Query 012178
Match_columns 469
No_of_seqs 270 out of 1089
Neff 3.7
Searched_HMMs 46136
Date Thu Mar 28 23:52:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012178.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012178hhsearch_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 4.2E-13 9.2E-18 101.9 5.0 53 259-311 4-59 (60)
2 PF00010 HLH: Helix-loop-helix 99.3 8.7E-13 1.9E-17 100.3 3.4 48 261-308 3-55 (55)
3 smart00353 HLH helix loop heli 99.3 5E-12 1.1E-16 94.5 6.9 49 264-312 1-52 (53)
4 KOG1318 Helix loop helix trans 99.2 3.7E-11 8E-16 125.0 7.7 65 251-315 225-293 (411)
5 KOG1319 bHLHZip transcription 98.7 2.8E-08 6E-13 95.0 5.8 58 260-317 63-127 (229)
6 KOG4304 Transcriptional repres 98.6 2.3E-08 5.1E-13 98.6 2.7 55 258-312 31-93 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.4 4.1E-07 8.9E-12 101.6 5.5 51 260-310 21-75 (803)
8 KOG2588 Predicted DNA-binding 98.2 6.6E-07 1.4E-11 100.8 3.0 64 257-320 274-338 (953)
9 KOG2483 Upstream transcription 97.9 2.2E-05 4.9E-10 77.2 6.1 59 259-317 59-120 (232)
10 KOG0561 bHLH transcription fac 97.8 4.3E-05 9.4E-10 77.9 6.2 55 263-317 64-120 (373)
11 KOG4029 Transcription factor H 97.4 0.00015 3.3E-09 69.9 3.8 58 260-317 110-171 (228)
12 KOG3960 Myogenic helix-loop-he 97.2 0.00064 1.4E-08 68.0 6.2 55 264-318 123-179 (284)
13 PLN03217 transcription factor 97.0 0.0015 3.3E-08 56.2 5.7 51 268-318 16-72 (93)
14 KOG3910 Helix loop helix trans 96.8 0.00081 1.8E-08 72.4 2.9 60 255-314 522-585 (632)
15 KOG4447 Transcription factor T 94.6 0.018 3.8E-07 54.4 1.8 51 260-310 79-131 (173)
16 PLN02705 beta-amylase 93.0 0.28 6.1E-06 54.8 7.5 12 261-272 86-97 (681)
17 KOG3560 Aryl-hydrocarbon recep 89.6 0.36 7.9E-06 53.4 4.1 40 267-306 33-76 (712)
18 KOG3558 Hypoxia-inducible fact 89.5 0.22 4.9E-06 56.1 2.5 46 262-307 49-98 (768)
19 KOG3898 Transcription factor N 88.3 0.38 8.2E-06 48.1 3.0 52 258-309 71-125 (254)
20 KOG3559 Transcriptional regula 88.3 0.55 1.2E-05 50.6 4.3 44 265-308 7-54 (598)
21 KOG4395 Transcription factor A 78.1 3.2 6.8E-05 42.4 4.6 50 262-311 177-229 (285)
22 KOG3582 Mlx interactors and re 67.2 2.5 5.5E-05 48.1 1.1 60 258-317 650-714 (856)
23 KOG4447 Transcription factor T 48.6 12 0.00026 36.0 2.0 44 266-309 29-74 (173)
24 KOG3584 cAMP response element 40.4 26 0.00056 36.7 3.1 39 268-318 290-328 (348)
25 KOG3582 Mlx interactors and re 40.3 7.8 0.00017 44.5 -0.6 60 256-318 784-848 (856)
26 PLN02705 beta-amylase 40.1 24 0.00052 40.2 3.1 14 270-283 116-129 (681)
27 PF15030 DUF4527: Protein of u 30.3 89 0.0019 32.2 5.0 67 268-334 15-83 (277)
