Query 023605
Match_columns 280
No_of_seqs 189 out of 356
Neff 7.4
Searched_HMMs 46136
Date Fri Mar 29 05:17:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023605.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023605hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10536 PMD: Plant mobile dom 100.0 2.8E-33 6E-38 263.2 7.0 181 96-276 1-195 (363)
2 PTZ00199 high mobility group p 99.2 2E-12 4.3E-17 99.1 1.1 59 2-60 30-89 (94)
3 cd01390 HMGB-UBF_HMG-box HMGB- 99.2 4.5E-12 9.8E-17 90.0 1.8 57 2-59 8-64 (66)
4 cd01388 SOX-TCF_HMG-box SOX-TC 99.2 7.7E-12 1.7E-16 91.0 1.6 59 2-61 9-67 (72)
5 cd01389 MATA_HMG-box MATA_HMG- 99.1 1.3E-11 2.8E-16 90.9 2.0 59 2-61 9-67 (77)
6 PF00505 HMG_box: HMG (high mo 99.1 6.2E-11 1.3E-15 85.0 1.9 57 2-59 8-64 (69)
7 smart00398 HMG high mobility g 99.0 1.1E-10 2.3E-15 83.6 2.3 58 2-60 9-66 (70)
8 cd00084 HMG-box High Mobility 99.0 1.1E-10 2.3E-15 82.6 1.9 57 2-59 8-64 (66)
9 PF09331 DUF1985: Domain of un 98.9 9.8E-10 2.1E-14 90.4 5.1 123 125-247 14-142 (142)
10 COG5648 NHP6B Chromatin-associ 98.9 3E-10 6.6E-15 97.1 0.5 58 2-60 78-135 (211)
11 KOG0381 HMG box-containing pro 98.9 9.7E-10 2.1E-14 84.1 2.8 58 2-60 30-87 (96)
12 PF09011 HMG_box_2: HMG-box do 98.8 1.4E-09 3E-14 79.3 1.6 57 2-59 11-68 (73)
13 KOG0527 HMG-box transcription 98.5 8.6E-08 1.9E-12 88.7 2.7 59 2-61 70-128 (331)
14 KOG0526 Nucleosome-binding fac 98.1 6.9E-07 1.5E-11 85.7 -0.3 55 2-61 543-597 (615)
15 KOG3248 Transcription factor T 97.6 3.9E-05 8.4E-10 70.1 2.3 51 2-53 199-249 (421)
16 KOG4715 SWI/SNF-related matrix 97.4 4.6E-05 9.9E-10 69.1 0.2 59 2-61 72-130 (410)
17 PF14887 HMG_box_5: HMG (high 95.8 0.0053 1.1E-07 44.7 1.8 53 6-60 15-67 (85)
18 KOG0528 HMG-box transcription 95.5 0.0091 2E-07 57.4 2.5 58 2-60 333-390 (511)
19 PF06382 DUF1074: Protein of u 93.3 0.058 1.3E-06 45.5 2.3 44 2-50 86-129 (183)
20 KOG2746 HMG-box transcription 90.6 0.085 1.8E-06 52.8 0.4 56 2-58 189-246 (683)
21 COG5648 NHP6B Chromatin-associ 90.5 0.1 2.2E-06 45.2 0.7 54 6-60 155-208 (211)
22 PF03078 ATHILA: ATHILA ORF-1 85.0 4.3 9.4E-05 39.6 8.1 164 73-246 67-262 (458)
23 PF06945 DUF1289: Protein of u 64.7 4.6 0.0001 27.0 1.6 22 33-54 29-50 (51)
24 PF08073 CHDNT: CHDNT (NUC034) 63.5 6.7 0.00014 26.9 2.2 34 4-38 18-51 (55)
25 PF11304 DUF3106: Protein of u 60.9 11 0.00024 29.3 3.3 14 31-44 35-48 (107)
26 PF10234 Cluap1: Clusterin-ass 47.4 8.9 0.00019 34.8 1.0 32 94-125 2-38 (267)
27 PRK15117 ABC transporter perip 46.8 14 0.0003 32.3 2.1 30 18-48 66-96 (211)
28 PF05494 Tol_Tol_Ttg2: Toluene 44.8 16 0.00034 30.4 2.0 31 18-48 36-66 (170)
29 PF12650 DUF3784: Domain of un 44.3 13 0.00029 28.0 1.4 19 33-51 25-43 (97)
30 cd03489 Topoisomer_IB_N_Ldtopo 44.2 24 0.00053 30.8 3.1 54 5-58 61-122 (212)
31 PF11304 DUF3106: Protein of u 43.5 29 0.00062 27.0 3.2 65 28-104 14-78 (107)
32 cd00660 Topoisomer_IB_N Topois 38.1 41 0.00088 29.5 3.6 54 5-58 63-125 (215)
33 cd03488 Topoisomer_IB_N_htopoI 37.9 42 0.00091 29.4 3.6 54 5-58 63-125 (215)
34 TIGR03481 HpnM hopanoid biosyn 37.7 20 0.00043 30.9 1.7 22 27-48 71-92 (198)
35 cd03490 Topoisomer_IB_N_1 Topo 34.0 47 0.001 29.1 3.3 54 5-58 61-124 (217)
36 cd09071 FAR_C C-terminal domai 31.6 45 0.00098 24.4 2.5 21 229-250 70-90 (92)
37 PF03457 HA: Helicase associat 31.4 33 0.00071 23.8 1.7 16 82-97 52-67 (68)
38 PF05823 Gp-FAR-1: Nematode fa 31.3 13 0.00029 30.8 -0.5 89 7-103 43-139 (154)
39 PF04994 TfoX_C: TfoX C-termin 30.5 53 0.0011 24.1 2.7 36 12-47 41-79 (81)
40 cd07321 Extradiol_Dioxygenase_ 29.3 60 0.0013 23.6 2.8 31 83-116 34-64 (77)
41 PRK01381 Trp operon repressor; 28.4 35 0.00076 26.2 1.4 59 37-95 33-93 (99)
42 PF03015 Sterile: Male sterili 26.6 63 0.0014 23.9 2.6 53 196-251 33-91 (94)
43 PF02919 Topoisom_I_N: Eukaryo 26.5 28 0.00061 30.5 0.7 52 5-56 64-124 (215)
44 PF11460 DUF3007: Protein of u 25.4 67 0.0014 24.9 2.5 37 7-48 65-101 (104)
45 PF04189 Gcd10p: Gcd10p family 23.5 2E+02 0.0044 26.5 5.8 111 7-129 110-232 (299)
46 PF08373 RAP: RAP domain; Int 23.2 36 0.00079 22.7 0.6 17 32-48 40-57 (58)
47 PF11943 DUF3460: Protein of u 22.0 1.2E+02 0.0026 21.2 3.0 39 7-47 8-47 (60)
48 cd07921 PCA_45_Doxase_A_like S 21.7 56 0.0012 25.5 1.5 23 83-105 44-66 (106)
49 PRK10236 hypothetical protein; 21.3 54 0.0012 29.3 1.4 29 24-52 116-144 (237)
50 PHA02662 ORF131 putative membr 21.0 89 0.0019 27.6 2.7 25 68-92 64-98 (226)
51 PRK04156 gltX glutamyl-tRNA sy 20.9 92 0.002 31.5 3.2 62 13-74 33-108 (567)
52 cd07922 CarBa CarBa is the A s 20.7 1.1E+02 0.0024 22.6 2.8 48 73-124 26-73 (81)
53 cd07923 Gallate_dioxygenase_C 20.1 59 0.0013 24.8 1.3 23 83-105 36-58 (94)
No 1
>PF10536 PMD: Plant mobile domain; InterPro: IPR019557 This entry represents a domain found in a variety of transposases [].
Probab=99.98 E-value=2.8e-33 Score=263.21 Aligned_cols=181 Identities=22% Similarity=0.354 Sum_probs=157.0
Q ss_pred CChhhhccc--ccccCHHHHHHHhcccCCCcceEEECCEEEEeCccccceeeeecCCCcccccCCCc---hHHHHHHHHh
Q 023605 96 GFESLLELR--CGKLKRKLCHWLVNQFKPERNIIELHGQKLELCPKMFSKIMGVKDGGMAIKINGAS---DHIAEVRRIF 170 (280)
Q Consensus 96 GFg~LL~i~--~~~l~~~l~~wL~~~~d~~t~~~~i~g~~i~it~~dV~~VlGLP~~G~~i~~~~~~---~~~~~l~~~~ 170 (280)
|||+|+.|. ..++++.|+.+|+++|+++|++|++++++++||++||..++|||+.|.+|...... +.++++.+..
