Query 015639
Match_columns 403
No_of_seqs 204 out of 1190
Neff 4.4
Searched_HMMs 46136
Date Fri Mar 29 08:11:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015639.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015639hhsearch_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 6.1E-13 1.3E-17 100.0 6.1 54 310-363 4-60 (60)
2 PF00010 HLH: Helix-loop-helix 99.4 4.3E-13 9.4E-18 100.6 5.1 49 311-359 2-55 (55)
3 smart00353 HLH helix loop heli 99.3 5.3E-12 1.2E-16 93.3 6.6 49 315-363 1-52 (53)
4 KOG3561 Aryl-hydrocarbon recep 99.3 3.6E-12 7.9E-17 139.2 5.6 91 311-402 21-118 (803)
5 KOG1318 Helix loop helix trans 99.2 3.2E-11 6.9E-16 123.7 6.1 60 305-364 228-291 (411)
6 KOG1319 bHLHZip transcription 98.9 5.4E-10 1.2E-14 104.4 4.0 61 308-368 60-127 (229)
7 KOG4304 Transcriptional repres 98.8 2E-09 4.3E-14 104.7 4.2 59 308-366 30-96 (250)
8 KOG2483 Upstream transcription 98.1 5.5E-06 1.2E-10 80.2 6.4 53 310-362 59-114 (232)
9 KOG2588 Predicted DNA-binding 98.1 1.7E-06 3.8E-11 96.1 2.3 62 308-369 274-336 (953)
10 KOG0561 bHLH transcription fac 97.9 1.3E-05 2.8E-10 80.1 5.3 58 309-366 59-118 (373)
11 KOG3960 Myogenic helix-loop-he 97.9 3.8E-05 8.2E-10 75.1 7.6 54 314-367 122-177 (284)
12 KOG4029 Transcription factor H 97.7 3.3E-05 7.1E-10 73.7 4.3 59 311-369 110-172 (228)
13 PLN03217 transcription factor 97.5 9.3E-05 2E-09 61.9 3.7 48 322-369 19-72 (93)
14 KOG3910 Helix loop helix trans 97.3 0.00029 6.3E-09 74.4 5.1 58 308-365 524-585 (632)
15 KOG3898 Transcription factor N 94.9 0.043 9.3E-07 53.9 5.4 52 311-362 73-127 (254)
16 KOG4447 Transcription factor T 94.8 0.015 3.2E-07 53.7 1.7 51 313-363 81-133 (173)
17 KOG4395 Transcription factor A 91.5 0.58 1.2E-05 46.5 6.9 59 311-369 175-236 (285)
18 KOG3558 Hypoxia-inducible fact 91.1 0.25 5.5E-06 54.7 4.4 41 316-356 52-96 (768)
19 KOG3560 Aryl-hydrocarbon recep 88.7 0.47 1E-05 51.6 4.1 38 319-356 34-75 (712)
20 KOG3559 Transcriptional regula 85.0 0.85 1.8E-05 48.2 3.6 42 317-358 8-53 (598)
21 KOG3582 Mlx interactors and re 54.4 3.5 7.6E-05 46.2 -0.6 56 311-366 652-712 (856)
22 KOG4447 Transcription factor T 43.1 16 0.00035 34.2 1.9 42 317-358 29-72 (173)
23 COG1244 Predicted Fe-S oxidore 34.5 20 0.00044 37.2 1.4 23 2-24 239-261 (358)
24 PF03965 Penicillinase_R: Peni 31.5 15 0.00033 31.2 -0.1 18 12-30 5-22 (115)
25 PF00778 DIX: DIX domain; Int 27.2 41 0.00089 28.2 1.7 22 4-27 57-78 (84)
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=6.1e-13 Score=99.99 Aligned_cols=54 Identities=48% Similarity=0.755 Sum_probs=50.1
Q ss_pred hhhccChHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHHHHH
Q 015639 310 AAEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQLQVQ 363 (403)
Q Consensus 310 a~~~H~~~ERrRRekIne~~~~Lr~LVP~~---~K~dKAsIL~~AIeYIK~LQ~qvq 363 (403)
.+..|+..||+||++||+.|..|+.+||.. .|+||++||+.||+||++|+.+++
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 355799999999999999999999999998 799999999999999999998763
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=4.3e-13 Score=100.61 Aligned_cols=49 Identities=55% Similarity=0.883 Sum_probs=46.2
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCC-----CCCchhhhHHHHHHHHHHHH
