Query 026860
Match_columns 232
No_of_seqs 237 out of 1236
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 13:44:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026860.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026860hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PTZ00199 high mobility group p 99.9 1.1E-21 2.3E-26 149.1 8.8 81 98-181 12-93 (94)
2 cd01389 MATA_HMG-box MATA_HMG- 99.8 4.5E-19 9.9E-24 129.4 8.4 74 108-185 1-74 (77)
3 cd01388 SOX-TCF_HMG-box SOX-TC 99.8 9.9E-19 2.1E-23 126.1 8.3 70 108-181 1-70 (72)
4 cd01390 HMGB-UBF_HMG-box HMGB- 99.8 4E-18 8.7E-23 119.7 8.2 66 109-175 1-66 (66)
5 PF00505 HMG_box: HMG (high mo 99.7 3.5E-18 7.6E-23 121.1 7.0 69 109-181 1-69 (69)
6 smart00398 HMG high mobility g 99.7 1.4E-17 3E-22 117.6 8.2 70 108-181 1-70 (70)
7 COG5648 NHP6B Chromatin-associ 99.7 1.7E-17 3.6E-22 141.0 9.1 89 93-185 55-143 (211)
8 PF09011 HMG_box_2: HMG-box do 99.7 3E-17 6.4E-22 118.7 7.2 72 106-181 1-73 (73)
9 cd00084 HMG-box High Mobility 99.7 2.3E-16 4.9E-21 110.1 8.1 66 109-175 1-66 (66)
10 KOG0527 HMG-box transcription 99.6 6.9E-16 1.5E-20 140.7 7.5 82 102-187 56-137 (331)
11 KOG0381 HMG box-containing pro 99.6 2.5E-15 5.4E-20 113.4 8.6 70 105-175 17-88 (96)
12 KOG0526 Nucleosome-binding fac 99.5 6E-14 1.3E-18 132.6 6.2 75 100-182 527-601 (615)
13 COG5648 NHP6B Chromatin-associ 99.3 2.1E-12 4.5E-17 110.0 3.9 137 23-175 66-209 (211)
14 KOG3248 Transcription factor T 99.1 1.2E-10 2.7E-15 105.1 6.0 74 107-184 190-263 (421)
15 KOG4715 SWI/SNF-related matrix 99.1 2.3E-10 5E-15 102.7 6.3 80 102-185 58-137 (410)
16 KOG0528 HMG-box transcription 99.0 2E-10 4.3E-15 107.9 3.0 79 103-185 320-398 (511)
17 PTZ00199 high mobility group p 98.4 2.8E-07 6.1E-12 69.9 3.2 68 23-91 18-92 (94)
18 KOG2746 HMG-box transcription 98.2 1.3E-06 2.7E-11 85.4 3.8 72 101-173 174-247 (683)
19 PF09011 HMG_box_2: HMG-box do 98.2 3.5E-07 7.6E-12 65.8 -0.1 64 27-91 3-72 (73)
20 cd01388 SOX-TCF_HMG-box SOX-TC 97.9 8.3E-06 1.8E-10 58.5 3.2 63 28-91 2-69 (72)
21 cd01389 MATA_HMG-box MATA_HMG- 97.9 1E-05 2.3E-10 58.6 3.5 64 28-92 2-70 (77)
22 PF14887 HMG_box_5: HMG (high 97.9 7.2E-05 1.6E-09 54.7 7.6 73 108-185 3-75 (85)
23 cd01390 HMGB-UBF_HMG-box HMGB- 97.7 2.3E-05 5.1E-10 54.3 3.0 44 44-88 20-65 (66)
24 smart00398 HMG high mobility g 97.5 7.2E-05 1.6E-09 52.1 2.5 63 28-91 2-69 (70)
25 PF00505 HMG_box: HMG (high mo 97.3 7.2E-05 1.6E-09 52.4 0.3 47 44-91 20-68 (69)
26 cd00084 HMG-box High Mobility 97.3 0.00025 5.4E-09 48.8 3.0 44 44-88 20-65 (66)
27 KOG0526 Nucleosome-binding fac 97.0 0.00047 1E-08 66.4 2.8 68 22-94 530-602 (615)
28 PF04690 YABBY: YABBY protein; 96.6 0.0042 9.2E-08 52.1 5.3 48 104-152 117-164 (170)
29 PF06382 DUF1074: Protein of u 96.6 0.0032 6.9E-08 52.9 4.4 48 113-165 83-130 (183)
30 KOG0527 HMG-box transcription 96.5 0.003 6.4E-08 58.2 4.1 67 23-92 58-131 (331)
31 KOG0381 HMG box-containing pro 95.9 0.0094 2E-07 44.5 3.4 63 27-91 22-91 (96)
32 PF08073 CHDNT: CHDNT (NUC034) 95.7 0.01 2.3E-07 40.7 2.7 40 113-153 13-52 (55)
33 KOG0528 HMG-box transcription 90.8 0.19 4.2E-06 48.2 2.9 58 13-79 317-382 (511)
34 PF04769 MAT_Alpha1: Mating-ty 90.2 0.48 1E-05 40.9 4.6 55 102-163 37-91 (201)
35 PF06244 DUF1014: Protein of u 90.1 0.4 8.7E-06 38.2 3.8 45 109-154 73-117 (122)
36 PF14887 HMG_box_5: HMG (high 89.8 0.17 3.7E-06 37.2 1.2 38 55-93 35-72 (85)
37 KOG4715 SWI/SNF-related matrix 81.5 3.8 8.1E-05 37.8 5.8 51 41-92 81-133 (410)
38 KOG3248 Transcription factor T 77.9 1.4 3E-05 40.9 1.9 26 55-80 224-249 (421)
39 KOG3223 Uncharacterized conser 77.1 3.8 8.2E-05 35.2 4.1 50 110-163 166-215 (221)
40 TIGR03481 HpnM hopanoid biosyn 76.1 4.4 9.5E-05 34.6 4.4 45 136-183 65-111 (198)
41 PRK15117 ABC transporter perip 71.7 7.2 0.00016 33.6 4.7 48 132-183 66-115 (211)
42 PF15243 ANAPC15: Anaphase-pro 65.7 3.1 6.8E-05 31.5 1.0 36 146-190 15-50 (92)
43 PF06524 NOA36: NOA36 protein; 54.6 4.2 9E-05 36.6 0.0 10 109-118 210-219 (314)
44 PF05494 Tol_Tol_Ttg2: Toluene 48.5 16 0.00035 29.9 2.6 44 136-182 39-84 (170)
45 PF12881 NUT_N: NUT protein N 39.7 62 0.0013 29.9 5.1 54 113-167 229-282 (328)
46 KOG2147 Nucleolar protein invo 29.0 43 0.00092 34.4 2.5 78 65-151 205-284 (823)
47 PF13875 DUF4202: Domain of un 26.9 97 0.0021 26.5 4.0 40 114-157 130-169 (185)
48 PF06382 DUF1074: Protein of u 26.3 49 0.0011 28.1 2.1 36 41-78 95-130 (183)
49 COG4049 Uncharacterized protei 24.1 20 0.00042 24.9 -0.6 17 28-44 8-24 (65)
50 COG2854 Ttg2D ABC-type transpo 23.9 75 0.0016 27.5 2.8 42 141-185 77-119 (202)
51 PF11705 RNA_pol_3_Rpc31: DNA- 23.6 35 0.00076 29.7 0.8 14 112-125 89-102 (233)
52 PRK10236 hypothetical protein; 20.1 83 0.0018 27.9 2.4 49 115-163 88-141 (237)
No 1
>PTZ00199 high mobility group protein; Provisional
Probab=99.86 E-value=1.1e-21 Score=149.11 Aligned_cols=81 Identities=36% Similarity=0.648 Sum_probs=75.8
Q ss_pred hhcccCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcC
Q 026860 98 RLRKKDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSK-GVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEG 176 (232)
Q Consensus 98 k~kK~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~-~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~ 176 (232)
++++..+||++||||+||||||++++|..|..+||++. ++.+|+++||++|+.||+++|++|.++|..++.+|..+|.
