Query 020237
Match_columns 329
No_of_seqs 133 out of 289
Neff 6.5
Searched_HMMs 46136
Date Fri Mar 29 08:07:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020237.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020237hhsearch_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 4.5E-33 9.8E-38 272.0 6.7 193 127-320 1-222 (363)
2 PF09331 DUF1985: Domain of un 98.9 1.3E-09 2.9E-14 93.7 5.4 124 156-279 14-142 (142)
3 PTZ00199 high mobility group p 98.7 1.3E-08 2.8E-13 81.6 4.1 68 26-93 17-85 (94)
4 PF00505 HMG_box: HMG (high mo 98.5 4.3E-08 9.3E-13 73.0 2.0 61 32-93 1-61 (69)
5 cd01390 HMGB-UBF_HMG-box HMGB- 98.5 7E-08 1.5E-12 71.1 3.0 61 32-93 1-61 (66)
6 PF09011 HMG_box_2: HMG-box do 98.4 1.6E-07 3.5E-12 71.5 1.9 65 29-93 1-65 (73)
7 cd01389 MATA_HMG-box MATA_HMG- 98.3 7.1E-07 1.5E-11 68.5 4.5 61 32-93 2-62 (77)
8 cd00084 HMG-box High Mobility 98.3 5.3E-07 1.1E-11 66.1 3.0 61 32-93 1-61 (66)
9 cd01388 SOX-TCF_HMG-box SOX-TC 98.3 5.8E-07 1.3E-11 68.2 3.1 61 32-93 2-62 (72)
10 smart00398 HMG high mobility g 98.2 1.2E-06 2.5E-11 65.0 3.3 62 31-93 1-62 (70)
11 KOG0381 HMG box-containing pro 98.1 3.7E-06 8E-11 66.9 3.7 64 29-93 20-83 (96)
12 COG5648 NHP6B Chromatin-associ 97.7 1.9E-05 4E-10 71.4 2.9 67 27-94 66-132 (211)
13 KOG0527 HMG-box transcription 97.1 0.00039 8.5E-09 67.6 3.3 66 29-95 60-125 (331)
14 KOG0526 Nucleosome-binding fac 94.6 0.02 4.3E-07 58.4 2.2 54 21-77 525-578 (615)
15 KOG3248 Transcription factor T 92.1 0.11 2.3E-06 50.5 2.6 55 33-88 193-247 (421)
16 KOG0528 HMG-box transcription 87.1 0.36 7.9E-06 48.9 2.0 62 32-97 326-390 (511)
17 PF03078 ATHILA: ATHILA ORF-1 83.5 9.4 0.0002 39.1 10.2 184 104-297 67-286 (458)
18 PF06382 DUF1074: Protein of u 83.0 0.95 2.1E-05 40.3 2.5 48 36-88 83-130 (183)
19 KOG4715 SWI/SNF-related matrix 70.1 3.8 8.1E-05 39.8 2.8 54 30-84 63-116 (410)
20 PF15119 APOC4: Apolipoprotein 69.7 2.6 5.6E-05 33.3 1.3 32 296-328 55-96 (99)
21 PF14887 HMG_box_5: HMG (high 53.4 8.2 0.00018 30.0 1.5 54 39-94 11-64 (85)
22 PF04690 YABBY: YABBY protein; 48.7 19 0.00041 32.0 3.3 45 30-75 120-164 (170)
23 PF11304 DUF3106: Protein of u 32.5 54 0.0012 26.7 3.3 16 67-82 34-49 (107)
24 PF12169 DNA_pol3_gamma3: DNA 25.0 36 0.00078 28.3 1.1 133 167-310 1-138 (143)
25 KOG2746 HMG-box transcription 24.5 41 0.00089 35.9 1.6 61 31-92 181-243 (683)
26 cd09071 FAR_C C-terminal domai 22.9 78 0.0017 24.2 2.6 21 261-282 70-90 (92)
27 PF03457 HA: Helicase associat 22.5 53 0.0012 23.9 1.4 16 113-128 52-67 (68)
No 1
>PF10536 PMD: Plant mobile domain; InterPro: IPR019557 This entry represents a domain found in a variety of transposases [].
Probab=99.97 E-value=4.5e-33 Score=271.96 Aligned_cols=193 Identities=18% Similarity=0.269 Sum_probs=164.5
Q ss_pred Ccccccccc--ccccchHHHHHHHhccccccceEEECCeEeeeCccchhhhhcccCCCccccccCChhHHHhHhhhcC--
Q 020237 127 GFGSLLQLN--CGRLKRNLCGWLVEKIDIARCILQLNGVEVELSPKSFSYVMGISDGGKPLQLEGESSEVCAYVDNFT-- 202 (329)
Q Consensus 127 GFggLL~i~--~~~l~~~L~~wL~er~d~~t~~~~l~g~~i~iT~~dV~~VLGLP~gG~~v~~~~~~~~~~~l~~~~g-- 202 (329)
|||+|+.|. ..++++.|+.+|+++|+++|+||+++++|++||++||.+++|||+.|.+|......+ ..++.+.+.