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRC-----NKSDKASMLDEAIEYLKSLQ 359 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~-----~K~dKAsIL~~AIeYIK~LQ 359 (403)
+..|+..||+||++||+.|.+|+.+||.+ .|++|++||+.||+||++||
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 45699999999999999999999999988 48999999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.30 E-value=5.3e-12 Score=93.30 Aligned_cols=49 Identities=51% Similarity=0.716 Sum_probs=45.6
Q ss_pred ChHHHHHHHHHHHHHHHHHhccCC---CCCCchhhhHHHHHHHHHHHHHHHH
Q 015639 315 NLSERRRRDRINEKMRALQELIPR---CNKSDKASMLDEAIEYLKSLQLQVQ 363 (403)
Q Consensus 315 ~~~ERrRRekIne~~~~Lr~LVP~---~~K~dKAsIL~~AIeYIK~LQ~qvq 363 (403)
+..||+||++||++|..|+.+||. ..|++|++||.+||+||++|+.+++
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 5589999999999999999999886
No 4
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=99.26 E-value=3.6e-12 Score=139.24 Aligned_cols=91 Identities=23% Similarity=0.316 Sum_probs=79.4
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCCC----CCchhhhHHHHHHHHHHHHHHH-HHhccCCCCCCCCCc--hhhhcc
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRCN----KSDKASMLDEAIEYLKSLQLQV-QMMSMGCGVVPMMFP--GVQQYM 383 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~~----K~dKAsIL~~AIeYIK~LQ~qv-q~Ls~~~~~~P~~~~--~~~~~m 383 (403)
++.|+.+||||||++|..|++|.+|||.|. |+||.+||++||.+||.+++.- ..-+.+-...|.++. +++|||
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 678999999999999999999999999984 9999999999999999888763 223334456788886 799999
Q ss_pred ccccccccccccCcccccc
Q 015639 384 PNMGMGIGMGMGMGRAWIW 402 (403)
Q Consensus 384 ~~mg~gm~~~~g~~~~~i~ 402 (403)
+.+..||-|+++|+ |+|.
T Consensus 101 LeAlDGF~fvV~cd-G~Iv 118 (803)
T KOG3561|consen 101 LEALDGFLFVVNCD-GRIV 118 (803)
T ss_pred HHHhcCeEEEEecC-ceEE
Confidence 99999999999999 9984
No 5
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.16 E-value=3.2e-11 Score=123.70 Aligned_cols=60 Identities=40% Similarity=0.769 Sum_probs=53.2
Q ss_pred ccchhhhhccChHHHHHHHHHHHHHHHHHhccCCCC----CCchhhhHHHHHHHHHHHHHHHHH
Q 015639 305 AKRSRAAEVHNLSERRRRDRINEKMRALQELIPRCN----KSDKASMLDEAIEYLKSLQLQVQM 364 (403)
Q Consensus 305 ~kr~~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~~----K~dKAsIL~~AIeYIK~LQ~qvq~ 364 (403)
.|.+++|..||++|||||++||++|++|..|||.|+ |..|..||..+++||+.||+..++
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 344556778999999999999999999999999995 778999999999999999887663
No 6
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.94 E-value=5.4e-10 Score=104.39 Aligned_cols=61 Identities=31% Similarity=0.540 Sum_probs=53.4
Q ss_pred hhhhhccChHHHHHHHHHHHHHHHHHhccCCCC-------CCchhhhHHHHHHHHHHHHHHHHHhccC
Q 015639 308 SRAAEVHNLSERRRRDRINEKMRALQELIPRCN-------KSDKASMLDEAIEYLKSLQLQVQMMSMG 368 (403)
Q Consensus 308 ~~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~~-------K~dKAsIL~~AIeYIK~LQ~qvq~Ls~~ 368 (403)
.+++..|...||+||+-||.++..|+.|||.|. |+.||.||.++|+||.+|+.++.+-+.+
T Consensus 60 ~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e 127 (229)
T KOG1319|consen 60 DRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEE 127 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567999999999999999999999999884 8899999999999999998877665543
No 7