28 PF15459 RRP14: 60S ribosome b 26.3 33 0.00072 28.1 1.0 15 38-52 6-20 (64)
29 TIGR00986 3a0801s05tom22 mitoc 25.3 44 0.00096 31.6 1.8 38 271-308 48-85 (145)
30 COG3074 Uncharacterized protei 23.9 86 0.0019 26.8 3.0 23 297-319 13-35 (79)
31 PF08232 Striatin: Striatin fa 23.3 3.3E+02 0.0073 24.9 7.0 45 271-320 27-71 (134)
32 PF02344 Myc-LZ: Myc leucine z 20.1 1E+02 0.0022 22.5 2.4 17 267-283 13-29 (32)
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=99.38 E-value=4.2e-13 Score=101.85 Aligned_cols=53 Identities=38% Similarity=0.631 Sum_probs=49.8
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHhhcCCC---CCcchhhHHHHHHHHHHHHHHHH
Q 012178 259 ATDPHSIAERLRRERIAERMKALQELVPNA---NKTDKASMLDEIIDYVKFLQLQV 311 (469)
Q Consensus 259 ~~~~Hs~aERkRReKINerf~aLrsLVP~~---~K~DKASIL~eAIdYIK~LQ~qV 311 (469)
.+..|+..||+||++||+.|..|+.+||.. .|+||++||+.||+||++|+.++
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 356799999999999999999999999988 89999999999999999999876
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=99.32 E-value=8.7e-13 Score=100.27 Aligned_cols=48 Identities=46% Similarity=0.710 Sum_probs=45.6
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhhcCCC-----CCcchhhHHHHHHHHHHHHH
Q 012178 261 DPHSIAERLRRERIAERMKALQELVPNA-----NKTDKASMLDEIIDYVKFLQ 308 (469)
Q Consensus 261 ~~Hs~aERkRReKINerf~aLrsLVP~~-----~K~DKASIL~eAIdYIK~LQ 308 (469)
..|+..||+||++||+.|.+|+.+||.+ .|++|++||+.||+||++||
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 4699999999999999999999999987 68999999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.31 E-value=5e-12 Score=94.54 Aligned_cols=49 Identities=37% Similarity=0.577 Sum_probs=45.6
Q ss_pred cHHHHHHHHHHHHHHHHHHhhcCC---CCCcchhhHHHHHHHHHHHHHHHHH
Q 012178 264 SIAERLRRERIAERMKALQELVPN---ANKTDKASMLDEIIDYVKFLQLQVK 312 (469)
Q Consensus 264 s~aERkRReKINerf~aLrsLVP~---~~K~DKASIL~eAIdYIK~LQ~qVk 312 (469)
+..||+||++||++|..|+.+||. ..|++|++||.+||+||++|+.+++
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 5689999999999999999999876
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.18 E-value=3.7e-11 Score=124.98 Aligned_cols=65 Identities=32% Similarity=0.516 Sum_probs=56.1
Q ss_pred hhhhccCCCCCcccHHHHHHHHHHHHHHHHHHhhcCCC----CCcchhhHHHHHHHHHHHHHHHHHHHh
Q 012178 251 RVRARRGQATDPHSIAERLRRERIAERMKALQELVPNA----NKTDKASMLDEIIDYVKFLQLQVKVLS 315 (469)
Q Consensus 251 r~Rarr~~~~~~Hs~aERkRReKINerf~aLrsLVP~~----~K~DKASIL~eAIdYIK~LQ~qVk~Le 315 (469)
+...|.+++|+.|+++|||||++||++|++|..|||.| .|..|..||..+++||++||+..++..
