Query 022171
Match_columns 301
No_of_seqs 208 out of 1184
Neff 4.9
Searched_HMMs 46136
Date Fri Mar 29 08:34:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022171.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022171hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00010 HLH: Helix-loop-helix 99.5 3.2E-14 7E-19 102.7 4.7 51 45-95 1-55 (55)
2 cd00083 HLH Helix-loop-helix d 99.5 8.9E-14 1.9E-18 100.7 5.7 55 44-98 3-59 (60)
3 smart00353 HLH helix loop heli 99.4 1.5E-12 3.2E-17 92.7 6.2 50 50-99 1-52 (53)
4 KOG1318 Helix loop helix trans 99.3 4.9E-12 1.1E-16 124.7 6.2 63 37-99 225-290 (411)
5 KOG1319 bHLHZip transcription 99.2 2.6E-12 5.6E-17 115.1 2.8 81 41-121 58-144 (229)
6 KOG4304 Transcriptional repres 99.0 3.5E-10 7.6E-15 105.7 3.7 64 35-98 22-92 (250)
7 KOG3960 Myogenic helix-loop-he 98.8 1.2E-08 2.5E-13 95.2 9.2 79 34-112 107-186 (284)
8 KOG3561 Aryl-hydrocarbon recep 98.7 2.1E-08 4.5E-13 106.2 5.6 57 41-97 16-75 (803)
9 KOG2483 Upstream transcription 98.6 3.7E-08 8E-13 91.4 5.7 77 41-117 55-133 (232)
10 KOG2588 Predicted DNA-binding 98.4 1.2E-07 2.7E-12 101.0 1.8 66 44-109 275-340 (953)
11 KOG4029 Transcription factor H 98.0 5.3E-06 1.1E-10 76.1 4.2 65 41-105 105-172 (228)
12 KOG0561 bHLH transcription fac 97.9 9.3E-06 2E-10 77.9 3.1 62 43-104 58-120 (373)
13 KOG3910 Helix loop helix trans 97.4 0.00014 2.9E-09 73.9 4.4 73 40-117 521-596 (632)
14 PLN03217 transcription factor 97.2 0.00069 1.5E-08 54.3 5.0 52 57-108 19-75 (93)
15 KOG4447 Transcription factor T 95.6 0.0057 1.2E-07 54.0 1.5 55 43-97 76-131 (173)
16 KOG3898 Transcription factor N 95.0 0.022 4.8E-07 53.7 3.6 56 41-96 68-125 (254)
17 KOG4395 Transcription factor A 94.4 0.059 1.3E-06 51.1 4.7 58 42-99 171-230 (285)
18 KOG3558 Hypoxia-inducible fact 92.3 0.1 2.2E-06 55.5 2.9 50 44-93 45-97 (768)
19 KOG3582 Mlx interactors and re 90.1 0.052 1.1E-06 57.6 -1.7 84 43-126 649-736 (856)
20 KOG3560 Aryl-hydrocarbon recep 87.2 0.51 1.1E-05 49.3 3.2 41 52-92 32-75 (712)
21 KOG3559 Transcriptional regula 86.1 0.76 1.6E-05 46.6 3.6 45 50-94 6-53 (598)
22 cd04895 ACT_ACR_1 ACT domain-c 75.0 2.1 4.4E-05 33.1 1.9 33 248-280 4-36 (72)
23 KOG4447 Transcription factor T 73.3 2.9 6.4E-05 37.2 2.6 47 52-98 29-76 (173)
24 PF01316 Arg_repressor: Argini 65.6 1.7 3.6E-05 33.6 -0.4 19 261-279 24-42 (70)
25 cd04900 ACT_UUR-like_1 ACT dom 60.1 8.7 0.00019 28.6 2.6 33 247-279 3-35 (73)
26 cd04896 ACT_ACR-like_3 ACT dom 56.8 7.8 0.00017 30.2 1.9 32 248-279 3-34 (75)
27 cd04897 ACT_ACR_3 ACT domain-c 55.0 8 0.00017 30.1 1.7 33 248-280 4-36 (75)
28 PRK04280 arginine repressor; P 53.8 4.5 9.8E-05 35.3 0.1 23 261-283 23-45 (148)
29 cd04927 ACT_ACR-like_2 Second 51.9 11 0.00024 28.6 2.0 33 248-280 3-35 (76)
30 cd04919 ACT_AK-Hom3_2 ACT doma 45.9 31 0.00066 24.5 3.5 28 256-283 15-49 (66)
31 cd04915 ACT_AK-Ectoine_2 ACT d 45.2 32 0.00069 25.3 3.6 29 255-283 14-49 (66)
32 cd04922 ACT_AKi-HSDH-ThrA_2 AC 45.2 32 0.0007 24.1 3.5 29 255-283 14-49 (66)
33 KOG3582 Mlx interactors and re 44.3 6.5 0.00014 42.4 -0.4 64 41-107 783-850 (856)
34 cd04899 ACT_ACR-UUR-like_2 C-t 42.7 21 0.00046 25.5 2.2 32 248-279 3-34 (70)
35 PRK05066 arginine repressor; P 42.6 8 0.00017 34.1 -0.1 23 261-283 28-51 (156)
36 KOG3540 Beta amyloid precursor 42.5 60 0.0013 34.1 6.1 52 50-101 256-308 (615)
37 cd04925 ACT_ACR_2 ACT domain-c 41.0 24 0.00052 26.5 2.4 33 248-280 3-35 (74)
38 cd04937 ACT_AKi-DapG-BS_2 ACT 39.2 43 0.00094 24.1 3.4 29 255-283 14-47 (64)
39 PRK03341 arginine repressor; P 38.8 9.9 0.00022 33.9 -0.1 24 260-283 33-56 (168)
40 cd02116 ACT ACT domains are co 35.2 36 0.00078 21.2 2.2 31 249-279 2-32 (60)
41 COG3074 Uncharacterized protei 33.2 46 0.001 26.2 2.8 29 84-112 13-41 (79)
42 PRK05771 V-type ATP synthase s 32.3 66 0.0014 34.0 4.7 68 54-121 49-132 (646)
43 cd04869 ACT_GcvR_2 ACT domains 32.0 50 0.0011 24.4 2.8 30 248-277 2-31 (81)
44 cd04876 ACT_RelA-SpoT ACT dom 31.8 38 0.00083 22.4 2.0 28 249-276 2-29 (71)
45 cd04926 ACT_ACR_4 C-terminal 31.3 37 0.00081 25.2 2.0 33 247-279 3-35 (72)
46 COG1438 ArgR Arginine represso 31.2 16 0.00036 32.2 0.1 22 261-282 25-46 (150)
47 PF06005 DUF904: Protein of un 31.0 32 0.00068 26.7 1.6 26 84-109 13-38 (72)
48 cd04873 ACT_UUR-ACR-like ACT d 30.7 41 0.0009 23.6 2.1 32 248-279 3-34 (70)
49 cd04870 ACT_PSP_1 CT domains f 30.6 56 0.0012 24.3 2.9 30 248-277 2-31 (75)
50 PRK00441 argR arginine repress 30.5 20 0.00042 31.3 0.4 23 259-281 21-43 (149)
51 TIGR01529 argR_whole arginine 29.7 17 0.00037 31.5 -0.1 21 260-280 20-40 (146)
52 smart00338 BRLZ basic region l 29.3 28 0.0006 25.6 1.0 23 89-111 26-48 (65)
53 cd04928 ACT_TyrKc Uncharacteri 28.3 45 0.00097 25.5 2.0 33 247-279 3-35 (68)
54 cd04916 ACT_AKiii-YclM-BS_2 AC 28.1 87 0.0019 21.8 3.4 30 255-284 14-50 (66)
55 cd04878 ACT_AHAS N-terminal AC 27.6 55 0.0012 22.7 2.3 29 247-275 2-30 (72)
56 cd04872 ACT_1ZPV ACT domain pr 26.4 59 0.0013 24.9 2.4 31 247-277 3-33 (88)
57 cd04918 ACT_AK1-AT_2 ACT domai 26.1 1E+02 0.0022 22.3 3.6 28 256-283 14-48 (65)
58 PF01842 ACT: ACT domain; Int 25.6 52 0.0011 22.8 1.9 30 252-281 7-36 (66)
59 PF02344 Myc-LZ: Myc leucine z 25.6 75 0.0016 21.2 2.4 16 54-69 14-29 (32)
60 COG4710 Predicted DNA-binding 24.9 1.4E+02 0.0031 23.6 4.3 33 59-96 15-48 (80)
61 COG2716 GcvR Glycine cleavage 24.8 57 0.0012 29.6 2.3 27 247-273 94-120 (176)
62 PF13740 ACT_6: ACT domain; PD 24.5 46 0.00099 25.0 1.5 32 248-279 5-36 (76)
63 cd04924 ACT_AK-Arch_2 ACT doma 24.4 1.1E+02 0.0024 21.2 3.4 30 255-284 14-50 (66)
64 PRK15422 septal ring assembly 23.7 76 0.0016 25.3 2.6 29 84-112 13-41 (79)
65 PF00170 bZIP_1: bZIP transcri 23.2 40 0.00086 24.8 0.9 22 48-69 12-33 (64)
66 TIGR01693 UTase_glnD [Protein- 22.9 60 0.0013 35.5 2.5 35 247-281 781-815 (850)
67 cd04887 ACT_MalLac-Enz ACT_Mal 22.0 80 0.0017 22.8 2.3 27 248-274 2-28 (74)
68 PF06345 Drf_DAD: DRF Autoregu 20.9 98 0.0021 17.2 1.9 12 257-268 1-12 (15)
69 PF14794 DUF4479: Domain of un 20.9 84 0.0018 24.4 2.3 25 245-273 43-67 (73)
70 cd04875 ACT_F4HF-DF N-terminal 20.4 92 0.002 22.9 2.4 32 248-279 2-33 (74)
No 1
>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=99.48 E-value=3.2e-14 Score=102.72 Aligned_cols=51 Identities=43% Similarity=0.711 Sum_probs=48.3
Q ss_pred hhccCChHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhhhHHHHHHHHHHH
Q 022171 45 IRSKHSVTEQRRRSKINERFQILREIIPHS----DQKRDTASFLLEVIEYVQYLQ 95 (301)
Q Consensus 45 ~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~----~~K~dKasIL~~AI~YIk~Lq 95 (301)
+|..|+..||+||++||++|..|+.+||.+ ..|++|++||..||+||++||
T Consensus 1 rR~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 1 RRQKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred CCchHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 478999999999999999999999999986 579999999999999999997
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=99.46 E-value=8.9e-14 Score=100.72 Aligned_cols=55 Identities=35% Similarity=0.625 Sum_probs=51.9
Q ss_pred hhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHH
Q 022171 44 VIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKV 98 (301)
Q Consensus 44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v 98 (301)
.+|..|+..||+||++||++|..|+.+||.+ ..|++|+.||..||+||+.|+.++
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~~~~~k~~k~~iL~~a~~yI~~L~~~~ 59 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTLPPSKKLSKAEILRKAVDYIKSLQELL 59 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 4688999999999999999999999999998 589999999999999999999875
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.36 E-value=1.5e-12 Score=92.71 Aligned_cols=50 Identities=44% Similarity=0.672 Sum_probs=46.1
Q ss_pred ChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171 50 SVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQ 99 (301)
Q Consensus 50 ~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~ 99 (301)
+..||+||++||++|..|+.+||.+ ..|++|++||.+||+||+.|+.+++
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 4689999999999999999999974 4799999999999999999998875
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.27 E-value=4.9e-12 Score=124.74 Aligned_cols=63 Identities=30% Similarity=0.539 Sum_probs=57.1
Q ss_pred CCCccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171 37 KNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQ 99 (301)
Q Consensus 37 ~~~~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~ 99 (301)
....|..+||..|+++|||||++||++|.+|..|||.| +.|..|..||..+++||+.||+..+
T Consensus 225 ~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 225 TALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred chhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 33447888999999999999999999999999999998 5688999999999999999998666
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.25 E-value=2.6e-12 Score=115.11 Aligned_cols=81 Identities=26% Similarity=0.388 Sum_probs=71.0
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC------CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccc
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS------DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTK 114 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~------~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~ 114 (301)
.+.+||.+|..+||+||+.||..+..|+.|||.| ..|+.||.||.++|+||.+|+.+..+.+.+.-.|+.+.+.