T Consensus 1 ~~g~~~~i~~s~~~~~~~li~al~erW~~et~tF~~~~gEmtiTL~DV~~llGLpi~G~pv~~~~~~~~~~~~~~ll~~~ 80 (363)
T PF10536_consen 1 GFGILDAIMASRITIDRSLISALVERWDPETNTFHFPWGEMTITLEDVAMLLGLPIDGRPVTGPLPPDWRDLCEELLGVS 80 (363)
T ss_pred CchhHhhhhhhcCCCCHHHHHHHHHHhCcccCeeecccccccchhhhhhhccccccccccccCccccchhhHHHHHhccc
Confidence 899999999 89999999999999999999999999999999999999999999999999875433 2333333322
Q ss_pred C----CCCCCcchhHHHHHHhhcccc-chhHHHHHHHhhhceeecccCCC--CCccccccccccCCCccccchHHHHHHH
Q 023605 171 Q----PTVKGIRIRTLEEVIEQLDEA-NKIFKVAFTLFAIATLLCPIGSY--ISTLFLHPIMDVSSIKSLNWATFCYDWL 243 (280)
Q Consensus 171 ~----~~~~~i~l~~L~~~l~~~~~~-~d~f~r~Fll~~~~~~L~Ptt~~--vs~~yl~~l~D~~~i~~ynW~~~Vl~~L 243 (280)
. ..+..+.++++++.+.+.+++ .+.+.|||+++.+|++|||+++. |+..|++++.|++.+++||||.+||++|
T Consensus 81 ~~~~~~~~~~~~~~wl~~~~~~~~~~d~~~~~rAFll~~lg~~lfp~~~~~~v~~~~l~~~~~l~~~~~~~wg~a~La~l 160 (363)
T PF10536_consen 81 PQIKSKKGSSIRLSWLEEFFSNRPEDDEEQYHRAFLLYWLGSFLFPDKSGDYVSPRYLPLAVDLARIKRYAWGSAVLAYL 160 (363)
T ss_pred ccccccccccchhhheeccccccccchHHHHHHHHHHHhhhceeccCCCcceeeeeEEeeeeccccccccccHHHHHHHH
Confidence 1 124556778898888544433 24899999999999999999877 9999999999999999999999999999
Q ss_pred HHHHHHHhhcC--CcccchhHHHHHHHHhhCCCCc
Q 023605 244 VKSICRFQNQQ--AAYIGGCLHFLQVRPLLQLKLS 276 (280)
Q Consensus 244 ~~~i~k~~~~k--~~~i~GC~~lLqi~yld~l~~~ 276 (280)
+++++++..+. ..+++||..|||+|+|+|++++
T Consensus 161 y~~L~~~~~~~~~~~~~~g~~~llq~W~werf~~~ 195 (363)
T PF10536_consen 161 YRDLCKASRKSASQSNIGGPLWLLQLWAWERFPVG 195 (363)
T ss_pred HHHHHHHhhhcccccccccceeeeccchhheeecc
Confidence 99999988776 7899999999999999999865
No 2
>PTZ00199 high mobility group protein; Provisional
Probab=99.23 E-value=2e-12 Score=99.08 Aligned_cols=59 Identities=22% Similarity=0.374 Sum_probs=55.6
Q ss_pred cccchHHHHHHHHhhCCCCh-hhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLS-VTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~-~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
||+|+++.|+.++++||+.+ .+++|+|++|+.|++||++||++|.++|...+.+|..++
T Consensus 30 Y~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY~~e~ 89 (94)
T PTZ00199 30 YMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRYEKEK 89 (94)
T ss_pred HHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999986 489999999999999999999999999999999998654
No 3
>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=99.21 E-value=4.5e-12 Score=90.04 Aligned_cols=57 Identities=28% Similarity=0.464 Sum_probs=54.1
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSN 59 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~ 59 (280)
|++|++|+|+.++++||+.+ +.++++.+|+.|++||++||++|.+++++.+.+|..+
T Consensus 8 f~~f~~~~r~~~~~~~p~~~-~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y~~e 64 (66)
T cd01390 8 YFLFSQEQRPKLKKENPDAS-VTEVTKILGEKWKELSEEEKKKYEEKAEKDKERYEKE 64 (66)
T ss_pred HHHHHHHHHHHHHHHCcCCC-HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHh
Confidence 89999999999999999975 9999999999999999999999999999999998754
No 4
>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=99.17 E-value=7.7e-12 Score=91.01 Aligned_cols=59 Identities=15% Similarity=0.218 Sum_probs=55.5
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNSH 61 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~ 61 (280)
||+|+++.|..++++||+.+ +..++|.+|+.|++||++||++|.+++.+.+.+|..+.+
T Consensus 9 f~~F~~~~r~~~~~~~p~~~-~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y~~~~p 67 (72)
T cd01388 9 FMLFSKRHRRKVLQEYPLKE-NRAISKILGDRWKALSNEEKQPYYEEAKKLKELHMKLYP 67 (72)
T ss_pred HHHHHHHHHHHHHHHCCCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHCc
Confidence 89999999999999999985 999999999999999999999999999999999977653
No 5
>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=99.15 E-value=1.3e-11 Score=90.93 Aligned_cols=59 Identities=22% Similarity=0.371 Sum_probs=56.1
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNSH 61 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~ 61 (280)
||+|++++|+.++++||+.+ +..|++++|+.|+.||++||++|.++|++.+.+|..+.+
T Consensus 9 f~lf~~~~r~~~~~~~p~~~-~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~~~~~p 67 (77)
T cd01389 9 FILYRQDKHAQLKTENPGLT-NNEISRIIGRMWRSESPEVKAYYKELAEEEKERHAREYP 67 (77)
T ss_pred HHHHHHHHHHHHHHHCCCCC-HHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHCC
Confidence 89999999999999999985 999999999999999999999999999999999988764
No 6
>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=99.05 E-value=6.2e-11 Score=84.96 Aligned_cols=57 Identities=28% Similarity=0.429 Sum_probs=53.9
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSN 59 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~ 59 (280)
|++|++++|..++++||+.+ ..+|++.+|+.|++||++||++|.+++.+.+.+|..+
T Consensus 8 f~lf~~~~~~~~k~~~p~~~-~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y~~~ 64 (69)
T PF00505_consen 8 FMLFCKEKRAKLKEENPDLS-NKEISKILAQMWKNLSEEEKAPYKEEAEEEKERYEKE 64 (69)
T ss_dssp HHHHHHHHHHHHHHHSTTST-HHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcccc-cccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999998 9999999999999999999999999999999888643
No 7
>smart00398 HMG high mobility group.
Probab=99.03 E-value=1.1e-10 Score=83.61 Aligned_cols=58 Identities=26% Similarity=0.453 Sum_probs=54.5
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
|++|++++|+.++++||+.+ +.++++.+|..|++||++||++|.++++..+.+|....
T Consensus 9 y~~f~~~~r~~~~~~~~~~~-~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y~~~~ 66 (70)
T smart00398 9 FMLFSQENRAKIKAENPDLS-NAEISKKLGERWKLLSEEEKAPYEEKAKKDKERYEEEM 66 (70)
T ss_pred HHHHHHHHHHHHHHHCcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999987 89999999999999999999999999999999887643
No 8
>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=99.02 E-value=1.1e-10 Score=82.60 Aligned_cols=57 Identities=25% Similarity=0.405 Sum_probs=53.6
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSN 59 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~ 59 (280)
||+|+.|+|+.++++||+.+ ..++.+.+|++|++||+++|++|.+++++.+.+|...
T Consensus 8 f~~f~~~~~~~~~~~~~~~~-~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y~~~ 64 (66)
T cd00084 8 YFLFSQEHRAEVKAENPGLS-VGEISKILGEMWKSLSEEEKKKYEEKAEKDKERYEKE 64 (66)
T ss_pred HHHHHHHHHHHHHHHCcCCC-HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHh
Confidence 89999999999999999976 8899999999999999999999999999999988654
No 9
>PF09331 DUF1985: Domain of unknown function (DUF1985); InterPro: IPR015410 This domain is functionally uncharacterised; it is found in a set of Arabidopsis thaliana (Mouse-ear cress) hypothetical proteins.
Probab=98.94 E-value=9.8e-10 Score=90.41 Aligned_cols=123 Identities=14% Similarity=0.265 Sum_probs=89.8
Q ss_pred ceEEECCEEEEeCccccceeeeecCCCcccccCCCch---HHHHHHHHhCCCCCCcchhHHHHHHhhc--cccchhHHHH
Q 023605 125 NIIELHGQKLELCPKMFSKIMGVKDGGMAIKINGASD---HIAEVRRIFQPTVKGIRIRTLEEVIEQL--DEANKIFKVA 199 (280)
Q Consensus 125 ~~~~i~g~~i~it~~dV~~VlGLP~~G~~i~~~~~~~---~~~~l~~~~~~~~~~i~l~~L~~~l~~~--~~~~d~f~r~ 199 (280)
.-+.++|..|.++..+.+.|+|||++..|-....... ....+.+.+-..+..+++..+.+++.+. .+.++.+.-|
T Consensus 14 ~W~~~~g~piRfsl~Ef~lvTGL~C~~~p~~~~~~~~~~~~~~~fw~~Lf~~~~~vtv~dv~~~L~~~~~~~~~~Rlrla 93 (142)
T PF09331_consen 14 IWFVFNGVPIRFSLREFALVTGLNCGPYPKEKKVDKKGKKEKGSFWNKLFGREEDVTVEDVIAKLKKMKKWDSEDRLRLA 93 (142)
T ss_pred EEEEECCEeeEecHHHHHhhcCCcCCCCCcccchhhccccchhhhhhhhccccccCcHHHHHHHHhhcccCChhhHHHHH
Confidence 4678899999999999999999999988776542111 1112322222345679999999999854 2233445555
Q ss_pred HHHhhhceeecccCCC-CCccccccccccCCCccccchHHHHHHHHHHH
Q 023605 200 FTLFAIATLLCPIGSY-ISTLFLHPIMDVSSIKSLNWATFCYDWLVKSI 247 (280)
Q Consensus 200 Fll~~~~~~L~Ptt~~-vs~~yl~~l~D~~~i~~ynW~~~Vl~~L~~~i 247 (280)
+++++.|.+++++.+. |+..++..+.|++...+|-||.+.++.++++|
T Consensus 94 ~L~~v~gvl~~~~~~~~i~~~~~~~v~Dl~~f~~yPWGr~sF~~~~~sI 142 (142)
T PF09331_consen 94 LLLFVDGVLIATSKTTKIPKEHLKMVDDLEKFLNYPWGRYSFDMLMKSI 142 (142)
T ss_pred HHHhhheeeeccCCCCCCCHHHHHHHhhHHHHhcCCcHHHHHHHHHhcC
Confidence 5555555555555556 99999999999999999999999999999874
No 10
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=98.90 E-value=3e-10 Score=97.11 Aligned_cols=58 Identities=24% Similarity=0.303 Sum_probs=55.3
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
||+|+++.|++++++||+++ ++++||++|++||+|+|+||.||.+.+...+.+|.+.+
T Consensus 78 yf~y~~~~R~ei~~~~p~l~-~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq~ek 135 (211)
T COG5648 78 YFLYSAENRDEIRKENPKLT-FGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQREK 135 (211)
T ss_pred HHHHHHHHHHHHHHhCCCCC-hHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHHHHH
Confidence 89999999999999999996 99999999999999999999999999999999987755
No 11
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=98.88 E-value=9.7e-10 Score=84.08 Aligned_cols=58 Identities=21% Similarity=0.409 Sum_probs=54.2
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
|++|++++|..++++||+. ++.+|+|++|+.|++|++++|.+|..++.+.+.+|..+.
