Query 011621
Match_columns 481
No_of_seqs 235 out of 907
Neff 3.5
Searched_HMMs 46136
Date Fri Mar 29 03:23:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011621.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/011621hhsearch_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 99.3 9.1E-13 2E-17 100.0 4.7 53 290-343 5-60 (60)
2 smart00353 HLH helix loop heli 99.3 6.5E-12 1.4E-16 94.0 5.8 49 294-343 1-52 (53)
3 PF00010 HLH: Helix-loop-helix 99.2 9.2E-12 2E-16 94.7 5.3 49 291-339 3-55 (55)
4 KOG1318 Helix loop helix trans 99.2 5.1E-11 1.1E-15 124.1 11.2 56 288-343 232-290 (411)
5 KOG1319 bHLHZip transcription 98.9 9.3E-10 2E-14 105.2 3.1 74 278-356 56-135 (229)
6 KOG4304 Transcriptional repres 98.4 1.1E-07 2.5E-12 93.8 2.4 52 291-343 34-93 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.0 8E-06 1.7E-10 91.7 5.1 52 290-341 21-75 (803)
8 KOG2483 Upstream transcription 97.9 3.1E-05 6.7E-10 76.3 7.6 63 289-351 59-123 (232)
9 KOG2588 Predicted DNA-binding 97.8 8.3E-06 1.8E-10 92.3 2.3 63 287-349 274-336 (953)
10 PLN03217 transcription factor 97.4 0.00029 6.3E-09 60.7 5.7 53 300-353 18-76 (93)
11 KOG3960 Myogenic helix-loop-he 97.4 0.00032 7E-09 70.3 6.3 59 292-350 121-180 (284)
12 KOG0561 bHLH transcription fac 97.1 0.00067 1.5E-08 69.6 5.6 50 292-342 63-114 (373)
13 KOG4029 Transcription factor H 96.8 0.0012 2.5E-08 63.8 4.0 59 291-349 111-172 (228)
14 KOG3910 Helix loop helix trans 96.2 0.012 2.6E-07 64.0 7.5 58 289-346 526-586 (632)
15 KOG4447 Transcription factor T 87.6 0.33 7.2E-06 46.3 1.9 49 291-340 80-130 (173)
16 KOG3560 Aryl-hydrocarbon recep 85.1 0.69 1.5E-05 51.4 3.0 39 298-337 34-76 (712)
17 KOG3898 Transcription factor N 78.1 2.9 6.2E-05 42.0 4.3 48 292-340 75-125 (254)
18 KOG3558 Hypoxia-inducible fact 77.5 1.6 3.5E-05 49.6 2.6 42 295-337 52-97 (768)
19 KOG3559 Transcriptional regula 69.2 4.5 9.7E-05 44.1 3.4 44 295-339 7-54 (598)
20 KOG4395 Transcription factor A 48.3 21 0.00046 36.8 3.9 52 292-343 177-230 (285)
21 KOG4447 Transcription factor T 41.3 23 0.00049 34.3 2.7 44 296-340 29-74 (173)
22 PF13334 DUF4094: Domain of un 37.2 58 0.0013 28.5 4.4 26 328-353 68-93 (95)
23 KOG3582 Mlx interactors and re 34.2 12 0.00025 43.2 -0.4 60 289-348 651-714 (856)
24 KOG3582 Mlx interactors and re 28.4 20 0.00044 41.4 0.2 60 287-349 785-848 (856)
25 COG3074 Uncharacterized protei 23.8 1E+02 0.0023 26.5 3.5 27 328-354 13-39 (79)
26 PF14689 SPOB_a: Sensor_kinase 22.5 1.7E+02 0.0037 23.3 4.4 42 298-347 17-58 (62)
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=99.35 E-value=9.1e-13 Score=100.00 Aligned_cols=53 Identities=36% Similarity=0.631 Sum_probs=48.7
Q ss_pred CCcchhHHHHHHHHHHHHHHHhhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHH
Q 011621 290 TDSHSLAERVRREKISERMKFLQDLVPGC---NKVTGKAVMLDEIINYVQSLQRQVE 343 (481)
Q Consensus 290 t~sHs~aERrRReKINer~~~LrsLVP~~---~K~tdKAsILdeAIdYIK~LQ~QVe 343 (481)
+..|+..||+||++||+.|..|+++||.+ .| .+|++||+.||+||+.|+.+++
T Consensus 5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k-~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKK-LSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHhC
Confidence 45799999999999999999999999998 45 5999999999999999998863
