Query 024231
Match_columns 270
No_of_seqs 164 out of 743
Neff 3.8
Searched_HMMs 46136
Date Fri Mar 29 03:02:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024231.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024231hhsearch_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 2.2E-13 4.7E-18 96.3 4.8 54 185-238 5-60 (60)
2 smart00353 HLH helix loop heli 99.4 1.8E-12 3.8E-17 90.3 6.7 50 189-238 1-52 (53)
3 KOG1318 Helix loop helix trans 99.4 9.4E-13 2E-17 127.9 7.1 71 176-246 225-298 (411)
4 PF00010 HLH: Helix-loop-helix 99.3 1.6E-12 3.5E-17 92.0 5.6 48 187-234 4-55 (55)
5 KOG1319 bHLHZip transcription 99.1 5.5E-11 1.2E-15 106.5 5.1 63 176-241 57-125 (229)
6 KOG4304 Transcriptional repres 98.5 3.6E-08 7.9E-13 90.7 2.3 53 187-239 35-94 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.4 5.5E-07 1.2E-11 94.1 7.3 53 185-237 21-76 (803)
8 KOG2588 Predicted DNA-binding 98.3 3.2E-07 7E-12 96.7 3.3 61 182-242 274-334 (953)
9 KOG2483 Upstream transcription 97.8 8.9E-05 1.9E-09 68.1 7.7 56 185-240 60-117 (232)
10 KOG3960 Myogenic helix-loop-he 97.5 0.00025 5.4E-09 66.4 6.6 58 188-245 122-180 (284)
11 KOG4029 Transcription factor H 97.4 0.00014 3E-09 65.1 3.8 57 187-243 112-171 (228)
12 PLN03217 transcription factor 97.2 0.00095 2.1E-08 53.7 5.7 48 195-242 18-70 (93)
13 KOG0561 bHLH transcription fac 97.1 0.00049 1.1E-08 66.1 3.8 51 189-239 65-116 (373)
14 KOG3910 Helix loop helix trans 93.0 0.078 1.7E-06 54.2 3.1 55 187-241 529-586 (632)
15 KOG4447 Transcription factor T 90.8 0.12 2.7E-06 45.7 1.5 49 187-236 81-131 (173)
16 KOG3558 Hypoxia-inducible fact 88.9 0.31 6.7E-06 51.5 2.9 42 190-231 52-96 (768)
17 KOG3560 Aryl-hydrocarbon recep 83.4 1 2.3E-05 46.8 3.3 40 192-232 33-76 (712)
18 KOG3559 Transcriptional regula 80.9 1.7 3.7E-05 44.1 3.7 43 190-232 7-52 (598)
19 KOG3898 Transcription factor N 60.0 5.6 0.00012 37.0 1.8 47 189-235 77-125 (254)
20 KOG4395 Transcription factor A 59.1 14 0.00031 35.3 4.3 50 188-237 178-229 (285)
21 TIGR00986 3a0801s05tom22 mitoc 36.8 23 0.0005 31.1 1.8 36 197-233 49-84 (145)
22 PRK13702 replication protein; 35.5 86 0.0019 25.4 4.7 43 186-228 22-76 (85)
23 PF05164 ZapA: Cell division p 34.6 1.1E+02 0.0023 22.8 5.0 47 193-242 24-70 (89)
24 KOG4447 Transcription factor T 30.4 40 0.00086 30.3 2.3 44 191-234 29-73 (173)
25 PF04281 Tom22: Mitochondrial 28.6 39 0.00084 29.2 1.9 36 197-233 51-86 (137)
26 KOG3582 Mlx interactors and re 26.9 18 0.00038 39.1 -0.6 54 187-240 654-711 (856)
27 PHA00370 III attachment protei 25.2 1.6E+02 0.0035 28.5 5.5 27 92-118 224-252 (297)
28 PF14689 SPOB_a: Sensor_kinase 23.3 1.9E+02 0.0041 21.1 4.5 43 193-243 17-59 (62)
29 PRK14126 cell division protein 20.1 2.2E+02 0.0047 22.3 4.5 48 194-244 31-78 (85)
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=2.2e-13 Score=96.27 Aligned_cols=54 Identities=35% Similarity=0.660 Sum_probs=49.0
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHhcccCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 024231 185 THPRSIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE 238 (270)
Q Consensus 185 t~~HsiaERrRRerIneri~~Lr~LVP~~--~Kq~DKAsIL~eAIdYIK~LQ~QVk 238 (270)
+..|+.+||+||++||+.|..|+.+||.. ..++||++||..||+||++|+.+++
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 34699999999999999999999999999 3459999999999999999998863
No 2
>smart00353 HLH helix loop helix domain.
