Query 020455
Match_columns 326
No_of_seqs 208 out of 854
Neff 4.0
Searched_HMMs 46136
Date Fri Mar 29 02:30:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020455.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020455hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00083 HLH Helix-loop-helix d 99.4 3.6E-13 7.9E-18 97.9 4.6 54 191-244 5-60 (60)
2 smart00353 HLH helix loop heli 99.3 2.2E-12 4.8E-17 92.3 5.9 49 195-244 1-52 (53)
3 PF00010 HLH: Helix-loop-helix 99.3 2.5E-12 5.3E-17 93.6 5.3 48 193-240 4-55 (55)
4 KOG1318 Helix loop helix trans 99.2 1.4E-11 3E-16 122.9 5.9 60 182-241 225-287 (411)
5 KOG1319 bHLHZip transcription 99.0 2E-10 4.3E-15 105.1 3.7 65 193-257 65-135 (229)
6 KOG4304 Transcriptional repres 98.4 1.7E-07 3.6E-12 88.7 3.4 52 191-243 33-92 (250)
7 KOG2588 Predicted DNA-binding 98.4 1.1E-06 2.4E-11 95.0 10.0 63 188-250 274-336 (953)
8 KOG3561 Aryl-hydrocarbon recep 98.2 1.2E-06 2.5E-11 94.1 5.0 52 191-242 21-75 (803)
9 KOG3960 Myogenic helix-loop-he 97.7 0.00015 3.2E-09 69.5 8.9 58 194-251 122-180 (284)
10 KOG2483 Upstream transcription 97.6 8.7E-05 1.9E-09 69.9 6.0 52 191-242 60-113 (232)
11 KOG0561 bHLH transcription fac 97.5 8.9E-05 1.9E-09 72.6 3.6 50 192-242 62-113 (373)
12 PLN03217 transcription factor 97.4 0.0003 6.4E-09 57.8 5.3 51 201-252 18-74 (93)
13 KOG3910 Helix loop helix trans 97.0 0.0008 1.7E-08 69.6 4.7 59 189-247 525-586 (632)
14 KOG4029 Transcription factor H 97.0 0.00078 1.7E-08 62.2 4.0 56 194-249 113-171 (228)
15 KOG4447 Transcription factor T 91.0 0.13 2.7E-06 46.7 1.8 49 193-242 81-131 (173)
16 KOG3560 Aryl-hydrocarbon recep 87.6 0.47 1E-05 50.4 3.2 40 198-238 33-76 (712)
17 KOG3558 Hypoxia-inducible fact 86.1 0.53 1.2E-05 51.0 2.7 44 194-238 50-97 (768)
18 KOG3559 Transcriptional regula 78.6 2 4.4E-05 44.5 3.4 60 196-256 7-70 (598)
19 KOG4395 Transcription factor A 71.4 15 0.00033 35.9 7.2 50 194-243 178-229 (285)
20 KOG3898 Transcription factor N 67.4 12 0.00025 35.9 5.5 47 194-241 76-125 (254)
21 PF13334 DUF4094: Domain of un 38.7 46 0.001 27.6 3.8 26 229-254 68-93 (95)
22 KOG4447 Transcription factor T 38.6 54 0.0012 30.2 4.5 23 197-219 29-51 (173)
23 KOG3582 Mlx interactors and re 34.9 28 0.00061 38.5 2.5 59 189-247 650-712 (856)
24 COG3074 Uncharacterized protei 29.1 72 0.0016 25.9 3.3 26 229-254 13-38 (79)
25 TIGR00986 3a0801s05tom22 mitoc 21.6 52 0.0011 29.7 1.4 36 203-239 49-84 (145)
26 KOG3582 Mlx interactors and re 21.3 35 0.00076 37.8 0.3 62 186-250 783-848 (856)
No 1
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=99.39 E-value=3.6e-13 Score=97.88 Aligned_cols=54 Identities=33% Similarity=0.572 Sum_probs=48.5
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHHHH
Q 020455 191 TDSHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQVE 244 (326)
Q Consensus 191 ~~~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~qVq 244 (326)
...|+..||+||++||+.|..|+++||.+ ....||++||+.||+||+.|+.+++
T Consensus 5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 45699999999999999999999999999 2445999999999999999998763
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.33 E-value=2.2e-12 Score=92.34 Aligned_cols=49 Identities=37% Similarity=0.519 Sum_probs=44.6
Q ss_pred chHHHHHHHHHHHHHHHHhhcCCC---CCcCCChhchHHHHHHHHHHHHHHHH
Q 020455 195 SLAERVRREKISERMKILQKLVPG---CDKVTGKAFMLDEIINYVQFLQNQVE 244 (326)
Q Consensus 195 slaERrRRekINer~~~LqsLVP~---~~K~tDKAsIL~eAI~YIk~Lq~qVq 244 (326)
+..||+||++||+.|..|++|||. ..+ .+|++||.+||+||+.|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k-~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKK-LSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999999996 445 4999999999999999999886
No 3
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.32 E-value=2.5e-12 Score=93.59 Aligned_cols=48 Identities=35% Similarity=0.663 Sum_probs=44.2
Q ss_pred CcchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHHHH
Q 020455 193 SHSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQFLQ 240 (326)
Q Consensus 193 ~HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~Lq 240 (326)
.|+..||+||++||+.|..|+.|||.+ ....+|++||+.||+||+.||
T Consensus 4 ~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 4 KHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 499999999999999999999999987 233699999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.21 E-value=1.4e-11 Score=122.88 Aligned_cols=60 Identities=33% Similarity=0.572 Sum_probs=51.8
Q ss_pred cccccCCCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCc---CCChhchHHHHHHHHHHHHH
Q 020455 182 HVRARRGQATDSHSLAERVRREKISERMKILQKLVPGCDK---VTGKAFMLDEIINYVQFLQN 241 (326)
Q Consensus 182 ~~Rarr~~a~~~HslaERrRRekINer~~~LqsLVP~~~K---~tDKAsIL~eAI~YIk~Lq~ 241 (326)
..-.|.+++++.|+++|||||++||++|++|..|||.|.. ..+|..||..+++||+.||+
T Consensus 225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq 287 (411)
T KOG1318|consen 225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQ 287 (411)
T ss_pred chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHH
Confidence 3334666778899999999999999999999999999932 13799999999999999987
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.01 E-value=2e-10 Score=105.09 Aligned_cols=65 Identities=31% Similarity=0.527 Sum_probs=55.9
Q ss_pred CcchHHHHHHHHHHHHHHHHhhcCCCCCc------CCChhchHHHHHHHHHHHHHHHHHHHhhhhcCCCcc
Q 020455 193 SHSLAERVRREKISERMKILQKLVPGCDK------VTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPMF 257 (326)
Q Consensus 193 ~HslaERrRRekINer~~~LqsLVP~~~K------~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~~P~~ 257 (326)
.|.-+||+||+.||..+..|++|||.|.. ++.||.||..+|+||.+|..++.+.+.+++.++-.+
T Consensus 65 aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v 135 (229)
T KOG1319|consen 65 AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV 135 (229)
T ss_pred HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 49999999999999999999999998743 246999999999999999998888887776665443
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.40 E-value=1.7e-07 Score=88.71 Aligned_cols=52 Identities=29% Similarity=0.413 Sum_probs=45.5
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhhcCCCC--------CcCCChhchHHHHHHHHHHHHHHH
Q 020455 191 TDSHSLAERVRREKISERMKILQKLVPGC--------DKVTGKAFMLDEIINYVQFLQNQV 243 (326)
Q Consensus 191 ~~~HslaERrRRekINer~~~LqsLVP~~--------~K~tDKAsIL~eAI~YIk~Lq~qV 243 (326)
+..|-+.|||||.|||+.|.+|++||+.+ .|+ +||.||+-|++|++.|+...
T Consensus 33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~skl-EKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKL-EKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhh-HHHHHHHHHHHHHHHHhccc
Confidence 34588999999999999999999999965 343 79999999999999998743
No 7
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.40 E-value=1.1e-06 Score=94.99 Aligned_cols=63 Identities=27% Similarity=0.470 Sum_probs=54.7
Q ss_pred CCCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhh
Q 020455 188 GQATDSHSLAERVRREKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKL 250 (326)
Q Consensus 188 ~~a~~~HslaERrRRekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~ 250 (326)
+.++.+|+++|||.|..|||+|.+|++|||+..-+..|..+|..||+||++|+..-+.+....
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~ 336 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLEN 336 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhh
Confidence 466889999999999999999999999999985545899999999999999998666555443
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.22 E-value=1.2e-06 Score=94.12 Aligned_cols=52 Identities=19% Similarity=0.386 Sum_probs=47.8
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhhcCCCCC---cCCChhchHHHHHHHHHHHHHH
Q 020455 191 TDSHSLAERVRREKISERMKILQKLVPGCD---KVTGKAFMLDEIINYVQFLQNQ 242 (326)
Q Consensus 191 ~~~HslaERrRRekINer~~~LqsLVP~~~---K~tDKAsIL~eAI~YIk~Lq~q 242 (326)
..+|+.+|||||+++|.-|.+|-+|||.|. .+.||-+||..||..||.+++.