T Consensus 58 yk~rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~vtA 137 (229)
T KOG1319|consen 58 YKDRRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDVTA 137 (229)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567899999999999999999999999999987 1389999999999999999999999989888888887777
Q ss_pred ccCCcCC
Q 022171 115 LMPWRNS 121 (301)
Q Consensus 115 l~p~~~~ 121 (301)
|.-..+.
T Consensus 138 L~iIk~~ 144 (229)
T KOG1319|consen 138 LKIIKVN 144 (229)
T ss_pred HHHHHHH
Confidence 6654443
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.97 E-value=3.5e-10 Score=105.72 Aligned_cols=64 Identities=23% Similarity=0.421 Sum_probs=55.0
Q ss_pred CCCCCccchhhhccCChHHHHHHHHHHHHHHHHhccCCCC-------CCCCChhhhhHHHHHHHHHHHHHH
Q 022171 35 DGKNSDKASVIRSKHSVTEQRRRSKINERFQILREIIPHS-------DQKRDTASFLLEVIEYVQYLQEKV 98 (301)
Q Consensus 35 d~~~~~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-------~~K~dKasIL~~AI~YIk~Lq~~v 98 (301)
..........+|..|-+.|||||+|||+++.+|++|||.+ ..|++||.||+.|++|++.|+...
T Consensus 22 ~~~~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 22 DERSSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred CCcchhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence 3344446677899999999999999999999999999965 268999999999999999998643
No 7
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=98.85 E-value=1.2e-08 Score=95.24 Aligned_cols=79 Identities=25% Similarity=0.371 Sum_probs=66.3
Q ss_pred CCCCCCccchhhhccCChHHHHHHHHHHHHHHHH-hccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171 34 KDGKNSDKASVIRSKHSVTEQRRRSKINERFQIL-REIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEP 112 (301)
Q Consensus 34 ~d~~~~~k~~~~r~~H~~~ERrRR~kIne~f~~L-r~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~ 112 (301)
.-+|.+.-...||++-.+.||||-.|+|+.|.+| |.-.++.++++.|++||..||+||..||+.++++.+....+.+.+
T Consensus 107 kackrks~svDRRKAATMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~~~~~~~~~ 186 (284)
T KOG3960|consen 107 KACKRKSTSVDRRKAATMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQAEKGLAYAP 186 (284)
T ss_pred hhccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhccchhhhhcC
Confidence 4455555556788999999999999999999999 566788789999999999999999999999999988766554333
No 8
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.67 E-value=2.1e-08 Score=106.19 Aligned_cols=57 Identities=26% Similarity=0.457 Sum_probs=52.4
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCC---CCCChhhhhHHHHHHHHHHHHH
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSD---QKRDTASFLLEVIEYVQYLQEK 97 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~---~K~dKasIL~~AI~YIk~Lq~~ 97 (301)
++...|..|+.+|||||+++|..|.+|.+|||.|. .|+||..||++||.+||.+++.
T Consensus 16 k~r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 16 KDRKKRENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred hhhhccccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 44455999999999999999999999999999995 8999999999999999988874
No 9
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.64 E-value=3.7e-08 Score=91.35 Aligned_cols=77 Identities=30% Similarity=0.442 Sum_probs=64.7
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCCCC-CCC-hhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccccC
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHSDQ-KRD-TASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMP 117 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~-K~d-KasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~p 117 (301)
.....|..|+..||+||+.|+++|..|+.+||..+. +.. .+.||++|++||+.|+.+.+..+...+.+..+...|.+
T Consensus 55 ~~~~~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~~~~e~l~~e~~~l~~ 133 (232)
T KOG2483|consen 55 SAASSRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQQDIEDLSRENRKLKA 133 (232)
T ss_pred CCCcchhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 455689999999999999999999999999998733 333 69999999999999999888888777777766655554
No 10
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.37 E-value=1.2e-07 Score=101.04 Aligned_cols=66 Identities=27% Similarity=0.482 Sum_probs=61.9
Q ss_pred hhhccCChHHHHHHHHHHHHHHHHhccCCCCCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccc
Q 022171 44 VIRSKHSVTEQRRRSKINERFQILREIIPHSDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWS 109 (301)
Q Consensus 44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~ 109 (301)
.+|.+||++|||.|..|||+|.+|+++||+...|+.|..+|..||+||++|+...+.+.....++.
T Consensus 275 ~kRtAHN~IEKRYRsSINDKI~eLk~lV~g~~aKl~kSavLr~ai~~i~dl~~~nq~lk~~~~~l~ 340 (953)
T KOG2588|consen 275 EKRTAHNIIEKRYRSSINDKIIELKDLVPGTEAKLNKSAVLRKAIDYIEDLQGYNQKLKLENASLR 340 (953)
T ss_pred cccchhhHHHHHhhcchhHHHHHHHHhcCccHhhhhhhhhHHHHHHHHHHhhccccccchhhhhhh
Confidence 579999999999999999999999999999888999999999999999999999999888777665
No 11
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=98.00 E-value=5.3e-06 Score=76.07 Aligned_cols=65 Identities=23% Similarity=0.402 Sum_probs=56.9
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHHHHHHHHHHhhh
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYLQEKVQKYEVSY 105 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~ 105 (301)
.....+..++..||.|=..+|.+|..||.+||.. ++|++|+.+|..||.||++|++.++.-+...
