dependent tran 79.2 35 0.00076 29.3 10.9 108 92-226 3-138 (154)
30 PRK10220 hypothetical protein; 79.1 0.93 2E-05 37.0 1.0 30 196-225 2-34 (111)
31 PRK08868 flagellar protein Fla 78.8 3.6 7.8E-05 35.3 4.6 49 40-88 68-116 (144)
32 smart00419 HTH_CRP helix_turn_ 78.4 3.3 7.2E-05 27.2 3.5 30 150-180 18-47 (48)
33 COG2093 DNA-directed RNA polym 78.0 0.95 2.1E-05 33.4 0.7 28 198-225 5-37 (64)
34 TIGR00686 phnA alkylphosphonat 77.9 0.92 2E-05 37.0 0.7 30 196-225 1-33 (109)
35 PF08274 PhnA_Zn_Ribbon: PhnA 77.6 0.37 8.1E-06 30.5 -1.3 26 197-222 2-30 (30)
36 PRK03902 manganese transport t 76.6 17 0.00038 30.1 8.1 36 151-186 33-68 (142)
37 COG2824 PhnA Uncharacterized Z 75.7 1.1 2.3E-05 36.6 0.5 34 196-229 2-38 (112)
38 PF06969 HemN_C: HemN C-termin 75.7 3.2 6.9E-05 29.8 3.0 28 158-186 39-66 (66)
39 PF01978 TrmB: Sugar-specific 75.2 6.7 0.00014 28.4 4.6 26 151-176 33-58 (68)
40 KOG0978 E3 ubiquitin ligase in 75.0 1.6 3.4E-05 46.2 1.6 28 196-223 642-690 (698)
41 PF13240 zinc_ribbon_2: zinc-r 73.4 1.1 2.3E-05 26.5 -0.1 22 199-220 1-22 (23)
42 PF13463 HTH_27: Winged helix 72.2 3.2 7E-05 29.5 2.3 34 150-183 28-67 (68)
43 PHA02943 hypothetical protein; 72.2 26 0.00056 30.6 8.0 49 150-198 34-93 (165)
44 PF13835 DUF4194: Domain of un 70.6 56 0.0012 27.9 10.0 142 12-182 1-154 (166)
45 smart00550 Zalpha Z-DNA-bindin 70.5 22 0.00048 26.1 6.5 33 150-182 32-66 (68)
46 PF08672 APC2: Anaphase promot 70.0 6.3 0.00014 28.7 3.3 30 150-180 31-60 (60)
47 PF09382 RQC: RQC domain; Int 68.1 6.9 0.00015 30.6 3.6 36 149-184 51-90 (106)
48 PF13412 HTH_24: Winged helix- 67.8 22 0.00047 23.8 5.6 21 151-171 28-48 (48)
49 PF05290 Baculo_IE-1: Baculovi 66.7 2.5 5.4E-05 35.8 0.7 14 211-224 121-134 (140)
50 PF09339 HTH_IclR: IclR helix- 66.2 16 0.00034 25.1 4.7 23 150-172 28-50 (52)
51 smart00347 HTH_MARR helix_turn 64.3 33 0.00071 25.5 6.6 36 151-186 35-76 (101)
52 PF03965 Penicillinase_R: Peni 64.3 22 0.00048 28.5 5.9 27 150-176 31-57 (115)
53 PF01325 Fe_dep_repress: Iron 64.0 48 0.001 23.8 7.0 57 93-176 2-58 (60)
54 PRK13130 H/ACA RNA-protein com 63.4 4.2 9.2E-05 29.4 1.3 32 196-229 4-35 (56)
55 PF14394 DUF4423: Domain of un 63.3 30 0.00066 30.2 7.0 36 150-185 51-86 (171)
56 COG1675 TFA1 Transcription ini 62.9 31 0.00067 30.6 6.9 74 150-223 42-144 (176)
57 COG3327 PaaX Phenylacetic acid 62.1 12 0.00025 35.3 4.3 41 151-191 39-82 (291)
58 smart00420 HTH_DEOR helix_turn 61.1 35 0.00076 22.3 5.6 26 151-176 25-50 (53)
59 PF04157 EAP30: EAP30/Vps36 fa 60.8 86 0.0019 28.2 9.7 108 18-172 111-222 (223)
60 PF10146 zf-C4H2: Zinc finger- 60.7 6.2 0.00013 36.3 2.2 26 196-221 193-218 (230)
61 PRK08351 DNA-directed RNA poly 60.6 4.4 9.5E-05 29.8 1.0 26 198-225 4-34 (61)
62 PF09929 DUF2161: Uncharacteri 60.5 4.3 9.3E-05 33.7 1.0 32 156-188 87-118 (118)
63 PF07295 DUF1451: Protein of u 60.4 3 6.5E-05 35.8 0.1 25 196-220 111-139 (146)
64 PLN02400 cellulose synthase 60.2 5.8 0.00013 43.9 2.3 13 211-223 78-90 (1085)
65 cd07377 WHTH_GntR Winged helix 60.1 14 0.00031 25.5 3.6 30 151-180 36-65 (66)
66 PRK12495 hypothetical protein; 58.4 32 0.00069 31.6 6.3 28 196-223 41-70 (226)
67 PF13730 HTH_36: Helix-turn-he 57.9 51 0.0011 22.4 6.1 20 151-170 36-55 (55)
68 PF14338 Mrr_N: Mrr N-terminal 56.7 55 0.0012 25.2 6.7 81 99-185 4-85 (92)
69 PF01316 Arg_repressor: Argini 56.3 74 0.0016 23.8 7.1 63 6-81 5-67 (70)
70 smart00418 HTH_ARSR helix_turn 56.2 21 0.00046 24.0 4.0 39 151-189 21-62 (66)
71 COG3355 Predicted transcriptio 55.9 59 0.0013 27.3 7.1 69 5-85 26-95 (126)
72 PRK06393 rpoE DNA-directed RNA 55.8 5.7 0.00012 29.5 0.9 22 197-220 5-26 (64)
73 PRK00420 hypothetical protein; 54.6 4.3 9.4E-05 33.4 0.1 28 198-225 24-54 (112)
74 TIGR01889 Staph_reg_Sar staphy 54.6 99 0.0021 24.4 8.1 43 150-192 53-101 (109)
75 TIGR02277 PaaX_trns_reg phenyl 54.2 21 0.00044 33.7 4.6 42 151-192 31-75 (280)
76 PF13545 HTH_Crp_2: Crp-like h 53.9 17 0.00038 26.3 3.4 35 150-185 38-73 (76)
77 PRK14165 winged helix-turn-hel 53.4 54 0.0012 29.9 7.1 73 96-193 2-77 (217)
78 KOG3970 Predicted E3 ubiquitin 53.0 8.3 0.00018 35.6 1.7 29 182-210 33-63 (299)
79 PF08772 NOB1_Zn_bind: Nin one 52.8 2.9 6.3E-05 31.8 -1.0 25 197-221 9-34 (73)
80 COG1645 Uncharacterized Zn-fin 51.6 3.6 7.7E-05 34.8 -0.8 23 197-219 28-52 (131)
81 PRK00135 scpB segregation and 51.3 1.8E+02 0.0038 25.9 11.9 119 8-172 5-133 (188)
82 PF05043 Mga: Mga helix-turn-h 51.1 15 0.00032 27.8 2.6 48 8-63 18-65 (87)
83 TIGR02147 Fsuc_second hypothet 51.0 66 0.0014 30.3 7.4 72 93-185 111-184 (271)
84 PF04703 FaeA: FaeA-like prote 50.8 56 0.0012 23.9 5.5 25 150-174 25-49 (62)
85 TIGR02944 suf_reg_Xantho FeS a 50.7 73 0.0016 25.8 6.9 35 150-184 35-71 (130)
86 COG3682 Predicted transcriptio 50.6 42 0.00091 28.1 5.4 42 150-193 34-76 (123)
87 PF14446 Prok-RING_1: Prokaryo 50.3 5.1 0.00011 28.8 -0.1 27 197-223 5-33 (54)
88 COG3357 Predicted transcriptio 49.9 6.4 0.00014 31.3 0.4 27 197-223 58-88 (97)
89 PLN02638 cellulose synthase A 49.5 9.9 0.00021 42.2 1.9 14 210-223 58-71 (1079)
90 smart00345 HTH_GNTR helix_turn 48.9 26 0.00056 23.7 3.4 28 151-178 31-58 (60)
91 PF01726 LexA_DNA_bind: LexA D 47.7 91 0.002 22.8 6.3 57 92-174 3-60 (65)
92 TIGR00373 conserved hypothetic 47.6 1.2E+02 0.0027 26.0 8.1 66 4-81 12-79 (158)
93 PF07754 DUF1610: Domain of un 47.2 6.6 0.00014 23.6 0.1 20 200-219 1-24 (24)
94 PF10071 DUF2310: Zn-ribbon-co 46.4 12 0.00026 35.1 1.7 17 211-227 220-236 (258)
95 TIGR02337 HpaR homoprotocatech 46.2 69 0.0015 25.4 6.0 40 151-190 53-98 (118)
96 PRK11050 manganese transport r 46.0 1.5E+02 0.0032 25.1 8.3 36 151-186 62-97 (152)
97 PF12802 MarR_2: MarR family; 45.6 97 0.0021 21.2 6.4 24 151-174 32-55 (62)
98 PF14369 zf-RING_3: zinc-finge 45.5 7 0.00015 25.4 0.0 23 199-221 4-31 (35)
99 PF10826 DUF2551: Protein of u 45.5 62 0.0013 25.3 5.2 51 7-61 12-62 (83)
100 PLN02195 cellulose synthase A 45.4 10 0.00022 41.7 1.2 14 210-223 47-60 (977)
101 PRK11032 hypothetical protein; 45.4 7 0.00015 34.1 0.0 41 180-220 93-151 (160)
102 PF04079 DUF387: Putative tran 44.9 1.3E+02 0.0029 25.9 7.9 129 12-183 3-143 (159)
103 COG1334 FlaG Uncharacterized f 44.7 48 0.001 27.6 4.8 48 41-88 47-94 (120)
104 KOG2873 Ubiquinol cytochrome c 43.8 45 0.00097 31.6 5.0 55 6-60 199-257 (284)
105 PF13719 zinc_ribbon_5: zinc-r 43.4 8.7 0.00019 25.1 0.2 12 211-222 25-36 (37)
106 COG5540 RING-finger-containing 42.8 12 0.00025 36.1 1.0 26 197-222 323-372 (374)
107 KOG3233 RNA polymerase III, su 42.7 1.2E+02 0.0026 28.9 7.7 92 71-177 139-249 (297)
108 PF13717 zinc_ribbon_4: zinc-r 42.7 10 0.00022 24.6 0.5 12 211-222 25-36 (36)
109 PF14952 zf-tcix: Putative tre 42.1 14 0.00031 25.3 1.1 14 208-221 8-21 (44)
110 PRK14892 putative transcriptio 41.5 7.4 0.00016 31.3 -0.4 34 196-229 20-60 (99)
111 PF14947 HTH_45: Winged helix- 41.3 35 0.00077 25.5 3.3 35 150-185 29-63 (77)
112 PF01485 IBR: IBR domain; Int 41.2 10 0.00022 26.5 0.3 31 189-219 9-48 (64)
113 PF14570 zf-RING_4: RING/Ubox 41.0 16 0.00035 25.6 1.3 26 196-221 21-47 (48)
114 PF00486 Trans_reg_C: Transcri 40.9 85 0.0019 22.4 5.3 55 3-60 5-61 (77)
115 TIGR01610 phage_O_Nterm phage 40.6 1.7E+02 0.0037 22.7 7.6 30 150-180 57-88 (95)
116 TIGR02698 CopY_TcrY copper tra 40.4 1.4E+02 0.003 24.6 7.1 28 150-177 32-59 (130)
117 PRK09416 lstR lineage-specific 40.4 27 0.00058 29.7 2.7 43 152-194 75-121 (135)
118 PF08279 HTH_11: HTH domain; 40.3 1E+02 0.0022 20.8 5.4 47 8-66 2-49 (55)
119 smart00531 TFIIE Transcription 39.7 74 0.0016 26.9 5.4 64 8-81 3-69 (147)
120 COG5219 Uncharacterized conser 39.4 16 0.00035 40.2 1.5 40 184-223 1450-1500(1525)
121 PRK06266 transcription initiat 39.3 1.7E+02 0.0037 25.7 7.8 62 5-78 21-83 (178)
122 PRK00215 LexA repressor; Valid 39.0 1.4E+02 0.0031 26.0 7.4 69 93-187 2-73 (205)
123 PF01927 Mut7-C: Mut7-C RNAse 38.9 8.2 0.00018 32.7 -0.6 30 197-226 91-140 (147)
124 TIGR00738 rrf2_super rrf2 fami 38.6 32 0.0007 27.8 3.0 34 150-183 35-70 (132)
125 KOG2114 Vacuolar assembly/sort 38.2 27 0.00059 37.9 3.0 100 97-219 755-880 (933)
126 PF08784 RPA_C: Replication pr 37.6 92 0.002 24.2 5.4 26 151-176 76-101 (102)
127 COG5415 Predicted integral mem 37.6 19 0.00041 32.9 1.5 31 196-227 191-229 (251)
128 PLN02436 cellulose synthase A 37.4 26 0.00055 39.1 2.7 27 197-223 63-90 (1094)
129 PF09538 FYDLN_acid: Protein o 37.0 17 0.00038 29.5 1.1 27 198-224 10-39 (108)
130 PF05732 RepL: Firmicute plasm 36.8 85 0.0018 27.3 5.5 36 150-185 85-120 (165)
131 cd00383 trans_reg_C Effector d 36.3 1.8E+02 0.0038 21.5 6.6 53 4-60 24-79 (95)
132 COG1439 Predicted nucleic acid 36.2 13 0.00029 32.9 0.3 24 197-220 139-162 (177)
133 COG2888 Predicted Zn-ribbon RN 36.0 11 0.00024 27.6 -0.2 24 196-219 8-35 (61)
134 PF09851 SHOCT: Short C-termin 35.7 60 0.0013 20.3 3.2 23 10-32 6-28 (31)
135 PF02002 TFIIE_alpha: TFIIE al 35.4 71 0.0015 25.0 4.4 67 3-81 10-78 (105)
136 KOG4451 Uncharacterized conser 35.1 22 0.00048 32.9 1.5 25 196-220 248-272 (286)
137 TIGR02010 IscR iron-sulfur clu 35.1 2.2E+02 0.0048 23.3 7.5 34 150-183 35-70 (135)
138 KOG3476 Microtubule-associated 35.0 17 0.00038 28.6 0.7 38 180-217 29-75 (100)
139 TIGR02098 MJ0042_CXXC MJ0042 f 34.3 14 0.00031 23.7 0.2 24 199-222 4-36 (38)
140 TIGR01884 cas_HTH CRISPR locus 34.2 3.2E+02 0.007 23.9 9.0 33 151-183 168-202 (203)
141 COG0675 Transposase and inacti 34.0 12 0.00026 34.5 -0.4 28 196-224 308-335 (364)
142 PF09106 SelB-wing_2: Elongati 33.9 30 0.00064 24.5 1.8 29 151-180 31-59 (59)
143 COG5340 Predicted transcriptio 33.4 87 0.0019 29.2 5.1 44 150-193 40-88 (269)
144 TIGR03826 YvyF flagellar opero 33.3 18 0.0004 30.7 0.7 53 158-229 60-112 (137)
145 PRK03681 hypA hydrogenase nick 33.2 15 0.00032 30.0 0.1 24 197-220 70-96 (114)
146 PF06170 DUF983: Protein of un 33.2 27 0.00059 27.2 1.6 18 211-228 8-25 (86)
147 TIGR00498 lexA SOS regulatory 32.9 1.6E+02 0.0035 25.6 6.7 32 151-184 36-68 (199)
148 cd07973 Spt4 Transcription elo 32.8 24 0.00053 28.3 1.3 23 197-219 3-28 (98)
149 smart00647 IBR In Between Ring 32.8 32 0.00069 24.0 1.8 14 211-224 48-61 (64)
150 TIGR03829 YokU_near_AblA uncha 32.7 6.2 0.00014 31.2 -2.1 23 211-233 35-57 (89)
151 PF14353 CpXC: CpXC protein 32.6 17 0.00038 29.7 0.4 19 211-229 38-56 (128)
152 smart00661 RPOL9 RNA polymeras 32.4 12 0.00027 25.5 -0.4 27 198-224 1-33 (52)
153 PF12773 DZR: Double zinc ribb 32.3 20 0.00043 24.3 0.6 25 196-220 11-38 (50)
154 PRK00398 rpoP DNA-directed RNA 32.2 12 0.00025 25.4 -0.6 24 198-221 4-31 (46)
155 PF06906 DUF1272: Protein of u 31.7 33 0.00071 24.9 1.6 23 198-222 30-52 (57)
156 COG1579 Zn-ribbon protein, pos 31.3 14 0.00031 34.2 -0.3 41 180-220 172-230 (239)
157 PRK14559 putative protein seri 31.0 18 0.00038 38.3 0.2 23 198-220 28-50 (645)
158 PF09397 Ftsk_gamma: Ftsk gamm 30.7 75 0.0016 23.5 3.5 31 151-185 31-61 (65)
159 COG2238 RPS19A Ribosomal prote 30.4 50 0.0011 28.3 2.8 37 151-187 92-129 (147)
160 PLN02189 cellulose synthase 30.4 39 0.00085 37.5 2.7 27 197-223 61-88 (1040)
161 TIGR03826 YvyF flagellar opero 30.4 22 0.00048 30.2 0.7 24 196-219 2-26 (137)
162 PF10256 Erf4: Golgin subfamil 30.2 92 0.002 25.0 4.3 49 18-66 27-108 (118)
163 PF01286 XPA_N: XPA protein N- 30.1 14 0.0003 24.1 -0.4 19 187-205 13-32 (34)
164 PF07282 OrfB_Zn_ribbon: Putat 29.7 14 0.00031 26.8 -0.5 29 196-224 27-59 (69)
165 COG1438 ArgR Arginine represso 29.7 2E+02 0.0044 24.8 6.5 68 6-86 6-73 (150)
166 PRK09863 putative frv operon r 29.7 1.7E+02 0.0037 30.0 7.2 54 4-66 2-55 (584)
167 PRK05978 hypothetical protein; 29.6 28 0.0006 30.0 1.2 32 197-228 33-69 (148)
168 PRK14890 putative Zn-ribbon RN 29.5 19 0.00042 26.3 0.2 25 196-220 6-34 (59)
169 PF09012 FeoC: FeoC like trans 29.3 1.1E+02 0.0025 22.0 4.3 23 151-173 25-47 (69)
170 COG5111 RPC34 DNA-directed RNA 29.2 2.1E+02 0.0045 26.8 6.8 91 72-177 141-253 (301)
171 CHL00174 accD acetyl-CoA carbo 29.1 24 0.00051 33.8 0.7 27 197-223 38-69 (296)
172 smart00422 HTH_MERR helix_turn 29.1 1.1E+02 0.0024 21.5 4.2 36 158-193 14-52 (70)
173 smart00344 HTH_ASNC helix_turn 28.9 1.9E+02 0.0041 22.3 5.9 22 151-172 28-49 (108)
174 PF08820 DUF1803: Domain of un 28.9 50 0.0011 26.3 2.4 33 156-189 43-75 (93)
175 PF00017 SH2: SH2 domain; Int 28.8 26 0.00057 25.5 0.8 43 151-193 5-51 (77)
176 PRK00441 argR arginine repress 28.4 2.9E+02 0.0062 23.5 7.3 63 6-81 4-66 (149)
177 COG5595 Zn-ribbon-containing, 28.4 37 0.0008 30.9 1.8 16 211-226 218-233 (256)
178 PRK00564 hypA hydrogenase nick 28.4 23 0.0005 29.0 0.5 24 197-220 71-97 (117)
179 COG4357 Zinc finger domain con 28.2 34 0.00074 27.5 1.4 27 196-222 61-91 (105)
180 PF05158 RNA_pol_Rpc34: RNA po 28.2 5E+02 0.011 25.0 9.7 122 5-172 8-132 (327)
181 PRK05654 acetyl-CoA carboxylas 28.0 27 0.00058 33.3 0.9 27 197-223 27-58 (292)
182 cd00090 HTH_ARSR Arsenical Res 28.0 1E+02 0.0022 21.0 3.8 32 151-182 31-65 (78)
183 PF02082 Rrf2: Transcriptional 27.6 93 0.002 23.3 3.7 33 150-182 35-69 (83)
184 PRK08270 anaerobic ribonucleos 27.5 32 0.00069 36.4 1.4 39 181-220 600-648 (656)
185 TIGR00515 accD acetyl-CoA carb 27.3 29 0.00063 32.9 1.0 27 197-223 26-57 (285)
186 TIGR02300 FYDLN_acid conserved 27.2 29 0.00064 29.2 0.9 27 198-224 10-39 (129)
187 PF13597 NRDD: Anaerobic ribon 26.9 15 0.00032 37.9 -1.1 62 157-220 442-513 (546)
188 KOG4684 Uncharacterized conser 26.9 16 0.00036 33.5 -0.7 25 198-222 171-200 (275)
189 PF14591 AF0941-like: AF0941-l 26.6 1.1E+02 0.0024 25.7 4.2 52 12-68 49-100 (127)
190 TIGR02702 SufR_cyano iron-sulf 26.6 2.3E+02 0.005 24.9 6.6 37 150-186 25-69 (203)
191 PF01047 MarR: MarR family; I 26.6 69 0.0015 21.9 2.6 23 151-173 28-50 (59)
192 PF13591 MerR_2: MerR HTH fami 26.5 82 0.0018 24.0 3.2 36 158-193 14-50 (84)
193 COG4955 Uncharacterized protei 26.4 70 0.0015 30.8 3.3 44 150-194 53-96 (343)
194 PF02885 Glycos_trans_3N: Glyc 26.3 2.3E+02 0.005 20.3 5.5 40 9-50 3-42 (66)
195 PF13920 zf-C3HC4_3: Zinc fing 26.3 42 0.0009 22.7 1.4 23 198-220 24-46 (50)
196 PF13338 DUF4095: Domain of un 26.2 68 0.0015 25.1 2.8 49 159-208 5-54 (124)
197 cd00162 RING RING-finger (Real 26.0 58 0.0012 20.2 2.0 23 199-221 22-45 (45)
198 PF13453 zf-TFIIB: Transcripti 25.9 14 0.00031 24.4 -1.0 12 211-222 19-30 (41)
199 PF12387 Peptidase_C74: Pestiv 25.8 25 0.00053 31.2 0.2 21 199-220 164-184 (200)
200 TIGR03433 padR_acidobact trans 25.8 77 0.0017 24.8 3.1 42 152-193 37-86 (100)
201 COG1592 Rubrerythrin [Energy p 25.7 35 0.00075 30.0 1.1 24 197-220 134-158 (166)
202 PHA02325 hypothetical protein 25.6 28 0.00062 25.9 0.5 11 212-222 4-14 (72)
203 PF08679 DsrD: Dissimilatory s 25.5 76 0.0016 23.8 2.7 34 149-182 29-65 (67)
204 PF14632 SPT6_acidic: Acidic N 25.2 39 0.00084 26.8 1.2 10 277-287 80-89 (92)
205 TIGR01384 TFS_arch transcripti 25.1 26 0.00056 27.6 0.2 27 198-224 1-29 (104)
206 PRK11512 DNA-binding transcrip 25.1 3.4E+02 0.0074 22.2 7.0 94 3-109 37-143 (144)
207 KOG2857 Predicted MYND Zn-fing 24.9 36 0.00077 29.3 1.0 23 198-222 6-28 (157)
208 PF12172 DUF35_N: Rubredoxin-l 24.9 11 0.00024 24.3 -1.7 23 197-219 11-33 (37)
209 TIGR02719 repress_PhaQ poly-be 24.9 74 0.0016 27.0 2.9 43 152-194 55-105 (138)
210 COG1885 Uncharacterized protei 24.7 41 0.00089 27.4 1.3 14 210-223 48-61 (115)
211 PRK14559 putative protein seri 24.7 29 0.00062 36.7 0.5 24 197-222 15-38 (645)
212 PF01406 tRNA-synt_1e: tRNA sy 24.7 1.7E+02 0.0036 28.2 5.6 102 50-185 34-135 (300)
213 PRK09263 anaerobic ribonucleos 24.7 61 0.0013 34.7 2.9 39 181-219 617-667 (711)
214 PF14835 zf-RING_6: zf-RING of 24.6 32 0.00069 25.7 0.6 12 212-223 41-53 (65)
215 PF14319 Zn_Tnp_IS91: Transpos 24.6 25 0.00054 28.6 -0.0 41 180-220 19-69 (111)
216 PF10865 DUF2703: Domain of un 24.3 56 0.0012 27.1 2.0 29 40-68 20-48 (120)
217 PF05158 RNA_pol_Rpc34: RNA po 24.2 47 0.001 32.1 1.8 112 63-176 130-260 (327)
218 PF04502 DUF572: Family of unk 24.0 22 0.00047 34.2 -0.5 24 199-222 42-88 (324)
219 TIGR00100 hypA hydrogenase nic 24.0 26 0.00056 28.6 0.0 24 197-220 70-95 (115)
220 PRK03341 arginine repressor; P 23.9 4.3E+02 0.0094 23.1 7.7 63 6-81 15-78 (168)
221 PRK14138 NAD-dependent deacety 23.8 33 0.00071 31.5 0.6 65 152-219 72-151 (244)
222 PF08280 HTH_Mga: M protein tr 23.7 1.7E+02 0.0036 20.6 4.2 44 7-58 6-49 (59)
223 PRK11827 hypothetical protein; 23.7 18 0.0004 26.4 -0.8 28 196-223 7-38 (60)
224 PRK04214 rbn ribonuclease BN/u 23.7 86 0.0019 31.0 3.6 32 150-181 320-351 (412)
225 KOG4218 Nuclear hormone recept 23.7 32 0.00068 33.8 0.5 27 196-222 31-78 (475)
226 PRK10857 DNA-binding transcrip 23.6 4.3E+02 0.0093 22.7 7.6 44 150-193 35-84 (164)
227 COG3813 Uncharacterized protei 23.6 47 0.001 25.4 1.3 24 197-222 29-52 (84)
228 KOG2463 Predicted RNA-binding 23.5 20 0.00042 34.9 -0.9 25 196-220 241-266 (376)
229 PRK08579 anaerobic ribonucleos 23.5 45 0.00096 35.2 1.6 39 181-219 543-590 (625)
230 KOG3816 Cell differentiation r 23.3 38 0.00083 33.7 1.0 15 211-225 439-453 (526)
231 PF13878 zf-C2H2_3: zinc-finge 23.3 30 0.00066 23.1 0.2 19 211-229 13-31 (41)
232 COG5222 Uncharacterized conser 23.3 88 0.0019 30.3 3.4 56 173-228 233-330 (427)
233 TIGR02589 cas_Csd2 CRISPR-asso 23.2 1.1E+02 0.0023 29.2 4.0 34 74-111 180-213 (284)
234 PHA02929 N1R/p28-like protein; 23.1 41 0.00089 31.1 1.1 15 211-225 216-230 (238)
235 TIGR02787 codY_Gpos GTP-sensin 23.1 3.4E+02 0.0074 25.5 7.1 37 150-186 208-249 (251)
236 COG1867 TRM1 N2,N2-dimethylgua 23.0 31 0.00067 34.1 0.3 27 196-222 239-268 (380)
237 PRK08271 anaerobic ribonucleos 22.8 45 0.00098 35.1 1.5 39 181-219 541-588 (623)
238 PRK12380 hydrogenase nickel in 22.5 31 0.00067 28.1 0.2 24 197-220 70-95 (113)
239 cd04894 ACT_ACR-like_1 ACT dom 22.4 92 0.002 23.3 2.6 30 55-84 20-49 (69)
240 PHA02975 hypothetical protein; 22.3 84 0.0018 23.7 2.4 32 27-58 2-33 (69)
241 PF04135 Nop10p: Nucleolar RNA 22.3 45 0.00098 23.8 1.0 30 198-229 6-35 (53)
242 PF08792 A2L_zn_ribbon: A2L zi 22.1 19 0.00041 23.1 -0.9 27 196-222 2-32 (33)
243 KOG2907 RNA polymerase I trans 22.1 38 0.00081 28.0 0.6 28 196-223 6-37 (116)
244 PF10415 FumaraseC_C: Fumarase 21.9 87 0.0019 22.2 2.4 25 7-31 24-48 (55)
245 smart00862 Trans_reg_C Transcr 21.9 3E+02 0.0064 19.4 6.6 55 3-60 5-62 (78)
246 cd00729 rubredoxin_SM Rubredox 21.8 33 0.00071 22.0 0.2 23 198-220 3-27 (34)
247 TIGR00155 pqiA_fam integral me 21.8 55 0.0012 32.5 1.8 30 196-225 214-244 (403)
248 PF10264 Stork_head: Winged he 21.7 1.3E+02 0.0027 23.4 3.4 30 153-182 50-79 (80)
249 PRK10141 DNA-binding transcrip 21.7 3.9E+02 0.0085 21.8 6.6 33 151-183 41-76 (117)
250 COG0735 Fur Fe2+/Zn2+ uptake r 21.5 1.5E+02 0.0033 24.9 4.3 83 90-206 16-102 (145)
251 cd01412 SIRT5_Af1_CobB SIRT5_A 21.3 39 0.00084 30.3 0.6 65 153-221 63-140 (224)
252 COG0777 AccD Acetyl-CoA carbox 21.0 26 0.00057 33.3 -0.6 28 196-223 27-59 (294)
253 KOG4628 Predicted E3 ubiquitin 21.0 72 0.0016 31.3 2.4 14 211-224 267-280 (348)
254 PF04492 Phage_rep_O: Bacterio 20.9 4.1E+02 0.0089 21.2 6.4 69 75-172 14-86 (100)
255 COG1497 Predicted transcriptio 20.8 1.3E+02 0.0029 28.1 4.0 45 150-194 35-86 (260)
256 PRK15103 paraquat-inducible me 20.6 58 0.0013 32.5 1.7 28 196-223 220-247 (419)
257 PTZ00111 DNA replication licen 20.5 1E+03 0.022 26.6 11.0 133 20-179 767-910 (915)
258 KOG2930 SCF ubiquitin ligase, 20.5 58 0.0013 26.6 1.4 15 211-225 97-111 (114)
259 PF09889 DUF2116: Uncharacteri 20.5 8 0.00017 28.2 -3.3 8 213-220 5-12 (59)
260 PF10235 Cript: Microtubule-as 20.4 36 0.00079 26.9 0.2 21 197-217 44-65 (90)
261 COG2260 Predicted Zn-ribbon RN 20.4 60 0.0013 23.7 1.3 31 197-229 5-35 (59)
262 PHA02844 putative transmembran 20.2 98 0.0021 23.7 2.5 32 27-58 2-33 (75)
263 PF13901 DUF4206: Domain of un 20.2 31 0.00066 30.9 -0.3 14 211-224 172-185 (202)
264 PLN02915 cellulose synthase A 20.1 78 0.0017 35.3 2.6 27 197-223 42-69 (1044)
265 cd04761 HTH_MerR-SF Helix-Turn 20.1 2E+02 0.0043 18.6 3.8 32 158-189 14-47 (49)
266 COG1328 NrdD Oxygen-sensitive 20.1 44 0.00096 35.7 0.8 70 150-219 582-663 (700)
267 PF09862 DUF2089: Protein of u 20.1 19 0.0004 29.7 -1.6 25 200-224 1-25 (113)
268 COG5243 HRD1 HRD ubiquitin lig 20.0 98 0.0021 30.9 3.0 10 211-220 334-343 (491)
No 1
>PF07574 SMC_Nse1: Nse1 non-SMC component of SMC5-6 complex; InterPro: IPR011513 Saccharomyces cerevisiae Nse1 (Q07913 from SWISSPROT) forms part of a complex with SMC5-SMC6. This non-structural maintenance of chromosomes (SMC) complex plays an essential role in genomic stability, being involved in DNA repair and DNA metabolism [, ]. It is conserved in eukaryotes from yeast to human.; PDB: 3NW0_A.
Probab=100.00 E-value=7.1e-48 Score=343.22 Aligned_cols=181 Identities=34% Similarity=0.442 Sum_probs=129.0
Q ss_pred hhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCC------CCCchhhHHHHHHHHHhcccccCcEEEEeee-cCCCeEEEEE
Q 022691 6 WKHHALVQALMTRGPLKEKDFHAIFSGLTGKS------PGAHQGLFNEYLLNINKELSSCQFELRACRD-QYVGQVCYGV 78 (293)
Q Consensus 6 ~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~------p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~-q~~g~~~y~l 78 (293)
|+||+||||||+||+|++++++++|+.+++.. +..+.+.|++||++||.+|+||+|+|++++| |.+|++||||
T Consensus 1 d~hR~fLQaimsrg~ls~~~~~~l~~~i~~~~~~~~~~~~~~~~~l~~~I~~IN~~L~~l~~~Ir~~~~~q~~g~~~y~l 80 (200)
T PF07574_consen 1 DVHRAFLQAIMSRGILSEEEAKKLLAKICEAHGDETPNEQITEDDLDEFINEINSKLSPLDFEIRRIRDGQPDGERYYAL 80 (200)
T ss_dssp HHHHHHHHHHHHSSEEEHHHHHHHHHHHHHH--------------HHHHHHHHHHHHGGGTEEEEEEE--TTT--EEEEE
T ss_pred ChhHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCCccccchhhHHHHHHHHHHHHHhhhhcCcEEEEEeccCCCCCEEEEE
Confidence 68999999999999999999999999998721 1135678999999999999999999999999 9999999999
Q ss_pred EeccCchhhhcCCCCCHHHHHHHHHHHHHHHhcccCCcccch----HHHHHHHhh----hhhh----ccccccccCCCCC
Q 022691 79 VNNVADEQSKLGTKYTVQQIAFFKGILEAIAQDVMAQGSISN----IEALNIRLE----NLVL----STQGSQLLNGPLP 146 (293)
Q Consensus 79 VN~~sDe~tklAT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss----~~aLnl~~~----~q~~----~~~~~q~~~s~l~ 146 (293)
||+.+|+++|+||+|+++||+|||++||+|+.+++ +..+. +.+++.... .... ....+++.+++.+
T Consensus 81 VN~~~D~~sklaT~ys~~Ei~ffK~lle~I~~~~~--~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 158 (200)
T PF07574_consen 81 VNTSSDEISKLATTYSPNEIAFFKKLLEEIVESEN--TSRSESASSIMALNEVQAIKLKRPGDPSQWTQGVSYAGGSTQL 158 (200)
T ss_dssp EESSS-TTHHHHTTS-HHHHHHHHHHHHHHHHSSS--S-EEH----HHHHGGGTT-SSS---H-----------------
T ss_pred EeCCCCHHHHhcCCCCHHHHHHHHHHHHHHHhCCC--CceehhhHHHHHHHHHHHHHHhccCcccccccccccccccccc
Confidence 99999999999999999999999999999999644 34443 666655210 0000 0001122223334
Q ss_pred cccCCCCHHHHHHHHHHHHHCCcccccCCccEEeccchhhch
Q 022691 147 AAFRNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDL 188 (293)
Q Consensus 147 ~~~~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL 188 (293)
++.++|++++||.+|++||++|||+++++|+|+||||+|+||
T Consensus 159 ~~~~~L~~~eae~lL~~lv~~gWl~~s~~G~y~L~~Ral~EL 200 (200)
T PF07574_consen 159 AQDKGLSKSEAESLLDRLVEDGWLYRSREGFYSLGPRALLEL 200 (200)
T ss_dssp --------HHHHHHHHHHHHTTSE-EEETTEEEE-HHHHHHH
T ss_pred cccccchHHHHHHHHHHHHHCCCceeCCCCEEEEChHHHhcC
Confidence 567899999999999999999999999999999999999998
No 2
>KOG4718 consensus Non-SMC (structural maintenance of chromosomes) element 1 protein (NSE1) [Chromatin structure and dynamics]
Probab=100.00 E-value=6.7e-45 Score=320.07 Aligned_cols=207 Identities=24% Similarity=0.362 Sum_probs=178.6
Q ss_pred CCchhhHHHHHHHHhCCCCCHHHHHHHHHHhhC--CCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEe
Q 022691 3 SLNWKHHALVQALMTRGPLKEKDFHAIFSGLTG--KSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVN 80 (293)
Q Consensus 3 ~~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~--~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN 80 (293)
.+.|+|+.+||++|+++.+.+-+...+-..+.- ..| .+.+.+.+||++||..|+.|+++|++++++++|+.||||||
T Consensus 2 ~lvdkh~~~lq~im~~l~leg~d~ir~~~~~~~v~~~~-g~k~~~edfinein~~lhnld~~ikr~~~~~dgr~~lvyvN 80 (235)
T KOG4718|consen 2 ELVDKHFLRLQKIMSYLSLEGIDDIRAPLCANHVTTKP-GSKEAIEDFINEINDTLHNLDQLIKRIKYPVDGREYLVYVN 80 (235)
T ss_pred chhHHHHHHHHHHHHHhhhhhhhhhhhhchhccccccc-chHhHHHHHHHHHHHHHhhhhhhheeeeecCCCceEEEEEe
Confidence 467899999999999999987776655432221 222 46789999999999999999999999999999999999999
Q ss_pred ccCchhhhcCCCCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHH
Q 022691 81 NVADEQSKLGTKYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKT 160 (293)
Q Consensus 81 ~~sDe~tklAT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~l 160 (293)
+.+++++||||+|+++||+||||+||.|+.+. +.+..+++..++++. | .+.++|+++++|++
T Consensus 81 la~tp~SkmaT~f~~nEielfrkalE~im~se-d~~~asst~~~~~vl----------q-------~k~k~L~ks~iE~l 142 (235)
T KOG4718|consen 81 LAATPDSKMATGFTANEIELFRKALEKIMSSE-DCHIASSTAYNDIVL----------Q-------AKSKPLKKSRIEEL 142 (235)
T ss_pred cCCChhHHhcCCCCHHHHHHHHHHHHHHHhhh-HhhhHHHHHHHHHHH----------H-------HhcCCCCHHHHHHH
Confidence 99999999999999999999999999999941 345555554444431 1 14578999999999
Q ss_pred HHHHHHCCcccccCCccEEeccchhhchHhHHhcC---CCCCchhhhhHHHhC---------------------CCCCCC
Q 022691 161 LDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRNL---DVPFCEVCNEAVVKG---------------------EILCPR 216 (293)
Q Consensus 161 L~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~~---~i~~C~~Ck~iv~~g---------------------~~~CP~ 216 (293)
|++|+++|||.+ .+|.|+|+||||+||+.||.++ .++.|.+|+.+|++| ...||+
T Consensus 143 Lqkf~q~gwf~e-~eg~ftl~~ralaELe~YL~s~y~dnlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~q~~~~cph 221 (235)
T KOG4718|consen 143 LQKFIQMGWFME-VEGRFTLGPRALAELEFYLSSNYADNLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYLQRRDICPH 221 (235)
T ss_pred HHHHHHhchhhe-ecceEEEchHHHHHHHHHHHhhhHHHHHHHhHhHHHhheeeccCcccchhhhHHHHHHhcccCcCCc
Confidence 999999999999 9999999999999999999995 799999999999998 779999
Q ss_pred CCCCCCCCCCCcc
Q 022691 217 CGLRWPNQVPKAE 229 (293)
Q Consensus 217 C~~~W~~~~~~~~ 229 (293)
|+.-|++.++.+.