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.84 E-value=2e-09 Score=104.69 Aligned_cols=59 Identities=32% Similarity=0.468 Sum_probs=50.5
Q ss_pred hhhhhccChHHHHHHHHHHHHHHHHHhccCCC--------CCCchhhhHHHHHHHHHHHHHHHHHhc
Q 015639 308 SRAAEVHNLSERRRRDRINEKMRALQELIPRC--------NKSDKASMLDEAIEYLKSLQLQVQMMS 366 (403)
Q Consensus 308 ~~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~--------~K~dKAsIL~~AIeYIK~LQ~qvq~Ls 366 (403)
..++..|-++|||||+|||+++.+|++||+.+ .|++||.||+.||+|+|.||.....--
T Consensus 30 ~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~~ 96 (250)
T KOG4304|consen 30 QYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAAA 96 (250)
T ss_pred HHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccccc
Confidence 33455689999999999999999999999955 488999999999999999987654433
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.10 E-value=5.5e-06 Score=80.18 Aligned_cols=53 Identities=30% Similarity=0.502 Sum_probs=46.0
Q ss_pred hhhccChHHHHHHHHHHHHHHHHHhccCCCC--CC-chhhhHHHHHHHHHHHHHHH
Q 015639 310 AAEVHNLSERRRRDRINEKMRALQELIPRCN--KS-DKASMLDEAIEYLKSLQLQV 362 (403)
Q Consensus 310 a~~~H~~~ERrRRekIne~~~~Lr~LVP~~~--K~-dKAsIL~~AIeYIK~LQ~qv 362 (403)
.+..||..||+||+.|+++|..|+.+||... |. ..++||++|++||+.|+.+.
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~ 114 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKS 114 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHH
Confidence 4567999999999999999999999999874 33 37999999999999997654
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.05 E-value=1.7e-06 Score=96.08 Aligned_cols=62 Identities=32% Similarity=0.540 Sum_probs=55.3
Q ss_pred hhhhhccChHHHHHHHHHHHHHHHHHhccCCCC-CCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 015639 308 SRAAEVHNLSERRRRDRINEKMRALQELIPRCN-KSDKASMLDEAIEYLKSLQLQVQMMSMGC 369 (403)
Q Consensus 308 ~~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~~-K~dKAsIL~~AIeYIK~LQ~qvq~Ls~~~ 369 (403)
+..|.+||.+|||.|-.||++|.+|+++||+.. |+.|..+|..||+||++|+...+.|...+
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 344668999999999999999999999999875 99999999999999999999888776543
No 10
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.91 E-value=1.3e-05 Score=80.08 Aligned_cols=58 Identities=31% Similarity=0.499 Sum_probs=51.0
Q ss_pred hhhhccChHHHHHHHHHHHHHHHHHhccCCC--CCCchhhhHHHHHHHHHHHHHHHHHhc
Q 015639 309 RAAEVHNLSERRRRDRINEKMRALQELIPRC--NKSDKASMLDEAIEYLKSLQLQVQMMS 366 (403)
Q Consensus 309 ~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~--~K~dKAsIL~~AIeYIK~LQ~qvq~Ls 366 (403)
-+++.-|..||||-.-||.+|..||.|||.. .|++||.||+.+.+||.+|..+.-+|-
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll 118 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELL 118 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccc
Confidence 4567789999999999999999999999986 599999999999999999977654443
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.87 E-value=3.8e-05 Score=75.07 Aligned_cols=54 Identities=30% Similarity=0.434 Sum_probs=47.8
Q ss_pred cChHHHHHHHHHHHHHHHHHhc-cCCCC-CCchhhhHHHHHHHHHHHHHHHHHhcc
Q 015639 314 HNLSERRRRDRINEKMRALQEL-IPRCN-KSDKASMLDEAIEYLKSLQLQVQMMSM 367 (403)
Q Consensus 314 H~~~ERrRRekIne~~~~Lr~L-VP~~~-K~dKAsIL~~AIeYIK~LQ~qvq~Ls~ 367 (403)
-.+.||||=.|+||.|..|+.- .++.+ ++-|+.||..||+||..||.-++++..