T Consensus 105 ~~~~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 105 QTSAQRQARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred chhhhhhhhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 4556788888999999999999999999999964 6899999999999999999999887766543
No 12
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.85 E-value=9.3e-06 Score=77.90 Aligned_cols=62 Identities=26% Similarity=0.414 Sum_probs=52.7
Q ss_pred hhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHHHhh
Q 022171 43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKYEVS 104 (301)
Q Consensus 43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~ 104 (301)
.-||.--+-.||||=.-||..|..||.|+|.- ..|++||.||+.+.+||..|+.+..+|-.+
T Consensus 58 RmRReIANsNERRRMQSINAGFqsLr~LlPr~eGEKLSKAAILQQTa~yI~~Le~~Kt~ll~q 120 (373)
T KOG0561|consen 58 RMRREIANSNERRRMQSINAGFQSLRALLPRKEGEKLSKAAILQQTADYIHQLEGHKTELLPQ 120 (373)
T ss_pred HHHHHhhcchHHHHHHhhhHHHHHHHHhcCcccchhhHHHHHHHHHHHHHHHHHhcccccccc
Confidence 34666677889999999999999999999975 479999999999999999998765555433
No 13
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=97.42 E-value=0.00014 Score=73.89 Aligned_cols=73 Identities=18% Similarity=0.297 Sum_probs=57.2
Q ss_pred ccchhhhccCChHHHHHHHHHHHHHHHHhccCCC---CCCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcccccccccc
Q 022171 40 DKASVIRSKHSVTEQRRRSKINERFQILREIIPH---SDQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLM 116 (301)
Q Consensus 40 ~k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~---~~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~ 116 (301)
++.+.||.+.++.||-|-..||+.|++|.++.-- .++.-.|.-||..||.-|-.|++||++ ..|+...++|+
T Consensus 521 eREkERR~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRE-----RNLNPKaaclk 595 (632)
T KOG3910|consen 521 EREKERRMANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRE-----RNLNPKAACLK 595 (632)
T ss_pred hHHHHHHhhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHH-----ccCChhhhhhh
Confidence 3667899999999999999999999999887642 234456999999999999999998875 23455555544
Q ss_pred C
Q 022171 117 P 117 (301)
Q Consensus 117 p 117 (301)
-
T Consensus 596 R 596 (632)
T KOG3910|consen 596 R 596 (632)
T ss_pred c
Confidence 3
No 14
>PLN03217 transcription factor ATBS1; Provisional
Probab=97.17 E-value=0.00069 Score=54.32 Aligned_cols=52 Identities=19% Similarity=0.387 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHhccCCCC-----CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhcc
Q 022171 57 RSKINERFQILREIIPHS-----DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDW 108 (301)
Q Consensus 57 R~kIne~f~~Lr~lVP~~-----~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l 108 (301)
-+.|++.+..|+.|+|.. ..|.+-+-+|++|+.||+.|+.+|..|.+..-+|
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~saskvLqEtC~YIrsLhrEvDdLSerLs~L 75 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKVSAARVLQDTCNYIRNLHREVDDLSERLSEL 75 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 378999999999999974 3477788899999999999999999999876555
No 15
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=95.59 E-value=0.0057 Score=54.01 Aligned_cols=55 Identities=29% Similarity=0.428 Sum_probs=49.8
Q ss_pred hhhhccCChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHH
Q 022171 43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEK 97 (301)
Q Consensus 43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~ 97 (301)
...|..|++.||+|-..+|+.|..||.++|.. ..|++|+-.|.-|-.||-+|=.-
T Consensus 76 q~qrv~anvrerqRtqsLn~AF~~lr~iiptlPsdklSkiqtLklA~ryidfl~~v 131 (173)
T KOG4447|consen 76 QKQRVMANVRERQRTQSLNEAFAALRKIIPTLPSDKLSKIQTLKLAARYIDFLYQV 131 (173)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCCCccccccccchhhcccCCchhhhc
Confidence 45788999999999999999999999999986 57999999999999999998643
No 16
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=95.02 E-value=0.022 Score=53.66 Aligned_cols=56 Identities=29% Similarity=0.423 Sum_probs=49.8
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHH
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQE 96 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~ 96 (301)
....+|.+=+..||+|=-.+|+.|+.||.+||.. +.|+.|+..|.-|=.||-.|++
T Consensus 68 ~~~~rR~kaNaRER~RMH~LNdAld~LReviP~~~~~~klskIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 68 ALTLRRLKANARERTRMHDLNDALDALREVIPHGLHPPKLSKIETLRLAANYIAALSE 125 (254)
T ss_pred hhhhhcccccchhhccccchhHHHHHhHhhccCcCCCCCCCcchhHHhhhcchhhhcc
Confidence 4566788888999999999999999999999954 6899999999999999998874
No 17
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=94.38 E-value=0.059 Score=51.11 Aligned_cols=58 Identities=26% Similarity=0.310 Sum_probs=51.2
Q ss_pred chhhhccCChHHHHHHHHHHHHHHHHhccCCCC--CCCCChhhhhHHHHHHHHHHHHHHH
Q 022171 42 ASVIRSKHSVTEQRRRSKINERFQILREIIPHS--DQKRDTASFLLEVIEYVQYLQEKVQ 99 (301)
Q Consensus 42 ~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~--~~K~dKasIL~~AI~YIk~Lq~~v~ 99 (301)
...+|.+-+..||+|=..+|..|..||..||.. ++|++|-..|..|-.||--|-..+.
T Consensus 171 ~~~rr~aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l~ 230 (285)
T KOG4395|consen 171 NSHRRLAANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLLD 230 (285)
T ss_pred HHhhhcccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhhc
Confidence 346788889999999999999999999999986 6899999999999999998866543
No 18
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=92.30 E-value=0.1 Score=55.47 Aligned_cols=50 Identities=30% Similarity=0.438 Sum_probs=42.9
Q ss_pred hhhccCChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHH
Q 022171 44 VIRSKHSVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQY 93 (301)
Q Consensus 44 ~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~ 93 (301)
.||++-.-+-|-||.|-|+-|.+|..+||-. ...+|||+|+.-||-|++.
T Consensus 45 ~rkEkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 45 LRKEKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred HHhhhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 3466666778999999999999999999842 4689999999999999983
No 19
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=90.09 E-value=0.052 Score=57.59 Aligned_cols=84 Identities=18% Similarity=0.206 Sum_probs=68.6
Q ss_pred hhhhccCChHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccccCC
Q 022171 43 SVIRSKHSVTEQRRRSKINERFQILREIIPHS----DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMPW 118 (301)
Q Consensus 43 ~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~----~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~p~ 118 (301)
..+...|+-+|++||.+|+-+|..|-.++-+. ..|+.+..-+..+++||..++.+...+.++...+..++..++.-
T Consensus 649 k~r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~lr~~~s~~~A~ 728 (856)
T KOG3582|consen 649 KNRPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSLRKEISELNAV 728 (856)
T ss_pred cCCcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhhhhhhHHHHHH
Confidence 36788999999999999999999999988764 45888888899999999999888888887777777777777765
Q ss_pred cCCccccc
Q 022171 119 RNSHWRVQ 126 (301)
Q Consensus 119 ~~~~~~~~ 126 (301)
.+.+.+..
T Consensus 729 ~~~~~q~p 736 (856)
T KOG3582|consen 729 ISACQQPP 736 (856)
T ss_pred HHHhhcCC
Confidence 54444433
No 20
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=87.15 E-value=0.51 Score=49.26 Aligned_cols=41 Identities=24% Similarity=0.452 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHH
Q 022171 52 TEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQ 92 (301)
Q Consensus 52 ~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk 92 (301)
--+|-|+|+|.-++.|..|+|-. ..|+||.+||.-+|-|++
T Consensus 32 PSKRHRdRLNaELD~lAsLLPfpqdiisKLDkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 32 PSKRHRDRLNAELDHLASLLPFPQDIISKLDKLSVLRLSVSYLR 75 (712)
T ss_pred cchhHHHHhhhHHHHHHHhcCCCHHHHhhhhhhhhhhhhHHHHH
Confidence 35778999999999999999964 479999999999999997
No 21
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=86.06 E-value=0.76 Score=46.64 Aligned_cols=45 Identities=24% Similarity=0.349 Sum_probs=39.0
Q ss_pred ChHHHHHHHHHHHHHHHHhccCCCC---CCCCChhhhhHHHHHHHHHH
Q 022171 50 SVTEQRRRSKINERFQILREIIPHS---DQKRDTASFLLEVIEYVQYL 94 (301)
Q Consensus 50 ~~~ERrRR~kIne~f~~Lr~lVP~~---~~K~dKasIL~~AI~YIk~L 94 (301)
.-.-|.||++-|--|.+|..++|-. ...+||++|+.-|..|||.-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 3457899999999999999999964 45799999999999999954
No 22
>cd04895 ACT_ACR_1 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the N-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=75.03 E-value=2.1 Score=33.15 Aligned_cols=33 Identities=24% Similarity=0.353 Sum_probs=30.1
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeEE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANISV 280 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~isv 280 (301)
|.|+..=-+|||..++++|...|+++..|.|+=
T Consensus 4 iev~a~DRpGLL~~i~~~l~~~gl~I~~AkIsT 36 (72)
T cd04895 4 VKVDSARKPGILLEAVQVLTDLDLCITKAYISS 36 (72)
T ss_pred EEEEECCcCCHHHHHHHHHHHCCcEEEEEEEee
Confidence 667777889999999999999999999999984
No 23
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=73.32 E-value=2.9 Score=37.24 Aligned_cols=47 Identities=19% Similarity=0.255 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHH
Q 022171 52 TEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKV 98 (301)
Q Consensus 52 ~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v 98 (301)
.|+.|..++++.|.-|+.|+|+. ..++.+.--|..+-+||.+|.+.-
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE~q 76 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDELQ 76 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHHHH
Confidence 58889999999999999999987 345555555777878888776533
No 24
>PF01316 Arg_repressor: Arginine repressor, DNA binding domain; InterPro: IPR020900 The arginine dihydrolase (AD) pathway is found in many prokaryotes and some primitive eukaryotes, an example of the latter being Giardia lamblia (Giardia intestinalis) []. The three-enzyme anaerobic pathway breaks down L-arginine to form 1 mol of ATP, carbon dioxide and ammonia. In simpler bacteria, the first enzyme, arginine deiminase, can account for up to 10% of total cell protein []. Most prokaryotic arginine deiminase pathways are under the control of a repressor gene, termed ArgR []. This is a negative regulator, and will only release the arginine deiminase operon for expression in the presence of arginine []. The crystal structure of apo-ArgR from Bacillus stearothermophilus has been determined to 2.5A by means of X-ray crystallography []. The protein exists as a hexamer of identical subunits, and is shown to have six DNA-binding domains, clustered around a central oligomeric core when bound to arginine. It predominantly interacts with A.T residues in ARG boxes. This hexameric protein binds DNA at its N terminus to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbour-joining tree, some of these paralogous sequences show long branches and differ significantly from the well-conserved C-terminal region. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0006525 arginine metabolic process; PDB: 1AOY_A 3V4G_A 3LAJ_D 3FHZ_A 3LAP_B 3ERE_D 2P5L_C 1F9N_D 2P5K_A 1B4A_A ....
