Query 014485
Match_columns 423
No_of_seqs 212 out of 1206
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 05:36:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014485.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014485hhsearch_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 5.7E-13 1.2E-17 100.6 6.3 53 330-382 4-59 (60)
2 PF00010 HLH: Helix-loop-helix 99.4 4.9E-13 1.1E-17 100.9 5.6 49 331-379 2-55 (55)
3 smart00353 HLH helix loop heli 99.3 5.6E-12 1.2E-16 93.7 6.5 49 335-383 1-52 (53)
4 KOG3561 Aryl-hydrocarbon recep 99.2 1.2E-11 2.6E-16 136.0 5.6 91 331-422 21-118 (803)
5 KOG1318 Helix loop helix trans 99.2 3E-11 6.6E-16 124.5 6.1 62 325-386 228-293 (411)
6 KOG4304 Transcriptional repres 99.0 1.5E-10 3.3E-15 113.0 2.2 78 329-406 31-119 (250)
7 KOG1319 bHLHZip transcription 98.9 1E-09 2.2E-14 103.2 4.6 59 328-386 60-125 (229)
8 KOG2588 Predicted DNA-binding 98.1 1.5E-06 3.2E-11 97.1 2.2 62 328-389 274-336 (953)
9 KOG2483 Upstream transcription 98.1 8.1E-06 1.8E-10 79.5 6.7 53 330-382 59-114 (232)
10 KOG0561 bHLH transcription fac 97.8 2.1E-05 4.6E-10 79.0 4.9 60 329-388 59-120 (373)
11 KOG3960 Myogenic helix-loop-he 97.8 6.9E-05 1.5E-09 73.8 7.4 55 333-387 121-177 (284)
12 KOG3910 Helix loop helix trans 97.6 0.00024 5.2E-09 75.5 8.6 59 327-385 523-585 (632)
13 KOG4029 Transcription factor H 97.4 0.00013 2.9E-09 69.9 4.3 58 331-388 110-171 (228)
14 PLN03217 transcription factor 97.4 0.00023 5E-09 60.0 4.5 48 342-389 19-72 (93)
15 KOG4447 Transcription factor T 93.0 0.052 1.1E-06 50.5 1.7 51 331-381 79-131 (173)
16 KOG3560 Aryl-hydrocarbon recep 91.5 0.17 3.6E-06 55.2 3.5 39 339-377 34-76 (712)
17 KOG3558 Hypoxia-inducible fact 89.7 0.37 8E-06 53.8 4.3 44 334-377 50-97 (768)
18 KOG3898 Transcription factor N 86.6 1.1 2.3E-05 44.5 5.0 50 331-380 73-125 (254)
19 KOG4395 Transcription factor A 84.7 1.5 3.3E-05 44.0 5.0 55 330-384 174-231 (285)
20 KOG3559 Transcriptional regula 81.4 1.5 3.3E-05 46.7 3.7 42 337-378 8-53 (598)
21 KOG3582 Mlx interactors and re 48.2 4.8 0.0001 45.4 -0.7 55 332-386 653-712 (856)
22 PF03965 Penicillinase_R: Peni 27.6 23 0.0005 30.3 0.3 18 32-50 5-22 (115)
23 KOG4447 Transcription factor T 27.4 41 0.00089 31.8 1.9 23 337-359 29-51 (173)
24 PF15392 Joubert: Joubert synd 23.1 1.8E+02 0.004 30.4 5.8 29 328-356 54-82 (329)
25 PTZ00405 cytochrome c; Provisi 22.9 1.3E+02 0.0027 26.5 4.1 38 342-379 72-113 (114)
26 TIGR00986 3a0801s05tom22 mitoc 20.9 73 0.0016 29.7 2.3 36 343-378 49-84 (145)
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=5.7e-13 Score=100.64 Aligned_cols=53 Identities=47% Similarity=0.752 Sum_probs=49.8
Q ss_pred hhhccchHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHHHH
Q 014485 330 AAEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQLQV 382 (423)
