Query 012246
Match_columns 467
No_of_seqs 288 out of 1187
Neff 4.1
Searched_HMMs 46136
Date Fri Mar 29 00:36:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012246.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012246hhsearch_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 3.2E-13 7E-18 103.1 6.4 54 220-273 4-60 (60)
2 PF00010 HLH: Helix-loop-helix 99.4 4.1E-13 8.8E-18 102.5 5.4 49 221-269 2-55 (55)
3 smart00353 HLH helix loop heli 99.3 4E-12 8.7E-17 95.5 6.8 49 225-273 1-52 (53)
4 KOG1318 Helix loop helix trans 99.2 1E-11 2.3E-16 129.3 5.8 60 215-274 228-291 (411)
5 KOG1319 bHLHZip transcription 99.0 2.1E-10 4.6E-15 109.1 3.9 56 222-277 64-126 (229)
6 KOG4304 Transcriptional repres 98.9 9.9E-10 2.2E-14 108.5 3.7 53 222-274 34-94 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.8 7.3E-09 1.6E-13 115.6 6.3 79 221-299 21-106 (803)
8 KOG2483 Upstream transcription 98.2 4.8E-06 1E-10 82.0 7.5 55 221-275 60-117 (232)
9 KOG2588 Predicted DNA-binding 98.0 1.8E-06 3.9E-11 97.5 2.3 57 221-277 277-334 (953)
10 KOG3960 Myogenic helix-loop-he 97.8 4.5E-05 9.7E-10 76.0 7.0 54 224-277 122-177 (284)
11 PLN03217 transcription factor 97.7 7.7E-05 1.7E-09 63.6 6.4 45 233-277 20-70 (93)
12 KOG0561 bHLH transcription fac 97.6 7.4E-05 1.6E-09 76.1 5.4 54 219-272 59-114 (373)
13 KOG4029 Transcription factor H 97.4 0.00016 3.5E-09 70.2 3.9 55 223-277 112-170 (228)
14 KOG3910 Helix loop helix trans 96.9 0.001 2.2E-08 71.6 4.5 57 221-277 527-587 (632)
15 KOG3560 Aryl-hydrocarbon recep 94.3 0.037 8E-07 60.7 3.7 39 229-267 34-76 (712)
16 KOG3898 Transcription factor N 94.2 0.1 2.2E-06 52.3 6.3 50 223-272 75-127 (254)
17 KOG4447 Transcription factor T 92.4 0.067 1.4E-06 50.5 1.6 52 222-273 80-133 (173)
18 KOG3558 Hypoxia-inducible fact 89.7 0.29 6.2E-06 55.3 3.5 46 222-267 48-97 (768)
19 KOG4395 Transcription factor A 85.0 1.6 3.4E-05 44.5 5.2 51 223-273 177-230 (285)
20 KOG3559 Transcriptional regula 84.0 0.98 2.1E-05 48.7 3.5 42 227-268 8-53 (598)
21 KOG3582 Mlx interactors and re 52.7 3.4 7.4E-05 47.1 -1.0 54 223-276 654-712 (856)
22 KOG4447 Transcription factor T 33.6 25 0.00054 33.7 1.7 49 227-275 29-79 (173)
23 PTZ00405 cytochrome c; Provisi 22.2 1.3E+02 0.0029 26.7 4.1 38 232-269 72-113 (114)
24 KOG1924 RhoA GTPase effector D 21.1 1.6E+02 0.0034 35.0 5.3 19 51-69 59-77 (1102)
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=99.42 E-value=3.2e-13 Score=103.12 Aligned_cols=54 Identities=50% Similarity=0.773 Sum_probs=50.1
Q ss_pred hhhhcchhhHHHHHHHHHHHHHHHhhCCCC---CCccHhHHHHHHHHHHHHHHHHHH
Q 012246 220 AAEVHNLSERRRRDRINEKMRALQELIPHC---NKTDKASMLDEAIEYLKSLQLQLQ 273 (467)
Q Consensus 220 a~~~H~~~ERrRRdrINe~~~~Lr~LVP~~---~KldKAsIL~~AIeYIK~LQ~qvq 273 (467)
.+..|+..||+||++||+.|..|+.+||.+ .|+||++||+.||+||+.|+.+++
T Consensus 4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 345799999999999999999999999998 789999999999999999998863
No 2
>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=99.39 E-value=4.1e-13 Score=102.47 Aligned_cols=49 Identities=55% Similarity=0.889 Sum_probs=46.2
Q ss_pred hhhcchhhHHHHHHHHHHHHHHHhhCCCC-----CCccHhHHHHHHHHHHHHHH
Q 012246 221 AEVHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASMLDEAIEYLKSLQ 269 (467)
Q Consensus 221 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~-----~KldKAsIL~~AIeYIK~LQ 269 (467)
+..|+..||+||++||+.|.+|+++||.+ .|++|++||+.||+||++||
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 35799999999999999999999999988 48999999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.32 E-value=4e-12 Score=95.52 Aligned_cols=49 Identities=53% Similarity=0.736 Sum_probs=45.6
Q ss_pred chhhHHHHHHHHHHHHHHHhhCCC---CCCccHhHHHHHHHHHHHHHHHHHH
Q 012246 225 NLSERRRRDRINEKMRALQELIPH---CNKTDKASMLDEAIEYLKSLQLQLQ 273 (467)
Q Consensus 225 ~~~ERrRRdrINe~~~~Lr~LVP~---~~KldKAsIL~~AIeYIK~LQ~qvq 273 (467)