T Consensus 1 ~~g~~~~i~~s~~~~~~~li~al~erW~~et~tF~~~~gEmtiTL~DV~~llGLpi~G~pv~~~~~~~-~~~~~~~ll~~ 79 (363)
T PF10536_consen 1 GFGILDAIMASRITIDRSLISALVERWDPETNTFHFPWGEMTITLEDVAMLLGLPIDGRPVTGPLPPD-WRDLCEELLGV 79 (363)
T ss_pred CchhHhhhhhhcCCCCHHHHHHHHHHhCcccCeeecccccccchhhhhhhccccccccccccCccccc-hhhHHHHHhcc
Confidence 899999999 899999999999999999999999999999999999999999999999998654433 223332222
Q ss_pred ------CCCCCccHHHHHHHHhhccCC-ChhHHHHHHHHHhhhhccCCCCC-cccccccccccccCCCCCccchHHHHHH
Q 020237 203 ------PTSRGINITVLAGILQKLKSA-DDQFKVTFMMFALCTILCPPGGV-HISSGFLFSLKDVESIPKRNWATFCFHR 274 (329)
Q Consensus 203 ------~~~~~isi~~L~e~l~~~~~~-~d~f~R~FiL~~~~~~L~Ptts~-~Vs~~yl~~l~D~d~I~~yNW~~~Vld~ 274 (329)
..+..+.+++|++.+.+.+++ ++.+.|||+++++|++|||+++. +|+..|++++.|++.+++||||++||++
T Consensus 80 ~~~~~~~~~~~~~~~wl~~~~~~~~~~d~~~~~rAFll~~lg~~lfp~~~~~~v~~~~l~~~~~l~~~~~~~wg~a~La~ 159 (363)
T PF10536_consen 80 SPQIKSKKGSSIRLSWLEEFFSNRPEDDEEQYHRAFLLYWLGSFLFPDKSGDYVSPRYLPLAVDLARIKRYAWGSAVLAY 159 (363)
T ss_pred cccccccccccchhhheeccccccccchHHHHHHHHHHHhhhceeccCCCcceeeeeEEeeeeccccccccccHHHHHHH
Confidence 123456788898888665544 24899999999999999999988 8999999999999999999999999999
Q ss_pred HHHHHHhhhccC--cceeeccHHHHHHHHHhhCCCCC---------------cchhhhhhchh
Q 020237 275 LIQGITRHKEEQ--VAYVGGCLLYLQCSFACRCCTST---------------LLYTESWRGIG 320 (329)
Q Consensus 275 L~~~i~k~~~~k--~~~I~GCl~lLqi~Yld~l~~~~---------------~~~~~~~~~~~ 320 (329)
|++++.++..+. ..+++||+.|||+|+++|++..- +|+.-.|.+.+
T Consensus 160 ly~~L~~~~~~~~~~~~~~g~~~llq~W~werf~~~rP~~~~~~~~~~~~~~~P~~~rW~~~~ 222 (363)
T PF10536_consen 160 LYRDLCKASRKSASQSNIGGPLWLLQLWAWERFPVGRPKLITAQKPNPIPDRPPRAARWCDRK 222 (363)
T ss_pred HHHHHHHHhhhcccccccccceeeeccchhheeecccccccccccccccccCCCeeeeeeccc
Confidence 999999888776 78999999999999999999443 45666777743
No 2
>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=98.92 E-value=1.3e-09 Score=93.66 Aligned_cols=124 Identities=17% Similarity=0.312 Sum_probs=92.1
Q ss_pred ceEEECCeEeeeCccchhhhhcccCCCccccccCChhHH---HhHhhhcCCCCCCccHHHHHHHHhhc-cCCChhHHHHH
Q 020237 156 CILQLNGVEVELSPKSFSYVMGISDGGKPLQLEGESSEV---CAYVDNFTPTSRGINITVLAGILQKL-KSADDQFKVTF 231 (329)
Q Consensus 156 ~~~~l~g~~i~iT~~dV~~VLGLP~gG~~v~~~~~~~~~---~~l~~~~g~~~~~isi~~L~e~l~~~-~~~~d~f~R~F 231 (329)
.-+.++|..|.++..+.+.|+|||++..|-......... ..+.+.+-..+..+++..+.++|+.. ..+.++-.|.-
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 568899999999999999999999998877654322111 13333332346789999999999885 23444444444
Q ss_pred HHHHhhhhc-cCCCCCcccccccccccccCCCCCccchHHHHHHHHHHH
Q 020237 232 MMFALCTIL-CPPGGVHISSGFLFSLKDVESIPKRNWATFCFHRLIQGI 279 (329)
Q Consensus 232 iL~~~~~~L-~Ptts~~Vs~~yl~~l~D~d~I~~yNW~~~Vld~L~~~i 279 (329)
+|+++..+| +++....|+..++..++|++...+|-||.+.++.++++|
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 455555445 444556899999999999999999999999999999864
No 3
>PTZ00199 high mobility group protein; Provisional
Probab=98.71 E-value=1.3e-08 Score=81.60 Aligned_cols=68 Identities=18% Similarity=0.262 Sum_probs=61.0
Q ss_pred CCCCCCCcccccchhhhhHHHHHHHHhhCCCcc-ccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 26 SNDGGRKRQCRNGFIRYFGEVVRQIKANDGMAC-ITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
..|+|.|+|++++|+.|+.+.+.++++.+|+.. .+.++.+.+|+.|++||++||.+|...|...-..|
T Consensus 17 ~kdp~~PKrP~sAY~~F~~~~R~~i~~~~P~~~~~~~evsk~ige~Wk~ls~eeK~~y~~~A~~dk~rY 85 (94)
T PTZ00199 17 KKDPNAPKRALSAYMFFAKEKRAEIIAENPELAKDVAAVGKMVGEAWNKLSEEEKAPYEKKAQEDKVRY 85 (94)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHHHHHHHCcCCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 568899999999999999999999999999875 47899999999999999999999999888754444
No 4
>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=98.51 E-value=4.3e-08 Score=73.04 Aligned_cols=61 Identities=30% Similarity=0.399 Sum_probs=54.3