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.28 E-value=6.5e-12 Score=93.97 Aligned_cols=49 Identities=39% Similarity=0.581 Sum_probs=44.6
Q ss_pred hhHHHHHHHHHHHHHHHhhhcCCC---CCCCCCchhhHHHHHHHHHHHHHHHH
Q 011621 294 SLAERVRREKISERMKFLQDLVPG---CNKVTGKAVMLDEIINYVQSLQRQVE 343 (481)
Q Consensus 294 s~aERrRReKINer~~~LrsLVP~---~~K~tdKAsILdeAIdYIK~LQ~QVe 343 (481)
+..||+||++||+.|..|+++||. ..|+ +|++||++||+||+.|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~-~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKL-SKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999999996 4454 999999999999999999986
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=99.25 E-value=9.2e-12 Score=94.69 Aligned_cols=49 Identities=35% Similarity=0.691 Sum_probs=44.8
Q ss_pred CcchhHHHHHHHHHHHHHHHhhhcCCCC----CCCCCchhhHHHHHHHHHHHH
Q 011621 291 DSHSLAERVRREKISERMKFLQDLVPGC----NKVTGKAVMLDEIINYVQSLQ 339 (481)
Q Consensus 291 ~sHs~aERrRReKINer~~~LrsLVP~~----~K~tdKAsILdeAIdYIK~LQ 339 (481)
..|+..||+||++||+.|..|+.+||.+ ....+|++||+.||+||+.||
T Consensus 3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 3699999999999999999999999987 233599999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.22 E-value=5.1e-11 Score=124.07 Aligned_cols=56 Identities=36% Similarity=0.669 Sum_probs=48.9
Q ss_pred CCCCcchhHHHHHHHHHHHHHHHhhhcCCCCCC---CCCchhhHHHHHHHHHHHHHHHH
Q 011621 288 QATDSHSLAERVRREKISERMKFLQDLVPGCNK---VTGKAVMLDEIINYVQSLQRQVE 343 (481)
Q Consensus 288 ~at~sHs~aERrRReKINer~~~LrsLVP~~~K---~tdKAsILdeAIdYIK~LQ~QVe 343 (481)
++++.|+++|||||++||++|+.|..|||.|.- .++|..||..+++||++||+..+
T Consensus 232 ~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 232 RKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 345799999999999999999999999999941 25799999999999999987444
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.88 E-value=9.3e-10 Score=105.23 Aligned_cols=74 Identities=31% Similarity=0.507 Sum_probs=62.8
Q ss_pred cccccccccCCCCCcchhHHHHHHHHHHHHHHHhhhcCCCCCC------CCCchhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 011621 278 DYIHVRARRGQATDSHSLAERVRREKISERMKFLQDLVPGCNK------VTGKAVMLDEIINYVQSLQRQVEFLSMKLAT 351 (481)
Q Consensus 278 ~~i~~RaRRg~at~sHs~aERrRReKINer~~~LrsLVP~~~K------~tdKAsILdeAIdYIK~LQ~QVe~Le~kl~~ 351 (481)
...+.|+|+ .|.-+||+||+-|+..+..||+|||.|.. ++.||.||..+|+||.+|+.++...+.++++
T Consensus 56 ~syk~rrr~-----aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~ 130 (229)
T KOG1319|consen 56 ESYKDRRRR-----AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVST 130 (229)
T ss_pred hhHHHHHHH-----HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555 79999999999999999999999998742 2479999999999999999999999999988
Q ss_pred cCCCc
Q 011621 352 VNPRM 356 (481)
Q Consensus 352 vnp~l 356 (481)
++..+
T Consensus 131 L~k~v 135 (229)
T KOG1319|consen 131 LRKDV 135 (229)
T ss_pred HHHHH
Confidence 87653
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.40 E-value=1.1e-07 Score=93.84 Aligned_cols=52 Identities=33% Similarity=0.501 Sum_probs=46.0
Q ss_pred CcchhHHHHHHHHHHHHHHHhhhcCCCC--------CCCCCchhhHHHHHHHHHHHHHHHH
Q 011621 291 DSHSLAERVRREKISERMKFLQDLVPGC--------NKVTGKAVMLDEIINYVQSLQRQVE 343 (481)
Q Consensus 291 ~sHs~aERrRReKINer~~~LrsLVP~~--------~K~tdKAsILdeAIdYIK~LQ~QVe 343 (481)
..|-+.|||||.|||+.|..|++|||.+ .|+ +||.||+-|++|+|.||.+..