T Consensus 30 ~~~f~~~~~~~~k~~~p~~-~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y~~~~ 87 (96)
T KOG0381|consen 30 FFLFSSEQRSKIKAENPGL-SVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKYEKEL 87 (96)
T ss_pred HHHHHHHHHHHHHHhCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999995 499999999999999999999999999999999997654
No 12
>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=98.82 E-value=1.4e-09 Score=79.31 Aligned_cols=57 Identities=19% Similarity=0.248 Sum_probs=49.4
Q ss_pred cccchHHHHHHHHhh-CCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCC
Q 023605 2 LCFCSNEEVKRLRSE-NSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSN 59 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~-~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~ 59 (280)
|++|+.|.++.++.+ .|.. ....+.+.+|+.|++||++||++|.++|+..+.+|+.+
T Consensus 11 y~lF~~~~~~~~k~~G~~~~-~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y~~e 68 (73)
T PF09011_consen 11 YNLFMKEMRKEVKEEGGQKQ-SFREVMKEISERWKSLSEEEKEPYEERAKEDKERYERE 68 (73)
T ss_dssp HHHHHHHHHHHHHHHT-T-S-SHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhcccCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999999 7744 48899999999999999999999999999999988653
No 13
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=98.45 E-value=8.6e-08 Score=88.73 Aligned_cols=59 Identities=19% Similarity=0.321 Sum_probs=56.2
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNSH 61 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~ 61 (280)
||.++.+.|+.+-++||+.- ++.+-|.+|+.||.|+|+||.||++.|++.+++|.++-+
T Consensus 70 FMVWSq~~RRkma~qnP~mH-NSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~HmkehP 128 (331)
T KOG0527|consen 70 FMVWSQGQRRKLAKQNPKMH-NSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMKEYP 128 (331)
T ss_pred hhhhhHHHHHHHHHhCcchh-hHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHHhCC
Confidence 89999999999999999996 999999999999999999999999999999999988763
No 14
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=98.07 E-value=6.9e-07 Score=85.73 Aligned_cols=55 Identities=11% Similarity=0.235 Sum_probs=51.4
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNSH 61 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~ 61 (280)
||+|.+..|..+|++ +.+ ++.|+|.+|++||.||. |.+|.+||+..+.||+.+++
T Consensus 543 ~m~w~~~~r~~ik~d--gi~-~~dv~kk~g~~wk~ms~--k~~we~ka~~dk~ry~~em~ 597 (615)
T KOG0526|consen 543 YMLWLNASRESIKED--GIS-VGDVAKKAGEKWKQMSA--KEEWEDKAAVDKQRYEDEMK 597 (615)
T ss_pred HHHHHHhhhhhHhhc--Cch-HHHHHHHHhHHHhhhcc--cchhhHHHHHHHHHHHHHHH
Confidence 899999999999999 554 99999999999999999 99999999999999988774
No 15
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=97.56 E-value=3.9e-05 Score=70.12 Aligned_cols=51 Identities=16% Similarity=0.328 Sum_probs=47.2
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhc
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMG 53 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k 53 (280)
||.||+|+|+.+-+|-- +|.-+++-+++|++|.+||-||.++|-+-|++.+
T Consensus 199 FmlyMKEmRa~vvaEct-lKeSAaiNqiLGrRWH~LSrEEQAKYyElArKer 249 (421)
T KOG3248|consen 199 FMLYMKEMRAKVVAECT-LKESAAINQILGRRWHALSREEQAKYYELARKER 249 (421)
T ss_pred HHHHHHHHHHHHHHHhh-hhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHHHH
Confidence 79999999999999984 8889999999999999999999999998887766
No 16
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=97.36 E-value=4.6e-05 Score=69.06 Aligned_cols=59 Identities=22% Similarity=0.273 Sum_probs=54.6
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNSH 61 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~ 61 (280)
||-|+.-.-..+|++||+++ .=.+||.+|.-|+.|+|+||..|+..-+.-|.+|+.+++
T Consensus 72 ymrySrkvWd~VkA~nPe~k-LWeiGK~Ig~mW~dLpd~EK~ey~~EYeaEKieY~~smk 130 (410)
T KOG4715|consen 72 YMRYSRKVWDQVKASNPELK-LWEIGKIIGGMWLDLPDEEKQEYLNEYEAEKIEYNESMK 130 (410)
T ss_pred hhHHhhhhhhhhhccCcchH-HHHHHHHHHHHHhhCcchHHHHHHHHHHHHHHHHHHHHH
Confidence 77788888889999999999 888999999999999999999999999999999998874
No 17
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=95.83 E-value=0.0053 Score=44.67 Aligned_cols=53 Identities=6% Similarity=0.072 Sum_probs=45.1
Q ss_pred hHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 6 SNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 6 ~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
.+..+..|-+.+|+.. ..+ -|+.+..|++|++.||.++.+||.+..++|+.+.
T Consensus 15 qq~vi~dYla~~~~dr-~K~-~kam~~~W~~me~Kekl~WIkKA~EdqKrYE~el 67 (85)
T PF14887_consen 15 QQSVIGDYLAKFRNDR-KKA-LKAMEAQWSQMEKKEKLKWIKKAAEDQKRYEREL 67 (85)
T ss_dssp HHHHHHHHHHHTTSTH-HHH-HHHHHHHHHTTGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhHhH-HHH-HHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHH
Confidence 4567788999999876 333 5699999999999999999999999999998755
No 18
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=95.47 E-value=0.0091 Score=57.37 Aligned_cols=58 Identities=14% Similarity=0.299 Sum_probs=50.3
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
||.+.+|.|.-+-.+.||-- +..+.|++|.+||+||..||+||-+.-...++.|--+-
T Consensus 333 FMVWAkDERRKILqA~PDMH-NSnISKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~ 390 (511)
T KOG0528|consen 333 FMVWAKDERRKILQAFPDMH-NSNISKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKY 390 (511)
T ss_pred hhcccchhhhhhhhcCcccc-ccchhHHhcccccccccccccchHHHHHHHHHhhhccC
Confidence 78899999988889999986 88899999999999999999999888777777665443
No 19
>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=93.33 E-value=0.058 Score=45.53 Aligned_cols=44 Identities=18% Similarity=0.251 Sum_probs=35.0
Q ss_pred cccchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhh
Q 023605 2 LCFCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDE 50 (280)
Q Consensus 2 ~~~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~ 50 (280)
|+-|+.|||+ .|.+++ ..++...+.+.|..||++||.+|..++.
T Consensus 86 YLNFLReFRr----kh~~L~-p~dlI~~AAraW~rLSe~eK~rYrr~~~ 129 (183)
T PF06382_consen 86 YLNFLREFRR----KHCGLS-PQDLIQRAARAWCRLSEAEKNRYRRMAP 129 (183)
T ss_pred HHHHHHHHHH----HccCCC-HHHHHHHHHHHHHhCCHHHHHHHHhhcc
Confidence 5666666655 788887 6667777889999999999999999644
No 20
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=90.59 E-value=0.085 Score=52.77 Aligned_cols=56 Identities=14% Similarity=0.253 Sum_probs=50.5
Q ss_pred cccchHHHH--HHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCC
Q 023605 2 LCFCSNEEV--KRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNS 58 (280)
Q Consensus 2 ~~~~~~~~~--~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~ 58 (280)
+|+|.+..| -.....||+.. +..|.|++|+.|-+|.+.||+.|.+-+.++|..|-+
T Consensus 189 f~ifskrhr~~g~vhq~~pn~D-NrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~Ahfk 246 (683)
T KOG2746|consen 189 FHIFSKRHRGEGRVHQRHPNQD-NRTISKILGEWWYTLGPNEKQKYHDLAFQVKEAHFK 246 (683)
T ss_pred HHHHHhhcCCccchhccCcccc-chhHHHHHhhhHhhhCchhhhhHHHHHHHHHHHHhh
Confidence 578888888 88889999876 999999999999999999999999999999887765
No 21
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=90.49 E-value=0.1 Score=45.25 Aligned_cols=54 Identities=17% Similarity=0.230 Sum_probs=43.5
Q ss_pred hHHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhhhhhhcccCCCCC
Q 023605 6 SNEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKRDERMGNSGNSNS 60 (280)
Q Consensus 6 ~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k 60 (280)
..+-|......+|+.. .-..+|++|+.|.+|++.-|++|.+.+++.+.+|++..
