Query 043478
Match_columns 145
No_of_seqs 190 out of 562
Neff 4.8
Searched_HMMs 46136
Date Fri Mar 29 05:28:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043478.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043478hhsearch_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 2.8E-13 6.1E-18 87.5 5.6 50 95-144 5-60 (60)
2 smart00353 HLH helix loop heli 99.4 5.7E-13 1.2E-17 84.8 5.6 46 100-145 2-53 (53)
3 PF00010 HLH: Helix-loop-helix 99.4 1.2E-12 2.6E-17 84.6 4.9 46 95-140 2-55 (55)
4 KOG1318 Helix loop helix trans 98.4 3.7E-07 8E-12 81.1 5.3 51 94-144 233-290 (411)
5 KOG1319 bHLHZip transcription 98.1 3.9E-06 8.4E-11 68.6 3.8 49 95-143 63-121 (229)
6 KOG2588 Predicted DNA-binding 97.9 1.9E-05 4.1E-10 76.0 5.3 51 92-142 274-328 (953)
7 KOG4304 Transcriptional repres 97.8 1.2E-05 2.6E-10 67.3 3.0 50 94-143 32-92 (250)
8 KOG3561 Aryl-hydrocarbon recep 97.8 2.2E-05 4.8E-10 74.8 4.3 48 95-142 21-75 (803)
9 KOG2483 Upstream transcription 97.7 7.7E-05 1.7E-09 62.1 5.9 54 91-144 56-115 (232)
10 KOG0561 bHLH transcription fac 97.7 4E-05 8.7E-10 66.5 3.8 45 98-142 64-113 (373)
11 KOG3960 Myogenic helix-loop-he 97.4 0.00032 7E-09 59.5 5.2 54 92-145 116-174 (284)
12 KOG4029 Transcription factor H 97.3 0.0006 1.3E-08 55.5 6.2 51 94-144 109-166 (228)
13 KOG3558 Hypoxia-inducible fact 94.0 0.048 1E-06 52.0 3.2 38 101-138 53-97 (768)
14 KOG3910 Helix loop helix trans 92.8 0.1 2.2E-06 48.3 3.3 52 94-145 526-584 (632)
15 PLN03217 transcription factor 92.7 0.19 4.2E-06 36.6 4.0 38 107-144 23-66 (93)
16 KOG4447 Transcription factor T 87.8 0.34 7.4E-06 38.8 1.9 46 95-140 79-129 (173)
17 KOG3560 Aryl-hydrocarbon recep 83.9 0.84 1.8E-05 43.0 2.6 41 97-137 29-75 (712)
18 KOG3898 Transcription factor N 83.8 0.75 1.6E-05 38.6 2.1 47 95-141 73-125 (254)
19 KOG3559 Transcriptional regula 80.4 1.7 3.7E-05 39.9 3.2 32 107-138 17-52 (598)
20 KOG4395 Transcription factor A 56.0 18 0.0004 31.2 4.1 46 98-143 178-229 (285)
21 PF05687 DUF822: Plant protein 39.6 33 0.00072 27.2 2.9 23 94-116 11-36 (150)
22 KOG4447 Transcription factor T 38.1 26 0.00056 28.2 2.2 42 101-142 31-78 (173)
23 PRK13847 conjugal transfer pro 33.7 66 0.0014 22.5 3.4 40 100-139 7-48 (71)
24 PLN02705 beta-amylase 23.5 87 0.0019 30.3 3.3 27 90-116 80-109 (681)
25 TIGR00986 3a0801s05tom22 mitoc 23.1 53 0.0011 25.9 1.6 33 107-139 52-84 (145)
26 PRK12787 fliX flagellar assemb 22.8 61 0.0013 25.3 1.9 9 98-106 61-69 (138)
27 PF06412 TraD: Conjugal transf 21.7 1.3E+02 0.0028 20.0 3.1 39 101-139 4-44 (65)
28 cd07977 TFIIE_beta_winged_heli 21.2 88 0.0019 21.5 2.2 19 121-139 3-21 (75)
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=99.43 E-value=2.8e-13 Score=87.54 Aligned_cols=50 Identities=32% Similarity=0.578 Sum_probs=47.0
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC---CCcchhhhHHHHHHHHHHHHHHhh
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI---SEVDKASILNDTIKYLKRLKARVE 144 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~---~K~dKaSIL~daI~Yik~Lq~~V~ 144 (145)
...|+..||+|| |+.|..|+++||.. .|+||++||..||+||+.|+.+++
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 567999999999 99999999999988 899999999999999999999874