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 567999999999999999999999999996 4459999999999999999885
No 9
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.73 E-value=0.00015 Score=69.47 Aligned_cols=58 Identities=21% Similarity=0.261 Sum_probs=49.3
Q ss_pred cchHHHHHHHHHHHHHHHHhh-cCCCCCcCCChhchHHHHHHHHHHHHHHHHHHHhhhh
Q 020455 194 HSLAERVRREKISERMKILQK-LVPGCDKVTGKAFMLDEIINYVQFLQNQVEFLSMKLA 251 (326)
Q Consensus 194 HslaERrRRekINer~~~Lqs-LVP~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~ 251 (326)
-.+.||||=.|+||.|.+|+. -+++.++..-|+.||..||+||+.||.-++++.....
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 346799999999999999975 4567776668999999999999999999988876543
No 10
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.64 E-value=8.7e-05 Score=69.94 Aligned_cols=52 Identities=23% Similarity=0.334 Sum_probs=44.2
Q ss_pred CCCcchHHHHHHHHHHHHHHHHhhcCCCCCcCCC--hhchHHHHHHHHHHHHHH
Q 020455 191 TDSHSLAERVRREKISERMKILQKLVPGCDKVTG--KAFMLDEIINYVQFLQNQ 242 (326)
Q Consensus 191 ~~~HslaERrRRekINer~~~LqsLVP~~~K~tD--KAsIL~eAI~YIk~Lq~q 242 (326)
+..|+.-||+||..|.+.|..|+.+||....-+. .++||+.|++||+.|+.+
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~ 113 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERK 113 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhH
Confidence 3459999999999999999999999997633222 699999999999999773
No 11
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.47 E-value=8.9e-05 Score=72.58 Aligned_cols=50 Identities=26% Similarity=0.458 Sum_probs=44.0
Q ss_pred CCcchHHHHHHHHHHHHHHHHhhcCCC--CCcCCChhchHHHHHHHHHHHHHH
Q 020455 192 DSHSLAERVRREKISERMKILQKLVPG--CDKVTGKAFMLDEIINYVQFLQNQ 242 (326)
Q Consensus 192 ~~HslaERrRRekINer~~~LqsLVP~--~~K~tDKAsIL~eAI~YIk~Lq~q 242 (326)
+.-+..||||=.-||-.|..||.|+|. +.|+ .||.||+.+.+||..|+.+
T Consensus 62 eIANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~ 113 (373)
T KOG0561|consen 62 EIANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGH 113 (373)
T ss_pred HhhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhc
Confidence 345678999999999999999999995 4665 9999999999999999874
No 12
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.41 E-value=0.0003 Score=57.77 Aligned_cols=51 Identities=33% Similarity=0.520 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHhhcCCCC------CcCCChhchHHHHHHHHHHHHHHHHHHHhhhhc
Q 020455 201 RREKISERMKILQKLVPGC------DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLAS 252 (326)
Q Consensus 201 RRekINer~~~LqsLVP~~------~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~ 252 (326)
=-+.|+|-+..||.|+|.. ++. .-+-+|+||..||+.|+.+|..|++.++.
T Consensus 18 sddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~ 74 (93)
T PLN03217 18 SEDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSE 74 (93)
T ss_pred CHHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999964 333 56779999999999999999999998754
No 13
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.98 E-value=0.0008 Score=69.59 Aligned_cols=59 Identities=22% Similarity=0.268 Sum_probs=48.7
Q ss_pred CCCCCcchHHHHHHHHHHHHHHHHhhcCC---CCCcCCChhchHHHHHHHHHHHHHHHHHHH
Q 020455 189 QATDSHSLAERVRREKISERMKILQKLVP---GCDKVTGKAFMLDEIINYVQFLQNQVEFLS 247 (326)
Q Consensus 189 ~a~~~HslaERrRRekINer~~~LqsLVP---~~~K~tDKAsIL~eAI~YIk~Lq~qVq~Le 247 (326)
.++...+..||.|=..|||.|++|.++.= ..+|.--|.-||..||.-|-.|++||.+-.
T Consensus 525 ERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 525 ERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 34456788999999999999999999875 234433599999999999999999998754
No 14
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.96 E-value=0.00078 Score=62.20 Aligned_cols=56 Identities=20% Similarity=0.272 Sum_probs=48.6
Q ss_pred cchHHHHHHHHHHHHHHHHhhcCCCC---CcCCChhchHHHHHHHHHHHHHHHHHHHhh
Q 020455 194 HSLAERVRREKISERMKILQKLVPGC---DKVTGKAFMLDEIINYVQFLQNQVEFLSMK 249 (326)
Q Consensus 194 HslaERrRRekINer~~~LqsLVP~~---~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~ 249 (326)
++..||.|=..+|..|..||.+||.. +|+..|..+|..||.||++|+.-++.-+..
