Query 023847
Match_columns 276
No_of_seqs 254 out of 1103
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 07:04:44 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023847.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/023847hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00083 HLH Helix-loop-helix d 99.4 1.7E-13 3.8E-18 97.6 5.1 54 155-208 5-60 (60)
2 PF00010 HLH: Helix-loop-helix 99.4 1.1E-12 2.4E-17 93.5 5.5 49 156-204 3-55 (55)
3 smart00353 HLH helix loop heli 99.4 2.1E-12 4.6E-17 90.6 6.8 49 159-208 1-52 (53)
4 KOG1318 Helix loop helix trans 99.2 2.1E-11 4.6E-16 119.1 6.4 65 144-208 223-290 (411)
5 KOG1319 bHLHZip transcription 99.1 1.4E-10 3.1E-15 103.7 6.8 67 155-221 63-135 (229)
6 KOG4304 Transcriptional repres 98.6 1.7E-08 3.7E-13 93.3 2.6 52 156-207 34-92 (250)
7 KOG3561 Aryl-hydrocarbon recep 98.4 4.4E-07 9.6E-12 95.2 5.6 52 155-206 21-75 (803)
8 KOG2483 Upstream transcription 98.4 1E-06 2.3E-11 80.9 7.4 58 154-211 59-118 (232)
9 KOG2588 Predicted DNA-binding 98.1 1.3E-06 2.9E-11 92.5 3.4 66 153-218 275-340 (953)
10 PLN03217 transcription factor 98.0 1.6E-05 3.4E-10 63.5 6.7 54 166-220 19-78 (93)
11 KOG0561 bHLH transcription fac 97.7 3.1E-05 6.8E-10 74.0 4.4 50 156-206 62-113 (373)
12 KOG3582 Mlx interactors and re 97.6 3.2E-05 7E-10 80.2 2.3 85 154-250 651-746 (856)
13 KOG3960 Myogenic helix-loop-he 97.5 0.00024 5.1E-09 66.5 7.0 55 159-213 123-178 (284)
14 KOG4029 Transcription factor H 97.1 0.00048 1E-08 62.2 3.7 58 157-214 112-172 (228)
15 KOG3910 Helix loop helix trans 96.3 0.007 1.5E-07 61.5 5.8 55 156-210 528-585 (632)
16 KOG4447 Transcription factor T 92.2 0.076 1.6E-06 46.9 1.7 49 156-205 80-130 (173)
17 KOG3558 Hypoxia-inducible fact 88.3 0.34 7.3E-06 51.3 2.7 47 156-202 48-97 (768)
18 KOG3898 Transcription factor N 88.2 1.1 2.4E-05 41.8 5.8 47 158-205 76-125 (254)
19 KOG3559 Transcriptional regula 83.9 1.2 2.5E-05 45.2 3.8 45 159-203 6-53 (598)
20 KOG3560 Aryl-hydrocarbon recep 75.3 2.3 5E-05 44.4 2.9 37 164-201 35-75 (712)
21 KOG4395 Transcription factor A 68.0 8.8 0.00019 36.6 4.7 51 157-207 177-229 (285)
22 COG3074 Uncharacterized protei 61.6 14 0.0003 29.1 3.9 25 193-217 13-37 (79)
23 PRK00846 hypothetical protein; 61.0 66 0.0014 25.3 7.7 47 165-221 7-64 (77)
24 PRK15422 septal ring assembly 57.1 19 0.00041 28.6 4.1 29 192-220 12-40 (79)
25 PRK13729 conjugal transfer pil 57.1 99 0.0021 31.9 10.2 56 157-221 68-127 (475)
26 KOG3582 Mlx interactors and re 57.0 3.8 8.3E-05 43.8 0.2 61 154-217 787-851 (856)
27 PF06005 DUF904: Protein of un 55.5 24 0.00052 27.2 4.3 26 193-218 13-38 (72)
28 smart00338 BRLZ basic region l 48.5 21 0.00045 26.0 2.9 24 197-220 25-48 (65)
29 KOG4447 Transcription factor T 43.7 15 0.00032 32.9 1.7 45 161-205 29-74 (173)
30 PF13870 DUF4201: Domain of un 41.0 1.4E+02 0.0031 25.7 7.5 59 160-221 115-175 (177)
31 PF10393 Matrilin_ccoil: Trime 40.8 61 0.0013 23.3 4.2 32 190-221 15-46 (47)
32 PF13334 DUF4094: Domain of un 39.5 65 0.0014 26.0 4.7 31 189-219 64-94 (95)
33 PF09006 Surfac_D-trimer: Lung 39.4 33 0.00072 24.7 2.7 22 200-221 1-22 (46)