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~ 177 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQ 177 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4689999999999999999875 55554 789999999999999999999988875
No 12
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.71 E-value=3.3e-05 Score=73.70 Aligned_cols=59 Identities=24% Similarity=0.330 Sum_probs=51.8
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLKSLQLQVQMMSMGC 369 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~----~K~dKAsIL~~AIeYIK~LQ~qvq~Ls~~~ 369 (403)
+..+|..||.|-..+|..|.+||.+||.. .|++|..+|..||.||++|+.-++.-+...
T Consensus 110 ~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 110 RQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 34578889999999999999999999953 589999999999999999999988777543
No 13
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.51 E-value=9.3e-05 Score=61.87 Aligned_cols=48 Identities=29% Similarity=0.511 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHhccCCC------CCCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 015639 322 RDRINEKMRALQELIPRC------NKSDKASMLDEAIEYLKSLQLQVQMMSMGC 369 (403)
Q Consensus 322 RekIne~~~~Lr~LVP~~------~K~dKAsIL~~AIeYIK~LQ~qvq~Ls~~~ 369 (403)
-+.|++.+..||.|+|.. .|..-+-||++|+.||+.|+.+|..|++.+
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerL 72 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERL 72 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 478999999999999964 366778899999999999999999999755
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=97.29 E-value=0.00029 Score=74.37 Aligned_cols=58 Identities=29% Similarity=0.316 Sum_probs=49.7
Q ss_pred hhhhhccChHHHHHHHHHHHHHHHHHhccCCCCCC----chhhhHHHHHHHHHHHHHHHHHh
Q 015639 308 SRAAEVHNLSERRRRDRINEKMRALQELIPRCNKS----DKASMLDEAIEYLKSLQLQVQMM 365 (403)
Q Consensus 308 ~~a~~~H~~~ERrRRekIne~~~~Lr~LVP~~~K~----dKAsIL~~AIeYIK~LQ~qvq~L 365 (403)
+.+|...|..||.|-..|||.|++|..+.--.-|. .|.-||..||..|-.|++||++-
T Consensus 524 kERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 524 KERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 34567799999999999999999999987655444 58999999999999999999753
No 15
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=94.90 E-value=0.043 Score=53.93 Aligned_cols=52 Identities=31% Similarity=0.397 Sum_probs=45.2
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHHHH
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQLQV 362 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~---~K~dKAsIL~~AIeYIK~LQ~qv 362 (403)
+..=|..||+|--.+|+.|+.||.+||.. .|+.|+..|.-|-+||..|++-.
T Consensus 73 R~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~~~ 127 (254)
T KOG3898|consen 73 RLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSEVL 127 (254)
T ss_pred cccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcccc
Confidence 34467899999999999999999999954 58999999999999999998543
No 16
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=94.78 E-value=0.015 Score=53.70 Aligned_cols=51 Identities=33% Similarity=0.493 Sum_probs=46.4
Q ss_pred ccChHHHHHHHHHHHHHHHHHhccCCC--CCCchhhhHHHHHHHHHHHHHHHH
Q 015639 313 VHNLSERRRRDRINEKMRALQELIPRC--NKSDKASMLDEAIEYLKSLQLQVQ 363 (403)
Q Consensus 313 ~H~~~ERrRRekIne~~~~Lr~LVP~~--~K~dKAsIL~~AIeYIK~LQ~qvq 363 (403)
-||+.||+|-..+|+.|..||.+||.. .|++|.-.|+-|..||.+|-+-.+
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~vl~ 133 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQVLQ 133 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhccc
Confidence 499999999999999999999999975 699999999999999999965443
No 17
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=91.46 E-value=0.58 Score=46.54 Aligned_cols=59 Identities=25% Similarity=0.318 Sum_probs=49.4
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQLQVQMMSMGC 369 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~---~K~dKAsIL~~AIeYIK~LQ~qvq~Ls~~~ 369 (403)
+..-+..||+|-..+|..|+.|+..||.. .|++|-..|++|-.||--|-..+..=..+.