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~skl-EKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKL-EKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhh-HHHHHHHHHHHHHHHHhcccc
Confidence 4688999999999999999999999965 343 899999999999999997543
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=97.95 E-value=8e-06 Score=91.68 Aligned_cols=52 Identities=19% Similarity=0.373 Sum_probs=47.8
Q ss_pred CCcchhHHHHHHHHHHHHHHHhhhcCCCCC---CCCCchhhHHHHHHHHHHHHHH
Q 011621 290 TDSHSLAERVRREKISERMKFLQDLVPGCN---KVTGKAVMLDEIINYVQSLQRQ 341 (481)
Q Consensus 290 t~sHs~aERrRReKINer~~~LrsLVP~~~---K~tdKAsILdeAIdYIK~LQ~Q 341 (481)
+.+|+.+|||||+|+|.-|.+|-+|||.|. .+.||-+||.+||.+||.++++
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 358999999999999999999999999997 4459999999999999999885
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.90 E-value=3.1e-05 Score=76.30 Aligned_cols=63 Identities=24% Similarity=0.354 Sum_probs=50.2
Q ss_pred CCCcchhHHHHHHHHHHHHHHHhhhcCCCCC--CCCCchhhHHHHHHHHHHHHHHHHHHHHHhhh
Q 011621 289 ATDSHSLAERVRREKISERMKFLQDLVPGCN--KVTGKAVMLDEIINYVQSLQRQVEFLSMKLAT 351 (481)
Q Consensus 289 at~sHs~aERrRReKINer~~~LrsLVP~~~--K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl~~ 351 (481)
++..|+..||+||..|.++|..|+++||... +.-..++||+.|++||+.|+.+....+..+..
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~ 123 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIED 123 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHH
Confidence 3457999999999999999999999999653 22126999999999999999866655544433
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.81 E-value=8.3e-06 Score=92.25 Aligned_cols=63 Identities=29% Similarity=0.508 Sum_probs=54.2
Q ss_pred CCCCCcchhHHHHHHHHHHHHHHHhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHh
Q 011621 287 GQATDSHSLAERVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQRQVEFLSMKL 349 (481)
Q Consensus 287 g~at~sHs~aERrRReKINer~~~LrsLVP~~~K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl 349 (481)
+.++++|+++|||.|..|||+|..|+++||+..-+..|..+|..||+||++||..-+.|....
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 366889999999999999999999999999886445899999999999999998665554333
No 10
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.42 E-value=0.00029 Score=60.72 Aligned_cols=53 Identities=32% Similarity=0.525 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhhhcCCCC------CCCCCchhhHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 011621 300 RREKISERMKFLQDLVPGC------NKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATVN 353 (481)
Q Consensus 300 RReKINer~~~LrsLVP~~------~K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl~~vn 353 (481)
--+.|+|-+..||+|+|.. .|. .-+-+|+|+.+||+.|+++|..|+++|..+-
T Consensus 18 sddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 18 SEDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred CHHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3478999999999999964 343 5677899999999999999999999998764
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.38 E-value=0.00032 Score=70.26 Aligned_cols=59 Identities=22% Similarity=0.272 Sum_probs=50.1
Q ss_pred cchhHHHHHHHHHHHHHHHhhh-cCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHHHhh
Q 011621 292 SHSLAERVRREKISERMKFLQD-LVPGCNKVTGKAVMLDEIINYVQSLQRQVEFLSMKLA 350 (481)
Q Consensus 292 sHs~aERrRReKINer~~~Lrs-LVP~~~K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl~ 350 (481)
.--+.||||=.|+||.|.+|+. -+++-++..-|..||..||+||..||.-++++.....
