Query 024111
Match_columns 272
No_of_seqs 170 out of 769
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 09:03:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024111.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024111hhsearch_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 1.6E-13 3.5E-18 97.5 4.6 54 163-216 5-60 (60)
2 PF00010 HLH: Helix-loop-helix 99.4 1.1E-12 2.5E-17 93.2 5.5 48 165-212 4-55 (55)
3 smart00353 HLH helix loop heli 99.3 2.4E-12 5.2E-17 90.1 6.2 50 167-216 1-52 (53)
4 KOG1318 Helix loop helix trans 99.2 1.5E-11 3.2E-16 119.9 6.0 60 160-219 231-293 (411)
5 KOG1319 bHLHZip transcription 99.2 2.7E-11 5.8E-16 108.2 6.4 60 164-223 64-129 (229)
6 KOG2588 Predicted DNA-binding 98.5 3.2E-07 6.9E-12 96.9 7.8 62 160-221 274-335 (953)
7 KOG3561 Aryl-hydrocarbon recep 98.4 3.4E-07 7.3E-12 95.9 5.4 52 163-214 21-75 (803)
8 KOG4304 Transcriptional repres 98.3 2.9E-07 6.2E-12 85.0 1.4 54 165-218 35-95 (250)
9 KOG3960 Myogenic helix-loop-he 97.9 6.5E-05 1.4E-09 70.1 9.9 55 167-221 123-178 (284)
10 KOG2483 Upstream transcription 97.8 3.6E-05 7.9E-10 70.7 6.5 56 164-219 61-118 (232)
11 PLN03217 transcription factor 97.6 0.00012 2.6E-09 58.6 5.7 52 174-225 19-75 (93)
12 KOG0561 bHLH transcription fac 97.6 5.5E-05 1.2E-09 72.3 3.8 51 166-217 64-116 (373)
13 KOG4029 Transcription factor H 97.3 0.00024 5.1E-09 64.0 3.9 58 165-222 112-172 (228)
14 KOG3910 Helix loop helix trans 96.1 0.014 3.1E-07 59.3 6.7 57 164-220 528-587 (632)
15 KOG4447 Transcription factor T 86.4 0.43 9.2E-06 42.3 1.8 50 165-215 81-132 (173)
16 KOG3558 Hypoxia-inducible fact 84.6 0.65 1.4E-05 49.2 2.5 42 168-209 52-96 (768)
17 KOG3559 Transcriptional regula 75.6 2.4 5.2E-05 43.0 2.9 57 168-224 7-66 (598)
18 KOG3898 Transcription factor N 70.3 5.7 0.00012 37.0 4.0 47 167-213 77-125 (254)
19 PF13334 DUF4094: Domain of un 70.1 8.3 0.00018 31.1 4.4 30 198-227 65-94 (95)
20 KOG3560 Aryl-hydrocarbon recep 60.9 6.2 0.00013 41.3 2.5 39 171-210 34-76 (712)
21 KOG4395 Transcription factor A 52.2 30 0.00066 33.1 5.3 51 166-216 178-230 (285)
22 KOG4447 Transcription factor T 33.7 40 0.00087 30.1 2.9 45 169-213 29-74 (173)
23 COG3074 Uncharacterized protei 29.6 76 0.0016 25.0 3.4 23 201-223 13-35 (79)
24 COG4545 Glutaredoxin-related p 27.2 42 0.0009 26.9 1.7 36 2-37 16-51 (85)
25 TIGR00986 3a0801s05tom22 mitoc 23.6 46 0.001 29.2 1.5 36 175-211 49-84 (145)
26 PF11336 DUF3138: Protein of u 22.9 1.9E+02 0.0042 29.9 5.8 49 181-229 6-55 (514)
27 KOG0139 Short-chain acyl-CoA d 22.6 86 0.0019 31.5 3.2 27 200-226 288-327 (398)
28 PRK15422 septal ring assembly 22.2 1.2E+02 0.0026 24.1 3.4 22 201-222 13-34 (79)
29 PF02344 Myc-LZ: Myc leucine z 21.0 95 0.0021 20.8 2.2 16 171-186 14-29 (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=99.42 E-value=1.6e-13 Score=97.52 Aligned_cols=54 Identities=33% Similarity=0.620 Sum_probs=49.3
Q ss_pred CCcchHHHHHHHHHHHHHHHHhhccCCCC--CCCCChhchHHHHHHHHHHHHHHHH
Q 024111 163 TDSHSIAERVRREKINKKMRCLQDLVPGC--HKDMGMAGMLEEIINYVHSLQNQVE 216 (272)
Q Consensus 163 ~~sHs~aERrRRekIner~~~Lr~LVP~~--~K~mdKAsiL~eAIdYIk~LQ~qV~ 216 (272)
...|+..||+||++||+.|..|+.+||.+ ..+++|+.||..||+||+.|+.+++
