Query 022116
Match_columns 302
No_of_seqs 291 out of 1005
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 08:09:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022116.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022116hhsearch_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 1.9E-13 4.2E-18 98.9 4.4 54 111-165 4-60 (60)
2 PF00010 HLH: Helix-loop-helix 99.3 5.7E-13 1.2E-17 96.2 3.4 48 113-161 3-55 (55)
3 smart00353 HLH helix loop heli 99.3 2E-12 4.3E-17 92.0 6.0 49 116-165 1-52 (53)
4 KOG1318 Helix loop helix trans 99.3 4.2E-13 9.2E-18 132.3 3.4 60 106-166 228-291 (411)
5 KOG4304 Transcriptional repres 98.9 1E-10 2.2E-15 109.4 -2.4 109 112-221 33-149 (250)
6 KOG1319 bHLHZip transcription 98.9 1.6E-09 3.4E-14 97.7 3.7 65 112-176 63-133 (229)
7 KOG3561 Aryl-hydrocarbon recep 98.4 1.6E-07 3.4E-12 99.8 4.7 51 112-163 21-75 (803)
8 KOG2588 Predicted DNA-binding 98.1 1.4E-06 3E-11 93.3 2.1 59 110-169 275-334 (953)
9 KOG2483 Upstream transcription 98.0 9E-06 2E-10 75.7 6.4 59 111-169 59-119 (232)
10 PLN03217 transcription factor 97.5 0.00021 4.5E-09 57.5 5.4 51 123-174 19-75 (93)
11 KOG3960 Myogenic helix-loop-he 97.3 0.00036 7.7E-09 65.9 5.4 57 116-172 123-180 (284)
12 KOG0561 bHLH transcription fac 97.1 0.0002 4.4E-09 69.1 2.0 50 115-165 64-115 (373)
13 KOG4029 Transcription factor H 97.0 0.00075 1.6E-08 61.9 3.9 58 112-169 110-170 (228)
14 KOG3910 Helix loop helix trans 96.7 0.0015 3.2E-08 66.7 3.6 60 108-167 523-585 (632)
15 KOG3558 Hypoxia-inducible fact 91.5 0.1 2.2E-06 55.5 1.9 43 116-159 51-97 (768)
16 KOG4447 Transcription factor T 89.3 0.22 4.7E-06 44.4 1.8 50 112-162 79-130 (173)
17 KOG3560 Aryl-hydrocarbon recep 87.4 0.47 1E-05 49.6 3.1 40 119-159 33-76 (712)
18 KOG3559 Transcriptional regula 84.9 0.84 1.8E-05 46.5 3.3 43 117-160 7-53 (598)
19 KOG4395 Transcription factor A 79.0 3.3 7.1E-05 39.8 4.7 50 115-165 178-230 (285)
20 KOG3898 Transcription factor N 78.2 3.3 7E-05 39.2 4.5 50 113-163 74-126 (254)
21 KOG3582 Mlx interactors and re 63.0 1.8 3.8E-05 46.6 -1.0 89 110-204 650-742 (856)
22 PF13334 DUF4094: Domain of un 48.4 34 0.00074 27.9 4.4 26 150-175 68-93 (95)
23 KOG4447 Transcription factor T 47.5 11 0.00024 33.8 1.6 44 118-162 29-74 (173)
24 KOG3582 Mlx interactors and re 31.0 17 0.00037 39.5 0.1 62 107-171 783-848 (856)
25 COG3074 Uncharacterized protei 28.6 82 0.0018 24.9 3.5 24 150-173 13-36 (79)
26 PF06005 DUF904: Protein of un 26.5 99 0.0022 24.0 3.7 24 150-173 13-36 (72)
27 PRK15422 septal ring assembly 26.1 95 0.0021 24.9 3.5 26 150-175 13-38 (79)
