Query 017939
Match_columns 363
No_of_seqs 271 out of 1995
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 04:45:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017939.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017939hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5648 NHP6B Chromatin-associ 99.9 2E-21 4.3E-26 176.7 12.0 146 164-352 62-209 (211)
2 PTZ00199 high mobility group p 99.8 2.8E-19 6.1E-24 146.0 9.7 79 163-241 13-93 (94)
3 PTZ00199 high mobility group p 99.7 9.5E-18 2.1E-22 137.0 8.6 78 279-356 13-94 (94)
4 cd01389 MATA_HMG-box MATA_HMG- 99.7 1E-16 2.2E-21 125.7 7.2 70 172-241 1-70 (77)
5 PF00505 HMG_box: HMG (high mo 99.7 2.3E-16 5E-21 120.1 8.4 69 173-241 1-69 (69)
6 cd01390 HMGB-UBF_HMG-box HMGB- 99.7 3.5E-16 7.5E-21 118.0 8.4 65 173-237 1-65 (66)
7 cd01388 SOX-TCF_HMG-box SOX-TC 99.7 2.1E-16 4.6E-21 122.5 7.2 69 173-241 2-70 (72)
8 smart00398 HMG high mobility g 99.6 1.3E-15 2.8E-20 115.6 8.6 69 172-240 1-69 (70)
9 PF09011 HMG_box_2: HMG-box do 99.6 1.7E-15 3.6E-20 117.7 8.6 71 170-240 1-72 (73)
10 PF09011 HMG_box_2: HMG-box do 99.6 4.3E-15 9.3E-20 115.4 7.5 70 286-355 1-73 (73)
11 cd01389 MATA_HMG-box MATA_HMG- 99.6 2.9E-15 6.3E-20 117.5 5.8 70 288-357 1-72 (77)
12 PF00505 HMG_box: HMG (high mo 99.6 9.6E-15 2.1E-19 111.2 7.3 67 289-355 1-69 (69)
13 cd00084 HMG-box High Mobility 99.5 2.2E-14 4.8E-19 107.5 8.4 65 173-237 1-65 (66)
14 KOG0381 HMG box-containing pro 99.5 3.4E-14 7.4E-19 115.4 9.6 74 169-242 17-93 (96)
15 cd01390 HMGB-UBF_HMG-box HMGB- 99.5 1.7E-14 3.7E-19 108.7 7.1 64 289-352 1-66 (66)
16 cd01388 SOX-TCF_HMG-box SOX-TC 99.5 9.7E-15 2.1E-19 113.2 5.5 67 289-355 2-70 (72)
17 smart00398 HMG high mobility g 99.5 3.6E-14 7.9E-19 107.6 7.0 68 288-355 1-70 (70)
18 COG5648 NHP6B Chromatin-associ 99.4 2.4E-13 5.2E-18 124.2 6.6 79 281-359 63-143 (211)
19 cd00084 HMG-box High Mobility 99.4 8.7E-13 1.9E-17 98.8 7.1 63 289-351 1-65 (66)
20 KOG0381 HMG box-containing pro 99.4 1.8E-12 3.9E-17 105.3 8.2 72 287-358 21-95 (96)
21 KOG0526 Nucleosome-binding fac 99.3 1.2E-12 2.5E-17 132.8 6.3 76 163-242 526-601 (615)
22 KOG0527 HMG-box transcription 99.3 4.3E-12 9.2E-17 124.8 5.5 74 284-357 58-133 (331)
23 KOG0527 HMG-box transcription 99.3 4.9E-12 1.1E-16 124.3 5.6 75 166-240 56-130 (331)
24 KOG0526 Nucleosome-binding fac 99.2 7.8E-12 1.7E-16 126.9 6.4 77 278-356 525-601 (615)
25 KOG4715 SWI/SNF-related matrix 99.0 1.4E-09 3.1E-14 104.4 8.9 82 165-246 57-138 (410)
26 KOG3248 Transcription factor T 98.7 1.2E-08 2.5E-13 99.1 5.5 75 169-243 188-262 (421)
27 KOG3248 Transcription factor T 98.6 2.2E-08 4.9E-13 97.1 4.4 69 288-356 191-261 (421)
28 KOG4715 SWI/SNF-related matrix 98.4 3E-07 6.5E-12 88.7 6.3 74 285-358 61-136 (410)
29 KOG0528 HMG-box transcription 98.3 2.6E-07 5.5E-12 93.6 2.0 74 167-240 320-393 (511)
30 KOG0528 HMG-box transcription 98.2 5.3E-07 1.1E-11 91.4 0.8 70 288-357 325-396 (511)
31 PF14887 HMG_box_5: HMG (high 97.9 1.4E-05 3.1E-10 62.5 4.8 71 288-358 3-74 (85)
32 PF14887 HMG_box_5: HMG (high 97.6 0.00017 3.7E-09 56.5 6.2 71 172-243 3-73 (85)
33 KOG2746 HMG-box transcription 97.6 5.4E-05 1.2E-09 79.7 3.6 71 166-236 175-247 (683)
34 KOG2746 HMG-box transcription 97.0 0.00042 9.1E-09 73.2 3.0 68 287-356 180-251 (683)
35 PF04690 YABBY: YABBY protein; 96.8 0.002 4.3E-08 58.2 5.2 49 167-215 116-164 (170)
36 PF06382 DUF1074: Protein of u 95.6 0.016 3.5E-07 52.4 4.6 48 177-228 83-130 (183)
37 PF06382 DUF1074: Protein of u 94.0 0.057 1.2E-06 48.9 3.6 47 293-341 83-129 (183)
38 PF08073 CHDNT: CHDNT (NUC034) 92.4 0.13 2.7E-06 38.1 2.7 40 177-216 13-52 (55)
39 PF04690 YABBY: YABBY protein; 91.4 0.25 5.4E-06 44.8 4.0 44 286-329 119-164 (170)
40 PF06244 DUF1014: Protein of u 87.4 7 0.00015 33.6 9.8 48 169-216 69-116 (122)
41 PF08073 CHDNT: CHDNT (NUC034) 78.0 2.1 4.5E-05 31.7 2.5 37 293-329 13-51 (55)
42 TIGR03481 HpnM hopanoid biosyn 74.5 12 0.00026 34.6 7.1 52 307-358 59-112 (198)
43 PF04769 MAT_Alpha1: Mating-ty 74.4 4.5 9.8E-05 37.7 4.3 55 166-226 37-91 (201)
44 TIGR03481 HpnM hopanoid biosyn 67.9 9.6 0.00021 35.2 5.0 46 197-242 63-110 (198)
45 PRK15117 ABC transporter perip 67.6 11 0.00025 35.0 5.4 48 196-243 66-115 (211)
46 PF10458 Val_tRNA-synt_C: Valy 59.3 37 0.0008 25.6 6.0 58 84-141 2-59 (66)
47 PF05494 Tol_Tol_Ttg2: Toluene 58.2 18 0.00039 32.1 4.8 47 196-242 36-84 (170)
48 PRK15117 ABC transporter perip 52.0 18 0.00039 33.7 3.9 49 311-359 67-117 (211)
49 PF11304 DUF3106: Protein of u 43.4 1.9E+02 0.0042 24.0 8.8 28 200-227 9-36 (107)
50 PF04769 MAT_Alpha1: Mating-ty 43.3 37 0.00079 31.7 4.4 54 285-342 40-93 (201)
51 PF05494 Tol_Tol_Ttg2: Toluene 43.0 25 0.00055 31.1 3.2 48 310-357 36-85 (170)
52 PF12881 NUT_N: NUT protein N 42.6 47 0.001 33.0 5.1 53 177-229 229-281 (328)
53 KOG3223 Uncharacterized conser 39.1 15 0.00032 34.1 1.0 46 172-217 164-209 (221)
54 PF11304 DUF3106: Protein of u 38.9 1E+02 0.0023 25.6 6.1 26 315-340 10-35 (107)
55 PF12072 DUF3552: Domain of un 38.5 1.8E+02 0.0039 26.7 8.2 57 82-138 67-123 (201)
56 KOG1144 Translation initiation 36.0 1.1E+02 0.0023 34.5 7.0 24 85-108 213-236 (1064)
57 PF05667 DUF812: Protein of un 34.5 6.4E+02 0.014 27.4 18.2 68 83-150 325-392 (594)
58 PRK12704 phosphodiesterase; Pr 33.8 1.8E+02 0.0038 31.0 8.3 27 197-223 149-175 (520)
59 PLN02943 aminoacyl-tRNA ligase 32.0 1.2E+02 0.0026 34.7 7.1 60 83-142 886-945 (958)
60 COG4026 Uncharacterized protei 31.9 2.3E+02 0.0049 27.2 7.6 43 102-144 141-186 (290)
61 PRK05729 valS valyl-tRNA synth 30.9 1.3E+02 0.0029 33.8 7.2 60 83-142 808-867 (874)
62 TIGR03319 YmdA_YtgF conserved 28.5 2.4E+02 0.0053 29.9 8.2 24 197-220 143-166 (514)
63 PTZ00419 valyl-tRNA synthetase 28.4 1.5E+02 0.0033 34.0 7.2 58 83-140 926-983 (995)
64 PRK11637 AmiB activator; Provi 27.4 2.8E+02 0.0061 28.4 8.3 40 82-121 187-226 (428)
65 PF15581 Imm35: Immunity prote 25.5 1E+02 0.0022 25.1 3.6 29 313-341 31-59 (93)
66 COG2854 Ttg2D ABC-type transpo 24.4 1E+02 0.0023 28.8 4.0 39 205-243 78-117 (202)
67 COG2854 Ttg2D ABC-type transpo 24.2 73 0.0016 29.8 3.0 44 317-360 76-120 (202)
68 PRK13729 conjugal transfer pil 23.8 2E+02 0.0042 30.4 6.3 45 86-137 76-120 (475)
69 TIGR03319 YmdA_YtgF conserved 23.0 3.6E+02 0.0077 28.7 8.3 14 84-97 56-69 (514)
70 COG2433 Uncharacterized conser 22.9 3.6E+02 0.0078 29.5 8.1 29 118-146 485-513 (652)
71 PRK12704 phosphodiesterase; Pr 22.4 3.7E+02 0.0081 28.6 8.3 9 293-301 255-263 (520)
72 COG4985 ABC-type phosphate tra 21.3 3.3E+02 0.0072 26.3 6.7 54 90-143 190-243 (289)
73 PF12329 TMF_DNA_bd: TATA elem 21.1 2.2E+02 0.0047 22.1 4.7 14 109-122 7-20 (74)
74 cd00225 API3 Ascaris pepsin in 21.1 3.9E+02 0.0084 24.0 6.7 28 208-243 25-52 (159)
75 KOG1827 Chromatin remodeling c 20.5 9.6 0.00021 41.2 -4.0 44 176-219 552-595 (629)
76 PF13875 DUF4202: Domain of un 20.5 1.5E+02 0.0033 27.4 4.2 40 178-220 130-169 (185)
77 COG4026 Uncharacterized protei 20.3 4.4E+02 0.0096 25.3 7.3 59 83-141 132-190 (290)
78 PLN02381 valyl-tRNA synthetase 20.2 2.4E+02 0.0053 32.7 6.8 59 83-141 994-1052(1066)
No 1
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.86 E-value=2e-21 Score=176.71 Aligned_cols=146 Identities=29% Similarity=0.525 Sum_probs=132.0
Q ss_pred hhhccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 017939 164 DRKKKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERRE 243 (363)
Q Consensus 164 ~kk~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~e 243 (363)
.++++||+.||||+|+||+||.++|..|...+|++++++|++.+|++|++|+++||++|...|..++++|..++..|..