T Consensus 222 c~d~w~h~I~~v~ 234 (235)
T KOG4718|consen 222 CGDLWTHPIRRVI 234 (235)
T ss_pred hhcccCccccccc
Confidence 9999999988654
No 3
>PF01454 MAGE: MAGE family; InterPro: IPR002190 The first mammalian members of the MAGE (melanoma-associated antigen) gene family were originally described as completely silent in normal adult tissues, with the exception of male germ cells and, for some of them, placenta. By contrast, these genes were expressed in various kinds of tumors. However, other members of the family were recently found to be expressed in normal cells, indicating that the family is larger and more disparate than initially expected. MAGE-like genes have also been identified in non-mammalian species, including Drosophila melanogaster (Fruit fly) and Danio rerio (Zebrafish). Although no MAGE homologous sequences have been identified in Caenorhabditis elegans, Saccharomyces cerevisiae (Baker's yeast) or Schizosaccharomyces pombe (Fission yeast), MAGE sequences have been found in several vegetal species, including Arabidopsis thaliana (Mouse-ear cress) []. The only region of homology shared by all of the members of the family is a stretch of about 200 amino acids which has been named the MAGE conserved domain. The MAGE conserved domain is usually located close to the C-terminal, although it can also be found in a more central position in some proteins. The MAGE conserved domain is generally present as a single copy but it is duplicated in some proteins. It has been proposed that the MAGE conserved domain of MAGE-D proteins might interact with p75 neurotrophin or related receptors [].; PDB: 3NW0_B 2WA0_A 1I4F_C.
Probab=98.05 E-value=1.5e-05 Score=70.42 Aligned_cols=161 Identities=20% Similarity=0.210 Sum_probs=89.4
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccc-cCcEEEEeeec-------------CCCeE
Q 022691 9 HALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSS-CQFELRACRDQ-------------YVGQV 74 (293)
Q Consensus 9 R~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~-l~~eIr~~~~q-------------~~g~~ 74 (293)
|++|-.-..+.++.-++..+.+. +. ....|..++..+|..|.. |||+++.+... .++..
T Consensus 3 R~~L~~~~~k~pI~r~~i~k~v~---~~----~~~~f~~v~~~a~~~L~~vFG~eL~ev~~~~~~~~~~~~~~~~~~~~~ 75 (195)
T PF01454_consen 3 RYLLFKEQKKQPIRRSDILKKVL---KE----YRRKFPEVFERANEILEDVFGFELVEVPPKKKDKKRASKKSKKSSSSK 75 (195)
T ss_dssp HHHHHHHHCT--EEHHHHHHHTT---CC----GGGGHHHHHHHHHHHHHHHH-EEEEESSTT-----------------S
T ss_pred HHHHHHHhCCCCccHHHHHHHHh---HH----HHHHhHHHHHHHHHHHHHHhceEEEEeCCcccccccccccccccccCC
Confidence 33444444466666665554322 11 257789999999999996 89999999654 12478
Q ss_pred EEEEEeccCchhh-hcCCCCCHH----HHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCccc
Q 022691 75 CYGVVNNVADEQS-KLGTKYTVQ----QIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAF 149 (293)
Q Consensus 75 ~y~lVN~~sDe~t-klAT~yt~~----EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~ 149 (293)
.|+|+|+.+.+.. .+......+ ...|+--+|-.|+.+ .+.|+..+.++.... -. ..... ..
T Consensus 76 ~yiL~n~L~~~~~~~~~~~~~~~~~~~~~Gll~~IL~lI~~~---g~~i~E~~L~~~L~~-lg--i~~~~--------~~ 141 (195)
T PF01454_consen 76 SYILVNTLPPEYRNELSDDSETPSNLAKTGLLMLILSLIFMS---GNSISEDDLWKFLRR-LG--IDEDE--------KH 141 (195)
T ss_dssp EEEEEEGCG-S---------SSH----HHHHHHHHHHHHHHC---TT-EEHHHHHHHHHH-TT----TTS---------B
T ss_pred EEEEEecCCCccceeecCCCCCchhHhHhhHHHHHHHHHHhc---CCccCHHHHHHHHHh-cC--CCccc--------cC
Confidence 9999999887743 355555444 888899999999984 568999888775311 00 00000 11
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-----C-c----cEEeccchhhchHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-----D-G----KIGLGVRSCLDLRG 190 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-----~-G----~y~Lg~RallEL~~ 190 (293)
..+.+.-.+.+++.||+++||.+.. + + .|.+|||+.+|+-.
T Consensus 142 ~~~g~~~~~~i~~~~vkq~YL~~~k~~~~~~~~~~~~~y~~G~Ra~~E~~k 192 (195)
T PF01454_consen 142 PILGMDIKKLILKEFVKQGYLVRYKQVPNSDPEEYEFSYSWGPRAKAEFSK 192 (195)
T ss_dssp TTTB--HHHHHHCHHHHCTSE-EEE----------EEEE---HHHHCC--H
T ss_pred ccCCCCHHHHHHHHHHHhcCHHheeecCCCCCCceEEEeCCcCchhhccCc
Confidence 2233333344459999999995422 1 1 37789999999753
No 4
>PF08746 zf-RING-like: RING-like domain; InterPro: IPR014857 This is a zinc finger domain that is related to the C3HC4 RING finger domain (IPR001841 from INTERPRO). ; PDB: 3NW0_A 2CT0_A.
Probab=94.80 E-value=0.0039 Score=42.51 Aligned_cols=23 Identities=39% Similarity=1.038 Sum_probs=13.4
Q ss_pred chhhhhHHHhCCCCCC--CCCCCCCC
Q 022691 200 CEVCNEAVVKGEILCP--RCGLRWPN 223 (293)
Q Consensus 200 C~~Ck~iv~~g~~~CP--~C~~~W~~ 223 (293)
|++|++||++|. +|| .|+..|+.
T Consensus 1 C~~C~~iv~~G~-~C~~~~C~~r~H~ 25 (43)
T PF08746_consen 1 CEACKEIVTQGQ-RCSNRDCNVRLHD 25 (43)
T ss_dssp -TTT-SB-SSSE-E-SS--S--EE-H
T ss_pred CcccchhHeeec-cCCCCccCchHHH
Confidence 899999999997 888 49888873
No 5
>KOG4562 consensus Uncharacterized conserved protein (tumor-rejection antigen MAGE in humans) [Function unknown]
Probab=94.56 E-value=0.57 Score=45.29 Aligned_cols=129 Identities=14% Similarity=0.142 Sum_probs=85.7
Q ss_pred hhhHHHHHHHHHhcccc-cCcEEEEeeecCCCeEEEEEEeccCchhhh-cCCCCCHHHHHHHHHHHHHHHhcccCCcccc
Q 022691 42 QGLFNEYLLNINKELSS-CQFELRACRDQYVGQVCYGVVNNVADEQSK-LGTKYTVQQIAFFKGILEAIAQDVMAQGSIS 119 (293)
Q Consensus 42 ~~~l~~~I~~IN~~L~~-l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk-lAT~yt~~EI~ffK~lLe~I~~~~~~~g~Is 119 (293)
.+.|-.++......|.- |+++++.+ +.....|+|||+..-+... |++...-+-.-|+=-||--||..+ .+++
T Consensus 148 ~d~fp~I~~ras~~le~vfg~~l~ev---d~~~hsyvLv~~L~~~~~~~l~~~~~~Pk~GlLm~iL~iIf~~G---n~a~ 221 (329)
T KOG4562|consen 148 KDHFPEIFKRASECLELVFGIDLKEV---DPASHSYVLVSKLGLTYDGLLSDDQGMPKTGLLMIILGIIFMKG---NCAP 221 (329)
T ss_pred hhhhHHHHHHHhhhhhhhcccceeec---cCCcceEEEeecCCcccccccccCCCccccchHHHHHHHHHhcC---CCCc
Confidence 35567777777777774 78888877 2223499999997754433 578888888899999999999853 4788
Q ss_pred hHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHH-HHHHHHHHHCCccccc----CCc---cEEeccchhhchH
Q 022691 120 NIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQK-EKTLDEFVQDQWLCCT----PDG---KIGLGVRSCLDLR 189 (293)
Q Consensus 120 s~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~sea-E~lL~~Lv~~gWL~~s----~~G---~y~Lg~RallEL~ 189 (293)
...+.+.... . +.+. ..+.+---+. +-+.+.||+++||.+- .++ .|-.||||.+|.-
T Consensus 222 Ee~iWe~L~~--l----Gv~~-------g~~H~ifGeprkLiT~dlVqq~YLeYr~Vp~sdP~~YEFlWGpRA~~Ets 286 (329)
T KOG4562|consen 222 EEEIWEVLRR--L----GVYD-------GREHSIFGEPRKLLTQDLVQEKYLEYRQVPDSDPPRYEFLWGPRAHAETS 286 (329)
T ss_pred HHHHHHHHHH--h----cCCC-------CccccccCChHHHHHHHHHHhhceeeeecCCCCCCceEEeecccchhhHH
Confidence 8887765210 0 0111 0111222233 3466899999999841 122 6779999999964
No 6
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=92.73 E-value=0.057 Score=33.01 Aligned_cols=25 Identities=28% Similarity=0.825 Sum_probs=22.1
Q ss_pred CCchhhhhHHHhCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLRWP 222 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~W~ 222 (293)
+.|-.|...|-.....||+|+..|.
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~~F~ 25 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGYDFE 25 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCCCCc
Confidence 5789999999999999999998885
No 7
>PF06163 DUF977: Bacterial protein of unknown function (DUF977); InterPro: IPR010382 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=91.86 E-value=0.72 Score=38.64 Aligned_cols=70 Identities=14% Similarity=0.187 Sum_probs=55.8
Q ss_pred cCCCCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCC
Q 022691 89 LGTKYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQ 168 (293)
Q Consensus 89 lAT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~g 168 (293)
||-.||++|-+-++.-|-+++-. .|-++-.++..+. +++-.-+..+|..||+.|
T Consensus 1 Ma~~~T~eer~eLk~rIvElVRe---~GRiTi~ql~~~T-----------------------GasR~Tvk~~lreLVa~G 54 (127)
T PF06163_consen 1 MARVFTPEEREELKARIVELVRE---HGRITIKQLVAKT-----------------------GASRNTVKRYLRELVARG 54 (127)
T ss_pred CCCcCCHHHHHHHHHHHHHHHHH---cCCccHHHHHHHH-----------------------CCCHHHHHHHHHHHHHcC
Confidence 67889999999999888888873 6888888876553 567888999999999999
Q ss_pred cccccCCccEE--eccchhh
Q 022691 169 WLCCTPDGKIG--LGVRSCL 186 (293)
Q Consensus 169 WL~~s~~G~y~--Lg~Rall 186 (293)
=|+. .|+|+ .+-|+..
T Consensus 55 ~l~~--~G~~GvF~seqA~~ 72 (127)
T PF06163_consen 55 DLYR--HGRSGVFPSEQARK 72 (127)
T ss_pred CeEe--CCCccccccHHHHH
Confidence 9997 45443 4666665
No 8
>smart00346 HTH_ICLR helix_turn_helix isocitrate lyase regulation.
Probab=91.13 E-value=1.5 Score=33.15 Aligned_cols=44 Identities=11% Similarity=0.188 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhchHhHHhc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDLRGWFRN 194 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL~~yL~~ 194 (293)
+++.+-+-..|+.|++.||+.+.. +|.|.||++.+---..|+..
T Consensus 31 ~i~~~tv~r~l~~L~~~g~l~~~~~~~~y~l~~~~~~~~~~~~~~ 75 (91)
T smart00346 31 GLSKSTAHRLLNTLQELGYVEQDGQNGRYRLGPKVLELGQSYLSS 75 (91)
T ss_pred CCCHHHHHHHHHHHHHCCCeeecCCCCceeecHHHHHHHHHHHhc
Confidence 678889999999999999999863 67999999976544555543
No 9
>TIGR02431 pcaR_pcaU beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family. Member of this family are IclR-type transcriptional regulators with similar DNA binding sites, able to bind at least three different metabolites related to protocatechuate metabolism. Beta-ketoadipate is the inducer for PcaR, p-hydroxybenzoate for PobR, and protocatechuate for PcaU.
Probab=91.01 E-value=0.57 Score=42.70 Aligned_cols=39 Identities=18% Similarity=0.119 Sum_probs=33.7
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccchhhchHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRG 190 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~ 190 (293)
.+|+++-+-.+|..|++.||+.+ .+|.|.||++ +++|..
T Consensus 34 lglpksT~~RlL~tL~~~G~l~~-~~~~Y~lG~~-~~~lg~ 72 (248)
T TIGR02431 34 TGLTRAAARRFLLTLVELGYVTS-DGRLFWLTPR-VLRLGY 72 (248)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEe-CCCEEEecHH-HHHHHH
Confidence 47899999999999999999998 5789999998 566644
No 10
>PF07848 PaaX: PaaX-like protein; InterPro: IPR012906 This entry describes the N-terminal region of proteins that are similar to, and nclude, the product of the paaX gene of Escherichia coli (P76086 from SWISSPROT). PaaX is a transcriptional regulator that is always found in association with operons believed to be involved in the degradation of phenylacetic acid []. The gene product has been shown to bind to the promoter sites and repress their transcription []. ; PDB: 3KFW_X 3L09_B.
Probab=90.82 E-value=1.1 Score=33.74 Aligned_cols=33 Identities=24% Similarity=0.349 Sum_probs=26.9
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc---cEEeccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG---KIGLGVR 183 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G---~y~Lg~R 183 (293)
+++..-+-..|.+|+++|||...+.| +|.|++|
T Consensus 34 Gv~e~avR~alsRl~~~G~L~~~r~Gr~~~Y~Lt~~ 69 (70)
T PF07848_consen 34 GVSESAVRTALSRLVRRGWLESERRGRRSYYRLTER 69 (70)
T ss_dssp T--HHHHHHHHHHHHHTTSEEEECCCTEEEEEE-HH
T ss_pred CCChHHHHHHHHHHHHcCceeeeecCccceEeeCCC
Confidence 56677778999999999999998888 8999986
No 11
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=90.70 E-value=0.85 Score=40.24 Aligned_cols=74 Identities=12% Similarity=0.185 Sum_probs=52.6
Q ss_pred CCCCHHHHHHHHHHHHHCCccccc--C---Cc----cEEeccchhhchHhHHhc---------------CCCCCchhhhh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCT--P---DG----KIGLGVRSCLDLRGWFRN---------------LDVPFCEVCNE 205 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s--~---~G----~y~Lg~RallEL~~yL~~---------------~~i~~C~~Ck~ 205 (293)
.+++..++-..|.+|.++|..... + .| .|.|.+.-+.+.-.|=.. +.-..|..|+.
T Consensus 46 Lgi~~~~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~~~~i~d~ik~~~~~~~~klk~~l~~e~~~~~Y~Cp~C~~ 125 (178)
T PRK06266 46 TGIKLNTVRKILYKLYDARLADYKREKDEETNWYTYTWKPELEKLPEIIKKKKMEELKKLKEQLEEEENNMFFFCPNCHI 125 (178)
T ss_pred HCCCHHHHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeCHHHHHHHHHHHHHHHHHHHHHHhhhccCCCEEECCCCCc
Confidence 578999999999999999999822 2 24 345766666665554432 24667999986
Q ss_pred HH-----HhCCCCCCCCCCCCCC
Q 022691 206 AV-----VKGEILCPRCGLRWPN 223 (293)
Q Consensus 206 iv-----~~g~~~CP~C~~~W~~ 223 (293)
-. +.....||.|+..--.
T Consensus 126 rytf~eA~~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 126 RFTFDEAMEYGFRCPQCGEMLEE 148 (178)
T ss_pred EEeHHHHhhcCCcCCCCCCCCee
Confidence 53 3347899999987654
No 12
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=89.61 E-value=1.9 Score=30.50 Aligned_cols=33 Identities=18% Similarity=0.233 Sum_probs=28.6
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEecc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGV 182 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~ 182 (293)
-+++..-+...|+.|++.||+.....|.|.|+|
T Consensus 35 ~g~s~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 35 LGLTRETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 367888999999999999999985568999876
No 13
>PRK11569 transcriptional repressor IclR; Provisional
Probab=89.33 E-value=0.92 Score=42.15 Aligned_cols=38 Identities=13% Similarity=0.201 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhch
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDL 188 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL 188 (293)
.+|.++-+-.+|..|++.|||.+.. .|.|.||+|. ++|
T Consensus 53 lglpksTv~RlL~tL~~~G~l~~~~~~~~Y~lG~~l-~~L 91 (274)
T PRK11569 53 AGLPNSTTHRLLTTMQQQGFVRQVGELGHWAIGAHA-FIV 91 (274)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEEcCCCCeEecCHHH-HHH
Confidence 4788999999999999999998754 5899999996 444
No 14
>PRK15090 DNA-binding transcriptional regulator KdgR; Provisional
Probab=88.82 E-value=1 Score=41.23 Aligned_cols=39 Identities=13% Similarity=0.117 Sum_probs=32.8
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhchH
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDLR 189 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL~ 189 (293)
.+|+++-+-.+|..|++.||+.+.. +|.|.||++. ++|.
T Consensus 38 lgl~kstv~Rll~tL~~~G~l~~~~~~~~Y~lG~~~-~~lg 77 (257)
T PRK15090 38 VMMSKSTVYRFLQTMKTLGYVAQEGESEKYSLTLKL-FELG 77 (257)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEEcCCCCcEEecHHH-HHHH
Confidence 4788999999999999999998854 5899999996 3444
No 15
>PRK10163 DNA-binding transcriptional repressor AllR; Provisional
Probab=88.76 E-value=1.1 Score=41.52 Aligned_cols=42 Identities=10% Similarity=0.123 Sum_probs=34.2
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhchHhHH
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDLRGWF 192 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL~~yL 192 (293)
.+++++-+-.+|..|++.|||.+.. .|.|.||+|.+. |...+
T Consensus 50 lglpkStv~RlL~tL~~~G~l~~~~~~~~Y~lG~~l~~-Lg~~~ 92 (271)
T PRK10163 50 LDLPLSTTFRLLKVLQAADFVYQDSQLGWWHIGLGVFN-VGAAY 92 (271)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEEcCCCCeEEecHHHHH-HHHHH
Confidence 4789999999999999999998854 589999999743 44433
No 16
>COG1414 IclR Transcriptional regulator [Transcription]
Probab=88.41 E-value=0.46 Score=43.71 Aligned_cols=45 Identities=20% Similarity=0.196 Sum_probs=36.5
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhchHhHHhc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDLRGWFRN 194 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL~~yL~~ 194 (293)
.++.++-+-.+|..|++.||+.++. +|.|.||+|.+-==..|+..
T Consensus 29 ~glpksT~~RlL~tL~~~G~v~~d~~~g~Y~Lg~~~~~lg~~~l~~ 74 (246)
T COG1414 29 LGLPKSTVHRLLQTLVELGYVEQDPEDGRYRLGPRLLELGAAALSS 74 (246)
T ss_pred hCcCHHHHHHHHHHHHHCCCEEEcCCCCcEeehHHHHHHHHHHHhc
Confidence 4788999999999999999999987 47999999966444444443
No 17
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=88.13 E-value=0.85 Score=36.45 Aligned_cols=49 Identities=20% Similarity=0.249 Sum_probs=41.5
Q ss_pred CchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhh
Q 022691 40 AHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSK 88 (293)
Q Consensus 40 ~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk 88 (293)
...+.+.+.|..||..+..++-.++...|+.+|..++-++|...+++.+
T Consensus 34 ~~~e~l~~~v~~ln~~~~~~~~~l~F~vde~~~~~vVkViD~~T~eVIR 82 (107)
T PF03646_consen 34 PSKEELEEAVEKLNEFLQALNTSLRFSVDEESGRVVVKVIDKETGEVIR 82 (107)
T ss_dssp --HHHHHHHHHHHHHHHTTSS--EEEEEEEETTEEEEEEEETTT-SEEE
T ss_pred CCHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECCCCcEEE
Confidence 5678999999999999999999999999999999999999999988755
No 18
>PF15615 TerB-C: TerB-C domain
Probab=87.28 E-value=1.2 Score=37.74 Aligned_cols=54 Identities=19% Similarity=0.203 Sum_probs=43.1
Q ss_pred CCchhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccc-cCcEEE
Q 022691 3 SLNWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSS-CQFELR 64 (293)
Q Consensus 3 ~~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~-l~~eIr 64 (293)
.|+..|..||.+|++++-.+-+++..+.... .-.++-+|..||.++-. ||--+.
T Consensus 73 gLd~~~~~lL~~Ll~~~~w~r~e~~~~a~~~--------glm~~~~ie~INE~afd~~gd~vi 127 (144)
T PF15615_consen 73 GLDEEHSALLRALLSRESWSREELEDIARDH--------GLMPDGAIESINEKAFDYFGDPVI 127 (144)
T ss_pred CCCHHHHHHHHHHHhCCCccHHHHHHHHHHc--------CCCHHHHHHHHHHHHHHhcCCeeE
Confidence 5788999999999999999999999887744 23468899999988753 554443
No 19
>PRK09834 DNA-binding transcriptional activator MhpR; Provisional
Probab=86.22 E-value=2 Score=39.61 Aligned_cols=44 Identities=9% Similarity=0.185 Sum_probs=34.9
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-CccEEeccchhhchHhHHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-DGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~G~y~Lg~RallEL~~yL~ 193 (293)
.+++++-+-.+|+.|++.||+.+.. .|.|.||+|.+-=-..|+.
T Consensus 36 lgl~kstv~RlL~tL~~~g~v~~~~~~~~Y~Lg~~~~~l~~~~~~ 80 (263)
T PRK09834 36 TGLHRTTVRRLLETLQEEGYVRRSASDDSFRLTLKVRQLSEGFRD 80 (263)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEEecCCCcEEEcHHHHHHHHhhhc
Confidence 3688999999999999999999864 5899999987653334443
No 20
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=85.77 E-value=2.7 Score=36.30 Aligned_cols=73 Identities=15% Similarity=0.168 Sum_probs=49.7
Q ss_pred CCCCHHHHHHHHHHHHHCCccccc-----CCc----cEEeccchhhchHhHHhc---------------CCCCCchhhhh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCT-----PDG----KIGLGVRSCLDLRGWFRN---------------LDVPFCEVCNE 205 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s-----~~G----~y~Lg~RallEL~~yL~~---------------~~i~~C~~Ck~ 205 (293)
.+++..+.-.+|.+|.++|-.... ..| .|.+.+.-+.+.-.|=.. +.-..|..|+.
T Consensus 38 Lgi~~~~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~Ik~~~~~~~~~lk~~l~~e~~~~~Y~Cp~c~~ 117 (158)
T TIGR00373 38 LGIKLNEVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDVLKRKLEETAKKLREKLEFETNNMFFICPNMCV 117 (158)
T ss_pred HCCCHHHHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHHHHHHHHHHHHHHHHHHhhccCCCeEECCCCCc
Confidence 478899999999999999988432 123 235666665554444321 24667999996
Q ss_pred HHHh-----CCCCCCCCCCCCC
Q 022691 206 AVVK-----GEILCPRCGLRWP 222 (293)
Q Consensus 206 iv~~-----g~~~CP~C~~~W~ 222 (293)
-.+. ....||.|+..-.
T Consensus 118 r~tf~eA~~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 118 RFTFNEAMELNFTCPRCGAMLD 139 (158)
T ss_pred EeeHHHHHHcCCcCCCCCCEee
Confidence 5433 3789999998743
No 21
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=85.16 E-value=1.4 Score=37.38 Aligned_cols=72 Identities=18% Similarity=0.246 Sum_probs=47.7
Q ss_pred CCCCHHHHHHHHHHHHHCCcccc------cC-Cc-----cEEeccchhhchHhHHhc---------------CCCCCchh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCC------TP-DG-----KIGLGVRSCLDLRGWFRN---------------LDVPFCEV 202 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~------s~-~G-----~y~Lg~RallEL~~yL~~---------------~~i~~C~~ 202 (293)
.+|...+.-.+|.+|.++|-... .. .| +|.+..+-+.+.-.|=.. +....|..
T Consensus 25 l~i~~n~vRkiL~~L~ed~~~~~~~~~e~~~~~~~~~~~yw~i~y~~~~~vik~r~~~~~~~L~~~l~~e~~~~~Y~Cp~ 104 (147)
T smart00531 25 LGIKQKQLRKILYLLYDEKLIKIDYKREKDPETKTWYRYYWYINYDTLLDVVKYKLDKMRKRLEDKLEDETNNAYYKCPN 104 (147)
T ss_pred hCCCHHHHHHHHHHHHhhhcchhheeeeeCCCCceEEEEEEEecHHHHHHHHHHHHHHHHHHHHHHHhcccCCcEEECcC
Confidence 36788888899999999766421 11 23 566887777765544332 25778999
Q ss_pred hhhHHHhC----------CCCCCCCCCCC
Q 022691 203 CNEAVVKG----------EILCPRCGLRW 221 (293)
Q Consensus 203 Ck~iv~~g----------~~~CP~C~~~W 221 (293)
|+.....- ...||.|+..-
T Consensus 105 C~~~y~~~ea~~~~d~~~~f~Cp~Cg~~l 133 (147)
T smart00531 105 CQSKYTFLEANQLLDMDGTFTCPRCGEEL 133 (147)
T ss_pred CCCEeeHHHHHHhcCCCCcEECCCCCCEE
Confidence 98764321 37899998764
No 22
>PRK08452 flagellar protein FlaG; Provisional
Probab=85.14 E-value=1.7 Score=36.26 Aligned_cols=49 Identities=10% Similarity=0.121 Sum_probs=44.7
Q ss_pred CchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhh
Q 022691 40 AHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSK 88 (293)
Q Consensus 40 ~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk 88 (293)
.....|.+.+.++|..++.++-.++...|+..|..|.=+|+...+++.+
T Consensus 50 ~~~e~l~~~ve~lN~~~~~~~~~L~F~~de~~~~~vVkVvD~~T~eVIR 98 (124)
T PRK08452 50 QLKKKLEELTEKLNEEMKRLDTNIRFGYNDKIKGLVVSVKEANGGKVIR 98 (124)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCceEEEEcCCCCcEEEEEEECCCCceee
Confidence 4567899999999999999999999999999999998899999998766
No 23
>PF10122 Mu-like_Com: Mu-like prophage protein Com; InterPro: IPR019294 Members of this entry belong to the Com family of proteins that act as translational regulators of mom [, ].
Probab=84.51 E-value=0.38 Score=34.06 Aligned_cols=25 Identities=40% Similarity=0.740 Sum_probs=21.2
Q ss_pred CchhhhhHHHhC------CCCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKG------EILCPRCGLRWPN 223 (293)
Q Consensus 199 ~C~~Ck~iv~~g------~~~CP~C~~~W~~ 223 (293)
.|..|+.++.++ +.+||.|++.-+-
T Consensus 6 RC~~CnklLa~~g~~~~leIKCpRC~tiN~~ 36 (51)
T PF10122_consen 6 RCGHCNKLLAKAGEVIELEIKCPRCKTINHV 36 (51)
T ss_pred eccchhHHHhhhcCccEEEEECCCCCccceE
Confidence 599999998883 8899999997654
No 24
>COG4416 Com Mu-like prophage protein Com [General function prediction only]
Probab=83.88 E-value=0.54 Score=33.77 Aligned_cols=23 Identities=35% Similarity=0.735 Sum_probs=19.0
Q ss_pred CchhhhhHHHhC------CCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKG------EILCPRCGLRW 221 (293)
Q Consensus 199 ~C~~Ck~iv~~g------~~~CP~C~~~W 221 (293)
.|..|+.++... ..+||.|+..=
T Consensus 6 RC~~CnKlLa~a~~~~yle~KCPrCK~vN 34 (60)
T COG4416 6 RCAKCNKLLAEAEGQAYLEKKCPRCKEVN 34 (60)
T ss_pred ehHHHhHHHHhcccceeeeecCCccceee
Confidence 599999998665 78999999753
No 25
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=83.06 E-value=2.1 Score=32.78 Aligned_cols=43 Identities=19% Similarity=0.163 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEeccchhhchHhHHh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~ 193 (293)
+++++-.-..|++|++.||+.+.+++.|.|++.+.--+..+..
T Consensus 10 ~is~stvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~~~~~~~ 52 (96)
T smart00529 10 NVSPPTVTQMLKKLEKDGLVEYEPYRGITLTEKGRRLARRLLR 52 (96)
T ss_pred CCChHHHHHHHHHHHHCCCEEEcCCCceEechhHHHHHHHHHH
Confidence 5777888889999999999999887899999987766555543
No 26
>PF14569 zf-UDP: Zinc-binding RING-finger; PDB: 1WEO_A.
Probab=81.74 E-value=0.66 Score=35.71 Aligned_cols=34 Identities=29% Similarity=0.746 Sum_probs=11.1
Q ss_pred CCCchhhhhHHHh-CCCCCCCCCCCCCCCCCCccc
Q 022691 197 VPFCEVCNEAVVK-GEILCPRCGLRWPNQVPKAEI 230 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C~~~W~~~~~~~~~ 230 (293)
-|.|..|.+-=.+ |...||.|++.+....+...+
T Consensus 36 fPvCr~CyEYErkeg~q~CpqCkt~ykr~kgsp~V 70 (80)
T PF14569_consen 36 FPVCRPCYEYERKEGNQVCPQCKTRYKRHKGSPRV 70 (80)
T ss_dssp ----HHHHHHHHHTS-SB-TTT--B----TT----
T ss_pred CccchhHHHHHhhcCcccccccCCCcccccCCCCC
Confidence 3445555544333 488999999998865444443
No 27
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=79.90 E-value=0.6 Score=28.22 Aligned_cols=23 Identities=30% Similarity=0.925 Sum_probs=18.1
Q ss_pred CCchhhhhHHHhCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
..|..|...+-.+...||+|+..
T Consensus 3 ~~Cp~Cg~~~~~~~~fC~~CG~~ 25 (26)
T PF13248_consen 3 MFCPNCGAEIDPDAKFCPNCGAK 25 (26)
T ss_pred CCCcccCCcCCcccccChhhCCC
Confidence 46888888777778899999864
No 28
>PRK07738 flagellar protein FlaG; Provisional
Probab=79.83 E-value=3.6 Score=34.06 Aligned_cols=49 Identities=16% Similarity=0.161 Sum_probs=44.9
Q ss_pred CchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhh
Q 022691 40 AHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSK 88 (293)
Q Consensus 40 ~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk 88 (293)
...+.+.+.+.++|..+..++-.++...|+.+|..+.=+|+..++++.+
T Consensus 43 ~s~eel~~aveklN~~l~~~~~~L~F~vdeet~~~vVkVvD~~T~EVIR 91 (117)
T PRK07738 43 VSKEDLEEVVDGMNELLEPSQTSLKFELHEKLNEYYVQVVDERTNEVIR 91 (117)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECCCCeeee
Confidence 3567899999999999999999999999999999999999999998765
No 29
>COG1321 TroR Mn-dependent transcriptional regulator [Transcription]
Probab=79.16 E-value=35 Score=29.32 Aligned_cols=108 Identities=14% Similarity=0.161 Sum_probs=70.6
Q ss_pred CCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCccc
Q 022691 92 KYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLC 171 (293)
Q Consensus 92 ~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~ 171 (293)
..++.+-.|++.+.+.+-. .|.+...+.-.. -+.++.-+-+.|++|.+.||..
T Consensus 3 ~~s~~~edYL~~Iy~l~~~----~~~~~~~diA~~-----------------------L~Vsp~sVt~ml~rL~~~GlV~ 55 (154)
T COG1321 3 MLSETEEDYLETIYELLEE----KGFARTKDIAER-----------------------LKVSPPSVTEMLKRLERLGLVE 55 (154)
T ss_pred ccchHHHHHHHHHHHHHhc----cCcccHHHHHHH-----------------------hCCCcHHHHHHHHHHHHCCCeE
Confidence 3556666777777765543 566666554222 2456667777999999999999
Q ss_pred ccCCccEEeccchhhc----------hHhHHhc-CCCCCchhhhhHHH----------------hC-CCCCCCCCCCCCC
Q 022691 172 CTPDGKIGLGVRSCLD----------LRGWFRN-LDVPFCEVCNEAVV----------------KG-EILCPRCGLRWPN 223 (293)
Q Consensus 172 ~s~~G~y~Lg~RallE----------L~~yL~~-~~i~~C~~Ck~iv~----------------~g-~~~CP~C~~~W~~ 223 (293)
+.+.|.|.|+...--. |+.||.+ .+++.=.+|.+..- .| -..||+++.-|..
T Consensus 56 ~~~y~gi~LT~~G~~~a~~~~r~hrlle~fL~~~lg~~~~~~~~ea~~leh~~s~~~~~rl~~~l~~~~~~p~g~~i~~~ 135 (154)
T COG1321 56 YEPYGGVTLTEKGREKAKELLRKHRLLERFLVDVLGLDWEEAHEEAEGLEHALSDETAERLDELLGFPTRCPHGKPIEVE 135 (154)
T ss_pred EecCCCeEEChhhHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhCCCccCCCCCccccc
Confidence 9999999999655433 4455554 36666666655521 12 6799999865444
Q ss_pred CCC
Q 022691 224 QVP 226 (293)
Q Consensus 224 ~~~ 226 (293)
...
T Consensus 136 ~~~ 138 (154)
T COG1321 136 GFA 138 (154)
T ss_pred ccc
Confidence 333
No 30
>PRK10220 hypothetical protein; Provisional
Probab=79.13 E-value=0.93 Score=37.05 Aligned_cols=30 Identities=27% Similarity=0.823 Sum_probs=25.8
Q ss_pred CCCCchhhhhHHHhC---CCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG---EILCPRCGLRWPNQV 225 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g---~~~CP~C~~~W~~~~ 225 (293)
.+|.|..|..--++. ...||.|..+|+...
T Consensus 2 ~lP~CP~C~seytY~d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 2 SLPHCPKCNSEYTYEDNGMYICPECAHEWNDAE 34 (111)
T ss_pred CCCcCCCCCCcceEcCCCeEECCcccCcCCccc
Confidence 468999999998875 779999999999775
No 31
>PRK08868 flagellar protein FlaG; Provisional
Probab=78.83 E-value=3.6 Score=35.28 Aligned_cols=49 Identities=10% Similarity=0.082 Sum_probs=45.4
Q ss_pred CchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhh
Q 022691 40 AHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSK 88 (293)
Q Consensus 40 ~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk 88 (293)
...+.+.+.|.+||..+..++-.+....|+.+|+.+.=+|+...+++.+
T Consensus 68 ~~~eel~~aVeklNe~~~~~n~~L~F~vdeetgr~VVkViD~~T~EVIR 116 (144)
T PRK08868 68 LNREELEKMVEQMNEFVKSINKGLSFRVDEESGRDVVTIYEASTGDIIR 116 (144)
T ss_pred cCHHHHHHHHHHHHHHHHhhcCceEEEEecCCCCEEEEEEECCCCceee
Confidence 4678899999999999999999999999999999999999999998765
No 32
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=78.40 E-value=3.3 Score=27.22 Aligned_cols=30 Identities=17% Similarity=0.285 Sum_probs=25.2
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEe
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGL 180 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~L 180 (293)
-+++...+-..|+.|++.||+.. ..|.|.+
T Consensus 18 l~~s~~tv~~~l~~L~~~g~l~~-~~~~~~i 47 (48)
T smart00419 18 LGLTRETVSRTLKRLEKEGLISR-EGGRIVI 47 (48)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEE-eCCEEEE
Confidence 36788889999999999999997 4477776
No 33
>COG2093 DNA-directed RNA polymerase, subunit E'' [Transcription]
Probab=78.00 E-value=0.95 Score=33.42 Aligned_cols=28 Identities=25% Similarity=0.744 Sum_probs=23.5
Q ss_pred CCchhhhhHHHhCCCCCCCCCCC-----CCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLR-----WPNQV 225 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~-----W~~~~ 225 (293)
+-|..|+.++--....||.|+.. |.|-.
T Consensus 5 kAC~~Ck~l~~~d~e~CP~Cgs~~~te~W~G~~ 37 (64)
T COG2093 5 KACKNCKRLTPEDTEICPVCGSTDLTEEWFGLL 37 (64)
T ss_pred HHHhhccccCCCCCccCCCCCCcccchhhccEE
Confidence 46999999998888899999987 88754
No 34
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=77.94 E-value=0.92 Score=37.00 Aligned_cols=30 Identities=30% Similarity=0.857 Sum_probs=25.4
Q ss_pred CCCCchhhhhHHHhC---CCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG---EILCPRCGLRWPNQV 225 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g---~~~CP~C~~~W~~~~ 225 (293)
.+|.|..|..--++- ...||.|..+|....
T Consensus 1 ~lp~CP~C~seytY~dg~~~iCpeC~~EW~~~~ 33 (109)
T TIGR00686 1 DLPPCPKCNSEYTYHDGTQLICPSCLYEWNENE 33 (109)
T ss_pred CCCcCCcCCCcceEecCCeeECccccccccccc
Confidence 368999999987764 779999999999775
No 35
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=77.63 E-value=0.37 Score=30.47 Aligned_cols=26 Identities=31% Similarity=1.002 Sum_probs=13.5
Q ss_pred CCCchhhhhHHHhC---CCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG---EILCPRCGLRWP 222 (293)
Q Consensus 197 i~~C~~Ck~iv~~g---~~~CP~C~~~W~ 222 (293)
++.|..|..--+.- ...||.|+.+|+
T Consensus 2 ~p~Cp~C~se~~y~D~~~~vCp~C~~ew~ 30 (30)
T PF08274_consen 2 LPKCPLCGSEYTYEDGELLVCPECGHEWN 30 (30)
T ss_dssp S---TTT-----EE-SSSEEETTTTEEE-
T ss_pred CCCCCCCCCcceeccCCEEeCCcccccCC
Confidence 57888888875543 668999998884
No 36
>PRK03902 manganese transport transcriptional regulator; Provisional
Probab=76.61 E-value=17 Score=30.14 Aligned_cols=36 Identities=14% Similarity=0.114 Sum_probs=30.5
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEeccchhh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCL 186 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Rall 186 (293)
++++.-+-..|++|.+.||+.+.+.+.|.|++.+..