Q ss_pred CcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
|+||+|+|+.|+++...++++.+|... ..++.+.+|..|++||++||.++...|......|
T Consensus 1 PkrP~~af~lf~~~~~~~~k~~~p~~~-~~~i~~~~~~~W~~l~~~eK~~y~~~a~~~~~~y 61 (69)
T PF00505_consen 1 PKRPPNAFMLFCKEKRAKLKEENPDLS-NKEISKILAQMWKNLSEEEKAPYKEEAEEEKERY 61 (69)
T ss_dssp SSSS--HHHHHHHHHHHHHHHHSTTST-HHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCHHHHHHHHHHHHHHHHhcccc-cccchhhHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 689999999999999999999999877 8999999999999999999999999988866555
No 5
>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=98.51 E-value=7e-08 Score=71.15 Aligned_cols=61 Identities=20% Similarity=0.325 Sum_probs=55.6
Q ss_pred CcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
|++|+++|+.|+.+++..+++.+|+ ....++.+.+|..|++||++||.++...|...-..|
T Consensus 1 Pkrp~saf~~f~~~~r~~~~~~~p~-~~~~~i~~~~~~~W~~ls~~eK~~y~~~a~~~~~~y 61 (66)
T cd01390 1 PKRPLSAYFLFSQEQRPKLKKENPD-ASVTEVTKILGEKWKELSEEEKKKYEEKAEKDKERY 61 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999998 568899999999999999999999999888765555
No 6
>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=98.37 E-value=1.6e-07 Score=71.47 Aligned_cols=65 Identities=23% Similarity=0.352 Sum_probs=52.9
Q ss_pred CCCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 29 GGRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
|+++++++++|+.|+.+.+.++++.-.......++.++++..|++||++||.+|...|+..-.+|
T Consensus 1 p~kpK~~~say~lF~~~~~~~~k~~G~~~~~~~e~~k~~~~~Wk~Ls~~EK~~Y~~~A~~~k~~y 65 (73)
T PF09011_consen 1 PKKPKRPPSAYNLFMKEMRKEVKEEGGQKQSFREVMKEISERWKSLSEEEKEPYEERAKEDKERY 65 (73)
T ss_dssp SSS--SSSSHHHHHHHHHHHHHHHHT-T-SSHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHH
T ss_pred CcCCCCCCCHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHH
Confidence 67899999999999999999999983335567799999999999999999999999998755444
No 7
>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=98.32 E-value=7.1e-07 Score=68.54 Aligned_cols=61 Identities=28% Similarity=0.366 Sum_probs=54.6
Q ss_pred CcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
.+||+|+||.|..+.+.++++.+|.. ...++.+.+|..|++||++||..|...|...-..|
T Consensus 2 ~kRP~naf~lf~~~~r~~~~~~~p~~-~~~eisk~~g~~Wk~ls~eeK~~y~~~A~~~k~~~ 62 (77)
T cd01389 2 IPRPRNAFILYRQDKHAQLKTENPGL-TNNEISRIIGRMWRSESPEVKAYYKELAEEEKERH 62 (77)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999999999975 67899999999999999999999988887744444
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=98.29 E-value=5.3e-07 Score=66.06 Aligned_cols=61 Identities=23% Similarity=0.323 Sum_probs=54.8
Q ss_pred CcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
+++|+|+|+.|+.+++..+++.+|. ....++.+.+|..|++||+++|..+...|...-.+|
T Consensus 1 pkrp~~af~~f~~~~~~~~~~~~~~-~~~~~i~~~~~~~W~~l~~~~k~~y~~~a~~~~~~y 61 (66)
T cd00084 1 PKRPLSAYFLFSQEHRAEVKAENPG-LSVGEISKILGEMWKSLSEEEKKKYEEKAEKDKERY 61 (66)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCcC-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 5899999999999999999999987 457789999999999999999999999988865555
No 9
>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=98.28 E-value=5.8e-07 Score=68.19 Aligned_cols=61 Identities=25% Similarity=0.344 Sum_probs=54.2
Q ss_pred CcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
-|||+|+||.|+.+.++++++.+|.. .+.++.|.+|..|++||++||.++...|...-.+|
T Consensus 2 iKrP~naf~~F~~~~r~~~~~~~p~~-~~~eisk~l~~~Wk~ls~~eK~~y~~~a~~~k~~y 62 (72)
T cd01388 2 IKRPMNAFMLFSKRHRRKVLQEYPLK-ENRAISKILGDRWKALSNEEKQPYYEEAKKLKELH 62 (72)
T ss_pred CCCCCcHHHHHHHHHHHHHHHHCCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 37899999999999999999999974 78899999999999999999999998887744443
No 10
>smart00398 HMG high mobility group.
