Query 025122
Match_columns 257
No_of_seqs 166 out of 735
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 02:53:24 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025122.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/025122hhsearch_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 1.1E-13 2.5E-18 97.0 4.9 53 186-238 6-60 (60)
2 smart00353 HLH helix loop heli 99.4 9.6E-13 2.1E-17 91.0 6.6 50 189-238 1-52 (53)
3 PF00010 HLH: Helix-loop-helix 99.4 1E-12 2.2E-17 92.4 5.4 48 187-234 4-55 (55)
4 KOG1318 Helix loop helix trans 99.3 1.7E-12 3.7E-17 125.3 6.0 67 177-243 226-295 (411)
5 KOG1319 bHLHZip transcription 99.0 3.5E-10 7.5E-15 100.8 3.9 62 177-241 58-125 (229)
6 KOG4304 Transcriptional repres 98.5 3.8E-08 8.1E-13 90.0 2.1 53 187-239 35-94 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.4 2.2E-07 4.7E-12 96.4 5.2 52 185-236 21-75 (803)
8 KOG2588 Predicted DNA-binding 98.4 1.2E-07 2.7E-12 99.1 3.3 60 182-241 274-333 (953)
9 KOG2483 Upstream transcription 97.9 4.9E-05 1.1E-09 69.3 7.6 57 185-241 60-118 (232)
10 KOG3960 Myogenic helix-loop-he 97.5 0.0002 4.3E-09 66.7 6.5 58 188-245 122-180 (284)
11 KOG4029 Transcription factor H 97.4 0.00018 3.9E-09 64.0 4.0 55 187-241 112-169 (228)
12 PLN03217 transcription factor 97.1 0.0011 2.3E-08 53.1 5.5 47 195-241 18-69 (93)
13 KOG0561 bHLH transcription fac 97.1 0.00044 9.6E-09 66.0 3.4 52 189-240 65-117 (373)
14 KOG3910 Helix loop helix trans 93.8 0.078 1.7E-06 53.9 4.5 54 187-240 529-585 (632)
15 KOG3558 Hypoxia-inducible fact 89.8 0.24 5.2E-06 51.9 2.8 43 190-232 52-97 (768)
16 KOG4447 Transcription factor T 89.0 0.27 5.8E-06 43.4 2.1 50 188-238 82-133 (173)
17 KOG3560 Aryl-hydrocarbon recep 83.9 0.96 2.1E-05 46.8 3.3 41 191-232 32-76 (712)
18 KOG3559 Transcriptional regula 80.1 1.8 3.9E-05 43.7 3.6 45 189-233 6-53 (598)
19 KOG4395 Transcription factor A 67.0 8.3 0.00018 36.6 4.3 50 188-237 178-229 (285)
20 KOG3898 Transcription factor N 64.8 4.2 9.1E-05 37.6 1.9 47 189-235 77-125 (254)
21 PF14689 SPOB_a: Sensor_kinase 44.2 51 0.0011 23.9 4.4 44 193-244 17-60 (62)
22 TIGR00986 3a0801s05tom22 mitoc 42.1 14 0.00031 32.1 1.4 36 197-233 49-84 (145)
23 PRK13702 replication protein; 39.5 70 0.0015 25.7 4.8 43 186-228 22-76 (85)
24 KOG4447 Transcription factor T 35.6 29 0.00064 30.9 2.3 25 191-215 29-53 (173)
25 KOG3582 Mlx interactors and re 35.5 9.3 0.0002 40.8 -0.9 55 187-241 654-712 (856)
26 PF04281 Tom22: Mitochondrial 33.3 24 0.00052 30.3 1.4 37 196-233 50-86 (137)
27 KOG3584 cAMP response element 25.5 47 0.001 32.4 2.0 17 227-243 311-327 (348)
28 PF02344 Myc-LZ: Myc leucine z 23.6 86 0.0019 21.1 2.4 16 193-208 14-29 (32)
29 KOG0105 Alternative splicing f 22.4 79 0.0017 29.3 2.8 13 21-33 101-113 (241)
30 KOG3074 Transcriptional regula 22.1 64 0.0014 30.5 2.2 15 33-47 65-79 (263)
31 PRK14126 cell division protein 20.8 2.2E+02 0.0048 22.1 4.6 45 196-243 33-77 (85)
32 PLN02847 triacylglycerol lipas 20.8 1E+02 0.0023 32.6 3.5 17 30-46 49-65 (633)
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=99.44 E-value=1.1e-13 Score=97.01 Aligned_cols=53 Identities=36% Similarity=0.673 Sum_probs=48.8
Q ss_pred CCCcHHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 025122 186 HPRSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE 238 (257)
Q Consensus 186 ~~HsiaERrRRerIneri~~Lr~LVP~~--~KkmDKAsIL~eAI~YIK~LQ~QVq 238 (257)
..|+.+||+||++||+.|..|+.+||.. ..++||++||+.||+||++|+.+++