T Consensus 33 ~vs~~svs~~l~~L~~~Gli~~~~~~~i~LT~~G~~ 68 (142)
T PRK03902 33 SVHPSSVTKMVQKLDKDEYLIYEKYRGLVLTPKGKK 68 (142)
T ss_pred CCChhHHHHHHHHHHHCCCEEEecCceEEECHHHHH
Confidence 567778888999999999998767788999999854
No 37
>COG2824 PhnA Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]
Probab=75.69 E-value=1.1 Score=36.56 Aligned_cols=34 Identities=26% Similarity=0.791 Sum_probs=27.6
Q ss_pred CCCCchhhhhHHHhC---CCCCCCCCCCCCCCCCCcc
Q 022691 196 DVPFCEVCNEAVVKG---EILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g---~~~CP~C~~~W~~~~~~~~ 229 (293)
.+|.|..|+.--++- ...||.|..+|....++.+
T Consensus 2 ~lp~cp~c~sEytYed~~~~~cpec~~ew~~~~~~~~ 38 (112)
T COG2824 2 SLPPCPKCNSEYTYEDGGQLICPECAHEWNENEAAEE 38 (112)
T ss_pred CCCCCCccCCceEEecCceEeCchhcccccccccccc
Confidence 478999998877664 6789999999998777555
No 38
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=75.67 E-value=3.2 Score=29.80 Aligned_cols=28 Identities=29% Similarity=0.437 Sum_probs=23.4
Q ss_pred HHHHHHHHHCCcccccCCccEEeccchhh
Q 022691 158 EKTLDEFVQDQWLCCTPDGKIGLGVRSCL 186 (293)
Q Consensus 158 E~lL~~Lv~~gWL~~s~~G~y~Lg~Rall 186 (293)
...|..|+++||+.. .+|.+.|+++.++
T Consensus 39 ~~~l~~l~~~Gll~~-~~~~l~lT~~G~l 66 (66)
T PF06969_consen 39 QKELEELQEDGLLEI-DGGRLRLTEKGRL 66 (66)
T ss_dssp HHHHHHHHHTTSEEE--SSEEEE-TTTGG
T ss_pred HHHHHHHHHCCCEEE-eCCEEEECcccCc
Confidence 778999999999998 8899999998764
No 39
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=75.16 E-value=6.7 Score=28.37 Aligned_cols=26 Identities=8% Similarity=0.037 Sum_probs=22.7
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG 176 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G 176 (293)
+++.+.+-..|.+|++.||..+...+
T Consensus 33 ~i~~~~v~~~L~~L~~~GlV~~~~~~ 58 (68)
T PF01978_consen 33 GISRSTVYRALKSLEEKGLVEREEGR 58 (68)
T ss_dssp TSSHHHHHHHHHHHHHTTSEEEEEEC
T ss_pred CcCHHHHHHHHHHHHHCCCEEEEcCc
Confidence 68899999999999999999986533
No 40
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=75.04 E-value=1.6 Score=46.16 Aligned_cols=28 Identities=29% Similarity=0.758 Sum_probs=21.0
Q ss_pred CCCCchhhhhH-----HHhC----------------CCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEA-----VVKG----------------EILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~i-----v~~g----------------~~~CP~C~~~W~~ 223 (293)
.+..|.+|+.- +++| .++||.|++.|.-
T Consensus 642 ~~LkCs~Cn~R~Kd~vI~kC~H~FC~~Cvq~r~etRqRKCP~Cn~aFga 690 (698)
T KOG0978|consen 642 ELLKCSVCNTRWKDAVITKCGHVFCEECVQTRYETRQRKCPKCNAAFGA 690 (698)
T ss_pred hceeCCCccCchhhHHHHhcchHHHHHHHHHHHHHhcCCCCCCCCCCCc
Confidence 58889999852 2222 8899999999864
No 41
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=73.38 E-value=1.1 Score=26.53 Aligned_cols=22 Identities=27% Similarity=0.951 Sum_probs=16.2
Q ss_pred CchhhhhHHHhCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 199 ~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
.|..|..-+-.+..+||.|++.
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 4677777777777788888764
No 42
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=72.24 E-value=3.2 Score=29.54 Aligned_cols=34 Identities=9% Similarity=0.074 Sum_probs=23.9
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC---C---ccEEeccc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP---D---GKIGLGVR 183 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~---~---G~y~Lg~R 183 (293)
.++++..+-..|++|++.||+.+.. + ..|.|++.
T Consensus 28 ~~~~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~~ 67 (68)
T PF13463_consen 28 LGISKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTPA 67 (68)
T ss_dssp TT--HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-HH
T ss_pred HCcCHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCCC
Confidence 3577888889999999999997542 2 36888764
No 43
>PHA02943 hypothetical protein; Provisional
Probab=72.22 E-value=26 Score=30.57 Aligned_cols=49 Identities=12% Similarity=0.052 Sum_probs=39.6
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCc---cEEeccchhh--------chHhHHhcCCCC
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDG---KIGLGVRSCL--------DLRGWFRNLDVP 198 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G---~y~Lg~Rall--------EL~~yL~~~~i~ 198 (293)
.++|..+|+..|.-|..+|...+.+-| .|.|.+.+.. ||+.++.++.++
T Consensus 34 LGlS~~qa~~~LyvLErEG~VkrV~~G~~tyw~l~~day~~~v~~~~Relwrlv~s~~~k 93 (165)
T PHA02943 34 LGVSHSMARNALYQLAKEGMVLKVEIGRAAIWCLDEDAYTNLVFEIKRELWRLVCNSRLK 93 (165)
T ss_pred HCCCHHHHHHHHHHHHHcCceEEEeecceEEEEEChHHHHHHHHHHHHHHHHHHHhcccc
Confidence 378999999999999999999987777 6778887654 777777776444
No 44
>PF13835 DUF4194: Domain of unknown function (DUF4194)
Probab=70.58 E-value=56 Score=27.87 Aligned_cols=142 Identities=11% Similarity=0.046 Sum_probs=80.5
Q ss_pred HHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhh----
Q 022691 12 VQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQS---- 87 (293)
Q Consensus 12 LQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~t---- 87 (293)
|+.||+++++..+.=.++|..+ ..+-..|...|+.+|+++..=.+ ..|..++|...++..
T Consensus 1 l~~LL~~~~i~~~~~~~~y~~l------------~~~~~~i~~~l~~lgl~L~~d~~----~g~a~l~~~~~~~~~~~~~ 64 (166)
T PF13835_consen 1 LVRLLKGPFISREKHPELYRFL------------LRHRELIRDYLADLGLELVVDED----EGVAYLRPAEAEEGEERAP 64 (166)
T ss_pred ChHHhCCCeEECCccHHHHHHH------------HHHHHHHHHHHHHcCcEEEEECC----CCEEEEEcCCCcccccccc
Confidence 4678888888865433666644 34455677778888998875433 335555565333221
Q ss_pred hc--CCCCCHHHHHHH---HHHHHHHHhc-ccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHH
Q 022691 88 KL--GTKYTVQQIAFF---KGILEAIAQD-VMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTL 161 (293)
Q Consensus 88 kl--AT~yt~~EI~ff---K~lLe~I~~~-~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL 161 (293)
++ ...++-.|-.++ |.+.++-... .+..-.|+..+..... .. ... ........+.+.+..|
T Consensus 65 ~~~~r~~L~~~eTilLL~LR~~y~e~~~~~~~~~~~v~~~ei~e~~-~~--------~~~----~~~d~~~~~~~~~~~l 131 (166)
T PF13835_consen 65 RLLRRRRLSLEETILLLVLRLLYEEKESLSGSERVVVTREEIVEKL-ES--------FLP----ESRDEAPFKKRLDAAL 131 (166)
T ss_pred cchhccCCCHHHHHHHHHHHHHHHHHhccCCCCcEEEeHHHHHHHH-HH--------Hcc----ccccccchHHHHHHHH
Confidence 22 246777775443 4444444321 1222345544443321 10 000 0023456788899999
Q ss_pred HHHHHCCcccccC--CccEEecc
Q 022691 162 DEFVQDQWLCCTP--DGKIGLGV 182 (293)
Q Consensus 162 ~~Lv~~gWL~~s~--~G~y~Lg~ 182 (293)
.+|.+.|-|.... ++.|.+.|
T Consensus 132 ~~l~~~~ll~~~~~de~r~~I~P 154 (166)
T PF13835_consen 132 RRLKRYGLLRRLDGDEDRYEIRP 154 (166)
T ss_pred HHHHHCCCeeccCCCCCEEEEEe
Confidence 9999999999865 46766554
No 45
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=70.53 E-value=22 Score=26.06 Aligned_cols=33 Identities=9% Similarity=0.042 Sum_probs=27.8
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC-C-ccEEecc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP-D-GKIGLGV 182 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~-~-G~y~Lg~ 182 (293)
-+++++.+..+|.+|.+.|++.+.. . +.|.++.
T Consensus 32 lgl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~~ 66 (68)
T smart00550 32 LGLPKKEVNRVLYSLEKKGKVCKQGGTPPLWKLTD 66 (68)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEecCCCCCceEeec
Confidence 3788999999999999999998743 4 7888875
No 46
>PF08672 APC2: Anaphase promoting complex (APC) subunit 2; InterPro: IPR014786 The anaphase-promoting complex (APC) or cyclosome is a multi-subunit E3 protein ubiquitin ligase that regulates important events in mitosis such as the initiation of anaphase and exit from telophase. The APC, in conjunction with other enzymes, assembles multi-ubiquitin chains on a variety of regulatory proteins, thereby targeting them for proteolysis by the 26S proteasome. Anaphase is initiated when the APC triggers the destruction of securin, thereby allowing the protease, separase, to disrupt sister-chromatid cohesion. Securin ubiquitination by the APC is inhibited by cyclin-dependent kinase 1 (Cdk1)-dependent phosphorylation []. Forkhead Box M1 (FoxM1), which is a transcription factor that is over-expressed in many cancers, is degraded in late mitosis and early G1 phase by the APC/cyclosome (APC/C) E3 ubiquitin ligase []. The APC/C targets mitotic cyclins for destruction in mitosis and G1 phase and is then inactivated at S phase. It thereby generates alternating states of high and low cyclin-Cdk activity, which is required for the alternation of mitosis and DNA replication []. The APC/C is composed of at least 13 subunits that stay tightly associated throughout the cell cycle: APC1, APC2, APC4, APC5, APC9, APC11, CDC16, CDC23, CDC26, CDC27, DOC1, MND2 and SWM1[], []. In fission yeast the 13 subunits are known as: Apc1, Apc2, Nuc2, Apc4, Apc5, Cut9, Apc8, Apc10, Apc11, Hcn1, Apc13, Apc14 and Apc15 []. This entry represents a C-terminal domain found in APC subunit 2. ; PDB: 1LDD_A.
Probab=69.97 E-value=6.3 Score=28.72 Aligned_cols=30 Identities=23% Similarity=0.485 Sum_probs=23.8
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEe
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGL 180 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~L 180 (293)
-+.+..|-+.+|+++|++|=|..+ +|.|.|
T Consensus 31 ~~~s~~eL~~fL~~lv~e~~L~~~-~G~YkL 60 (60)
T PF08672_consen 31 YDISLEELQEFLDRLVEEGKLECS-GGSYKL 60 (60)
T ss_dssp TT--HHHHHHHHHHHHHTTSEE---TTEEEE
T ss_pred CCCCHHHHHHHHHHHHHCCcEEec-CCEEeC
Confidence 467889999999999999999984 999976
No 47
>PF09382 RQC: RQC domain; InterPro: IPR018982 This entry represents the RQC domain, which is a DNA-binding domain found only in RecQ family enzymes. RecQ family helicases can unwind G4 DNA, and play important roles at G-rich domains of the genome, including the telomeres, rDNA, and immunoglobulin switch regions. This domain has a helix-turn-helix structure and acts as a high affinity G4 DNA binding domain []. Binding of RecQ to Holliday junctions involves both the RQC and the HRDC domains.; GO: 0043140 ATP-dependent 3'-5' DNA helicase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 1OYW_A 1OYY_A 3AAF_A 2AXL_A 2V1X_B 2WWY_B.
Probab=68.07 E-value=6.9 Score=30.61 Aligned_cols=36 Identities=8% Similarity=0.190 Sum_probs=27.7
Q ss_pred cCCCCHHHHHHHHHHHHHCCcccccCC----ccEEeccch
Q 022691 149 FRNFTMSQKEKTLDEFVQDQWLCCTPD----GKIGLGVRS 184 (293)
Q Consensus 149 ~~~ls~seaE~lL~~Lv~~gWL~~s~~----G~y~Lg~Ra 184 (293)
.++++..+.+.+++.|+.+|||....+ +.+.+|+.+
T Consensus 51 gk~~~~~~~~~li~~Li~~g~L~~~~~~~~~~~l~~~~~~ 90 (106)
T PF09382_consen 51 GKDMSKDDWERLIRQLILEGYLSEDNGGFAYPYLKLTPKG 90 (106)
T ss_dssp TTTS-HHHHHHHHHHHHHTTSEEEEECCCCTEEEEE-GGG
T ss_pred cccCCHHHHHHHHHHHHHcCCceecCCcccccEEEECHHH
Confidence 367899999999999999999976544 467777775
No 48
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=67.82 E-value=22 Score=23.76 Aligned_cols=21 Identities=10% Similarity=0.153 Sum_probs=17.9
Q ss_pred CCCHHHHHHHHHHHHHCCccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLC 171 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~ 171 (293)
+++..-+-..|++|++.||+.
T Consensus 28 ~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 28 GISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp TS-HHHHHHHHHHHHHTTSEE
T ss_pred CCCHHHHHHHHHHHHHCcCcC
Confidence 688889999999999999963
No 49
>PF05290 Baculo_IE-1: Baculovirus immediate-early protein (IE-0); InterPro: IPR007954 This entry contains the Baculovirus immediate-early protein IE-0.
Probab=66.65 E-value=2.5 Score=35.84 Aligned_cols=14 Identities=21% Similarity=0.634 Sum_probs=12.0
Q ss_pred CCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQ 224 (293)
Q Consensus 211 ~~~CP~C~~~W~~~ 224 (293)
.++||.|++.+...
T Consensus 121 ypvCPvCkTSFKss 134 (140)
T PF05290_consen 121 YPVCPVCKTSFKSS 134 (140)
T ss_pred CCCCCccccccccc
Confidence 88999999998654
No 50
>PF09339 HTH_IclR: IclR helix-turn-helix domain; InterPro: IPR005471 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these subfamilies, called 'iclR', groups several proteins including: gylR, a possible activator protein for the gylABX glycerol operon in Streptomyces. iclR, the repressor of the acetate operon (also known as glyoxylate bypass operon) in Escherichia coli and Salmonella typhimurium. These proteins have a Helix-Turn-Helix motif at the N terminus that is similar to that of other DNA-binding proteins [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1MKM_A 3MQ0_A 3R4K_A 2G7U_C 2O0Y_C 2XRO_F 2XRN_B 2IA2_D.
Probab=66.21 E-value=16 Score=25.09 Aligned_cols=23 Identities=13% Similarity=0.226 Sum_probs=20.1
Q ss_pred CCCCHHHHHHHHHHHHHCCcccc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCC 172 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~ 172 (293)
.+++++-+-.+|..|++.||+.+
T Consensus 28 ~gl~~stv~r~L~tL~~~g~v~~ 50 (52)
T PF09339_consen 28 LGLPKSTVHRLLQTLVEEGYVER 50 (52)
T ss_dssp HTS-HHHHHHHHHHHHHTTSEEE
T ss_pred HCcCHHHHHHHHHHHHHCcCeec
Confidence 36889999999999999999987
No 51
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=64.30 E-value=33 Score=25.54 Aligned_cols=36 Identities=14% Similarity=0.116 Sum_probs=27.4
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCC------ccEEeccchhh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPD------GKIGLGVRSCL 186 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~------G~y~Lg~Rall 186 (293)
+++...+-..|++|++.||+.+..+ .+|.|++.+.-
T Consensus 35 ~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~ 76 (101)
T smart00347 35 GVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRE 76 (101)
T ss_pred CCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHH
Confidence 4667778899999999999987544 26777777543
No 52
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=64.29 E-value=22 Score=28.48 Aligned_cols=27 Identities=22% Similarity=0.382 Sum_probs=22.1
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDG 176 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G 176 (293)
.+++.+-+..+|.+|++.||+.+...|
T Consensus 31 ~~~~~sTv~t~L~rL~~Kg~l~~~~~g 57 (115)
T PF03965_consen 31 RSWAYSTVQTLLNRLVEKGFLTREKIG 57 (115)
T ss_dssp SS--HHHHHHHHHHHHHTTSEEEEEET
T ss_pred cccchhHHHHHHHHHHhCCceeEeecC
Confidence 467888999999999999999987666
No 53
>PF01325 Fe_dep_repress: Iron dependent repressor, N-terminal DNA binding domain; InterPro: IPR022687 The DtxR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 65 residues present in metalloregulators of the DtxR/MntR family. The family is named after Corynebacterium diphtheriae DtxR, an iron-specific diphtheria toxin repressor, and Bacillus subtilis MntR, a manganese transport regulator. Iron-responsive metalloregulators such as DtxR and IdeR occur in Gram-positive bacteria of the high GC branch, while manganese-responsive metalloregulators like MntR are described in diverse genera of Gram-positive and Gram-negative bacteria and also in Archaea [].The metalloregulators like DtxR/MntR contain the DNA-binding DtxR-type HTH domain usually in the N-terminal part. The C-terminal part contains a dimerisation domain with two metal-binding sites, although the primary metal-binding site is less conserved in the Mn(II)-regulators. Fe(II)-regulated proteins contain an SH3-like domain as a C-terminal extension, which is absent in Mn(II)-regulated MntR [, ]. Metal-ion dependent regulators orchestrate the virulence of several important human pathogens. The DtxR protein regulates the expression of diphtheria toxinin response to environmental iron concentrations. Furthermore, DtxR and IdeR control iron uptake []. Homeostasis of manganese, which is an essential nutrient, is regulated by MntR. A typical DtxR-type metalloregulator binds two divalent metal effectors per monomer, upon which allosteric changes occur that moderate binding to the cognate DNA operators. Iron-bound DtxR homodimers bind to an interrupted palindrome of 19 bp, protecting a sequence of ~30 bp. The crystal structures of iron-regulated and manganese-regulated repressors show that the DNA binding domain contains three alpha-helices and a pair of antiparallel beta-strands. Helices 2 and 3 comprise the helix-turn-helix motif and the beta-strands are called the wing []. This wHTH topology is similar to the lysR-type HTH (see PDOC00043 from PROSITEDOC). Most DtxR-type metalloregulators bind as dimers to the DNA major groove. Several proteins are known to contain a DtxR-type HTH domain. These include- Corynebacterium diphtheriae DtxR, a diphtheria toxin repressor [], which regulates the expression of the high-affinity iron uptake system, other iron-sensitive genes, and the bacteriophage tox gene. Metal-bound DtxR represses transcription by binding the tox operator; if iron is limiting, conformational changes of the wHTH disrupt DNA-binding and the diphtheria toxin is produced. Mycobacterium tuberculosis IdeR, an iron-dependent regulator that is essential for this pathogen. The regulator represses genes for iron acquisition and activates iron storage genes, and is a positive regulator of oxidative stress responses []. Bacillus subtilis MntR, a manganese transport regulator, binds Mn2+ as an effector and is a transcriptional repressor of transporters for the import of manganese. Treponema pallidum troR, a metal-dependent transcriptional repressor. Archaeoglobus fulgidus MDR1 (troR), a metal-dependent transcriptional repressor, which negatively regulates its own transcription. This entry covers the entire DtxR-type HTH domain.; GO: 0005506 iron ion binding; PDB: 3HRT_B 3HRS_A 3HRU_B 2X4H_D 1ON1_B 2HYF_C 2F5E_A 3R60_B 1ON2_B 2F5F_A ....
Probab=63.97 E-value=48 Score=23.81 Aligned_cols=57 Identities=12% Similarity=0.172 Sum_probs=40.5
Q ss_pred CCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccc
Q 022691 93 YTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCC 172 (293)
Q Consensus 93 yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~ 172 (293)
+|+.+-.|++.|.+..-. .+.++..++-.. -+.++.-+-+.|.+|.+.|++..
T Consensus 2 Lt~~~e~YL~~Iy~l~~~----~~~v~~~~iA~~-----------------------L~vs~~tvt~ml~~L~~~GlV~~ 54 (60)
T PF01325_consen 2 LTESEEDYLKAIYELSEE----GGPVRTKDIAER-----------------------LGVSPPTVTEMLKRLAEKGLVEY 54 (60)
T ss_dssp CSCHHHHHHHHHHHHHHC----TSSBBHHHHHHH-----------------------HTS-HHHHHHHHHHHHHTTSEEE
T ss_pred CCcHHHHHHHHHHHHHcC----CCCccHHHHHHH-----------------------HCCChHHHHHHHHHHHHCCCEEe
Confidence 566777888888776542 456776665322 35778888899999999999987
Q ss_pred cCCc
Q 022691 173 TPDG 176 (293)
Q Consensus 173 s~~G 176 (293)
.+.+
T Consensus 55 ~~y~ 58 (60)
T PF01325_consen 55 EPYK 58 (60)
T ss_dssp ETTT
T ss_pred cCCC
Confidence 5543
No 54
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=63.35 E-value=4.2 Score=29.37 Aligned_cols=32 Identities=25% Similarity=0.554 Sum_probs=26.9
Q ss_pred CCCCchhhhhHHHhCCCCCCCCCCCCCCCCCCcc
Q 022691 196 DVPFCEVCNEAVVKGEILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g~~~CP~C~~~W~~~~~~~~ 229 (293)
.|..|..|..--+ ...||.|+..-....|-.+
T Consensus 4 ~mr~C~~CgvYTL--k~~CP~CG~~t~~~~P~rf 35 (56)
T PRK13130 4 KIRKCPKCGVYTL--KEICPVCGGKTKNPHPPRF 35 (56)
T ss_pred cceECCCCCCEEc--cccCcCCCCCCCCCCCCCC
Confidence 5778998876655 5689999999999999888
No 55
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=63.31 E-value=30 Score=30.15 Aligned_cols=36 Identities=14% Similarity=0.066 Sum_probs=33.2
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccchh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSC 185 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ral 185 (293)
.+++..++++.|+-|++.|-+.+..+|.|-.+..+|
T Consensus 51 p~is~~ev~~sL~~L~~~gli~k~~~g~y~~t~~~l 86 (171)
T PF14394_consen 51 PKISAEEVRDSLEFLEKLGLIKKDGDGKYVQTDKSL 86 (171)
T ss_pred CCCCHHHHHHHHHHHHHCCCeEECCCCcEEEeccee
Confidence 478999999999999999999998999999988877
No 56
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=62.89 E-value=31 Score=30.56 Aligned_cols=74 Identities=14% Similarity=0.271 Sum_probs=49.6
Q ss_pred CCCCHHHHHHHHHHHHHCCcccc-----cCCc----cEEeccchhhchHhHHh---------------cCCCCCchhhhh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCC-----TPDG----KIGLGVRSCLDLRGWFR---------------NLDVPFCEVCNE 205 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~-----s~~G----~y~Lg~RallEL~~yL~---------------~~~i~~C~~Ck~ 205 (293)
.++++.+.-.+|..|-++|-+.. ...| .|.+..+-+.+---+.. ++.-..|..|+-
T Consensus 42 l~i~~~~vrriL~~L~e~~li~~~k~rd~~~~~~~y~w~~~~~~v~~~l~~~~~~~le~Lk~~le~~~~~~~y~C~~~~~ 121 (176)
T COG1675 42 LGIKKNEVRRILYALYEDGLISYRKKRDEESGWEEYTWYINYEKVLEVLKGKKRKILEKLKRKLEKETENNYYVCPNCHV 121 (176)
T ss_pred hCccHHHHHHHHHHHHhCCceEEEeecccCCCcEEEEEEechHHHHHHHHHHHHHHHHHHHHHHHhhccCCceeCCCCCC
Confidence 46788899999999998887752 1223 44555555444333333 256788988887
Q ss_pred HHHhC-----CCCCCCCCCCCCC
Q 022691 206 AVVKG-----EILCPRCGLRWPN 223 (293)
Q Consensus 206 iv~~g-----~~~CP~C~~~W~~ 223 (293)
-..+. ...||.|+..-..
T Consensus 122 r~sfdeA~~~~F~Cp~Cg~~L~~ 144 (176)
T COG1675 122 KYSFDEAMELGFTCPKCGEDLEE 144 (176)
T ss_pred cccHHHHHHhCCCCCCCCchhhh
Confidence 76554 6799999986544
No 57
>COG3327 PaaX Phenylacetic acid-responsive transcriptional repressor [Transcription]
Probab=62.14 E-value=12 Score=35.29 Aligned_cols=41 Identities=15% Similarity=0.186 Sum_probs=33.2
Q ss_pred CCCHHHHHHHHHHHHHCCcccccC---CccEEeccchhhchHhH
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTP---DGKIGLGVRSCLDLRGW 191 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~---~G~y~Lg~RallEL~~y 191 (293)
+++-.-.-.-|.+|+..|||..++ +++|.|+-+.+.++..=
T Consensus 39 G~sE~~vRaal~Rm~kaG~l~~er~grks~Y~LSDkgl~r~~~a 82 (291)
T COG3327 39 GISETTVRAALSRMVKAGWLVGEREGRKSFYRLSDKGLARQRRA 82 (291)
T ss_pred CccHHHHHHHHHHHHhccchheeecccccceeecHHHHHHHHHH
Confidence 344555578899999999999877 56899999999988653
No 58
>smart00420 HTH_DEOR helix_turn_helix, Deoxyribose operon repressor.
Probab=61.10 E-value=35 Score=22.31 Aligned_cols=26 Identities=12% Similarity=0.193 Sum_probs=21.7
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG 176 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G 176 (293)
+++..-+...|+.|.+.||+.+...|
T Consensus 25 ~~s~~tv~~~l~~L~~~g~i~~~~~~ 50 (53)
T smart00420 25 GVSEMTIRRDLNKLEEQGLLTRVHGG 50 (53)
T ss_pred CCCHHHHHHHHHHHHHCCCEEEeecC
Confidence 57888899999999999999974433
No 59
>PF04157 EAP30: EAP30/Vps36 family; InterPro: IPR007286 EAP30 is a subunit of the ELL complex. The ELL is an 80kDa RNA polymerase II transcription factor. ELL interacts with three other proteins to form the complex known as ELL complex. The ELL complex is capable of increasing that catalytic rate of transcription elongation, but is unable to repress initiation of transcription by RNA polymerase II as is the case of ELL. EAP30 is thought to lead to the derepression of ELL's transcriptional inhibitory activity. ; PDB: 2ZME_A 3CUQ_A 1W7P_D 1U5T_B.
Probab=60.75 E-value=86 Score=28.23 Aligned_cols=108 Identities=15% Similarity=0.129 Sum_probs=64.5
Q ss_pred CCCCCHHHHHHHHHHhh-CCCCCCchhhHHHHHHHHHhcccccC--cEEEEeeecCCCeEEEEEEeccCchhhhcCCCCC
Q 022691 18 RGPLKEKDFHAIFSGLT-GKSPGAHQGLFNEYLLNINKELSSCQ--FELRACRDQYVGQVCYGVVNNVADEQSKLGTKYT 94 (293)
Q Consensus 18 rg~l~e~e~~~l~~~~~-~~~p~~~~~~l~~~I~~IN~~L~~l~--~eIr~~~~q~~g~~~y~lVN~~sDe~tklAT~yt 94 (293)
-|+|+..|+..+|.+.. +.. ..+.+++...+..+ .+|+ |+++.+. +|. .++.....+
T Consensus 111 GGii~L~dl~~~~nr~R~g~~-lISp~Di~~A~~~l----~~lg~g~~l~~~~---sg~--~vv~s~~~~---------- 170 (223)
T PF04157_consen 111 GGIISLSDLYCRYNRARGGSE-LISPEDILRACKLL----EVLGLGFRLRKFG---SGV--KVVQSVPYS---------- 170 (223)
T ss_dssp TSEEEHHHHHHHHHHCTTTSS-T--HHHHHHHHHHH----CCCTSSEEEEEET---TTE--EEEECST-C----------
T ss_pred CCEEEHHHHHHHHHHhcccCC-CcCHHHHHHHHHHH----HHcCCCeEEEEeC---CCc--EEEEeCCch----------
Confidence 56999999999998865 322 23444444444443 5554 6666663 343 333332212
Q ss_pred HHHH-HHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccc
Q 022691 95 VQQI-AFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCC 172 (293)
Q Consensus 95 ~~EI-~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~ 172 (293)
|+ .+...+++.+-. ...|.++..++-.. .+.+...+...|..++++|++.+
T Consensus 171 --e~~~~~~~il~~~~~--~~~g~vt~~~l~~~-----------------------~~ws~~~a~~~L~~~~~~G~l~~ 222 (223)
T PF04157_consen 171 --ELSKDQSRILELAEE--ENGGGVTASELAEK-----------------------LGWSVERAKEALEELEREGLLWR 222 (223)
T ss_dssp --HH-HHHHHHHHHH----TTTSEEEHHHHHHH-----------------------HTB-HHHHHHHHHHHHHTTSEEE
T ss_pred --hhhHHHHHHHHHHHh--hcCCCCCHHHHHHH-----------------------hCCCHHHHHHHHHHHHhCCCEee
Confidence 23 555666665522 24677887665321 36789999999999999999865
No 60
>PF10146 zf-C4H2: Zinc finger-containing protein ; InterPro: IPR018482 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a family of proteins which appears to have a highly conserved zinc finger domain at the C-terminal end, described as -C-X2-CH-X3-H-X5-C-X2-C-. The structure is predicted to contain a coiled coil. Members of this family are annotated as being tumour-associated antigen HCA127 in humans, but this could not be confirmed.
Probab=60.68 E-value=6.2 Score=36.33 Aligned_cols=26 Identities=19% Similarity=0.697 Sum_probs=23.7
Q ss_pred CCCCchhhhhHHHhCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKGEILCPRCGLRW 221 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g~~~CP~C~~~W 221 (293)
-.+.|..|+.-+-.+.+.||-|+..-
T Consensus 193 PMK~C~sC~qqIHRNAPiCPlCK~Ks 218 (230)
T PF10146_consen 193 PMKTCQSCHQQIHRNAPICPLCKAKS 218 (230)
T ss_pred CcchhHhHHHHHhcCCCCCccccccc
Confidence 48999999999999999999999753
No 61
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=60.64 E-value=4.4 Score=29.80 Aligned_cols=26 Identities=35% Similarity=0.791 Sum_probs=18.8
Q ss_pred CCchhhhhHHHhCCCCCCCCCC-----CCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGL-----RWPNQV 225 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~-----~W~~~~ 225 (293)
+-|..|+-++. ...||.|+. .|.|-+
T Consensus 4 kAC~~C~~i~~--~~~CP~Cgs~~~T~~W~G~v 34 (61)
T PRK08351 4 KACRHCHYITT--EDRCPVCGSRDLSDEWFDLV 34 (61)
T ss_pred hhhhhCCcccC--CCcCCCCcCCccccccccEE
Confidence 46999999883 348999975 466643
No 62
>PF09929 DUF2161: Uncharacterized conserved protein (DUF2161); InterPro: IPR018679 This family of various hypothetical prokaryotic proteins has no known function.
Probab=60.51 E-value=4.3 Score=33.68 Aligned_cols=32 Identities=16% Similarity=0.191 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHCCcccccCCccEEeccchhhch
Q 022691 156 QKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDL 188 (293)
Q Consensus 156 eaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL 188 (293)
+|-.+|.. --.|||++...|.|.|++-.-.+|
T Consensus 87 ~A~~IL~~-N~YGWFeRv~rGvY~LT~~G~~al 118 (118)
T PF09929_consen 87 KATSILRD-NHYGWFERVERGVYALTPAGRAAL 118 (118)
T ss_pred hHHHHHHh-CcccceeeeccceEecCcchhhcC
Confidence 34444433 347999999999999998765544
No 63
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=60.35 E-value=3 Score=35.77 Aligned_cols=25 Identities=32% Similarity=0.687 Sum_probs=19.1
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGLR 220 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~~ 220 (293)
+...|..|...+..- -+.||+|+..
T Consensus 111 G~l~C~~Cg~~~~~~~~~~l~~Cp~C~~~ 139 (146)
T PF07295_consen 111 GTLVCENCGHEVELTHPERLPPCPKCGHT 139 (146)
T ss_pred ceEecccCCCEEEecCCCcCCCCCCCCCC
Confidence 456899998876443 7899999864
No 64
>PLN02400 cellulose synthase
Probab=60.24 E-value=5.8 Score=43.92 Aligned_cols=13 Identities=31% Similarity=0.882 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPN 223 (293)
Q Consensus 211 ~~~CP~C~~~W~~ 223 (293)
...||.|++.+.+
T Consensus 78 nq~CPQCkTrYkR 90 (1085)
T PLN02400 78 TQCCPQCKTRYRR 90 (1085)
T ss_pred CccCcccCCcccc
Confidence 8899999999884
No 65
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=60.08 E-value=14 Score=25.54 Aligned_cols=30 Identities=10% Similarity=0.097 Sum_probs=23.3
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEe
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGL 180 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~L 180 (293)
+++...+...|.+|.+.||+.......|.|
T Consensus 36 ~is~~~v~~~l~~L~~~G~i~~~~~~~~~l 65 (66)
T cd07377 36 GVSRTTVREALRELEAEGLVERRPGRGTFV 65 (66)
T ss_pred CCCHHHHHHHHHHHHHCCCEEecCCCeEEe
Confidence 577888899999999999998644434443
No 66
>PRK12495 hypothetical protein; Provisional
Probab=58.38 E-value=32 Score=31.63 Aligned_cols=28 Identities=21% Similarity=0.736 Sum_probs=22.9
Q ss_pred CCCCchhhhhHHH--hCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVV--KGEILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~iv~--~g~~~CP~C~~~W~~ 223 (293)
...+|..|...++ .|..+||.|+.....
T Consensus 41 sa~hC~~CG~PIpa~pG~~~Cp~CQ~~~~~ 70 (226)
T PRK12495 41 TNAHCDECGDPIFRHDGQEFCPTCQQPVTE 70 (226)
T ss_pred chhhcccccCcccCCCCeeECCCCCCcccc
Confidence 4679999999865 478899999988764
No 67
>PF13730 HTH_36: Helix-turn-helix domain
Probab=57.94 E-value=51 Score=22.42 Aligned_cols=20 Identities=5% Similarity=0.230 Sum_probs=18.1
Q ss_pred CCCHHHHHHHHHHHHHCCcc
Q 022691 151 NFTMSQKEKTLDEFVQDQWL 170 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL 170 (293)
+++..-+...|++|++.||+
T Consensus 36 g~s~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 36 GVSRRTVQRAIKELEEKGLI 55 (55)
T ss_pred CcCHHHHHHHHHHHHHCcCC
Confidence 67888889999999999996
No 68
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=56.65 E-value=55 Score=25.16 Aligned_cols=81 Identities=17% Similarity=0.086 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcc-cCCCCHHHHHHHHHHHHHCCcccccCCcc
Q 022691 99 AFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAA-FRNFTMSQKEKTLDEFVQDQWLCCTPDGK 177 (293)
Q Consensus 99 ~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~-~~~ls~seaE~lL~~Lv~~gWL~~s~~G~ 177 (293)
+|+.-+|+.|.+. .|.++..+++....+.-..+.. ... ..++.. ....=...+-=.+..|...||+.+...|.
T Consensus 4 ~~~~piL~~L~~~---g~~~~~~ei~~~v~~~~~ls~e-~~~--~~~~sg~~~~~~~~ri~Wa~~~L~~aGli~~~~rG~ 77 (92)
T PF14338_consen 4 ELMPPILEALKDL---GGSASRKEIYERVAERFGLSDE-ERN--ERLPSGQGYSRFKNRIRWARSYLKKAGLIERPKRGI 77 (92)
T ss_pred HHHHHHHHHHHHc---CCCcCHHHHHHHHHHHhCCCHH-HHH--HHcccCCcchhHHHhHHHHHHHHHHCCCccCCCCCc
Confidence 5777788877662 4567777776653221111100 000 000000 01123455666788999999999988999
Q ss_pred EEeccchh
Q 022691 178 IGLGVRSC 185 (293)
Q Consensus 178 y~Lg~Ral 185 (293)
|.|+....
T Consensus 78 ~~iT~~G~ 85 (92)
T PF14338_consen 78 WRITEKGR 85 (92)
T ss_pred eEECHhHH
Confidence 99998753
No 69
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=56.27 E-value=74 Score=23.82 Aligned_cols=63 Identities=10% Similarity=0.117 Sum_probs=40.6
Q ss_pred hhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEec
Q 022691 6 WKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNN 81 (293)
Q Consensus 6 ~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~ 81 (293)
.+|.++++.|-.+.+-+.+|+...+... |.. .++..+.--|.++| |.++.+ .+|..+|+|.+.
T Consensus 5 ~R~~~I~~li~~~~i~sQ~eL~~~L~~~-Gi~--vTQaTiSRDLkeL~---------~vKv~~-~~g~~~Y~l~~~ 67 (70)
T PF01316_consen 5 KRQELIKELISEHEISSQEELVELLEEE-GIE--VTQATISRDLKELG---------AVKVPD-GNGKYRYVLPEE 67 (70)
T ss_dssp HHHHHHHHHHHHS---SHHHHHHHHHHT-T-T----HHHHHHHHHHHT----------EEEEC-TTSSEEEE-TTS
T ss_pred HHHHHHHHHHHHCCcCCHHHHHHHHHHc-CCC--cchhHHHHHHHHcC---------cEEeeC-CCCCEEEEecCc
Confidence 4677888888889999999999888754 433 56777777776665 456653 678888988654
No 70
>smart00418 HTH_ARSR helix_turn_helix, Arsenical Resistance Operon Repressor.
Probab=56.23 E-value=21 Score=24.00 Aligned_cols=39 Identities=13% Similarity=0.087 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCC---ccEEeccchhhchH
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPD---GKIGLGVRSCLDLR 189 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~---G~y~Lg~RallEL~ 189 (293)
+++...+-..|++|.+.||+....+ +.|.++...+.++-
T Consensus 21 ~is~~~v~~~l~~L~~~g~i~~~~~~~~~~~~~~~~~~~~~~ 62 (66)
T smart00418 21 GLSQSTVSHHLKKLREAGLVESRREGKRVYYSLTDEKVADLL 62 (66)
T ss_pred CCCHHHHHHHHHHHHHCCCeeeeecCCEEEEEEchHHHHHHH
Confidence 4677888999999999999986443 36777765444443
No 71
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=55.94 E-value=59 Score=27.30 Aligned_cols=69 Identities=16% Similarity=0.128 Sum_probs=42.7
Q ss_pred chhhHHHHHHHH-hCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccC
Q 022691 5 NWKHHALVQALM-TRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVA 83 (293)
Q Consensus 5 ~~~HR~fLQalm-srg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~s 83 (293)
++.---.+++|+ .+|.++.+++...+..- ...+...=++|-..|+=.|.-..-..|..||+|.=...
T Consensus 26 s~~Dv~v~~~LL~~~~~~tvdelae~lnr~------------rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ 93 (126)
T COG3355 26 SELDVEVYKALLEENGPLTVDELAEILNRS------------RSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDP 93 (126)
T ss_pred cHHHHHHHHHHHhhcCCcCHHHHHHHHCcc------------HHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCH
Confidence 344455677788 68888888887765421 12223333344556787776666678888888864444
Q ss_pred ch
Q 022691 84 DE 85 (293)
Q Consensus 84 De 85 (293)
++
T Consensus 94 ee 95 (126)
T COG3355 94 EE 95 (126)
T ss_pred HH
Confidence 33
No 72
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=55.80 E-value=5.7 Score=29.50 Aligned_cols=22 Identities=27% Similarity=0.540 Sum_probs=17.4
Q ss_pred CCCchhhhhHHHhCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
.+-|..|+-++ ....||.|+..
T Consensus 5 ~~AC~~C~~i~--~~~~Cp~Cgs~ 26 (64)
T PRK06393 5 YRACKKCKRLT--PEKTCPVHGDE 26 (64)
T ss_pred hhhHhhCCccc--CCCcCCCCCCC
Confidence 35699999998 34599999875
No 73
>PRK00420 hypothetical protein; Validated
Probab=54.64 E-value=4.3 Score=33.36 Aligned_cols=28 Identities=29% Similarity=0.707 Sum_probs=22.5
Q ss_pred CCchhhhhHHHh---CCCCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVK---GEILCPRCGLRWPNQV 225 (293)
Q Consensus 198 ~~C~~Ck~iv~~---g~~~CP~C~~~W~~~~ 225 (293)
..|..|....+. |...||.|+..-....
