Query 020693
Match_columns 322
No_of_seqs 197 out of 827
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 04:24:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/020693.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/020693hhsearch_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 2.7E-13 5.8E-18 98.4 5.2 53 267-320 5-60 (60)
2 smart00353 HLH helix loop heli 99.4 1.9E-12 4E-17 92.5 6.5 50 271-321 1-53 (53)
3 PF00010 HLH: Helix-loop-helix 99.3 1.6E-12 3.6E-17 94.3 5.1 48 268-316 3-55 (55)
4 KOG1318 Helix loop helix trans 99.1 6.7E-11 1.4E-15 117.9 5.4 65 256-320 223-290 (411)
5 KOG1319 bHLHZip transcription 98.8 7.5E-09 1.6E-13 94.8 4.9 53 268-320 64-122 (229)
6 KOG4304 Transcriptional repres 98.5 6.4E-08 1.4E-12 91.3 3.3 53 268-320 34-93 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.1 2.7E-06 5.8E-11 91.2 5.3 52 267-318 21-75 (803)
8 KOG2483 Upstream transcription 97.9 3.6E-05 7.7E-10 72.4 6.9 54 267-320 60-115 (232)
9 KOG2588 Predicted DNA-binding 97.6 5.7E-05 1.2E-09 82.1 5.0 57 265-321 275-331 (953)
10 KOG0561 bHLH transcription fac 97.5 5.6E-05 1.2E-09 73.8 2.4 53 269-322 63-117 (373)
11 PLN03217 transcription factor 97.2 0.00067 1.5E-08 55.7 4.9 44 278-322 19-68 (93)
12 KOG3960 Myogenic helix-loop-he 96.9 0.0019 4.1E-08 62.0 6.4 54 269-322 121-175 (284)
13 KOG4029 Transcription factor H 96.9 0.0009 2E-08 61.6 3.9 53 269-321 112-167 (228)
14 KOG3910 Helix loop helix trans 95.7 0.008 1.7E-07 62.4 3.2 54 268-321 528-584 (632)
15 KOG4447 Transcription factor T 91.2 0.11 2.4E-06 47.0 1.6 48 269-317 81-130 (173)
16 KOG3558 Hypoxia-inducible fact 88.7 0.27 5.8E-06 53.1 2.3 45 269-314 49-97 (768)
17 KOG3560 Aryl-hydrocarbon recep 86.2 0.67 1.5E-05 49.2 3.5 40 274-314 33-76 (712)
18 KOG3898 Transcription factor N 62.4 5.2 0.00011 38.2 2.1 48 269-317 75-125 (254)
19 KOG3582 Mlx interactors and re 51.0 9.9 0.00022 41.7 2.1 55 266-320 651-709 (856)
20 KOG4395 Transcription factor A 49.8 36 0.00079 33.4 5.5 50 269-319 177-229 (285)
21 KOG3582 Mlx interactors and re 25.0 19 0.00041 39.7 -0.8 50 268-320 789-842 (856)
22 PF10465 Inhibitor_I24: PinA p 23.6 62 0.0013 28.8 2.2 37 280-319 103-139 (140)
23 PF10046 BLOC1_2: Biogenesis o 23.5 48 0.0011 27.1 1.5 45 278-322 51-99 (99)
24 KOG4447 Transcription factor T 22.3 77 0.0017 29.2 2.6 24 273-296 29-52 (173)
25 TIGR00986 3a0801s05tom22 mitoc 20.5 68 0.0015 28.9 1.9 36 279-315 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=99.41 E-value=2.7e-13 Score=98.36 Aligned_cols=53 Identities=36% Similarity=0.627 Sum_probs=49.0
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHhcCCCC---CCCCChhhHHHHHHHHHHHHHHHHH
Q 020693 267 TNSHSLAERVRREKISERMRLLQELVPGC---NKITGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 267 ~~~Hs~aERrRRekInerf~~Lr~LVP~~---~K~~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
...|+..||+||++||+.|..|+.+||.+ .+ .+|+.||+.||+||+.|+.+++
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 45899999999999999999999999998 55 5999999999999999999874
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.35 E-value=1.9e-12 Score=92.55 Aligned_cols=50 Identities=38% Similarity=0.546 Sum_probs=45.1
Q ss_pred chhHHHHHHHHHHHHHHHHhcCCC---CCCCCChhhHHHHHHHHHHHHHHHHHh
Q 020693 271 SLAERVRREKISERMRLLQELVPG---CNKITGKAVMLDEIINYVQSLQQQVEV 321 (322)
Q Consensus 271 s~aERrRRekInerf~~Lr~LVP~---~~K~~dKAsIL~eAI~YIk~LQ~qVq~ 321 (322)
+..||+||++||+.|..|+.|||. ..+ .+|++||+.||+||++|+.+++.