T Consensus 155 ~~~~r~~~~~~~~~~~-~~e~~k~~~~~w~el~~skK~~~~~~~Kk~k~~~~~~~ 208 (211)
T COG5648 155 EPKIRPKVEGPSPDKA-LVEETKIISKAWSELDESKKKKYIDKYKKLKEEYDSFY 208 (211)
T ss_pred cHHhccccCCCCcchh-hhHHhhhhhhhhhhhChhhhhHHHHHHHHHHHHHhhhc
Confidence 3445555666666654 55569999999999999999999999999999998754
No 22
>PF03078 ATHILA: ATHILA ORF-1 family; InterPro: IPR004312 ATHILA is a group of Arabidopsis thaliana retrotransposons [] belonging to the Ty3/gypsy family of the long terminal repeat (LTR) class of eukaryotic retrotransposons[, ]. The central region of ATHILA retrotransposons contains two or three open reading frames (ORFs). This family represents the ORF1 product. The function of ORF1 is unknown.
Probab=85.01 E-value=4.3 Score=39.61 Aligned_cols=164 Identities=15% Similarity=0.156 Sum_probs=94.0
Q ss_pred cHHHHHHHHhhCCHHHHHHHHHcCChhhhcccccccCHHHHHHHhcc----c---CC--------CcceEEECCEEEEeC
Q 023605 73 VPERFCALVKSLSEEKKKAIREIGFESLLELRCGKLKRKLCHWLVNQ----F---KP--------ERNIIELHGQKLELC 137 (280)
Q Consensus 73 S~~~~~~~i~~Ls~~qk~~I~~~GFg~LL~i~~~~l~~~l~~wL~~~----~---d~--------~t~~~~i~g~~i~it 137 (280)
++..+..+ .|.++-..+++.+|.+.|..++...-+...+.+|+.- + ++ ..-+|.|.|....+|
T Consensus 67 ~~etl~~L--Gl~~dV~~lf~~~gL~~f~~~~~~~Y~eet~qFLaTl~v~~~~~~~~~~~e~~glG~l~F~V~~~~y~ls 144 (458)
T PF03078_consen 67 DPETLQKL--GLLEDVEYLFKKCGLGTFMSYPYPTYPEETRQFLATLKVTFYNPSEPRAKELDGLGYLTFFVYGVEYSLS 144 (458)
T ss_pred CHHHHHHh--ccHHHHHHHHHhcCchhhccCCCCCcHHHHHHhhheeeeeecccccchhhcccCcceEEEEEcceeeeee
Confidence 33444444 6778888999999999999888876665555555432 1 11 123577789999999
Q ss_pred ccccceeeeecCCCcccccCCCchHHHHHHHHhCCCCCCcchhHHHHHHhhccccchhHHHHHHHhhhceeecccCCC--
Q 023605 138 PKMFSKIMGVKDGGMAIKINGASDHIAEVRRIFQPTVKGIRIRTLEEVIEQLDEANKIFKVAFTLFAIATLLCPIGSY-- 215 (280)
Q Consensus 138 ~~dV~~VlGLP~~G~~i~~~~~~~~~~~l~~~~~~~~~~i~l~~L~~~l~~~~~~~d~f~r~Fll~~~~~~L~Ptt~~-- 215 (280)
-.+...++|.|.++. +....+.+....+.+..|.+. .++...-... ..-+=+.+++-=+++..|+|....
T Consensus 145 i~~L~~i~GF~~~~~-i~~~~~~~el~~~W~~ig~~~-p~~~~~~ks~------~Ir~PviRy~hr~iA~tlf~R~~~~~ 216 (458)
T PF03078_consen 145 IKHLERIFGFPSGDE-IKPDFDPEELNDFWATIGGGK-PFNSARSKSN------QIRSPVIRYFHRLIANTLFAREETGT 216 (458)
T ss_pred HHHHHHHhCCCCccc-cCCCCCchHHHHHHHHhcCCC-cccccccccc------cccChHHHHHHHHHHhhhccccccCc
Confidence 999999999999844 333334444455655555321 1111111110 111223344444556666665533
Q ss_pred CCccccccc-----------ccc----CCCccccchHHHHHHHHHH
Q 023605 216 ISTLFLHPI-----------MDV----SSIKSLNWATFCYDWLVKS 246 (280)
Q Consensus 216 vs~~yl~~l-----------~D~----~~i~~ynW~~~Vl~~L~~~ 246 (280)
|..+-|..+ .|- .+..+.|=+...++||...
T Consensus 217 v~~~El~~l~~~L~~~Lr~~~~g~~l~~d~~dt~~~~vl~~hL~~y 262 (458)
T PF03078_consen 217 VRNDELEMLDQALKHLLRRTKDGKLLRGDLNDTNVSMVLLDHLCSY 262 (458)
T ss_pred eechhHHHHHHHHHHHHHhcCCCccccCcccccchhHHHHHHHHhh
Confidence 655543321 111 1235666777777777654
No 23
>PF06945 DUF1289: Protein of unknown function (DUF1289); InterPro: IPR010710 This family consists of a number of hypothetical bacterial proteins. The aligned region spans around 56 residues and contains 4 highly conserved cysteine residues towards the N terminus. The function of this family is unknown.
Probab=64.69 E-value=4.6 Score=27.04 Aligned_cols=22 Identities=9% Similarity=0.157 Sum_probs=18.7
Q ss_pred cccCCChhhhhhhhhhhhhhcc
Q 023605 33 TYKELPPEQKARYKKRDERMGN 54 (280)
Q Consensus 33 ~wk~l~~~~k~~~~~~~~~~k~ 54 (280)
.|++||++||...+++.....+
T Consensus 29 ~W~~~s~~er~~i~~~l~~R~~ 50 (51)
T PF06945_consen 29 DWKSMSDDERRAILARLRARRA 50 (51)
T ss_pred HHhhCCHHHHHHHHHHHHHHhc
Confidence 7999999999999988766544
No 24
>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=63.47 E-value=6.7 Score=26.86 Aligned_cols=34 Identities=15% Similarity=0.098 Sum_probs=28.8
Q ss_pred cchHHHHHHHHhhCCCChhhhhhhhhhhhcccCCC
Q 023605 4 FCSNEEVKRLRSENSDLSVTLGLRKHIGKTYKELP 38 (280)
Q Consensus 4 ~~~~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~ 38 (280)
.|+.-.|..+.++||++. ...+=...+.||+.-+
T Consensus 18 ~Fsq~vRP~l~~~NPk~~-~sKl~~l~~AKwrEF~ 51 (55)
T PF08073_consen 18 AFSQHVRPLLAKANPKAP-MSKLMMLLQAKWREFQ 51 (55)
T ss_pred HHHHHHHHHHHHHCCCCc-HHHHHHHHHHHHHHHH
Confidence 588899999999999997 7777788999997543
No 25
>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=60.90 E-value=11 Score=29.34 Aligned_cols=14 Identities=29% Similarity=0.674 Sum_probs=6.3
Q ss_pred hhcccCCChhhhhh
Q 023605 31 GKTYKELPPEQKAR 44 (280)
Q Consensus 31 g~~wk~l~~~~k~~ 44 (280)
.++|.+||+++++.
T Consensus 35 a~r~~~mspeqq~r 48 (107)
T PF11304_consen 35 AERWPSMSPEQQQR 48 (107)
T ss_pred HHHHhcCCHHHHHH
Confidence 34444444444444
No 26
>PF10234 Cluap1: Clusterin-associated protein-1; InterPro: IPR019366 This protein of 413 amino acids contains a central coiled-coil domain, possibly the region that binds to clusterin. Cluap1 expression is highest in the nucleus and gradually increases during late S to G2/M phases of the cell cycle and returns to the basal level in the G0/G1 phases. In addition, it is upregulated in colon cancer tissues compared to corresponding non-cancerous mucosa. It thus plays a crucial role in the life of the cell [].
Probab=47.37 E-value=8.9 Score=34.83 Aligned_cols=32 Identities=19% Similarity=0.643 Sum_probs=25.8
Q ss_pred HcCChhhhcccccccC-----HHHHHHHhcccCCCcc
Q 023605 94 EIGFESLLELRCGKLK-----RKLCHWLVNQFKPERN 125 (280)
Q Consensus 94 ~~GFg~LL~i~~~~l~-----~~l~~wL~~~~d~~t~ 125 (280)
.+||..+++|....-| .+++.||+.+|||+..
T Consensus 2 ~LGypr~iSmenFrtPNF~LVAeiL~WLv~rydP~~~ 38 (267)
T PF10234_consen 2 ALGYPRLISMENFRTPNFELVAEILRWLVKRYDPDAD 38 (267)
T ss_pred CCCCCCCCcHHHcCCCChHHHHHHHHHHHHHcCCCCC
Confidence 4799999999775554 5788899999999873
No 27
>PRK15117 ABC transporter periplasmic binding protein MlaC; Provisional
Probab=46.78 E-value=14 Score=32.26 Aligned_cols=30 Identities=20% Similarity=0.294 Sum_probs=22.4
Q ss_pred CCChhhhhh-hhhhhhcccCCChhhhhhhhhh
Q 023605 18 SDLSVTLGL-RKHIGKTYKELPPEQKARYKKR 48 (280)
Q Consensus 18 p~~~~~~~~-~k~~g~~wk~l~~~~k~~~~~~ 48 (280)
|... +..+ ..+.|..|+..|+++|+.|.+-
T Consensus 66 p~~D-f~~~s~~vLG~~wr~as~eQr~~F~~~ 96 (211)
T PRK15117 66 PYVQ-VKYAGALVLGRYYKDATPAQREAYFAA 96 (211)
T ss_pred ccCC-HHHHHHHHhhhhhhhCCHHHHHHHHHH
Confidence 4444 3333 6689999999999999987654
No 28
>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=44.82 E-value=16 Score=30.45 Aligned_cols=31 Identities=16% Similarity=0.404 Sum_probs=21.2
Q ss_pred CCChhhhhhhhhhhhcccCCChhhhhhhhhh
Q 023605 18 SDLSVTLGLRKHIGKTYKELPPEQKARYKKR 48 (280)
Q Consensus 18 p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~ 48 (280)
|....-.....++|..|+.+|+++++.|.+.