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.40 E-value=5.7e-13 Score=84.81 Aligned_cols=46 Identities=35% Similarity=0.586 Sum_probs=42.5
Q ss_pred hHHHHhH---HHhHHHHHhcCCC---CCCcchhhhHHHHHHHHHHHHHHhhC
Q 043478 100 SLDKRTK---NEKFMLLRSVVPY---ISEVDKASILNDTIKYLKRLKARVEE 145 (145)
Q Consensus 100 ~~ERrRR---ne~f~~LrslvP~---~~K~dKaSIL~daI~Yik~Lq~~V~e 145 (145)
..||+|| |+.|..|+++||. ..|+||++||..||+||++|+.++++
T Consensus 2 ~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~~ 53 (53)
T smart00353 2 ARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQK 53 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHhC
Confidence 5799888 9999999999994 57999999999999999999999875
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=99.35 E-value=1.2e-12 Score=84.61 Aligned_cols=46 Identities=35% Similarity=0.604 Sum_probs=43.0
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC-----CCcchhhhHHHHHHHHHHHH
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI-----SEVDKASILNDTIKYLKRLK 140 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~-----~K~dKaSIL~daI~Yik~Lq 140 (145)
...|+..||+|| |+.|..|+.+||.. .|++|++||..||+||++||
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 357999999999 99999999999976 78999999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=98.40 E-value=3.7e-07 Score=81.13 Aligned_cols=51 Identities=20% Similarity=0.477 Sum_probs=45.6
Q ss_pred hhhhhhhHHHHhH---HHhHHHHHhcCCCC----CCcchhhhHHHHHHHHHHHHHHhh
Q 043478 94 FCEEHVSLDKRTK---NEKFMLLRSVVPYI----SEVDKASILNDTIKYLKRLKARVE 144 (145)
Q Consensus 94 ~~~~h~~~ERrRR---ne~f~~LrslvP~~----~K~dKaSIL~daI~Yik~Lq~~V~ 144 (145)
.+..|++.||||| |+++..|..|||.+ .|..|.+||..+.+||++|++.-+
T Consensus 233 Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 233 KRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred HHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 3567999999999 99999999999977 477899999999999999987644
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.06 E-value=3.9e-06 Score=68.64 Aligned_cols=49 Identities=24% Similarity=0.430 Sum_probs=43.9
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC-------CCcchhhhHHHHHHHHHHHHHHh
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI-------SEVDKASILNDTIKYLKRLKARV 143 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~-------~K~dKaSIL~daI~Yik~Lq~~V 143 (145)
+..|.-+||+|| |..+..|+.|||.+ .|..||.||..||+||.+|..+.
T Consensus 63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k 121 (229)
T KOG1319|consen 63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEK 121 (229)
T ss_pred HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567999999999 99999999999954 37889999999999999998764
No 6
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.86 E-value=1.9e-05 Score=76.02 Aligned_cols=51 Identities=25% Similarity=0.503 Sum_probs=47.8
Q ss_pred cchhhhhhhHHHHhH---HHhHHHHHhcCCCC-CCcchhhhHHHHHHHHHHHHHH
Q 043478 92 ENFCEEHVSLDKRTK---NEKFMLLRSVVPYI-SEVDKASILNDTIKYLKRLKAR 142 (145)
Q Consensus 92 ~~~~~~h~~~ERrRR---ne~f~~LrslvP~~-~K~dKaSIL~daI~Yik~Lq~~ 142 (145)
++.+.+|++.|||.| |+|+..|+.+||+. .|+.|.+.|..||+||++|+..