T Consensus 12 ~~~k~~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e~~- 90 (94)
T PTZ00199 12 KNKRKKKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKEKA- 90 (94)
T ss_pred ccCCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHH-
Confidence 44567899999999999999999999999999999983 3899999999999999999999999999999999999999
Q ss_pred Cccch
Q 026860 177 NGDYN 181 (232)
Q Consensus 177 ~~~y~ 181 (232)
+|+
T Consensus 91 --~Y~ 93 (94)
T PTZ00199 91 --EYA 93 (94)
T ss_pred --HHh
Confidence 985
No 2
>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=99.79 E-value=4.5e-19 Score=129.41 Aligned_cols=74 Identities=26% Similarity=0.408 Sum_probs=70.4
Q ss_pred CCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccchhhcc
Q 026860 108 KPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYNEVED 185 (232)
Q Consensus 108 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~~~~~ 185 (232)
+||||+||||||+++.|..|+.+||++ ++.+|+++||++|+.||+++|++|.++|..++++|..+++ +|+-...
T Consensus 1 ~~kRP~naf~lf~~~~r~~~~~~~p~~-~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p---~Yky~p~ 74 (77)
T cd01389 1 KIPRPRNAFILYRQDKHAQLKTENPGL-TNNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYP---DYKYTPR 74 (77)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCC---CCcccCC
Confidence 489999999999999999999999999 9999999999999999999999999999999999999999 9976543
No 3
>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=99.77 E-value=9.9e-19 Score=126.15 Aligned_cols=70 Identities=34% Similarity=0.600 Sum_probs=67.6
Q ss_pred CCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 108 KPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 108 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
+.|||+||||+|++++|..++.+||++ ++.+|+++||++|+.||+++|++|.++|..++++|.++++ +|+
T Consensus 1 ~iKrP~naf~~F~~~~r~~~~~~~p~~-~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p---~y~ 70 (72)
T cd01388 1 HIKRPMNAFMLFSKRHRRKVLQEYPLK-ENRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYP---DYK 70 (72)
T ss_pred CCCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCc---CCC
Confidence 368999999999999999999999999 9999999999999999999999999999999999999999 886
No 4
>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=99.75 E-value=4e-18 Score=119.66 Aligned_cols=66 Identities=48% Similarity=0.819 Sum_probs=64.0
Q ss_pred CCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhc
Q 026860 109 PKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAME 175 (232)
Q Consensus 109 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~ 175 (232)
||+|+|||++|++++|..++..||++ ++.+|+++||.+|+.||+++|++|.+.|..++.+|..+|.
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~~-~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e~~ 66 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPDA-SVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKEMK 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 89999999999999999999999998 9999999999999999999999999999999999999874
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=99.74 E-value=3.5e-18 Score=121.11 Aligned_cols=69 Identities=43% Similarity=0.799 Sum_probs=65.3
Q ss_pred CCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 109 PKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 109 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
||||+|||+||+.++|..++..||++ +..+|+++||++|+.||+++|++|.+.|...+.+|..+|+ .|+
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~-~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~~~---~y~ 69 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDL-SNKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKEMP---EYK 69 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTS-THHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHHHH---HHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhccc-ccccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH---hcC
Confidence 89999999999999999999999999 8999999999999999999999999999999999999999 884
No 6
>smart00398 HMG high mobility group.
Probab=99.73 E-value=1.4e-17 Score=117.57 Aligned_cols=70 Identities=41% Similarity=0.764 Sum_probs=67.5
Q ss_pred CCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 108 KPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 108 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
+||+|+|||++|++++|..+...||++ ++.+|+++||.+|+.||+++|++|.+.|..++.+|..+|. .|+
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~-~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~~---~y~ 70 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDL-SNAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEMP---EYK 70 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHH---hcC
Confidence 589999999999999999999999999 8999999999999999999999999999999999999999 874
No 7
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.72 E-value=1.7e-17 Score=140.96 Aligned_cols=89 Identities=38% Similarity=0.677 Sum_probs=82.9
Q ss_pred ChhhhhhcccCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHH
Q 026860 93 EPRAKRLRKKDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSK 172 (232)
Q Consensus 93 ~~k~kk~kK~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~k 172 (232)
.++.+..+++.++||.||||+||||+|++++|..|...+|.+ ++.+|+++||++|++|++++|++|...|..+.++|..
T Consensus 55 ~~ksk~~~r~k~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l-~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ 133 (211)
T COG5648 55 KTKSKRLVRKKKDPNGPKRPLSAYFLYSAENRDEIRKENPKL-TFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQR 133 (211)
T ss_pred chHHHHHHHHhcCCCCCCCchhHHHHHHHHHHHHHHHhCCCC-ChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHH
Confidence 344445567889999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HhcCCccchhhcc
Q 026860 173 AMEGNGDYNEVED 185 (232)
Q Consensus 173 e~~~~~~y~~~~~ 185 (232)
++. .|..+.+
T Consensus 134 ek~---~y~~k~~ 143 (211)
T COG5648 134 EKE---EYNKKLP 143 (211)
T ss_pred HHH---hhhcccC
Confidence 999 9998877
No 8
>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=99.70 E-value=3e-17 Score=118.71 Aligned_cols=72 Identities=44% Similarity=0.826 Sum_probs=63.1
Q ss_pred CCCCCCCCCchhhhHHHHHHHHHHh-CCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 106 SNKPKRPPTAFFLFMDDFRKEYKEA-HPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 106 p~~PKrP~sAy~lF~~e~R~~~k~~-~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
|++||+|+|||+||+.+++..++.. ++.. ++.++++.|+.+|+.||+++|.+|..+|..++.+|..+|. .|+
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 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQ-SFREVMKEISERWKSLSEEEKEPYEERAKEDKERYEREMK---EWN 73 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-S-SHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHHHH---HH-
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHH---hcC
Confidence 6899999999999999999999988 6665 8899999999999999999999999999999999999999 874
No 9
>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=99.67 E-value=2.3e-16 Score=110.11 Aligned_cols=66 Identities=44% Similarity=0.745 Sum_probs=63.4
Q ss_pred CCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhc
Q 026860 109 PKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAME 175 (232)
Q Consensus 109 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~ 175 (232)
||+|+|||++|++++|..++..||++ +..+|+++||.+|+.||+++|.+|.+.|..++.+|..++.
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~~-~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~~~ 66 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPGL-SVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKEMP 66 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcCC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhC
Confidence 78999999999999999999999998 8999999999999999999999999999999999998763
No 10
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=99.62 E-value=6.9e-16 Score=140.66 Aligned_cols=82 Identities=27% Similarity=0.566 Sum_probs=76.3
Q ss_pred cCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 102 KDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 102 ~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
.+....+.||||||||+|++..|.+|..+||+| .+.||+|+||.+|+.|+++||.||+++|++++..|+++++ +|+
T Consensus 56 ~k~~~~hIKRPMNAFMVWSq~~RRkma~qnP~m-HNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehP---dYK 131 (331)
T KOG0527|consen 56 DKTSTDRIKRPMNAFMVWSQGQRRKLAKQNPKM-HNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYP---DYK 131 (331)
T ss_pred CCCCccccCCCcchhhhhhHHHHHHHHHhCcch-hhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCC---Ccc
Confidence 456678999999999999999999999999999 7899999999999999999999999999999999999999 998
Q ss_pred hhcccc
Q 026860 182 EVEDKA 187 (232)
Q Consensus 182 ~~~~~~ 187 (232)
-....+
T Consensus 132 YRPRRK 137 (331)
T KOG0527|consen 132 YRPRRK 137 (331)
T ss_pred cccccc
Confidence 766543
No 11
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=99.61 E-value=2.5e-15 Score=113.43 Aligned_cols=70 Identities=47% Similarity=0.820 Sum_probs=67.7
Q ss_pred CC--CCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhc
Q 026860 105 DS--NKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAME 175 (232)
Q Consensus 105 dp--~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~ 175 (232)
+| +.||||++|||+|+.+.|..++.+||++ ++.+|+++||++|++|++++|++|...|..++.+|..+|.