T Consensus 6 ~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 6 EAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 4699999999999999999999999999 3559999999999999999999863
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.39 E-value=9.6e-13 Score=91.02 Aligned_cols=50 Identities=34% Similarity=0.664 Sum_probs=45.1
Q ss_pred cHHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 025122 189 SIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE 238 (257)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~--~KkmDKAsIL~eAI~YIK~LQ~QVq 238 (257)
+.+||+||++||+.|..|+.+||.+ ..+++|++||.+||+||+.|+.+++
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 2348999999999999999999886
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=99.36 E-value=1e-12 Score=92.45 Aligned_cols=48 Identities=35% Similarity=0.639 Sum_probs=44.8
Q ss_pred CCcHHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhHHHHHHHHHHHHH
Q 025122 187 PRSIAERVRRTRISDRIRKLQDLVPNM----DKQTNTADMLEEAVEYVKFLQ 234 (257)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~----~KkmDKAsIL~eAI~YIK~LQ 234 (257)
.|+..||+||++||+.|..|+.+||.+ ..+++|++||+.||+||++||
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 345999999999999999997
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.32 E-value=1.7e-12 Score=125.28 Aligned_cols=67 Identities=25% Similarity=0.462 Sum_probs=57.6
Q ss_pred ccccccCCCCCCcHHHHHHHHHHHHHHHHHhccCCCCCC---CCChhhHHHHHHHHHHHHHHHHHHHhhc
Q 025122 177 VRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK---QTNTADMLEEAVEYVKFLQKQIEVLHFL 243 (257)
Q Consensus 177 ~raKRg~at~~HsiaERrRRerIneri~~Lr~LVP~~~K---kmDKAsIL~eAI~YIK~LQ~QVq~Le~l 243 (257)
...|.+++++.|+++|||||++||++|++|..|||.|.. +++|.+||..+++||+.||+..++..+.
T Consensus 226 ~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~E~ 295 (411)
T KOG1318|consen 226 ALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRAREL 295 (411)
T ss_pred hhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 344556667789999999999999999999999999843 4799999999999999999988865543
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.98 E-value=3.5e-10 Score=100.80 Aligned_cols=62 Identities=27% Similarity=0.473 Sum_probs=51.6
Q ss_pred ccccccCCCCCCcHHHHHHHHHHHHHHHHHhccCCCCCC------CCChhhHHHHHHHHHHHHHHHHHHHh
Q 025122 177 VRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK------QTNTADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 177 ~raKRg~at~~HsiaERrRRerIneri~~Lr~LVP~~~K------kmDKAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
++.||++ .|..+||+||+.|+..+..|++|||.|.. |+.||.||..+|+||.+|..++.+-+
T Consensus 58 yk~rrr~---aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe 125 (229)
T KOG1319|consen 58 YKDRRRR---AHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE 125 (229)
T ss_pred HHHHHHH---HHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444 49999999999999999999999997754 37799999999999999988766543
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.52 E-value=3.8e-08 Score=89.96 Aligned_cols=53 Identities=32% Similarity=0.524 Sum_probs=46.7
Q ss_pred CCcHHHHHHHHHHHHHHHHHhccCCCCCC-------CCChhhHHHHHHHHHHHHHHHHHH
Q 025122 187 PRSIAERVRRTRISDRIRKLQDLVPNMDK-------QTNTADMLEEAVEYVKFLQKQIEV 239 (257)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~~K-------kmDKAsIL~eAI~YIK~LQ~QVq~ 239 (257)
.|-++|||||.|||+-|.+|++|||.+-+ |++||.||+-||+|+|.||...+.