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~ 328 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGY 328 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhcc
Confidence 467889999999999 99999999999988 8999999999999999999864
No 7
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=97.83 E-value=1.2e-05 Score=67.35 Aligned_cols=50 Identities=26% Similarity=0.349 Sum_probs=44.5
Q ss_pred hhhhhhhHHHHhH---HHhHHHHHhcCC--------CCCCcchhhhHHHHHHHHHHHHHHh
Q 043478 94 FCEEHVSLDKRTK---NEKFMLLRSVVP--------YISEVDKASILNDTIKYLKRLKARV 143 (145)
Q Consensus 94 ~~~~h~~~ERrRR---ne~f~~LrslvP--------~~~K~dKaSIL~daI~Yik~Lq~~V 143 (145)
...+|-+.||||| |+-+..|+.||| ..+|++||-||+-|++|+++|++..
T Consensus 32 rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 32 RKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred hhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence 4567889999999 999999999999 2378999999999999999998753
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.79 E-value=2.2e-05 Score=74.78 Aligned_cols=48 Identities=25% Similarity=0.382 Sum_probs=44.2
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC----CCcchhhhHHHHHHHHHHHHHH
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI----SEVDKASILNDTIKYLKRLKAR 142 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~----~K~dKaSIL~daI~Yik~Lq~~ 142 (145)
+.+|+.+||||| |.-+.+|.+|||.+ -|+||-+||..||..||.+++.
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 678999999999 99999999999966 5999999999999999998873
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.71 E-value=7.7e-05 Score=62.10 Aligned_cols=54 Identities=24% Similarity=0.441 Sum_probs=45.6
Q ss_pred ccchhhhhhhHHHHhH---HHhHHHHHhcCCCC-CCcc--hhhhHHHHHHHHHHHHHHhh
Q 043478 91 SENFCEEHVSLDKRTK---NEKFMLLRSVVPYI-SEVD--KASILNDTIKYLKRLKARVE 144 (145)
Q Consensus 91 ~~~~~~~h~~~ERrRR---ne~f~~LrslvP~~-~K~d--KaSIL~daI~Yik~Lq~~V~ 144 (145)
....+..|+.-||+|| .+.|..|+.+||.. +... -++||..|++||+.|+.+..
T Consensus 56 ~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~ 115 (232)
T KOG2483|consen 56 AASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSA 115 (232)
T ss_pred CCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHH
Confidence 4456778999999999 99999999999977 3333 59999999999999998754
No 10
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.67 E-value=4e-05 Score=66.51 Aligned_cols=45 Identities=31% Similarity=0.516 Sum_probs=39.8
Q ss_pred hhhHHHHhH---HHhHHHHHhcCCCC--CCcchhhhHHHHHHHHHHHHHH
Q 043478 98 HVSLDKRTK---NEKFMLLRSVVPYI--SEVDKASILNDTIKYLKRLKAR 142 (145)
Q Consensus 98 h~~~ERrRR---ne~f~~LrslvP~~--~K~dKaSIL~daI~Yik~Lq~~ 142 (145)
-+..||||- |-.|..||+|+|.- .|..||+||..+-+||.+|+.+
T Consensus 64 ANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~ 113 (373)
T KOG0561|consen 64 ANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGH 113 (373)
T ss_pred hcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhc
Confidence 445688887 99999999999965 8999999999999999999864
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.36 E-value=0.00032 Score=59.50 Aligned_cols=54 Identities=26% Similarity=0.376 Sum_probs=44.0
