Query 006754
Match_columns 632
No_of_seqs 429 out of 2052
Neff 5.0
Searched_HMMs 46136
Date Thu Mar 28 14:00:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/006754.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/006754hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG4299 PHD Zn-finger protein 99.9 8.9E-25 1.9E-29 241.0 9.4 203 146-355 150-375 (613)
2 KOG0842 Transcription factor t 99.7 9.7E-19 2.1E-23 182.3 6.6 91 497-587 151-245 (307)
3 KOG0850 Transcription factor D 99.7 9.6E-18 2.1E-22 167.0 6.6 75 486-560 109-183 (245)
4 KOG0484 Transcription factor P 99.7 1.7E-17 3.6E-22 147.5 3.0 69 497-565 15-83 (125)
5 KOG1244 Predicted transcriptio 99.6 1.1E-16 2.5E-21 162.3 1.8 193 73-295 110-331 (336)
6 PF00046 Homeobox: Homeobox do 99.6 1.4E-15 3E-20 121.1 4.9 57 500-556 1-57 (57)
7 KOG0843 Transcription factor E 99.6 1.9E-15 4.1E-20 146.0 5.3 62 498-559 101-162 (197)
8 KOG0489 Transcription factor z 99.5 3.1E-15 6.7E-20 154.3 4.6 67 497-563 157-223 (261)
9 KOG0488 Transcription factor B 99.5 7.6E-15 1.6E-19 154.7 6.1 64 497-560 170-233 (309)
10 KOG0485 Transcription factor N 99.5 1.2E-14 2.6E-19 143.9 6.4 66 496-561 101-166 (268)
11 KOG0493 Transcription factor E 99.5 1.7E-14 3.7E-19 145.9 5.3 62 497-558 244-305 (342)
12 KOG0492 Transcription factor M 99.5 2E-14 4.4E-19 141.4 5.0 65 497-561 142-206 (246)
13 KOG2251 Homeobox transcription 99.5 3.9E-14 8.5E-19 140.9 6.6 67 495-561 33-99 (228)
14 smart00389 HOX Homeodomain. DN 99.5 5E-14 1.1E-18 111.1 4.4 53 501-553 2-54 (56)
15 cd00086 homeodomain Homeodomai 99.4 8.2E-14 1.8E-18 110.5 4.8 56 501-556 2-57 (59)
16 KOG0487 Transcription factor A 99.4 6.2E-14 1.3E-18 146.7 4.6 61 499-559 235-295 (308)
17 TIGR01565 homeo_ZF_HD homeobox 99.4 1.4E-13 3.1E-18 111.7 5.3 53 499-551 1-57 (58)
18 KOG0494 Transcription factor C 99.4 1.2E-13 2.5E-18 139.8 5.3 71 493-563 134-205 (332)
19 KOG0848 Transcription factor C 99.3 3.9E-13 8.4E-18 136.7 2.3 59 502-560 202-260 (317)
20 KOG0483 Transcription factor H 99.3 1E-12 2.3E-17 130.4 3.6 56 500-555 51-106 (198)
21 COG5576 Homeodomain-containing 99.3 2.7E-12 5.8E-17 123.4 5.6 64 497-560 49-112 (156)
22 KOG0486 Transcription factor P 99.3 1.7E-12 3.7E-17 134.5 3.3 64 497-560 110-173 (351)
23 KOG0491 Transcription factor B 99.1 1.3E-11 2.8E-16 118.2 1.7 60 499-558 100-159 (194)
24 KOG4577 Transcription factor L 99.1 3.6E-11 7.9E-16 123.4 4.1 63 499-561 167-229 (383)
25 KOG0847 Transcription factor, 99.1 2.7E-11 5.9E-16 120.3 2.9 65 498-562 166-230 (288)
26 KOG0844 Transcription factor E 99.1 6.9E-11 1.5E-15 122.1 3.0 65 496-560 178-242 (408)
27 KOG0490 Transcription factor, 99.0 2.1E-10 4.4E-15 114.2 4.4 64 496-559 57-120 (235)
28 KOG3802 Transcription factor O 98.9 8E-10 1.7E-14 118.5 4.5 60 498-557 293-352 (398)
29 KOG0775 Transcription factor S 98.8 3.4E-09 7.3E-14 108.7 4.1 47 506-552 183-229 (304)
30 KOG0849 Transcription factor P 98.7 5.9E-09 1.3E-13 112.3 4.0 62 497-558 174-235 (354)
31 PF00628 PHD: PHD-finger; Int 98.6 5E-09 1.1E-13 81.9 -0.6 50 240-294 1-50 (51)
32 KOG0825 PHD Zn-finger protein 98.6 1.4E-08 3.1E-13 115.2 1.8 52 236-294 213-265 (1134)
33 KOG0774 Transcription factor P 98.6 6.2E-08 1.3E-12 98.9 5.0 60 499-558 188-250 (334)
34 PF05920 Homeobox_KN: Homeobox 98.6 2.2E-08 4.8E-13 75.7 1.4 33 520-552 7-39 (40)
35 KOG2252 CCAAT displacement pro 98.5 6.3E-08 1.4E-12 107.4 4.3 59 495-553 416-474 (558)
36 smart00249 PHD PHD zinc finger 98.3 9.4E-07 2E-11 66.2 3.9 47 240-292 1-47 (47)
37 KOG0955 PHD finger protein BR1 98.3 4.6E-07 1E-11 108.0 3.2 56 235-297 216-271 (1051)
38 KOG1512 PHD Zn-finger protein 98.2 3.9E-07 8.4E-12 94.2 1.1 72 213-293 284-361 (381)
39 KOG1168 Transcription factor A 98.2 8.2E-07 1.8E-11 91.9 2.2 60 497-556 307-366 (385)
40 KOG4323 Polycomb-like PHD Zn-f 98.1 9.1E-07 2E-11 97.5 1.3 61 239-300 169-229 (464)
41 KOG1973 Chromatin remodeling p 97.9 4.9E-06 1.1E-10 87.1 2.9 52 235-296 216-269 (274)
42 COG5141 PHD zinc finger-contai 97.9 5E-06 1.1E-10 91.2 2.4 58 232-296 187-244 (669)
43 cd04718 BAH_plant_2 BAH, or Br 97.9 5.5E-06 1.2E-10 79.3 2.3 29 265-297 1-29 (148)
44 KOG0956 PHD finger protein AF1 97.9 5.4E-06 1.2E-10 93.9 2.0 51 238-294 5-56 (900)
45 KOG0490 Transcription factor, 97.8 1.6E-05 3.4E-10 79.2 3.8 64 495-558 149-212 (235)
46 COG5034 TNG2 Chromatin remodel 97.8 1.6E-05 3.4E-10 81.6 3.6 49 236-294 219-269 (271)
47 KOG4443 Putative transcription 97.8 1.2E-05 2.6E-10 91.1 2.8 79 213-298 40-121 (694)
48 KOG0954 PHD finger protein [Ge 97.8 9.3E-06 2E-10 92.7 1.8 52 237-295 270-321 (893)
49 KOG1245 Chromatin remodeling c 97.8 9.2E-06 2E-10 100.4 1.7 55 237-298 1107-1161(1404)
50 KOG0383 Predicted helicase [Ge 97.7 1.2E-05 2.6E-10 92.9 1.7 55 233-297 42-96 (696)
51 KOG0773 Transcription factor M 97.7 1.7E-05 3.6E-10 84.9 2.6 63 498-560 238-303 (342)
52 KOG0957 PHD finger protein [Ge 97.5 9.6E-05 2.1E-09 81.6 5.6 53 236-293 542-596 (707)
53 KOG1146 Homeobox protein [Gene 97.0 0.00066 1.4E-08 82.3 4.6 63 497-559 901-963 (1406)
54 KOG1246 DNA-binding protein ju 96.6 0.0018 3.9E-08 78.0 4.4 163 237-412 154-326 (904)
55 PF13831 PHD_2: PHD-finger; PD 96.6 0.00042 9.1E-09 51.5 -0.6 35 253-293 2-36 (36)
56 KOG1473 Nucleosome remodeling 96.1 0.002 4.3E-08 77.0 0.8 49 236-294 342-390 (1414)
57 PF11569 Homez: Homeodomain le 95.7 0.0069 1.5E-07 49.4 2.3 42 511-552 10-51 (56)
58 KOG0957 PHD finger protein [Ge 95.6 0.0066 1.4E-07 67.6 2.4 57 239-297 120-181 (707)
59 KOG3623 Homeobox transcription 95.0 0.029 6.4E-07 65.0 5.2 45 511-555 568-612 (1007)
60 PF15446 zf-PHD-like: PHD/FYVE 94.7 0.02 4.3E-07 56.2 2.4 61 240-301 1-66 (175)
61 PF04218 CENP-B_N: CENP-B N-te 92.7 0.18 3.8E-06 40.4 4.3 48 500-552 1-48 (53)
62 KOG4443 Putative transcription 91.7 0.045 9.8E-07 63.0 -0.4 57 236-296 16-72 (694)
63 KOG4299 PHD Zn-finger protein 89.9 0.18 3.9E-06 58.0 2.2 51 238-297 47-97 (613)
64 PF14446 Prok-RING_1: Prokaryo 87.2 0.39 8.5E-06 39.1 1.9 35 238-274 5-39 (54)
65 KOG3612 PHD Zn-finger protein 83.6 0.83 1.8E-05 52.1 2.9 53 233-294 55-107 (588)
66 KOG4628 Predicted E3 ubiquitin 83.0 0.75 1.6E-05 50.2 2.2 46 239-294 230-275 (348)
67 KOG1473 Nucleosome remodeling 81.7 0.26 5.6E-06 59.9 -2.0 52 239-297 429-481 (1414)
68 PF12861 zf-Apc11: Anaphase-pr 77.8 1 2.2E-05 39.9 0.9 35 254-295 46-80 (85)
69 PF01527 HTH_Tnp_1: Transposas 74.4 1.7 3.7E-05 36.0 1.4 47 501-551 2-48 (76)
70 PF04967 HTH_10: HTH DNA bindi 74.3 3.8 8.2E-05 33.2 3.3 40 506-545 1-42 (53)
71 KOG1512 PHD Zn-finger protein 73.1 0.85 1.8E-05 48.4 -0.9 62 238-301 258-323 (381)
72 PF04545 Sigma70_r4: Sigma-70, 72.6 4 8.7E-05 31.5 3.0 44 505-553 4-47 (50)
73 KOG4323 Polycomb-like PHD Zn-f 71.4 2.7 5.8E-05 47.6 2.4 58 235-299 80-137 (464)
74 cd00569 HTH_Hin_like Helix-tur 64.7 12 0.00026 24.7 3.8 38 505-547 5-42 (42)
75 cd06171 Sigma70_r4 Sigma70, re 64.6 4.5 9.7E-05 29.9 1.7 43 505-552 10-52 (55)
76 PF13639 zf-RING_2: Ring finge 59.5 1 2.2E-05 34.1 -2.6 43 240-293 2-44 (44)
77 KOG0383 Predicted helicase [Ge 54.7 2.2 4.8E-05 50.5 -2.1 52 236-297 504-556 (696)
78 PF13832 zf-HC5HC2H_2: PHD-zin 54.3 6.9 0.00015 35.1 1.4 32 238-273 55-87 (110)
79 PF10367 Vps39_2: Vacuolar sor 54.3 9.4 0.0002 33.5 2.3 31 238-272 78-108 (109)
80 KOG1632 Uncharacterized PHD Zn 54.0 7.8 0.00017 42.4 2.0 41 253-297 73-115 (345)
81 PF12678 zf-rbx1: RING-H2 zinc 53.6 4.8 0.0001 34.2 0.3 46 239-293 20-73 (73)
82 PF10668 Phage_terminase: Phag 53.2 7 0.00015 32.6 1.1 25 528-552 24-48 (60)
83 COG3413 Predicted DNA binding 52.9 13 0.00028 37.4 3.3 41 505-545 155-197 (215)
84 KOG0827 Predicted E3 ubiquitin 51.8 2.6 5.7E-05 46.5 -2.0 56 239-303 5-62 (465)
85 PRK03975 tfx putative transcri 51.4 13 0.00028 35.9 2.8 51 504-560 5-55 (141)
86 TIGR01206 lysW lysine biosynth 50.9 10 0.00022 30.9 1.7 46 240-287 4-52 (54)
87 PF13551 HTH_29: Winged helix- 50.8 23 0.0005 30.9 4.2 49 500-548 52-109 (112)
88 PF15446 zf-PHD-like: PHD/FYVE 49.8 14 0.0003 36.9 2.7 24 252-276 121-144 (175)
89 KOG0773 Transcription factor M 49.5 10 0.00022 40.8 2.0 40 519-558 117-156 (342)
90 PF11793 FANCL_C: FANCL C-term 48.8 8.9 0.00019 32.4 1.1 56 239-296 3-65 (70)
91 PF13901 DUF4206: Domain of un 48.1 16 0.00035 36.9 3.1 42 239-294 153-197 (202)
92 PF07227 DUF1423: Protein of u 47.4 18 0.00039 40.9 3.5 59 241-301 131-198 (446)
93 smart00421 HTH_LUXR helix_turn 46.8 20 0.00044 27.0 2.8 42 505-552 3-44 (58)
94 PF13936 HTH_38: Helix-turn-he 46.4 13 0.00027 28.6 1.6 40 504-548 3-42 (44)
95 PF13771 zf-HC5HC2H: PHD-like 45.3 13 0.00028 32.0 1.7 31 239-273 37-68 (90)
96 PF13443 HTH_26: Cro/C1-type H 44.6 18 0.00039 28.8 2.3 24 528-551 12-35 (63)
97 PRK10072 putative transcriptio 44.4 22 0.00047 32.1 3.0 40 506-552 33-72 (96)
98 PHA02955 hypothetical protein; 42.3 27 0.00059 35.9 3.6 46 506-551 58-104 (213)
99 TIGR03879 near_KaiC_dom probab 41.2 9.1 0.0002 33.0 0.1 37 515-551 21-57 (73)
100 KOG1734 Predicted RING-contain 41.0 9.4 0.0002 40.6 0.1 60 235-301 221-285 (328)
101 KOG1146 Homeobox protein [Gene 39.7 7 0.00015 49.1 -1.2 56 501-556 446-501 (1406)
102 cd01392 HTH_LacI Helix-turn-he 39.2 12 0.00026 28.7 0.4 21 531-551 2-22 (52)
103 TIGR02937 sigma70-ECF RNA poly 38.9 25 0.00053 31.3 2.5 46 505-555 110-155 (158)
104 PRK04217 hypothetical protein; 38.7 35 0.00076 31.6 3.5 49 503-556 40-88 (110)
105 PRK06759 RNA polymerase factor 38.3 27 0.00059 32.3 2.8 46 505-555 106-151 (154)
106 PF01381 HTH_3: Helix-turn-hel 37.6 17 0.00037 28.1 1.1 25 528-552 11-35 (55)
107 TIGR03070 couple_hipB transcri 35.6 20 0.00044 27.4 1.2 25 528-552 17-41 (58)
108 COG1773 Rubredoxin [Energy pro 34.7 30 0.00066 28.5 2.1 19 279-300 32-50 (55)
109 PF05502 Dynactin_p62: Dynacti 34.3 39 0.00085 38.7 3.7 27 327-353 81-107 (483)
110 KOG2932 E3 ubiquitin ligase in 33.9 25 0.00055 38.1 2.0 49 238-301 90-138 (389)
111 PRK14559 putative protein seri 33.6 34 0.00074 40.7 3.2 50 239-297 2-52 (645)
112 PF13518 HTH_28: Helix-turn-he 33.6 20 0.00043 27.3 0.9 25 528-552 14-38 (52)
113 PF00130 C1_1: Phorbol esters/ 33.2 38 0.00082 26.3 2.4 33 239-272 12-44 (53)
114 PRK12514 RNA polymerase sigma 32.7 34 0.00074 32.7 2.5 47 505-556 129-175 (179)
115 PRK09646 RNA polymerase sigma 32.5 42 0.0009 32.8 3.2 47 505-556 142-188 (194)
116 PRK09652 RNA polymerase sigma 31.9 37 0.0008 31.9 2.6 47 505-556 128-174 (182)
117 PF08280 HTH_Mga: M protein tr 30.9 42 0.0009 27.2 2.4 36 509-548 6-41 (59)
118 cd04761 HTH_MerR-SF Helix-Turn 30.8 23 0.0005 26.6 0.8 21 529-549 3-23 (49)
119 PHA02929 N1R/p28-like protein; 30.7 21 0.00045 37.4 0.7 49 238-296 174-226 (238)
120 PRK09413 IS2 repressor TnpA; R 30.7 62 0.0013 29.8 3.8 43 504-550 11-53 (121)
121 PRK11924 RNA polymerase sigma 30.5 39 0.00084 31.7 2.5 48 505-557 125-172 (179)
122 PF07649 C1_3: C1-like domain; 30.5 23 0.0005 24.9 0.7 29 240-271 2-30 (30)
123 smart00744 RINGv The RING-vari 30.3 12 0.00026 29.6 -0.9 44 240-292 1-48 (49)
124 COG5194 APC11 Component of SCF 29.9 21 0.00044 31.6 0.4 49 239-296 32-80 (88)
125 PF08274 PhnA_Zn_Ribbon: PhnA 29.7 22 0.00048 25.7 0.5 24 240-264 4-27 (30)
126 PRK00118 putative DNA-binding 29.4 47 0.001 30.5 2.7 44 506-554 18-61 (104)
127 PF08281 Sigma70_r4_2: Sigma-7 29.4 22 0.00049 27.5 0.6 42 506-552 11-52 (54)
128 KOG1080 Histone H3 (Lys4) meth 29.4 47 0.001 41.4 3.4 51 238-294 573-623 (1005)
129 cd06170 LuxR_C_like C-terminal 29.0 53 0.0012 24.8 2.6 39 506-550 1-39 (57)
130 PF13384 HTH_23: Homeodomain-l 29.0 26 0.00056 26.7 0.8 26 526-551 17-42 (50)
131 KOG1844 PHD Zn-finger proteins 29.0 32 0.00069 38.9 1.9 49 242-297 89-137 (508)
132 PRK12512 RNA polymerase sigma 28.9 50 0.0011 31.7 3.0 48 505-557 131-178 (184)
133 PF10080 DUF2318: Predicted me 28.9 28 0.0006 31.9 1.1 42 230-272 27-68 (102)
134 PHA01976 helix-turn-helix prot 28.6 27 0.00058 28.2 0.9 25 528-552 17-41 (67)
135 PF06056 Terminase_5: Putative 28.5 29 0.00062 28.5 1.0 21 528-548 15-35 (58)
136 KOG2930 SCF ubiquitin ligase, 27.5 13 0.00029 34.2 -1.2 47 240-294 59-105 (114)
137 PRK06811 RNA polymerase factor 27.4 56 0.0012 31.7 3.1 49 505-558 131-179 (189)
138 COG5574 PEX10 RING-finger-cont 27.3 20 0.00042 38.1 -0.2 53 233-297 210-262 (271)
139 KOG2114 Vacuolar assembly/sort 27.2 31 0.00067 41.9 1.4 41 239-295 841-881 (933)
140 KOG1081 Transcription factor N 27.1 41 0.00089 38.4 2.3 46 236-294 87-132 (463)
141 PF02796 HTH_7: Helix-turn-hel 27.0 63 0.0014 24.7 2.6 39 505-548 5-43 (45)
142 cd00093 HTH_XRE Helix-turn-hel 26.9 35 0.00076 24.6 1.2 23 529-551 15-37 (58)
143 PRK09648 RNA polymerase sigma 26.6 60 0.0013 31.4 3.1 47 504-555 138-184 (189)
144 KOG4215 Hepatocyte nuclear fac 26.4 31 0.00068 38.3 1.2 29 237-266 18-46 (432)
145 PF00196 GerE: Bacterial regul 26.2 46 0.00099 26.4 1.8 43 505-553 3-45 (58)
146 TIGR00270 conserved hypothetic 26.0 40 0.00086 32.9 1.7 26 527-552 83-108 (154)
147 KOG1244 Predicted transcriptio 25.9 14 0.0003 39.4 -1.5 60 236-298 222-287 (336)
148 PRK09644 RNA polymerase sigma 24.9 80 0.0017 29.8 3.5 49 504-558 107-156 (165)
149 TIGR01562 FdhE formate dehydro 24.9 64 0.0014 35.0 3.2 33 236-269 182-223 (305)
150 KOG1952 Transcription factor N 24.8 16 0.00035 44.1 -1.4 54 238-294 191-244 (950)
151 TIGR02948 SigW_bacill RNA poly 24.7 53 0.0012 31.3 2.3 47 505-556 136-182 (187)
152 TIGR02985 Sig70_bacteroi1 RNA 24.7 55 0.0012 30.0 2.4 46 505-555 113-158 (161)
153 KOG3623 Homeobox transcription 24.7 60 0.0013 39.0 3.0 56 497-552 624-679 (1007)
154 KOG4445 Uncharacterized conser 24.6 50 0.0011 35.8 2.3 35 238-275 115-149 (368)
155 PF13730 HTH_36: Helix-turn-he 24.6 1.2E+02 0.0026 23.5 3.9 42 505-549 2-48 (55)
156 cd00162 RING RING-finger (Real 24.6 21 0.00046 25.5 -0.4 42 241-294 2-43 (45)
157 PRK09639 RNA polymerase sigma 23.8 81 0.0017 29.5 3.3 47 504-556 111-157 (166)
158 COG4367 Uncharacterized protei 23.8 82 0.0018 28.5 3.0 42 506-547 3-44 (97)
159 PRK15369 two component system 23.8 72 0.0016 29.5 3.0 43 505-553 149-191 (211)
160 PRK06986 fliA flagellar biosyn 23.7 72 0.0016 32.3 3.2 47 505-556 184-230 (236)
161 PTZ00396 Casein kinase II subu 23.4 60 0.0013 34.3 2.5 34 261-294 122-156 (251)
162 PRK12519 RNA polymerase sigma 23.2 52 0.0011 31.8 2.0 46 506-556 142-187 (194)
163 TIGR02607 antidote_HigA addict 23.1 38 0.00083 28.0 0.9 24 529-552 21-44 (78)
164 PRK03564 formate dehydrogenase 23.1 77 0.0017 34.4 3.4 33 236-269 185-225 (309)
165 PF13411 MerR_1: MerR HTH fami 23.0 40 0.00086 27.3 0.9 18 530-547 4-21 (69)
166 PRK05657 RNA polymerase sigma 22.7 80 0.0017 34.2 3.4 52 505-557 262-313 (325)
167 KOG3970 Predicted E3 ubiquitin 22.2 42 0.0009 35.0 1.1 50 239-295 51-103 (299)
168 PF03107 C1_2: C1 domain; Int 22.2 89 0.0019 22.1 2.4 28 240-271 2-30 (30)
169 TIGR00721 tfx DNA-binding prot 22.0 84 0.0018 30.3 3.0 47 504-556 5-51 (137)
170 PF12824 MRP-L20: Mitochondria 21.8 1.3E+02 0.0028 29.8 4.3 47 502-550 82-128 (164)
171 PRK09706 transcriptional repre 21.4 42 0.0009 31.3 0.8 24 529-552 21-44 (135)
172 cd04762 HTH_MerR-trunc Helix-T 21.3 45 0.00098 24.3 0.8 24 529-552 3-26 (49)
173 PRK12526 RNA polymerase sigma 21.1 60 0.0013 32.1 2.0 47 505-556 153-199 (206)
174 PRK05602 RNA polymerase sigma 21.0 68 0.0015 30.9 2.2 47 506-557 129-175 (186)
175 TIGR02954 Sig70_famx3 RNA poly 21.0 89 0.0019 29.5 3.0 46 505-555 119-164 (169)
176 KOG1493 Anaphase-promoting com 20.8 14 0.0003 32.4 -2.2 47 240-295 33-79 (84)
177 PRK05988 formate dehydrogenase 20.7 1.2E+02 0.0026 29.6 3.9 36 509-544 24-59 (156)
178 KOG0804 Cytoplasmic Zn-finger 20.7 49 0.0011 37.6 1.3 49 236-296 173-221 (493)
179 PRK11511 DNA-binding transcrip 20.6 85 0.0018 29.0 2.7 41 509-550 9-49 (127)
180 TIGR02479 FliA_WhiG RNA polyme 20.3 1E+02 0.0022 30.9 3.4 46 505-555 175-220 (224)
181 KOG1829 Uncharacterized conser 20.2 34 0.00074 40.1 -0.0 46 239-296 512-560 (580)
182 TIGR00686 phnA alkylphosphonat 20.2 53 0.0011 30.6 1.2 26 240-266 4-29 (109)
183 smart00530 HTH_XRE Helix-turn- 20.1 58 0.0013 23.2 1.2 24 529-552 13-36 (56)
No 1
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=99.91 E-value=8.9e-25 Score=241.04 Aligned_cols=203 Identities=37% Similarity=0.621 Sum_probs=162.6
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhHHHHHhhcccCccCccc---------CCchHHHHHHHHHHhhhhhhHHHHHHhhhc
Q 006754 146 ELDEASRLQRRTRYLLIKMKLEQNLIDAYSGEGWKGHSREK---------IRPEKELQRAKKQILKCKIGIRDAIRQLDS 216 (632)
Q Consensus 146 ~~~e~~ri~~r~r~~l~~~~~eq~l~~ay~~EgWk~~sreK---------~rp~kElerak~~ilk~k~~ir~~i~~ld~ 216 (632)
.+.+.-|+..+++|++..+..+++++++|+.++|++.+.++ ++|.++...+.++|+.+++.++.+.++++.