Probab=65.56 E-value=1.7 Score=33.55 Aligned_cols=19 Identities=47% Similarity=0.730 Sum_probs=14.3
Q ss_pred HHHHHHHHcCCCCCCCeeE
Q 022171 261 NLTQALESAGIDLSQANIS 279 (301)
Q Consensus 261 ~lt~al~~sgvdlsqa~is 279 (301)
-|.++|+..|++.+||+||
T Consensus 24 eL~~~L~~~Gi~vTQaTiS 42 (70)
T PF01316_consen 24 ELVELLEEEGIEVTQATIS 42 (70)
T ss_dssp HHHHHHHHTT-T--HHHHH
T ss_pred HHHHHHHHcCCCcchhHHH
Confidence 5778899999999999998
No 25
>cd04900 ACT_UUR-like_1 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD is the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted tyrosine kinase. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=60.06 E-value=8.7 Score=28.62 Aligned_cols=33 Identities=24% Similarity=0.384 Sum_probs=28.6
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
.|.|...=..|||..++.+|...|+++-.|.|.
T Consensus 3 ~i~v~~~Dr~gLl~~i~~~l~~~~l~I~~A~i~ 35 (73)
T cd04900 3 EVFIYTPDRPGLFARIAGALDQLGLNILDARIF 35 (73)
T ss_pred EEEEEecCCCCHHHHHHHHHHHCCCCeEEeEEE
Confidence 355666667899999999999999999999985
No 26
>cd04896 ACT_ACR-like_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=56.76 E-value=7.8 Score=30.18 Aligned_cols=32 Identities=22% Similarity=0.429 Sum_probs=28.2
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
|.|...=-+|||..+.++|...||++..|.|+
T Consensus 3 lev~a~DRpGLL~~i~~~l~~~~l~i~~AkI~ 34 (75)
T cd04896 3 LQIRCVDQKGLLYDILRTSKDCNIQISYGRFS 34 (75)
T ss_pred EEEEeCCcccHHHHHHHHHHHCCeEEEEEEEe
Confidence 44555566899999999999999999999999
No 27
>cd04897 ACT_ACR_3 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the third ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=54.98 E-value=8 Score=30.12 Aligned_cols=33 Identities=15% Similarity=0.156 Sum_probs=30.0
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeEE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANISV 280 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~isv 280 (301)
|.|..-.-+|||..++.+|-..|+++..|.|+=
T Consensus 4 veV~~~DRpGLL~~i~~~l~~~~l~I~~A~I~T 36 (75)
T cd04897 4 VTVQCRDRPKLLFDVVCTLTDMDYVVFHATIDT 36 (75)
T ss_pred EEEEeCCcCcHHHHHHHHHHhCCeEEEEEEEee
Confidence 567777889999999999999999999999985
No 28
>PRK04280 arginine repressor; Provisional
Probab=53.76 E-value=4.5 Score=35.27 Aligned_cols=23 Identities=30% Similarity=0.540 Sum_probs=19.9
Q ss_pred HHHHHHHHcCCCCCCCeeEEEEe
Q 022171 261 NLTQALESAGIDLSQANISVQID 283 (301)
Q Consensus 261 ~lt~al~~sgvdlsqa~isvqi~ 283 (301)
-|-++|+..|++.+||+||=.|.
T Consensus 23 eL~~~L~~~Gi~vTQATiSRDik 45 (148)
T PRK04280 23 ELVDRLREEGFNVTQATVSRDIK 45 (148)
T ss_pred HHHHHHHHcCCCeehHHHHHHHH
Confidence 57789999999999999996554
No 29
>cd04927 ACT_ACR-like_2 Second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) have been described, however, the ACR-like sequences in this CD are distinct from those characterized. This CD includes the Oryza sativa ACR-like protein (Os05g0113000) encoded on chromosome 5 and the Arabidopsis thaliana predicted gene product, At2g39570. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=51.92 E-value=11 Score=28.64 Aligned_cols=33 Identities=18% Similarity=0.380 Sum_probs=28.4
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeEE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANISV 280 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~isv 280 (301)
+.|...=.+|||..++.+|...|+++-.|.|+-
T Consensus 3 ~ei~~~Dr~gLfa~i~~~l~~~~l~I~~A~I~T 35 (76)
T cd04927 3 LKLFCSDRKGLLHDVTEVLYELELTIERVKVST 35 (76)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCeEEEEEEEE
Confidence 455566678999999999999999999999874
No 30
>cd04919 ACT_AK-Hom3_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase (AK) HOM3, a monofunctional class enzyme found in Saccharomyces cerevisiae, and other related ACT domains. AK is the first enzyme in the aspartate metabolic pathway, catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP, and in fungi, is responsible for the production of threonine, isoleucine and methionine. S. cerevisiae has a single AK, which is regulated by feedback, allosteric inhibition by L-threonine. Recent studies shown that the allosteric transition triggered by binding of threonine to AK involves a large change in the conformation of the native hexameric enzyme that is converted to an inactive one of different shape and substantially smaller hydrodynamic size. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=45.89 E-value=31 Score=24.45 Aligned_cols=28 Identities=32% Similarity=0.480 Sum_probs=23.3
Q ss_pred hhHHHHHHHHHHHcCCCC-------CCCeeEEEEe
Q 022171 256 QGLLNNLTQALESAGIDL-------SQANISVQID 283 (301)
Q Consensus 256 qgll~~lt~al~~sgvdl-------sqa~isvqi~ 283 (301)
.|++..+.++|...||++ |..+||+-|+
T Consensus 15 ~~~~~~if~~L~~~~I~v~~i~q~~s~~~isf~v~ 49 (66)
T cd04919 15 IGIAGRMFTTLADHRINIEMISQGASEINISCVID 49 (66)
T ss_pred cCHHHHHHHHHHHCCCCEEEEEecCccceEEEEEe
Confidence 689999999999999998 6666776664
No 31
>cd04915 ACT_AK-Ectoine_2 ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the aspartokinase of the ectoine (1,4,5,6-tetrahydro-2-methyl pyrimidine-4-carboxylate) biosynthetic pathway found in Methylomicrobium alcaliphilum, Vibrio cholerae, and various other halotolerant or halophilic bacteria. Bacteria exposed to hyperosmotic stress accumulate organic solutes called 'compatible solutes' of which ectoine, a heterocyclic amino acid, is one. Apart from its osmotic function, ectoine also exhibits a protective effect on proteins, nucleic acids and membranes against a variety of stress factors. de novo synthesis of ectoine starts with the phosphorylation of L-aspartate and shares its first two enzymatic steps with the biosynthesis of amino acids of the aspartate family: aspartokinas
Probab=45.22 E-value=32 Score=25.32 Aligned_cols=29 Identities=28% Similarity=0.464 Sum_probs=23.9
Q ss_pred hhhHHHHHHHHHHHcCCCC-------CCCeeEEEEe
Q 022171 255 SQGLLNNLTQALESAGIDL-------SQANISVQID 283 (301)
Q Consensus 255 sqgll~~lt~al~~sgvdl-------sqa~isvqi~ 283 (301)
..|++.++.++|...||++ |.-+||+=|+
T Consensus 14 ~~gv~~ki~~~L~~~~I~v~~i~~~~s~~~is~~V~ 49 (66)
T cd04915 14 TPGVLARGLAALAEAGIEPIAAHQSMRNVDVQFVVD 49 (66)
T ss_pred cchHHHHHHHHHHHCCCCEEEEEecCCeeEEEEEEE
Confidence 3589999999999999999 5567777654
No 32
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=45.18 E-value=32 Score=24.12 Aligned_cols=29 Identities=34% Similarity=0.538 Sum_probs=23.4
Q ss_pred hhhHHHHHHHHHHHcCCCC-------CCCeeEEEEe
Q 022171 255 SQGLLNNLTQALESAGIDL-------SQANISVQID 283 (301)
Q Consensus 255 sqgll~~lt~al~~sgvdl-------sqa~isvqi~ 283 (301)
.+|++.++.++|.+.||.+ |+-+||+-|+
T Consensus 14 ~~~~~~~i~~~l~~~~I~v~~i~~~~s~~~is~~v~ 49 (66)
T cd04922 14 TPGVAATFFSALAKANVNIRAIAQGSSERNISAVID 49 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEe
Confidence 4799999999999999988 5556666654
No 33
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=44.29 E-value=6.5 Score=42.39 Aligned_cols=64 Identities=13% Similarity=0.137 Sum_probs=51.8
Q ss_pred cchhhhccCChHHHHHHHHHHHHHHHHhccCCCC----CCCCChhhhhHHHHHHHHHHHHHHHHHHhhhhc
Q 022171 41 KASVIRSKHSVTEQRRRSKINERFQILREIIPHS----DQKRDTASFLLEVIEYVQYLQEKVQKYEVSYQD 107 (301)
Q Consensus 41 k~~~~r~~H~~~ERrRR~kIne~f~~Lr~lVP~~----~~K~dKasIL~~AI~YIk~Lq~~v~~Le~~~~~ 107 (301)
...-++..|...+||||-.+.++|..|-.|.|.. .++..+++||. +.|+.++..-..+.+..++
T Consensus 783 ~n~~v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~~ 850 (856)
T KOG3582|consen 783 FNGMVSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIEG 850 (856)
T ss_pred ccceeecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhhh
Confidence 4445778899999999999999999999999953 56889999998 8888888776666655443
No 34
>cd04899 ACT_ACR-UUR-like_2 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains. This ACT domain family, ACT_ACR-UUR-like_2, includes the second of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the second and fourth ACT domains of a novel protein composed almost entirely of ACT domain repeats, the ACR protein. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=42.72 E-value=21 Score=25.52 Aligned_cols=32 Identities=25% Similarity=0.592 Sum_probs=26.8
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
|.|...-..|||..|+.+|.++|+++-.+.+.