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~v~~ 54 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGKVYIVKS 54 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCCeeeecc
Confidence 789999998874 6889999999655443
No 74
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=54.57 E-value=99 Score=24.38 Aligned_cols=43 Identities=9% Similarity=0.083 Sum_probs=32.1
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCC---c---cEEeccchhhchHhHH
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPD---G---KIGLGVRSCLDLRGWF 192 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~---G---~y~Lg~RallEL~~yL 192 (293)
.+++++-+-.++++|++.||+.+.++ . .+.|++.+.-.+...+
T Consensus 53 l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~~~~~ 101 (109)
T TIGR01889 53 ILIKQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKIESLI 101 (109)
T ss_pred HCCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHHHHHH
Confidence 46788888999999999999997543 2 6778887765555443
No 75
>TIGR02277 PaaX_trns_reg phenylacetic acid degradation operon negative regulatory protein PaaX. This transcriptional regulator is always found in association with operons believed to be involved in the degradation of phenylacetic acid. The gene product has been shown to bind to the promoter sites and repress their transcription.
Probab=54.15 E-value=21 Score=33.66 Aligned_cols=42 Identities=10% Similarity=0.097 Sum_probs=32.6
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCC---ccEEeccchhhchHhHH
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPD---GKIGLGVRSCLDLRGWF 192 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~---G~y~Lg~RallEL~~yL 192 (293)
+++..-.-..|.+|+++|||..... ++|.|+++..-.|+.-.
T Consensus 31 gi~~~~vr~al~RL~~~G~l~~~~~grr~~Y~LT~~g~~~l~~~~ 75 (280)
T TIGR02277 31 GINERLVRTAVSRLVAQGWLQSERKGRRSFYSLTDKGRRRFAAAA 75 (280)
T ss_pred CCCcchHHHHHHHHHHCCCEEeeecCCCCEEEECHHHHHHHHHHh
Confidence 4555566779999999999987554 69999999976666543
No 76
>PF13545 HTH_Crp_2: Crp-like helix-turn-helix domain; PDB: 3LA2_A 3LA3_B 3LA7_A 3B02_A 3E97_A 2H6C_B 1OMI_A 2BGC_H 2BEO_A 2GAU_A ....
Probab=53.94 E-value=17 Score=26.29 Aligned_cols=35 Identities=14% Similarity=0.136 Sum_probs=26.3
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEE-eccchh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIG-LGVRSC 185 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~-Lg~Ral 185 (293)
-+++...+-.+|++|.++||+.. ..|.+. +.+-.|
T Consensus 38 ~g~sr~tv~r~l~~l~~~g~I~~-~~~~i~I~d~~~L 73 (76)
T PF13545_consen 38 LGVSRETVSRILKRLKDEGIIEV-KRGKIIILDPERL 73 (76)
T ss_dssp HTSCHHHHHHHHHHHHHTTSEEE-ETTEEEESSHHHH
T ss_pred HCCCHHHHHHHHHHHHHCCCEEE-cCCEEEECCHHHH
Confidence 36788889999999999999997 444554 454443
No 77
>PRK14165 winged helix-turn-helix domain-containing protein/riboflavin kinase; Provisional
Probab=53.38 E-value=54 Score=29.88 Aligned_cols=73 Identities=15% Similarity=0.057 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccccC-
Q 022691 96 QQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCCTP- 174 (293)
Q Consensus 96 ~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~s~- 174 (293)
.+|.++|.+...... .....||..+.-+. .+++..-+-..|++|.+.||+.+..
T Consensus 2 ~~~~~Lk~iallg~l--~~~~~IS~~eLA~~-----------------------L~iS~~Tvsr~Lk~LEe~GlI~R~~~ 56 (217)
T PRK14165 2 PDIEALKKLALLGAV--NNTVKISSSEFANH-----------------------TGTSSKTAARILKQLEDEGYITRTIV 56 (217)
T ss_pred chhHHHHHHHHHhcc--CCCCCcCHHHHHHH-----------------------HCcCHHHHHHHHHHHHHCCCEEEEEc
Confidence 467777776664433 23445666554322 3577888889999999999998753
Q ss_pred --CccEEeccchhhchHhHHh
Q 022691 175 --DGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 175 --~G~y~Lg~RallEL~~yL~ 193 (293)
...|.|+....--|+.-+.
T Consensus 57 ~r~~~v~LTekG~~ll~~~~~ 77 (217)
T PRK14165 57 PRGQLITITEKGLDVLYNEYA 77 (217)
T ss_pred CCceEEEECHHHHHHHHHHHH
Confidence 3578899887655444333
No 78
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=52.99 E-value=8.3 Score=35.62 Aligned_cols=29 Identities=21% Similarity=0.627 Sum_probs=19.9
Q ss_pred cchhhc-hHhHHhcC-CCCCchhhhhHHHhC
Q 022691 182 VRSCLD-LRGWFRNL-DVPFCEVCNEAVVKG 210 (293)
Q Consensus 182 ~RallE-L~~yL~~~-~i~~C~~Ck~iv~~g 210 (293)
|.+|+- -.+||.+. .++.|.+|+-..-+|
T Consensus 33 pkCiVQSYLqWL~DsDY~pNC~LC~t~La~g 63 (299)
T KOG3970|consen 33 PKCIVQSYLQWLQDSDYNPNCRLCNTPLASG 63 (299)
T ss_pred chhhHHHHHHHHhhcCCCCCCceeCCccccC
Confidence 444442 24677774 699999999876655
No 79
>PF08772 NOB1_Zn_bind: Nin one binding (NOB1) Zn-ribbon like; InterPro: IPR014881 This entry corresponds to a zinc ribbon and is found on the RNA binding protein NOB1. ; PDB: 2CON_A.
Probab=52.80 E-value=2.9 Score=31.78 Aligned_cols=25 Identities=28% Similarity=0.674 Sum_probs=12.3
Q ss_pred CCCchhhhhHHHh-CCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVK-GEILCPRCGLRW 221 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C~~~W 221 (293)
+..|.+|..+... ...+||+|+..=
T Consensus 9 vlrC~aCf~~t~~~~k~FCp~CGn~T 34 (73)
T PF08772_consen 9 VLRCHACFKITKDMTKQFCPKCGNAT 34 (73)
T ss_dssp EEE-SSS--EES-SS--S-SSS--S-
T ss_pred eEEccccccCcCCCCceeCcccCCCc
Confidence 4579999999775 478999999883
No 80
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=51.62 E-value=3.6 Score=34.76 Aligned_cols=23 Identities=35% Similarity=1.099 Sum_probs=19.7
Q ss_pred CCCchhhhhHHHh--CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVK--GEILCPRCGL 219 (293)
Q Consensus 197 i~~C~~Ck~iv~~--g~~~CP~C~~ 219 (293)
-.+|..|.-..|+ |...||.|+.
T Consensus 28 ~~hCp~Cg~PLF~KdG~v~CPvC~~ 52 (131)
T COG1645 28 AKHCPKCGTPLFRKDGEVFCPVCGY 52 (131)
T ss_pred HhhCcccCCcceeeCCeEECCCCCc
Confidence 5689999998876 6889999996
No 81
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=51.33 E-value=1.8e+02 Score=25.89 Aligned_cols=119 Identities=16% Similarity=0.184 Sum_probs=71.0
Q ss_pred hHHHHHHHHh--CCC-CCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhccc--ccCcEEEEeeecCCCeEEEEEEecc
Q 022691 8 HHALVQALMT--RGP-LKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELS--SCQFELRACRDQYVGQVCYGVVNNV 82 (293)
Q Consensus 8 HR~fLQalms--rg~-l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~--~l~~eIr~~~~q~~g~~~y~lVN~~ 82 (293)
.+..+-|++- ... ++.+++.+++. + ....+.++|..++.... .-+++|+.+- |.+.+..-.-.
T Consensus 5 ~~~~iEA~LF~sg~pgls~~~La~~l~-~-------~~~~v~~~l~~L~~~y~~~~~gi~i~~~~----~~y~l~tk~e~ 72 (188)
T PRK00135 5 YKSIIEALLFVSGEEGLSLEQLAEILE-L-------EPTEVQQLLEELQEKYEGDDRGLKLIEFN----DVYKLVTKEEN 72 (188)
T ss_pred HHHHHHHHHHHcCCCCCCHHHHHHHHC-C-------CHHHHHHHHHHHHHHHhhCCCCEEEEEEC----CEEEEEEcHHH
Confidence 4456677663 445 99999988874 2 23568889999988876 5589998872 22222222222
Q ss_pred CchhhhcCC-----CCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHH
Q 022691 83 ADEQSKLGT-----KYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQK 157 (293)
Q Consensus 83 sDe~tklAT-----~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~sea 157 (293)
.+-+.++.. ++|...++-+ ..|+- ++.||..++-.++ +.+.
T Consensus 73 ~~~v~~~~~~~~~~~LS~aaLEtL----aiIay----~qPiTr~eI~~ir-----------------------Gv~~--- 118 (188)
T PRK00135 73 ADYLQKLVKTPIKQSLSQAALEVL----AIIAY----KQPITRIEIDEIR-----------------------GVNS--- 118 (188)
T ss_pred HHHHHHHhcccccCCCCHHHHHHH----HHHHH----cCCcCHHHHHHHH-----------------------CCCH---
Confidence 333333322 4666665533 22332 3456666655443 2222
Q ss_pred HHHHHHHHHCCcccc
Q 022691 158 EKTLDEFVQDQWLCC 172 (293)
Q Consensus 158 E~lL~~Lv~~gWL~~ 172 (293)
..+|.+|.+.||...
T Consensus 119 ~~ii~~L~~~gLI~e 133 (188)
T PRK00135 119 DGALQTLLAKGLIKE 133 (188)
T ss_pred HHHHHHHHHCCCeEE
Confidence 679999999999974
No 82
>PF05043 Mga: Mga helix-turn-helix domain; InterPro: IPR007737 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions []. The family also contains VirR like proteins which match only at the C terminus of the alignment.; PDB: 3SQN_A.
Probab=51.08 E-value=15 Score=27.75 Aligned_cols=48 Identities=13% Similarity=0.179 Sum_probs=35.0
Q ss_pred hHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEE
Q 022691 8 HHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFEL 63 (293)
Q Consensus 8 HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eI 63 (293)
+-.+|.+|+.++.++-.++...+- .+...+...|..||..|..+|++|
T Consensus 18 ~~~ll~~ll~~~~~s~~~la~~~~--------iS~sti~~~i~~l~~~l~~~~l~i 65 (87)
T PF05043_consen 18 NYQLLKLLLNNEYVSIEDLAEELF--------ISRSTIYRDIKKLNKYLKKYGLKI 65 (87)
T ss_dssp HHHHHHHHHH-SEEEHHHHHHHHT----------HHHHHHHHHHHHHHHHCCT-EE
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHC--------CCHHHHHHHHHHHHHHHHHcCeEE
Confidence 455677777888888777664433 356789999999999999999999
No 83
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=51.01 E-value=66 Score=30.29 Aligned_cols=72 Identities=14% Similarity=0.231 Sum_probs=47.9
Q ss_pred CCHHHHHHHHHHHHHHHhcc--cCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcc
Q 022691 93 YTVQQIAFFKGILEAIAQDV--MAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWL 170 (293)
Q Consensus 93 yt~~EI~ffK~lLe~I~~~~--~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL 170 (293)
+..+|.+||..+.--++-+. .-+|. ...+.|-.+ ....+|..++.+.|+-|++.|-+
T Consensus 111 L~~~~~~y~~~W~~~virel~~~~~~~-~~~~~ia~~--------------------l~p~is~~ev~~sL~~L~~~gli 169 (271)
T TIGR02147 111 LAADQFEYYRHWYNSVIRELLGVMPFA-DDPEELAKR--------------------CFPKISAEQVKESLDLLERLGLI 169 (271)
T ss_pred ccHHHHHHHHHHHHHHHHHHhhcCCCC-CCHHHHHHH--------------------hCCCCCHHHHHHHHHHHHHCCCe
Confidence 67788999977666555431 11222 122222221 12457899999999999999999
Q ss_pred cccCCccEEeccchh
Q 022691 171 CCTPDGKIGLGVRSC 185 (293)
Q Consensus 171 ~~s~~G~y~Lg~Ral 185 (293)
.+..+|+|..+-.++
T Consensus 170 kk~~~g~y~~t~~~l 184 (271)
T TIGR02147 170 KKNEDGFYKQTDKAV 184 (271)
T ss_pred eECCCCcEEeeccee
Confidence 998899998875543
No 84
>PF04703 FaeA: FaeA-like protein; PDB: 2JT1_A 2HTJ_A.
Probab=50.81 E-value=56 Score=23.92 Aligned_cols=25 Identities=12% Similarity=0.194 Sum_probs=21.4
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP 174 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~ 174 (293)
-+++..+|-..|..|.++|...+++
T Consensus 25 ~gls~~~aR~yL~~Le~eG~V~~~~ 49 (62)
T PF04703_consen 25 LGLSIYQARYYLEKLEKEGKVERSP 49 (62)
T ss_dssp HTS-HHHHHHHHHHHHHCTSEEEES
T ss_pred hCCCHHHHHHHHHHHHHCCCEEEec
Confidence 3689999999999999999999754
No 85
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=50.69 E-value=73 Score=25.83 Aligned_cols=35 Identities=11% Similarity=0.139 Sum_probs=28.5
Q ss_pred CCCCHHHHHHHHHHHHHCCccccc--CCccEEeccch
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCT--PDGKIGLGVRS 184 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s--~~G~y~Lg~Ra 184 (293)
.+++.+-+.++|..|.+.||+... ..|.|.|+...
T Consensus 35 l~is~~~v~~~l~~L~~~Gli~~~~g~~ggy~l~~~~ 71 (130)
T TIGR02944 35 TGLNAPTVSKILKQLSLAGIVTSKRGVEGGYTLARAP 71 (130)
T ss_pred HCcCHHHHHHHHHHHHHCCcEEecCCCCCChhhcCCc
Confidence 367888999999999999999753 36788887655
No 86
>COG3682 Predicted transcriptional regulator [Transcription]
Probab=50.56 E-value=42 Score=28.07 Aligned_cols=42 Identities=19% Similarity=0.293 Sum_probs=30.6
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCc-cEEeccchhhchHhHHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDG-KIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G-~y~Lg~RallEL~~yL~ 193 (293)
..++.+-.-.||.+|+..|||..-++| .|. -|+|++-.+|-.
T Consensus 34 ~ews~sTV~TLl~RL~KKg~l~~~kdgr~~~--y~pL~~~~~~~~ 76 (123)
T COG3682 34 REWSYSTVKTLLNRLVKKGLLTRKKDGRAFR--YSPLLTRDQYVA 76 (123)
T ss_pred ccccHHHHHHHHHHHHhccchhhhhcCCeee--eecccCHHHHHH
Confidence 457778888999999999999986776 343 345566555543
No 87
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=50.34 E-value=5.1 Score=28.77 Aligned_cols=27 Identities=30% Similarity=0.789 Sum_probs=22.2
Q ss_pred CCCchhhhhHHHhC--CCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG--EILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~g--~~~CP~C~~~W~~ 223 (293)
-..|..|.+.+.-+ ...||.|+++.++
T Consensus 5 ~~~C~~Cg~~~~~~dDiVvCp~CgapyHR 33 (54)
T PF14446_consen 5 GCKCPVCGKKFKDGDDIVVCPECGAPYHR 33 (54)
T ss_pred CccChhhCCcccCCCCEEECCCCCCcccH
Confidence 35799999999754 6799999999875
No 88
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=49.93 E-value=6.4 Score=31.28 Aligned_cols=27 Identities=26% Similarity=0.655 Sum_probs=17.4
Q ss_pred CCCchhhhhHHH----hCCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVV----KGEILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~----~g~~~CP~C~~~W~~ 223 (293)
-+.|.-|--... +--.+||.|+.+|-.
T Consensus 58 Pa~CkkCGfef~~~~ik~pSRCP~CKSE~Ie 88 (97)
T COG3357 58 PARCKKCGFEFRDDKIKKPSRCPKCKSEWIE 88 (97)
T ss_pred ChhhcccCccccccccCCcccCCcchhhccc
Confidence 456766643321 114599999999964
No 89
>PLN02638 cellulose synthase A (UDP-forming), catalytic subunit
Probab=49.54 E-value=9.9 Score=42.17 Aligned_cols=14 Identities=29% Similarity=0.945 Sum_probs=12.0
Q ss_pred CCCCCCCCCCCCCC
Q 022691 210 GEILCPRCGLRWPN 223 (293)
Q Consensus 210 g~~~CP~C~~~W~~ 223 (293)
|+..||.|++.+..
T Consensus 58 G~q~CPqCktrYkr 71 (1079)
T PLN02638 58 GNQSCPQCKTKYKR 71 (1079)
T ss_pred CCccCCccCCchhh
Confidence 48899999999873
No 90
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=48.87 E-value=26 Score=23.66 Aligned_cols=28 Identities=7% Similarity=0.139 Sum_probs=22.3
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccE
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKI 178 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y 178 (293)
+++..-+...|+.|.++||+...+.+.|
T Consensus 31 ~vs~~tv~~~l~~L~~~g~i~~~~~~g~ 58 (60)
T smart00345 31 GVSRTTVREALSRLEAEGLVQRRPGSGT 58 (60)
T ss_pred CCCHHHHHHHHHHHHHCCCEEEecCCee
Confidence 5677788999999999999987554443
No 91
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=47.70 E-value=91 Score=22.80 Aligned_cols=57 Identities=16% Similarity=0.228 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCC-CHHHHHHHHHHHHHCCcc
Q 022691 92 KYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNF-TMSQKEKTLDEFVQDQWL 170 (293)
Q Consensus 92 ~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~l-s~seaE~lL~~Lv~~gWL 170 (293)
.+|+.|-+.+..|.+.|-. .|.-.+..-|-.. -++ |.+-+...|+.|.+.||+
T Consensus 3 ~LT~rQ~~vL~~I~~~~~~----~G~~Pt~rEIa~~----------------------~g~~S~~tv~~~L~~Le~kG~I 56 (65)
T PF01726_consen 3 ELTERQKEVLEFIREYIEE----NGYPPTVREIAEA----------------------LGLKSTSTVQRHLKALERKGYI 56 (65)
T ss_dssp ---HHHHHHHHHHHHHHHH----HSS---HHHHHHH----------------------HTSSSHHHHHHHHHHHHHTTSE
T ss_pred CCCHHHHHHHHHHHHHHHH----cCCCCCHHHHHHH----------------------hCCCChHHHHHHHHHHHHCcCc
Confidence 4677787777777776666 2333333222111 133 478889999999999999
Q ss_pred cccC
Q 022691 171 CCTP 174 (293)
Q Consensus 171 ~~s~ 174 (293)
.+..
T Consensus 57 ~r~~ 60 (65)
T PF01726_consen 57 RRDP 60 (65)
T ss_dssp EEGC
T ss_pred cCCC
Confidence 9843
No 92
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=47.64 E-value=1.2e+02 Score=25.98 Aligned_cols=66 Identities=11% Similarity=0.159 Sum_probs=41.8
Q ss_pred CchhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcE-EEEeeecCCCeEEEEE-Eec
Q 022691 4 LNWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFE-LRACRDQYVGQVCYGV-VNN 81 (293)
Q Consensus 4 ~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~e-Ir~~~~q~~g~~~y~l-VN~ 81 (293)
|+..|-.+|.+|+.+|.|+++++..++. + ....+...+... ...+|= -++.++..+|...|.+ +|.
T Consensus 12 ~g~~~v~Vl~aL~~~~~~tdEeLa~~Lg-i-------~~~~VRk~L~~L----~e~~Lv~~~r~r~~~~gw~~Y~w~i~~ 79 (158)
T TIGR00373 12 AEEEVGLVLFSLGIKGEFTDEEISLELG-I-------KLNEVRKALYAL----YDAGLADYKRRKDDETGWYEYTWRINY 79 (158)
T ss_pred cChhHHHHHHHHhccCCCCHHHHHHHHC-C-------CHHHHHHHHHHH----HHCCCceeeeeeecCCCcEEEEEEeCH
Confidence 5678889999999999999999988764 2 223344444433 333331 1245566667666654 543
No 93
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=47.16 E-value=6.6 Score=23.60 Aligned_cols=20 Identities=30% Similarity=1.062 Sum_probs=11.6
Q ss_pred chhhhhHHHh---C-CCCCCCCCC
Q 022691 200 CEVCNEAVVK---G-EILCPRCGL 219 (293)
Q Consensus 200 C~~Ck~iv~~---g-~~~CP~C~~ 219 (293)
|..|+..+.- + ...||+|+.
T Consensus 1 C~sC~~~i~~r~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 1 CTSCGRPIAPREQAVPFPCPNCGF 24 (24)
T ss_pred CccCCCcccCcccCceEeCCCCCC
Confidence 5556444332 1 568999974
No 94
>PF10071 DUF2310: Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); InterPro: IPR016908 This group represents uncharacterised conserved proteins.
Probab=46.40 E-value=12 Score=35.12 Aligned_cols=17 Identities=35% Similarity=0.847 Sum_probs=14.6
Q ss_pred CCCCCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQVPK 227 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~~ 227 (293)
.++||.|+..|.-..|-
T Consensus 220 ~r~CP~Cg~~W~L~~pl 236 (258)
T PF10071_consen 220 ARKCPSCGGDWRLKEPL 236 (258)
T ss_pred CCCCCCCCCccccCCch
Confidence 78999999999877663
No 95
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=46.16 E-value=69 Score=25.40 Aligned_cols=40 Identities=13% Similarity=0.013 Sum_probs=30.1
Q ss_pred CCCHHHHHHHHHHHHHCCcccccC---Cc---cEEeccchhhchHh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTP---DG---KIGLGVRSCLDLRG 190 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~---~G---~y~Lg~RallEL~~ 190 (293)
+++++-+-.+|++|++.||+.+.. ++ .|.|++.+.--+..
T Consensus 53 ~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~~ 98 (118)
T TIGR02337 53 CILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYAS 98 (118)
T ss_pred CCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHH
Confidence 566677788999999999999854 22 78898877654443
No 96
>PRK11050 manganese transport regulator MntR; Provisional
Probab=45.96 E-value=1.5e+02 Score=25.05 Aligned_cols=36 Identities=14% Similarity=0.085 Sum_probs=29.7
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEeccchhh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCL 186 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Rall 186 (293)
+++.+-+-..|++|.+.||+.+...+.+.|+..+..
T Consensus 62 ~is~stVsr~l~~Le~~GlI~r~~~~~v~LT~~G~~ 97 (152)
T PRK11050 62 GVSQPTVAKMLKRLARDGLVEMRPYRGVFLTPEGEK 97 (152)
T ss_pred CCCHHHHHHHHHHHHHCCCEEEecCCceEECchHHH
Confidence 577888889999999999999866677888876654
No 97
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=45.58 E-value=97 Score=21.23 Aligned_cols=24 Identities=4% Similarity=0.044 Sum_probs=20.2
Q ss_pred CCCHHHHHHHHHHHHHCCcccccC
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTP 174 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~ 174 (293)
.++++-+-.++++|++.||+.+..
T Consensus 32 ~~~~~~vs~~v~~L~~~Glv~r~~ 55 (62)
T PF12802_consen 32 GISKSTVSRIVKRLEKKGLVERER 55 (62)
T ss_dssp TS-HHHHHHHHHHHHHTTSEEEEE
T ss_pred CcCHHHHHHHHHHHHHCCCEEEeC
Confidence 578888999999999999998753
No 98
>PF14369 zf-RING_3: zinc-finger
Probab=45.48 E-value=7 Score=25.39 Aligned_cols=23 Identities=35% Similarity=0.925 Sum_probs=16.3
Q ss_pred CchhhhhHHHhC-----CCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKG-----EILCPRCGLRW 221 (293)
Q Consensus 199 ~C~~Ck~iv~~g-----~~~CP~C~~~W 221 (293)
-|..|+..|... ...||.|+..+
T Consensus 4 wCh~C~~~V~~~~~~~~~~~CP~C~~gF 31 (35)
T PF14369_consen 4 WCHQCNRFVRIAPSPDSDVACPRCHGGF 31 (35)
T ss_pred eCccCCCEeEeCcCCCCCcCCcCCCCcE
Confidence 588898876542 44599998654
No 99
>PF10826 DUF2551: Protein of unknown function (DUF2551) ; InterPro: IPR020501 This entry contains proteins with no known function.
Probab=45.46 E-value=62 Score=25.26 Aligned_cols=51 Identities=8% Similarity=0.024 Sum_probs=42.2
Q ss_pred hhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCc
Q 022691 7 KHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQF 61 (293)
Q Consensus 7 ~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~ 61 (293)
..|++|..|+.-|-+|-+++.+.++.-++ .+.......|+-||.+|-=|..
T Consensus 12 iRr~vL~~fl~~~~~T~~di~e~L~~~f~----vs~~~VasMVG~i~SrlGIL~~ 62 (83)
T PF10826_consen 12 IRRAVLKLFLKGKKFTTDDIYERLKEKFD----VSYRGVASMVGLIHSRLGILSI 62 (83)
T ss_pred HHHHHHHHHHhCCCeeHHHHHHHHHHHcC----chHHHHHHHHHHHHHhhhheee
Confidence 58999999999999999999877765554 3567789999999999876543
No 100
>PLN02195 cellulose synthase A
Probab=45.41 E-value=10 Score=41.65 Aligned_cols=14 Identities=36% Similarity=0.869 Sum_probs=12.3
Q ss_pred CCCCCCCCCCCCCC
Q 022691 210 GEILCPRCGLRWPN 223 (293)
Q Consensus 210 g~~~CP~C~~~W~~ 223 (293)
|+..||.|++.+..
T Consensus 47 g~q~CpqCkt~Yk~ 60 (977)
T PLN02195 47 GRKVCLRCGGPYDA 60 (977)
T ss_pred CCccCCccCCcccc
Confidence 48899999999993
No 101
>PRK11032 hypothetical protein; Provisional
Probab=45.39 E-value=7 Score=34.08 Aligned_cols=41 Identities=29% Similarity=0.609 Sum_probs=28.4
Q ss_pred eccchhhchHhHHhc--------------CCCCCchhhhhHHHhC----CCCCCCCCCC
Q 022691 180 LGVRSCLDLRGWFRN--------------LDVPFCEVCNEAVVKG----EILCPRCGLR 220 (293)
Q Consensus 180 Lg~RallEL~~yL~~--------------~~i~~C~~Ck~iv~~g----~~~CP~C~~~ 220 (293)
++-|+-+|...++.+ -....|..|..-...- .+-||+|+..
T Consensus 93 ItDrTqvEw~el~~dl~h~g~Y~sGEvvg~G~LvC~~Cg~~~~~~~p~~i~pCp~C~~~ 151 (160)
T PRK11032 93 ITDKTQLEWREVFQDLNHHGVYHSGEVVGLGNLVCEKCHHHLAFYTPEVLPLCPKCGHD 151 (160)
T ss_pred HHHHhHHHHHHHHHHhhhcCeeecceeeecceEEecCCCCEEEecCCCcCCCCCCCCCC
Confidence 455666666666654 1577999998875433 7799999864
No 102
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=44.90 E-value=1.3e+02 Score=25.95 Aligned_cols=129 Identities=18% Similarity=0.199 Sum_probs=70.9
Q ss_pred HHHHH--hCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcc--cccCcEEEEeeecCCCeEEEEEEeccCchhh
Q 022691 12 VQALM--TRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKEL--SSCQFELRACRDQYVGQVCYGVVNNVADEQS 87 (293)
Q Consensus 12 LQalm--srg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L--~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~t 87 (293)
+.|++ +...++.+++.+++. ..+.+.+.|..++... ..-+++|+.+ +|.+-++.-....+-+.
T Consensus 3 iEAlLF~s~~pvs~~~La~~l~---------~~~~v~~~l~~L~~~y~~~~~gl~l~~~----~~~y~l~tk~~~~~~v~ 69 (159)
T PF04079_consen 3 IEALLFASGEPVSIEELAEILG---------SEDEVEEALEELQEEYNEEDRGLELVEV----GGGYRLQTKPEYAEYVE 69 (159)
T ss_dssp HHHHHHH-SS-B-HHHHHHHCT----------HHHHHHHHHHHHHHHHHCT-SEEEEEE----TTEEEEEE-GGGHHHHH
T ss_pred hHhhHHHcCCCCCHHHHHHHhC---------CHHHHHHHHHHHHHHhccCCCCEEEEEE----CCEEEEEEhHHHHHHHH
Confidence 44554 455788888887765 1467888999999999 7789999987 33333443344444445
Q ss_pred hcCCCCCHHHHHHHHHHHHHHHh-cccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHH
Q 022691 88 KLGTKYTVQQIAFFKGILEAIAQ-DVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQ 166 (293)
Q Consensus 88 klAT~yt~~EI~ffK~lLe~I~~-~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~ 166 (293)
++...-. ...+=+..||.+.- + ....|+..++-.+|. ..+...|+.|.+
T Consensus 70 ~~~~~~~--~~~LS~aalEtLAiIA--Y~QPiTr~eIe~IRG--------------------------v~s~~~i~~L~e 119 (159)
T PF04079_consen 70 KLFKKPK--PPKLSQAALETLAIIA--YKQPITRAEIEEIRG--------------------------VNSDSVIKTLLE 119 (159)
T ss_dssp HHHCTCC--CHHHHHHHHHHHHHHH--HH-SEEHHHHHHHHT--------------------------S--HCHHHHHHH
T ss_pred HHhccCc--cCCCCHHHHHHHHHHH--hcCCcCHHHHHHHcC--------------------------CChHHHHHHHHH
Confidence 5444311 22333444442221 1 123455555544440 024458999999
Q ss_pred CCcccccC----Cc---cEEeccc
Q 022691 167 DQWLCCTP----DG---KIGLGVR 183 (293)
Q Consensus 167 ~gWL~~s~----~G---~y~Lg~R 183 (293)
.||..... .| -|+.+.+
T Consensus 120 ~glI~~~gr~~~~Grp~ly~tT~~ 143 (159)
T PF04079_consen 120 RGLIEEVGRKDTPGRPILYGTTDK 143 (159)
T ss_dssp TTSEEEEEE-TTTT--EEEEE-HH
T ss_pred CCCEEecCcCCCCCCCeEeehhHH
Confidence 99998754 45 4555555
No 103
>COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion]
Probab=44.74 E-value=48 Score=27.63 Aligned_cols=48 Identities=19% Similarity=0.228 Sum_probs=42.2
Q ss_pred chhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhh
Q 022691 41 HQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSK 88 (293)
Q Consensus 41 ~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tk 88 (293)
..+.|..++..||..+.+++=.++...|..-|..|.-++.....++.+
T Consensus 47 ~~e~L~~~v~~ink~~k~~nt~l~F~~dd~lg~~vVkI~d~~TgeVIR 94 (120)
T COG1334 47 SKEKLALIVEDINKLLKSLNTHLNFSYDDELGELVVKIIDKDTGEVIR 94 (120)
T ss_pred hHHHHHHHHHHHHHHHHhhcCceEEEEecccCcEEEEEEECCCCcchh
Confidence 345799999999999999999999999988999998888888877655
No 104
>KOG2873 consensus Ubiquinol cytochrome c reductase assembly protein CBP3 [Energy production and conversion]
Probab=43.83 E-value=45 Score=31.59 Aligned_cols=55 Identities=11% Similarity=0.109 Sum_probs=39.5
Q ss_pred hhhHHHHHHHHh--CCCCCHHHHH--HHHHHhhCCCCCCchhhHHHHHHHHHhcccccC
Q 022691 6 WKHHALVQALMT--RGPLKEKDFH--AIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQ 60 (293)
Q Consensus 6 ~~HR~fLQalms--rg~l~e~e~~--~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~ 60 (293)
+.|+.|.+||.+ .|+|+++-.. +|++.+++.++...-..+..++.=|-..+..|+
T Consensus 199 ~l~~qf~gaifaYDeG~l~dD~vLA~alWRnlF~~r~~~D~~hle~vV~YvR~qv~~Ls 257 (284)
T KOG2873|consen 199 DLERQFYGAIFAYDEGFLSDDRVLATALWRNLFSGRGNVDLVHLEAVVRYVRSQVYSLS 257 (284)
T ss_pred HHHHHHHHHHHHhcccccccchHHHHHHHHHHhCCCCCcCHHHHHHHHHHHHHHHHHHh
Confidence 469999999997 9999977654 799999875544444555566655655555543
No 105
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=43.37 E-value=8.7 Score=25.05 Aligned_cols=12 Identities=33% Similarity=1.132 Sum_probs=10.6
Q ss_pred CCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWP 222 (293)
Q Consensus 211 ~~~CP~C~~~W~ 222 (293)
..+||+|+..|.
T Consensus 25 ~vrC~~C~~~f~ 36 (37)
T PF13719_consen 25 KVRCPKCGHVFR 36 (37)
T ss_pred EEECCCCCcEee
Confidence 679999999996
No 106
>COG5540 RING-finger-containing ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=42.78 E-value=12 Score=36.11 Aligned_cols=26 Identities=27% Similarity=0.621 Sum_probs=21.8
Q ss_pred CCCchhhhhHHHhC------------------------CCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG------------------------EILCPRCGLRWP 222 (293)
Q Consensus 197 i~~C~~Ck~iv~~g------------------------~~~CP~C~~~W~ 222 (293)
=-.|.+|.+-++++ ..+||.|+++-|
T Consensus 323 GveCaICms~fiK~d~~~vlPC~H~FH~~Cv~kW~~~y~~~CPvCrt~iP 372 (374)
T COG5540 323 GVECAICMSNFIKNDRLRVLPCDHRFHVGCVDKWLLGYSNKCPVCRTAIP 372 (374)
T ss_pred CceEEEEhhhhcccceEEEeccCceechhHHHHHHhhhcccCCccCCCCC
Confidence 35899999988887 779999998754
No 107
>KOG3233 consensus RNA polymerase III, subunit C34 [Transcription]
Probab=42.70 E-value=1.2e+02 Score=28.92 Aligned_cols=92 Identities=17% Similarity=0.134 Sum_probs=62.7
Q ss_pred CCeEEEEEEeccCchhhhcCCCCCHHH--HHHHHHHHH---HHHhccc--------------CCcccchHHHHHHHhhhh
Q 022691 71 VGQVCYGVVNNVADEQSKLGTKYTVQQ--IAFFKGILE---AIAQDVM--------------AQGSISNIEALNIRLENL 131 (293)
Q Consensus 71 ~g~~~y~lVN~~sDe~tklAT~yt~~E--I~ffK~lLe---~I~~~~~--------------~~g~Iss~~aLnl~~~~q 131 (293)
+++.+|.|-|+.+|..---++=||..+ ++|+-.++. .+++... +..+++..+..+...+-.
T Consensus 139 ~~~KvYmLy~leP~~elTGG~WytDqdlDvEfIe~L~~~c~~fl~~~~~~~~~~~~gp~~~~~~~~~t~~ei~~~i~~l~ 218 (297)
T KOG3233|consen 139 SRKKVYMLYDLEPDSELTGGTWYTDQDLDVEFIEVLKQICVRFLESKRFPAEKNVEGPMFVRNESYPTVQEIKEFIRNLN 218 (297)
T ss_pred CCceEEEEecccccccccCCcccccccccHHHHHHHHHHHHHHHHhcccchhhccccchhhhhccCCCHHHHHHHHHHcC
Confidence 477899999999998888899887765 456655444 4444210 023455555554432111
Q ss_pred hhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccccCCcc
Q 022691 132 VLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCCTPDGK 177 (293)
Q Consensus 132 ~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~s~~G~ 177 (293)
+ ..-.|++.+.|.+|+-||-+|=.++.-+|.
T Consensus 219 I---------------~nV~Lsl~dleti~~vlvyDGkvE~r~dG~ 249 (297)
T KOG3233|consen 219 I---------------LNVELSLEDLETILDVLVYDGKVEKRHDGP 249 (297)
T ss_pred c---------------ccccccHHHHHHHhHHheecceeeeeecCc
Confidence 1 234689999999999999999999988883
No 108
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=42.69 E-value=10 Score=24.64 Aligned_cols=12 Identities=25% Similarity=0.852 Sum_probs=10.3
Q ss_pred CCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWP 222 (293)
Q Consensus 211 ~~~CP~C~~~W~ 222 (293)
..+||+|+..|.
T Consensus 25 ~v~C~~C~~~f~ 36 (36)
T PF13717_consen 25 KVRCSKCGHVFF 36 (36)
T ss_pred EEECCCCCCEeC
Confidence 678999999984
No 109
>PF14952 zf-tcix: Putative treble-clef, zinc-finger, Zn-binding
Probab=42.14 E-value=14 Score=25.34 Aligned_cols=14 Identities=36% Similarity=0.883 Sum_probs=10.4
Q ss_pred HhCCCCCCCCCCCC
Q 022691 208 VKGEILCPRCGLRW 221 (293)
Q Consensus 208 ~~g~~~CP~C~~~W 221 (293)
..|.++||+|++.=
T Consensus 8 lRGirkCp~CGt~N 21 (44)
T PF14952_consen 8 LRGIRKCPKCGTYN 21 (44)
T ss_pred HhccccCCcCcCcc
Confidence 45678999998763
No 110
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=41.47 E-value=7.4 Score=31.28 Aligned_cols=34 Identities=26% Similarity=0.534 Sum_probs=26.2
Q ss_pred CCCCchhhhhHHHh-------CCCCCCCCCCCCCCCCCCcc
Q 022691 196 DVPFCEVCNEAVVK-------GEILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~-------g~~~CP~C~~~W~~~~~~~~ 229 (293)
.+..|..|++..+. +...||.|+.....+++...
T Consensus 20 t~f~CP~Cge~~v~v~~~k~~~h~~C~~CG~y~~~~V~~l~ 60 (99)
T PRK14892 20 KIFECPRCGKVSISVKIKKNIAIITCGNCGLYTEFEVPSVY 60 (99)
T ss_pred cEeECCCCCCeEeeeecCCCcceEECCCCCCccCEECCccc
Confidence 57789999975443 58899999999987666544
No 111
>PF14947 HTH_45: Winged helix-turn-helix; PDB: 1XSX_B 1R7J_A.
Probab=41.34 E-value=35 Score=25.51 Aligned_cols=35 Identities=26% Similarity=0.264 Sum_probs=28.6
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccchh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSC 185 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ral 185 (293)
.+|+...+...|..|++.|-+.. .+|.|.|+++..
T Consensus 29 ~~L~~~~~~~yL~~L~~~gLI~~-~~~~Y~lTekG~ 63 (77)
T PF14947_consen 29 ANLNYSTLKKYLKELEEKGLIKK-KDGKYRLTEKGK 63 (77)
T ss_dssp ST--HHHHHHHHHHHHHTTSEEE-ETTEEEE-HHHH
T ss_pred hCcCHHHHHHHHHHHHHCcCeeC-CCCEEEECccHH
Confidence 47899999999999999999976 889999998864
No 112
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=41.21 E-value=10 Score=26.51 Aligned_cols=31 Identities=23% Similarity=0.785 Sum_probs=11.0
Q ss_pred HhHHhcC-CCCCchh--hhhHHHhC----C--CCCCCCCC
Q 022691 189 RGWFRNL-DVPFCEV--CNEAVVKG----E--ILCPRCGL 219 (293)
Q Consensus 189 ~~yL~~~-~i~~C~~--Ck~iv~~g----~--~~CP~C~~ 219 (293)
+.||..+ .+..|.. |..++... . ..||.|+.