Probab=98.20 E-value=1.2e-06 Score=64.96 Aligned_cols=62 Identities=27% Similarity=0.388 Sum_probs=54.8
Q ss_pred CCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 31 RKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
.++++.++|+.|+.+++..+++.+|+.. ..++.+.+|..|++||+++|..+...|...-..|
T Consensus 1 ~pkrp~~~y~~f~~~~r~~~~~~~~~~~-~~~i~~~~~~~W~~l~~~ek~~y~~~a~~~~~~y 62 (70)
T smart00398 1 KPKRPMSAFMLFSQENRAKIKAENPDLS-NAEISKKLGERWKLLSEEEKAPYEEKAKKDKERY 62 (70)
T ss_pred CcCCCCcHHHHHHHHHHHHHHHHCcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence 3789999999999999999999998754 7899999999999999999999998887754444
No 11
>KOG0381 consensus HMG box-containing protein [General function prediction only]
Probab=98.05 E-value=3.7e-06 Score=66.87 Aligned_cols=64 Identities=25% Similarity=0.353 Sum_probs=56.5
Q ss_pred CCCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccc
Q 020237 29 GGRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSK 93 (329)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~ 93 (329)
.+++++++++|+.|+.++...++..+|. .-+.++.|++|+.|++|+.++|.++..++...-..|
T Consensus 20 ~~~pkrp~sa~~~f~~~~~~~~k~~~p~-~~~~~v~k~~g~~W~~l~~~~k~~y~~ka~~~k~~Y 83 (96)
T KOG0381|consen 20 AQAPKRPLSAFFLFSSEQRSKIKAENPG-LSVGEVAKALGEMWKNLAEEEKQPYEEKASKLKEKY 83 (96)
T ss_pred CCCCCCCCcHHHHHHHHHHHHHHHhCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHH
Confidence 3689999999999999999999999999 778899999999999999999998877766644444
No 12
>COG5648 NHP6B Chromatin-associated proteins containing the HMG domain [Chromatin structure and dynamics]
Probab=97.74 E-value=1.9e-05 Score=71.41 Aligned_cols=67 Identities=21% Similarity=0.239 Sum_probs=61.9
Q ss_pred CCCCCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhcccccc
Q 020237 27 NDGGRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSKI 94 (329)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~~ 94 (329)
.|||+|+|+-++|+-|..+.+.++...+|.. -..+++|.+|++|++|+.+||.++-+.+...+..|-
T Consensus 66 ~dpN~PKRp~sayf~y~~~~R~ei~~~~p~l-~~~e~~k~~~e~WK~Ltd~eke~y~k~~~~~~erYq 132 (211)
T COG5648 66 KDPNGPKRPLSAYFLYSAENRDEIRKENPKL-TFGEVGKLLSEKWKELTDEEKEPYYKEANSDRERYQ 132 (211)
T ss_pred cCCCCCCCchhHHHHHHHHHHHHHHHhCCCC-ChHHHHHHHHHHHHhccHhhhhhHHHHHhhHHHHHH
Confidence 5799999999999999999999999999988 678999999999999999999999999888777773
No 13
>KOG0527 consensus HMG-box transcription factor [Transcription]
Probab=97.07 E-value=0.00039 Score=67.63 Aligned_cols=66 Identities=24% Similarity=0.354 Sum_probs=58.9
Q ss_pred CCCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccccC
Q 020237 29 GGRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSKIG 95 (329)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~~~ 95 (329)
.++=||+-|+|+.+..+.+++|-+.+|.. -|-++-|.||..||.|+++||.+|...|++.-..+.+
T Consensus 60 ~~hIKRPMNAFMVWSq~~RRkma~qnP~m-HNSEISK~LG~~WK~Lse~EKrPFi~EAeRLR~~Hmk 125 (331)
T KOG0527|consen 60 TDRIKRPMNAFMVWSQGQRRKLAKQNPKM-HNSEISKRLGAEWKLLSEEEKRPFVDEAERLRAQHMK 125 (331)
T ss_pred ccccCCCcchhhhhhHHHHHHHHHhCcch-hhHHHHHHHHHHHhhcCHhhhccHHHHHHHHHHHHHH
Confidence 34679999999999999999999999966 5679999999999999999999999999986666654
No 14
>KOG0526 consensus Nucleosome-binding factor SPN, POB3 subunit [Transcription; Replication, recombination and repair; Chromatin structure and dynamics]
