Query 019599
Match_columns 338
No_of_seqs 283 out of 1644
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 03:03:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019599.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019599hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0483 Transcription factor H 99.8 4.5E-21 9.7E-26 175.7 6.9 104 55-158 48-151 (198)
2 KOG0842 Transcription factor t 99.6 1.2E-16 2.5E-21 154.8 5.7 67 56-122 150-218 (307)
3 KOG0489 Transcription factor z 99.6 1.6E-16 3.4E-21 150.8 2.9 62 56-117 158-219 (261)
4 KOG0488 Transcription factor B 99.6 9.4E-16 2E-20 149.0 7.8 54 64-117 179-232 (309)
5 KOG0487 Transcription factor A 99.6 1.3E-15 2.8E-20 147.6 4.5 62 57-118 235-296 (308)
6 KOG0843 Transcription factor E 99.5 5E-15 1.1E-19 133.6 4.9 63 57-119 102-164 (197)
7 KOG0484 Transcription factor P 99.5 5.2E-15 1.1E-19 123.5 3.3 56 61-116 21-76 (125)
8 PF00046 Homeobox: Homeobox do 99.5 9E-15 1.9E-19 107.1 4.0 57 58-114 1-57 (57)
9 KOG0485 Transcription factor N 99.5 2.4E-14 5.2E-19 132.6 5.5 59 58-116 103-163 (268)
10 KOG0850 Transcription factor D 99.5 3.8E-14 8.2E-19 132.0 5.0 55 61-115 126-180 (245)
11 KOG0492 Transcription factor M 99.5 1E-13 2.2E-18 127.7 7.1 59 58-116 145-203 (246)
12 KOG0494 Transcription factor C 99.5 5.3E-14 1.1E-18 133.2 5.1 55 64-118 148-202 (332)
13 KOG0848 Transcription factor C 99.4 2.9E-14 6.2E-19 135.3 2.7 52 64-115 206-257 (317)
14 KOG0493 Transcription factor E 99.4 2.5E-13 5.4E-18 128.8 6.8 60 61-120 250-309 (342)
15 KOG2251 Homeobox transcription 99.4 1.6E-13 3.4E-18 127.2 4.7 61 57-117 37-97 (228)
16 cd00086 homeodomain Homeodomai 99.4 4.2E-13 9.1E-18 97.7 4.4 57 59-115 2-58 (59)
17 smart00389 HOX Homeodomain. DN 99.4 5.6E-13 1.2E-17 96.6 4.0 55 59-113 2-56 (56)
18 COG5576 Homeodomain-containing 99.3 1E-12 2.2E-17 116.9 5.1 63 55-117 49-111 (156)
19 KOG0844 Transcription factor E 99.3 1.3E-12 2.8E-17 126.1 3.2 61 58-118 182-242 (408)
20 KOG4577 Transcription factor L 99.3 2.6E-12 5.7E-17 123.3 4.7 91 53-144 163-253 (383)
21 TIGR01565 homeo_ZF_HD homeobox 99.3 6.7E-12 1.5E-16 94.8 5.2 52 58-109 2-57 (58)
22 KOG0486 Transcription factor P 99.2 8.7E-12 1.9E-16 120.7 4.3 57 64-120 119-175 (351)
23 KOG0491 Transcription factor B 99.2 2.6E-12 5.6E-17 114.9 -0.1 55 63-117 106-160 (194)
24 KOG3802 Transcription factor O 99.1 3.8E-11 8.1E-16 119.4 5.2 60 56-115 293-352 (398)
25 KOG0847 Transcription factor, 99.1 2.7E-11 5.9E-16 112.7 2.6 62 55-116 165-226 (288)
26 KOG0490 Transcription factor, 99.0 3.6E-10 7.8E-15 102.5 3.6 60 57-116 60-119 (235)
27 KOG0849 Transcription factor P 98.7 9.6E-09 2.1E-13 101.9 4.1 58 59-116 178-235 (354)
28 KOG1168 Transcription factor A 98.7 1.4E-08 3.1E-13 98.0 3.5 63 53-115 305-367 (385)
29 KOG0775 Transcription factor S 98.5 9.8E-08 2.1E-12 91.5 4.0 51 64-114 183-233 (304)
30 KOG0774 Transcription factor P 98.0 2.5E-06 5.4E-11 81.7 2.5 59 57-115 188-249 (334)
31 PF05920 Homeobox_KN: Homeobox 98.0 2.4E-06 5.2E-11 60.0 0.8 34 78-111 7-40 (40)
32 PF02183 HALZ: Homeobox associ 97.8 4.9E-05 1.1E-09 54.8 4.9 44 115-158 1-44 (45)
33 KOG0490 Transcription factor, 97.6 5.3E-05 1.1E-09 68.8 3.4 57 60-116 156-212 (235)
34 KOG2252 CCAAT displacement pro 97.3 0.00021 4.6E-09 74.3 3.9 56 57-112 420-475 (558)
35 KOG1146 Homeobox protein [Gene 96.8 0.00089 1.9E-08 75.5 3.6 62 56-117 902-963 (1406)
36 KOG0773 Transcription factor M 95.7 0.0066 1.4E-07 59.5 2.6 53 63-115 245-300 (342)
37 PF11569 Homez: Homeodomain le 95.2 0.0055 1.2E-07 46.3 0.2 41 69-109 10-50 (56)
38 KOG3623 Homeobox transcription 90.6 0.18 3.9E-06 54.9 2.8 48 69-116 568-615 (1007)
39 PF02183 HALZ: Homeobox associ 90.3 0.6 1.3E-05 33.7 4.4 35 124-158 3-37 (45)
40 PRK09413 IS2 repressor TnpA; R 90.1 0.82 1.8E-05 38.6 5.9 42 60-106 9-51 (121)
41 PF04218 CENP-B_N: CENP-B N-te 86.3 0.9 1.9E-05 33.4 3.3 46 59-109 2-47 (53)
42 KOG4196 bZIP transcription fac 77.0 19 0.00041 31.8 8.5 82 62-156 22-111 (135)
43 PF10224 DUF2205: Predicted co 73.7 15 0.00032 29.8 6.6 47 111-157 15-61 (80)
44 PF00170 bZIP_1: bZIP transcri 72.9 21 0.00045 26.8 6.9 36 120-155 27-62 (64)
45 PF06156 DUF972: Protein of un 67.8 16 0.00034 31.0 5.8 47 115-161 11-57 (107)
46 PF06005 DUF904: Protein of un 63.4 30 0.00065 27.3 6.2 35 120-154 19-53 (72)
47 PRK13169 DNA replication intia 60.9 29 0.00064 29.6 6.2 45 115-159 11-55 (110)
48 KOG4005 Transcription factor X 60.5 22 0.00049 34.5 6.0 43 115-157 93-135 (292)
49 PF04967 HTH_10: HTH DNA bindi 58.1 11 0.00025 28.0 2.9 38 64-101 1-40 (53)
50 PF01527 HTH_Tnp_1: Transposas 57.2 2.3 4.9E-05 32.2 -1.1 43 60-106 3-45 (76)
51 KOG3119 Basic region leucine z 55.6 34 0.00074 33.1 6.5 48 109-159 208-255 (269)
52 smart00338 BRLZ basic region l 55.3 61 0.0013 24.2 6.6 35 122-156 29-63 (65)
53 PF06005 DUF904: Protein of un 54.9 62 0.0014 25.5 6.7 44 114-157 20-63 (72)
54 smart00340 HALZ homeobox assoc 54.5 21 0.00045 25.9 3.5 32 116-154 2-33 (44)
55 KOG0709 CREB/ATF family transc 53.7 50 0.0011 34.8 7.6 88 63-157 220-317 (472)
56 COG4467 Regulator of replicati 53.1 33 0.00071 29.5 5.1 43 116-158 12-54 (114)
57 cd06171 Sigma70_r4 Sigma70, re 51.6 12 0.00026 25.0 1.9 42 64-110 11-52 (55)
58 PF00170 bZIP_1: bZIP transcri 50.7 59 0.0013 24.3 5.8 30 127-156 27-56 (64)
59 PRK00888 ftsB cell division pr 47.5 37 0.00079 28.5 4.6 27 128-154 36-62 (105)
60 PF13443 HTH_26: Cro/C1-type H 46.1 11 0.00023 27.5 1.1 40 86-125 12-51 (63)
61 KOG4005 Transcription factor X 46.1 57 0.0012 31.8 6.2 40 117-156 102-141 (292)
62 cd00569 HTH_Hin_like Helix-tur 45.7 22 0.00048 21.0 2.4 37 63-104 5-41 (42)
63 PF04545 Sigma70_r4: Sigma-70, 45.5 17 0.00038 25.5 2.1 38 63-105 4-41 (50)
64 KOG3156 Uncharacterized membra 45.1 52 0.0011 31.4 5.7 50 117-166 99-149 (220)
65 smart00340 HALZ homeobox assoc 45.1 36 0.00078 24.7 3.5 21 138-158 10-30 (44)
66 KOG4571 Activating transcripti 44.1 71 0.0015 31.8 6.6 49 110-159 240-288 (294)
67 COG4026 Uncharacterized protei 43.4 53 0.0012 31.8 5.5 32 123-154 153-184 (290)
68 COG3413 Predicted DNA binding 42.3 25 0.00054 32.3 3.2 47 63-111 155-203 (215)
69 PF07716 bZIP_2: Basic region 42.2 1.1E+02 0.0023 22.2 5.9 28 127-154 26-53 (54)
70 KOG4403 Cell surface glycoprot 39.7 69 0.0015 33.8 6.0 61 101-161 228-323 (575)
71 PF14775 NYD-SP28_assoc: Sperm 38.8 60 0.0013 24.7 4.2 32 127-158 27-58 (60)
72 cd04766 HTH_HspR Helix-Turn-He 38.3 79 0.0017 25.1 5.1 70 87-157 4-89 (91)
73 PF04899 MbeD_MobD: MbeD/MobD 36.4 1E+02 0.0022 24.3 5.3 39 119-157 21-59 (70)
74 PF00424 REV: REV protein (ant 35.8 46 0.001 27.7 3.4 33 69-117 14-48 (91)
75 PF06156 DUF972: Protein of un 35.1 89 0.0019 26.4 5.1 40 115-154 18-57 (107)
76 KOG0249 LAR-interacting protei 34.8 1.9E+02 0.0042 32.4 8.7 48 109-156 213-260 (916)
77 PF08172 CASP_C: CASP C termin 34.6 1.1E+02 0.0023 29.6 6.2 46 109-154 90-135 (248)
78 PRK13729 conjugal transfer pil 34.5 94 0.002 32.9 6.1 44 113-156 77-120 (475)
79 COG3074 Uncharacterized protei 34.0 1.2E+02 0.0025 24.5 5.2 36 120-155 26-61 (79)
80 smart00338 BRLZ basic region l 33.8 1.2E+02 0.0026 22.6 5.2 30 127-156 27-56 (65)
81 PRK03975 tfx putative transcri 33.3 41 0.00089 29.8 2.9 48 61-114 4-51 (141)
82 PF12808 Mto2_bdg: Micro-tubul 33.2 1.3E+02 0.0028 22.5 5.1 38 121-158 10-47 (52)
83 PF07407 Seadorna_VP6: Seadorn 32.9 47 0.001 33.8 3.5 29 129-157 35-63 (420)
84 TIGR02449 conserved hypothetic 32.2 1.6E+02 0.0034 23.0 5.6 34 123-156 11-44 (65)
85 KOG4343 bZIP transcription fac 31.6 78 0.0017 34.2 5.0 30 130-159 306-335 (655)
86 PF15058 Speriolin_N: Sperioli 31.3 89 0.0019 29.4 4.8 40 122-162 8-47 (200)
87 PRK13169 DNA replication intia 30.9 1.1E+02 0.0024 26.1 5.0 40 115-154 18-57 (110)
88 PF08826 DMPK_coil: DMPK coile 30.7 2.2E+02 0.0047 21.9 6.1 41 117-157 16-56 (61)
89 PF05700 BCAS2: Breast carcino 30.5 1.8E+02 0.0038 27.2 6.8 44 116-159 172-215 (221)
90 PF10668 Phage_terminase: Phag 30.4 15 0.00033 28.2 -0.3 19 86-104 24-42 (60)
91 PF08281 Sigma70_r4_2: Sigma-7 29.8 38 0.00083 23.9 1.8 38 64-106 11-48 (54)
92 PF07716 bZIP_2: Basic region 29.5 1.6E+02 0.0034 21.4 5.0 24 124-147 30-53 (54)
93 PF07334 IFP_35_N: Interferon- 28.1 72 0.0016 25.7 3.2 24 136-159 3-26 (76)
94 PRK13922 rod shape-determining 27.9 1.1E+02 0.0024 29.1 5.1 16 144-159 97-112 (276)
95 PF15058 Speriolin_N: Sperioli 27.5 74 0.0016 29.9 3.7 31 126-156 5-35 (200)
96 KOG3119 Basic region leucine z 27.0 1.6E+02 0.0034 28.6 6.0 31 127-157 216-246 (269)
97 PRK10884 SH3 domain-containing 26.8 1.7E+02 0.0038 27.4 6.0 28 128-155 134-161 (206)
98 PRK14127 cell division protein 26.8 1E+02 0.0022 26.3 4.1 32 128-159 32-63 (109)
99 PF10224 DUF2205: Predicted co 26.7 2.5E+02 0.0054 22.7 6.1 42 114-155 25-66 (80)
100 PRK15422 septal ring assembly 26.5 2.5E+02 0.0054 22.9 6.0 24 132-155 45-68 (79)
101 PRK00118 putative DNA-binding 26.5 2.1E+02 0.0045 24.2 5.8 43 64-111 18-60 (104)
102 cd04779 HTH_MerR-like_sg4 Heli 26.4 3.1E+02 0.0067 23.8 7.2 35 61-108 35-69 (134)
103 KOG1146 Homeobox protein [Gene 26.0 21 0.00045 41.8 -0.2 57 61-117 448-504 (1406)
104 TIGR01069 mutS2 MutS2 family p 25.9 1.7E+02 0.0036 32.7 6.6 20 82-101 480-499 (771)
105 PRK09646 RNA polymerase sigma 25.0 74 0.0016 28.2 3.1 42 64-110 143-184 (194)
106 PRK15422 septal ring assembly 25.0 1.9E+02 0.0042 23.5 5.1 37 120-156 26-62 (79)
107 TIGR02937 sigma70-ECF RNA poly 24.9 67 0.0015 25.7 2.6 40 64-108 111-150 (158)
108 KOG4343 bZIP transcription fac 24.8 1.3E+02 0.0029 32.5 5.3 34 121-154 304-337 (655)
109 PF12824 MRP-L20: Mitochondria 24.6 3.3E+02 0.0071 24.7 7.2 43 61-105 83-125 (164)
110 PRK09652 RNA polymerase sigma 24.3 69 0.0015 27.2 2.7 38 64-106 129-166 (182)
111 TIGR00219 mreC rod shape-deter 24.2 1.4E+02 0.003 29.1 5.1 18 143-160 94-111 (283)
112 KOG0483 Transcription factor H 23.9 87 0.0019 29.3 3.5 39 122-160 108-146 (198)
113 cd04765 HTH_MlrA-like_sg2 Heli 23.5 1.3E+02 0.0027 24.7 4.0 34 61-106 36-69 (99)
114 PRK06759 RNA polymerase factor 23.5 69 0.0015 26.8 2.5 38 64-106 107-144 (154)
115 PF12709 Kinetocho_Slk19: Cent 23.4 2.6E+02 0.0055 23.2 5.7 43 117-159 32-75 (87)
116 PRK10884 SH3 domain-containing 23.3 2.3E+02 0.005 26.5 6.1 35 121-155 134-168 (206)
117 PRK12526 RNA polymerase sigma 23.0 77 0.0017 28.5 2.9 43 64-111 154-196 (206)
118 PF13936 HTH_38: Helix-turn-he 22.5 31 0.00068 24.1 0.2 39 62-105 3-41 (44)
119 PF04977 DivIC: Septum formati 22.4 1.8E+02 0.004 21.8 4.5 19 134-152 32-50 (80)
120 PF09607 BrkDBD: Brinker DNA-b 22.2 60 0.0013 24.9 1.6 41 64-106 6-47 (58)
121 PRK00888 ftsB cell division pr 22.0 2.4E+02 0.0051 23.6 5.4 47 101-148 17-63 (105)
122 PRK12543 RNA polymerase sigma 21.9 1.4E+02 0.003 26.1 4.2 45 64-113 118-162 (179)
123 cd01106 HTH_TipAL-Mta Helix-Tu 21.8 2.7E+02 0.0059 22.4 5.6 35 61-108 36-70 (103)
124 PRK09642 RNA polymerase sigma 21.8 96 0.0021 26.2 3.1 45 64-113 107-151 (160)
125 PRK00409 recombination and DNA 21.7 2.2E+02 0.0047 31.8 6.5 20 82-101 485-504 (782)
126 PF07798 DUF1640: Protein of u 21.5 1.6E+02 0.0034 26.5 4.5 35 133-167 73-107 (177)