28 PF00601 Flu_NS2: Influenza no 24.5 62 0.0013 26.6 2.3 53 113-165 27-81 (94)
29 TIGR00986 3a0801s05tom22 mitoc 20.7 52 0.0011 29.2 1.2 35 124-159 49-83 (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=1.9e-13 Score=98.91 Aligned_cols=54 Identities=35% Similarity=0.629 Sum_probs=49.1
Q ss_pred cCcCCcHHHHHHHHHHHHHHHHHHhcCCCC---CCCCCccchhHHHHHHHHHHHHHHH
Q 022116 111 ATDSHSLAERVRREKISERMKYLQDLVPGC---NKITGKAGMLDEIINYVQSLQRQVE 165 (302)
Q Consensus 111 a~~~H~~~ERrRR~kIne~~~~L~~LVP~~---~K~~dKasIL~eaI~YIk~Lq~qvq 165 (302)
.+..|+..||+||++||+.|..|+++||.+ .+ .+|++||..||+||+.|+.+++
T Consensus 4 ~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k-~~k~~iL~~a~~yI~~L~~~~~ 60 (60)
T cd00083 4 RREAHNLRERRRRERINDAFDELRSLLPTLPPSKK-LSKAEILRKAVDYIKSLQELLQ 60 (60)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCC-CCHHHHHHHHHHHHHHHHHHhC
Confidence 356799999999999999999999999998 55 4999999999999999998863
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=99.34 E-value=5.7e-13 Score=96.21 Aligned_cols=48 Identities=38% Similarity=0.735 Sum_probs=44.5
Q ss_pred cCCcHHHHHHHHHHHHHHHHHHhcCCCC-----CCCCCccchhHHHHHHHHHHH
Q 022116 113 DSHSLAERVRREKISERMKYLQDLVPGC-----NKITGKAGMLDEIINYVQSLQ 161 (302)
Q Consensus 113 ~~H~~~ERrRR~kIne~~~~L~~LVP~~-----~K~~dKasIL~eaI~YIk~Lq 161 (302)
..|+..||+||++||+.|.+|+.+||.+ .+ .+|++||+.||+||+.||
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 4599999999999999999999999987 35 599999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.34 E-value=2e-12 Score=92.03 Aligned_cols=49 Identities=39% Similarity=0.603 Sum_probs=44.7
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCC---CCCCCCccchhHHHHHHHHHHHHHHH
Q 022116 116 SLAERVRREKISERMKYLQDLVPG---CNKITGKAGMLDEIINYVQSLQRQVE 165 (302)
Q Consensus 116 ~~~ERrRR~kIne~~~~L~~LVP~---~~K~~dKasIL~eaI~YIk~Lq~qvq 165 (302)
+..||+||++||++|..|+++||. ..++ +|++||.+||+||+.|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~-~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKL-SKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHHHHHHHHHHHHHHHHh
Confidence 468999999999999999999996 4465 999999999999999999886
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.34 E-value=4.2e-13 Score=132.34 Aligned_cols=60 Identities=37% Similarity=0.634 Sum_probs=52.9
Q ss_pred hcccccCcCCcHHHHHHHHHHHHHHHHHHhcCCCCC----CCCCccchhHHHHHHHHHHHHHHHH
Q 022116 106 ARRGQATDSHSLAERVRREKISERMKYLQDLVPGCN----KITGKAGMLDEIINYVQSLQRQVEF 166 (302)
Q Consensus 106 ~rr~~a~~~H~~~ERrRR~kIne~~~~L~~LVP~~~----K~~dKasIL~eaI~YIk~Lq~qvq~ 166 (302)
.|.+++++.|+++|||||++||++|++|..|||.|+ +. +|..||..+++||++||+..+.