Probab=99.36 E-value=1.8e-12 Score=90.31 Aligned_cols=50 Identities=34% Similarity=0.664 Sum_probs=45.0
Q ss_pred cHHHHHHHHHHHHHHHHHhcccCCC--CCCCChhhHHHHHHHHHHHHHHHHH
Q 024231 189 SIAERVRRTRISDRIRKLQDLVPNM--DKQTNTADMLEEAVEYVKFLQKQIE 238 (270)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~--~Kq~DKAsIL~eAIdYIK~LQ~QVk 238 (270)
+.+||+||++||+.|..|+.+||.+ ..+++|++||..||+||+.|+.+++
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 2338999999999999999999886
No 3
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.36 E-value=9.4e-13 Score=127.94 Aligned_cols=71 Identities=27% Similarity=0.469 Sum_probs=60.6
Q ss_pred cccccccCCCCCCcHHHHHHHHHHHHHHHHHhcccCCCCC---CCChhhHHHHHHHHHHHHHHHHHHHHhccCC
Q 024231 176 RVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK---QTNTADMLEEAVEYVKFLQKQIEVLHFLENS 246 (270)
Q Consensus 176 k~rakRg~at~~HsiaERrRRerIneri~~Lr~LVP~~~K---q~DKAsIL~eAIdYIK~LQ~QVk~Le~l~~~ 246 (270)
....|.+++++.|+++|||||++||++|++|..|||.|.. +++|.+||..+++||+.||+..++...+++.
T Consensus 225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q~~~E~~~r 298 (411)
T KOG1318|consen 225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQRARELENR 298 (411)
T ss_pred chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3445666667889999999999999999999999999953 3799999999999999999988877666554
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=99.34 E-value=1.6e-12 Score=92.03 Aligned_cols=48 Identities=35% Similarity=0.639 Sum_probs=44.7
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCCC----CCCCChhhHHHHHHHHHHHHH
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPNM----DKQTNTADMLEEAVEYVKFLQ 234 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~----~Kq~DKAsIL~eAIdYIK~LQ 234 (270)
.|+..||+||++||+.|..|+.+||.+ ..+++|++||+.||+||++||
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 499999999999999999999999997 234999999999999999997
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.13 E-value=5.5e-11 Score=106.47 Aligned_cols=63 Identities=29% Similarity=0.476 Sum_probs=52.6
Q ss_pred cccccccCCCCCCcHHHHHHHHHHHHHHHHHhcccCCCCC------CCChhhHHHHHHHHHHHHHHHHHHHH
Q 024231 176 RVRAKRGCATHPRSIAERVRRTRISDRIRKLQDLVPNMDK------QTNTADMLEEAVEYVKFLQKQIEVLH 241 (270)
Q Consensus 176 k~rakRg~at~~HsiaERrRRerIneri~~Lr~LVP~~~K------q~DKAsIL~eAIdYIK~LQ~QVk~Le 241 (270)
.++.||+++ |..+||+||+.||..+..|++|||.|.. ++.||.||..+|+||.+|++++.+-+
T Consensus 57 syk~rrr~a---HtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe 125 (229)
T KOG1319|consen 57 SYKDRRRRA---HTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQE 125 (229)
T ss_pred hHHHHHHHH---HHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555544 9999999999999999999999998764 26799999999999999987765544
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.53 E-value=3.6e-08 Score=90.68 Aligned_cols=53 Identities=32% Similarity=0.524 Sum_probs=46.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCCCCC-------CCChhhHHHHHHHHHHHHHHHHHH
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPNMDK-------QTNTADMLEEAVEYVKFLQKQIEV 239 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~~K-------q~DKAsIL~eAIdYIK~LQ~QVk~ 239 (270)
.|-+.|||||+|||+-+.+|++|||.+.+ +++||.||+-||+|+|.||...+.
