Query 009904
Match_columns 523
No_of_seqs 255 out of 875
Neff 3.4
Searched_HMMs 46136
Date Thu Mar 28 18:43:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/009904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/009904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1318 Helix loop helix trans 99.3 1.4E-12 3.1E-17 136.6 6.7 92 367-459 228-329 (411)
2 cd00083 HLH Helix-loop-helix d 99.3 1.4E-12 3.1E-17 99.8 4.9 54 372-426 4-60 (60)
3 smart00353 HLH helix loop heli 99.3 1.1E-11 2.3E-16 93.6 6.3 49 377-426 1-52 (53)
4 PF00010 HLH: Helix-loop-helix 99.2 1.2E-11 2.6E-16 94.9 5.1 49 374-422 3-55 (55)
5 KOG1319 bHLHZip transcription 99.0 3.9E-10 8.5E-15 108.7 4.3 66 374-439 64-135 (229)
6 KOG4304 Transcriptional repres 98.3 4.8E-07 1E-11 90.3 3.3 53 374-426 34-93 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.0 4.4E-06 9.5E-11 94.5 5.1 52 373-424 21-75 (803)
8 KOG2588 Predicted DNA-binding 97.8 2.1E-05 4.5E-10 89.9 4.8 64 371-434 275-338 (953)
9 KOG2483 Upstream transcription 97.7 5.4E-05 1.2E-09 75.3 6.5 60 372-431 59-120 (232)
10 KOG3960 Myogenic helix-loop-he 97.3 0.00041 9E-09 70.1 6.0 58 376-433 122-180 (284)
11 PLN03217 transcription factor 97.3 0.00056 1.2E-08 59.5 5.7 53 383-436 18-76 (93)
12 KOG0561 bHLH transcription fac 97.2 0.00014 3.1E-09 75.0 2.2 50 375-425 63-114 (373)
13 KOG4029 Transcription factor H 96.7 0.0015 3.3E-08 63.7 4.0 58 375-432 112-172 (228)
14 KOG3910 Helix loop helix trans 95.7 0.012 2.6E-07 64.4 5.0 55 375-429 529-586 (632)
15 KOG4447 Transcription factor T 88.1 0.28 6.1E-06 47.2 1.8 49 374-423 80-130 (173)
16 KOG3558 Hypoxia-inducible fact 79.8 1.1 2.4E-05 51.4 2.2 45 375-420 49-97 (768)
17 KOG3560 Aryl-hydrocarbon recep 73.4 2.8 6E-05 47.3 3.1 40 380-420 33-76 (712)
18 KOG3559 Transcriptional regula 59.9 7.4 0.00016 42.9 2.9 43 378-421 7-53 (598)
19 KOG3898 Transcription factor N 57.8 9.2 0.0002 38.9 3.0 47 376-423 76-125 (254)
20 KOG3582 Mlx interactors and re 48.9 7.2 0.00016 45.2 0.8 59 373-431 652-714 (856)
21 KOG4395 Transcription factor A 47.3 18 0.0004 37.6 3.3 52 376-427 178-231 (285)
22 PF13334 DUF4094: Domain of un 32.2 77 0.0017 28.1 4.4 26 411-436 68-93 (95)
23 PF09849 DUF2076: Uncharacteri 29.9 2.2E+02 0.0047 29.4 7.7 60 366-435 15-74 (247)
24 KOG4447 Transcription factor T 28.7 47 0.001 32.5 2.6 43 379-422 29-73 (173)
25 COG3074 Uncharacterized protei 28.6 74 0.0016 27.6 3.5 27 411-437 13-39 (79)
26 PHA03386 P10 fibrous body prot 24.1 82 0.0018 28.4 3.1 26 406-431 2-27 (94)
27 KOG3582 Mlx interactors and re 23.1 29 0.00062 40.6 0.2 58 373-433 788-849 (856)
28 PRK15422 septal ring assembly 22.6 93 0.002 27.3 3.1 29 410-438 12-40 (79)
29 PF06005 DUF904: Protein of un 22.1 1.2E+02 0.0026 25.7 3.6 25 411-435 13-37 (72)
No 1
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.33 E-value=1.4e-12 Score=136.60 Aligned_cols=92 Identities=30% Similarity=0.472 Sum_probs=74.3
Q ss_pred cccccccccccHHHHHHHHHHHHHHHHHhhcCCCCC----CCCCchhhHHHHHHHHHHHHHHHHH------HHhhHhhcC