T Consensus 228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~-nKgtILk~s~dYIr~Lqq~~q~ 291 (411)
T KOG1318|consen 228 ERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKS-NKGTILKASCDYIRELQQTLQR 291 (411)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhc-ccchhhHHHHHHHHHHHHHHHH
Confidence 344556889999999999999999999999999994 44 7999999999999999986663
No 5
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.90 E-value=1e-10 Score=109.35 Aligned_cols=109 Identities=21% Similarity=0.244 Sum_probs=68.8
Q ss_pred CcCCcHHHHHHHHHHHHHHHHHHhcCCCCC--------CCCCccchhHHHHHHHHHHHHHHHHHHhhHhhcCCCcccCcc
Q 022116 112 TDSHSLAERVRREKISERMKYLQDLVPGCN--------KITGKAGMLDEIINYVQSLQRQVEFLSMKLAAVNPRLDFNVD 183 (302)
Q Consensus 112 ~~~H~~~ERrRR~kIne~~~~L~~LVP~~~--------K~~dKasIL~eaI~YIk~Lq~qvq~Le~~~~~~~p~~~~~~~ 183 (302)
+.+|.+.|||||+|||+.|.+|++||+.+- |+ +||.||+-|++|++.|+...+.--.......+.=.|..+
T Consensus 33 k~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~skl-EKAdILEltV~hL~~l~~~~~~~~~~~~~~~~~d~f~~G 111 (250)
T KOG4304|consen 33 KVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKL-EKADILELTVNHLRQLQRSQQAAAQAAPAALPVDSFRAG 111 (250)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhh-HHHHHHHHHHHHHHHHhcccccccccccccccchhhhcc
Confidence 445889999999999999999999999653 44 899999999999999998654332221111111123333
Q ss_pred cccccccCCCCCCCCCCCCCCCCCCCchhhcccCchhh
Q 022116 184 NLFAKEAFPVCPSNFPTIGMSSEMTHPAAYLHQFNSLQ 221 (302)
Q Consensus 184 ~l~~~~~~~~~~~~~p~~g~~~~~~~~~~~~~~~~~~q 221 (302)
+.-+..++.......+.++...+....+|+...+++++
T Consensus 112 f~ec~~EVsr~ls~~~~~~~~~~~~L~~HL~~~~~~~~ 149 (250)
T KOG4304|consen 112 FRECAAEVSRYLSICPGMDAAKGTRLLTHLQAHLAQLE 149 (250)
T ss_pred HHHHHHHHHHHHhhCCCCChHHHhHHHHHHHHHhhccc
Confidence 33333334444445566665555555555443333333
No 6
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.86 E-value=1.6e-09 Score=97.67 Aligned_cols=65 Identities=29% Similarity=0.468 Sum_probs=55.4
Q ss_pred CcCCcHHHHHHHHHHHHHHHHHHhcCCCCCC------CCCccchhHHHHHHHHHHHHHHHHHHhhHhhcCC
Q 022116 112 TDSHSLAERVRREKISERMKYLQDLVPGCNK------ITGKAGMLDEIINYVQSLQRQVEFLSMKLAAVNP 176 (302)
Q Consensus 112 ~~~H~~~ERrRR~kIne~~~~L~~LVP~~~K------~~dKasIL~eaI~YIk~Lq~qvq~Le~~~~~~~p 176 (302)
+..|--+||+||+.||..+..|++|||.|.. ++.||.||.++|+||.+|++++..-+.+++.++.
T Consensus 63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k 133 (229)
T KOG1319|consen 63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRK 133 (229)
T ss_pred HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3459999999999999999999999998742 1379999999999999999988877777766554
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.44 E-value=1.6e-07 Score=99.77 Aligned_cols=51 Identities=22% Similarity=0.378 Sum_probs=47.9
Q ss_pred CcCCcHHHHHHHHHHHHHHHHHHhcCCCCC----CCCCccchhHHHHHHHHHHHHH
Q 022116 112 TDSHSLAERVRREKISERMKYLQDLVPGCN----KITGKAGMLDEIINYVQSLQRQ 163 (302)
Q Consensus 112 ~~~H~~~ERrRR~kIne~~~~L~~LVP~~~----K~~dKasIL~eaI~YIk~Lq~q 163 (302)
+.+|+.+|||||+++|..|.+|.+|||.|. |+ ||.+||.+||++||.+++.