T Consensus 62 ~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~y~~- 140 (211)
T COG5648 62 VRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEEYNK- 140 (211)
T ss_pred HHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHhhhc-
Confidence 5678999999999999999999999999999999999999999999999999999999999999999999998765532
Q ss_pred HHHHHhhHHHHHHhhHHHHHHHHhhhhHhhhhhcCCCCCCCCCCCCCCCccccccccHHHHHHHHhhCC--ChHHHHHHH
Q 017939 244 SEAMKLLEEEHKQKTAMELLEQYLQFKQEADKENKKPKKEKDPLKPKHPVTAYFLFSSERRAALLADNK--NVLEVAKIT 321 (363)
Q Consensus 244 ~e~~kll~~eq~~k~~~e~~~~~~~~~~~~~~k~kkkKk~kd~~~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l 321 (363)
..+++.|..+|+-|....+..+...++ ...++++.+
T Consensus 141 ------------------------------------------k~~~~~~~~~~~e~~~~~r~~~~~~~~~~~~~e~~k~~ 178 (211)
T COG5648 141 ------------------------------------------KLPNKAPIGPFIENEPKIRPKVEGPSPDKALVEETKII 178 (211)
T ss_pred ------------------------------------------ccCCCCCCchhhhccHHhccccCCCCcchhhhHHhhhh
Confidence 125677888888899999988877776 579999999
Q ss_pred HHHhccCChHHhHHHHHHHHHHHHHHHHHHH
Q 017939 322 GEEWKNMTEEQKRPYEEIAKKNKEKYNEEME 352 (363)
Q Consensus 322 ~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~ 352 (363)
|..|.+|+++-|.+|.+.+..++..|...++
T Consensus 179 ~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 179 SKAWSELDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred hhhhhhhChhhhhHHHHHHHHHHHHHhhhcc
Confidence 9999999999999999999999999987764
No 2
>PTZ00199 high mobility group protein; Provisional
Probab=99.80 E-value=2.8e-19 Score=146.00 Aligned_cols=79 Identities=34% Similarity=0.555 Sum_probs=74.8
Q ss_pred hhhhccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCC--HHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHH
Q 017939 163 QDRKKKGCAERKRPSPPYILWCKDQWNEAKKENPEAE--FKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKE 240 (363)
Q Consensus 163 ~~kk~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s--~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~y 240 (363)
++++.+||+.||||+|||++||.++|..|..+||+++ +.+|+++||++|++||+++|.+|++.|..++.+|..+|..|
T Consensus 13 ~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e~~~Y 92 (94)
T PTZ00199 13 NKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKEKAEY 92 (94)
T ss_pred cCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3457899999999999999999999999999999986 89999999999999999999999999999999999999988
Q ss_pred h
Q 017939 241 R 241 (363)
Q Consensus 241 k 241 (363)
.
T Consensus 93 ~ 93 (94)
T PTZ00199 93 A 93 (94)
T ss_pred h
Confidence 4
No 3
>PTZ00199 high mobility group protein; Provisional
Probab=99.73 E-value=9.5e-18 Score=136.99 Aligned_cols=78 Identities=40% Similarity=0.811 Sum_probs=72.4
Q ss_pred CCCCCCCCCCCCCCccccccccHHHHHHHHhhCCC----hHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHH
Q 017939 279 KPKKEKDPLKPKHPVTAYFLFSSERRAALLADNKN----VLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAY 354 (363)
Q Consensus 279 kkKk~kd~~~PKrP~SAY~lF~~e~r~~~~~e~p~----~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~y 354 (363)
+++..+||+.||+|+|||++||+++|..+..+||+ +.+|+++||++|++||+++|.+|.++|+.++.+|..+|.+|
T Consensus 13 ~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e~~~Y 92 (94)
T PTZ00199 13 NKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKEKAEY 92 (94)
T ss_pred cCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44567899999999999999999999999999874 68999999999999999999999999999999999999999
Q ss_pred Hh
Q 017939 355 KR 356 (363)
Q Consensus 355 k~ 356 (363)
.+
T Consensus 93 ~~ 94 (94)
T PTZ00199 93 AK 94 (94)
T ss_pred hC
Confidence 63
No 4
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=99.67 E-value=1e-16 Score=125.74 Aligned_cols=70 Identities=31% Similarity=0.491 Sum_probs=67.4
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHh
Q 017939 172 ERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKER 241 (363)
Q Consensus 172 ~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk 241 (363)
.||||+|||||||++.|..|+.+||++++++|+++||++|++||+++|++|.+.|..++++|..++..|+
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yk 70 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYK 70 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCc
Confidence 3899999999999999999999999999999999999999999999999999999999999999988774
No 5
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=99.67 E-value=2.3e-16 Score=120.13 Aligned_cols=69 Identities=43% Similarity=0.777 Sum_probs=65.4
Q ss_pred CCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHh
Q 017939 173 RKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKER 241 (363)
Q Consensus 173 PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk 241 (363)
||||+|||++||.+++..++.+||++++++|+++||.+|++||+++|.+|.+.|..++..|..++..|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 899999999999999999999999999999999999999999999999999999999999999998874
No 6
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=99.66 E-value=3.5e-16 Score=118.02 Aligned_cols=65 Identities=51% Similarity=0.816 Sum_probs=63.5
Q ss_pred CCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHH
Q 017939 173 RKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVM 237 (363)
Q Consensus 173 PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~ 237 (363)
||+|+|||++||.++|..++..||++++.+|++.||.+|++||+++|.+|.+.|..++.+|..+|
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~ 65 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 89999999999999999999999999999999999999999999999999999999999999876
No 7
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=99.66 E-value=2.1e-16 Score=122.49 Aligned_cols=69 Identities=33% Similarity=0.577 Sum_probs=66.1
Q ss_pred CCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHh
Q 017939 173 RKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKER 241 (363)
Q Consensus 173 PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk 241 (363)
.|||+|||++||.++|..++.+||++++++|++.||++|+.||+++|++|.+.|..++++|.+++..|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 589999999999999999999999999999999999999999999999999999999999999887663
No 8
>smart00398 HMG high mobility group.
Probab=99.63 E-value=1.3e-15 Score=115.64 Aligned_cols=69 Identities=39% Similarity=0.680 Sum_probs=66.9
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHH
Q 017939 172 ERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKE 240 (363)
Q Consensus 172 ~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~y 240 (363)
+|++|+|||++||.+.+..+...||++++++|++.||.+|+.||+++|.+|.+.|..++..|...+..|
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y 69 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEY 69 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 589999999999999999999999999999999999999999999999999999999999999998776
No 9
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=99.62 E-value=1.7e-15 Score=117.75 Aligned_cols=71 Identities=35% Similarity=0.634 Sum_probs=63.4
Q ss_pred CCCCCCCCChHHHHHHHHHHHHHHH-CCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHH
Q 017939 170 CAERKRPSPPYILWCKDQWNEAKKE-NPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKE 240 (363)
Q Consensus 170 p~~PKrP~say~lF~~e~r~~ik~e-~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~y 240 (363)
|+.||+|+|||+|||.+++..++.. ++...++|+++.||..|++||++||.+|++.|+.++.+|..+|..|
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e~~~~ 72 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEW 72 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 6789999999999999999999988 7788999999999999999999999999999999999999999877
No 10
>PF09011 HMG_box_2: HMG-box domain; InterPro: IPR015101 This domain is predominantly found in Maelstrom homologue proteins. It has no known function. ; GO: 0005634 nucleus; PDB: 2EQZ_A 1V64_A 2CTO_A 1H5P_A 3TQ6_A 3FGH_A 3TMM_A 1J3X_A 2YRQ_A 1AAB_A ....
Probab=99.58 E-value=4.3e-15 Score=115.43 Aligned_cols=70 Identities=44% Similarity=0.767 Sum_probs=61.9
Q ss_pred CCCCCCCccccccccHHHHHHHHhhC---CChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHH
Q 017939 286 PLKPKHPVTAYFLFSSERRAALLADN---KNVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYK 355 (363)
Q Consensus 286 ~~~PKrP~SAY~lF~~e~r~~~~~e~---p~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk 355 (363)
|++||+|+|||+||+.+++..+...+ .+..++++.||..|++||++||.+|.++|..++++|..++..|.
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e~~~~~ 73 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMKEWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 56899999999999999999988763 37899999999999999999999999999999999999999984
No 11
>cd01389 MATA_HMG-box MATA_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include the fungal mating type gene products MC, MATA1 and Ste11.
