Query 008631
Match_columns 558
No_of_seqs 245 out of 901
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 14:36:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008631.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008631hhsearch_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 2.4E-12 5.3E-17 99.3 4.9 53 373-426 5-60 (60)
2 smart00353 HLH helix loop heli 99.3 1.2E-11 2.6E-16 94.1 6.2 49 377-426 1-52 (53)
3 PF00010 HLH: Helix-loop-helix 99.2 1.7E-11 3.6E-16 94.9 5.1 48 375-422 4-55 (55)
4 KOG1318 Helix loop helix trans 99.2 1.9E-11 4.1E-16 129.2 6.8 84 371-454 232-324 (411)
5 KOG1319 bHLHZip transcription 98.8 2.1E-09 4.5E-14 104.4 3.9 65 375-439 65-135 (229)
6 KOG4304 Transcriptional repres 98.3 3.5E-07 7.5E-12 92.0 2.6 52 375-426 35-93 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.1 3.6E-06 7.8E-11 95.9 5.0 52 373-424 21-75 (803)
8 KOG2588 Predicted DNA-binding 97.6 4.4E-05 9.6E-10 87.9 4.9 65 372-436 276-340 (953)
9 KOG2483 Upstream transcription 97.5 0.00018 3.9E-09 72.2 6.5 58 374-431 61-120 (232)
10 KOG3960 Myogenic helix-loop-he 97.4 0.00036 7.9E-09 71.0 6.4 56 376-431 122-178 (284)
11 PLN03217 transcription factor 97.3 0.00055 1.2E-08 60.0 6.5 59 381-440 16-80 (93)
12 KOG0561 bHLH transcription fac 96.8 0.00064 1.4E-08 70.8 2.3 50 375-425 63-114 (373)
13 KOG4029 Transcription factor H 96.4 0.0032 7E-08 61.9 3.9 57 376-432 113-172 (228)
14 KOG3910 Helix loop helix trans 96.1 0.012 2.6E-07 64.9 6.9 54 375-428 529-585 (632)
15 KOG4447 Transcription factor T 87.1 0.35 7.6E-06 46.9 1.8 47 375-422 81-129 (173)
16 KOG3560 Aryl-hydrocarbon recep 79.1 1.5 3.3E-05 49.6 3.0 40 380-420 33-76 (712)
17 KOG3558 Hypoxia-inducible fact 72.6 2.4 5.2E-05 49.1 2.4 43 376-419 50-96 (768)
18 KOG3559 Transcriptional regula 67.2 4.5 9.7E-05 44.8 2.9 45 378-422 7-54 (598)
19 KOG3898 Transcription factor N 56.2 9.3 0.0002 39.2 2.8 47 376-423 76-125 (254)
20 KOG4395 Transcription factor A 50.2 24 0.00051 37.1 4.6 58 365-425 170-229 (285)
21 PF13334 DUF4094: Domain of un 41.9 43 0.00092 29.9 4.3 26 411-436 68-93 (95)
22 KOG1352 Vacuolar H+-ATPase V1 28.3 29 0.00063 38.9 1.3 24 142-165 365-399 (618)
23 COG3074 Uncharacterized protei 23.5 1E+02 0.0022 27.0 3.5 28 411-438 13-40 (79)
24 KOG4447 Transcription factor T 22.3 84 0.0018 31.1 3.1 43 379-422 29-73 (173)
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=99.30 E-value=2.4e-12 Score=99.33 Aligned_cols=53 Identities=36% Similarity=0.615 Sum_probs=48.5
Q ss_pred cccccHHHHHHHHHHHHHHHHHhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHH
Q 008631 373 TNSHSLAERVRREKISERMKFLQDLVPGC---SKVTGKAVMLDEIINYVQSLQRQVE 426 (558)
Q Consensus 373 t~~HslaERrRReKINer~kaLq~LVP~~---~K~tDKASILdeAI~YIK~LQ~QVe 426 (558)
...|+..||+||++||+.|..|+++||.+ .| .+|++||..||+||+.|+.+++
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 34799999999999999999999999999 45 5999999999999999998863
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.25 E-value=1.2e-11 Score=94.14 Aligned_cols=49 Identities=39% Similarity=0.576 Sum_probs=44.7
Q ss_pred cHHHHHHHHHHHHHHHHHhhcCCC---CCCCCCchhhHHHHHHHHHHHHHHHH
Q 008631 377 SLAERVRREKISERMKFLQDLVPG---CSKVTGKAVMLDEIINYVQSLQRQVE 426 (558)