T Consensus 5 r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 5 REAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 34699999999999999999999999998 3568999999999999999998863
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=99.36 E-value=1.1e-12 Score=93.16 Aligned_cols=48 Identities=35% Similarity=0.715 Sum_probs=45.1
Q ss_pred cchHHHHHHHHHHHHHHHHhhccCCCC----CCCCChhchHHHHHHHHHHHH
Q 024111 165 SHSIAERVRREKINKKMRCLQDLVPGC----HKDMGMAGMLEEIINYVHSLQ 212 (272)
Q Consensus 165 sHs~aERrRRekIner~~~Lr~LVP~~----~K~mdKAsiL~eAIdYIk~LQ 212 (272)
.|+..||+||++||+.|..|+.+||.+ ..+++|+.||..||+||+.||
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 599999999999999999999999997 355899999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.34 E-value=2.4e-12 Score=90.06 Aligned_cols=50 Identities=36% Similarity=0.571 Sum_probs=45.1
Q ss_pred hHHHHHHHHHHHHHHHHhhccCCCC--CCCCChhchHHHHHHHHHHHHHHHH
Q 024111 167 SIAERVRREKINKKMRCLQDLVPGC--HKDMGMAGMLEEIINYVHSLQNQVE 216 (272)
Q Consensus 167 s~aERrRRekIner~~~Lr~LVP~~--~K~mdKAsiL~eAIdYIk~LQ~qV~ 216 (272)
+..||+||++||+.|..|+.+||.+ ..+++|+.||..||+||+.|+.+++
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 4689999999999999999999963 3447999999999999999999886
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.21 E-value=1.5e-11 Score=119.94 Aligned_cols=60 Identities=28% Similarity=0.534 Sum_probs=51.7
Q ss_pred CCCCCcchHHHHHHHHHHHHHHHHhhccCCCCCC---CCChhchHHHHHHHHHHHHHHHHHHH
Q 024111 160 GQATDSHSIAERVRREKINKKMRCLQDLVPGCHK---DMGMAGMLEEIINYVHSLQNQVEFLS 219 (272)
Q Consensus 160 ~~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K---~mdKAsiL~eAIdYIk~LQ~qV~~L~ 219 (272)
.++++.|+.+|||||++||++|++|..|||.|.. +.+|+.||..++|||+.||+..+...
T Consensus 231 r~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~ 293 (411)
T KOG1318|consen 231 RRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAR 293 (411)
T ss_pred HHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHH
Confidence 3445779999999999999999999999999942 24799999999999999998777444
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.19 E-value=2.7e-11 Score=108.18 Aligned_cols=60 Identities=30% Similarity=0.517 Sum_probs=52.7
Q ss_pred CcchHHHHHHHHHHHHHHHHhhccCCCCCC------CCChhchHHHHHHHHHHHHHHHHHHHHHHh
Q 024111 164 DSHSIAERVRREKINKKMRCLQDLVPGCHK------DMGMAGMLEEIINYVHSLQNQVEFLSMELA 223 (272)
Q Consensus 164 ~sHs~aERrRRekIner~~~Lr~LVP~~~K------~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~ 223 (272)
..|..+||+||+.||..+..|+.|||.|.. ++.||.||.++|+||.+|..++...+.+++
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s 129 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVS 129 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 359999999999999999999999997754 257999999999999999998887776654
No 6
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.47 E-value=3.2e-07 Score=96.89 Aligned_cols=62 Identities=34% Similarity=0.574 Sum_probs=55.8
Q ss_pred CCCCCcchHHHHHHHHHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHH
Q 024111 160 GQATDSHSIAERVRREKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME 221 (272)
Q Consensus 160 ~~~~~sHs~aERrRRekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~ 221 (272)
+..+.+||++|||.|-.||++|.+|++|||+..-++.|..+|..||+||++|+..-+.+...