T Consensus 36 ~~~D~~~~ar~~LG~~w~~~s~~q~~~F~~~ 66 (170)
T PF05494_consen 36 PYFDFERMARRVLGRYWRKASPAQRQRFVEA 66 (170)
T ss_dssp GGB-HHHHHHHHHGGGTTTS-HHHHHHHHHH
T ss_pred HhCCHHHHHHHHHHHhHhhCCHHHHHHHHHH
Confidence 3344334446788999999999999987654
No 29
>PF12650 DUF3784: Domain of unknown function (DUF3784); InterPro: IPR017259 This group represents an uncharacterised conserved protein.
Probab=44.28 E-value=13 Score=27.96 Aligned_cols=19 Identities=26% Similarity=0.543 Sum_probs=15.5
Q ss_pred cccCCChhhhhhhhhhhhh
Q 023605 33 TYKELPPEQKARYKKRDER 51 (280)
Q Consensus 33 ~wk~l~~~~k~~~~~~~~~ 51 (280)
-|+.||+|||+.|-+++-.
T Consensus 25 Gyntms~eEk~~~D~~~l~ 43 (97)
T PF12650_consen 25 GYNTMSKEEKEKYDKKKLC 43 (97)
T ss_pred hcccCCHHHHHHhhHHHHH
Confidence 4789999999998877643
No 30
>cd03489 Topoisomer_IB_N_LdtopoI_like Topoisomer_IB_N_LdtopoI_like: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit re-ligation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanosomatid parasite topo I differ from human
Probab=44.15 E-value=24 Score=30.78 Aligned_cols=54 Identities=9% Similarity=-0.011 Sum_probs=34.8
Q ss_pred chHHHHHHHHhhCCCChhhh--hhhh------hhhhcccCCChhhhhhhhhhhhhhcccCCC
Q 023605 5 CSNEEVKRLRSENSDLSVTL--GLRK------HIGKTYKELPPEQKARYKKRDERMGNSGNS 58 (280)
Q Consensus 5 ~~~~~~~~~~~~~p~~~~~~--~~~k------~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~ 58 (280)
|.+|||+.+...+-.++.++ +..+ .--++-|+||.|||+.-.+.+.+....|.-
T Consensus 61 Ff~df~~~l~~~~~~I~~f~kcDF~~i~~~~~~~~e~kK~~tkeEKk~~K~ek~~~e~~Y~~ 122 (212)
T cd03489 61 FFESWREILDKRHHPIRKLELCDFTPIYEWHLREKEKKKSRTKEEKKALKEEKDKEAEPYMW 122 (212)
T ss_pred HHHHHHHHhcccCccccchhhCCCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhccCCE
Confidence 78999999976652333322 2222 234578899999999776666666666643
No 31
>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=43.50 E-value=29 Score=26.96 Aligned_cols=65 Identities=20% Similarity=0.340 Sum_probs=37.5
Q ss_pred hhhhhcccCCChhhhhhhhhhhhhhcccCCCCCCCCCCCCccccccHHHHHHHHhhCCHHHHHHHHHcCChhhhccc
Q 023605 28 KHIGKTYKELPPEQKARYKKRDERMGNSGNSNSHSGDNEIVETKCVPERFCALVKSLSEEKKKAIREIGFESLLELR 104 (280)
Q Consensus 28 k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~~~k~~~~~~RcS~~~~~~~i~~Ls~~qk~~I~~~GFg~LL~i~ 104 (280)
.-..+.|.+|+++.|..++..+..-..=- +.-+. ....=+.--..|||+|++.+++. |..+-.|+
T Consensus 14 ~pl~~~W~~l~~~qr~k~l~~a~r~~~ms-----peqq~------r~~~rm~~W~~LspeqR~~~R~~-~~~~~~Lp 78 (107)
T PF11304_consen 14 APLAERWNSLPPEQRRKWLQIAERWPSMS-----PEQQQ------RLRERMRRWAALSPEQRQQAREN-YQRFKQLP 78 (107)
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHhcCC-----HHHHH------HHHHHHHHHHhCCHHHHHHHHHH-HHHHHcCC
Confidence 55667899999999998887765443111 11011 11112223356777777777765 55555544
No 32
>cd00660 Topoisomer_IB_N Topoisomer_IB_N: N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit re-ligation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanosomatid parasite topo I diffe
Probab=38.11 E-value=41 Score=29.47 Aligned_cols=54 Identities=15% Similarity=0.122 Sum_probs=34.2
Q ss_pred chHHHHHHHHhhCCCC-hhhh--hh------hhhhhhcccCCChhhhhhhhhhhhhhcccCCC
Q 023605 5 CSNEEVKRLRSENSDL-SVTL--GL------RKHIGKTYKELPPEQKARYKKRDERMGNSGNS 58 (280)
Q Consensus 5 ~~~~~~~~~~~~~p~~-~~~~--~~------~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~ 58 (280)
|.+|||+.+...+... +.++ +. -..-.++-|+||.|||+.-.+.+++....|.-
T Consensus 63 Ff~Df~~~l~~~~~~~i~~f~kcDF~~i~~~~~~~~e~kK~~s~eEKk~~K~ek~~~e~~Y~~ 125 (215)
T cd00660 63 FFKDFRKILTKEEKHIIKKLSKCDFTPIYQYFEEEKEKKKAMSKEEKKAIKEEKEKLEEPYGY 125 (215)
T ss_pred HHHHHHHHhccccCccccchhhCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhccCCE
Confidence 7889999996654322 1111 11 22335678899999999776666666666643
No 33
>cd03488 Topoisomer_IB_N_htopoI_like Topoisomer_IB_N_htopoI_like : N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB proteins similar to the monomeric yeast and human topo I. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit religation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. This family may represent more than one structural domain.
Probab=37.88 E-value=42 Score=29.41 Aligned_cols=54 Identities=15% Similarity=0.078 Sum_probs=34.4
Q ss_pred chHHHHHHHHhhCCCC-hhhh--hh------hhhhhhcccCCChhhhhhhhhhhhhhcccCCC
Q 023605 5 CSNEEVKRLRSENSDL-SVTL--GL------RKHIGKTYKELPPEQKARYKKRDERMGNSGNS 58 (280)
Q Consensus 5 ~~~~~~~~~~~~~p~~-~~~~--~~------~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~ 58 (280)
|.+|||+.+...+... +.++ +. -..-.++-|+||.|||+.-.+.+.+....|.-
T Consensus 63 Ff~Df~~~l~~~~~~~I~~f~kcDF~~i~~~~~~~~e~kK~~tkeEKk~~K~ek~~~e~~Y~~ 125 (215)
T cd03488 63 FFKDFKKVMTKEEKVIIKDFSKCDFTQMFAYFKAQKEEKKAMSKEEKKAIKAEKEKLEEEYGF 125 (215)
T ss_pred HHHHHHHHhccccCccccchhhCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhccCCE
Confidence 7889999996654221 1111 11 22345678899999999776666666666643
No 34
>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=37.70 E-value=20 Score=30.95 Aligned_cols=22 Identities=32% Similarity=0.668 Sum_probs=18.9
Q ss_pred hhhhhhcccCCChhhhhhhhhh
Q 023605 27 RKHIGKTYKELPPEQKARYKKR 48 (280)
Q Consensus 27 ~k~~g~~wk~l~~~~k~~~~~~ 48 (280)
..++|..|+.+|+++|+.|.+-
T Consensus 71 r~vLG~~W~~~s~~Qr~~F~~~ 92 (198)
T TIGR03481 71 RLTLGSSWTSLSPEQRRRFIGA 92 (198)
T ss_pred HHHhhhhhhhCCHHHHHHHHHH
Confidence 5588999999999999987654
No 35
>cd03490 Topoisomer_IB_N_1 Topoisomer_IB_N_1: A subgroup of the N-terminal DNA binding fragment found in eukaryotic DNA topoisomerase (topo) IB. Topo IB proteins include the monomeric yeast and human topo I and heterodimeric topo I from Leishmania donvanni. Topo I enzymes are divided into: topo type IA (bacterial) and type IB (eukaryotic). Topo I relaxes superhelical tension in duplex DNA by creating a single-strand nick, the broken strand can then rotate around the unbroken strand to remove DNA supercoils and, the nick is religated, liberating topo I. These enzymes regulate the topological changes that accompany DNA replication, transcription and other nuclear processes. Human topo I is the target of a diverse set of anticancer drugs including camptothecins (CPTs). CPTs bind to the topo I-DNA complex and inhibit religation of the single-strand nick, resulting in the accumulation of topo I-DNA adducts. In addition to differences in structure and some biochemical properties, Trypanoso
Probab=34.00 E-value=47 Score=29.12 Aligned_cols=54 Identities=15% Similarity=0.056 Sum_probs=34.6
Q ss_pred chHHHHHHHHhhCCCChh--h--hhhh------hhhhhcccCCChhhhhhhhhhhhhhcccCCC
Q 023605 5 CSNEEVKRLRSENSDLSV--T--LGLR------KHIGKTYKELPPEQKARYKKRDERMGNSGNS 58 (280)
Q Consensus 5 ~~~~~~~~~~~~~p~~~~--~--~~~~------k~~g~~wk~l~~~~k~~~~~~~~~~k~~~~~ 58 (280)
|.+|||+.+...+....+ + ++.. ..--++-|+||.|||+.-.+.+.+....|.-
T Consensus 61 Ff~df~~~l~~~~~~~~i~~f~kcDF~~i~~~~~~~ke~kK~~tkeEKk~~K~ek~~~e~~Y~~ 124 (217)
T cd03490 61 FWKVFVNSFEKDHKFIRRCKLSDADFSLIKNHLEEEKEKKKNLNKEEKEAKKKERAKREYPFNY 124 (217)
T ss_pred HHHHHHHHhccccCcccccchhhCCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhccCCE
Confidence 789999999766633321 1 1222 2234577899999999766666666666643
No 36
>cd09071 FAR_C C-terminal domain of fatty acyl CoA reductases. C-terminal domain of fatty acyl CoA reductases, a family of SDR-like proteins. SDRs or short-chain dehydrogenases/reductases are Rossmann-fold NAD(P)H-binding proteins. Many proteins in this FAR_C family may function as fatty acyl-CoA reductases (FARs), acting on medium and long chain fatty acids, and have been reported to be involved in diverse processes such as the biosynthesis of insect pheromones, plant cuticular wax production, and mammalian wax biosynthesis. In Arabidopsis thaliana, proteins with this particular architecture have also been identified as the MALE STERILITY 2 (MS2) gene product, which is implicated in male gametogenesis. Mutations in MS2 inhibit the synthesis of exine (sporopollenin), rendering plants unable to reduce pollen wall fatty acids to corresponding alcohols. The function of this C-terminal domain is unclear.