Q Consensus 330 ~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~---~K~DKASIL~eAIeYIK~LQ~qv 382 (423)
.+..|+..||+||++||+.|..|+.+||.+ .|+||++||+.||+||++|+.++
T Consensus 4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 456799999999999999999999999998 79999999999999999999876
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=4.9e-13 Score=100.85 Aligned_cols=49 Identities=55% Similarity=0.883 Sum_probs=46.4
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhccCCC-----CCCchhhhHHHHHHHHHHHH
Q 014485 331 AEVHNLSERRRRDRINEKMRALQELIPRC-----NKSDKASMLDEAIEYLKSLQ 379 (423)
Q Consensus 331 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~-----~K~DKASIL~eAIeYIK~LQ 379 (423)
+..|+..||+||++||+.|..|+++||.+ .|++|++||+.||+||++||
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 45799999999999999999999999998 58999999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.30 E-value=5.6e-12 Score=93.68 Aligned_cols=49 Identities=51% Similarity=0.716 Sum_probs=45.5
Q ss_pred chHHHHHHHHHHHHHHHHHhccCC---CCCCchhhhHHHHHHHHHHHHHHHH
Q 014485 335 NLSERRRRDRINEKMRALQELIPR---CNKSDKASMLDEAIEYLKSLQLQVQ 383 (423)
Q Consensus 335 ~~~ERrRRdrINe~~~~Lr~LVP~---~~K~DKASIL~eAIeYIK~LQ~qvq 383 (423)
+..||+||++||+.|..|+.+||. ..|++|++||.+||+||+.|+.+++
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 5599999999999999999999876
No 4
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=99.20 E-value=1.2e-11 Score=135.99 Aligned_cols=91 Identities=23% Similarity=0.312 Sum_probs=76.7
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhccCCCC----CCchhhhHHHHHHHHHHHHHHH-HHhccCCCCCCCCC--chhhhcc
Q 014485 331 AEVHNLSERRRRDRINEKMRALQELIPRCN----KSDKASMLDEAIEYLKSLQLQV-QMMSMGCGVVPMMF--PGVQQYM 403 (423)
Q Consensus 331 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~----K~DKASIL~eAIeYIK~LQ~qv-q~Ls~~~~~~P~~~--pg~q~~m 403 (423)
+++|+.+||||||++|..|.+|.+|||.|. |+||.+||.+||.+||.+++.- +.-+.+..-.|.++ ++|.|+|
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 678999999999999999999999999985 9999999999999999998863 22222333345444 3799999
Q ss_pred cccCCCCcccccCCccccc
Q 014485 404 PNMGMGIGMGMGMGRAWIW 422 (423)
Q Consensus 404 ~~~g~gm~~~~g~~~~~i~ 422 (423)
..+..||-|+++|+ |+|.
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 9883
No 5
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.16 E-value=3e-11 Score=124.52 Aligned_cols=62 Identities=39% Similarity=0.739 Sum_probs=54.4
Q ss_pred ccchhhhhccchHHHHHHHHHHHHHHHHHhccCCCC----CCchhhhHHHHHHHHHHHHHHHHHhc
Q 014485 325 AKRSRAAEVHNLSERRRRDRINEKMRALQELIPRCN----KSDKASMLDEAIEYLKSLQLQVQMMS 386 (423)
Q Consensus 325 ~kr~~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~----K~DKASIL~eAIeYIK~LQ~qvq~Ls 386 (423)
.|.+++|..||++|||||++||++|++|..|||.|+ |..|..||..+++||+.||+..+...