127 PRK11924 RNA polymerase sigma 21.5 84 0.0018 26.6 2.7 45 64-113 126-170 (179)
128 PRK11546 zraP zinc resistance 21.4 1.3E+02 0.0028 26.9 3.9 31 129-159 78-108 (143)
129 PRK12514 RNA polymerase sigma 20.8 1.1E+02 0.0023 26.5 3.2 45 64-113 130-174 (179)
130 PF11559 ADIP: Afadin- and alp 20.1 4.1E+02 0.009 22.9 6.8 49 109-157 77-125 (151)
131 cd04769 HTH_MerR2 Helix-Turn-H 20.0 2.2E+02 0.0047 23.6 4.8 37 61-110 35-71 (116)
No 1
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.83 E-value=4.5e-21 Score=175.68 Aligned_cols=104 Identities=60% Similarity=0.901 Sum_probs=95.6
Q ss_pred CCCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHHHHHHHhhhHHHhhh
Q 019599 55 GHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLKANYDALKLN 134 (338)
Q Consensus 55 ~~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~~~~lk~~~d~l~~~ 134 (338)
...+.|++||+.+|+..||..|+...++.+.++..||++|||.+|||+|||||||||||.++++.+++.||..++.|..+
T Consensus 48 ~~~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~~ 127 (198)
T KOG0483|consen 48 SKGKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRSE 127 (198)
T ss_pred cccccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhhh
Confidence 34567788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 135 YDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 135 ~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
++.++.++..|+.++..++..++.
T Consensus 128 ~~~Lq~e~~eL~~~~~~~~~~~~~ 151 (198)
T KOG0483|consen 128 NDRLQSEVQELVAELSSLKREMQK 151 (198)
T ss_pred hhHHHHHHHHHHHHHhhhhhhhcc
Confidence 888888888888888877776654
No 2
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.65 E-value=1.2e-16 Score=154.76 Aligned_cols=67 Identities=37% Similarity=0.584 Sum_probs=59.8
Q ss_pred CCCCCCCc--CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHHHH
Q 019599 56 HVSEKKRR--LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYG 122 (338)
Q Consensus 56 ~~kkKRrR--fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~~~ 122 (338)
.++|||+| ||..|+.+||+.|...+|++..+|+.||..|.|++.||||||||||-|.||+++++.+.
T Consensus 150 ~~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~~ 218 (307)
T KOG0842|consen 150 KRKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKALE 218 (307)
T ss_pred cccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhhh
Confidence 44455555 99999999999999999999999999999999999999999999999999987766543
No 3
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=1.6e-16 Score=150.83 Aligned_cols=62 Identities=32% Similarity=0.664 Sum_probs=56.3
Q ss_pred CCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 56 ~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
..||.|+.||..|+.+||+.|..++|++..+|.+||..|.|++|||||||||||+||||...
T Consensus 158 ~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~k 219 (261)
T KOG0489|consen 158 KSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKENK 219 (261)
T ss_pred CCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhhc
Confidence 34555555999999999999999999999999999999999999999999999999998643
No 4
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=9.4e-16 Score=149.01 Aligned_cols=54 Identities=43% Similarity=0.714 Sum_probs=52.3
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
||..|+..||+.|++.+|++..+|.+||+.|||+..||++||||||+|||++..
T Consensus 179 FT~~Ql~~LEkrF~~QKYLS~~DR~~LA~~LgLTdaQVKtWfQNRRtKWKrq~a 232 (309)
T KOG0488|consen 179 FSDHQLFELEKRFEKQKYLSVADRIELAASLGLTDAQVKTWFQNRRTKWKRQTA 232 (309)
T ss_pred hhHHHHHHHHHHHHHhhcccHHHHHHHHHHcCCchhhHHHHHhhhhHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999644
No 5
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.57 E-value=1.3e-15 Score=147.62 Aligned_cols=62 Identities=34% Similarity=0.508 Sum_probs=56.4
Q ss_pred CCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHH
Q 019599 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqle 118 (338)
.||||..+|..|+.+||+.|..|.|++.+.|.+|++.|+|++|||+|||||||+|.||..++
T Consensus 235 ~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~re 296 (308)
T KOG0487|consen 235 GRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNRE 296 (308)
T ss_pred cccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhhh
Confidence 34455559999999999999999999999999999999999999999999999999997543
No 6
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.54 E-value=5e-15 Score=133.62 Aligned_cols=63 Identities=35% Similarity=0.491 Sum_probs=56.9
Q ss_pred CCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHH
Q 019599 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLER 119 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler 119 (338)
.||.|+.||.+|+..||.+|+.++|....+|++||+.|+|++.||+|||||||+|.||.+.+.
T Consensus 102 ~kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e~ 164 (197)
T KOG0843|consen 102 PKRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQED 164 (197)
T ss_pred CCccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHHh
Confidence 344455599999999999999999999999999999999999999999999999999976553
No 7
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.52 E-value=5.2e-15 Score=123.49 Aligned_cols=56 Identities=29% Similarity=0.547 Sum_probs=52.8
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
|+.||..|+..||+.|...+||++..|++||.+++|++.+|||||||||||.|++.
T Consensus 21 RTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQE 76 (125)
T KOG0484|consen 21 RTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQE 76 (125)
T ss_pred hhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHH
Confidence 34499999999999999999999999999999999999999999999999999863
No 8
>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=99.52 E-value=9e-15 Score=107.15 Aligned_cols=57 Identities=42% Similarity=0.647 Sum_probs=53.9
Q ss_pred CCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhH
Q 019599 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (338)
Q Consensus 58 kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kk 114 (338)
++++++||.+|+.+|+..|..++||+..++..||..|||+..+|++||+|||+++|+
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 356777999999999999999999999999999999999999999999999999985
No 9
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.49 E-value=2.4e-14 Score=132.61 Aligned_cols=59 Identities=42% Similarity=0.684 Sum_probs=54.4
Q ss_pred CCCCCc--CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 58 SEKKRR--LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 58 kkKRrR--fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
+|||+| |+..|+..||..|+..+|++..+|..||++|.|++.||||||||||.||||+-
T Consensus 103 RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~ 163 (268)
T KOG0485|consen 103 RKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQY 163 (268)
T ss_pred ccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHH
Confidence 344444 99999999999999999999999999999999999999999999999999863
No 10
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.47 E-value=3.8e-14 Score=132.01 Aligned_cols=55 Identities=36% Similarity=0.607 Sum_probs=51.9
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
|+.++.-||..|.+.|++++|+--.+|.+||..|||+..||||||||||.|.||.
T Consensus 126 RTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl 180 (245)
T KOG0850|consen 126 RTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKL 180 (245)
T ss_pred cccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHH
Confidence 3349999999999999999999999999999999999999999999999999984
No 11
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.46 E-value=1e-13 Score=127.68 Aligned_cols=59 Identities=32% Similarity=0.535 Sum_probs=54.3
Q ss_pred CCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 58 kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
++.|+.||..|+..||+.|...+|+++.+|.+++..|.|++.||+|||||||+|.||-|
T Consensus 145 RkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQ 203 (246)
T KOG0492|consen 145 RKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQ 203 (246)
T ss_pred CCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHH
Confidence 44445599999999999999999999999999999999999999999999999999853
No 12
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.45 E-value=5.3e-14 Score=133.15 Aligned_cols=55 Identities=31% Similarity=0.561 Sum_probs=52.6
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqle 118 (338)
||..|+..||+.|+..+||+...|+-||.++.|.+.+|+||||||||||||+...
T Consensus 148 FT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~ 202 (332)
T KOG0494|consen 148 FTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKR 202 (332)
T ss_pred hhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhh
Confidence 9999999999999999999999999999999999999999999999999986543
No 13
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.45 E-value=2.9e-14 Score=135.33 Aligned_cols=52 Identities=42% Similarity=0.634 Sum_probs=50.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
+|..|+.+||+.|...+|.++.++.+||..|||++|||||||||||||+||.
T Consensus 206 YTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~ 257 (317)
T KOG0848|consen 206 YTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKD 257 (317)
T ss_pred ecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHH
Confidence 9999999999999999999999999999999999999999999999999985
No 14
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.42 E-value=2.5e-13 Score=128.75 Aligned_cols=60 Identities=33% Similarity=0.643 Sum_probs=54.9
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERD 120 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~ 120 (338)
|+-||.+||..|+..|+.++|++..+|++||.+|||.+.||+|||||+|+|.||..--+.
T Consensus 250 RTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIKIWFQNKRAKiKKsTgskn 309 (342)
T KOG0493|consen 250 RTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIKIWFQNKRAKIKKSTGSKN 309 (342)
T ss_pred cccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhhHHhhhhhhhhhhccCCCC
Confidence 344999999999999999999999999999999999999999999999999998755443
No 15
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.41 E-value=1.6e-13 Score=127.23 Aligned_cols=61 Identities=28% Similarity=0.437 Sum_probs=56.1
Q ss_pred CCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
.+|.|++|+..|+++||..|.+.+||+...|++||.+|+|.+.+|+|||+|||+|+|+++.
T Consensus 37 qRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~ 97 (228)
T KOG2251|consen 37 QRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQ 97 (228)
T ss_pred cccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhh
Confidence 3445556999999999999999999999999999999999999999999999999998754
No 16
>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=99.38 E-value=4.2e-13 Score=97.74 Aligned_cols=57 Identities=46% Similarity=0.738 Sum_probs=53.1
Q ss_pred CCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 59 kKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
+++.+++..|+.+|+.+|..++||+..++..||..+||+.++|++||+|||++.++.