T Consensus 3 l~v~~~d~~gll~~i~~~l~~~~~~I~~~~~~ 34 (70)
T cd04899 3 LELTALDRPGLLADVTRVLAELGLNIHSAKIA 34 (70)
T ss_pred EEEEEcCCccHHHHHHHHHHHCCCeEEEEEEE
Confidence 45566678899999999999999999877764
No 35
>PRK05066 arginine repressor; Provisional
Probab=42.58 E-value=8 Score=34.08 Aligned_cols=23 Identities=26% Similarity=0.544 Sum_probs=19.5
Q ss_pred HHHHHHHHcCCC-CCCCeeEEEEe
Q 022171 261 NLTQALESAGID-LSQANISVQID 283 (301)
Q Consensus 261 ~lt~al~~sgvd-lsqa~isvqi~ 283 (301)
-|-+.|+..|++ .+||+||=.|.
T Consensus 28 eL~~~L~~~Gi~~vTQATiSRDik 51 (156)
T PRK05066 28 EIVTALQEQGFDNINQSKVSRMLT 51 (156)
T ss_pred HHHHHHHHCCCCeecHHHHHHHHH
Confidence 577889999999 99999996543
No 36
>KOG3540 consensus Beta amyloid precursor protein [General function prediction only]
Probab=42.49 E-value=60 Score=34.05 Aligned_cols=52 Identities=13% Similarity=0.217 Sum_probs=31.0
Q ss_pred ChHHHHHHHHHHHHHHHHhccCCCC-CCCCChhhhhHHHHHHHHHHHHHHHHH
Q 022171 50 SVTEQRRRSKINERFQILREIIPHS-DQKRDTASFLLEVIEYVQYLQEKVQKY 101 (301)
Q Consensus 50 ~~~ERrRR~kIne~f~~Lr~lVP~~-~~K~dKasIL~~AI~YIk~Lq~~v~~L 101 (301)
--.|-|+|++|+.-+++-..+=-.. +.|.+|..+.+.--.-++.|++++...
T Consensus 256 mrleekhr~rmd~VmkEW~~ae~qaKnPKAekqalnqhFQ~~v~sLEee~a~e 308 (615)
T KOG3540|consen 256 MRLEEKHRKRMDKVMKEWEEAETQAKNPKAEKQALNQHFQKTVSSLEEEAARE 308 (615)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccCchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567788889998887765543232 346666555554444555555544433
No 37
>cd04925 ACT_ACR_2 ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the second ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=41.00 E-value=24 Score=26.49 Aligned_cols=33 Identities=18% Similarity=0.262 Sum_probs=27.8
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeEE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANISV 280 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~isv 280 (301)
|.|...=-+|||..++.+|...|+++-.|.|+-
T Consensus 3 ~~v~~~Dr~gLl~~i~~~l~~~~lnI~~A~i~t 35 (74)
T cd04925 3 IELTGTDRPGLLSEVFAVLADLHCNVVEARAWT 35 (74)
T ss_pred EEEEECCCCCHHHHHHHHHHHCCCcEEEEEEEE
Confidence 344445568999999999999999999999984
No 38
>cd04937 ACT_AKi-DapG-BS_2 ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI. This CD includes the C-terminal of the two ACT domains of the diaminopimelate-sensitive aspartokinase (AK) isoenzyme AKI, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) strain 168), Clostridia, and Actinobacteria bacterial species. In B. subtilis, the regulation of the diaminopimelate-lysine biosynthetic pathway involves dual control by diaminopimelate and lysine, effected through separate diaminopimelate- and lysine-sensitive AK isoenzymes. AKI activity is invariant during the exponential and stationary phases of growth and is not altered by addition of amino acids to the growth medium. The role of this isoenzyme is most likely to provide a constant level of aspartyl-beta-phosphate for the biosynthesis of diaminopimelate for peptidoglycan synthesis and dipicolinate during sporulation. The BS AKI is tetrameric consisting of two alpha and two beta subunits; th
Probab=39.19 E-value=43 Score=24.11 Aligned_cols=29 Identities=28% Similarity=0.550 Sum_probs=22.7
Q ss_pred hhhHHHHHHHHHHHcCCCC-----CCCeeEEEEe
Q 022171 255 SQGLLNNLTQALESAGIDL-----SQANISVQID 283 (301)
Q Consensus 255 sqgll~~lt~al~~sgvdl-----sqa~isvqi~ 283 (301)
..|++.++.+||...||.+ |+-+||+=|+
T Consensus 14 ~~gi~~~if~aL~~~~I~v~~~~~Se~~is~~v~ 47 (64)
T cd04937 14 VPGVMAKIVGALSKEGIEILQTADSHTTISCLVS 47 (64)
T ss_pred CcCHHHHHHHHHHHCCCCEEEEEcCccEEEEEEc
Confidence 5799999999999999999 4445555443
No 39
>PRK03341 arginine repressor; Provisional
Probab=38.81 E-value=9.9 Score=33.94 Aligned_cols=24 Identities=33% Similarity=0.583 Sum_probs=20.0
Q ss_pred HHHHHHHHHcCCCCCCCeeEEEEe
Q 022171 260 NNLTQALESAGIDLSQANISVQID 283 (301)
Q Consensus 260 ~~lt~al~~sgvdlsqa~isvqi~ 283 (301)
.-|.+.|+..|++.+||+||=.|.
T Consensus 33 ~eL~~~L~~~Gi~vTQaTiSRDl~ 56 (168)
T PRK03341 33 AELAALLADEGIEVTQATLSRDLD 56 (168)
T ss_pred HHHHHHHHHcCCcccHHHHHHHHH
Confidence 357889999999999999996543
No 40
>cd02116 ACT ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. Members of this CD belong to the superfamily of ACT regulatory domains. Pairs of ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme. The ACT domain has been detected in a number of diverse proteins; some of these proteins are involved in amino acid and purine biosynthesis, phenylalanine hydroxylation, regulation of bacterial metabolism and transcription, and many remain to be characterized. ACT domain-containing enzymes involved in amino acid and purine synthesis are in many cases allosteric enzymes with complex regulation enforced by the binding of ligands. The ACT domain is commonly involved in the binding of a small regulatory molecule, such as the amino acids L-Ser and L-Phe in the case of D-3-phosphoglycerate dehydrogenase and the bifunctional chorismate mutase-p
Probab=35.20 E-value=36 Score=21.16 Aligned_cols=31 Identities=26% Similarity=0.412 Sum_probs=23.6
Q ss_pred eeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 249 NISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 249 siss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
+|......|+|..+.+.|...|+++...+.+
T Consensus 2 ~i~~~~~~~~l~~i~~~l~~~~~~i~~~~~~ 32 (60)
T cd02116 2 TVSGPDRPGLLAKVLSVLAEAGINITSIEQR 32 (60)
T ss_pred EEEecCCCchHHHHHHHHHHCCCcEEEEEeE
Confidence 3444456799999999999999998765543
No 41
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.23 E-value=46 Score=26.18 Aligned_cols=29 Identities=17% Similarity=0.279 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171 84 LLEVIEYVQYLQEKVQKYEVSYQDWSAEP 112 (301)
Q Consensus 84 L~~AI~YIk~Lq~~v~~Le~~~~~l~~e~ 112 (301)
+..||+.|.-||-.+.+|+..+..+.++.
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l~~e~ 41 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSLSQEV 41 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHhHHHH
Confidence 45688888888888888887776665554
No 42
>PRK05771 V-type ATP synthase subunit I; Validated
Probab=32.34 E-value=66 Score=33.97 Aligned_cols=68 Identities=21% Similarity=0.374 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHHHHhccCCCCCC---------CCC-------hhhhhHHHHHHHHHHHHHHHHHHhhhhccccccccccC
Q 022171 54 QRRRSKINERFQILREIIPHSDQ---------KRD-------TASFLLEVIEYVQYLQEKVQKYEVSYQDWSAEPTKLMP 117 (301)
Q Consensus 54 RrRR~kIne~f~~Lr~lVP~~~~---------K~d-------KasIL~~AI~YIk~Lq~~v~~Le~~~~~l~~e~~~l~p 117 (301)
.++..++++.+..|+...+.... ..+ ...-+++..+-+..|+++.++|+++.++++.....|.|
T Consensus 49 ~~~~~~~~~~l~~L~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~i~~l~~~~~~L~~~~~~l~~~~~~l~~ 128 (646)
T PRK05771 49 RSLLTKLSEALDKLRSYLPKLNPLREEKKKVSVKSLEELIKDVEEELEKIEKEIKELEEEISELENEIKELEQEIERLEP 128 (646)
T ss_pred HHHHHHHHHHHHHHHHhccccccchhhhccccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 45667789999989888765310 011 12345666777888888888888888888888888999
Q ss_pred CcCC
Q 022171 118 WRNS 121 (301)
Q Consensus 118 ~~~~ 121 (301)
|.+-
T Consensus 129 ~~~l 132 (646)
T PRK05771 129 WGNF 132 (646)
T ss_pred hhcC
Confidence 9763
No 43
>cd04869 ACT_GcvR_2 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. This CD includes the second of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains. The glycine cleavage enzyme system in Escherichia coli provides one-carbon units for cellular methylation reactions. This enzyme system, encoded by the gcvTHP operon and lpd gene, catalyzes the cleavage of glycine into CO2 + NH3 and transfers a one-carbon unit to tetrahydrofolate, producing 5,10-methylenetetrahydrofolate. The gcvTHP operon is activated by the GcvA protein in response to glycine and repressed by a GcvA/GcvR interaction in the absence of glycine. It has been proposed that the co-activator glycine acts through a mechanism of de-repression by binding to GcvR and preventing GcvR from interacting with GcvA to block GcvA's activator function. Evidence also suggests that GcvR in
Probab=32.00 E-value=50 Score=24.41 Aligned_cols=30 Identities=17% Similarity=0.360 Sum_probs=24.7
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCe
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQAN 277 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~ 277 (301)
|+|......||+..+++.|...|+++-..+
T Consensus 2 l~v~g~D~~Giv~~it~~l~~~~~nI~~~~ 31 (81)
T cd04869 2 VEVVGNDRPGIVHEVTQFLAQRNINIEDLS 31 (81)
T ss_pred EEEEeCCCCCHHHHHHHHHHHcCCCeEEeE
Confidence 456667789999999999999999875543
No 44
>cd04876 ACT_RelA-SpoT ACT domain found C-terminal of the RelA/SpoT domains. ACT_RelA-SpoT: the ACT domain found C-terminal of the RelA/SpoT domains. Enzymes of the Rel/Spo family enable bacteria to survive prolonged periods of nutrient limitation by controlling guanosine-3'-diphosphate-5'-(tri)diphosphate ((p)ppGpp) production and subsequent rRNA repression (stringent response). Both the synthesis of (p)ppGpp from ATP and GDP(GTP), and its hydrolysis to GDP(GTP) and pyrophosphate, are catalyzed by Rel/Spo proteins. In Escherichia coli and its close relatives, the metabolism of (p)ppGpp is governed by two homologous proteins, RelA and SpoT. The RelA protein catalyzes (p)ppGpp synthesis in a reaction requiring its binding to ribosomes bearing codon-specified uncharged tRNA. The major role of the SpoT protein is the breakdown of (p)ppGpp by a manganese-dependent (p)ppGpp pyrophosphohydrolase activity. Although the stringent response appears to be tightly regulated by these two enzymes i
Probab=31.84 E-value=38 Score=22.44 Aligned_cols=28 Identities=21% Similarity=0.436 Sum_probs=23.0
Q ss_pred eeehhhhhhHHHHHHHHHHHcCCCCCCC
Q 022171 249 NISSIYSQGLLNNLTQALESAGIDLSQA 276 (301)
Q Consensus 249 siss~ysqgll~~lt~al~~sgvdlsqa 276 (301)
.|......|+|..|++.|.+.|+++...