Q 009904 367 ARRGQATNSHSLAERVRREKISERMKFLQDLVPGCS----KVTGKAVMLDEIINYVQSLQRQVEF------LSMKLATVN 436 (523)
Q Consensus 367 arR~qa~~~HslaERrRRerINer~k~LqsLVP~~~----K~tDKASILdeAIdYIK~LQ~QVq~------Le~kl~~vn 436 (523)
.|.+++++.|+++|||||++||++|++|..|||.|+ ++ +|++||..+++||+.||+..+. +++++++.|
T Consensus 228 ~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~-nKgtILk~s~dYIr~Lqq~~q~~~E~~~rqk~le~~n 306 (411)
T KOG1318|consen 228 ERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKS-NKGTILKASCDYIRELQQTLQRARELENRQKKLESTN 306 (411)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhc-ccchhhHHHHHHHHHHHHHHHHHHHHHhhhhHHHhHH
Confidence 444556679999999999999999999999999994 44 7999999999999999876552 334566777
Q ss_pred CCccchhhHHhHHHhhhcCCCCC
Q 009904 437 PRLDFNIEELLAKDVLQSRAGPS 459 (523)
Q Consensus 437 p~l~~~ie~L~~~d~~q~~~~p~ 459 (523)
..|-..|++|......+.....+
T Consensus 307 ~~L~~rieeLk~~~~~~~~~~~~ 329 (411)
T KOG1318|consen 307 QELALRIEELKSEAGRHGLQVEP 329 (411)
T ss_pred HHHHHHHHHHHHHHHHhcCcccc
Confidence 77877888888887777765543
No 2
>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=99.33 E-value=1.4e-12 Score=99.76 Aligned_cols=54 Identities=35% Similarity=0.600 Sum_probs=49.0
Q ss_pred ccccccHHHHHHHHHHHHHHHHHhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHH
Q 009904 372 ATNSHSLAERVRREKISERMKFLQDLVPGC---SKVTGKAVMLDEIINYVQSLQRQVE 426 (523)
Q Consensus 372 a~~~HslaERrRRerINer~k~LqsLVP~~---~K~tDKASILdeAIdYIK~LQ~QVq 426 (523)
....|+..||+||++||+.|..|+++||.+ .+ .+|++||+.||+||+.|+.+++
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 345799999999999999999999999998 45 4999999999999999998863
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.26 E-value=1.1e-11 Score=93.60 Aligned_cols=49 Identities=39% Similarity=0.576 Sum_probs=44.6
Q ss_pred cHHHHHHHHHHHHHHHHHhhcCCC---CCCCCCchhhHHHHHHHHHHHHHHHH
Q 009904 377 SLAERVRREKISERMKFLQDLVPG---CSKVTGKAVMLDEIINYVQSLQRQVE 426 (523)
Q Consensus 377 slaERrRRerINer~k~LqsLVP~---~~K~tDKASILdeAIdYIK~LQ~QVq 426 (523)
+..||+||++||+.|..|+.|||. ..+. +|++||+.||+||+.|+.+++
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 899999999999999999886
No 4
>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=99.23 E-value=1.2e-11 Score=94.94 Aligned_cols=49 Identities=37% Similarity=0.699 Sum_probs=44.7
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHHHHH
Q 009904 374 NSHSLAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQSLQ 422 (523)
Q Consensus 374 ~~HslaERrRRerINer~k~LqsLVP~~----~K~tDKASILdeAIdYIK~LQ 422 (523)
..|+..||+||++||+.|..|+.|||.+ ....+|++||+.||+||+.||
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 3699999999999999999999999987 233599999999999999997
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=98.97 E-value=3.9e-10 Score=108.68 Aligned_cols=66 Identities=30% Similarity=0.512 Sum_probs=59.2
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCCCCC------CCchhhHHHHHHHHHHHHHHHHHHHhhHhhcCCCc
