Query 019577
Match_columns 339
No_of_seqs 279 out of 1522
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 02:52:31 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019577.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019577hhsearch_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 3.4E-21 7.5E-26 176.5 6.6 106 54-159 47-152 (198)
2 KOG0842 Transcription factor t 99.7 4E-17 8.6E-22 158.0 5.9 66 56-121 150-217 (307)
3 KOG0489 Transcription factor z 99.6 1.3E-16 2.9E-21 151.3 2.4 61 56-116 158-218 (261)
4 KOG0488 Transcription factor B 99.6 9E-16 1.9E-20 149.2 7.4 54 64-117 179-232 (309)
5 KOG0487 Transcription factor A 99.6 5.1E-15 1.1E-19 143.5 8.0 62 56-117 234-295 (308)
6 KOG0843 Transcription factor E 99.5 4.5E-15 9.7E-20 134.0 4.7 61 58-118 103-163 (197)
7 KOG0484 Transcription factor P 99.5 2.7E-15 5.9E-20 125.3 2.8 58 59-116 19-76 (125)
8 KOG0850 Transcription factor D 99.5 7.9E-15 1.7E-19 136.6 5.0 56 60-115 125-180 (245)
9 PF00046 Homeobox: Homeobox do 99.5 7.3E-15 1.6E-19 107.6 3.6 57 58-114 1-57 (57)
10 KOG0485 Transcription factor N 99.5 1.2E-14 2.7E-19 134.6 5.0 59 58-116 103-163 (268)
11 KOG0492 Transcription factor M 99.5 5.2E-14 1.1E-18 129.7 7.0 60 57-116 144-203 (246)
12 KOG2251 Homeobox transcription 99.5 4.3E-14 9.2E-19 131.1 4.6 62 56-117 36-97 (228)
13 KOG0494 Transcription factor C 99.4 5.9E-14 1.3E-18 133.0 4.7 56 64-119 148-203 (332)
14 KOG0848 Transcription factor C 99.4 3.1E-14 6.7E-19 135.2 2.7 52 64-115 206-257 (317)
15 KOG0493 Transcription factor E 99.4 1.3E-13 2.9E-18 130.7 6.2 94 26-119 212-308 (342)
16 cd00086 homeodomain Homeodomai 99.4 4.2E-13 9.2E-18 97.7 3.8 57 59-115 2-58 (59)
17 COG5576 Homeodomain-containing 99.4 7.5E-13 1.6E-17 117.7 5.2 63 55-117 49-111 (156)
18 smart00389 HOX Homeodomain. DN 99.3 5.8E-13 1.3E-17 96.6 3.6 55 59-113 2-56 (56)
19 KOG4577 Transcription factor L 99.3 1.4E-12 3E-17 125.3 3.3 91 53-144 163-253 (383)
20 TIGR01565 homeo_ZF_HD homeobox 99.3 6.3E-12 1.4E-16 95.0 5.4 52 58-109 2-57 (58)
21 KOG0486 Transcription factor P 99.2 8E-12 1.7E-16 121.1 4.8 57 64-120 119-175 (351)
22 KOG0491 Transcription factor B 99.2 2E-12 4.4E-17 115.7 -0.6 57 61-117 104-160 (194)
23 KOG3802 Transcription factor O 99.2 1.6E-11 3.5E-16 122.1 5.6 60 56-115 293-352 (398)
24 KOG0844 Transcription factor E 99.2 9.4E-12 2E-16 120.4 3.5 58 61-118 185-242 (408)
25 KOG0847 Transcription factor, 99.1 2.4E-11 5.2E-16 113.2 2.3 62 55-116 165-226 (288)
26 KOG0490 Transcription factor, 99.0 2.3E-10 5.1E-15 103.7 3.6 61 56-116 59-119 (235)
27 KOG0849 Transcription factor P 98.7 8.3E-09 1.8E-13 102.3 3.7 59 58-116 177-235 (354)
28 KOG1168 Transcription factor A 98.7 1.1E-08 2.5E-13 98.7 3.9 63 53-115 305-367 (385)
29 KOG0775 Transcription factor S 98.5 9.2E-08 2E-12 91.8 3.7 51 64-114 183-233 (304)
30 KOG0774 Transcription factor P 98.1 1.9E-06 4.2E-11 82.5 2.5 59 57-115 188-249 (334)
31 PF05920 Homeobox_KN: Homeobox 97.9 2.9E-06 6.3E-11 59.6 0.3 34 78-111 7-40 (40)
32 PF02183 HALZ: Homeobox associ 97.8 5E-05 1.1E-09 54.9 4.9 44 115-158 1-44 (45)
33 KOG0490 Transcription factor, 97.6 4.2E-05 9.1E-10 69.4 3.7 59 58-116 154-212 (235)
34 KOG2252 CCAAT displacement pro 97.2 0.00022 4.7E-09 74.3 3.5 56 57-112 420-475 (558)
35 KOG1146 Homeobox protein [Gene 96.9 0.00063 1.4E-08 76.7 3.2 62 56-117 902-963 (1406)
36 KOG0773 Transcription factor M 95.5 0.012 2.6E-07 57.7 3.5 55 62-116 244-301 (342)
37 PF11569 Homez: Homeodomain le 94.3 0.012 2.6E-07 44.6 0.0 41 69-109 10-50 (56)
38 KOG3623 Homeobox transcription 91.0 0.13 2.8E-06 56.0 2.2 48 69-116 568-615 (1007)
39 PF02183 HALZ: Homeobox associ 90.3 0.55 1.2E-05 34.0 4.2 35 124-158 3-37 (45)
40 PRK09413 IS2 repressor TnpA; R 88.2 1.2 2.5E-05 37.7 5.5 42 60-106 9-51 (121)
41 PF04218 CENP-B_N: CENP-B N-te 87.2 0.63 1.4E-05 34.3 2.9 47 58-109 1-47 (53)
42 KOG4005 Transcription factor X 75.8 19 0.00041 35.0 8.9 52 106-157 82-135 (292)
43 PF10224 DUF2205: Predicted co 69.4 22 0.00047 28.9 6.6 45 113-157 17-61 (80)
44 PF00170 bZIP_1: bZIP transcri 67.7 31 0.00068 25.8 6.9 35 121-155 28-62 (64)
45 PF06156 DUF972: Protein of un 65.3 23 0.00049 30.0 6.2 47 115-161 11-57 (107)
46 PRK13169 DNA replication intia 58.4 35 0.00077 29.1 6.3 45 115-159 11-55 (110)
47 PF04967 HTH_10: HTH DNA bindi 57.4 14 0.0003 27.6 3.2 38 64-101 1-40 (53)
48 smart00340 HALZ homeobox assoc 56.2 19 0.00041 26.1 3.6 25 130-154 9-33 (44)
49 PF06005 DUF904: Protein of un 56.2 48 0.001 26.2 6.2 30 124-153 23-52 (72)
50 KOG4196 bZIP transcription fac 55.4 89 0.0019 27.8 8.3 79 62-156 22-111 (135)
51 COG4467 Regulator of replicati 51.8 37 0.0008 29.3 5.2 43 116-158 12-54 (114)
52 PF06005 DUF904: Protein of un 50.6 83 0.0018 24.9 6.8 45 113-157 19-63 (72)
53 KOG3119 Basic region leucine z 50.3 48 0.001 32.1 6.6 30 129-158 225-254 (269)
54 smart00338 BRLZ basic region l 49.8 86 0.0019 23.4 6.6 34 123-156 30-63 (65)
55 KOG3156 Uncharacterized membra 48.2 49 0.0011 31.6 6.0 47 119-165 101-148 (220)
56 PF04545 Sigma70_r4: Sigma-70, 46.4 16 0.00035 25.7 2.0 38 63-105 4-41 (50)
57 PF01527 HTH_Tnp_1: Transposas 45.3 5.8 0.00013 29.9 -0.5 44 59-106 2-45 (76)
58 cd06171 Sigma70_r4 Sigma70, re 44.7 12 0.00026 25.0 1.1 42 64-110 11-52 (55)
59 PRK00888 ftsB cell division pr 44.6 42 0.00091 28.1 4.6 27 128-154 36-62 (105)
60 cd00569 HTH_Hin_like Helix-tur 44.3 25 0.00053 20.8 2.4 37 63-104 5-41 (42)
61 PF00170 bZIP_1: bZIP transcri 44.1 89 0.0019 23.3 5.9 31 126-156 26-56 (64)
62 KOG0709 CREB/ATF family transc 43.0 92 0.002 32.9 7.6 36 122-157 282-317 (472)
63 COG4026 Uncharacterized protei 42.6 57 0.0012 31.7 5.6 33 123-155 153-185 (290)
64 COG3413 Predicted DNA binding 40.5 29 0.00062 31.9 3.2 38 63-100 155-194 (215)
65 PF14775 NYD-SP28_assoc: Sperm 39.1 61 0.0013 24.7 4.3 32 127-158 27-58 (60)
66 PF07716 bZIP_2: Basic region 36.8 1.5E+02 0.0032 21.6 5.9 26 129-154 28-53 (54)
67 PF13443 HTH_26: Cro/C1-type H 36.8 17 0.00036 26.5 0.9 37 86-122 12-48 (63)
68 KOG4571 Activating transcripti 35.5 1.2E+02 0.0025 30.3 6.6 49 110-159 240-288 (294)
69 PRK13729 conjugal transfer pil 34.3 96 0.0021 32.9 6.2 44 113-156 77-120 (475)
70 KOG1146 Homeobox protein [Gene 34.2 13 0.00028 43.5 -0.1 58 61-118 448-505 (1406)
71 PF00424 REV: REV protein (ant 33.8 55 0.0012 27.3 3.5 33 69-117 14-48 (91)
72 KOG4403 Cell surface glycoprot 32.9 93 0.002 32.9 5.7 25 102-126 229-256 (575)
73 PF12808 Mto2_bdg: Micro-tubul 32.5 1.4E+02 0.003 22.4 5.1 38 121-158 10-47 (52)
74 KOG0249 LAR-interacting protei 32.2 2.2E+02 0.0047 32.1 8.6 48 109-156 213-260 (916)
75 COG3074 Uncharacterized protei 31.9 1.3E+02 0.0029 24.1 5.2 39 117-155 23-61 (79)
76 PF04899 MbeD_MobD: MbeD/MobD 31.4 1.4E+02 0.0031 23.5 5.4 39 119-157 21-59 (70)
77 PF06156 DUF972: Protein of un 30.8 1.2E+02 0.0026 25.7 5.2 40 115-154 18-57 (107)
78 PF07407 Seadorna_VP6: Seadorn 30.8 54 0.0012 33.4 3.5 30 128-157 34-63 (420)
79 PF07334 IFP_35_N: Interferon- 29.9 64 0.0014 26.0 3.2 24 136-159 3-26 (76)
80 PRK03975 tfx putative transcri 28.7 49 0.0011 29.4 2.6 48 61-114 4-51 (141)
81 PRK13169 DNA replication intia 28.4 1.4E+02 0.0029 25.6 5.1 40 115-154 18-57 (110)
82 TIGR02449 conserved hypothetic 28.1 2.1E+02 0.0046 22.4 5.7 35 122-156 10-44 (65)
83 PRK14127 cell division protein 27.9 96 0.0021 26.5 4.1 33 127-159 31-63 (109)
84 PF10668 Phage_terminase: Phag 27.1 17 0.00037 27.9 -0.5 19 86-104 24-42 (60)
85 smart00338 BRLZ basic region l 27.0 1.9E+02 0.0042 21.5 5.3 30 127-156 27-56 (65)
86 cd04766 HTH_HspR Helix-Turn-He 26.9 1.1E+02 0.0023 24.3 4.1 22 87-108 4-25 (91)
87 PF15058 Speriolin_N: Sperioli 26.7 79 0.0017 29.8 3.7 39 123-162 9-47 (200)
88 PF07716 bZIP_2: Basic region 26.7 1.9E+02 0.0042 20.9 5.1 23 125-147 31-53 (54)
89 PF08172 CASP_C: CASP C termin 26.4 1.8E+02 0.0039 28.1 6.2 45 109-153 90-134 (248)
90 PRK13922 rod shape-determining 25.4 1.3E+02 0.0029 28.5 5.2 16 144-159 97-112 (276)
91 PRK10884 SH3 domain-containing 25.2 2.2E+02 0.0049 26.6 6.4 23 131-153 137-159 (206)