Q ss_pred cchhhhhhhHHHHhH---HHhHHHHHhc-CCCC-CCcchhhhHHHHHHHHHHHHHHhhC
Q 043478 92 ENFCEEHVSLDKRTK---NEKFMLLRSV-VPYI-SEVDKASILNDTIKYLKRLKARVEE 145 (145)
Q Consensus 92 ~~~~~~h~~~ERrRR---ne~f~~Lrsl-vP~~-~K~dKaSIL~daI~Yik~Lq~~V~e 145 (145)
-+.++.-.+.||||= ||-|.+|+.- .++. ..+-|+-||..||+||..||.-++|
T Consensus 116 vDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~ 174 (284)
T KOG3960|consen 116 VDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQE 174 (284)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHH
Confidence 345667778898886 9999999764 4555 6789999999999999999987653
No 12
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.31 E-value=0.0006 Score=55.51 Aligned_cols=51 Identities=18% Similarity=0.298 Sum_probs=43.6
Q ss_pred hhhhhhhHHHHhH---HHhHHHHHhcCCC----CCCcchhhhHHHHHHHHHHHHHHhh
Q 043478 94 FCEEHVSLDKRTK---NEKFMLLRSVVPY----ISEVDKASILNDTIKYLKRLKARVE 144 (145)
Q Consensus 94 ~~~~h~~~ERrRR---ne~f~~LrslvP~----~~K~dKaSIL~daI~Yik~Lq~~V~ 144 (145)
....++..||.|= |..|..||.+||. -.|..|+.+|.-||.||+.|+.-++
T Consensus 109 ~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~ 166 (228)
T KOG4029|consen 109 QRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLA 166 (228)
T ss_pred hhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhc
Confidence 3456777798888 9999999999994 4688999999999999999997654
No 13
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=94.00 E-value=0.048 Score=51.96 Aligned_cols=38 Identities=42% Similarity=0.647 Sum_probs=31.9
Q ss_pred HHHHhH---HHhHHHHHhcCCC---C-CCcchhhhHHHHHHHHHH
Q 043478 101 LDKRTK---NEKFMLLRSVVPY---I-SEVDKASILNDTIKYLKR 138 (145)
Q Consensus 101 ~ERrRR---ne~f~~LrslvP~---~-~K~dKaSIL~daI~Yik~ 138 (145)
+-|.|| |+-|..|.-+||- + +-.|||||+.=||.|++-
T Consensus 53 AARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 53 AARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 345666 9999999999992 2 678999999999999973
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=92.77 E-value=0.1 Score=48.35 Aligned_cols=52 Identities=19% Similarity=0.192 Sum_probs=40.9
Q ss_pred hhhhhhhHHHHhH---HHhHHHHHhcCC---CC-CCcchhhhHHHHHHHHHHHHHHhhC
Q 043478 94 FCEEHVSLDKRTK---NEKFMLLRSVVP---YI-SEVDKASILNDTIKYLKRLKARVEE 145 (145)
Q Consensus 94 ~~~~h~~~ERrRR---ne~f~~LrslvP---~~-~K~dKaSIL~daI~Yik~Lq~~V~e 145 (145)
.++.++..||-|- ||-|++|-.+.- .. ....|.-||-.|+.-|-.||+||.|
T Consensus 526 RR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE 584 (632)
T KOG3910|consen 526 RRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE 584 (632)
T ss_pred HHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence 4556666777664 999999988764 22 3347899999999999999999986
No 15
>PLN03217 transcription factor ATBS1; Provisional
Probab=92.72 E-value=0.19 Score=36.56 Aligned_cols=38 Identities=29% Similarity=0.606 Sum_probs=31.3
Q ss_pred HHhHHHHHhcCCCC------CCcchhhhHHHHHHHHHHHHHHhh
Q 043478 107 NEKFMLLRSVVPYI------SEVDKASILNDTIKYLKRLKARVE 144 (145)
Q Consensus 107 ne~f~~LrslvP~~------~K~dKaSIL~daI~Yik~Lq~~V~ 144 (145)
|+-...|++|+|.. .|..-+-+|.+|-.||+.|.++|.