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~-DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKP-DKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCc-hHHHHHHHHHHHHHHHhhh
Confidence 678999999999999999999999999986 65 9999999999999999885
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.08 E-value=1.4e-06 Score=93.29 Aligned_cols=59 Identities=31% Similarity=0.571 Sum_probs=52.7
Q ss_pred ccCcCCcHHHHHHHHHHHHHHHHHHhcCCCC-CCCCCccchhHHHHHHHHHHHHHHHHHHh
Q 022116 110 QATDSHSLAERVRREKISERMKYLQDLVPGC-NKITGKAGMLDEIINYVQSLQRQVEFLSM 169 (302)
Q Consensus 110 ~a~~~H~~~ERrRR~kIne~~~~L~~LVP~~-~K~~dKasIL~eaI~YIk~Lq~qvq~Le~ 169 (302)
..+.+||++|||.|..||+||.+|+++||+. .|. .|..+|..||+||++|+...+.+..
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl-~kSavLr~ai~~i~dl~~~nq~lk~ 334 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKL-NKSAVLRKAIDYIEDLQGYNQKLKL 334 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhh-hhhhhHHHHHHHHHHhhccccccch
Confidence 4578899999999999999999999999988 565 8999999999999999987666554
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.04 E-value=9e-06 Score=75.69 Aligned_cols=59 Identities=27% Similarity=0.367 Sum_probs=48.6
Q ss_pred cCcCCcHHHHHHHHHHHHHHHHHHhcCCCCCCCC--CccchhHHHHHHHHHHHHHHHHHHh
Q 022116 111 ATDSHSLAERVRREKISERMKYLQDLVPGCNKIT--GKAGMLDEIINYVQSLQRQVEFLSM 169 (302)
Q Consensus 111 a~~~H~~~ERrRR~kIne~~~~L~~LVP~~~K~~--dKasIL~eaI~YIk~Lq~qvq~Le~ 169 (302)
++..|+..||+||..|.++|..|+.+||....-+ ..++||+.|+.||+.|+.+....+.
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~ 119 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQ 119 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHH
Confidence 3567999999999999999999999999764322 2589999999999999886655443
No 10
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.50 E-value=0.00021 Score=57.51 Aligned_cols=51 Identities=31% Similarity=0.567 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHhcCCCCC------CCCCccchhHHHHHHHHHHHHHHHHHHhhHhhc
Q 022116 123 REKISERMKYLQDLVPGCN------KITGKAGMLDEIINYVQSLQRQVEFLSMKLAAV 174 (302)
Q Consensus 123 R~kIne~~~~L~~LVP~~~------K~~dKasIL~eaI~YIk~Lq~qvq~Le~~~~~~ 174 (302)
-+.|+|-+..||.|+|... |. .-+-+|.||..||+.|+++|..|++.+..+
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~L 75 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSEL 75 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999642 33 456689999999999999999999988753
No 11
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.30 E-value=0.00036 Score=65.88 Aligned_cols=57 Identities=23% Similarity=0.281 Sum_probs=48.1
Q ss_pred cHHHHHHHHHHHHHHHHHHhc-CCCCCCCCCccchhHHHHHHHHHHHHHHHHHHhhHh
Q 022116 116 SLAERVRREKISERMKYLQDL-VPGCNKITGKAGMLDEIINYVQSLQRQVEFLSMKLA 172 (302)
Q Consensus 116 ~~~ERrRR~kIne~~~~L~~L-VP~~~K~~dKasIL~eaI~YIk~Lq~qvq~Le~~~~ 172 (302)
-+.||||=.|+||.|.+|+.= .++-++..-|.-||..||+||..||.-++++.....
T Consensus 123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 477999999999999999863 466666568999999999999999999988765443
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.14 E-value=0.0002 Score=69.06 Aligned_cols=50 Identities=26% Similarity=0.457 Sum_probs=44.3
Q ss_pred CcHHHHHHHHHHHHHHHHHHhcCCCC--CCCCCccchhHHHHHHHHHHHHHHH
Q 022116 115 HSLAERVRREKISERMKYLQDLVPGC--NKITGKAGMLDEIINYVQSLQRQVE 165 (302)
Q Consensus 115 H~~~ERrRR~kIne~~~~L~~LVP~~--~K~~dKasIL~eaI~YIk~Lq~qvq 165 (302)
-+..||||=.-||-.|..||.|+|.- .|+ .||.||..+.+||.+|+.+..