Probab=31.61 E-value=45 Score=24.40 Aligned_cols=21 Identities=14% Similarity=0.754 Sum_probs=18.2
Q ss_pred CCccccchHHHHHHHHHHHHHH
Q 023605 229 SIKSLNWATFCYDWLVKSICRF 250 (280)
Q Consensus 229 ~i~~ynW~~~Vl~~L~~~i~k~ 250 (280)
++.++||..++.+. +.|+++|
T Consensus 70 D~~~idW~~Y~~~~-~~G~r~y 90 (92)
T cd09071 70 DIRSIDWDDYFENY-IPGLRKY 90 (92)
T ss_pred CCCCCCHHHHHHHH-HHHHHHH
Confidence 46799999999999 8888876
No 37
>PF03457 HA: Helicase associated domain; InterPro: IPR005114 This short domain is found in multiple copies in bacterial helicase proteins. The domain is predicted to contain 3 alpha helices. The function of this domain may be to bind nucleic acid.; PDB: 2KTA_A.
Probab=31.45 E-value=33 Score=23.82 Aligned_cols=16 Identities=25% Similarity=0.578 Sum_probs=11.3
Q ss_pred hhCCHHHHHHHHHcCC
Q 023605 82 KSLSEEKKKAIREIGF 97 (280)
Q Consensus 82 ~~Ls~~qk~~I~~~GF 97 (280)
..|+++|.+.++++||
T Consensus 52 g~L~~er~~~L~~lg~ 67 (68)
T PF03457_consen 52 GKLTPERIERLDALGF 67 (68)
T ss_dssp T---HHHHHHHHHHT-
T ss_pred CCCCHHHHHHHHcCCC
Confidence 4699999999999998
No 38
>PF05823 Gp-FAR-1: Nematode fatty acid retinoid binding protein (Gp-FAR-1); InterPro: IPR008632 Parasitic nematodes produce at least two structurally novel classes of small helix-rich retinol- and fatty-acid-binding proteins that have no counterparts in their plant or animal hosts and thus represent potential targets for new nematicides. Gp-FAR-1 is a member of the nematode-specific fatty-acid- and retinol-binding (FAR) family of proteins but localises to the surface of the organism, placing it in a strategic position for interaction with the host. Gp-FAR-1 functions as a broad-spectrum retinol- and fatty-acid-binding protein, and it is thought that it is involved in the evasion of primary host plant defence systems [].; GO: 0008289 lipid binding; PDB: 2W9Y_A.
Probab=31.32 E-value=13 Score=30.80 Aligned_cols=89 Identities=19% Similarity=0.241 Sum_probs=49.4
Q ss_pred HHHHHHHHhhCCCChh-hhhhhhhhhhcccCCChhhhhh---hhhhhhhhcccCCCCCCCCCCCCccccccH----HHHH
Q 023605 7 NEEVKRLRSENSDLSV-TLGLRKHIGKTYKELPPEQKAR---YKKRDERMGNSGNSNSHSGDNEIVETKCVP----ERFC 78 (280)
Q Consensus 7 ~~~~~~~~~~~p~~~~-~~~~~k~~g~~wk~l~~~~k~~---~~~~~~~~k~~~~~~k~~~k~~~~~~RcS~----~~~~ 78 (280)
+|+-+.+|++.|.+-. +..+....-.+-.+|+|+.|+. ..+++.....++.....+. .+.. +.+.
T Consensus 43 de~i~~LK~ksP~L~~k~~~l~~~~k~ki~~L~peak~Fv~~li~~~~~l~~~~~~G~~~~-------~~~lk~~~k~~~ 115 (154)
T PF05823_consen 43 DEMIAALKEKSPSLYEKAEKLRDKLKKKIDKLSPEAKAFVKELIAKARSLYAQYSAGEKPD-------LEELKQLAKKVI 115 (154)
T ss_dssp TTHHHHHHHH-HHHHHHHHHHHHHHHHTTTT--HHHHHHHHHHHHHHHHHHHHHHHT-----------THHHHHHH----
T ss_pred HHHHHHHHHhCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcCCCCCC-------HHHHHHHHhhhH
Confidence 5778899999999754 5556777778999999998863 3333333333333322111 3334 4555
Q ss_pred HHHhhCCHHHHHHHHHcCChhhhcc
Q 023605 79 ALVKSLSEEKKKAIREIGFESLLEL 103 (280)
Q Consensus 79 ~~i~~Ls~~qk~~I~~~GFg~LL~i 103 (280)
.-++.||++-|+-|++. |-.+..+
T Consensus 116 ~~ykaLs~~ak~dL~k~-FP~i~~~ 139 (154)
T PF05823_consen 116 DSYKALSPEAKDDLKKN-FPIIASF 139 (154)
T ss_dssp HHHHTS-HHHHHHHHHH--TT----
T ss_pred HHHHcCCHHHHHHHHHH-Cccchhh
Confidence 77889999999999887 6665554
No 39
>PF04994 TfoX_C: TfoX C-terminal domain; InterPro: IPR007077 This domain is found in a number of bacterial proteins including the TfoX gene product of Haemophilus influenzae. TfoX may play a key role in the development of genetic competence by regulating the expression of late competence-specific genes []. This family corresponds to the C-terminal presumed domain of TfoX. The domain is found in association with the N-terminal domain in some, but not all members of this group, suggesting this is an autonomous and functionally unrelated domain. For example it is found associated with Q9JZR1 from SWISSPROT in IPR002125 from INTERPRO.; PDB: 3BQT_A 3MAB_A.
Probab=30.51 E-value=53 Score=24.12 Aligned_cols=36 Identities=19% Similarity=0.290 Sum_probs=22.3
Q ss_pred HHHhhCCCChh---hhhhhhhhhhcccCCChhhhhhhhh
Q 023605 12 RLRSENSDLSV---TLGLRKHIGKTYKELPPEQKARYKK 47 (280)
Q Consensus 12 ~~~~~~p~~~~---~~~~~k~~g~~wk~l~~~~k~~~~~ 47 (280)
.+++.++++.. .+=.|-.-|..|..|++++|+.-..
T Consensus 41 ~Lk~~~~~~~~~~L~aL~gAi~g~~~~~L~~~~K~~L~~ 79 (81)
T PF04994_consen 41 RLKASGPSVCLNLLYALEGAIQGIHWADLPDEEKQELLE 79 (81)
T ss_dssp HHHHH-TT--HHHHHHHHHHHCTS-GGGS-HHHHHHHHH
T ss_pred HHHHHCCCCCHHHHHHHHHHHcCCCHHHCCHHHHHHHHh
Confidence 45666877764 3334778899999999999986543
No 40
>cd07321 Extradiol_Dioxygenase_3A_like Subunit A of Class III extradiol dioxygenases. Extradiol dioxygenases catalyze the incorporation of both atoms of molecular oxygen into substrates using a variety of reaction mechanisms, resulting in the cleavage of aromatic rings. There are two major groups of dioxygenases according to the cleavage site of the aromatic ring. Intradiol enzymes cleave the aromatic ring between two hydroxyl groups, whereas extradiol enzymes cleave the aromatic ring between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Extradiol dioxygenases can be divided into three classes. Class I and II enzymes are evolutionary related and show sequence similarity, with the two domain class II enzymes evolving from the class I enzyme through gene duplication. Class III enzymes are different in sequence and structure and usually have two subunits, designated A and B, which form a tetramer composed of two copies of each subunit. This model represents subunit A of c
Probab=29.35 E-value=60 Score=23.59 Aligned_cols=31 Identities=23% Similarity=0.218 Sum_probs=25.0
Q ss_pred hCCHHHHHHHHHcCChhhhcccccccCHHHHHHH
Q 023605 83 SLSEEKKKAIREIGFESLLELRCGKLKRKLCHWL 116 (280)
Q Consensus 83 ~Ls~~qk~~I~~~GFg~LL~i~~~~l~~~l~~wL 116 (280)
.||++|+++|.+--+.+|+++.. |..+...+
T Consensus 34 ~Lt~eE~~al~~rD~~~L~~lG~---~~~~l~k~ 64 (77)
T cd07321 34 GLTPEEKAALLARDVGALYVLGV---NPMLLMHF 64 (77)
T ss_pred CCCHHHHHHHHcCCHHHHHHcCC---CHHHHHHH
Confidence 79999999999999999999874 44444433
No 41
>PRK01381 Trp operon repressor; Provisional
Probab=28.35 E-value=35 Score=26.25 Aligned_cols=59 Identities=15% Similarity=0.142 Sum_probs=40.0
Q ss_pred CChhhhhhhhhhhhhhcc--cCCCCCCCCCCCCccccccHHHHHHHHhhCCHHHHHHHHHc
Q 023605 37 LPPEQKARYKKRDERMGN--SGNSNSHSGDNEIVETKCVPERFCALVKSLSEEKKKAIREI 95 (280)
Q Consensus 37 l~~~~k~~~~~~~~~~k~--~~~~~k~~~k~~~~~~RcS~~~~~~~i~~Ls~~qk~~I~~~ 95 (280)
|++.|+.-...|-.-... +++...-...+....++|...+..+.++..+++.|+++++.