Q 009904 374 NSHSLAERVRREKISERMKFLQDLVPGCSKV------TGKAVMLDEIINYVQSLQRQVEFLSMKLATVNPRL 439 (523)
Q Consensus 374 ~~HslaERrRRerINer~k~LqsLVP~~~K~------tDKASILdeAIdYIK~LQ~QVq~Le~kl~~vnp~l 439 (523)
..|..+||+||+.|+..+..|++|||.|... +.||.||..+|+||.+|..++.+.++++.+++.++
T Consensus 64 ~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v 135 (229)
T KOG1319|consen 64 RAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV 135 (229)
T ss_pred HHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3699999999999999999999999987431 37999999999999999999999999998888764
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.27 E-value=4.8e-07 Score=90.28 Aligned_cols=53 Identities=32% Similarity=0.448 Sum_probs=46.0
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCCCCC-------CCchhhHHHHHHHHHHHHHHHH
Q 009904 374 NSHSLAERVRREKISERMKFLQDLVPGCSKV-------TGKAVMLDEIINYVQSLQRQVE 426 (523)
Q Consensus 374 ~~HslaERrRRerINer~k~LqsLVP~~~K~-------tDKASILdeAIdYIK~LQ~QVq 426 (523)
..|-+.|||||.|||+-+.+|++|||.+.++ .+||.||+-|++|++.||.+.+
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 4689999999999999999999999965332 2799999999999999986543
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.03 E-value=4.4e-06 Score=94.47 Aligned_cols=52 Identities=19% Similarity=0.371 Sum_probs=47.5
Q ss_pred cccccHHHHHHHHHHHHHHHHHhhcCCCCC---CCCCchhhHHHHHHHHHHHHHH
Q 009904 373 TNSHSLAERVRREKISERMKFLQDLVPGCS---KVTGKAVMLDEIINYVQSLQRQ 424 (523)
Q Consensus 373 ~~~HslaERrRRerINer~k~LqsLVP~~~---K~tDKASILdeAIdYIK~LQ~Q 424 (523)
...|+.+|||||+++|..|++|.+|||.|. .+.||-+||.+||+.||.++.+
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 458999999999999999999999999996 3349999999999999999875
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=97.78 E-value=2.1e-05 Score=89.89 Aligned_cols=64 Identities=28% Similarity=0.485 Sum_probs=54.6
Q ss_pred cccccccHHHHHHHHHHHHHHHHHhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHhhHhh
Q 009904 371 QATNSHSLAERVRREKISERMKFLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLAT 434 (523)
Q Consensus 371 qa~~~HslaERrRRerINer~k~LqsLVP~~~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl~~ 434 (523)
..+.+|+++|+|-|..||++|.+|++|||+..-+..|..+|..||+||++||..-+.+....+.
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~ 338 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENAS 338 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhh
Confidence 4467899999999999999999999999988644489999999999999999877666554443
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.75 E-value=5.4e-05 Score=75.31 Aligned_cols=60 Identities=25% Similarity=0.340 Sum_probs=48.6
Q ss_pred ccccccHHHHHHHHHHHHHHHHHhhcCCCCCCCCC--chhhHHHHHHHHHHHHHHHHHHHhh
Q 009904 372 ATNSHSLAERVRREKISERMKFLQDLVPGCSKVTG--KAVMLDEIINYVQSLQRQVEFLSMK 431 (523)
Q Consensus 372 a~~~HslaERrRRerINer~k~LqsLVP~~~K~tD--KASILdeAIdYIK~LQ~QVq~Le~k 431 (523)
++..|+.-||+||..|.+.|..|+++||....-+. .++||+.|++||+.|+.+....+..