T Consensus 225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~ 293 (411)
T KOG1318|consen 225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR 293 (411)
T ss_pred chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 44445566789999999999999999999999999999 366799999999999999999776443
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.67 E-value=2.8e-08 Score=95.03 Aligned_cols=58 Identities=36% Similarity=0.531 Sum_probs=52.2
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhhcCCCC-------CcchhhHHHHHHHHHHHHHHHHHHHhcc
Q 012178 260 TDPHSIAERLRRERIAERMKALQELVPNAN-------KTDKASMLDEIIDYVKFLQLQVKVLSMS 317 (469)
Q Consensus 260 ~~~Hs~aERkRReKINerf~aLrsLVP~~~-------K~DKASIL~eAIdYIK~LQ~qVk~Le~~ 317 (469)
+..|.-+||+||+-|+..+..|+.|||.|. |+.||.||.++|+||.+|++++..-+++
T Consensus 63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e 127 (229)
T KOG1319|consen 63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEE 127 (229)
T ss_pred HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 357999999999999999999999999773 7889999999999999999988777665
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.58 E-value=2.3e-08 Score=98.58 Aligned_cols=55 Identities=27% Similarity=0.446 Sum_probs=48.0
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHhhcCCC--------CCcchhhHHHHHHHHHHHHHHHHH
Q 012178 258 QATDPHSIAERLRRERIAERMKALQELVPNA--------NKTDKASMLDEIIDYVKFLQLQVK 312 (469)
Q Consensus 258 ~~~~~Hs~aERkRReKINerf~aLrsLVP~~--------~K~DKASIL~eAIdYIK~LQ~qVk 312 (469)
.++..|-++|||||.|||+.|.+|+.||+.+ .|++||.||+.|++|+|.|+....
T Consensus 31 ~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 31 YRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred HhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 3456789999999999999999999999954 578899999999999999997544
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.35 E-value=4.1e-07 Score=101.64 Aligned_cols=51 Identities=27% Similarity=0.500 Sum_probs=48.5
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhhcCCC----CCcchhhHHHHHHHHHHHHHHH
Q 012178 260 TDPHSIAERLRRERIAERMKALQELVPNA----NKTDKASMLDEIIDYVKFLQLQ 310 (469)
Q Consensus 260 ~~~Hs~aERkRReKINerf~aLrsLVP~~----~K~DKASIL~eAIdYIK~LQ~q 310 (469)
+++|+.+|||||+|+|..|.+|.+|||.| .|+||.+||.+||.+||.+++.
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 67899999999999999999999999988 5999999999999999999985
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.21 E-value=6.6e-07 Score=100.77 Aligned_cols=64 Identities=30% Similarity=0.495 Sum_probs=57.7
Q ss_pred CCCCCcccHHHHHHHHHHHHHHHHHHhhcCCC-CCcchhhHHHHHHHHHHHHHHHHHHHhccccC
Q 012178 257 GQATDPHSIAERLRRERIAERMKALQELVPNA-NKTDKASMLDEIIDYVKFLQLQVKVLSMSRLG 320 (469)
Q Consensus 257 ~~~~~~Hs~aERkRReKINerf~aLrsLVP~~-~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r~~ 320 (469)
+.+|.+||++|||.|..||++|.+|+.+||+. .|+.|..+|..||+||++|+...+.++.....
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~ 338 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENAS 338 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhh
Confidence 37789999999999999999999999999987 79999999999999999999988777665433
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.87 E-value=2.2e-05 Score=77.17 Aligned_cols=59 Identities=20% Similarity=0.351 Sum_probs=49.7
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHhhcCCCC--Ccc-hhhHHHHHHHHHHHHHHHHHHHhcc
Q 012178 259 ATDPHSIAERLRRERIAERMKALQELVPNAN--KTD-KASMLDEIIDYVKFLQLQVKVLSMS 317 (469)
Q Consensus 259 ~~~~Hs~aERkRReKINerf~aLrsLVP~~~--K~D-KASIL~eAIdYIK~LQ~qVk~Le~~ 317 (469)
.+..|+..||+||..|+++|..|+.+||... +.. .++||++|++||+.|+.+....+..