T Consensus 228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~ 293 (411)
T KOG1318|consen 228 ERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR 293 (411)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 344556788999999999999999999999999995 77899999999999999988776443
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.99 E-value=1.5e-10 Score=113.00 Aligned_cols=78 Identities=27% Similarity=0.361 Sum_probs=58.3
Q ss_pred hhhhccchHHHHHHHHHHHHHHHHHhccCCC--------CCCchhhhHHHHHHHHHHHHHHHHHhccC-C--CCCCCCCc
Q 014485 329 RAAEVHNLSERRRRDRINEKMRALQELIPRC--------NKSDKASMLDEAIEYLKSLQLQVQMMSMG-C--GVVPMMFP 397 (423)
Q Consensus 329 ~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~--------~K~DKASIL~eAIeYIK~LQ~qvq~Ls~~-~--~~~P~~~p 397 (423)
.++..|.++|||||+|||+.|.+|++||+.+ .|++||.||+.||+|+|.||...+.--.. . .....+--
T Consensus 31 ~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~~~~~~~~~~~d~f~~ 110 (250)
T KOG4304|consen 31 YRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAAAQAAPAALPVDSFRA 110 (250)
T ss_pred HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccccccccccccchhhhc
Confidence 3456699999999999999999999999955 58899999999999999999766544433 1 11222333
Q ss_pred hhhhccccc
Q 014485 398 GVQQYMPNM 406 (423)
Q Consensus 398 g~q~~m~~~ 406 (423)
||..++.-.
T Consensus 111 Gf~ec~~EV 119 (250)
T KOG4304|consen 111 GFRECAAEV 119 (250)
T ss_pred cHHHHHHHH
Confidence 776654433
No 7
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.91 E-value=1e-09 Score=103.20 Aligned_cols=59 Identities=32% Similarity=0.573 Sum_probs=51.8
Q ss_pred hhhhhccchHHHHHHHHHHHHHHHHHhccCCCC-------CCchhhhHHHHHHHHHHHHHHHHHhc
Q 014485 328 SRAAEVHNLSERRRRDRINEKMRALQELIPRCN-------KSDKASMLDEAIEYLKSLQLQVQMMS 386 (423)
Q Consensus 328 ~~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~-------K~DKASIL~eAIeYIK~LQ~qvq~Ls 386 (423)
.+++..|...||+||+.||.++..|+.|||.|. |+.||.||.++|+||.+|+.++..-+
T Consensus 60 ~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe 125 (229)
T KOG1319|consen 60 DRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE 125 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344567999999999999999999999999884 88999999999999999987765444
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.07 E-value=1.5e-06 Score=97.11 Aligned_cols=62 Identities=32% Similarity=0.540 Sum_probs=55.7
Q ss_pred hhhhhccchHHHHHHHHHHHHHHHHHhccCCCC-CCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 014485 328 SRAAEVHNLSERRRRDRINEKMRALQELIPRCN-KSDKASMLDEAIEYLKSLQLQVQMMSMGC 389 (423)
Q Consensus 328 ~~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~-K~DKASIL~eAIeYIK~LQ~qvq~Ls~~~ 389 (423)
+.+|.+||.+|||.|-.|||+|.+|+++||+.. |+.|..+|..||+||++|+...+.|...+
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 345678999999999999999999999999875 99999999999999999999888877543
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.05 E-value=8.1e-06 Score=79.46 Aligned_cols=53 Identities=30% Similarity=0.502 Sum_probs=45.9
Q ss_pred hhhccchHHHHHHHHHHHHHHHHHhccCCCC--CC-chhhhHHHHHHHHHHHHHHH
Q 014485 330 AAEVHNLSERRRRDRINEKMRALQELIPRCN--KS-DKASMLDEAIEYLKSLQLQV 382 (423)
Q Consensus 330 ~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~--K~-DKASIL~eAIeYIK~LQ~qv 382 (423)
++..||..||+||+.|++.|..|+.+||... |. ..++||++|++||+.|+.+.