T Consensus 113 ~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~ 171 (228)
T KOG4029|consen 113 RNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP 171 (228)
T ss_pred hhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence 66779999999999999999999943 455699999999999999999988777644
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=91.02 E-value=0.13 Score=46.69 Aligned_cols=49 Identities=29% Similarity=0.475 Sum_probs=42.9
Q ss_pred CcchHHHHHHHHHHHHHHHHhhcCCCC--CcCCChhchHHHHHHHHHHHHHH
Q 020455 193 SHSLAERVRREKISERMKILQKLVPGC--DKVTGKAFMLDEIINYVQFLQNQ 242 (326)
Q Consensus 193 ~HslaERrRRekINer~~~LqsLVP~~--~K~tDKAsIL~eAI~YIk~Lq~q 242 (326)
.|++-||+|-..+|+.|..||.++|.. +|. .|.--|.-|-.||.+|=.-
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhhc
Confidence 499999999999999999999999954 675 7888899999999988543
No 16
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=87.56 E-value=0.47 Score=50.36 Aligned_cols=40 Identities=20% Similarity=0.405 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCC----CCcCCChhchHHHHHHHHHH
Q 020455 198 ERVRREKISERMKILQKLVPG----CDKVTGKAFMLDEIINYVQF 238 (326)
Q Consensus 198 ERrRRekINer~~~LqsLVP~----~~K~tDKAsIL~eAI~YIk~ 238 (326)
-+|-|+|+|-.+..|.+|+|= ..|+ ||.+||.-++-|++-
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 357899999999999999994 4786 999999999999864
No 17
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=86.11 E-value=0.53 Score=50.99 Aligned_cols=44 Identities=32% Similarity=0.394 Sum_probs=37.4
Q ss_pred cchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHH
Q 020455 194 HSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQF 238 (326)
Q Consensus 194 HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~ 238 (326)
-.-+.|.||.|=|+-|.+|..+||-- ..+ |||+|+.-||-|++-
T Consensus 50 SRdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLRl 97 (768)
T KOG3558|consen 50 SRDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHHH
Confidence 34478999999999999999999933 444 999999999999874
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=78.56 E-value=2 Score=44.54 Aligned_cols=60 Identities=25% Similarity=0.220 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHHHHHHHHHHHhhhhcCCCc
Q 020455 196 LAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQFLQNQVEFLSMKLASVNPM 256 (326)
Q Consensus 196 laERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~~~~~P~ 256 (326)
-+.|.||++=|..|.+|..|+|-. ++ .||++|+.-|..|||.-.-=-+-|-+.+....+.
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQ-lDKasiiRLtTsYlKmr~vFPeGLGeawg~~S~a 70 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQ-LDKASIIRLTTSYLKMRNVFPEGLGEAWGASSRA 70 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhc-cchhhhhhHHHHHHHHHHhcccccchhccCCCcc
Confidence 356899999999999999999953 45 4999999999999986443333344444433333
No 19
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=71.43 E-value=15 Score=35.94 Aligned_cols=50 Identities=24% Similarity=0.238 Sum_probs=40.9
Q ss_pred cchHHHHHHHHHHHHHHHHhhcCCCCC--cCCChhchHHHHHHHHHHHHHHH
Q 020455 194 HSLAERVRREKISERMKILQKLVPGCD--KVTGKAFMLDEIINYVQFLQNQV 243 (326)
Q Consensus 194 HslaERrRRekINer~~~LqsLVP~~~--K~tDKAsIL~eAI~YIk~Lq~qV 243 (326)
-+..||+|=..+|..|..|+..||..+ ++..|-.-|+.|-.||--|-..+
T Consensus 178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 467799999999999999999999653 33467888999999998876554
No 20
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=67.44 E-value=12 Score=35.94 Aligned_cols=47 Identities=23% Similarity=0.375 Sum_probs=39.1
Q ss_pred cchHHHHHHHHHHHHHHHHhhcCCC---CCcCCChhchHHHHHHHHHHHHH
Q 020455 194 HSLAERVRREKISERMKILQKLVPG---CDKVTGKAFMLDEIINYVQFLQN 241 (326)
Q Consensus 194 HslaERrRRekINer~~~LqsLVP~---~~K~tDKAsIL~eAI~YIk~Lq~ 241 (326)
=+..||.|=-.+|+.|..||.++|. ..|+ .|...|.-|-+||-.|++
T Consensus 76 aNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 76 ANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSE 125 (254)
T ss_pred ccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhcc
Confidence 3556888888999999999999994 3554 788999999999998875
No 21
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=38.69 E-value=46 Score=27.60 Aligned_cols=26 Identities=23% Similarity=0.337 Sum_probs=21.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCC
Q 020455 229 LDEIINYVQFLQNQVEFLSMKLASVN 254 (326)
Q Consensus 229 L~eAI~YIk~Lq~qVq~Le~~~~~~~ 254 (326)
+.++-+=|+.|...|..|||+++..+
T Consensus 68 V~kTh~aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 68 VSKTHEAIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777778899999999999998654
No 22
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=38.64 E-value=54 Score=30.15 Aligned_cols=23 Identities=39% Similarity=0.671 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCC
Q 020455 197 AERVRREKISERMKILQKLVPGC 219 (326)
Q Consensus 197 aERrRRekINer~~~LqsLVP~~ 219 (326)
.||.|..++|+.+..|+.|+|+.