T Consensus 2 ~~r~~~~~~~~~~Le~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~~~ 58 (59)
T cd00086 2 RKRTRFTPEQLEELEKEFEKNPYPSREEREELAKELGLTERQVKIWFQNRRAKLKRS 58 (59)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHhcc
Confidence 345569999999999999999999999999999999999999999999999998863
No 17
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.36 E-value=5.6e-13 Score=96.63 Aligned_cols=55 Identities=45% Similarity=0.792 Sum_probs=51.0
Q ss_pred CCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhh
Q 019599 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (338)
Q Consensus 59 kKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~K 113 (338)
+.+.+++.+|+.+|+..|..++||+..++..||..+||+..+|++||+|||++.|
T Consensus 2 k~r~~~~~~~~~~L~~~f~~~~~P~~~~~~~la~~~~l~~~qV~~WF~nrR~~~~ 56 (56)
T smart00389 2 RKRTSFTPEQLEELEKEFQKNPYPSREEREELAAKLGLSERQVKVWFQNRRAKWK 56 (56)
T ss_pred CCCCcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHCcCHHHHHHhHHHHhhccC
Confidence 3455699999999999999999999999999999999999999999999999864
No 18
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.34 E-value=1e-12 Score=116.86 Aligned_cols=63 Identities=33% Similarity=0.582 Sum_probs=58.6
Q ss_pred CCCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 55 GHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 55 ~~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
...+++|+|.|..|+.+|++.|..++||+...|..|+..|+|+++-|++||||||++.|+...
T Consensus 49 ~~~~~~r~R~t~~Q~~vL~~~F~i~p~Ps~~~r~~L~~~lnm~~ksVqIWFQNkR~~~k~~~~ 111 (156)
T COG5576 49 SPPKSKRRRTTDEQLMVLEREFEINPYPSSITRIKLSLLLNMPPKSVQIWFQNKRAKEKKKRS 111 (156)
T ss_pred CcCcccceechHHHHHHHHHHhccCCCCCHHHHHHHHHhcCCChhhhhhhhchHHHHHHHhcc
Confidence 456777888999999999999999999999999999999999999999999999999998644
No 19
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.29 E-value=1.3e-12 Score=126.13 Aligned_cols=61 Identities=34% Similarity=0.554 Sum_probs=55.9
Q ss_pred CCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHH
Q 019599 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (338)
Q Consensus 58 kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqle 118 (338)
++-|+-||.+|+..||+.|.+..|-+..+|.+||..|+|++..|||||||||+|.||+++.
T Consensus 182 RRYRTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 182 RRYRTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred HHHHhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 4444459999999999999999999999999999999999999999999999999997654
No 20
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.28 E-value=2.6e-12 Score=123.26 Aligned_cols=91 Identities=22% Similarity=0.374 Sum_probs=73.8
Q ss_pred CCCCCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHHHHHHHhhhHHHh
Q 019599 53 SGGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLKANYDALK 132 (338)
Q Consensus 53 ~~~~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~~~~lk~~~d~l~ 132 (338)
+.+..|+.|+.+|+.|++.|+.+|...++|....|++|+.++||..|+|||||||||||.||-+...-...|.+-+..++
T Consensus 163 gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfrsmK 242 (383)
T KOG4577|consen 163 GDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFRSMK 242 (383)
T ss_pred cccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhcchhHHHHHHHHhh
Confidence 44556777777999999999999999999999999999999999999999999999999998554444556777777666
Q ss_pred hhhhhhHHHHHH
Q 019599 133 LNYDSLQHDNEA 144 (338)
Q Consensus 133 ~~~dsl~~ene~ 144 (338)
.. .+-+.+++.
T Consensus 243 ~s-gs~r~ekds 253 (383)
T KOG4577|consen 243 RS-GSSRAEKDS 253 (383)
T ss_pred cc-CCccccccc
Confidence 55 444444443
No 21
>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=99.26 E-value=6.7e-12 Score=94.76 Aligned_cols=52 Identities=15% Similarity=0.360 Sum_probs=48.5
Q ss_pred CCCCCcCCHHHHHHHHHhhhhcCC----CCHHHHHHHHHHhCCCCceEeehhhhhH
Q 019599 58 SEKKRRLSVDQVKALEKNFEVENK----LEPERKVKLAQELGLQPRQVAVWFQNRR 109 (338)
Q Consensus 58 kkKRrRfT~eQl~~LE~~F~~~~y----Ps~~~R~eLA~~LgLserQVqVWFQNRR 109 (338)
++.|+.||.+|+..|+..|...+| |+...+.+||..|||++++|+|||||.+
T Consensus 2 kR~RT~Ft~~Q~~~Le~~fe~~~y~~~~~~~~~r~~la~~lgl~~~vvKVWfqN~k 57 (58)
T TIGR01565 2 KRRRTKFTAEQKEKMRDFAEKLGWKLKDKRREEVREFCEEIGVTRKVFKVWMHNNK 57 (58)
T ss_pred CCCCCCCCHHHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHhCCCHHHeeeecccCC
Confidence 456667999999999999999999 9999999999999999999999999964
No 22
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.21 E-value=8.7e-12 Score=120.73 Aligned_cols=57 Identities=26% Similarity=0.559 Sum_probs=53.5
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERD 120 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~ 120 (338)
|+..|+..||..|.+++||+...|++||..++|++.+|+|||.|||+|||++.+-..
T Consensus 119 FtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrErN~~ 175 (351)
T KOG0486|consen 119 FTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRERNQQ 175 (351)
T ss_pred hHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhhhHH
Confidence 999999999999999999999999999999999999999999999999998654433
No 23
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.19 E-value=2.6e-12 Score=114.91 Aligned_cols=55 Identities=40% Similarity=0.572 Sum_probs=52.6
Q ss_pred cCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 63 RLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 63 RfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
.|+..|+..||+.|+..+|++..+|.+||..|+|++.||+.||||||+|.||.+.
T Consensus 106 vfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r 160 (194)
T KOG0491|consen 106 VFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQR 160 (194)
T ss_pred cccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Confidence 3999999999999999999999999999999999999999999999999998754
No 24
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.14 E-value=3.8e-11 Score=119.42 Aligned_cols=60 Identities=32% Similarity=0.443 Sum_probs=54.4
Q ss_pred CCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 56 ~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
++||||+.|....+..||+.|..|++|+..++..||.+|+|...+|+|||+|||.|.||.
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 344444459999999999999999999999999999999999999999999999999984
No 25
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.11 E-value=2.7e-11 Score=112.71 Aligned_cols=62 Identities=37% Similarity=0.692 Sum_probs=56.3
Q ss_pred CCCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 55 GHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 55 ~~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
+.++..|..|+-.|+..||..|+..+||-.+.|.+||..+|+++.||+|||||||+||||+.
T Consensus 165 G~rk~srPTf~g~qi~~le~~feqtkylaG~~ra~lA~~lgmteSqvkVWFQNRRTKWRKkh 226 (288)
T KOG0847|consen 165 GQRKQSRPTFTGHQIYQLERKFEQTKYLAGADRAQLAQELNMTESQVKVWFQNRRTKWRKKH 226 (288)
T ss_pred ccccccCCCccchhhhhhhhhhhhhhcccchhHHHhhccccccHHHHHHHHhcchhhhhhhh
Confidence 44555555599999999999999999999999999999999999999999999999999864
No 26
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.96 E-value=3.6e-10 Score=102.52 Aligned_cols=60 Identities=28% Similarity=0.342 Sum_probs=54.7
Q ss_pred CCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
.++.|+.|+..|+.+||+.|...+||+...|+.||..+++++..|+|||||||++|+++.
T Consensus 60 ~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~ 119 (235)
T KOG0490|consen 60 KRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE 119 (235)
T ss_pred ccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence 344455599999999999999999999999999999999999999999999999999864
No 27
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.70 E-value=9.6e-09 Score=101.88 Aligned_cols=58 Identities=36% Similarity=0.631 Sum_probs=53.9
Q ss_pred CCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 59 kKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
+.|+.|+..|+..|++.|++++||+...|++||.++++++.+|+|||+|||+++++..
T Consensus 178 r~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~ 235 (354)
T KOG0849|consen 178 RNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQH 235 (354)
T ss_pred ccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcc
Confidence 3345599999999999999999999999999999999999999999999999999864
No 28
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.66 E-value=1.4e-08 Score=97.99 Aligned_cols=63 Identities=29% Similarity=0.517 Sum_probs=57.0
Q ss_pred CCCCCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 53 SGGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 53 ~~~~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
.++.+||||+.+.....+.||.+|...++|+.+.+..||.+|+|...+|+|||+|.|.|.||.
T Consensus 305 ~~~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm 367 (385)
T KOG1168|consen 305 PGGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRM 367 (385)
T ss_pred CccccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHh
Confidence 345566677778889999999999999999999999999999999999999999999999884
No 29
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.48 E-value=9.8e-08 Score=91.50 Aligned_cols=51 Identities=29% Similarity=0.428 Sum_probs=47.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kk 114 (338)
|...-+.+|..+|..++||++.++.+||+.+||+..||-.||.|||.|+|.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa 233 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRA 233 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhh
Confidence 666778899999999999999999999999999999999999999999984
No 30
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.02 E-value=2.5e-06 Score=81.69 Aligned_cols=59 Identities=29% Similarity=0.461 Sum_probs=53.5
Q ss_pred CCCCCCcCCHHHHHHHHHhhh---hcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 57 VSEKKRRLSVDQVKALEKNFE---VENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~---~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
.+||||.|+..-..+|..+|. .++||+.+.+++||++++++..||-.||.|+|-++||.
T Consensus 188 arRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 188 ARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 355666699999999999996 58899999999999999999999999999999999974
No 31
>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=97.96 E-value=2.4e-06 Score=60.00 Aligned_cols=34 Identities=35% Similarity=0.556 Sum_probs=28.9
Q ss_pred hcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHH
Q 019599 78 VENKLEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (338)
Q Consensus 78 ~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK 111 (338)
.++||+.+++..||+++||+..||..||-|.|.|
T Consensus 7 ~nPYPs~~ek~~L~~~tgls~~Qi~~WF~NaRrR 40 (40)
T PF05920_consen 7 HNPYPSKEEKEELAKQTGLSRKQISNWFINARRR 40 (40)
T ss_dssp TSGS--HHHHHHHHHHHTS-HHHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHcCCCHHHHHHHHHHhHcc
Confidence 4789999999999999999999999999999875
No 32
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=97.76 E-value=4.9e-05 Score=54.84 Aligned_cols=44 Identities=61% Similarity=0.900 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
+|+++++..|++.|+.|+.++++|..+|+.|++++..|+.++..
T Consensus 1 KQlE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~L~~kl~~ 44 (45)
T PF02183_consen 1 KQLERDYDALKASYDSLKAEYDSLKKENEKLRAEVQELKEKLQM 44 (45)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 47899999999999999999999999999999999999998853
No 33
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.57 E-value=5.3e-05 Score=68.79 Aligned_cols=57 Identities=33% Similarity=0.635 Sum_probs=52.5
Q ss_pred CCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 60 KKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 60 KRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
.++.+...|+..|...|....+|+...+..|+..+|++++.|++||||+|++.++..
T Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~ 212 (235)
T KOG0490|consen 156 PRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHK 212 (235)
T ss_pred CccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhc
Confidence 344488999999999999999999999999999999999999999999999999864
No 34
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.28 E-value=0.00021 Score=74.32 Aligned_cols=56 Identities=21% Similarity=0.280 Sum_probs=50.4
Q ss_pred CCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHh
Q 019599 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARW 112 (338)
Q Consensus 57 ~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~ 112 (338)
.||.|..||..|...|..+|+.+++|+.+..+.|+.+|+|..+.|.+||-|-|.|.