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 4567999999999999999999999999864 22 37999999999999996554
No 10
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.81 E-value=2.1e-05 Score=79.05 Aligned_cols=60 Identities=30% Similarity=0.464 Sum_probs=52.1
Q ss_pred hhhhccchHHHHHHHHHHHHHHHHHhccCCC--CCCchhhhHHHHHHHHHHHHHHHHHhccC
Q 014485 329 RAAEVHNLSERRRRDRINEKMRALQELIPRC--NKSDKASMLDEAIEYLKSLQLQVQMMSMG 388 (423)
Q Consensus 329 ~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~--~K~DKASIL~eAIeYIK~LQ~qvq~Ls~~ 388 (423)
-+|+.-|..||||=..||.+|..||.|+|.. .|+.||.||+.+.+||..|..+.-.|--+
T Consensus 59 mRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll~q 120 (373)
T KOG0561|consen 59 MRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELLPQ 120 (373)
T ss_pred HHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccccc
Confidence 4567889999999999999999999999986 49999999999999999998766554433
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.76 E-value=6.9e-05 Score=73.77 Aligned_cols=55 Identities=29% Similarity=0.432 Sum_probs=47.2
Q ss_pred ccchHHHHHHHHHHHHHHHHHh-ccCCCC-CCchhhhHHHHHHHHHHHHHHHHHhcc
Q 014485 333 VHNLSERRRRDRINEKMRALQE-LIPRCN-KSDKASMLDEAIEYLKSLQLQVQMMSM 387 (423)
Q Consensus 333 ~H~~~ERrRRdrINe~~~~Lr~-LVP~~~-K~DKASIL~eAIeYIK~LQ~qvq~Ls~ 387 (423)
+-.+.||||=.|+||.|.+|+. -.++.+ ++-|+.||..||+||..||.-++.+..
T Consensus 121 AATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~ 177 (284)
T KOG3960|consen 121 AATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQ 177 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 3568999999999999999954 456554 789999999999999999998888764
No 12
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=97.57 E-value=0.00024 Score=75.47 Aligned_cols=59 Identities=29% Similarity=0.313 Sum_probs=50.4
Q ss_pred chhhhhccchHHHHHHHHHHHHHHHHHhccCCCCCC----chhhhHHHHHHHHHHHHHHHHHh
Q 014485 327 RSRAAEVHNLSERRRRDRINEKMRALQELIPRCNKS----DKASMLDEAIEYLKSLQLQVQMM 385 (423)
Q Consensus 327 r~~~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~~K~----DKASIL~eAIeYIK~LQ~qvq~L 385 (423)
.+++|...|..||.|-..|||.|++|..+.--.-|. .|.-||..||..|-.|++||.+-
T Consensus 523 EkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 523 EKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 344567799999999889999999999987766555 48999999999999999999654
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.43 E-value=0.00013 Score=69.92 Aligned_cols=58 Identities=24% Similarity=0.362 Sum_probs=50.0
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhccCC----CCCCchhhhHHHHHHHHHHHHHHHHHhccC
Q 014485 331 AEVHNLSERRRRDRINEKMRALQELIPR----CNKSDKASMLDEAIEYLKSLQLQVQMMSMG 388 (423)
Q Consensus 331 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~----~~K~DKASIL~eAIeYIK~LQ~qvq~Ls~~ 388 (423)
+..+|..||.|=..+|..|..||.+||. .+|+.|..+|..||.||++|+.-++.-...