Probab=94.56 E-value=0.02 Score=58.43 Aligned_cols=54 Identities=11% Similarity=0.291 Sum_probs=48.4
Q ss_pred eeccCCCCCCCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChh
Q 020237 21 VGVDASNDGGRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPE 77 (329)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ 77 (329)
.+.--.-|||.|||+-++|+-++++-+..||+. ...+.++.|.+|.+|+.||.+
T Consensus 525 k~~kk~kdpnapkra~sa~m~w~~~~r~~ik~d---gi~~~dv~kk~g~~wk~ms~k 578 (615)
T KOG0526|consen 525 KKGKKKKDPNAPKRATSAYMLWLNASRESIKED---GISVGDVAKKAGEKWKQMSAK 578 (615)
T ss_pred cCcccCCCCCCCccchhHHHHHHHhhhhhHhhc---CchHHHHHHHHhHHHhhhccc
Confidence 555567799999999999999999999999995 677789999999999999994
No 15
>KOG3248 consensus Transcription factor TCF-4 [Transcription]
Probab=92.09 E-value=0.11 Score=50.48 Aligned_cols=55 Identities=22% Similarity=0.368 Sum_probs=44.2
Q ss_pred cccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhh
Q 020237 33 RQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKR 88 (329)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~ 88 (329)
|.+.|+|.-|+.|-++..-+.-. .+-..+++|.+|.+|++||.||-++|-.-|++
T Consensus 193 KKPLNAFmlyMKEmRa~vvaEct-lKeSAaiNqiLGrRWH~LSrEEQAKYyElArK 247 (421)
T KOG3248|consen 193 KKPLNAFMLYMKEMRAKVVAECT-LKESAAINQILGRRWHALSREEQAKYYELARK 247 (421)
T ss_pred cccHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHhHHHhhhhHHHHHHHHHHHHH
Confidence 45678998888888777777444 45556999999999999999999988777766
No 16
>KOG0528 consensus HMG-box transcription factor SOX5 [Transcription]
Probab=87.08 E-value=0.36 Score=48.93 Aligned_cols=62 Identities=26% Similarity=0.303 Sum_probs=53.7
Q ss_pred CcccccchhhhhHHHHHHHHhhCC---CccccHHHHHHhcCCCCCCChhhhhhhhhhhhhccccccCCC
Q 020237 32 KRQCRNGFIRYFGEVVRQIKANDG---MACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSKIGKA 97 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~~~k~ 97 (329)
-|||-|+|..+-+|=++.|-.+.| +++| -|-+|++||+||..||.+|-......|+.+..+-
T Consensus 326 IKRPMNAFMVWAkDERRKILqA~PDMHNSnI----SKILGSRWKaMSN~eKQPYYEEQaRLSk~HlEk~ 390 (511)
T KOG0528|consen 326 IKRPMNAFMVWAKDERRKILQAFPDMHNSNI----SKILGSRWKAMSNTEKQPYYEEQARLSKLHLEKY 390 (511)
T ss_pred ccCCcchhhcccchhhhhhhhcCccccccch----hHHhcccccccccccccchHHHHHHHHHhhhccC
Confidence 478999999999999999999988 4444 5789999999999999999999999898887754
No 17
>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=83.49 E-value=9.4 Score=39.06 Aligned_cols=184 Identities=15% Similarity=0.190 Sum_probs=105.5
Q ss_pred CHHHHHHHHHhCCHHHHHHHHHcCccccccccccccchHHHHHHHhc----c---cc--------ccceEEECCeEeeeC
Q 020237 104 APDRLAAAVLQLTDEQRVVVREMGFGSLLQLNCGRLKRNLCGWLVEK----I---DI--------ARCILQLNGVEVELS 168 (329)
Q Consensus 104 Sp~~~~~~i~~Ls~~qk~~I~~~GFggLL~i~~~~l~~~L~~wL~er----~---d~--------~t~~~~l~g~~i~iT 168 (329)
++..+..+ .|.++-..+++.+|.+.|..++...-+...+.+|+.- + ++ ..-+|.|.+.+..+|
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 44555555 7788888999999999999888866554444444321 1 11 234677889999999
Q ss_pred ccchhhhhcccCCCccccccCChhHHHhHhhhcCCCCCCccHHHHHHHHhhccCCChhHHHHHHHHHhhhhccCCCC-Cc
Q 020237 169 PKSFSYVMGISDGGKPLQLEGESSEVCAYVDNFTPTSRGINITVLAGILQKLKSADDQFKVTFMMFALCTILCPPGG-VH 247 (329)
Q Consensus 169 ~~dV~~VLGLP~gG~~v~~~~~~~~~~~l~~~~g~~~~~isi~~L~e~l~~~~~~~d~f~R~FiL~~~~~~L~Ptts-~~ 247 (329)
-.+...++|.|.+.. +.......+...|....|.+ ..++...-... ..-+-+.+|+-=+++..|||... ..