+..||+||++||+.|..|+.+||. ..|++|++||.+||+||++|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKLSKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999999995 4589999999999999999999886
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.22 E-value=1e-11 Score=129.32 Aligned_cols=60 Identities=42% Similarity=0.758 Sum_probs=53.9
Q ss_pred cccchhhhhcchhhHHHHHHHHHHHHHHHhhCCCCC----CccHhHHHHHHHHHHHHHHHHHHH
Q 012246 215 CRRSRAAEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQLQV 274 (467)
Q Consensus 215 ~rr~ra~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~----KldKAsIL~~AIeYIK~LQ~qvq~ 274 (467)
.|.+++++.||++|||||++||++|++|..|||.|. |++|..||..+++||++||+..+.
T Consensus 228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~ 291 (411)
T KOG1318|consen 228 ERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQR 291 (411)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHH
Confidence 445556779999999999999999999999999995 788999999999999999988873
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.00 E-value=2.1e-10 Score=109.05 Aligned_cols=56 Identities=32% Similarity=0.542 Sum_probs=50.8
Q ss_pred hhcchhhHHHHHHHHHHHHHHHhhCCCCC-------CccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 222 EVHNLSERRRRDRINEKMRALQELIPHCN-------KTDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 222 ~~H~~~ERrRRdrINe~~~~Lr~LVP~~~-------KldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
+.|...|++|||-||..+..|++|||.|. |+.||.||.++|+||.+|+.++...+.
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~ 126 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEE 126 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36999999999999999999999999873 899999999999999999988776654
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.88 E-value=9.9e-10 Score=108.54 Aligned_cols=53 Identities=36% Similarity=0.543 Sum_probs=47.6
Q ss_pred hhcchhhHHHHHHHHHHHHHHHhhCCCC--------CCccHhHHHHHHHHHHHHHHHHHHH
Q 012246 222 EVHNLSERRRRDRINEKMRALQELIPHC--------NKTDKASMLDEAIEYLKSLQLQLQV 274 (467)
Q Consensus 222 ~~H~~~ERrRRdrINe~~~~Lr~LVP~~--------~KldKAsIL~~AIeYIK~LQ~qvq~ 274 (467)
..|-++|||||+|||+.|.+|++||+.+ .|++||.||+.||+|||.|+...+.
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 3688999999999999999999999955 5899999999999999999877654
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.77 E-value=7.3e-09 Score=115.64 Aligned_cols=79 Identities=25% Similarity=0.386 Sum_probs=62.5
Q ss_pred hhhcchhhHHHHHHHHHHHHHHHhhCCCCC----CccHhHHHHHHHHHHHHHHHHH-HHHhcCCCCCCCCc--chhhhHH
Q 012246 221 AEVHNLSERRRRDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQLQL-QVMWMGSGMAPLMF--PGMQHYM 293 (467)
Q Consensus 221 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~----KldKAsIL~~AIeYIK~LQ~qv-q~L~~~~~~~P~~~--p~~~~~~ 293 (467)
+++|+.+||||||++|..|.+|.+|||.|. |+||.+||.+||++||.+++.- ..-+.+..+.|.++ +.|.++|
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~~~~~~~~~~d~KpSflS~~eL~~Lm 100 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQESENSSIDQDYKPSFLSNDELTHLI 100 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhhhcccccccccccccccchHHHHHHH
Confidence 568999999999999999999999999985 9999999999999999988863 22233455667666 3566666
Q ss_pred hhhcCC
Q 012246 294 SRMGMG 299 (467)
Q Consensus 294 ~~~~~~ 299 (467)
.....|
T Consensus 101 LeAlDG 106 (803)
T KOG3561|consen 101 LEALDG 106 (803)
T ss_pred HHHhcC
Confidence 554433
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.16 E-value=4.8e-06 Score=81.95 Aligned_cols=55 Identities=29% Similarity=0.465 Sum_probs=47.5
Q ss_pred hhhcchhhHHHHHHHHHHHHHHHhhCCCCC--Cc-cHhHHHHHHHHHHHHHHHHHHHH
Q 012246 221 AEVHNLSERRRRDRINEKMRALQELIPHCN--KT-DKASMLDEAIEYLKSLQLQLQVM 275 (467)
Q Consensus 221 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~--Kl-dKAsIL~~AIeYIK~LQ~qvq~L 275 (467)
+..||..||+||+.|.++|..|+.+||... |. ..++||++|++||+.|+.+....