T Consensus 175 r~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~~~~~~~ 236 (285)
T KOG4395|consen 175 RLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLDLPMSGL 236 (285)
T ss_pred hcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhcCccccC
Confidence 34578999999999999999999999976 488999999999999998877664443333
No 18
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=91.05 E-value=0.25 Score=54.71 Aligned_cols=41 Identities=37% Similarity=0.549 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHH
Q 015639 316 LSERRRRDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLK 356 (403)
Q Consensus 316 ~~ERrRRekIne~~~~Lr~LVP~~----~K~dKAsIL~~AIeYIK 356 (403)
-+.|-||-|-|+-|-+|..+||-. ..+|||+|+..||-|+|
T Consensus 52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR 96 (768)
T KOG3558|consen 52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 355899999999999999999954 47899999999999998
No 19
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=88.68 E-value=0.47 Score=51.56 Aligned_cols=38 Identities=39% Similarity=0.667 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHH
Q 015639 319 RRRRDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLK 356 (403)
Q Consensus 319 RrRRekIne~~~~Lr~LVP~~----~K~dKAsIL~~AIeYIK 356 (403)
||-|||+|..++.|..|+|-. +|+||.+||.-+|.|++
T Consensus 34 KRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 577999999999999999964 69999999999999997
No 20
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=85.05 E-value=0.85 Score=48.22 Aligned_cols=42 Identities=33% Similarity=0.510 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCC----CCchhhhHHHHHHHHHHH
Q 015639 317 SERRRRDRINEKMRALQELIPRCN----KSDKASMLDEAIEYLKSL 358 (403)
Q Consensus 317 ~ERrRRekIne~~~~Lr~LVP~~~----K~dKAsIL~~AIeYIK~L 358 (403)
..|.||++-|-.|-+|..++|-.. .+||++|+..|..|||.-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 348999999999999999999763 689999999999999953
No 21
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=54.37 E-value=3.5 Score=46.18 Aligned_cols=56 Identities=20% Similarity=0.303 Sum_probs=47.6
Q ss_pred hhccChHHHHHHHHHHHHHHHHHhccCCCC-----CCchhhhHHHHHHHHHHHHHHHHHhc
Q 015639 311 AEVHNLSERRRRDRINEKMRALQELIPRCN-----KSDKASMLDEAIEYLKSLQLQVQMMS 366 (403)
Q Consensus 311 ~~~H~~~ERrRRekIne~~~~Lr~LVP~~~-----K~dKAsIL~~AIeYIK~LQ~qvq~Ls 366 (403)
...|+..|++||.+|.-.|..|-.++.+.. |+.++.-|+.+++||..++.+...+.