Probab=99.57 E-value=2.9e-15 Score=117.48 Aligned_cols=70 Identities=30% Similarity=0.542 Sum_probs=66.0
Q ss_pred CCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 017939 288 KPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRR 357 (363)
Q Consensus 288 ~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~ 357 (363)
.||||+||||||+++.|..+..++| ++.+|+++||.+|+.||+++|++|.++|+.++++|..++++|+-.
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p~Yky~ 72 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYPDYKYT 72 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCCCCccc
Confidence 3799999999999999999999887 689999999999999999999999999999999999999999753
No 12
>PF00505 HMG_box: HMG (high mobility group) box; InterPro: IPR000910 High mobility group (HMG or HMGB) proteins are a family of relatively low molecular weight non-histone components in chromatin. HMG1 (also called HMG-T in fish) and HMG2 are two highly related proteins that bind single-stranded DNA preferentially and unwind double-stranded DNA. Although they have no sequence specificity, they have a high affinity for bent or distorted DNA, and bend linear DNA. HMG1 and HMG2 contain two DNA-binding HMG-box domains (A and B) that show structural and functional differences, and have a long acidic C-terminal domain rich in aspartic and glutamic acid residues. The acidic tail modulates the affinity of the tandem HMG boxes in HMG1 and 2 for a variety of DNA targets. HMG1 and 2 appear to play important architectural roles in the assembly of nucleoprotein complexes in a variety of biological processes, for example V(D)J recombination, the initiation of transcription, and DNA repair []. The profile in this entry describing the HMG-domains is much more general than the signature. In addition to the HMG1 and HMG2 proteins, HMG-domains occur in single or multiple copies in the following protein classes; the SOX family of transcription factors; SRY sex determining region Y protein and related proteins []; LEF1 lymphoid enhancer binding factor 1 []; SSRP recombination signal recognition protein; MTF1 mitochondrial transcription factor 1; UBF1/2 nucleolar transcription factors; Abf2 yeast ARS-binding factor []; and Saccharomyces cerevisiae transcription factors Ixr1, Rox1, Nhp6a, Nhp6b and Spp41.; GO: 0003677 DNA binding; PDB: 1I11_A 1J3C_A 1J3D_A 1WZ6_A 1WGF_A 2D7L_A 1GT0_D 3U2B_C 2CRJ_A 2CS1_A ....
Probab=99.56 E-value=9.6e-15 Score=111.16 Aligned_cols=67 Identities=46% Similarity=0.832 Sum_probs=62.7
Q ss_pred CCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHH
Q 017939 289 PKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYK 355 (363)
Q Consensus 289 PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk 355 (363)
|+||+|||++|+.+.+..+...|| +..+|++.||.+|++||+++|.+|.+.|..++.+|..++.+|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLSNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMPEYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTSTHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 799999999999999999999887 6899999999999999999999999999999999999999995
No 13
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=99.55 E-value=2.2e-14 Score=107.54 Aligned_cols=65 Identities=46% Similarity=0.746 Sum_probs=62.7
Q ss_pred CCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHH
Q 017939 173 RKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVM 237 (363)
Q Consensus 173 PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~ 237 (363)
||+|+|||++||.+.+..++..||++++.+|++.||.+|+.||+++|.+|.+.|..++..|...+
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~ 65 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 78999999999999999999999999999999999999999999999999999999999998763
No 14
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.54 E-value=3.4e-14 Score=115.41 Aligned_cols=74 Identities=36% Similarity=0.604 Sum_probs=70.6
Q ss_pred CC--CCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHH-HHhh
Q 017939 169 GC--AERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMA-KERR 242 (363)
Q Consensus 169 ~p--~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~-~yk~ 242 (363)
+| +.|++|++||++||.+.+..++.+||+++++||++.+|++|++|++++|.+|+..+..++++|..+|. .|+.
T Consensus 17 ~p~~~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~~~~~~ 93 (96)
T KOG0381|consen 17 DPNAQAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKA 93 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 66 49999999999999999999999999999999999999999999999999999999999999999998 7754
No 15
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=99.54 E-value=1.7e-14 Score=108.73 Aligned_cols=64 Identities=55% Similarity=0.963 Sum_probs=61.1
Q ss_pred CCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHH
Q 017939 289 PKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEME 352 (363)
Q Consensus 289 PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~ 352 (363)
||+|+|||++|+++.|..+...|+ ++.+|++.||..|++||+++|.+|.+.|+.++.+|..+|.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~~ 66 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEMK 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 899999999999999999998887 6899999999999999999999999999999999999873
No 16
>cd01388 SOX-TCF_HMG-box SOX-TCF_HMG-box, class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and transcription factor-like proteins, TCF-1, -3, -4, and LEF-1. They appear to bind the minor groove of the A/T C A A A G/C-motif.
Probab=99.53 E-value=9.7e-15 Score=113.16 Aligned_cols=67 Identities=37% Similarity=0.602 Sum_probs=63.9
Q ss_pred CCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHH
Q 017939 289 PKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYK 355 (363)
Q Consensus 289 PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk 355 (363)
.|||+|||++|++++|..+...|| ++.+|++.||+.|+.||+++|.+|.++|..++++|..++++|+
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p~y~ 70 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYPDYK 70 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCcCCC
Confidence 589999999999999999998887 6899999999999999999999999999999999999999885
No 17
>smart00398 HMG high mobility group.
Probab=99.51 E-value=3.6e-14 Score=107.60 Aligned_cols=68 Identities=54% Similarity=0.906 Sum_probs=64.4
Q ss_pred CCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHH
Q 017939 288 KPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYK 355 (363)
Q Consensus 288 ~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk 355 (363)
+|++|+|||++|+++.|..+...++ +..+|++.||..|+.||+++|.+|.+.|+.++.+|..++..|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMPEYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4899999999999999999988886 5899999999999999999999999999999999999999884
No 18
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.42 E-value=2.4e-13 Score=124.16 Aligned_cols=79 Identities=41% Similarity=0.802 Sum_probs=74.3
Q ss_pred CCCCCCCCCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017939 281 KKEKDPLKPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRRM 358 (363)
Q Consensus 281 Kk~kd~~~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~~ 358 (363)
++.+||+.||||+||||+|+.++|..+...++ ++.++.+.+|++|++|+++||.+|...|..++++|..+.+.|..+.
T Consensus 63 r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek~~y~~k~ 142 (211)
T COG5648 63 RKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREKEEYNKKL 142 (211)
T ss_pred HHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHHHhhhccc
Confidence 35679999999999999999999999999887 7899999999999999999999999999999999999999998865
Q ss_pred h
Q 017939 359 K 359 (363)
Q Consensus 359 ~ 359 (363)
+
T Consensus 143 ~ 143 (211)
T COG5648 143 P 143 (211)
T ss_pred C
Confidence 4
No 19
>cd00084 HMG-box High Mobility Group (HMG)-box is found in a variety of eukaryotic chromosomal proteins and transcription factors. HMGs bind to the minor groove of DNA and have been classified by DNA binding preferences. Two phylogenically distinct groups of Class I proteins bind DNA in a sequence specific fashion and contain a single HMG box. One group (SOX-TCF) includes transcription factors, TCF-1, -3, -4; and also SRY and LEF-1, which bind four-way DNA junctions and duplex DNA targets. The second group (MATA) includes fungal mating type gene products MC, MATA1 and Ste11. Class II and III proteins (HMGB-UBF) bind DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III member
Probab=99.39 E-value=8.7e-13 Score=98.83 Aligned_cols=63 Identities=56% Similarity=0.952 Sum_probs=59.9
Q ss_pred CCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHH
Q 017939 289 PKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEM 351 (363)
Q Consensus 289 PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~ 351 (363)
|++|+|||++|+++.+..+...++ +..+|++.||..|+.||+++|.+|.+.|+.++.+|..++
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~ 65 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEM 65 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 789999999999999999998887 689999999999999999999999999999999999875
No 20
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.37 E-value=1.8e-12 Score=105.30 Aligned_cols=72 Identities=54% Similarity=0.872 Sum_probs=68.4
Q ss_pred CCCCCCccccccccHHHHHHHHhhCCC--hHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHH-HHHhhh
Q 017939 287 LKPKHPVTAYFLFSSERRAALLADNKN--VLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEME-AYKRRM 358 (363)
Q Consensus 287 ~~PKrP~SAY~lF~~e~r~~~~~e~p~--~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~-~yk~~~ 358 (363)
+.|++|+|||++|+.+.+..+...||+ +.++++.+|.+|++|++++|.+|...|..++++|..+|. .|+...
T Consensus 21 ~~pkrp~sa~~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~~~~~~~~ 95 (96)
T KOG0381|consen 21 QAPKRPLSAFFLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELAGEYKASL 95 (96)
T ss_pred CCCCCCCcHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 589999999999999999999999985 899999999999999999999999999999999999999 998754
No 21
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.34 E-value=1.2e-12 Score=132.84 Aligned_cols=76 Identities=28% Similarity=0.531 Sum_probs=72.1
Q ss_pred hhhhccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhh
Q 017939 163 QDRKKKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERR 242 (363)
Q Consensus 163 ~~kk~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~ 242 (363)
..|++|||++|||++||||+|+...|..|+.+ |++++||++.+|++|+.||+ |.+|++.|+.++.+|+.+|..|+.