34 PF08826 DMPK_coil: DMPK coile 39.0 65 0.0014 24.2 4.3 53 161-219 8-60 (61)
35 PF00170 bZIP_1: bZIP transcri 38.5 38 0.00082 24.6 3.0 18 161-178 16-33 (64)
36 PF14689 SPOB_a: Sensor_kinase 37.5 62 0.0013 23.7 4.0 41 163-211 17-57 (62)
37 PF03195 DUF260: Protein of un 37.4 1.2E+02 0.0026 24.7 6.0 63 158-221 21-101 (101)
38 PRK14127 cell division protein 33.7 67 0.0014 26.8 4.0 31 191-221 30-60 (109)
39 KOG0139 Short-chain acyl-CoA d 32.0 55 0.0012 32.9 3.8 27 192-218 288-327 (398)
40 PF11336 DUF3138: Protein of u 30.6 83 0.0018 32.5 4.8 28 197-224 24-51 (514)
41 PF02185 HR1: Hr1 repeat; Int 30.3 2.3E+02 0.0049 20.9 6.8 34 188-221 30-63 (70)
42 PRK04406 hypothetical protein; 30.3 1.9E+02 0.0041 22.3 5.8 23 168-200 8-30 (75)
43 PRK02793 phi X174 lysis protei 30.1 2E+02 0.0044 21.9 5.9 19 201-219 39-57 (72)
44 PF14197 Cep57_CLD_2: Centroso 29.5 1E+02 0.0022 23.5 4.2 29 190-218 39-67 (69)
45 PF13815 Dzip-like_N: Iguana/D 29.5 83 0.0018 25.8 3.9 29 191-219 62-94 (118)
46 PF09849 DUF2076: Uncharacteri 29.3 4E+02 0.0086 25.1 8.8 36 200-237 57-92 (247)
47 PF02996 Prefoldin: Prefoldin 29.1 85 0.0018 24.9 3.9 29 193-221 75-107 (120)
48 PF07544 Med9: RNA polymerase 28.2 1.6E+02 0.0035 22.9 5.1 28 193-220 54-81 (83)
49 PF07716 bZIP_2: Basic region 28.0 74 0.0016 22.5 3.0 19 199-217 26-44 (54)
50 PRK02119 hypothetical protein; 27.3 2.4E+02 0.0052 21.6 5.9 18 201-218 40-57 (73)
51 PF09789 DUF2353: Uncharacteri 25.9 2.4E+02 0.0053 27.6 7.0 60 160-220 31-101 (319)
52 PF05103 DivIVA: DivIVA protei 25.3 88 0.0019 25.1 3.4 31 191-221 25-55 (131)
53 PRK14066 exodeoxyribonuclease 23.6 2.7E+02 0.0058 21.6 5.6 52 169-220 6-61 (75)
54 PF07334 IFP_35_N: Interferon- 22.9 1.4E+02 0.003 23.6 3.9 29 192-220 1-29 (76)
55 PF01920 Prefoldin_2: Prefoldi 22.1 71 0.0015 24.6 2.1 54 167-220 29-91 (106)
56 PRK00736 hypothetical protein; 21.7 3.6E+02 0.0077 20.3 5.8 30 189-218 13-53 (68)
57 PHA03386 P10 fibrous body prot 21.6 1.7E+02 0.0037 24.0 4.2 15 188-202 2-16 (94)
58 PF03961 DUF342: Protein of un 21.4 2.8E+02 0.0061 27.5 6.7 34 188-221 372-405 (451)
59 PF11853 DUF3373: Protein of u 21.1 1.5E+02 0.0032 30.8 4.7 23 199-221 32-54 (489)
60 PRK14011 prefoldin subunit alp 20.6 1.6E+02 0.0035 25.4 4.2 28 193-220 5-32 (144)
61 PF05164 ZapA: Cell division p 20.4 3.1E+02 0.0067 20.4 5.3 32 166-200 27-58 (89)
62 PF06305 DUF1049: Protein of u 20.3 1E+02 0.0022 22.2 2.5 16 201-216 51-66 (68)
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=99.43 E-value=1.7e-13 Score=97.61 Aligned_cols=54 Identities=37% Similarity=0.643 Sum_probs=48.7
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhcCCCCC--CCCChhhHHHHHHHHHHHHHHHHH
Q 023847 155 TDSHSLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQVE 208 (276)
Q Consensus 155 ~~~Hs~aERkRRekIne~~~~LrsLVP~~~--K~~dKAsIL~eAIdYIk~LQ~qV~ 208 (276)
+..|+..||+||++||+.|..|+.+||.+. ..++|++||+.||+||++|+.+++
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 457999999999999999999999999982 335999999999999999998863
No 2