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~ 117 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQ 117 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHH
Confidence 458999999999999999999999999764 33 37999999999999998776543
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.05 E-value=1.8e-06 Score=97.54 Aligned_cols=57 Identities=35% Similarity=0.575 Sum_probs=52.0
Q ss_pred hhhcchhhHHHHHHHHHHHHHHHhhCCCCC-CccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 221 AEVHNLSERRRRDRINEKMRALQELIPHCN-KTDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 221 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~-KldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
+.+||++|||.|..||++|.+|+.+||+.. |+.|..+|.+||+||++|+...+.+-.
T Consensus 277 RtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~ 334 (953)
T KOG2588|consen 277 RTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKL 334 (953)
T ss_pred cchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccch
Confidence 457999999999999999999999999875 999999999999999999988776653
No 10
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.80 E-value=4.5e-05 Score=75.96 Aligned_cols=54 Identities=31% Similarity=0.423 Sum_probs=47.5
Q ss_pred cchhhHHHHHHHHHHHHHHHhh-CCCCC-CccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 224 HNLSERRRRDRINEKMRALQEL-IPHCN-KTDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 224 H~~~ERrRRdrINe~~~~Lr~L-VP~~~-KldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
-.+.||||=.|+||.|.+|+.- +++-+ .+-|..||..||+||+.||.-++++..
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~ 177 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQ 177 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4689999999999999999875 45544 689999999999999999999998874
No 11
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.74 E-value=7.7e-05 Score=63.64 Aligned_cols=45 Identities=27% Similarity=0.516 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHhhCCCC------CCccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 233 DRINEKMRALQELIPHC------NKTDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 233 drINe~~~~Lr~LVP~~------~KldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
|.||+.+..|+.|+|.. .|..-+-||++|+.||+.|+.+|..|+.
T Consensus 20 dqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSe 70 (93)
T PLN03217 20 DQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSE 70 (93)
T ss_pred HHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999964 4677888999999999999999999984
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.62 E-value=7.4e-05 Score=76.10 Aligned_cols=54 Identities=31% Similarity=0.521 Sum_probs=47.6
Q ss_pred hhhhhcchhhHHHHHHHHHHHHHHHhhCCCC--CCccHhHHHHHHHHHHHHHHHHH
Q 012246 219 RAAEVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQL 272 (467)
Q Consensus 219 ra~~~H~~~ERrRRdrINe~~~~Lr~LVP~~--~KldKAsIL~~AIeYIK~LQ~qv 272 (467)
-.++.-|--||||=.-||..|..||.|+|.. .|++||.||+.+.+||..|+.+-
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~K 114 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHK 114 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcc
Confidence 3455678889999999999999999999975 59999999999999999997654
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.36 E-value=0.00016 Score=70.15 Aligned_cols=55 Identities=27% Similarity=0.378 Sum_probs=49.1
Q ss_pred hcchhhHHHHHHHHHHHHHHHhhCCC----CCCccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 223 VHNLSERRRRDRINEKMRALQELIPH----CNKTDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 223 ~H~~~ERrRRdrINe~~~~Lr~LVP~----~~KldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
.+|..||.|=..+|..|..||.+||. .+|+.|..+|..||.||++|+.-++.-..