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 46799999999999999999999996543 378999999999999999876543
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.40 E-value=5.5e-07 Score=94.12 Aligned_cols=53 Identities=25% Similarity=0.454 Sum_probs=48.8
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHhcccCCCC---CCCChhhHHHHHHHHHHHHHHHH
Q 024231 185 THPRSIAERVRRTRISDRIRKLQDLVPNMD---KQTNTADMLEEAVEYVKFLQKQI 237 (270)
Q Consensus 185 t~~HsiaERrRRerIneri~~Lr~LVP~~~---Kq~DKAsIL~eAIdYIK~LQ~QV 237 (270)
+.+|+.+|||||+++|.-|.+|-+|||.+. .|+||.+||..||++||.++.+-
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~~ 76 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQE 76 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhhh
Confidence 467999999999999999999999999998 56999999999999999888753
No 8
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.31 E-value=3.2e-07 Score=96.72 Aligned_cols=61 Identities=31% Similarity=0.515 Sum_probs=55.2
Q ss_pred cCCCCCCcHHHHHHHHHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHh
Q 024231 182 GCATHPRSIAERVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHF 242 (270)
Q Consensus 182 g~at~~HsiaERrRRerIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~ 242 (270)
+.++.+||++|||.|-.|||||.+|+++||+..-++.|+.+|..||+||++|+...+.+..
T Consensus 274 ~~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~ 334 (953)
T KOG2588|consen 274 GEKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKL 334 (953)
T ss_pred CcccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccch
Confidence 3557899999999999999999999999999987799999999999999999887776653
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=97.76 E-value=8.9e-05 Score=68.10 Aligned_cols=56 Identities=25% Similarity=0.418 Sum_probs=46.6
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHhcccCCCCCCC--ChhhHHHHHHHHHHHHHHHHHHH
Q 024231 185 THPRSIAERVRRTRISDRIRKLQDLVPNMDKQT--NTADMLEEAVEYVKFLQKQIEVL 240 (270)
Q Consensus 185 t~~HsiaERrRRerIneri~~Lr~LVP~~~Kq~--DKAsIL~eAIdYIK~LQ~QVk~L 240 (270)
+..|+.-||+||..|.+.|..|+.+||...... +.++||+.|+.||+.|+.+....
T Consensus 60 R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~ 117 (232)
T KOG2483|consen 60 RAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQ 117 (232)
T ss_pred hhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHH
Confidence 346899999999999999999999999876422 26999999999999997655443
No 10
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.48 E-value=0.00025 Score=66.42 Aligned_cols=58 Identities=19% Similarity=0.353 Sum_probs=50.2
Q ss_pred CcHHHHHHHHHHHHHHHHHhc-ccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHhccC
Q 024231 188 RSIAERVRRTRISDRIRKLQD-LVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFLEN 245 (270)
Q Consensus 188 HsiaERrRRerIneri~~Lr~-LVP~~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~l~~ 245 (270)
-.+.||||-.|||+-|.+|+. -+++-+.++-|..||..||+||..||.-++++..++-
T Consensus 122 ATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~ 180 (284)
T KOG3960|consen 122 ATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEK 180 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccch
Confidence 467899999999999999964 5677777799999999999999999998888876554
No 11
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.41 E-value=0.00014 Score=65.15 Aligned_cols=57 Identities=23% Similarity=0.405 Sum_probs=49.3
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCCC---CCCCChhhHHHHHHHHHHHHHHHHHHHHhc
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPNM---DKQTNTADMLEEAVEYVKFLQKQIEVLHFL 243 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~---~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~l 243 (270)
.++..||.|=..||..|..||.+||.. +|++.|..+|..||.||++|+.-++.-+.-
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~ 171 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAP 171 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccC
Confidence 467779999999999999999999953 566999999999999999999877665543
No 12
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.16 E-value=0.00095 Score=53.72 Aligned_cols=48 Identities=27% Similarity=0.544 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHhcccCCCCC-----CCChhhHHHHHHHHHHHHHHHHHHHHh
Q 024231 195 RRTRISDRIRKLQDLVPNMDK-----QTNTADMLEEAVEYVKFLQKQIEVLHF 242 (270)
Q Consensus 195 RRerIneri~~Lr~LVP~~~K-----q~DKAsIL~eAIdYIK~LQ~QVk~Le~ 242 (270)
--+.|+|-+..||.|+|.... +...+-||.|+..||+.|+.+|..|..