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-IKPDFDPEELNDFWATIGGG-KPFNSARSKSN------QIRSPVIRYFHRLIANTLFAREETGT 216 (458)
T ss_pred HHHHHHHhCCCCccc-cCCCCCchHHHHHHHHhcCC-Ccccccccccc------cccChHHHHHHHHHHhhhccccccCc
Confidence 999999999999854 33333445555666666642 11121111111 11222444455556666666654 36
Q ss_pred ccccccccc-----------ccc----CCCCCccchHHHHHHHHHHHHhhhcc--C---cceeeccHHHH
Q 020237 248 ISSGFLFSL-----------KDV----ESIPKRNWATFCFHRLIQGITRHKEE--Q---VAYVGGCLLYL 297 (329)
Q Consensus 248 Vs~~yl~~l-----------~D~----d~I~~yNW~~~Vld~L~~~i~k~~~~--k---~~~I~GCl~lL 297 (329)
|..+-|.++ .|. .+..+.+-+...++||+..=...... + .-.+||=+.-+
T Consensus 217 v~~~El~~l~~~L~~~Lr~~~~g~~l~~d~~dt~~~~vl~~hL~~yk~wa~~~~~~~~~~l~vGgviTpI 286 (458)
T PF03078_consen 217 VRNDELEMLDQALKHLLRRTKDGKLLRGDLNDTNVSMVLLDHLCSYKGWAKTNKKKARGSLCVGGVITPI 286 (458)
T ss_pred eechhHHHHHHHHHHHHHhcCCCccccCcccccchhHHHHHHHHhhhHHHhhcCCCCCceeeecchhhhH
Confidence 665554331 121 12356677777777777552211111 2 34677755443
No 18
>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=83.00 E-value=0.95 Score=40.34 Aligned_cols=48 Identities=17% Similarity=0.372 Sum_probs=35.6
Q ss_pred ccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhh
Q 020237 36 RNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKR 88 (329)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~ 88 (329)
.++||.| +++|+++|.+ ....|+-+.+...|..||+.+|..|.+.+-.
T Consensus 83 nnaYLNF----LReFRrkh~~-L~p~dlI~~AAraW~rLSe~eK~rYrr~~~~ 130 (183)
T PF06382_consen 83 NNAYLNF----LREFRRKHCG-LSPQDLIQRAARAWCRLSEAEKNRYRRMAPS 130 (183)
T ss_pred chHHHHH----HHHHHHHccC-CCHHHHHHHHHHHHHhCCHHHHHHHHhhcch
Confidence 3567666 5556666654 5567788888899999999999999775443
No 19
>KOG4715 consensus SWI/SNF-related matrix-associated actin-dependent regulator of chromatin [Chromatin structure and dynamics]
Probab=70.07 E-value=3.8 Score=39.77 Aligned_cols=54 Identities=31% Similarity=0.359 Sum_probs=46.2
Q ss_pred CCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhh
Q 020237 30 GRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKS 84 (329)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~ 84 (329)
+-+.++.-++.+|+.-.-.+.|++||+++ +=+++|.+|.-|.-|+.+||..|.-
T Consensus 63 kppekpl~pymrySrkvWd~VkA~nPe~k-LWeiGK~Ig~mW~dLpd~EK~ey~~ 116 (410)
T KOG4715|consen 63 KPPEKPLMPYMRYSRKVWDQVKASNPELK-LWEIGKIIGGMWLDLPDEEKQEYLN 116 (410)
T ss_pred CCCCcccchhhHHhhhhhhhhhccCcchH-HHHHHHHHHHHHhhCcchHHHHHHH
Confidence 34567778899999999999999999876 4589999999999999999986643
No 20
>PF15119 APOC4: Apolipoprotein C4
Probab=69.72 E-value=2.6 Score=33.33 Aligned_cols=32 Identities=28% Similarity=0.594 Sum_probs=26.2
Q ss_pred HHHHHHHhhCCCCCcchhhhh----------hchhhHHHhhcC
Q 020237 296 YLQCSFACRCCTSTLLYTESW----------RGIGQCVRLLCG 328 (329)
Q Consensus 296 lLqi~Yld~l~~~~~~~~~~~----------~~~~~~~~~~~~ 328 (329)
|+|.||-||+--.. |+|+.| |.-.-|-|||||
T Consensus 55 FmQTYYdDHLkDLg-prt~aWl~sSkd~llnk~~sLCPrllC~ 96 (99)
T PF15119_consen 55 FMQTYYDDHLKDLG-PRTQAWLRSSKDSLLNKTHSLCPRLLCG 96 (99)
T ss_pred HHHHHHHHHHhhcC-HHHHHHHHHhHHHHHHHHHhhCchhhcc
Confidence 69999999986443 688888 556789999998
No 21
>PF14887 HMG_box_5: HMG (high mobility group) box 5; PDB: 1L8Y_A 1L8Z_A 2HDZ_A.