T Consensus 9 ~~~~~~~~~~~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~ 48 (64)
T PF01485_consen 9 KRYLESDPNIRWCPNPDCEYIIEKDDGCNSPIVTCPSCGT 48 (64)
T ss_dssp HS---S---CC--TTSST---ECS-SSTTS--CCTTSCCS
T ss_pred HHHHHCCCCccCCCCCCCcccEEecCCCCCCeeECCCCCC
Confidence 4455333 5678877 88886554 2 45664443
No 113
>PF14570 zf-RING_4: RING/Ubox like zinc-binding domain; PDB: 1E4U_A 1UR6_B.
Probab=41.05 E-value=16 Score=25.55 Aligned_cols=26 Identities=19% Similarity=0.641 Sum_probs=12.4
Q ss_pred CCCCchhhhhHHHh-CCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVK-GEILCPRCGLRW 221 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~-g~~~CP~C~~~W 221 (293)
.-+.|.-|..-+.. +..+||+|++++
T Consensus 21 gf~IC~~C~~~i~~~~~g~CPgCr~~Y 47 (48)
T PF14570_consen 21 GFQICRFCYHDILENEGGRCPGCREPY 47 (48)
T ss_dssp S----HHHHHHHTTSS-SB-TTT--B-
T ss_pred CCcHHHHHHHHHHhccCCCCCCCCCCC
Confidence 35677778665554 588999999876
No 114
>PF00486 Trans_reg_C: Transcriptional regulatory protein, C terminal; InterPro: IPR001867 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 a domain that is almost always found associated with the response regulator receiver domain (see IPR001789 from INTERPRO). It may play a role in DNA binding [].; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2K4J_A 2JPB_A 1ODD_A 1OPC_A 1KGS_A 2PMU_E 2JZY_A 1GXP_B 1QQI_A 2Z33_A ....
Probab=40.87 E-value=85 Score=22.42 Aligned_cols=55 Identities=15% Similarity=0.236 Sum_probs=40.3
Q ss_pred CCchhhHHHHHHHHhC--CCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccC
Q 022691 3 SLNWKHHALVQALMTR--GPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQ 60 (293)
Q Consensus 3 ~~~~~HR~fLQalmsr--g~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~ 60 (293)
+++.....+|.+|+.+ .+++-+++.. .+-+.........+..+|..+..+|...+
T Consensus 5 ~Lt~~e~~lL~~L~~~~~~~vs~~~l~~---~~w~~~~~~~~~~l~~~I~rLR~kL~~~~ 61 (77)
T PF00486_consen 5 KLTPKEFRLLELLLRNPGRVVSREELIE---ALWGDEEDVSDNSLDVHISRLRKKLEDAG 61 (77)
T ss_dssp ESSHHHHHHHHHHHHTTTSEEEHHHHHH---HHTSSSSTTCTHHHHHHHHHHHHHHHSST
T ss_pred ecCHHHHHHHHHHHhCCCCCCCHHHhCC---hhhhcccccchhhHHHHHHHHHHHHhhcC
Confidence 3567788999999974 5677666653 23332223567899999999999999965
No 115
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=40.63 E-value=1.7e+02 Score=22.65 Aligned_cols=30 Identities=7% Similarity=0.296 Sum_probs=23.5
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCC--ccEEe
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPD--GKIGL 180 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~--G~y~L 180 (293)
-+++..-+-..|++|.+.||+.+ .. |.|++
T Consensus 57 ~g~sr~tVsr~L~~Le~~GlI~r-~~~~~~~~~ 88 (95)
T TIGR01610 57 TGLSRTHVSDAIKSLARRRIIFR-QGMMGIVGV 88 (95)
T ss_pred HCcCHHHHHHHHHHHHHCCCeee-ecCCceeec
Confidence 35677778899999999999997 44 56654
No 116
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=40.41 E-value=1.4e+02 Score=24.64 Aligned_cols=28 Identities=18% Similarity=0.367 Sum_probs=23.2
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCcc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGK 177 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~ 177 (293)
.+++.+-.-.+|.+|++.||+.+..+|+
T Consensus 32 ~~~~~tTv~T~L~rL~~KG~v~~~k~gr 59 (130)
T TIGR02698 32 KDWSDSTIKTLLGRLVDKGCLTTEKEGR 59 (130)
T ss_pred cCCcHHHHHHHHHHHHHCCceeeecCCC
Confidence 3567788889999999999999866674
No 117
>PRK09416 lstR lineage-specific thermal regulator protein; Provisional
Probab=40.37 E-value=27 Score=29.68 Aligned_cols=43 Identities=14% Similarity=0.009 Sum_probs=34.9
Q ss_pred CCHHHHHHHHHHHHHCCccccc----CCccEEeccchhhchHhHHhc
Q 022691 152 FTMSQKEKTLDEFVQDQWLCCT----PDGKIGLGVRSCLDLRGWFRN 194 (293)
Q Consensus 152 ls~seaE~lL~~Lv~~gWL~~s----~~G~y~Lg~RallEL~~yL~~ 194 (293)
++....=-+|.+|.++||+... ..-+|.|+++.--.|..|+.+
T Consensus 75 ~s~GtIYp~L~RLE~~GlI~s~~~~~~RK~Y~ITe~Gre~L~e~~~~ 121 (135)
T PRK09416 75 GNEGSLYTLLHRLEQNRFIQSSWDHEGAKYYQLTDKGNKMLRKAEKN 121 (135)
T ss_pred CCCccHHHHHHHHHHCCCeEEeecCCCceEEEECHHHHHHHHHHHhC
Confidence 4555666799999999999852 234899999999999999875
No 118
>PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets. The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A ....
Probab=40.29 E-value=1e+02 Score=20.83 Aligned_cols=47 Identities=6% Similarity=0.212 Sum_probs=34.2
Q ss_pred hHHHHHHHHh-CCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEe
Q 022691 8 HHALVQALMT-RGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRAC 66 (293)
Q Consensus 8 HR~fLQalms-rg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~ 66 (293)
.+.+|+.|+. .+.++.+++...+. .+...+...|..+|..+ +.|...
T Consensus 2 ~~~il~~L~~~~~~it~~eLa~~l~--------vS~rTi~~~i~~L~~~~----~~I~~~ 49 (55)
T PF08279_consen 2 QKQILKLLLESKEPITAKELAEELG--------VSRRTIRRDIKELREWG----IPIESK 49 (55)
T ss_dssp HHHHHHHHHHTTTSBEHHHHHHHCT--------S-HHHHHHHHHHHHHTT-----EEEEE
T ss_pred HHHHHHHHHHcCCCcCHHHHHHHhC--------CCHHHHHHHHHHHHHCC----CeEEee
Confidence 4678888864 77899888887655 46678899999998888 555443
No 119
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=39.70 E-value=74 Score=26.85 Aligned_cols=64 Identities=19% Similarity=0.306 Sum_probs=38.7
Q ss_pred hHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHh-cccccCcEEEEeeecCCC--eEEEEEEec
Q 022691 8 HHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINK-ELSSCQFELRACRDQYVG--QVCYGVVNN 81 (293)
Q Consensus 8 HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~-~L~~l~~eIr~~~~q~~g--~~~y~lVN~ 81 (293)
|-.+|.+|+.+|.++++++..++. + ....+..++...-. ++.-..+ ++.+++.+| ..||-++|.
T Consensus 3 ~~~v~d~L~~~~~~~dedLa~~l~-i-------~~n~vRkiL~~L~ed~~~~~~~--~~e~~~~~~~~~~~yw~i~y 69 (147)
T smart00531 3 AFLVLDALMRNGCVTEEDLAELLG-I-------KQKQLRKILYLLYDEKLIKIDY--KREKDPETKTWYRYYWYINY 69 (147)
T ss_pred EEeehHHHHhcCCcCHHHHHHHhC-C-------CHHHHHHHHHHHHhhhcchhhe--eeeeCCCCceEEEEEEEecH
Confidence 345688999999999999988764 2 23445555555544 1111111 344555666 456667774
No 120
>COG5219 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=39.41 E-value=16 Score=40.24 Aligned_cols=40 Identities=20% Similarity=0.478 Sum_probs=28.6
Q ss_pred hhhchHhHHhcC------CCCCchhhhhHHH-hC----CCCCCCCCCCCCC
Q 022691 184 SCLDLRGWFRNL------DVPFCEVCNEAVV-KG----EILCPRCGLRWPN 223 (293)
Q Consensus 184 allEL~~yL~~~------~i~~C~~Ck~iv~-~g----~~~CP~C~~~W~~ 223 (293)
+++|+-..+.-| +...|.+|..+.- .. .++||.|+..+|+
T Consensus 1450 s~~D~l~l~kkNi~~~fsG~eECaICYsvL~~vdr~lPskrC~TCknKFH~ 1500 (1525)
T COG5219 1450 SFMDLLGLWKKNIDEKFSGHEECAICYSVLDMVDRSLPSKRCATCKNKFHT 1500 (1525)
T ss_pred hHHHHHHHHHhhhhhhcCCcchhhHHHHHHHHHhccCCccccchhhhhhhH
Confidence 456666666653 6889999999864 21 7788888887774
No 121
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=39.28 E-value=1.7e+02 Score=25.71 Aligned_cols=62 Identities=10% Similarity=0.234 Sum_probs=38.9
Q ss_pred chhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcE-EEEeeecCCCeEEEEE
Q 022691 5 NWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFE-LRACRDQYVGQVCYGV 78 (293)
Q Consensus 5 ~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~e-Ir~~~~q~~g~~~y~l 78 (293)
+..+..+|.+|+.||.++++++..++. + +...+...+... ..-++= .++.+++.+|..+|.+
T Consensus 21 ~~~~~~Vl~~L~~~g~~tdeeLA~~Lg-i-------~~~~VRk~L~~L----~e~gLv~~~r~r~~~~Gr~~y~w 83 (178)
T PRK06266 21 DEEGFEVLKALIKKGEVTDEEIAEQTG-I-------KLNTVRKILYKL----YDARLADYKREKDEETNWYTYTW 83 (178)
T ss_pred CccHhHHHHHHHHcCCcCHHHHHHHHC-C-------CHHHHHHHHHHH----HHCCCeEEeeeeccCCCcEEEEE
Confidence 556889999999999999999988764 2 223334444333 323331 2455665667665544
No 122
>PRK00215 LexA repressor; Validated
Probab=38.98 E-value=1.4e+02 Score=26.02 Aligned_cols=69 Identities=16% Similarity=0.147 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCC-CHHHHHHHHHHHHHCCccc
Q 022691 93 YTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNF-TMSQKEKTLDEFVQDQWLC 171 (293)
Q Consensus 93 yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~l-s~seaE~lL~~Lv~~gWL~ 171 (293)
+|+.|.+.++.+.+.+... ...++..+.-. .-++ +++-+-.+|++|++.||+.
T Consensus 2 lt~~q~~il~~i~~~~~~~---~~~~s~~ela~-----------------------~~~~~~~~tv~~~l~~L~~~g~i~ 55 (205)
T PRK00215 2 LTKRQQEILDFIRDHIEET---GYPPSRREIAD-----------------------ALGLRSPSAVHEHLKALERKGFIR 55 (205)
T ss_pred CCHHHHHHHHHHHHHHHHh---CCCCCHHHHHH-----------------------HhCCCChHHHHHHHHHHHHCCCEE
Confidence 5788888888887765552 22333333211 1356 7888889999999999999
Q ss_pred ccCCc--cEEeccchhhc
Q 022691 172 CTPDG--KIGLGVRSCLD 187 (293)
Q Consensus 172 ~s~~G--~y~Lg~RallE 187 (293)
+..++ .+.|.+.+++.
T Consensus 56 ~~~~~~r~~~l~~~~~~~ 73 (205)
T PRK00215 56 RDPGRSRAIEVAAPAQLE 73 (205)
T ss_pred eCCCCcceEEeccccccc
Confidence 86554 35554444443
No 123
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=38.87 E-value=8.2 Score=32.67 Aligned_cols=30 Identities=27% Similarity=0.538 Sum_probs=21.5
Q ss_pred CCCchhhhhHHHhC-------------------CCCCCCCCCC-CCCCCC
Q 022691 197 VPFCEVCNEAVVKG-------------------EILCPRCGLR-WPNQVP 226 (293)
Q Consensus 197 i~~C~~Ck~iv~~g-------------------~~~CP~C~~~-W~~~~~ 226 (293)
..-|..|+..+..- -..||+|+.. |.|..-
T Consensus 91 ~sRC~~CN~~L~~v~~~~v~~~vp~~v~~~~~~f~~C~~C~kiyW~GsH~ 140 (147)
T PF01927_consen 91 FSRCPKCNGPLRPVSKEEVKDRVPPYVYETYDEFWRCPGCGKIYWEGSHW 140 (147)
T ss_pred CCccCCCCcEeeechhhccccccCccccccCCeEEECCCCCCEecccccH
Confidence 45799998864321 4579999987 988654
No 124
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=38.59 E-value=32 Score=27.79 Aligned_cols=34 Identities=21% Similarity=0.221 Sum_probs=27.1
Q ss_pred CCCCHHHHHHHHHHHHHCCccccc--CCccEEeccc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCT--PDGKIGLGVR 183 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s--~~G~y~Lg~R 183 (293)
.+++.....++|..|++.||+... ..|.|.|+..
T Consensus 35 ~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~l~~~ 70 (132)
T TIGR00738 35 QGISRSYLEKILRTLRRAGLVESVRGPGGGYRLARP 70 (132)
T ss_pred HCcCHHHHHHHHHHHHHCCcEEeccCCCCCccCCCC
Confidence 367888999999999999999853 3567888643
No 125
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.18 E-value=27 Score=37.88 Aligned_cols=100 Identities=20% Similarity=0.270 Sum_probs=63.2
Q ss_pred HHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCccc-ccCC
Q 022691 97 QIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLC-CTPD 175 (293)
Q Consensus 97 EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~-~s~~ 175 (293)
+.++++++|+.|+. ..-|+..+.|+.... ...++.+-....|.++++.-=-. .-.+
T Consensus 755 ~~~~v~~vl~~I~~----~~~ippl~VL~~Lak-------------------n~~ltls~IkD~ii~~l~~~~~~I~qd~ 811 (933)
T KOG2114|consen 755 CYEIVYKVLEAIEM----QERIPPLHVLQILAK-------------------NGTLTLSVIKDYIIKWLNKYSTIIEQDE 811 (933)
T ss_pred HHHHHHHHHHHHHh----cccCCHHHHHHHHhc-------------------CCceEEehhHHHHHHHHHhhhHHHHhhH
Confidence 34567778888877 346888888876421 12355555555555544332111 1134
Q ss_pred ccEEeccchhhchHhHHhcC-------CCCCchhhhhHH------------------HhCCCCCCCCCC
Q 022691 176 GKIGLGVRSCLDLRGWFRNL-------DVPFCEVCNEAV------------------VKGEILCPRCGL 219 (293)
Q Consensus 176 G~y~Lg~RallEL~~yL~~~-------~i~~C~~Ck~iv------------------~~g~~~CP~C~~ 219 (293)
..+-..-+.+=|+++-|.+. .+..|..|.-.. ..+..+||.|..
T Consensus 812 ~~Ie~yk~~i~e~r~~l~~lr~sa~i~q~skCs~C~~~LdlP~VhF~CgHsyHqhC~e~~~~~CP~C~~ 880 (933)
T KOG2114|consen 812 DAIEVYKKDIEEKRQELETLRTSAQIFQVSKCSACEGTLDLPFVHFLCGHSYHQHCLEDKEDKCPKCLP 880 (933)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcccceeeeeeecccCCccccceeeeecccHHHHHhhccCcccCCccch
Confidence 56777788888888888762 466999998752 112689999987
No 126
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=37.62 E-value=92 Score=24.21 Aligned_cols=26 Identities=19% Similarity=0.272 Sum_probs=22.2
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG 176 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G 176 (293)
+++..+..+.|+.|+++|++|-|-|.
T Consensus 76 ~~~~~~v~~al~~L~~eG~IYsTiDd 101 (102)
T PF08784_consen 76 GMSENEVRKALDFLSNEGHIYSTIDD 101 (102)
T ss_dssp TS-HHHHHHHHHHHHHTTSEEESSST
T ss_pred CcCHHHHHHHHHHHHhCCeEecccCC
Confidence 78999999999999999999976553
No 127
>COG5415 Predicted integral membrane metal-binding protein [General function prediction only]
Probab=37.59 E-value=19 Score=32.92 Aligned_cols=31 Identities=23% Similarity=0.636 Sum_probs=18.9
Q ss_pred CCCCchhhhh---HHHhC-----CCCCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNE---AVVKG-----EILCPRCGLRWPNQVPK 227 (293)
Q Consensus 196 ~i~~C~~Ck~---iv~~g-----~~~CP~C~~~W~~~~~~ 227 (293)
....|..|+. ++-.| ...||+|+ .|.+..-+
T Consensus 191 ~alIC~~C~hhngl~~~~ek~~~efiC~~Cn-~~n~~~~~ 229 (251)
T COG5415 191 KALICPQCHHHNGLYRLAEKPIIEFICPHCN-HKNDEVKE 229 (251)
T ss_pred hhhccccccccccccccccccchheecccch-hhcCcccc
Confidence 3446777665 34334 57899997 47664443
No 128
>PLN02436 cellulose synthase A
Probab=37.36 E-value=26 Score=39.07 Aligned_cols=27 Identities=33% Similarity=0.874 Sum_probs=17.8
Q ss_pred CCCchhhhhHHHh-CCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVK-GEILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C~~~W~~ 223 (293)
-|.|.-|-+--.+ |...||.|++.+..
T Consensus 63 fpvCr~Cyeyer~eg~~~Cpqckt~Y~r 90 (1094)
T PLN02436 63 FPVCRPCYEYERREGNQACPQCKTRYKR 90 (1094)
T ss_pred CccccchhhhhhhcCCccCcccCCchhh
Confidence 4445555544332 48899999999883
No 129
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=36.97 E-value=17 Score=29.54 Aligned_cols=27 Identities=33% Similarity=0.936 Sum_probs=17.1
Q ss_pred CCchhhhhHH---HhCCCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAV---VKGEILCPRCGLRWPNQ 224 (293)
Q Consensus 198 ~~C~~Ck~iv---~~g~~~CP~C~~~W~~~ 224 (293)
..|..|-.-. -+.-..||.|++.|+-.
T Consensus 10 R~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 10 RTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred ccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 4566664432 22245699999999865
No 130
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=36.83 E-value=85 Score=27.25 Aligned_cols=36 Identities=6% Similarity=0.073 Sum_probs=31.5
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccchh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSC 185 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ral 185 (293)
.++++.-.-..|..|.+.+||.+...|.|-+-|+.+
T Consensus 85 l~iS~~Tv~r~ik~L~e~~iI~k~~~G~Y~iNP~~~ 120 (165)
T PF05732_consen 85 LGISKPTVSRAIKELEEKNIIKKIRNGAYMINPNFF 120 (165)
T ss_pred hCCCHHHHHHHHHHHHhCCcEEEccCCeEEECcHHh
Confidence 467777889999999999999998889999999843
No 131
>cd00383 trans_reg_C Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and a response regulator. The former autophosphorylates in a histidine residue on detecting an external stimulus. The phosphate is then transferred to an invariant aspartate residue in a highly conserved receiver domain of the response regulator. Phosphorylation activates a variable effector domain of the response regulator, which triggers the cellular response. The C-terminal effector domain contains DNA and RNA polymerase binding sites. Several dimers or monomers bind head to tail to small tandem repeats upstream of the genes. The RNA polymerase binding sites interact with the alpha or sigma subunite of RNA polymerase.
Probab=36.31 E-value=1.8e+02 Score=21.54 Aligned_cols=53 Identities=15% Similarity=0.198 Sum_probs=37.9
Q ss_pred CchhhHHHHHHHHhC--CCCCHHHHH-HHHHHhhCCCCCCchhhHHHHHHHHHhcccccC
Q 022691 4 LNWKHHALVQALMTR--GPLKEKDFH-AIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQ 60 (293)
Q Consensus 4 ~~~~HR~fLQalmsr--g~l~e~e~~-~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~ 60 (293)
++.....+|++|+.+ .+++-+++. .++. ..+......+..+|..|.++|...+
T Consensus 24 Lt~~e~~lL~~L~~~~~~~vs~~~l~~~lw~----~~~~~~~~~l~~~I~rLRkkl~~~~ 79 (95)
T cd00383 24 LTPKEFELLELLARNPGRVLSREQLLEAVWG----DDYDVDDRTVDVHISRLRKKLEDDP 79 (95)
T ss_pred eCHHHHHHHHHHHhCCCCcCCHHHHHHHhcC----CCCCCCcccHHHHHHHHHHHhccCC
Confidence 566778999999984 477766665 3443 2212345779999999999999865
No 132
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=36.19 E-value=13 Score=32.87 Aligned_cols=24 Identities=25% Similarity=0.585 Sum_probs=21.1
Q ss_pred CCCchhhhhHHHhCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
...|..|+.+...-...||.|+.+
T Consensus 139 ~~rC~GC~~~f~~~~~~Cp~CG~~ 162 (177)
T COG1439 139 RLRCHGCKRIFPEPKDFCPICGSP 162 (177)
T ss_pred eEEEecCceecCCCCCcCCCCCCc
Confidence 668999999999777899999976
No 133
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=35.99 E-value=11 Score=27.64 Aligned_cols=24 Identities=38% Similarity=1.070 Sum_probs=16.7
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGL 219 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~ 219 (293)
.++.|..|...+.-+ ...||+|+.
T Consensus 8 ~~~~CtSCg~~i~p~e~~v~F~CPnCGe 35 (61)
T COG2888 8 DPPVCTSCGREIAPGETAVKFPCPNCGE 35 (61)
T ss_pred CCceeccCCCEeccCCceeEeeCCCCCc
Confidence 367888888777444 567777773
No 134
>PF09851 SHOCT: Short C-terminal domain; InterPro: IPR018649 This family of hypothetical prokaryotic proteins has no known function.
Probab=35.66 E-value=60 Score=20.25 Aligned_cols=23 Identities=13% Similarity=0.352 Sum_probs=18.1
Q ss_pred HHHHHHHhCCCCCHHHHHHHHHH
Q 022691 10 ALVQALMTRGPLKEKDFHAIFSG 32 (293)
Q Consensus 10 ~fLQalmsrg~l~e~e~~~l~~~ 32 (293)
.-|+.+..+|.++++++.+.-+.
T Consensus 6 ~~L~~l~~~G~IseeEy~~~k~~ 28 (31)
T PF09851_consen 6 EKLKELYDKGEISEEEYEQKKAR 28 (31)
T ss_pred HHHHHHHHcCCCCHHHHHHHHHH
Confidence 34788899999999999765443
No 135
>PF02002 TFIIE_alpha: TFIIE alpha subunit; InterPro: IPR024550 The general transcription factor TFIIE has an essential role in eukaryotic transcription initiation, together with RNA polymerase II and other general factors. Human TFIIE consists of two subunits, TFIIE-alpha and TFIIE-beta, and joins the preinitiation complex after RNA polymerase II and TFIIF []. This entry represents a helix-turn-helix (HTH) domain found in eukaryotic TFIIE-alpha []. It is also found in proteins from archaebacteria that are presumed to be TFIIE-alpha subunits [], the transcriptional regulator SarR, and also DNA-directed RNA polymerase III subunit Rpc3.; PDB: 1VD4_A 1Q1H_A.
Probab=35.40 E-value=71 Score=25.04 Aligned_cols=67 Identities=16% Similarity=0.236 Sum_probs=33.3
Q ss_pred CCchhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCc-EEEEeeecCCCe-EEEEEEe
Q 022691 3 SLNWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQF-ELRACRDQYVGQ-VCYGVVN 80 (293)
Q Consensus 3 ~~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~-eIr~~~~q~~g~-~~y~lVN 80 (293)
-|++.|-.+|-+|+.+|.|+++++..... + ....+..++... ..-+| ..++..+...|. .||-++|
T Consensus 10 ~yg~~~~~Il~~L~~~~~l~de~la~~~~-l-------~~~~vRkiL~~L----~~~~lv~~~~~~d~~~~~~~~yw~i~ 77 (105)
T PF02002_consen 10 FYGEEAVRILDALLRKGELTDEDLAKKLG-L-------KPKEVRKILYKL----YEDGLVSYRRRKDDERGWTRYYWYID 77 (105)
T ss_dssp TS-STTHHHHHHHHHH--B-HHHHHHTT--S--------HHHHHHHHHHH----HHHSS-EEEEE--------EEEEE-T
T ss_pred HcCchHHHHHHHHHHcCCcCHHHHHHHhC-C-------CHHHHHHHHHHH----HHCCCeEEEEEEcCCCcEEEEEEEEc
Confidence 36788999999999999999999887654 1 223344444443 22222 334445544343 4676776
Q ss_pred c
Q 022691 81 N 81 (293)
Q Consensus 81 ~ 81 (293)
.
T Consensus 78 ~ 78 (105)
T PF02002_consen 78 Y 78 (105)
T ss_dssp H
T ss_pred H
Confidence 5
No 136
>KOG4451 consensus Uncharacterized conserved protein (tumor-associated antigen HCA127 in humans) [Function unknown]
Probab=35.12 E-value=22 Score=32.93 Aligned_cols=25 Identities=20% Similarity=0.740 Sum_probs=23.0
Q ss_pred CCCCchhhhhHHHhCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
..+.|..|+.-+-.+.+.||-|+..
T Consensus 248 pMK~ClsChqqIHRNAPiCPlCKaK 272 (286)
T KOG4451|consen 248 PMKVCLSCHQQIHRNAPICPLCKAK 272 (286)
T ss_pred cchHHHHHHHHHhcCCCCCcchhhc
Confidence 6899999999999999999999864
No 137
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=35.08 E-value=2.2e+02 Score=23.33 Aligned_cols=34 Identities=18% Similarity=0.286 Sum_probs=27.4
Q ss_pred CCCCHHHHHHHHHHHHHCCcccc--cCCccEEeccc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCC--TPDGKIGLGVR 183 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~--s~~G~y~Lg~R 183 (293)
.+++....+++|.+|.+.||+.- ...|.|.|+-.
T Consensus 35 ~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~ 70 (135)
T TIGR02010 35 QGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRP 70 (135)
T ss_pred HCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCC
Confidence 36788899999999999999974 34577888763
No 138
>KOG3476 consensus Microtubule-associated protein CRIPT [Cytoskeleton]
Probab=35.04 E-value=17 Score=28.64 Aligned_cols=38 Identities=21% Similarity=0.534 Sum_probs=27.0
Q ss_pred eccchhhchHhHHhc--------CCCCCchhhhhHHHh-CCCCCCCC
Q 022691 180 LGVRSCLDLRGWFRN--------LDVPFCEVCNEAVVK-GEILCPRC 217 (293)
Q Consensus 180 Lg~RallEL~~yL~~--------~~i~~C~~Ck~iv~~-g~~~CP~C 217 (293)
-|+|.+-|=...+.- +.+..|.+|+..|-| |.+-|..|
T Consensus 29 sGgrkinenkaL~s~k~r~~p~gt~~~kC~iCk~~vHQ~GshYC~tC 75 (100)
T KOG3476|consen 29 SGGRKINENKALISKKKRATPYGTALAKCRICKQLVHQPGSHYCQTC 75 (100)
T ss_pred CCCeecchhhhhhhhhhhcCccccccchhHHHHHHhcCCcchhHhHh
Confidence 466666666555543 357899999999988 46677766
No 139
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=34.32 E-value=14 Score=23.69 Aligned_cols=24 Identities=29% Similarity=0.868 Sum_probs=16.3
Q ss_pred CchhhhhHHHh---------CCCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVK---------GEILCPRCGLRWP 222 (293)
Q Consensus 199 ~C~~Ck~iv~~---------g~~~CP~C~~~W~ 222 (293)
.|..|...... +..+||+|+..|.
T Consensus 4 ~CP~C~~~~~v~~~~~~~~~~~v~C~~C~~~~~ 36 (38)
T TIGR02098 4 QCPNCKTSFRVVDSQLGANGGKVRCGKCGHVWY 36 (38)
T ss_pred ECCCCCCEEEeCHHHcCCCCCEEECCCCCCEEE
Confidence 57777774211 1469999999885
No 140
>TIGR01884 cas_HTH CRISPR locus-related DNA-binding protein. Most but not all examples of this family are associated with CRISPR loci, a combination of DNA repeats and characteristic proteins encoded near the repeat cluster. The C-terminal region of this protein is homologous to DNA-binding helix-turn-helix domains with predicted transcriptional regulatory activity.
Probab=34.20 E-value=3.2e+02 Score=23.93 Aligned_cols=33 Identities=12% Similarity=0.074 Sum_probs=26.1
Q ss_pred CCCHHHHHHHHHHHHHCCcccccC--CccEEeccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTP--DGKIGLGVR 183 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~--~G~y~Lg~R 183 (293)
+++.+-+-..|++|.+.||+.+.. ...|.|++.
T Consensus 168 ~is~stv~r~L~~Le~~GlI~r~~~r~~~~~lT~~ 202 (203)
T TIGR01884 168 GKSLSTISRHLRELEKKGLVEQKGRKGKRYSLTKL 202 (203)
T ss_pred CcCHHHHHHHHHHHHHCCCEEEEcCCccEEEeCCC
Confidence 567778889999999999999864 346777653
No 141
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=34.02 E-value=12 Score=34.47 Aligned_cols=28 Identities=25% Similarity=0.666 Sum_probs=21.7
Q ss_pred CCCCchhhhhHHHhCCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKGEILCPRCGLRWPNQ 224 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g~~~CP~C~~~W~~~ 224 (293)
.-+.|..|.. .-.+...||+|+..++.+
T Consensus 308 tS~~C~~cg~-~~~r~~~C~~cg~~~~rD 335 (364)
T COG0675 308 TSKTCPCCGH-LSGRLFKCPRCGFVHDRD 335 (364)
T ss_pred CcccccccCC-ccceeEECCCCCCeehhh
Confidence 4578999999 223467999999998863
No 142
>PF09106 SelB-wing_2: Elongation factor SelB, winged helix ; InterPro: IPR015190 This entry represents a domain with a winged helix-type fold, which consists of a closed 3-helical bundle with a right-handed twist, and a small beta-sheet wing []. Different winged helix domains share a common structure, but can differ in sequence. This entry is designated "type 2". The winged helix motif is involved in both DNA and RNA binding. In the elongation factor SelB, the winged helix domains recognise RNA, allowing the complex to wrap around the small ribosomal subunit. In bacteria, the incorporation of the amino acid selenocysteine into proteins requires elongation factor SelB, which binds both transfer RNA (tRNA) and mRNA. SelB binds to an mRNA hairpin formed by the selenocysteine insertion sequence (SECIS) with extremely high specificity []. ; GO: 0003723 RNA binding, 0003746 translation elongation factor activity, 0005525 GTP binding, 0001514 selenocysteine incorporation, 0005737 cytoplasm; PDB: 2V9V_A 1LVA_A 2PLY_A 2UWM_A.
Probab=33.91 E-value=30 Score=24.53 Aligned_cols=29 Identities=14% Similarity=0.116 Sum_probs=22.4
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEe
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGL 180 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~L 180 (293)
++.....+.+|+.|+++|++.. ..+.+.|
T Consensus 31 ~l~~k~~~~ll~~l~~~g~l~~-~g~~v~L 59 (59)
T PF09106_consen 31 RLPPKLFNALLEALVAEGRLKV-EGDWVRL 59 (59)
T ss_dssp TS-HCCHHHHHHHHHHTTSEEE-ESSEEEE
T ss_pred cCCHHHHHHHHHHHHHCCCeee-ECCEeeC
Confidence 5677788999999999999996 5555543
No 143
>COG5340 Predicted transcriptional regulator [Transcription]
Probab=33.38 E-value=87 Score=29.16 Aligned_cols=44 Identities=7% Similarity=0.086 Sum_probs=34.4
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEecc-----chhhchHhHHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGV-----RSCLDLRGWFR 193 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~-----RallEL~~yL~ 193 (293)
..++++..-.+|.+|...|||++-..|.|-.=| ++-.=+.+|+.
T Consensus 40 ~ev~~n~lr~lasrLekkG~LeRi~rG~YlI~~lpage~~~~t~he~~~ 88 (269)
T COG5340 40 LEVAPNTLRELASRLEKKGWLERILRGRYLIIPLPAGEEAVYTTHEYLI 88 (269)
T ss_pred ccCCHHHHHHHHhhhhhcchhhhhcCccEEEeecCCCcccceeehhHHH
Confidence 467888999999999999999999999887644 44444555555
No 144
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=33.26 E-value=18 Score=30.70 Aligned_cols=53 Identities=25% Similarity=0.418 Sum_probs=40.5
Q ss_pred HHHHHHHHHCCcccccCCccEEeccchhhchHhHHhcCCCCCchhhhhHHHhCCCCCCCCCCCCCCCCCCcc
Q 022691 158 EKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRNLDVPFCEVCNEAVVKGEILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 158 E~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~~~i~~C~~Ck~iv~~g~~~CP~C~~~W~~~~~~~~ 229 (293)
+..+.+||++|=|..+....+ ...|+.|-..+..| +.|+.|...-..+.....
T Consensus 60 ~~~I~~~IreGRL~~~~~~nl------------------~~~CE~CG~~I~~G-r~C~~C~~~l~~~l~~~~ 112 (137)
T TIGR03826 60 EKLILKFIREGRLQLKHFPNL------------------GYPCERCGTSIREG-RLCDSCAGELKRQLSAGE 112 (137)
T ss_pred HHHHHHHHHcCCeeccCCCCC------------------cCcccccCCcCCCC-CccHHHHHHHHHHHHHHh
Confidence 568999999999987443322 25799999999999 499999988766555444
No 145
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=33.21 E-value=15 Score=30.04 Aligned_cols=24 Identities=29% Similarity=0.581 Sum_probs=17.3
Q ss_pred CCCchhhhhHHHhC---CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG---EILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g---~~~CP~C~~~ 220 (293)
.-.|..|....... ...||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~ 96 (114)
T PRK03681 70 ECWCETCQQYVTLLTQRVRRCPQCHGD 96 (114)
T ss_pred EEEcccCCCeeecCCccCCcCcCcCCC
Confidence 45899999876443 2569999964
No 146
>PF06170 DUF983: Protein of unknown function (DUF983); InterPro: IPR009325 This family consists of several bacterial proteins of unknown function.
Probab=33.20 E-value=27 Score=27.24 Aligned_cols=18 Identities=28% Similarity=0.754 Sum_probs=14.8
Q ss_pred CCCCCCCCCCCCCCCCCc
Q 022691 211 EILCPRCGLRWPNQVPKA 228 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~~~ 228 (293)
..+|++|+..+.+..+.|
T Consensus 8 ~~~C~~CG~d~~~~~adD 25 (86)
T PF06170_consen 8 APRCPHCGLDYSHARADD 25 (86)
T ss_pred CCcccccCCccccCCcCc
Confidence 468999999999887643
No 147
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=32.88 E-value=1.6e+02 Score=25.57 Aligned_cols=32 Identities=19% Similarity=0.257 Sum_probs=24.9
Q ss_pred CCC-HHHHHHHHHHHHHCCcccccCCccEEeccch
Q 022691 151 NFT-MSQKEKTLDEFVQDQWLCCTPDGKIGLGVRS 184 (293)
Q Consensus 151 ~ls-~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ra 184 (293)
+++ .+-+-..|.+|.+.||+.+ ..|.|. |.|.
T Consensus 36 ~~~s~~tv~~~l~~L~~~g~i~~-~~~~~~-~~~~ 68 (199)
T TIGR00498 36 GLRSPSAAEEHLKALERKGYIER-DPGKPR-AIRI 68 (199)
T ss_pred CCCChHHHHHHHHHHHHCCCEec-CCCCCC-eEEe
Confidence 455 7777899999999999998 667664 4443
No 148
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=32.79 E-value=24 Score=28.25 Aligned_cols=23 Identities=22% Similarity=0.514 Sum_probs=18.0
Q ss_pred CCCchhhhhHHHhC---CCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG---EILCPRCGL 219 (293)
Q Consensus 197 i~~C~~Ck~iv~~g---~~~CP~C~~ 219 (293)
+.-|..|+-|.+.. ...||+|+.
T Consensus 3 lrAC~~C~~I~~~~qf~~~gCpnC~~ 28 (98)
T cd07973 3 LRACLLCSLIKTEDQFERDGCPNCEG 28 (98)
T ss_pred CchhccCCcccccccccCCCCCCCcc
Confidence 45799999998754 468999963
No 149
>smart00647 IBR In Between Ring fingers. the domains occurs between pairs og RING fingers
Probab=32.78 E-value=32 Score=23.96 Aligned_cols=14 Identities=29% Similarity=0.805 Sum_probs=10.2
Q ss_pred CCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQ 224 (293)
Q Consensus 211 ~~~CP~C~~~W~~~ 224 (293)
...|-.|+.+||..
T Consensus 48 ~~fC~~C~~~~H~~ 61 (64)
T smart00647 48 FSFCFRCKVPWHSP 61 (64)
T ss_pred CeECCCCCCcCCCC
Confidence 45777888888754
No 150
>TIGR03829 YokU_near_AblA uncharacterized protein, YokU family. Members of this protein family occur in various species of the genus Bacillus, always next to the gene (kamA or ablA) for lysine 2,3-aminomutase. Members have a pair of CXXC motifs, and share homology to the amino-terminal region of a family of putative transcription factors for which the C-terminal is modeled by pfam01381, a helix-turn-helix domain model. This family, however, is shorter and lacks the helix-turn-helix region. The function of this protein family is unknown, but a regulatory role in compatible solute biosynthesis is suggested by local genome context.
Probab=32.72 E-value=6.2 Score=31.16 Aligned_cols=23 Identities=30% Similarity=0.755 Sum_probs=17.6
Q ss_pred CCCCCCCCCCCCCCCCCccccCC
Q 022691 211 EILCPRCGLRWPNQVPKAEILDE 233 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~~~~~~~~ 233 (293)
...|++|+..|-...--..|||.
T Consensus 35 a~~C~~CGe~y~~dev~~eIE~~ 57 (89)
T TIGR03829 35 SISCSHCGMEYQDDTTVKEIEDQ 57 (89)
T ss_pred cccccCCCcEeecHHHHHHHHhh
Confidence 67899999999876665565554
No 151
>PF14353 CpXC: CpXC protein
Probab=32.58 E-value=17 Score=29.67 Aligned_cols=19 Identities=26% Similarity=0.695 Sum_probs=15.3
Q ss_pred CCCCCCCCCCCCCCCCCcc
Q 022691 211 EILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~~~~ 229 (293)
...||+|+....-..|-..
T Consensus 38 ~~~CP~Cg~~~~~~~p~lY 56 (128)
T PF14353_consen 38 SFTCPSCGHKFRLEYPLLY 56 (128)
T ss_pred EEECCCCCCceecCCCEEE
Confidence 6789999999887666665
No 152
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=32.36 E-value=12 Score=25.47 Aligned_cols=27 Identities=26% Similarity=0.842 Sum_probs=19.0
Q ss_pred CCchhhhhHHHhC------CCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKG------EILCPRCGLRWPNQ 224 (293)
Q Consensus 198 ~~C~~Ck~iv~~g------~~~CP~C~~~W~~~ 224 (293)
++|..|..++..- ...||.|+..+.-.