T Consensus 2 ~v~~~~~~~~l~~i~~~l~~~~~~i~~~ 29 (71)
T cd04876 2 RVEAIDRPGLLADITTVIAEEKINILSV 29 (71)
T ss_pred EEEEeccCcHHHHHHHHHHhCCCCEEEE
Confidence 4555667899999999999999998643
No 45
>cd04926 ACT_ACR_4 C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). This CD includes the C-terminal ACT domain, of a novel type of ACT domain-containing protein which is composed almost entirely of four ACT domain repeats (the "ACR" protein). ACR proteins, found only in Arabidopsis and Oryza, as yet, are proposed to function as novel regulatory or sensor proteins in plants. Nine ACR gene products have been described (ACR1-8 in Arabidopsis and OsARC1-9 in Oryza) and are represented in this CD. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=31.34 E-value=37 Score=25.24 Aligned_cols=33 Identities=24% Similarity=0.506 Sum_probs=27.4
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
.|.|...-..|||..|+.+|.+.|+++..|.|.
T Consensus 3 ri~V~~~D~~Gll~~i~~~l~~~~lnI~sa~i~ 35 (72)
T cd04926 3 RLELRTEDRVGLLSDVTRVFRENGLTVTRAEIS 35 (72)
T ss_pred EEEEEECCccCHHHHHHHHHHHCCcEEEEEEEe
Confidence 356666778899999999999999999777653
No 46
>COG1438 ArgR Arginine repressor [Transcription]
Probab=31.18 E-value=16 Score=32.20 Aligned_cols=22 Identities=32% Similarity=0.614 Sum_probs=18.8
Q ss_pred HHHHHHHHcCCCCCCCeeEEEE
Q 022171 261 NLTQALESAGIDLSQANISVQI 282 (301)
Q Consensus 261 ~lt~al~~sgvdlsqa~isvqi 282 (301)
-|-..|+..|++.+||+||=-|
T Consensus 25 Elv~~L~~~Gi~vTQaTvSRDl 46 (150)
T COG1438 25 ELVELLQEEGIEVTQATVSRDL 46 (150)
T ss_pred HHHHHHHHcCCeEehHHHHHHH
Confidence 5678899999999999999543
No 47
>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=30.99 E-value=32 Score=26.69 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=19.6
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhccc
Q 022171 84 LLEVIEYVQYLQEKVQKYEVSYQDWS 109 (301)
Q Consensus 84 L~~AI~YIk~Lq~~v~~Le~~~~~l~ 109 (301)
+..||+-|..|+.++.+|+.++..+.
T Consensus 13 i~~aveti~~Lq~e~eeLke~n~~L~ 38 (72)
T PF06005_consen 13 IQQAVETIALLQMENEELKEKNNELK 38 (72)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 45688888888888888888744443
No 48
>cd04873 ACT_UUR-ACR-like ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD. This ACT domain family, ACT_UUR_ACR-like, includes the two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; including those enzymes similar to the GlnD found in enteric Escherichia coli and those found in photosynthetic, nitrogen-fixing bacterium Rhodospirillum rubrum. Also included in this CD are the four ACT domains of a novel protein composed almost entirely of ACT domain repeats (the ACR protein) and like proteins. These ACR proteins, found in Arabidopsis and Oryza, are proposed to function as novel regulatory or sensor proteins in plants. This CD also includes the first of the two ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein and related domains, as well as, the N-terminal ACT domain of a yet characterized Arabidopsis/Oryza predicted t
Probab=30.70 E-value=41 Score=23.62 Aligned_cols=32 Identities=28% Similarity=0.534 Sum_probs=26.0
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
+.|...-..|+|..|+.+|..+|+++-.+.+.
T Consensus 3 l~i~~~d~~g~l~~i~~~l~~~~~~I~~~~~~ 34 (70)
T cd04873 3 VEVYAPDRPGLLADITRVLADLGLNIHDARIS 34 (70)
T ss_pred EEEEeCCCCCHHHHHHHHHHHCCCeEEEEEEe
Confidence 45666678999999999999999998665543
No 49
>cd04870 ACT_PSP_1 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). The ACT_PSP_1 CD includes the first of the two ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB). PSPs belong to the L-2-haloacid dehalogenase-like protein superfamily. PSP is involved in serine metabolism; serine is synthesized from phosphoglycerate through sequential reactions catalyzed by 3-phosphoglycerate dehydrogenase (SerA), 3-phosphoserine aminotransferase (SerC), and SerB. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=30.57 E-value=56 Score=24.30 Aligned_cols=30 Identities=23% Similarity=0.420 Sum_probs=24.5
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCe
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQAN 277 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~ 277 (301)
|+|...-..||+..+|++|...|+++...+
T Consensus 2 vtv~G~DrpGiv~~vt~~la~~~~nI~dl~ 31 (75)
T cd04870 2 ITVTGPDRPGLTSALTEVLAAHGVRILDVG 31 (75)
T ss_pred EEEEcCCCCCHHHHHHHHHHHCCCCEEecc
Confidence 456667788999999999999999776553
No 50
>PRK00441 argR arginine repressor; Provisional
Probab=30.49 E-value=20 Score=31.31 Aligned_cols=23 Identities=30% Similarity=0.530 Sum_probs=19.7
Q ss_pred HHHHHHHHHHcCCCCCCCeeEEE
Q 022171 259 LNNLTQALESAGIDLSQANISVQ 281 (301)
Q Consensus 259 l~~lt~al~~sgvdlsqa~isvq 281 (301)
...|.++|+..|++.|||+||=.
T Consensus 21 q~eL~~~L~~~G~~vSqaTisRD 43 (149)
T PRK00441 21 QEELAEELKKMGFDVTQATVSRD 43 (149)
T ss_pred HHHHHHHHHhcCCCcCHHHHHHH
Confidence 35688999999999999999843
No 51
>TIGR01529 argR_whole arginine repressor. This model includes most members of the arginine-responsive transcriptional regulator family ArgR. This hexameric protein binds DNA at its amino end to repress arginine biosyntheis or activate arginine catabolism. Some species have several ArgR paralogs. In a neighbor-joining tree, some of these paralogous sequences show long branches and differ significantly in an otherwise well-conserved C-terminal region motif GT[VIL][AC]GDDT. These paralogs are excluded from the seed and score in the gray zone of this model, between trusted and noise cutoffs.
Probab=29.66 E-value=17 Score=31.46 Aligned_cols=21 Identities=33% Similarity=0.575 Sum_probs=18.2
Q ss_pred HHHHHHHHHcCCCCCCCeeEE
Q 022171 260 NNLTQALESAGIDLSQANISV 280 (301)
Q Consensus 260 ~~lt~al~~sgvdlsqa~isv 280 (301)
.-|.+.|++.|+++|||+||=
T Consensus 20 eeL~~~L~~~G~~vsqaTIsR 40 (146)
T TIGR01529 20 EELVALLKAEGIEVTQATVSR 40 (146)
T ss_pred HHHHHHHHHhCCCcCHHHHHH
Confidence 357788999999999999984
No 52
>smart00338 BRLZ basic region leucin zipper.