T Consensus 150 ~~p~~~r~~n~lk~~t~~~~~~~~li~~~s~e~~~a~~~~k~~~r~~~~~~~~~~~sn~tt~~i~~r~~~~~s~~~hl~t 229 (613)
T KOG4299|consen 150 EVPDSFRDKNSLKYLTSLQNDVQELIDISSTEGWKASSDEKPPGRPFELLIRPAKESNVTTKEILNRKLTYRSLPRHLET 229 (613)
T ss_pred cCCCcchhhhhhhhhhccccccccccchhcccccccCCcccCcccchhhhcCcchhhccchhhhhhhhhhhhhhhhhhhh
Confidence 44677789999999999999999999999999999999999 999999999999999999999999999998
Q ss_pred CCCCCCCCCCcccCCCCcccccc--cccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 217 LSSVGCIEGSVIATDGSVHHEHI--ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 217 l~~~~~le~s~~~~dg~~~~e~~--~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
....+..++..+..|+....++. ||..|.+.+.. +++||||| |+++|||+||.|||.++.+|.|. |||+.|.+
T Consensus 230 ~s~~~t~~e~r~~~D~~~~~~~~~~fCsaCn~~~~F--~~~i~CD~-Cp~sFH~~CLePPl~~eniP~g~--W~C~ec~~ 304 (613)
T KOG4299|consen 230 ESKEGTVEEKRRERDKNISVEDIEDFCSACNGSGLF--NDIICCDG-CPRSFHQTCLEPPLEPENIPPGS--WFCPECKI 304 (613)
T ss_pred hhhhccchhhhhhhccccccCCHHHHHHHhCCcccc--ccceeecC-CchHHHHhhcCCCCCcccCCCCc--cccCCCee
Confidence 88887777777777877666665 99999998765 78899996 99999999999999999999998 99999999
Q ss_pred hhhHhhhhh--------ccCCceec--ccCc--ccccccccccCCCCCccccCCccCCCCCCCCCCCCCcccc
Q 006754 295 KMEIIESMN--------AHIGTSFS--VNSN--WQDIFKEEAAFPDGCSALLNQEEEWPSDDSEDDDYNPERR 355 (632)
Q Consensus 295 k~~~~~~~n--------~~~g~~f~--l~~~--~~~~F~e~at~~dg~~~~~~~~~~~psdd~eded~dp~~~ 355 (632)
+..+.+.++ ..+++.|. |+.. |+.+|++.....-++.. +...+|++++..+.+|+|-..
T Consensus 305 k~~in~~~~t~~~~~~~~~i~t~~~~~IDs~np~q~~lPe~i~~~~~~v~--~g~~~~~sd~~~~~pl~~~~~ 375 (613)
T KOG4299|consen 305 KSVINPKMETLSNRGTVVDIFTQFVSKIDSHNPIQKILPENISESFGGVS--RGDDGQYSDTQDEKPLDPPAL 375 (613)
T ss_pred eeecccchhhhhhccchHHHHHHHHHhhhccchhhhhCCHHHHhhccccc--cCCCCccccccCCcCCChhhh
Confidence 876555444 33444443 4444 44444443222222221 334456688888889998443
No 2
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.75 E-value=9.7e-19 Score=182.32 Aligned_cols=91 Identities=25% Similarity=0.357 Sum_probs=76.2
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhhhcc--ccCCCC--CC
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVESAR--QVSGSP--RI 572 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~~~~--~l~~~~--~~ 572 (632)
.++||+|..||..||-+||+.|.+++|+++.+|++||..|+||++||||||||||||.+|..+....+ .+...+ ..
T Consensus 151 ~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~~~~~~~~~~~~r~ 230 (307)
T KOG0842|consen 151 RKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKALEALLLASSPPPRR 230 (307)
T ss_pred ccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhhhcccCCCCCcccc
Confidence 45566778899999999999999999999999999999999999999999999999988888655433 333333 46
Q ss_pred CCCcchhhcccccch
Q 006754 573 SKESSLETEKKNADV 587 (632)
Q Consensus 573 s~~s~~~~~~~~~dl 587 (632)
.+.+.++.+++++-.
T Consensus 231 v~vpvlvrd~kp~~~ 245 (307)
T KOG0842|consen 231 VAVPVLVRDGKPCSG 245 (307)
T ss_pred cCCceeccCCCcccC
Confidence 888888888877654
No 3
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.71 E-value=9.6e-18 Score=167.04 Aligned_cols=75 Identities=19% Similarity=0.281 Sum_probs=70.0
Q ss_pred cchhhccCCCccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 486 TAEVKKKLPSNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 486 ~~~~~~~~~~~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
+..+.+.|+.++|.|++||.|+..||+.|.+.|+.++|+...+|.+||..||||.+||+|||||||.|++|..+.
T Consensus 109 E~~e~~~Ngk~KK~RKPRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl~k~ 183 (245)
T KOG0850|consen 109 EPSERRPNGKGKKVRKPRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKLKKQ 183 (245)
T ss_pred CcceeccCCCcccccCCcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHHHhc
Confidence 344467899999999999999999999999999999999999999999999999999999999999999998873
No 4
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.67 E-value=1.7e-17 Score=147.46 Aligned_cols=69 Identities=26% Similarity=0.440 Sum_probs=63.1
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhhhccc
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVESARQ 565 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~~~~~ 565 (632)
.++||-|+.||..|+.+||++|.+++||+..+|++||-.|.||+.+|+|||||||+|++|+.++..+..
T Consensus 15 rKQRRIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQEr~a~~~~ 83 (125)
T KOG0484|consen 15 RKQRRIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQERAAIAKM 83 (125)
T ss_pred HHhhhhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHHHHHHHHh
Confidence 456788899999999999999999999999999999999999999999999999999999987764433
No 5
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=99.61 E-value=1.1e-16 Score=162.30 Aligned_cols=193 Identities=21% Similarity=0.347 Sum_probs=133.1
Q ss_pred CCCC-chhhhhhhcccccchh--hccccccccccccccCCCc-cccccCCCCCccCCcchhhhhhhcchhhhhhhhh--h
Q 006754 73 GAGD-DFARSKSISQKNLHIK--IDRKGSKNWASSKHKGKNS-ALVISKGNGEVVDGDGETKKLRKGRSKKRRKEKV--E 146 (632)
Q Consensus 73 ~~~~-~~~~~~~~~~~~~~~~--~~~~~~~~~~s~~~~~~~~-~~~~~~~~~~~~~~~~~~~k~k~rr~~k~~~~~~--~ 146 (632)
++.+ +++++|||++++|+++ ++.+++ .+|+..|. .-+..+.|.+++|.+++++|+|+|-+.+.++-.. .
T Consensus 110 ~~~e~~~~leAll~seglekk~s~dar~e-----eti~d~qkq~~l~~p~dle~eD~eed~pkrknrsk~ka~~v~~~~~ 184 (336)
T KOG1244|consen 110 AASEHGACLEALLRSEGLEKKHSNDAREE-----ETINDDQKQSGLIFPTDLESEDLEEDIPKRKNRSKGKATGVGILRK 184 (336)
T ss_pred CcccccHHHHHHHhcccccccCCCCCCcc-----cchhhhhhccccccCcccchhhccccccccccCCcccceeeecccc
Confidence 4555 7999999999999998 888887 67886653 4677888889999999999999999998874432 3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhHHHHHhhcccCccCcccCCchHHHHHHHHHHh--hhhhhHH--------------HH
Q 006754 147 LDEASRLQRRTRYLLIKMKLEQNLIDAYSGEGWKGHSREKIRPEKELQRAKKQIL--KCKIGIR--------------DA 210 (632)
Q Consensus 147 ~~e~~ri~~r~r~~l~~~~~eq~l~~ay~~EgWk~~sreK~rp~kElerak~~il--k~k~~ir--------------~~ 210 (632)
+.....+.. |++ ..-+.+.+|+.- ..+.-+++++.|+ ..+..|. ++
T Consensus 185 l~~ss~l~~---~~~---------d~~~~~~~~~~g------e~~vkqr~kkd~a~Pn~YCDFclgdsr~nkkt~~peel 246 (336)
T KOG1244|consen 185 LTDSSSLED---YVC---------DTGTKQTVFAPG------EAKVKQRVKKDIAQPNPYCDFCLGDSRENKKTGMPEEL 246 (336)
T ss_pred ccccccccc---hhh---------cccccccccCcc------hhhHHHhhhcccccCCcccceeccccccccccCCchhh
Confidence 334433332 222 112233344331 0223334444211 2221111 33
Q ss_pred HH--hhhcCCCCCCCCC--Cccc---CCCCcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCC
Q 006754 211 IR--QLDSLSSVGCIEG--SVIA---TDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPG 283 (632)
Q Consensus 211 i~--~ld~l~~~~~le~--s~~~---~dg~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~g 283 (632)
+. .|....|.+||.. .+++ ...|.+.++.+|.+|+..+ .+++||+|| .|+++||+|||.||+. ..|+|
T Consensus 247 vscsdcgrsghpsclqft~nm~~avk~yrwqcieck~csicgtse--nddqllfcd-dcdrgyhmyclsppm~--eppeg 321 (336)
T KOG1244|consen 247 VSCSDCGRSGHPSCLQFTANMIAAVKTYRWQCIECKYCSICGTSE--NDDQLLFCD-DCDRGYHMYCLSPPMV--EPPEG 321 (336)
T ss_pred cchhhcCCCCCcchhhhhHHHHHHHHhheeeeeecceeccccCcC--CCceeEeec-ccCCceeeEecCCCcC--CCCCC
Confidence 33 5677888888865 2332 3568889999999999765 468899999 5999999999999998 68999
Q ss_pred CCccccCcCcch
Q 006754 284 DQGWFCKFCECK 295 (632)
Q Consensus 284 d~~W~C~~C~~k 295 (632)
. |.|..|...
T Consensus 322 s--wsc~KOG~~ 331 (336)
T KOG1244|consen 322 S--WSCHLCLEE 331 (336)
T ss_pred c--hhHHHHHHH
Confidence 8 999999643
No 6
>PF00046 Homeobox: Homeobox domain not present here.; InterPro: IPR001356 The homeobox domain was first identified in a number of drosophila homeotic and segmentation proteins, but is now known to be well-conserved in many other animals, including vertebrates [, , ]. Hox genes encode homeodomain-containing transcriptional regulators that operate differential genetic programs along the anterior-posterior axis of animal bodies []. The domain binds DNA through a helix-turn-helix (HTH) structure. The HTH motif is characterised by two alpha-helices, which make intimate contacts with the DNA and are joined by a short turn. The second helix binds to DNA via a number of hydrogen bonds and hydrophobic interactions, which occur between specific side chains and the exposed bases and thymine methyl groups within the major groove of the DNA []. The first helix helps to stabilise the structure. The motif is very similar in sequence and structure in a wide range of DNA-binding proteins (e.g., cro and repressor proteins, homeotic proteins, etc.). One of the principal differences between HTH motifs in these different proteins arises from the stereo-chemical requirement for glycine in the turn which is needed to avoid steric interference of the beta-carbon with the main chain: for cro and repressor proteins the glycine appears to be mandatory, while for many of the homeotic and other DNA-binding proteins the requirement is relaxed.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2DA3_A 1LFB_A 2LFB_A 2ECB_A 2DA5_A 3D1N_O 3A03_A 2XSD_C 3CMY_A 1AHD_P ....
Probab=99.58 E-value=1.4e-15 Score=121.12 Aligned_cols=57 Identities=35% Similarity=0.585 Sum_probs=53.5
Q ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 500 RRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 500 rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
||++++||++|+..|+.+|..++||+..+++.||..|||++.||++||+|+|++.+|
T Consensus 1 kr~r~~~t~~q~~~L~~~f~~~~~p~~~~~~~la~~l~l~~~~V~~WF~nrR~k~kk 57 (57)
T PF00046_consen 1 KRKRTRFTKEQLKVLEEYFQENPYPSKEEREELAKELGLTERQVKNWFQNRRRKEKK 57 (57)
T ss_dssp SSSSSSSSHHHHHHHHHHHHHSSSCHHHHHHHHHHHHTSSHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCHHHHHHHHHHHHHhccccccccccccccccccccccccCHHHhHHHhCc
Confidence 577889999999999999999999999999999999999999999999999996543
No 7
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.57 E-value=1.9e-15 Score=146.03 Aligned_cols=62 Identities=24% Similarity=0.424 Sum_probs=57.4
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhh
Q 006754 498 KIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARK 559 (632)
Q Consensus 498 k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k 559 (632)
+.||.||.||++|+..||..|+.++|....+|++||+.|+|++.||+|||||||.|.+|...
T Consensus 101 ~~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~ 162 (197)
T KOG0843|consen 101 RPKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQ 162 (197)
T ss_pred CCCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHH
Confidence 56888999999999999999999999999999999999999999999999999996655543
No 8
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.54 E-value=3.1e-15 Score=154.35 Aligned_cols=67 Identities=22% Similarity=0.335 Sum_probs=60.7
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhhhc
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVESA 563 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~~~ 563 (632)
.+.||.|+.||..|+.+||..|.-|+|.++.+|.+||..|.||++||+|||||||+|++|..+....
T Consensus 157 ~~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k~~~~ 223 (261)
T KOG0489|consen 157 GKSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENKAKSS 223 (261)
T ss_pred CCCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhccccc
Confidence 4468889999999999999999999999999999999999999999999999999977777655543
No 9
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.53 E-value=7.6e-15 Score=154.70 Aligned_cols=64 Identities=22% Similarity=0.291 Sum_probs=59.6
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
+|+|+.|+.||..|+.+||..|+...|.+..+|++||+.||||-.||++||||||+|++|....
T Consensus 170 kK~RksRTaFT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a~ 233 (309)
T KOG0488|consen 170 KKRRKSRTAFSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTAE 233 (309)
T ss_pred cccccchhhhhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHHh
Confidence 6677889999999999999999999999999999999999999999999999999977776644
No 10
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.52 E-value=1.2e-14 Score=143.86 Aligned_cols=66 Identities=18% Similarity=0.285 Sum_probs=61.4
Q ss_pred ccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhh
Q 006754 496 NAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVE 561 (632)
Q Consensus 496 ~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~ 561 (632)
+.++||.|+.|+..|+..||..|....|++..+|..||+.|.||++||+|||||||.|++|+-.++
T Consensus 101 ~~RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~aad 166 (268)
T KOG0485|consen 101 DDRKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQYAAD 166 (268)
T ss_pred ccccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHHhhh
Confidence 356788899999999999999999999999999999999999999999999999999888887665
No 11
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.49 E-value=1.7e-14 Score=145.85 Aligned_cols=62 Identities=23% Similarity=0.437 Sum_probs=57.2
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
+.-||+|+.||.+||+.|...|++|.|.+...|.+||++|||.+.||+|||||+|+|.+|--
T Consensus 244 ~eeKRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsT 305 (342)
T KOG0493|consen 244 KEEKRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKST 305 (342)
T ss_pred chhcCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhcc
Confidence 44589999999999999999999999999999999999999999999999999999665544
No 12
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.49 E-value=2e-14 Score=141.41 Aligned_cols=65 Identities=23% Similarity=0.338 Sum_probs=59.2
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVE 561 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~ 561 (632)
+--|++|+-||.+|+..||+.|.+.+|.++.+|.+++..|.||++||+|||||||+|.+|...++
T Consensus 142 k~nRkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQeae 206 (246)
T KOG0492|consen 142 KPNRKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQEAE 206 (246)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHHHHH
Confidence 33477899999999999999999999999999999999999999999999999999877766443
No 13
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.48 E-value=3.9e-14 Score=140.87 Aligned_cols=67 Identities=27% Similarity=0.475 Sum_probs=62.1
Q ss_pred CccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhh
Q 006754 495 SNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVE 561 (632)
Q Consensus 495 ~~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~ 561 (632)
...+.||.||+|+..|+.+||..|.+++||+...|++||.+|+|.+.+|+|||+|||+|.+++.+.+
T Consensus 33 ~pRkqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~qq 99 (228)
T KOG2251|consen 33 GPRKQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQQQ 99 (228)
T ss_pred cchhcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhhhh
Confidence 3466788899999999999999999999999999999999999999999999999999888887654
No 14
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.46 E-value=5e-14 Score=111.12 Aligned_cols=53 Identities=34% Similarity=0.597 Sum_probs=50.3
Q ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccH
Q 006754 501 RSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYL 553 (632)
Q Consensus 501 R~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k 553 (632)
+.+++|+++|+..|+.+|..++||+..++..||..|||+..||++||+|+|++
T Consensus 2 k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~ 54 (56)
T smart00389 2 RKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLGLSERQVKVWFQNRRAK 54 (56)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhc
Confidence 45677999999999999999999999999999999999999999999999984
No 15
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=99.44 E-value=8.2e-14 Score=110.54 Aligned_cols=56 Identities=38% Similarity=0.623 Sum_probs=51.6
Q ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 501 RSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 501 R~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
+.+..|+..|+..|+.+|..++||+..++..||..|||+..||++||+|+|++.++
T Consensus 2 ~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~ 57 (59)
T cd00086 2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKR 57 (59)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhc
Confidence 45567899999999999999999999999999999999999999999999995443
No 16
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.43 E-value=6.2e-14 Score=146.65 Aligned_cols=61 Identities=23% Similarity=0.305 Sum_probs=54.3
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhh
Q 006754 499 IRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARK 559 (632)
Q Consensus 499 ~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k 559 (632)
.|++|--||..|+.+||+.|.-|.|.+.+.|.+||+.|+||++||+|||||||.|.+|--+
T Consensus 235 ~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~r 295 (308)
T KOG0487|consen 235 GRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNR 295 (308)
T ss_pred cccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhh
Confidence 3445556799999999999999999999999999999999999999999999997666554
No 17
>TIGR01565 homeo_ZF_HD homeobox domain, ZF-HD class. This model represents a class of homoebox domain that differs substantially from the typical homoebox domain described in pfam model pfam00046. It is found in both C4 and C3 plants.
Probab=99.43 E-value=1.4e-13 Score=111.74 Aligned_cols=53 Identities=15% Similarity=0.292 Sum_probs=50.8
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhCCC----CCHHHHHHHHHHhCCCcchhhhccchhc
Q 006754 499 IRRSFHRMPPNAVEKLRQVFAENEL----PSRIVKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 499 ~rR~r~rft~~Q~~~Le~~F~~~~Y----Ps~~~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
+||.|+.||++|++.|+.+|..++| |+..++++||..|||++.+|+|||||.+
T Consensus 1 ~kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 1 KKRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence 3788999999999999999999999 9999999999999999999999999975
No 18
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.42 E-value=1.2e-13 Score=139.81 Aligned_cols=71 Identities=24% Similarity=0.348 Sum_probs=61.3
Q ss_pred CCCccccCCC-CCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhhhc
Q 006754 493 LPSNAKIRRS-FHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVESA 563 (632)
Q Consensus 493 ~~~~~k~rR~-r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~~~ 563 (632)
+...+++||. ||.||..|+.+||..|++-+||+...|+-||-.|.|.+.+|+|||||||+|++|..+..+.
T Consensus 134 ~~kkk~kRRh~RTiFT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~wg~ 205 (332)
T KOG0494|consen 134 NAKKKKKRRHFRTIFTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKRWGG 205 (332)
T ss_pred ccccccccccccchhhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhhcCc
Confidence 3344445555 8899999999999999999999999999999999999999999999999987777665443
No 19
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.33 E-value=3.9e-13 Score=136.67 Aligned_cols=59 Identities=22% Similarity=0.232 Sum_probs=53.8
Q ss_pred CCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 502 SFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 502 ~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
=|..||+.|+-+||+.|...+|.+...|-+||.-|||+++||+|||||||+|-+|..|.
T Consensus 202 YRvVYTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~nKK 260 (317)
T KOG0848|consen 202 YRVVYTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKDNKK 260 (317)
T ss_pred eeEEecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHHHHH
Confidence 35669999999999999999999999999999999999999999999999986665543
No 20
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.30 E-value=1e-12 Score=130.44 Aligned_cols=56 Identities=29% Similarity=0.430 Sum_probs=51.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 500 RRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 500 rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.||+.+|+..||..|..+.|....+|..||++|||.++||.||||||||+++
T Consensus 51 ~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK 106 (198)
T KOG0483|consen 51 KGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWK 106 (198)
T ss_pred ccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhcccccc
Confidence 34456789999999999999999999999999999999999999999999999543
No 21
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.29 E-value=2.7e-12 Score=123.41 Aligned_cols=64 Identities=28% Similarity=0.388 Sum_probs=56.6
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
...+++|+|.|..|+..|++.|..+|||+..+|..||..|||++.-|+|||||+|++.++.+..