T Consensus 420 ~KKPRlVfTd~QkrTL~aiFke~~RPS~Emq~tIS~qL~L~~sTV~NfFmNaRRRs 475 (558)
T KOG2252|consen 420 TKKPRLVFTDIQKRTLQAIFKENKRPSREMQETISQQLNLELSTVINFFMNARRRS 475 (558)
T ss_pred CCCceeeecHHHHHHHHHHHhcCCCCCHHHHHHHHHHhCCcHHHHHHHHHhhhhhc
Confidence 33334449999999999999999999999999999999999999999999988775
No 35
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.80 E-value=0.00089 Score=75.53 Aligned_cols=62 Identities=27% Similarity=0.381 Sum_probs=56.4
Q ss_pred CCCCCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 56 ~~kkKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
.++.+|++++..||..|...|....+|...+.+.|...+++..+.|+|||||-|+|.|+..+
T Consensus 902 ~r~a~~~~~~d~qlk~i~~~~~~q~~~~~~~~E~l~~~~~~~~~~i~vw~qna~~~s~k~~~ 963 (1406)
T KOG1146|consen 902 GRRAYRTQESDLQLKIIKACYEAQRTPTMQECEVLEEPIGLPKRVIQVWFQNARAKSKKAKL 963 (1406)
T ss_pred hhhhhccchhHHHHHHHHHHHhhccCChHHHHHhhcccccCCcchhHHhhhhhhhhhhhhhh
Confidence 34556777999999999999999999999999999999999999999999999999998655
No 36
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=95.70 E-value=0.0066 Score=59.48 Aligned_cols=53 Identities=28% Similarity=0.344 Sum_probs=46.2
Q ss_pred cCCHHHHHHHHHhhhh---cCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHH
Q 019599 63 RLSVDQVKALEKNFEV---ENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (338)
Q Consensus 63 RfT~eQl~~LE~~F~~---~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkk 115 (338)
.+....+.+|+.+... .+||+...+..||+++||+..||.+||-|.|-|..+-
T Consensus 245 ~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p 300 (342)
T KOG0773|consen 245 GLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKP 300 (342)
T ss_pred CCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCc
Confidence 4999999999987432 5699999999999999999999999999998887754
No 37
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=95.22 E-value=0.0055 Score=46.31 Aligned_cols=41 Identities=24% Similarity=0.424 Sum_probs=31.1
Q ss_pred HHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhH
Q 019599 69 VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRR 109 (338)
Q Consensus 69 l~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRR 109 (338)
+..|+.+|...+++.......|..+.+|+..||+.||-.|+
T Consensus 10 ~~pL~~Yy~~h~~L~E~DL~~L~~kS~ms~qqVr~WFa~~~ 50 (56)
T PF11569_consen 10 IQPLEDYYLKHKQLQEEDLDELCDKSRMSYQQVRDWFAERM 50 (56)
T ss_dssp -HHHHHHHHHT----TTHHHHHHHHTT--HHHHHHHHHHHS
T ss_pred hHHHHHHHHHcCCccHhhHHHHHHHHCCCHHHHHHHHHHhc
Confidence 46699999999999999999999999999999999997554
No 38
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=90.56 E-value=0.18 Score=54.86 Aligned_cols=48 Identities=23% Similarity=0.372 Sum_probs=44.6
Q ss_pred HHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHH
Q 019599 69 VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (338)
Q Consensus 69 l~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkq 116 (338)
+.+|..+|..|..|+.++...+|.+.||+.+.|++||+++++....-.
T Consensus 568 ~sllkayyaln~~ps~eelskia~qvglp~~vvk~wfE~~~a~e~sv~ 615 (1007)
T KOG3623|consen 568 TSLLKAYYALNGLPSEEELSKIAQQVGLPFAVVKAWFEDEEAEEMSVE 615 (1007)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHhcccHHHHHHHHHhhhhhhhhhc
Confidence 778999999999999999999999999999999999999999887644
No 39
>PF02183 HALZ: Homeobox associated leucine zipper; InterPro: IPR003106 This region is a plant specific leucine zipper that is always found associated with a homeobox []. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=90.26 E-value=0.6 Score=33.73 Aligned_cols=35 Identities=43% Similarity=0.721 Sum_probs=31.0
Q ss_pred HHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 124 LKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 124 lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
+...|+.|+..+++|..++++|+.|+..|++.+..
T Consensus 3 lE~Dy~~LK~~yd~Lk~~~~~L~~E~~~L~aev~~ 37 (45)
T PF02183_consen 3 LERDYDALKASYDSLKAEYDSLKKENEKLRAEVQE 37 (45)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55689999999999999999999999999998753
No 40
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=90.12 E-value=0.82 Score=38.62 Aligned_cols=42 Identities=21% Similarity=0.421 Sum_probs=28.2
Q ss_pred CCCcCCHHHHH-HHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 60 KKRRLSVDQVK-ALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 60 KRrRfT~eQl~-~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
++++++.++.. ++...+. +.+ ...++|+++|+++.+|..|.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~-~g~----sv~evA~e~gIs~~tl~~W~r 51 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFE-PGM----TVSLVARQHGVAASQLFLWRK 51 (121)
T ss_pred CCCCCCHHHHHHHHHHHHc-CCC----CHHHHHHHHCcCHHHHHHHHH
Confidence 34567777654 3433333 322 356789999999999999954
No 41
>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=86.25 E-value=0.9 Score=33.41 Aligned_cols=46 Identities=22% Similarity=0.420 Sum_probs=33.1
Q ss_pred CCCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhH
Q 019599 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRR 109 (338)
Q Consensus 59 kKRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRR 109 (338)
++|+.+|.++-..+-..++... ....||+.+|++..+|..|..|+.
T Consensus 2 rkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k~ 47 (53)
T PF04218_consen 2 RKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNKD 47 (53)
T ss_dssp SSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCHH
T ss_pred CCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhHH
Confidence 4566699988888877787665 577899999999999999988753
No 42
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=76.98 E-value=19 Score=31.83 Aligned_cols=82 Identities=26% Similarity=0.312 Sum_probs=46.4
Q ss_pred CcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHh-CCCCceEeehhhhhHHHhhH-------HHHHHHHHHHHhhhHHHhh
Q 019599 62 RRLSVDQVKALEKNFEVENKLEPERKVKLAQEL-GLQPRQVAVWFQNRRARWKT-------KQLERDYGVLKANYDALKL 133 (338)
Q Consensus 62 rRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~L-gLserQVqVWFQNRRAK~Kk-------kqler~~~~lk~~~d~l~~ 133 (338)
.+|+.+++..| . -.+|=+.| |++...|-.|=|.||+-.-+ -++-.+...|.+....|..
T Consensus 22 d~lsDd~Lvsm------------S-VReLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Qk~eLE~~k~~L~q 88 (135)
T KOG4196|consen 22 DRLSDDELVSM------------S-VRELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQKHELEKEKAELQQ 88 (135)
T ss_pred CCcCHHHHHHh------------h-HHHHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56888888766 1 22343344 78888888888888763221 1111122233344445555
Q ss_pred hhhhhHHHHHHHHHHHHHHHHhh
Q 019599 134 NYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 134 ~~dsl~~ene~L~~E~~~LK~kl 156 (338)
+.+.|..++..+..|+.-++.+.
T Consensus 89 qv~~L~~e~s~~~~E~da~k~k~ 111 (135)
T KOG4196|consen 89 QVEKLKEENSRLRRELDAYKSKY 111 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 55666666666666666666554
No 43
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=73.75 E-value=15 Score=29.77 Aligned_cols=47 Identities=19% Similarity=0.246 Sum_probs=37.3
Q ss_pred HhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 111 RWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 111 K~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
+..+..+.++...|+...+.|....+.++.++++|..|+.-|+..+.
T Consensus 15 ~e~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~ 61 (80)
T PF10224_consen 15 KEEKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIG 61 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33455666777788888888888888888899999999888888774
No 44
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=72.86 E-value=21 Score=26.80 Aligned_cols=36 Identities=31% Similarity=0.382 Sum_probs=22.5
Q ss_pred HHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 120 DYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 120 ~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
....|......|...++.|..++..|..++..|+..
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344555566666666666666666666666666654
No 45
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=67.84 E-value=16 Score=30.97 Aligned_cols=47 Identities=30% Similarity=0.405 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhcc
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEENT 161 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~~~ 161 (338)
.+++.+...+-+....|+..-..+..||..|+-||..|+..|.+...
T Consensus 11 ~~le~~l~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 11 DQLEQQLGQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 35666677777777888888888888999999999999999876643
No 46
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=63.41 E-value=30 Score=27.32 Aligned_cols=35 Identities=29% Similarity=0.422 Sum_probs=16.5
Q ss_pred HHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 120 DYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 120 ~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
.+..|+...+.|+..+..+..+++.|+.++..|+.
T Consensus 19 ti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~ 53 (72)
T PF06005_consen 19 TIALLQMENEELKEKNNELKEENEELKEENEQLKQ 53 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 33444444444444444444455555555555543
No 47
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=60.91 E-value=29 Score=29.60 Aligned_cols=45 Identities=36% Similarity=0.457 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
.+++.....+-+....|+..-..+..||..|+-||..|+.+|.+.
T Consensus 11 ~~le~~l~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~ 55 (110)
T PRK13169 11 DDLEQNLGVLLKELGALKKQLAELLEENTALRLENDKLRERLEEL 55 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345666666777777788888888889999999999999988754
No 48
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=60.54 E-value=22 Score=34.50 Aligned_cols=43 Identities=33% Similarity=0.407 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
..++.+...|...+..|..+++.|+..|+.|..++.+|...|.
T Consensus 93 ~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le 135 (292)
T KOG4005|consen 93 EEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELE 135 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 3455566677778888888889998888888888888888774
No 49
>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=58.11 E-value=11 Score=28.01 Aligned_cols=38 Identities=26% Similarity=0.285 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHhhhhcCC--CCHHHHHHHHHHhCCCCceE
Q 019599 64 LSVDQVKALEKNFEVENK--LEPERKVKLAQELGLQPRQV 101 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~y--Ps~~~R~eLA~~LgLserQV 101 (338)
+|..|..+|...|...-| |-.....+||..||++..-|
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~ 40 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTV 40 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHH
Confidence 588999999999997765 44555789999999998653
No 50
>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=57.19 E-value=2.3 Score=32.15 Aligned_cols=43 Identities=23% Similarity=0.384 Sum_probs=27.7
Q ss_pred CCCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 60 KKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 60 KRrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
++++||+++...+-..+... ......+|+++||++.+|..|-.
T Consensus 3 ~r~~ys~e~K~~~v~~~~~~----g~sv~~va~~~gi~~~~l~~W~~ 45 (76)
T PF01527_consen 3 KRRRYSPEFKLQAVREYLES----GESVSEVAREYGISPSTLYNWRK 45 (76)
T ss_dssp SS----HHHHHHHHHHHHHH----HCHHHHHHHHHTS-HHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHC----CCceEeeecccccccccccHHHH
Confidence 45669998877766655222 24677899999999999988854
No 51
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=55.64 E-value=34 Score=33.11 Aligned_cols=48 Identities=25% Similarity=0.303 Sum_probs=24.7
Q ss_pred HHHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 109 RAK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
|.|.++++.+.+ .+.....|..+++.|+.+.+.|++|+..|+..+...
T Consensus 208 kSR~~~k~~~~e---~~~r~~~leken~~lr~~v~~l~~el~~~~~~~~~~ 255 (269)
T KOG3119|consen 208 KSRDKRKQKEDE---MAHRVAELEKENEALRTQVEQLKKELATLRRLFLQL 255 (269)
T ss_pred HhhhhHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 445554444322 222333455555666666666666666666655443
No 52
>smart00338 BRLZ basic region leucin zipper.
Probab=55.32 E-value=61 Score=24.23 Aligned_cols=35 Identities=29% Similarity=0.441 Sum_probs=20.3
Q ss_pred HHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 122 GVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 122 ~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
..|......|...+..|..+...|..++..|+..+
T Consensus 29 ~~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 29 EELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33444455555566666666666666666666554
No 53
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=54.92 E-value=62 Score=25.52 Aligned_cols=44 Identities=25% Similarity=0.337 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 114 TKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 114 kkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
-..++.+...|+..+..+...+..|..+|++|+.+...-+.+|.
T Consensus 20 i~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~ 63 (72)
T PF06005_consen 20 IALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLR 63 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566667777777777777777777788877777666665553
No 54
>smart00340 HALZ homeobox associated leucin zipper.
Probab=54.45 E-value=21 Score=25.86 Aligned_cols=32 Identities=41% Similarity=0.556 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 116 QLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 116 qler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
|.+-+.+.||. -.++|..||.+|++|+.+|++
T Consensus 2 QTEvdCe~LKr-------cce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 2 QTEVDCELLKR-------CCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred chHHHHHHHHH-------HHHHHHHHHHHHHHHHHHHHh
Confidence 44555555555 445666788888888888875
No 55
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=53.69 E-value=50 Score=34.75 Aligned_cols=88 Identities=16% Similarity=0.292 Sum_probs=40.9
Q ss_pred cCCHHHHHHHHHh-hhhcC-CCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhH--------HHHHHHHHHHHhhhHHHh
Q 019599 63 RLSVDQVKALEKN-FEVEN-KLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT--------KQLERDYGVLKANYDALK 132 (338)
Q Consensus 63 RfT~eQl~~LE~~-F~~~~-yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kk--------kqler~~~~lk~~~d~l~ 132 (338)
+++.+....|.+. +.... +|-...-+++.++. +.=.+|+|.+.-. ..++..+....+.+..|+
T Consensus 220 ~LteeEkrLL~kEG~slPs~lPLTKaEEriLKrv-------RRKIrNK~SAQESRrkKkeYid~LE~rv~~~taeNqeL~ 292 (472)
T KOG0709|consen 220 VLTEEEKRLLTKEGYSLPSKLPLTKAEERILKRV-------RRKIRNKRSAQESRRKKKEYIDGLESRVSAFTAENQELQ 292 (472)
T ss_pred eccHHHHHHHHhccCcCcccCCchHHHHHHHHHH-------HHHHHhhhhhHHHHHhHhhHHHHHhhhhhhcccCcHHHH
Confidence 4788887777665 33322 34333333333332 2222344332222 223333333334444555
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 133 LNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 133 ~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
.....+..+|..|.++++.|...+-
T Consensus 293 kkV~~Le~~N~sLl~qL~klQt~v~ 317 (472)
T KOG0709|consen 293 KKVEELELSNRSLLAQLKKLQTLVI 317 (472)
T ss_pred HHHHHHhhccHHHHHHHHHHHHHHh
Confidence 5555555555566666555555443
No 56
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=53.08 E-value=33 Score=29.53 Aligned_cols=43 Identities=40% Similarity=0.512 Sum_probs=34.8
Q ss_pred HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 116 QLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 116 qler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
.++.....+-+....++..-.++-.||..|+-|+..|+.+|..