T Consensus 35 ~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~~ 94 (250)
T KOG4304|consen 35 RKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQA 94 (250)
T ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccccc
Confidence 47799999999999999999999996543 488999999999999999986543
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.43 E-value=2.2e-07 Score=96.42 Aligned_cols=52 Identities=25% Similarity=0.480 Sum_probs=48.7
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHhccCCCCC---CCCChhhHHHHHHHHHHHHHHH
Q 025122 185 THPRSIAERVRRTRISDRIRKLQDLVPNMD---KQTNTADMLEEAVEYVKFLQKQ 236 (257)
Q Consensus 185 t~~HsiaERrRRerIneri~~Lr~LVP~~~---KkmDKAsIL~eAI~YIK~LQ~Q 236 (257)
+.+|+.+|||||+++|.-|.+|-+|||.+. .|+||.+||.+||+.||.++.+
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 457999999999999999999999999998 5799999999999999999885
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.42 E-value=1.2e-07 Score=99.15 Aligned_cols=60 Identities=32% Similarity=0.513 Sum_probs=54.9
Q ss_pred cCCCCCCcHHHHHHHHHHHHHHHHHhccCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHh
Q 025122 182 GCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 182 g~at~~HsiaERrRRerIneri~~Lr~LVP~~~KkmDKAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
+.++.+||++|||.|..||+||.+|+++||+...++.|+.+|..||+||++||...+.+.
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk 333 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLK 333 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccc
Confidence 345778999999999999999999999999998889999999999999999998777665
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.85 E-value=4.9e-05 Score=69.32 Aligned_cols=57 Identities=25% Similarity=0.420 Sum_probs=47.8
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHhccCCCCCCCC-C-hhhHHHHHHHHHHHHHHHHHHHh
Q 025122 185 THPRSIAERVRRTRISDRIRKLQDLVPNMDKQT-N-TADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 185 t~~HsiaERrRRerIneri~~Lr~LVP~~~Kkm-D-KAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
+..|+.-||+||..|.+.|..|+.+||..+... . .++||+.|++||+.|+.+.....
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~ 118 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQ 118 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHH
Confidence 346899999999999999999999999765522 2 69999999999999987766443
No 10
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.53 E-value=0.0002 Score=66.68 Aligned_cols=58 Identities=19% Similarity=0.353 Sum_probs=50.4
Q ss_pred CcHHHHHHHHHHHHHHHHHhc-cCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHhhccC
Q 025122 188 RSIAERVRRTRISDRIRKLQD-LVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFLEN 245 (257)
Q Consensus 188 HsiaERrRRerIneri~~Lr~-LVP~~~KkmDKAsIL~eAI~YIK~LQ~QVq~Le~l~~ 245 (257)
-.+.||||-.||||-|.+|+. -+++-+.++-|..||.-||+||..||.-++++..++.
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 468899999999999999964 5777778899999999999999999998888876543
No 11
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.36 E-value=0.00018 Score=63.99 Aligned_cols=55 Identities=24% Similarity=0.445 Sum_probs=48.2
Q ss_pred CCcHHHHHHHHHHHHHHHHHhccCCC--C-CCCCChhhHHHHHHHHHHHHHHHHHHHh
Q 025122 187 PRSIAERVRRTRISDRIRKLQDLVPN--M-DKQTNTADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~--~-~KkmDKAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
.++..||.|=..||..|..||.+||. . +||+.|..+|..||.||++|+.-++.-+
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~ 169 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQE 169 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccc
Confidence 46777999999999999999999995 3 6679999999999999999998665544
No 12
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.11 E-value=0.0011 Score=53.08 Aligned_cols=47 Identities=28% Similarity=0.584 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHhccCCCCCC-----CCChhhHHHHHHHHHHHHHHHHHHHh
Q 025122 195 RRTRISDRIRKLQDLVPNMDK-----QTNTADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 195 RRerIneri~~Lr~LVP~~~K-----kmDKAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
--+.|++-+-.||.|+|.... +-..+-||.|+..||+.|+.+|..|.