T Consensus 64 ANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~Kt 115 (373)
T KOG0561|consen 64 ANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGHKT 115 (373)
T ss_pred hcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhccc
Confidence 46789999999999999999999964 676 999999999999999976443
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.96 E-value=0.00075 Score=61.92 Aligned_cols=58 Identities=19% Similarity=0.265 Sum_probs=48.5
Q ss_pred CcCCcHHHHHHHHHHHHHHHHHHhcCCCC---CCCCCccchhHHHHHHHHHHHHHHHHHHh
Q 022116 112 TDSHSLAERVRREKISERMKYLQDLVPGC---NKITGKAGMLDEIINYVQSLQRQVEFLSM 169 (302)
Q Consensus 112 ~~~H~~~ERrRR~kIne~~~~L~~LVP~~---~K~~dKasIL~eaI~YIk~Lq~qvq~Le~ 169 (302)
+..++..||.|=..+|..|.+||.+||.. .|+..|..+|..||.||+.|+.-++.-+.
T Consensus 110 ~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~ 170 (228)
T KOG4029|consen 110 RQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEA 170 (228)
T ss_pred hhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhccccc
Confidence 44567779999999999999999999953 34459999999999999999988865443
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.65 E-value=0.0015 Score=66.74 Aligned_cols=60 Identities=25% Similarity=0.321 Sum_probs=48.9
Q ss_pred ccccCcCCcHHHHHHHHHHHHHHHHHHhcCC---CCCCCCCccchhHHHHHHHHHHHHHHHHH
Q 022116 108 RGQATDSHSLAERVRREKISERMKYLQDLVP---GCNKITGKAGMLDEIINYVQSLQRQVEFL 167 (302)
Q Consensus 108 r~~a~~~H~~~ERrRR~kIne~~~~L~~LVP---~~~K~~dKasIL~eaI~YIk~Lq~qvq~L 167 (302)
...++...+..||.|=..|||.|++|..+.- ...|..-|..||..||.-|-.|++||++-
T Consensus 523 EkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 523 EKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred HHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 3344566889999999999999999999864 23343359999999999999999999764
No 15
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=91.45 E-value=0.1 Score=55.55 Aligned_cols=43 Identities=30% Similarity=0.387 Sum_probs=37.3
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCC----CCCCCccchhHHHHHHHHH
Q 022116 116 SLAERVRREKISERMKYLQDLVPGC----NKITGKAGMLDEIINYVQS 159 (302)
Q Consensus 116 ~~~ERrRR~kIne~~~~L~~LVP~~----~K~~dKasIL~eaI~YIk~ 159 (302)
.-+.|-||.|-|+-|.+|..++|-- ..+ |||+|+.-||-|+|-
T Consensus 51 RdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLRl 97 (768)
T KOG3558|consen 51 RDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHHH
Confidence 4578999999999999999999832 455 999999999999873
No 16
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=89.33 E-value=0.22 Score=44.36 Aligned_cols=50 Identities=22% Similarity=0.369 Sum_probs=41.5
Q ss_pred CcCCcHHHHHHHHHHHHHHHHHHhcCCCC--CCCCCccchhHHHHHHHHHHHH
Q 022116 112 TDSHSLAERVRREKISERMKYLQDLVPGC--NKITGKAGMLDEIINYVQSLQR 162 (302)
Q Consensus 112 ~~~H~~~ERrRR~kIne~~~~L~~LVP~~--~K~~dKasIL~eaI~YIk~Lq~ 162 (302)
+--|++.||+|=..+|+.|..||.++|.. .|+ .|.--|.-|-.||-+|=+
T Consensus 79 rv~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 79 RVMANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhh
Confidence 44599999999999999999999999975 565 677778888888877754
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=87.43 E-value=0.47 Score=49.65 Aligned_cols=40 Identities=20% Similarity=0.438 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHhcCCC----CCCCCCccchhHHHHHHHHH
Q 022116 119 ERVRREKISERMKYLQDLVPG----CNKITGKAGMLDEIINYVQS 159 (302)
Q Consensus 119 ERrRR~kIne~~~~L~~LVP~----~~K~~dKasIL~eaI~YIk~ 159 (302)
-+|-|+|+|-.++.|.+|+|- .+|+ ||.+||.-+|.|++.