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=99.36 E-value=1.1e-12 Score=93.48 Aligned_cols=49 Identities=37% Similarity=0.739 Sum_probs=44.6
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCCC----CCCCChhhHHHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPGC----NKVIGKALVLDEIINYIQSLQ 204 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~~----~K~~dKAsIL~eAIdYIk~LQ 204 (276)
..|+..||+||++||+.|..|+.+||.+ ....+|++||+.||+||++||
T Consensus 3 ~~h~~~Er~RR~~i~~~~~~L~~llp~~~~~~~~k~~K~~iL~~ai~yI~~Lq 55 (55)
T PF00010_consen 3 QKHNERERRRRDRINDCFDELRELLPSCSAGSSRKLSKASILQKAIDYIKQLQ 55 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHCCSSHHCCTTSSSSHHHHHHHHHHHHHHHH
T ss_pred chHHHHHHHHHHHHHHHHHHHHHhccchhccccccCCHHHHHHHHHHHHHHhC
Confidence 4699999999999999999999999987 223699999999999999997
No 3
>smart00353 HLH helix loop helix domain.
Probab=99.36 E-value=2.1e-12 Score=90.56 Aligned_cols=49 Identities=41% Similarity=0.605 Sum_probs=44.5
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCC---CCCCChhhHHHHHHHHHHHHHHHHH
Q 023847 159 SLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQRQVE 208 (276)
Q Consensus 159 s~aERkRRekIne~~~~LrsLVP~~---~K~~dKAsIL~eAIdYIk~LQ~qV~ 208 (276)
+..||+||++||+.|..|+.|||.+ .+. +|++||+.||+||++|+.+++
T Consensus 1 n~~Er~RR~~~n~~~~~L~~lip~~~~~~k~-~k~~iL~~ai~yi~~L~~~~~ 52 (53)
T smart00353 1 NARERRRRRKINEAFDELRSLLPTLPNNKKL-SKAEILRLAIEYIKSLQEELQ 52 (53)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC-CHHHHHHHHHHHHHHHHHHHh
Confidence 4689999999999999999999964 354 999999999999999999886
No 4
>KOG1318 consensus Helix loop helix transcription factor EB [Transcription]
Probab=99.20 E-value=2.1e-11 Score=119.08 Aligned_cols=65 Identities=34% Similarity=0.560 Sum_probs=54.3
Q ss_pred cccccccCCCCCCcccHHHHHHHHHHHHHHHHHHhcCCCCCCC---CChhhHHHHHHHHHHHHHHHHH
Q 023847 144 YIHVRARRGQATDSHSLAERARREKISERMKILQDLVPGCNKV---IGKALVLDEIINYIQSLQRQVE 208 (276)
Q Consensus 144 ~~~~R~rr~~a~~~Hs~aERkRRekIne~~~~LrsLVP~~~K~---~dKAsIL~eAIdYIk~LQ~qV~ 208 (276)
....-+|-+++++.|+.+|||||++||++|++|..|||.|+.. ..|..||..++|||+.||+..+
T Consensus 223 ~~~~~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~~~~nKgtILk~s~dYIr~Lqq~~q 290 (411)
T KOG1318|consen 223 DATALERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSEDMKSNKGTILKASCDYIRELQQTLQ 290 (411)
T ss_pred ccchhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcchhhcccchhhHHHHHHHHHHHHHHH
Confidence 3344455667779999999999999999999999999999532 3799999999999988887544
No 5
>KOG1319 consensus bHLHZip transcription factor BIGMAX [Transcription]
Probab=99.11 E-value=1.4e-10 Score=103.70 Aligned_cols=67 Identities=30% Similarity=0.528 Sum_probs=58.7
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhcCCCCCCC------CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 155 TDSHSLAERARREKISERMKILQDLVPGCNKV------IGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 155 ~~~Hs~aERkRRekIne~~~~LrsLVP~~~K~------~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
+..|.-+||+||+-||..+..|+.|||.|... ..||.||+++|+||.+|+.+...-+.++.+|+...