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~ 170 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEA 170 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccccc
Confidence 46777999999999999999999994 45899999999999999999998887664
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.86 E-value=0.001 Score=71.64 Aligned_cols=57 Identities=26% Similarity=0.298 Sum_probs=48.1
Q ss_pred hhhcchhhHHHHHHHHHHHHHHHhhCCCCCC----ccHhHHHHHHHHHHHHHHHHHHHHhc
Q 012246 221 AEVHNLSERRRRDRINEKMRALQELIPHCNK----TDKASMLDEAIEYLKSLQLQLQVMWM 277 (467)
Q Consensus 221 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~K----ldKAsIL~~AIeYIK~LQ~qvq~L~~ 277 (467)
+...|..||.|=..|||.|++|-++.-..-| -.|..||..||.-|-.|++||.+--+
T Consensus 527 R~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERNL 587 (632)
T KOG3910|consen 527 RMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERNL 587 (632)
T ss_pred HhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHccC
Confidence 3458899999999999999999998764433 35999999999999999999997543
No 15
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=94.34 E-value=0.037 Score=60.75 Aligned_cols=39 Identities=38% Similarity=0.692 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHHHhhCCC----CCCccHhHHHHHHHHHHHH
Q 012246 229 RRRRDRINEKMRALQELIPH----CNKTDKASMLDEAIEYLKS 267 (467)
Q Consensus 229 RrRRdrINe~~~~Lr~LVP~----~~KldKAsIL~~AIeYIK~ 267 (467)
||-|||+|..++.|..|+|- ++|+||.+||.-+|.||+.
T Consensus 34 KRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV 76 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence 67799999999999999995 4799999999999999873
No 16
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=94.22 E-value=0.1 Score=52.28 Aligned_cols=50 Identities=36% Similarity=0.484 Sum_probs=43.2
Q ss_pred hcchhhHHHHHHHHHHHHHHHhhCCC---CCCccHhHHHHHHHHHHHHHHHHH
Q 012246 223 VHNLSERRRRDRINEKMRALQELIPH---CNKTDKASMLDEAIEYLKSLQLQL 272 (467)
Q Consensus 223 ~H~~~ERrRRdrINe~~~~Lr~LVP~---~~KldKAsIL~~AIeYIK~LQ~qv 272 (467)
.=|.-||+|=-.+|+.|+.||++||. ..|+.|+..|.-|-+||..|++-.
T Consensus 75 kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~ 127 (254)
T KOG3898|consen 75 KANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVL 127 (254)
T ss_pred cccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcccc
Confidence 45778998889999999999999994 358999999999999999887543
No 17
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=92.36 E-value=0.067 Score=50.49 Aligned_cols=52 Identities=35% Similarity=0.490 Sum_probs=46.4
Q ss_pred hhcchhhHHHHHHHHHHHHHHHhhCCCC--CCccHhHHHHHHHHHHHHHHHHHH
Q 012246 222 EVHNLSERRRRDRINEKMRALQELIPHC--NKTDKASMLDEAIEYLKSLQLQLQ 273 (467)
Q Consensus 222 ~~H~~~ERrRRdrINe~~~~Lr~LVP~~--~KldKAsIL~~AIeYIK~LQ~qvq 273 (467)
-.||+-||+|-..+|+.|.+||.++|.. +|++|.--|.-|..||-+|=+-++
T Consensus 80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~vl~ 133 (173)
T KOG4447|consen 80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQ 133 (173)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhccc
Confidence 3699999999999999999999999975 699999999999999998865443
No 18
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.73 E-value=0.29 Score=55.26 Aligned_cols=46 Identities=35% Similarity=0.496 Sum_probs=39.0
Q ss_pred hhcchhhHHHHHHHHHHHHHHHhhCCCC----CCccHhHHHHHHHHHHHH
Q 012246 222 EVHNLSERRRRDRINEKMRALQELIPHC----NKTDKASMLDEAIEYLKS 267 (467)
Q Consensus 222 ~~H~~~ERrRRdrINe~~~~Lr~LVP~~----~KldKAsIL~~AIeYIK~ 267 (467)
+.-.-+.|.||-|-|+-|.+|..+||-- ..+|||+|+.-||-|+|-
T Consensus 48 EkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 48 EKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 3344567899999999999999999943 369999999999999984
No 19