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 356789999999999999994 4787 999999999999864
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=84.94 E-value=0.84 Score=46.48 Aligned_cols=43 Identities=28% Similarity=0.369 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCC----CCCCCccchhHHHHHHHHHH
Q 022116 117 LAERVRREKISERMKYLQDLVPGC----NKITGKAGMLDEIINYVQSL 160 (302)
Q Consensus 117 ~~ERrRR~kIne~~~~L~~LVP~~----~K~~dKasIL~eaI~YIk~L 160 (302)
-+.|.||++-|..|.+|..|+|-. .++ ||++|+.-|-.|||--
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQl-DKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQL-DKASIIRLTTSYLKMR 53 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhcc-chhhhhhHHHHHHHHH
Confidence 467899999999999999999953 454 9999999999999853
No 19
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=78.98 E-value=3.3 Score=39.77 Aligned_cols=50 Identities=22% Similarity=0.310 Sum_probs=42.0
Q ss_pred CcHHHHHHHHHHHHHHHHHHhcCCCCC---CCCCccchhHHHHHHHHHHHHHHH
Q 022116 115 HSLAERVRREKISERMKYLQDLVPGCN---KITGKAGMLDEIINYVQSLQRQVE 165 (302)
Q Consensus 115 H~~~ERrRR~kIne~~~~L~~LVP~~~---K~~dKasIL~eaI~YIk~Lq~qvq 165 (302)
-+..||+|=..+|..|+.|+..||... |+ .|---|..|-.||--|-..+.
T Consensus 178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~L-SkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKL-SKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred cchHHHHHhhhHHHHHHHHHHhcCCCCccchh-hhhhHHHHHHHHHhhhHHhhc
Confidence 578899999999999999999999763 44 677889999999988876654
No 20
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=78.23 E-value=3.3 Score=39.23 Aligned_cols=50 Identities=22% Similarity=0.363 Sum_probs=40.9
Q ss_pred cCCcHHHHHHHHHHHHHHHHHHhcCCC---CCCCCCccchhHHHHHHHHHHHHH
Q 022116 113 DSHSLAERVRREKISERMKYLQDLVPG---CNKITGKAGMLDEIINYVQSLQRQ 163 (302)
Q Consensus 113 ~~H~~~ERrRR~kIne~~~~L~~LVP~---~~K~~dKasIL~eaI~YIk~Lq~q 163 (302)
..-+..||+|=-.+|+-|+.||.+||. ..|+ .|.-.|.-|=+||..|++-
T Consensus 74 ~kaNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 74 LKANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSEV 126 (254)
T ss_pred ccccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhccc
Confidence 345678999999999999999999994 3565 7888898888888888753
No 21
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=62.97 E-value=1.8 Score=46.63 Aligned_cols=89 Identities=19% Similarity=0.311 Sum_probs=59.9
Q ss_pred ccCcCCcHHHHHHHHHHHHHHHHHHhcCCCCCCC----CCccchhHHHHHHHHHHHHHHHHHHhhHhhcCCCcccCcccc
Q 022116 110 QATDSHSLAERVRREKISERMKYLQDLVPGCNKI----TGKAGMLDEIINYVQSLQRQVEFLSMKLAAVNPRLDFNVDNL 185 (302)
Q Consensus 110 ~a~~~H~~~ERrRR~kIne~~~~L~~LVP~~~K~----~dKasIL~eaI~YIk~Lq~qvq~Le~~~~~~~p~~~~~~~~l 185 (302)
.....|+-+|.+||++|.-.+..|-+++-+..++ +-++.-+..++.||-.++.+...+.++-. .+.-.++++
T Consensus 650 ~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~----~lr~~~s~~ 725 (856)