T Consensus 1 ~FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~~~~~ 33 (52)
T smart00661 1 KFCPKCGNMLIPKEGKEKRRFVCRKCGYEEPIE 33 (52)
T ss_pred CCCCCCCCccccccCCCCCEEECCcCCCeEECC
Confidence 4788888876542 35699999776543
No 153
>PF12773 DZR: Double zinc ribbon
Probab=32.25 E-value=20 Score=24.34 Aligned_cols=25 Identities=32% Similarity=0.938 Sum_probs=15.3
Q ss_pred CCCCchhhhhHHH--hC-CCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVV--KG-EILCPRCGLR 220 (293)
Q Consensus 196 ~i~~C~~Ck~iv~--~g-~~~CP~C~~~ 220 (293)
+..+|..|...+. .. ...||+|+..
T Consensus 11 ~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 11 DAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred cccCChhhcCChhhccCCCCCCcCCcCC
Confidence 4566777766665 22 4567777664
No 154
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=32.22 E-value=12 Score=25.39 Aligned_cols=24 Identities=33% Similarity=0.740 Sum_probs=16.7
Q ss_pred CCchhhhhHHHhC----CCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKG----EILCPRCGLRW 221 (293)
Q Consensus 198 ~~C~~Ck~iv~~g----~~~CP~C~~~W 221 (293)
..|..|...+... ..+||.|+..-
T Consensus 4 y~C~~CG~~~~~~~~~~~~~Cp~CG~~~ 31 (46)
T PRK00398 4 YKCARCGREVELDEYGTGVRCPYCGYRI 31 (46)
T ss_pred EECCCCCCEEEECCCCCceECCCCCCeE
Confidence 4688887765332 57899998764
No 155
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=31.70 E-value=33 Score=24.90 Aligned_cols=23 Identities=35% Similarity=0.923 Sum_probs=14.6
Q ss_pred CCchhhhhHHHhCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLRWP 222 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~W~ 222 (293)
-+|..|-+.++ ...||+|+-+.-
T Consensus 30 TFC~~C~e~~l--~~~CPNCgGelv 52 (57)
T PF06906_consen 30 TFCADCAETML--NGVCPNCGGELV 52 (57)
T ss_pred cccHHHHHHHh--cCcCcCCCCccc
Confidence 34555555555 457999997653
No 156
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=31.32 E-value=14 Score=34.22 Aligned_cols=41 Identities=20% Similarity=0.384 Sum_probs=26.3
Q ss_pred eccchhhchHhHHhcC--------CCCCchhhhhHHHhC----------CCCCCCCCCC
Q 022691 180 LGVRSCLDLRGWFRNL--------DVPFCEVCNEAVVKG----------EILCPRCGLR 220 (293)
Q Consensus 180 Lg~RallEL~~yL~~~--------~i~~C~~Ck~iv~~g----------~~~CP~C~~~ 220 (293)
|.|..+.+.+.-.... .-..|..|+=++.-+ -.+||.|+..
T Consensus 172 l~~ell~~yeri~~~~kg~gvvpl~g~~C~GC~m~l~~~~~~~V~~~d~iv~CP~CgRI 230 (239)
T COG1579 172 LDPELLSEYERIRKNKKGVGVVPLEGRVCGGCHMKLPSQTLSKVRKKDEIVFCPYCGRI 230 (239)
T ss_pred cCHHHHHHHHHHHhcCCCceEEeecCCcccCCeeeecHHHHHHHhcCCCCccCCccchH
Confidence 5556555555555542 345799998764322 6789999875
No 157
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=31.00 E-value=18 Score=38.27 Aligned_cols=23 Identities=35% Similarity=0.790 Sum_probs=18.2
Q ss_pred CCchhhhhHHHhCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
+.|..|...+-.|.++||.|++.
T Consensus 28 ~~Cp~CG~~~~~~~~fC~~CG~~ 50 (645)
T PRK14559 28 KPCPQCGTEVPVDEAHCPNCGAE 50 (645)
T ss_pred CcCCCCCCCCCcccccccccCCc
Confidence 46777777777778899999875
No 158
>PF09397 Ftsk_gamma: Ftsk gamma domain; InterPro: IPR018541 This domain directs oriented DNA translocation and forms a winged helix structure []. Mutated proteins with substitutions in the FtsK gamma DNA-recognition helix are impaired in DNA binding []. ; PDB: 2VE9_B 2VE8_E 2J5O_A 2J5P_A.
Probab=30.73 E-value=75 Score=23.50 Aligned_cols=31 Identities=10% Similarity=0.270 Sum_probs=21.7
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCccEEeccchh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSC 185 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ral 185 (293)
++.-..|..++++|.++|++.. .+|. +||-+
T Consensus 31 rIGynrAariid~LE~~GiVs~-~~~~---~~R~V 61 (65)
T PF09397_consen 31 RIGYNRAARIIDQLEEEGIVSP-ANGS---KPREV 61 (65)
T ss_dssp T--HHHHHHHHHHHHHCTSBE----TT---SEEEB
T ss_pred CCCHHHHHHHHHHHHHCCCCCC-CCCC---CCCee
Confidence 4667899999999999999996 5665 66654
No 159
>COG2238 RPS19A Ribosomal protein S19E (S16A) [Translation, ribosomal structure and biogenesis]
Probab=30.40 E-value=50 Score=28.33 Aligned_cols=37 Identities=27% Similarity=0.202 Sum_probs=28.1
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc-cEEeccchhhc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG-KIGLGVRSCLD 187 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G-~y~Lg~RallE 187 (293)
+=+-+-...+|++|...||+.++.+| .++---|+||+
T Consensus 92 ~gsgsI~RkilqqLE~~G~V~k~~~GR~ltp~GrsllD 129 (147)
T COG2238 92 KGSGSIIRKVLQQLEKAGLVEKTPKGRVLTPKGRSLLD 129 (147)
T ss_pred cCCchHHHHHHHHHHHCCceeecCCCceeCccchhHHH
Confidence 33456668999999999999999866 55555566654
No 160
>PLN02189 cellulose synthase
Probab=30.39 E-value=39 Score=37.53 Aligned_cols=27 Identities=33% Similarity=0.839 Sum_probs=18.5
Q ss_pred CCCchhhhhHHHh-CCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVK-GEILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C~~~W~~ 223 (293)
-|.|.-|-|--.+ |...||.|++.+..
T Consensus 61 fpvCr~Cyeyer~eg~q~CpqCkt~Y~r 88 (1040)
T PLN02189 61 FPVCRPCYEYERREGTQNCPQCKTRYKR 88 (1040)
T ss_pred CccccchhhhhhhcCCccCcccCCchhh
Confidence 4555555554333 48899999999883
No 161
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=30.36 E-value=22 Score=30.19 Aligned_cols=24 Identities=33% Similarity=0.797 Sum_probs=20.3
Q ss_pred CCCCchhhhhHHHh-CCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVK-GEILCPRCGL 219 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~-g~~~CP~C~~ 219 (293)
++..|..|..+..+ |...||.|..
T Consensus 2 ~l~nC~~CgklF~~~~~~iCp~C~~ 26 (137)
T TIGR03826 2 ELANCPKCGRLFVKTGRDVCPSCYE 26 (137)
T ss_pred CCccccccchhhhhcCCccCHHHhH
Confidence 47789999999776 5779999986
No 162
>PF10256 Erf4: Golgin subfamily A member 7/ERF4 family; InterPro: IPR019383 Proteins in this entry include Golgin subfamily A member 7 and the Ras modification protein ERF4.
Probab=30.23 E-value=92 Score=24.99 Aligned_cols=49 Identities=14% Similarity=0.276 Sum_probs=36.1
Q ss_pred CCCCCHHHHHHHHHHhhC----C-CCC---------------------------CchhhHHHHHHHHHh-cccccCcEEE
Q 022691 18 RGPLKEKDFHAIFSGLTG----K-SPG---------------------------AHQGLFNEYLLNINK-ELSSCQFELR 64 (293)
Q Consensus 18 rg~l~e~e~~~l~~~~~~----~-~p~---------------------------~~~~~l~~~I~~IN~-~L~~l~~eIr 64 (293)
.|.|+++|+..++..+.+ . .|. .....++++|..+|. .+.+-|++|.
T Consensus 27 ~~~is~~ef~~iI~~IN~~l~~a~~~~~~~~~~~~~l~~lt~~l~~~~~~~~~~~~~~~le~~l~~~N~~~~~~~gi~ii 106 (118)
T PF10256_consen 27 SGYISPEEFEEIINTINQILKEAFEPISWRNIIENILGCLTLGLSSLCFKTHYKRKLRELEKYLEQLNEELFKPRGIKII 106 (118)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCcEEE
Confidence 678888888887776654 1 332 134689999999999 8888998776
Q ss_pred Ee
Q 022691 65 AC 66 (293)
Q Consensus 65 ~~ 66 (293)
.-
T Consensus 107 ~p 108 (118)
T PF10256_consen 107 SP 108 (118)
T ss_pred ch
Confidence 54
No 163
>PF01286 XPA_N: XPA protein N-terminal; InterPro: IPR022652 Xeroderma pigmentosum (XP) [] is a human autosomal recessive disease, characterised by a high incidence of sunlight-induced skin cancer. Skin cells of individual's with this condition are hypersensitive to ultraviolet light, due to defects in the incision step of DNA excision repair. There are a minimum of seven genetic complementation groups involved in this pathway: XP-A to XP-G. XP-A is the most severe form of the disease and is due to defects in a 30 kDa nuclear protein called XPA (or XPAC) []. The sequence of the XPA protein is conserved from higher eukaryotes [] to yeast (gene RAD14) []. XPA is a hydrophilic protein of 247 to 296 amino-acid residues which has a C4-type zinc finger motif in its central section. This entry contains the zinc-finger containing region in the XPA protein. It is found N-terminal to PF05181 from PFAM ; PDB: 1D4U_A 1XPA_A.
Probab=30.15 E-value=14 Score=24.07 Aligned_cols=19 Identities=26% Similarity=0.777 Sum_probs=11.1
Q ss_pred chHhHHhcC-CCCCchhhhh
Q 022691 187 DLRGWFRNL-DVPFCEVCNE 205 (293)
Q Consensus 187 EL~~yL~~~-~i~~C~~Ck~ 205 (293)
.+.+||.++ +.+.|..|++
T Consensus 13 f~dSyL~~~F~~~VCD~CRD 32 (34)
T PF01286_consen 13 FMDSYLLNNFDLPVCDKCRD 32 (34)
T ss_dssp ES-SSCCCCTS-S--TTT-S
T ss_pred HHHHHHHHhCCccccccccC
Confidence 567888886 8999999975
No 164
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=29.72 E-value=14 Score=26.77 Aligned_cols=29 Identities=24% Similarity=0.607 Sum_probs=22.3
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGLRWPNQ 224 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~~W~~~ 224 (293)
.-+.|..|....-.. ...||.|+..++.+
T Consensus 27 TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~~~rD 59 (69)
T PF07282_consen 27 TSQTCPRCGHRNKKRRSGRVFTCPNCGFEMDRD 59 (69)
T ss_pred CccCccCcccccccccccceEEcCCCCCEECcH
Confidence 456799998887662 67899999887753
No 165
>COG1438 ArgR Arginine repressor [Transcription]
Probab=29.69 E-value=2e+02 Score=24.83 Aligned_cols=68 Identities=10% Similarity=0.140 Sum_probs=47.1
Q ss_pred hhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCch
Q 022691 6 WKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADE 85 (293)
Q Consensus 6 ~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe 85 (293)
.+|..+.+.|-.+.+-+.+|+...++.- |.+ .++..+..-|.++| +.++. ..+|..+|++-|....+
T Consensus 6 ~R~~~Ik~iI~~~~i~TQ~Elv~~L~~~-Gi~--vTQaTvSRDlkelg---------lvKv~-~~~g~~~Y~l~~~~~~~ 72 (150)
T COG1438 6 ERLELIKEIITEEKISTQEELVELLQEE-GIE--VTQATVSRDLKELG---------LVKVR-NEKGTYVYSLPAELGVP 72 (150)
T ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHc-CCe--EehHHHHHHHHHcC---------CEEec-CCCCcEEEEeCCccCCC
Confidence 4566666666679999999998887743 222 56677777676655 45665 37788889997776554
Q ss_pred h
Q 022691 86 Q 86 (293)
Q Consensus 86 ~ 86 (293)
.
T Consensus 73 ~ 73 (150)
T COG1438 73 P 73 (150)
T ss_pred c
Confidence 3
No 166
>PRK09863 putative frv operon regulatory protein; Provisional
Probab=29.68 E-value=1.7e+02 Score=30.03 Aligned_cols=54 Identities=13% Similarity=0.072 Sum_probs=43.2
Q ss_pred CchhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEe
Q 022691 4 LNWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRAC 66 (293)
Q Consensus 4 ~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~ 66 (293)
++.+++.+|+.| .++.++..++.+.+. .+...+...|..||..|...++.+...
T Consensus 2 l~~R~~~iL~~L-~~~~~t~~~LA~~l~--------VS~RTIr~dI~~in~~l~~~~~~~i~~ 55 (584)
T PRK09863 2 LNERELKIVDLL-EQQDRSGGELAQQLG--------VSRRTIVRDIAYINFTLNGKAIGSISG 55 (584)
T ss_pred hHHHHHHHHHHH-HcCCCCHHHHHHHhC--------CCHHHHHHHHHHHHHHHHhcchhheec
Confidence 567889999977 568899888877664 456778999999999999888875554
No 167
>PRK05978 hypothetical protein; Provisional
Probab=29.64 E-value=28 Score=30.00 Aligned_cols=32 Identities=19% Similarity=0.507 Sum_probs=23.6
Q ss_pred CCCchhhhhH-HHhC----CCCCCCCCCCCCCCCCCc
Q 022691 197 VPFCEVCNEA-VVKG----EILCPRCGLRWPNQVPKA 228 (293)
Q Consensus 197 i~~C~~Ck~i-v~~g----~~~CP~C~~~W~~~~~~~ 228 (293)
--.|-.|.+= .++| ...||+|+..+....+.+
T Consensus 33 ~grCP~CG~G~LF~g~Lkv~~~C~~CG~~~~~~~a~D 69 (148)
T PRK05978 33 RGRCPACGEGKLFRAFLKPVDHCAACGEDFTHHRADD 69 (148)
T ss_pred cCcCCCCCCCcccccccccCCCccccCCccccCCccc
Confidence 4568888775 3344 789999999998876644
No 168
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=29.52 E-value=19 Score=26.29 Aligned_cols=25 Identities=32% Similarity=0.870 Sum_probs=15.0
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGLR 220 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~~ 220 (293)
..+.|..|+..+.-. ...||+|+..
T Consensus 6 ~~~~CtSCg~~i~~~~~~~~F~CPnCG~~ 34 (59)
T PRK14890 6 EPPKCTSCGIEIAPREKAVKFLCPNCGEV 34 (59)
T ss_pred cCccccCCCCcccCCCccCEeeCCCCCCe
Confidence 345677777665422 5567777654
No 169
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=29.27 E-value=1.1e+02 Score=22.04 Aligned_cols=23 Identities=9% Similarity=0.260 Sum_probs=19.2
Q ss_pred CCCHHHHHHHHHHHHHCCccccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCT 173 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s 173 (293)
+++....+.+|..|++.|.+.+.
T Consensus 25 ~~s~~~ve~mL~~l~~kG~I~~~ 47 (69)
T PF09012_consen 25 GISPEAVEAMLEQLIRKGYIRKV 47 (69)
T ss_dssp T--HHHHHHHHHHHHCCTSCEEE
T ss_pred CcCHHHHHHHHHHHHHCCcEEEe
Confidence 67889999999999999999973
No 170
>COG5111 RPC34 DNA-directed RNA polymerase III, subunit C34 [Transcription]
Probab=29.16 E-value=2.1e+02 Score=26.80 Aligned_cols=91 Identities=15% Similarity=0.118 Sum_probs=65.1
Q ss_pred CeEEEEEEeccCchhhhcCCCCCHHHH--HHHHHHH---HHHHhc-----------------ccCCcccchHHHHHHHhh
Q 022691 72 GQVCYGVVNNVADEQSKLGTKYTVQQI--AFFKGIL---EAIAQD-----------------VMAQGSISNIEALNIRLE 129 (293)
Q Consensus 72 g~~~y~lVN~~sDe~tklAT~yt~~EI--~ffK~lL---e~I~~~-----------------~~~~g~Iss~~aLnl~~~ 129 (293)
.+.+|.|-.+.+++..--++-||..|+ +|+-.++ +.++.. +..++.-+..+++|-.+.
T Consensus 141 tRKiYmLYdlvPS~eiTGGpWFtD~elDvEfi~~ll~ii~rf~~~n~fp~kn~~~gpnv~~~P~y~~ypT~~~I~n~vr~ 220 (301)
T COG5111 141 TRKIYMLYDLVPSEEITGGPWFTDNELDVEFIARLLEIIERFLEKNLFPRKNFEEGPNVFYAPKYEDYPTLEDIMNYVRN 220 (301)
T ss_pred CceEEEEecccccccccCCCccccCcccHHHHHHHHHHHHHHHHhccCCccchhcCCccccCCccCCCccHHHHHHHHHh
Confidence 577899999999988888999988874 5665554 444442 112355667777776432
Q ss_pred hhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccccCCcc
Q 022691 130 NLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCCTPDGK 177 (293)
Q Consensus 130 ~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~s~~G~ 177 (293)
.++ ..-.|+....+.|.+-||=||=+++-.+|-
T Consensus 221 ~ni---------------~~v~L~l~n~~sL~dvLvyDgKvEK~~~g~ 253 (301)
T COG5111 221 VNI---------------LSVPLRLDNLESLADVLVYDGKVEKLHSGP 253 (301)
T ss_pred cee---------------eeccccHHHHHHHhHheeecCeeeeeccCc
Confidence 222 124689999999999999999999867774
No 171
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=29.14 E-value=24 Score=33.81 Aligned_cols=27 Identities=26% Similarity=0.476 Sum_probs=21.5
Q ss_pred CCCchhhhhHHHhC-----CCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG-----EILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~g-----~~~CP~C~~~W~~ 223 (293)
-..|..|++++..- ...||+|+.-+.-
T Consensus 38 w~kc~~C~~~~~~~~l~~~~~vcp~c~~h~rl 69 (296)
T CHL00174 38 WVQCENCYGLNYKKFLKSKMNICEQCGYHLKM 69 (296)
T ss_pred eeECCCccchhhHHHHHHcCCCCCCCCCCcCC
Confidence 34699999997654 6799999987664
No 172
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=29.12 E-value=1.1e+02 Score=21.55 Aligned_cols=36 Identities=22% Similarity=-0.008 Sum_probs=27.7
Q ss_pred HHHHHHHHHCCccc---ccCCccEEeccchhhchHhHHh
Q 022691 158 EKTLDEFVQDQWLC---CTPDGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 158 E~lL~~Lv~~gWL~---~s~~G~y~Lg~RallEL~~yL~ 193 (293)
...|..|++.||+. +...|+..++..-+..|+.+..
T Consensus 14 ~~tlr~~~~~gli~~~~~~~~g~r~y~~~dl~~l~~i~~ 52 (70)
T smart00422 14 VRTLRYYERIGLLPPPIRTEGGYRLYSDEDLERLRFIKR 52 (70)
T ss_pred HHHHHHHHHCCCCCCCccCCCCCEecCHHHHHHHHHHHH
Confidence 45889999999996 3456888888888877766554
No 173
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=28.87 E-value=1.9e+02 Score=22.26 Aligned_cols=22 Identities=5% Similarity=0.072 Sum_probs=19.9
Q ss_pred CCCHHHHHHHHHHHHHCCcccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCC 172 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~ 172 (293)
+++...+-..|++|.+.||+.+
T Consensus 28 ~~s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 28 GLSPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred CcCHHHHHHHHHHHHHCCCeec
Confidence 6788899999999999999983
No 174
>PF08820 DUF1803: Domain of unknown function (DUF1803); InterPro: IPR014924 This small protein is found in one or two copies in bacteria. The function of this is unknown.
Probab=28.86 E-value=50 Score=26.28 Aligned_cols=33 Identities=6% Similarity=0.072 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHCCcccccCCccEEeccchhhchH
Q 022691 156 QKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLR 189 (293)
Q Consensus 156 eaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~ 189 (293)
..+.+++.|+..|++.+ .+|+|.|..=.+-+.+
T Consensus 43 ~~D~fie~li~~GYI~r-e~krY~L~~~~~~~~~ 75 (93)
T PF08820_consen 43 RLDIFIEALIKLGYIER-EEKRYYLNLPFLEDKE 75 (93)
T ss_pred chhHHHHHHHHcCCeEe-cCCEEEEeccccCChh
Confidence 45789999999999999 9999999876544433
No 175
>PF00017 SH2: SH2 domain; InterPro: IPR000980 The Src homology 2 (SH2) domain is a protein domain of about 100 amino-acid residues first identified as a conserved sequence region between the oncoproteins Src and Fps []. Similar sequences were later found in many other intracellular signal-transducing proteins []. SH2 domains function as regulatory modules of intracellular signalling cascades by interacting with high affinity to phosphotyrosine-containing target peptides in a sequence-specific, SH2 domains recognise between 3-6 residues C-terminal to the phosphorylated tyrosine in a fashion that differs from one SH2 domain to another, and strictly phosphorylation-dependent manner [, , , ]. They are found in a wide variety of protein contexts e.g., in association with catalytic domains of phospholipase Cy (PLCy) and the non-receptor protein tyrosine kinases; within structural proteins such as fodrin and tensin; and in a group of small adaptor molecules, i.e Crk and Nck. The domains are frequently found as repeats in a single protein sequence and will then often bind both mono- and di-phosphorylated substrates. The structure of the SH2 domain belongs to the alpha+beta class, its overall shape forming a compact flattened hemisphere. The core structural elements comprise a central hydrophobic anti-parallel beta-sheet, flanked by 2 short alpha-helices. The loop between strands 2 and 3 provides many of the binding interactions with the phosphate group of its phosphopeptide ligand, and is hence designated the phosphate binding loop, the phosphorylated ligand binds perpendicular to the beta-sheet and typically interacts with the phosphate binding loop and a hydrophobic binding pocket that interacts with a pY+3 side chain. The N- and C-termini of the domain are close together in space and on the opposite face from the phosphopeptide binding surface and it has been speculated that this has facilitated their integration into surface-exposed regions of host proteins [].; GO: 0005515 protein binding; PDB: 1M27_A 1KA6_A 1D4W_B 1D4T_A 1D1Z_B 1KA7_A 1UUR_A 1UUS_A 1BLJ_A 1BLK_A ....
Probab=28.83 E-value=26 Score=25.51 Aligned_cols=43 Identities=19% Similarity=0.064 Sum_probs=30.8
Q ss_pred CCCHHHHHHHHHHHHHCCccc-c---cCCccEEeccchhhchHhHHh
Q 022691 151 NFTMSQKEKTLDEFVQDQWLC-C---TPDGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~-~---s~~G~y~Lg~RallEL~~yL~ 193 (293)
.++..+||++|..-..+|.|- + +..|.|+|+.|.--...-|.+
T Consensus 5 ~isr~~Ae~~L~~~~~~G~FLvR~s~~~~~~~~Lsv~~~~~v~h~~I 51 (77)
T PF00017_consen 5 FISRQEAERLLMQGKPDGTFLVRPSSSKPGKYVLSVRFDGKVKHFRI 51 (77)
T ss_dssp SSHHHHHHHHHHTTSSTTEEEEEEESSSTTSEEEEEEETTEEEEEEE
T ss_pred CCCHHHHHHHHHhcCCCCeEEEEeccccccccccccccccccEEEEE
Confidence 467889999999967788774 2 235899999987654444443
No 176
>PRK00441 argR arginine repressor; Provisional
Probab=28.43 E-value=2.9e+02 Score=23.55 Aligned_cols=63 Identities=10% Similarity=0.209 Sum_probs=42.9
Q ss_pred hhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEec
Q 022691 6 WKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNN 81 (293)
Q Consensus 6 ~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~ 81 (293)
.+|..+++.|-.+++.+.+++...+... |.+ .++..+.--| .. +.|.++.+ .+|..+|++.+-
T Consensus 4 ~R~~~I~~ll~~~~~~~q~eL~~~L~~~-G~~--vSqaTisRDl-------~~--L~lvKv~~-~~G~~~Y~l~~~ 66 (149)
T PRK00441 4 SRHAKILEIINSKEIETQEELAEELKKM-GFD--VTQATVSRDI-------KE--LKLIKVLS-NDGKYKYATISK 66 (149)
T ss_pred HHHHHHHHHHHHcCCCcHHHHHHHHHhc-CCC--cCHHHHHHHH-------HH--cCcEEeEC-CCCCEEEEeCcc
Confidence 5788999999999999999999887644 322 3444444333 33 34566655 567788888553
No 177
>COG5595 Zn-ribbon-containing, possibly nucleic-acid-binding protein [General function prediction only]
Probab=28.40 E-value=37 Score=30.88 Aligned_cols=16 Identities=38% Similarity=0.955 Sum_probs=13.5
Q ss_pred CCCCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQVP 226 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~ 226 (293)
.+.||+|++.|--..|
T Consensus 218 ~r~CPsC~k~Wqlk~~ 233 (256)
T COG5595 218 YRCCPSCGKDWQLKNP 233 (256)
T ss_pred cCCCCcccccceeccc
Confidence 7899999999986554
No 178
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=28.38 E-value=23 Score=28.99 Aligned_cols=24 Identities=17% Similarity=0.443 Sum_probs=17.0
Q ss_pred CCCchhhhhHHHhC---CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG---EILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g---~~~CP~C~~~ 220 (293)
.-.|..|....... ..+||.|+..
T Consensus 71 ~~~C~~Cg~~~~~~~~~~~~CP~Cgs~ 97 (117)
T PRK00564 71 ELECKDCSHVFKPNALDYGVCEKCHSK 97 (117)
T ss_pred EEEhhhCCCccccCCccCCcCcCCCCC
Confidence 45799998765442 3359999975
No 179
>COG4357 Zinc finger domain containing protein (CHY type) [Function unknown]
Probab=28.16 E-value=34 Score=27.52 Aligned_cols=27 Identities=22% Similarity=0.591 Sum_probs=22.0
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGLRWP 222 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~~W~ 222 (293)
..-.|-+|+...+.. ...||.|+.++.
T Consensus 61 ~~iiCGvC~~~LT~~EY~~~~~Cp~C~spFN 91 (105)
T COG4357 61 KAIICGVCRKLLTRAEYGMCGSCPYCQSPFN 91 (105)
T ss_pred ccEEhhhhhhhhhHHHHhhcCCCCCcCCCCC
Confidence 346899999998876 557999999885
No 180
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=28.16 E-value=5e+02 Score=25.02 Aligned_cols=122 Identities=18% Similarity=0.210 Sum_probs=70.1
Q ss_pred chhhHHHHHHHHhC---CCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEec
Q 022691 5 NWKHHALVQALMTR---GPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNN 81 (293)
Q Consensus 5 ~~~HR~fLQalmsr---g~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~ 81 (293)
......||+.+..+ +.++.+++...+- .....+.+..||.-|+.=-+++.+ .+|..+|-++..
T Consensus 8 ~~~~~~l~~~~~~~~~~~~~~~~~L~~~~~----------~~~~~~~~~~in~Ll~~~~~~~~~----~~~~l~~~~~~~ 73 (327)
T PF05158_consen 8 SELEKKLLELCRENPSPKGFSQEDLQQLIP----------GLDLQELVKAINELLSSGLLKLLK----KGGGLSYKAVSE 73 (327)
T ss_dssp HHHHHHHHHHHHH---SS-EEHHHHHHH-T----------TS-HHHHHHHHHHHHHHTSEEEEE-----SSSEEEEE--S
T ss_pred HHHHHHHHHHHHHhcCCCCcCHHHHHhhcC----------CCCHHHHHHHHHHHHhCCCEEEEE----cCCEEEEEEeCH
Confidence 35677788888764 6677888777622 133678888889888888888877 455577877755
Q ss_pred cCchhhhcCCCCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHH
Q 022691 82 VADEQSKLGTKYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTL 161 (293)
Q Consensus 82 ~sDe~tklAT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL 161 (293)
++..|+ ..++++|. .+-.+|+ .+ .+.| |-.-+. .. ..+|......+.|
T Consensus 74 --~~a~k~-~~l~~~e~-lvy~~I~---~a-g~~G-Iw~~~i-~~----------------------~t~l~~~~~~k~l 121 (327)
T PF05158_consen 74 --EEAKKL-KGLSDEER-LVYQLIE---EA-GNKG-IWTKDI-KK----------------------KTNLHQTQLTKIL 121 (327)
T ss_dssp --SS------SSSCCHH-HHHHHHH---HH-TTT--EEHHHH-HH----------------------HCT--HHHHHHHH
T ss_pred --HHHhhh-cCCCHHHH-HHHHHHH---Hh-CCCC-CcHHHH-HH----------------------HcCCCHHHHHHHH
Confidence 333333 34556664 3333333 33 2234 433332 21 1478889999999
Q ss_pred HHHHHCCcccc
Q 022691 162 DEFVQDQWLCC 172 (293)
Q Consensus 162 ~~Lv~~gWL~~ 172 (293)
+.|+..|.+..
T Consensus 122 k~Le~k~lIK~ 132 (327)
T PF05158_consen 122 KSLESKKLIKS 132 (327)
T ss_dssp HHHHHTTSEEE
T ss_pred HHHHhCCCEEE
Confidence 99999987753
No 181
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=27.98 E-value=27 Score=33.29 Aligned_cols=27 Identities=22% Similarity=0.621 Sum_probs=22.1
Q ss_pred CCCchhhhhHHHhC-----CCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG-----EILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~g-----~~~CP~C~~~W~~ 223 (293)
-..|..|++++..- ...||+|+.-+.-
T Consensus 27 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl 58 (292)
T PRK05654 27 WTKCPSCGQVLYRKELEANLNVCPKCGHHMRI 58 (292)
T ss_pred eeECCCccchhhHHHHHhcCCCCCCCCCCeeC
Confidence 56799999997654 6799999998774
No 182
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=27.96 E-value=1e+02 Score=21.04 Aligned_cols=32 Identities=9% Similarity=0.068 Sum_probs=25.2
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCC---ccEEecc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPD---GKIGLGV 182 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~---G~y~Lg~ 182 (293)
+++...+...|+.|++.||+..... +.|.+++
T Consensus 31 ~i~~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~ 65 (78)
T cd00090 31 GLSQSTVSRHLKKLEEAGLVESRREGRRVYYSLTD 65 (78)
T ss_pred CcCHhHHHHHHHHHHHCCCeEEEEeccEEEEEeCC
Confidence 4677788899999999999996432 5777775
No 183
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=27.58 E-value=93 Score=23.29 Aligned_cols=33 Identities=15% Similarity=0.128 Sum_probs=25.9
Q ss_pred CCCCHHHHHHHHHHHHHCCccccc--CCccEEecc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCT--PDGKIGLGV 182 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s--~~G~y~Lg~ 182 (293)
.+++.....++|++|++.|.+.-. +.|.|.|.-
T Consensus 35 ~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~ 69 (83)
T PF02082_consen 35 LGISPSYLRKILQKLKKAGLIESSRGRGGGYRLAR 69 (83)
T ss_dssp HTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS
T ss_pred HCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecC
Confidence 367888999999999999998743 457888864
No 184
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=27.53 E-value=32 Score=36.43 Aligned_cols=39 Identities=18% Similarity=0.371 Sum_probs=29.7
Q ss_pred ccchhhchHhHHhc----------CCCCCchhhhhHHHhCCCCCCCCCCC
Q 022691 181 GVRSCLDLRGWFRN----------LDVPFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 181 g~RallEL~~yL~~----------~~i~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
.+.++..|..|+-+ ..+-.|..|.-+.-. ...||.|+..
T Consensus 600 n~~a~~~lv~~~~~~~~i~Y~~in~~~~~C~~CG~~~g~-~~~CP~CG~~ 648 (656)
T PRK08270 600 DAEACKKLVKKALENYRLPYITITPTFSICPKHGYLSGE-HEFCPKCGEE 648 (656)
T ss_pred CHHHHHHHHHHHHHhCCCceEEeCCCCcccCCCCCcCCC-CCCCcCCcCc
Confidence 37899999998744 168899999975322 5699999865
No 185
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=27.27 E-value=29 Score=32.91 Aligned_cols=27 Identities=19% Similarity=0.509 Sum_probs=22.0
Q ss_pred CCCchhhhhHHHhC-----CCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG-----EILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~g-----~~~CP~C~~~W~~ 223 (293)
-..|..|++++..- ...||+|+.-+.-
T Consensus 26 ~~~c~~c~~~~~~~~l~~~~~vc~~c~~h~rl 57 (285)
T TIGR00515 26 WTKCPKCGQVLYTKELERNLEVCPKCDHHMRM 57 (285)
T ss_pred eeECCCCcchhhHHHHHhhCCCCCCCCCcCcC
Confidence 45799999997653 6799999998774
No 186
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=27.21 E-value=29 Score=29.20 Aligned_cols=27 Identities=15% Similarity=0.389 Sum_probs=18.0
Q ss_pred CCchhhhhHH---HhCCCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAV---VKGEILCPRCGLRWPNQ 224 (293)
Q Consensus 198 ~~C~~Ck~iv---~~g~~~CP~C~~~W~~~ 224 (293)
..|..|..-. .+.-..||.|++.|+-.
T Consensus 10 r~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 10 RICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 4566665442 23367899999999754
No 187
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=26.95 E-value=15 Score=37.91 Aligned_cols=62 Identities=15% Similarity=0.247 Sum_probs=33.1
Q ss_pred HHHHHHHHHHCCcccccCCccEEeccchhhchHhHHhcC----------CCCCchhhhhHHHhCCCCCCCCCCC
Q 022691 157 KEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRNL----------DVPFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 157 aE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~~----------~i~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
.|.-++.++.-|=...-.=|. ...+.++.+|-.|.-++ .+..|.-|.-+... ...||.|+..
T Consensus 442 ~E~~~~~~~~GG~I~hv~l~e-~~n~~al~~lv~~~~~~~~i~Y~~in~~~~~C~~CG~~~~~-~~~CP~CGs~ 513 (546)
T PF13597_consen 442 LEAPFQKLYTGGHIFHVELGE-KPNPEALEKLVRYAMENTGIPYFTINPPIDICPDCGYIGGE-GDKCPKCGSE 513 (546)
T ss_dssp HHHHHHTTSTTB--EEEE-----T-HHHHHHHHHHHHH--H-SEEEEE--EEEETTT---S---EEE-CCC---
T ss_pred hhcccccccCCceEEEEEcCC-CCCHHHHHHHHHHHHHhCCCCeEEEecCcccccCCCcCCCC-CCCCCCCCCc
Confidence 366677776666554322233 34888888888888872 57799999988765 5699999987
No 188
>KOG4684 consensus Uncharacterized conserved protein, contains C4-type Zn-finger [General function prediction only]
Probab=26.94 E-value=16 Score=33.48 Aligned_cols=25 Identities=28% Similarity=0.527 Sum_probs=19.5
Q ss_pred CCchhhhhHHHhC-----CCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKG-----EILCPRCGLRWP 222 (293)
Q Consensus 198 ~~C~~Ck~iv~~g-----~~~CP~C~~~W~ 222 (293)
-.|.+|+++.+.. .-+||+|.+.-+
T Consensus 171 V~CgHC~~tFLfnt~tnaLArCPHCrKvSs 200 (275)
T KOG4684|consen 171 VKCGHCNETFLFNTLTNALARCPHCRKVSS 200 (275)
T ss_pred EEecCccceeehhhHHHHHhcCCcccchhh
Confidence 3799999997665 569999987643
No 189
>PF14591 AF0941-like: AF0941-like; PDB: 1YOZ_B.
Probab=26.61 E-value=1.1e+02 Score=25.66 Aligned_cols=52 Identities=10% Similarity=0.199 Sum_probs=35.6
Q ss_pred HHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeee
Q 022691 12 VQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRD 68 (293)
Q Consensus 12 LQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~ 68 (293)
++-....|=|++++|+.++..+.. ...+|..++..+-..|..+.++|.....
T Consensus 49 Il~~~~~Gdi~eEEA~~ll~eL~~-----~asqL~~~~~~~~e~l~~le~k~~k~~~ 100 (127)
T PF14591_consen 49 ILEDYKSGDIDEEEALQLLDELKS-----YASQLQEHYFRVRELLEDLERKIQKAIE 100 (127)
T ss_dssp HHHHHHTTSS-HHHHHHHHHHHHH-----HHHTHHHHHHHHHHHHHCTT--------
T ss_pred HHHHHHcCCCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344456999999999999988853 2377999999999999999999988765
No 190
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=26.61 E-value=2.3e+02 Score=24.89 Aligned_cols=37 Identities=8% Similarity=0.096 Sum_probs=28.4
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC----Ccc----EEeccchhh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP----DGK----IGLGVRSCL 186 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~----~G~----y~Lg~Rall 186 (293)
.+++..-+-..|++|++.||+.+.. .|+ |.|++....
T Consensus 25 lgis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~ 69 (203)
T TIGR02702 25 LAISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGRE 69 (203)
T ss_pred HCcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhh
Confidence 3677888889999999999998751 343 788877643
No 191
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=26.55 E-value=69 Score=21.94 Aligned_cols=23 Identities=4% Similarity=0.079 Sum_probs=19.4
Q ss_pred CCCHHHHHHHHHHHHHCCccccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCT 173 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s 173 (293)
+++.+-+-.++++|++.||+.+.
T Consensus 28 ~~~~~~~t~~i~~L~~~g~I~r~ 50 (59)
T PF01047_consen 28 GISRSTVTRIIKRLEKKGLIERE 50 (59)
T ss_dssp TS-HHHHHHHHHHHHHTTSEEEE
T ss_pred CCChhHHHHHHHHHHHCCCEEec
Confidence 57788888999999999999874
No 192
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=26.54 E-value=82 Score=24.03 Aligned_cols=36 Identities=17% Similarity=0.113 Sum_probs=28.9
Q ss_pred HHHHHHHHHCCcccccCC-ccEEeccchhhchHhHHh
Q 022691 158 EKTLDEFVQDQWLCCTPD-GKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 158 E~lL~~Lv~~gWL~~s~~-G~y~Lg~RallEL~~yL~ 193 (293)
..+|..|++.||+.-... +...|+...+.-++.+.+
T Consensus 14 ~~~l~~lve~Gli~p~~~~~~~~f~~~~l~rl~~~~r 50 (84)
T PF13591_consen 14 PEFLRELVEEGLIEPEGEEEEWYFSEEDLARLRRIRR 50 (84)
T ss_pred HHHHHHHHHCCCeeecCCCCeeeECHHHHHHHHHHHH
Confidence 458999999999996443 466699999988887766
No 193
>COG4955 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.37 E-value=70 Score=30.81 Aligned_cols=44 Identities=14% Similarity=0.132 Sum_probs=40.0
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccchhhchHhHHhc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRN 194 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~ 194 (293)
.+|+-++-|.+|++|-.+|.|.-+.+| |+.+...-.||+-||..