T Consensus 110 ~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~ 171 (228)
T KOG4029|consen 110 RQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP 171 (228)
T ss_pred hhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence 3447777999999999999999999995 458999999999999999999877666543
No 14
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.37 E-value=0.00023 Score=59.97 Aligned_cols=48 Identities=29% Similarity=0.511 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHhccCCC------CCCchhhhHHHHHHHHHHHHHHHHHhccCC
Q 014485 342 RDRINEKMRALQELIPRC------NKSDKASMLDEAIEYLKSLQLQVQMMSMGC 389 (423)
Q Consensus 342 RdrINe~~~~Lr~LVP~~------~K~DKASIL~eAIeYIK~LQ~qvq~Ls~~~ 389 (423)
-|.|+|.+..|++|+|.. .|..-+-||++|+.||+.|+.+|..|++.+
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 478999999999999965 366778899999999999999999998643
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=92.97 E-value=0.052 Score=50.54 Aligned_cols=51 Identities=31% Similarity=0.447 Sum_probs=46.1
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhccCCC--CCCchhhhHHHHHHHHHHHHHH
Q 014485 331 AEVHNLSERRRRDRINEKMRALQELIPRC--NKSDKASMLDEAIEYLKSLQLQ 381 (423)
Q Consensus 331 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~--~K~DKASIL~eAIeYIK~LQ~q 381 (423)
+-.|++.||+|-..+|+.|..||.++|.. .|+.|.-.|.-|..||.+|-.-
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence 34599999999999999999999999965 6999999999999999999653
No 16
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=91.46 E-value=0.17 Score=55.19 Aligned_cols=39 Identities=38% Similarity=0.658 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHhccCC----CCCCchhhhHHHHHHHHHH
Q 014485 339 RRRRDRINEKMRALQELIPR----CNKSDKASMLDEAIEYLKS 377 (423)
Q Consensus 339 RrRRdrINe~~~~Lr~LVP~----~~K~DKASIL~eAIeYIK~ 377 (423)
||-|||+|..++.|.+|+|- .+|+||.+||.-+|-||+-
T Consensus 34 KRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV 76 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence 67799999999999999995 4799999999999999973
No 17
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.70 E-value=0.37 Score=53.79 Aligned_cols=44 Identities=34% Similarity=0.496 Sum_probs=37.7
Q ss_pred cchHHHHHHHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHHH
Q 014485 334 HNLSERRRRDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLKS 377 (423)
Q Consensus 334 H~~~ERrRRdrINe~~~~Lr~LVP~~----~K~DKASIL~eAIeYIK~ 377 (423)
..-+.|-||-|-|+-|.+|..+||-- ..+|||+|+.-||-|+|.
T Consensus 50 SRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 50 SRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 33456899999999999999999943 478999999999999983
No 18
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=86.56 E-value=1.1 Score=44.53 Aligned_cols=50 Identities=32% Similarity=0.410 Sum_probs=43.3
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHH
Q 014485 331 AEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQL 380 (423)
Q Consensus 331 ~~~H~~~ERrRRdrINe~~~~Lr~LVP~~---~K~DKASIL~eAIeYIK~LQ~ 380 (423)
+..=|..||+|=-.+|+.|+.||++||.. .|+.|...|.-|-.||..|++
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 34457789999899999999999999953 588999999999999999875
No 19
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=84.75 E-value=1.5 Score=43.96 Aligned_cols=55 Identities=25% Similarity=0.338 Sum_probs=47.4
Q ss_pred hhhccchHHHHHHHHHHHHHHHHHhccCCC---CCCchhhhHHHHHHHHHHHHHHHHH
Q 014485 330 AAEVHNLSERRRRDRINEKMRALQELIPRC---NKSDKASMLDEAIEYLKSLQLQVQM 384 (423)
Q Consensus 330 ~~~~H~~~ERrRRdrINe~~~~Lr~LVP~~---~K~DKASIL~eAIeYIK~LQ~qvq~ 384 (423)
++..-+..||+|=..+|..|+.|+..||.. .|+.|-..|.+|-.||--|-..++.
T Consensus 174 rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~~ 231 (285)
T KOG4395|consen 174 RRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLDL 231 (285)
T ss_pred hhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhcC
Confidence 345678899999999999999999999976 4889999999999999988765543
No 20
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=81.40 E-value=1.5 Score=46.71 Aligned_cols=42 Identities=33% Similarity=0.510 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHHHH
Q 014485 337 SERRRRDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLKSL 378 (423)
Q Consensus 337 ~ERrRRdrINe~~~~Lr~LVP~~----~K~DKASIL~eAIeYIK~L 378 (423)
..|.||++-|-.|.+|..|+|-. +.+||++|+.-|..|||.-
T Consensus 8 aA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 8 AARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred HHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 34889999999999999999965 3689999999999999953
No 21
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=48.22 E-value=4.8 Score=45.42 Aligned_cols=55 Identities=20% Similarity=0.306 Sum_probs=46.7
Q ss_pred hccchHHHHHHHHHHHHHHHHHhccCCCC-----CCchhhhHHHHHHHHHHHHHHHHHhc
Q 014485 332 EVHNLSERRRRDRINEKMRALQELIPRCN-----KSDKASMLDEAIEYLKSLQLQVQMMS 386 (423)
Q Consensus 332 ~~H~~~ERrRRdrINe~~~~Lr~LVP~~~-----K~DKASIL~eAIeYIK~LQ~qvq~Ls 386 (423)
-.|+..|++||..|+-.|..|-.++.... |+.++.-|..+++||..++.+...+.