Q Consensus 377 slaERrRReKINer~kaLq~LVP~---~~K~tDKASILdeAI~YIK~LQ~QVe 426 (558)
++.||+||++||+.|..|+.|||. ..|. +|++||++||+||+.|+.+++
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 4464 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=99.21 E-value=1.7e-11 Score=94.87 Aligned_cols=48 Identities=38% Similarity=0.708 Sum_probs=44.3
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHHHHH
Q 008631 375 SHSLAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQSLQ 422 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP~~----~K~tDKASILdeAI~YIK~LQ 422 (558)
.|+..||+||++||+.|..|+.|||.+ ....+|++||+.||+||+.||
T Consensus 4 ~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 4 KHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 699999999999999999999999998 233599999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.20 E-value=1.9e-11 Score=129.17 Aligned_cols=84 Identities=31% Similarity=0.517 Sum_probs=62.5
Q ss_pred cccccccHHHHHHHHHHHHHHHHHhhcCCCCCC---CCCchhhHHHHHHHHHHHHHHHHH------HHhhhhhcCCCccc
Q 008631 371 QATNSHSLAERVRREKISERMKFLQDLVPGCSK---VTGKAVMLDEIINYVQSLQRQVEF------LSMKLATVNPRLDF 441 (558)
Q Consensus 371 qat~~HslaERrRReKINer~kaLq~LVP~~~K---~tDKASILdeAI~YIK~LQ~QVe~------Le~k~aavnp~l~~ 441 (558)
++.+.|+++|||||++||++|++|..|||.|+- .++|.+||..+++||+.||+..+. ++.+++..+..|-.
T Consensus 232 ~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~E~~~rqk~le~~n~~L~~ 311 (411)
T KOG1318|consen 232 RKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRARELENRQKKLESTNQELAL 311 (411)
T ss_pred HHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHHHHHhhhhHHHhHHHHHHH
Confidence 344699999999999999999999999999942 237999999999999999975542 22344555555555
Q ss_pred hhhhhhhHHhhhc
Q 008631 442 NIEELLAKDVLQS 454 (558)
Q Consensus 442 ~ie~L~~kd~~q~ 454 (558)
.+++|....-.+.
T Consensus 312 rieeLk~~~~~~~ 324 (411)
T KOG1318|consen 312 RIEELKSEAGRHG 324 (411)
T ss_pred HHHHHHHHHHHhc
Confidence 5666644444433
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.83 E-value=2.1e-09 Score=104.42 Aligned_cols=65 Identities=31% Similarity=0.518 Sum_probs=58.6
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCCCCC------CCchhhHHHHHHHHHHHHHHHHHHHhhhhhcCCCc
Q 008631 375 SHSLAERVRREKISERMKFLQDLVPGCSKV------TGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRL 439 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP~~~K~------tDKASILdeAI~YIK~LQ~QVe~Le~k~aavnp~l 439 (558)
.|-.+||+||+.||..+..||+|||.|... +.||.||..+|+||.+|..++.+-+.++++++.++
T Consensus 65 aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v 135 (229)
T KOG1319|consen 65 AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV 135 (229)
T ss_pred HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 499999999999999999999999987432 36999999999999999999999999999888765
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.28 E-value=3.5e-07 Score=91.95 Aligned_cols=52 Identities=33% Similarity=0.470 Sum_probs=45.5
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCCCCC-------CCchhhHHHHHHHHHHHHHHHH
Q 008631 375 SHSLAERVRREKISERMKFLQDLVPGCSKV-------TGKAVMLDEIINYVQSLQRQVE 426 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP~~~K~-------tDKASILdeAI~YIK~LQ~QVe 426 (558)
.|.+.|||||.|||+-+.+|++|||.+.|+ .+||.||+-|++|+|.||.+..