T Consensus 526 ~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~ 601 (615)
T KOG0526|consen 526 KGKKKKDPNAPKRATSAYMLWLNASRESIKED--GISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKN 601 (615)
T ss_pred CcccCCCCCCCccchhHHHHHHHhhhhhHhhc--CchHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHhhcC
Confidence 34688999999999999999999999999998 99999999999999999999 999999999999999999999874
No 22
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.26 E-value=4.3e-12 Score=124.77 Aligned_cols=74 Identities=31% Similarity=0.539 Sum_probs=69.2
Q ss_pred CCCCCCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 017939 284 KDPLKPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRR 357 (363)
Q Consensus 284 kd~~~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~ 357 (363)
...+..||||||||+|.+..|.++..+|| .+.||+|.||.+|+.|+++||.+|++.|++++.++++|+.+|+-+
T Consensus 58 ~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdYKYR 133 (331)
T KOG0527|consen 58 TSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDYKYR 133 (331)
T ss_pred CCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCcccc
Confidence 34567899999999999999999999998 479999999999999999999999999999999999999999864
No 23
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.26 E-value=4.9e-12 Score=124.33 Aligned_cols=75 Identities=28% Similarity=0.534 Sum_probs=71.5
Q ss_pred hccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHH
Q 017939 166 KKKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKE 240 (363)
Q Consensus 166 k~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~y 240 (363)
.++.....||||||||+|.+..|.+|..+||++.+.||+|.||.+|+.|+++||.+|++.|++++..+.++...|
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehPdY 130 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYPDY 130 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCCCc
Confidence 566778899999999999999999999999999999999999999999999999999999999999999988777
No 24
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.25 E-value=7.8e-12 Score=126.94 Aligned_cols=77 Identities=42% Similarity=0.710 Sum_probs=73.0
Q ss_pred CCCCCCCCCCCCCCCccccccccHHHHHHHHhhCCChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 017939 278 KKPKKEKDPLKPKHPVTAYFLFSSERRAALLADNKNVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKR 356 (363)
Q Consensus 278 kkkKk~kd~~~PKrP~SAY~lF~~e~r~~~~~e~p~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~ 356 (363)
++.|+.+||+.|||++||||+|.+..|..++.++.++.++++.+|+.|+.||. |.+|.+.|+.++.+|+.+|.+|+.
T Consensus 525 k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~dgi~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~~yk~ 601 (615)
T KOG0526|consen 525 KKGKKKKDPNAPKRATSAYMLWLNASRESIKEDGISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMKEYKN 601 (615)
T ss_pred cCcccCCCCCCCccchhHHHHHHHhhhhhHhhcCchHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHHhhcC
Confidence 44567889999999999999999999999999999999999999999999999 999999999999999999999984
No 25
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=98.99 E-value=1.4e-09 Score=104.43 Aligned_cols=82 Identities=29% Similarity=0.562 Sum_probs=76.9
Q ss_pred hhccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhhhH
Q 017939 165 RKKKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERRES 244 (363)
Q Consensus 165 kk~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~e~ 244 (363)
...+.|.+|-+|+-+|+.|....|++|++.||++...||.+++|.+|..|+++||+.|.+.|+.+|..|.+.|..|....
T Consensus 57 t~pkpPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~sp 136 (410)
T KOG4715|consen 57 TRPKPPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNSP 136 (410)
T ss_pred cCCCCCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence 45678999999999999999999999999999999999999999999999999999999999999999999999998764
Q ss_pred HH
Q 017939 245 EA 246 (363)
Q Consensus 245 e~ 246 (363)
..
T Consensus 137 ~y 138 (410)
T KOG4715|consen 137 AY 138 (410)
T ss_pred hH
Confidence 33
No 26
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=98.73 E-value=1.2e-08 Score=99.08 Aligned_cols=75 Identities=24% Similarity=0.359 Sum_probs=67.7
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 017939 169 GCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERRE 243 (363)
Q Consensus 169 ~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~e 243 (363)
.....|+|+|||+||++|+|..|.+++.-....+|.++||.+|.+||-+|..+|.+.|.++++.+.+....|-+.
T Consensus 188 KkphiKKPLNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSAR 262 (421)
T KOG3248|consen 188 KKPHIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSAR 262 (421)
T ss_pred cCccccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcchh
Confidence 445679999999999999999999998877889999999999999999999999999999999988887777553
No 27
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=98.64 E-value=2.2e-08 Score=97.12 Aligned_cols=69 Identities=23% Similarity=0.498 Sum_probs=63.4
Q ss_pred CCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 017939 288 KPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKR 356 (363)
Q Consensus 288 ~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~ 356 (363)
..|+|+|||++|++|+|..+.++.- ...+|.++||++|++||-+|.++|.++|.++++-+.+-+..|-+
T Consensus 191 hiKKPLNAFmlyMKEmRa~vvaEctlKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP~WSA 261 (421)
T KOG3248|consen 191 HIKKPLNAFMLYMKEMRAKVVAECTLKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYPGWSA 261 (421)
T ss_pred cccccHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcCCcch
Confidence 4699999999999999999988753 67999999999999999999999999999999999999888854
No 28
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=98.45 E-value=3e-07 Score=88.71 Aligned_cols=74 Identities=30% Similarity=0.553 Sum_probs=68.0
Q ss_pred CCCCCCCCccccccccHHHHHHHHhhCCC--hHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017939 285 DPLKPKHPVTAYFLFSSERRAALLADNKN--VLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRRM 358 (363)
Q Consensus 285 d~~~PKrP~SAY~lF~~e~r~~~~~e~p~--~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~~ 358 (363)
.|.+|-+|+-+||.|++-.|.++++.||. +.+|.++||.+|..|+++||+.|...++..+..|.+.|..|....
T Consensus 61 pPkppekpl~pymrySrkvWd~VkA~nPe~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smkayh~sp 136 (410)
T KOG4715|consen 61 PPKPPEKPLMPYMRYSRKVWDQVKASNPELKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMKAYHNSP 136 (410)
T ss_pred CCCCCCcccchhhHHhhhhhhhhhccCcchHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence 45567778899999999999999999984 799999999999999999999999999999999999999998753
No 29
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.29 E-value=2.6e-07 Score=93.65 Aligned_cols=74 Identities=27% Similarity=0.503 Sum_probs=62.0
Q ss_pred ccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHH
Q 017939 167 KKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKE 240 (363)
Q Consensus 167 ~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~y 240 (363)
...++..|||+|||+.|.++.|.+|...+||+-+..|+++||..|+.||..||++|.+.-...-..+.+....|
T Consensus 320 ~ss~PHIKRPMNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdY 393 (511)
T KOG0528|consen 320 ASSEPHIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDY 393 (511)
T ss_pred CCCCccccCCcchhhcccchhhhhhhhcCccccccchhHHhcccccccccccccchHHHHHHHHHhhhccCccc
Confidence 34456779999999999999999999999999999999999999999999999999876655544444444443
No 30
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.16 E-value=5.3e-07 Score=91.42 Aligned_cols=70 Identities=24% Similarity=0.499 Sum_probs=63.4
Q ss_pred CCCCCccccccccHHHHHHHHhhCCC--hHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhh
Q 017939 288 KPKHPVTAYFLFSSERRAALLADNKN--VLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRR 357 (363)
Q Consensus 288 ~PKrP~SAY~lF~~e~r~~~~~e~p~--~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~ 357 (363)
.-|||+||||+|.++.|..+....|+ ...|+++||.+|+.||..||++|.+.-.++...+.+.+++|+-+
T Consensus 325 HIKRPMNAFMVWAkDERRKILqA~PDMHNSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~PdYrYk 396 (511)
T KOG0528|consen 325 HIKRPMNAFMVWAKDERRKILQAFPDMHNSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYPDYRYK 396 (511)
T ss_pred cccCCcchhhcccchhhhhhhhcCccccccchhHHhcccccccccccccchHHHHHHHHHhhhccCcccccC
Confidence 34999999999999999988888775 58999999999999999999999999999999999999988753
No 31
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=97.93 E-value=1.4e-05 Score=62.48 Aligned_cols=71 Identities=20% Similarity=0.347 Sum_probs=57.8
Q ss_pred CCCCCccccccccHHHHHHHHhhCCC-hHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHhhh
Q 017939 288 KPKHPVTAYFLFSSERRAALLADNKN-VLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKRRM 358 (363)
Q Consensus 288 ~PKrP~SAY~lF~~e~r~~~~~e~p~-~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~~~ 358 (363)
.|..|.++--+|.++....+.+.+++ .....+.+...|++|++.+|-+|+..|.++..+|+.+|.+|+.-+
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~dr~K~~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~~ 74 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRNDRKKALKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSAP 74 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTSTHHHHHHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-CC
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHhHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 57788999999999999999888874 444567899999999999999999999999999999999887644
No 32
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=97.61 E-value=0.00017 Score=56.49 Aligned_cols=71 Identities=14% Similarity=0.264 Sum_probs=59.3
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 017939 172 ERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERRE 243 (363)
Q Consensus 172 ~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~e 243 (363)
.|..|.||--+|.+.....+.+.+++....+ .+.+...|++|++.+|..|+..|.++..+|+.+|.+|+..
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~dr~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~e~r~~ 73 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRNDRKKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELREMRSA 73 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTSTHHHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHHCCS-C
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHhHHHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHhcC
Confidence 4677899999999999999999999877777 4599999999999999999999999999999999877653
No 33
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=97.55 E-value=5.4e-05 Score=79.73 Aligned_cols=71 Identities=23% Similarity=0.449 Sum_probs=65.9
Q ss_pred hccCCCCCCCCCChHHHHHHHHH--HHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHHHHHHHHH
Q 017939 166 KKKGCAERKRPSPPYILWCKDQW--NEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAEKEAYLQV 236 (363)
Q Consensus 166 k~k~p~~PKrP~say~lF~~e~r--~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke 236 (363)
.+.+....++||++|++||+-+| ..+...||+..++-|+++||+.|-.|-..||+.|.+.|.+.++.+-+.
T Consensus 175 nkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 175 NKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred CcCcchhhhhhhHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 45667778999999999999999 999999999999999999999999999999999999999999887663
No 34
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=97.01 E-value=0.00042 Score=73.19 Aligned_cols=68 Identities=24% Similarity=0.446 Sum_probs=58.9
Q ss_pred CCCCCCccccccccHHHH--HHHHhhCC--ChHHHHHHHHHHhccCChHHhHHHHHHHHHHHHHHHHHHHHHHh
Q 017939 287 LKPKHPVTAYFLFSSERR--AALLADNK--NVLEVAKITGEEWKNMTEEQKRPYEEIAKKNKEKYNEEMEAYKR 356 (363)
Q Consensus 287 ~~PKrP~SAY~lF~~e~r--~~~~~e~p--~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~~ke~Y~~E~~~yk~ 356 (363)
...++|||||++|++-+| ..+...|+ +.+-|.++||+.|-.|.+.||+.|.++|.+.++.+-+. +|+.