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~ 120 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQD 120 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHH
Confidence 4567999999999999999999999999772 222 6999999999999999877665543
No 10
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.76 E-value=4.3e-05 Score=77.86 Aligned_cols=55 Identities=27% Similarity=0.391 Sum_probs=48.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHhhcCCC--CCcchhhHHHHHHHHHHHHHHHHHHHhcc
Q 012178 263 HSIAERLRRERIAERMKALQELVPNA--NKTDKASMLDEIIDYVKFLQLQVKVLSMS 317 (469)
Q Consensus 263 Hs~aERkRReKINerf~aLrsLVP~~--~K~DKASIL~eAIdYIK~LQ~qVk~Le~~ 317 (469)
-|..||||=.-||-.|..||.|+|.- .|+.||.||+.+.+||.+|+.+.-+|-..
T Consensus 64 ANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll~q 120 (373)
T KOG0561|consen 64 ANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELLPQ 120 (373)
T ss_pred hcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccccc
Confidence 35679999999999999999999965 79999999999999999999876666443
No 11
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.36 E-value=0.00015 Score=69.91 Aligned_cols=58 Identities=19% Similarity=0.351 Sum_probs=49.9
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhhcCC----CCCcchhhHHHHHHHHHHHHHHHHHHHhcc
Q 012178 260 TDPHSIAERLRRERIAERMKALQELVPN----ANKTDKASMLDEIIDYVKFLQLQVKVLSMS 317 (469)
Q Consensus 260 ~~~Hs~aERkRReKINerf~aLrsLVP~----~~K~DKASIL~eAIdYIK~LQ~qVk~Le~~ 317 (469)
+..++..||.|=+.+|..|.+||.+||. ..|..|..+|..||.||++|+.-++.-+..
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 4456778999999999999999999984 468899999999999999999877666544
No 12
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.20 E-value=0.00064 Score=68.01 Aligned_cols=55 Identities=22% Similarity=0.366 Sum_probs=46.4
Q ss_pred cHHHHHHHHHHHHHHHHHHhh-cCCC-CCcchhhHHHHHHHHHHHHHHHHHHHhccc
Q 012178 264 SIAERLRRERIAERMKALQEL-VPNA-NKTDKASMLDEIIDYVKFLQLQVKVLSMSR 318 (469)
Q Consensus 264 s~aERkRReKINerf~aLrsL-VP~~-~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r 318 (469)
.+.||||=+|+||.|.+|++- +++- ..+-|..||..||+||..||.-++++.+..
T Consensus 123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~ 179 (284)
T KOG3960|consen 123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAE 179 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 567999999999999999764 3433 467899999999999999999998887654
No 13
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.00 E-value=0.0015 Score=56.17 Aligned_cols=51 Identities=27% Similarity=0.478 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHHhhcCCC------CCcchhhHHHHHHHHHHHHHHHHHHHhccc
Q 012178 268 RLRRERIAERMKALQELVPNA------NKTDKASMLDEIIDYVKFLQLQVKVLSMSR 318 (469)
Q Consensus 268 RkRReKINerf~aLrsLVP~~------~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r 318 (469)
|---+.|+|.+..|+.|+|.. .|...+-||+|+..||+.|+.+|..|.+.-
T Consensus 16 risddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerL 72 (93)
T PLN03217 16 RISEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERL 72 (93)
T ss_pred CCCHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333478999999999999965 345566799999999999999999998764
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.78 E-value=0.00081 Score=72.41 Aligned_cols=60 Identities=25% Similarity=0.297 Sum_probs=50.0
Q ss_pred ccCCCCCcccHHHHHHHHHHHHHHHHHHhhcCCCCCc----chhhHHHHHHHHHHHHHHHHHHH
Q 012178 255 RRGQATDPHSIAERLRRERIAERMKALQELVPNANKT----DKASMLDEIIDYVKFLQLQVKVL 314 (469)
Q Consensus 255 rr~~~~~~Hs~aERkRReKINerf~aLrsLVP~~~K~----DKASIL~eAIdYIK~LQ~qVk~L 314 (469)