T Consensus 23 ~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvD 66 (93)
T PLN03217 23 NDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVD 66 (93)
T ss_pred HHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHH
Confidence 77889999999954 344445689999999999999885
No 16
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=87.81 E-value=0.34 Score=38.77 Aligned_cols=46 Identities=22% Similarity=0.358 Sum_probs=38.9
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC--CCcchhhhHHHHHHHHHHHH
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI--SEVDKASILNDTIKYLKRLK 140 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~--~K~dKaSIL~daI~Yik~Lq 140 (145)
...|++.||+|- |+-|.+||.++|.. .|..|.--|.-|-.||..|=
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~ 129 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLY 129 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhh
Confidence 456899999999 99999999999966 67788888888888887664
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=83.89 E-value=0.84 Score=43.01 Aligned_cols=41 Identities=29% Similarity=0.536 Sum_probs=34.4
Q ss_pred hhhhHHHHhH--HHhHHHHHhcCCC----CCCcchhhhHHHHHHHHH
Q 043478 97 EHVSLDKRTK--NEKFMLLRSVVPY----ISEVDKASILNDTIKYLK 137 (145)
Q Consensus 97 ~h~~~ERrRR--ne~f~~LrslvP~----~~K~dKaSIL~daI~Yik 137 (145)
+-+.+-|-|. |-.+..|.+|+|. ++|.||.|||.=++.|++
T Consensus 29 kSNPSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 29 KSNPSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred cCCcchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 4455666555 9999999999995 489999999999999986
No 18
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=83.80 E-value=0.75 Score=38.59 Aligned_cols=47 Identities=19% Similarity=0.260 Sum_probs=38.9
Q ss_pred hhhhhhHHHHhH---HHhHHHHHhcCCCC---CCcchhhhHHHHHHHHHHHHH
Q 043478 95 CEEHVSLDKRTK---NEKFMLLRSVVPYI---SEVDKASILNDTIKYLKRLKA 141 (145)
Q Consensus 95 ~~~h~~~ERrRR---ne~f~~LrslvP~~---~K~dKaSIL~daI~Yik~Lq~ 141 (145)
+..=+..||+|- |+-|..||.++|.. .|+.|+-.|.-|=.||..|++
T Consensus 73 R~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 73 RLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE 125 (254)
T ss_pred cccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence 444566788777 99999999999933 788999999999999998874
No 19
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=80.39 E-value=1.7 Score=39.92 Aligned_cols=32 Identities=44% Similarity=0.592 Sum_probs=28.6
Q ss_pred HHhHHHHHhcCCCC----CCcchhhhHHHHHHHHHH
Q 043478 107 NEKFMLLRSVVPYI----SEVDKASILNDTIKYLKR 138 (145)
Q Consensus 107 ne~f~~LrslvP~~----~K~dKaSIL~daI~Yik~ 138 (145)
|-.|..|..++|-. +..||+||+.=|-.|||-
T Consensus 17 N~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 17 NYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred cchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 99999999999932 678999999999999984
No 20
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=56.04 E-value=18 Score=31.17 Aligned_cols=46 Identities=26% Similarity=0.276 Sum_probs=36.4
Q ss_pred hhhHHHHhH---HHhHHHHHhcCCCC---CCcchhhhHHHHHHHHHHHHHHh
Q 043478 98 HVSLDKRTK---NEKFMLLRSVVPYI---SEVDKASILNDTIKYLKRLKARV 143 (145)
Q Consensus 98 h~~~ERrRR---ne~f~~LrslvP~~---~K~dKaSIL~daI~Yik~Lq~~V 143 (145)
-+..||||- |.-|..||.+||.. .|..|---|.-|-.||--|-...
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 455677777 99999999999966 56777788899999998775443
No 21
>PF05687 DUF822: Plant protein of unknown function (DUF822); InterPro: IPR008540 This group of proteins contains members of the BZR1/LAT61 family of plant transcriptional repressors involved in controlling the response to Brassinosteroids (BRs). BRs are plant hormones that play essential roles in growth and development. BZR1 binds directly to DNA repressing the synthesis of genes involved in BR synthesis. Phosphorylation of BZR1 by BIN1 targets BZR1 to the 20S proteosome, while dephosphorylation leads to nuclear accumulation of BZR1 [].