T Consensus 180 ~HirrPMnaf~ifskrhr~~g~vhq~~pn~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka--e~~k 251 (683)
T KOG2746|consen 180 DHIRRPMNAFHIFSKRHRGEGRVHQRHPNQDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA--EWKK 251 (683)
T ss_pred hhhhhhhHHHHHHHhhcCCccchhccCccccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh--hccc
Confidence 346899999999999999 66666666 68999999999999999999999999999999888775 4443
No 35
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=96.81 E-value=0.002 Score=58.17 Aligned_cols=49 Identities=24% Similarity=0.417 Sum_probs=43.8
Q ss_pred ccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCC
Q 017939 167 KKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVS 215 (363)
Q Consensus 167 ~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS 215 (363)
.|.|.+..|-+|||..|+++...+|++.||+++..|++..++..|...+
T Consensus 116 ~kPPEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 116 NKPPEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFP 164 (170)
T ss_pred cCCccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCc
Confidence 3455566678999999999999999999999999999999999999765
No 36
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=95.64 E-value=0.016 Score=52.38 Aligned_cols=48 Identities=13% Similarity=0.255 Sum_probs=42.4
Q ss_pred CChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHH
Q 017939 177 SPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQA 228 (363)
Q Consensus 177 ~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~ 228 (363)
-+||+-|+.+++. .|.+++..|++...+..|..||+.+|..|..++..
T Consensus 83 nnaYLNFLReFRr----kh~~L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 83 NNAYLNFLREFRR----KHCGLSPQDLIQRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred chHHHHHHHHHHH----HccCCCHHHHHHHHHHHHHhCCHHHHHHHHhhcch
Confidence 3799999998875 57899999999999999999999999999886543
No 37
>PF06382 DUF1074: Protein of unknown function (DUF1074); InterPro: IPR024460 This family consists of several proteins which appear to be specific to Insecta. The function of this family is unknown.
Probab=93.97 E-value=0.057 Score=48.92 Aligned_cols=47 Identities=21% Similarity=0.342 Sum_probs=41.7
Q ss_pred ccccccccHHHHHHHHhhCCChHHHHHHHHHHhccCChHHhHHHHHHHH
Q 017939 293 VTAYFLFSSERRAALLADNKNVLEVAKITGEEWKNMTEEQKRPYEEIAK 341 (363)
Q Consensus 293 ~SAY~lF~~e~r~~~~~e~p~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae 341 (363)
.+||+-|+.+.+... .+++..|+....+..|..||+.+|..|..++.
T Consensus 83 nnaYLNFLReFRrkh--~~L~p~dlI~~AAraW~rLSe~eK~rYrr~~~ 129 (183)
T PF06382_consen 83 NNAYLNFLREFRRKH--CGLSPQDLIQRAARAWCRLSEAEKNRYRRMAP 129 (183)
T ss_pred chHHHHHHHHHHHHc--cCCCHHHHHHHHHHHHHhCCHHHHHHHHhhcc
Confidence 479999999999875 45788999999999999999999999998654
No 38
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=92.37 E-value=0.13 Score=38.15 Aligned_cols=40 Identities=23% Similarity=0.409 Sum_probs=36.6
Q ss_pred CChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCCh
Q 017939 177 SPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSA 216 (363)
Q Consensus 177 ~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~ 216 (363)
+|.|=+|..-.|+.|...||++....++..++.+|+..++
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~~ 52 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQE 52 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHHh
Confidence 5778899999999999999999999999999999997654
No 39
>PF04690 YABBY: YABBY protein; InterPro: IPR006780 YABBY proteins are a group of plant-specific transcription factors involved in the specification of abaxial polarity in lateral organs such as leaves and floral organs [, ].
Probab=91.36 E-value=0.25 Score=44.77 Aligned_cols=44 Identities=23% Similarity=0.342 Sum_probs=37.8
Q ss_pred CCCCCCCccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCC
Q 017939 286 PLKPKHPVTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMT 329 (363)
Q Consensus 286 ~~~PKrP~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls 329 (363)
|.+..|-.|||..|+++....++..+| +.+|++..++..|...+
T Consensus 119 PEKRqR~psaYn~f~k~ei~rik~~~p~ishkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 119 PEKRQRVPSAYNRFMKEEIQRIKAENPDISHKEAFSAAAKNWAHFP 164 (170)
T ss_pred ccccCCCchhHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhhhhCc
Confidence 344456679999999999999999998 67999999999998765
No 40
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=87.39 E-value=7 Score=33.62 Aligned_cols=48 Identities=19% Similarity=0.362 Sum_probs=41.8
Q ss_pred CCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCCh
Q 017939 169 GCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSA 216 (363)
Q Consensus 169 ~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~ 216 (363)
|..|-+|-.-+|--|+-.+.+.++.+|||+....+-.+|-..|..-++
T Consensus 69 drHPErR~KAAy~afeE~~Lp~lK~E~PgLrlsQ~kq~l~K~w~KSPe 116 (122)
T PF06244_consen 69 DRHPERRMKAAYKAFEERRLPELKEENPGLRLSQYKQMLWKEWQKSPE 116 (122)
T ss_pred CCCcchhHHHHHHHHHHHHhHHHHhhCCCchHHHHHHHHHHHHhcCCC
Confidence 444456666899999999999999999999999999999999987665
No 41
>PF08073 CHDNT: CHDNT (NUC034) domain; InterPro: IPR012958 The CHD N-terminal domain is found in PHD/RING fingers and chromo domain-associated helicases [].; GO: 0003677 DNA binding, 0005524 ATP binding, 0008270 zinc ion binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=78.04 E-value=2.1 Score=31.74 Aligned_cols=37 Identities=22% Similarity=0.405 Sum_probs=32.6
Q ss_pred ccccccccHHHHHHHHhhCC--ChHHHHHHHHHHhccCC
Q 017939 293 VTAYFLFSSERRAALLADNK--NVLEVAKITGEEWKNMT 329 (363)
Q Consensus 293 ~SAY~lF~~e~r~~~~~e~p--~~~ei~k~l~~~Wk~Ls 329 (363)
.|.|-+|.+..|+.+...|| +...++..++..|+.-+
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~~~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKAPMSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCcHHHHHHHHHHHHHHHH
Confidence 46788899999999999998 68999999999998654
No 42
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=74.51 E-value=12 Score=34.58 Aligned_cols=52 Identities=15% Similarity=0.412 Sum_probs=43.1
Q ss_pred HHhhCCChHHHHH-HHHHHhccCChHHhHHHHHHHHH-HHHHHHHHHHHHHhhh
Q 017939 307 LLADNKNVLEVAK-ITGEEWKNMTEEQKRPYEEIAKK-NKEKYNEEMEAYKRRM 358 (363)
Q Consensus 307 ~~~e~p~~~ei~k-~l~~~Wk~Ls~eEK~~Y~~~Ae~-~ke~Y~~E~~~yk~~~ 358 (363)
+...+.++..+++ .+|..|+.+|+++++.|.+.... ....|-..+..|..+.
T Consensus 59 iv~~~~Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~~~ 112 (198)
T TIGR03481 59 AVREAFDLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAGER 112 (198)
T ss_pred HHHHhCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcCce
Confidence 3345668888866 78999999999999999999988 7888999998887643
No 43
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=74.36 E-value=4.5 Score=37.65 Aligned_cols=55 Identities=20% Similarity=0.259 Sum_probs=41.1
Q ss_pred hccCCCCCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHH
Q 017939 166 KKKGCAERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKY 226 (363)
Q Consensus 166 k~k~p~~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a 226 (363)
.+.....++||+++|++|.+=+- ...|+....+++..|+..|..=+- |..|.-.+
T Consensus 37 ~~~~~~~~kr~lN~Fm~FRsyy~----~~~~~~~Qk~~S~~l~~lW~~dp~--k~~W~l~a 91 (201)
T PF04769_consen 37 RKRSPEKAKRPLNGFMAFRSYYS----PIFPPLPQKELSGILTKLWEKDPF--KNKWSLMA 91 (201)
T ss_pred ccccccccccchhHHHHHHHHHH----hhcCCcCHHHHHHHHHHHHhCCcc--HhHHHHHh
Confidence 34456678999999999987654 556789999999999999997332 44454333
No 44
>TIGR03481 HpnM hopanoid biosynthesis associated membrane protein HpnM. The genomes containing members of this family share the machinery for the biosynthesis of hopanoid lipids. Furthermore, the genes of this family are usually located proximal to other components of this biological process. The proteins are members of the pfam05494 family of putative transporters known as "toluene tolerance protein Ttg2D", although it is unlikely that the members included here have anything to do with toluene per-se.
Probab=67.95 E-value=9.6 Score=35.18 Aligned_cols=46 Identities=13% Similarity=0.396 Sum_probs=37.6
Q ss_pred CCCHHHHHH-HHhhccccCChhhhhhhHHHHHH-HHHHHHHHHHHHhh
Q 017939 197 EAEFKEITN-ILGAKWKNVSAEEKKPYEEKYQA-EKEAYLQVMAKERR 242 (363)
Q Consensus 197 ~~s~~Ei~K-~lge~Wk~LS~eEK~~Y~~~a~~-~Ke~Y~ke~~~yk~ 242 (363)
.+++..+++ .||.-|+.+|+++++.|.+.+.. ....|-..+..|..
T Consensus 63 ~~Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~~y~~ 110 (198)
T TIGR03481 63 AFDLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFKSYAG 110 (198)
T ss_pred hCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 456778876 78999999999999999999988 45558888877754
No 45
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=67.60 E-value=11 Score=35.03 Aligned_cols=48 Identities=19% Similarity=0.337 Sum_probs=38.8
Q ss_pred CCCCHHHHHH-HHhhccccCChhhhhhhHHHHHHHHHH-HHHHHHHHhhh
Q 017939 196 PEAEFKEITN-ILGAKWKNVSAEEKKPYEEKYQAEKEA-YLQVMAKERRE 243 (363)
Q Consensus 196 P~~s~~Ei~K-~lge~Wk~LS~eEK~~Y~~~a~~~Ke~-Y~ke~~~yk~e 243 (363)
|..++..+++ .||.-|+.+|++++..|.+.+.....+ |-..+..|..+
T Consensus 66 p~~Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q 115 (211)
T PRK15117 66 PYVQVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQ 115 (211)
T ss_pred ccCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 5567777766 789999999999999999998876544 88888877653
No 46
>PF10458 Val_tRNA-synt_C: Valyl tRNA synthetase tRNA binding arm; InterPro: IPR019499 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the C-terminal domain of Valyl-tRNA synthetase, which consists of two helices in a long alpha-hairpin. Valyl-tRNA synthetase (6.1.1.9 from EC) is an alpha monomer that belongs to class Ia.; GO: 0000166 nucleotide binding, 0004832 valine-tRNA ligase activity, 0005524 ATP binding, 0006438 valyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IVS_B 1GAX_B.