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~ 335 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLE 335 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchh
Confidence 46688999999999999999999999999997777899999999999999999877666643
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.39 E-value=3.4e-07 Score=95.91 Aligned_cols=52 Identities=21% Similarity=0.364 Sum_probs=48.6
Q ss_pred CCcchHHHHHHHHHHHHHHHHhhccCCCCC---CCCChhchHHHHHHHHHHHHHH
Q 024111 163 TDSHSIAERVRREKINKKMRCLQDLVPGCH---KDMGMAGMLEEIINYVHSLQNQ 214 (272)
Q Consensus 163 ~~sHs~aERrRRekIner~~~Lr~LVP~~~---K~mdKAsiL~eAIdYIk~LQ~q 214 (272)
+.+|+.+|||||+++|..|.+|.+|||+|. .|+||-+||.+||+.||.++.+
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 456999999999999999999999999998 7799999999999999998875
No 8
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.26 E-value=2.9e-07 Score=85.05 Aligned_cols=54 Identities=30% Similarity=0.456 Sum_probs=46.6
Q ss_pred cchHHHHHHHHHHHHHHHHhhccCCCCCC-------CCChhchHHHHHHHHHHHHHHHHHH
Q 024111 165 SHSIAERVRREKINKKMRCLQDLVPGCHK-------DMGMAGMLEEIINYVHSLQNQVEFL 218 (272)
Q Consensus 165 sHs~aERrRRekIner~~~Lr~LVP~~~K-------~mdKAsiL~eAIdYIk~LQ~qV~~L 218 (272)
.|-+.||+||.|||+-|.+|++|||.+.+ ++.||.||+-+++|++.||.+...-
T Consensus 35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~~ 95 (250)
T KOG4304|consen 35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQAA 95 (250)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccccc
Confidence 37799999999999999999999996433 3789999999999999999865443
No 9
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.93 E-value=6.5e-05 Score=70.14 Aligned_cols=55 Identities=20% Similarity=0.316 Sum_probs=49.1
Q ss_pred hHHHHHHHHHHHHHHHHhh-ccCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHH
Q 024111 167 SIAERVRREKINKKMRCLQ-DLVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSME 221 (272)
Q Consensus 167 s~aERrRRekIner~~~Lr-~LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~ 221 (272)
.+-||||=.|+||.|.+|+ .-+++.++++-|.-||..||+||..||.-++.+...
T Consensus 123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~ 178 (284)
T KOG3960|consen 123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQA 178 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 5789999999999999996 467788888999999999999999999998888753
No 10
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.84 E-value=3.6e-05 Score=70.75 Aligned_cols=56 Identities=20% Similarity=0.332 Sum_probs=46.7
Q ss_pred CcchHHHHHHHHHHHHHHHHhhccCCCCCCCC--ChhchHHHHHHHHHHHHHHHHHHH
Q 024111 164 DSHSIAERVRREKINKKMRCLQDLVPGCHKDM--GMAGMLEEIINYVHSLQNQVEFLS 219 (272)
Q Consensus 164 ~sHs~aERrRRekIner~~~Lr~LVP~~~K~m--dKAsiL~eAIdYIk~LQ~qV~~L~ 219 (272)
..|+.-||+||..|.+.|..|+.+||...... ..++||+.|+.||+.|+.+.....
T Consensus 61 ~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~ 118 (232)
T KOG2483|consen 61 AHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQ 118 (232)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHH
Confidence 45999999999999999999999999743321 268999999999999988665544
No 11
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.63 E-value=0.00012 Score=58.56 Aligned_cols=52 Identities=29% Similarity=0.468 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhhccCCCCC-----CCCChhchHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024111 174 REKINKKMRCLQDLVPGCH-----KDMGMAGMLEEIINYVHSLQNQVEFLSMELAAA 225 (272)
Q Consensus 174 RekIner~~~Lr~LVP~~~-----K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a~ 225 (272)
-+.|++-+..||.|+|... .+...+-||.|+.+||+.|+.+|..|++.++..
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~L 75 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSEL 75 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4679999999999999521 124677899999999999999999999987643
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.58 E-value=5.5e-05 Score=72.28 Aligned_cols=51 Identities=27% Similarity=0.471 Sum_probs=44.8
Q ss_pred chHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHHHH
Q 024111 166 HSIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQVEF 217 (272)
Q Consensus 166 Hs~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV~~ 217 (272)
-|-.||||=.-||-.|..||.|+|. +.| ++||.||..+.+||..|+.+.-.