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 34589999999999999999999999996643222 5899999999999998665544433
No 10
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.29 E-value=0.00041 Score=70.13 Aligned_cols=58 Identities=21% Similarity=0.254 Sum_probs=48.7
Q ss_pred ccHHHHHHHHHHHHHHHHHhh-cCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHhhHh
Q 009904 376 HSLAERVRREKISERMKFLQD-LVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLA 433 (523)
Q Consensus 376 HslaERrRRerINer~k~Lqs-LVP~~~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl~ 433 (523)
-.+.||||=.|+||.|.+|++ -+++-+...-|.-||..||+||..||.-++.+.....
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 468999999999999999965 4566666558999999999999999998888765433
No 11
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.26 E-value=0.00056 Score=59.54 Aligned_cols=53 Identities=32% Similarity=0.514 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHhhcCCCC------CCCCCchhhHHHHHHHHHHHHHHHHHHHhhHhhcC
Q 009904 383 RREKISERMKFLQDLVPGC------SKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATVN 436 (523)
Q Consensus 383 RRerINer~k~LqsLVP~~------~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl~~vn 436 (523)
--+.|+|-+..||.|+|.. .++ .-+-+|+|+..||+.|+++|..|++.+..+-
T Consensus 18 sddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~LL 76 (93)
T PLN03217 18 SEDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSELL 76 (93)
T ss_pred CHHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3578999999999999953 333 5677999999999999999999999987653
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.25 E-value=0.00014 Score=75.04 Aligned_cols=50 Identities=26% Similarity=0.426 Sum_probs=44.6
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCC--CCCCCchhhHHHHHHHHHHHHHHH
Q 009904 375 SHSLAERVRREKISERMKFLQDLVPGC--SKVTGKAVMLDEIINYVQSLQRQV 425 (523)
Q Consensus 375 ~HslaERrRRerINer~k~LqsLVP~~--~K~tDKASILdeAIdYIK~LQ~QV 425 (523)
.-+..||||=.-||-.|..|+.|+|.- .|+ .||.||+.+.+||..|+.+.
T Consensus 63 IANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~K 114 (373)
T KOG0561|consen 63 IANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGHK 114 (373)
T ss_pred hhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhcc
Confidence 468899999999999999999999964 676 89999999999999997543
No 13
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=96.70 E-value=0.0015 Score=63.67 Aligned_cols=58 Identities=22% Similarity=0.277 Sum_probs=49.0
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCC---CCCCCchhhHHHHHHHHHHHHHHHHHHHhhH
Q 009904 375 SHSLAERVRREKISERMKFLQDLVPGC---SKVTGKAVMLDEIINYVQSLQRQVEFLSMKL 432 (523)
Q Consensus 375 ~HslaERrRRerINer~k~LqsLVP~~---~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl 432 (523)
.++..||.|=+.+|..|..||.+||.- +|+..|..+|..||.||++|+.-++.-+..+
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 466779999999999999999999942 3444999999999999999998887766544
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=95.75 E-value=0.012 Score=64.44 Aligned_cols=55 Identities=25% Similarity=0.306 Sum_probs=46.2
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCC---CCCCCCCchhhHHHHHHHHHHHHHHHHHHH
Q 009904 375 SHSLAERVRREKISERMKFLQDLVP---GCSKVTGKAVMLDEIINYVQSLQRQVEFLS 429 (523)
Q Consensus 375 ~HslaERrRRerINer~k~LqsLVP---~~~K~tDKASILdeAIdYIK~LQ~QVq~Le 429 (523)
..+..||-|=..|||.||+|.++.- ...|.--|--||..||.-|-.|++||++-.