T Consensus 18 sddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLS 69 (93)
T PLN03217 18 SEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLS 69 (93)
T ss_pred CHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347899999999999995321 25778899999999999999999986
No 13
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.06 E-value=0.00044 Score=65.97 Aligned_cols=52 Identities=23% Similarity=0.429 Sum_probs=44.3
Q ss_pred cHHHHHHHHHHHHHHHHHhccCCCCC-CCCChhhHHHHHHHHHHHHHHHHHHH
Q 025122 189 SIAERVRRTRISDRIRKLQDLVPNMD-KQTNTADMLEEAVEYVKFLQKQIEVL 240 (257)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~~-KkmDKAsIL~eAI~YIK~LQ~QVq~L 240 (257)
+-.||||=.-||..|..||.|+|.-+ .|+.||.||..+.+||..|..+.-+|
T Consensus 65 NsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~l 117 (373)
T KOG0561|consen 65 NSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTEL 117 (373)
T ss_pred cchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhccccc
Confidence 45699999999999999999999532 24999999999999999998765443
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=93.79 E-value=0.078 Score=53.85 Aligned_cols=54 Identities=20% Similarity=0.342 Sum_probs=45.1
Q ss_pred CCcHHHHHHHHHHHHHHHHHhccCC---CCCCCCChhhHHHHHHHHHHHHHHHHHHH
Q 025122 187 PRSIAERVRRTRISDRIRKLQDLVP---NMDKQTNTADMLEEAVEYVKFLQKQIEVL 240 (257)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP---~~~KkmDKAsIL~eAI~YIK~LQ~QVq~L 240 (257)
..+..||.|=..||+-|++|..|.- +.+|--.|--||-.||.-|-.|++||.+-
T Consensus 529 aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 529 ANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred hhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 3677799999999999999998865 23443468999999999999999999864
No 15
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=89.77 E-value=0.24 Score=51.93 Aligned_cols=43 Identities=21% Similarity=0.478 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHhccCCC---CCCCCChhhHHHHHHHHHHH
Q 025122 190 IAERVRRTRISDRIRKLQDLVPN---MDKQTNTADMLEEAVEYVKF 232 (257)
Q Consensus 190 iaERrRRerIneri~~Lr~LVP~---~~KkmDKAsIL~eAI~YIK~ 232 (257)
-|.|.||.|=|+-|.+|..++|- ...++|||+|+.-||-|+|-
T Consensus 52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 46899999999999999999993 23369999999999999874
No 16
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=89.02 E-value=0.27 Score=43.39 Aligned_cols=50 Identities=24% Similarity=0.507 Sum_probs=43.9
Q ss_pred CcHHHHHHHHHHHHHHHHHhccCCC--CCCCCChhhHHHHHHHHHHHHHHHHH
Q 025122 188 RSIAERVRRTRISDRIRKLQDLVPN--MDKQTNTADMLEEAVEYVKFLQKQIE 238 (257)
Q Consensus 188 HsiaERrRRerIneri~~Lr~LVP~--~~KkmDKAsIL~eAI~YIK~LQ~QVq 238 (257)
|++-||+|=..+|+-|..||.+||. .+| +.|.--|.-|..||-+|-.-.+
T Consensus 82 anvrerqRtqsLn~AF~~lr~iiptlPsdk-lSkiqtLklA~ryidfl~~vl~ 133 (173)
T KOG4447|consen 82 ANVRERQRTQSLNEAFAALRKIIPTLPSDK-LSKIQTLKLAARYIDFLYQVLQ 133 (173)
T ss_pred HHHHHHHhhhhHHHHHHHHHhhcCCCCccc-cccccchhhcccCCchhhhccc
Confidence 8899999999999999999999995 455 7888899999999999876433
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=83.93 E-value=0.96 Score=46.79 Aligned_cols=41 Identities=22% Similarity=0.485 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHHhccCCC----CCCCCChhhHHHHHHHHHHH
Q 025122 191 AERVRRTRISDRIRKLQDLVPN----MDKQTNTADMLEEAVEYVKF 232 (257)
Q Consensus 191 aERrRRerIneri~~Lr~LVP~----~~KkmDKAsIL~eAI~YIK~ 232 (257)
--+|-|+|+|..++.|..|+|- ..| +||-+||.-+|-|++.