T Consensus 12 ~le~~l~~l~~el~~lK~~l~~lvEEN~~L~lENe~LR~RL~~ 54 (114)
T COG4467 12 NLEEQLGVLLAELGGLKQHLGSLVEENTALRLENEKLRERLGE 54 (114)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhHHHHHHHhCC
Confidence 4555666666677777888888888999999999999999976
No 57
>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=51.63 E-value=12 Score=25.00 Aligned_cols=42 Identities=14% Similarity=0.128 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRA 110 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRA 110 (338)
++..+..++...|... .....+|..+|++...|..|...-+.
T Consensus 11 l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~ 52 (55)
T cd06171 11 LPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALK 52 (55)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 6777888887776422 23567899999999999888764433
No 58
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=50.72 E-value=59 Score=24.27 Aligned_cols=30 Identities=30% Similarity=0.513 Sum_probs=14.3
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 127 NYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 127 ~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
....|......|..+|..|..++..|+..+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~L~~~~ 56 (64)
T PF00170_consen 27 YIEELEEKVEELESENEELKKELEQLKKEI 56 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444444455555555555554444433
No 59
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=47.52 E-value=37 Score=28.46 Aligned_cols=27 Identities=30% Similarity=0.398 Sum_probs=17.4
Q ss_pred hHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 128 YDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 128 ~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
...++.+...++.+|+.|+.++..|+.
T Consensus 36 ~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 36 VAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 334444556666677777777777765
No 60
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=46.13 E-value=11 Score=27.46 Aligned_cols=40 Identities=15% Similarity=0.204 Sum_probs=24.3
Q ss_pred HHHHHHHHhCCCCceEeehhhhhHHHhhHHHHHHHHHHHH
Q 019599 86 RKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLK 125 (338)
Q Consensus 86 ~R~eLA~~LgLserQVqVWFQNRRAK~Kkkqler~~~~lk 125 (338)
....||+.+|++..+|..|+.++........+.+-...|.
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~~l~ 51 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAKALN 51 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHHHHT
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHHHcC
Confidence 4668999999999999999988766666655555544443
No 61
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=46.07 E-value=57 Score=31.80 Aligned_cols=40 Identities=28% Similarity=0.394 Sum_probs=20.3
Q ss_pred HHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 117 LERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 117 ler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
+..+...|+..++.|+..+..|..+|..|..++..|++.|
T Consensus 102 L~een~~L~~en~~Lr~~n~~L~~~n~el~~~le~~~~~l 141 (292)
T KOG4005|consen 102 LTEENEILQNENDSLRAINESLLAKNHELDSELELLRQEL 141 (292)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 4444455555555555555555555555555555444444
No 62
>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=45.68 E-value=22 Score=20.99 Aligned_cols=37 Identities=14% Similarity=0.337 Sum_probs=25.0
Q ss_pred cCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeeh
Q 019599 63 RLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVW 104 (338)
Q Consensus 63 RfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVW 104 (338)
.++.++...+...|... . ....+|..+|++...|..|
T Consensus 5 ~~~~~~~~~i~~~~~~~-~----s~~~ia~~~~is~~tv~~~ 41 (42)
T cd00569 5 KLTPEQIEEARRLLAAG-E----SVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred cCCHHHHHHHHHHHHcC-C----CHHHHHHHHCCCHHHHHHh
Confidence 36677766666666532 2 4557889999988777665
No 63
>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=45.52 E-value=17 Score=25.51 Aligned_cols=38 Identities=13% Similarity=0.175 Sum_probs=27.8
Q ss_pred cCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehh
Q 019599 63 RLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWF 105 (338)
Q Consensus 63 RfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWF 105 (338)
.+++.+..+|...|... ..-.++|..+|++...|+.+.
T Consensus 4 ~L~~~er~vi~~~y~~~-----~t~~eIa~~lg~s~~~V~~~~ 41 (50)
T PF04545_consen 4 QLPPREREVIRLRYFEG-----LTLEEIAERLGISRSTVRRIL 41 (50)
T ss_dssp TS-HHHHHHHHHHHTST------SHHHHHHHHTSCHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcCC-----CCHHHHHHHHCCcHHHHHHHH
Confidence 37888999999988322 246689999999998876553
No 64
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=45.14 E-value=52 Score=31.37 Aligned_cols=50 Identities=20% Similarity=0.386 Sum_probs=36.5
Q ss_pred HHHHHHHHHhhhH-HHhhhhhhhHHHHHHHHHHHHHHHHhhhhhcccCCcC
Q 019599 117 LERDYGVLKANYD-ALKLNYDSLQHDNEALLKEIRELKSKLNEENTESNIS 166 (338)
Q Consensus 117 ler~~~~lk~~~d-~l~~~~dsl~~ene~L~~E~~~LK~kl~~~~~~s~~s 166 (338)
+..+...++.... ..+.+...++.||++|+-+++++|..|..+.......
T Consensus 99 Q~~~f~kiRsel~S~e~sEF~~lr~e~EklkndlEk~ks~lr~ei~~~~a~ 149 (220)
T KOG3156|consen 99 QKVDFAKIRSELVSIERSEFANLRAENEKLKNDLEKLKSSLRHEISKTTAE 149 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchh
Confidence 3334455554333 3457888999999999999999999999988755443
No 65
>smart00340 HALZ homeobox associated leucin zipper.
Probab=45.14 E-value=36 Score=24.67 Aligned_cols=21 Identities=33% Similarity=0.453 Sum_probs=12.6
Q ss_pred hHHHHHHHHHHHHHHHHhhhh
Q 019599 138 LQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 138 l~~ene~L~~E~~~LK~kl~~ 158 (338)
|++=-+.|.+||++|+..+.+
T Consensus 10 LKrcce~LteeNrRL~ke~~e 30 (44)
T smart00340 10 LKRCCESLTEENRRLQKEVQE 30 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 444456666677666666643
No 66
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=44.14 E-value=71 Score=31.78 Aligned_cols=49 Identities=24% Similarity=0.346 Sum_probs=31.1
Q ss_pred HHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 110 ARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 110 AK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
+|+|.+++.+ .+.+--....|-..++.|+.+-..|.+|++.||..+.+.
T Consensus 240 tRYRqKkRae-~E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 240 TRYRQKKRAE-KEALLGELEGLEKRNEELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444443333 233334456677777788888888888888888877654
No 67
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=43.42 E-value=53 Score=31.82 Aligned_cols=32 Identities=22% Similarity=0.282 Sum_probs=13.5
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 123 ~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
.|......+..++..++...+.|..++.+|.+
T Consensus 153 eL~~eleele~e~ee~~erlk~le~E~s~LeE 184 (290)
T COG4026 153 ELLKELEELEAEYEEVQERLKRLEVENSRLEE 184 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444444444444444443
No 68
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=42.31 E-value=25 Score=32.27 Aligned_cols=47 Identities=23% Similarity=0.238 Sum_probs=34.9
Q ss_pred cCCHHHHHHHHHhhhhcCC--CCHHHHHHHHHHhCCCCceEeehhhhhHHH
Q 019599 63 RLSVDQVKALEKNFEVENK--LEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (338)
Q Consensus 63 RfT~eQl~~LE~~F~~~~y--Ps~~~R~eLA~~LgLserQVqVWFQNRRAK 111 (338)
.+|..|+.+|..+|...-| |=.....+||+++|+++.- +|..=|||.
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst--~~ehLRrAe 203 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKST--LSEHLRRAE 203 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHH--HHHHHHHHH
Confidence 4999999999999997765 4444567899999999864 333334444
No 69
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=42.24 E-value=1.1e+02 Score=22.24 Aligned_cols=28 Identities=29% Similarity=0.451 Sum_probs=17.8
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 127 NYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 127 ~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
....+......|..+|..|..++..|+.
T Consensus 26 ~~~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 26 REEELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3344555556666777777777777654
No 70
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=39.72 E-value=69 Score=33.76 Aligned_cols=61 Identities=23% Similarity=0.403 Sum_probs=36.8
Q ss_pred Eeehh---hhhHHHhhHHHHHHHHHHHHhhhHHHh----------hhhhhh----------------------HHHHHHH
Q 019599 101 VAVWF---QNRRARWKTKQLERDYGVLKANYDALK----------LNYDSL----------------------QHDNEAL 145 (338)
Q Consensus 101 VqVWF---QNRRAK~Kkkqler~~~~lk~~~d~l~----------~~~dsl----------------------~~ene~L 145 (338)
.-+|| ||+.+|.+-.++-++.+.|+..-..|. .++..+ -.+|+..
T Consensus 228 ~gcw~ay~Qnk~akehv~km~kdle~Lq~aEqsl~dlQk~Lekar~e~rnvavek~~lerkl~ea~rl~elreg~e~e~~ 307 (575)
T KOG4403|consen 228 GGCWFAYRQNKKAKEHVNKMMKDLEGLQRAEQSLEDLQKRLEKAREEQRNVAVEKLDLERKLDEAPRLSELREGVENETS 307 (575)
T ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhchhhhhhhHHHHHhhhhhhhhhhcchhHHHH
Confidence 34677 899888887777666666654322222 111100 1256677
Q ss_pred HHHHHHHHHhhhhhcc
Q 019599 146 LKEIRELKSKLNEENT 161 (338)
Q Consensus 146 ~~E~~~LK~kl~~~~~ 161 (338)
++|++.|+.+|.+.+.
T Consensus 308 rkelE~lR~~L~kAEk 323 (575)
T KOG4403|consen 308 RKELEQLRVALEKAEK 323 (575)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7788888888877665
No 71
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=38.84 E-value=60 Score=24.68 Aligned_cols=32 Identities=28% Similarity=0.472 Sum_probs=24.4
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 127 NYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 127 ~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
.|..+..+..++..+++.|++||.+|+.-|..
T Consensus 27 rY~~vL~~R~~l~~e~~~L~~qN~eLr~lLkq 58 (60)
T PF14775_consen 27 RYNKVLLDRAALIQEKESLEQQNEELRSLLKQ 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455566677888999999999999987753
No 72
>cd04766 HTH_HspR Helix-Turn-Helix DNA binding domain of the HspR transcription regulator. Helix-turn-helix (HTH) transcription regulator HspR, N-terminal domain. Heat shock protein regulators (HspR) have been shown to regulate expression of specific regulons in response to high temperature or high osmolarity in Streptomyces and Helicobacter, respectively. These proteins share the N-terminal DNA binding domain with other transcription regulators of the MerR superfamily that promote transcription by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their conserved N-terminal domains contain predicted winged HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=38.29 E-value=79 Score=25.08 Aligned_cols=70 Identities=21% Similarity=0.256 Sum_probs=37.7
Q ss_pred HHHHHHHhCCCCceEeehhhhhHHHhhHHH------HHHHHHHHHh----------hhHHHhhhhhhhHHHHHHHHHHHH
Q 019599 87 KVKLAQELGLQPRQVAVWFQNRRARWKTKQ------LERDYGVLKA----------NYDALKLNYDSLQHDNEALLKEIR 150 (338)
Q Consensus 87 R~eLA~~LgLserQVqVWFQNRRAK~Kkkq------ler~~~~lk~----------~~d~l~~~~dsl~~ene~L~~E~~ 150 (338)
..++|+.+|++++.|+.|-+...-+-.+.. ...+...++. ....++. .-.+..+.+.|++++.
T Consensus 4 i~e~A~~~gvs~~tLr~ye~~Gli~p~r~~~g~R~y~~~dv~~l~~i~~L~~d~g~~l~~i~~-~l~l~~~~~~l~~~l~ 82 (91)
T cd04766 4 ISVAAELSGMHPQTLRLYERLGLLSPSRTDGGTRRYSERDIERLRRIQRLTQELGVNLAGVKR-ILELEEELAELRAELD 82 (91)
T ss_pred HHHHHHHHCcCHHHHHHHHHCCCcCCCcCCCCCeeECHHHHHHHHHHHHHHHHcCCCHHHHHH-HHHHHHHHHHHHHHHH
Confidence 356889999999999998754422211100 0011111111 1111111 1235667788888888
Q ss_pred HHHHhhh
Q 019599 151 ELKSKLN 157 (338)
Q Consensus 151 ~LK~kl~ 157 (338)
+|+.++.
T Consensus 83 ~l~~~~~ 89 (91)
T cd04766 83 ELRARLR 89 (91)
T ss_pred HHHHHhc
Confidence 8888775
No 73
>PF04899 MbeD_MobD: MbeD/MobD like ; InterPro: IPR006983 The MbeD and MobD proteins are plasmid encoded, and are involved in the plasmid mobilisation and transfer in the presence of conjugative plasmids [].
Probab=36.36 E-value=1e+02 Score=24.32 Aligned_cols=39 Identities=15% Similarity=0.384 Sum_probs=30.1
Q ss_pred HHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 119 RDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 119 r~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
++...|+..|..|+........++..|.+++..|-.++.