Probab=39.56 E-value=33 Score=27.19 Aligned_cols=23 Identities=22% Similarity=0.242 Sum_probs=18.6
Q ss_pred hhhhhhhHHHHhH---HHhHHHHHhc
Q 043478 94 FCEEHVSLDKRTK---NEKFMLLRSV 116 (145)
Q Consensus 94 ~~~~h~~~ERrRR---ne~f~~Lrsl 116 (145)
...++...||+|| ..-|.-||..
T Consensus 11 ErEnnk~RERrRRAIaakIfaGLR~~ 36 (150)
T PF05687_consen 11 ERENNKRRERRRRAIAAKIFAGLRAH 36 (150)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4556777999999 8888899975
No 22
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=38.06 E-value=26 Score=28.21 Aligned_cols=42 Identities=19% Similarity=0.247 Sum_probs=26.9
Q ss_pred HHHHhH-HHhHHHHHhcCCCCC--Ccch---hhhHHHHHHHHHHHHHH
Q 043478 101 LDKRTK-NEKFMLLRSVVPYIS--EVDK---ASILNDTIKYLKRLKAR 142 (145)
Q Consensus 101 ~ERrRR-ne~f~~LrslvP~~~--K~dK---aSIL~daI~Yik~Lq~~ 142 (145)
.-|.|| |+.|..|+.|+|+.. ++.+ ..|=.+-|..+.+||.+
T Consensus 31 ~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE~q~q 78 (173)
T KOG4447|consen 31 RGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDELQKQ 78 (173)
T ss_pred HhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHHHHHH
Confidence 344555 999999999999773 2222 23345666666666654
No 23
>PRK13847 conjugal transfer protein TraD; Provisional
Probab=33.67 E-value=66 Score=22.50 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=29.4
Q ss_pred hHHHHhHHHhHHHHHhcCC--CCCCcchhhhHHHHHHHHHHH
Q 043478 100 SLDKRTKNEKFMLLRSVVP--YISEVDKASILNDTIKYLKRL 139 (145)
Q Consensus 100 ~~ERrRRne~f~~LrslvP--~~~K~dKaSIL~daI~Yik~L 139 (145)
..|||+|-.....|--||- +++..|+|.||+-=|.--..|
T Consensus 7 ~~~RkkdTR~kIeLGGLVVKAGL~~~dra~llGaLl~~a~~L 48 (71)
T PRK13847 7 SDARKKDTREKIELGGLIVKAGLRYEKRALLLGALIDAGRRI 48 (71)
T ss_pred hHHHHHHHHHHHHhcceeeecCCCCccHHHHHHHHHHHHHHh
Confidence 4588888666778888885 458899999998766644445
No 24
>PLN02705 beta-amylase
Probab=23.53 E-value=87 Score=30.25 Aligned_cols=27 Identities=19% Similarity=0.149 Sum_probs=19.4
Q ss_pred cccchhhhhhhHHHHhH---HHhHHHHHhc
Q 043478 90 ESENFCEEHVSLDKRTK---NEKFMLLRSV 116 (145)
Q Consensus 90 ~~~~~~~~h~~~ERrRR---ne~f~~Lrsl 116 (145)
+......++...||||| ..-|.-||..