T Consensus 32 PSKRHRdRLNaELD~lAsLLPfpqdiisK-LDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 32 PSKRHRDRLNAELDHLASLLPFPQDIISK-LDKLSVLRLSVSYLRV 76 (712)
T ss_pred cchhHHHHhhhHHHHHHHhcCCCHHHHhh-hhhhhhhhhhHHHHHH
Confidence 3678899999999999999994 345 9999999999999863
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=80.14 E-value=1.8 Score=43.67 Aligned_cols=45 Identities=24% Similarity=0.366 Sum_probs=38.6
Q ss_pred cHHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhHHHHHHHHHHHH
Q 025122 189 SIAERVRRTRISDRIRKLQDLVPNM---DKQTNTADMLEEAVEYVKFL 233 (257)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~---~KkmDKAsIL~eAI~YIK~L 233 (257)
.-+.|.||++=|-.|.+|.+|+|-. ..+.||++|+.-+--|||.-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 3468999999999999999999943 33689999999999999853
No 19
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=67.05 E-value=8.3 Score=36.62 Aligned_cols=50 Identities=24% Similarity=0.324 Sum_probs=42.4
Q ss_pred CcHHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhHHHHHHHHHHHHHHHH
Q 025122 188 RSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQI 237 (257)
Q Consensus 188 HsiaERrRRerIneri~~Lr~LVP~~--~KkmDKAsIL~eAI~YIK~LQ~QV 237 (257)
-+..||+|=..+|.-|+.|+.+||.. ++++.|-.-|.-|-.||-.|-...
T Consensus 178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 46779999999999999999999965 446788889999999998886654
No 20
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=64.83 E-value=4.2 Score=37.55 Aligned_cols=47 Identities=21% Similarity=0.391 Sum_probs=38.5
Q ss_pred cHHHHHHHHHHHHHHHHHhccCCCCC--CCCChhhHHHHHHHHHHHHHH
Q 025122 189 SIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQK 235 (257)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~~--KkmDKAsIL~eAI~YIK~LQ~ 235 (257)
+.-||.|--.+|+-++.||.+||... .++.|...|.-|-.||..|+.
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 45688888889999999999999432 247899999999999988875
No 21
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=44.18 E-value=51 Score=23.95 Aligned_cols=44 Identities=27% Similarity=0.326 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHHhccCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHhhcc
Q 025122 193 RVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFLE 244 (257)
Q Consensus 193 RrRRerIneri~~Lr~LVP~~~KkmDKAsIL~eAI~YIK~LQ~QVq~Le~l~ 244 (257)
|+-|=.....+..+..|+--.. .++|.+||+.+-.+++.+..+-
T Consensus 17 R~~RHD~~NhLqvI~gllqlg~--------~~~a~eYi~~~~~~~~~~s~l~ 60 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQLGK--------YEEAKEYIKELSKDLQQESELL 60 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHhHHHHHHHHHHHHHHHCCC--------HHHHHHHHHHHHHHHHHHHHHH
Confidence 5566667778888888776432 4889999999999999886543
No 22
>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=42.13 E-value=14 Score=32.12 Aligned_cols=36 Identities=25% Similarity=0.365 Sum_probs=25.5
Q ss_pred HHHHHHHHHHhccCCCCCCCCChhhHHHHHHHHHHHH
Q 025122 197 TRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFL 233 (257)
Q Consensus 197 erIneri~~Lr~LVP~~~KkmDKAsIL~eAI~YIK~L 233 (257)
|-|-+||-+|++|||.... .-.++...-+..++|.+
T Consensus 49 ETl~ERi~ALkDm~Pp~~R-~~i~~~~s~t~s~~ks~ 84 (145)
T TIGR00986 49 ETFTDRIYALKDIVPPTTR-GWIYHKYSTTTNFVKST 84 (145)
T ss_pred CcHHHHHHHHHhhCCHHHH-HHHHHHHHHHHHHHHHH
Confidence 5678899999999997665 34555555566666554
No 23
>PRK13702 replication protein; Provisional
Probab=39.54 E-value=70 Score=25.73 Aligned_cols=43 Identities=28% Similarity=0.398 Sum_probs=30.4