T Consensus 49 ~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~~ 112 (156)
T COG5576 49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRSG 112 (156)
T ss_pred CcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhccc
Confidence 3345556667999999999999999999999999999999999999999999999977766644
No 22
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.27 E-value=1.7e-12 Score=134.54 Aligned_cols=64 Identities=25% Similarity=0.392 Sum_probs=58.3
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
+|+||.|+.||.+|+++||.+|+.|.||++.+|++||-.++||+..|.|||+|||+|++|..+-
T Consensus 110 ~KqrrQrthFtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrErN 173 (351)
T KOG0486|consen 110 SKQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRERN 173 (351)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhhh
Confidence 4678889999999999999999999999999999999999999999999999999965555533
No 23
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.14 E-value=1.3e-11 Score=118.16 Aligned_cols=60 Identities=23% Similarity=0.368 Sum_probs=55.1
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 499 IRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 499 ~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
+++-|+.|+..|+.-|++.|+.+.|.+..+|.+||..|+|++.||+.||||||.|.+|+-
T Consensus 100 r~K~Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~ 159 (194)
T KOG0491|consen 100 RRKARTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQ 159 (194)
T ss_pred hhhhcccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Confidence 455688999999999999999999999999999999999999999999999999655554
No 24
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.12 E-value=3.6e-11 Score=123.39 Aligned_cols=63 Identities=29% Similarity=0.464 Sum_probs=58.0
Q ss_pred cCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhh
Q 006754 499 IRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVE 561 (632)
Q Consensus 499 ~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~ 561 (632)
.||+|+.+|..|++.|..+|+..|.|.+.+|++|+.++||..+.|||||||||||-+|-+|-.
T Consensus 167 nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T KOG4577|consen 167 NKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDA 229 (383)
T ss_pred cCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhc
Confidence 488999999999999999999999999999999999999999999999999999866655443
No 25
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.11 E-value=2.7e-11 Score=120.33 Aligned_cols=65 Identities=20% Similarity=0.328 Sum_probs=57.9
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhhhh
Q 006754 498 KIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKVES 562 (632)
Q Consensus 498 k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~~~ 562 (632)
+++-.+-.|+-.|++.||..|.+++||-..+|.+||..||+++.||+|||||||.|++|+.+++-
T Consensus 166 ~rk~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkhAaEm 230 (288)
T KOG0847|consen 166 QRKQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKHAAEM 230 (288)
T ss_pred cccccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhhccch
Confidence 33444556899999999999999999999999999999999999999999999998888776663
No 26
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.05 E-value=6.9e-11 Score=122.15 Aligned_cols=65 Identities=22% Similarity=0.384 Sum_probs=59.8
Q ss_pred ccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 496 NAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 496 ~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
....||=|+.||-+|+..||+.|....|.++..|-+||..|||.+..|+|||||||.|-+|+|-+
T Consensus 178 ~dqmRRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 178 DDQMRRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred cHHHHHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 34567778899999999999999999999999999999999999999999999999988888843
No 27
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=99.01 E-value=2.1e-10 Score=114.18 Aligned_cols=64 Identities=22% Similarity=0.331 Sum_probs=58.6
Q ss_pred ccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhh
Q 006754 496 NAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARK 559 (632)
Q Consensus 496 ~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k 559 (632)
..++||.++.|+..|+++|++.|..++||+...|+.||..++|++..|+|||||+|++.++..+
T Consensus 57 ~~~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~~ 120 (235)
T KOG0490|consen 57 KFSKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEER 120 (235)
T ss_pred hccccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhhc
Confidence 4567888999999999999999999999999999999999999999999999999996666553
No 28
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=98.91 E-value=8e-10 Score=118.48 Aligned_cols=60 Identities=25% Similarity=0.358 Sum_probs=55.5
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHh
Q 006754 498 KIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKA 557 (632)
Q Consensus 498 k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~ 557 (632)
++||+||-|...++.+||.+|..|+.|+..+..+||.+|+|.-..|+|||+|||.|-+|-
T Consensus 293 RkRKKRTSie~~vr~aLE~~F~~npKPt~qEIt~iA~~L~leKEVVRVWFCNRRQkeKR~ 352 (398)
T KOG3802|consen 293 RKRKKRTSIEVNVRGALEKHFLKNPKPTSQEITHIAESLQLEKEVVRVWFCNRRQKEKRI 352 (398)
T ss_pred cccccccceeHHHHHHHHHHHHhCCCCCHHHHHHHHHHhccccceEEEEeeccccccccC
Confidence 677888999999999999999999999999999999999999999999999999944443
No 29
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.79 E-value=3.4e-09 Score=108.73 Aligned_cols=47 Identities=30% Similarity=0.484 Sum_probs=45.5
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
|...-+..|..||..++||+..+|.+||+.+|||..||.+||+|||.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQ 229 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQ 229 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhh
Confidence 67778889999999999999999999999999999999999999999
No 30
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.74 E-value=5.9e-09 Score=112.29 Aligned_cols=62 Identities=27% Similarity=0.450 Sum_probs=57.6
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
.+.+|.|+.|+..|+..|+..|..++||+...|++||+++||++.+|++||+|||++.+|..
T Consensus 174 ~~~rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~ 235 (354)
T KOG0849|consen 174 RGGRRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQH 235 (354)
T ss_pred ccccccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcc
Confidence 45567789999999999999999999999999999999999999999999999999777766
No 31
>PF00628 PHD: PHD-finger; InterPro: IPR019787 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 the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=98.62 E-value=5e-09 Score=81.85 Aligned_cols=50 Identities=42% Similarity=1.105 Sum_probs=40.8
Q ss_pred cccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
+|.+|+... +++.||.|| .|.++||+.|++|++....++.+. |+|+.|..
T Consensus 1 ~C~vC~~~~--~~~~~i~C~-~C~~~~H~~C~~~~~~~~~~~~~~--w~C~~C~~ 50 (51)
T PF00628_consen 1 YCPVCGQSD--DDGDMIQCD-SCNRWYHQECVGPPEKAEEIPSGD--WYCPNCRP 50 (51)
T ss_dssp EBTTTTSSC--TTSSEEEBS-TTSCEEETTTSTSSHSHHSHHSSS--BSSHHHHH
T ss_pred eCcCCCCcC--CCCCeEEcC-CCChhhCcccCCCChhhccCCCCc--EECcCCcC
Confidence 588999843 568999999 599999999999998744455555 99999964
No 32
>KOG0825 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.59 E-value=1.4e-08 Score=115.17 Aligned_cols=52 Identities=37% Similarity=1.049 Sum_probs=44.4
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCcc-ccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCA-FHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~ra-fH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
.+..-|.+|...+ ....||+||+ |+.+ ||+|||+|+|. .+|.+. |||+.|.-
T Consensus 213 ~E~~~C~IC~~~D--pEdVLLLCDs-CN~~~YH~YCLDPdl~--eiP~~e--WYC~NC~d 265 (1134)
T KOG0825|consen 213 QEEVKCDICTVHD--PEDVLLLCDS-CNKVYYHVYCLDPDLS--ESPVNE--WYCTNCSL 265 (1134)
T ss_pred cccccceeeccCC--hHHhheeecc-cccceeeccccCcccc--cccccc--eecCcchh
Confidence 3446799999986 3467999996 9998 99999999998 799988 99999965
No 33
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.56 E-value=6.2e-08 Score=98.88 Aligned_cols=60 Identities=32% Similarity=0.447 Sum_probs=55.4
Q ss_pred cCCCCCCCCHHHHHHHHHHHHh---CCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 499 IRRSFHRMPPNAVEKLRQVFAE---NELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 499 ~rR~r~rft~~Q~~~Le~~F~~---~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
.+|+|..|+...+++|..+|.. ||||+.+.+++||++.|++..||.+||.|+|-+.+|+.
T Consensus 188 arRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~~ 250 (334)
T KOG0774|consen 188 ARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKNM 250 (334)
T ss_pred HHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhhh
Confidence 4677778999999999999965 59999999999999999999999999999999888887
No 34
>PF05920 Homeobox_KN: Homeobox KN domain; InterPro: IPR008422 This entry represents a homeobox transcription factor KN domain conserved from fungi to human and plants [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 3K2A_B 2LK2_A 1X2N_A 2DMN_A.
Probab=98.55 E-value=2.2e-08 Score=75.74 Aligned_cols=33 Identities=39% Similarity=0.681 Sum_probs=28.6
Q ss_pred hCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 520 ENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 520 ~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
.||||+.++|++||+++||+..||..||-|.|.
T Consensus 7 ~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaRr 39 (40)
T PF05920_consen 7 HNPYPSKEEKEELAKQTGLSRKQISNWFINARR 39 (40)
T ss_dssp TSGS--HHHHHHHHHHHTS-HHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhHc
Confidence 469999999999999999999999999999997
No 35
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=98.52 E-value=6.3e-08 Score=107.42 Aligned_cols=59 Identities=29% Similarity=0.395 Sum_probs=55.3
Q ss_pred CccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccH
Q 006754 495 SNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYL 553 (632)
Q Consensus 495 ~~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k 553 (632)
.....||+|+.||+.|...|..+|++++||+.+..+.|+++|||..+.|.+||.|.|.+
T Consensus 416 ~~~~~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRR 474 (558)
T KOG2252|consen 416 KMLQTKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRR 474 (558)
T ss_pred ccccCCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhh
Confidence 34567888999999999999999999999999999999999999999999999999984
No 36
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the KOG0955 consensus PHD finger protein BR140/LIN-49 [General function prediction only]
Probab=98.25 E-value=4.6e-07 Score=108.03 Aligned_cols=56 Identities=41% Similarity=0.861 Sum_probs=48.2
Q ss_pred ccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 235 HHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 235 ~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
.+++.+|.+|..+++...+.||+||+ |+.++||.|++.| .+|+|. |+|..|...+.
T Consensus 216 ~~~D~~C~iC~~~~~~n~n~ivfCD~-Cnl~VHq~Cygi~----~ipeg~--WlCr~Cl~s~~ 271 (1051)
T KOG0955|consen 216 LEEDAVCCICLDGECQNSNVIVFCDG-CNLAVHQECYGIP----FIPEGQ--WLCRRCLQSPQ 271 (1051)
T ss_pred cCCCccceeecccccCCCceEEEcCC-CcchhhhhccCCC----CCCCCc--EeehhhccCcC
Confidence 35678999999998877788999996 9999999999944 589998 99999987653
No 38
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=98.21 E-value=3.9e-07 Score=94.21 Aligned_cols=72 Identities=21% Similarity=0.498 Sum_probs=58.1
Q ss_pred hhhcCCCCCCCCC-----CcccCCCCcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCcc
Q 006754 213 QLDSLSSVGCIEG-----SVIATDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGW 287 (632)
Q Consensus 213 ~ld~l~~~~~le~-----s~~~~dg~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W 287 (632)
+|...+|..|++. .++.+..|.+.++..|.+|+++.. ...||+|| .|+++||.+|++ |. .+|.|. |
T Consensus 284 ~C~~~~HP~Ci~M~~elv~~~KTY~W~C~~C~lC~IC~~P~~--E~E~~FCD-~CDRG~HT~CVG--L~--~lP~G~--W 354 (381)
T KOG1512|consen 284 PCATRPHPYCVAMIPELVGQYKTYFWKCSSCELCRICLGPVI--ESEHLFCD-VCDRGPHTLCVG--LQ--DLPRGE--W 354 (381)
T ss_pred ccccCCCCcchhcCHHHHhHHhhcchhhcccHhhhccCCccc--chheeccc-cccCCCCccccc--cc--cccCcc--c
Confidence 5667788888864 334456688899999999999864 58899999 699999999999 44 799999 9
Q ss_pred ccC-cCc
Q 006754 288 FCK-FCE 293 (632)
Q Consensus 288 ~C~-~C~ 293 (632)
.|. .|.
T Consensus 355 ICD~~C~ 361 (381)
T KOG1512|consen 355 ICDMRCR 361 (381)
T ss_pred hhhhHHH
Confidence 997 353
No 39
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.15 E-value=8.2e-07 Score=91.95 Aligned_cols=60 Identities=22% Similarity=0.306 Sum_probs=53.3
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
..+||+|+-+-.-....||.+|..+|.|+.+....||++|.|....|+|||+|.|.|.+|
T Consensus 307 ~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKR 366 (385)
T KOG1168|consen 307 GEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKR 366 (385)
T ss_pred cccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHH
Confidence 445677787777778899999999999999999999999999999999999999996554
No 40
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=98.10 E-value=9.1e-07 Score=97.52 Aligned_cols=61 Identities=25% Similarity=0.572 Sum_probs=48.8
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHhh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEIIE 300 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~~ 300 (632)
..|.||+.+.....+.||.|++ |..+||+.|+.|++.++..-+-...|||..|...+..+.
T Consensus 169 ~qc~vC~~g~~~~~NrmlqC~~-C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~~~~~~~~ 229 (464)
T KOG4323|consen 169 LQCSVCYCGGPGAGNRMLQCDK-CRQWYHQACHQPLIKDELAGDPFYEWFCDVCNRGPKKVP 229 (464)
T ss_pred ceeeeeecCCcCccceeeeecc-cccHHHHHhccCCCCHhhccCccceEeehhhccchhhcc
Confidence 4499999877777789999995 999999999999987544444345699999988775433
No 41
>KOG1973 consensus Chromatin remodeling protein, contains PHD Zn-finger [Chromatin structure and dynamics]
Probab=97.93 E-value=4.9e-06 Score=87.05 Aligned_cols=52 Identities=25% Similarity=0.655 Sum_probs=39.3
Q ss_pred ccccccccccccCCCCCCCCeEEeCC-CCC-ccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 235 HHEHIICAKCKLREAFPDNDIVLCDG-TCN-CAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 235 ~~e~~~C~vC~~~~~~~~g~lLlCDG-~C~-rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
.++-.+|..+... -|.||-||+ .|+ .|||+.|++.. ..|.|. |||+.|....
T Consensus 216 ~~e~~yC~Cnqvs----yg~Mi~CDn~~C~~eWFH~~CVGL~----~~Pkgk--WyC~~C~~~~ 269 (274)
T KOG1973|consen 216 PDEPTYCICNQVS----YGKMIGCDNPGCPIEWFHFTCVGLK----TKPKGK--WYCPRCKAEN 269 (274)
T ss_pred CCCCEEEEecccc----cccccccCCCCCCcceEEEeccccc----cCCCCc--ccchhhhhhh
Confidence 3445666555332 399999994 499 89999999954 578888 9999997654
No 42
>COG5141 PHD zinc finger-containing protein [General function prediction only]
Probab=97.90 E-value=5e-06 Score=91.24 Aligned_cols=58 Identities=33% Similarity=0.708 Sum_probs=48.6
Q ss_pred CCcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 232 GSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 232 g~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
+..+.-++.|.+|...++...+-||+||| |+-+.|+.|++.+ -+|+|- |+|..|....
T Consensus 187 ~~~d~~d~~C~~c~~t~~eN~naiVfCdg-C~i~VHq~CYGI~----f~peG~--WlCrkCi~~~ 244 (669)
T COG5141 187 EPSDEFDDICTKCTSTHNENSNAIVFCDG-CEICVHQSCYGIQ----FLPEGF--WLCRKCIYGE 244 (669)
T ss_pred CCchhhhhhhHhccccccCCcceEEEecC-cchhhhhhcccce----ecCcch--hhhhhhcccc
Confidence 33344578999999988766788999997 9999999999988 589998 9999997644
No 43
>cd04718 BAH_plant_2 BAH, or Bromo Adjacent Homology domain, plant-specific sub-family with unknown function. BAH domains are found in a variety of proteins playing roles in transcriptional silencing and the remodeling of chromatin. It is assumed that in most or all of these instances the BAH domain mediates protein-protein interactions.
Probab=97.89 E-value=5.5e-06 Score=79.28 Aligned_cols=29 Identities=52% Similarity=1.307 Sum_probs=26.4
Q ss_pred cccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 265 AFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 265 afH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
+||++||+|||. .+|+|+ |+||.|..+..
T Consensus 1 g~H~~CL~Ppl~--~~P~g~--W~Cp~C~~~~~ 29 (148)
T cd04718 1 GFHLCCLRPPLK--EVPEGD--WICPFCEVEKS 29 (148)
T ss_pred CcccccCCCCCC--CCCCCC--cCCCCCcCCCC
Confidence 599999999998 899999 99999987653
No 44
>KOG0956 consensus PHD finger protein AF10 [General function prediction only]
Probab=97.87 E-value=5.4e-06 Score=93.86 Aligned_cols=51 Identities=37% Similarity=0.927 Sum_probs=44.8
Q ss_pred cccccccccCCCCCCCCeEEeCC-CCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 238 HIICAKCKLREAFPDNDIVLCDG-TCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG-~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
..-|+||..-....++.||.||| .|.-+.||.|+++. .||.|. |||..|..
T Consensus 5 VGGCCVCSDErGWaeNPLVYCDG~nCsVAVHQaCYGIv----qVPtGp--WfCrKCes 56 (900)
T KOG0956|consen 5 VGGCCVCSDERGWAENPLVYCDGHNCSVAVHQACYGIV----QVPTGP--WFCRKCES 56 (900)
T ss_pred ccceeeecCcCCCccCceeeecCCCceeeeehhcceeE----ecCCCc--hhhhhhhh
Confidence 35699999876667899999998 89999999999975 799998 99999955
No 45
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.79 E-value=1.6e-05 Score=79.24 Aligned_cols=64 Identities=31% Similarity=0.429 Sum_probs=57.8
Q ss_pred CccccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 495 SNAKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 495 ~~~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
...+.++.++.|+..|+..|...|..++||+...+++||..+|++...|++||||+|++.++..
T Consensus 149 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~ 212 (235)
T KOG0490|consen 149 SNKKPRRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHK 212 (235)
T ss_pred CccccCCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhc
Confidence 3456678889999999999999999999999999999999999999999999999999655544
No 46
>COG5034 TNG2 Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
Probab=97.78 E-value=1.6e-05 Score=81.60 Aligned_cols=49 Identities=31% Similarity=0.830 Sum_probs=39.0
Q ss_pred cccccccccccCCCCCCCCeEEeCC-CCCc-cccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDG-TCNC-AFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG-~C~r-afH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
++..|| .|+.... |+||-||+ .|.+ |||+-|++. . ..|.|. |||+.|..
T Consensus 219 ~e~lYC-fCqqvSy---GqMVaCDn~nCkrEWFH~~CVGL--k--~pPKG~--WYC~eCk~ 269 (271)
T COG5034 219 GEELYC-FCQQVSY---GQMVACDNANCKREWFHLECVGL--K--EPPKGK--WYCPECKK 269 (271)
T ss_pred CceeEE-Eeccccc---ccceecCCCCCchhheecccccc--C--CCCCCc--EeCHHhHh
Confidence 344555 5777643 99999998 8996 899999993 3 688998 99999964
No 47
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=97.77 E-value=1.2e-05 Score=91.14 Aligned_cols=79 Identities=23% Similarity=0.600 Sum_probs=62.7
Q ss_pred hhhcCCCCCCCCC---CcccCCCCcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCcccc
Q 006754 213 QLDSLSSVGCIEG---SVIATDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFC 289 (632)
Q Consensus 213 ~ld~l~~~~~le~---s~~~~dg~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C 289 (632)
.|..++|..|... ...-..||.+..+.+|..|+... ++..+++|++ |+-+||.||..|++. .||.|. |+|
T Consensus 40 ~c~~~yH~~cvt~~~~~~~l~~gWrC~~crvCe~c~~~g--D~~kf~~Ck~-cDvsyh~yc~~P~~~--~v~sg~--~~c 112 (694)
T KOG4443|consen 40 DCGQKYHPYCVTSWAQHAVLSGGWRCPSCRVCEACGTTG--DPKKFLLCKR-CDVSYHCYCQKPPND--KVPSGP--WLC 112 (694)
T ss_pred hhcccCCcchhhHHHhHHHhcCCcccCCceeeeeccccC--Cccccccccc-ccccccccccCCccc--cccCcc--ccc
Confidence 5667788777652 11123568888899999999653 5688999996 999999999999998 799998 999
Q ss_pred CcCcchhhH
Q 006754 290 KFCECKMEI 298 (632)
Q Consensus 290 ~~C~~k~~~ 298 (632)
+.|...+.|
T Consensus 113 kk~~~c~qc 121 (694)
T KOG4443|consen 113 KKCTRCRQC 121 (694)
T ss_pred HHHHhhhhc
Confidence 999777654
No 48
>KOG0954 consensus PHD finger protein [General function prediction only]
Probab=97.77 E-value=9.3e-06 Score=92.69 Aligned_cols=52 Identities=35% Similarity=0.928 Sum_probs=46.3
Q ss_pred ccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcch
Q 006754 237 EHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECK 295 (632)
Q Consensus 237 e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k 295 (632)
++.+|.||+.+++...++||+|| .|+-..|+.|++.- .+|+|. |.|..|.-.
T Consensus 270 edviCDvCrspD~e~~neMVfCd-~Cn~cVHqaCyGIl----e~p~gp--WlCr~Calg 321 (893)
T KOG0954|consen 270 EDVICDVCRSPDSEEANEMVFCD-KCNICVHQACYGIL----EVPEGP--WLCRTCALG 321 (893)
T ss_pred ccceeceecCCCccccceeEEec-cchhHHHHhhhcee----ecCCCC--eeehhcccc
Confidence 67899999999988889999999 69999999999964 689987 999999653
No 49
>KOG1245 consensus Chromatin remodeling complex WSTF-ISWI, large subunit (contains heterochromatin localization, PHD and BROMO domains) [Chromatin structure and dynamics]
Probab=97.76 E-value=9.2e-06 Score=100.35 Aligned_cols=55 Identities=38% Similarity=1.001 Sum_probs=48.2
Q ss_pred ccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhH
Q 006754 237 EHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEI 298 (632)
Q Consensus 237 e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~ 298 (632)
....|.+|.... ....|++||+ |..+||++|+.|.+. .+|.++ |+|+.|+....+
T Consensus 1107 ~~~~c~~cr~k~--~~~~m~lc~~-c~~~~h~~C~rp~~~--~~~~~d--W~C~~c~~e~~~ 1161 (1404)
T KOG1245|consen 1107 VNALCKVCRRKK--QDEKMLLCDE-CLSGFHLFCLRPALS--SVPPGD--WMCPSCRKEHRA 1161 (1404)
T ss_pred chhhhhhhhhcc--cchhhhhhHh-hhhhHHHHhhhhhhc--cCCcCC--ccCCccchhhhh
Confidence 458999999975 3468999995 999999999999998 799999 999999987763
No 50
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=97.71 E-value=1.2e-05 Score=92.94 Aligned_cols=55 Identities=35% Similarity=0.848 Sum_probs=47.8
Q ss_pred CcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 233 SVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 233 ~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
+...+..+|.+|..+ |.+|+|| .|+.+||.+|++||+. .+|.++ |.|+.|.+...
T Consensus 42 ~~~~~~e~c~ic~~~-----g~~l~c~-tC~~s~h~~cl~~pl~--~~p~~~--~~c~Rc~~p~~ 96 (696)
T KOG0383|consen 42 WDDAEQEACRICADG-----GELLWCD-TCPASFHASCLGPPLT--PQPNGE--FICPRCFCPKN 96 (696)
T ss_pred cchhhhhhhhhhcCC-----CcEEEec-cccHHHHHHccCCCCC--cCCccc--eeeeeeccCCC
Confidence 556677899999987 8999999 7999999999999998 788888 99999966543
No 51
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=97.71 E-value=1.7e-05 Score=84.86 Aligned_cols=63 Identities=32% Similarity=0.351 Sum_probs=55.7
Q ss_pred ccCCCCCCCCHHHHHHHHHHHHhC---CCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 498 KIRRSFHRMPPNAVEKLRQVFAEN---ELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 498 k~rR~r~rft~~Q~~~Le~~F~~~---~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
..+|++..|+...+.+|+.|+.++ |||+..++..||+++||+..||.+||.|.|-+.++....