Probab=59.31 E-value=37 Score=25.58 Aligned_cols=58 Identities=29% Similarity=0.437 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHh
Q 017939 84 FDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQ 141 (363)
Q Consensus 84 ~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r 141 (363)
++.++.-|++.|++++.+-+.++..|.-.+=+-++..+-.+..-.....++.++.+++
T Consensus 2 ~~~E~~rL~Kel~kl~~~i~~~~~kL~n~~F~~kAP~eVve~er~kl~~~~~~~~~l~ 59 (66)
T PF10458_consen 2 VEAEIERLEKELEKLEKEIERLEKKLSNENFVEKAPEEVVEKEREKLEELEEELEKLE 59 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHCSTTHHHHS-CCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCccccccCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999999999877776667766655555555555555555543
No 47
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=58.20 E-value=18 Score=32.05 Aligned_cols=47 Identities=17% Similarity=0.461 Sum_probs=34.1
Q ss_pred CCCCHHHHHH-HHhhccccCChhhhhhhHHHHHHHHHH-HHHHHHHHhh
Q 017939 196 PEAEFKEITN-ILGAKWKNVSAEEKKPYEEKYQAEKEA-YLQVMAKERR 242 (363)
Q Consensus 196 P~~s~~Ei~K-~lge~Wk~LS~eEK~~Y~~~a~~~Ke~-Y~ke~~~yk~ 242 (363)
|.+.+..+++ .||.-|+.+|+++++.|.+.+...-.. |-..+..|..
T Consensus 36 ~~~D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~ 84 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSG 84 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS
T ss_pred HhCCHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 4567777776 578999999999999999988775544 7777666643
No 48
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=51.96 E-value=18 Score=33.69 Aligned_cols=49 Identities=18% Similarity=0.299 Sum_probs=39.9
Q ss_pred CCChHHHHH-HHHHHhccCChHHhHHHHHHHHH-HHHHHHHHHHHHHhhhh
Q 017939 311 NKNVLEVAK-ITGEEWKNMTEEQKRPYEEIAKK-NKEKYNEEMEAYKRRMK 359 (363)
Q Consensus 311 ~p~~~ei~k-~l~~~Wk~Ls~eEK~~Y~~~Ae~-~ke~Y~~E~~~yk~~~~ 359 (363)
+.++..+++ .+|.-|+.+|+++++.|.+.... +..-|-..+..|..+..
T Consensus 67 ~~Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~~y~~q~i 117 (211)
T PRK15117 67 YVQVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALAMYHGQTY 117 (211)
T ss_pred cCCHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHHHhCCceE
Confidence 346666655 78999999999999999998887 56789999999976543
No 49
>PF11304 DUF3106: Protein of unknown function (DUF3106); InterPro: IPR021455 Some members in this family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently no function is known.
Probab=43.38 E-value=1.9e+02 Score=23.99 Aligned_cols=28 Identities=11% Similarity=0.379 Sum_probs=22.0
Q ss_pred HHHHHHHHhhccccCChhhhhhhHHHHH
Q 017939 200 FKEITNILGAKWKNVSAEEKKPYEEKYQ 227 (363)
Q Consensus 200 ~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~ 227 (363)
-.++..-+...|..|++..+..+...+.
T Consensus 9 Qq~~L~pl~~~W~~l~~~qr~k~l~~a~ 36 (107)
T PF11304_consen 9 QQQALAPLAERWNSLPPEQRRKWLQIAE 36 (107)
T ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence 4566778888999999999888877663
No 50
>PF04769 MAT_Alpha1: Mating-type protein MAT alpha 1; InterPro: IPR006856 This family includes Saccharomyces cerevisiae (Baker's yeast) mating type protein alpha 1 (P01365 from SWISSPROT). MAT alpha 1 is a transcription activator that activates mating-type alpha-specific genes with the help of the MADS-box containing MCM1 transcription factor, which together bind cooperatively to PQ elements upstream of alpha-specific genes. The MCM1-MATalpha1 complex is required for the proper DNA-bending that is needed for transcriptional activation []. Alpha 1 interacts in vivo with STE12, linking expression of alpha-specific genes to the alpha-pheromone (IPR006742 from INTERPRO) response pathway [].; GO: 0000772 mating pheromone activity, 0003677 DNA binding, 0045895 positive regulation of transcription, mating-type specific, 0005634 nucleus
Probab=43.27 E-value=37 Score=31.67 Aligned_cols=54 Identities=22% Similarity=0.368 Sum_probs=38.5
Q ss_pred CCCCCCCCccccccccHHHHHHHHhhCCChHHHHHHHHHHhccCChHHhHHHHHHHHH
Q 017939 285 DPLKPKHPVTAYFLFSSERRAALLADNKNVLEVAKITGEEWKNMTEEQKRPYEEIAKK 342 (363)
Q Consensus 285 d~~~PKrP~SAY~lF~~e~r~~~~~e~p~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae~ 342 (363)
....++||.|+|+.|..=.-..+ .+.+..+++..|+..|.. +--|..|.-.|..
T Consensus 40 ~~~~~kr~lN~Fm~FRsyy~~~~--~~~~Qk~~S~~l~~lW~~--dp~k~~W~l~ak~ 93 (201)
T PF04769_consen 40 SPEKAKRPLNGFMAFRSYYSPIF--PPLPQKELSGILTKLWEK--DPFKNKWSLMAKA 93 (201)
T ss_pred cccccccchhHHHHHHHHHHhhc--CCcCHHHHHHHHHHHHhC--CccHhHHHHHhhh
Confidence 45567999999999965554222 345789999999999995 3346667666643
No 51
>PF05494 Tol_Tol_Ttg2: Toluene tolerance, Ttg2 ; InterPro: IPR008869 Toluene tolerance is mediated by increased cell membrane rigidity resulting from changes in fatty acid and phospholipid compositions, exclusion of toluene from the cell membrane, and removal of intracellular toluene by degradation []. Many proteins are involved in these processes. This family is a transporter which shows similarity to ABC transporters [].; PDB: 2QGU_A.
Probab=42.95 E-value=25 Score=31.08 Aligned_cols=48 Identities=17% Similarity=0.407 Sum_probs=33.6
Q ss_pred hCCChHHHHH-HHHHHhccCChHHhHHHHHHHHH-HHHHHHHHHHHHHhh
Q 017939 310 DNKNVLEVAK-ITGEEWKNMTEEQKRPYEEIAKK-NKEKYNEEMEAYKRR 357 (363)
Q Consensus 310 e~p~~~ei~k-~l~~~Wk~Ls~eEK~~Y~~~Ae~-~ke~Y~~E~~~yk~~ 357 (363)
.+.++..+++ .||.-|+.+|+++++.|...... ....|-..+..|...
T Consensus 36 ~~~D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~~y~~~ 85 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLDEYSGQ 85 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHHT-SS-
T ss_pred HhCCHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 3445555544 57889999999999999988877 567788888877643
No 52
>PF12881 NUT_N: NUT protein N terminus; InterPro: IPR024309 This domain is found in the N-terminal region of Nuclear Testis (NUT) proteins. It is also found in FAM22, which are a family of uncharacterised mammalian proteins.
Probab=42.60 E-value=47 Score=33.03 Aligned_cols=53 Identities=9% Similarity=0.056 Sum_probs=48.5
Q ss_pred CChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhhhhHHHHHHH
Q 017939 177 SPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKKPYEEKYQAE 229 (363)
Q Consensus 177 ~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~~Y~~~a~~~ 229 (363)
..|+.+|+.-....+....|.++.-|-....-.+|...|.-+|..|+++|++=
T Consensus 229 ~EAlSCFLIpvLrsLar~kPtMtlEeGl~ra~qEW~~~SnfdRmifyemaekF 281 (328)
T PF12881_consen 229 AEALSCFLIPVLRSLARLKPTMTLEEGLWRAVQEWQHTSNFDRMIFYEMAEKF 281 (328)
T ss_pred hhhhhhhHHHHHHHHHhcCCCccHHHHHHHHHHHhhccccccHHHHHHHHHHH
Confidence 67899999999999999999999999999999999999999999999999543
No 53
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=39.13 E-value=15 Score=34.08 Aligned_cols=46 Identities=20% Similarity=0.399 Sum_probs=40.7
Q ss_pred CCCCCCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChh
Q 017939 172 ERKRPSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAE 217 (363)
Q Consensus 172 ~PKrP~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~e 217 (363)
|-+|-.-+|.-|-....+.++.+||++...+.-.+|-.+|..-++.
T Consensus 164 PEkRmrAA~~afEe~~LPrLK~e~P~lrlsQ~Kqll~Kew~KsPDN 209 (221)
T KOG3223|consen 164 PEKRMRAAFKAFEEARLPRLKKENPGLRLSQYKQLLKKEWQKSPDN 209 (221)
T ss_pred hHHHHHHHHHHHHHhhchhhhhcCCCccHHHHHHHHHHHHhhCCCC
Confidence 3466668999999999999999999999999999999999987764
No 54
>PF11304 DUF3106: Protein of unknown function (DUF3106); InterPro: IPR021455 Some members in this family of proteins are annotated as transmembrane proteins however this cannot be confirmed. Currently no function is known.