|.+.+|...+..||.|-..|||.|++|.++.----|. .|.-||..||.-|-.|++||++-
T Consensus 522 REkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 522 REKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 4445667788999999999999999999997644333 48999999999999999999864
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=94.62 E-value=0.018 Score=54.41 Aligned_cols=51 Identities=25% Similarity=0.409 Sum_probs=46.1
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhhcCCC--CCcchhhHHHHHHHHHHHHHHH
Q 012178 260 TDPHSIAERLRRERIAERMKALQELVPNA--NKTDKASMLDEIIDYVKFLQLQ 310 (469)
Q Consensus 260 ~~~Hs~aERkRReKINerf~aLrsLVP~~--~K~DKASIL~eAIdYIK~LQ~q 310 (469)
+-.|++.||+|-..+|+.|..||.+||.. .|..|.-.|.-|..||.+|-.-
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence 35699999999999999999999999966 7899999999999999999753
No 16
>PLN02705 beta-amylase
Probab=92.99 E-value=0.28 Score=54.80 Aligned_cols=12 Identities=33% Similarity=0.545 Sum_probs=7.7
Q ss_pred CcccHHHHHHHH
Q 012178 261 DPHSIAERLRRE 272 (469)
Q Consensus 261 ~~Hs~aERkRRe 272 (469)
++....||+||-
T Consensus 86 e~~~~rer~rra 97 (681)
T PLN02705 86 ERTKLRERHRRA 97 (681)
T ss_pred hhhHHHHHHHHH
Confidence 344556888883
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=89.64 E-value=0.36 Score=53.37 Aligned_cols=40 Identities=28% Similarity=0.516 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHHHHhhcCCC----CCcchhhHHHHHHHHHHH
Q 012178 267 ERLRRERIAERMKALQELVPNA----NKTDKASMLDEIIDYVKF 306 (469)
Q Consensus 267 ERkRReKINerf~aLrsLVP~~----~K~DKASIL~eAIdYIK~ 306 (469)
-||-|+|+|-.++.|.+|+|-- .|+||.+||.-+|.|++.
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHHH
Confidence 4667999999999999999954 799999999999999864
No 18
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.52 E-value=0.22 Score=56.07 Aligned_cols=46 Identities=30% Similarity=0.433 Sum_probs=39.2
Q ss_pred cccHHHHHHHHHHHHHHHHHHhhcCCC----CCcchhhHHHHHHHHHHHH
Q 012178 262 PHSIAERLRRERIAERMKALQELVPNA----NKTDKASMLDEIIDYVKFL 307 (469)
Q Consensus 262 ~Hs~aERkRReKINerf~aLrsLVP~~----~K~DKASIL~eAIdYIK~L 307 (469)
.-.-+-|.||.|-|+.|.+|..+||-- ..+|||+|+.-||-|+|.=
T Consensus 49 kSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRlr 98 (768)
T KOG3558|consen 49 KSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRLR 98 (768)
T ss_pred hhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHHH
Confidence 334577999999999999999999932 5799999999999999743
No 19
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=88.35 E-value=0.38 Score=48.14 Aligned_cols=52 Identities=23% Similarity=0.322 Sum_probs=43.4
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHhhcCCC---CCcchhhHHHHHHHHHHHHHH
Q 012178 258 QATDPHSIAERLRRERIAERMKALQELVPNA---NKTDKASMLDEIIDYVKFLQL 309 (469)
Q Consensus 258 ~~~~~Hs~aERkRReKINerf~aLrsLVP~~---~K~DKASIL~eAIdYIK~LQ~ 309 (469)
..+..=|..||+|--.+|+.|+.||++||.. .|+.|...|.-|-.||..|++
T Consensus 71 ~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 71 LRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE 125 (254)
T ss_pred hhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence 3445557779989899999999999999944 688899999999999988874
No 20
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=88.28 E-value=0.55 Score=50.57 Aligned_cols=44 Identities=34% Similarity=0.446 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCCC----CCcchhhHHHHHHHHHHHHH
Q 012178 265 IAERLRRERIAERMKALQELVPNA----NKTDKASMLDEIIDYVKFLQ 308 (469)
Q Consensus 265 ~aERkRReKINerf~aLrsLVP~~----~K~DKASIL~eAIdYIK~LQ 308 (469)
-+.|.||++-|..|.+|.+++|-. ...||++|+.-+..|||.-.