T Consensus 33 lTp~Er~al~~R~~I~~~L~~g~~sQREIa~~lGvSiaTITRgsn~Lk~~~~~~k~~l~~~ 93 (99)
T PRK01381 33 LTPDEREALGTRVRIVEELLRGELSQREIKQELGVGIATITRGSNSLKTAPPEFKEWLEQQ 93 (99)
T ss_pred CCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHhCCceeeehhhHHHhccCCHHHHHHHHHH
Confidence 677777665555444332 33333223445556788999999999999999999998864
No 42
>PF03015 Sterile: Male sterility protein; InterPro: IPR004262 This family represents the C-terminal region of the male sterility protein in a number of organisms. The Arabidopsis thaliana male sterility 2 (MS2) protein is involved in male gametogenesis. The MS2 protein shows sequence similarity to a jojoba protein (also a member of this group) that converts wax fatty acids to fatty alcohols. It has been suggested that a possible function of the MS2 protein may be as a fatty acyl reductase in the formation of pollen wall substances [].; GO: 0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor, 0055114 oxidation-reduction process
Probab=26.62 E-value=63 Score=23.93 Aligned_cols=53 Identities=11% Similarity=0.279 Sum_probs=31.8
Q ss_pred HHHHHHHhhhceeecccCCC------CCccccccccccCCCccccchHHHHHHHHHHHHHHh
Q 023605 196 FKVAFTLFAIATLLCPIGSY------ISTLFLHPIMDVSSIKSLNWATFCYDWLVKSICRFQ 251 (280)
Q Consensus 196 f~r~Fll~~~~~~L~Ptt~~------vs~~yl~~l~D~~~i~~ynW~~~Vl~~L~~~i~k~~ 251 (280)
...++-.|+.....+.+.+. .++.--..+ +. +++++||-.++..+ +.|+++|-
T Consensus 33 ~~~~~~~F~~~eW~F~~~n~~~L~~~l~~~D~~~F-~f-D~~~idW~~Y~~~~-~~G~rkyl 91 (94)
T PF03015_consen 33 ALEVLEYFTTNEWIFDNDNTRRLWERLSPEDREIF-NF-DIRSIDWEEYFRNY-IPGIRKYL 91 (94)
T ss_pred HHHHHHHHHhCceeecchHHHHHHHhCchhcCcee-cC-CCCCCCHHHHHHHH-HHHHHHHH
Confidence 34444455555555554432 222222222 23 57899999999999 88999874
No 43
>PF02919 Topoisom_I_N: Eukaryotic DNA topoisomerase I, DNA binding fragment; InterPro: IPR008336 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the N-terminal DNA-binding domain found in eukaryotic topoisomerase I, which is a type IB enzymes. To cleave the DNA backbone, these enzymes must make a transient phosphotyrosine bond. The N-terminal domain of human topoisomerase I is thought to coordinate the restriction of free strand rotation during the topoisomerisation step of catalysis. A conserved tryptophan residue may be important for the DNA-interaction ability of the N-terminal domain []. Human topoisomerase I has been shown to be inhibited by camptothecin (CPT), a plant alkaloid with antitumour activity. A binding mode for the anticancer drug camptothecin has been proposed on the basis of chemical and biochemical information combined with the three-dimensional structures of topoisomerase I-DNA complexes []. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003917 DNA topoisomerase type I activity, 0006265 DNA topological change, 0005694 chromosome; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=26.47 E-value=28 Score=30.49 Aligned_cols=52 Identities=15% Similarity=0.113 Sum_probs=31.1
Q ss_pred chHHHHHHHHhhCCC-Chhh-----hhh---hhhhhhcccCCChhhhhhhhhhhhhhcccC
Q 023605 5 CSNEEVKRLRSENSD-LSVT-----LGL---RKHIGKTYKELPPEQKARYKKRDERMGNSG 56 (280)
Q Consensus 5 ~~~~~~~~~~~~~p~-~~~~-----~~~---~k~~g~~wk~l~~~~k~~~~~~~~~~k~~~ 56 (280)
|.+|||+.+.++++. ++.+ ..+ -..--++-|+||.|||+.--+.+++....|
T Consensus 64 Ff~Df~~~l~~~~~~~i~~~~kcDF~~i~~~~~~~~e~kk~~skeEK~~~K~~k~~~~~~y 124 (215)
T PF02919_consen 64 FFKDFRKVLTKEERKKIKDFDKCDFSPIYEYFEKEKEKKKNMSKEEKKALKEEKEELEEKY 124 (215)
T ss_dssp HHHHHHHHHCHCCHHH-S-GGGEETHHHHHHHHHHHHHHCTS-CCHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhhccCcccCchhhCCCHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhC
Confidence 788999999988853 2221 111 222335678999999886555555555554
No 44
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=25.43 E-value=67 Score=24.95 Aligned_cols=37 Identities=19% Similarity=0.292 Sum_probs=26.7
Q ss_pred HHHHHHHHhhCCCChhhhhhhhhhhhcccCCChhhhhhhhhh
Q 023605 7 NEEVKRLRSENSDLSVTLGLRKHIGKTYKELPPEQKARYKKR 48 (280)
Q Consensus 7 ~~~~~~~~~~~p~~~~~~~~~k~~g~~wk~l~~~~k~~~~~~ 48 (280)
.++|+.|+++.-.. .....-+++.+|||||.+.-++.
T Consensus 65 ~~Q~k~Ye~a~~~~-----~~~~lqkRle~l~~eE~~~L~~e 101 (104)
T PF11460_consen 65 MQQRKDYEEAVDQL-----TNEELQKRLEELSPEELEALQAE 101 (104)
T ss_pred HHHHHHHHHHHHHH-----hHHHHHHHHHhCCHHHHHHHHHH
Confidence 46788888765332 24467789999999999876654
No 45
>PF04189 Gcd10p: Gcd10p family; InterPro: IPR007316 eIF-3 is a multisubunit complex that stimulates translation initiation in vitro at several different steps. This family corresponds to the gamma subunit of eIF3 [, ].; GO: 0003743 translation initiation factor activity, 0006413 translational initiation
Probab=23.52 E-value=2e+02 Score=26.52 Aligned_cols=111 Identities=18% Similarity=0.178 Sum_probs=68.7
Q ss_pred HHHHHHHHhhCCCChhhhhhhhhh--hhcccCCChhhhhhhhhhhhhhcccCCCCCCCCCCCCccccccHHHHHHHHhhC
Q 023605 7 NEEVKRLRSENSDLSVTLGLRKHI--GKTYKELPPEQKARYKKRDERMGNSGNSNSHSGDNEIVETKCVPERFCALVKSL 84 (280)
Q Consensus 7 ~~~~~~~~~~~p~~~~~~~~~k~~--g~~wk~l~~~~k~~~~~~~~~~k~~~~~~k~~~k~~~~~~RcS~~~~~~~i~~L 84 (280)
.|...++|++ +.++-..+.|.+ ...|..=|+-.+++|++|+++...++- ...++++..+.+.+-.=
T Consensus 110 ~eeIe~LK~~--g~sg~eII~kLiens~tF~~KT~FSqeKYlkrK~kKy~~~f----------tv~~pt~~~l~e~y~~k 177 (299)
T PF04189_consen 110 QEEIEELKKE--GVSGEEIIEKLIENSSTFDKKTEFSQEKYLKRKQKKYLKRF----------TVLRPTIRNLCEYYFEK 177 (299)
T ss_pred HHHHHHHHHc--CCCHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhhhhceE----------EEeCCCHHHHHHHHhhc
Confidence 4566778887 566666666665 358888899999999999877654432 23577888888877544
Q ss_pred CHHHHHHHHHcCChhhhccccccc----------CHHHHHHHhcccCCCcceEEE
Q 023605 85 SEEKKKAIREIGFESLLELRCGKL----------KRKLCHWLVNQFKPERNIIEL 129 (280)
Q Consensus 85 s~~qk~~I~~~GFg~LL~i~~~~l----------~~~l~~wL~~~~d~~t~~~~i 129 (280)
+|.+.--+|.=-++-+|.+....- .-=++..+++|.......+.+
T Consensus 178 ~p~Ki~~lR~d~la~il~~aNV~~g~r~Lv~D~~~GLv~aav~eRmgg~G~i~~~ 232 (299)
T PF04189_consen 178 DPQKIMDLRFDTLAQILSLANVHAGGRVLVVDDCGGLVVAAVAERMGGSGNIITL 232 (299)
T ss_pred ChHHHhccCHHHHHHHHHhcCCCCCCeEEEEeCCCChHHHHHHHHhCCCceEEEE
Confidence 665554444444444555443211 123445666666665444444
No 46
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=23.24 E-value=36 Score=22.67 Aligned_cols=17 Identities=29% Similarity=0.532 Sum_probs=14.7
Q ss_pred hcccCC-Chhhhhhhhhh
Q 023605 32 KTYKEL-PPEQKARYKKR 48 (280)
Q Consensus 32 ~~wk~l-~~~~k~~~~~~ 48 (280)
-.|.+| +.++|+.|+++
T Consensus 40 ~eW~~l~~~~~k~~YL~~ 57 (58)
T PF08373_consen 40 YEWNKLKSREEKIEYLKK 57 (58)
T ss_pred HHHHhcCCHHHHHHHHhc
Confidence 389999 89999999875
No 47
>PF11943 DUF3460: Protein of unknown function (DUF3460); InterPro: IPR021853 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 70 amino acids in length. This protein has a conserved WDK sequence motif.