T Consensus 64 ANsNERRRMQSINAGFqsLr~LlPr~eGEK-LSKAAILQQTa~yI~~Le~~Kt~ 116 (373)
T KOG0561|consen 64 ANSNERRRMQSINAGFQSLRALLPRKEGEK-LSKAAILQQTADYIHQLEGHKTE 116 (373)
T ss_pred hcchHHHHHHhhhHHHHHHHHhcCcccchh-hHHHHHHHHHHHHHHHHHhcccc
Confidence 3558999999999999999999997 556 79999999999999999875443
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.29 E-value=0.00024 Score=64.02 Aligned_cols=58 Identities=21% Similarity=0.291 Sum_probs=51.4
Q ss_pred cchHHHHHHHHHHHHHHHHhhccCCC--C-CCCCChhchHHHHHHHHHHHHHHHHHHHHHH
Q 024111 165 SHSIAERVRREKINKKMRCLQDLVPG--C-HKDMGMAGMLEEIINYVHSLQNQVEFLSMEL 222 (272)
Q Consensus 165 sHs~aERrRRekIner~~~Lr~LVP~--~-~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~ 222 (272)
.++..||.|=+-+|..|..||.+||. . .|+++|.-+|..||.||++|+.-++.-+..+
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 36777999999999999999999996 4 7889999999999999999999888776544
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.08 E-value=0.014 Score=59.27 Aligned_cols=57 Identities=23% Similarity=0.310 Sum_probs=47.1
Q ss_pred CcchHHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHHHHHHHHHHHHH
Q 024111 164 DSHSIAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVHSLQNQVEFLSM 220 (272)
Q Consensus 164 ~sHs~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~ 220 (272)
..-++-||-|=.-||+.|++|..+.=- .+|.--|-.||..|+.-|-.|++||.+-..
T Consensus 528 ~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERNL 587 (632)
T KOG3910|consen 528 MANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERNL 587 (632)
T ss_pred hhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHccC
Confidence 346788999988899999999998653 344445889999999999999999987553
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=86.39 E-value=0.43 Score=42.27 Aligned_cols=50 Identities=20% Similarity=0.385 Sum_probs=43.2
Q ss_pred cchHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHH
Q 024111 165 SHSIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQV 215 (272)
Q Consensus 165 sHs~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV 215 (272)
.|++-||+|-..+|+.|.+||.++|. ..| .+|--.|.-|-.||-+|=.-.
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdk-lSkiqtLklA~ryidfl~~vl 132 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDK-LSKIQTLKLAARYIDFLYQVL 132 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCccc-cccccchhhcccCCchhhhcc
Confidence 38999999999999999999999997 445 688888999999999886533
No 16
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=84.63 E-value=0.65 Score=49.17 Aligned_cols=42 Identities=29% Similarity=0.395 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHH
Q 024111 168 IAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVH 209 (272)
Q Consensus 168 ~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk 209 (272)
-|.|.||.|=|+-|.+|..+||- ..-.+|||+|+.-||-|++
T Consensus 52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR 96 (768)
T KOG3558|consen 52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 38899999999999999999994 3334799999999999986
No 17
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=75.59 E-value=2.4 Score=43.00 Aligned_cols=57 Identities=26% Similarity=0.242 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHHhhccCCC---CCCCCChhchHHHHHHHHHHHHHHHHHHHHHHhh
Q 024111 168 IAERVRREKINKKMRCLQDLVPG---CHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAA 224 (272)
Q Consensus 168 ~aERrRRekIner~~~Lr~LVP~---~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a 224 (272)
-+.|.||++=|-.|.+|.+|+|- .+...||++|+.-+-.|||--+-=-+-|.+.|.+
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr~vFPeGLGeawg~ 66 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMRNVFPEGLGEAWGA 66 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHHHhcccccchhccC
Confidence 36789999999999999999994 4444799999999999998654443445555553
No 18
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=70.25 E-value=5.7 Score=37.04 Aligned_cols=47 Identities=21% Similarity=0.412 Sum_probs=39.2
Q ss_pred hHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHH
Q 024111 167 SIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQN 213 (272)
Q Consensus 167 s~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~ 213 (272)
|.-||+|=-.+|+-+..||.++|. -+.++.|.-.|.-|-+||..|+.