T Consensus 238 ~~~r~~~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~~~ 303 (342)
T KOG0773|consen 238 SKWRPQRGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPMIE 303 (342)
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCchHH
Confidence 356677789999999999998774 899999999999999999999999999999987777643
No 52
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=97.55 E-value=9.6e-05 Score=81.60 Aligned_cols=53 Identities=34% Similarity=0.865 Sum_probs=43.7
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCC--CCccccCcCc
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPG--DQGWFCKFCE 293 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~g--d~~W~C~~C~ 293 (632)
....-|.+|.... +..-++.|| +|..-||+-||+|||. .+|.. +.+|.|..|.
T Consensus 542 a~~ysCgiCkks~--dQHll~~CD-tC~lhYHlGCL~PPLT--R~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 542 AMNYSCGICKKST--DQHLLTQCD-TCHLHYHLGCLSPPLT--RLPKKNKNFGWQCSECD 596 (707)
T ss_pred ccceeeeeeccch--hhHHHhhcc-hhhceeeccccCCccc--cCcccccCcceeecccc
Confidence 3456799999863 345688999 8999999999999998 68864 4799999994
No 53
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.97 E-value=0.00066 Score=82.32 Aligned_cols=63 Identities=19% Similarity=0.267 Sum_probs=57.6
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhh
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARK 559 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k 559 (632)
-.+++.+++|+..|+..|..+|....||...+-|.|...++|..+.|.+||||.|++.+|..-
T Consensus 901 ~~r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 901 MGRRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred hhhhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhh
Confidence 345677899999999999999999999999999999999999999999999999997666653
No 54
>KOG1246 consensus DNA-binding protein jumonji/RBP2/SMCY, contains JmjC domain [General function prediction only]
Probab=96.59 E-value=0.0018 Score=78.05 Aligned_cols=163 Identities=23% Similarity=0.319 Sum_probs=100.3
Q ss_pred ccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHhhhhhccCCceecccCcc
Q 006754 237 EHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEIIESMNAHIGTSFSVNSNW 316 (632)
Q Consensus 237 e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~~~~n~~~g~~f~l~~~~ 316 (632)
....|..|...... ..+ .|++ |...||.+|..||+. .+|.++ |.|+.|..-..... ...+|+....+.--
T Consensus 154 ~~~~~~~~~k~~~~--~~~-~~~~-~~~~~~~~~~~~~~~--~~~~~~--~~~~~~~~~~~~~~--~~~~gf~~~~~~yt 223 (904)
T KOG1246|consen 154 DYPQCNTCSKGKEE--KLL-LCDS-CDDSYHTYCLRPPLT--RVPDGD--WRCPKCIPTPESKP--NYKFGFEQGSREYT 223 (904)
T ss_pred cchhhhccccCCCc--cce-eccc-ccCcccccccCCCCC--cCCcCc--ccCCcccccccCCc--ccccCcCCCCCccc
Confidence 34679999987532 334 9995 999999999999998 799998 99999987632111 12233322222222
Q ss_pred cccccccccCCCCCccccCCccCCCCCCCCCCCCCccccccCccccCC-CCCCCCCCCCCCCCCCCCCccc---------
Q 006754 317 QDIFKEEAAFPDGCSALLNQEEEWPSDDSEDDDYNPERRENSCSISRA-GTDDDPSSSTSLSWFSDSETFS--------- 386 (632)
Q Consensus 317 ~~~F~e~at~~dg~~~~~~~~~~~psdd~eded~dp~~~~~s~~~~~e-G~dd~~~sS~s~s~s~~~E~~~--------- 386 (632)
...|...+....+.|........-+.++.|-+.|+........ +.+. |+| .++..-+++++....-.
T Consensus 224 ~~~f~~~~~~~~~~~~~~~~~~~~~~~~vE~e~w~~v~~~~~~-~~~~~g~d--~~~~~~~s~~~~~~~~~~~~~~~~~y 300 (904)
T KOG1246|consen 224 LPKFEEYADNFKKDYFPKSKNSPDSTEDVEKEFWRLVASNLES-VEVLYGAD--LSTKEFGSGFPKSASGPLLGSEAEKY 300 (904)
T ss_pred cchhhhHhhhhhccccccccCCCCchHHHHHHHHHhhcccccc-eeeeeccc--hhhccccccccccCCCCCCCcchhhh
Confidence 2557777777777776432222112447777788766544221 2222 444 22222333333322211
Q ss_pred cccccccccCCCCCCCCCCCCCCCCC
Q 006754 387 ESMRWEMESNGYKNYSVDSSIGSDET 412 (632)
Q Consensus 387 gs~~~~~~~~~~~~~s~~s~~~sd~~ 412 (632)
....||+...+..+.|+.++.+.|..
T Consensus 301 ~~s~wnL~~i~~~~~svl~~~~~di~ 326 (904)
T KOG1246|consen 301 SNSGWNLNNIPRLEGSVLSHIDTDIS 326 (904)
T ss_pred ccCcccccccccCCccccccccCCcC
Confidence 35679999999999999999986663
No 55
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=96.58 E-value=0.00042 Score=51.48 Aligned_cols=35 Identities=46% Similarity=1.187 Sum_probs=19.5
Q ss_pred CCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCc
Q 006754 253 NDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCE 293 (632)
Q Consensus 253 g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~ 293 (632)
+.||.|++ |.-.+|+.|++.. .+|.+. .|+|..|.
T Consensus 2 n~ll~C~~-C~v~VH~~CYGv~----~~~~~~-~W~C~~C~ 36 (36)
T PF13831_consen 2 NPLLFCDN-CNVAVHQSCYGVS----EVPDGD-DWLCDRCE 36 (36)
T ss_dssp CEEEE-SS-S--EEEHHHHT-S----S--SS------HHH-
T ss_pred CceEEeCC-CCCcCChhhCCcc----cCCCCC-cEECCcCC
Confidence 67999995 9999999999976 455552 29998884
No 56
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=96.06 E-value=0.002 Score=77.05 Aligned_cols=49 Identities=27% Similarity=0.653 Sum_probs=43.0
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
.-++.|.+|... ++++||. +|++.||..|+.||+. .+|... |.|-.|..
T Consensus 342 ~~ddhcrf~~d~-----~~~lc~E-t~prvvhlEcv~hP~~--~~~s~~--~e~evc~~ 390 (1414)
T KOG1473|consen 342 EYDDHCRFCHDL-----GDLLCCE-TCPRVVHLECVFHPRF--AVPSAF--WECEVCNI 390 (1414)
T ss_pred eecccccccCcc-----cceeecc-cCCceEEeeecCCccc--cCCCcc--chhhhhhh
Confidence 345789999876 8999999 7999999999999998 788887 99999973
No 57
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=95.70 E-value=0.0069 Score=49.35 Aligned_cols=42 Identities=12% Similarity=0.295 Sum_probs=32.2
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 511 VEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 511 ~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
++.|+.+|..++++....-..|-.+.||+..||+.||--++.
T Consensus 10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~~ 51 (56)
T PF11569_consen 10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERMQ 51 (56)
T ss_dssp -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS-
T ss_pred hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhcc
Confidence 567999999999999999999999999999999999987754
No 58
>KOG0957 consensus PHD finger protein [General function prediction only]
Probab=95.61 E-value=0.0066 Score=67.60 Aligned_cols=57 Identities=32% Similarity=0.807 Sum_probs=46.1
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCC-----CccccCcCcchhh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGD-----QGWFCKFCECKME 297 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd-----~~W~C~~C~~k~~ 297 (632)
.+|+||.+....+.|+||-|| .|.-..|-.|++-- ....||-+. +.|||-.|++...
T Consensus 120 ~iCcVClg~rs~da~ei~qCd-~CGi~VHEgCYGv~-dn~si~s~~s~~stepWfCeaC~~Gvs 181 (707)
T KOG0957|consen 120 VICCVCLGQRSVDAGEILQCD-KCGINVHEGCYGVL-DNVSIPSGSSDCSTEPWFCEACLYGVS 181 (707)
T ss_pred eEEEEeecCccccccceeecc-ccCceecccccccc-cccccCCCCccCCCCchhhhhHhcCCC
Confidence 389999998777789999999 69999999999965 334666553 5799999987653
No 59
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=95.01 E-value=0.029 Score=65.05 Aligned_cols=45 Identities=22% Similarity=0.398 Sum_probs=42.4
Q ss_pred HHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 511 VEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 511 ~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
+..|...|..|.+|+.++-..+|+++||....|+.||+++++.-+
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~ 612 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEM 612 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhh
Confidence 789999999999999999999999999999999999999999433
No 60
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=94.68 E-value=0.02 Score=56.22 Aligned_cols=61 Identities=23% Similarity=0.574 Sum_probs=43.2
Q ss_pred ccccccc-CCCCCCCCeEEeCCCCCccccccccCCCCCCC----CCCCCCCccccCcCcchhhHhhh
Q 006754 240 ICAKCKL-REAFPDNDIVLCDGTCNCAFHQKCLDPPLDTE----SIPPGDQGWFCKFCECKMEIIES 301 (632)
Q Consensus 240 ~C~vC~~-~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~----~iP~gd~~W~C~~C~~k~~~~~~ 301 (632)
.|.+|+. ++...-|.||+|-| |..+||+.||+|-...+ .|-.+++.-.|..|+--....+.
T Consensus 1 ~C~~C~~~g~~~~kG~Lv~CQG-Cs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Cig~~~kKD~ 66 (175)
T PF15446_consen 1 TCDTCGYEGDDRNKGPLVYCQG-CSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCIGIAHKKDP 66 (175)
T ss_pred CcccccCCCCCccCCCeEEcCc-cChHHHhhhcCCccccceeeEEEcCCceEEechhhcChhhcccC
Confidence 4888865 33345689999997 99999999999986432 23445566789999765443333
No 61
>PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere. Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A.
Probab=92.74 E-value=0.18 Score=40.41 Aligned_cols=48 Identities=17% Similarity=0.279 Sum_probs=36.7
Q ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 500 RRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 500 rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
||+|..||-++.-.+-..+...+ ...+||+++|++.++|..|..|+..
T Consensus 1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k~~ 48 (53)
T PF04218_consen 1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNKDK 48 (53)
T ss_dssp SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCHHH
T ss_pred CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhHHH
Confidence 45667789999888888888777 6899999999999999999999653
No 62
>KOG4443 consensus Putative transcription factor HALR/MLL3, involved in embryonic development [General function prediction only]
Probab=91.72 E-value=0.045 Score=63.02 Aligned_cols=57 Identities=18% Similarity=0.498 Sum_probs=43.8
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
..+..|.+|+.......|.|+.|. .|...||.+|+...+....+.. +|.|+.|+..-
T Consensus 16 ~~~~mc~l~~s~G~~~ag~m~ac~-~c~~~yH~~cvt~~~~~~~l~~---gWrC~~crvCe 72 (694)
T KOG4443|consen 16 IVCLMCPLCGSSGKGRAGRLLACS-DCGQKYHPYCVTSWAQHAVLSG---GWRCPSCRVCE 72 (694)
T ss_pred hhhhhhhhhccccccccCcchhhh-hhcccCCcchhhHHHhHHHhcC---CcccCCceeee
Confidence 345778889887766778899999 5999999999997665323333 39999998754
No 63
>KOG4299 consensus PHD Zn-finger protein [General function prediction only]
Probab=89.89 E-value=0.18 Score=57.99 Aligned_cols=51 Identities=29% Similarity=0.714 Sum_probs=42.9
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
...|..|..+ |++++|+ .|+.+||+.|.++++.+ ..+... |.|..|.....
T Consensus 47 ~ts~~~~~~~-----gn~~~~~-~~~~s~h~~~~~~~~sp-~~~~~~--~~~~~~~~~~~ 97 (613)
T KOG4299|consen 47 ATSCGICKSG-----GNLLCCD-HCPASFHLECDKPPLSP-DLKGSE--INCSRCPKGRE 97 (613)
T ss_pred hhhcchhhhc-----CCccccc-cCccccchhccCcccCc-cccccc--ccccCCCcccc
Confidence 5679999987 8999999 59999999999999985 555555 99999987543
No 64
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=87.18 E-value=0.39 Score=39.06 Aligned_cols=35 Identities=26% Similarity=0.710 Sum_probs=29.0
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCC
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPP 274 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PP 274 (632)
...|.+|+..- .+.+++|.|. .|...||-.|+...
T Consensus 5 ~~~C~~Cg~~~-~~~dDiVvCp-~CgapyHR~C~~~~ 39 (54)
T PF14446_consen 5 GCKCPVCGKKF-KDGDDIVVCP-ECGAPYHRDCWEKA 39 (54)
T ss_pred CccChhhCCcc-cCCCCEEECC-CCCCcccHHHHhhC
Confidence 46799999863 2468999999 79999999999754
No 65
>KOG3612 consensus PHD Zn-finger protein [General function prediction only]
Probab=83.59 E-value=0.83 Score=52.07 Aligned_cols=53 Identities=17% Similarity=0.284 Sum_probs=43.2
Q ss_pred CcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 233 SVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 233 ~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
.....+++|..|... +..|.|+ .|.+.||..|+.|-- .++.....|.|+.|..
T Consensus 55 ~~~N~d~~cfechlp-----g~vl~c~-vc~Rs~h~~c~sp~~---q~r~~s~p~~~p~p~s 107 (588)
T KOG3612|consen 55 PSSNIDPFCFECHLP-----GAVLKCI-VCHRSFHENCQSPDP---QKRNYSVPSDKPQPYS 107 (588)
T ss_pred cccCCCcccccccCC-----cceeeee-hhhccccccccCcch---hhccccccccCCcccc
Confidence 344557999999986 8899999 699999999999874 3666556799999965
No 66
>KOG4628 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=83.00 E-value=0.75 Score=50.21 Aligned_cols=46 Identities=30% Similarity=0.588 Sum_probs=33.9
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
+.|.+|..... .|+.|--= .|...||..|.+|.|.. - + =+||.|..
T Consensus 230 ~~CaIClEdY~--~GdklRiL-PC~H~FH~~CIDpWL~~--~--r---~~CPvCK~ 275 (348)
T KOG4628|consen 230 DTCAICLEDYE--KGDKLRIL-PCSHKFHVNCIDPWLTQ--T--R---TFCPVCKR 275 (348)
T ss_pred ceEEEeecccc--cCCeeeEe-cCCCchhhccchhhHhh--c--C---ccCCCCCC
Confidence 58999998653 35544334 68899999999999872 1 1 37999976
No 67
>KOG1473 consensus Nucleosome remodeling factor, subunit NURF301/BPTF [Chromatin structure and dynamics; Transcription]
Probab=81.68 E-value=0.26 Score=59.93 Aligned_cols=52 Identities=17% Similarity=0.208 Sum_probs=41.0
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccc-cccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQ-KCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~-~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
..|.+|+. ++-+|+|+++|+.+||. .||+-..-...++++- |+|+.|..+..
T Consensus 429 rrl~Ie~~-----det~l~yysT~pqly~ll~cLd~~~~e~~L~d~i--~~~~ee~~rqM 481 (1414)
T KOG1473|consen 429 RRLRIEGM-----DETLLWYYSTCPQLYHLLRCLDRTYVEMYLCDGI--WERREEIIRQM 481 (1414)
T ss_pred eeeEEecC-----CCcEEEEecCcHHHHHHHHHhchHHHHHhhccch--hhhHHHHHHhc
Confidence 34666664 37899999889999999 9999554444788887 99999988764
No 68
>PF12861 zf-Apc11: Anaphase-promoting complex subunit 11 RING-H2 finger
Probab=77.78 E-value=1 Score=39.93 Aligned_cols=35 Identities=26% Similarity=0.536 Sum_probs=25.7
Q ss_pred CeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcch
Q 006754 254 DIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECK 295 (632)
Q Consensus 254 ~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k 295 (632)
.+|++. |...||+.|+.--|... ... =.||-|+..
T Consensus 46 plv~g~--C~H~FH~hCI~kWl~~~---~~~--~~CPmCR~~ 80 (85)
T PF12861_consen 46 PLVWGK--CSHNFHMHCILKWLSTQ---SSK--GQCPMCRQP 80 (85)
T ss_pred ceeecc--CccHHHHHHHHHHHccc---cCC--CCCCCcCCe
Confidence 466654 99999999999888741 112 379999864
No 69
>PF01527 HTH_Tnp_1: Transposase; InterPro: IPR002514 Transposase proteins are necessary for efficient DNA transposition. This family consists of various Escherichia coli insertion elements and other bacterial transposases some of which are members of the IS3 family. This region includes a helix-turn-helix motif (HTH) at the N terminus followed by a leucine zipper (LZ) motif. The LZ motif has been shown to mediate oligomerisation of the transposase components in IS911 []. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated; PDB: 2JN6_A 2RN7_A.
Probab=74.36 E-value=1.7 Score=35.99 Aligned_cols=47 Identities=21% Similarity=0.365 Sum_probs=30.9
Q ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhc
Q 006754 501 RSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 501 R~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
+++.+||+++...+-..+ ........+||.++||++.+|..|-.-.+
T Consensus 2 ~~r~~ys~e~K~~~v~~~----~~~g~sv~~va~~~gi~~~~l~~W~~~~~ 48 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREY----LESGESVSEVAREYGISPSTLYNWRKQYR 48 (76)
T ss_dssp -SS----HHHHHHHHHHH----HHHHCHHHHHHHHHTS-HHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHH----HHCCCceEeeecccccccccccHHHHHHh
Confidence 345678999977665555 22347889999999999999999965443
No 70
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=74.34 E-value=3.8 Score=33.20 Aligned_cols=40 Identities=25% Similarity=0.473 Sum_probs=36.0
Q ss_pred CCHHHHHHHHHHHHhC--CCCCHHHHHHHHHHhCCCcchhhh
Q 006754 506 MPPNAVEKLRQVFAEN--ELPSRIVKENLSKELSLEPEKVNK 545 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~--~YPs~~~r~~LA~~lgLt~~qV~i 545 (632)
+|+.|.+.|..+|... .+|-...-.+||++||++..-|..
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~ 42 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSE 42 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHH
Confidence 5899999999999988 559999999999999999988764
No 71
>KOG1512 consensus PHD Zn-finger protein [General function prediction only]
Probab=73.06 E-value=0.85 Score=48.37 Aligned_cols=62 Identities=15% Similarity=0.161 Sum_probs=40.8
Q ss_pred cccccccccCCC----CCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHhhh
Q 006754 238 HIICAKCKLREA----FPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEIIES 301 (632)
Q Consensus 238 ~~~C~vC~~~~~----~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~~~ 301 (632)
...|..|-.+.. ...+.||+|. .|..+||.+|+.-+.....+-.. ..|.|..|.-..-|..+
T Consensus 258 ~~~~~~~~~~~~~~~~~r~~S~I~C~-~C~~~~HP~Ci~M~~elv~~~KT-Y~W~C~~C~lC~IC~~P 323 (381)
T KOG1512|consen 258 RNERKHFWDIQTNIIQSRRNSWIVCK-PCATRPHPYCVAMIPELVGQYKT-YFWKCSSCELCRICLGP 323 (381)
T ss_pred hhhhhhhhcchhhhhhhhhccceeec-ccccCCCCcchhcCHHHHhHHhh-cchhhcccHhhhccCCc
Confidence 456777766421 1136799999 79999999999976432111111 24999999877665443
No 72
>PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A ....
Probab=72.61 E-value=4 Score=31.53 Aligned_cols=44 Identities=20% Similarity=0.406 Sum_probs=33.8
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYL 553 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k 553 (632)
.+++.+.+.|...| | ...+-.++|+.||++...|+.+......+
T Consensus 4 ~L~~~er~vi~~~y----~-~~~t~~eIa~~lg~s~~~V~~~~~~al~k 47 (50)
T PF04545_consen 4 QLPPREREVIRLRY----F-EGLTLEEIAERLGISRSTVRRILKRALKK 47 (50)
T ss_dssp TS-HHHHHHHHHHH----T-ST-SHHHHHHHHTSCHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHh----c-CCCCHHHHHHHHCCcHHHHHHHHHHHHHH
Confidence 47899999999999 2 22346789999999999999987766553
No 73
>KOG4323 consensus Polycomb-like PHD Zn-finger protein [General function prediction only]
Probab=71.42 E-value=2.7 Score=47.59 Aligned_cols=58 Identities=17% Similarity=0.293 Sum_probs=46.0
Q ss_pred ccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHh
Q 006754 235 HHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEII 299 (632)
Q Consensus 235 ~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~ 299 (632)
..+...|.+|......+.+.++.|+ .|.++||+.|..|.... .+. |.|..|+......
T Consensus 80 ~~~e~~~nv~~s~~~~p~~e~~~~~-r~~~~~~q~~~i~~~~~----~~~--~~~~~c~~~~~~~ 137 (464)
T KOG4323|consen 80 PSSELNPNVLTSETVLPENEKVICG-RCKSGYHQGCNIPRFPS----LDI--GESTECVFPIFSQ 137 (464)
T ss_pred CccccCCcccccccccCchhhhhhh-hhccCcccccCccCcCc----CCc--ccccccccccccc
Confidence 4556789999998777778899999 69999999999987542 234 8999998776543
No 74
>cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D
Probab=64.68 E-value=12 Score=24.67 Aligned_cols=38 Identities=13% Similarity=0.434 Sum_probs=29.0
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhcc
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWF 547 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWF 547 (632)
.|+..+...+...|. +.+ ...++|+.+|++...|..|.
T Consensus 5 ~~~~~~~~~i~~~~~-~~~----s~~~ia~~~~is~~tv~~~~ 42 (42)
T cd00569 5 KLTPEQIEEARRLLA-AGE----SVAEIARRLGVSRSTLYRYL 42 (42)
T ss_pred cCCHHHHHHHHHHHH-cCC----CHHHHHHHHCCCHHHHHHhC
Confidence 357777777777775 333 56789999999999999884
No 75
>cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas
Probab=64.59 E-value=4.5 Score=29.93 Aligned_cols=43 Identities=19% Similarity=0.306 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
.+++.+...|..+|... ..-.++|..+|++..+|..|....+.
T Consensus 10 ~l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~ 52 (55)
T cd06171 10 KLPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALK 52 (55)
T ss_pred hCCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 36788888888777422 35678899999999999999877655
No 76
>PF13639 zf-RING_2: Ring finger domain; PDB: 2KIZ_A 4EPO_C 1IYM_A 2EP4_A 2ECT_A 2JRJ_A 2ECN_A 2ECM_A 3NG2_A 2EA6_A ....
Probab=59.48 E-value=1 Score=34.06 Aligned_cols=43 Identities=23% Similarity=0.549 Sum_probs=29.1
Q ss_pred cccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCE 293 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~ 293 (632)
.|.+|...-. .+..++... |...||..|+...+.. . -.||.|+
T Consensus 2 ~C~IC~~~~~-~~~~~~~l~--C~H~fh~~Ci~~~~~~------~--~~CP~CR 44 (44)
T PF13639_consen 2 ECPICLEEFE-DGEKVVKLP--CGHVFHRSCIKEWLKR------N--NSCPVCR 44 (44)
T ss_dssp CETTTTCBHH-TTSCEEEET--TSEEEEHHHHHHHHHH------S--SB-TTTH
T ss_pred CCcCCChhhc-CCCeEEEcc--CCCeeCHHHHHHHHHh------C--CcCCccC
Confidence 5888887642 234455554 9999999999987651 2 3788884
No 77
>KOG0383 consensus Predicted helicase [General function prediction only]
Probab=54.70 E-value=2.2 Score=50.50 Aligned_cols=52 Identities=21% Similarity=0.299 Sum_probs=43.9
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCC-CCCCCCCCCCCCccccCcCcchhh
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDP-PLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~P-PL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
-.++.|..|... ...++|+ .|-+.||..|+.| |+. ..+-+. |-|+.|..+..