Q ss_pred CCCcHHHHHHHH--HHHHHHHHHhccCCCCCC----------CCChhhHHHHHHH
Q 025122 186 HPRSIAERVRRT--RISDRIRKLQDLVPNMDK----------QTNTADMLEEAVE 228 (257)
Q Consensus 186 ~~HsiaERrRRe--rIneri~~Lr~LVP~~~K----------kmDKAsIL~eAI~ 228 (257)
.|++.+||+|.- |..+.-++|+-+||+--| .+..|.||+..|+
T Consensus 22 ~Pls~aErQr~svaRKr~THkei~vfi~n~lK~~L~elc~~~glTQAe~IE~LIe 76 (85)
T PRK13702 22 NPLSAAEKQRASVARKRATHKEIKVFIQNPLKDKLMELCEEEGLTQAEMIERLIE 76 (85)
T ss_pred CCCCHHHHHHHHHHHHHHhhhhhheeecHHHHHHHHHHHHHcCCcHHHHHHHHHH
Confidence 689999998764 445556888888987544 2556777766664
No 24
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=35.57 E-value=29 Score=30.89 Aligned_cols=25 Identities=36% Similarity=0.436 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCCC
Q 025122 191 AERVRRTRISDRIRKLQDLVPNMDK 215 (257)
Q Consensus 191 aERrRRerIneri~~Lr~LVP~~~K 215 (257)
.||.|..++++.+.-|+.|+|++..
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa 53 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPA 53 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCC
Confidence 5888999999999999999998754
No 25
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=35.46 E-value=9.3 Score=40.78 Aligned_cols=55 Identities=24% Similarity=0.311 Sum_probs=44.6
Q ss_pred CCcHHHHHHHHHHHHHHHHHhccCCCCCCC----CChhhHHHHHHHHHHHHHHHHHHHh
Q 025122 187 PRSIAERVRRTRISDRIRKLQDLVPNMDKQ----TNTADMLEEAVEYVKFLQKQIEVLH 241 (257)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~~Kk----mDKAsIL~eAI~YIK~LQ~QVq~Le 241 (257)
.|+-+|.+||+.|.-.+..|-.++.+..+. |.++.-+...++||-.++.+...+.
T Consensus 654 t~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~ 712 (856)
T KOG3582|consen 654 THISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQ 712 (856)
T ss_pred cCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccc
Confidence 478899999999999999999999976653 5566669999999988776655443
No 26
>PF04281 Tom22: Mitochondrial import receptor subunit Tom22 ; InterPro: IPR005683 The mitochondrial protein translocase family, which is responsible for movement of nuclear encoded pre-proteins into mitochondria, is very complex with at least 19 components. These proteins include several chaperone proteins, four proteins of the outer membrane 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 represents the Tom22 proteins []. The N-terminal region of Tom22 has been shown to have chaperone-like activity, and the C-terminal region faces the intermembrane face []. ; GO: 0006886 intracellular protein transport, 0005741 mitochondrial outer membrane
Probab=33.33 E-value=24 Score=30.25 Aligned_cols=37 Identities=19% Similarity=0.282 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhccCCCCCCCCChhhHHHHHHHHHHHH
Q 025122 196 RTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFL 233 (257)
Q Consensus 196 RerIneri~~Lr~LVP~~~KkmDKAsIL~eAI~YIK~L 233 (257)
-|-|-+||-+|+++||.... --..+.+.-+..++|.+
T Consensus 50 dETl~ERl~aLkdi~P~~~R-~~i~~~~~~~~~~~k~~ 86 (137)
T PF04281_consen 50 DETLLERLWALKDIFPPSVR-NWISSTVSTTSSAVKSL 86 (137)
T ss_pred cccHHHHHHHHhccCCHHHH-HHHHHHHHHHHHHHHHH
Confidence 35678889999999997654 23444444455554443
No 27
>KOG3584 consensus cAMP response element binding protein and related transcription factors [Transcription]
Probab=25.52 E-value=47 Score=32.41 Aligned_cols=17 Identities=41% Similarity=0.583 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHHhhc
Q 025122 227 VEYVKFLQKQIEVLHFL 243 (257)
Q Consensus 227 I~YIK~LQ~QVq~Le~l 243 (257)
-+|||.|+.+|.+||..