T Consensus 77 NaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 77 NARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE 125 (254)
T ss_pred cchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence 557888888999999999999994 23347888899999999998875
No 19
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=70.05 E-value=8.3 Score=31.11 Aligned_cols=30 Identities=33% Similarity=0.422 Sum_probs=24.3
Q ss_pred hchHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 024111 198 AGMLEEIINYVHSLQNQVEFLSMELAAACS 227 (272)
Q Consensus 198 AsiL~eAIdYIk~LQ~qV~~L~~~~~a~~~ 227 (272)
..=+.++-+=|+.|.+.|..|+|+|+++.+
T Consensus 65 ~~eV~kTh~aIq~LdKtIS~LEMELAaARa 94 (95)
T PF13334_consen 65 MGEVSKTHEAIQSLDKTISSLEMELAAARA 94 (95)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 334577778899999999999999998753
No 20
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=60.90 E-value=6.2 Score=41.29 Aligned_cols=39 Identities=21% Similarity=0.426 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHhhccCCC----CCCCCChhchHHHHHHHHHH
Q 024111 171 RVRREKINKKMRCLQDLVPG----CHKDMGMAGMLEEIINYVHS 210 (272)
Q Consensus 171 RrRRekIner~~~Lr~LVP~----~~K~mdKAsiL~eAIdYIk~ 210 (272)
+|-|+|+|-.+..|.+|+|= ..| +||-+||.-++.|++-
T Consensus 34 KRHRdRLNaELD~lAsLLPfpqdiisK-LDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 34 KRHRDRLNAELDHLASLLPFPQDIISK-LDKLSVLRLSVSYLRV 76 (712)
T ss_pred hhHHHHhhhHHHHHHHhcCCCHHHHhh-hhhhhhhhhhHHHHHH
Confidence 34589999999999999994 556 7999999999999863
No 21
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=52.15 E-value=30 Score=33.09 Aligned_cols=51 Identities=22% Similarity=0.300 Sum_probs=43.1
Q ss_pred chHHHHHHHHHHHHHHHHhhccCCC--CCCCCChhchHHHHHHHHHHHHHHHH
Q 024111 166 HSIAERVRREKINKKMRCLQDLVPG--CHKDMGMAGMLEEIINYVHSLQNQVE 216 (272)
Q Consensus 166 Hs~aERrRRekIner~~~Lr~LVP~--~~K~mdKAsiL~eAIdYIk~LQ~qV~ 216 (272)
-+.-||+|=..+|..|..|+..||. ..++++|-..|.-|-.||-.|-..+.
T Consensus 178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 4678999999999999999999996 44567888899999999988866553
No 22
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=33.70 E-value=40 Score=30.12 Aligned_cols=45 Identities=22% Similarity=0.265 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHhhccCCCCCC-CCChhchHHHHHHHHHHHHH
Q 024111 169 AERVRREKINKKMRCLQDLVPGCHK-DMGMAGMLEEIINYVHSLQN 213 (272)
Q Consensus 169 aERrRRekIner~~~Lr~LVP~~~K-~mdKAsiL~eAIdYIk~LQ~ 213 (272)
.||.|..++++.+.-|+.|+|+... .+.+--.|.-+-+||.+|.+
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 6888899999999999999998431 11222225556666666543
No 23
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.60 E-value=76 Score=25.03 Aligned_cols=23 Identities=22% Similarity=0.268 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 024111 201 LEEIINYVHSLQNQVEFLSMELA 223 (272)
Q Consensus 201 L~eAIdYIk~LQ~qV~~L~~~~~ 223 (272)
+..|||-|.-||.+|++|..+-.