T Consensus 504 ~~d~~~~~~~~~-----l~~l~~p-~~lrr~k~d~l~~~P~K--te~i~~--~~~~~~Q~~~y 556 (696)
T KOG0383|consen 504 FHDISCEEQIKK-----LHLLLCP-HMLRRLKLDVLKPMPLK--TELIGR--VELSPCQKKYY 556 (696)
T ss_pred cchhhHHHHHHh-----hccccCc-hhhhhhhhhhccCCCcc--ceeEEE--EecCHHHHHHH
Confidence 456889999986 6788999 6999999999999 877 466687 99999987764
No 78
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=54.30 E-value=6.9 Score=35.12 Aligned_cols=32 Identities=25% Similarity=0.689 Sum_probs=26.0
Q ss_pred cccccccccCCCCCCCCeEEeCC-CCCccccccccCC
Q 006754 238 HIICAKCKLREAFPDNDIVLCDG-TCNCAFHQKCLDP 273 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG-~C~rafH~~CL~P 273 (632)
...|.+|+.. .|-+|-|.. .|...||..|..-
T Consensus 55 ~~~C~iC~~~----~G~~i~C~~~~C~~~fH~~CA~~ 87 (110)
T PF13832_consen 55 KLKCSICGKS----GGACIKCSHPGCSTAFHPTCARK 87 (110)
T ss_pred CCcCcCCCCC----CceeEEcCCCCCCcCCCHHHHHH
Confidence 4689999986 378888982 3999999999763
No 79
>PF10367 Vps39_2: Vacuolar sorting protein 39 domain 2; InterPro: IPR019453 This entry represents a domain found in the vacuolar sorting protein Vps39 and transforming growth factor beta receptor-associated protein Trap1. Vps39, a component of the C-Vps complex, is thought to be required for the fusion of endosomes and other types of transport intermediates with the vacuole [, ]. In Saccharomyces cerevisiae (Baker's yeast), Vps39 has been shown to stimulate nucleotide exchange []. Trap1 plays a role in the TGF-beta/activin signaling pathway. It associates with inactive heteromeric TGF-beta and activin receptor complexes, mainly through the type II receptor, and is released upon activation of signaling [, ]. The precise function of this domain has not been characterised In Vps39 this domain is involved in localisation and in mediating the interactions with Vps11 [].
Probab=54.29 E-value=9.4 Score=33.46 Aligned_cols=31 Identities=19% Similarity=0.525 Sum_probs=21.6
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccC
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLD 272 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~ 272 (632)
...|.+|+..-. .+.++.. -|+..||..|+.
T Consensus 78 ~~~C~vC~k~l~--~~~f~~~--p~~~v~H~~C~~ 108 (109)
T PF10367_consen 78 STKCSVCGKPLG--NSVFVVF--PCGHVVHYSCIK 108 (109)
T ss_pred CCCccCcCCcCC--CceEEEe--CCCeEEeccccc
Confidence 467999999742 2344444 277999999975
No 80
>KOG1632 consensus Uncharacterized PHD Zn-finger protein [General function prediction only]
Probab=54.00 E-value=7.8 Score=42.45 Aligned_cols=41 Identities=22% Similarity=0.503 Sum_probs=33.1
Q ss_pred CCeEEeCCCCCccccccc--cCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 253 NDIVLCDGTCNCAFHQKC--LDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 253 g~lLlCDG~C~rafH~~C--L~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
..++-|++ |..+||..| ++++.. .+|..+ .|+|..|.....
T Consensus 73 ~~~~~cd~-C~~~~~~ec~~v~~~~~--e~p~~~-~~~c~~c~~~~~ 115 (345)
T KOG1632|consen 73 DLMEQCDL-CEDWYHGECWEVGTAEK--EAPKED-PKVCDECKEAQD 115 (345)
T ss_pred hhhhcccc-ccccccccccccCchhh--cCCccc-cccccccchhhh
Confidence 37899995 999999999 998876 455433 499999988765
No 81
>PF12678 zf-rbx1: RING-H2 zinc finger; InterPro: IPR024766 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 domain constitutes a conserved region found in proteins that participate in diverse functions relevant to chromosome metabolism and cell cycle control [].The domain contains 8 cysteine/ histidine residues which are proposed to be the conserved residues involved in zinc binding.; PDB: 4A0C_D 4A0L_I 4A0K_B 2ECL_A 1LDK_C 3RTR_F 3DQV_Y 1U6G_B 1LDJ_B 2HYE_D ....
Probab=53.64 E-value=4.8 Score=34.16 Aligned_cols=46 Identities=26% Similarity=0.551 Sum_probs=28.3
Q ss_pred ccccccccCCCCC--------CCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCc
Q 006754 239 IICAKCKLREAFP--------DNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCE 293 (632)
Q Consensus 239 ~~C~vC~~~~~~~--------~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~ 293 (632)
+.|.+|...-... +.-.|.-. .|...||..|+..-|.. . ..||.|+
T Consensus 20 d~C~IC~~~l~~~~~~~~~~~~~~~i~~~-~C~H~FH~~Ci~~Wl~~------~--~~CP~CR 73 (73)
T PF12678_consen 20 DNCAICREPLEDPCPECQAPQDECPIVWG-PCGHIFHFHCISQWLKQ------N--NTCPLCR 73 (73)
T ss_dssp SBETTTTSBTTSTTCCHHHCTTTS-EEEE-TTSEEEEHHHHHHHHTT------S--SB-TTSS
T ss_pred CcccccChhhhChhhhhcCCccccceEec-ccCCCEEHHHHHHHHhc------C--CcCCCCC
Confidence 4488888753111 12233333 59999999999877652 2 5799985
No 82
>PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes. Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site [].
Probab=53.16 E-value=7 Score=32.56 Aligned_cols=25 Identities=12% Similarity=0.488 Sum_probs=19.8
Q ss_pred HHHHHHHHhCCCcchhhhccchhcc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
.-.+||.+||+++.||..|=..-.+
T Consensus 24 ~lkdIA~~Lgvs~~tIr~WK~~dkW 48 (60)
T PF10668_consen 24 KLKDIAEKLGVSESTIRKWKSRDKW 48 (60)
T ss_pred cHHHHHHHHCCCHHHHHHHhhhcch
Confidence 4468999999999999999544333
No 83
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=52.88 E-value=13 Score=37.44 Aligned_cols=41 Identities=22% Similarity=0.465 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHHHHhC--CCCCHHHHHHHHHHhCCCcchhhh
Q 006754 505 RMPPNAVEKLRQVFAEN--ELPSRIVKENLSKELSLEPEKVNK 545 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~--~YPs~~~r~~LA~~lgLt~~qV~i 545 (632)
.||+.|++.|..+|..- -||-.-.-.+||++||++..-+.-
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~e 197 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSE 197 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHH
Confidence 68999999999999988 779999999999999999987754
No 84
>KOG0827 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=51.80 E-value=2.6 Score=46.50 Aligned_cols=56 Identities=27% Similarity=0.481 Sum_probs=35.9
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCcc--ccCcCcchhhHhhhhh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGW--FCKFCECKMEIIESMN 303 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W--~C~~C~~k~~~~~~~n 303 (632)
..|.+|-..- ....++---. +|...||..||.-... ++ +| -||.|..+..+.-.+|
T Consensus 5 A~C~Ic~d~~-p~~~~l~~i~-~cGhifh~~cl~qwfe------~~-Ps~R~cpic~ik~~~r~~~N 62 (465)
T KOG0827|consen 5 AECHICIDGR-PNDHELGPIG-TCGHIFHTTCLTQWFE------GD-PSNRGCPICQIKLQERHVAN 62 (465)
T ss_pred ceeeEeccCC-cccccccccc-chhhHHHHHHHHHHHc------cC-CccCCCCceeecccceeeec
Confidence 4699995542 1223344444 7999999999985543 22 36 6999987666554444
No 85
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=51.40 E-value=13 Score=35.87 Aligned_cols=51 Identities=22% Similarity=0.181 Sum_probs=40.7
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhhhh
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKARKV 560 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~k~ 560 (632)
..+|+.|.+.|...+ ...+..+||+.||++...|+.|.++.+.+.++.+..
T Consensus 5 ~~Lt~rqreVL~lr~------~GlTq~EIAe~LGiS~~tVs~ie~ra~kkLr~~~~t 55 (141)
T PRK03975 5 SFLTERQIEVLRLRE------RGLTQQEIADILGTSRANVSSIEKRARENIEKARET 55 (141)
T ss_pred cCCCHHHHHHHHHHH------cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 467999999998742 234567999999999999999999988866665543
No 86
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=50.92 E-value=10 Score=30.95 Aligned_cols=46 Identities=28% Similarity=0.714 Sum_probs=32.9
Q ss_pred cccccccCCCCC---CCCeEEeCCCCCccccccccCCCCCCCCCCCCCCcc
Q 006754 240 ICAKCKLREAFP---DNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGW 287 (632)
Q Consensus 240 ~C~vC~~~~~~~---~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W 287 (632)
.|.+|+..-..+ .|.+|-|. .|...|-...++| +.....|.-.+.|
T Consensus 4 ~CP~CG~~iev~~~~~GeiV~Cp-~CGaeleVv~~~p-~~L~~ap~~~eDw 52 (54)
T TIGR01206 4 ECPDCGAEIELENPELGELVICD-ECGAELEVVSLDP-LRLEAAPEEAEDW 52 (54)
T ss_pred CCCCCCCEEecCCCccCCEEeCC-CCCCEEEEEeCCC-CEEEeCccccccc
Confidence 588998742222 27899999 6999999999999 5544666544447
No 87
>PF13551 HTH_29: Winged helix-turn helix
Probab=50.83 E-value=23 Score=30.91 Aligned_cols=49 Identities=22% Similarity=0.350 Sum_probs=33.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHhCCCCC--HHHHHHHHHHh-------CCCcchhhhccc
Q 006754 500 RRSFHRMPPNAVEKLRQVFAENELPS--RIVKENLSKEL-------SLEPEKVNKWFK 548 (632)
Q Consensus 500 rR~r~rft~~Q~~~Le~~F~~~~YPs--~~~r~~LA~~l-------gLt~~qV~iWFq 548 (632)
.++..++++++.+.|.+++..+|... ......||..| .+++..|..|+.
T Consensus 52 g~~~~~l~~~~~~~l~~~~~~~p~~g~~~~t~~~l~~~l~~~~~~~~~s~~ti~r~L~ 109 (112)
T PF13551_consen 52 GRPRKRLSEEQRAQLIELLRENPPEGRSRWTLEELAEWLIEEEFGIDVSPSTIRRILK 109 (112)
T ss_pred CCCCCCCCHHHHHHHHHHHHHCCCCCCCcccHHHHHHHHHHhccCccCCHHHHHHHHH
Confidence 34444489999999999999987432 23344555433 567777887764
No 88
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=49.83 E-value=14 Score=36.85 Aligned_cols=24 Identities=38% Similarity=0.772 Sum_probs=19.0
Q ss_pred CCCeEEeCCCCCccccccccCCCCC
Q 006754 252 DNDIVLCDGTCNCAFHQKCLDPPLD 276 (632)
Q Consensus 252 ~g~lLlCDG~C~rafH~~CL~PPL~ 276 (632)
++-|.-|. .|.++||+..|-|+-.
T Consensus 121 ~nVLFRC~-~C~RawH~~HLP~~~~ 144 (175)
T PF15446_consen 121 DNVLFRCT-SCHRAWHFEHLPPPSG 144 (175)
T ss_pred hheEEecC-CccceeehhhCCCCcC
Confidence 35567799 5999999999887643
No 89
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=49.54 E-value=10 Score=40.85 Aligned_cols=40 Identities=33% Similarity=0.360 Sum_probs=35.2
Q ss_pred HhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 519 AENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 519 ~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
..++||+...+.-|+...+|+..||.+||-|.|.+..+..
T Consensus 117 ~~~~~~~k~~~~ll~~~~~~~~~~~~~~~~~a~r~~~~~~ 156 (342)
T KOG0773|consen 117 RLNPYPSKLEKILLAVITKLTLTQVSTWFANARRRLKKEL 156 (342)
T ss_pred hhccCchHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhcc
Confidence 4579999999999999999999999999999999555443
No 90
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=48.81 E-value=8.9 Score=32.41 Aligned_cols=56 Identities=23% Similarity=0.429 Sum_probs=20.1
Q ss_pred ccccccccCCC-CCCCCeEEeCC-CCCccccccccCCCCCC-----CCCCCCCCccccCcCcchh
Q 006754 239 IICAKCKLREA-FPDNDIVLCDG-TCNCAFHQKCLDPPLDT-----ESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 239 ~~C~vC~~~~~-~~~g~lLlCDG-~C~rafH~~CL~PPL~~-----~~iP~gd~~W~C~~C~~k~ 296 (632)
..|.+|..... .+.-..+.|+. .|...||..||.-.+.. ..+-.- .+-||.|....
T Consensus 3 ~~C~IC~~~~~~~~~~p~~~C~n~~C~~~fH~~CL~~wf~~~~~~~~~~~~~--~G~CP~C~~~i 65 (70)
T PF11793_consen 3 LECGICYSYRLDDGEIPDVVCPNPSCGKKFHLLCLSEWFLSLEKSRQSFIPI--FGECPYCSSPI 65 (70)
T ss_dssp -S-SSS--SS-TT-----B--S-TT----B-SGGGHHHHHHHHSSS-TTT----EEE-TTT-SEE
T ss_pred CCCCcCCcEecCCCCcCceEcCCcccCCHHHHHHHHHHHHHcccCCeeeccc--ccCCcCCCCee
Confidence 46888887532 11223688972 59999999999744320 011111 26799997653
No 91
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=48.07 E-value=16 Score=36.89 Aligned_cols=42 Identities=29% Similarity=0.771 Sum_probs=30.5
Q ss_pred ccccccccCCC---CCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 239 IICAKCKLREA---FPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 239 ~~C~vC~~~~~---~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
-+|.+|...+. .+....+-|. .|...||..|+.. . .||.|.-
T Consensus 153 fiCe~C~~~~~IfPF~~~~~~~C~-~C~~v~H~~C~~~--~-----------~CpkC~R 197 (202)
T PF13901_consen 153 FICEICNSDDIIFPFQIDTTVRCP-KCKSVFHKSCFRK--K-----------SCPKCAR 197 (202)
T ss_pred CCCccCCCCCCCCCCCCCCeeeCC-cCccccchhhcCC--C-----------CCCCcHh
Confidence 46888886532 1225688999 5999999999982 1 3999964
No 92
>PF07227 DUF1423: Protein of unknown function (DUF1423); InterPro: IPR004082 A total of 715 potential protein-coding genes have been identified in the nucleotide sequence of Arabidopsis thaliana chromosome 5, with an average gene density of 1 gene per 4001 bp []. Amongst the gene products is a well-conserved family of 130.7kDa proteins that share no sequence similarity with any other known proteins, other than in plants. The sequences are characterised by an N-terminal domain of variable length, a central cysteine-rich region and a relatively acidic C-terminal domain. The sequences may possess a PHD finger.
Probab=47.39 E-value=18 Score=40.93 Aligned_cols=59 Identities=22% Similarity=0.419 Sum_probs=35.3
Q ss_pred ccccccCCCCC-CCCeEEeCCCCCccccccccCCC--------CCCCCCCCCCCccccCcCcchhhHhhh
Q 006754 241 CAKCKLREAFP-DNDIVLCDGTCNCAFHQKCLDPP--------LDTESIPPGDQGWFCKFCECKMEIIES 301 (632)
Q Consensus 241 C~vC~~~~~~~-~g~lLlCDG~C~rafH~~CL~PP--------L~~~~iP~gd~~W~C~~C~~k~~~~~~ 301 (632)
|.+|..-+... +-..|.|| .|..+-|..|---- ..- .+...+-.++|..|....+.+..
T Consensus 131 C~iC~kfD~~~n~~~Wi~Cd-~CgH~cH~dCALr~~~i~~G~s~~g-~~g~~d~~f~C~~C~~~seLlG~ 198 (446)
T PF07227_consen 131 CCICSKFDDNKNTCSWIGCD-VCGHWCHLDCALRHELIGTGPSVKG-SIGTLDMQFHCRACGKTSELLGF 198 (446)
T ss_pred ccccCCcccCCCCeeEEecc-CCCceehhhhhcccccccCCccCCC-CCccCceEEEccCCCChhhHHHH
Confidence 45566543222 23488899 69999999985421 110 11111234999999888765543
No 93
>smart00421 HTH_LUXR helix_turn_helix, Lux Regulon. lux regulon (activates the bioluminescence operon
Probab=46.83 E-value=20 Score=26.95 Aligned_cols=42 Identities=19% Similarity=0.335 Sum_probs=31.6
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
.+++.+.+.+..++. .+ ...+||+.||++...|..|.+.-+.
T Consensus 3 ~l~~~e~~i~~~~~~--g~----s~~eia~~l~is~~tv~~~~~~~~~ 44 (58)
T smart00421 3 SLTPREREVLRLLAE--GL----TNKEIAERLGISEKTVKTHLSNIMR 44 (58)
T ss_pred CCCHHHHHHHHHHHc--CC----CHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 368888887766432 22 5589999999999999998875544
No 94
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=46.42 E-value=13 Score=28.57 Aligned_cols=40 Identities=13% Similarity=0.333 Sum_probs=21.4
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccc
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFK 548 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFq 548 (632)
..||.+|...++..+.+. ....+||+.||.++..|..|..
T Consensus 3 ~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~relk 42 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSRELK 42 (44)
T ss_dssp ---------HHHHHHCS--------HHHHHHHTT--HHHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHHh
Confidence 457999999999887633 4566799999999999988754
No 95
>PF13771 zf-HC5HC2H: PHD-like zinc-binding domain
Probab=45.32 E-value=13 Score=31.99 Aligned_cols=31 Identities=26% Similarity=0.703 Sum_probs=25.1
Q ss_pred ccccccccCCCCCCCCeEEeCC-CCCccccccccCC
Q 006754 239 IICAKCKLREAFPDNDIVLCDG-TCNCAFHQKCLDP 273 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG-~C~rafH~~CL~P 273 (632)
..|.+|+.. .|-.|-|.- .|...||..|..-
T Consensus 37 ~~C~~C~~~----~Ga~i~C~~~~C~~~fH~~CA~~ 68 (90)
T PF13771_consen 37 LKCSICKKK----GGACIGCSHPGCSRSFHVPCARK 68 (90)
T ss_pred CCCcCCCCC----CCeEEEEeCCCCCcEEChHHHcc
Confidence 579999976 277888873 6999999999874
No 96
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=44.62 E-value=18 Score=28.81 Aligned_cols=24 Identities=4% Similarity=0.292 Sum_probs=16.6
Q ss_pred HHHHHHHHhCCCcchhhhccchhc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
....||+.+|++..+|..||.++.
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~ 35 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKP 35 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-
T ss_pred CHHHHHHHHCcCHHHHHHHHhccc
Confidence 567788888888888888888773
No 97
>PRK10072 putative transcriptional regulator; Provisional
Probab=44.37 E-value=22 Score=32.12 Aligned_cols=40 Identities=15% Similarity=0.199 Sum_probs=31.6
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
.+...+..|...... ++.+||+.||++...|..|.+.+|.
T Consensus 33 ~~~~eik~LR~~~gl-------TQ~elA~~lGvS~~TVs~WE~G~r~ 72 (96)
T PRK10072 33 TSFTEFEQLRKGTGL-------KIDDFARVLGVSVAMVKEWESRRVK 72 (96)
T ss_pred CChHHHHHHHHHcCC-------CHHHHHHHhCCCHHHHHHHHcCCCC
Confidence 366667777554443 3789999999999999999999886
No 98
>PHA02955 hypothetical protein; Provisional
Probab=42.28 E-value=27 Score=35.93 Aligned_cols=46 Identities=9% Similarity=0.068 Sum_probs=39.8
Q ss_pred CCHHHHHHHHHHHHhC-CCCCHHHHHHHHHHhCCCcchhhhccchhc
Q 006754 506 MPPNAVEKLRQVFAEN-ELPSRIVKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~-~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
=...|+..|-+.|.++ .-.+..+|.++|.+||+....|..||++.=
T Consensus 58 na~~sf~lli~a~~Et~~~Lp~~qk~~ia~~lgI~~~~~~~d~~t~~ 104 (213)
T PHA02955 58 DEEKNFQLLIEALIETIENFPEKEQKEIAADIGINIDDYKAGKKTDL 104 (213)
T ss_pred CHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCChhhccCcccchh
Confidence 3567888888899888 778889999999999999988999999853
No 99
>TIGR03879 near_KaiC_dom probable regulatory domain. This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation.
Probab=41.21 E-value=9.1 Score=33.05 Aligned_cols=37 Identities=14% Similarity=0.131 Sum_probs=28.2
Q ss_pred HHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhc
Q 006754 515 RQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 515 e~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
+..|....|-..-...+||+.||+++..|+.|+.+..
T Consensus 21 r~af~L~R~~eGlS~kEIAe~LGIS~~TVk~~l~~~~ 57 (73)
T TIGR03879 21 EAAAALAREEAGKTASEIAEELGRTEQTVRNHLKGET 57 (73)
T ss_pred HHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHhcCc
Confidence 4445555555666778999999999999999988643
No 100
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=41.01 E-value=9.4 Score=40.57 Aligned_cols=60 Identities=22% Similarity=0.504 Sum_probs=36.0
Q ss_pred ccccccccccccCCCCC-CCC-eE---EeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHhhh
Q 006754 235 HHEHIICAKCKLREAFP-DND-IV---LCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEIIES 301 (632)
Q Consensus 235 ~~e~~~C~vC~~~~~~~-~g~-lL---lCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~~~ 301 (632)
..++.+|.+|+..-... +.+ +| .== .|+..||-.|...--- +-. .=.||.|..+.+...+
T Consensus 221 hl~d~vCaVCg~~~~~s~~eegvienty~L-sCnHvFHEfCIrGWci---vGK---kqtCPYCKekVdl~rm 285 (328)
T KOG1734|consen 221 HLSDSVCAVCGQQIDVSVDEEGVIENTYKL-SCNHVFHEFCIRGWCI---VGK---KQTCPYCKEKVDLKRM 285 (328)
T ss_pred CCCcchhHhhcchheeecchhhhhhhheee-ecccchHHHhhhhhee---ecC---CCCCchHHHHhhHhhh
Confidence 35678999999852110 000 11 111 5999999999875422 111 1479999988875544
No 101
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=39.71 E-value=7 Score=49.07 Aligned_cols=56 Identities=14% Similarity=0.019 Sum_probs=49.5
Q ss_pred CCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 501 RSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 501 R~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
-.+++++..|+..|..+|....||.-...+.||+-||+-.+.+..||++++.++.+
T Consensus 446 ~~s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq 501 (1406)
T KOG1146|consen 446 LESKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQ 501 (1406)
T ss_pred hhhhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhcc
Confidence 35778899999999999999999999999999999999999999999996664333
No 102
>cd01392 HTH_LacI Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators. HTH-DNA binding domain of the LacI (lactose operon repressor) family of bacterial transcriptional regulators and their putative homologs found in plants. The LacI family has more than 500 members distributed among almost all bacterial species. The monomeric proteins of the LacI family contain common structural features that include a small DNA-binding domain with a helix-turn-helix motif in the N-terminus, a regulatory ligand-binding domain which exhibits the type I periplasmic binding protein fold in the C-terminus for oligomerization and for effector binding, and an approximately 18-amino acid linker connecting these two functional domains. In LacI-like transcriptional regulators, the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. When the C-terminal domain of the LacI family repre
Probab=39.17 E-value=12 Score=28.67 Aligned_cols=21 Identities=5% Similarity=0.234 Sum_probs=19.7
Q ss_pred HHHHHhCCCcchhhhccchhc
Q 006754 531 NLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 531 ~LA~~lgLt~~qV~iWFqNrR 551 (632)
+||+.+|++...|..|+.|.+
T Consensus 2 ~lA~~~gvs~~tvs~~l~g~~ 22 (52)
T cd01392 2 DIARAAGVSVATVSRVLNGKP 22 (52)
T ss_pred cHHHHHCcCHHHHHHHHcCCC
Confidence 699999999999999999985
No 103
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=38.91 E-value=25 Score=31.33 Aligned_cols=46 Identities=22% Similarity=0.281 Sum_probs=34.8
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.|.+.|...|-. .| .-.+||+.+|+++..|..|.+.-+.+.+
T Consensus 110 ~L~~~~~~ii~~~~~~-g~----s~~eIA~~l~~s~~~v~~~~~~~~~kl~ 155 (158)
T TIGR02937 110 KLPEREREVLVLRYLE-GL----SYKEIAEILGISVGTVKRRLKRARKKLR 155 (158)
T ss_pred hCCHHHHHHHhhHHhc-CC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 4678888887766542 23 4559999999999999999988777443
No 104
>PRK04217 hypothetical protein; Provisional
Probab=38.71 E-value=35 Score=31.62 Aligned_cols=49 Identities=22% Similarity=0.131 Sum_probs=38.5
Q ss_pred CCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 503 FHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 503 r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
-..++.+|.++|...|.+.- .-.+||+.||++...|...+...|.+.+.