Probab=29.32 E-value=28 Score=25.64 Aligned_cols=23 Identities=22% Similarity=0.318 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHhhhhccccc
Q 022171 89 EYVQYLQEKVQKYEVSYQDWSAE 111 (301)
Q Consensus 89 ~YIk~Lq~~v~~Le~~~~~l~~e 111 (301)
.||..|+.+++.|+.++..|..+
T Consensus 26 ~~~~~Le~~~~~L~~en~~L~~~ 48 (65)
T smart00338 26 AEIEELERKVEQLEAENERLKKE 48 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666666666666665555433
No 53
>cd04928 ACT_TyrKc Uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. This CD includes a novel, yet uncharacterized, N-terminal ACT domain of an Arabidopsis/Oryza predicted tyrosine kinase and other related ACT domains. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.28 E-value=45 Score=25.50 Aligned_cols=33 Identities=21% Similarity=0.334 Sum_probs=28.7
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
.|.|-..-..|||..++-+|-..|+++-.|.|-
T Consensus 3 eI~V~~~Dr~gLFa~iag~L~~~~LnI~~A~i~ 35 (68)
T cd04928 3 EITFAAGDKPKLLSQLSSLLGDLGLNIAEAHAF 35 (68)
T ss_pred EEEEEECCCcchHHHHHHHHHHCCCceEEEEEE
Confidence 466667778999999999999999999998775
No 54
>cd04916 ACT_AKiii-YclM-BS_2 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII. This CD includes the second of two ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in Bacilli (Bacillus subtilis (BS) YclM) and Clostridia species. Aspartokinase is the first enzyme in the aspartate metabolic pathway and catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. B. subtilis YclM is reported to be a single polypeptide of 50 kD. AKIII from B. subtilis strain 168 is induced by lysine and repressed by threonine and it is synergistically inhibited by lysine and threonine. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=28.06 E-value=87 Score=21.83 Aligned_cols=30 Identities=30% Similarity=0.458 Sum_probs=23.7
Q ss_pred hhhHHHHHHHHHHHcCCCC-------CCCeeEEEEec
Q 022171 255 SQGLLNNLTQALESAGIDL-------SQANISVQIDL 284 (301)
Q Consensus 255 sqgll~~lt~al~~sgvdl-------sqa~isvqi~l 284 (301)
.+|++..+..+|...||++ +..+||+-|+-
T Consensus 14 ~~~~~~~i~~~L~~~~i~v~~i~~~~s~~~isf~v~~ 50 (66)
T cd04916 14 TVGVSARATAALAKAGINIRMINQGSSEISIMIGVHN 50 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCcccEEEEEEeH
Confidence 3689999999999999998 55566666654
No 55
>cd04878 ACT_AHAS N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). ACT_AHAS: N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS). AHAS catalyses the first common step in the biosynthesis of the three branched-chain amino acids. The first step involves the condensation of either pyruvate or 2-ketobutyrate with the two-carbon hydroxyethyl fragment derived from another pyruvate molecule, covalently bound to the coenzyme thiamine diphosphate. Bacterial AHASs generally consist of regulatory and catalytic subunits. The effector (valine) binding sites are proposed to be located in two symmetrically related positions in the interface between a pair of N-terminal ACT domains with the C-terminal domain of IlvH contacting the catalytic dimer. Plants Arabidopsis and Oryza have tandem IlvH subunits; both the first and second ACT domain sequences are present in this CD. Members of
Probab=27.60 E-value=55 Score=22.66 Aligned_cols=29 Identities=17% Similarity=0.402 Sum_probs=25.0
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCC
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQ 275 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsq 275 (301)
++.|...-..|+|..|+..|...|+++..
T Consensus 2 ~l~i~~~d~~g~l~~i~~~l~~~~~~i~~ 30 (72)
T cd04878 2 TLSVLVENEPGVLNRISGLFARRGFNIES 30 (72)
T ss_pred EEEEEEcCCCcHHHHHHHHHHhCCCCEEE
Confidence 56777778889999999999999999853
No 56
>cd04872 ACT_1ZPV ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein. This CD, ACT_1ZPV, includes those single ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein (pdb structure 1ZPV). Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.36 E-value=59 Score=24.91 Aligned_cols=31 Identities=10% Similarity=0.270 Sum_probs=26.4
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCCCe
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQAN 277 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsqa~ 277 (301)
.|+|...-.+||+..+|+.|-..|+++-..+
T Consensus 3 vl~i~g~D~pGiva~vt~~la~~g~nI~~~~ 33 (88)
T cd04872 3 VITVVGKDRVGIVAGVSTKLAELNVNILDIS 33 (88)
T ss_pred EEEEEcCCCCCHHHHHHHHHHHcCCCEEech
Confidence 5778888899999999999999999875443
No 57
>cd04918 ACT_AK1-AT_2 ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1). This CD includes the second of two ACT domains located C-terminal to the catalytic domain of a monofunctional, lysine-sensitive, plant aspartate kinase 1 (AK1), which can be synergistically inhibited by S-adenosylmethionine (SAM). This isoenzyme is found in higher plants, Arabidopsis thaliana (AT) and Zea mays, and also in Chlorophyta. In its inactive state, Arabidopsis AK1 binds the effectors lysine and SAM (two molecules each) at the interface of two ACT1 domain subunits. The second ACT domain (ACT2), this CD, does not interact with an effector. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=26.13 E-value=1e+02 Score=22.31 Aligned_cols=28 Identities=25% Similarity=0.439 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHHcCCCC-------CCCeeEEEEe
Q 022171 256 QGLLNNLTQALESAGIDL-------SQANISVQID 283 (301)
Q Consensus 256 qgll~~lt~al~~sgvdl-------sqa~isvqi~ 283 (301)
.|++..+..||...||.+ |.-+||+=|+
T Consensus 14 ~~~~~~i~~aL~~~~I~v~~i~~g~s~~sis~~v~ 48 (65)
T cd04918 14 SLILERAFHVLYTKGVNVQMISQGASKVNISLIVN 48 (65)
T ss_pred ccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEe
Confidence 589999999999999988 4445555443
No 58
>PF01842 ACT: ACT domain; InterPro: IPR002912 The ACT domain is found in a variety of contexts and is proposed to be a conserved regulatory binding fold. ACT domains are linked to a wide range of metabolic enzymes that are regulated by amino acid concentration. The archetypical ACT domain is the C-terminal regulatory domain of 3-phosphoglycerate dehydrogenase (3PGDH), which folds with a ferredoxin-like topology. A pair of ACT domains form an eight-stranded antiparallel sheet with two molecules of allosteric inhibitor serine bound in the interface. Biochemical exploration of a few other proteins containing ACT domains supports the suggestions that these domains contain the archetypical ACT structure [].; GO: 0016597 amino acid binding, 0008152 metabolic process; PDB: 3L76_B 2F06_B 3NRB_C 1Y7P_C 2QMX_A 2DT9_A 2ZHO_D 3K5P_A 3TVI_K 3C1M_C ....
Probab=25.65 E-value=52 Score=22.80 Aligned_cols=30 Identities=23% Similarity=0.379 Sum_probs=24.5
Q ss_pred hhhhhhHHHHHHHHHHHcCCCCCCCeeEEE
Q 022171 252 SIYSQGLLNNLTQALESAGIDLSQANISVQ 281 (301)
Q Consensus 252 s~ysqgll~~lt~al~~sgvdlsqa~isvq 281 (301)
-.=..|+|..++++|-..||++..+.+...
T Consensus 7 ~~drpG~l~~v~~~la~~~inI~~~~~~~~ 36 (66)
T PF01842_consen 7 VPDRPGILADVTEILADHGINIDSISQSSD 36 (66)
T ss_dssp EETSTTHHHHHHHHHHHTTEEEEEEEEEEE
T ss_pred cCCCCCHHHHHHHHHHHcCCCHHHeEEEec
Confidence 334589999999999999999987766554
No 59
>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=25.56 E-value=75 Score=21.24 Aligned_cols=16 Identities=31% Similarity=0.738 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHhc
Q 022171 54 QRRRSKINERFQILRE 69 (301)
Q Consensus 54 RrRR~kIne~f~~Lr~ 69 (301)
|+||+.++.++..||.
T Consensus 14 rrr~eqLK~kLeqlrn 29 (32)
T PF02344_consen 14 RRRREQLKHKLEQLRN 29 (32)
T ss_dssp HHHHHHHHHHHHHH--
T ss_pred HHHHHHHHHHHHHHhc
Confidence 7888999999999985
No 60
>COG4710 Predicted DNA-binding protein with an HTH domain [General function prediction only]
Probab=24.90 E-value=1.4e+02 Score=23.62 Aligned_cols=33 Identities=27% Similarity=0.533 Sum_probs=23.6
Q ss_pred HHHHHHHHHhccCCCCCCCCChhhhhHHHHH-HHHHHHH
Q 022171 59 KINERFQILREIIPHSDQKRDTASFLLEVIE-YVQYLQE 96 (301)
Q Consensus 59 kIne~f~~Lr~lVP~~~~K~dKasIL~~AI~-YIk~Lq~ 96 (301)
.+.+++..|..- .-..|+.++.+||+ ||..++.
T Consensus 15 E~~eRL~~Ls~~-----tgrtkayyvrEaIE~~ieemED 48 (80)
T COG4710 15 ELKERLDNLSKN-----TGRTKAYYVREAIEAYIEEMED 48 (80)
T ss_pred HHHHHHHHHHHh-----cCCchhHHHHHHHHHHHHHHHH
Confidence 456667777652 45569999999996 7776665
No 61
>COG2716 GcvR Glycine cleavage system regulatory protein [Amino acid transport and metabolism]
Probab=24.76 E-value=57 Score=29.64 Aligned_cols=27 Identities=15% Similarity=0.407 Sum_probs=24.8
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCC
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDL 273 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdl 273 (301)
...+..+|++||++.+|+-|-.+|+.+
T Consensus 94 ~v~v~a~DrpgIv~~~T~lf~~~~ini 120 (176)
T COG2716 94 WVYVDANDRPGIVEEFTALFDGHGINI 120 (176)
T ss_pred EEEEEecCCccHHHHHHHHHHhcCCch
Confidence 467899999999999999999999976
No 62
>PF13740 ACT_6: ACT domain; PDB: 1ZPV_A 3P96_A 1U8S_A.