T Consensus 653 it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~ 712 (856)
T KOG3582|consen 653 ITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQ 712 (856)
T ss_pred ccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccc
Confidence 45999999999999999999999998764 77888889999999998876655444
No 22
>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=27.55 E-value=23 Score=30.33 Aligned_cols=18 Identities=33% Similarity=0.796 Sum_probs=13.9
Q ss_pred chhhhhhhhcCCCEEEeec
Q 014485 32 EEDVMELLWQNGPVVLHNQ 50 (423)
Q Consensus 32 ed~lvELLW~nGqVV~qsQ 50 (423)
|-+||++||.+|. +...+
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 6789999999999 54443
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=27.36 E-value=41 Score=31.85 Aligned_cols=23 Identities=30% Similarity=0.502 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHhccCCC
Q 014485 337 SERRRRDRINEKMRALQELIPRC 359 (423)
Q Consensus 337 ~ERrRRdrINe~~~~Lr~LVP~~ 359 (423)
.|+.|..++++.+.-|+.|+|+.
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 24
>PF15392 Joubert: Joubert syndrome-associated
Probab=23.10 E-value=1.8e+02 Score=30.35 Aligned_cols=29 Identities=24% Similarity=0.462 Sum_probs=24.8
Q ss_pred hhhhhccchHHHHHHHHHHHHHHHHHhcc
Q 014485 328 SRAAEVHNLSERRRRDRINEKMRALQELI 356 (423)
Q Consensus 328 ~~~~~~H~~~ERrRRdrINe~~~~Lr~LV 356 (423)
.++++....+.||||++|.+.+..|.++.
T Consensus 54 kERrEIq~WMkRKrkERmaEYl~qlaEkR 82 (329)
T PF15392_consen 54 KERREIQAWMKRKRKERMAEYLKQLAEKR 82 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34567888999999999999999998776
No 25
>PTZ00405 cytochrome c; Provisional
Probab=22.86 E-value=1.3e+02 Score=26.48 Aligned_cols=38 Identities=16% Similarity=0.335 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHhccCCC----CCCchhhhHHHHHHHHHHHH
Q 014485 342 RDRINEKMRALQELIPRC----NKSDKASMLDEAIEYLKSLQ 379 (423)
Q Consensus 342 RdrINe~~~~Lr~LVP~~----~K~DKASIL~eAIeYIK~LQ 379 (423)
.+.|...|..-+.++|+. ..+.+..-+...|.||+.|+
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 456777788888899943 34567777888999999986
No 26
>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=20.92 E-value=73 Score=29.71 Aligned_cols=36 Identities=14% Similarity=0.350 Sum_probs=23.4
Q ss_pred HHHHHHHHHHHhccCCCCCCchhhhHHHHHHHHHHH
Q 014485 343 DRINEKMRALQELIPRCNKSDKASMLDEAIEYLKSL 378 (423)
Q Consensus 343 drINe~~~~Lr~LVP~~~K~DKASIL~eAIeYIK~L 378 (423)
+-|-|+|.+|+++||+..+.-=.++..-++.++|.+
T Consensus 49 ETl~ERi~ALkDm~Pp~~R~~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 49 ETFTDRIYALKDIVPPTTRGWIYHKYSTTTNFVKST 84 (145)
T ss_pred CcHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHH
Confidence 357788999999999875444444444444444443
Done!