T Consensus 40 ~~~Lt~eereai~l~~~eGl-----S~~EIAk~LGIS~sTV~r~L~RArkkLre 88 (110)
T PRK04217 40 PIFMTYEEFEALRLVDYEGL-----TQEEAGKRMGVSRGTVWRALTSARKKVAQ 88 (110)
T ss_pred cccCCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 44679999988877765433 66789999999999999999888774433
No 105
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=38.29 E-value=27 Score=32.29 Aligned_cols=46 Identities=9% Similarity=-0.033 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.+.+.+...|-+. ..-.+||+.||+++..|+.|....|.+.+
T Consensus 106 ~L~~~~r~ii~l~~~~~-----~s~~EIA~~l~is~~tV~~~~~ra~~~Lr 151 (154)
T PRK06759 106 VLDEKEKYIIFERFFVG-----KTMGEIALETEMTYYQVRWIYRQALEKMR 151 (154)
T ss_pred hCCHHHHHHHHHHHhcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence 46888888887665432 34678999999999999999887777443
No 106
>PF01381 HTH_3: Helix-turn-helix; InterPro: IPR001387 This is large family of DNA binding helix-turn helix proteins that include a bacterial plasmid copy control protein, bacterial methylases, various bacteriophage transcription control proteins and a vegetative specific protein from Dictyostelium discoideum (Slime mould).; GO: 0043565 sequence-specific DNA binding; PDB: 2AXU_A 2AWI_D 2AXV_D 2AXZ_C 2AW6_A 3KXA_C 3BS3_A 2CRO_A 1ZUG_A 3CRO_R ....
Probab=37.63 E-value=17 Score=28.11 Aligned_cols=25 Identities=12% Similarity=0.295 Sum_probs=20.8
Q ss_pred HHHHHHHHhCCCcchhhhccchhcc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...+||+.+|+++..|..|+.+.+.
T Consensus 11 s~~~la~~~gis~~~i~~~~~g~~~ 35 (55)
T PF01381_consen 11 SQKELAEKLGISRSTISRIENGKRN 35 (55)
T ss_dssp -HHHHHHHHTS-HHHHHHHHTTSST
T ss_pred CHHHHHHHhCCCcchhHHHhcCCCC
Confidence 3588999999999999999999764
No 107
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=35.55 E-value=20 Score=27.39 Aligned_cols=25 Identities=4% Similarity=-0.039 Sum_probs=22.1
Q ss_pred HHHHHHHHhCCCcchhhhccchhcc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...+||..+|++...|..|+..++.
T Consensus 17 tq~~lA~~~gvs~~~vs~~e~g~~~ 41 (58)
T TIGR03070 17 TQADLADLAGVGLRFIRDVENGKPT 41 (58)
T ss_pred CHHHHHHHhCCCHHHHHHHHCCCCC
Confidence 3689999999999999999988764
No 108
>COG1773 Rubredoxin [Energy production and conversion]
Probab=34.75 E-value=30 Score=28.45 Aligned_cols=19 Identities=26% Similarity=0.733 Sum_probs=13.5
Q ss_pred CCCCCCCccccCcCcchhhHhh
Q 006754 279 SIPPGDQGWFCKFCECKMEIIE 300 (632)
Q Consensus 279 ~iP~gd~~W~C~~C~~k~~~~~ 300 (632)
.||+. |.||.|-.....+.
T Consensus 32 dlPd~---w~CP~Cg~~K~~F~ 50 (55)
T COG1773 32 DLPDD---WVCPECGVGKKDFE 50 (55)
T ss_pred hCCCc---cCCCCCCCCHhHee
Confidence 68864 99999987554433
No 109
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=34.30 E-value=39 Score=38.71 Aligned_cols=27 Identities=19% Similarity=0.021 Sum_probs=17.0
Q ss_pred CCCCccccCCccCCCCCCCCCCCCCcc
Q 006754 327 PDGCSALLNQEEEWPSDDSEDDDYNPE 353 (632)
Q Consensus 327 ~dg~~~~~~~~~~~psdd~eded~dp~ 353 (632)
..+.|.+.=+.-.|.+.+.+..|..|.
T Consensus 81 ~~~~~~l~C~~C~Wss~~igi~Fdkpt 107 (483)
T PF05502_consen 81 GGKPYYLSCSYCRWSSRDIGIKFDKPT 107 (483)
T ss_pred CCCCEEEECCCceeeccccCccccCch
Confidence 344554443455788888887766665
No 110
>KOG2932 consensus E3 ubiquitin ligase involved in ubiquitination of E-cadherin complex [Posttranslational modification, protein turnover, chaperones]
Probab=33.92 E-value=25 Score=38.13 Aligned_cols=49 Identities=24% Similarity=0.607 Sum_probs=34.3
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhhHhhh
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKMEIIES 301 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~~~~~ 301 (632)
.-||..|...... =|.||-|+ |.+||.=... +.+ -.|+.|..+..-++.
T Consensus 90 VHfCd~Cd~PI~I-YGRmIPCk-------HvFCl~CAr~-----~~d--K~Cp~C~d~VqrIeq 138 (389)
T KOG2932|consen 90 VHFCDRCDFPIAI-YGRMIPCK-------HVFCLECARS-----DSD--KICPLCDDRVQRIEQ 138 (389)
T ss_pred eEeecccCCccee-eecccccc-------hhhhhhhhhc-----Ccc--ccCcCcccHHHHHHH
Confidence 4689999886432 38889888 8888885533 223 689999888765544
No 111
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=33.63 E-value=34 Score=40.65 Aligned_cols=50 Identities=22% Similarity=0.693 Sum_probs=34.0
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccc-cccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAF-HQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~raf-H~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
.+|..|+... .....+|. .|.... |..|....- .+|.+. =||+.|-.+..
T Consensus 2 ~~Cp~Cg~~n---~~~akFC~-~CG~~l~~~~Cp~CG~---~~~~~~--~fC~~CG~~~~ 52 (645)
T PRK14559 2 LICPQCQFEN---PNNNRFCQ-KCGTSLTHKPCPQCGT---EVPVDE--AHCPNCGAETG 52 (645)
T ss_pred CcCCCCCCcC---CCCCcccc-ccCCCCCCCcCCCCCC---CCCccc--ccccccCCccc
Confidence 4688888763 35566888 587664 356766553 467776 79999977654
No 112
>PF13518 HTH_28: Helix-turn-helix domain
Probab=33.57 E-value=20 Score=27.32 Aligned_cols=25 Identities=20% Similarity=0.492 Sum_probs=21.2
Q ss_pred HHHHHHHHhCCCcchhhhccchhcc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...++|+++||+..+|..|.+.-+.
T Consensus 14 s~~~~a~~~gis~~tv~~w~~~y~~ 38 (52)
T PF13518_consen 14 SVREIAREFGISRSTVYRWIKRYRE 38 (52)
T ss_pred CHHHHHHHHCCCHhHHHHHHHHHHh
Confidence 4566999999999999999876554
No 113
>PF00130 C1_1: Phorbol esters/diacylglycerol binding domain (C1 domain); InterPro: IPR002219 Diacylglycerol (DAG) is an important second messenger. Phorbol esters (PE) are analogues of DAG and potent tumour promoters that cause a variety of physiological changes when administered to both cells and tissues. DAG activates a family of serine/threonine protein kinases, collectively known as protein kinase C (PKC) []. Phorbol esters can directly stimulate PKC. The N-terminal region of PKC, known as C1, has been shown [] to bind PE and DAG in a phospholipid and zinc-dependent fashion. The C1 region contains one or two copies (depending on the isozyme of PKC) of a cysteine-rich domain, which is about 50 amino-acid residues long, and which is essential for DAG/PE-binding. The DAG/PE-binding domain binds two zinc ions; the ligands of these metal ions are probably the six cysteines and two histidines that are conserved in this domain.; GO: 0035556 intracellular signal transduction; PDB: 1RFH_A 2FNF_X 3PFQ_A 1PTQ_A 1PTR_A 2VRW_B 1XA6_A 2ENN_A 1TBN_A 1TBO_A ....
Probab=33.20 E-value=38 Score=26.31 Aligned_cols=33 Identities=24% Similarity=0.389 Sum_probs=24.6
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccC
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLD 272 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~ 272 (632)
.+|.+|+..-......-+.|. .|...+|..|+.
T Consensus 12 ~~C~~C~~~i~g~~~~g~~C~-~C~~~~H~~C~~ 44 (53)
T PF00130_consen 12 TYCDVCGKFIWGLGKQGYRCS-WCGLVCHKKCLS 44 (53)
T ss_dssp EB-TTSSSBECSSSSCEEEET-TTT-EEETTGGC
T ss_pred CCCcccCcccCCCCCCeEEEC-CCCChHhhhhhh
Confidence 689999986422346788999 599999999998
No 114
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=32.66 E-value=34 Score=32.69 Aligned_cols=47 Identities=9% Similarity=0.302 Sum_probs=35.0
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.+++.+.+.|...|-+. ..-.+||+.||+++..|++++...|.+.++
T Consensus 129 ~L~~~~r~i~~l~~~~g-----~s~~eIA~~lgis~~tV~~~l~Rar~~Lr~ 175 (179)
T PRK12514 129 ELEKDRAAAVRRAYLEG-----LSYKELAERHDVPLNTMRTWLRRSLLKLRE 175 (179)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCChHHHHHHHHHHHHHHHH
Confidence 46778877777666322 235789999999999999999888874443
No 115
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=32.54 E-value=42 Score=32.79 Aligned_cols=47 Identities=6% Similarity=0.128 Sum_probs=35.8
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.|++.+.+.|.-.|-.+ ..-.+||+.||++...|+++....|.+.++
T Consensus 142 ~L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~~Lr~ 188 (194)
T PRK09646 142 ALTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLIRLRD 188 (194)
T ss_pred hCCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHHHHHH
Confidence 46888888887665333 345789999999999999999887774443
No 116
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=31.93 E-value=37 Score=31.90 Aligned_cols=47 Identities=13% Similarity=0.058 Sum_probs=35.4
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.+++.+.+.|.-.|-. ...-.+||+.||+++..|..|....+.+.++
T Consensus 128 ~L~~~~r~vl~l~~~~-----~~s~~eIA~~lgis~~tV~~~l~ra~~~Lr~ 174 (182)
T PRK09652 128 SLPEELRTAITLREIE-----GLSYEEIAEIMGCPIGTVRSRIFRAREALRA 174 (182)
T ss_pred hCCHHHHHHHHHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 4788888888776532 2234589999999999999999877664443
No 117
>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=30.92 E-value=42 Score=27.16 Aligned_cols=36 Identities=14% Similarity=0.240 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccc
Q 006754 509 NAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFK 548 (632)
Q Consensus 509 ~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFq 548 (632)
.|++.|+-.|. ++..+.. +||+.||+++..|+.-..
T Consensus 6 rq~~Ll~~L~~-~~~~~~~---ela~~l~~S~rti~~~i~ 41 (59)
T PF08280_consen 6 RQLKLLELLLK-NKWITLK---ELAKKLNISERTIKNDIN 41 (59)
T ss_dssp HHHHHHHHHHH-HTSBBHH---HHHHHCTS-HHHHHHHHH
T ss_pred HHHHHHHHHHc-CCCCcHH---HHHHHHCCCHHHHHHHHH
Confidence 47778888888 7666655 899999999999886443
No 118
>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=30.83 E-value=23 Score=26.57 Aligned_cols=21 Identities=14% Similarity=0.202 Sum_probs=17.9
Q ss_pred HHHHHHHhCCCcchhhhccch
Q 006754 529 KENLSKELSLEPEKVNKWFKN 549 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqN 549 (632)
-.++|+.||+++..|..|.++
T Consensus 3 ~~e~a~~~gv~~~tlr~~~~~ 23 (49)
T cd04761 3 IGELAKLTGVSPSTLRYYERI 23 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHC
Confidence 357999999999999999644
No 119
>PHA02929 N1R/p28-like protein; Provisional
Probab=30.73 E-value=21 Score=37.36 Aligned_cols=49 Identities=22% Similarity=0.362 Sum_probs=31.5
Q ss_pred cccccccccCCCCCCC---C-eEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 238 HIICAKCKLREAFPDN---D-IVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g---~-lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
+..|++|...-..+.. . .++. .|...||..|+.+.+. .. =.||.|+...
T Consensus 174 ~~eC~ICle~~~~~~~~~~~~~vl~--~C~H~FC~~CI~~Wl~--~~------~tCPlCR~~~ 226 (238)
T PHA02929 174 DKECAICMEKVYDKEIKNMYFGILS--NCNHVFCIECIDIWKK--EK------NTCPVCRTPF 226 (238)
T ss_pred CCCCccCCcccccCccccccceecC--CCCCcccHHHHHHHHh--cC------CCCCCCCCEe
Confidence 4679999875221111 1 2333 3999999999998664 11 2699998654
No 120
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=30.70 E-value=62 Score=29.84 Aligned_cols=43 Identities=12% Similarity=0.124 Sum_probs=28.6
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchh
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNA 550 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNr 550 (632)
.+||.+.....-.....+.+ .-.+||+++||++.+|..|.+--
T Consensus 11 r~ys~EfK~~aV~~~~~~g~----sv~evA~e~gIs~~tl~~W~r~y 53 (121)
T PRK09413 11 RRRTTQEKIAIVQQSFEPGM----TVSLVARQHGVAASQLFLWRKQY 53 (121)
T ss_pred CCCCHHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHHHHHHHH
Confidence 34677775533333333433 34578999999999999995543
No 121
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=30.50 E-value=39 Score=31.67 Aligned_cols=48 Identities=17% Similarity=0.241 Sum_probs=35.7
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHh
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKA 557 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~ 557 (632)
.+++.+.+.|...|-. ...-.+||+.||+++..|..|..-.|.+.++.
T Consensus 125 ~L~~~~r~i~~l~~~~-----~~~~~eIA~~lgis~~tv~~~~~ra~~~lr~~ 172 (179)
T PRK11924 125 ALPVKQREVFLLRYVE-----GLSYREIAEILGVPVGTVKSRLRRARQLLREC 172 (179)
T ss_pred hCCHHHHHHhhHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 3677777777666533 23348999999999999999998888855443
No 122
>PF07649 C1_3: C1-like domain; InterPro: IPR011424 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in IPR002219 from INTERPRO. C1 domains are protein kinase C-like zinc finger structures. Diacylglycerol (DAG) kinases (DGKs) have a two or three commonly conserved cysteine-rich C1 domains []. DGKs modulate the balance between the two signaling lipids, DAG and phosphatidic acid (PA), by phosphorylating DAG to yield PA []. The PKD (protein kinase D) family are novel DAG receptors. They have twin C1 domains, designated C1a and C1b, which bind DAG or phorbol esters. Individual C1 domains differ in ligand-binding activity and selectivity []. ; GO: 0047134 protein-disulfide reductase activity, 0055114 oxidation-reduction process; PDB: 1V5N_A.
Probab=30.46 E-value=23 Score=24.92 Aligned_cols=29 Identities=21% Similarity=0.593 Sum_probs=11.7
Q ss_pred cccccccCCCCCCCCeEEeCCCCCcccccccc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCL 271 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL 271 (632)
.|.+|+.... .+.+-.|. .|+-..|..|.
T Consensus 2 ~C~~C~~~~~--~~~~Y~C~-~Cdf~lH~~Ca 30 (30)
T PF07649_consen 2 RCDACGKPID--GGWFYRCS-ECDFDLHEECA 30 (30)
T ss_dssp --TTTS------S--EEE-T-TT-----HHHH
T ss_pred cCCcCCCcCC--CCceEECc-cCCCccChhcC
Confidence 4888988742 13678899 69999999883
No 123
>smart00744 RINGv The RING-variant domain is a C4HC3 zinc-finger like motif found in a number of cellular and viral proteins. Some of these proteins have been shown both in vivo and in vitro to have ubiquitin E3 ligase activity. The RING-variant domain is reminiscent of both the RING and the PHD domains and may represent an evolutionary intermediate. To describe this domain the term PHD/LAP domain has been used in the past. Extended description: The RING-variant (RINGv) domain contains a C4HC3 zinc-finger-like motif similar to the PHD domain, while some of the spacing between the Cys/His residues follow a pattern somewhat closer to that found in the RING domain. The RINGv domain, similar to the RING, PHD and LIM domains, is thought to bind two zinc ions co-ordinated by the highly conserved Cys and His residues. RING variant domain: C-x (2) -C-x(10-45)-C-x (1) -C-x (7) -H-x(2)-C-x(11-25)-C-x(2)-C As opposed to a PHD: C-x(1-2) -C-x (7-13)-C-x(2-4)-C-x(4-5)-H-x(2)-C-x(10-21)-C-x(2)-C Class
Probab=30.31 E-value=12 Score=29.58 Aligned_cols=44 Identities=30% Similarity=0.708 Sum_probs=26.3
Q ss_pred cccccccCCCCCCCCeEE-eCCCCC---ccccccccCCCCCCCCCCCCCCccccCcC
Q 006754 240 ICAKCKLREAFPDNDIVL-CDGTCN---CAFHQKCLDPPLDTESIPPGDQGWFCKFC 292 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLl-CDG~C~---rafH~~CL~PPL~~~~iP~gd~~W~C~~C 292 (632)
+|.+|.... .+++.++. |. |. ..+|..||..-+.. - +. ..|+.|
T Consensus 1 ~CrIC~~~~-~~~~~l~~PC~--C~G~~~~vH~~Cl~~W~~~--~--~~--~~C~iC 48 (49)
T smart00744 1 ICRICHDEG-DEGDPLVSPCR--CKGSLKYVHQECLERWINE--S--GN--KTCEIC 48 (49)
T ss_pred CccCCCCCC-CCCCeeEeccc--cCCchhHHHHHHHHHHHHH--c--CC--CcCCCC
Confidence 477787622 22344433 44 55 57999999987652 1 22 478877
No 124
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=29.89 E-value=21 Score=31.64 Aligned_cols=49 Identities=29% Similarity=0.565 Sum_probs=31.1
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
+.|..|+.+-. ++++-..-=|.|+.+||..|..--|.+ . =.||.|...-
T Consensus 32 ~~C~eCq~~~~-~~~eC~v~wG~CnHaFH~HCI~rWL~T-----k---~~CPld~q~w 80 (88)
T COG5194 32 GTCPECQFGMT-PGDECPVVWGVCNHAFHDHCIYRWLDT-----K---GVCPLDRQTW 80 (88)
T ss_pred CcCcccccCCC-CCCcceEEEEecchHHHHHHHHHHHhh-----C---CCCCCCCcee
Confidence 45777776432 234332223479999999999987763 1 2588876543
No 125
>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=29.75 E-value=22 Score=25.71 Aligned_cols=24 Identities=21% Similarity=0.754 Sum_probs=12.6
Q ss_pred cccccccCCCCCCCCeEEeCCCCCc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNC 264 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~r 264 (632)
.|..|+......++.++.|. .|..
T Consensus 4 ~Cp~C~se~~y~D~~~~vCp-~C~~ 27 (30)
T PF08274_consen 4 KCPLCGSEYTYEDGELLVCP-ECGH 27 (30)
T ss_dssp --TTT-----EE-SSSEEET-TTTE
T ss_pred CCCCCCCcceeccCCEEeCC-cccc
Confidence 58888887766778888898 6853
No 126
>PRK00118 putative DNA-binding protein; Validated
Probab=29.41 E-value=47 Score=30.52 Aligned_cols=44 Identities=9% Similarity=0.169 Sum_probs=33.8
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHH
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLA 554 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~ 554 (632)
+++.|.+.+.-.|.. ...-.+||+.+|+++..|..|....|.+.
T Consensus 18 L~ekqRevl~L~y~e-----g~S~~EIAe~lGIS~~TV~r~L~RArkkL 61 (104)
T PRK00118 18 LTEKQRNYMELYYLD-----DYSLGEIAEEFNVSRQAVYDNIKRTEKLL 61 (104)
T ss_pred CCHHHHHHHHHHHHc-----CCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 577788877666554 23446799999999999999998877743
No 127
>PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B.
Probab=29.41 E-value=22 Score=27.54 Aligned_cols=42 Identities=14% Similarity=0.263 Sum_probs=28.7
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
+++.+...+.-.|- ..-.-.++|+.+|+++..|+.|....|.
T Consensus 11 L~~~~r~i~~l~~~-----~g~s~~eIa~~l~~s~~~v~~~l~ra~~ 52 (54)
T PF08281_consen 11 LPERQREIFLLRYF-----QGMSYAEIAEILGISESTVKRRLRRARK 52 (54)
T ss_dssp S-HHHHHHHHHHHT-----S---HHHHHHHCTS-HHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH-----HCcCHHHHHHHHCcCHHHHHHHHHHHHh
Confidence 46666666665543 3445689999999999999999987765
No 128
>KOG1080 consensus Histone H3 (Lys4) methyltransferase complex, subunit SET1 and related methyltransferases [Chromatin structure and dynamics; Transcription]
Probab=29.35 E-value=47 Score=41.42 Aligned_cols=51 Identities=29% Similarity=0.726 Sum_probs=39.3
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
-.-|.+|..-.....+.++.|| .|....|..|+++. ..+.+ ..|.|..|..