Probab=38.89 E-value=1e+02 Score=25.57 Aligned_cols=26 Identities=27% Similarity=0.514 Sum_probs=12.5
Q ss_pred HHHHHHHHHHhccCChHHhHHHHHHH
Q 017939 315 LEVAKITGEEWKNMTEEQKRPYEEIA 340 (363)
Q Consensus 315 ~ei~k~l~~~Wk~Ls~eEK~~Y~~~A 340 (363)
.++..-+...|..|++..+..|...|
T Consensus 10 q~~L~pl~~~W~~l~~~qr~k~l~~a 35 (107)
T PF11304_consen 10 QQALAPLAERWNSLPPEQRRKWLQIA 35 (107)
T ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence 33444444555555555555444444
No 55
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=38.48 E-value=1.8e+02 Score=26.72 Aligned_cols=57 Identities=30% Similarity=0.462 Sum_probs=37.4
Q ss_pred CcHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHH
Q 017939 82 TSFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELK 138 (363)
Q Consensus 82 ~~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~ 138 (363)
..++.++..-+..|.++.-.-..-++.|+.+.+-|..++.+++.+..+.......|.
T Consensus 67 ~~~E~E~~~~~~el~~~E~rl~~rE~~L~~~~~~L~~~e~~l~~~~~~l~~~~~~l~ 123 (201)
T PF12072_consen 67 QELERELKERRKELQRLEKRLQQREEQLDRRLEQLEKREEELEKKEEELEQRKEELE 123 (201)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467778877777777776655666666777777777777766666665444443333
No 56
>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]
Probab=36.04 E-value=1.1e+02 Score=34.45 Aligned_cols=24 Identities=33% Similarity=0.417 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHH
Q 017939 85 DKDLQEMQEMLEKMKLEKEKTEEL 108 (363)
Q Consensus 85 ~~~~~~~~~~l~~~~~~~e~~e~~ 108 (363)
-+=|.+||.+|++.+.+.|.-...
T Consensus 213 ~Kgv~~~qe~La~~qe~eE~qkre 236 (1064)
T KOG1144|consen 213 PKGVRAMQEALAKRQEEEERQKRE 236 (1064)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHH
Confidence 344889999998887666554433
No 57
>PF05667 DUF812: Protein of unknown function (DUF812); InterPro: IPR008530 This family consists of several eukaryotic proteins of unknown function.
Probab=34.46 E-value=6.4e+02 Score=27.44 Aligned_cols=68 Identities=35% Similarity=0.442 Sum_probs=46.2
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHhhhhccCCCC
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQKMKEFKPNM 150 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r~mk~~~p~~ 150 (363)
--+.+|++|+..|+.++..-+.++.-++.-..-+..-.++.+....+...++.+++-...+.+..|..
T Consensus 325 ~~~~el~~l~~~l~~l~~~i~~~~~~~~~l~~~~~q~~~e~~~~~~~~~~le~~~~l~~k~~~lL~d~ 392 (594)
T PF05667_consen 325 EQEQELEELQEQLDELESQIEELEAEIKMLKSSLKQLEEELEEKEAENEELEEELKLKKKTVELLPDA 392 (594)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCc
Confidence 34678888998888887777776654444444455556666666777778888888777776664443
No 58
>PRK12704 phosphodiesterase; Provisional
Probab=33.81 E-value=1.8e+02 Score=31.01 Aligned_cols=27 Identities=19% Similarity=0.054 Sum_probs=14.9
Q ss_pred CCCHHHHHHHHhhccccCChhhhhhhH
Q 017939 197 EAEFKEITNILGAKWKNVSAEEKKPYE 223 (363)
Q Consensus 197 ~~s~~Ei~K~lge~Wk~LS~eEK~~Y~ 223 (363)
+++.-+.-..|=+.+..-...+...+.
T Consensus 149 ~lt~~ea~~~l~~~~~~~~~~~~~~~~ 175 (520)
T PRK12704 149 GLTAEEAKEILLEKVEEEARHEAAVLI 175 (520)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 666666666665555544444444433
No 59
>PLN02943 aminoacyl-tRNA ligase
Probab=32.01 E-value=1.2e+02 Score=34.68 Aligned_cols=60 Identities=13% Similarity=0.170 Sum_probs=43.7
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHhh
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQK 142 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r~ 142 (363)
.++.|+..|+++|++++.+-++.+.+|.-.+=+-++..+..+...+.+..++.+|..+.+
T Consensus 886 D~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~evv~~e~~kl~~~~~~l~~~~~ 945 (958)
T PLN02943 886 DISAEVERLSKRLSKMQTEYDALAARLSSPKFVEKAPEDVVRGVREKAAEAEEKIKLTKN 945 (958)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999777755566666555555545555555554443
No 60
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=31.86 E-value=2.3e+02 Score=27.19 Aligned_cols=43 Identities=44% Similarity=0.531 Sum_probs=21.3
Q ss_pred hHHHHHHhhhhHHHhhh---hHHHHHhhhHHHHHHHHHHHHHhhhh
Q 017939 102 KEKTEELLKEKDEMLKM---KEEELELQGKEQEKLHMELKKLQKMK 144 (363)
Q Consensus 102 ~e~~e~~~~e~~~~l~~---k~~e~~~~~~~~~~lq~~l~k~r~mk 144 (363)
+++++++.+|+.++++. .+.+.+.-.+..++|..+...+.+|-
T Consensus 141 kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~ 186 (290)
T COG4026 141 KEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEML 186 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444555555444432 33334444444556666666666654
No 61
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=30.95 E-value=1.3e+02 Score=33.84 Aligned_cols=60 Identities=23% Similarity=0.347 Sum_probs=49.3
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHhh
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQK 142 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r~ 142 (363)
.++.|+..|+++|++++.+-+..+..+.-.+=+-++.++..+...+....++.+|.++.+
T Consensus 808 d~~~e~~rL~K~l~kl~~ei~~~~~kL~n~~F~~KAP~~vve~e~~kl~~~~~~~~~l~~ 867 (874)
T PRK05729 808 DVEAELARLEKELAKLEKEIERVEKKLSNEGFVAKAPEEVVEKEREKLAEYEEKLAKLKE 867 (874)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 578999999999999999999999999887777788887777766666777777776654
No 62
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=28.52 E-value=2.4e+02 Score=29.94 Aligned_cols=24 Identities=17% Similarity=0.091 Sum_probs=11.8
Q ss_pred CCCHHHHHHHHhhccccCChhhhh
Q 017939 197 EAEFKEITNILGAKWKNVSAEEKK 220 (363)
Q Consensus 197 ~~s~~Ei~K~lge~Wk~LS~eEK~ 220 (363)
+++.-+.-..|=+.+..-...+..
T Consensus 143 ~lt~~eak~~l~~~~~~~~~~~~~ 166 (514)
T TIGR03319 143 GLTQEEAKEILLEEVEEEARHEAA 166 (514)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 556555555555544443333333
No 63
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=28.42 E-value=1.5e+02 Score=33.96 Aligned_cols=58 Identities=21% Similarity=0.300 Sum_probs=39.8
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHH
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKL 140 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~ 140 (363)
.++.|+..|+++|++++.+.++.+..|.-.+=+-++..+..+...+....++.+|.++
T Consensus 926 d~~~E~~rL~K~l~kl~~ei~~~~~kL~N~~F~~kAp~~vve~e~~kl~~~~~~l~~l 983 (995)
T PTZ00419 926 DLKKELAKLEKKLAKLQKSLESYLKKISIPNYEDKVPEDVRKLNDEKIDELNEEIKQL 983 (995)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHhCCchhhhcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999999999999987666444555544444433334444444333
No 64
>PRK11637 AmiB activator; Provisional
Probab=27.45 E-value=2.8e+02 Score=28.35 Aligned_cols=40 Identities=15% Similarity=0.266 Sum_probs=23.6
Q ss_pred CcHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHH
Q 017939 82 TSFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEE 121 (363)
Q Consensus 82 ~~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~ 121 (363)
..++.++.+++..+..+..++.+++....++..++..-..
T Consensus 187 ~~le~~~~~l~~~~~e~~~~k~~L~~~k~e~~~~l~~L~~ 226 (428)
T PRK11637 187 AELEEKQSQQKTLLYEQQAQQQKLEQARNERKKTLTGLES 226 (428)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556666666666666666666666666665555544433
No 65
>PF15581 Imm35: Immunity protein 35
Probab=25.50 E-value=1e+02 Score=25.14 Aligned_cols=29 Identities=21% Similarity=0.350 Sum_probs=22.3
Q ss_pred ChHHHHHHHHHHhccCChHHhHHHHHHHH
Q 017939 313 NVLEVAKITGEEWKNMTEEQKRPYEEIAK 341 (363)
Q Consensus 313 ~~~ei~k~l~~~Wk~Ls~eEK~~Y~~~Ae 341 (363)
+..-+...|...|+.|++++=.+-.+.+.
T Consensus 31 ~i~~l~~lIe~eWRGl~~~qV~~kl~ava 59 (93)
T PF15581_consen 31 TIRNLESLIEHEWRGLPEEQVLYKLEAVA 59 (93)
T ss_pred HHHHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 46778889999999999988765555443
No 66
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.38 E-value=1e+02 Score=28.78 Aligned_cols=39 Identities=21% Similarity=0.394 Sum_probs=32.5
Q ss_pred HHHhhccccCChhhhhhhHHHHHHHHH-HHHHHHHHHhhh
Q 017939 205 NILGAKWKNVSAEEKKPYEEKYQAEKE-AYLQVMAKERRE 243 (363)
Q Consensus 205 K~lge~Wk~LS~eEK~~Y~~~a~~~Ke-~Y~ke~~~yk~e 243 (363)
..||.-|+++|+++++.|.+.+...-. .|-..+..|+.+
T Consensus 78 ~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q 117 (202)
T COG2854 78 LVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQ 117 (202)
T ss_pred HHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCC
Confidence 467999999999999999999887654 488888888764
No 67
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.24 E-value=73 Score=29.77 Aligned_cols=44 Identities=16% Similarity=0.343 Sum_probs=36.9
Q ss_pred HHHHHHHHhccCChHHhHHHHHHHHH-HHHHHHHHHHHHHhhhhh
Q 017939 317 VAKITGEEWKNMTEEQKRPYEEIAKK-NKEKYNEEMEAYKRRMKE 360 (363)
Q Consensus 317 i~k~l~~~Wk~Ls~eEK~~Y~~~Ae~-~ke~Y~~E~~~yk~~~~E 360 (363)
-...+|.-|+.+|+++++.|...... +...|-..+-.|+.+..+
T Consensus 76 a~~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~~Y~~q~~~ 120 (202)
T COG2854 76 AKLVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALLDYKGQTLK 120 (202)
T ss_pred HHHHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHccCCCce
Confidence 34567899999999999999998888 567799999999887654
No 68
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=23.76 E-value=2e+02 Score=30.42 Aligned_cols=45 Identities=11% Similarity=0.178 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHH
Q 017939 86 KDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMEL 137 (363)
Q Consensus 86 ~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l 137 (363)
..+++|+++|+.|+.+.+.+...+.+.++.|+..+ .+...|+..+
T Consensus 76 ~kasELEKqLaaLrqElq~~saq~~dle~KIkeLE-------aE~~~Lk~Ql 120 (475)
T PRK13729 76 VTAAQMQKQYEEIRRELDVLNKQRGDDQRRIEKLG-------QDNAALAEQV 120 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhHHHHHHHHH-------HHHHHHHHHH
Confidence 45667777777775555544444444444444443 3466666666
No 69
>TIGR03319 YmdA_YtgF conserved hypothetical protein YmdA/YtgF.