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr~ 54 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMRN 54 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHHH
Confidence 356899999999999999999944 56999999999999998644
No 21
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=78.09 E-value=3.2 Score=42.42 Aligned_cols=50 Identities=22% Similarity=0.282 Sum_probs=43.2
Q ss_pred cccHHHHHHHHHHHHHHHHHHhhcCCC---CCcchhhHHHHHHHHHHHHHHHH
Q 012178 262 PHSIAERLRRERIAERMKALQELVPNA---NKTDKASMLDEIIDYVKFLQLQV 311 (469)
Q Consensus 262 ~Hs~aERkRReKINerf~aLrsLVP~~---~K~DKASIL~eAIdYIK~LQ~qV 311 (469)
.-+..||+|=..+|..|..||.+||.. .|+.|-..|+.|-.||-.|-...
T Consensus 177 aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 177 AANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred ccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 447789999999999999999999976 56778889999999999887544
No 22
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=67.15 E-value=2.5 Score=48.13 Aligned_cols=60 Identities=23% Similarity=0.274 Sum_probs=50.7
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHhhcCCC-----CCcchhhHHHHHHHHHHHHHHHHHHHhcc
Q 012178 258 QATDPHSIAERLRRERIAERMKALQELVPNA-----NKTDKASMLDEIIDYVKFLQLQVKVLSMS 317 (469)
Q Consensus 258 ~~~~~Hs~aERkRReKINerf~aLrsLVP~~-----~K~DKASIL~eAIdYIK~LQ~qVk~Le~~ 317 (469)
.+...|+-+|.+||+.|+-.|..|-+++... .|+.+..-+..+++||..++.+...+.++
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e 714 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEE 714 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchh
Confidence 4567899999999999999999999999865 46777778999999999998877666554
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=48.61 E-value=12 Score=35.96 Aligned_cols=44 Identities=23% Similarity=0.277 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCC--CCcchhhHHHHHHHHHHHHHH
Q 012178 266 AERLRRERIAERMKALQELVPNA--NKTDKASMLDEIIDYVKFLQL 309 (469)
Q Consensus 266 aERkRReKINerf~aLrsLVP~~--~K~DKASIL~eAIdYIK~LQ~ 309 (469)
.||.|..++++.+.-|+.|+|+. +++.+---|..+-+||.+|.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE 74 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDE 74 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHH
Confidence 58889999999999999999976 344433347777777777664
No 24
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=40.36 E-value=26 Score=36.75 Aligned_cols=39 Identities=33% Similarity=0.485 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhccc
Q 012178 268 RLRRERIAERMKALQELVPNANKTDKASMLDEIIDYVKFLQLQVKVLSMSR 318 (469)
Q Consensus 268 RkRReKINerf~aLrsLVP~~~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r 318 (469)
|||--|+-..-.+-|+ |....| +|||+|+.+|.+||..+
T Consensus 290 rKRevRLmKNREAARE----CRRKKK--------EYVKCLENRVAVLENQN 328 (348)
T KOG3584|consen 290 RKREVRLMKNREAARE----CRRKKK--------EYVKCLENRVAVLENQN 328 (348)
T ss_pred hHHHHHHHhhHHHHHH----HHHhHh--------HHHHHHHhHHHHHhccc
No 25
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=40.27 E-value=7.8 Score=44.45 Aligned_cols=60 Identities=20% Similarity=0.181 Sum_probs=50.1
Q ss_pred cCCCCCcccHHHHHHHHHHHHHHHHHHhhcCCC-----CCcchhhHHHHHHHHHHHHHHHHHHHhccc