T Consensus 573 t~~c~~~~~~~~~~~n~~~~~~-~~~~~~~s~~~g~~----~~~~~-~~~~~~~~~~ 623 (1005)
T KOG1080|consen 573 TERCAVCRDDEDWEKNVSIICD-RCTRSVHSECYGNL----KSYDG-TSWVCDSCET 623 (1005)
T ss_pred cccccccccccccccceeeeec-cccccCCCcccccC----CCCCC-Ccchhhcccc
Confidence 3679999987655567799999 69999999999964 22222 2499999987
No 129
>cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental
Probab=29.01 E-value=53 Score=24.77 Aligned_cols=39 Identities=18% Similarity=0.337 Sum_probs=28.3
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchh
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNA 550 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNr 550 (632)
+++.|.+.+.-.+ +. ..-.++|+.+|++...|..|...-
T Consensus 1 l~~~e~~i~~~~~--~~----~s~~eia~~l~~s~~tv~~~~~~~ 39 (57)
T cd06170 1 LTPREREVLRLLA--EG----KTNKEIADILGISEKTVKTHLRNI 39 (57)
T ss_pred CCHHHHHHHHHHH--cC----CCHHHHHHHHCCCHHHHHHHHHHH
Confidence 3566777665543 22 256889999999999999988643
No 130
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=28.97 E-value=26 Score=26.74 Aligned_cols=26 Identities=23% Similarity=0.445 Sum_probs=18.3
Q ss_pred HHHHHHHHHHhCCCcchhhhccchhc
Q 006754 526 RIVKENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 526 ~~~r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
.....++|+.||++...|..|.+.-+
T Consensus 17 G~s~~~ia~~lgvs~~Tv~~w~kr~~ 42 (50)
T PF13384_consen 17 GWSIREIAKRLGVSRSTVYRWIKRYR 42 (50)
T ss_dssp T--HHHHHHHHTS-HHHHHHHHT---
T ss_pred CCCHHHHHHHHCcCHHHHHHHHHHcc
Confidence 45678899999999999999976544
No 131
>KOG1844 consensus PHD Zn-finger proteins [General function prediction only]
Probab=28.97 E-value=32 Score=38.93 Aligned_cols=49 Identities=22% Similarity=0.543 Sum_probs=36.6
Q ss_pred cccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 242 AKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 242 ~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
+.|+..+. .++.|+.|+ .|.++-|.+|+...-.. .|+. ..|..|..+..
T Consensus 89 c~c~~~~~-~~g~~i~c~-~c~~Wqh~~C~g~~~~~--~p~~---y~c~~c~~~~~ 137 (508)
T KOG1844|consen 89 CDCGLEDD-MEGLMIQCD-WCGRWQHKICCGSFKST--KPDK---YVCEICTPRNK 137 (508)
T ss_pred cccccccC-CCceeeCCc-ccCcccCceeeeecCCC--Cchh---ceeeeeccccc
Confidence 35666542 168899999 69999999999987653 3543 67999988664
No 132
>PRK12512 RNA polymerase sigma factor; Provisional
Probab=28.89 E-value=50 Score=31.69 Aligned_cols=48 Identities=13% Similarity=0.160 Sum_probs=36.5
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHh
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKA 557 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~ 557 (632)
.+++.+.+.|.-.|-. ...-.+||+.||++...|..++...|.+.++.
T Consensus 131 ~L~~~~r~v~~l~~~~-----g~s~~eIA~~l~is~~tV~~~l~ra~~~Lr~~ 178 (184)
T PRK12512 131 TLPPRQRDVVQSISVE-----GASIKETAAKLSMSEGAVRVALHRGLAALAAK 178 (184)
T ss_pred hCCHHHHHHHHHHHHc-----CCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 3577788888776533 23447899999999999999999888855443
No 133
>PF10080 DUF2318: Predicted membrane protein (DUF2318); InterPro: IPR018758 This domain of unknown function is found in hypothetical bacterial membrane proteins with no known function.
Probab=28.89 E-value=28 Score=31.92 Aligned_cols=42 Identities=21% Similarity=0.558 Sum_probs=31.9
Q ss_pred CCCCcccccccccccccCCCCCCCCeEEeCCCCCccccccccC
Q 006754 230 TDGSVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLD 272 (632)
Q Consensus 230 ~dg~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~ 272 (632)
.+|..-..-+.|.+|+.......++.|.|- .|+..|+..=++
T Consensus 27 ~dg~~~va~daCeiC~~~GY~q~g~~lvC~-~C~~~~~~~~ig 68 (102)
T PF10080_consen 27 PDGSYRVAFDACEICGPKGYYQEGDQLVCK-NCGVRFNLPTIG 68 (102)
T ss_pred CCCCEEEEEEeccccCCCceEEECCEEEEe-cCCCEEehhhcc
Confidence 456666667899999886665678888999 699988875444
No 134
>PHA01976 helix-turn-helix protein
Probab=28.60 E-value=27 Score=28.18 Aligned_cols=25 Identities=12% Similarity=0.198 Sum_probs=21.7
Q ss_pred HHHHHHHHhCCCcchhhhccchhcc
Q 006754 528 VKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...+||+.+|++...|..|....+.
T Consensus 17 t~~~lA~~~gvs~~~v~~~e~g~~~ 41 (67)
T PHA01976 17 SAPELSRRAGVRHSLIYDFEADKRL 41 (67)
T ss_pred CHHHHHHHhCCCHHHHHHHHcCCCC
Confidence 4678999999999999999987763
No 135
>PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after []. Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly
Probab=28.55 E-value=29 Score=28.51 Aligned_cols=21 Identities=19% Similarity=0.419 Sum_probs=18.3
Q ss_pred HHHHHHHHhCCCcchhhhccc
Q 006754 528 VKENLSKELSLEPEKVNKWFK 548 (632)
Q Consensus 528 ~r~~LA~~lgLt~~qV~iWFq 548 (632)
.-.+||+.|||+...|..|-+
T Consensus 15 ~~~eIA~~Lg~~~~TV~~W~~ 35 (58)
T PF06056_consen 15 SIKEIAEELGVPRSTVYSWKD 35 (58)
T ss_pred CHHHHHHHHCCChHHHHHHHH
Confidence 356899999999999999964
No 136
>KOG2930 consensus SCF ubiquitin ligase, Rbx1 component [Posttranslational modification, protein turnover, chaperones]
Probab=27.49 E-value=13 Score=34.21 Aligned_cols=47 Identities=26% Similarity=0.573 Sum_probs=27.0
Q ss_pred cccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
.|..|+...+...++-..-=|.|+.+||+.|..--|.+ . =.||.|..
T Consensus 59 ~CieCQa~~~~~~~EC~VaWG~CNHaFH~hCisrWlkt-----r---~vCPLdn~ 105 (114)
T KOG2930|consen 59 LCIECQANQSATSEECTVAWGVCNHAFHFHCISRWLKT-----R---NVCPLDNK 105 (114)
T ss_pred HHHhhccCCCCCCCceEEEeeecchHHHHHHHHHHHhh-----c---CcCCCcCc
Confidence 45555554322223322222369999999999877663 1 25777643
No 137
>PRK06811 RNA polymerase factor sigma-70; Validated
Probab=27.45 E-value=56 Score=31.72 Aligned_cols=49 Identities=14% Similarity=0.154 Sum_probs=37.0
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
.+++.+...|.-.|-+. ..-.+||+.||++...|++..+-.|.+.+++.
T Consensus 131 ~L~~~~r~i~~l~~~~g-----~s~~EIAe~lgis~~~V~~~l~Ra~~~Lr~~~ 179 (189)
T PRK06811 131 DLEKLDREIFIRRYLLG-----EKIEEIAKKLGLTRSAIDNRLSRGRKKLQKNK 179 (189)
T ss_pred hCCHHHHHHHHHHHHcc-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence 57888888888655332 33478999999999999998887777555554
No 138
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.30 E-value=20 Score=38.07 Aligned_cols=53 Identities=21% Similarity=0.434 Sum_probs=37.7
Q ss_pred CcccccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchhh
Q 006754 233 SVHHEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKME 297 (632)
Q Consensus 233 ~~~~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~~ 297 (632)
..+..+..|.+|-.. -....|- .|...|-+.|+...+.. .-+ =|||.|+.+..
T Consensus 210 fip~~d~kC~lC~e~-----~~~ps~t-~CgHlFC~~Cl~~~~t~-~k~-----~~CplCRak~~ 262 (271)
T COG5574 210 FIPLADYKCFLCLEE-----PEVPSCT-PCGHLFCLSCLLISWTK-KKY-----EFCPLCRAKVY 262 (271)
T ss_pred cccccccceeeeecc-----cCCcccc-cccchhhHHHHHHHHHh-hcc-----ccCchhhhhcc
Confidence 445556779999875 3445688 49999999999975542 111 38999998754
No 139
>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.21 E-value=31 Score=41.88 Aligned_cols=41 Identities=27% Similarity=0.542 Sum_probs=30.1
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcch
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECK 295 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k 295 (632)
..|..|... -+=.+|.= .|...||+.|+. ++. --||.|...
T Consensus 841 skCs~C~~~---LdlP~VhF--~CgHsyHqhC~e---------~~~--~~CP~C~~e 881 (933)
T KOG2114|consen 841 SKCSACEGT---LDLPFVHF--LCGHSYHQHCLE---------DKE--DKCPKCLPE 881 (933)
T ss_pred eeecccCCc---cccceeee--ecccHHHHHhhc---------cCc--ccCCccchh
Confidence 579999876 23455655 399999999998 122 469999884
No 140
>KOG1081 consensus Transcription factor NSD1 and related SET domain proteins [Transcription]
Probab=27.12 E-value=41 Score=38.38 Aligned_cols=46 Identities=24% Similarity=0.377 Sum_probs=32.2
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
.+...|.+|..+ +.+|+|+ .|..++|-.|..- ..|... |.|..|..
T Consensus 87 ~~~~~c~vc~~g-----gs~v~~~-s~~~~~~r~c~~~-----~~~~c~--~~~~d~~~ 132 (463)
T KOG1081|consen 87 IEPSECFVCFKG-----GSLVTCK-SRIQAPHRKCKPA-----QLEKCS--KRCTDCRA 132 (463)
T ss_pred CCcchhccccCC-----Cccceec-cccccccccCcCc-----cCcccc--cCCcceee
Confidence 344789999987 8889999 4777777777542 345554 77666654
No 141
>PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms. Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C ....
Probab=26.97 E-value=63 Score=24.71 Aligned_cols=39 Identities=13% Similarity=0.507 Sum_probs=29.0
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccc
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFK 548 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFq 548 (632)
.++++|++.+.+.+... + ...+||+.+|++...|..++.
T Consensus 5 ~~~~~~~~~i~~l~~~G-~----si~~IA~~~gvsr~TvyR~l~ 43 (45)
T PF02796_consen 5 KLSKEQIEEIKELYAEG-M----SIAEIAKQFGVSRSTVYRYLN 43 (45)
T ss_dssp SSSHCCHHHHHHHHHTT-------HHHHHHHTTS-HHHHHHHHC
T ss_pred CCCHHHHHHHHHHHHCC-C----CHHHHHHHHCcCHHHHHHHHh
Confidence 35787888888888766 4 477899999999999987653
No 142
>cd00093 HTH_XRE Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators.
Probab=26.90 E-value=35 Score=24.57 Aligned_cols=23 Identities=17% Similarity=0.375 Sum_probs=20.5
Q ss_pred HHHHHHHhCCCcchhhhccchhc
Q 006754 529 KENLSKELSLEPEKVNKWFKNAR 551 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqNrR 551 (632)
..+||..+|+++..|..|..+.+
T Consensus 15 ~~~~a~~~~~~~~~v~~~~~g~~ 37 (58)
T cd00093 15 QEELAEKLGVSRSTISRIENGKR 37 (58)
T ss_pred HHHHHHHHCCCHHHHHHHHcCCC
Confidence 45899999999999999998874
No 143
>PRK09648 RNA polymerase sigma factor SigD; Reviewed
Probab=26.60 E-value=60 Score=31.37 Aligned_cols=47 Identities=15% Similarity=0.068 Sum_probs=36.1
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
..+++.|.+.+...|-.. ..-.+||+.||++...|+.+....|.+.+
T Consensus 138 ~~L~~~~r~i~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr 184 (189)
T PRK09648 138 DTLPEKQREILILRVVVG-----LSAEETAEAVGSTPGAVRVAQHRALARLR 184 (189)
T ss_pred HhCCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 357888888888765542 34679999999999999998877666444
No 144
>KOG4215 consensus Hepatocyte nuclear factor 4 and similar steroid hormone receptors [Transcription]
Probab=26.45 E-value=31 Score=38.25 Aligned_cols=29 Identities=28% Similarity=0.557 Sum_probs=20.6
Q ss_pred ccccccccccCCCCCCCCeEEeCCCCCccc
Q 006754 237 EHIICAKCKLREAFPDNDIVLCDGTCNCAF 266 (632)
Q Consensus 237 e~~~C~vC~~~~~~~~g~lLlCDG~C~raf 266 (632)
...+|.+|+.......--.+.||| |.-.|
T Consensus 18 ~~~~CaICGDkaTGKHYGA~SCdG-CKGFF 46 (432)
T KOG4215|consen 18 VAEFCAICGDKATGKHYGAISCDG-CKGFF 46 (432)
T ss_pred ccchhheeCCcccccccceeecCc-chHHH
Confidence 457999999864333334889997 98654
No 145
>PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators. The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A ....
Probab=26.24 E-value=46 Score=26.42 Aligned_cols=43 Identities=14% Similarity=0.196 Sum_probs=34.1
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYL 553 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k 553 (632)
.||+.+++.|.-...-. .-.++|..||+++..|..+..|-+.|
T Consensus 3 ~LT~~E~~vl~~l~~G~------~~~eIA~~l~is~~tV~~~~~~i~~K 45 (58)
T PF00196_consen 3 SLTERELEVLRLLAQGM------SNKEIAEELGISEKTVKSHRRRIMKK 45 (58)
T ss_dssp SS-HHHHHHHHHHHTTS-------HHHHHHHHTSHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHhcC------CcchhHHhcCcchhhHHHHHHHHHHH
Confidence 57888988888777643 46789999999999999988887773
No 146
>TIGR00270 conserved hypothetical protein TIGR00270.
Probab=25.96 E-value=40 Score=32.93 Aligned_cols=26 Identities=15% Similarity=0.109 Sum_probs=23.2
Q ss_pred HHHHHHHHHhCCCcchhhhccchhcc
Q 006754 527 IVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 527 ~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
..+++||+.+|++...|..|..+.+.
T Consensus 83 lSqeeLA~~lgvs~s~IsriE~G~~~ 108 (154)
T TIGR00270 83 WSQEQLAKKIQEKESLIKKIENAEIE 108 (154)
T ss_pred CCHHHHHHHhCCCHHHHHHHHCCCCC
Confidence 34789999999999999999998876
No 147
>KOG1244 consensus Predicted transcription factor Requiem/NEURO-D4 [Transcription]
Probab=25.86 E-value=14 Score=39.37 Aligned_cols=60 Identities=18% Similarity=0.376 Sum_probs=40.6
Q ss_pred cccccccccccCCC-----CCCCCeEEeCCCCCccccccccCCCCC-CCCCCCCCCccccCcCcchhhH
Q 006754 236 HEHIICAKCKLREA-----FPDNDIVLCDGTCNCAFHQKCLDPPLD-TESIPPGDQGWFCKFCECKMEI 298 (632)
Q Consensus 236 ~e~~~C~vC~~~~~-----~~~g~lLlCDG~C~rafH~~CL~PPL~-~~~iP~gd~~W~C~~C~~k~~~ 298 (632)
....+|..|.+... .-+.+||.|. .|.+.=|..||.-... ...|-... |.|-.|....-|
T Consensus 222 ~Pn~YCDFclgdsr~nkkt~~peelvscs-dcgrsghpsclqft~nm~~avk~yr--wqcieck~csic 287 (336)
T KOG1244|consen 222 QPNPYCDFCLGDSRENKKTGMPEELVSCS-DCGRSGHPSCLQFTANMIAAVKTYR--WQCIECKYCSIC 287 (336)
T ss_pred cCCcccceeccccccccccCCchhhcchh-hcCCCCCcchhhhhHHHHHHHHhhe--eeeeecceeccc
Confidence 34568888876421 1246799999 5999999999985432 01233345 999999876644
No 148
>PRK09644 RNA polymerase sigma factor SigM; Provisional
Probab=24.93 E-value=80 Score=29.77 Aligned_cols=49 Identities=14% Similarity=0.087 Sum_probs=36.7
Q ss_pred CCCCHHHHHHHHHH-HHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHhh
Q 006754 504 HRMPPNAVEKLRQV-FAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKAR 558 (632)
Q Consensus 504 ~rft~~Q~~~Le~~-F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~~ 558 (632)
..+++.+.+.|.-. |..-+ -++||..||+++..|++|.+-.|.+.++.-
T Consensus 107 ~~L~~~~r~v~~l~~~~g~s------~~eIA~~lgis~~tv~~~l~Rar~~Lr~~l 156 (165)
T PRK09644 107 HTLPVIEAQAILLCDVHELT------YEEAASVLDLKLNTYKSHLFRGRKRLKALL 156 (165)
T ss_pred HhCCHHHHHHHHhHHHhcCC------HHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 34688888877754 34333 478999999999999999988888554443
No 149
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=24.92 E-value=64 Score=34.98 Aligned_cols=33 Identities=15% Similarity=0.419 Sum_probs=23.2
Q ss_pred cccccccccccCCC---------CCCCCeEEeCCCCCcccccc
Q 006754 236 HEHIICAKCKLREA---------FPDNDIVLCDGTCNCAFHQK 269 (632)
Q Consensus 236 ~e~~~C~vC~~~~~---------~~~g~lLlCDG~C~rafH~~ 269 (632)
+...+|.||+..-. ..+...+.|. .|...||+.
T Consensus 182 ~~~~~CPvCGs~P~~s~~~~~~~~~G~RyL~Cs-lC~teW~~~ 223 (305)
T TIGR01562 182 ESRTLCPACGSPPVASMVRQGGKETGLRYLSCS-LCATEWHYV 223 (305)
T ss_pred CCCCcCCCCCChhhhhhhcccCCCCCceEEEcC-CCCCccccc
Confidence 44569999998531 1234589999 699888763
No 150
>KOG1952 consensus Transcription factor NF-X1, contains NFX-type Zn2+-binding and R3H domains [Transcription]
Probab=24.83 E-value=16 Score=44.10 Aligned_cols=54 Identities=26% Similarity=0.639 Sum_probs=37.5
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
-..|.+|...-. ....|-.|- .|...||+.|..-.... .--.+...|-||.|..
T Consensus 191 ~yeCmIC~e~I~-~t~~~WSC~-sCYhVFHl~CI~~WArs-~ek~~~~~WrCP~Cqs 244 (950)
T KOG1952|consen 191 KYECMICTERIK-RTAPVWSCK-SCYHVFHLNCIKKWARS-SEKTGQDGWRCPACQS 244 (950)
T ss_pred ceEEEEeeeecc-ccCCceecc-hhhhhhhHHHHHHHHHH-hhhccCccccCCcccc
Confidence 366999987532 236688899 69999999998755432 1112334699999984
No 151
>TIGR02948 SigW_bacill RNA polymerase sigma-W factor. This sigma factor is restricted to certain lineages of the order Bacillales.
Probab=24.73 E-value=53 Score=31.31 Aligned_cols=47 Identities=19% Similarity=0.229 Sum_probs=35.6
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.+++.+.+.|.-.|-+ ...-.++|+.||+++..|.++++..|.+.++
T Consensus 136 ~L~~~~r~v~~l~~~~-----g~s~~eIA~~lgis~~~v~~~l~Rar~~Lr~ 182 (187)
T TIGR02948 136 ALPPKYRMVIVLKYME-----DLSLKEISEILDLPVGTVKTRIHRGREALRK 182 (187)
T ss_pred hCCHHHhHHhhhHHhc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 4688888887774432 3445789999999999999999888774443
No 152
>TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1. This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium.
Probab=24.68 E-value=55 Score=29.95 Aligned_cols=46 Identities=11% Similarity=0.076 Sum_probs=33.1
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.+.+.|.-.|- ..+ .-.+||+.||+++..|+.+....|.+.+
T Consensus 113 ~L~~~~r~il~l~~~-~~~----~~~eIA~~lgis~~tv~~~~~ra~~~Lr 158 (161)
T TIGR02985 113 KLPEQCRKIFILSRF-EGK----SYKEIAEELGISVKTVEYHISKALKELR 158 (161)
T ss_pred HCCHHHHHHHHHHHH-cCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 357777777776553 233 3457999999999999998877776443
No 153
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=24.67 E-value=60 Score=39.05 Aligned_cols=56 Identities=14% Similarity=0.192 Sum_probs=43.1
Q ss_pred cccCCCCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhcc
Q 006754 497 AKIRRSFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 497 ~k~rR~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...-+-+.-...++-+.|..++.-+--|+..+---++.+|.+.+..|.+||++|+.
T Consensus 624 ~~p~kv~sp~k~~dq~ql~~a~elq~s~~n~~~pl~~t~~~n~~pv~ev~dhsrss 679 (1007)
T KOG3623|consen 624 ERPVKVRSPIKEEDQQQLKQAYELQASPSNDEFPLIATRLQNDPPVVEVWDHSRSS 679 (1007)
T ss_pred CCCccccCCCCccchhhhHhhhhcccCccCcccchhhhhccCCCcchhhcccCCCC
Confidence 33334445556777778888998887777777666777799999999999999998
No 154
>KOG4445 consensus Uncharacterized conserved protein, contains RWD domain [Function unknown]
Probab=24.62 E-value=50 Score=35.81 Aligned_cols=35 Identities=20% Similarity=0.367 Sum_probs=22.4
Q ss_pred cccccccccCCCCCCCCeEEeCCCCCccccccccCCCC
Q 006754 238 HIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPL 275 (632)
Q Consensus 238 ~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL 275 (632)
+..|.+|.-+- .+++-+.-- .|+..||++||.--|
T Consensus 115 ~gqCvICLygf--a~~~~ft~T-~C~Hy~H~~ClaRyl 149 (368)
T KOG4445|consen 115 NGQCVICLYGF--ASSPAFTVT-ACDHYMHFACLARYL 149 (368)
T ss_pred CCceEEEEEee--cCCCceeee-hhHHHHHHHHHHHHH
Confidence 45577776543 235534444 499999999997544
No 155
>PF13730 HTH_36: Helix-turn-helix domain
Probab=24.58 E-value=1.2e+02 Score=23.47 Aligned_cols=42 Identities=24% Similarity=0.335 Sum_probs=28.9
Q ss_pred CCCHHHHHHHHHHHHh---C--CCCCHHHHHHHHHHhCCCcchhhhccch
Q 006754 505 RMPPNAVEKLRQVFAE---N--ELPSRIVKENLSKELSLEPEKVNKWFKN 549 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~---~--~YPs~~~r~~LA~~lgLt~~qV~iWFqN 549 (632)
.+++.++..+-..+.. + -|| ....||..+|++.+.|+.+.+.
T Consensus 2 ~Ls~~~~~v~~~l~~~~~~~~~~~p---S~~~la~~~g~s~~Tv~~~i~~ 48 (55)
T PF13730_consen 2 NLSPTAKLVYLYLASYANKNGGCFP---SQETLAKDLGVSRRTVQRAIKE 48 (55)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCCCc---CHHHHHHHHCcCHHHHHHHHHH
Confidence 3566666554444432 2 455 4788999999999999987754
No 156
>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=24.55 E-value=21 Score=25.48 Aligned_cols=42 Identities=29% Similarity=0.609 Sum_probs=28.1
Q ss_pred ccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcc
Q 006754 241 CAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCEC 294 (632)
Q Consensus 241 C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~ 294 (632)
|.+|.... ...+... .|...||..|+...+. . +. ..||.|..