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgs 51 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGS 51 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCC
Confidence 57888899999999999999976
No 23
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=34.93 E-value=28 Score=38.46 Aligned_cols=59 Identities=20% Similarity=0.282 Sum_probs=45.6
Q ss_pred CCCCCcchHHHHHHHHHHHHHHHHhhcCCCCCcC----CChhchHHHHHHHHHHHHHHHHHHH
Q 020455 189 QATDSHSLAERVRREKISERMKILQKLVPGCDKV----TGKAFMLDEIINYVQFLQNQVEFLS 247 (326)
Q Consensus 189 ~a~~~HslaERrRRekINer~~~LqsLVP~~~K~----tDKAsIL~eAI~YIk~Lq~qVq~Le 247 (326)
.+...|+-+|.+||+.|.-.+..|-+++-....+ +-++.-+..++.||..++.+...+.
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~ 712 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQ 712 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccc
Confidence 3445699999999999999999999999866433 2456668999999988876544443
No 24
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.11 E-value=72 Score=25.91 Aligned_cols=26 Identities=27% Similarity=0.372 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhcCC
Q 020455 229 LDEIINYVQFLQNQVEFLSMKLASVN 254 (326)
Q Consensus 229 L~eAI~YIk~Lq~qVq~Le~~~~~~~ 254 (326)
+..||+-|.-||..|++|.+++.++.
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~ 38 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLS 38 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhH
Confidence 67899999999999999998876554
No 25
>TIGR00986 3a0801s05tom22 mitochondrial import receptor subunit Tom22. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tom22 proteins.
Probab=21.58 E-value=52 Score=29.69 Aligned_cols=36 Identities=19% Similarity=0.274 Sum_probs=24.1
Q ss_pred HHHHHHHHHHhhcCCCCCcCCChhchHHHHHHHHHHH
Q 020455 203 EKISERMKILQKLVPGCDKVTGKAFMLDEIINYVQFL 239 (326)
Q Consensus 203 ekINer~~~LqsLVP~~~K~tDKAsIL~eAI~YIk~L 239 (326)
|-|-|||-+|+++||+..+. .-.+...-+..++|.+
T Consensus 49 ETl~ERi~ALkDm~Pp~~R~-~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 49 ETFTDRIYALKDIVPPTTRG-WIYHKYSTTTNFVKST 84 (145)
T ss_pred CcHHHHHHHHHhhCCHHHHH-HHHHHHHHHHHHHHHH
Confidence 46888999999999987552 3344455555555553
No 26
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=21.28 E-value=35 Score=37.79 Aligned_cols=62 Identities=15% Similarity=0.149 Sum_probs=48.9
Q ss_pred cCCCCCCCcchHHHHHHHHHHHHHHHHhhcCCCC----CcCCChhchHHHHHHHHHHHHHHHHHHHhhh
Q 020455 186 RRGQATDSHSLAERVRREKISERMKILQKLVPGC----DKVTGKAFMLDEIINYVQFLQNQVEFLSMKL 250 (326)
Q Consensus 186 rr~~a~~~HslaERrRRekINer~~~LqsLVP~~----~K~tDKAsIL~eAI~YIk~Lq~qVq~Le~~~ 250 (326)
+.+.....|.-++||||-.+-|++..|-.|.|.. .+++.+++||. +-++.+++.-+.+.++.
T Consensus 783 ~n~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~ 848 (856)
T KOG3582|consen 783 FNGMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKI 848 (856)
T ss_pred ccceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhh
Confidence 3444446688899999999999999999999954 45568999999 78888888777666543
Done!