92 cd04779 HTH_MerR-like_sg4 Heli 25.0 1.4E+02 0.003 26.0 4.7 16 60-75 34-49 (134)
93 PRK15422 septal ring assembly 24.7 2.9E+02 0.0063 22.5 6.1 29 127-155 40-68 (79)
94 smart00340 HALZ homeobox assoc 24.6 1.3E+02 0.0028 21.9 3.6 32 116-147 2-33 (44)
95 PRK10884 SH3 domain-containing 24.5 2.1E+02 0.0046 26.8 6.1 32 123-154 136-167 (206)
96 KOG3119 Basic region leucine z 24.5 1.9E+02 0.0041 28.0 6.0 30 129-158 218-247 (269)
97 PF15058 Speriolin_N: Sperioli 24.5 1.4E+02 0.0031 28.2 4.9 31 126-156 5-35 (200)
98 PRK09646 RNA polymerase sigma 24.3 70 0.0015 28.3 2.9 45 64-113 143-187 (194)
99 PF05700 BCAS2: Breast carcino 23.5 2.8E+02 0.0061 25.9 6.8 40 120-159 176-215 (221)
100 KOG0483 Transcription factor H 23.2 1.1E+02 0.0023 28.8 3.9 38 123-160 109-146 (198)
101 PRK15422 septal ring assembly 23.0 2.3E+02 0.0049 23.1 5.2 40 117-156 23-62 (79)
102 PF08281 Sigma70_r4_2: Sigma-7 22.8 48 0.001 23.4 1.2 38 64-106 11-48 (54)
103 TIGR02937 sigma70-ECF RNA poly 22.5 71 0.0015 25.6 2.3 43 64-111 111-153 (158)
104 PF12709 Kinetocho_Slk19: Cent 22.5 2.8E+02 0.0061 22.9 5.7 43 117-159 32-75 (87)
105 KOG4343 bZIP transcription fac 22.4 1.6E+02 0.0035 31.9 5.4 24 134-157 310-333 (655)
106 TIGR00219 mreC rod shape-deter 22.2 1.6E+02 0.0036 28.6 5.1 18 143-160 94-111 (283)
107 PRK09652 RNA polymerase sigma 22.1 73 0.0016 27.0 2.4 42 64-110 129-170 (182)
108 TIGR01069 mutS2 MutS2 family p 22.0 2.5E+02 0.0055 31.3 7.1 20 82-101 480-499 (771)
109 PF14197 Cep57_CLD_2: Centroso 21.7 3.9E+02 0.0085 20.8 6.7 18 139-156 46-63 (69)
110 PF08826 DMPK_coil: DMPK coile 21.4 3.9E+02 0.0084 20.6 6.2 41 117-157 16-56 (61)
111 PRK00409 recombination and DNA 21.4 2.2E+02 0.0048 31.8 6.5 20 82-101 485-504 (782)
112 PF04977 DivIC: Septum formati 21.4 2E+02 0.0044 21.5 4.6 22 131-152 29-50 (80)
113 PRK11924 RNA polymerase sigma 20.8 90 0.0019 26.4 2.7 45 64-113 126-170 (179)
114 PRK06759 RNA polymerase factor 20.7 76 0.0016 26.6 2.2 39 64-107 107-145 (154)
115 KOG4196 bZIP transcription fac 20.4 3.4E+02 0.0074 24.2 6.2 41 114-154 76-116 (135)
116 PF09607 BrkDBD: Brinker DNA-b 20.3 61 0.0013 24.9 1.4 44 61-106 3-47 (58)
117 PRK09642 RNA polymerase sigma 20.3 97 0.0021 26.2 2.8 46 64-114 107-152 (160)
118 TIGR03752 conj_TIGR03752 integ 20.3 1.6E+02 0.0035 31.2 4.9 11 63-73 41-51 (472)
No 1
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=99.83 E-value=3.4e-21 Score=176.51 Aligned_cols=106 Identities=59% Similarity=0.905 Sum_probs=96.3
Q ss_pred CCCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHHHHHHHHHhhhHHHhh
Q 019577 54 GGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLKANYDALKL 133 (339)
Q Consensus 54 ~~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek~~~~lk~~~d~L~~ 133 (339)
+....+|++||+.+|+..||+.|+...++.+.++..||++|||.+|||+|||||||||||.++++.+++.||..++.|..
T Consensus 47 ~~~~~~kk~Rlt~eQ~~~LE~~F~~~~~L~p~~K~~LAk~LgL~pRQVavWFQNRRARwK~kqlE~d~~~Lk~~~~~l~~ 126 (198)
T KOG0483|consen 47 GSKGKGKKRRLTSEQVKFLEKSFESEKKLEPERKKKLAKELGLQPRQVAVWFQNRRARWKTKQLEKDYESLKRQLESLRS 126 (198)
T ss_pred ccccccccccccHHHHHHhHHhhccccccChHHHHHHHHhhCCChhHHHHHHhhccccccchhhhhhHHHHHHHHHHHhh
Confidence 34466778889999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 134 NYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 134 ~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
+++.++.++..|..++..++..++..
T Consensus 127 ~~~~Lq~e~~eL~~~~~~~~~~~~~~ 152 (198)
T KOG0483|consen 127 ENDRLQSEVQELVAELSSLKREMQKS 152 (198)
T ss_pred hhhHHHHHHHHHHHHHhhhhhhhccC
Confidence 88888888888888887777766543
No 2
>KOG0842 consensus Transcription factor tinman/NKX2-3, contains HOX domain [Transcription]
Probab=99.67 E-value=4e-17 Score=158.04 Aligned_cols=66 Identities=38% Similarity=0.597 Sum_probs=58.9
Q ss_pred CCCCCCCc--CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHHHHH
Q 019577 56 HVSEKKRR--LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDY 121 (339)
Q Consensus 56 ~~krKRrR--fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek~~ 121 (339)
.++|||+| ||..|+.+||+.|...+|++..+|++||..|+|+++||||||||||-|.||++.++..
T Consensus 150 ~~~kRKrRVLFSqAQV~ELERRFrqQRYLSAPERE~LA~~LrLT~TQVKIWFQNrRYK~KR~~~dk~~ 217 (307)
T KOG0842|consen 150 KRKKRKRRVLFSQAQVYELERRFRQQRYLSAPEREHLASSLRLTPTQVKIWFQNRRYKTKRQQKDKAL 217 (307)
T ss_pred cccccccccccchhHHHHHHHHHHhhhccccHhHHHHHHhcCCCchheeeeeecchhhhhhhhhhhhh
Confidence 33444444 9999999999999999999999999999999999999999999999999998776653
No 3
>KOG0489 consensus Transcription factor zerknullt and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=1.3e-16 Score=151.32 Aligned_cols=61 Identities=33% Similarity=0.686 Sum_probs=55.8
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
..||.|+-||..|+.+||+.|..++|++..+|.+||..|.|+++||||||||||+||||..
T Consensus 158 ~~kR~RtayT~~QllELEkEFhfN~YLtR~RRiEiA~~L~LtErQIKIWFQNRRMK~Kk~~ 218 (261)
T KOG0489|consen 158 KSKRRRTAFTRYQLLELEKEFHFNKYLTRSRRIEIAHALNLTERQIKIWFQNRRMKWKKEN 218 (261)
T ss_pred CCCCCCcccchhhhhhhhhhhccccccchHHHHHHHhhcchhHHHHHHHHHHHHHHHHHhh
Confidence 3455555599999999999999999999999999999999999999999999999999853
No 4
>KOG0488 consensus Transcription factor BarH and related HOX domain proteins [General function prediction only]
Probab=99.61 E-value=9e-16 Score=149.22 Aligned_cols=54 Identities=43% Similarity=0.714 Sum_probs=52.3
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
||..|+..||+.|++.+|++..+|.+||+.|||+..||++||||||+|||+...
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 999999999999999999999999999999999999999999999999999643
No 5
>KOG0487 consensus Transcription factor Abd-B, contains HOX domain [Transcription]
Probab=99.56 E-value=5.1e-15 Score=143.55 Aligned_cols=62 Identities=32% Similarity=0.492 Sum_probs=56.8
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
..||||..+|..|+.+||+.|..|.|++.+.|.+|++.|+|++|||+|||||||+|.||..+
T Consensus 234 ~~RKKRcPYTK~QtlELEkEFlfN~YitkeKR~ElSr~lNLTeRQVKIWFQNRRMK~KK~~r 295 (308)
T KOG0487|consen 234 RGRKKRCPYTKHQTLELEKEFLFNMYITKEKRLELSRTLNLTERQVKIWFQNRRMKEKKVNR 295 (308)
T ss_pred ccccccCCchHHHHHHHHHHHHHHHHHhHHHHHHHHHhcccchhheeeeehhhhhHHhhhhh
Confidence 34555666999999999999999999999999999999999999999999999999998654
No 6
>KOG0843 consensus Transcription factor EMX1 and related HOX domain proteins [Transcription]
Probab=99.54 E-value=4.5e-15 Score=134.05 Aligned_cols=61 Identities=36% Similarity=0.519 Sum_probs=56.1
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~e 118 (339)
||.|+.||.+||..||..|+.++|....+|..||..|+|++.||+|||||||+|.||.+.+
T Consensus 103 kr~RT~ft~~Ql~~LE~~F~~~~Yvvg~eR~~LA~~L~LsetQVkvWFQNRRtk~kr~~~e 163 (197)
T KOG0843|consen 103 KRIRTAFTPEQLLKLEHAFEGNQYVVGAERKQLAQSLSLSETQVKVWFQNRRTKHKRMQQE 163 (197)
T ss_pred CccccccCHHHHHHHHHHHhcCCeeechHHHHHHHHcCCChhHhhhhhhhhhHHHHHHHHH
Confidence 4444559999999999999999999999999999999999999999999999999997654
No 7
>KOG0484 consensus Transcription factor PHOX2/ARIX, contains HOX domain [Transcription]
Probab=99.53 E-value=2.7e-15 Score=125.28 Aligned_cols=58 Identities=28% Similarity=0.519 Sum_probs=53.8
Q ss_pred CCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 59 rKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
+-|+.||..||..||+.|...+||++-.|++||.++.|++.+|||||||||||.||+.
T Consensus 19 RIRTTFTS~QLkELErvF~ETHYPDIYTREEiA~kidLTEARVQVWFQNRRAKfRKQE 76 (125)
T KOG0484|consen 19 RIRTTFTSAQLKELERVFAETHYPDIYTREEIALKIDLTEARVQVWFQNRRAKFRKQE 76 (125)
T ss_pred hhhhhhhHHHHHHHHHHHHhhcCCcchhHHHHHHhhhhhHHHHHHHHHhhHHHHHHHH
Confidence 3344499999999999999999999999999999999999999999999999999864
No 8
>KOG0850 consensus Transcription factor DLX and related proteins with LIM Zn-binding and HOX domains [Transcription]
Probab=99.52 E-value=7.9e-15 Score=136.62 Aligned_cols=56 Identities=36% Similarity=0.592 Sum_probs=52.5
Q ss_pred CCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 60 KKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 60 KRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
.|+.++.-||..|.+.|++++|+-..+|.+||+.|||+.+||||||||||.|.||.