T Consensus 652 ~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~ 712 (856)
T KOG3582|consen 652 PITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQ 712 (856)
T ss_pred cccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccc
Confidence 456999999999999999999999998764 77888889999999998877655444
No 22
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=43.12 E-value=16 Score=34.23 Aligned_cols=42 Identities=24% Similarity=0.340 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCC--CCchhhhHHHHHHHHHHH
Q 015639 317 SERRRRDRINEKMRALQELIPRCN--KSDKASMLDEAIEYLKSL 358 (403)
Q Consensus 317 ~ERrRRekIne~~~~Lr~LVP~~~--K~dKAsIL~~AIeYIK~L 358 (403)
.|+.|..++++.+.-|+.|+|+.. ++.+.-.|.-+.+||.+|
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~ 72 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSL 72 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhH
Confidence 578899999999999999999863 333333355555555555
No 23
>COG1244 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=34.49 E-value=20 Score=37.21 Aligned_cols=23 Identities=35% Similarity=0.501 Sum_probs=19.5
Q ss_pred eEEEEeecCCcchhhhhhhcCCC
Q 015639 2 RISIFLLNRAEEDVMELLWQNGP 24 (403)
Q Consensus 2 ~~~~~~~~~~ed~~vELLW~nGq 24 (403)
||||-.-|=+---|||+||++|+
T Consensus 239 ~iSinptnVqKgTlvE~lw~~g~ 261 (358)
T COG1244 239 TISINPTNVQKGTLVEKLWRRGL 261 (358)
T ss_pred eEEecccccchhhHHHHHHHcCC
Confidence 67777778888889999999997
No 24
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=31.52 E-value=15 Score=31.22 Aligned_cols=18 Identities=33% Similarity=0.796 Sum_probs=13.1
Q ss_pred cchhhhhhhcCCCEEEeec
Q 015639 12 EEDVMELLWQNGPVVLHNQ 30 (403)
Q Consensus 12 ed~~vELLW~nGqVV~~sQ 30 (403)
|-+||++||.+|. +...+
T Consensus 5 E~~IM~~lW~~~~-~t~~e 22 (115)
T PF03965_consen 5 ELEIMEILWESGE-ATVRE 22 (115)
T ss_dssp HHHHHHHHHHHSS-EEHHH
T ss_pred HHHHHHHHHhCCC-CCHHH
Confidence 6688888998888 44433
No 25
>PF00778 DIX: DIX domain; InterPro: IPR001158 Dishevelled (Dsh) protein is an important component of the Wnt signal-transduction pathway. It has three relatively conserved domains: DIX, PDZ and DEP. The DIX domain of Dvl-1 (a mammalian Dishevelled homologue) shares 37% identity with the C-terminal region of Axin. Dsh can interact with the Axin/APC/GSK3/beta-catenin complex, and may thus modulate its activity []. The Wnt signalling pathway is conserved in various species from Caenorhabditis elegans to mammals, and plays important roles in development, cellular proliferation, and differentiation. The molecular mechanisms by which the Wnt signal regulates cellular functions are becoming increasingly well understood. Wnt stabilises cytoplasmic beta-catenin, which stimulates the expression of genes including c-myc, c-jun, fra-1, and cyclin D1. Axin and its homologue Axil are components of the Wnt signalling pathway that negatively regulate this pathway. Other components of the Wnt signalling pathway, including Dvl, glycogen synthase kinase-3beta (GSK-3beta), beta-catenin, and adenomatous polyposis coli (APC), interact with Axin, and the phosphorylation and stability of beta-catenin are regulated in the Axin complex. Axil has similar functions to Axin. Thus, Axin and Axil act as scaffold proteins in the Wnt signalling pathway, thereby modulating the Wnt-dependent cellular functions [].; GO: 0004871 signal transducer activity, 0007275 multicellular organismal development, 0005622 intracellular; PDB: 1WSP_B 2D5G_A 3PZ7_A 3PZ8_H.
Probab=27.23 E-value=41 Score=28.18 Aligned_cols=22 Identities=18% Similarity=0.356 Sum_probs=15.8
Q ss_pred EEEeecCCcchhhhhhhcCCCEEE
Q 015639 4 SIFLLNRAEEDVMELLWQNGPVVL 27 (403)
Q Consensus 4 ~~~~~~~~ed~~vELLW~nGqVV~ 27 (403)
-+|.++..|++++ -+| ||.||.
T Consensus 57 ~V~eEi~dD~~~L-P~~-eGkI~~ 78 (84)
T PF00778_consen 57 VVKEEITDDDDIL-PLF-EGKIVA 78 (84)
T ss_dssp EEEEEE-STTSB----B-TTEEEE
T ss_pred eeEEEEcCCcccc-ccc-CCEEEE
Confidence 4899999999999 888 899985
Done!