Probab=23.04 E-value=3.6e+02 Score=28.70 Aligned_cols=14 Identities=14% Similarity=0.451 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHH
Q 017939 84 FDKDLQEMQEMLEK 97 (363)
Q Consensus 84 ~~~~~~~~~~~l~~ 97 (363)
.++++...+..+++
T Consensus 56 aeeE~~~~R~Ele~ 69 (514)
T TIGR03319 56 AKEEVHKLRAELER 69 (514)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444443
No 70
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=22.92 E-value=3.6e+02 Score=29.46 Aligned_cols=29 Identities=38% Similarity=0.510 Sum_probs=18.4
Q ss_pred hhHHHHHhhhHHHHHHHHHHHHHhhhhcc
Q 017939 118 MKEEELELQGKEQEKLHMELKKLQKMKEF 146 (363)
Q Consensus 118 ~k~~e~~~~~~~~~~lq~~l~k~r~mk~~ 146 (363)
.-+.+|+.+...-+.|..+|..++.|...
T Consensus 485 ~L~~~L~e~~~~ve~L~~~l~~l~k~~~l 513 (652)
T COG2433 485 RLEKELEEKKKRVEELERKLAELRKMRKL 513 (652)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33344666666667777777777766643
No 71
>PRK12704 phosphodiesterase; Provisional
Probab=22.43 E-value=3.7e+02 Score=28.60 Aligned_cols=9 Identities=0% Similarity=0.102 Sum_probs=5.3
Q ss_pred ccccccccH
Q 017939 293 VTAYFLFSS 301 (363)
Q Consensus 293 ~SAY~lF~~ 301 (363)
+|+|.-+-.
T Consensus 255 ls~~~~~rr 263 (520)
T PRK12704 255 LSGFDPIRR 263 (520)
T ss_pred EecCChhhH
Confidence 566666553
No 72
>COG4985 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]
Probab=21.29 E-value=3.3e+02 Score=26.26 Aligned_cols=54 Identities=24% Similarity=0.244 Sum_probs=31.9
Q ss_pred HHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHhhh
Q 017939 90 EMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQKM 143 (363)
Q Consensus 90 ~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r~m 143 (363)
-+-..||+|||+|-+.+=-.+=+++....--.|...=.+....|+++|+.++.-
T Consensus 190 ~in~qlErLRL~krrlQl~g~Ld~~~q~~~~ae~seLq~r~~~l~~~L~~L~~e 243 (289)
T COG4985 190 VINSQLERLRLEKRRLQLNGQLDDEFQQHYVAEKSELQKRLAQLQTELDALRAE 243 (289)
T ss_pred HHHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 344568888888877764334344444443444333344566788888887653
No 73
>PF12329 TMF_DNA_bd: TATA element modulatory factor 1 DNA binding; InterPro: IPR022092 This is the middle region of a family of TATA element modulatory factor 1 proteins conserved in eukaryotes that contains at its N-terminal section a number of leucine zippers that could potentially form coiled coil structures. The whole proteins bind to the TATA element of some RNA polymerase II promoters and repress their activity. by competing with the binding of TATA binding protein. TMFs are evolutionarily conserved golgins that bind Rab6, a ubiquitous ras-like GTP-binding Golgi protein, and contribute to Golgi organisation in animal [] and plant [] cells.
Probab=21.12 E-value=2.2e+02 Score=22.10 Aligned_cols=14 Identities=50% Similarity=0.529 Sum_probs=5.2
Q ss_pred hhhhHHHhhhhHHH
Q 017939 109 LKEKDEMLKMKEEE 122 (363)
Q Consensus 109 ~~e~~~~l~~k~~e 122 (363)
+.|+|+.|..-.+|
T Consensus 7 l~EKDe~Ia~L~eE 20 (74)
T PF12329_consen 7 LAEKDEQIAQLMEE 20 (74)
T ss_pred HHhHHHHHHHHHHH
Confidence 33333333333333
No 74
>cd00225 API3 Ascaris pepsin inhibitor-3 (API3); protein inhibitor that reversibly inhibits aspartic proteinase cathepsin E, and gastric enzymes pepsin and gastricsin.
Probab=21.07 E-value=3.9e+02 Score=23.95 Aligned_cols=28 Identities=25% Similarity=0.444 Sum_probs=21.8
Q ss_pred hhccccCChhhhhhhHHHHHHHHHHHHHHHHHHhhh
Q 017939 208 GAKWKNVSAEEKKPYEEKYQAEKEAYLQVMAKERRE 243 (363)
Q Consensus 208 ge~Wk~LS~eEK~~Y~~~a~~~Ke~Y~ke~~~yk~e 243 (363)
|-.|+.|+.+| +.+-..|..+...|+++
T Consensus 25 g~~lReLt~~E--------q~el~~y~~d~~~yK~~ 52 (159)
T cd00225 25 GFPLRELTPDE--------QQELAQYVEDVADYKEE 52 (159)
T ss_pred CceeeeCCHHH--------HHHHHHHHHHHHHHHHH
Confidence 45799999998 55566788888888776
No 75
>KOG1827 consensus Chromatin remodeling complex RSC, subunit RSC1/Polybromo and related proteins [Chromatin structure and dynamics; Transcription]
Probab=20.46 E-value=9.6 Score=41.19 Aligned_cols=44 Identities=30% Similarity=0.496 Sum_probs=40.5
Q ss_pred CCChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhh
Q 017939 176 PSPPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEK 219 (363)
Q Consensus 176 P~say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK 219 (363)
-+++|++|..+.+..+...+|++.+++++.++|..|..|+..-|
T Consensus 552 ~~~~~~~~s~~~~~~~~~~np~v~~~~~~~~vg~~~~~lp~~~k 595 (629)
T KOG1827|consen 552 SPEPYILDSIENRTIIWFENPTVGFGEVSIIVGNDWDKLPNINK 595 (629)
T ss_pred CCccccccccccCceeeeeCCCcccceeEEeecCCcccCccccc
Confidence 67899999999999999999999999999999999999994433
No 76
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=20.45 E-value=1.5e+02 Score=27.35 Aligned_cols=40 Identities=13% Similarity=0.375 Sum_probs=33.7
Q ss_pred ChHHHHHHHHHHHHHHHCCCCCHHHHHHHHhhccccCChhhhh
Q 017939 178 PPYILWCKDQWNEAKKENPEAEFKEITNILGAKWKNVSAEEKK 220 (363)
Q Consensus 178 say~lF~~e~r~~ik~e~P~~s~~Ei~K~lge~Wk~LS~eEK~ 220 (363)
-+-+.|+..++..+...| +--.+..+|..-|+.||+.-++
T Consensus 130 vacLVFL~~~f~~F~~~~---deeK~v~Il~KTw~KMS~~g~~ 169 (185)
T PF13875_consen 130 VACLVFLEYYFEDFAAKH---DEEKIVDILRKTWRKMSERGHE 169 (185)
T ss_pred hHHHHhHHHHHHHHHhcC---CHHHHHHHHHHHHHHCCHHHHH
Confidence 467889999999999887 5677888899999999997653
No 77
>COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only]
Probab=20.34 E-value=4.4e+02 Score=25.28 Aligned_cols=59 Identities=31% Similarity=0.391 Sum_probs=44.0
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHh
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQ 141 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r 141 (363)
.+.+.+++++.+|+.+..+++..-+-+.+-...+.+-.++++.=+.+.-+|...++++-
T Consensus 132 d~ke~~ee~kekl~E~~~EkeeL~~eleele~e~ee~~erlk~le~E~s~LeE~~~~l~ 190 (290)
T COG4026 132 DLKEDYEELKEKLEELQKEKEELLKELEELEAEYEEVQERLKRLEVENSRLEEMLKKLP 190 (290)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 67788889999999887777766666666666666666667666677778888887773
No 78
>PLN02381 valyl-tRNA synthetase
Probab=20.19 E-value=2.4e+02 Score=32.75 Aligned_cols=59 Identities=17% Similarity=0.284 Sum_probs=42.8
Q ss_pred cHHHHHHHHHHHHHHhhhhhHHHHHHhhhhHHHhhhhHHHHHhhhHHHHHHHHHHHHHh
Q 017939 83 SFDKDLQEMQEMLEKMKLEKEKTEELLKEKDEMLKMKEEELELQGKEQEKLHMELKKLQ 141 (363)
Q Consensus 83 ~~~~~~~~~~~~l~~~~~~~e~~e~~~~e~~~~l~~k~~e~~~~~~~~~~lq~~l~k~r 141 (363)
.++.++..|++.|++++.+-+..+..|.-.+=+.++.++..+...+....++.+|..+.
T Consensus 994 D~~~E~~rL~K~l~klekei~~~~~kLsN~~F~~KAP~~vve~e~~kl~~~~~~l~~l~ 1052 (1066)
T PLN02381 994 NAEAELEKLRNKMDEIQKQQEKLEKKMNASGYKEKVPANIQEEDARKLTKLLQELEFFE 1052 (1066)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhhhcCCchhhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999999999999877776566666555555444455555554443
Done!