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=85.00 E-value=1.6 Score=44.46 Aligned_cols=51 Identities=29% Similarity=0.405 Sum_probs=45.2
Q ss_pred hcchhhHHHHHHHHHHHHHHHhhCCCCC---CccHhHHHHHHHHHHHHHHHHHH
Q 012246 223 VHNLSERRRRDRINEKMRALQELIPHCN---KTDKASMLDEAIEYLKSLQLQLQ 273 (467)
Q Consensus 223 ~H~~~ERrRRdrINe~~~~Lr~LVP~~~---KldKAsIL~~AIeYIK~LQ~qvq 273 (467)
.-|..||+|=..+|..|+.||.+||..+ |++|-..|.+|-.||--|-..++
T Consensus 177 aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 177 AANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred ccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 5789999999999999999999999764 78999999999999998866554
No 20
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=84.00 E-value=0.98 Score=48.66 Aligned_cols=42 Identities=33% Similarity=0.518 Sum_probs=37.3
Q ss_pred hhHHHHHHHHHHHHHHHhhCCCC----CCccHhHHHHHHHHHHHHH
Q 012246 227 SERRRRDRINEKMRALQELIPHC----NKTDKASMLDEAIEYLKSL 268 (467)
Q Consensus 227 ~ERrRRdrINe~~~~Lr~LVP~~----~KldKAsIL~~AIeYIK~L 268 (467)
..|.||++-|-.|.+|..++|-. ..+||++|+.-|..|||.-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 45899999999999999999965 3699999999999999953
No 21
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=52.72 E-value=3.4 Score=47.14 Aligned_cols=54 Identities=22% Similarity=0.325 Sum_probs=46.7
Q ss_pred hcchhhHHHHHHHHHHHHHHHhhCCCCC-----CccHhHHHHHHHHHHHHHHHHHHHHh
Q 012246 223 VHNLSERRRRDRINEKMRALQELIPHCN-----KTDKASMLDEAIEYLKSLQLQLQVMW 276 (467)
Q Consensus 223 ~H~~~ERrRRdrINe~~~~Lr~LVP~~~-----KldKAsIL~~AIeYIK~LQ~qvq~L~ 276 (467)
.|.-+|.+||.+|.-.+..|-.++-+.. |+.++.-|.++++||..++.+...+.
T Consensus 654 t~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~ 712 (856)
T KOG3582|consen 654 THISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQ 712 (856)
T ss_pred cCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccc
Confidence 5999999999999999999999998754 67788889999999999987765543
No 22
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=33.61 E-value=25 Score=33.69 Aligned_cols=49 Identities=20% Similarity=0.243 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHHHHHHhhCCCCC--CccHhHHHHHHHHHHHHHHHHHHHH
Q 012246 227 SERRRRDRINEKMRALQELIPHCN--KTDKASMLDEAIEYLKSLQLQLQVM 275 (467)
Q Consensus 227 ~ERrRRdrINe~~~~Lr~LVP~~~--KldKAsIL~~AIeYIK~LQ~qvq~L 275 (467)
.|+-|..++|+.+.-|+.|+|+.. ++.+.--|..+.+||.+|.+--+.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE~q~qr 79 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDELQKQR 79 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHHHHHHH
Confidence 578888999999999999999763 4444444777777777765544443
No 23
>PTZ00405 cytochrome c; Provisional
Probab=22.23 E-value=1.3e+02 Score=26.72 Aligned_cols=38 Identities=16% Similarity=0.351 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHhhCCCCC----CccHhHHHHHHHHHHHHHH
Q 012246 232 RDRINEKMRALQELIPHCN----KTDKASMLDEAIEYLKSLQ 269 (467)
Q Consensus 232 RdrINe~~~~Lr~LVP~~~----KldKAsIL~~AIeYIK~LQ 269 (467)
.+.|...|..=+.++|+.. .+.+..-++..|.||++|+
T Consensus 72 ~~~L~~~l~~P~~~~pgt~M~f~gl~~~~dr~~liaYL~sl~ 113 (114)
T PTZ00405 72 PEVLDVYLENPKKFMPGTKMSFAGIKKPQERADVIAYLETLK 113 (114)
T ss_pred HHHHHHHHHCHHhhCCCCCCCCCCCCCHHHHHHHHHHHHHhc
Confidence 4678888888889999543 4567788889999999986
No 24
>KOG1924 consensus RhoA GTPase effector DIA/Diaphanous [Signal transduction mechanisms; Cytoskeleton]
Probab=21.10 E-value=1.6e+02 Score=35.01 Aligned_cols=19 Identities=11% Similarity=0.184 Sum_probs=9.0
Q ss_pred CCCCCCCCCCCCCCccccc
Q 012246 51 EVHDAAPQNKNLGDLGKLV 69 (467)
Q Consensus 51 ~~~~~~~~~~~~gg~~~~~ 69 (467)
|+++++..+.+.++-.+.-
T Consensus 59 H~~~ss~sn~d~pt~q~~q 77 (1102)
T KOG1924|consen 59 HLRSSSASNNDYPTAQGLQ 77 (1102)
T ss_pred cCCCccccccCCcccccHH
Confidence 3444444455555444433
Done!