T Consensus 17 ~p~~~~pkrp~sa~~~f~~~~~~~~k~~~p~~-~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~~ 88 (96)
T KOG0381|consen 17 DPNAQAPKRPLSAFFLFSSEQRSKIKAENPGL-SVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKELA 88 (96)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66 5999999999999999999999999997 9999999999999999999999999999999999999998
No 12
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=99.46 E-value=6e-14 Score=132.61 Aligned_cols=75 Identities=43% Similarity=0.685 Sum_probs=71.1
Q ss_pred cccCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCcc
Q 026860 100 RKKDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGD 179 (232)
Q Consensus 100 kK~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~ 179 (232)
.|+.+|||+||||+||||+|++..|..|+.. ++ ++++|+|.+|++|+.||. |.+|.++|+.++.+|+.+|. +
T Consensus 527 ~kk~kdpnapkra~sa~m~w~~~~r~~ik~d--gi-~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~---~ 598 (615)
T KOG0526|consen 527 GKKKKDPNAPKRATSAYMLWLNASRESIKED--GI-SVGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMK---E 598 (615)
T ss_pred cccCCCCCCCccchhHHHHHHHhhhhhHhhc--Cc-hHHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHH---h
Confidence 3578999999999999999999999999987 77 999999999999999999 89999999999999999999 9
Q ss_pred chh
Q 026860 180 YNE 182 (232)
Q Consensus 180 y~~ 182 (232)
|+.
T Consensus 599 yk~ 601 (615)
T KOG0526|consen 599 YKN 601 (615)
T ss_pred hcC
Confidence 983
No 13
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=99.28 E-value=2.1e-12 Score=110.04 Aligned_cols=137 Identities=21% Similarity=0.251 Sum_probs=114.1
Q ss_pred CCccccccCCCCchhH-hh----HhhhcCCcc-chhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCCChh
Q 026860 23 TSSATLMRGRDGSAFA-RC----EECNKNVPV-ALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTSTEPR 95 (232)
Q Consensus 23 ~~~~~~~r~~dgsaf~-~c----e~~~~~~~v-a~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~~~k 95 (232)
++++.++| -.|||. .| ++.....|. .|.++ +.+|++|+.|++.|+.+|...+..+. ++|.+++..|...
T Consensus 66 ~dpN~PKR--p~sayf~y~~~~R~ei~~~~p~l~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~-erYq~ek~~y~~k- 141 (211)
T COG5648 66 KDPNGPKR--PLSAYFLYSAENRDEIRKENPKLTFGEVGKLLSEKWKELTDEEKEPYYKEANSDR-ERYQREKEEYNKK- 141 (211)
T ss_pred cCCCCCCC--chhHHHHHHHHHHHHHHHhCCCCChHHHHHHHHHHHHhccHhhhhhHHHHHhhHH-HHHHHHHHhhhcc-
Confidence 34567887 456664 33 334555553 34455 89999999999999999999999999 9999999888331
Q ss_pred hhhhcccCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhc
Q 026860 96 AKRLRKKDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAME 175 (232)
Q Consensus 96 ~kk~kK~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~ 175 (232)
.+|+.|.-+|+-+-...|+.+...+|+. ...+++++++..|++|++..|.+|.+.+..++..|...|+
T Consensus 142 -----------~~~~~~~~~~~e~~~~~r~~~~~~~~~~-~~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~~ 209 (211)
T COG5648 142 -----------LPNKAPIGPFIENEPKIRPKVEGPSPDK-ALVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFYP 209 (211)
T ss_pred -----------cCCCCCCchhhhccHHhccccCCCCcch-hhhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhcc
Confidence 2567888999999999999999999986 8889999999999999999999999999999999988776
No 14
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=99.09 E-value=1.2e-10 Score=105.11 Aligned_cols=74 Identities=19% Similarity=0.385 Sum_probs=67.6
Q ss_pred CCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccchhhc
Q 026860 107 NKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYNEVE 184 (232)
Q Consensus 107 ~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~~~~ 184 (232)
...|+|+|||||||+|.|..|.++.- ++...+|.++||++|..||.+|..+|.++|.++++-|+..++ .|-+..
T Consensus 190 phiKKPLNAFmlyMKEmRa~vvaEct-lKeSAaiNqiLGrRWH~LSrEEQAKYyElArKerqlH~qlYP---~WSARd 263 (421)
T KOG3248|consen 190 PHIKKPLNAFMLYMKEMRAKVVAECT-LKESAAINQILGRRWHALSREEQAKYYELARKERQLHMQLYP---GWSARD 263 (421)
T ss_pred ccccccHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHHHHHHHhcC---Ccchhh
Confidence 47899999999999999999999885 556678999999999999999999999999999999999999 886644
No 15
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=99.06 E-value=2.3e-10 Score=102.66 Aligned_cols=80 Identities=21% Similarity=0.489 Sum_probs=73.7
Q ss_pred cCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccch
Q 026860 102 KDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYN 181 (232)
Q Consensus 102 ~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~ 181 (232)
..+.|.+|-+|+-+||.|+...+++|++.||++ ..-+|.|+||.+|..|++++|+-|+..++..+..|.+.|. +|.
T Consensus 58 ~pkpPkppekpl~pymrySrkvWd~VkA~nPe~-kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smk---ayh 133 (410)
T KOG4715|consen 58 RPKPPKPPEKPLMPYMRYSRKVWDQVKASNPEL-KLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMK---AYH 133 (410)
T ss_pred CCCCCCCCCcccchhhHHhhhhhhhhhccCcch-HHHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHH---Hhh
Confidence 345677889999999999999999999999999 7889999999999999999999999999999999999999 887
Q ss_pred hhcc
Q 026860 182 EVED 185 (232)
Q Consensus 182 ~~~~ 185 (232)
....
T Consensus 134 ~sp~ 137 (410)
T KOG4715|consen 134 NSPA 137 (410)
T ss_pred CCch
Confidence 6543
No 16
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=98.99 E-value=2e-10 Score=107.92 Aligned_cols=79 Identities=30% Similarity=0.518 Sum_probs=71.4
Q ss_pred CCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccchh
Q 026860 103 DSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYNE 182 (232)
Q Consensus 103 ~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~~ 182 (232)
...+++.||||||||.|.++.|.+|...+|+++ ...|+|+||.+|+.||-.+|+||.+.-.++-..|...++ +|+-
T Consensus 320 ~ss~PHIKRPMNAFMVWAkDERRKILqA~PDMH-NSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~P---dYrY 395 (511)
T KOG0528|consen 320 ASSEPHIKRPMNAFMVWAKDERRKILQAFPDMH-NSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKYP---DYRY 395 (511)
T ss_pred CCCCccccCCcchhhcccchhhhhhhhcCcccc-ccchhHHhcccccccccccccchHHHHHHHHHhhhccCc---cccc
Confidence 344567899999999999999999999999995 457999999999999999999999999999999999999 9987
Q ss_pred hcc
Q 026860 183 VED 185 (232)
Q Consensus 183 ~~~ 185 (232)
+..