T Consensus 529 aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 529 ANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred hhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 5889999999999999999999874 233322488999999999999999998743
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=88.07 E-value=0.28 Score=47.15 Aligned_cols=49 Identities=22% Similarity=0.360 Sum_probs=42.0
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhcCCCC--CCCCCchhhHHHHHHHHHHHHH
Q 009904 374 NSHSLAERVRREKISERMKFLQDLVPGC--SKVTGKAVMLDEIINYVQSLQR 423 (523)
Q Consensus 374 ~~HslaERrRRerINer~k~LqsLVP~~--~K~tDKASILdeAIdYIK~LQ~ 423 (523)
-.|++.||+|-..+|+.|..||.++|.. +|. .|.--|.-|-.||-+|=+
T Consensus 80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhh
Confidence 4799999999999999999999999964 565 777888888888888743
No 16
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=79.83 E-value=1.1 Score=51.41 Aligned_cols=45 Identities=31% Similarity=0.352 Sum_probs=37.9
Q ss_pred cccHHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHHH
Q 009904 375 SHSLAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQS 420 (523)
Q Consensus 375 ~HslaERrRRerINer~k~LqsLVP~~----~K~tDKASILdeAIdYIK~ 420 (523)
.-.-|.|.||.|=|+-|.+|..++|-- ..+ |||+|+.-||-|+|-
T Consensus 49 kSRdAARsRRsKEn~~FyeLa~~lPlp~aisshL-DkaSimRLtISyLRl 97 (768)
T KOG3558|consen 49 KSRDAARSRRSKENEEFYELAKLLPLPAAISSHL-DKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhcccchHHHHHHHHhCCCcchhhhhh-hhHHHHHHHHHHHHH
Confidence 344578999999999999999999933 344 999999999999873
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=73.40 E-value=2.8 Score=47.31 Aligned_cols=40 Identities=23% Similarity=0.446 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCC----CCCCCCchhhHHHHHHHHHH
Q 009904 380 ERVRREKISERMKFLQDLVPG----CSKVTGKAVMLDEIINYVQS 420 (523)
Q Consensus 380 ERrRRerINer~k~LqsLVP~----~~K~tDKASILdeAIdYIK~ 420 (523)
-+|-|+|+|--+..|-.|+|= .+|+ ||-+||.-+|-|++.
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHHH
Confidence 356899999999999999994 4777 999999999999874
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=59.92 E-value=7.4 Score=42.88 Aligned_cols=43 Identities=30% Similarity=0.352 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHHHH
Q 009904 378 LAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQSL 421 (523)
Q Consensus 378 laERrRRerINer~k~LqsLVP~~----~K~tDKASILdeAIdYIK~L 421 (523)
-+.|.||++=|-.|.+|-.|+|-. ..+ ||++|+.-+.-|||--
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 356889999999999999999954 334 9999999999999853
No 19
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=57.76 E-value=9.2 Score=38.88 Aligned_cols=47 Identities=23% Similarity=0.417 Sum_probs=40.0
Q ss_pred ccHHHHHHHHHHHHHHHHHhhcCCC---CCCCCCchhhHHHHHHHHHHHHH
Q 009904 376 HSLAERVRREKISERMKFLQDLVPG---CSKVTGKAVMLDEIINYVQSLQR 423 (523)
Q Consensus 376 HslaERrRRerINer~k~LqsLVP~---~~K~tDKASILdeAIdYIK~LQ~ 423 (523)
-+..||+|=-.+|+-|..||.+||. ..|+ .|.-.|.-|-+||..|+.