T Consensus 311 KEYVKCLENRVAVLENQ 327 (348)
T KOG3584|consen 311 KEYVKCLENRVAVLENQ 327 (348)
T ss_pred hHHHHHHHhHHHHHhcc
Confidence 47999999999988743
No 28
>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=23.64 E-value=86 Score=21.10 Aligned_cols=16 Identities=25% Similarity=0.665 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHhc
Q 025122 193 RVRRTRISDRIRKLQD 208 (257)
Q Consensus 193 RrRRerIneri~~Lr~ 208 (257)
|+||+.+..++..||+
T Consensus 14 rrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 14 RRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHhc
Confidence 6889999999998885
No 29
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=22.44 E-value=79 Score=29.33 Aligned_cols=13 Identities=38% Similarity=0.457 Sum_probs=5.9
Q ss_pred CCCCCCCcccccc
Q 025122 21 GRGELSRGGLARL 33 (257)
Q Consensus 21 ~~~~~~~~~l~r~ 33 (257)
||+++-|++.+|-
T Consensus 101 gg~gg~rgppsrr 113 (241)
T KOG0105|consen 101 GGGGGRRGPPSRR 113 (241)
T ss_pred CCCCcccCCcccc
Confidence 3344444455553
No 30
>KOG3074 consensus Transcriptional regulator of the PUR family, single-stranded-DNA-binding [Transcription]
Probab=22.09 E-value=64 Score=30.54 Aligned_cols=15 Identities=20% Similarity=0.246 Sum_probs=10.1
Q ss_pred cccCChHHHHHHHhh
Q 025122 33 LRSAPASWIDALLEE 47 (257)
Q Consensus 33 ~~sapa~~l~~l~~~ 47 (257)
.+.+-|.|+..++-+
T Consensus 65 ls~s~aaef~d~l~~ 79 (263)
T KOG3074|consen 65 LSLSVAAEFRDILND 79 (263)
T ss_pred EehhhHHHHHHHHHH
Confidence 456777787776654
No 31
>PRK14126 cell division protein ZapA; Provisional
Probab=20.78 E-value=2.2e+02 Score=22.12 Aligned_cols=45 Identities=24% Similarity=0.345 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHhccCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHhhc
Q 025122 196 RTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFL 243 (257)
Q Consensus 196 RerIneri~~Lr~LVP~~~KkmDKAsIL~eAI~YIK~LQ~QVq~Le~l 243 (257)
-..++++++.+++--|..+. ++..||- |++....|-+-.++++.+
T Consensus 33 A~~vd~km~ei~~~~~~ls~--~~iAVLa-ALNia~El~k~~~~~~~l 77 (85)
T PRK14126 33 AAIVDDKMRELNEKNPSLDT--SKLAVLT-AVNVIHDYIKLKEEYEKL 77 (85)
T ss_pred HHHHHHHHHHHHHhCCCCCH--HHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 35789999999998887765 6666663 777776665555555443
No 32
>PLN02847 triacylglycerol lipase
Probab=20.76 E-value=1e+02 Score=32.59 Aligned_cols=17 Identities=29% Similarity=0.702 Sum_probs=13.3
Q ss_pred ccccccCChHHHHHHHh
Q 025122 30 LARLRSAPASWIDALLE 46 (257)
Q Consensus 30 l~r~~sapa~~l~~l~~ 46 (257)
.-|--.||++|+|++.-
T Consensus 49 ~~~~~~~p~tw~ea~~~ 65 (633)
T PLN02847 49 ARRPAQAPATWLETITT 65 (633)
T ss_pred ccCCCCCCchHHHHHHH
Confidence 44556799999999865
Done!