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k-~~k~~iL~~ai~yi~~L~~~~~~ 53 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKK-LSKAEILRLAIEYIKSLQEELQK 53 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHHhC
Confidence 468999999999999999999996 446 49999999999999999999873
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=99.33 E-value=1.6e-12 Score=94.32 Aligned_cols=48 Identities=40% Similarity=0.724 Sum_probs=44.7
Q ss_pred CCcchhHHHHHHHHHHHHHHHHhcCCCC-----CCCCChhhHHHHHHHHHHHHH
Q 020693 268 NSHSLAERVRREKISERMRLLQELVPGC-----NKITGKAVMLDEIINYVQSLQ 316 (322)
Q Consensus 268 ~~Hs~aERrRRekInerf~~Lr~LVP~~-----~K~~dKAsIL~eAI~YIk~LQ 316 (322)
..|+..||+||++||+.|..|+.|||.+ .+ .+|++||+.||+||++||
T Consensus 3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k-~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRK-LSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSS-SSHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhccchhcccccc-CCHHHHHHHHHHHHHHhC
Confidence 3799999999999999999999999987 45 599999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.11 E-value=6.7e-11 Score=117.88 Aligned_cols=65 Identities=29% Similarity=0.544 Sum_probs=54.0
Q ss_pred cccccccCCCcCCCcchhHHHHHHHHHHHHHHHHhcCCCCCCC---CChhhHHHHHHHHHHHHHHHHH
Q 020693 256 YIHMRAKRGQATNSHSLAERVRREKISERMRLLQELVPGCNKI---TGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 256 ~~~~rakr~~a~~~Hs~aERrRRekInerf~~Lr~LVP~~~K~---~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
......|-+++++.|++.|||||++||++++.|..|||.|+.. .+|..||..+++||++||+..+
T Consensus 223 ~~~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 223 DATALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred ccchhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 3333344455567999999999999999999999999999431 3799999999999999998766
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.76 E-value=7.5e-09 Score=94.78 Aligned_cols=53 Identities=36% Similarity=0.609 Sum_probs=47.5
Q ss_pred CCcchhHHHHHHHHHHHHHHHHhcCCCCCCC------CChhhHHHHHHHHHHHHHHHHH
Q 020693 268 NSHSLAERVRREKISERMRLLQELVPGCNKI------TGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 268 ~~Hs~aERrRRekInerf~~Lr~LVP~~~K~------~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
.+|..+||+||+.|+..+..|+.|||.|... +.||.||..+|+||.+|.+++.
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~ 122 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKK 122 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999999999999999999987532 3699999999999999998764
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.50 E-value=6.4e-08 Score=91.32 Aligned_cols=53 Identities=28% Similarity=0.409 Sum_probs=46.2
Q ss_pred CCcchhHHHHHHHHHHHHHHHHhcCCCCCCC-------CChhhHHHHHHHHHHHHHHHHH
Q 020693 268 NSHSLAERVRREKISERMRLLQELVPGCNKI-------TGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 268 ~~Hs~aERrRRekInerf~~Lr~LVP~~~K~-------~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
..|.+.|||||+|||+.|..|++|||.+.++ .+||.||+-|++|++.||...+
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 3788999999999999999999999965332 3899999999999999997653
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.12 E-value=2.7e-06 Score=91.25 Aligned_cols=52 Identities=21% Similarity=0.375 Sum_probs=47.3
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHhcCCCCC---CCCChhhHHHHHHHHHHHHHHH
Q 020693 267 TNSHSLAERVRREKISERMRLLQELVPGCN---KITGKAVMLDEIINYVQSLQQQ 318 (322)
Q Consensus 267 ~~~Hs~aERrRRekInerf~~Lr~LVP~~~---K~~dKAsIL~eAI~YIk~LQ~q 318 (322)
...|+.+|||||+++|..+.+|.+|||+|. .+.||.+||..||..||.++++
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 349999999999999999999999999997 3359999999999999998874
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.85 E-value=3.6e-05 Score=72.40 Aligned_cols=54 Identities=26% Similarity=0.376 Sum_probs=46.5
Q ss_pred CCCcchhHHHHHHHHHHHHHHHHhcCCCCCCCC--ChhhHHHHHHHHHHHHHHHHH
Q 020693 267 TNSHSLAERVRREKISERMRLLQELVPGCNKIT--GKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 267 ~~~Hs~aERrRRekInerf~~Lr~LVP~~~K~~--dKAsIL~eAI~YIk~LQ~qVq 320 (322)
+..|+..||+||..|.+.|..|+.+||....-+ ..++||+.|+.||+.|+.+..