T Consensus 76 aNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 76 ANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSE 125 (254)
T ss_pred ccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhcc
Confidence 4678999999999999999999993 3555 688889999999998874
No 20
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=48.89 E-value=7.2 Score=45.20 Aligned_cols=59 Identities=20% Similarity=0.275 Sum_probs=47.2
Q ss_pred cccccHHHHHHHHHHHHHHHHHhhcCCCCCCCC----CchhhHHHHHHHHHHHHHHHHHHHhh
Q 009904 373 TNSHSLAERVRREKISERMKFLQDLVPGCSKVT----GKAVMLDEIINYVQSLQRQVEFLSMK 431 (523)
Q Consensus 373 ~~~HslaERrRRerINer~k~LqsLVP~~~K~t----DKASILdeAIdYIK~LQ~QVq~Le~k 431 (523)
...|+-+|.+||+.|.-.+..|-+++-+...+. -+++-|..+++||..+|.+...+.++
T Consensus 652 ~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e 714 (856)
T KOG3582|consen 652 PITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEE 714 (856)
T ss_pred cccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchh
Confidence 357999999999999999999999998664432 45666999999999998766555544
No 21
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=47.27 E-value=18 Score=37.58 Aligned_cols=52 Identities=21% Similarity=0.247 Sum_probs=42.1
Q ss_pred ccHHHHHHHHHHHHHHHHHhhcCCCCC--CCCCchhhHHHHHHHHHHHHHHHHH
Q 009904 376 HSLAERVRREKISERMKFLQDLVPGCS--KVTGKAVMLDEIINYVQSLQRQVEF 427 (523)
Q Consensus 376 HslaERrRRerINer~k~LqsLVP~~~--K~tDKASILdeAIdYIK~LQ~QVq~ 427 (523)
-+..||+|=..+|..|..|+..||..+ +...|--.|..|-.||-.|-..+..
T Consensus 178 anarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~~ 231 (285)
T KOG4395|consen 178 ANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLDL 231 (285)
T ss_pred cchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhcC
Confidence 678899999999999999999999653 2236778899999999888665543
No 22
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=32.23 E-value=77 Score=28.10 Aligned_cols=26 Identities=27% Similarity=0.419 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHhhcC
Q 009904 411 LDEIINYVQSLQRQVEFLSMKLATVN 436 (523)
Q Consensus 411 LdeAIdYIK~LQ~QVq~Le~kl~~vn 436 (523)
+.++-+-|+.|.+.|-.|||+|++..
T Consensus 68 V~kTh~aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 68 VSKTHEAIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 46777778999999999999998754
No 23
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=29.93 E-value=2.2e+02 Score=29.38 Aligned_cols=60 Identities=13% Similarity=0.190 Sum_probs=36.7
Q ss_pred ccccccccccccHHHHHHHHHHHHHHHHHhhcCCCCCCCCCchhhHHHHHHHHHHHHHHHHHHHhhHhhc
Q 009904 366 RARRGQATNSHSLAERVRREKISERMKFLQDLVPGCSKVTGKAVMLDEIINYVQSLQRQVEFLSMKLATV 435 (523)
Q Consensus 366 RarR~qa~~~HslaERrRRerINer~k~LqsLVP~~~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl~~v 435 (523)
|-|.-+.......+|+.-++.|.+.-.+.--|+ =.+.|++.| ||.|+.||++||.++.+.
T Consensus 15 RL~~ae~~prD~eAe~lI~~~~~~qP~A~Y~la-------Q~vlvQE~A---L~~a~~ri~eLe~ql~q~ 74 (247)
T PF09849_consen 15 RLKQAEAQPRDPEAEALIAQALARQPDAPYYLA-------QTVLVQEQA---LKQAQARIQELEAQLQQA 74 (247)
T ss_pred HHHhccCCCCCHHHHHHHHHHHHhCCchHHHHH-------HHHHHHHHH---HHHHHHHHHHHHHHHHhh
Confidence 334434444566677777777766544433332 244555555 578899999999988653
No 24
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=28.72 E-value=47 Score=32.49 Aligned_cols=43 Identities=28% Similarity=0.353 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCC--CCCchhhHHHHHHHHHHHH
Q 009904 379 AERVRREKISERMKFLQDLVPGCSK--VTGKAVMLDEIINYVQSLQ 422 (523)
Q Consensus 379 aERrRRerINer~k~LqsLVP~~~K--~tDKASILdeAIdYIK~LQ 422 (523)
.||.|..++++.+..|+.|+|+... + .+---|.-+-+||++|.