T KOG3582|consen 650 NRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAH----SLRKEISEL 725 (856)
T ss_pred CCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhh----hhhhhhHHH
Confidence 3467799999999999999999999999865432 24666799999999999876554433221 122233333
Q ss_pred cccccCCCCCCCCCCCCCC
Q 022116 186 FAKEAFPVCPSNFPTIGMS 204 (302)
Q Consensus 186 ~~~~~~~~~~~~~p~~g~~ 204 (302)
+.+...|....|..|++
T Consensus 726 --~A~~~~~~q~p~aT~vp 742 (856)
T KOG3582|consen 726 --NAVISACQQPPPATGVP 742 (856)
T ss_pred --HHHHHHhhcCCCccCCc
Confidence 23445566656655554
No 22
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=48.42 E-value=34 Score=27.89 Aligned_cols=26 Identities=31% Similarity=0.442 Sum_probs=22.5
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHhhcC
Q 022116 150 LDEIINYVQSLQRQVEFLSMKLAAVN 175 (302)
Q Consensus 150 L~eaI~YIk~Lq~qvq~Le~~~~~~~ 175 (302)
+.++-+-|+.|.+.+..|||+++++.
T Consensus 68 V~kTh~aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 68 VSKTHEAIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 47777789999999999999999864
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=47.51 E-value=11 Score=33.76 Aligned_cols=44 Identities=27% Similarity=0.320 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCC--CCCCccchhHHHHHHHHHHHH
Q 022116 118 AERVRREKISERMKYLQDLVPGCN--KITGKAGMLDEIINYVQSLQR 162 (302)
Q Consensus 118 ~ERrRR~kIne~~~~L~~LVP~~~--K~~dKasIL~eaI~YIk~Lq~ 162 (302)
.||.|..++|+.+.-|+.|+|+.. ++ .+---|.-+-+||++|.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk-~~~ktlr~~~~~~~~~dE 74 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGK-RGKKTLRIGTDSIQSLDE 74 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCccc-ccccccccCCCchhhHHH
Confidence 688899999999999999999863 22 122225556666666644
No 24
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=31.03 E-value=17 Score=39.50 Aligned_cols=62 Identities=15% Similarity=0.194 Sum_probs=49.1
Q ss_pred cccccCcCCcHHHHHHHHHHHHHHHHHHhcCCCC----CCCCCccchhHHHHHHHHHHHHHHHHHHhhH
Q 022116 107 RRGQATDSHSLAERVRREKISERMKYLQDLVPGC----NKITGKAGMLDEIINYVQSLQRQVEFLSMKL 171 (302)
Q Consensus 107 rr~~a~~~H~~~ERrRR~kIne~~~~L~~LVP~~----~K~~dKasIL~eaI~YIk~Lq~qvq~Le~~~ 171 (302)
+.+.....|+-++||||..+-+++..|-.|.|.. .+++.+++||. +.++.+|+.-+.+.++.
T Consensus 783 ~n~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~ 848 (856)
T KOG3582|consen 783 FNGMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKI 848 (856)
T ss_pred ccceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhh
Confidence 3444456788999999999999999999999954 45568999999 88888888776665543
No 25
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.62 E-value=82 Score=24.94 Aligned_cols=24 Identities=25% Similarity=0.300 Sum_probs=20.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHhh
Q 022116 150 LDEIINYVQSLQRQVEFLSMKLAA 173 (302)
Q Consensus 150 L~eaI~YIk~Lq~qvq~Le~~~~~ 173 (302)
+..||+-|.-||..|++|.++...