T Consensus 21 ~q~~~Wq~sy~~Lq~~~~~t~~~~a~L~~qv~~Ls~qv~ 59 (70)
T PF04899_consen 21 KQQQEWQSSYADLQHMFEQTSQENAALSEQVNNLSQQVQ 59 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHH
Confidence 345567778888888888888888888888888877664
No 74
>PF00424 REV: REV protein (anti-repression trans-activator protein); InterPro: IPR000625 REV is a viral anti-repression trans-activator protein, which appears to act post-transcriptionally [] to relieve negative repression of GAG and ENV production. It is a phosphoprotein [, ] whose state of phosphorylation is mediated by a specific serine kinase activity present in the nucleus []. REV accumulates in the nucleoli [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0042025 host cell nucleus; PDB: 1ETF_B 1ETG_B 1ULL_B 3LPH_B 2X7L_R.
Probab=35.81 E-value=46 Score=27.68 Aligned_cols=33 Identities=30% Similarity=0.662 Sum_probs=19.1
Q ss_pred HHHHHHhhhhcCCCCHH--HHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 69 VKALEKNFEVENKLEPE--RKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 69 l~~LE~~F~~~~yPs~~--~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
+.+..-.|+.++||... .+.. .|||.+|++++.
T Consensus 14 vRiIk~LyqsnPyP~~~GTr~aR----------------RnRRRRWR~rq~ 48 (91)
T PF00424_consen 14 VRIIKILYQSNPYPSPEGTRQAR----------------RNRRRRWRARQR 48 (91)
T ss_dssp HHHHHHHHHTS-S--S-S-HHHH----------------HHHHHHHHHHHH
T ss_pred HHHHHHHHccccCCCCCCccccc----------------cchhhhHHHHHH
Confidence 34455558889998744 2222 689999998654
No 75
>PF06156 DUF972: Protein of unknown function (DUF972); InterPro: IPR010377 FUNCTION: Involved in initiation control of chromosome replication. SUBUNIT: Interacts with both DnaA and DnaN, acting as a bridge between these two proteins. SIMILARITY: Belongs to the YabA family.
Probab=35.09 E-value=89 Score=26.43 Aligned_cols=40 Identities=28% Similarity=0.317 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
..+-.+.+.||.....|..++..|+.||+.|++.+..+..
T Consensus 18 ~~l~~~~~~LK~~~~~l~EEN~~L~~EN~~Lr~~l~~~~~ 57 (107)
T PF06156_consen 18 GQLLEELEELKKQLQELLEENARLRIENEHLRERLEELEQ 57 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3455667777777777777777888888888877777655
No 76
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=34.78 E-value=1.9e+02 Score=32.41 Aligned_cols=48 Identities=23% Similarity=0.336 Sum_probs=41.4
Q ss_pred HHHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 109 RAK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
-|..++..+.++.+.+++.++.+.+..+.+..+++.|+.++..|+...
T Consensus 213 aAle~kn~L~~e~~s~kk~l~~~~~~k~rl~~d~E~Lr~e~~qL~~~~ 260 (916)
T KOG0249|consen 213 AALEDKNRLEQELESVKKQLEEMRHDKDKLRTDIEDLRGELDQLRRSS 260 (916)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH
Confidence 356677788888999999999999999999999999999999998643
No 77
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=34.65 E-value=1.1e+02 Score=29.57 Aligned_cols=46 Identities=30% Similarity=0.423 Sum_probs=27.0
Q ss_pred HHHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 109 RAK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
|-|.|-.++|++...+++....|+.+.+.|+.+|.+|-+.++=|..
T Consensus 90 RFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylqS 135 (248)
T PF08172_consen 90 RFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQS 135 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4455555666666666666666666655555555555555544433
No 78
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=34.46 E-value=94 Score=32.92 Aligned_cols=44 Identities=18% Similarity=0.274 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 113 KTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 113 Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
|...++++++.+++..+.+......++...+.|..|+..|+.++
T Consensus 77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 34456666666666655555556666777778888888888887
No 79
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=34.00 E-value=1.2e+02 Score=24.46 Aligned_cols=36 Identities=31% Similarity=0.403 Sum_probs=17.3
Q ss_pred HHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 120 DYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 120 ~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
+.+.||..+..|..+....++..+.|..++..||..
T Consensus 26 EieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e 61 (79)
T COG3074 26 EIEELKEKNNSLSQEVQNAQHQREALERENEQLKEE 61 (79)
T ss_pred HHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455544444444444444445555555554443
No 80
>smart00338 BRLZ basic region leucin zipper.
Probab=33.84 E-value=1.2e+02 Score=22.58 Aligned_cols=30 Identities=33% Similarity=0.535 Sum_probs=16.1
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 127 NYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 127 ~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
....|......|..+|..|..++..|+..+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~ 56 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRREL 56 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555555555555555555443
No 81
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=33.31 E-value=41 Score=29.82 Aligned_cols=48 Identities=19% Similarity=0.178 Sum_probs=34.8
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kk 114 (338)
...+++.|..+|... ... ....++|..||++...|..|-+..+.+.|+
T Consensus 4 ~~~Lt~rqreVL~lr-~~G-----lTq~EIAe~LGiS~~tVs~ie~ra~kkLr~ 51 (141)
T PRK03975 4 ESFLTERQIEVLRLR-ERG-----LTQQEIADILGTSRANVSSIEKRARENIEK 51 (141)
T ss_pred ccCCCHHHHHHHHHH-HcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 345899999999773 222 245689999999999999988754444443
No 82
>PF12808 Mto2_bdg: Micro-tubular organiser Mto1 C-term Mto2-binding region; InterPro: IPR024545 This domain occurs at the C terminus of microtubule organising proteins in both budding and fission fungi. In Schizosaccharomyces pombe it has been shown to interact with the Mto2p protein, an interaction which is critical for anchoring the cytokinetic actin ring to the medial region of the cell and for proper coordination of mitosis with cytokinesis [, ].
Probab=33.15 E-value=1.3e+02 Score=22.52 Aligned_cols=38 Identities=26% Similarity=0.237 Sum_probs=24.4
Q ss_pred HHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019599 121 YGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (338)
Q Consensus 121 ~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (338)
...|++.-+.-..+..+.......|..||..|+++|.-
T Consensus 10 e~klkaerE~R~~d~~~a~~rl~~l~~EN~~Lr~eL~~ 47 (52)
T PF12808_consen 10 ERKLKAEREARSLDRSAARKRLSKLEGENRLLRAELER 47 (52)
T ss_pred HHHHHHhHHhccCCchhHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555555556666666777777777777777753
No 83
>PF07407 Seadorna_VP6: Seadornavirus VP6 protein; InterPro: IPR009982 This family consists of several VP6 proteins from the Banna virus as well as a related protein VP5 from the Kadipiro virus. Members of this family are typically of around 420 residues in length. The function of this family is unknown.
Probab=32.93 E-value=47 Score=33.79 Aligned_cols=29 Identities=28% Similarity=0.427 Sum_probs=18.0
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 129 DALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 129 d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
-+|+.++++|++||+.|+.++.+|++.+.
T Consensus 35 ~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 35 FALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 35566666666666666666666655544
No 84
>TIGR02449 conserved hypothetical protein TIGR02449. Members of this family are small proteins, typically 73 amino acids in length, with single copies in each of several Proteobacteria, including Xylella fastidiosa, Pseudomonas aeruginosa, and Xanthomonas campestris. The function is unknown.
Probab=32.23 E-value=1.6e+02 Score=23.03 Aligned_cols=34 Identities=21% Similarity=0.139 Sum_probs=14.5
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 123 ~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
.|-..+..|+.++..++.+...+..|...|.+++
T Consensus 11 ~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 11 HLLEYLERLKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444444444444444444433
No 85
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=31.63 E-value=78 Score=34.15 Aligned_cols=30 Identities=37% Similarity=0.441 Sum_probs=17.6
Q ss_pred HHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 130 ALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 130 ~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
.|...-.++..||+.|++|+..||.+|..-
T Consensus 306 ~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l 335 (655)
T KOG4343|consen 306 GLEARLQALLSENEQLKKENATLKRQLDEL 335 (655)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence 344444555666666666666666666443
No 86
>PF15058 Speriolin_N: Speriolin N terminus
Probab=31.35 E-value=89 Score=29.45 Aligned_cols=40 Identities=30% Similarity=0.334 Sum_probs=21.6
Q ss_pred HHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhccc
Q 019599 122 GVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEENTE 162 (338)
Q Consensus 122 ~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~~~~ 162 (338)
+.+...++.|..++..|++. -+|.+|+.+||..|.+.+.+
T Consensus 8 eGlrhqierLv~ENeeLKKl-VrLirEN~eLksaL~ea~~~ 47 (200)
T PF15058_consen 8 EGLRHQIERLVRENEELKKL-VRLIRENHELKSALGEACAE 47 (200)
T ss_pred HHHHHHHHHHHhhhHHHHHH-HHHHHHHHHHHHHHHHhhcc
Confidence 33444444455555555443 33455667777777766653
No 87
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=30.89 E-value=1.1e+02 Score=26.11 Aligned_cols=40 Identities=25% Similarity=0.389 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 115 kqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
..+-.+.+.||+....+..++..|+.||+.|++.+.++..
T Consensus 18 ~~l~~el~~LK~~~~el~EEN~~L~iEN~~Lr~~l~~~~~ 57 (110)
T PRK13169 18 GVLLKELGALKKQLAELLEENTALRLENDKLRERLEELEA 57 (110)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3566677888888888888888888889888888887744
No 88
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=30.75 E-value=2.2e+02 Score=21.95 Aligned_cols=41 Identities=20% Similarity=0.318 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 117 LERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 117 ler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
+..+....+..+-.+...-......|..|..++..|+.++.
T Consensus 16 ~~eEL~kvk~~n~~~e~kLqeaE~rn~eL~~ei~~L~~e~e 56 (61)
T PF08826_consen 16 IQEELTKVKSANLAFESKLQEAEKRNRELEQEIERLKKEME 56 (61)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445555555555555555556677777777777777664
No 89
>PF05700 BCAS2: Breast carcinoma amplified sequence 2 (BCAS2); InterPro: IPR008409 This family consists of several eukaryotic sequences of unknown function. The mammalian members of this family are annotated as breast carcinoma amplified sequence 2 (BCAS2) proteins []. BCAS2 is a putative spliceosome associated protein [].
Probab=30.49 E-value=1.8e+02 Score=27.24 Aligned_cols=44 Identities=23% Similarity=0.246 Sum_probs=30.7
Q ss_pred HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 116 QLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 116 qler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
........|......+...+-.+......|..|+.+||.+..+.
T Consensus 172 ~~~~~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~~ 215 (221)
T PF05700_consen 172 EAGEELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAEL 215 (221)
T ss_pred HhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344455666666677777777788888888888888876544
No 90
>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=30.39 E-value=15 Score=28.20 Aligned_cols=19 Identities=21% Similarity=0.604 Sum_probs=16.6
Q ss_pred HHHHHHHHhCCCCceEeeh
Q 019599 86 RKVKLAQELGLQPRQVAVW 104 (338)
Q Consensus 86 ~R~eLA~~LgLserQVqVW 104 (338)
.-..||.+||+++.+|+.|
T Consensus 24 ~lkdIA~~Lgvs~~tIr~W 42 (60)
T PF10668_consen 24 KLKDIAEKLGVSESTIRKW 42 (60)
T ss_pred cHHHHHHHHCCCHHHHHHH
Confidence 3457899999999999988
No 91
>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=29.79 E-value=38 Score=23.88 Aligned_cols=38 Identities=16% Similarity=0.148 Sum_probs=25.8
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
+++.+..++.-.|-.. -.-.++|..+|+++..|+.|.+
T Consensus 11 L~~~~r~i~~l~~~~g-----~s~~eIa~~l~~s~~~v~~~l~ 48 (54)
T PF08281_consen 11 LPERQREIFLLRYFQG-----MSYAEIAEILGISESTVKRRLR 48 (54)
T ss_dssp S-HHHHHHHHHHHTS--------HHHHHHHCTS-HHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHC-----cCHHHHHHHHCcCHHHHHHHHH
Confidence 5666777776655433 3567899999999999999886
No 92
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=29.47 E-value=1.6e+02 Score=21.36 Aligned_cols=24 Identities=17% Similarity=0.291 Sum_probs=12.9
Q ss_pred HHhhhHHHhhhhhhhHHHHHHHHH
Q 019599 124 LKANYDALKLNYDSLQHDNEALLK 147 (338)
Q Consensus 124 lk~~~d~l~~~~dsl~~ene~L~~ 147 (338)
+......|...+..|..++..|..
T Consensus 30 le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 30 LEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 344444555555555555555554
No 93
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=28.12 E-value=72 Score=25.71 Aligned_cols=24 Identities=29% Similarity=0.565 Sum_probs=18.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 136 DSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 136 dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
++++.+|..|+.++..|+++|.+.
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888777654
No 94
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=27.86 E-value=1.1e+02 Score=29.05 Aligned_cols=16 Identities=31% Similarity=0.256 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHhhhhh
Q 019599 144 ALLKEIRELKSKLNEE 159 (338)
Q Consensus 144 ~L~~E~~~LK~kl~~~ 159 (338)
.+++|+.+|++.|.-.