T Consensus 18 sddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSe 70 (93)
T PLN03217 18 SEDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSE 70 (93)
T ss_pred CHHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 347899999999999996432 257888999999999999999999974
No 13
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.07 E-value=0.00049 Score=66.08 Aligned_cols=51 Identities=22% Similarity=0.411 Sum_probs=43.7
Q ss_pred cHHHHHHHHHHHHHHHHHhcccCCCC-CCCChhhHHHHHHHHHHHHHHHHHH
Q 024231 189 SIAERVRRTRISDRIRKLQDLVPNMD-KQTNTADMLEEAVEYVKFLQKQIEV 239 (270)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~~-Kq~DKAsIL~eAIdYIK~LQ~QVk~ 239 (270)
+-.||||=.-||..|..||.|+|... .++.||.||..+.+||..|..+.-+
T Consensus 65 NsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ 116 (373)
T KOG0561|consen 65 NSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTE 116 (373)
T ss_pred cchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccc
Confidence 55699999999999999999999654 2399999999999999999665433
No 14
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=93.00 E-value=0.078 Score=54.18 Aligned_cols=55 Identities=20% Similarity=0.320 Sum_probs=45.3
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCC---CCCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPN---MDKQTNTADMLEEAVEYVKFLQKQIEVLH 241 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~---~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le 241 (270)
..+..||.|=..||+-|++|..+.=- .+|.-.|--||-.||.-|-.|++||.+-.
T Consensus 529 aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRERN 586 (632)
T KOG3910|consen 529 ANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRERN 586 (632)
T ss_pred hhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHcc
Confidence 46778999999999999999998653 33334689999999999999999997643
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=90.76 E-value=0.12 Score=45.70 Aligned_cols=49 Identities=24% Similarity=0.470 Sum_probs=43.4
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCC--CCCCCChhhHHHHHHHHHHHHHHH
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPN--MDKQTNTADMLEEAVEYVKFLQKQ 236 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~--~~Kq~DKAsIL~eAIdYIK~LQ~Q 236 (270)
-|++-||+|=..+|+-|.+||.++|. ++| +.|.--|.-|-.||-||-.-
T Consensus 81 ~anvrerqRtqsLn~AF~~lr~iiptlPsdk-lSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 81 MANVRERQRTQSLNEAFAALRKIIPTLPSDK-LSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHhhhhHHHHHHHHHhhcCCCCccc-cccccchhhcccCCchhhhc
Confidence 38899999999999999999999995 456 78999999999999999543
No 16
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=88.91 E-value=0.31 Score=51.47 Aligned_cols=42 Identities=21% Similarity=0.474 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHhcccCC---CCCCCChhhHHHHHHHHHH
Q 024231 190 IAERVRRTRISDRIRKLQDLVPN---MDKQTNTADMLEEAVEYVK 231 (270)
Q Consensus 190 iaERrRRerIneri~~Lr~LVP~---~~Kq~DKAsIL~eAIdYIK 231 (270)
-|.|.||.|=|+-|.+|..++|- +.-++|||+|+.-||-|+|
T Consensus 52 dAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLR 96 (768)
T KOG3558|consen 52 DAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLR 96 (768)
T ss_pred hhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHH
Confidence 46899999999999999999993 2335899999999999986
No 17
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=83.39 E-value=1 Score=46.84 Aligned_cols=40 Identities=23% Similarity=0.494 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHhcccCC----CCCCCChhhHHHHHHHHHHH
Q 024231 192 ERVRRTRISDRIRKLQDLVPN----MDKQTNTADMLEEAVEYVKF 232 (270)
Q Consensus 192 ERrRRerIneri~~Lr~LVP~----~~Kq~DKAsIL~eAIdYIK~ 232 (270)
-+|-|+|+|.-++.|-.|+|- +.| +||-+||.-+|-|++.