T Consensus 80 ~~~~e~e~~~~rer~rrai~~ki~aglr~~ 109 (681)
T PLN02705 80 EREKEKERTKLRERHRRAITSRMLAGLRQY 109 (681)
T ss_pred cchhhhhhhHHHHHHHHHHHHHHHHHHHhc
Confidence 34445678889999999 6666667764
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=23.13 E-value=53 Score=25.91 Aligned_cols=33 Identities=15% Similarity=0.225 Sum_probs=25.0
Q ss_pred HHhHHHHHhcCCCCCCcchhhhHHHHHHHHHHH
Q 043478 107 NEKFMLLRSVVPYISEVDKASILNDTIKYLKRL 139 (145)
Q Consensus 107 ne~f~~LrslvP~~~K~dKaSIL~daI~Yik~L 139 (145)
-+|+.+|+.++|.....-=.+...-+..++|.+
T Consensus 52 ~ERi~ALkDm~Pp~~R~~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 52 TDRIYALKDIVPPTTRGWIYHKYSTTTNFVKST 84 (145)
T ss_pred HHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 458999999999876655566677777777765
No 26
>PRK12787 fliX flagellar assembly regulator FliX; Reviewed
Probab=22.78 E-value=61 Score=25.30 Aligned_cols=9 Identities=11% Similarity=0.342 Sum_probs=7.1
Q ss_pred hhhHHHHhH
Q 043478 98 HVSLDKRTK 106 (145)
Q Consensus 98 h~~~ERrRR 106 (145)
-...|||||
T Consensus 61 dd~~eRRrR 69 (138)
T PRK12787 61 EDPTERRRR 69 (138)
T ss_pred cchHHHHHH
Confidence 357799999
No 27
>PF06412 TraD: Conjugal transfer protein TraD; InterPro: IPR009444 This family consists of a group of TraD conjugal transfer proteins found primarily, though not exclusively, in the alphaproteobacteria [].; GO: 0000746 conjugation
Probab=21.66 E-value=1.3e+02 Score=20.04 Aligned_cols=39 Identities=15% Similarity=0.313 Sum_probs=28.5
Q ss_pred HHHHhHHHhHHHHHhcCC--CCCCcchhhhHHHHHHHHHHH
Q 043478 101 LDKRTKNEKFMLLRSVVP--YISEVDKASILNDTIKYLKRL 139 (145)
Q Consensus 101 ~ERrRRne~f~~LrslvP--~~~K~dKaSIL~daI~Yik~L 139 (145)
.+|+.|..+...|-.||- ++...|++.||+-=+..-..+
T Consensus 4 ~~Rk~rtr~~i~lGgLV~kAGl~~~d~~~LlG~Ll~~~~~~ 44 (65)
T PF06412_consen 4 KARKARTRRKIQLGGLVIKAGLDDLDRAELLGALLEAAELL 44 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhc
Confidence 467777788888888885 558899999998655554433
No 28
>cd07977 TFIIE_beta_winged_helix TFIIE_beta_winged_helix domain, located at the central core region of TFIIE beta, with double-stranded DNA binding activity. Transcription Factor IIE (TFIIE) beta winged-helix (or forkhead) domain is located at the central core region of TFIIE beta. The winged-helix is a form of helix-turn-helix (HTH) domain which typically binds DNA with the 3rd helix. The winged-helix domain is distinguished by the presence of a C-terminal beta-strand hairpin unit (the wing) that packs against the cleft of the tri-helical core. Although most winged-helix domains are multi-member families, TFIIE beta winged-helix domain is typically found as a single orthologous group. TFIIE is one of the six eukaryotic general transcription factors (TFIIA, TFIIB, TFIID, TFIIE, TFIIF and TFIIH) that are required for transcription initiation of protein-coding genes. TFIIE is a heterotetramer consisting of two copies each of alpha and beta subunits. TFIIE beta contains several functional
Probab=21.24 E-value=88 Score=21.51 Aligned_cols=19 Identities=21% Similarity=0.333 Sum_probs=14.7
Q ss_pred CCcchhhhHHHHHHHHHHH
Q 043478 121 SEVDKASILNDTIKYLKRL 139 (145)
Q Consensus 121 ~K~dKaSIL~daI~Yik~L 139 (145)
+...+.+.|..||+|||+-
T Consensus 3 ~g~~~~t~l~~aV~ymK~r 21 (75)
T cd07977 3 SGTHVFTQLAKIVDYMKKR 21 (75)
T ss_pred CCcchhhhHHHHHHHHHhc
Confidence 3456788999999999863
Done!