T Consensus 396 kPR 398 (511)
T KOG0528|consen 396 KPR 398 (511)
T ss_pred CCC
Confidence 554
No 17
>PTZ00199 high mobility group protein; Provisional
Probab=98.37 E-value=2.8e-07 Score=69.88 Aligned_cols=68 Identities=16% Similarity=0.057 Sum_probs=51.3
Q ss_pred CCccccccCCCCchhHhhHh---hhcCCccc---hhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCC
Q 026860 23 TSSATLMRGRDGSAFARCEE---CNKNVPVA---LISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTS 91 (232)
Q Consensus 23 ~~~~~~~r~~dgsaf~~ce~---~~~~~~va---~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~ 91 (232)
+++..++|+..+..|...+. ....+|.. +.++ +.|+.+|+.|++.||.+|+.+|+.++ .+|..++..|
T Consensus 18 kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk-~rY~~e~~~Y 92 (94)
T PTZ00199 18 KDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDK-VRYEKEKAEY 92 (94)
T ss_pred CCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HHHHHHHHHH
Confidence 45677888765554443332 23344543 4555 79999999999999999999999999 9999998777
No 18
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=98.17 E-value=1.3e-06 Score=85.40 Aligned_cols=72 Identities=29% Similarity=0.471 Sum_probs=66.1
Q ss_pred ccCCCCCCCCCCCCchhhhHHHHH--HHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHH
Q 026860 101 KKDSDSNKPKRPPTAFFLFMDDFR--KEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKA 173 (232)
Q Consensus 101 K~~kdp~~PKrP~sAy~lF~~e~R--~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke 173 (232)
.-+.+..+.++|||||++|++.+| ..+.+.||+. .+.-|++|||+.|-.|-+.||+.|.++|.+.++.|.+.
T Consensus 174 pnkr~k~HirrPMnaf~ifskrhr~~g~vhq~~pn~-DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfka 247 (683)
T KOG2746|consen 174 PNKRDKDHIRRPMNAFHIFSKRHRGEGRVHQRHPNQ-DNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFKA 247 (683)
T ss_pred CCcCcchhhhhhhHHHHHHHhhcCCccchhccCccc-cchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhhh
Confidence 355667788999999999999999 8999999998 66779999999999999999999999999999999885
No 19
>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=98.17 E-value=3.5e-07 Score=65.84 Aligned_cols=64 Identities=16% Similarity=-0.010 Sum_probs=43.8
Q ss_pred ccccCCCCchhHhhHhh---hcC-C-ccchhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCC
Q 026860 27 TLMRGRDGSAFARCEEC---NKN-V-PVALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTS 91 (232)
Q Consensus 27 ~~~r~~dgsaf~~ce~~---~~~-~-~va~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~ 91 (232)
.++|+++|..|.+-+.+ ... . .+.+.++ +.|+..|+.||..||.+|+++|+.++ .+|+.++..|
T Consensus 3 kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k-~~y~~e~~~~ 72 (73)
T PF09011_consen 3 KPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDK-ERYEREMKEW 72 (73)
T ss_dssp S--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHH-HHHHHHHHhc
Confidence 56777777665544322 111 2 2334455 89999999999999999999999999 9999887543
No 20
>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=97.93 E-value=8.3e-06 Score=58.47 Aligned_cols=63 Identities=14% Similarity=-0.005 Sum_probs=47.0
Q ss_pred cccCCCCchhHhhH---hhhcCCccc-hhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCC
Q 026860 28 LMRGRDGSAFARCE---ECNKNVPVA-LISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTS 91 (232)
Q Consensus 28 ~~r~~dgsaf~~ce---~~~~~~~va-~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~ 91 (232)
++|+.++..+...+ .....+|.. +.++ +.||..|+.||+.+|++|.++|..++ .+|...+..|
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k-~~y~~~~p~y 69 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLKENRAISKILGDRWKALSNEEKQPYYEEAKKLK-ELHMKLYPDY 69 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HHHHHHCcCC
Confidence 45666555444443 234456653 3334 79999999999999999999999999 9999998877
No 21
>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=97.91 E-value=1e-05 Score=58.62 Aligned_cols=64 Identities=14% Similarity=0.055 Sum_probs=48.2
Q ss_pred cccCCCCchhHhhH---hhhcCCccc-hhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCC
Q 026860 28 LMRGRDGSAFARCE---ECNKNVPVA-LISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTST 92 (232)
Q Consensus 28 ~~r~~dgsaf~~ce---~~~~~~~va-~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~ 92 (232)
++|++++..+...+ .+....|.. +.++ ++||..|+.|++.+|++|.++|+.++ .+|..++..|.
T Consensus 2 ~kRP~naf~lf~~~~r~~~~~~~p~~~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k-~~~~~~~p~Yk 70 (77)
T cd01389 2 IPRPRNAFILYRQDKHAQLKTENPGLTNNEISRIIGRMWRSESPEVKAYYKELAEEEK-ERHAREYPDYK 70 (77)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHH-HHHHHHCCCCc
Confidence 46666655554443 334455543 2333 79999999999999999999999999 99999999984
No 22
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=97.90 E-value=7.2e-05 Score=54.65 Aligned_cols=73 Identities=21% Similarity=0.373 Sum_probs=60.7
Q ss_pred CCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccchhhcc
Q 026860 108 KPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYNEVED 185 (232)
Q Consensus 108 ~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~~~~~ 185 (232)
.|-.|.+|--+|.+..+..+...++.- ... ..+.+...|++|++.+|-+|+..|.++..+|+.+|. +|+...+
T Consensus 3 lPE~PKt~qe~Wqq~vi~dYla~~~~d-r~K-~~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el~---e~r~~~~ 75 (85)
T PF14887_consen 3 LPETPKTAQEIWQQSVIGDYLAKFRND-RKK-ALKAMEAQWSQMEKKEKLKWIKKAAEDQKRYERELR---EMRSAPA 75 (85)
T ss_dssp -S----THHHHHHHHHHHHHHHHTTST-HHH-HHHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHHH---CCS-CCC
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHhhHh-HHH-HHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHH---HHhcCCC
Confidence 467788999999999999999999885 444 466899999999999999999999999999999999 9988766
No 23
>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=97.75 E-value=2.3e-05 Score=54.34 Aligned_cols=44 Identities=20% Similarity=0.138 Sum_probs=36.2
Q ss_pred hcCCcc-chhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhC
Q 026860 44 NKNVPV-ALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKK 88 (232)
Q Consensus 44 ~~~~~v-a~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~ 88 (232)
...+|. .+.++ ..|+..|+.||+.+|++|.+.++.++ .+|..+|
T Consensus 20 ~~~~p~~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~-~~y~~e~ 65 (66)
T cd01390 20 KKENPDASVTEVTKILGEKWKELSEEEKKKYEEKAEKDK-ERYEKEM 65 (66)
T ss_pred HHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHHHhh
Confidence 444443 34444 89999999999999999999999999 8998875
No 24
>smart00398 HMG high mobility group.