T Consensus 33 SKRHRdRLNaELD~lAsLLPfpqdiisK-LDkLSVLRLSVSyLr~ 76 (712)
T KOG3560|consen 33 SKRHRDRLNAELDHLASLLPFPQDIISK-LDKLSVLRLSVSYLRV 76 (712)
T ss_pred chhHHHHhhhHHHHHHHhcCCCHHHHhh-hhhhhhhhhhHHHHHH
Confidence 577899999999999999994 455 8999999999999874
No 18
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=80.93 E-value=1.7 Score=44.10 Aligned_cols=43 Identities=26% Similarity=0.399 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCC---CCCCChhhHHHHHHHHHHH
Q 024231 190 IAERVRRTRISDRIRKLQDLVPNM---DKQTNTADMLEEAVEYVKF 232 (270)
Q Consensus 190 iaERrRRerIneri~~Lr~LVP~~---~Kq~DKAsIL~eAIdYIK~ 232 (270)
-+.|.||++=|-.|.+|-+|+|-. +.|+||++|+.-|--|||-
T Consensus 7 naA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKm 52 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKM 52 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHH
Confidence 467999999999999999999953 4468999999999999974
No 19
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=60.01 E-value=5.6 Score=37.04 Aligned_cols=47 Identities=21% Similarity=0.391 Sum_probs=38.4
Q ss_pred cHHHHHHHHHHHHHHHHHhcccCCCC--CCCChhhHHHHHHHHHHHHHH
Q 024231 189 SIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQK 235 (270)
Q Consensus 189 siaERrRRerIneri~~Lr~LVP~~~--Kq~DKAsIL~eAIdYIK~LQ~ 235 (270)
+.-||.|--.+|+-++.||++||... .++.|.-.|.-|-+||..|+.
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 237899999999999998874
No 20
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=59.15 E-value=14 Score=35.34 Aligned_cols=50 Identities=24% Similarity=0.324 Sum_probs=42.3
Q ss_pred CcHHHHHHHHHHHHHHHHHhcccCCCC--CCCChhhHHHHHHHHHHHHHHHH
Q 024231 188 RSIAERVRRTRISDRIRKLQDLVPNMD--KQTNTADMLEEAVEYVKFLQKQI 237 (270)
Q Consensus 188 HsiaERrRRerIneri~~Lr~LVP~~~--Kq~DKAsIL~eAIdYIK~LQ~QV 237 (270)
-+..||+|=.-+|.-|..|+..||..+ +++.|-.-|.-|-.||-.|-.-.
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 466799999999999999999999654 45788899999999999886544
No 21
>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=36.79 E-value=23 Score=31.10 Aligned_cols=36 Identities=25% Similarity=0.365 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHH
Q 024231 197 TRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFL 233 (270)
Q Consensus 197 erIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~L 233 (270)
+-|-+||-+|+++||.... .-..+...-+..++|.+
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 4577899999999998765 34555555566666654
No 22
>PRK13702 replication protein; Provisional
Probab=35.50 E-value=86 Score=25.39 Aligned_cols=43 Identities=28% Similarity=0.398 Sum_probs=29.7
Q ss_pred CCCcHHHHHHHH--HHHHHHHHHhcccCCCCC----------CCChhhHHHHHHH
Q 024231 186 HPRSIAERVRRT--RISDRIRKLQDLVPNMDK----------QTNTADMLEEAVE 228 (270)
Q Consensus 186 ~~HsiaERrRRe--rIneri~~Lr~LVP~~~K----------q~DKAsIL~eAId 228 (270)
.|.+.+||+|.- |..+.-++|.-+||+--| .+..|.||+..|+
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 445666889999997544 2455666665554
No 23
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=34.57 E-value=1.1e+02 Score=22.84 Aligned_cols=47 Identities=19% Similarity=0.253 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHh
Q 024231 193 RVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHF 242 (270)
Q Consensus 193 RrRRerIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~ 242 (270)
++--+.|++++..++.-.|..+. ++..+| .|++....+.+..+....
T Consensus 24 ~~~a~~i~~~i~~~~~~~~~~~~--~~~~vl-aaLnla~e~~~~~~~~~~ 70 (89)
T PF05164_consen 24 RKAAELINEKINEIKKKYPKLSP--ERLAVL-AALNLADELLKLKRELDE 70 (89)
T ss_dssp HHHHHHHHHHHHHHCTTCCTSSH--HHHHHH-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHcCCCCH--HHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 44557899999999999996665 555555 577777666555444443
No 24
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=30.42 E-value=40 Score=30.28 Aligned_cols=44 Identities=25% Similarity=0.320 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCCCC-CChhhHHHHHHHHHHHHH
Q 024231 191 AERVRRTRISDRIRKLQDLVPNMDKQ-TNTADMLEEAVEYVKFLQ 234 (270)
Q Consensus 191 aERrRRerIneri~~Lr~LVP~~~Kq-~DKAsIL~eAIdYIK~LQ 234 (270)
.||.|..++++.+.-|+.|+|++... +.+---|.-+-+||.+|.