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~ 115 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSA 115 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHH
Confidence 459999999999999999999999999654322 268999999999999998765
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.62 E-value=5.7e-05 Score=82.06 Aligned_cols=57 Identities=26% Similarity=0.496 Sum_probs=50.2
Q ss_pred CcCCCcchhHHHHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHHHHHHHh
Q 020693 265 QATNSHSLAERVRREKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQQQVEV 321 (322)
Q Consensus 265 ~a~~~Hs~aERrRRekInerf~~Lr~LVP~~~K~~dKAsIL~eAI~YIk~LQ~qVq~ 321 (322)
..+.+|+++|+|-|..||+++..|++|||+..-+..|..+|..||+||++||..-+.
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~ 331 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQK 331 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccc
Confidence 446799999999999999999999999998754458999999999999999976543
No 10
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.48 E-value=5.6e-05 Score=73.84 Aligned_cols=53 Identities=26% Similarity=0.436 Sum_probs=46.5
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCC--CCCCCChhhHHHHHHHHHHHHHHHHHhC
Q 020693 269 SHSLAERVRREKISERMRLLQELVPG--CNKITGKAVMLDEIINYVQSLQQQVEVL 322 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~--~~K~~dKAsIL~eAI~YIk~LQ~qVq~L 322 (322)
.-+..||||=.-||..|..||.|+|. ..|+ .||.||+.+.+||.+|+.+.-+|
T Consensus 63 IANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 63 IANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred hhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhccccc
Confidence 55778999999999999999999995 4676 99999999999999999876443
No 11
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.16 E-value=0.00067 Score=55.67 Aligned_cols=44 Identities=30% Similarity=0.581 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHHhcCCCC------CCCCChhhHHHHHHHHHHHHHHHHHhC
Q 020693 278 REKISERMRLLQELVPGC------NKITGKAVMLDEIINYVQSLQQQVEVL 322 (322)
Q Consensus 278 RekInerf~~Lr~LVP~~------~K~~dKAsIL~eAI~YIk~LQ~qVq~L 322 (322)
-+.|++-+..||.|+|.. .++ .-+-+|+||.+||+.|+.+|..|
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdL 68 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDL 68 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHH
Confidence 468999999999999964 333 56779999999999999999765
No 12
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=96.93 E-value=0.0019 Score=61.98 Aligned_cols=54 Identities=24% Similarity=0.334 Sum_probs=43.5
Q ss_pred CcchhHHHHHHHHHHHHHHHHhc-CCCCCCCCChhhHHHHHHHHHHHHHHHHHhC
Q 020693 269 SHSLAERVRREKISERMRLLQEL-VPGCNKITGKAVMLDEIINYVQSLQQQVEVL 322 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~L-VP~~~K~~dKAsIL~eAI~YIk~LQ~qVq~L 322 (322)
+-.+.||||=.|+||.|.+|+.- ++.-+.-.-|.-||-.||+||..||.-++++
T Consensus 121 AATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~ 175 (284)
T KOG3960|consen 121 AATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQ 175 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHh
Confidence 44578999999999999999763 4444443379999999999999999877653
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.90 E-value=0.0009 Score=61.63 Aligned_cols=53 Identities=21% Similarity=0.298 Sum_probs=45.3
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCCC---CCCCChhhHHHHHHHHHHHHHHHHHh
Q 020693 269 SHSLAERVRREKISERMRLLQELVPGC---NKITGKAVMLDEIINYVQSLQQQVEV 321 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~~---~K~~dKAsIL~eAI~YIk~LQ~qVq~ 321 (322)
.++..||.|=+.+|..|..||.+||.. .|+..|..+|-.||.||++|+.-++.
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~ 167 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLAT 167 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcc
Confidence 566679999999999999999999942 33349999999999999999987653
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=95.68 E-value=0.008 Score=62.37 Aligned_cols=54 Identities=26% Similarity=0.313 Sum_probs=46.0
Q ss_pred CCcchhHHHHHHHHHHHHHHHHhcCCC---CCCCCChhhHHHHHHHHHHHHHHHHHh
Q 020693 268 NSHSLAERVRREKISERMRLLQELVPG---CNKITGKAVMLDEIINYVQSLQQQVEV 321 (322)
Q Consensus 268 ~~Hs~aERrRRekInerf~~Lr~LVP~---~~K~~dKAsIL~eAI~YIk~LQ~qVq~ 321 (322)
...+..||.|=..|||.|++|-.+.-. ..|..-|..||..||.-|-.|++||++
T Consensus 528 ~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE 584 (632)
T KOG3910|consen 528 MANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE 584 (632)
T ss_pred hhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH
Confidence 478899999999999999999988653 233335999999999999999999986
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=91.23 E-value=0.11 Score=47.01 Aligned_cols=48 Identities=25% Similarity=0.421 Sum_probs=41.9
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCCC--CCCCChhhHHHHHHHHHHHHHH
Q 020693 269 SHSLAERVRREKISERMRLLQELVPGC--NKITGKAVMLDEIINYVQSLQQ 317 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~~--~K~~dKAsIL~eAI~YIk~LQ~ 317 (322)
-|++-||+|-..+|+.|.+||.++|.. .|+ .|.--|.-|-.||-+|=.