Probab=97.49 E-value=7.2e-05 Score=52.10 Aligned_cols=63 Identities=16% Similarity=0.054 Sum_probs=44.2
Q ss_pred cccCCCCchhHhhH---hhhcCCccc-hhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCC
Q 026860 28 LMRGRDGSAFARCE---ECNKNVPVA-LISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTS 91 (232)
Q Consensus 28 ~~r~~dgsaf~~ce---~~~~~~~va-~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~ 91 (232)
++|+.++..+...+ .+....|.. +.++ ..|+..|+.|++.+|.+|.+++..++ .+|...+..|
T Consensus 2 pkrp~~~y~~f~~~~r~~~~~~~~~~~~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~-~~y~~~~~~y 69 (70)
T smart00398 2 PKRPMSAFMLFSQENRAKIKAENPDLSNAEISKKLGERWKLLSEEEKAPYEEKAKKDK-ERYEEEMPEY 69 (70)
T ss_pred cCCCCcHHHHHHHHHHHHHHHHCcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-HHHHHHHHhc
Confidence 34555544443332 233334432 3334 79999999999999999999999999 8999887665
No 25
>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=97.27 E-value=7.2e-05 Score=52.39 Aligned_cols=47 Identities=17% Similarity=0.053 Sum_probs=37.2
Q ss_pred hcCCccch-hhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCC
Q 026860 44 NKNVPVAL-ISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTS 91 (232)
Q Consensus 44 ~~~~~va~-~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~ 91 (232)
....|... .++ +.|+..|+.|++.+|++|...+...+ .+|...+..|
T Consensus 20 k~~~p~~~~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~-~~y~~~~~~y 68 (69)
T PF00505_consen 20 KEENPDLSNKEISKILAQMWKNLSEEEKAPYKEEAEEEK-ERYEKEMPEY 68 (69)
T ss_dssp HHHSTTSTHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHH-HHHHHHHHHH
T ss_pred HHHhcccccccchhhHHHHHhcCCHHHHHHHHHHHHHHH-HHHHHHHHhc
Confidence 44455433 333 79999999999999999999999999 8998876443
No 26
>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=97.27 E-value=0.00025 Score=48.77 Aligned_cols=44 Identities=18% Similarity=0.066 Sum_probs=35.4
Q ss_pred hcCCcc-chhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhC
Q 026860 44 NKNVPV-ALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKK 88 (232)
Q Consensus 44 ~~~~~v-a~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~ 88 (232)
....|. .+.++ ..|+..|+.|++.+|.+|.+.++..+ ..|...+
T Consensus 20 ~~~~~~~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~-~~y~~~~ 65 (66)
T cd00084 20 KAENPGLSVGEISKILGEMWKSLSEEEKKKYEEKAEKDK-ERYEKEM 65 (66)
T ss_pred HHHCcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH-HHHHHhh
Confidence 444554 44444 79999999999999999999999999 8887653
No 27
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=96.98 E-value=0.00047 Score=66.37 Aligned_cols=68 Identities=15% Similarity=0.078 Sum_probs=54.2
Q ss_pred CCCccccccCCCCchhHhh----HhhhcCCccchhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCCCh
Q 026860 22 STSSATLMRGRDGSAFARC----EECNKNVPVALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTSTEP 94 (232)
Q Consensus 22 ~~~~~~~~r~~dgsaf~~c----e~~~~~~~va~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~~~ 94 (232)
.++|+.++|+ .|||..+ -+..+..-+++.++ +..+.+||.||. |.+|+..|+.++ +||+.+|..|.++
T Consensus 530 ~kdpnapkra--~sa~m~w~~~~r~~ik~dgi~~~dv~kk~g~~wk~ms~--k~~we~ka~~dk-~ry~~em~~yk~g 602 (615)
T KOG0526|consen 530 KKDPNAPKRA--TSAYMLWLNASRESIKEDGISVGDVAKKAGEKWKQMSA--KEEWEDKAAVDK-QRYEDEMKEYKNG 602 (615)
T ss_pred CCCCCCCccc--hhHHHHHHHhhhhhHhhcCchHHHHHHHHhHHHhhhcc--cchhhHHHHHHH-HHHHHHHHhhcCC
Confidence 3478889985 5666655 12233446777788 899999999998 899999999999 9999999999654
No 28
>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=96.58 E-value=0.0042 Score=52.08 Aligned_cols=48 Identities=23% Similarity=0.419 Sum_probs=42.5
Q ss_pred CCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCC
Q 026860 104 SDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMT 152 (232)
Q Consensus 104 kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls 152 (232)
+.|.+-.|-+|||..|+++.-..|+..||++ +..|.....+..|...+
T Consensus 117 kPPEKRqR~psaYn~f~k~ei~rik~~~p~i-shkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 117 KPPEKRQRVPSAYNRFMKEEIQRIKAENPDI-SHKEAFSAAAKNWAHFP 164 (170)
T ss_pred CCccccCCCchhHHHHHHHHHHHHHhcCCCC-CHHHHHHHHHHhhhhCc
Confidence 4445556778999999999999999999999 99999999999999876
No 29
>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=96.56 E-value=0.0032 Score=52.94 Aligned_cols=48 Identities=23% Similarity=0.497 Sum_probs=42.0
Q ss_pred CCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHH
Q 026860 113 PTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAE 165 (232)
Q Consensus 113 ~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~ 165 (232)
-+|||-|+.++|.. |.+| +..++....+..|..||+.+|..|..++..
T Consensus 83 nnaYLNFLReFRrk----h~~L-~p~dlI~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 83 NNAYLNFLREFRRK----HCGL-SPQDLIQRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred chHHHHHHHHHHHH----ccCC-CHHHHHHHHHHHHHhCCHHHHHHHHhhcch
Confidence 47999999998864 5788 889999999999999999999999986553
No 30
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=96.47 E-value=0.003 Score=58.24 Aligned_cols=67 Identities=16% Similarity=0.122 Sum_probs=48.9
Q ss_pred CCccccccCCCCchhHhh-HhhhcCCccchhhh------hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCC
Q 026860 23 TSSATLMRGRDGSAFARC-EECNKNVPVALISM------HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTST 92 (232)
Q Consensus 23 ~~~~~~~r~~dgsaf~~c-e~~~~~~~va~~~~------~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~ 92 (232)
+...-+||.-| ||.-| .....++....-+| |.++.+||.|++.||++|.+.|+..+ ....++...|.
T Consensus 58 ~~~~hIKRPMN--AFMVWSq~~RRkma~qnP~mHNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR-~~HmkehPdYK 131 (331)
T KOG0527|consen 58 TSTDRIKRPMN--AFMVWSQGQRRKLAKQNPKMHNSEISKRLGAEWKLLSEEEKRPFVDEAERLR-AQHMKEYPDYK 131 (331)
T ss_pred CCccccCCCcc--hhhhhhHHHHHHHHHhCcchhhHHHHHHHHHHHhhcCHhhhccHHHHHHHHH-HHHHHhCCCcc
Confidence 34457888666 78777 22222333333344 79999999999999999999999998 77778777773
No 31
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=95.86 E-value=0.0094 Score=44.48 Aligned_cols=63 Identities=17% Similarity=0.018 Sum_probs=45.5
Q ss_pred ccccCCCCchhHhh-H---hhhcCCcc-chhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCC-CC
Q 026860 27 TLMRGRDGSAFARC-E---ECNKNVPV-ALISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKP-TS 91 (232)
Q Consensus 27 ~~~r~~dgsaf~~c-e---~~~~~~~v-a~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~-~~ 91 (232)
.++|...+. |..| + ......|. .+.++ +.++..|+.|++.++++|+..+..++ .+|..++. .|
T Consensus 22 ~pkrp~sa~-~~f~~~~~~~~k~~~p~~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k-~~Y~~~~~~~~ 91 (96)
T KOG0381|consen 22 APKRPLSAF-FLFSSEQRSKIKAENPGLSVGEVAKALGEMWKNLAEEEKQPYEEKASKLK-EKYEKELAGEY 91 (96)
T ss_pred CCCCCCcHH-HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHH-HHHHHHHHHHH
Confidence 566655433 2334 3 22445555 34444 78999999999999999999999999 99999886 54
No 32
>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=95.66 E-value=0.01 Score=40.73 Aligned_cols=40 Identities=18% Similarity=0.358 Sum_probs=35.5
Q ss_pred CCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCCh
Q 026860 113 PTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTD 153 (232)
Q Consensus 113 ~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~ 153 (232)
+|.|-+|.+-.|+.|...||++ ....|..+++.+|++-+.