T Consensus 121 AATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 121 AATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 3458899999999999999975 4577777778999999999999999998888875433
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.13 E-value=0.00067 Score=69.61 Aligned_cols=50 Identities=26% Similarity=0.436 Sum_probs=44.3
Q ss_pred cchhHHHHHHHHHHHHHHHhhhcCCC--CCCCCCchhhHHHHHHHHHHHHHHH
Q 011621 292 SHSLAERVRREKISERMKFLQDLVPG--CNKVTGKAVMLDEIINYVQSLQRQV 342 (481)
Q Consensus 292 sHs~aERrRReKINer~~~LrsLVP~--~~K~tdKAsILdeAIdYIK~LQ~QV 342 (481)
.-+..||||=.-||..|..||.|+|. +.|+ .||.||+.+.+||.+|+.+.
T Consensus 63 IANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~K 114 (373)
T KOG0561|consen 63 IANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGHK 114 (373)
T ss_pred hhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhcc
Confidence 45678999999999999999999995 5676 99999999999999998643
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.80 E-value=0.0012 Score=63.84 Aligned_cols=59 Identities=20% Similarity=0.271 Sum_probs=49.8
Q ss_pred CcchhHHHHHHHHHHHHHHHhhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHHHHHHHh
Q 011621 291 DSHSLAERVRREKISERMKFLQDLVPGC---NKVTGKAVMLDEIINYVQSLQRQVEFLSMKL 349 (481)
Q Consensus 291 ~sHs~aERrRReKINer~~~LrsLVP~~---~K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl 349 (481)
..++..||.|=+-+|..|..||.+||.. .|+..|..+|..||.||++|+.-++.-+..+
T Consensus 111 ~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 111 QARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 3567779999999999999999999942 4556999999999999999998877665443
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.24 E-value=0.012 Score=63.97 Aligned_cols=58 Identities=24% Similarity=0.273 Sum_probs=48.4
Q ss_pred CCCcchhHHHHHHHHHHHHHHHhhhcCC---CCCCCCCchhhHHHHHHHHHHHHHHHHHHH
Q 011621 289 ATDSHSLAERVRREKISERMKFLQDLVP---GCNKVTGKAVMLDEIINYVQSLQRQVEFLS 346 (481)
Q Consensus 289 at~sHs~aERrRReKINer~~~LrsLVP---~~~K~tdKAsILdeAIdYIK~LQ~QVe~Le 346 (481)
.+...++.||.|=..||+.|++|-.+.= ...|---|.-||..||.-|-.|++||.+-.
T Consensus 526 RR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 526 RRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred HHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 3467899999999999999999998864 233433589999999999999999999844
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=87.55 E-value=0.33 Score=46.27 Aligned_cols=49 Identities=22% Similarity=0.367 Sum_probs=42.1
Q ss_pred CcchhHHHHHHHHHHHHHHHhhhcCCCC--CCCCCchhhHHHHHHHHHHHHH
Q 011621 291 DSHSLAERVRREKISERMKFLQDLVPGC--NKVTGKAVMLDEIINYVQSLQR 340 (481)
Q Consensus 291 ~sHs~aERrRReKINer~~~LrsLVP~~--~K~tdKAsILdeAIdYIK~LQ~ 340 (481)
.-|++-||+|-..+|+.|.+||.++|.. .|. .|.-.|.-|-.||-+|=+
T Consensus 80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhh
Confidence 4699999999999999999999999964 565 788888888888887743
No 16