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~ 36 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNS 36 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhH
Confidence 567999999999999999887754
No 26
>PF06005 DUF904: Protein of unknown function (DUF904); InterPro: IPR009252 Cell division protein ZapB is a non-essential, abundant cell division factor that is required for proper Z-ring formation. It is recruited early to the divisome by direct interaction with FtsZ, stimulating Z-ring assembly and thereby promoting cell division earlier in the cell cycle. Its recruitment to the Z-ring requires functional FtsA or ZipA.; GO: 0000917 barrier septum formation, 0043093 cytokinesis by binary fission, 0005737 cytoplasm; PDB: 2JEE_A.
Probab=26.51 E-value=99 Score=24.01 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=20.3
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHhh
Q 022116 150 LDEIINYVQSLQRQVEFLSMKLAA 173 (302)
Q Consensus 150 L~eaI~YIk~Lq~qvq~Le~~~~~ 173 (302)
+..||+-|..||.++++|+.++..
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~ 36 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNE 36 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 578999999999999999987544
No 27
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=26.05 E-value=95 Score=24.90 Aligned_cols=26 Identities=23% Similarity=0.312 Sum_probs=21.9
Q ss_pred hHHHHHHHHHHHHHHHHHHhhHhhcC
Q 022116 150 LDEIINYVQSLQRQVEFLSMKLAAVN 175 (302)
Q Consensus 150 L~eaI~YIk~Lq~qvq~Le~~~~~~~ 175 (302)
+..||+-|.-||.+|++|+++...+.
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~ 38 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLS 38 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899999999999999998766543
No 28
>PF00601 Flu_NS2: Influenza non-structural protein (NS2); InterPro: IPR000968 The Influenza A virus belongs to the class of ssRNA negative-strand viruses. Nonstructural protein 2 (NS2) may play a role in promoting normal replication of the genomic RNAs by preventing the replication of short-length RNA species []. NS1 and NS2 proteins are produced from the same gene by alternative splicing.; GO: 0006405 RNA export from nucleus, 0042025 host cell nucleus; PDB: 1PD3_B.
Probab=24.47 E-value=62 Score=26.63 Aligned_cols=53 Identities=26% Similarity=0.301 Sum_probs=31.9
Q ss_pred cCCcHHHHHH--HHHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHHHHHHHH
Q 022116 113 DSHSLAERVR--REKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQSLQRQVE 165 (302)
Q Consensus 113 ~~H~~~ERrR--R~kIne~~~~L~~LVP~~~K~~dKasIL~eaI~YIk~Lq~qvq 165 (302)
+-|...+|.+ |+.+..+|.+.+.+|-.+.-+.-..++.-+-|-+++.||--++
T Consensus 27 D~h~lq~rn~~wreqL~qkfe~IrwlI~e~r~~l~~tensf~qItfmqaLqlLlE 81 (94)
T PF00601_consen 27 DYHSLQSRNGKWREQLGQKFEEIRWLIEEHRHRLKITENSFEQITFMQALQLLLE 81 (94)
T ss_dssp ----------CHHHHHHHHHHHHHHHHHHHHHC----TTSHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence 6688888887 9999999999999998774333566677788888888877554
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=20.73 E-value=52 Score=29.15 Aligned_cols=35 Identities=26% Similarity=0.349 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhcCCCCCCCCCccchhHHHHHHHHH
Q 022116 124 EKISERMKYLQDLVPGCNKITGKAGMLDEIINYVQS 159 (302)
Q Consensus 124 ~kIne~~~~L~~LVP~~~K~~dKasIL~eaI~YIk~ 159 (302)
+-|-+||.+|+++||..... .-.+...-+..++|.
T Consensus 49 ETl~ERi~ALkDm~Pp~~R~-~i~~~~s~t~s~~ks 83 (145)
T TIGR00986 49 ETFTDRIYALKDIVPPTTRG-WIYHKYSTTTNFVKS 83 (145)
T ss_pred CcHHHHHHHHHhhCCHHHHH-HHHHHHHHHHHHHHH
Confidence 46788899999999976432 223333444444443
Done!