T Consensus 2 C~iC~~~~----~~~~~~~-~C~H~~c~~C~~~~~~--~---~~--~~Cp~C~~ 43 (45)
T cd00162 2 CPICLEEF----REPVVLL-PCGHVFCRSCIDKWLK--S---GK--NTCPLCRT 43 (45)
T ss_pred CCcCchhh----hCceEec-CCCChhcHHHHHHHHH--h---Cc--CCCCCCCC
Confidence 77787652 2334445 3888999999986654 1 23 67999864
No 157
>PRK09639 RNA polymerase sigma factor SigX; Provisional
Probab=23.81 E-value=81 Score=29.52 Aligned_cols=47 Identities=15% Similarity=0.155 Sum_probs=36.0
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
..+++.+...|.-.| ..+ .-.+||+.||+++..|+.+....|.+.++
T Consensus 111 ~~L~~~~r~il~l~~--~g~----s~~eIA~~lgis~~tV~~~i~ra~~~Lr~ 157 (166)
T PRK09639 111 AKMTERDRTVLLLRF--SGY----SYKEIAEALGIKESSVGTTLARAKKKFRK 157 (166)
T ss_pred HcCCHHHHHHHHHHH--cCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 346888888887777 444 34789999999999999999777775443
No 158
>COG4367 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.79 E-value=82 Score=28.45 Aligned_cols=42 Identities=17% Similarity=0.261 Sum_probs=34.4
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhcc
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWF 547 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWF 547 (632)
++++|.+.-.+.|+.|--...-..+++|..||.++-.|..=.
T Consensus 3 Ln~eq~~~Tk~elqan~el~~LS~~~iA~~Ln~t~~~lekil 44 (97)
T COG4367 3 LNPEQKQRTKQELQANFELCPLSDEEIATALNWTEVKLEKIL 44 (97)
T ss_pred CCHHHHHHHHHHHHHhhhhccccHHHHHHHhCCCHHHHHHHH
Confidence 578888888888888877778888999999999998776433
No 159
>PRK15369 two component system sensor kinase SsrB; Provisional
Probab=23.75 E-value=72 Score=29.49 Aligned_cols=43 Identities=16% Similarity=0.241 Sum_probs=34.7
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYL 553 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k 553 (632)
.+|+.+.+.|.- +.++ | ...++|+.|++++..|+.|.+|-|.|
T Consensus 149 ~lt~~e~~vl~l-~~~g-~----~~~~Ia~~l~~s~~tv~~~~~~~~~k 191 (211)
T PRK15369 149 LLTPRERQILKL-ITEG-Y----TNRDIAEQLSISIKTVETHRLNMMRK 191 (211)
T ss_pred CCCHHHHHHHHH-HHCC-C----CHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 479999988887 4433 3 36799999999999999999987773
No 160
>PRK06986 fliA flagellar biosynthesis sigma factor; Validated
Probab=23.73 E-value=72 Score=32.28 Aligned_cols=47 Identities=13% Similarity=0.154 Sum_probs=37.5
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.+++.+.+.|...|-.. ..-.+||+.||++...|+.+....|.+.++
T Consensus 184 ~L~~~~r~vl~l~~~~g-----~s~~EIA~~lgis~~tV~~~~~ra~~~Lr~ 230 (236)
T PRK06986 184 SLPEREQLVLSLYYQEE-----LNLKEIGAVLGVSESRVSQIHSQAIKRLRA 230 (236)
T ss_pred hCCHHHHHHHHhHhccC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 46888888888877432 356899999999999999999988885444
No 161
>PTZ00396 Casein kinase II subunit beta; Provisional
Probab=23.35 E-value=60 Score=34.29 Aligned_cols=34 Identities=12% Similarity=0.251 Sum_probs=17.6
Q ss_pred CCCccccccccCCCCCCCCCCCC-CCccccCcCcc
Q 006754 261 TCNCAFHQKCLDPPLDTESIPPG-DQGWFCKFCEC 294 (632)
Q Consensus 261 ~C~rafH~~CL~PPL~~~~iP~g-d~~W~C~~C~~ 294 (632)
.|||.+-..|...|+....+|.. .-.+|||.|..
T Consensus 122 ~CPRv~C~~q~~LPvGlSd~~g~~~VKlyCP~C~D 156 (251)
T PTZ00396 122 HCPRVLCEGQNVLPIGLSDVLKTSRVKVYCPRCQE 156 (251)
T ss_pred CCCCccCCCCcccccccCCCcCcCceeEeCCCchh
Confidence 45554433333333333355532 24689999954
No 162
>PRK12519 RNA polymerase sigma factor; Provisional
Probab=23.25 E-value=52 Score=31.84 Aligned_cols=46 Identities=11% Similarity=0.194 Sum_probs=33.5
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
+++.+...|.-.|- ....-.+||+.||++...|+.|+...|.+.++
T Consensus 142 L~~~~~~v~~l~~~-----~g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~ 187 (194)
T PRK12519 142 LPESQRQVLELAYY-----EGLSQSEIAKRLGIPLGTVKARARQGLLKLRE 187 (194)
T ss_pred CCHHHhhhhhhhhh-----cCCCHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 56666666665542 23345789999999999999999887775443
No 163
>TIGR02607 antidote_HigA addiction module antidote protein, HigA family. Members of this family form a distinct clade within the larger family HTH_3 of helix-turn-helix proteins, described by Pfam model pfam01381. Members of this clade are strictly bacterial and nearly always shorter than 110 amino acids. This family includes the characterized member HigA, without which the killer protein HigB cannot be cloned. The hig (host inhibition of growth) system is noted to be unusual in that killer protein is uncoded by the upstream member of the gene pair.
Probab=23.13 E-value=38 Score=28.00 Aligned_cols=24 Identities=17% Similarity=0.239 Sum_probs=21.5
Q ss_pred HHHHHHHhCCCcchhhhccchhcc
Q 006754 529 KENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
..+||+.+|++...|..|+.+++.
T Consensus 21 ~~~lA~~~gis~~tis~~~~g~~~ 44 (78)
T TIGR02607 21 IRALAKALGVSRSTLSRIVNGRRG 44 (78)
T ss_pred HHHHHHHhCCCHHHHHHHHcCCCC
Confidence 568999999999999999988764
No 164
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=23.08 E-value=77 Score=34.45 Aligned_cols=33 Identities=15% Similarity=0.435 Sum_probs=23.1
Q ss_pred cccccccccccCCC--------CCCCCeEEeCCCCCcccccc
Q 006754 236 HEHIICAKCKLREA--------FPDNDIVLCDGTCNCAFHQK 269 (632)
Q Consensus 236 ~e~~~C~vC~~~~~--------~~~g~lLlCDG~C~rafH~~ 269 (632)
+...+|.||+..-. ..+...+.|. .|...||+.
T Consensus 185 ~~~~~CPvCGs~P~~s~v~~~~~~G~RyL~Cs-lC~teW~~~ 225 (309)
T PRK03564 185 EQRQFCPVCGSMPVSSVVQIGTTQGLRYLHCN-LCESEWHVV 225 (309)
T ss_pred cCCCCCCCCCCcchhheeeccCCCCceEEEcC-CCCCccccc
Confidence 35689999998621 1234688898 698888763
No 165
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=22.99 E-value=40 Score=27.27 Aligned_cols=18 Identities=17% Similarity=0.370 Sum_probs=16.3
Q ss_pred HHHHHHhCCCcchhhhcc
Q 006754 530 ENLSKELSLEPEKVNKWF 547 (632)
Q Consensus 530 ~~LA~~lgLt~~qV~iWF 547 (632)
.++|+.+|+++.+|+.|=
T Consensus 4 ~eva~~~gvs~~tlr~y~ 21 (69)
T PF13411_consen 4 KEVAKLLGVSPSTLRYYE 21 (69)
T ss_dssp HHHHHHTTTTHHHHHHHH
T ss_pred HHHHHHHCcCHHHHHHHH
Confidence 479999999999999993
No 166
>PRK05657 RNA polymerase sigma factor RpoS; Validated
Probab=22.66 E-value=80 Score=34.17 Aligned_cols=52 Identities=17% Similarity=0.109 Sum_probs=41.3
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHh
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKA 557 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~ 557 (632)
.+++.|...|...|.-. |-....-.+||+.||++...|+.+....+.+.++.
T Consensus 262 ~L~~~~R~vl~lrygL~-~~e~~s~~EIA~~Lgis~~tV~~~~~rAl~kLr~~ 313 (325)
T PRK05657 262 ELNDKQREVLARRFGLL-GYEAATLEDVAREIGLTRERVRQIQVEALRRLREI 313 (325)
T ss_pred cCCHHHHHHHHHHhccC-CCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 57999999999988433 23445668999999999999999998888855543
No 167
>KOG3970 consensus Predicted E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=22.22 E-value=42 Score=35.03 Aligned_cols=50 Identities=28% Similarity=0.595 Sum_probs=30.9
Q ss_pred ccccccccCCCCCCCCeEEeCCCCCccccccccCCCCC---CCCCCCCCCccccCcCcch
Q 006754 239 IICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLD---TESIPPGDQGWFCKFCECK 295 (632)
Q Consensus 239 ~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~---~~~iP~gd~~W~C~~C~~k 295 (632)
.-|..|+..-. .|+.+-= .|...||+.|++-... ...-|.| ..||.|...
T Consensus 51 pNC~LC~t~La--~gdt~RL--vCyhlfHW~ClneraA~lPanTAPaG---yqCP~Cs~e 103 (299)
T KOG3970|consen 51 PNCRLCNTPLA--SGDTTRL--VCYHLFHWKCLNERAANLPANTAPAG---YQCPCCSQE 103 (299)
T ss_pred CCCceeCCccc--cCcceee--hhhhhHHHHHhhHHHhhCCCcCCCCc---ccCCCCCCc
Confidence 45888876532 2443322 3888999999985322 1124444 799999664
No 168
>PF03107 C1_2: C1 domain; InterPro: IPR004146 This short domain is rich in cysteines and histidines. The pattern of conservation is similar to that found in DAG_PE-bind (IPR002219 from INTERPRO), therefore we have termed this domain DC1 for divergent C1 domain. This domain probably also binds to two zinc ions. The function of proteins with this domain is uncertain, however this domain may bind to molecules such as diacylglycerol. This family are found in plant proteins.
Probab=22.19 E-value=89 Score=22.10 Aligned_cols=28 Identities=25% Similarity=0.705 Sum_probs=21.4
Q ss_pred cccccccCCCCCCCC-eEEeCCCCCcccccccc
Q 006754 240 ICAKCKLREAFPDND-IVLCDGTCNCAFHQKCL 271 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~-lLlCDG~C~rafH~~CL 271 (632)
.|.+|+... ++. +-.|+ .|.-..|..|.
T Consensus 2 ~C~~C~~~~---~~~~~Y~C~-~c~f~lh~~Ca 30 (30)
T PF03107_consen 2 WCDVCRRKI---DGFYFYHCS-ECCFTLHVRCA 30 (30)
T ss_pred CCCCCCCCc---CCCEeEEeC-CCCCeEcCccC
Confidence 588897753 466 78898 69988898883
No 169
>TIGR00721 tfx DNA-binding protein, Tfx family. Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter.
Probab=21.96 E-value=84 Score=30.26 Aligned_cols=47 Identities=17% Similarity=0.098 Sum_probs=37.5
Q ss_pred CCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 504 HRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 504 ~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
..+|+.|.+.|.-.+ .. ....+||+.||++...|..|-+..|.+.++
T Consensus 5 ~~Lte~qr~VL~Lr~--~G----lTq~EIAe~LgiS~stV~~~e~ra~kkLr~ 51 (137)
T TIGR00721 5 TFLTERQIKVLELRE--KG----LSQKEIAKELKTTRANVSAIEKRAMENIEK 51 (137)
T ss_pred CCCCHHHHHHHHHHH--cC----CCHHHHHHHHCcCHHHHHHHHHhHHHHHHH
Confidence 457999999988742 22 378899999999999999998888875544
No 170
>PF12824 MRP-L20: Mitochondrial ribosomal protein subunit L20; InterPro: IPR024388 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents the essential mitochondrial ribosomal protein L20 family from fungi [].
Probab=21.79 E-value=1.3e+02 Score=29.82 Aligned_cols=47 Identities=19% Similarity=0.366 Sum_probs=39.3
Q ss_pred CCCCCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchh
Q 006754 502 SFHRMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNA 550 (632)
Q Consensus 502 ~r~rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNr 550 (632)
+.+.+|+++++++.+.=.++ |...++..||+++|+++.-|.+-..--
T Consensus 82 k~y~Lt~e~i~Eir~LR~~D--P~~wTr~~LAkkF~~S~~fV~~v~~~~ 128 (164)
T PF12824_consen 82 KKYHLTPEDIQEIRRLRAED--PEKWTRKKLAKKFNCSPLFVSMVAPAP 128 (164)
T ss_pred ccccCCHHHHHHHHHHHHcC--chHhhHHHHHHHhCCCHHHHHHhcCCC
Confidence 34779999999999987776 678999999999999999888755443
No 171
>PRK09706 transcriptional repressor DicA; Reviewed
Probab=21.40 E-value=42 Score=31.31 Aligned_cols=24 Identities=13% Similarity=0.416 Sum_probs=22.0
Q ss_pred HHHHHHHhCCCcchhhhccchhcc
Q 006754 529 KENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
..+||..+|++...|..|..+.+.
T Consensus 21 q~~lA~~~gvs~~~is~~E~g~~~ 44 (135)
T PRK09706 21 QRSLAKAVKVSHVSISQWERDETE 44 (135)
T ss_pred HHHHHHHhCCCHHHHHHHHcCCCC
Confidence 579999999999999999999874
No 172
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=21.27 E-value=45 Score=24.33 Aligned_cols=24 Identities=17% Similarity=0.573 Sum_probs=20.3
Q ss_pred HHHHHHHhCCCcchhhhccchhcc
Q 006754 529 KENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
..++|+.||++...|..|.++-.-
T Consensus 3 ~~e~a~~lgvs~~tl~~~~~~g~~ 26 (49)
T cd04762 3 TKEAAELLGVSPSTLRRWVKEGKL 26 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHcCCC
Confidence 468999999999999999876543
No 173
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=21.11 E-value=60 Score=32.14 Aligned_cols=47 Identities=15% Similarity=0.239 Sum_probs=34.4
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALK 556 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K 556 (632)
.+++.|.+.|.-.|- ....-.+||+.||+++..|++++...|.+.++
T Consensus 153 ~L~~~~r~vl~l~~~-----~g~s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~ 199 (206)
T PRK12526 153 KLPEAQQTVVKGVYF-----QELSQEQLAQQLNVPLGTVKSRLRLALAKLKV 199 (206)
T ss_pred hCCHHHHHHHHHHHH-----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 367777777775442 23345789999999999999998877774443
No 174
>PRK05602 RNA polymerase sigma factor; Reviewed
Probab=21.03 E-value=68 Score=30.91 Aligned_cols=47 Identities=6% Similarity=0.143 Sum_probs=34.3
Q ss_pred CCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHHHh
Q 006754 506 MPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLALKA 557 (632)
Q Consensus 506 ft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~K~ 557 (632)
+++.+.+.|...|-+ ...-.+||+.||++...|+.+....|.+.++.
T Consensus 129 L~~~~r~i~~l~~~~-----g~s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~ 175 (186)
T PRK05602 129 LPERQREAIVLQYYQ-----GLSNIEAAAVMDISVDALESLLARGRRALRAQ 175 (186)
T ss_pred CCHHHHHHhhHHHhc-----CCCHHHHHHHhCcCHHHHHHHHHHHHHHHHHH
Confidence 577777777665432 22347899999999999999998888754443
No 175
>TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species.
Probab=20.97 E-value=89 Score=29.51 Aligned_cols=46 Identities=4% Similarity=0.073 Sum_probs=34.0
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.+.+.|...|-+. ..-.+||+.||+++..|+++..-.|.+.+
T Consensus 119 ~L~~~~r~i~~l~~~~g-----~s~~eiA~~lgis~~tv~~~l~Ra~~~Lr 164 (169)
T TIGR02954 119 TLNDKYQTAIILRYYHD-----LTIKEIAEVMNKPEGTVKTYLHRALKKLK 164 (169)
T ss_pred hCCHHHhHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 46788888887665433 23468999999999999988777666433
No 176
>KOG1493 consensus Anaphase-promoting complex (APC), subunit 11 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]
Probab=20.84 E-value=14 Score=32.44 Aligned_cols=47 Identities=32% Similarity=0.632 Sum_probs=29.5
Q ss_pred cccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcch
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECK 295 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k 295 (632)
-|.-|..++ ++=.||+- .|..+||..|..--+. .|... =.||-|+..
T Consensus 33 ~Cp~Ck~Pg--DdCPLv~G--~C~h~fh~hCI~~wl~---~~tsq--~~CPmcRq~ 79 (84)
T KOG1493|consen 33 CCPDCKLPG--DDCPLVWG--YCLHAFHAHCILKWLN---TPTSQ--GQCPMCRQT 79 (84)
T ss_pred cCCCCcCCC--CCCccHHH--HHHHHHHHHHHHHHhc---Ccccc--ccCCcchhe
Confidence 344455442 22235443 5888999999987775 44433 579999754
No 177
>PRK05988 formate dehydrogenase subunit gamma; Validated
Probab=20.72 E-value=1.2e+02 Score=29.59 Aligned_cols=36 Identities=14% Similarity=0.113 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhh
Q 006754 509 NAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVN 544 (632)
Q Consensus 509 ~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~ 544 (632)
.-+..|...=....|.+.+.-..||+.||+++.+|.
T Consensus 24 ~li~~L~~vQ~~~G~Ip~e~~~~iA~~l~v~~~~V~ 59 (156)
T PRK05988 24 ALLPILHAIQDEFGYVPEDAVPVIAEALNLSRAEVH 59 (156)
T ss_pred HHHHHHHHHHHHcCCCCHHHHHHHHHHhCCCHHHHH
Confidence 456777777778899999999999999999999976
No 178
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=20.66 E-value=49 Score=37.61 Aligned_cols=49 Identities=29% Similarity=0.421 Sum_probs=30.8
Q ss_pred cccccccccccCCCCCCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 236 HEHIICAKCKLREAFPDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 236 ~e~~~C~vC~~~~~~~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
.+-..|+||...=.. +-.+|+-- .|...||..|+.-... -.||.|+..+
T Consensus 173 tELPTCpVCLERMD~-s~~gi~t~-~c~Hsfh~~cl~~w~~----------~scpvcR~~q 221 (493)
T KOG0804|consen 173 TELPTCPVCLERMDS-STTGILTI-LCNHSFHCSCLMKWWD----------SSCPVCRYCQ 221 (493)
T ss_pred ccCCCcchhHhhcCc-cccceeee-ecccccchHHHhhccc----------CcChhhhhhc
Confidence 344679999875221 12234444 4999999999986543 3466665544
No 179
>PRK11511 DNA-binding transcriptional activator MarA; Provisional
Probab=20.57 E-value=85 Score=29.03 Aligned_cols=41 Identities=17% Similarity=0.259 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchh
Q 006754 509 NAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNA 550 (632)
Q Consensus 509 ~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNr 550 (632)
.-+..+..+...+ |.....-.+||+.+||++.++..+|+..
T Consensus 9 ~~i~~~~~~I~~~-~~~~~sl~~lA~~~g~S~~~l~r~Fk~~ 49 (127)
T PRK11511 9 ITIHSILDWIEDN-LESPLSLEKVSERSGYSKWHLQRMFKKE 49 (127)
T ss_pred HHHHHHHHHHHHh-cCCCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 3345555555555 3445777999999999999999999876
No 180
>TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family. Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium.
Probab=20.25 E-value=1e+02 Score=30.87 Aligned_cols=46 Identities=13% Similarity=0.121 Sum_probs=36.2
Q ss_pred CCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHhCCCcchhhhccchhccHHH
Q 006754 505 RMPPNAVEKLRQVFAENELPSRIVKENLSKELSLEPEKVNKWFKNARYLAL 555 (632)
Q Consensus 505 rft~~Q~~~Le~~F~~~~YPs~~~r~~LA~~lgLt~~qV~iWFqNrR~k~~ 555 (632)
.+++.+.+.|...|-+. ..-.+||+.||++...|+.+....+.+.+
T Consensus 175 ~L~~~~r~il~l~y~~~-----~s~~eIA~~lgis~~tV~~~~~ra~~~Lr 220 (224)
T TIGR02479 175 SLSEREQLVLSLYYYEE-----LNLKEIGEVLGLTESRVSQIHSQALKKLR 220 (224)
T ss_pred hCCHHHHHHHHHHHhCC-----CCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 47899999998887432 24589999999999999998877776433
No 181
>KOG1829 consensus Uncharacterized conserved protein, contains C1, PH and RUN domains [Signal transduction mechanisms]
Probab=20.17 E-value=34 Score=40.06 Aligned_cols=46 Identities=30% Similarity=0.693 Sum_probs=28.9
Q ss_pred ccccccccCCCC---CCCCeEEeCCCCCccccccccCCCCCCCCCCCCCCccccCcCcchh
Q 006754 239 IICAKCKLREAF---PDNDIVLCDGTCNCAFHQKCLDPPLDTESIPPGDQGWFCKFCECKM 296 (632)
Q Consensus 239 ~~C~vC~~~~~~---~~g~lLlCDG~C~rafH~~CL~PPL~~~~iP~gd~~W~C~~C~~k~ 296 (632)
.+|..|...+.. ......-|+ .|...||..|+.-- . -.||.|.-.+
T Consensus 512 fiCe~Cq~~~iiyPF~~~~~~rC~-~C~avfH~~C~~r~-----s------~~CPrC~R~q 560 (580)
T KOG1829|consen 512 FICELCQHNDIIYPFETRNTRRCS-TCLAVFHKKCLRRK-----S------PCCPRCERRQ 560 (580)
T ss_pred eeeeeccCCCcccccccccceeHH-HHHHHHHHHHHhcc-----C------CCCCchHHHH
Confidence 457777543211 023346688 69999999999832 1 2399996544
No 182
>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=20.17 E-value=53 Score=30.57 Aligned_cols=26 Identities=23% Similarity=0.726 Sum_probs=19.4
Q ss_pred cccccccCCCCCCCCeEEeCCCCCccc
Q 006754 240 ICAKCKLREAFPDNDIVLCDGTCNCAF 266 (632)
Q Consensus 240 ~C~vC~~~~~~~~g~lLlCDG~C~raf 266 (632)
.|+.|...+...++.++.|. .|...|
T Consensus 4 ~CP~C~seytY~dg~~~iCp-eC~~EW 29 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICP-SCLYEW 29 (109)
T ss_pred cCCcCCCcceEecCCeeECc-cccccc
Confidence 58888887777778888888 576555
No 183
>smart00530 HTH_XRE Helix-turn-helix XRE-family like proteins.
Probab=20.13 E-value=58 Score=23.17 Aligned_cols=24 Identities=17% Similarity=0.313 Sum_probs=20.8
Q ss_pred HHHHHHHhCCCcchhhhccchhcc
Q 006754 529 KENLSKELSLEPEKVNKWFKNARY 552 (632)
Q Consensus 529 r~~LA~~lgLt~~qV~iWFqNrR~ 552 (632)
...||+.+|++..+|..|..+.+.
T Consensus 13 ~~~la~~~~i~~~~i~~~~~~~~~ 36 (56)
T smart00530 13 QEELAEKLGVSRSTLSRIENGKRK 36 (56)
T ss_pred HHHHHHHhCCCHHHHHHHHCCCCC
Confidence 568999999999999999887653
Done!