T Consensus 35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 588999999999999999999999966432 2799999999999999997543
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.06 E-value=3.6e-06 Score=95.85 Aligned_cols=52 Identities=19% Similarity=0.371 Sum_probs=47.3
Q ss_pred cccccHHHHHHHHHHHHHHHHHhhcCCCCC---CCCCchhhHHHHHHHHHHHHHH
Q 008631 373 TNSHSLAERVRREKISERMKFLQDLVPGCS---KVTGKAVMLDEIINYVQSLQRQ 424 (558)
Q Consensus 373 t~~HslaERrRReKINer~kaLq~LVP~~~---K~tDKASILdeAI~YIK~LQ~Q 424 (558)
.+.|+.+|||||+++|..|.+|.+|||.|. .+.||-+||.+||..||.+.++
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 357999999999999999999999999997 3349999999999999999875
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.65 E-value=4.4e-05 Score=87.89 Aligned_cols=65 Identities=28% Similarity=0.480 Sum_probs=54.9
Q ss_pred ccccccHHHHHHHHHHHHHHHHHhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHhhhhhcC
Q 008631 372 ATNSHSLAERVRREKISERMKFLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATVN 436 (558)
Q Consensus 372 at~~HslaERrRReKINer~kaLq~LVP~~~K~tDKASILdeAI~YIK~LQ~QVe~Le~k~aavn 436 (558)
....|+++|||-|-.||+||.+|++|||+..-+..|..+|..||+||++||...+.+....+.+.
T Consensus 276 kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 276 KRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred ccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 35679999999999999999999999998765458999999999999999987776665544443
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.51 E-value=0.00018 Score=72.19 Aligned_cols=58 Identities=26% Similarity=0.347 Sum_probs=47.7
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCCCCCCC--chhhHHHHHHHHHHHHHHHHHHHhh
Q 008631 374 NSHSLAERVRREKISERMKFLQDLVPGCSKVTG--KAVMLDEIINYVQSLQRQVEFLSMK 431 (558)
Q Consensus 374 ~~HslaERrRReKINer~kaLq~LVP~~~K~tD--KASILdeAI~YIK~LQ~QVe~Le~k 431 (558)
..|+.-||+||..|.+.|..|+++||....-+. .++||+.|+.||+.|+.+....+..
T Consensus 61 ~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~ 120 (232)
T KOG2483|consen 61 AHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQD 120 (232)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHH
Confidence 479999999999999999999999996543222 5899999999999999766544433
No 10
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.35 E-value=0.00036 Score=70.99 Aligned_cols=56 Identities=21% Similarity=0.282 Sum_probs=48.6
Q ss_pred ccHHHHHHHHHHHHHHHHHhh-cCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHhh
Q 008631 376 HSLAERVRREKISERMKFLQD-LVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMK 431 (558)
Q Consensus 376 HslaERrRReKINer~kaLq~-LVP~~~K~tDKASILdeAI~YIK~LQ~QVe~Le~k 431 (558)
--+.||||=.|+||-|.+|++ -+++-+...-|..||..||+||..||.-++.+...
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~ 178 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQA 178 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 348999999999999999987 67787776689999999999999999888776654
No 11
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.34 E-value=0.00055 Score=60.02 Aligned_cols=59 Identities=32% Similarity=0.524 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHhhcCCCC------CCCCCchhhHHHHHHHHHHHHHHHHHHHhhhhhcCCCcc
Q 008631 381 RVRREKISERMKFLQDLVPGC------SKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRLD 440 (558)
Q Consensus 381 RrRReKINer~kaLq~LVP~~------~K~tDKASILdeAI~YIK~LQ~QVe~Le~k~aavnp~l~ 440 (558)
|---+.|+|-+..||.|+|.. .|. .-+-+|+||.+||+.|+++|..|++.+..+-...+
T Consensus 16 risddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t~~ 80 (93)
T PLN03217 16 RISEDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSELLANSD 80 (93)
T ss_pred CCCHHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccC
Confidence 444578999999999999964 233 56679999999999999999999999886654443
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=96.80 E-value=0.00064 Score=70.83 Aligned_cols=50 Identities=26% Similarity=0.431 Sum_probs=44.3
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCC--CCCCCCchhhHHHHHHHHHHHHHHH
Q 008631 375 SHSLAERVRREKISERMKFLQDLVPG--CSKVTGKAVMLDEIINYVQSLQRQV 425 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP~--~~K~tDKASILdeAI~YIK~LQ~QV 425 (558)
.-+.-||||=.-||..|..|+.|+|. ..|+ .||.||+.+.+||..|+.+.