T Consensus 125 PRTIYSS~QLqaL~rRFQkTQYLALPERAeLAAsLGLTQTQVKIWFQNrRSK~KKl 180 (245)
T KOG0850|consen 125 PRTIYSSLQLQALNRRFQQTQYLALPERAELAASLGLTQTQVKIWFQNRRSKFKKL 180 (245)
T ss_pred CcccccHHHHHHHHHHHhhcchhcCcHHHHHHHHhCCchhHhhhhhhhhHHHHHHH
Confidence 34449999999999999999999999999999999999999999999999999983
No 9
>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=7.3e-15 Score=107.65 Aligned_cols=57 Identities=42% Similarity=0.647 Sum_probs=54.1
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kk 114 (339)
+++|++||.+|+.+|+..|..++||+..++..||..|||+..+|++||+|||+++|+
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 10
>KOG0485 consensus Transcription factor NKX-5.1/HMX1, contains HOX domain [Transcription]
Probab=99.51 E-value=1.2e-14 Score=134.64 Aligned_cols=59 Identities=42% Similarity=0.684 Sum_probs=54.4
Q ss_pred CCCCCc--CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 58 SEKKRR--LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 58 krKRrR--fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
+|||+| |+..|+..||..|+..+|++..+|..||++|.|++.||||||||||.|||++-
T Consensus 103 RKKktRTvFSraQV~qLEs~Fe~krYLSsaeRa~LA~sLqLTETQVKIWFQNRRnKwKRq~ 163 (268)
T KOG0485|consen 103 RKKKTRTVFSRAQVFQLESTFELKRYLSSAERAGLAASLQLTETQVKIWFQNRRNKWKRQY 163 (268)
T ss_pred ccccchhhhhHHHHHHHHHHHHHHhhhhHHHHhHHHHhhhhhhhhhhhhhhhhhHHHHHHH
Confidence 444444 99999999999999999999999999999999999999999999999999963
No 11
>KOG0492 consensus Transcription factor MSH, contains HOX domain [General function prediction only]
Probab=99.48 E-value=5.2e-14 Score=129.71 Aligned_cols=60 Identities=32% Similarity=0.514 Sum_probs=55.2
Q ss_pred CCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 57 ~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
.|+.|+.||..||..||+.|+..+|+++.+|.+++..|.|+++||+|||||||||.||-|
T Consensus 144 nRkPRtPFTtqQLlaLErkfrekqYLSiaEraefSsSL~LTeTqVKIWFQNRRAKaKRlQ 203 (246)
T KOG0492|consen 144 NRKPRTPFTTQQLLALERKFREKQYLSIAERAEFSSSLELTETQVKIWFQNRRAKAKRLQ 203 (246)
T ss_pred CCCCCCCCCHHHHHHHHHHHhHhhhhhHHHHHhhhhhhhhhhhheehhhhhhhHHHHHHH
Confidence 444555699999999999999999999999999999999999999999999999999853
No 12
>KOG2251 consensus Homeobox transcription factor [Transcription]
Probab=99.46 E-value=4.3e-14 Score=131.07 Aligned_cols=62 Identities=27% Similarity=0.433 Sum_probs=57.0
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
+.+|.|++|+..|+.+||..|.+.+||+...|++||.+|+|.+.+|+|||+|||+|+|+++.
T Consensus 36 kqRRERTtFtr~QlevLe~LF~kTqYPDv~~rEelAlklnLpeSrVqVWFKNRRAK~r~qq~ 97 (228)
T KOG2251|consen 36 KQRRERTTFTRKQLEVLEALFAKTQYPDVFMREELALKLNLPESRVQVWFKNRRAKCRRQQQ 97 (228)
T ss_pred hcccccceecHHHHHHHHHHHHhhcCccHHHHHHHHHHhCCchhhhhhhhccccchhhHhhh
Confidence 44555667999999999999999999999999999999999999999999999999998654
No 13
>KOG0494 consensus Transcription factor CHX10 and related HOX domain proteins [General function prediction only]
Probab=99.44 E-value=5.9e-14 Score=132.96 Aligned_cols=56 Identities=30% Similarity=0.542 Sum_probs=53.2
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHHH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLER 119 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek 119 (339)
||..|+..||+.|+..+||+...|+.||.++.|.+.+|+||||||||||||+....
T Consensus 148 FT~~Qle~LEkaFkeaHYPDv~Are~la~ktelpEDRIqVWfQNRRAKWRk~Ek~w 203 (332)
T KOG0494|consen 148 FTSYQLEELEKAFKEAHYPDVYAREMLADKTELPEDRIQVWFQNRRAKWRKTEKRW 203 (332)
T ss_pred hhHHHHHHHHHHHhhccCccHHHHHHHhhhccCchhhhhHHhhhhhHHhhhhhhhc
Confidence 99999999999999999999999999999999999999999999999999975443
No 14
>KOG0848 consensus Transcription factor Caudal, contains HOX domain [Transcription]
Probab=99.44 E-value=3.1e-14 Score=135.23 Aligned_cols=52 Identities=42% Similarity=0.634 Sum_probs=51.0
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
+|..|..+||+.|...+|.++.++.+||..|||++|||||||||||||.||.
T Consensus 206 YTDhQRLELEKEfh~SryITirRKSELA~~LgLsERQVKIWFQNRRAKERK~ 257 (317)
T KOG0848|consen 206 YTDHQRLELEKEFHTSRYITIRRKSELAATLGLSERQVKIWFQNRRAKERKD 257 (317)
T ss_pred ecchhhhhhhhhhccccceeeehhHHHHHhhCccHhhhhHhhhhhhHHHHHH
Confidence 9999999999999999999999999999999999999999999999999985
No 15
>KOG0493 consensus Transcription factor Engrailed, contains HOX domain [General function prediction only]
Probab=99.43 E-value=1.3e-13 Score=130.70 Aligned_cols=94 Identities=26% Similarity=0.400 Sum_probs=68.5
Q ss_pred CCCCCCccccccccccCCCCCC---CCcccCCCCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEe
Q 019577 26 SPRNNQVYSREFQTMLDGLDEE---GCLEESGGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVA 102 (339)
Q Consensus 26 s~~~~~~y~r~~~s~~~~~~~~---g~~~es~~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVq 102 (339)
..-+.+|||..|......-... -.........||.|+-||.+||..|+..|+.++|++..+|.+||.+|||.+.||+
T Consensus 212 ~mwPAWVycTRYSDRPSsGPR~Rk~kkkk~~~~eeKRPRTAFtaeQL~RLK~EF~enRYlTEqRRQ~La~ELgLNEsQIK 291 (342)
T KOG0493|consen 212 SMWPAWVYCTRYSDRPSSGPRHRKPKKKKSSSKEEKRPRTAFTAEQLQRLKAEFQENRYLTEQRRQELAQELGLNESQIK 291 (342)
T ss_pred cccceeeeeecccCCCCCCcccccccccCCccchhcCccccccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhCcCHHHhh
Confidence 3445678888776443211110 0001111122334445999999999999999999999999999999999999999
Q ss_pred eechhhHhHhhHHHHHH
Q 019577 103 VWFQNRRARWKTKQLER 119 (339)
Q Consensus 103 VWFQNRRAK~Kkkq~ek 119 (339)
|||||+|+|.||..--+
T Consensus 292 IWFQNKRAKiKKsTgsk 308 (342)
T KOG0493|consen 292 IWFQNKRAKIKKSTGSK 308 (342)
T ss_pred HHhhhhhhhhhhccCCC
Confidence 99999999999875544
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=99.37 E-value=4.2e-13 Score=97.73 Aligned_cols=57 Identities=46% Similarity=0.738 Sum_probs=53.2
Q ss_pred CCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 59 rKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
+++.+++..|+.+|+..|..++||+..++..||..+||+..+|++||+|||++.++.
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 345669999999999999999999999999999999999999999999999998863
No 17
>COG5576 Homeodomain-containing transcription factor [Transcription]
Probab=99.35 E-value=7.5e-13 Score=117.72 Aligned_cols=63 Identities=33% Similarity=0.582 Sum_probs=58.7
Q ss_pred CCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 55 GHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 55 ~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
...+++|+|.|..|+.+|+..|..++||+...|..|+..|+|+++-|||||||||++.|+...
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 456777888999999999999999999999999999999999999999999999999998654
No 18
>smart00389 HOX Homeodomain. DNA-binding factors that are involved in the transcriptional regulation of key developmental processes
Probab=99.35 E-value=5.8e-13 Score=96.58 Aligned_cols=55 Identities=45% Similarity=0.792 Sum_probs=51.2
Q ss_pred CCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhh
Q 019577 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (339)
Q Consensus 59 rKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~K 113 (339)
+.|.+++.+|+.+|+..|..++||+..++..||..+||+..+|++||+|||++.|
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 19
>KOG4577 consensus Transcription factor LIM3, contains LIM and HOX domains [Transcription]
Probab=99.29 E-value=1.4e-12 Score=125.29 Aligned_cols=91 Identities=22% Similarity=0.374 Sum_probs=73.7
Q ss_pred CCCCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHHHHHHHHHhhhHHHh
Q 019577 53 SGGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYGVLKANYDALK 132 (339)
Q Consensus 53 s~~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek~~~~lk~~~d~L~ 132 (339)
..+..||.|+.+|+.||+.|+..|...++|....|++|+.++||..|+|||||||||||.||-+...-...|.+-+..++
T Consensus 163 gd~~nKRPRTTItAKqLETLK~AYn~SpKPARHVREQLsseTGLDMRVVQVWFQNRRAKEKRLKKDAGR~RWgqyfrsmK 242 (383)
T KOG4577|consen 163 GDASNKRPRTTITAKQLETLKQAYNTSPKPARHVREQLSSETGLDMRVVQVWFQNRRAKEKRLKKDAGRTRWGQYFRSMK 242 (383)
T ss_pred cccccCCCcceeeHHHHHHHHHHhcCCCchhHHHHHHhhhccCcceeehhhhhhhhhHHHHhhhhhcchhHHHHHHHHhh
Confidence 34556777888999999999999999999999999999999999999999999999999998544333445777776666
Q ss_pred hhhhhhHHHHHH
Q 019577 133 LNYDSLQHDNEA 144 (339)
Q Consensus 133 ~~~dsl~~ene~ 144 (339)
.. .+.+.+++.
T Consensus 243 ~s-gs~r~ekds 253 (383)
T KOG4577|consen 243 RS-GSSRAEKDS 253 (383)
T ss_pred cc-CCccccccc
Confidence 55 445555444
No 20
>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=99.27 E-value=6.3e-12 Score=94.99 Aligned_cols=52 Identities=15% Similarity=0.360 Sum_probs=48.8
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCC----CCHHHHHHHHHHHCCCCceEeeechhhH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENK----LEPERKVKLAQELGLQPRQVAVWFQNRR 109 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~y----Ps~~~ReeLA~~LgLs~rQVqVWFQNRR 109 (339)
++.|+.||.+|+..|+..|+..+| |+...+.+||..|||++++|+|||||-+
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 556777999999999999999999 9999999999999999999999999964
No 21
>KOG0486 consensus Transcription factor PTX1, contains HOX domain [Transcription]
Probab=99.22 E-value=8e-12 Score=121.07 Aligned_cols=57 Identities=26% Similarity=0.559 Sum_probs=54.1
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHHHH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERD 120 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek~ 120 (339)
||..|++.||..|++++||+...|++||.-+.|++.+|+|||+|||+||||+.+..+
T Consensus 119 FtSqqlqele~tF~rNrypdMstrEEIavwtNlTE~rvrvwfknrrakwrkrErN~~ 175 (351)
T KOG0486|consen 119 FTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRERNQQ 175 (351)
T ss_pred hHHHHHHHHHHHHhhccCCccchhhHHHhhccccchhhhhhcccchhhhhhhhhhHH
Confidence 999999999999999999999999999999999999999999999999999765444
No 22
>KOG0491 consensus Transcription factor BSH, contains HOX domain [General function prediction only]
Probab=99.20 E-value=2e-12 Score=115.72 Aligned_cols=57 Identities=39% Similarity=0.566 Sum_probs=53.4
Q ss_pred CCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 61 RrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
|+.|+..|+..|++.|+..+|++..+|.+||..|+|++.||+.||||||+|.||.+.
T Consensus 104 Rtvfs~~ql~~l~~rFe~QrYLS~~e~~ELan~L~LS~~QVKTWFQNrRMK~Kk~~r 160 (194)
T KOG0491|consen 104 RTVFSDPQLSGLEKRFERQRYLSTPERQELANALSLSETQVKTWFQNRRMKHKKQQR 160 (194)
T ss_pred cccccCccccccHHHHhhhhhcccHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Confidence 334999999999999999999999999999999999999999999999999998654
No 23
>KOG3802 consensus Transcription factor OCT-1, contains POU and HOX domains [Transcription]
Probab=99.19 E-value=1.6e-11 Score=122.09 Aligned_cols=60 Identities=32% Similarity=0.443 Sum_probs=54.9
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
++||||+.|.......||+.|.+|++|+..++..||.+|+|...+|+|||+|||.|.||.
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 345555559999999999999999999999999999999999999999999999999984
No 24
>KOG0844 consensus Transcription factor EVX1, contains HOX domain [Transcription]
Probab=99.19 E-value=9.4e-12 Score=120.36 Aligned_cols=58 Identities=36% Similarity=0.593 Sum_probs=54.3
Q ss_pred CCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHH
Q 019577 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (339)
Q Consensus 61 RrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~e 118 (339)
|+-||.+|+..||+.|-+..|-+..+|.+||..|+|++..|||||||||+|.||+++.