T Consensus 13 lt~yK~Fsq~vRP~l~~~NPk~-~~sKl~~l~~AKwrEF~~ 52 (55)
T PF08073_consen 13 LTNYKAFSQHVRPLLAKANPKA-PMSKLMMLLQAKWREFQE 52 (55)
T ss_pred HHHHHHHHHHHHHHHHHHCCCC-cHHHHHHHHHHHHHHHHh
Confidence 4667899999999999999999 888999999999997543
No 33
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=90.83 E-value=0.19 Score=48.24 Aligned_cols=58 Identities=21% Similarity=0.120 Sum_probs=41.6
Q ss_pred cccccccccCCCccccccCCCCchhHhh--HhhhcCCccchhhh------hhchHHHhhhhHHHhhhhhhhhhhc
Q 026860 13 RKRVDAQSASTSSATLMRGRDGSAFARC--EECNKNVPVALISM------HSCSLDAKIKMNLEAQVVEKPAEIN 79 (232)
Q Consensus 13 rkr~~~~~~~~~~~~~~r~~dgsaf~~c--e~~~~~~~va~~~~------~~cs~~WK~ls~~Ek~~y~~~a~~~ 79 (232)
|.|+.- ++-++|. .-||--| .+. -++-.||.|| ++++.+||.||+.||++|++..+..
T Consensus 317 rg~~ss------~PHIKRP--MNAFMVWAkDER-RKILqA~PDMHNSnISKILGSRWKaMSN~eKQPYYEEQaRL 382 (511)
T KOG0528|consen 317 RGRASS------EPHIKRP--MNAFMVWAKDER-RKILQAFPDMHNSNISKILGSRWKAMSNTEKQPYYEEQARL 382 (511)
T ss_pred cCcCCC------CccccCC--cchhhcccchhh-hhhhhcCccccccchhHHhcccccccccccccchHHHHHHH
Confidence 666643 2357774 4588888 333 3456688888 6999999999999999997644433
No 34
>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=90.21 E-value=0.48 Score=40.85 Aligned_cols=55 Identities=18% Similarity=0.271 Sum_probs=39.1
Q ss_pred cCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHH
Q 026860 102 KDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKA 163 (232)
Q Consensus 102 ~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A 163 (232)
.+.....++||+|+||+|..-.- ...|+. ...+++.+|+..|..=+- |..|.-.|
T Consensus 37 ~~~~~~~~kr~lN~Fm~FRsyy~----~~~~~~-~Qk~~S~~l~~lW~~dp~--k~~W~l~a 91 (201)
T PF04769_consen 37 RKRSPEKAKRPLNGFMAFRSYYS----PIFPPL-PQKELSGILTKLWEKDPF--KNKWSLMA 91 (201)
T ss_pred ccccccccccchhHHHHHHHHHH----hhcCCc-CHHHHHHHHHHHHhCCcc--HhHHHHHh
Confidence 34455678999999999965544 555676 778999999999987433 34454443
No 35
>PF06244 DUF1014: Protein of unknown function (DUF1014); InterPro: IPR010422 This family consists of several hypothetical eukaryotic proteins of unknown function.
Probab=90.14 E-value=0.4 Score=38.19 Aligned_cols=45 Identities=18% Similarity=0.308 Sum_probs=39.5
Q ss_pred CCCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChh
Q 026860 109 PKRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDE 154 (232)
Q Consensus 109 PKrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~e 154 (232)
-+|=.-||.-|.....+.++.+||+| -..++-.+|...|..-|+.
T Consensus 73 ErR~KAAy~afeE~~Lp~lK~E~PgL-rlsQ~kq~l~K~w~KSPeN 117 (122)
T PF06244_consen 73 ERRMKAAYKAFEERRLPELKEENPGL-RLSQYKQMLWKEWQKSPEN 117 (122)
T ss_pred chhHHHHHHHHHHHHhHHHHhhCCCc-hHHHHHHHHHHHHhcCCCC
Confidence 35555899999999999999999999 8889999999999987753
No 36
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=89.76 E-value=0.17 Score=37.22 Aligned_cols=38 Identities=16% Similarity=-0.030 Sum_probs=33.8
Q ss_pred hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCCC
Q 026860 55 HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTSTE 93 (232)
Q Consensus 55 ~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~~ 93 (232)
+-+...|..|+..++-+|...|..+. ++|+++|..|..
T Consensus 35 kam~~~W~~me~Kekl~WIkKA~Edq-KrYE~el~e~r~ 72 (85)
T PF14887_consen 35 KAMEAQWSQMEKKEKLKWIKKAAEDQ-KRYERELREMRS 72 (85)
T ss_dssp HHHHHHHHTTGGGHHHHHHHHHHHHH-HHHHHHHHCCS-
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHH-HHHHHHHHHHhc
Confidence 56788999999999999999999999 999999988743
No 37
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=81.49 E-value=3.8 Score=37.81 Aligned_cols=51 Identities=12% Similarity=-0.081 Sum_probs=40.0
Q ss_pred HhhhcCCccc-hhhh-hhchHHHhhhhHHHhhhhhhhhhhccchhhhhhCCCCC
Q 026860 41 EECNKNVPVA-LISM-HSCSLDAKIKMNLEAQVVEKPAEINKKKPAERKKPTST 92 (232)
Q Consensus 41 e~~~~~~~va-~~~~-~~cs~~WK~ls~~Ek~~y~~~a~~~k~~~ye~~~~~~~ 92 (232)
......+|.+ |-++ ++++..|+.|.+.||+.|....+..+ ..|+.-|.+|.
T Consensus 81 d~VkA~nPe~kLWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEK-ieY~~smkayh 133 (410)
T KOG4715|consen 81 DQVKASNPELKLWEIGKIIGGMWLDLPDEEKQEYLNEYEAEK-IEYNESMKAYH 133 (410)
T ss_pred hhhhccCcchHHHHHHHHHHHHHhhCcchHHHHHHHHHHHHH-HHHHHHHHHhh
Confidence 3334444443 2233 89999999999999999999999999 89999998884
No 38
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=77.93 E-value=1.4 Score=40.90 Aligned_cols=26 Identities=8% Similarity=-0.165 Sum_probs=24.7
Q ss_pred hhchHHHhhhhHHHhhhhhhhhhhcc
Q 026860 55 HSCSLDAKIKMNLEAQVVEKPAEINK 80 (232)
Q Consensus 55 ~~cs~~WK~ls~~Ek~~y~~~a~~~k 80 (232)
.+++.+|-.||-+|..+|.++|..++
T Consensus 224 qiLGrRWH~LSrEEQAKYyElArKer 249 (421)
T KOG3248|consen 224 QILGRRWHALSREEQAKYYELARKER 249 (421)
T ss_pred HHHhHHHhhhhHHHHHHHHHHHHHHH
Confidence 68999999999999999999998887
No 39
>KOG3223 consensus Uncharacterized conserved protein [Function unknown]
Probab=77.07 E-value=3.8 Score=35.18 Aligned_cols=50 Identities=22% Similarity=0.369 Sum_probs=43.3
Q ss_pred CCCCCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHH
Q 026860 110 KRPPTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKA 163 (232)
Q Consensus 110 KrP~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A 163 (232)
||=.-||.-|-....|.|+.+||++ ...++-.+|-.+|..-|+. ||.+.+
T Consensus 166 kRmrAA~~afEe~~LPrLK~e~P~l-rlsQ~Kqll~Kew~KsPDN---P~Nq~~ 215 (221)
T KOG3223|consen 166 KRMRAAFKAFEEARLPRLKKENPGL-RLSQYKQLLKKEWQKSPDN---PFNQAA 215 (221)
T ss_pred HHHHHHHHHHHHhhchhhhhcCCCc-cHHHHHHHHHHHHhhCCCC---hhhHHh
Confidence 5667889999999999999999999 8899999999999998876 666544
No 40
>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=76.12 E-value=4.4 Score=34.62 Aligned_cols=45 Identities=18% Similarity=0.496 Sum_probs=38.9
Q ss_pred CHHHHHH-HHHHHhcCCChhhchHHHHHHHH-HHHHHHHHhcCCccchhh
Q 026860 136 GVTGVAK-EAGEKWKNMTDEEKKPYLDKAAE-LKADYSKAMEGNGDYNEV 183 (232)
Q Consensus 136 ~~~eisK-~lge~Wk~Ls~eeK~~Y~~~A~~-~k~~Y~ke~~~~~~y~~~ 183 (232)
.+..|++ .||..|+.+|+++++.|...... +...|-..+. .|...