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 35677999999999999999999996 4676 89999999999999998654
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.37 E-value=0.0032 Score=61.90 Aligned_cols=57 Identities=23% Similarity=0.276 Sum_probs=48.3
Q ss_pred ccHHHHHHHHHHHHHHHHHhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHHHHHhhh
Q 008631 376 HSLAERVRREKISERMKFLQDLVPGC---SKVTGKAVMLDEIINYVQSLQRQVEFLSMKL 432 (558)
Q Consensus 376 HslaERrRReKINer~kaLq~LVP~~---~K~tDKASILdeAI~YIK~LQ~QVe~Le~k~ 432 (558)
++..||.|=.-+|..|..||.+||.. .|+..|..+|..||.||++|+.-++.-+..+
T Consensus 113 ~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 113 RNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 66679999999999999999999842 3445899999999999999998877666544
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.12 E-value=0.012 Score=64.92 Aligned_cols=54 Identities=26% Similarity=0.306 Sum_probs=45.2
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCC---CCCCCCCchhhHHHHHHHHHHHHHHHHHH
Q 008631 375 SHSLAERVRREKISERMKFLQDLVP---GCSKVTGKAVMLDEIINYVQSLQRQVEFL 428 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP---~~~K~tDKASILdeAI~YIK~LQ~QVe~L 428 (558)
..+..||.|=..|||.||+|.++.= ...|---|.-||-.||.-|-.|++||++-
T Consensus 529 aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 529 ANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred hhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 4788999999999999999999864 23332248899999999999999999874
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=87.12 E-value=0.35 Score=46.88 Aligned_cols=47 Identities=23% Similarity=0.380 Sum_probs=39.8
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCC--CCCCCchhhHHHHHHHHHHHH
Q 008631 375 SHSLAERVRREKISERMKFLQDLVPGC--SKVTGKAVMLDEIINYVQSLQ 422 (558)
Q Consensus 375 ~HslaERrRReKINer~kaLq~LVP~~--~K~tDKASILdeAI~YIK~LQ 422 (558)
.|++.||+|-..+|+.|.+||.++|.. .|+ .|.--|.-|-.||-+|=
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~ 129 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLY 129 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhh
Confidence 699999999999999999999999964 565 67777888888887764
No 16
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=79.11 E-value=1.5 Score=49.57 Aligned_cols=40 Identities=23% Similarity=0.446 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCC----CCCCCCchhhHHHHHHHHHH
Q 008631 380 ERVRREKISERMKFLQDLVPG----CSKVTGKAVMLDEIINYVQS 420 (558)
Q Consensus 380 ERrRReKINer~kaLq~LVP~----~~K~tDKASILdeAI~YIK~ 420 (558)
-+|-|+|+|..+..|..|+|= .+|+ ||.+||.-++-|++-
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 467899999999999999994 5787 999999999999864
No 17
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=72.58 E-value=2.4 Score=49.10 Aligned_cols=43 Identities=33% Similarity=0.384 Sum_probs=36.8
Q ss_pred ccHHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHH
Q 008631 376 HSLAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQ 419 (558)
Q Consensus 376 HslaERrRReKINer~kaLq~LVP~~----~K~tDKASILdeAI~YIK 419 (558)
-.-+.|-||.|=|+-|.+|..++|-- ..+ |||+|+.-||-|++
T Consensus 50 SRdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLR 96 (768)
T KOG3558|consen 50 SRDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHH
Confidence 33578999999999999999999943 334 99999999999986
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=67.16 E-value=4.5 Score=44.79 Aligned_cols=45 Identities=29% Similarity=0.293 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCC---CCCchhhHHHHHHHHHHHH
Q 008631 378 LAERVRREKISERMKFLQDLVPGCSK---VTGKAVMLDEIINYVQSLQ 422 (558)
Q Consensus 378 laERrRReKINer~kaLq~LVP~~~K---~tDKASILdeAI~YIK~LQ 422 (558)
-+.|.||++=|-.|.+|..|+|-... ..|||+|+.-|.-|||--+
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr~ 54 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMRN 54 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHHH
Confidence 35799999999999999999995432 2499999999999998544
No 19
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=56.15 E-value=9.3 Score=39.16 Aligned_cols=47 Identities=23% Similarity=0.417 Sum_probs=39.5
Q ss_pred ccHHHHHHHHHHHHHHHHHhhcCCC---CCCCCCchhhHHHHHHHHHHHHH
Q 008631 376 HSLAERVRREKISERMKFLQDLVPG---CSKVTGKAVMLDEIINYVQSLQR 423 (558)
Q Consensus 376 HslaERrRReKINer~kaLq~LVP~---~~K~tDKASILdeAI~YIK~LQ~ 423 (558)
-+..||+|=-.+|+-|..||.+||. ..|+ .|.-.|.-|=+||..|+.