T Consensus 185 RTAFTReQIaRLEKEFyrENYVSRprRcELAAaLNLPEtTIKVWFQNRRMKDKRQRla 242 (408)
T KOG0844|consen 185 RTAFTREQIARLEKEFYRENYVSRPRRCELAAALNLPETTIKVWFQNRRMKDKRQRLA 242 (408)
T ss_pred HhhhhHHHHHHHHHHHHHhccccCchhhhHHHhhCCCcceeehhhhhchhhhhhhhhh
Confidence 3449999999999999999999999999999999999999999999999999997653
No 25
>KOG0847 consensus Transcription factor, contains HOX domain [Transcription]
Probab=99.11 E-value=2.4e-11 Score=113.16 Aligned_cols=62 Identities=37% Similarity=0.692 Sum_probs=55.9
Q ss_pred CCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 55 GHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 55 ~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
|.++..|..|+..|+..|++.|+..+|+-...|.+||..+|+++.||+|||||||+||||+.
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 44444455599999999999999999999999999999999999999999999999999963
No 26
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=98.99 E-value=2.3e-10 Score=103.73 Aligned_cols=61 Identities=28% Similarity=0.335 Sum_probs=55.5
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
..++.|+.|+..|+.+|++.|+..+||+...|+.||..+++++..|+|||||||+||+++.
T Consensus 59 ~~rr~rt~~~~~ql~~ler~f~~~h~Pd~~~r~~la~~~~~~e~rVqvwFqnrrak~r~~~ 119 (235)
T KOG0490|consen 59 SKRCARCKFTISQLDELERAFEKVHLPCFACRECLALLLTGDEFRVQVWFQNRRAKDRKEE 119 (235)
T ss_pred cccccCCCCCcCHHHHHHHhhcCCCcCccchHHHHhhcCCCCeeeeehhhhhhcHhhhhhh
Confidence 3445555699999999999999999999999999999999999999999999999999853
No 27
>KOG0849 consensus Transcription factor PRD and related proteins, contain PAX and HOX domains [Transcription]
Probab=98.71 E-value=8.3e-09 Score=102.34 Aligned_cols=59 Identities=36% Similarity=0.620 Sum_probs=54.7
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
+++|+.|+..|+..|++.|++++||+...|++||.++++++..|+|||+|||++|+|..
T Consensus 177 rr~rtsft~~Q~~~le~~f~rt~yP~i~~Re~La~~i~l~e~riqvwf~nrra~~rr~~ 235 (354)
T KOG0849|consen 177 RRNRTSFSPSQLEALEECFQRTPYPDIVGRETLAKETGLPEPRVQVWFQNRRAKWRRQH 235 (354)
T ss_pred cccccccccchHHHHHHHhcCCCCCchhhHHHHhhhccCCchHHHHHHhhhhhhhhhcc
Confidence 34455699999999999999999999999999999999999999999999999999864
No 28
>KOG1168 consensus Transcription factor ACJ6/BRN-3, contains POU and HOX domains [Transcription]
Probab=98.69 E-value=1.1e-08 Score=98.68 Aligned_cols=63 Identities=29% Similarity=0.517 Sum_probs=57.8
Q ss_pred CCCCCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 53 SGGHVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 53 s~~~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
.++.+||||+.+.+...+.||.+|...+.|+.+.+..||.+|+|...+|+|||+|.|.|.||.
T Consensus 305 ~~~ekKRKRTSIAAPEKRsLEayFavQPRPS~EkIAaIAekLDLKKNVVRVWFCNQRQKQKRm 367 (385)
T KOG1168|consen 305 PGGEKKRKRTSIAAPEKRSLEAYFAVQPRPSGEKIAAIAEKLDLKKNVVRVWFCNQRQKQKRM 367 (385)
T ss_pred CccccccccccccCcccccHHHHhccCCCCchhHHHHHHHhhhhhhceEEEEeeccHHHHHHh
Confidence 445677777779999999999999999999999999999999999999999999999999984
No 29
>KOG0775 consensus Transcription factor SIX and related HOX domain proteins [Transcription]
Probab=98.48 E-value=9.2e-08 Score=91.76 Aligned_cols=51 Identities=29% Similarity=0.428 Sum_probs=47.9
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kk 114 (339)
|...-..+|..+|..++||++.++.+||+.+||+..||-.||+|||.|.|.
T Consensus 183 FKekSR~~LrewY~~~~YPsp~eKReLA~aTgLt~tQVsNWFKNRRQRDRa 233 (304)
T KOG0775|consen 183 FKEKSRSLLREWYLQNPYPSPREKRELAEATGLTITQVSNWFKNRRQRDRA 233 (304)
T ss_pred hhHhhHHHHHHHHhcCCCCChHHHHHHHHHhCCchhhhhhhhhhhhhhhhh
Confidence 666777899999999999999999999999999999999999999999884
No 30
>KOG0774 consensus Transcription factor PBX and related HOX domain proteins [Transcription]
Probab=98.06 E-value=1.9e-06 Score=82.50 Aligned_cols=59 Identities=29% Similarity=0.461 Sum_probs=54.2
Q ss_pred CCCCCCcCCHHHHHHHHHHhh---hcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHH
Q 019577 57 VSEKKRRLSVDQVKALEKNFE---VENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTK 115 (339)
Q Consensus 57 ~krKRrRfT~~Ql~~LE~~F~---~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkk 115 (339)
.+||||-|+..-..+|..+|. .++||+.+.+++||++++++..||-.||.|+|-++||.
T Consensus 188 arRKRRNFsK~aTeiLneyF~~h~~nPYPSee~K~eLAkqCnItvsQvsnwfgnkrIrykK~ 249 (334)
T KOG0774|consen 188 ARRKRRNFSKQATEILNEYFYSHLSNPYPSEEAKEELAKQCNITVSQVSNWFGNKRIRYKKN 249 (334)
T ss_pred HHHhhcccchhHHHHHHHHHHHhcCCCCCcHHHHHHHHHHcCceehhhccccccceeehhhh
Confidence 456777799999999999996 58899999999999999999999999999999999984
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=97.89 E-value=2.9e-06 Score=59.64 Aligned_cols=34 Identities=35% Similarity=0.556 Sum_probs=28.9
Q ss_pred hcCCCCHHHHHHHHHHHCCCCceEeeechhhHhH
Q 019577 78 VENKLEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (339)
Q Consensus 78 ~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK 111 (339)
.++||+..++..||.++||+..||..||-|.|.|
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 3789999999999999999999999999999975
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=97.77 E-value=5e-05 Score=54.86 Aligned_cols=44 Identities=61% Similarity=0.900 Sum_probs=41.5
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 115 kq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
+|++++|..||+.|+.|+.++++|..+|+.|++++..|+.++..
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 47899999999999999999999999999999999999998864
No 33
>KOG0490 consensus Transcription factor, contains HOX domain [General function prediction only]
Probab=97.63 E-value=4.2e-05 Score=69.42 Aligned_cols=59 Identities=32% Similarity=0.615 Sum_probs=53.4
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
++.++.+...|+..|...|....+|+...+..|+..+|++.+.|++||||+|++.++..
T Consensus 154 ~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~l~~~~~~~~~~~q~~~~~~~~~~~~~~ 212 (235)
T KOG0490|consen 154 RRPRTTFTENQLEVLETVFRATPKPDADDREQLAEETGLSERVIQVWFQNRRAKLRKHK 212 (235)
T ss_pred CCCccccccchhHhhhhcccCCCCCchhhHHHHHHhcCCChhhhhhhcccHHHHHHhhc
Confidence 33344589999999999999999999999999999999999999999999999999853
No 34
>KOG2252 consensus CCAAT displacement protein and related homeoproteins [Transcription]
Probab=97.24 E-value=0.00022 Score=74.28 Aligned_cols=56 Identities=21% Similarity=0.280 Sum_probs=50.8
Q ss_pred CCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHh
Q 019577 57 VSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARW 112 (339)
Q Consensus 57 ~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~ 112 (339)
.||.|..||..|...|..+|+.+++|+.+..+.|+.+|+|..+-|..||-|-|.|.
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 34444459999999999999999999999999999999999999999999988775
No 35
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=96.89 E-value=0.00063 Score=76.73 Aligned_cols=62 Identities=27% Similarity=0.381 Sum_probs=56.6
Q ss_pred CCCCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 56 HVSEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 56 ~~krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
.++.+|++++..||..|..+|....+|...+.+.|...+++..+.|+|||||-|+|.|+..+
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 34556777999999999999999999999999999999999999999999999999998654
No 36
>KOG0773 consensus Transcription factor MEIS1 and related HOX domain proteins [Transcription]
Probab=95.48 E-value=0.012 Score=57.70 Aligned_cols=55 Identities=29% Similarity=0.354 Sum_probs=47.0
Q ss_pred CcCCHHHHHHHHHHhhh---cCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 62 RRLSVDQVKALEKNFEV---ENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 62 rRfT~~Ql~~LE~~F~~---~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
+.+....+.+|+.+... .+||+...+..||+++||+..||.+||-|.|-|..+-.
T Consensus 244 ~~lP~~a~~ilr~Wl~~h~~~PYPse~~K~~La~~TGLs~~Qv~NWFINaR~R~w~p~ 301 (342)
T KOG0773|consen 244 RGLPKEAVSILRAWLFEHLLHPYPSDDEKLMLAKQTGLSRPQVSNWFINARVRLWKPM 301 (342)
T ss_pred CCCCHHHHHHHHHHHHHhccCCCCcchhccccchhcCCCcccCCchhhhcccccCCch
Confidence 34899999999987433 57999999999999999999999999999998877643
No 37
>PF11569 Homez: Homeodomain leucine-zipper encoding, Homez; PDB: 2YS9_A.
Probab=94.33 E-value=0.012 Score=44.58 Aligned_cols=41 Identities=24% Similarity=0.424 Sum_probs=31.0
Q ss_pred HHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhH
Q 019577 69 VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRR 109 (339)
Q Consensus 69 l~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRR 109 (339)
++.|+.+|...+.+.......|..+.+|+..||+.||--|+
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 46699999999999999999999999999999999997553
No 38
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=91.00 E-value=0.13 Score=55.95 Aligned_cols=48 Identities=23% Similarity=0.372 Sum_probs=44.9
Q ss_pred HHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHH
Q 019577 69 VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQ 116 (339)
Q Consensus 69 l~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq 116 (339)
+.+|+.+|..+..|+..+...+|...||+.+.|++||+++++......
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 788999999999999999999999999999999999999999887654
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=90.31 E-value=0.55 Score=33.97 Aligned_cols=35 Identities=43% Similarity=0.721 Sum_probs=31.1
Q ss_pred HHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 124 LKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 124 lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
+...|+.|+..++.|..+++.|+.|+..|++.+..
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 45679999999999999999999999999988753
No 40
>PRK09413 IS2 repressor TnpA; Reviewed
Probab=88.22 E-value=1.2 Score=37.73 Aligned_cols=42 Identities=21% Similarity=0.416 Sum_probs=28.0
Q ss_pred CCCcCCHHHHH-HHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeech
Q 019577 60 KKRRLSVDQVK-ALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (339)
Q Consensus 60 KRrRfT~~Ql~-~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQ 106 (339)
+++++|.++-. ++...+. +. ....++|+++|+++.+|..|.+
T Consensus 9 ~rr~ys~EfK~~aV~~~~~-~g----~sv~evA~e~gIs~~tl~~W~r 51 (121)
T PRK09413 9 KRRRRTTQEKIAIVQQSFE-PG----MTVSLVARQHGVAASQLFLWRK 51 (121)
T ss_pred CCCCCCHHHHHHHHHHHHc-CC----CCHHHHHHHHCcCHHHHHHHHH
Confidence 35567777644 3333333 22 2456789999999999999954
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=87.15 E-value=0.63 Score=34.25 Aligned_cols=47 Identities=21% Similarity=0.412 Sum_probs=33.6
Q ss_pred CCCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhH
Q 019577 58 SEKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRR 109 (339)
Q Consensus 58 krKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRR 109 (339)
+++|+.+|.++-..+-..++... ....||+++|++..+|..|..|+.