Probab=24.54 E-value=46 Score=25.02 Aligned_cols=32 Identities=16% Similarity=0.322 Sum_probs=23.3
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
|++...=..|++..|+.+|..+|+++-..+..
T Consensus 5 Itv~G~DrpGiv~~v~~~l~~~g~ni~d~~~~ 36 (76)
T PF13740_consen 5 ITVVGPDRPGIVAAVTGVLAEHGCNIEDSRQA 36 (76)
T ss_dssp EEEEEE--TTHHHHHHHHHHCTT-EEEEEEEE
T ss_pred EEEEecCCCcHHHHHHHHHHHCCCcEEEEEEE
Confidence 55666667899999999999999988655443
No 63
>cd04924 ACT_AK-Arch_2 ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). Included in this CD is the second of two ACT domains of a monofunctional aspartokinase found mostly in Archaea species (ACT_AK-Arch_2). The first or N-terminal ACT domain of these proteins cluster with the ThrA-like ACT 1 domains (ACT_AKi-HSDH-ThrA-like_1) which includes the threonine-sensitive archaeal Methanococcus jannaschii aspartokinase ACT 1 domain. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=24.43 E-value=1.1e+02 Score=21.20 Aligned_cols=30 Identities=33% Similarity=0.454 Sum_probs=22.9
Q ss_pred hhhHHHHHHHHHHHcCCCC-------CCCeeEEEEec
Q 022171 255 SQGLLNNLTQALESAGIDL-------SQANISVQIDL 284 (301)
Q Consensus 255 sqgll~~lt~al~~sgvdl-------sqa~isvqi~l 284 (301)
..|++..+..+|..+|+.+ +..+||+-|+-
T Consensus 14 ~~~~~~~i~~~L~~~~I~v~~i~q~~s~~~isf~i~~ 50 (66)
T cd04924 14 TPGVAGRVFGALGKAGINVIMISQGSSEYNISFVVAE 50 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCccceEEEEEeH
Confidence 3688999999999999887 45556666553
No 64
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=23.74 E-value=76 Score=25.34 Aligned_cols=29 Identities=17% Similarity=0.279 Sum_probs=22.2
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhcccccc
Q 022171 84 LLEVIEYVQYLQEKVQKYEVSYQDWSAEP 112 (301)
Q Consensus 84 L~~AI~YIk~Lq~~v~~Le~~~~~l~~e~ 112 (301)
+..||+-|.-||-.+.+|+.++..+..+.
T Consensus 13 IqqAvdtI~LLqmEieELKekn~~L~~e~ 41 (79)
T PRK15422 13 VQQAIDTITLLQMEIEELKEKNNSLSQEV 41 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46788888888888888888776666554
No 65
>PF00170 bZIP_1: bZIP transcription factor cAMP response element binding (CREB) protein signature fos transforming protein signature jun transcription factor signature; InterPro: IPR011616 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotic are proteins that contain a basic region mediating sequence-specific DNA-binding followed by a leucine zipper region (see IPR002158 from INTERPRO) required for dimerization.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0046983 protein dimerization activity, 0006355 regulation of transcription, DNA-dependent; PDB: 2H7H_B 2OQQ_B 1S9K_E 1JNM_A 1JUN_A 1FOS_H 1A02_J 1T2K_C 1CI6_A 1DH3_C ....
Probab=23.19 E-value=40 Score=24.76 Aligned_cols=22 Identities=18% Similarity=0.344 Sum_probs=11.2
Q ss_pred cCChHHHHHHHHHHHHHHHHhc
Q 022171 48 KHSVTEQRRRSKINERFQILRE 69 (301)
Q Consensus 48 ~H~~~ERrRR~kIne~f~~Lr~ 69 (301)
....+=++-|.+-...+..|..
T Consensus 12 rNR~AAr~~R~RKk~~~~~Le~ 33 (64)
T PF00170_consen 12 RNREAARRSRQRKKQYIEELEE 33 (64)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhhHHHHHH
Confidence 3334444445555555555554
No 66
>TIGR01693 UTase_glnD [Protein-PII] uridylyltransferase. This model describes GlnD, the uridylyltransferase/uridylyl-removing enzyme for the nitrogen regulatory protein PII. Not all homologs of PII share the property of uridylyltransferase modification on the characteristic Tyr residue (see Prosite pattern PS00496 and document PDOC00439), but the modification site is preserved in the PII homolog of all species with a member of this family.
Probab=22.94 E-value=60 Score=35.52 Aligned_cols=35 Identities=23% Similarity=0.473 Sum_probs=32.7
Q ss_pred ceeeehhhhhhHHHHHHHHHHHcCCCCCCCeeEEE
Q 022171 247 TINISSIYSQGLLNNLTQALESAGIDLSQANISVQ 281 (301)
Q Consensus 247 ~isiss~ysqgll~~lt~al~~sgvdlsqa~isvq 281 (301)
.|.|...-.+|||..++++|...||++..|.|+..
T Consensus 781 ~~~v~~~DrpGll~~i~~~l~~~~~~i~~a~i~t~ 815 (850)
T TIGR01693 781 IMEVRALDRPGLLARVGRTLEELGLSIQSAKITTF 815 (850)
T ss_pred EEEEEECCccHHHHHHHHHHHHCCCeEEEEEEEec
Confidence 48899999999999999999999999999999974
No 67
>cd04887 ACT_MalLac-Enz ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains. The ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI, a malolactic enzyme (MalLac-Enz) which converts malate to lactate, and other related ACT domains. The yqkJ product is predicted to convert malate directly to lactate, as opposed to related malic enzymes that convert malate to pyruvate. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=21.98 E-value=80 Score=22.78 Aligned_cols=27 Identities=26% Similarity=0.433 Sum_probs=22.7
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCC
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLS 274 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdls 274 (301)
|.|-..-.+|+|..|+++|...|+++.
T Consensus 2 l~v~~~d~~g~L~~i~~~i~~~~~nI~ 28 (74)
T cd04887 2 LRLELPNRPGMLGRVTTAIGEAGGDIG 28 (74)
T ss_pred EEEEeCCCCchHHHHHHHHHHcCCcEE
Confidence 455556678999999999999999984
No 68
>PF06345 Drf_DAD: DRF Autoregulatory Domain; InterPro: IPR010465 This domain is found in Diaphanous-related formins (Drfs). It binds the N-terminal GTPase-binding domain; this link is broken when GTP-bound Rho binds to the GBD and activates the protein. The addition of diaphanous activating domains (DAD) to mammalian cells induces actin filament formation, stabilises microtubules, and activates serum-response mediated transcription [].; PDB: 3O4X_H 3OBV_E 2BAP_C 2F31_B.
Probab=20.94 E-value=98 Score=17.24 Aligned_cols=12 Identities=33% Similarity=0.786 Sum_probs=9.7
Q ss_pred hHHHHHHHHHHH
Q 022171 257 GLLNNLTQALES 268 (301)
Q Consensus 257 gll~~lt~al~~ 268 (301)
|+.+.|-+|||+
T Consensus 1 gvmdsllealqt 12 (15)
T PF06345_consen 1 GVMDSLLEALQT 12 (15)
T ss_dssp -HHHHHHHHHHH
T ss_pred CcHHHHHHHHHc
Confidence 678899999986
No 69
>PF14794 DUF4479: Domain of unknown function (DUF4479); PDB: 3BU2_C.
Probab=20.89 E-value=84 Score=24.38 Aligned_cols=25 Identities=32% Similarity=0.537 Sum_probs=14.4
Q ss_pred CCceeeehhhhhhHHHHHHHHHHHcCCCC
Q 022171 245 GGTINISSIYSQGLLNNLTQALESAGIDL 273 (301)
Q Consensus 245 ~g~isiss~ysqgll~~lt~al~~sgvdl 273 (301)
.|.|-+ +..++..|.++|++.|+|-
T Consensus 43 ~G~V~L----t~eqv~~LN~~l~~~Gf~~ 67 (73)
T PF14794_consen 43 NGQVFL----TEEQVAKLNQALQKAGFDE 67 (73)
T ss_dssp -----------HHHHHHHHHHHHHTT---
T ss_pred CcCEEc----CHHHHHHHHHHHHHcCCCc
Confidence 466665 4789999999999999873
No 70
>cd04875 ACT_F4HF-DF N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase). This CD includes the N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase) which catalyzes the hydrolysis of 10-formyltetrahydrofolate (formyl-FH4) to FH4 and formate. Formyl-FH4 hydrolase generates the formate that is used by purT-encoded 5'-phosphoribosylglycinamide transformylase for step three of de novo purine nucleotide synthesis. Formyl-FH4 hydrolase, a hexamer which is activated by methionine and inhibited by glycine, is proposed to regulate the balance FH4 and C1-FH4 in response to changing growth conditions. Members of this CD belong to the superfamily of ACT regulatory domains.
Probab=20.36 E-value=92 Score=22.89 Aligned_cols=32 Identities=13% Similarity=0.241 Sum_probs=24.5
Q ss_pred eeeehhhhhhHHHHHHHHHHHcCCCCCCCeeE
Q 022171 248 INISSIYSQGLLNNLTQALESAGIDLSQANIS 279 (301)
Q Consensus 248 isiss~ysqgll~~lt~al~~sgvdlsqa~is 279 (301)
|+|...=..||+..+|+.|...|+++...+-.
T Consensus 2 i~v~g~D~~Giv~~it~~l~~~g~nI~~~~~~ 33 (74)
T cd04875 2 LTLSCPDRPGIVAAVSGFLAEHGGNIVESDQF 33 (74)
T ss_pred EEEEcCCCCCHHHHHHHHHHHcCCCEEeeeee
Confidence 34445557899999999999999987665443
Done!