T Consensus 76 aNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 76 ANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSE 125 (254)
T ss_pred ccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhcc
Confidence 4578999999999999999999993 4565 688889888899888764
No 20
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=50.25 E-value=24 Score=37.09 Aligned_cols=58 Identities=24% Similarity=0.252 Sum_probs=43.3
Q ss_pred hhhccccccccccHHHHHHHHHHHHHHHHHhhcCCCCC--CCCCchhhHHHHHHHHHHHHHHH
Q 008631 365 VRARRGQATNSHSLAERVRREKISERMKFLQDLVPGCS--KVTGKAVMLDEIINYVQSLQRQV 425 (558)
Q Consensus 365 ~RaRR~qat~~HslaERrRReKINer~kaLq~LVP~~~--K~tDKASILdeAI~YIK~LQ~QV 425 (558)
+.++|+.+ -+..||+|=..+|.-|..|+..||... |...|---|..|-.||-.|-..+
T Consensus 170 v~~~rr~a---anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 170 VNSHRRLA---ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred HHHhhhcc---cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 33344444 568899999999999999999999653 22257777888888887776544
No 21
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=41.89 E-value=43 Score=29.93 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhcC
Q 008631 411 LDEIINYVQSLQRQVEFLSMKLATVN 436 (558)
Q Consensus 411 LdeAI~YIK~LQ~QVe~Le~k~aavn 436 (558)
+.++-+-|+.|.+.|-.|||++++..
T Consensus 68 V~kTh~aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 68 VSKTHEAIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47777788999999999999998764
No 22
>KOG1352 consensus Vacuolar H+-ATPase V1 sector, subunit A [Energy production and conversion]
Probab=28.26 E-value=29 Score=38.86 Aligned_cols=24 Identities=42% Similarity=0.693 Sum_probs=21.1
Q ss_pred CCCCCCCCChh-----------HHhhhcCccccCC
Q 008631 142 QSLSQFPADSA-----------FIERAARFSSFSG 165 (558)
Q Consensus 142 ~~l~~f~adsg-----------F~eraarfscf~~ 165 (558)
--|++.|||+| |-|||.|.-|.|+
T Consensus 365 GRLaEMPADsGyPAYLgArLAsFYERAG~vkcLGs 399 (618)
T KOG1352|consen 365 GRLAEMPADSGYPAYLGARLASFYERAGRVKCLGS 399 (618)
T ss_pred hhhhcCcCcCCCcHHHHHHHHHHHHhcCceeecCC
Confidence 35889999997 7899999999997
No 23
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.53 E-value=1e+02 Score=26.98 Aligned_cols=28 Identities=21% Similarity=0.297 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhcCCC
Q 008631 411 LDEIINYVQSLQRQVEFLSMKLATVNPR 438 (558)
Q Consensus 411 LdeAI~YIK~LQ~QVe~Le~k~aavnp~ 438 (558)
+..||+-|.-||..|++|..+...+.-.
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~e 40 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHHH
Confidence 5789999999999999999887755443
No 24
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=22.28 E-value=84 Score=31.06 Aligned_cols=43 Identities=33% Similarity=0.461 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCC--CCCchhhHHHHHHHHHHHH
Q 008631 379 AERVRREKISERMKFLQDLVPGCSK--VTGKAVMLDEIINYVQSLQ 422 (558)
Q Consensus 379 aERrRReKINer~kaLq~LVP~~~K--~tDKASILdeAI~YIK~LQ 422 (558)
.||.|..++|+.+..|+.|+|+..- +..|-+ |.-+-+||++|.
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~kt-lr~~~~~~~~~d 73 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKT-LRIGTDSIQSLD 73 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccc-cccCCCchhhHH
Confidence 6889999999999999999998642 211212 555555665554
Done!