T Consensus 1 krkR~~LTl~eK~~iI~~~e~g~-----s~~~ia~~fgv~~sTv~~I~K~k~ 47 (53)
T PF04218_consen 1 KRKRKSLTLEEKLEIIKRLEEGE-----SKRDIAREFGVSRSTVSTILKNKD 47 (53)
T ss_dssp SSSSSS--HHHHHHHHHHHHCTT------HHHHHHHHT--CCHHHHHHHCHH
T ss_pred CCCCccCCHHHHHHHHHHHHcCC-----CHHHHHHHhCCCHHHHHHHHHhHH
Confidence 35566699988888777777665 577899999999999999988753
No 42
>KOG4005 consensus Transcription factor XBP-1 [Transcription]
Probab=75.83 E-value=19 Score=35.02 Aligned_cols=52 Identities=35% Similarity=0.423 Sum_probs=35.5
Q ss_pred hhhHhHhhHH--HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 106 QNRRARWKTK--QLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 106 QNRRAK~Kkk--q~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
|+-|.|.|-+ .++.+...|-..+..|..+++.|+..|+.|..++.+|...|.
T Consensus 82 QtaRDrKKaRm~eme~~i~dL~een~~L~~en~~Lr~~n~~L~~~n~el~~~le 135 (292)
T KOG4005|consen 82 QTARDRKKARMEEMEYEIKDLTEENEILQNENDSLRAINESLLAKNHELDSELE 135 (292)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence 3444444432 334445566677888888888888888888888888887764
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=69.37 E-value=22 Score=28.86 Aligned_cols=45 Identities=20% Similarity=0.269 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 113 KTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 113 Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
.+..+.++...|+...+.|....+.++.++++|..|+.-|+.-+.
T Consensus 17 ~k~~Li~ei~~LQ~sL~~L~~Rve~Vk~E~~kL~~EN~~Lq~YI~ 61 (80)
T PF10224_consen 17 EKEELIQEILELQDSLEALSDRVEEVKEENEKLESENEYLQQYIG 61 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677778888888888889999999999999999887764
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=67.68 E-value=31 Score=25.83 Aligned_cols=35 Identities=31% Similarity=0.419 Sum_probs=21.8
Q ss_pred HHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019577 121 YGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (339)
Q Consensus 121 ~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~k 155 (339)
...|......|...++.|..++..|..++..|+..
T Consensus 28 ~~~Le~~~~~L~~en~~L~~~~~~L~~~~~~L~~e 62 (64)
T PF00170_consen 28 IEELEEKVEELESENEELKKELEQLKKEIQSLKSE 62 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44455556666666666666666666666666654
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=65.28 E-value=23 Score=30.05 Aligned_cols=47 Identities=30% Similarity=0.405 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhcc
Q 019577 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEENT 161 (339)
Q Consensus 115 kq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~~~ 161 (339)
.+.+.+...+-+....|+..-..+..||..|+.||..|+..|.+...
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 45666777777778888888888899999999999999999876643
No 46
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=58.42 E-value=35 Score=29.13 Aligned_cols=45 Identities=36% Similarity=0.457 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 115 kq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
.+++.+...+-+....|+..-..+..||..|+.||..|+..|.+.
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 345666667777777788888888889999999999999988754
No 47
>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=57.44 E-value=14 Score=27.57 Aligned_cols=38 Identities=26% Similarity=0.285 Sum_probs=31.2
Q ss_pred CCHHHHHHHHHHhhhcCC--CCHHHHHHHHHHHCCCCceE
Q 019577 64 LSVDQVKALEKNFEVENK--LEPERKVKLAQELGLQPRQV 101 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~y--Ps~~~ReeLA~~LgLs~rQV 101 (339)
+|..|..+|...|...-| |-.....+||.+||+++.-|
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 588999999999987665 55666889999999998653
No 48
>smart00340 HALZ homeobox associated leucin zipper.
Probab=56.25 E-value=19 Score=26.11 Aligned_cols=25 Identities=40% Similarity=0.565 Sum_probs=19.0
Q ss_pred HHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 130 ALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 130 ~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
.|+.-.++|..||.+|++|+.+|++
T Consensus 9 ~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 9 LLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3444566777889999999999886
No 49
>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=56.19 E-value=48 Score=26.20 Aligned_cols=30 Identities=33% Similarity=0.472 Sum_probs=12.8
Q ss_pred HHhhhHHHhhhhhhhHHHHHHHHHHHHHHH
Q 019577 124 LKANYDALKLNYDSLQHDNEALLKEIRELK 153 (339)
Q Consensus 124 lk~~~d~L~~~~dsl~~ene~L~~E~~~LK 153 (339)
|+...+.|+..+..+..+++.|+.++.+|+
T Consensus 23 Lq~e~eeLke~n~~L~~e~~~L~~en~~L~ 52 (72)
T PF06005_consen 23 LQMENEELKEKNNELKEENEELKEENEQLK 52 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 333333334444444444444444444444
No 50
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=55.40 E-value=89 Score=27.77 Aligned_cols=79 Identities=28% Similarity=0.335 Sum_probs=47.0
Q ss_pred CcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHH-HCCCCceEeeechhhHhH----------hhHHHHHHHHHHHHhhhHH
Q 019577 62 RRLSVDQVKALEKNFEVENKLEPERKVKLAQE-LGLQPRQVAVWFQNRRAR----------WKTKQLERDYGVLKANYDA 130 (339)
Q Consensus 62 rRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~-LgLs~rQVqVWFQNRRAK----------~Kkkq~ek~~~~lk~~~d~ 130 (339)
.+|+.++|..|- .| +|=+. -|++...|--|=|.||+- .|+-+. ...|.+....
T Consensus 22 d~lsDd~LvsmS------------VR-eLNr~LrG~~reEVvrlKQrRRTLKNRGYA~sCR~KRv~Q---k~eLE~~k~~ 85 (135)
T KOG4196|consen 22 DRLSDDELVSMS------------VR-ELNRHLRGLSREEVVRLKQRRRTLKNRGYAQSCRVKRVQQ---KHELEKEKAE 85 (135)
T ss_pred CCcCHHHHHHhh------------HH-HHHHHhcCCCHHHHHHHHHHHHHHhhhhHHHHHHHHHHHH---HHHHHHHHHH
Confidence 568888887762 22 23333 377777777777777652 233222 2234444455
Q ss_pred HhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 131 LKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 131 L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
|..+.+.|..||..+..|+.-+|.+.
T Consensus 86 L~qqv~~L~~e~s~~~~E~da~k~k~ 111 (135)
T KOG4196|consen 86 LQQQVEKLKEENSRLRRELDAYKSKY 111 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66666666777777777777776654
No 51
>COG4467 Regulator of replication initiation timing [Replication, recombination, and repair]
Probab=51.84 E-value=37 Score=29.26 Aligned_cols=43 Identities=40% Similarity=0.512 Sum_probs=35.0
Q ss_pred HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 116 QLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 116 q~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
.++.+.+.+-+....++..-.++..||..|+-|+..|+.+|..
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 4556666666777777878888889999999999999999976
No 52
>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=50.61 E-value=83 Score=24.85 Aligned_cols=45 Identities=24% Similarity=0.330 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 113 KTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 113 Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
....++.+...|+..+..+...+..+..+|..|+.+....+.+|.
T Consensus 19 ti~~Lq~e~eeLke~n~~L~~e~~~L~~en~~L~~e~~~~~~rl~ 63 (72)
T PF06005_consen 19 TIALLQMENEELKEKNNELKEENEELKEENEQLKQERNAWQERLR 63 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344566677777777777778888888888888877666665553
No 53
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=50.33 E-value=48 Score=32.12 Aligned_cols=30 Identities=23% Similarity=0.327 Sum_probs=16.7
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 129 DALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 129 d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
..|..++..++.+.+.|++|+..|+..+..
T Consensus 225 ~~leken~~lr~~v~~l~~el~~~~~~~~~ 254 (269)
T KOG3119|consen 225 AELEKENEALRTQVEQLKKELATLRRLFLQ 254 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345555555555666666666666554443
No 54
>smart00338 BRLZ basic region leucin zipper.
Probab=49.79 E-value=86 Score=23.44 Aligned_cols=34 Identities=29% Similarity=0.462 Sum_probs=20.9
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 123 ~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
.|......|...+..|..+...|..++..|+..+
T Consensus 30 ~Le~~~~~L~~en~~L~~~~~~l~~e~~~lk~~~ 63 (65)
T smart00338 30 ELERKVEQLEAENERLKKEIERLRRELEKLKSEL 63 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4444555566666666666666666666666554
No 55
>KOG3156 consensus Uncharacterized membrane protein [Function unknown]
Probab=48.18 E-value=49 Score=31.61 Aligned_cols=47 Identities=21% Similarity=0.412 Sum_probs=34.5
Q ss_pred HHHHHHHhhhH-HHhhhhhhhHHHHHHHHHHHHHHHHhhhhhcccCCc
Q 019577 119 RDYGVLKANYD-ALKLNYDSLQHDNEALLKEIRELKSKLNEENTESNI 165 (339)
Q Consensus 119 k~~~~lk~~~d-~L~~~~dsl~~ene~L~~E~~~LK~kl~~~~~~s~~ 165 (339)
.+...++.... ..+.+...++++|++|+-+++++|..|..+......
T Consensus 101 ~~f~kiRsel~S~e~sEF~~lr~e~EklkndlEk~ks~lr~ei~~~~a 148 (220)
T KOG3156|consen 101 VDFAKIRSELVSIERSEFANLRAENEKLKNDLEKLKSSLRHEISKTTA 148 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcch
Confidence 34444444332 345778889999999999999999999988765443
No 56
>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=46.44 E-value=16 Score=25.72 Aligned_cols=38 Identities=13% Similarity=0.168 Sum_probs=27.7
Q ss_pred cCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeec
Q 019577 63 RLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWF 105 (339)
Q Consensus 63 RfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWF 105 (339)
.+++.+..+|...|-. ...-.++|..+|++...|+.+.
T Consensus 4 ~L~~~er~vi~~~y~~-----~~t~~eIa~~lg~s~~~V~~~~ 41 (50)
T PF04545_consen 4 QLPPREREVIRLRYFE-----GLTLEEIAERLGISRSTVRRIL 41 (50)
T ss_dssp TS-HHHHHHHHHHHTS-----T-SHHHHHHHHTSCHHHHHHHH
T ss_pred hCCHHHHHHHHHHhcC-----CCCHHHHHHHHCCcHHHHHHHH
Confidence 3788899999988832 2346789999999998876543
No 57
>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=45.32 E-value=5.8 Score=29.90 Aligned_cols=44 Identities=23% Similarity=0.379 Sum_probs=27.3
Q ss_pred CCCCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeech
Q 019577 59 EKKRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (339)
Q Consensus 59 rKRrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQ 106 (339)
+++++||.++...+-..+.. .......+|+++||++.+|..|-+
T Consensus 2 ~~r~~ys~e~K~~~v~~~~~----~g~sv~~va~~~gi~~~~l~~W~~ 45 (76)
T PF01527_consen 2 RKRRRYSPEFKLQAVREYLE----SGESVSEVAREYGISPSTLYNWRK 45 (76)
T ss_dssp -SS----HHHHHHHHHHHHH----HHCHHHHHHHHHTS-HHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHH----CCCceEeeecccccccccccHHHH
Confidence 34566999887766555521 124678899999999999888853
No 58
>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=44.72 E-value=12 Score=25.00 Aligned_cols=42 Identities=14% Similarity=0.128 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHh
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRA 110 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRA 110 (339)
++..+..++...|... ....++|..+|++...|..|....+.
T Consensus 11 l~~~~~~~~~~~~~~~-----~~~~~ia~~~~~s~~~i~~~~~~~~~ 52 (55)
T cd06171 11 LPEREREVILLRFGEG-----LSYEEIAEILGISRSTVRQRLHRALK 52 (55)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 6777777777766422 24567899999999999887754433
No 59
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=44.56 E-value=42 Score=28.11 Aligned_cols=27 Identities=30% Similarity=0.398 Sum_probs=18.2
Q ss_pred hHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 128 YDALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 128 ~d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
...++.+...++.+|+.|+.++..|+.