T Consensus 65 Df~~mar~vLG~~W~~~s~~Qr~~F~~~F~~~l~~tY~~~l~---~y~~~ 111 (198)
T TIGR03481 65 DLPAMARLTLGSSWTSLSPEQRRRFIGAFRELSIATYASQFK---SYAGE 111 (198)
T ss_pred CHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHH---hhcCc
Confidence 6677876 68999999999999999999888 6788999998 88654
No 41
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=71.68 E-value=7.2 Score=33.63 Aligned_cols=48 Identities=23% Similarity=0.362 Sum_probs=40.1
Q ss_pred CCCCCHHHHHH-HHHHHhcCCChhhchHHHHHHHHH-HHHHHHHhcCCccchhh
Q 026860 132 PDSKGVTGVAK-EAGEKWKNMTDEEKKPYLDKAAEL-KADYSKAMEGNGDYNEV 183 (232)
Q Consensus 132 P~~~~~~eisK-~lge~Wk~Ls~eeK~~Y~~~A~~~-k~~Y~ke~~~~~~y~~~ 183 (232)
|.. ++..+++ .||.-|+.+|+++|+.|....... ...|-..+. .|...
T Consensus 66 p~~-Df~~~s~~vLG~~wr~as~eQr~~F~~~F~~~Lv~tYa~~l~---~y~~q 115 (211)
T PRK15117 66 PYV-QVKYAGALVLGRYYKDATPAQREAYFAAFREYLKQAYGQALA---MYHGQ 115 (211)
T ss_pred ccC-CHHHHHHHHhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHH---HhCCc
Confidence 555 7777876 689999999999999999988774 678999999 88654
No 42
>PF15243 ANAPC15: Anaphase-promoting complex subunit 15
Probab=65.66 E-value=3.1 Score=31.54 Aligned_cols=36 Identities=17% Similarity=0.376 Sum_probs=19.1
Q ss_pred HHhcCCChhhchHHHHHHHHHHHHHHHHhcCCccchhhccccchh
Q 026860 146 EKWKNMTDEEKKPYLDKAAELKADYSKAMEGNGDYNEVEDKADNE 190 (232)
Q Consensus 146 e~Wk~Ls~eeK~~Y~~~A~~~k~~Y~ke~~~~~~y~~~~~~~~~~ 190 (232)
..|=+|. +|..+.+. ..+++.++. +|......+++.
T Consensus 15 ~lwf~~d----~pc~dE~E--L~~~Eq~~q---~Wl~sI~ekd~n 50 (92)
T PF15243_consen 15 PLWFNLD----RPCVDETE--LQQQEQQHQ---AWLQSIAEKDNN 50 (92)
T ss_pred cccccCC----CccchHHH--HHHHHHHHH---HHHHHHHHhccC
Confidence 3566664 44554443 335566666 676655544433
No 43
>PF06524 NOA36: NOA36 protein; InterPro: IPR010531 This family consists of several NOA36 proteins which contain 29 highly conserved cysteine residues. The function of this protein is unknown.; GO: 0008270 zinc ion binding, 0005634 nucleus
Probab=54.63 E-value=4.2 Score=36.60 Aligned_cols=10 Identities=10% Similarity=0.052 Sum_probs=5.0
Q ss_pred CCCCCCchhh
Q 026860 109 PKRPPTAFFL 118 (232)
Q Consensus 109 PKrP~sAy~l 118 (232)
|.=|.-.|-+
T Consensus 210 ~PCPKCg~et 219 (314)
T PF06524_consen 210 IPCPKCGYET 219 (314)
T ss_pred CCCCCCCCcc
Confidence 3345555543
No 44
>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=48.48 E-value=16 Score=29.88 Aligned_cols=44 Identities=16% Similarity=0.515 Sum_probs=33.5
Q ss_pred CHHHHHH-HHHHHhcCCChhhchHHHHHHHH-HHHHHHHHhcCCccchh
Q 026860 136 GVTGVAK-EAGEKWKNMTDEEKKPYLDKAAE-LKADYSKAMEGNGDYNE 182 (232)
Q Consensus 136 ~~~eisK-~lge~Wk~Ls~eeK~~Y~~~A~~-~k~~Y~ke~~~~~~y~~ 182 (232)
.+..|++ .||.-|+.||+++++.|...... +...|-..+. .|..