T Consensus 97 ~l~~en~~L~~lL~~~ 112 (276)
T PRK13922 97 QLEAENARLRELLNLK 112 (276)
T ss_pred HHHHHHHHHHHHhcCc
Confidence 6677777777766433
No 95
>PF15058 Speriolin_N: Speriolin N terminus
Probab=27.51 E-value=74 Score=29.95 Aligned_cols=31 Identities=29% Similarity=0.515 Sum_probs=21.6
Q ss_pred hhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 126 ANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 126 ~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
.+|+.+.+....+-.||+.|+++++-+|+..
T Consensus 5 ~~yeGlrhqierLv~ENeeLKKlVrLirEN~ 35 (200)
T PF15058_consen 5 TNYEGLRHQIERLVRENEELKKLVRLIRENH 35 (200)
T ss_pred cchHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 4677777777777777777777777776654
No 96
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=26.98 E-value=1.6e+02 Score=28.58 Aligned_cols=31 Identities=29% Similarity=0.455 Sum_probs=20.9
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 127 NYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 127 ~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
..+.+.+....|..||+.|+.++..|+..+.
T Consensus 216 ~~~e~~~r~~~leken~~lr~~v~~l~~el~ 246 (269)
T KOG3119|consen 216 KEDEMAHRVAELEKENEALRTQVEQLKKELA 246 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3355556666677777777777777777664
No 97
>PRK10884 SH3 domain-containing protein; Provisional
Probab=26.82 E-value=1.7e+02 Score=27.36 Aligned_cols=28 Identities=14% Similarity=0.149 Sum_probs=11.8
Q ss_pred hHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 128 YDALKLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 128 ~d~l~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
...|+.++..|+.+.+.++.++..|+.+
T Consensus 134 ~~~L~~~n~~L~~~l~~~~~~~~~l~~~ 161 (206)
T PRK10884 134 INGLKEENQKLKNQLIVAQKKVDAANLQ 161 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444444444444444333
No 98
>PRK14127 cell division protein GpsB; Provisional
Probab=26.76 E-value=1e+02 Score=26.34 Aligned_cols=32 Identities=28% Similarity=0.456 Sum_probs=19.6
Q ss_pred hHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 128 YDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 128 ~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
.+.+..+++.+..++..|+.++.+|+.+|.+-
T Consensus 32 Ld~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~ 63 (109)
T PRK14127 32 LDDVIKDYEAFQKEIEELQQENARLKAQVDEL 63 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555666666777777777777766543
No 99
>PF10224 DUF2205: Predicted coiled-coil protein (DUF2205); InterPro: IPR019357 This entry represents a highly conserved 100 residue region which is likely to have a coiled-coil structure. The exact function is unknown.
Probab=26.75 E-value=2.5e+02 Score=22.73 Aligned_cols=42 Identities=24% Similarity=0.302 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 114 TKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 114 kkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
...++.....|-...+.++.+++.|..+|+-|..=|..|-..
T Consensus 25 i~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~nLm~~ 66 (80)
T PF10224_consen 25 ILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIGNLMSS 66 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 346777788888899999999999999999999999988654
No 100
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=26.52 E-value=2.5e+02 Score=22.88 Aligned_cols=24 Identities=13% Similarity=0.285 Sum_probs=10.5
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 132 KLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 132 ~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
......|.++|+.|+.|...-+++
T Consensus 45 ~~~r~~L~~en~qLk~E~~~Wqer 68 (79)
T PRK15422 45 QHQREELERENNHLKEQQNGWQER 68 (79)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444555555444433333
No 101
>PRK00118 putative DNA-binding protein; Validated
Probab=26.50 E-value=2.1e+02 Score=24.15 Aligned_cols=43 Identities=14% Similarity=0.103 Sum_probs=30.4
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK 111 (338)
++..|..++...|.... ...+||..+|+++..|..|...-|.+
T Consensus 18 L~ekqRevl~L~y~eg~-----S~~EIAe~lGIS~~TV~r~L~RArkk 60 (104)
T PRK00118 18 LTEKQRNYMELYYLDDY-----SLGEIAEEFNVSRQAVYDNIKRTEKL 60 (104)
T ss_pred CCHHHHHHHHHHHHcCC-----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 56777777766555432 35679999999999998887643333
No 102
>cd04779 HTH_MerR-like_sg4 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily. Putative helix-turn-helix (HTH) MerR-like transcription regulators (subgroup 4). Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of 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=26.42 E-value=3.1e+02 Score=23.83 Aligned_cols=35 Identities=9% Similarity=-0.040 Sum_probs=20.6
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhh
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNR 108 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNR 108 (338)
.+.|+..++..|...- ..+.+|++-..|+-++.+.
T Consensus 35 ~R~Y~~~~l~~l~~I~-------------~lr~~G~sL~eI~~~l~~~ 69 (134)
T cd04779 35 YRYYDETALDRLQLIE-------------HLKGQRLSLAEIKDQLEEV 69 (134)
T ss_pred CeeECHHHHHHHHHHH-------------HHHHCCCCHHHHHHHHHhh
Confidence 4459999998885532 2345555555555555443
No 103
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=26.04 E-value=21 Score=41.83 Aligned_cols=57 Identities=21% Similarity=0.109 Sum_probs=49.6
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhhHHHH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~Kkkql 117 (338)
++|++.-|..+|...|+...+|.-.++..++..||+..|.+-.||++++.++.....
T Consensus 448 s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~ 504 (1406)
T KOG1146|consen 448 SKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHP 504 (1406)
T ss_pred hhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhccccc
Confidence 345788888999999988899999999999999999999999999998888876543
No 104
>TIGR01069 mutS2 MutS2 family protein. Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.
Probab=25.91 E-value=1.7e+02 Score=32.66 Aligned_cols=20 Identities=15% Similarity=0.170 Sum_probs=14.1
Q ss_pred CCHHHHHHHHHHhCCCCceE
Q 019599 82 LEPERKVKLAQELGLQPRQV 101 (338)
Q Consensus 82 Ps~~~R~eLA~~LgLserQV 101 (338)
|....-..+|+.+||++..|
T Consensus 480 ~g~S~a~~iA~~~Glp~~ii 499 (771)
T TIGR01069 480 PGESYAFEIAQRYGIPHFII 499 (771)
T ss_pred CCCcHHHHHHHHhCcCHHHH
Confidence 33445567888999988766
No 105
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=25.04 E-value=74 Score=28.19 Aligned_cols=42 Identities=12% Similarity=0.075 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRA 110 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRA 110 (338)
++..+..+|.-.|-.+ ..-.++|..||++...|+++...-|.
T Consensus 143 L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~ 184 (194)
T PRK09646 143 LTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLI 184 (194)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHH
Confidence 7777777776654332 23568899999999999887653333
No 106
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=24.97 E-value=1.9e+02 Score=23.52 Aligned_cols=37 Identities=27% Similarity=0.346 Sum_probs=18.9
Q ss_pred HHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019599 120 DYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (338)
Q Consensus 120 ~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl 156 (338)
+.+.||..+..|..+.+.+....+.|..++..||...
T Consensus 26 EieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~ 62 (79)
T PRK15422 26 EIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQ 62 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3344444444444444444444555666666666554
No 107
>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=24.93 E-value=67 Score=25.69 Aligned_cols=40 Identities=15% Similarity=0.128 Sum_probs=26.7
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNR 108 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNR 108 (338)
+++.+..++...|-.. ....++|..+|+++..|..|...-
T Consensus 111 L~~~~~~ii~~~~~~g-----~s~~eIA~~l~~s~~~v~~~~~~~ 150 (158)
T TIGR02937 111 LPEREREVLVLRYLEG-----LSYKEIAEILGISVGTVKRRLKRA 150 (158)
T ss_pred CCHHHHHHHhhHHhcC-----CCHHHHHHHHCCCHHHHHHHHHHH
Confidence 5666666665544321 235589999999999987766533
No 108
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=24.79 E-value=1.3e+02 Score=32.48 Aligned_cols=34 Identities=29% Similarity=0.350 Sum_probs=28.0
Q ss_pred HHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019599 121 YGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (338)
Q Consensus 121 ~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~ 154 (338)
...|++...+|..+++.|+.||..|++++..|-.
T Consensus 304 ~~~Le~rLq~ll~Ene~Lk~ENatLk~qL~~l~~ 337 (655)
T KOG4343|consen 304 MLGLEARLQALLSENEQLKKENATLKRQLDELVS 337 (655)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhh
Confidence 4567778888888999999999999998887765
No 109
>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=24.61 E-value=3.3e+02 Score=24.73 Aligned_cols=43 Identities=19% Similarity=0.227 Sum_probs=33.6
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehh
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWF 105 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWF 105 (338)
+..++++++..+...-..+ |..-.+..||+++|++..-|.+-.
T Consensus 83 ~y~Lt~e~i~Eir~LR~~D--P~~wTr~~LAkkF~~S~~fV~~v~ 125 (164)
T PF12824_consen 83 KYHLTPEDIQEIRRLRAED--PEKWTRKKLAKKFNCSPLFVSMVA 125 (164)
T ss_pred cccCCHHHHHHHHHHHHcC--chHhhHHHHHHHhCCCHHHHHHhc
Confidence 3449999999998876655 556789999999999987665544
No 110
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=24.34 E-value=69 Score=27.18 Aligned_cols=38 Identities=13% Similarity=-0.025 Sum_probs=28.1
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
+++.+..+|...|-.. ....++|..+|++...|+.|..
T Consensus 129 L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~ 166 (182)
T PRK09652 129 LPEELRTAITLREIEG-----LSYEEIAEIMGCPIGTVRSRIF 166 (182)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHH
Confidence 7777777777665322 1345889999999999988776
No 111
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=24.23 E-value=1.4e+02 Score=29.12 Aligned_cols=18 Identities=28% Similarity=0.248 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHhhhhhc
Q 019599 143 EALLKEIRELKSKLNEEN 160 (338)
Q Consensus 143 e~L~~E~~~LK~kl~~~~ 160 (338)
+.+++||++||+.|.-..
T Consensus 94 ~~l~~EN~rLr~LL~~~~ 111 (283)
T TIGR00219 94 QNLKQENVRLRELLNSPL 111 (283)
T ss_pred HHHHHHHHHHHHHhcCcc
Confidence 348888888888776543
No 112
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=23.94 E-value=87 Score=29.35 Aligned_cols=39 Identities=31% Similarity=0.535 Sum_probs=32.7
Q ss_pred HHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhc
Q 019599 122 GVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEEN 160 (338)
Q Consensus 122 ~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~~ 160 (338)
..+...++.|+..++.+..++..|+.++.+|+..+....
T Consensus 108 kqlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~~~ 146 (198)
T KOG0483|consen 108 KQLEKDYESLKRQLESLRSENDRLQSEVQELVAELSSLK 146 (198)
T ss_pred hhhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhh
Confidence 344457889999999999999999999999999886543
No 113
>cd04765 HTH_MlrA-like_sg2 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators. Putative helix-turn-helix (HTH) MlrA-like transcription regulators (subgroup 2), N-terminal domain. The MlrA protein, also known as YehV, has been shown to control cell-cell aggregation by co-regulating the expression of curli and extracellular matrix production in Escherichia coli and Salmonella typhimurium. These proteins belong to the MerR superfamily of transcription regulators that promote expression of several stress regulon genes by reconfiguring the spacer between the -35 and -10 promoter elements. Their conserved N-terminal domains contain predicted HTH motifs that mediate DNA binding, while the dissimilar C-terminal domains bind specific coactivator molecules.
Probab=23.51 E-value=1.3e+02 Score=24.66 Aligned_cols=34 Identities=18% Similarity=0.078 Sum_probs=22.2
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
+++|+.+++..|... ..|.+.+|++-..|+.+..
T Consensus 36 ~R~Yt~~di~~l~~I------------~~llr~~G~~l~~i~~~l~ 69 (99)
T cd04765 36 RRYYRPKDVELLLLI------------KHLLYEKGYTIEGAKQALK 69 (99)
T ss_pred CeeeCHHHHHHHHHH------------HHHHHHCCCCHHHHHHHHH
Confidence 445999999988543 2345667777766655554
No 114
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=23.45 E-value=69 Score=26.81 Aligned_cols=38 Identities=18% Similarity=0.129 Sum_probs=28.2
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
+++.+..++...|-.+ ....++|..+|++...|+.|..
T Consensus 107 L~~~~r~ii~l~~~~~-----~s~~EIA~~l~is~~tV~~~~~ 144 (154)
T PRK06759 107 LDEKEKYIIFERFFVG-----KTMGEIALETEMTYYQVRWIYR 144 (154)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCCCHHHHHHHHH
Confidence 6777777776655433 2366899999999999988765
No 115
>PF12709 Kinetocho_Slk19: Central kinetochore-associated; InterPro: IPR024312 This is a family of proteins integrally involved in the central kinetochore. Slk19 is a yeast member and it may play an important role in the timing of nuclear migration. It may also participate, directly or indirectly, in the maintenance of centromeric tensile strength during mitotic stagnation, for instance during activation of checkpoint controls, when cells need to preserve nuclear integrity until cell cycle progression can be resumed [].
Probab=23.44 E-value=2.6e+02 Score=23.16 Aligned_cols=43 Identities=37% Similarity=0.529 Sum_probs=26.8
Q ss_pred HHHHHHHHHhhhHH-HhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 117 LERDYGVLKANYDA-LKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 117 ler~~~~lk~~~d~-l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
.+.....|+.+|+. .....+.|+.++..|..|+..|+.+|.-.