Probab=53.36 E-value=8.2 Score=29.97 Aligned_cols=54 Identities=13% Similarity=0.049 Sum_probs=42.1
Q ss_pred hhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhcccccc
Q 020237 39 FIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKSKI 94 (329)
Q Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~~~ 94 (329)
-=.+++..+.-|-+.+++... ++-+++..+|++|+.+||..--++|.+.-+.|.
T Consensus 11 qe~Wqq~vi~dYla~~~~dr~--K~~kam~~~W~~me~Kekl~WIkKA~EdqKrYE 64 (85)
T PF14887_consen 11 QEIWQQSVIGDYLAKFRNDRK--KALKAMEAQWSQMEKKEKLKWIKKAAEDQKRYE 64 (85)
T ss_dssp HHHHHHHHHHHHHHHTTSTHH--HHHHHHHHHHHTTGGGHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhHhHH--HHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence 334568888888888887653 346688999999999999988888887666664
No 22
>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=48.75 E-value=19 Score=32.04 Aligned_cols=45 Identities=18% Similarity=0.396 Sum_probs=35.7
Q ss_pred CCCcccccchhhhhHHHHHHHHhhCCCccccHHHHHHhcCCCCCCC
Q 020237 30 GRKRQCRNGFIRYFGEVVRQIKANDGMACITKEIRKEIGSTYKNLP 75 (329)
Q Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~sls 75 (329)
.+..|.|++|=+|+.|-|..||+.+|+-. =||+-+++.+-|+..+
T Consensus 120 EKRqR~psaYn~f~k~ei~rik~~~p~is-hkeaFs~aAknW~h~p 164 (170)
T PF04690_consen 120 EKRQRVPSAYNRFMKEEIQRIKAENPDIS-HKEAFSAAAKNWAHFP 164 (170)
T ss_pred cccCCCchhHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHhhhhCc
Confidence 34568899999999999999999998643 4677777777777654
No 23
>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=32.54 E-value=54 Score=26.74 Aligned_cols=16 Identities=25% Similarity=0.600 Sum_probs=7.9
Q ss_pred hcCCCCCCChhhhhhh
Q 020237 67 IGSTYKNLPPEEKCRY 82 (329)
Q Consensus 67 ~~~~~~sls~~ek~~~ 82 (329)
+...|.+|||+++..+
T Consensus 34 ~a~r~~~mspeqq~r~ 49 (107)
T PF11304_consen 34 IAERWPSMSPEQQQRL 49 (107)
T ss_pred HHHHHhcCCHHHHHHH
Confidence 3455555555555443
No 24
>PF12169 DNA_pol3_gamma3: DNA polymerase III subunits gamma and tau domain III; InterPro: IPR022754 This domain is found in bacteria and eukaryotes, and is approximately 110 amino acids in length. It is found in association with PF00004 from PFAM. This domain is also present in the tau subunit before it undergoes cleavage. Domains I-III are shared between the tau and the gamma subunits, while most of the DnaB-binding Domain IV and all of the alpha-interacting Domain V are unique to tau. ; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G.
Probab=25.04 E-value=36 Score=28.28 Aligned_cols=133 Identities=11% Similarity=0.094 Sum_probs=57.6
Q ss_pred eCccchhhhhcccCCCccccccCChhHHHhHhhhcCCCCCCccHHHHHHHHhhccCCChhHHHHHHHHHhhhhccCCCC-
Q 020237 167 LSPKSFSYVMGISDGGKPLQLEGESSEVCAYVDNFTPTSRGINITVLAGILQKLKSADDQFKVTFMMFALCTILCPPGG- 245 (329)
Q Consensus 167 iT~~dV~~VLGLP~gG~~v~~~~~~~~~~~l~~~~g~~~~~isi~~L~e~l~~~~~~~d~f~R~FiL~~~~~~L~Ptts- 245 (329)
||.++|..+||+...+.-.. +.+..-..+..-.+..+.+.+.. .-+-..|.+-++-|+=..+++..+.