Q 012178 256 RGQATDPHSIAERLRRERIAERMKALQELVPNA-----NKTDKASMLDEIIDYVKFLQLQVKVLSMSR 318 (469)
Q Consensus 256 r~~~~~~Hs~aERkRReKINerf~aLrsLVP~~-----~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r 318 (469)
.+.....|.-++|+||-.+-++|..|-.|+|.. .++.+.+||. +.||.+|+.-+.+.++-
T Consensus 784 n~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~ 848 (856)
T KOG3582|consen 784 NGMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKI 848 (856)
T ss_pred cceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhh
Confidence 345556788899999999999999999999955 4577999999 89999999888887653
No 26
>PLN02705 beta-amylase
Probab=40.08 E-value=24 Score=40.19 Aligned_cols=14 Identities=21% Similarity=0.375 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHh
Q 012178 270 RRERIAERMKALQE 283 (469)
Q Consensus 270 RReKINerf~aLrs 283 (469)
+|.-+|+-+++|-.
T Consensus 116 ~~~d~n~vl~al~~ 129 (681)
T PLN02705 116 ARADMNDVLAALAR 129 (681)
T ss_pred cccchHHHHHHHHH
Confidence 36678887777754
No 27
>PF15030 DUF4527: Protein of unknown function (DUF4527)
Probab=30.29 E-value=89 Score=32.19 Aligned_cols=67 Identities=24% Similarity=0.265 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCcc--hhhHHHHHHHHHHHHHHHHHHHhccccCCcccccchhhcccc
Q 012178 268 RLRRERIAERMKALQELVPNANKTD--KASMLDEIIDYVKFLQLQVKVLSMSRLGGAAAVAPLVADMSS 334 (469)
Q Consensus 268 RkRReKINerf~aLrsLVP~~~K~D--KASIL~eAIdYIK~LQ~qVk~Le~~r~~~~ss~~P~v~d~~s 334 (469)
|.|-.++..++.+|+.-+-.-.-.. -..-+++|...-.+|+.++.+|+.++-+...++.|+.+++.+
T Consensus 15 rL~v~~LhHQvlTLqcQLRDQ~~ahreLQas~dEa~~L~~~L~~kl~eLqkk~~Ea~lAVtPLKak~As 83 (277)
T PF15030_consen 15 RLRVQQLHHQVLTLQCQLRDQGSAHRELQASRDEATRLQDELQGKLEELQKKQHEANLAVTPLKAKLAS 83 (277)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhhccchHHHHHHH
Confidence 5566677777888776554221111 123367888888999999999999988877788998877754
No 28
>PF15459 RRP14: 60S ribosome biogenesis protein Rrp14
Probab=26.28 E-value=33 Score=28.06 Aligned_cols=15 Identities=27% Similarity=0.720 Sum_probs=13.8
Q ss_pred CchhHHHHHHhCCCC
Q 012178 38 SQDDFLEQMLSSLPS 52 (469)
Q Consensus 38 ~~ddf~~qmls~lp~ 52 (469)
.|++|||.+|+-+|+
T Consensus 6 ~h~~~Fd~Ll~LIPA 20 (64)
T PF15459_consen 6 AHSSFFDGLLSLIPA 20 (64)
T ss_pred HHHHHHHHHHHhCCh
Confidence 589999999999987
No 29
>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=25.33 E-value=44 Score=31.64 Aligned_cols=38 Identities=21% Similarity=0.315 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHhhcCCCCCcchhhHHHHHHHHHHHHH
Q 012178 271 RERIAERMKALQELVPNANKTDKASMLDEIIDYVKFLQ 308 (469)
Q Consensus 271 ReKINerf~aLrsLVP~~~K~DKASIL~eAIdYIK~LQ 308 (469)
-|-|-|||.+|+.+||+..+.--.++..-+..++|.+=
T Consensus 48 ~ETl~ERi~ALkDm~Pp~~R~~i~~~~s~t~s~~ks~~ 85 (145)
T TIGR00986 48 EETFTDRIYALKDIVPPTTRGWIYHKYSTTTNFVKSTL 85 (145)
T ss_pred cCcHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788999999999998866666667777777777664
No 30
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.88 E-value=86 Score=26.81 Aligned_cols=23 Identities=22% Similarity=0.417 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcccc
Q 012178 297 LDEIIDYVKFLQLQVKVLSMSRL 319 (469)
Q Consensus 297 L~eAIdYIK~LQ~qVk~Le~~r~ 319 (469)
+..||+.|.-||.+|.+|++++.