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=85.07 E-value=0.69 Score=51.44 Aligned_cols=39 Identities=21% Similarity=0.445 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhhhcCCC----CCCCCCchhhHHHHHHHHHH
Q 011621 298 RVRREKISERMKFLQDLVPG----CNKVTGKAVMLDEIINYVQS 337 (481)
Q Consensus 298 RrRReKINer~~~LrsLVP~----~~K~tdKAsILdeAIdYIK~ 337 (481)
+|-|+|+|-.|..|.+|+|- ++|+ ||.+||.-+|-|++-
T Consensus 34 KRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 55799999999999999994 4786 999999999999863
No 17
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=78.06 E-value=2.9 Score=42.03 Aligned_cols=48 Identities=23% Similarity=0.400 Sum_probs=40.8
Q ss_pred cchhHHHHHHHHHHHHHHHhhhcCCC---CCCCCCchhhHHHHHHHHHHHHH
Q 011621 292 SHSLAERVRREKISERMKFLQDLVPG---CNKVTGKAVMLDEIINYVQSLQR 340 (481)
Q Consensus 292 sHs~aERrRReKINer~~~LrsLVP~---~~K~tdKAsILdeAIdYIK~LQ~ 340 (481)
.=+.-||+|=-.+|+-|+.||+++|. ..|+ .|...|.-|=+||..|++
T Consensus 75 kaNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 75 KANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSE 125 (254)
T ss_pred cccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhcc
Confidence 45678999999999999999999994 3565 799999999999988875
No 18
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=77.52 E-value=1.6 Score=49.64 Aligned_cols=42 Identities=31% Similarity=0.345 Sum_probs=36.3
Q ss_pred hHHHHHHHHHHHHHHHhhhcCCCC----CCCCCchhhHHHHHHHHHH
Q 011621 295 LAERVRREKISERMKFLQDLVPGC----NKVTGKAVMLDEIINYVQS 337 (481)
Q Consensus 295 ~aERrRReKINer~~~LrsLVP~~----~K~tdKAsILdeAIdYIK~ 337 (481)
-|.|.||.|=|+-|.+|..+||-- .. .|||+|+.-||-|+|-
T Consensus 52 dAARsRRsKEn~~FyeLa~~lPlp~aissh-LDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 52 DAARSRRSKENEEFYELAKLLPLPAAISSH-LDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhcccchHHHHHHHHhCCCcchhhhh-hhhHHHHHHHHHHHHH
Confidence 467999999999999999999943 34 4999999999999873
No 19
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=69.16 E-value=4.5 Score=44.07 Aligned_cols=44 Identities=27% Similarity=0.316 Sum_probs=37.3
Q ss_pred hHHHHHHHHHHHHHHHhhhcCCCC----CCCCCchhhHHHHHHHHHHHH
Q 011621 295 LAERVRREKISERMKFLQDLVPGC----NKVTGKAVMLDEIINYVQSLQ 339 (481)
Q Consensus 295 ~aERrRReKINer~~~LrsLVP~~----~K~tdKAsILdeAIdYIK~LQ 339 (481)
-+.|.||++=|-.|.+|..|+|-. .. .||++|+.-+.-|||--+
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQ-lDKasiiRLtTsYlKmr~ 54 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQ-LDKASIIRLTTSYLKMRN 54 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhc-cchhhhhhHHHHHHHHHH
Confidence 356889999999999999999954 34 499999999999998543
No 20
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=48.34 E-value=21 Score=36.80 Aligned_cols=52 Identities=21% Similarity=0.252 Sum_probs=42.5
Q ss_pred cchhHHHHHHHHHHHHHHHhhhcCCCCC--CCCCchhhHHHHHHHHHHHHHHHH
Q 011621 292 SHSLAERVRREKISERMKFLQDLVPGCN--KVTGKAVMLDEIINYVQSLQRQVE 343 (481)
Q Consensus 292 sHs~aERrRReKINer~~~LrsLVP~~~--K~tdKAsILdeAIdYIK~LQ~QVe 343 (481)
+-+..||+|=..+|..|..||..||..+ |...|-..|.-|-.||-.|-..+.