T Consensus 1 It~e~V~~~lG~v~~~~i~~----------l~~ai~~~d~~~~l~~~~~l~~~-G~d~~~~l~~L~~~~R~ll~~k~~~~ 69 (143)
T PF12169_consen 1 ITAEDVREILGLVDEEQIFE----------LLDAILEGDAAEALELLNELLEQ-GKDPKQFLDDLIEYLRDLLLYKITGD 69 (143)
T ss_dssp B-HHHHHHHHTHTSTHHHHH----------HHHHHHTT-HHHHHHHHHHHHHC-T--HHHHHHHHHHHHHHHHHHTTSGG
T ss_pred CCHHHHHHHHCCCCHHHHHH----------HHHHHHcCCHHHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHHHHHHhCCc
Confidence 68899999999976554322 22221111110112222222222 2223344444444433333333322
Q ss_pred ----CcccccccccccccCCCCCccchHHHHHHHHHHHHhhhccCcceeeccHHHHHHHHHhhCCCCCc
Q 020237 246 ----VHISSGFLFSLKDVESIPKRNWATFCFHRLIQGITRHKEEQVAYVGGCLLYLQCSFACRCCTSTL 310 (329)
Q Consensus 246 ----~~Vs~~yl~~l~D~d~I~~yNW~~~Vld~L~~~i~k~~~~k~~~I~GCl~lLqi~Yld~l~~~~~ 310 (329)
..++..+...+.+...--..+=-...++.|.++..+.+....+.+.=-+.++.+.++.++++.+-
T Consensus 70 ~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~l~~~~~~lr~s~~pr~~lE~~llrl~~~~~~~~~~~ 138 (143)
T PF12169_consen 70 KSNLLELSEEEEEKLKELAKKFSPERLQRILQILLEAENELRYSSNPRILLEMALLRLCQLKSLPSPDE 138 (143)
T ss_dssp GS-SG--CTTTHHHHHHHHHHS-HHHHHHHHHHHHHHHHHTTTSSSHHHHHHHHHHHHHHTC-------
T ss_pred hhhcccCCHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccCCChHHHHHHHHHHHHHHhhcccccc
Confidence 23455555555443322233333344555666666655554556666777888888877766543
No 25
>KOG2746 consensus HMG-box transcription factor Capicua and related proteins [Transcription]
Probab=24.47 E-value=41 Score=35.89 Aligned_cols=61 Identities=21% Similarity=0.239 Sum_probs=40.3
Q ss_pred CCcccccchhhhhHHHH--HHHHhhCCCccccHHHHHHhcCCCCCCChhhhhhhhhhhhhcccc
Q 020237 31 RKRQCRNGFIRYFGEVV--RQIKANDGMACITKEIRKEIGSTYKNLPPEEKCRYKSEAKRVGKS 92 (329)
Q Consensus 31 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~k~~~~~~~sls~~ek~~~~~~~~~~~~~ 92 (329)
.-+|+-++|..|...-+ .--.+. +.+.-+..+.|.+|+.|+.|.+.||.+|-+-|.++..-
T Consensus 181 HirrPMnaf~ifskrhr~~g~vhq~-~pn~DNrtIskiLgewWytL~~~Ekq~yhdLa~Qvk~A 243 (683)
T KOG2746|consen 181 HIRRPMNAFHIFSKRHRGEGRVHQR-HPNQDNRTISKILGEWWYTLGPNEKQKYHDLAFQVKEA 243 (683)
T ss_pred hhhhhhHHHHHHHhhcCCccchhcc-CccccchhHHHHHhhhHhhhCchhhhhHHHHHHHHHHH
Confidence 45677777755533322 111122 24566789999999999999999999887666654433
No 26
>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=22.86 E-value=78 Score=24.23 Aligned_cols=21 Identities=19% Similarity=0.488 Sum_probs=18.0
Q ss_pred CCCCccchHHHHHHHHHHHHhh
Q 020237 261 SIPKRNWATFCFHRLIQGITRH 282 (329)
Q Consensus 261 ~I~~yNW~~~Vld~L~~~i~k~ 282 (329)
++.++||..++.++ +.|+++|
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 8888875
No 27
>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=22.46 E-value=53 Score=23.89 Aligned_cols=16 Identities=31% Similarity=0.409 Sum_probs=11.3
Q ss_pred HhCCHHHHHHHHHcCc
Q 020237 113 LQLTDEQRVVVREMGF 128 (329)
Q Consensus 113 ~~Ls~~qk~~I~~~GF 128 (329)
..|+++|.+.++++||
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 4599999999999998
Done!