Probab=22.01 E-value=1.2e+02 Score=21.15 Aligned_cols=39 Identities=13% Similarity=0.263 Sum_probs=25.4
Q ss_pred HHHHHHHHhhCCCChhhhhhhhh-hhhcccCCChhhhhhhhh
Q 023605 7 NEEVKRLRSENSDLSVTLGLRKH-IGKTYKELPPEQKARYKK 47 (280)
Q Consensus 7 ~~~~~~~~~~~p~~~~~~~~~k~-~g~~wk~l~~~~k~~~~~ 47 (280)
-.|-.++|++||++..--..|++ .-+| -++.++.+.|.+
T Consensus 8 TqFl~~lk~~~Pele~~Q~~GRallWDk--~~d~e~~~~~~~ 47 (60)
T PF11943_consen 8 TQFLNQLKAKHPELEEEQRAGRALLWDK--PQDLEEQARFRA 47 (60)
T ss_pred HHHHHHHHHhCCchHHHHHHhhHHhcCC--CCCHHHHHHHHh
Confidence 35788999999998743333433 3444 677777776544
No 48
>cd07921 PCA_45_Doxase_A_like Subunit A of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and similar enzymes. This subfamily includes the A subunit of protocatechuate (PCA) 4,5-dioxygenase (LigAB) and two subfamilies of unknown function. The A subunit is the smaller, non-catalytic subunit of LigAB. PCA 4,5-dioxygenase catalyzes the oxidization and subsequent ring-opening of PCA (or 3,4-dihydroxybenzoic acid), which is an intermediate in the breakdown of lignin and other compounds. PCA 4,5-dioxygenase is one of the aromatic ring opening dioxygenases which play key roles in the degradation of aromatic compounds. As members of the Class III extradiol dioxygenase family, the enzymes use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. LigAB-like class III enzymes are usually composed of two subunits, designated A and B, which form a tetramer composed of two copies of each subunit.
Probab=21.69 E-value=56 Score=25.46 Aligned_cols=23 Identities=39% Similarity=0.525 Sum_probs=21.2
Q ss_pred hCCHHHHHHHHHcCChhhhcccc
Q 023605 83 SLSEEKKKAIREIGFESLLELRC 105 (280)
Q Consensus 83 ~Ls~~qk~~I~~~GFg~LL~i~~ 105 (280)
.||++|+++|.+-.+-+|+++.-
T Consensus 44 gLTeEe~~AV~~rD~~~Li~lGg 66 (106)
T cd07921 44 GLTEEQKQAVLDRDWLRLLELGG 66 (106)
T ss_pred CCCHHHHHHHHhCCHHHHHHhcC
Confidence 79999999999999999998864
No 49
>PRK10236 hypothetical protein; Provisional
Probab=21.30 E-value=54 Score=29.26 Aligned_cols=29 Identities=17% Similarity=0.274 Sum_probs=24.1
Q ss_pred hhhhhhhhhcccCCChhhhhhhhhhhhhh
Q 023605 24 LGLRKHIGKTYKELPPEQKARYKKRDERM 52 (280)
Q Consensus 24 ~~~~k~~g~~wk~l~~~~k~~~~~~~~~~ 52 (280)
.-+.|..++.|+-||++|++.+.++-...
T Consensus 116 ~il~kll~~a~~kms~eE~~~L~~~l~~~ 144 (237)
T PRK10236 116 QLLEQFLRNTWKKMDEEHKQEFLHAVDAR 144 (237)
T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHhhh
Confidence 34589999999999999999988775554
No 50
>PHA02662 ORF131 putative membrane protein; Provisional
Probab=21.03 E-value=89 Score=27.56 Aligned_cols=25 Identities=16% Similarity=0.361 Sum_probs=21.4
Q ss_pred ccccccH----------HHHHHHHhhCCHHHHHHH
Q 023605 68 VETKCVP----------ERFCALVKSLSEEKKKAI 92 (280)
Q Consensus 68 ~~~RcS~----------~~~~~~i~~Ls~~qk~~I 92 (280)
+.++||. +.+.++++.|+++||..|
T Consensus 64 V~N~C~sna~~sf~lll~Al~Et~~~Lp~~qK~~i 98 (226)
T PHA02662 64 VLNRCHTDAADALALASAALAETLAELPRADRLAV 98 (226)
T ss_pred EEecccCCHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence 5688876 678899999999999887
No 51
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=20.94 E-value=92 Score=31.50 Aligned_cols=62 Identities=13% Similarity=0.171 Sum_probs=34.8
Q ss_pred HHhhCCCChh-hhhh---hhhhhhcccCCChhhhhhhhhh-hh------hhcccCCCCC---CCCCCCCccccccH
Q 023605 13 LRSENSDLSV-TLGL---RKHIGKTYKELPPEQKARYKKR-DE------RMGNSGNSNS---HSGDNEIVETKCVP 74 (280)
Q Consensus 13 ~~~~~p~~~~-~~~~---~k~~g~~wk~l~~~~k~~~~~~-~~------~~k~~~~~~k---~~~k~~~~~~RcS~ 74 (280)
+..+||++.. .+.| .+.+=+.=.+||.||.+.-++. +- +.+++-.++. +.+-..++.+||-|
T Consensus 33 ~~~~~pelr~~~~ei~~~v~~~v~~vn~ms~ee~~~~l~~~~pe~~~~~~~~~~~~~~lp~L~~ae~g~V~tRFaP 108 (567)
T PRK04156 33 IMGENPELRSKAKEIIPIVKEVVEEVNSLSLEEQRERLEELAPELLEEEEEKKEEKKGLPPLPNAEKGKVVMRFAP 108 (567)
T ss_pred hhccChhhhhhhhhHHHHHHHHHHHHhcCCHHHHHHHHHHhChhhhhhhhhhcccccCCCCCCCCCCCeEEEEeCC
Confidence 4567888765 3333 3334447789999988765555 11 1111112222 23336678999966
No 52
>cd07922 CarBa CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. CarBa is the A subunit of 2-aminophenol 1,6-dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 2-aminophenyl-2,3-diol. 2-aminophenol 1,6-dioxygenase is a key enzyme in the carbazole degradation pathway isolated from bacterial strains with carbazole degradation ability. The enzyme is a heterotetramer composed of two A and two B subunits. CarB belongs to the class III extradiol dioxygenase family, composed of enzymes which use a non-heme Fe(II) to cleave aromatic rings between a hydroxylated carbon and an adjacent non-hydroxylated carbon. Although the enzyme was originally isolated as a meta-cleavage enzyme for 2'-aminobiphenyl-2,3-diol involved in carbazole degradation, the enzyme has also shown high specificity for 2,3-dihydroxybiphenyl.
Probab=20.69 E-value=1.1e+02 Score=22.60 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=33.9
Q ss_pred cHHHHHHHHhhCCHHHHHHHHHcCChhhhcccccccCHHHHHHHhcccCCCc
Q 023605 73 VPERFCALVKSLSEEKKKAIREIGFESLLELRCGKLKRKLCHWLVNQFKPER 124 (280)
Q Consensus 73 S~~~~~~~i~~Ls~~qk~~I~~~GFg~LL~i~~~~l~~~l~~wL~~~~d~~t 124 (280)
.|..+.+- -.||++++++|++-.+++|.+++ ++..|..+.+=-.||+-
T Consensus 26 DPea~~~~-~gLt~eE~~aL~~~D~~~L~~lG---vhp~L~mh~~~~~np~~ 73 (81)
T cd07922 26 DPSAVFEE-YGLTPAERAALREGTFGALTSIG---VHPILQMHYLMYTNPEM 73 (81)
T ss_pred CHHHHHHH-cCCCHHHHHHHHccCHHHHHHcC---CCHHHHHHHHHHcCccc
Confidence 34444332 27999999999999999999987 55566665554556654
No 53
>cd07923 Gallate_dioxygenase_C The C-terminal domain of Gallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of gallate. Gallate Dioxygenase catalyzes the oxidization and subsequent ring-opening of gallate, an intermediate in the degradation of the aromatic compound, syringate. The reaction product of gallate dioxygenase is 4-oxalomesaconate. The amino acid sequence of the N-terminal and C-terminal regions of gallate dioxygenase exhibits homology with the sequence of the PCA 4,5-dioxygenase B (catalytic) and A subunits, respectively. This model represents the C-terminal domain, which is similar to the A subunit of PCA 4,5-dioxygenase (or LigAB). The enzyme is estimated to be a homodimer according to the Escherichia coli enzyme. Since enzymes in this subfamily have fused A and B subunits, the dimer interface may resemble the tetramer interface of classical LigAB enzymes. This enzyme belongs to the class III extradiol dioxygenase family, composed of enzymes whi
Probab=20.14 E-value=59 Score=24.77 Aligned_cols=23 Identities=22% Similarity=0.429 Sum_probs=21.2
Q ss_pred hCCHHHHHHHHHcCChhhhcccc
Q 023605 83 SLSEEKKKAIREIGFESLLELRC 105 (280)
Q Consensus 83 ~Ls~~qk~~I~~~GFg~LL~i~~ 105 (280)
.||++|+++|++--+.+++++..
T Consensus 36 gLt~Ee~~av~~rD~~~li~~G~ 58 (94)
T cd07923 36 GLTEEERTLIRNRDWIGMIRYGV 58 (94)
T ss_pred CCCHHHHHHHHcchHHHHHHccC
Confidence 79999999999999999999875
Done!