T Consensus 13 iqqAvdTI~LLQmEieELKEknn 35 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNN 35 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Confidence 67899999999999999998743
No 24
>COG4545 Glutaredoxin-related protein [Posttranslational modification, protein turnover, chaperones]
Probab=27.21 E-value=42 Score=26.91 Aligned_cols=36 Identities=28% Similarity=0.320 Sum_probs=32.0
Q ss_pred hhhhhhhhhcccCcccccccccHHHHHhhhhcCccc
Q 024111 2 ADFRENTQSLRASQAFTELGVNMEMVKHFAELKPSM 37 (272)
Q Consensus 2 a~f~~~~q~~~~~~~~~~~d~~~~~~~~~~~~~~~~ 37 (272)
|.|.|+|.++.-.|-|.+|--+|.-|++|..|-.++
T Consensus 16 a~a~eyl~rl~v~yd~VeIt~Sm~NlKrFl~lRDs~ 51 (85)
T COG4545 16 APAVEYLERLNVDYDFVEITESMANLKRFLHLRDSR 51 (85)
T ss_pred HHHHHHHHHcCCCceeeehhhhhhhHHHHHhhhccc
Confidence 789999999998899999988999999998887766
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=23.56 E-value=46 Score=29.17 Aligned_cols=36 Identities=22% Similarity=0.373 Sum_probs=24.7
Q ss_pred HHHHHHHHHhhccCCCCCCCCChhchHHHHHHHHHHH
Q 024111 175 EKINKKMRCLQDLVPGCHKDMGMAGMLEEIINYVHSL 211 (272)
Q Consensus 175 ekIner~~~Lr~LVP~~~K~mdKAsiL~eAIdYIk~L 211 (272)
+-|-+||-+|+++||..... .-.+...-+..++|.+
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 34789999999999986552 3444555555555554
No 26
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=22.88 E-value=1.9e+02 Score=29.90 Aligned_cols=49 Identities=24% Similarity=0.335 Sum_probs=32.3
Q ss_pred HHHhhc-cCCCCCCCCChhchHHHHHHHHHHHHHHHHHHHHHHhhccccC
Q 024111 181 MRCLQD-LVPGCHKDMGMAGMLEEIINYVHSLQNQVEFLSMELAAACSSN 229 (272)
Q Consensus 181 ~~~Lr~-LVP~~~K~mdKAsiL~eAIdYIk~LQ~qV~~L~~~~~a~~~~~ 229 (272)
|.+|-. -+|+..-...++.-+..-..-|+.||+||.+|+.++++.+..+
T Consensus 6 ~~alv~~al~~~a~a~a~a~~i~~L~~ql~aLq~~v~eL~~~laa~~~aa 55 (514)
T PF11336_consen 6 ITALVAGALPGAAMAAATADQIKALQAQLQALQDQVNELRAKLAAKPAAA 55 (514)
T ss_pred HHHHHHhhccccccccCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence 333433 3555433334555556666778999999999999988776544
No 27
>KOG0139 consensus Short-chain acyl-CoA dehydrogenase [Lipid transport and metabolism]
Probab=22.64 E-value=86 Score=31.50 Aligned_cols=27 Identities=33% Similarity=0.503 Sum_probs=21.8
Q ss_pred hHHHHHHHHHH-------------HHHHHHHHHHHHhhcc
Q 024111 200 MLEEIINYVHS-------------LQNQVEFLSMELAAAC 226 (272)
Q Consensus 200 iL~eAIdYIk~-------------LQ~qV~~L~~~~~a~~ 226 (272)
-+|++|+|++. ||.|+..++.++.++.
T Consensus 288 c~d~tI~Y~q~R~~FGk~l~d~Q~iQhqiA~~~teiEaaR 327 (398)
T KOG0139|consen 288 CFDETIPYAQERLQFGKRLLDFQGLQHQIADMATEIEAAR 327 (398)
T ss_pred HHHhhhHHHHHHHHhcchhhhHHHHHHHHHHHHHHHHHHH
Confidence 47899999875 9999999998766543
No 28
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=22.23 E-value=1.2e+02 Score=24.12 Aligned_cols=22 Identities=23% Similarity=0.285 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 024111 201 LEEIINYVHSLQNQVEFLSMEL 222 (272)
Q Consensus 201 L~eAIdYIk~LQ~qV~~L~~~~ 222 (272)
+..|||-|.-||.+|++|+++-
T Consensus 13 IqqAvdtI~LLqmEieELKekn 34 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKN 34 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 6789999999999999999873
No 29
>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=20.99 E-value=95 Score=20.85 Aligned_cols=16 Identities=38% Similarity=0.690 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHhhc
Q 024111 171 RVRREKINKKMRCLQD 186 (272)
Q Consensus 171 RrRRekIner~~~Lr~ 186 (272)
|+||+.+..++..||+
T Consensus 14 rrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 14 RRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHhc
Confidence 7899999999998885
Done!