T Consensus 32 HE~KV~~LKksYe~rwek~v~~L~~e~~~l~~E~e~L~~~l~~e 75 (87)
T PF12709_consen 32 HETKVKALKKSYEARWEKKVDELENENKALKRENEQLKKKLDTE 75 (87)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445666655543 33445666777777777777777777543
No 116
>PRK10884 SH3 domain-containing protein; Provisional
Probab=23.25 E-value=2.3e+02 Score=26.54 Aligned_cols=35 Identities=17% Similarity=0.089 Sum_probs=19.3
Q ss_pred HHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019599 121 YGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (338)
Q Consensus 121 ~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~k 155 (338)
...|++.+..|+.+...++.+++.|..++..++..
T Consensus 134 ~~~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~~ 168 (206)
T PRK10884 134 INGLKEENQKLKNQLIVAQKKVDAANLQLDDKQRT 168 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33355555555555555555555555555555543
No 117
>PRK12526 RNA polymerase sigma factor; Provisional
Probab=22.99 E-value=77 Score=28.55 Aligned_cols=43 Identities=21% Similarity=0.168 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHH
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK 111 (338)
+++.+..+|...|-.+ ....++|..+|+++..|+++...-|.+
T Consensus 154 L~~~~r~vl~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Ra~~~ 196 (206)
T PRK12526 154 LPEAQQTVVKGVYFQE-----LSQEQLAQQLNVPLGTVKSRLRLALAK 196 (206)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 5666666665443222 235689999999999997776533333
No 118
>PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A.
Probab=22.46 E-value=31 Score=24.14 Aligned_cols=39 Identities=18% Similarity=0.224 Sum_probs=19.0
Q ss_pred CcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehh
Q 019599 62 RRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWF 105 (338)
Q Consensus 62 rRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWF 105 (338)
+.||.++...++..+... ....+||+.+|.+...|..|.
T Consensus 3 ~~Lt~~eR~~I~~l~~~G-----~s~~~IA~~lg~s~sTV~rel 41 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQG-----MSIREIAKRLGRSRSTVSREL 41 (44)
T ss_dssp ---------HHHHHHCS--------HHHHHHHTT--HHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcC-----CCHHHHHHHHCcCcHHHHHHH
Confidence 458889999998887643 345679999999987775554
No 119
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=22.36 E-value=1.8e+02 Score=21.78 Aligned_cols=19 Identities=37% Similarity=0.611 Sum_probs=9.2
Q ss_pred hhhhhHHHHHHHHHHHHHH
Q 019599 134 NYDSLQHDNEALLKEIREL 152 (338)
Q Consensus 134 ~~dsl~~ene~L~~E~~~L 152 (338)
....++.+++.|..++..|
T Consensus 32 ~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 32 EIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHh
Confidence 3344444555555555554
No 120
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=22.15 E-value=60 Score=24.91 Aligned_cols=41 Identities=17% Similarity=0.307 Sum_probs=21.6
Q ss_pred CCHHH-HHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhh
Q 019599 64 LSVDQ-VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (338)
Q Consensus 64 fT~eQ-l~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQ 106 (338)
|+... +.+++.++..+ .--...|. -|+++|+++++|+-|-+
T Consensus 6 y~~~FKL~Vv~~a~~~~-nc~~~~RA-aarkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 6 YTAEFKLKVVEYAEKDN-NCKGNQRA-AARKFNVSRRQVRKWRK 47 (58)
T ss_dssp --HHHHHHHHHHHHH-T-TTTT-HHH-HHHHTTS-HHHHHHHHT
T ss_pred cChHHHHHHHHHHHHcc-chhhhHHH-HHHHhCccHHHHHHHHH
Confidence 55543 44555444332 22122343 49999999999998854
No 121
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=22.00 E-value=2.4e+02 Score=23.60 Aligned_cols=47 Identities=15% Similarity=0.220 Sum_probs=26.6
Q ss_pred EeehhhhhHHHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHH
Q 019599 101 VAVWFQNRRARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKE 148 (338)
Q Consensus 101 VqVWFQNRRAK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E 148 (338)
...||+..=- .+-.+++++...+++.+..++..+..|+.+.+.|+..
T Consensus 17 y~l~~g~~G~-~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~ 63 (105)
T PRK00888 17 YSLWFGKNGI-LDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGG 63 (105)
T ss_pred HHHhccCCcH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCc
Confidence 3467754311 1122344455666666667777777777777777653
No 122
>PRK12543 RNA polymerase sigma factor; Provisional
Probab=21.91 E-value=1.4e+02 Score=26.05 Aligned_cols=45 Identities=11% Similarity=0.090 Sum_probs=27.2
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~K 113 (338)
+++.+..++.-.|-.. ....++|..+|++...|++....-|.+.|
T Consensus 118 Lp~~~r~i~~l~~~e~-----~s~~EIA~~lgis~~tV~~~l~ra~~~Lr 162 (179)
T PRK12543 118 LPYKLRQVIILRYLHD-----YSQEEIAQLLQIPIGTVKSRIHAALKKLR 162 (179)
T ss_pred CCHHHHHHHHHHHHcc-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5555555555543222 23458899999999888776554333333
No 123
>cd01106 HTH_TipAL-Mta Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA. Helix-turn-helix (HTH) TipAL, Mta, and SkgA transcription regulators, and related proteins, N-terminal domain. TipAL regulates resistance to and activation by numerous cyclic thiopeptide antibiotics, such as thiostrepton. Mta is a global transcriptional regulator; the N-terminal DNA-binding domain of Mta interacts directly with the promoters of mta, bmr, blt, and ydfK, and induces transcription of these multidrug-efflux transport genes. SkgA has been shown to control stationary-phase expression of catalase-peroxidase in Caulobacter crescentus. These proteins are comprised of distinct domains that harbor an N-terminal active (DNA-binding) site and a regulatory (effector-binding) site. The conserved N-terminal domain of these transcription regulators contains winged HTH motifs that mediate DNA binding. These proteins share the N-terminal DNA binding domain with other transcrip
Probab=21.83 E-value=2.7e+02 Score=22.45 Aligned_cols=35 Identities=14% Similarity=0.308 Sum_probs=22.7
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhh
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNR 108 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNR 108 (338)
.+.|+..++..|..... .+.+|++..+|+-++...
T Consensus 36 ~R~y~~~di~~l~~i~~-------------lr~~g~~l~~i~~~~~~~ 70 (103)
T cd01106 36 YRLYTEEDLERLQQILF-------------LKELGFSLKEIKELLKDP 70 (103)
T ss_pred ceeeCHHHHHHHHHHHH-------------HHHcCCCHHHHHHHHHcC
Confidence 34599999998865432 345677766666666543
No 124
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=21.79 E-value=96 Score=26.23 Aligned_cols=45 Identities=13% Similarity=0.121 Sum_probs=29.0
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~K 113 (338)
+++.+..++.-.|-... .-.++|..+|+++..|++....-|.+.|
T Consensus 107 Lp~~~r~v~~l~~~~g~-----s~~EIA~~lgis~~tV~~~l~Rar~~Lr 151 (160)
T PRK09642 107 LPENYRDVVLAHYLEEK-----SYQEIALQEKIEVKTVEMKLYRARKWIK 151 (160)
T ss_pred CCHHHHHHHHHHHHhCC-----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 56666666655443221 2458899999999999887754444333
No 125
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=21.70 E-value=2.2e+02 Score=31.85 Aligned_cols=20 Identities=20% Similarity=0.338 Sum_probs=14.1
Q ss_pred CCHHHHHHHHHHhCCCCceE
Q 019599 82 LEPERKVKLAQELGLQPRQV 101 (338)
Q Consensus 82 Ps~~~R~eLA~~LgLserQV 101 (338)
|....-..+|+.+||++..|
T Consensus 485 ~g~S~a~~iA~~~Glp~~ii 504 (782)
T PRK00409 485 PGKSNAFEIAKRLGLPENII 504 (782)
T ss_pred CCCcHHHHHHHHhCcCHHHH
Confidence 33445567889999988776
No 126
>PF07798 DUF1640: Protein of unknown function (DUF1640); InterPro: IPR024461 This family consists of uncharacterised proteins.
Probab=21.49 E-value=1.6e+02 Score=26.50 Aligned_cols=35 Identities=31% Similarity=0.502 Sum_probs=23.4
Q ss_pred hhhhhhHHHHHHHHHHHHHHHHhhhhhcccCCcCc
Q 019599 133 LNYDSLQHDNEALLKEIRELKSKLNEENTESNISV 167 (338)
Q Consensus 133 ~~~dsl~~ene~L~~E~~~LK~kl~~~~~~s~~s~ 167 (338)
.+...++.+++.|+.++..|+.+|.++...-..++
T Consensus 73 ~~~~~lr~~~e~L~~eie~l~~~L~~ei~~l~a~~ 107 (177)
T PF07798_consen 73 SEFAELRSENEKLQREIEKLRQELREEINKLRAEV 107 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455667778888888888888877765444333
No 127
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=21.47 E-value=84 Score=26.58 Aligned_cols=45 Identities=18% Similarity=0.178 Sum_probs=29.1
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~K 113 (338)
+++.+..++...|... ..-.++|..+|+++..|..|...=|.+.|
T Consensus 126 L~~~~r~i~~l~~~~~-----~~~~eIA~~lgis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 126 LPVKQREVFLLRYVEG-----LSYREIAEILGVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred CCHHHHHHhhHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 5556666655544322 23468999999999999888764333333
No 128
>PRK11546 zraP zinc resistance protein; Provisional
Probab=21.36 E-value=1.3e+02 Score=26.89 Aligned_cols=31 Identities=26% Similarity=0.275 Sum_probs=17.0
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019599 129 DALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (338)
Q Consensus 129 d~l~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (338)
++|............+|.+|+..|+.+|.+.
T Consensus 78 nALl~~~~pD~~kI~aL~kEI~~Lr~kL~e~ 108 (143)
T PRK11546 78 NALLTANPPDSSKINAVAKEMENLRQSLDEL 108 (143)
T ss_pred HHHHcCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 3343333333444566777777777766543
No 129
>PRK12514 RNA polymerase sigma factor; Provisional
Probab=20.78 E-value=1.1e+02 Score=26.54 Aligned_cols=45 Identities=13% Similarity=0.267 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHHHhh
Q 019599 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (338)
Q Consensus 64 fT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRAK~K 113 (338)
+++.+..++...|-.. ....++|..+|+++..|+++...-|.+.|
T Consensus 130 L~~~~r~i~~l~~~~g-----~s~~eIA~~lgis~~tV~~~l~Rar~~Lr 174 (179)
T PRK12514 130 LEKDRAAAVRRAYLEG-----LSYKELAERHDVPLNTMRTWLRRSLLKLR 174 (179)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCChHHHHHHHHHHHHHHH
Confidence 5666666565554222 23568999999999999887764444333
No 130
>PF11559 ADIP: Afadin- and alpha -actinin-Binding; InterPro: IPR021622 This family is found in mammals where it is localised at cell-cell adherens junctions [], and in Sch. pombe and other fungi where it anchors spindle-pole bodies to spindle microtubules []. It is a coiled-coil structure, and in pombe, it is required for anchoring the minus end of spindle microtubules to the centrosome equivalent, the spindle-pole body. The name ADIP derives from the family being composed of Afadin- and alpha -Actinin-Binding Proteins Localised at Cell-Cell Adherens Junctions.
Probab=20.12 E-value=4.1e+02 Score=22.86 Aligned_cols=49 Identities=22% Similarity=0.321 Sum_probs=24.4
Q ss_pred HHHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019599 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (338)
Q Consensus 109 RAK~Kkkqler~~~~lk~~~d~l~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (338)
|.+.+-...+++...++.....+......+...+...++++.+++..+.
T Consensus 77 rL~~~~~~~ere~~~~~~~~~~l~~~~~~~~~~~k~~kee~~klk~~~~ 125 (151)
T PF11559_consen 77 RLKEQLEELERELASAEEKERQLQKQLKSLEAKLKQEKEELQKLKNQLQ 125 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444444444444445555555555555555555555554443
No 131
>cd04769 HTH_MerR2 Helix-Turn-Helix DNA binding domain of MerR2-like transcription regulators. Helix-turn-helix (HTH) transcription regulator MerR2 and related proteins. MerR2 in Bacillus cereus RC607 regulates resistance to organomercurials. 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 by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=20.05 E-value=2.2e+02 Score=23.65 Aligned_cols=37 Identities=22% Similarity=0.347 Sum_probs=24.4
Q ss_pred CCcCCHHHHHHHHHhhhhcCCCCHHHHHHHHHHhCCCCceEeehhhhhHH
Q 019599 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRA 110 (338)
Q Consensus 61 RrRfT~eQl~~LE~~F~~~~yPs~~~R~eLA~~LgLserQVqVWFQNRRA 110 (338)
.+.|+..++..|.. ....+.+|++-..|+..+.....
T Consensus 35 yR~Y~~~d~~~l~~-------------I~~lr~~G~sl~eI~~~l~~~~~ 71 (116)
T cd04769 35 YRVYDAQHVECLRF-------------IKEARQLGFTLAELKAIFAGHEG 71 (116)
T ss_pred ceeeCHHHHHHHHH-------------HHHHHHcCCCHHHHHHHHhcccc
Confidence 34489998888743 33356777777777777655443
Done!