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 5678899999999999999999999653 334788889999999987765543
No 21
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=41.28 E-value=23 Score=34.26 Aligned_cols=44 Identities=27% Similarity=0.333 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCCCC--CCCCchhhHHHHHHHHHHHHH
Q 011621 296 AERVRREKISERMKFLQDLVPGCN--KVTGKAVMLDEIINYVQSLQR 340 (481)
Q Consensus 296 aERrRReKINer~~~LrsLVP~~~--K~tdKAsILdeAIdYIK~LQ~ 340 (481)
.||.|..++++.+..|+.|+|+.. ++ .+---|.-+-+||++|.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk-~~~ktlr~~~~~~~~~dE 74 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGK-RGKKTLRIGTDSIQSLDE 74 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCccc-ccccccccCCCchhhHHH
Confidence 588899999999999999999863 22 122226666667666654
No 22
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=37.23 E-value=58 Score=28.52 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=22.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcC
Q 011621 328 LDEIINYVQSLQRQVEFLSMKLATVN 353 (481)
Q Consensus 328 LdeAIdYIK~LQ~QVe~Le~kl~~vn 353 (481)
+.++-+-|+.|.+.|-.|||+|++..
T Consensus 68 V~kTh~aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 68 VSKTHEAIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777778999999999999998754
No 23
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=34.21 E-value=12 Score=43.20 Aligned_cols=60 Identities=20% Similarity=0.260 Sum_probs=47.7
Q ss_pred CCCcchhHHHHHHHHHHHHHHHhhhcCCCCCCC----CCchhhHHHHHHHHHHHHHHHHHHHHH
Q 011621 289 ATDSHSLAERVRREKISERMKFLQDLVPGCNKV----TGKAVMLDEIINYVQSLQRQVEFLSMK 348 (481)
Q Consensus 289 at~sHs~aERrRReKINer~~~LrsLVP~~~K~----tdKAsILdeAIdYIK~LQ~QVe~Le~k 348 (481)
....|+-+|.+||+.|.-.+..|-.++-+..++ +-+++-+..++.||.-++.+...+.++
T Consensus 651 r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e 714 (856)
T KOG3582|consen 651 RPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEE 714 (856)
T ss_pred CcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchh
Confidence 346799999999999999999999999876443 246667999999999988766555443
No 24
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=28.43 E-value=20 Score=41.39 Aligned_cols=60 Identities=15% Similarity=0.198 Sum_probs=49.1
Q ss_pred CCCCCcchhHHHHHHHHHHHHHHHhhhcCCCC----CCCCCchhhHHHHHHHHHHHHHHHHHHHHHh
Q 011621 287 GQATDSHSLAERVRREKISERMKFLQDLVPGC----NKVTGKAVMLDEIINYVQSLQRQVEFLSMKL 349 (481)
Q Consensus 287 g~at~sHs~aERrRReKINer~~~LrsLVP~~----~K~tdKAsILdeAIdYIK~LQ~QVe~Le~kl 349 (481)
+.-...|+-+|||||-.+-+++..|-+|.|.. .+++.+++||. +.|+.+|..-+.+.++.
T Consensus 785 ~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~ 848 (856)
T KOG3582|consen 785 GMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKI 848 (856)
T ss_pred ceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhh
Confidence 33445799999999999999999999999965 45578999999 88888888777766654
No 25
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.81 E-value=1e+02 Score=26.45 Aligned_cols=27 Identities=22% Similarity=0.303 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 011621 328 LDEIINYVQSLQRQVEFLSMKLATVNP 354 (481)
Q Consensus 328 LdeAIdYIK~LQ~QVe~Le~kl~~vnp 354 (481)
+..||+-|.-||..|++|.++...+..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~ 39 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHH
Confidence 578999999999999999988776543
No 26
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=22.52 E-value=1.7e+02 Score=23.27 Aligned_cols=42 Identities=17% Similarity=0.309 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHhhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHH
Q 011621 298 RVRREKISERMKFLQDLVPGCNKVTGKAVMLDEIINYVQSLQRQVEFLSM 347 (481)
Q Consensus 298 RrRReKINer~~~LrsLVP~~~K~tdKAsILdeAIdYIK~LQ~QVe~Le~ 347 (481)
|+-|--+...+..+..|+=-. -.++|.+||+.+-.+++.++.
T Consensus 17 R~~RHD~~NhLqvI~gllqlg--------~~~~a~eYi~~~~~~~~~~s~ 58 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQLG--------KYEEAKEYIKELSKDLQQESE 58 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHHCC--------CHHHHHHHHHHHHHHHHHHHH
Confidence 777888899999998887433 247999999999999988843
Done!