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk-~~~ktlr~~~~~~~~~d 73 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGK-RGKKTLRIGTDSIQSLD 73 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCccc-ccccccccCCCchhhHH
Confidence 5778999999999999999998632 2 11122555666666664
No 25
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.58 E-value=74 Score=27.61 Aligned_cols=27 Identities=22% Similarity=0.303 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHhhcCC
Q 009904 411 LDEIINYVQSLQRQVEFLSMKLATVNP 437 (523)
Q Consensus 411 LdeAIdYIK~LQ~QVq~Le~kl~~vnp 437 (523)
+..||+-|.-||.+|++|.++...+..
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~ 39 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQ 39 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHH
Confidence 577999999999999999988765543
No 26
>PHA03386 P10 fibrous body protein; Provisional
Probab=24.15 E-value=82 Score=28.42 Aligned_cols=26 Identities=27% Similarity=0.465 Sum_probs=16.4
Q ss_pred CchhhHHHHHHHHHHHHHHHHHHHhh
Q 009904 406 GKAVMLDEIINYVQSLQRQVEFLSMK 431 (523)
Q Consensus 406 DKASILdeAIdYIK~LQ~QVq~Le~k 431 (523)
.|.+||-.+..-|+.+-.+|-.|+.+
T Consensus 2 SKpnILl~Ir~dIkavd~KVdaLQ~q 27 (94)
T PHA03386 2 SKPSVLTQILDAVQEVDTKVDALQTQ 27 (94)
T ss_pred CcchHHHHHHHHHHHHhhHHHHHHHH
Confidence 57788888888787744444444433
No 27
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=23.14 E-value=29 Score=40.59 Aligned_cols=58 Identities=14% Similarity=0.169 Sum_probs=48.0
Q ss_pred cccccHHHHHHHHHHHHHHHHHhhcCCCC----CCCCCchhhHHHHHHHHHHHHHHHHHHHhhHh
Q 009904 373 TNSHSLAERVRREKISERMKFLQDLVPGC----SKVTGKAVMLDEIINYVQSLQRQVEFLSMKLA 433 (523)
Q Consensus 373 ~~~HslaERrRRerINer~k~LqsLVP~~----~K~tDKASILdeAIdYIK~LQ~QVq~Le~kl~ 433 (523)
...|+-++||||-.+-+++..|-.|.|.. .+++.+++||. +-|+.+|+.-+.+.++..
T Consensus 788 ~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~ 849 (856)
T KOG3582|consen 788 SAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIE 849 (856)
T ss_pred ecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhh
Confidence 34788899999999999999999999954 45568999998 888999888777766543
No 28
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=22.64 E-value=93 Score=27.30 Aligned_cols=29 Identities=21% Similarity=0.271 Sum_probs=24.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhHhhcCCC
Q 009904 410 MLDEIINYVQSLQRQVEFLSMKLATVNPR 438 (523)
Q Consensus 410 ILdeAIdYIK~LQ~QVq~Le~kl~~vnp~ 438 (523)
-+..|||-|.-||.+|++|+++...+...
T Consensus 12 KIqqAvdtI~LLqmEieELKekn~~L~~e 40 (79)
T PRK15422 12 KVQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999987766553
No 29
>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=22.12 E-value=1.2e+02 Score=25.67 Aligned_cols=25 Identities=20% Similarity=0.207 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhhHhhc
Q 009904 411 LDEIINYVQSLQRQVEFLSMKLATV 435 (523)
Q Consensus 411 LdeAIdYIK~LQ~QVq~Le~kl~~v 435 (523)
+..||+-|..||.+++.|+.+...+
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~L 37 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNEL 37 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 5779999999999999999875544
Done!