T Consensus 36 ~~~~~~e~~~l~~~n~~L~~eI~~L~~ 62 (105)
T PRK00888 36 VAAQQQTNAKLKARNDQLFAEIDDLKG 62 (105)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 344455556667778888888887765
No 60
>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=44.32 E-value=25 Score=20.79 Aligned_cols=37 Identities=14% Similarity=0.337 Sum_probs=24.7
Q ss_pred cCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeee
Q 019577 63 RLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVW 104 (339)
Q Consensus 63 RfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVW 104 (339)
.++..+...+...+... . ....+|..+|++...|..|
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 36677666666666532 2 4567889999988776655
No 61
>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=44.13 E-value=89 Score=23.34 Aligned_cols=31 Identities=29% Similarity=0.494 Sum_probs=16.3
Q ss_pred hhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 126 ANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 126 ~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
.....|......|..+|..|..++..|+..+
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~~~~L~~~~ 56 (64)
T PF00170_consen 26 QYIEELEEKVEELESENEELKKELEQLKKEI 56 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455555555555555555555555443
No 62
>KOG0709 consensus CREB/ATF family transcription factor [Transcription]
Probab=43.01 E-value=92 Score=32.91 Aligned_cols=36 Identities=19% Similarity=0.380 Sum_probs=18.9
Q ss_pred HHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 122 GVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 122 ~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
...-+.+..|+.....+..+|..|.++++.|+..+-
T Consensus 282 ~~~taeNqeL~kkV~~Le~~N~sLl~qL~klQt~v~ 317 (472)
T KOG0709|consen 282 SAFTAENQELQKKVEELELSNRSLLAQLKKLQTLVI 317 (472)
T ss_pred hhcccCcHHHHHHHHHHhhccHHHHHHHHHHHHHHh
Confidence 333344445555555555556666666655555443
No 63
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=42.59 E-value=57 Score=31.66 Aligned_cols=33 Identities=21% Similarity=0.259 Sum_probs=14.6
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019577 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (339)
Q Consensus 123 ~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~k 155 (339)
.|......+...+..++...+.|+.++.+|.++
T Consensus 153 eL~~eleele~e~ee~~erlk~le~E~s~LeE~ 185 (290)
T COG4026 153 ELLKELEELEAEYEEVQERLKRLEVENSRLEEM 185 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344444444444444444444444444443
No 64
>COG3413 Predicted DNA binding protein [General function prediction only]
Probab=40.52 E-value=29 Score=31.91 Aligned_cols=38 Identities=21% Similarity=0.250 Sum_probs=32.1
Q ss_pred cCCHHHHHHHHHHhhhcCC--CCHHHHHHHHHHHCCCCce
Q 019577 63 RLSVDQVKALEKNFEVENK--LEPERKVKLAQELGLQPRQ 100 (339)
Q Consensus 63 RfT~~Ql~~LE~~F~~~~y--Ps~~~ReeLA~~LgLs~rQ 100 (339)
.+|..|+.+|...|...-| |-.....+||+++|+++.-
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst 194 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKST 194 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHH
Confidence 4999999999999997664 6666678899999999864
No 65
>PF14775 NYD-SP28_assoc: Sperm tail C-terminal domain
Probab=39.07 E-value=61 Score=24.67 Aligned_cols=32 Identities=28% Similarity=0.472 Sum_probs=24.9
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 127 NYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 127 ~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
.|..+-.+..++..+++.|+++|.+|+.-|..
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 45555666777888999999999999987753
No 66
>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=36.80 E-value=1.5e+02 Score=21.55 Aligned_cols=26 Identities=31% Similarity=0.516 Sum_probs=16.7
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 129 DALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 129 d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
..+......|..+|..|..++..|+.
T Consensus 28 ~~le~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 28 EELEQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 34455556666777777777777654
No 67
>PF13443 HTH_26: Cro/C1-type HTH DNA-binding domain; PDB: 3TYR_A 3TYS_A 3B7H_A.
Probab=36.77 E-value=17 Score=26.46 Aligned_cols=37 Identities=14% Similarity=0.176 Sum_probs=22.0
Q ss_pred HHHHHHHHHCCCCceEeeechhhHhHhhHHHHHHHHH
Q 019577 86 RKVKLAQELGLQPRQVAVWFQNRRARWKTKQLERDYG 122 (339)
Q Consensus 86 ~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ek~~~ 122 (339)
....||+.+|++...|.-|+.++........+.+-..
T Consensus 12 t~~~La~~~gis~~tl~~~~~~~~~~~~~~~l~~ia~ 48 (63)
T PF13443_consen 12 TQKDLARKTGISRSTLSRILNGKPSNPSLDTLEKIAK 48 (63)
T ss_dssp -HHHHHHHHT--HHHHHHHHTTT-----HHHHHHHHH
T ss_pred CHHHHHHHHCcCHHHHHHHHhcccccccHHHHHHHHH
Confidence 4668999999999999999987766666554444333
No 68
>KOG4571 consensus Activating transcription factor 4 [Transcription]
Probab=35.51 E-value=1.2e+02 Score=30.34 Aligned_cols=49 Identities=24% Similarity=0.363 Sum_probs=31.3
Q ss_pred hHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 110 ARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 110 AK~Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
+|+|.+++.+. +.+--....|-..++.|+..-..|.+|++.||..+.+.
T Consensus 240 tRYRqKkRae~-E~l~ge~~~Le~rN~~LK~qa~~lerEI~ylKqli~e~ 288 (294)
T KOG4571|consen 240 TRYRQKKRAEK-EALLGELEGLEKRNEELKDQASELEREIRYLKQLILEV 288 (294)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444433333 23333456677777888888888888888888877554
No 69
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=34.27 E-value=96 Score=32.85 Aligned_cols=44 Identities=18% Similarity=0.274 Sum_probs=31.2
Q ss_pred hHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 113 KTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 113 Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
|..+++++++.+++..+.+......+++..+.|+.|+..|+.++
T Consensus 77 kasELEKqLaaLrqElq~~saq~~dle~KIkeLEaE~~~Lk~Ql 120 (475)
T PRK13729 77 TAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLGQDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 44556666777776666555666667777778888888888887
No 70
>KOG1146 consensus Homeobox protein [General function prediction only]
Probab=34.17 E-value=13 Score=43.48 Aligned_cols=58 Identities=21% Similarity=0.110 Sum_probs=51.1
Q ss_pred CCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhHHHHH
Q 019577 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKTKQLE 118 (339)
Q Consensus 61 RrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~e 118 (339)
++|++.-|+.+|..+|+...+|.-.++..++..||+..|.+-.||++++.++.+...+
T Consensus 448 s~r~~~~~t~~L~S~~kt~~cpkc~~~yk~a~~L~vhmRskhp~~~~~~c~~gq~~~~ 505 (1406)
T KOG1146|consen 448 SKRSLEGQTVVLHSFFKTLKCPKCNWHYKLAQTLGVHMRSKHPESQSAYCKAGQNHPR 505 (1406)
T ss_pred hhcccccceeeeecccccccCCccchhhhhHHHhhhcccccccccchhHhHhcccccc
Confidence 4458888999999999999999999999999999999999999999988888865443
No 71
>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=33.84 E-value=55 Score=27.29 Aligned_cols=33 Identities=30% Similarity=0.662 Sum_probs=19.2
Q ss_pred HHHHHHHhhhcCCCCHH--HHHHHHHHHCCCCceEeeechhhHhHhhHHHH
Q 019577 69 VKALEKNFEVENKLEPE--RKVKLAQELGLQPRQVAVWFQNRRARWKTKQL 117 (339)
Q Consensus 69 l~~LE~~F~~~~yPs~~--~ReeLA~~LgLs~rQVqVWFQNRRAK~Kkkq~ 117 (339)
+...+-.|+.++||... .+.. .|||.+||+.+.
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 34455568889998744 2222 589999998654
No 72
>KOG4403 consensus Cell surface glycoprotein STIM, contains SAM domain [General function prediction only]
Probab=32.87 E-value=93 Score=32.88 Aligned_cols=25 Identities=28% Similarity=0.618 Sum_probs=17.5
Q ss_pred eeec---hhhHhHhhHHHHHHHHHHHHh
Q 019577 102 AVWF---QNRRARWKTKQLERDYGVLKA 126 (339)
Q Consensus 102 qVWF---QNRRAK~Kkkq~ek~~~~lk~ 126 (339)
-+|| ||+.+|.+-.++-++.+.|+.
T Consensus 229 gcw~ay~Qnk~akehv~km~kdle~Lq~ 256 (575)
T KOG4403|consen 229 GCWFAYRQNKKAKEHVNKMMKDLEGLQR 256 (575)
T ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence 4678 888888887666666655554
No 73
>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=32.47 E-value=1.4e+02 Score=22.42 Aligned_cols=38 Identities=26% Similarity=0.237 Sum_probs=26.4
Q ss_pred HHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 121 YGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 121 ~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
...||+..+.-..+..........|..||..|+++|.-
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 34556665566666677777778888888888887753
No 74
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=32.24 E-value=2.2e+02 Score=32.07 Aligned_cols=48 Identities=23% Similarity=0.336 Sum_probs=41.7
Q ss_pred HhHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 109 RAK~Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
-|+.++..+.++...+|+.++.+.+..+.+..+++.|+.++..|+...
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 356677788889999999999999999999999999999999998543
No 75
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=31.90 E-value=1.3e+02 Score=24.13 Aligned_cols=39 Identities=31% Similarity=0.406 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019577 117 LERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSK 155 (339)
Q Consensus 117 ~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~k 155 (339)
++-+.+.||..+..|..+....++..+.|..++..||..
T Consensus 23 LQmEieELKEknn~l~~e~q~~q~~reaL~~eneqlk~e 61 (79)
T COG3074 23 LQMEIEELKEKNNSLSQEVQNAQHQREALERENEQLKEE 61 (79)
T ss_pred HHHHHHHHHHHhhHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445555555555555555555555555555555543
No 76
>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=31.38 E-value=1.4e+02 Score=23.53 Aligned_cols=39 Identities=15% Similarity=0.384 Sum_probs=29.4
Q ss_pred HHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 119 RDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 119 k~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
++...|+..|..|+........++..|.+++..|-.++.
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 344567778888888888888888888888887776654
No 77
>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=30.82 E-value=1.2e+02 Score=25.69 Aligned_cols=40 Identities=28% Similarity=0.317 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 115 kq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
..+-.+.+.||.....|-.++..|+.||+.|+..+..+..
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 3455667777777777788888888888888887777665
No 78
>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=30.78 E-value=54 Score=33.43 Aligned_cols=30 Identities=27% Similarity=0.398 Sum_probs=18.8
Q ss_pred hHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 128 YDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 128 ~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
.-+|+.++++|++||+.|+.++.+|++.+.
T Consensus 34 ~~aLr~EN~~LKkEN~~Lk~eVerLE~e~l 63 (420)
T PF07407_consen 34 NFALRMENHSLKKENNDLKIEVERLENEML 63 (420)
T ss_pred hhhHHHHhHHHHHHHHHHHHHHHHHHHHhh
Confidence 345666666666666666666666665544
No 79
>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=29.93 E-value=64 Score=26.04 Aligned_cols=24 Identities=29% Similarity=0.565 Sum_probs=18.6
Q ss_pred hhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 136 DSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 136 dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
+.++.+|..|+.++..|++.|+..
T Consensus 3 ~ei~eEn~~Lk~eiqkle~ELq~~ 26 (76)
T PF07334_consen 3 HEIQEENARLKEEIQKLEAELQQN 26 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456778888888888888877764
No 80
>PRK03975 tfx putative transcriptional regulator; Provisional
Probab=28.69 E-value=49 Score=29.36 Aligned_cols=48 Identities=19% Similarity=0.178 Sum_probs=35.0
Q ss_pred CCcCCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhH
Q 019577 61 KRRLSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (339)
Q Consensus 61 RrRfT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kk 114 (339)
...+++.|..+|... ... ....+||..||++...|..|-+..+.+.|+
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 245689999999999999988755554443
No 81
>PRK13169 DNA replication intiation control protein YabA; Reviewed
Probab=28.36 E-value=1.4e+02 Score=25.63 Aligned_cols=40 Identities=25% Similarity=0.389 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 115 KQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 115 kq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
..+-.+.+.||+....+-.++..|+.||+.|++.+.++..
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 3456677888888888888889999999999998887744
No 82
>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=28.11 E-value=2.1e+02 Score=22.35 Aligned_cols=35 Identities=20% Similarity=0.128 Sum_probs=15.9
Q ss_pred HHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 122 GVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 122 ~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
+.|-..+..|+.++..++.+...+..|...|+++.