T Consensus 53 p~lkr~~fe~~LekL~k~~~ltv~~~~-y~Vtakgnaele~~l~~ 96 (343)
T COG4955 53 PLLKRPSFELFLEKLNKQGILTVTENG-YTVTAKGNAELEIMLHP 96 (343)
T ss_pred hhcCchhHHHHHHHHhhcCceeeccCc-eEEeecchHHHHhhhcc
Confidence 578999999999999999999997777 99999999999999986
No 194
>PF02885 Glycos_trans_3N: Glycosyl transferase family, helical bundle domain Prosite entry for Thymidine and pyrimidine-nucleoside phosphorylases; InterPro: IPR017459 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. The glycosyl transferase family includes anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase (2.4.2.2 from EC) catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism. This N-terminal domain is found in various family 3 glycosyl transferases, including anthranilate phosphoribosyltransferase (TrpD, 2.4.2.18 from EC) and thymidine phosphorylase (2.4.2.2 from EC). All these proteins can transfer a phosphorylated ribose substrate. Thymidine phosphorylase catalyses the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate. This enzyme regulates the availability of thymidine and is therefore essential to nucleic acid metabolism.; PDB: 2DSJ_B 2ELC_B 2BPQ_A 1ZVW_B 3QR9_B 1V8G_B 2WK5_C 2J0F_C 2WK6_B 1UOU_A ....
Probab=26.34 E-value=2.3e+02 Score=20.32 Aligned_cols=40 Identities=13% Similarity=0.297 Sum_probs=24.6
Q ss_pred HHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHH
Q 022691 9 HALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLL 50 (293)
Q Consensus 9 R~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~ 50 (293)
+-+|+.+.....|+.+++..++..+...+ .++..+-.|+-
T Consensus 3 ~~~l~~l~~g~~Ls~~e~~~~~~~i~~g~--~s~~qiaAfL~ 42 (66)
T PF02885_consen 3 KEILKKLRDGEDLSREEAKAAFDAILDGE--VSDAQIAAFLM 42 (66)
T ss_dssp HHHHHHHHTT----HHHHHHHHHHHHTTS--S-HHHHHHHHH
T ss_pred HHHHHHHHcCCCCCHHHHHHHHHHHHcCC--CCHHHHHHHHH
Confidence 46889999999999999999999887532 23344444443
No 195
>PF13920 zf-C3HC4_3: Zinc finger, C3HC4 type (RING finger); PDB: 2YHN_B 2YHO_G 3T6P_A 2CSY_A 2VJE_B 2VJF_B 2HDP_B 2EA5_A 2ECG_A 3EB5_A ....
Probab=26.33 E-value=42 Score=22.73 Aligned_cols=23 Identities=39% Similarity=0.852 Sum_probs=19.2
Q ss_pred CCchhhhhHHHhCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
-.|..|-.-..+....||-|+..
T Consensus 24 ~~C~~C~~~~~~~~~~CP~Cr~~ 46 (50)
T PF13920_consen 24 CFCEECAERLLKRKKKCPICRQP 46 (50)
T ss_dssp EEEHHHHHHHHHTTSBBTTTTBB
T ss_pred HHHHHHhHHhcccCCCCCcCChh
Confidence 37888888888888999999875
No 196
>PF13338 DUF4095: Domain of unknown function (DUF4095)
Probab=26.16 E-value=68 Score=25.09 Aligned_cols=49 Identities=10% Similarity=0.032 Sum_probs=35.9
Q ss_pred HHHHHHHHCCcccccCCccEEeccchhhchHhHHhc-CCCCCchhhhhHHH
Q 022691 159 KTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRN-LDVPFCEVCNEAVV 208 (293)
Q Consensus 159 ~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~-~~i~~C~~Ck~iv~ 208 (293)
..|.++++.|||.+-..|.|.+..... ++..|..- ...+.+.+|..-+.
T Consensus 5 ~~l~~~~~~G~l~rl~rGvY~~~~~~~-~~~~~~~~~~~~~~~vis~~SA~ 54 (124)
T PF13338_consen 5 RALRRLVRRGELIRLRRGVYASPEYPE-EIDRFAAAARLRPGAVISGRSAA 54 (124)
T ss_pred HHHHHHHHCCCEEEeeCCEEEcCCCCC-CHHHHHHHHHhCCCeEeeHHHHH
Confidence 479999999999999999999877664 45455432 34566777776643
No 197
>cd00162 RING RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in mediating protein-protein interactions; identified in a proteins with a wide range of functions such as viral replication, signal transduction, and development; has two variants, the C3HC4-type and a C3H2C3-type (RING-H2 finger), which have different cysteine/histidine pattern; a subset of RINGs are associated with B-Boxes (C-X2-H-X7-C-X7-C-X2-C-H-X2-H)
Probab=25.95 E-value=58 Score=20.20 Aligned_cols=23 Identities=35% Similarity=0.846 Sum_probs=14.9
Q ss_pred CchhhhhHHHh-CCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVK-GEILCPRCGLRW 221 (293)
Q Consensus 199 ~C~~Ck~iv~~-g~~~CP~C~~~W 221 (293)
+|..|-.-.+. +...||.|+..|
T Consensus 22 ~c~~C~~~~~~~~~~~Cp~C~~~~ 45 (45)
T cd00162 22 FCRSCIDKWLKSGKNTCPLCRTPI 45 (45)
T ss_pred hcHHHHHHHHHhCcCCCCCCCCcC
Confidence 55566554443 377899998764
No 198
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=25.93 E-value=14 Score=24.37 Aligned_cols=12 Identities=42% Similarity=0.996 Sum_probs=7.7
Q ss_pred CCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWP 222 (293)
Q Consensus 211 ~~~CP~C~~~W~ 222 (293)
...||+|+-.|=
T Consensus 19 id~C~~C~G~W~ 30 (41)
T PF13453_consen 19 IDVCPSCGGIWF 30 (41)
T ss_pred EEECCCCCeEEc
Confidence 346777777763
No 199
>PF12387 Peptidase_C74: Pestivirus NS2 peptidase; InterPro: IPR022120 The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the Bovine viral diarrhea virus 1 polyprotein, a cleavage that is correlated with cytopathogenicity []. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=25.84 E-value=25 Score=31.24 Aligned_cols=21 Identities=43% Similarity=1.072 Sum_probs=14.6
Q ss_pred CchhhhhHHHhCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKGEILCPRCGLR 220 (293)
Q Consensus 199 ~C~~Ck~iv~~g~~~CP~C~~~ 220 (293)
.|.+|..---+|. +||+|+..
T Consensus 164 lCtvCe~r~w~g~-~CPKCGr~ 184 (200)
T PF12387_consen 164 LCTVCEGREWKGG-NCPKCGRH 184 (200)
T ss_pred EEeeeecCccCCC-CCCcccCC
Confidence 4666666556665 79999865
No 200
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=25.84 E-value=77 Score=24.78 Aligned_cols=42 Identities=10% Similarity=0.059 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHHHHHCCccccc----C----CccEEeccchhhchHhHHh
Q 022691 152 FTMSQKEKTLDEFVQDQWLCCT----P----DGKIGLGVRSCLDLRGWFR 193 (293)
Q Consensus 152 ls~seaE~lL~~Lv~~gWL~~s----~----~G~y~Lg~RallEL~~yL~ 193 (293)
++....=.+|++|.++||+... . .-.|.|++...-.|..+..
T Consensus 37 i~~gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~l~~~~~ 86 (100)
T TIGR03433 37 VEEGSLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQLAAETE 86 (100)
T ss_pred cCCCcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHHHHHHHH
Confidence 4444556699999999999962 1 1369999999777777655
No 201
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=25.68 E-value=35 Score=29.99 Aligned_cols=24 Identities=33% Similarity=0.670 Sum_probs=17.8
Q ss_pred CCCchhhhhHHHhC-CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG-EILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g-~~~CP~C~~~ 220 (293)
+-.|.+|--++.-- -.+||.|+.+
T Consensus 134 ~~vC~vCGy~~~ge~P~~CPiCga~ 158 (166)
T COG1592 134 VWVCPVCGYTHEGEAPEVCPICGAP 158 (166)
T ss_pred EEEcCCCCCcccCCCCCcCCCCCCh
Confidence 77899997665432 6699999864
No 202
>PHA02325 hypothetical protein
Probab=25.57 E-value=28 Score=25.94 Aligned_cols=11 Identities=55% Similarity=1.694 Sum_probs=9.3
Q ss_pred CCCCCCCCCCC
Q 022691 212 ILCPRCGLRWP 222 (293)
Q Consensus 212 ~~CP~C~~~W~ 222 (293)
..||.|+..|-
T Consensus 4 k~CPkC~A~Wl 14 (72)
T PHA02325 4 KICPKCGARWL 14 (72)
T ss_pred cccCccCCEeE
Confidence 57999999875
No 203
>PF08679 DsrD: Dissimilatory sulfite reductase D (DsrD); InterPro: IPR014793 The structure of the dissimilatory sulphite reductase D (DsrD) protein has shown it to contain a winged-helix motif similar to those found in DNA binding proteins []. The structure suggests a possible role for DsrD in transcription or translation of genes, which catalyse dissimilatory sulphite reduction. ; PDB: 1WQ2_B 1UCR_B.
Probab=25.48 E-value=76 Score=23.80 Aligned_cols=34 Identities=24% Similarity=0.274 Sum_probs=25.7
Q ss_pred cCCCCHHHHHHHHHHHHHCCcccccCCc---cEEecc
Q 022691 149 FRNFTMSQKEKTLDEFVQDQWLCCTPDG---KIGLGV 182 (293)
Q Consensus 149 ~~~ls~seaE~lL~~Lv~~gWL~~s~~G---~y~Lg~ 182 (293)
+...++.++..++..||.+|=|..=..| +|+|--
T Consensus 29 ~pd~k~R~vKKi~~~LV~Eg~l~yWSSGSTTmYglkg 65 (67)
T PF08679_consen 29 FPDAKPREVKKIVNELVNEGKLEYWSSGSTTMYGLKG 65 (67)
T ss_dssp -TTS-HHHHHHHHHHHHHTTSEEEEEETTEEEEEETT
T ss_pred CCCcCHHHHHHHHHHHHhhCeEEEEcCCCcEEecCCC
Confidence 4578899999999999999998865544 666643
No 204
>PF14632 SPT6_acidic: Acidic N-terminal SPT6
Probab=25.22 E-value=39 Score=26.84 Aligned_cols=10 Identities=30% Similarity=0.733 Sum_probs=5.3
Q ss_pred ccchhhhhccC
Q 022691 277 SDFRRITRRSS 287 (293)
Q Consensus 277 ~~~~~~~~~~~ 287 (293)
..++| ++++.
T Consensus 80 ~KfkR-Lkr~~ 89 (92)
T PF14632_consen 80 KKFKR-LKRAH 89 (92)
T ss_pred hHHHH-hhhcc
Confidence 45666 55543
No 205
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=25.12 E-value=26 Score=27.58 Aligned_cols=27 Identities=30% Similarity=0.853 Sum_probs=21.8
Q ss_pred CCchhhhhHHHh--CCCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVK--GEILCPRCGLRWPNQ 224 (293)
Q Consensus 198 ~~C~~Ck~iv~~--g~~~CP~C~~~W~~~ 224 (293)
.+|..|..+... +...||.|+..+...
T Consensus 1 ~fC~~Cg~~l~~~~~~~~C~~C~~~~~~~ 29 (104)
T TIGR01384 1 KFCPKCGSLMTPKNGVYVCPSCGYEKEKK 29 (104)
T ss_pred CCCcccCcccccCCCeEECcCCCCccccc
Confidence 379999998765 478999999988754
No 206
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=25.07 E-value=3.4e+02 Score=22.18 Aligned_cols=94 Identities=9% Similarity=0.048 Sum_probs=0.0
Q ss_pred CCchhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEE----
Q 022691 3 SLNWKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGV---- 78 (293)
Q Consensus 3 ~~~~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~l---- 78 (293)
.++..+-.+|..|..+|.++..++...+.-- ...|..+=+.|...|| |.+..++.|+..+++.
T Consensus 37 glt~~q~~vL~~l~~~~~~t~~eLa~~l~i~------------~~tvsr~l~~Le~~Gl-I~R~~~~~DrR~~~l~LT~~ 103 (144)
T PRK11512 37 DITAAQFKVLCSIRCAACITPVELKKVLSVD------------LGALTRMLDRLVCKGW-VERLPNPNDKRGVLVKLTTS 103 (144)
T ss_pred CCCHHHHHHHHHHHHcCCCCHHHHHHHHCCC------------HHHHHHHHHHHHHCCC-EEeccCcccCCeeEeEEChh
Q ss_pred ---------EeccCchhhhcCCCCCHHHHHHHHHHHHHHH
Q 022691 79 ---------VNNVADEQSKLGTKYTVQQIAFFKGILEAIA 109 (293)
Q Consensus 79 ---------VN~~sDe~tklAT~yt~~EI~ffK~lLe~I~ 109 (293)
.-....-..++-..++++|++-|..+++.|+
T Consensus 104 G~~~~~~~~~~~~~~~~~~l~~~ls~ee~~~l~~~L~ki~ 143 (144)
T PRK11512 104 GAAICEQCHQLVGQDLHQELTKNLTADEVATLEHLLKKVL 143 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHc
No 207
>KOG2857 consensus Predicted MYND Zn-finger protein/hormone receptor interactor [Transcription]
Probab=24.93 E-value=36 Score=29.29 Aligned_cols=23 Identities=30% Similarity=0.883 Sum_probs=18.7
Q ss_pred CCchhhhhHHHhCCCCCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLRWP 222 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~W~ 222 (293)
-.|.+|.+..++ -+||+|..++-
T Consensus 6 ~tC~ic~e~~~K--YKCpkC~vPYC 28 (157)
T KOG2857|consen 6 TTCVICLESEIK--YKCPKCSVPYC 28 (157)
T ss_pred eeehhhhcchhh--ccCCCCCCccc
Confidence 468899888776 48999999876
No 208
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=24.88 E-value=11 Score=24.29 Aligned_cols=23 Identities=26% Similarity=0.673 Sum_probs=14.0
Q ss_pred CCCchhhhhHHHhCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGL 219 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~ 219 (293)
+..|..|..+.+--...||+|..
T Consensus 11 ~~rC~~Cg~~~~pPr~~Cp~C~s 33 (37)
T PF12172_consen 11 GQRCRDCGRVQFPPRPVCPHCGS 33 (37)
T ss_dssp EEE-TTT--EEES--SEETTTT-
T ss_pred EEEcCCCCCEecCCCcCCCCcCc
Confidence 56788888888777889999964
No 209
>TIGR02719 repress_PhaQ poly-beta-hydroxybutyrate-responsive repressor. Members of this family are transcriptional regulatory proteins found in the vicinity of poly-beta-hydroxybutyrate (PHB) operons in several species of Bacillus. This protein appears to have repressor activity modulated by PHB itself. This protein belongs to the larger PadR family (see pfam03551).
Probab=24.88 E-value=74 Score=27.00 Aligned_cols=43 Identities=12% Similarity=0.044 Sum_probs=32.8
Q ss_pred CCHHHHHHHHHHHHHCCccccc----CC----ccEEeccchhhchHhHHhc
Q 022691 152 FTMSQKEKTLDEFVQDQWLCCT----PD----GKIGLGVRSCLDLRGWFRN 194 (293)
Q Consensus 152 ls~seaE~lL~~Lv~~gWL~~s----~~----G~y~Lg~RallEL~~yL~~ 194 (293)
++....=-+|.+|.++||+... .. -.|.|++...-.|..|+.+
T Consensus 55 v~~GtLYp~L~RLE~~GlI~~~~~~~~~gp~RK~Y~LTe~Gr~~L~~~~~~ 105 (138)
T TIGR02719 55 VDQGNVYRTLRKLEKDNLISSQWDTSAEGPAKRIYSLTDAGEQYLSMCANS 105 (138)
T ss_pred CCcChHHHHHHHHHHCCCEEEEeeecCCCCCcEEEEECHHHHHHHHHHHHH
Confidence 3444556699999999999852 22 3589999999988888874
No 210
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.75 E-value=41 Score=27.44 Aligned_cols=14 Identities=36% Similarity=1.054 Sum_probs=11.6
Q ss_pred CCCCCCCCCCCCCC
Q 022691 210 GEILCPRCGLRWPN 223 (293)
Q Consensus 210 g~~~CP~C~~~W~~ 223 (293)
|...||.|+..+..
T Consensus 48 G~t~CP~Cg~~~e~ 61 (115)
T COG1885 48 GSTSCPKCGEPFES 61 (115)
T ss_pred ccccCCCCCCccce
Confidence 46799999998874
No 211
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=24.73 E-value=29 Score=36.72 Aligned_cols=24 Identities=33% Similarity=0.956 Sum_probs=11.7
Q ss_pred CCCchhhhhHHHhCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGLRWP 222 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~~W~ 222 (293)
-++|..|-.-+. ...||+|+..=+
T Consensus 15 akFC~~CG~~l~--~~~Cp~CG~~~~ 38 (645)
T PRK14559 15 NRFCQKCGTSLT--HKPCPQCGTEVP 38 (645)
T ss_pred CccccccCCCCC--CCcCCCCCCCCC
Confidence 445555533221 245666666633
No 212
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=24.73 E-value=1.7e+02 Score=28.15 Aligned_cols=102 Identities=13% Similarity=0.145 Sum_probs=58.1
Q ss_pred HHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhhcCCCCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhh
Q 022691 50 LNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSKLGTKYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLE 129 (293)
Q Consensus 50 ~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tklAT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~ 129 (293)
..+..-|..+++++..+++=.| ..|.+.+-|-.-.....++=+...+++++ .+.+||+...
T Consensus 34 D~l~R~L~~~g~~V~~V~NiTD----------iDDKii~~A~~~g~~~~ela~~y~~~f~~---------dm~~Lnv~~p 94 (300)
T PF01406_consen 34 DVLRRYLEYLGYDVTYVMNITD----------IDDKIIKRAREEGVSPQELARRYEEEFFE---------DMKALNVLPP 94 (300)
T ss_dssp HHHHHHHHHTT-EEEEEEEEB-----------SSHHHHHHHHHTTS-HHHHHHHHHHHHHH---------HHHHTT----
T ss_pred HHHHHHHHHcCCeEEEEEeccc----------cchHHHHHHHhccCCHHHHHHHHHHHHHH---------HHHHcCCCCC
Confidence 3456668889999887765211 25666664443333334444455555554 4566665421
Q ss_pred hhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccccCCccEEeccchh
Q 022691 130 NLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVRSC 185 (293)
Q Consensus 130 ~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~Ral 185 (293)
... |.+. =...+.-+++++|++.|.=|.+.+|.+.+.+..+
T Consensus 95 ~~~-------------prat--e~i~~ii~~i~~Li~~G~AY~~~~g~VYFdv~~~ 135 (300)
T PF01406_consen 95 DHY-------------PRAT--EHIPEIIELIEKLIDKGHAYESEDGSVYFDVSKF 135 (300)
T ss_dssp SEE-------------EEGG--GGHHHHHHHHHHHHHTTSEEEETTSEEEE-CCGS
T ss_pred ccc-------------cchh--ccHHHHHHHHHHHHHCCCeEEcCCCcEEEeeccc
Confidence 111 1111 1356888999999999999997778888887654
No 213
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=24.72 E-value=61 Score=34.69 Aligned_cols=39 Identities=15% Similarity=0.352 Sum_probs=27.5
Q ss_pred ccchhhchHhHHhcC--------CCCCchhhhhHHHh---C-CCCCCCCCC
Q 022691 181 GVRSCLDLRGWFRNL--------DVPFCEVCNEAVVK---G-EILCPRCGL 219 (293)
Q Consensus 181 g~RallEL~~yL~~~--------~i~~C~~Ck~iv~~---g-~~~CP~C~~ 219 (293)
.+.++.+|..|..++ .+..|..|...... + ...||.|+.
T Consensus 617 n~~a~~~lv~~~~~~i~Y~~in~~~~~C~~CG~~Ge~~~~~~~~~CP~CG~ 667 (711)
T PRK09263 617 NLKALEAVWDYSYDRVGYLGTNTPIDECYECGFTGEFECTEKGFTCPKCGN 667 (711)
T ss_pred CHHHHHHHHHHHHHCCCeEEeCCCCcccCCCCCCccccCCCCCCcCcCCCC
Confidence 567888888887762 57899999862111 1 248999985
No 214
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=24.57 E-value=32 Score=25.66 Aligned_cols=12 Identities=33% Similarity=0.908 Sum_probs=6.0
Q ss_pred CCCCCCCCC-CCC
Q 022691 212 ILCPRCGLR-WPN 223 (293)
Q Consensus 212 ~~CP~C~~~-W~~ 223 (293)
..||.|.++ |-.
T Consensus 41 ~~CPvC~~Paw~q 53 (65)
T PF14835_consen 41 SECPVCHTPAWIQ 53 (65)
T ss_dssp TB-SSS--B-S-S
T ss_pred CCCCCcCChHHHH
Confidence 469999998 654
No 215
>PF14319 Zn_Tnp_IS91: Transposase zinc-binding domain
Probab=24.56 E-value=25 Score=28.58 Aligned_cols=41 Identities=17% Similarity=0.316 Sum_probs=26.6
Q ss_pred eccchhhchHhHHhc------CCCCCchhhhhHHHhC----CCCCCCCCCC
Q 022691 180 LGVRSCLDLRGWFRN------LDVPFCEVCNEAVVKG----EILCPRCGLR 220 (293)
Q Consensus 180 Lg~RallEL~~yL~~------~~i~~C~~Ck~iv~~g----~~~CP~C~~~ 220 (293)
|+|--.-++..+|.- ...-.|..|...-+.. .+.||.|+..
T Consensus 19 l~~~~~k~~~~il~Crt~~~G~~~~~C~~Cg~~~~~~~SCk~R~CP~C~~~ 69 (111)
T PF14319_consen 19 LSPYQRKAVEAILACRTEALGFHRYRCEDCGHEKIVYNSCKNRHCPSCQAK 69 (111)
T ss_pred CCHHHHHHHHHHHhcCCccCCcceeecCCCCceEEecCcccCcCCCCCCCh
Confidence 444444444444442 1467899998876554 7899999975
No 216
>PF10865 DUF2703: Domain of unknown function (DUF2703); InterPro: IPR021219 This family of protein has no known function.
Probab=24.32 E-value=56 Score=27.13 Aligned_cols=29 Identities=14% Similarity=0.084 Sum_probs=25.2
Q ss_pred CchhhHHHHHHHHHhcccccCcEEEEeee
Q 022691 40 AHQGLFNEYLLNINKELSSCQFELRACRD 68 (293)
Q Consensus 40 ~~~~~l~~~I~~IN~~L~~l~~eIr~~~~ 68 (293)
.+.+.|.+++..++..|.++|++|+--.-
T Consensus 20 ~Tg~~L~~av~~l~~~L~~~Giev~l~~~ 48 (120)
T PF10865_consen 20 DTGETLREAVKELAPVLAPLGIEVRLEEI 48 (120)
T ss_pred hHHHHHHHHHHHHHHHHHhCCcEEEEEEE
Confidence 46789999999999999999999986543
No 217
>PF05158 RNA_pol_Rpc34: RNA polymerase Rpc34 subunit; InterPro: IPR007832 The family comprises a subunit specific to RNA Pol III, the tRNA specific polymerase. The C34 subunit of Saccharomyces cerevisiae RNA Pol III is part of a subcomplex of three subunits which have no counterpart in the other two nuclear RNA polymerases. This subunit interacts with TFIIIB70 and therefore participates in Pol III recruitment [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2DK8_A 2DK5_A 2YU3_A.
Probab=24.23 E-value=47 Score=32.07 Aligned_cols=112 Identities=14% Similarity=0.122 Sum_probs=10.2
Q ss_pred EEEeee-cCCCeEEEEEEeccCchhhhcCCCCCHHHHH--HHHHHHHHHHhcccCCcccchH-------------HHHHH
Q 022691 63 LRACRD-QYVGQVCYGVVNNVADEQSKLGTKYTVQQIA--FFKGILEAIAQDVMAQGSISNI-------------EALNI 126 (293)
Q Consensus 63 Ir~~~~-q~~g~~~y~lVN~~sDe~tklAT~yt~~EI~--ffK~lLe~I~~~~~~~g~Iss~-------------~aLnl 126 (293)
|+.++. ...++++|.|.|+.+++..=-++=|+..|++ |+..+.+.++.=-......... .++-.
T Consensus 130 IK~vksv~~~~rK~Yml~~l~Ps~eiTGG~wy~d~e~D~efi~~l~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~ 209 (327)
T PF05158_consen 130 IKSVKSVKNPNRKVYMLYDLEPSEEITGGPWYTDGEFDTEFIDVLREQCLRFIQQKSFPSSEQISQKTSSSSADPQALPY 209 (327)
T ss_dssp EEEE--SS-SS--EEEESSS------------------------------------------------------------
T ss_pred EEEecCcCCCCeEEEEEccCCcCcccCCCCcccCCcccHHHHHHHHHHHHHHHHhCcCcccccccccccccccccccccc
Confidence 444433 2458899999999999988888888887753 4444444333200001111100 00000
Q ss_pred Hhhhhhhc-ccc--ccccCCCCCcccCCCCHHHHHHHHHHHHHCCcccccCCc
Q 022691 127 RLENLVLS-TQG--SQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQWLCCTPDG 176 (293)
Q Consensus 127 ~~~~q~~~-~~~--~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gWL~~s~~G 176 (293)
.......+ .++ ..=..+.+ ....|+..+.+.+|+.||=||=+++...+
T Consensus 210 ~~~~~~~~T~~eI~~fI~~sgI--s~v~Ls~eDI~~LL~tLVyDgkIE~v~~~ 260 (327)
T PF05158_consen 210 PAGYASYPTLEEIAEFINKSGI--SNVELSEEDIESLLDTLVYDGKIEEVRSG 260 (327)
T ss_dssp -----------------------------------------------------
T ss_pred ccccCCCCCHHHHHHHHHHcCC--CceecCHHHHHHHHHHHhhCceeEEEecc
Confidence 00000000 000 00000112 12468999999999999999999976554
No 218
>PF04502 DUF572: Family of unknown function (DUF572) ; InterPro: IPR007590 This entry represents eukaryotic proteins with undetermined function belonging to the CWC16 family.
Probab=23.99 E-value=22 Score=34.24 Aligned_cols=24 Identities=42% Similarity=0.987 Sum_probs=20.4
Q ss_pred CchhhhhHHHhC-----------------------CCCCCCCCCCCC
Q 022691 199 FCEVCNEAVVKG-----------------------EILCPRCGLRWP 222 (293)
Q Consensus 199 ~C~~Ck~iv~~g-----------------------~~~CP~C~~~W~ 222 (293)
.|..|.+-+-+| ..+||.|...+.
T Consensus 42 ~C~~C~~~I~kG~rFNA~Ke~v~~E~Yls~~I~rF~~kC~~C~~~i~ 88 (324)
T PF04502_consen 42 WCNTCGEYIYKGVRFNARKEKVGNEKYLSTPIYRFYIKCPRCSNEIE 88 (324)
T ss_pred cCCCCccccccceeeeeeeEecCCCccccceEEEEEEEcCCCCCEEe
Confidence 699999998887 668999998776
No 219
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=23.98 E-value=26 Score=28.57 Aligned_cols=24 Identities=33% Similarity=0.552 Sum_probs=17.1
Q ss_pred CCCchhhhhHHHhC--CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG--EILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g--~~~CP~C~~~ 220 (293)
.-.|..|....... ...||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (115)
T TIGR00100 70 ECECEDCSEEVSPEIDLYRCPKCHGI 95 (115)
T ss_pred EEEcccCCCEEecCCcCccCcCCcCC
Confidence 45799998665443 5569999965
No 220
>PRK03341 arginine repressor; Provisional
Probab=23.93 E-value=4.3e+02 Score=23.05 Aligned_cols=63 Identities=16% Similarity=0.187 Sum_probs=43.0
Q ss_pred hhhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeE-EEEEEec
Q 022691 6 WKHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQV-CYGVVNN 81 (293)
Q Consensus 6 ~~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~-~y~lVN~ 81 (293)
.+|..+++.|-.+++.+.+++...+... |.+ .++..+.--|.++ .+.++.+ .+|+. +|++.+.
T Consensus 15 ~R~~~I~~li~~~~i~tQ~eL~~~L~~~-Gi~--vTQaTiSRDl~eL---------~~~Kv~~-~~G~~~~Y~lp~~ 78 (168)
T PRK03341 15 ARQARIVAILSRQSVRSQAELAALLADE-GIE--VTQATLSRDLDEL---------GAVKLRG-ADGGLGVYVVPEE 78 (168)
T ss_pred HHHHHHHHHHHHCCCccHHHHHHHHHHc-CCc--ccHHHHHHHHHHh---------cCEeeec-CCCCEEEEEeccc
Confidence 5788899999999999999999888744 332 4555555444443 3445554 45665 8888664
No 221
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=23.80 E-value=33 Score=31.54 Aligned_cols=65 Identities=15% Similarity=0.254 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHHHCCcc--cccC--CccEE-eccchhhchHhHHhcCCCCCchhhhhHHHh----------CCCCCCC
Q 022691 152 FTMSQKEKTLDEFVQDQWL--CCTP--DGKIG-LGVRSCLDLRGWFRNLDVPFCEVCNEAVVK----------GEILCPR 216 (293)
Q Consensus 152 ls~seaE~lL~~Lv~~gWL--~~s~--~G~y~-Lg~RallEL~~yL~~~~i~~C~~Ck~iv~~----------g~~~CP~ 216 (293)
..+..+-.+|..|.+.|.| ..|- ||-.. -|.+-++||-..+. -..|..|...... ..+.||.
T Consensus 72 ~~Pn~~H~ala~L~~~g~~~~viTQNIDgLh~~aG~~~VielHG~~~---~~~C~~C~~~~~~~~~~~~~~~~~~p~Cp~ 148 (244)
T PRK14138 72 AKPNLAHVLLAKLEEKGLIEAVITQNIDRLHQKAGSKKVIELHGNVE---EYYCVRCGKRYTVEDVIEKLEKSDVPRCDD 148 (244)
T ss_pred CCCCHHHHHHHHHHHcCCceEEEeecccChhhHcCCCeEEEccCCcC---eeEECCCCCcccHHHHHHHHhcCCCCCCCC
Confidence 4566778899999998877 2322 23111 23344666655554 3458888765321 1578999
Q ss_pred CCC
Q 022691 217 CGL 219 (293)
Q Consensus 217 C~~ 219 (293)
|+.
T Consensus 149 Cgg 151 (244)
T PRK14138 149 CSG 151 (244)
T ss_pred CCC
Confidence 984
No 222
>PF08280 HTH_Mga: M protein trans-acting positive regulator (MGA) HTH domain; InterPro: IPR013199 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions [].; PDB: 2WTE_A 3SQN_A.
Probab=23.72 E-value=1.7e+02 Score=20.63 Aligned_cols=44 Identities=9% Similarity=0.169 Sum_probs=33.1
Q ss_pred hhHHHHHHHHhCCCCCHHHHHHHHHHhhCCCCCCchhhHHHHHHHHHhcccc
Q 022691 7 KHHALVQALMTRGPLKEKDFHAIFSGLTGKSPGAHQGLFNEYLLNINKELSS 58 (293)
Q Consensus 7 ~HR~fLQalmsrg~l~e~e~~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~ 58 (293)
++-.+|.+|...+.++.+++...+. .+...+..+|+.+|..+..
T Consensus 6 rq~~Ll~~L~~~~~~~~~ela~~l~--------~S~rti~~~i~~L~~~f~~ 49 (59)
T PF08280_consen 6 RQLKLLELLLKNKWITLKELAKKLN--------ISERTIKNDINELNEFFPE 49 (59)
T ss_dssp HHHHHHHHHHHHTSBBHHHHHHHCT--------S-HHHHHHHHHHHHTT--T
T ss_pred HHHHHHHHHHcCCCCcHHHHHHHHC--------CCHHHHHHHHHHHHHHhhh
Confidence 4567888888899999888877655 3567899999999988764
No 223
>PRK11827 hypothetical protein; Provisional
Probab=23.72 E-value=18 Score=26.43 Aligned_cols=28 Identities=29% Similarity=0.638 Sum_probs=22.6
Q ss_pred CCCCchhhhhHHHhC----CCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG----EILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g----~~~CP~C~~~W~~ 223 (293)
+|-.|-.|+.-+... ...|+.|+-.+|-
T Consensus 7 eILaCP~ckg~L~~~~~~~~Lic~~~~laYPI 38 (60)
T PRK11827 7 EIIACPVCNGKLWYNQEKQELICKLDNLAFPL 38 (60)
T ss_pred hheECCCCCCcCeEcCCCCeEECCccCeeccc
Confidence 678899999876653 4689999999984
No 224
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=23.72 E-value=86 Score=30.97 Aligned_cols=32 Identities=16% Similarity=0.072 Sum_probs=27.8
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEec
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLG 181 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg 181 (293)
.++...+.+++|++|.+.||+.++.+|.|.++
T Consensus 320 l~~~~~~v~~iL~~L~~agLI~~~~~g~~~l~ 351 (412)
T PRK04214 320 EPMGYDELGELLCELARIGLLRRGERGQWVLA 351 (412)
T ss_pred hCCCHHHHHHHHHHHHhCCCeEecCCCceEec
Confidence 34778888999999999999999887888876
No 225
>KOG4218 consensus Nuclear hormone receptor betaFTZ-F1 [Transcription]
Probab=23.65 E-value=32 Score=33.83 Aligned_cols=27 Identities=22% Similarity=0.536 Sum_probs=19.3
Q ss_pred CCCCchhhhhHHH---hC------------------CCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVV---KG------------------EILCPRCGLRWP 222 (293)
Q Consensus 196 ~i~~C~~Ck~iv~---~g------------------~~~CP~C~~~W~ 222 (293)
.+..|+.||...- |+ .++||.|...=.
T Consensus 31 GLLTCESCKGFFKRTVQNnK~YtC~e~qnC~iDkTqRKRCP~CRFQKC 78 (475)
T KOG4218|consen 31 GLLTCESCKGFFKRTVQNNKQYTCSEEQNCHIDKTQRKRCPSCRFQKC 78 (475)
T ss_pred eeeehhhhhhHHHHHhhcCcceecccccccccchHhhccCCchhHHHH
Confidence 5778999998742 11 789999976533
No 226
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=23.64 E-value=4.3e+02 Score=22.74 Aligned_cols=44 Identities=14% Similarity=0.209 Sum_probs=32.5
Q ss_pred CCCCHHHHHHHHHHHHHCCcccc--cCCccEEeccc----hhhchHhHHh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCC--TPDGKIGLGVR----SCLDLRGWFR 193 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~--s~~G~y~Lg~R----allEL~~yL~ 193 (293)
.+++..-.+++|..|.+.|++.. ...|-|.|+-- ++.|.-.-+.
T Consensus 35 ~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~Lar~p~~Itl~dIl~aie 84 (164)
T PRK10857 35 QGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLGKDASSIAVGEVISAVD 84 (164)
T ss_pred HCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeeccCCHHHCCHHHHHHHHc
Confidence 36788899999999999999984 45688998654 3444444443
No 227
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.58 E-value=47 Score=25.40 Aligned_cols=24 Identities=42% Similarity=1.002 Sum_probs=16.2
Q ss_pred CCCchhhhhHHHhCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGLRWP 222 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~~W~ 222 (293)
-.+|..|-+.++.| .||+|+-+.-
T Consensus 29 cTFCadCae~~l~g--~CPnCGGelv 52 (84)
T COG3813 29 CTFCADCAENRLHG--LCPNCGGELV 52 (84)
T ss_pred eehhHhHHHHhhcC--cCCCCCchhh
Confidence 34666666666665 5999987653
No 228
>KOG2463 consensus Predicted RNA-binding protein Nob1p involved in 26S proteasome assembly [Posttranslational modification, protein turnover, chaperones]
Probab=23.53 E-value=20 Score=34.93 Aligned_cols=25 Identities=24% Similarity=0.602 Sum_probs=19.9
Q ss_pred CCCCchhhhhHHHhC-CCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG-EILCPRCGLR 220 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g-~~~CP~C~~~ 220 (293)
.|..|+.|..+..-- ..+||+|+..
T Consensus 241 ~iLRCh~Cfsit~~m~k~FCp~CG~~ 266 (376)
T KOG2463|consen 241 YILRCHGCFSITSEMPKDFCPSCGHK 266 (376)
T ss_pred heeEeeeeeEecCccchhcccccCCC
Confidence 466899999987543 7899999876
No 229
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=23.47 E-value=45 Score=35.18 Aligned_cols=39 Identities=23% Similarity=0.483 Sum_probs=30.4
Q ss_pred ccchhhchHhHHhcC---------CCCCchhhhhHHHhCCCCCCCCCC
Q 022691 181 GVRSCLDLRGWFRNL---------DVPFCEVCNEAVVKGEILCPRCGL 219 (293)
Q Consensus 181 g~RallEL~~yL~~~---------~i~~C~~Ck~iv~~g~~~CP~C~~ 219 (293)
.|.++.+|..+..+. .+-.|..|......-...||.|+.
T Consensus 543 n~~al~~lv~~~~~~~i~Y~~inp~~~~C~~CG~~~~g~~~~CP~CGs 590 (625)
T PRK08579 543 DPEALAKLTKRIMNTKLVYWSYTPAITVCNKCGRSTTGLYTRCPRCGS 590 (625)
T ss_pred CHHHHHHHHHHHHhcCCceEEeCCCCccCCCCCCccCCCCCcCcCCCC
Confidence 689999999998552 577999999844222679999995
No 230
>KOG3816 consensus Cell differentiation regulator of the Headcase family [Signal transduction mechanisms]
Probab=23.34 E-value=38 Score=33.75 Aligned_cols=15 Identities=27% Similarity=0.873 Sum_probs=12.6
Q ss_pred CCCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQV 225 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~ 225 (293)
...|-.|++.|++.-
T Consensus 439 sI~C~~Ck~~wDGss 453 (526)
T KOG3816|consen 439 SIICKNCKKDWDGSS 453 (526)
T ss_pred hHHHhhcCCCCCCcc
Confidence 667999999999853
No 231
>PF13878 zf-C2H2_3: zinc-finger of acetyl-transferase ESCO
Probab=23.32 E-value=30 Score=23.08 Aligned_cols=19 Identities=32% Similarity=0.866 Sum_probs=15.9
Q ss_pred CCCCCCCCCCCCCCCCCcc
Q 022691 211 EILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~~~~~ 229 (293)
...||.|+-.+....|+++
T Consensus 13 ~~~C~~CgM~Y~~~~~eD~ 31 (41)
T PF13878_consen 13 ATTCPTCGMLYSPGSPEDE 31 (41)
T ss_pred CcCCCCCCCEECCCCHHHH
Confidence 5689999999998888665
No 232
>COG5222 Uncharacterized conserved protein, contains RING Zn-finger [General function prediction only]
Probab=23.31 E-value=88 Score=30.26 Aligned_cols=56 Identities=18% Similarity=0.417 Sum_probs=38.7
Q ss_pred cCCccEEeccchhhchHhHHhc------C-C----------CCCchhhhhHHHhC----------------------CCC
Q 022691 173 TPDGKIGLGVRSCLDLRGWFRN------L-D----------VPFCEVCNEAVVKG----------------------EIL 213 (293)
Q Consensus 173 s~~G~y~Lg~RallEL~~yL~~------~-~----------i~~C~~Ck~iv~~g----------------------~~~ 213 (293)
+.+|.|..-.--.-+-+.|-.. + + -..|.+|+.++.+. ..+
T Consensus 233 t~EG~yVv~qpdvqsWe~Yq~r~~a~~~~~Dqv~k~~~~~i~LkCplc~~Llrnp~kT~cC~~~fc~eci~~al~dsDf~ 312 (427)
T COG5222 233 TPEGGYVVAQPDVQSWEKYQQRTKAVAEIPDQVYKMQPPNISLKCPLCHCLLRNPMKTPCCGHTFCDECIGTALLDSDFK 312 (427)
T ss_pred cCCCCeEEeccchHHHHHHHHHHHhhhhCchhhhccCCCCccccCcchhhhhhCcccCccccchHHHHHHhhhhhhcccc
Confidence 4778888777666677777653 1 1 25799998885432 789
Q ss_pred CCCCCC---CCCCCCCCc
Q 022691 214 CPRCGL---RWPNQVPKA 228 (293)
Q Consensus 214 CP~C~~---~W~~~~~~~ 228 (293)
||+|.+ .-++-+|+.