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhh
Confidence 789999999999999999999999964 565 788889999999988743
No 16
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=88.73 E-value=0.27 Score=53.10 Aligned_cols=45 Identities=29% Similarity=0.366 Sum_probs=37.8
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCCC----CCCCChhhHHHHHHHHHHH
Q 020693 269 SHSLAERVRREKISERMRLLQELVPGC----NKITGKAVMLDEIINYVQS 314 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~~----~K~~dKAsIL~eAI~YIk~ 314 (322)
.-.-+-|.||.|-|+-|.+|..+||-- ..+ |||+|+--||-|++-
T Consensus 49 kSRdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLRl 97 (768)
T KOG3558|consen 49 KSRDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHHH
Confidence 334568999999999999999999932 344 999999999999873
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=86.25 E-value=0.67 Score=49.21 Aligned_cols=40 Identities=20% Similarity=0.419 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCC----CCCCCChhhHHHHHHHHHHH
Q 020693 274 ERVRREKISERMRLLQELVPG----CNKITGKAVMLDEIINYVQS 314 (322)
Q Consensus 274 ERrRRekInerf~~Lr~LVP~----~~K~~dKAsIL~eAI~YIk~ 314 (322)
-+|-|+|+|-.+..|..|+|- ++|+ ||.+||--++-|++.
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 456689999999999999994 5787 999999999999863
No 18
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=62.38 E-value=5.2 Score=38.20 Aligned_cols=48 Identities=25% Similarity=0.425 Sum_probs=40.9
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCC---CCCCCChhhHHHHHHHHHHHHHH
Q 020693 269 SHSLAERVRREKISERMRLLQELVPG---CNKITGKAVMLDEIINYVQSLQQ 317 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~---~~K~~dKAsIL~eAI~YIk~LQ~ 317 (322)
.-+.-||.|=-.+|+-|..||..||. ..|+ .|+-.|.-|=+||-.|++
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 44667999999999999999999994 3555 788899999999999875
No 19
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=50.95 E-value=9.9 Score=41.74 Aligned_cols=55 Identities=24% Similarity=0.322 Sum_probs=44.4
Q ss_pred cCCCcchhHHHHHHHHHHHHHHHHhcCCCCCCC----CChhhHHHHHHHHHHHHHHHHH
Q 020693 266 ATNSHSLAERVRREKISERMRLLQELVPGCNKI----TGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 266 a~~~Hs~aERrRRekInerf~~Lr~LVP~~~K~----~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
....|+-+|++||..|.-.|..|-.++-....+ +-++.-|+.+++||..++.+..
T Consensus 651 r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~ 709 (856)
T KOG3582|consen 651 RPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERV 709 (856)
T ss_pred CcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhcc
Confidence 346999999999999999999999999865443 3466668999999988876543
No 20
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=49.82 E-value=36 Score=33.40 Aligned_cols=50 Identities=22% Similarity=0.291 Sum_probs=41.4
Q ss_pred CcchhHHHHHHHHHHHHHHHHhcCCCCC---CCCChhhHHHHHHHHHHHHHHHH
Q 020693 269 SHSLAERVRREKISERMRLLQELVPGCN---KITGKAVMLDEIINYVQSLQQQV 319 (322)
Q Consensus 269 ~Hs~aERrRRekInerf~~Lr~LVP~~~---K~~dKAsIL~eAI~YIk~LQ~qV 319 (322)
+-+..||+|=..+|..|..|+..||... ++ .|--.|+-|-.||--|-..+
T Consensus 177 aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~L-SkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 177 AANARERRRMNGLNSAFDRLRLVVPDGDSDKKL-SKYETLQMAQGYILALGCLL 229 (285)
T ss_pred ccchHHHHHhhhHHHHHHHHHHhcCCCCccchh-hhhhHHHHHHHHHhhhHHhh
Confidence 5677899999999999999999999653 44 67788999999998775443
No 21
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=24.99 E-value=19 Score=39.72 Aligned_cols=50 Identities=16% Similarity=0.181 Sum_probs=40.2
Q ss_pred CCcchhHHHHHHHHHHHHHHHHhcCCCC----CCCCChhhHHHHHHHHHHHHHHHHH
Q 020693 268 NSHSLAERVRREKISERMRLLQELVPGC----NKITGKAVMLDEIINYVQSLQQQVE 320 (322)
Q Consensus 268 ~~Hs~aERrRRekInerf~~Lr~LVP~~----~K~~dKAsIL~eAI~YIk~LQ~qVq 320 (322)
..|+-++||||-.+-++|..|-.|.|.. .+++.+++||. +-|+.+|+.-+
T Consensus 789 a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~sk 842 (856)
T KOG3582|consen 789 AGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASK 842 (856)
T ss_pred cchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHH
Confidence 5788899999999999999999999954 44567899997 66666665443
No 22
>PF10465 Inhibitor_I24: PinA peptidase inhibitor ; InterPro: IPR019506 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. PinA inhibits the endopeptidase La. It binds to the La homotetramer but does not interfere with the ATP binding site or the active site of La.