T Consensus 39 D~~~~ar~~LG~~w~~~s~~q~~~F~~~f~~~l~~~Y~~~l~---~y~~ 84 (170)
T PF05494_consen 39 DFERMARRVLGRYWRKASPAQRQRFVEAFKQLLVRTYAKRLD---EYSG 84 (170)
T ss_dssp -HHHHHHHHHGGGTTTS-HHHHHHHHHHHHHHHHHHHHHHHH---T-SS
T ss_pred CHHHHHHHHHHHhHhhCCHHHHHHHHHHHHHHHHHHHHHHHH---hhCC
Confidence 6666665 47889999999999999988876 4677888888 8864
No 45
>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=39.66 E-value=62 Score=29.90 Aligned_cols=54 Identities=11% Similarity=0.214 Sum_probs=45.4
Q ss_pred CCchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhchHHHHHHHHHH
Q 026860 113 PTAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKKPYLDKAAELK 167 (232)
Q Consensus 113 ~sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~~Y~~~A~~~k 167 (232)
..||--|..-....+....|.| +..|-....-+.|...|.-+|..|+++|++-+
T Consensus 229 ~EAlSCFLIpvLrsLar~kPtM-tlEeGl~ra~qEW~~~SnfdRmifyemaekFm 282 (328)
T PF12881_consen 229 AEALSCFLIPVLRSLARLKPTM-TLEEGLWRAVQEWQHTSNFDRMIFYEMAEKFM 282 (328)
T ss_pred hhhhhhhHHHHHHHHHhcCCCc-cHHHHHHHHHHHhhccccccHHHHHHHHHHHc
Confidence 4566667777777777888999 88899999999999999999999999998653
No 46
>KOG2147 consensus Nucleolar protein involved in 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]
Probab=28.95 E-value=43 Score=34.42 Aligned_cols=78 Identities=13% Similarity=0.152 Sum_probs=40.5
Q ss_pred hHHHhhhhhhhhhhccchhhhhhCCCCCChhhhhhcccCCCCCCCCCCCCchhhhHHHHHHHHHHhCCCC--CCHHHHHH
Q 026860 65 MNLEAQVVEKPAEINKKKPAERKKPTSTEPRAKRLRKKDSDSNKPKRPPTAFFLFMDDFRKEYKEAHPDS--KGVTGVAK 142 (232)
Q Consensus 65 s~~Ek~~y~~~a~~~k~~~ye~~~~~~~~~k~kk~kK~~kdp~~PKrP~sAy~lF~~e~R~~~k~~~P~~--~~~~eisK 142 (232)
-..+|..++++.+..- ..|+..|..... +..+.+..|+.+.-+|-+++.+.-=..++. |.- ++..++++
T Consensus 205 rqkqKee~edltekLD-~n~k~l~~~l~~-------~~~k~~~~~~~~~d~YD~~v~em~fe~rA~-PsdRtkteeElA~ 275 (823)
T KOG2147|consen 205 RQKQKEELEDLTEKLD-SNFKDLMSKLSM-------KFPKKEQDEKETDDAYDKLVKEMKFEKRAR-PSDRTKTEEELAQ 275 (823)
T ss_pred HHHHHHHHHHHHHHHH-HHHHHHHHHHhh-------hcCCCcccCCCCccHHHHHHHHhhcccccC-cccccCCHHHHHH
Confidence 3455555666665555 556654431100 111122334444599999998876554433 321 15556666
Q ss_pred HHHHHhcCC
Q 026860 143 EAGEKWKNM 151 (232)
Q Consensus 143 ~lge~Wk~L 151 (232)
+-.++-..|
T Consensus 276 ~E~erLe~L 284 (823)
T KOG2147|consen 276 KEAERLEEL 284 (823)
T ss_pred HHHHHHHHH
Confidence 666555555
No 47
>PF13875 DUF4202: Domain of unknown function (DUF4202)
Probab=26.92 E-value=97 Score=26.47 Aligned_cols=40 Identities=13% Similarity=0.467 Sum_probs=32.5
Q ss_pred CchhhhHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcCCChhhch
Q 026860 114 TAFFLFMDDFRKEYKEAHPDSKGVTGVAKEAGEKWKNMTDEEKK 157 (232)
Q Consensus 114 sAy~lF~~e~R~~~k~~~P~~~~~~eisK~lge~Wk~Ls~eeK~ 157 (232)
-+-+.|.......+...| +-..+-.||...|+.||+.-++
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 457889999999998887 3345889999999999997653
No 48
>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=26.25 E-value=49 Score=28.11 Aligned_cols=36 Identities=14% Similarity=-0.032 Sum_probs=26.4
Q ss_pred HhhhcCCccchhhhhhchHHHhhhhHHHhhhhhhhhhh
Q 026860 41 EECNKNVPVALISMHSCSLDAKIKMNLEAQVVEKPAEI 78 (232)
Q Consensus 41 e~~~~~~~va~~~~~~cs~~WK~ls~~Ek~~y~~~a~~ 78 (232)
..|....|+.++ ..-+..|..||..+|..|..++-.
T Consensus 95 rkh~~L~p~dlI--~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 95 RKHCGLSPQDLI--QRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred HHccCCCHHHHH--HHHHHHHHhCCHHHHHHHHhhcch
Confidence 455555555544 467889999999999999987543
No 49
>COG4049 Uncharacterized protein containing archaeal-type C2H2 Zn-finger [General function prediction only]
Probab=24.11 E-value=20 Score=24.93 Aligned_cols=17 Identities=47% Similarity=1.064 Sum_probs=14.2
Q ss_pred cccCCCCchhHhhHhhh
Q 026860 28 LMRGRDGSAFARCEECN 44 (232)
Q Consensus 28 ~~r~~dgsaf~~ce~~~ 44 (232)
-.+.+||-.|.+|-.|+
T Consensus 8 Kv~~RDGE~~lrCPRC~ 24 (65)
T COG4049 8 KVRDRDGEEFLRCPRCG 24 (65)
T ss_pred EeeccCCceeeeCCchh
Confidence 56889999999997764
No 50
>COG2854 Ttg2D ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=23.94 E-value=75 Score=27.52 Aligned_cols=42 Identities=19% Similarity=0.366 Sum_probs=35.7
Q ss_pred HHHHHHHhcCCChhhchHHHHHHHH-HHHHHHHHhcCCccchhhcc
Q 026860 141 AKEAGEKWKNMTDEEKKPYLDKAAE-LKADYSKAMEGNGDYNEVED 185 (232)
Q Consensus 141 sK~lge~Wk~Ls~eeK~~Y~~~A~~-~k~~Y~ke~~~~~~y~~~~~ 185 (232)
...||.-|+.+|+++++.|...... +...|-..|. .|+.+..
T Consensus 77 ~~vLGk~~k~aspeQ~~~F~~aF~~yl~q~Y~~aL~---~Y~~q~~ 119 (202)
T COG2854 77 KLVLGKYYKTASPEQRQAFFKAFRTYLEQTYGQALL---DYKGQTL 119 (202)
T ss_pred HHHhccccccCCHHHHHHHHHHHHHHHHHHHHHHHH---HccCCCc
Confidence 3458899999999999999988877 4678999999 9988766
No 51
>PF11705 RNA_pol_3_Rpc31: DNA-directed RNA polymerase III subunit Rpc31; InterPro: IPR024661 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and 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 []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase III contains seventeen subunits in yeasts and in human cells. Twelve of these are akin to RNA polymerase I or II and the other five are RNA polymerase III-specific, and form the functionally distinct groups: (i) Rpc31-Rpc34-Rpc82, and (ii) Rpc37-Rpc53. Rpc31, Rpc34 and Rpc82 form a cluster of enzyme-specific subunits that contribute to transcription initiation in Saccharomyces cerevisiae and Homo sapiens. There is evidence that these subunits are anchored at or near the N-terminal Zn-fold of Rpc1, itself prolonged by a highly conserved but RNA polymerase III-specific domain []. This entry represents the Rpc31 subunit.
Probab=23.64 E-value=35 Score=29.66 Aligned_cols=14 Identities=21% Similarity=0.418 Sum_probs=6.4
Q ss_pred CCCchhhhHHHHHH
Q 026860 112 PPTAFFLFMDDFRK 125 (232)
Q Consensus 112 P~sAy~lF~~e~R~ 125 (232)
|.+.--.|+.-+++
T Consensus 89 ~~~~ierYSdry~~ 102 (233)
T PF11705_consen 89 PFDDIERYSDRYKK 102 (233)
T ss_pred ccccHHHHHHHHhh
Confidence 34444455544444
No 52
>PRK10236 hypothetical protein; Provisional
Probab=20.14 E-value=83 Score=27.91 Aligned_cols=49 Identities=18% Similarity=0.297 Sum_probs=30.6
Q ss_pred chhhhHHHHHHHHHHhCCCCCCHHH-----HHHHHHHHhcCCChhhchHHHHHH
Q 026860 115 AFFLFMDDFRKEYKEAHPDSKGVTG-----VAKEAGEKWKNMTDEEKKPYLDKA 163 (232)
Q Consensus 115 Ay~lF~~e~R~~~k~~~P~~~~~~e-----isK~lge~Wk~Ls~eeK~~Y~~~A 163 (232)
.|---..+.-..++-.+..-.+..+ +.+++...|..||+++++.+...-
T Consensus 88 ~YreIL~DVc~~LKV~y~~~~st~~iE~~il~kll~~a~~kms~eE~~~L~~~l 141 (237)
T PRK10236 88 LYRAILLDVSKRLKLKADKEMSTFEIEQQLLEQFLRNTWKKMDEEHKQEFLHAV 141 (237)
T ss_pred cHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHH
Confidence 3444444444555544332214433 588899999999999998776543
Done!