T Consensus 10 e~Li~~~~~L~~EN~~Lr~q~~~~~~ER~~L~ekn 44 (65)
T TIGR02449 10 EHLLEYLERLKSENRLLRAQEKTWREERAQLLEKN 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444444444444444444444444443
No 83
>PRK14127 cell division protein GpsB; Provisional
Probab=27.87 E-value=96 Score=26.51 Aligned_cols=33 Identities=27% Similarity=0.411 Sum_probs=21.2
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 127 NYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 127 ~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
-.+.+..+++.+..++..|+.++.+|+.+|..-
T Consensus 31 FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l~e~ 63 (109)
T PRK14127 31 FLDDVIKDYEAFQKEIEELQQENARLKAQVDEL 63 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334455566666667777777777777766543
No 84
>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=27.14 E-value=17 Score=27.94 Aligned_cols=19 Identities=21% Similarity=0.604 Sum_probs=16.7
Q ss_pred HHHHHHHHHCCCCceEeee
Q 019577 86 RKVKLAQELGLQPRQVAVW 104 (339)
Q Consensus 86 ~ReeLA~~LgLs~rQVqVW 104 (339)
.-.+||.+||+++.+|+.|
T Consensus 24 ~lkdIA~~Lgvs~~tIr~W 42 (60)
T PF10668_consen 24 KLKDIAEKLGVSESTIRKW 42 (60)
T ss_pred cHHHHHHHHCCCHHHHHHH
Confidence 4567899999999999988
No 85
>smart00338 BRLZ basic region leucin zipper.
Probab=27.01 E-value=1.9e+02 Score=21.51 Aligned_cols=30 Identities=33% Similarity=0.535 Sum_probs=15.4
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 127 NYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 127 ~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
....|......+..+|..|..++..|+..+
T Consensus 27 ~~~~Le~~~~~L~~en~~L~~~~~~l~~e~ 56 (65)
T smart00338 27 EIEELERKVEQLEAENERLKKEIERLRREL 56 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555555555555555555443
No 86
>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=26.88 E-value=1.1e+02 Score=24.32 Aligned_cols=22 Identities=14% Similarity=0.208 Sum_probs=17.3
Q ss_pred HHHHHHHHCCCCceEeeechhh
Q 019577 87 KVKLAQELGLQPRQVAVWFQNR 108 (339)
Q Consensus 87 ReeLA~~LgLs~rQVqVWFQNR 108 (339)
..++|..+|++++.|+.|-+..
T Consensus 4 i~e~A~~~gvs~~tLr~ye~~G 25 (91)
T cd04766 4 ISVAAELSGMHPQTLRLYERLG 25 (91)
T ss_pred HHHHHHHHCcCHHHHHHHHHCC
Confidence 4568889999999998887544
No 87
>PF15058 Speriolin_N: Speriolin N terminus
Probab=26.68 E-value=79 Score=29.80 Aligned_cols=39 Identities=31% Similarity=0.349 Sum_probs=19.0
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhccc
Q 019577 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEENTE 162 (339)
Q Consensus 123 ~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~~~~ 162 (339)
.++..+++|..++..|++. -+|.+|+.+||.+|.+.+..
T Consensus 9 GlrhqierLv~ENeeLKKl-VrLirEN~eLksaL~ea~~~ 47 (200)
T PF15058_consen 9 GLRHQIERLVRENEELKKL-VRLIRENHELKSALGEACAE 47 (200)
T ss_pred HHHHHHHHHHhhhHHHHHH-HHHHHHHHHHHHHHHHhhcc
Confidence 3333344444444444332 23445566677776666543
No 88
>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=26.66 E-value=1.9e+02 Score=20.92 Aligned_cols=23 Identities=13% Similarity=0.245 Sum_probs=11.7
Q ss_pred HhhhHHHhhhhhhhHHHHHHHHH
Q 019577 125 KANYDALKLNYDSLQHDNEALLK 147 (339)
Q Consensus 125 k~~~d~L~~~~dsl~~ene~L~~ 147 (339)
......|...+..|..++..|..
T Consensus 31 e~~~~~L~~en~~L~~~i~~L~~ 53 (54)
T PF07716_consen 31 EQEVQELEEENEQLRQEIAQLER 53 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33444455555555555555544
No 89
>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=26.41 E-value=1.8e+02 Score=28.06 Aligned_cols=45 Identities=29% Similarity=0.416 Sum_probs=24.7
Q ss_pred HhHhhHHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHH
Q 019577 109 RARWKTKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELK 153 (339)
Q Consensus 109 RAK~Kkkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK 153 (339)
|=|.|..+++++...+++....|+.+.+.++.+|.+|=+.++=|.
T Consensus 90 RFR~Rn~ELE~elr~~~~~~~~L~~Ev~~L~~DN~kLYEKiRylq 134 (248)
T PF08172_consen 90 RFRQRNAELEEELRKQQQTISSLRREVESLRADNVKLYEKIRYLQ 134 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 444555566666666666555555555555555555555444443
No 90
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=25.41 E-value=1.3e+02 Score=28.49 Aligned_cols=16 Identities=31% Similarity=0.256 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHhhhhh
Q 019577 144 ALLKEIRELKSKLNEE 159 (339)
Q Consensus 144 ~L~~E~~~LK~kl~~~ 159 (339)
.+++|+.+|++.|...
T Consensus 97 ~l~~en~~L~~lL~~~ 112 (276)
T PRK13922 97 QLEAENARLRELLNLK 112 (276)
T ss_pred HHHHHHHHHHHHhcCc
Confidence 5677777777766543
No 91
>PRK10884 SH3 domain-containing protein; Provisional
Probab=25.16 E-value=2.2e+02 Score=26.65 Aligned_cols=23 Identities=17% Similarity=0.160 Sum_probs=8.9
Q ss_pred HhhhhhhhHHHHHHHHHHHHHHH
Q 019577 131 LKLNYDSLQHDNEALLKEIRELK 153 (339)
Q Consensus 131 L~~~~dsl~~ene~L~~E~~~LK 153 (339)
|..++..++.+.+.++.++..|+
T Consensus 137 L~~~n~~L~~~l~~~~~~~~~l~ 159 (206)
T PRK10884 137 LKEENQKLKNQLIVAQKKVDAAN 159 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333333333333333333333
No 92
>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=24.99 E-value=1.4e+02 Score=26.03 Aligned_cols=16 Identities=13% Similarity=0.054 Sum_probs=11.7
Q ss_pred CCCcCCHHHHHHHHHH
Q 019577 60 KKRRLSVDQVKALEKN 75 (339)
Q Consensus 60 KRrRfT~~Ql~~LE~~ 75 (339)
..|.|+..++..|...
T Consensus 34 g~R~Y~~~~l~~l~~I 49 (134)
T cd04779 34 NYRYYDETALDRLQLI 49 (134)
T ss_pred CCeeECHHHHHHHHHH
Confidence 3455999999988643
No 93
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=24.72 E-value=2.9e+02 Score=22.55 Aligned_cols=29 Identities=10% Similarity=0.227 Sum_probs=13.2
Q ss_pred hhHHHhhhhhhhHHHHHHHHHHHHHHHHh
Q 019577 127 NYDALKLNYDSLQHDNEALLKEIRELKSK 155 (339)
Q Consensus 127 ~~d~L~~~~dsl~~ene~L~~E~~~LK~k 155 (339)
..+.+......|.++|+.|+.|...-+++
T Consensus 40 e~~~~~~~r~~L~~en~qLk~E~~~Wqer 68 (79)
T PRK15422 40 EVQNAQHQREELERENNHLKEQQNGWQER 68 (79)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344444555555555554433333
No 94
>smart00340 HALZ homeobox associated leucin zipper.
Probab=24.58 E-value=1.3e+02 Score=21.90 Aligned_cols=32 Identities=28% Similarity=0.288 Sum_probs=21.9
Q ss_pred HHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHH
Q 019577 116 QLERDYGVLKANYDALKLNYDSLQHDNEALLK 147 (339)
Q Consensus 116 q~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~ 147 (339)
|.+.+.+.||.-.+.|..++..|+.|.+.|+.
T Consensus 2 QTEvdCe~LKrcce~LteeNrRL~ke~~eLra 33 (44)
T smart00340 2 QTEVDCELLKRCCESLTEENRRLQKEVQELRA 33 (44)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 45667777777777777777777776665553
No 95
>PRK10884 SH3 domain-containing protein; Provisional
Probab=24.49 E-value=2.1e+02 Score=26.84 Aligned_cols=32 Identities=19% Similarity=0.099 Sum_probs=17.3
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 123 ~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
.|++.+..|+.....++.+++.|+.++..++.
T Consensus 136 ~L~~~n~~L~~~l~~~~~~~~~l~~~~~~~~~ 167 (206)
T PRK10884 136 GLKEENQKLKNQLIVAQKKVDAANLQLDDKQR 167 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555555555555555555555555554
No 96
>KOG3119 consensus Basic region leucine zipper transcription factor [Transcription]
Probab=24.47 E-value=1.9e+02 Score=28.03 Aligned_cols=30 Identities=30% Similarity=0.490 Sum_probs=22.8
Q ss_pred HHHhhhhhhhHHHHHHHHHHHHHHHHhhhh
Q 019577 129 DALKLNYDSLQHDNEALLKEIRELKSKLNE 158 (339)
Q Consensus 129 d~L~~~~dsl~~ene~L~~E~~~LK~kl~~ 158 (339)
+.+.+....|..||+.|+.++.+|+..+..
T Consensus 218 ~e~~~r~~~leken~~lr~~v~~l~~el~~ 247 (269)
T KOG3119|consen 218 DEMAHRVAELEKENEALRTQVEQLKKELAT 247 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445667777888888888888888877653
No 97
>PF15058 Speriolin_N: Speriolin N terminus
Probab=24.46 E-value=1.4e+02 Score=28.18 Aligned_cols=31 Identities=29% Similarity=0.515 Sum_probs=21.8
Q ss_pred hhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 126 ANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 126 ~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
.+|+.+.+....+..||+.|+++++-+|+.+
T Consensus 5 ~~yeGlrhqierLv~ENeeLKKlVrLirEN~ 35 (200)
T PF15058_consen 5 TNYEGLRHQIERLVRENEELKKLVRLIRENH 35 (200)
T ss_pred cchHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence 4677777777777777777777777777654
No 98
>PRK09646 RNA polymerase sigma factor SigK; Reviewed
Probab=24.32 E-value=70 Score=28.34 Aligned_cols=45 Identities=13% Similarity=0.119 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhh
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~K 113 (339)
++..+..+|...|-.. ..-.++|..||++...|+++...-|.+.|
T Consensus 143 L~~~~r~vl~l~~~~~-----~s~~EIA~~Lgis~~tVk~~l~ra~~~Lr 187 (194)
T PRK09646 143 LTDTQRESVTLAYYGG-----LTYREVAERLAVPLGTVKTRMRDGLIRLR 187 (194)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHhCCChHhHHHHHHHHHHHHH
Confidence 6777777776554322 34668999999999999887754444433
No 99
>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=23.48 E-value=2.8e+02 Score=25.90 Aligned_cols=40 Identities=25% Similarity=0.270 Sum_probs=27.7
Q ss_pred HHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 120 DYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 120 ~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
....|......+...+-.+......|+.|+.+||.+..+.
T Consensus 176 ~L~~Le~~W~~~v~kn~eie~a~~~Le~ei~~l~~~~~~~ 215 (221)
T PF05700_consen 176 ELRYLEQRWKELVSKNLEIEVACEELEQEIEQLKRKAAEL 215 (221)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555666666777777778888888888888776543
No 100
>KOG0483 consensus Transcription factor HEX, contains HOX and HALZ domains [Transcription]
Probab=23.19 E-value=1.1e+02 Score=28.82 Aligned_cols=38 Identities=32% Similarity=0.559 Sum_probs=31.7
Q ss_pred HHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhhhhc
Q 019577 123 VLKANYDALKLNYDSLQHDNEALLKEIRELKSKLNEEN 160 (339)
Q Consensus 123 ~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~~~~ 160 (339)
.+-..++.|+..++.+..++..|+.++..|++.+....