Probab=23.59 E-value=62 Score=28.75 Aligned_cols=37 Identities=16% Similarity=0.254 Sum_probs=24.2
Q ss_pred HHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHHHHHH
Q 020693 280 KISERMRLLQELVPGCNKITGKAVMLDEIINYVQSLQQQV 319 (322)
Q Consensus 280 kInerf~~Lr~LVP~~~K~~dKAsIL~eAI~YIk~LQ~qV 319 (322)
+|...+..|.. --.|+. -...+.+.|-+||.+|+.|+
T Consensus 103 rIsyaL~K~A~-qen~D~--yEgnLMQAAAeYIewLE~ql 139 (140)
T PF10465_consen 103 RISYALAKLAA-QENNDG--YEGNLMQAAAEYIEWLETQL 139 (140)
T ss_pred chHHHHHHHHh-hhcCCc--chhhHHHHHHHHHHHHHhhc
Confidence 35554444432 123433 36778999999999999986
No 23
>PF10046 BLOC1_2: Biogenesis of lysosome-related organelles complex-1 subunit 2 ; InterPro: IPR019269 This entry represents a family of proteins that play a role in cellular proliferation, as well as in the biogenesis of specialised organelles of the endosomal-lysosomal system [].
Probab=23.51 E-value=48 Score=27.12 Aligned_cols=45 Identities=18% Similarity=0.361 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHH----HHHHHHHHHHhC
Q 020693 278 REKISERMRLLQELVPGCNKITGKAVMLDEIIN----YVQSLQQQVEVL 322 (322)
Q Consensus 278 RekInerf~~Lr~LVP~~~K~~dKAsIL~eAI~----YIk~LQ~qVq~L 322 (322)
-+.++++...|+..+-....+..+..-|+.++. |++.|+.+++.|
T Consensus 51 ~~~l~~k~~~l~~~l~~Id~Ie~~V~~LE~~v~~LD~ysk~LE~k~k~l 99 (99)
T PF10046_consen 51 LEDLNQKYEELQPYLQQIDQIEEQVTELEQTVYELDEYSKELESKFKKL 99 (99)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 345666666666666555554446677777775 888898888765
No 24
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=22.33 E-value=77 Score=29.17 Aligned_cols=24 Identities=38% Similarity=0.616 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHHHHHHHhcCCCCC
Q 020693 273 AERVRREKISERMRLLQELVPGCN 296 (322)
Q Consensus 273 aERrRRekInerf~~Lr~LVP~~~ 296 (322)
.||.|..++++.+.-|+.|+|+..
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgsp 52 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSP 52 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCC
Confidence 488899999999999999999763
No 25
>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=20.53 E-value=68 Score=28.89 Aligned_cols=36 Identities=22% Similarity=0.315 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHH
Q 020693 279 EKISERMRLLQELVPGCNKITGKAVMLDEIINYVQSL 315 (322)
Q Consensus 279 ekInerf~~Lr~LVP~~~K~~dKAsIL~eAI~YIk~L 315 (322)
+-|-+|+.+|++|||....- .-.+...-+..++|.+
T Consensus 49 ETl~ERi~ALkDm~Pp~~R~-~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 49 ETFTDRIYALKDIVPPTTRG-WIYHKYSTTTNFVKST 84 (145)
T ss_pred CcHHHHHHHHHhhCCHHHHH-HHHHHHHHHHHHHHHH
Confidence 46788899999999976552 3344555566666554
Done!