T Consensus 13 iqqAvdTI~LLQmEieELKEknn 35 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNN 35 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 67899999999999999998863
No 31
>PF08232 Striatin: Striatin family; InterPro: IPR013258 This domain is associated with the N terminus of striatin. Striatin is an intracellular protein which has a caveolin-binding motif, a coiled-coil structure, a calmodulin-binding site, and a WD (IPR001680 from INTERPRO) repeat domain []. It acts as a scaffold protein [] and is involved in signalling pathways [, ].
Probab=23.29 E-value=3.3e+02 Score=24.92 Aligned_cols=45 Identities=13% Similarity=0.181 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhhcCCCCCcchhhHHHHHHHHHHHHHHHHHHHhccccC
Q 012178 271 RERIAERMKALQELVPNANKTDKASMLDEIIDYVKFLQLQVKVLSMSRLG 320 (469)
Q Consensus 271 ReKINerf~aLrsLVP~~~K~DKASIL~eAIdYIK~LQ~qVk~Le~~r~~ 320 (469)
|..|..+|..|..=.- .--.+-.+-+.|||.|+..++....++..
T Consensus 27 RaEmkarIa~LEGE~r-----~~e~l~~dL~rrIkMLE~aLkqER~k~~~ 71 (134)
T PF08232_consen 27 RAEMKARIAFLEGERR-----GQENLKKDLKRRIKMLEYALKQERAKYKK 71 (134)
T ss_pred HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 6678888877775221 12234556689999999999998887654
No 32
>PF02344 Myc-LZ: Myc leucine zipper domain; InterPro: IPR003327 This family consists of the leucine zipper dimerisation domain found in both cellular c-Myc proto-oncogenes and viral v-Myc oncogenes. Dimerisation via the leucine zipper motif with other basic helix-loop-helix-leucine zipper (b/HLH/lz) proteins is required for efficient DNA binding []. The Myc-Max dimer is a transactivating complex activating expression of growth related genes promoting cell proliferation. The dimerisation is facilitated via interdigitating leucine residues every 7th position of the alpha helix. Like charge repulsion of adjacent residues in this region preturbs the formation of homodimers with heterodimers being promoted by opposing charge attractions. It has been demonstrated that in transgenic mice the balance between oncogene-induced proliferation and apoptosis in a given tissue can be a critical determinant in the initiation and maintenance of the tumor [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1NKP_D 1A93_A 2A93_A.
Probab=20.10 E-value=1e+02 Score=22.54 Aligned_cols=17 Identities=29% Similarity=0.587 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHHHHHh
Q 012178 267 ERLRRERIAERMKALQE 283 (469)
Q Consensus 267 ERkRReKINerf~aLrs 283 (469)
-|+||+.++.++..||.
T Consensus 13 Lrrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 13 LRRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 37889999999998875
Done!