T Consensus 109 qlE~d~~~Lk~~~~~l~~~~~~Lq~e~~eL~~~~~~~~ 146 (198)
T KOG0483|consen 109 QLEKDYESLKRQLESLRSENDRLQSEVQELVAELSSLK 146 (198)
T ss_pred hhhhhHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhh
Confidence 33447889999999999999999999999998876543
No 101
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=22.98 E-value=2.3e+02 Score=23.13 Aligned_cols=40 Identities=28% Similarity=0.354 Sum_probs=23.0
Q ss_pred HHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhh
Q 019577 117 LERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKL 156 (339)
Q Consensus 117 ~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl 156 (339)
++.+...||..+..|..+.+.+....+.|..++..||...
T Consensus 23 LqmEieELKekn~~L~~e~~~~~~~r~~L~~en~qLk~E~ 62 (79)
T PRK15422 23 LQMEIEELKEKNNSLSQEVQNAQHQREELERENNHLKEQQ 62 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence 3344445555555555555555555566777777777654
No 102
>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=22.75 E-value=48 Score=23.37 Aligned_cols=38 Identities=16% Similarity=0.148 Sum_probs=24.9
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeech
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQ 106 (339)
+++.+..++.-.|-.. -.-.++|..+|+++..|+.|.+
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 5566666665544433 3567899999999999998876
No 103
>TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs.
Probab=22.51 E-value=71 Score=25.56 Aligned_cols=43 Identities=16% Similarity=0.167 Sum_probs=27.6
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRAR 111 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK 111 (339)
++..+..++...|-. .....+||..+|+++..|..|...-+.+
T Consensus 111 L~~~~~~ii~~~~~~-----g~s~~eIA~~l~~s~~~v~~~~~~~~~k 153 (158)
T TIGR02937 111 LPEREREVLVLRYLE-----GLSYKEIAEILGISVGTVKRRLKRARKK 153 (158)
T ss_pred CCHHHHHHHhhHHhc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 566666666544332 2345689999999999987766543333
No 104
>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=22.50 E-value=2.8e+02 Score=22.94 Aligned_cols=43 Identities=37% Similarity=0.529 Sum_probs=27.0
Q ss_pred HHHHHHHHHhhhHH-HhhhhhhhHHHHHHHHHHHHHHHHhhhhh
Q 019577 117 LERDYGVLKANYDA-LKLNYDSLQHDNEALLKEIRELKSKLNEE 159 (339)
Q Consensus 117 ~ek~~~~lk~~~d~-L~~~~dsl~~ene~L~~E~~~LK~kl~~~ 159 (339)
.+..-..||.+|+. .....+.+..++..|..|+.+|+.+|.-+
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 34455666777777777777777776544
No 105
>KOG4343 consensus bZIP transcription factor ATF6 [Transcription]
Probab=22.43 E-value=1.6e+02 Score=31.91 Aligned_cols=24 Identities=38% Similarity=0.477 Sum_probs=12.0
Q ss_pred hhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 134 NYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 134 ~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
.-.++..||+.|++|+..||.+|.
T Consensus 310 rLq~ll~Ene~Lk~ENatLk~qL~ 333 (655)
T KOG4343|consen 310 RLQALLSENEQLKKENATLKRQLD 333 (655)
T ss_pred HHHHHHHHHHHHHhhhHHHHHHHH
Confidence 334444455555555555555443
No 106
>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=22.23 E-value=1.6e+02 Score=28.62 Aligned_cols=18 Identities=28% Similarity=0.248 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHhhhhhc
Q 019577 143 EALLKEIRELKSKLNEEN 160 (339)
Q Consensus 143 e~L~~E~~~LK~kl~~~~ 160 (339)
+.|++||++||+.|.-..
T Consensus 94 ~~l~~EN~rLr~LL~~~~ 111 (283)
T TIGR00219 94 QNLKQENVRLRELLNSPL 111 (283)
T ss_pred HHHHHHHHHHHHHhcCcc
Confidence 347888888888776543
No 107
>PRK09652 RNA polymerase sigma factor RpoE; Provisional
Probab=22.06 E-value=73 Score=27.02 Aligned_cols=42 Identities=14% Similarity=0.012 Sum_probs=29.2
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHh
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRA 110 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRA 110 (339)
+++.+..+|...|-.. -...++|..+|++...|+.|...-|.
T Consensus 129 L~~~~r~vl~l~~~~~-----~s~~eIA~~lgis~~tV~~~l~ra~~ 170 (182)
T PRK09652 129 LPEELRTAITLREIEG-----LSYEEIAEIMGCPIGTVRSRIFRARE 170 (182)
T ss_pred CCHHHHHHHHHHHHcC-----CCHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 6777777776654322 24568899999999999887763333
No 108
>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=22.01 E-value=2.5e+02 Score=31.29 Aligned_cols=20 Identities=15% Similarity=0.170 Sum_probs=14.5
Q ss_pred CCHHHHHHHHHHHCCCCceE
Q 019577 82 LEPERKVKLAQELGLQPRQV 101 (339)
Q Consensus 82 Ps~~~ReeLA~~LgLs~rQV 101 (339)
|....-..+|+.+||++..|
T Consensus 480 ~g~S~a~~iA~~~Glp~~ii 499 (771)
T TIGR01069 480 PGESYAFEIAQRYGIPHFII 499 (771)
T ss_pred CCCcHHHHHHHHhCcCHHHH
Confidence 44445667889999988776
No 109
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=21.74 E-value=3.9e+02 Score=20.82 Aligned_cols=18 Identities=28% Similarity=0.409 Sum_probs=9.7
Q ss_pred HHHHHHHHHHHHHHHHhh
Q 019577 139 QHDNEALLKEIRELKSKL 156 (339)
Q Consensus 139 ~~ene~L~~E~~~LK~kl 156 (339)
-.++..|+.|+..|+.+|
T Consensus 46 ~~e~~~Lk~E~e~L~~el 63 (69)
T PF14197_consen 46 YEENNKLKEENEALRKEL 63 (69)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 335555555555555554
No 110
>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=21.44 E-value=3.9e+02 Score=20.59 Aligned_cols=41 Identities=20% Similarity=0.318 Sum_probs=23.3
Q ss_pred HHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHHhhh
Q 019577 117 LERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKSKLN 157 (339)
Q Consensus 117 ~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~kl~ 157 (339)
+..+....+..+-.+...-......|..|..++..|+..+.
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 33444445555544554445555566777777777776653
No 111
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=21.43 E-value=2.2e+02 Score=31.76 Aligned_cols=20 Identities=20% Similarity=0.338 Sum_probs=14.5
Q ss_pred CCHHHHHHHHHHHCCCCceE
Q 019577 82 LEPERKVKLAQELGLQPRQV 101 (339)
Q Consensus 82 Ps~~~ReeLA~~LgLs~rQV 101 (339)
|....-..+|+.+||++..|
T Consensus 485 ~g~S~a~~iA~~~Glp~~ii 504 (782)
T PRK00409 485 PGKSNAFEIAKRLGLPENII 504 (782)
T ss_pred CCCcHHHHHHHHhCcCHHHH
Confidence 34445667889999988776
No 112
>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=21.40 E-value=2e+02 Score=21.53 Aligned_cols=22 Identities=36% Similarity=0.579 Sum_probs=11.3
Q ss_pred HhhhhhhhHHHHHHHHHHHHHH
Q 019577 131 LKLNYDSLQHDNEALLKEIREL 152 (339)
Q Consensus 131 L~~~~dsl~~ene~L~~E~~~L 152 (339)
+......++.+++.|+.++..|
T Consensus 29 l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 29 LQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3334444455555555555555
No 113
>PRK11924 RNA polymerase sigma factor; Provisional
Probab=20.79 E-value=90 Score=26.40 Aligned_cols=45 Identities=18% Similarity=0.172 Sum_probs=29.1
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhh
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWK 113 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~K 113 (339)
+++.+..++...|-. ...-.+||..+|+++..|+.|...-|.+.|
T Consensus 126 L~~~~r~i~~l~~~~-----~~~~~eIA~~lgis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 126 LPVKQREVFLLRYVE-----GLSYREIAEILGVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred CCHHHHHHhhHHHHc-----CCCHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 555555555544322 234578999999999999888764444444
No 114
>PRK06759 RNA polymerase factor sigma-70; Validated
Probab=20.74 E-value=76 Score=26.56 Aligned_cols=39 Identities=18% Similarity=0.132 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechh
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQN 107 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQN 107 (339)
+++.+..++...|-.. -...+||..+|++...|+.|...
T Consensus 107 L~~~~r~ii~l~~~~~-----~s~~EIA~~l~is~~tV~~~~~r 145 (154)
T PRK06759 107 LDEKEKYIIFERFFVG-----KTMGEIALETEMTYYQVRWIYRQ 145 (154)
T ss_pred CCHHHHHHHHHHHhcC-----CCHHHHHHHHCCCHHHHHHHHHH
Confidence 6666666665554332 34678999999999999887653
No 115
>KOG4196 consensus bZIP transcription factor MafK [Transcription]
Probab=20.44 E-value=3.4e+02 Score=24.19 Aligned_cols=41 Identities=20% Similarity=0.323 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhhHHHhhhhhhhHHHHHHHHHHHHHHHH
Q 019577 114 TKQLERDYGVLKANYDALKLNYDSLQHDNEALLKEIRELKS 154 (339)
Q Consensus 114 kkq~ek~~~~lk~~~d~L~~~~dsl~~ene~L~~E~~~LK~ 154 (339)
+..++++...|.+..+.|+.++..+..|.+.++.....|..
T Consensus 76 k~eLE~~k~~L~qqv~~L~~e~s~~~~E~da~k~k~e~l~~ 116 (135)
T KOG4196|consen 76 KHELEKEKAELQQQVEKLKEENSRLRRELDAYKSKYEALQN 116 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34678888888888888888888888888888887766653
No 116
>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=20.32 E-value=61 Score=24.89 Aligned_cols=44 Identities=20% Similarity=0.405 Sum_probs=21.2
Q ss_pred CCcCCHHH-HHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeech
Q 019577 61 KRRLSVDQ-VKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQ 106 (339)
Q Consensus 61 RrRfT~~Q-l~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQ 106 (339)
|+.|+... |.+++.... ...--...|. -|+++|+++++|+-|-+
T Consensus 3 rrsy~~~FKL~Vv~~a~~-~~nc~~~~RA-aarkf~V~r~~Vr~W~k 47 (58)
T PF09607_consen 3 RRSYTAEFKLKVVEYAEK-DNNCKGNQRA-AARKFNVSRRQVRKWRK 47 (58)
T ss_dssp -----HHHHHHHHHHHHH--TTTTT-HHH-HHHHTTS-HHHHHHHHT
T ss_pred ccccChHHHHHHHHHHHH-ccchhhhHHH-HHHHhCccHHHHHHHHH
Confidence 33355543 444444333 3222223343 49999999999988853
No 117
>PRK09642 RNA polymerase sigma factor SigW; Reviewed
Probab=20.31 E-value=97 Score=26.22 Aligned_cols=46 Identities=13% Similarity=0.122 Sum_probs=29.0
Q ss_pred CCHHHHHHHHHHhhhcCCCCHHHHHHHHHHHCCCCceEeeechhhHhHhhH
Q 019577 64 LSVDQVKALEKNFEVENKLEPERKVKLAQELGLQPRQVAVWFQNRRARWKT 114 (339)
Q Consensus 64 fT~~Ql~~LE~~F~~~~yPs~~~ReeLA~~LgLs~rQVqVWFQNRRAK~Kk 114 (339)
+++.+..++...|-.. -.-.++|..+|++...|++....-|.+.|+
T Consensus 107 Lp~~~r~v~~l~~~~g-----~s~~EIA~~lgis~~tV~~~l~Rar~~Lr~ 152 (160)
T PRK09642 107 LPENYRDVVLAHYLEE-----KSYQEIALQEKIEVKTVEMKLYRARKWIKK 152 (160)
T ss_pred CCHHHHHHHHHHHHhC-----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 5555555555443322 235688999999999998877544444443
No 118
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=20.27 E-value=1.6e+02 Score=31.20 Aligned_cols=11 Identities=45% Similarity=0.601 Sum_probs=7.2
Q ss_pred cCCHHHHHHHH
Q 019577 63 RLSVDQVKALE 73 (339)
Q Consensus 63 RfT~~Ql~~LE 73 (339)
.+++++++.|.
T Consensus 41 ~ltpee~kalG 51 (472)
T TIGR03752 41 ELSPEELKALG 51 (472)
T ss_pred cCCcchhHhcC
Confidence 37777776664
Done!