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~d 73 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLD 73 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHH
Confidence 58899999999999999999987631 222222555556666653
No 25
>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=28.58 E-value=39 Score=29.22 Aligned_cols=36 Identities=19% Similarity=0.292 Sum_probs=23.2
Q ss_pred HHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHH
Q 024231 197 TRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFL 233 (270)
Q Consensus 197 erIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~L 233 (270)
+-|-+||-+|+++||.... --..+.+.-+..++|.+
T Consensus 51 ETl~ERl~aLkdi~P~~~R-~~i~~~~~~~~~~~k~~ 86 (137)
T PF04281_consen 51 ETLLERLWALKDIFPPSVR-NWISSTVSTTSSAVKSL 86 (137)
T ss_pred ccHHHHHHHHhccCCHHHH-HHHHHHHHHHHHHHHHH
Confidence 4567889999999997665 23444444444554443
No 26
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=26.91 E-value=18 Score=39.06 Aligned_cols=54 Identities=24% Similarity=0.309 Sum_probs=43.5
Q ss_pred CCcHHHHHHHHHHHHHHHHHhcccCCCCCC----CChhhHHHHHHHHHHHHHHHHHHH
Q 024231 187 PRSIAERVRRTRISDRIRKLQDLVPNMDKQ----TNTADMLEEAVEYVKFLQKQIEVL 240 (270)
Q Consensus 187 ~HsiaERrRRerIneri~~Lr~LVP~~~Kq----~DKAsIL~eAIdYIK~LQ~QVk~L 240 (270)
.|.-+|.+||+.|.-.+..|-.++-+..+. +.+++-+...++||--++.+...+
T Consensus 654 t~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v 711 (856)
T KOG3582|consen 654 THISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPV 711 (856)
T ss_pred cCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhcccc
Confidence 578899999999999999999999877653 456666999999998876554433
No 27
>PHA00370 III attachment protein
Probab=25.19 E-value=1.6e+02 Score=28.50 Aligned_cols=27 Identities=4% Similarity=-0.010 Sum_probs=17.2
Q ss_pred CCchhhhh--hccccCCCCCCCcccCCCC
Q 024231 92 SSPADLFD--GYFSNYATPSSYDYVDVSP 118 (270)
Q Consensus 92 s~~~~f~~--~~~~~~~~~~~~~~~~~~~ 118 (270)
|.-..||. +||.+++..-+|-++...+
T Consensus 224 S~~~~~l~~~~~~PslP~~n~C~~FV~~~ 252 (297)
T PHA00370 224 SPLESFLNDGALRPSLPEGHGCTPFVFAQ 252 (297)
T ss_pred cHHHHhhcccccccCCCCCCCCCcceeec
Confidence 44446664 6888877777777765444
No 28
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=23.34 E-value=1.9e+02 Score=21.11 Aligned_cols=43 Identities=28% Similarity=0.355 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHhc
Q 024231 193 RVRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFL 243 (270)
Q Consensus 193 RrRRerIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~l 243 (270)
|.-|=.....+..+..|+--.. .++|.+||+.+-.+++.+..+
T Consensus 17 R~~RHD~~NhLqvI~gllqlg~--------~~~a~eYi~~~~~~~~~~s~l 59 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQLGK--------YEEAKEYIKELSKDLQQESEL 59 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHHCCC--------HHHHHHHHHHHHHHHHHHHHH
Confidence 5555566677777777765332 467999999999998887654
No 29
>PRK14126 cell division protein ZapA; Provisional
Probab=20.13 E-value=2.2e+02 Score=22.32 Aligned_cols=48 Identities=23% Similarity=0.329 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHHhcccCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHhcc
Q 024231 194 VRRTRISDRIRKLQDLVPNMDKQTNTADMLEEAVEYVKFLQKQIEVLHFLE 244 (270)
Q Consensus 194 rRRerIneri~~Lr~LVP~~~Kq~DKAsIL~eAIdYIK~LQ~QVk~Le~l~ 244 (270)
.--..++++++.++.--|..+. ++..|| .|++....|-+-.++++.++
T Consensus 31 ~vA~~vd~km~ei~~~~~~ls~--~~iAVL-aALNia~El~k~~~~~~~l~ 78 (85)
T PRK14126 31 MVAAIVDDKMRELNEKNPSLDT--SKLAVL-TAVNVIHDYIKLKEEYEKLK 78 (85)
T ss_pred HHHHHHHHHHHHHHHhCCCCCH--HHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 3345789999999998887665 667666 38888877755555555443
Done!