T Consensus 313 CpnC~rkdvlld~l~pD~ 330 (427)
T COG5222 313 CPNCSRKDVLLDGLTPDI 330 (427)
T ss_pred CCCcccccchhhccCccH
Confidence 999998 566666643
No 233
>TIGR02589 cas_Csd2 CRISPR-associated protein, Csd2 family. This model represents one of two closely related CRISPR-associated proteins that belong to the larger family of TIGR01595. Members are the Csd2 protein of the Dvulg subtype of CRISPR/cas system. CRISPR stands for Clustered Regularly Interspaced Short Palindromic Repeats. The related model is TIGR02590, the Csh2 protein of the Hmari CRISPR subtype.
Probab=23.24 E-value=1.1e+02 Score=29.23 Aligned_cols=34 Identities=15% Similarity=0.296 Sum_probs=27.9
Q ss_pred EEEEEEeccCchhhhcCCCCCHHHHHHHHHHHHHHHhc
Q 022691 74 VCYGVVNNVADEQSKLGTKYTVQQIAFFKGILEAIAQD 111 (293)
Q Consensus 74 ~~y~lVN~~sDe~tklAT~yt~~EI~ffK~lLe~I~~~ 111 (293)
.||++||-..- + -|.||.+.++.|+.+|-.|++.
T Consensus 180 ~~~G~IN~~~A---~-~Tg~SeeDlell~~AL~~~fe~ 213 (284)
T TIGR02589 180 VAHGFISAQLA---E-KTGFSDEDLELIKQALVNMFEN 213 (284)
T ss_pred EEEEEEChhhH---h-hcCCCHHHHHHHHHHHHHHhhc
Confidence 46777887662 2 3999999999999999999994
No 234
>PHA02929 N1R/p28-like protein; Provisional
Probab=23.06 E-value=41 Score=31.15 Aligned_cols=15 Identities=20% Similarity=0.578 Sum_probs=10.4
Q ss_pred CCCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQV 225 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~ 225 (293)
...||-|...+..-.
T Consensus 216 ~~tCPlCR~~~~~v~ 230 (238)
T PHA02929 216 KNTCPVCRTPFISVI 230 (238)
T ss_pred CCCCCCCCCEeeEEe
Confidence 667888887766433
No 235
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=23.06 E-value=3.4e+02 Score=25.45 Aligned_cols=37 Identities=14% Similarity=0.002 Sum_probs=26.4
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccC---CccEE--eccchhh
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTP---DGKIG--LGVRSCL 186 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~---~G~y~--Lg~Rall 186 (293)
-++|.+-.-+-+.+|...|-+.--+ .|.|. ++++.+-
T Consensus 208 lGVSRs~ireAlrkLE~aGvIe~r~LG~kGt~V~~l~~~~~~ 249 (251)
T TIGR02787 208 VGITRSVIVNALRKLESAGVIESRSLGMKGTYIKVLNDKLIE 249 (251)
T ss_pred HCCCHHHHHHHHHHHHHCCCEEeccCCCCccEeCCCChhhhh
Confidence 4688888899999999999998634 35554 4444333
No 236
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=23.04 E-value=31 Score=34.11 Aligned_cols=27 Identities=30% Similarity=0.578 Sum_probs=20.4
Q ss_pred CCCCchhhhhHHHhC---CCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG---EILCPRCGLRWP 222 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g---~~~CP~C~~~W~ 222 (293)
.+..|..|.+++... ..+||+|+...+
T Consensus 239 ~~~~c~~cg~~~~~~~~~~~~c~~Cg~~~~ 268 (380)
T COG1867 239 YIYHCSRCGEIVGSFREVDEKCPHCGGKVH 268 (380)
T ss_pred cEEEcccccceecccccccccCCcccccce
Confidence 588999998665544 889999995433
No 237
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=22.83 E-value=45 Score=35.11 Aligned_cols=39 Identities=18% Similarity=0.387 Sum_probs=29.6
Q ss_pred ccchhhchHhHHhcC---------CCCCchhhhhHHHhCCCCCCCCCC
Q 022691 181 GVRSCLDLRGWFRNL---------DVPFCEVCNEAVVKGEILCPRCGL 219 (293)
Q Consensus 181 g~RallEL~~yL~~~---------~i~~C~~Ck~iv~~g~~~CP~C~~ 219 (293)
.|.++..|-.++-+. .+..|..|.-+...-...||.|+.
T Consensus 541 n~eal~~lv~~~~~~~i~Yf~in~~~~iC~~CG~~~~g~~~~CP~CGs 588 (623)
T PRK08271 541 SEEGYRKLLNIAAKTGCNYFAFNVKITICNDCHHIDKRTGKRCPICGS 588 (623)
T ss_pred CHHHHHHHHHHHHHcCCceEEeCCCCccCCCCCCcCCCCCcCCcCCCC
Confidence 678888888887652 688999999873222569999985
No 238
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=22.48 E-value=31 Score=28.06 Aligned_cols=24 Identities=25% Similarity=0.625 Sum_probs=16.3
Q ss_pred CCCchhhhhHHHhC--CCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVKG--EILCPRCGLR 220 (293)
Q Consensus 197 i~~C~~Ck~iv~~g--~~~CP~C~~~ 220 (293)
.-.|..|....-.. ...||.|+..
T Consensus 70 ~~~C~~Cg~~~~~~~~~~~CP~Cgs~ 95 (113)
T PRK12380 70 QAWCWDCSQVVEIHQHDAQCPHCHGE 95 (113)
T ss_pred EEEcccCCCEEecCCcCccCcCCCCC
Confidence 44799998654332 4459999964
No 239
>cd04894 ACT_ACR-like_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-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 (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=22.36 E-value=92 Score=23.29 Aligned_cols=30 Identities=20% Similarity=0.230 Sum_probs=24.8
Q ss_pred cccccCcEEEEeeecCCCeEEEEEEeccCc
Q 022691 55 ELSSCQFELRACRDQYVGQVCYGVVNNVAD 84 (293)
Q Consensus 55 ~L~~l~~eIr~~~~q~~g~~~y~lVN~~sD 84 (293)
-|-.|++.|.+.....||++.|++.=....
T Consensus 20 ~il~fGl~i~rgd~sTDGkWCyiv~wVv~~ 49 (69)
T cd04894 20 IILEFGLNITRGDDSTDGRWCYIVFWVVPR 49 (69)
T ss_pred HHHHhceEEEecccccCCcEEEEEEEEecC
Confidence 345689999999999999999998766653
No 240
>PHA02975 hypothetical protein; Provisional
Probab=22.32 E-value=84 Score=23.68 Aligned_cols=32 Identities=19% Similarity=0.363 Sum_probs=23.5
Q ss_pred HHHHHHhhCCCCCCchhhHHHHHHHHHhcccc
Q 022691 27 HAIFSGLTGKSPGAHQGLFNEYLLNINKELSS 58 (293)
Q Consensus 27 ~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~ 58 (293)
.+||+.++|.--..++++|++||+.+-..|..
T Consensus 2 dKLYaaiFGvFmsS~DdDF~nFI~vVksVLtd 33 (69)
T PHA02975 2 EKLFTGTYGVFLESNDSDFEDFIDTIMHVLTG 33 (69)
T ss_pred hhHHHHHHHhhcCCChHHHHHHHHHHHHHHcC
Confidence 47888888732123579999999999887753
No 241
>PF04135 Nop10p: Nucleolar RNA-binding protein, Nop10p family; InterPro: IPR007264 H/ACA ribonucleoprotein particles (RNPs) are a family of RNA pseudouridine synthases that specify modification sites through guide RNAs. More than 100 mammalian H/ACA RNAs form an equal number of ribonucleoproteins (RNPs) by associating with the same four core proteins: Cbf5, Gar1, Nhp2 and Nop10. The function of these H/ACA RNPs is essential for biogenesis of the ribosome, splicing of precursor mRNAs (pre-mRNAs), maintenance of telomeres and probably for additional cellular processes []. Recent crystal structures of archaeal H/ACA protein complexes show how the same four proteins accommodate >100 distinct but related H/ACA RNAs []. The complex contains a stable core composed of Cbf5 and Nop10, to which Gar1 and Nhp2 subsequently bind, the complex interacts with snoRNAs []. In eukaryotes Nop10 is a nucleolar protein that is specifically associated with H/ACA snoRNAs. It is essential for normal 18S rRNA production and rRNA pseudouridylation by the ribonucleoprotein particles containing H/ACA snoRNAs (H/ACA snoRNPs). Nop10 is probably necessary for the stability of these RNPs [].; PDB: 2RFK_B 3LWR_B 2HVY_C 3HAX_C 3MQK_B 3LWO_B 3LWV_B 3HAY_C 3HJY_B 2EY4_E ....
Probab=22.29 E-value=45 Score=23.81 Aligned_cols=30 Identities=27% Similarity=0.431 Sum_probs=21.8
Q ss_pred CCchhhhhHHHhCCCCCCCCCCCCCCCCCCcc
Q 022691 198 PFCEVCNEAVVKGEILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 198 ~~C~~Ck~iv~~g~~~CP~C~~~W~~~~~~~~ 229 (293)
..|..|+.--++ .+||.|+..+-...|-.+
T Consensus 6 r~c~~~~~YTLk--~~cp~cG~~T~~ahPaRF 35 (53)
T PF04135_consen 6 RKCPGCRVYTLK--DKCPPCGGPTESAHPARF 35 (53)
T ss_dssp EECTTTCEEESS--SBBTTTSSBSEESSSSSS
T ss_pred ccCCCCCcEeCC--CccCCCCCCCcCCcCCCC
Confidence 356666522222 499999999999999888
No 242
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=22.06 E-value=19 Score=23.09 Aligned_cols=27 Identities=22% Similarity=0.596 Sum_probs=19.7
Q ss_pred CCCCchhhhhHHHh----CCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVK----GEILCPRCGLRWP 222 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~----g~~~CP~C~~~W~ 222 (293)
++..|..|+.-++. +...|+.|+...+
T Consensus 2 ~~~~C~~C~~~~i~~~~~~~~~C~~Cg~~~~ 32 (33)
T PF08792_consen 2 NLKKCSKCGGNGIVNKEDDYEVCIFCGSSFP 32 (33)
T ss_pred CceEcCCCCCCeEEEecCCeEEcccCCcEee
Confidence 46788889886544 4778999987653
No 243
>KOG2907 consensus RNA polymerase I transcription factor TFIIS, subunit A12.2/RPA12 [Transcription]
Probab=22.05 E-value=38 Score=27.99 Aligned_cols=28 Identities=32% Similarity=0.924 Sum_probs=22.7
Q ss_pred CCCCchhhhhHHHh----CCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVK----GEILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~----g~~~CP~C~~~W~~ 223 (293)
++-+|..|-.|+-- +...|+.|+..|+.
T Consensus 6 ~~~FC~~CG~ll~~~~~~~~~~C~~Ck~~~~v 37 (116)
T KOG2907|consen 6 DLDFCSDCGSLLEEPSAQSTVLCIRCKIEYPV 37 (116)
T ss_pred CcchhhhhhhhcccccccCceEeccccccCCH
Confidence 67799999999643 36569999999995
No 244
>PF10415 FumaraseC_C: Fumarase C C-terminus; InterPro: IPR018951 Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Krebs cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit []. This entry does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle. ; GO: 0016829 lyase activity, 0006099 tricarboxylic acid cycle; PDB: 3RRP_A 3OCE_D 3OCF_D 3E04_B 3GTD_A 3R6V_F 3R6Q_F 1J3U_B 1FUR_A 1YFE_A ....
Probab=21.86 E-value=87 Score=22.23 Aligned_cols=25 Identities=12% Similarity=0.422 Sum_probs=19.3
Q ss_pred hhHHHHHHHHhCCCCCHHHHHHHHH
Q 022691 7 KHHALVQALMTRGPLKEKDFHAIFS 31 (293)
Q Consensus 7 ~HR~fLQalmsrg~l~e~e~~~l~~ 31 (293)
.++.+-+.++..|.|+++++..++.
T Consensus 24 ~g~svre~v~~~g~lt~ee~d~ll~ 48 (55)
T PF10415_consen 24 EGRSVREVVLEEGLLTEEELDELLD 48 (55)
T ss_dssp HT--HHHHHHHTTSS-HHHHHHHTS
T ss_pred cCCCHHHHHHHcCCCCHHHHHHHcC
Confidence 3677889999999999999999876
No 245
>smart00862 Trans_reg_C Transcriptional regulatory protein, C terminal. This domain is almost always found associated with the response regulator receiver domain. It may play a role in DNA binding.
Probab=21.86 E-value=3e+02 Score=19.42 Aligned_cols=55 Identities=11% Similarity=0.222 Sum_probs=39.1
Q ss_pred CCchhhHHHHHHHHhC--CCCCHHHHHH-HHHHhhCCCCCCchhhHHHHHHHHHhcccccC
Q 022691 3 SLNWKHHALVQALMTR--GPLKEKDFHA-IFSGLTGKSPGAHQGLFNEYLLNINKELSSCQ 60 (293)
Q Consensus 3 ~~~~~HR~fLQalmsr--g~l~e~e~~~-l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~l~ 60 (293)
.++.....+|.+|+.+ .+++-+++.. ++.. ..+......+..+|..+.++|.+.+
T Consensus 5 ~Lt~~e~~lL~~L~~~~~~~vs~~~l~~~lw~~---~~~~~~~~~l~~~i~~LR~~l~~~~ 62 (78)
T smart00862 5 KLTPKEFRLLELLLRNPGRVVSREELLEAVWGD---DDDDVDDNTLDVHISRLRKKLEDDG 62 (78)
T ss_pred ecCHHHHHHHHHHHhCCCCccCHHHHHHHHcCC---CCCCCccchHHHHHHHHHHHHhcCC
Confidence 3566677899999984 4788777664 4431 1123456789999999999998865
No 246
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=21.84 E-value=33 Score=21.98 Aligned_cols=23 Identities=30% Similarity=0.573 Sum_probs=15.5
Q ss_pred CCchhhhhHHHhC--CCCCCCCCCC
Q 022691 198 PFCEVCNEAVVKG--EILCPRCGLR 220 (293)
Q Consensus 198 ~~C~~Ck~iv~~g--~~~CP~C~~~ 220 (293)
-.|..|-.+..-. -..||.|+..
T Consensus 3 ~~C~~CG~i~~g~~~p~~CP~Cg~~ 27 (34)
T cd00729 3 WVCPVCGYIHEGEEAPEKCPICGAP 27 (34)
T ss_pred EECCCCCCEeECCcCCCcCcCCCCc
Confidence 3588888775432 4589999863
No 247
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=21.79 E-value=55 Score=32.50 Aligned_cols=30 Identities=23% Similarity=0.647 Sum_probs=22.4
Q ss_pred CCCCchhhhhHHHhC-CCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG-EILCPRCGLRWPNQV 225 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g-~~~CP~C~~~W~~~~ 225 (293)
++..|+.|.-.+..| ...||+|+..=....
T Consensus 214 ~~~~C~~Cd~~~~~~~~a~CpRC~~~L~~~~ 244 (403)
T TIGR00155 214 KLRSCSACHTTILPAQEPVCPRCSTPLYVRR 244 (403)
T ss_pred CCCcCCCCCCccCCCCCcCCcCCCCcccCCC
Confidence 466799999977666 568999998754433
No 248
>PF10264 Stork_head: Winged helix Storkhead-box1 domain; InterPro: IPR019391 In humans the Storkhead-box protein controls polyploidization of extravillus trophoblast and is implicated in pre-eclampsia []. This entry represents the conserved N-terminal winged-helix domain, which is likely to bind DNA.
Probab=21.74 E-value=1.3e+02 Score=23.38 Aligned_cols=30 Identities=13% Similarity=0.152 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHHCCcccccCCccEEecc
Q 022691 153 TMSQKEKTLDEFVQDQWLCCTPDGKIGLGV 182 (293)
Q Consensus 153 s~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~ 182 (293)
+..-....|..|+++|=+|.+.+|++.++|
T Consensus 50 s~e~l~~~L~~Li~erkIY~tg~GYfivtP 79 (80)
T PF10264_consen 50 SQEVLYNTLGTLIKERKIYHTGEGYFIVTP 79 (80)
T ss_pred CHHHHHHHHHHHHHcCceeeCCCceEeeCC
Confidence 344558999999999999999999999887
No 249
>PRK10141 DNA-binding transcriptional repressor ArsR; Provisional
Probab=21.72 E-value=3.9e+02 Score=21.84 Aligned_cols=33 Identities=12% Similarity=0.123 Sum_probs=28.2
Q ss_pred CCCHHHHHHHHHHHHHCCcccccCCc---cEEeccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCCTPDG---KIGLGVR 183 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~s~~G---~y~Lg~R 183 (293)
+++.+-+-.-|..|.+.|++...++| +|.|.+.
T Consensus 41 ~lsqstvS~HL~~L~~AGLV~~~r~Gr~~~Y~l~~~ 76 (117)
T PRK10141 41 DQSQPKISRHLALLRESGLLLDRKQGKWVHYRLSPH 76 (117)
T ss_pred CcCHHHHHHHHHHHHHCCceEEEEEcCEEEEEECch
Confidence 57778888999999999999877788 5889875
No 250
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=21.46 E-value=1.5e+02 Score=24.90 Aligned_cols=83 Identities=18% Similarity=0.242 Sum_probs=49.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHhcccCCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCCc
Q 022691 90 GTKYTVQQIAFFKGILEAIAQDVMAQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQW 169 (293)
Q Consensus 90 AT~yt~~EI~ffK~lLe~I~~~~~~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~gW 169 (293)
+=++|+.-++.++ .|... .+.+|.-+.+..... ...+++..-+=..|+.|.+.|-
T Consensus 16 glr~T~qR~~vl~----~L~~~---~~~~sAeei~~~l~~------------------~~p~islaTVYr~L~~l~e~Gl 70 (145)
T COG0735 16 GLRLTPQRLAVLE----LLLEA---DGHLSAEELYEELRE------------------EGPGISLATVYRTLKLLEEAGL 70 (145)
T ss_pred CCCcCHHHHHHHH----HHHhc---CCCCCHHHHHHHHHH------------------hCCCCCHhHHHHHHHHHHHCCC
Confidence 4456777655444 34432 233777777765421 2356788888899999999999
Q ss_pred ccccC--Ccc--EEeccchhhchHhHHhcCCCCCchhhhhH
Q 022691 170 LCCTP--DGK--IGLGVRSCLDLRGWFRNLDVPFCEVCNEA 206 (293)
Q Consensus 170 L~~s~--~G~--y~Lg~RallEL~~yL~~~~i~~C~~Ck~i 206 (293)
+.+.. +|+ |.+-.-. ...-..|..|..+
T Consensus 71 v~~~~~~~~~~~y~~~~~~---------~H~HliC~~CG~v 102 (145)
T COG0735 71 VHRLEFEGGKTRYELNSEP---------HHHHLICLDCGKV 102 (145)
T ss_pred EEEEEeCCCEEEEecCCCC---------cccEEEecCCCCE
Confidence 98743 333 3332221 1245567777776
No 251
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=21.29 E-value=39 Score=30.30 Aligned_cols=65 Identities=23% Similarity=0.294 Sum_probs=37.9
Q ss_pred CHHHHHHHHHHHHHCCc--ccccCCccEEecc----chhhchHhHHhcCCCCCchhhhhHHHhC-------CCCCCCCCC
Q 022691 153 TMSQKEKTLDEFVQDQW--LCCTPDGKIGLGV----RSCLDLRGWFRNLDVPFCEVCNEAVVKG-------EILCPRCGL 219 (293)
Q Consensus 153 s~seaE~lL~~Lv~~gW--L~~s~~G~y~Lg~----RallEL~~yL~~~~i~~C~~Ck~iv~~g-------~~~CP~C~~ 219 (293)
.+..+=..|.+|++.|- +..|-+ .-+|.- .-++||-.-+ ..-.|..|....... .++||.|+.
T Consensus 63 ~Pn~~H~~L~~L~~~~~~~~viTqN-iDgL~~~aG~~~v~e~HG~~---~~~~C~~C~~~~~~~~~~~~~~~p~C~~Cgg 138 (224)
T cd01412 63 QPNPAHLALAELERRLPNVLLITQN-VDGLHERAGSRNVIELHGSL---FRVRCSSCGYVGENNEEIPEEELPRCPKCGG 138 (224)
T ss_pred CCCHHHHHHHHHHhcCCCeEEEEcc-chHhhHHhCCCceEeeCCCc---CccccCCCCCCCCcchhhhccCCCCCCCCCC
Confidence 44566678899998873 333321 112222 3344444433 345688998864432 579999987
Q ss_pred CC
Q 022691 220 RW 221 (293)
Q Consensus 220 ~W 221 (293)
..
T Consensus 139 ~l 140 (224)
T cd01412 139 LL 140 (224)
T ss_pred cc
Confidence 54
No 252
>COG0777 AccD Acetyl-CoA carboxylase beta subunit [Lipid metabolism]
Probab=21.04 E-value=26 Score=33.26 Aligned_cols=28 Identities=25% Similarity=0.573 Sum_probs=21.7
Q ss_pred CCCCchhhhhHHHhC-----CCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKG-----EILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g-----~~~CP~C~~~W~~ 223 (293)
---+|..|++++... ...||+|+.-..-
T Consensus 27 lw~KCp~c~~~~y~~eL~~n~~vcp~c~~h~ri 59 (294)
T COG0777 27 LWTKCPSCGEMLYRKELESNLKVCPKCGHHMRI 59 (294)
T ss_pred ceeECCCccceeeHHHHHhhhhcccccCccccc
Confidence 345799999997553 7799999877663
No 253
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=20.97 E-value=72 Score=31.26 Aligned_cols=14 Identities=21% Similarity=0.608 Sum_probs=10.0
Q ss_pred CCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQ 224 (293)
Q Consensus 211 ~~~CP~C~~~W~~~ 224 (293)
.+.||-|+..=+..
T Consensus 267 r~~CPvCK~di~~~ 280 (348)
T KOG4628|consen 267 RTFCPVCKRDIRTD 280 (348)
T ss_pred CccCCCCCCcCCCC
Confidence 66799999954433
No 254
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=20.86 E-value=4.1e+02 Score=21.15 Aligned_cols=69 Identities=20% Similarity=0.239 Sum_probs=42.1
Q ss_pred EEEEEeccCchhhhcCCCCCHHHHHHHHHHHHHHHhc-ccC---CcccchHHHHHHHhhhhhhccccccccCCCCCcccC
Q 022691 75 CYGVVNNVADEQSKLGTKYTVQQIAFFKGILEAIAQD-VMA---QGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFR 150 (293)
Q Consensus 75 ~y~lVN~~sDe~tklAT~yt~~EI~ffK~lLe~I~~~-~~~---~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~ 150 (293)
|--+-|-.-|.+ ++.+++..|+ +++.+|+-- .+- ...|+..+...+ .
T Consensus 14 ytriaNelld~l--~~~dls~rq~----ki~~ai~RkTyG~nKk~d~Is~sq~~e~-----------------------t 64 (100)
T PF04492_consen 14 YTRIANELLDAL--LRADLSGRQL----KILLAIIRKTYGWNKKMDRISNSQIAEM-----------------------T 64 (100)
T ss_pred eeecHHHHHHHH--HhccccHHHH----HHHHHHHHHccCCCCccceeeHHHHHHH-----------------------H
Confidence 444455444433 4677788777 455555542 110 124554444332 3
Q ss_pred CCCHHHHHHHHHHHHHCCcccc
Q 022691 151 NFTMSQKEKTLDEFVQDQWLCC 172 (293)
Q Consensus 151 ~ls~seaE~lL~~Lv~~gWL~~ 172 (293)
+++.......|..|++.|=|..
T Consensus 65 g~~~~~V~~al~~Li~~~vI~~ 86 (100)
T PF04492_consen 65 GLSRDHVSKALNELIRRGVIIR 86 (100)
T ss_pred CcCHHHHHHHHHHHHHCCCEEe
Confidence 5788899999999999999965
No 255
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=20.82 E-value=1.3e+02 Score=28.12 Aligned_cols=45 Identities=16% Similarity=0.252 Sum_probs=37.2
Q ss_pred CCCCHHHHHHHHHHHHHCCcccccCCccEEeccc-------hhhchHhHHhc
Q 022691 150 RNFTMSQKEKTLDEFVQDQWLCCTPDGKIGLGVR-------SCLDLRGWFRN 194 (293)
Q Consensus 150 ~~ls~seaE~lL~~Lv~~gWL~~s~~G~y~Lg~R-------allEL~~yL~~ 194 (293)
-++|..-.-+-+..|+++|+......|+|-++-+ .+.||+.|..+
T Consensus 35 lgiT~QaVsehiK~Lv~eG~i~~~gR~~Y~iTkkG~e~l~~~~~dlr~f~~e 86 (260)
T COG1497 35 LGITLQAVSEHIKELVKEGLIEKEGRGEYEITKKGAEWLLEQLSDLRRFSEE 86 (260)
T ss_pred cCCCHHHHHHHHHHHHhccceeecCCeeEEEehhHHHHHHHHHHHHHHHHHH
Confidence 4678888889999999999999866789999864 57788888775
No 256
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=20.55 E-value=58 Score=32.53 Aligned_cols=28 Identities=21% Similarity=0.568 Sum_probs=21.4
Q ss_pred CCCCchhhhhHHHhCCCCCCCCCCCCCC
Q 022691 196 DVPFCEVCNEAVVKGEILCPRCGLRWPN 223 (293)
Q Consensus 196 ~i~~C~~Ck~iv~~g~~~CP~C~~~W~~ 223 (293)
++..|+.|.-++-.+...||+|+..=.+
T Consensus 220 ~l~~C~~Cd~l~~~~~a~CpRC~~~L~~ 247 (419)
T PRK15103 220 GLRSCSCCTAILPADQPVCPRCHTKGYV 247 (419)
T ss_pred CCCcCCCCCCCCCCCCCCCCCCCCcCcC
Confidence 5667999999864446689999987543
No 257
>PTZ00111 DNA replication licensing factor MCM4; Provisional
Probab=20.53 E-value=1e+03 Score=26.62 Aligned_cols=133 Identities=8% Similarity=-0.005 Sum_probs=77.3
Q ss_pred CCCHHHHHHHHHHhhC-----CCCCCchhhHHHHHHHHHhcccccCcEEEEeeecCCCeEEEEEEeccCchhhhcCCCCC
Q 022691 20 PLKEKDFHAIFSGLTG-----KSPGAHQGLFNEYLLNINKELSSCQFELRACRDQYVGQVCYGVVNNVADEQSKLGTKYT 94 (293)
Q Consensus 20 ~l~e~e~~~l~~~~~~-----~~p~~~~~~l~~~I~~IN~~L~~l~~eIr~~~~q~~g~~~y~lVN~~sDe~tklAT~yt 94 (293)
.+|..++..|++-... -...++.++....|.-+...|.... .|+.+|..-.-.+++ .-+
T Consensus 767 ~iT~RqLEsLIRLsEA~AK~rLs~~Vt~~Dv~~Ai~L~~~sl~~~~------~DpetG~iD~d~~~~----------G~s 830 (915)
T PTZ00111 767 YVSSRMISSIIRISVSLARMRLSTVVTPADALQAVQIVKSSTFQSL------VDPTTGKIDFDQLHQ----------GIT 830 (915)
T ss_pred cccHHHHHHHHHHHHHHhhhcCcCcccHHHHHHHHHHHHHHHhhhc------ccccCCcccceeecc----------CCc
Confidence 4677777777763221 1223567788888888877775433 334455544333332 223
Q ss_pred HHH---HHHHHHHHHHHHhccc---CCcccchHHHHHHHhhhhhhccccccccCCCCCcccCCCCHHHHHHHHHHHHHCC
Q 022691 95 VQQ---IAFFKGILEAIAQDVM---AQGSISNIEALNIRLENLVLSTQGSQLLNGPLPAAFRNFTMSQKEKTLDEFVQDQ 168 (293)
Q Consensus 95 ~~E---I~ffK~lLe~I~~~~~---~~g~Iss~~aLnl~~~~q~~~~~~~q~~~s~l~~~~~~ls~seaE~lL~~Lv~~g 168 (293)
..+ +.-++.+|..++.... ..+.++..+.++...+. ... . . +...+++..++|++|.+|+.+|
T Consensus 831 ~~~r~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~-~----~-----~~~~~i~~~~~~~~l~~L~~~g 899 (915)
T PTZ00111 831 TNKMQQLNQMYEQVLSVLTRSSNQDSNKSLDLNEVLSLCHKT-FKD-N----R-----DHKDGEIYKLISEVLNKMVQEG 899 (915)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccccCCceeHHHHHHHHHhh-ccc-c----c-----hhccCCCHHHHHHHHHHHHhCC
Confidence 323 4455555555543211 13457777777654110 000 0 0 0124688999999999999999
Q ss_pred cccccCCccEE
Q 022691 169 WLCCTPDGKIG 179 (293)
Q Consensus 169 WL~~s~~G~y~ 179 (293)
-+++...|+|.
T Consensus 900 ~i~~~~~g~y~ 910 (915)
T PTZ00111 900 TAVRENNSYYL 910 (915)
T ss_pred eEeeeCCCchh
Confidence 99998889886
No 258
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=20.50 E-value=58 Score=26.59 Aligned_cols=15 Identities=27% Similarity=0.485 Sum_probs=12.5
Q ss_pred CCCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQV 225 (293)
Q Consensus 211 ~~~CP~C~~~W~~~~ 225 (293)
...||-|+.+|--+.
T Consensus 97 r~vCPLdn~eW~~qr 111 (114)
T KOG2930|consen 97 RNVCPLDNKEWVFQR 111 (114)
T ss_pred cCcCCCcCcceeEee
Confidence 779999999997554
No 259
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=20.49 E-value=8 Score=28.24 Aligned_cols=8 Identities=50% Similarity=1.261 Sum_probs=3.8
Q ss_pred CCCCCCCC
Q 022691 213 LCPRCGLR 220 (293)
Q Consensus 213 ~CP~C~~~ 220 (293)
.||.|+++
T Consensus 5 HC~~CG~~ 12 (59)
T PF09889_consen 5 HCPVCGKP 12 (59)
T ss_pred cCCcCCCc
Confidence 45555443
No 260
>PF10235 Cript: Microtubule-associated protein CRIPT; InterPro: IPR019367 The CRIPT protein is a cytoskeletal protein involved in microtubule production. This C-terminal domain is essential for binding to the PDZ3 domain of the SAP90 protein, one of a super-family of PDZ-containing proteins that play an important role in coupling the membrane ion channels with their signalling partners [].
Probab=20.39 E-value=36 Score=26.93 Aligned_cols=21 Identities=29% Similarity=0.852 Sum_probs=17.1
Q ss_pred CCCchhhhhHHHh-CCCCCCCC
Q 022691 197 VPFCEVCNEAVVK-GEILCPRC 217 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C 217 (293)
...|.+|+.-|.| |..-|+.|
T Consensus 44 ~~~C~~CK~~v~q~g~~YCq~C 65 (90)
T PF10235_consen 44 SSKCKICKTKVHQPGAKYCQTC 65 (90)
T ss_pred CccccccccccccCCCccChhh
Confidence 5589999999999 76667666
No 261
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=20.38 E-value=60 Score=23.73 Aligned_cols=31 Identities=26% Similarity=0.463 Sum_probs=22.4
Q ss_pred CCCchhhhhHHHhCCCCCCCCCCCCCCCCCCcc
Q 022691 197 VPFCEVCNEAVVKGEILCPRCGLRWPNQVPKAE 229 (293)
Q Consensus 197 i~~C~~Ck~iv~~g~~~CP~C~~~W~~~~~~~~ 229 (293)
+..|..|..--++ .+||.|+..--...|-.+
T Consensus 5 ~rkC~~cg~YTLk--e~Cp~CG~~t~~~~PprF 35 (59)
T COG2260 5 IRKCPKCGRYTLK--EKCPVCGGDTKVPHPPRF 35 (59)
T ss_pred hhcCcCCCceeec--ccCCCCCCccccCCCCCC
Confidence 4566666544444 489999998888888877
No 262
>PHA02844 putative transmembrane protein; Provisional
Probab=20.22 E-value=98 Score=23.67 Aligned_cols=32 Identities=16% Similarity=0.317 Sum_probs=23.7
Q ss_pred HHHHHHhhCCCCCCchhhHHHHHHHHHhcccc
Q 022691 27 HAIFSGLTGKSPGAHQGLFNEYLLNINKELSS 58 (293)
Q Consensus 27 ~~l~~~~~~~~p~~~~~~l~~~I~~IN~~L~~ 58 (293)
.+||++++|.-=..++++|++||+.+-..|..
T Consensus 2 DKLYaaiFGVFmsS~DdDFnnFI~vVksVLtd 33 (75)
T PHA02844 2 DKLYTAIFGVFLSSENEDFNNFIDVVKSVLSD 33 (75)
T ss_pred hhHHHHHHhhhcCCchHHHHHHHHHHHHHHcC
Confidence 47888888832123579999999999887764
No 263
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=20.19 E-value=31 Score=30.90 Aligned_cols=14 Identities=21% Similarity=0.771 Sum_probs=11.2
Q ss_pred CCCCCCCCCCCCCC
Q 022691 211 EILCPRCGLRWPNQ 224 (293)
Q Consensus 211 ~~~CP~C~~~W~~~ 224 (293)
..+||.|++.+|..
T Consensus 172 ~~~C~~C~~v~H~~ 185 (202)
T PF13901_consen 172 TVRCPKCKSVFHKS 185 (202)
T ss_pred eeeCCcCccccchh
Confidence 66899999988853
No 264
>PLN02915 cellulose synthase A [UDP-forming], catalytic subunit
Probab=20.15 E-value=78 Score=35.34 Aligned_cols=27 Identities=33% Similarity=0.866 Sum_probs=18.7
Q ss_pred CCCchhhhhHHHh-CCCCCCCCCCCCCC
Q 022691 197 VPFCEVCNEAVVK-GEILCPRCGLRWPN 223 (293)
Q Consensus 197 i~~C~~Ck~iv~~-g~~~CP~C~~~W~~ 223 (293)
-|.|.-|-+-=.+ |...||.|++.+..
T Consensus 42 fpvCr~cyeye~~~g~~~cp~c~t~y~~ 69 (1044)
T PLN02915 42 FPVCKPCYEYERSEGNQCCPQCNTRYKR 69 (1044)
T ss_pred CccccchhhhhhhcCCccCCccCCchhh
Confidence 4555666554332 48899999999884
No 265
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.14 E-value=2e+02 Score=18.61 Aligned_cols=32 Identities=22% Similarity=0.060 Sum_probs=22.3
Q ss_pred HHHHHHHHHCCccc--ccCCccEEeccchhhchH
Q 022691 158 EKTLDEFVQDQWLC--CTPDGKIGLGVRSCLDLR 189 (293)
Q Consensus 158 E~lL~~Lv~~gWL~--~s~~G~y~Lg~RallEL~ 189 (293)
..+|..|++.|++. +...|.+.++...+..|+
T Consensus 14 ~~tlr~~~~~g~l~~~~~~~~~~~y~~~~v~~l~ 47 (49)
T cd04761 14 PSTLRYYERIGLLSPARTEGGYRLYSDADLERLR 47 (49)
T ss_pred HHHHHHHHHCCCCCCCcCCCCCEEeCHHHHHHhh
Confidence 35889999999997 223467777776665543
No 266
>COG1328 NrdD Oxygen-sensitive ribonucleoside-triphosphate reductase [Nucleotide transport and metabolism]
Probab=20.13 E-value=44 Score=35.68 Aligned_cols=70 Identities=17% Similarity=0.368 Sum_probs=47.9
Q ss_pred CCCCHHHH---HHHHHHHHHCCcccccCCccEEeccchhhchHhHHhc---------CCCCCchhhhhHHHhCCCCCCCC
Q 022691 150 RNFTMSQK---EKTLDEFVQDQWLCCTPDGKIGLGVRSCLDLRGWFRN---------LDVPFCEVCNEAVVKGEILCPRC 217 (293)
Q Consensus 150 ~~ls~sea---E~lL~~Lv~~gWL~~s~~G~y~Lg~RallEL~~yL~~---------~~i~~C~~Ck~iv~~g~~~CP~C 217 (293)
++.+.-++ |.....++..|-...-.-|.+.=+|.+|..|..|+.. ..|..|.-|..-+-.-...||.|
T Consensus 582 ~~~~~~eki~iE~~~~~~~~GG~I~~~~l~e~~~~~eal~~l~k~~~~~ri~Y~~~n~~i~~C~~cg~~~~~~~~~Cp~C 661 (700)
T COG1328 582 ADVTLGEKIRIEEKYHPLCNGGHIMHIELGESQADPEALMDLTKYIYKTRIGYWGYTTPISVCNRCGYSGEGLRTRCPKC 661 (700)
T ss_pred CCCChhHheehhcccCccccCCEEEEEecCCcCCCHHHHHHHHHHHHhcCcceEecCCCceeeccCCcccccccccCCCC
Confidence 44555554 6666666666655544445556679999999998887 26889999988643333459999
Q ss_pred CC
Q 022691 218 GL 219 (293)
Q Consensus 218 ~~ 219 (293)
+.
T Consensus 662 G~ 663 (700)
T COG1328 662 GS 663 (700)
T ss_pred CC
Confidence 94
No 267
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=20.11 E-value=19 Score=29.73 Aligned_cols=25 Identities=32% Similarity=0.865 Sum_probs=19.4
Q ss_pred chhhhhHHHhCCCCCCCCCCCCCCC
Q 022691 200 CEVCNEAVVKGEILCPRCGLRWPNQ 224 (293)
Q Consensus 200 C~~Ck~iv~~g~~~CP~C~~~W~~~ 224 (293)
|.+|..-...-...||+|++.-.|.
T Consensus 1 CPvCg~~l~vt~l~C~~C~t~i~G~ 25 (113)
T PF09862_consen 1 CPVCGGELVVTRLKCPSCGTEIEGE 25 (113)
T ss_pred CCCCCCceEEEEEEcCCCCCEEEee
Confidence 7788777666677999999986653
No 268
>COG5243 HRD1 HRD ubiquitin ligase complex, ER membrane component [Posttranslational modification, protein turnover, chaperones]
Probab=20.02 E-value=98 Score=30.85 Aligned_cols=10 Identities=30% Similarity=0.753 Sum_probs=8.9
Q ss_pred CCCCCCCCCC
Q 022691 211 EILCPRCGLR 220 (293)
Q Consensus 211 ~~~CP~C~~~ 220 (293)
...||-|+.+
T Consensus 334 qQTCPICr~p 343 (491)
T COG5243 334 QQTCPICRRP 343 (491)
T ss_pred ccCCCcccCc
Confidence 7799999987
Done!