T Consensus 63 r~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~ds~g~KlskA~ILqksidyi~~L~~~k~kqe~e~s~L~k~v 135 (229)
T KOG1319|consen 63 RRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQDSIGQKLSKAIILQKTIDYIQFLHKEKKKQEEEVSTLRKDV 135 (229)
T ss_pred HHHHHHHHHHHHHHHHhchHHHHHhccccccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46799999999999999999999999987533 38999999999999999998888888887777653
No 6
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=98.61 E-value=1.7e-08 Score=93.31 Aligned_cols=52 Identities=33% Similarity=0.480 Sum_probs=45.1
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCCCCCC-------CChhhHHHHHHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPGCNKV-------IGKALVLDEIINYIQSLQRQV 207 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~~~K~-------~dKAsIL~eAIdYIk~LQ~qV 207 (276)
..|-+.||+||.+||+.|.+|++||+.+-+. ++||.||+.||+|++.||...
T Consensus 34 ~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~~~~~~sklEKAdILEltV~hL~~l~~~~ 92 (250)
T KOG4304|consen 34 VRKPLLEKKRRARINRCLDELKDLIPEALKKDGQRHSKLEKADILELTVNHLRQLQRSQ 92 (250)
T ss_pred hcchhHHHHHHHHHHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHHHHHHHHHHHhccc
Confidence 3567999999999999999999999965332 499999999999999999753
No 7
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=98.36 E-value=4.4e-07 Score=95.24 Aligned_cols=52 Identities=21% Similarity=0.382 Sum_probs=48.2
Q ss_pred CCcccHHHHHHHHHHHHHHHHHHhcCCCCC---CCCChhhHHHHHHHHHHHHHHH
Q 023847 155 TDSHSLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQSLQRQ 206 (276)
Q Consensus 155 ~~~Hs~aERkRRekIne~~~~LrsLVP~~~---K~~dKAsIL~eAIdYIk~LQ~q 206 (276)
+++|+.+||+||+++|.-|.+|.+|||.|. .++||-+||.+||++|+.+++.
T Consensus 21 Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~~~~~RK~DK~tVLr~aV~~lr~~k~~ 75 (803)
T KOG3561|consen 21 RENRSEIEKRRRDQMNKYIEELSEMVPTNASLSRKPDKLTVLRMAVDHLRLIKEQ 75 (803)
T ss_pred cccchhHHHHHHHHHHHHHHHHHHhhhcchhcccCchHHHHHHHHHHHHHHHhhh
Confidence 578999999999999999999999999997 3469999999999999999885
No 8
>KOG2483 consensus Upstream transcription factor 2/L-myc-2 protein [Transcription]
Probab=98.36 E-value=1e-06 Score=80.94 Aligned_cols=58 Identities=28% Similarity=0.369 Sum_probs=48.0
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHhcCCCCCCCC--ChhhHHHHHHHHHHHHHHHHHHHH
Q 023847 154 ATDSHSLAERARREKISERMKILQDLVPGCNKVI--GKALVLDEIINYIQSLQRQVEFLS 211 (276)
Q Consensus 154 a~~~Hs~aERkRRekIne~~~~LrsLVP~~~K~~--dKAsIL~eAIdYIk~LQ~qV~~Le 211 (276)
++..|+..||+||..|+++|..|+.+||...... ..++||++|++||+.|+.+.....
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~~~~~~~~t~lsiL~kA~~~i~~l~~~~~~~~ 118 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPLLNGETRSTTLSILDKALEHIQSLERKSATQQ 118 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCCCCCcchhhhhHhhhhHHHHHHHHHhHHHHHH
Confidence 4567999999999999999999999999765432 258999999999999887654444
No 9
>KOG2588 consensus Predicted DNA-binding protein [Transcription]
Probab=98.14 E-value=1.3e-06 Score=92.49 Aligned_cols=66 Identities=29% Similarity=0.509 Sum_probs=58.4
Q ss_pred CCCCcccHHHHHHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023847 153 QATDSHSLAERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 153 ~a~~~Hs~aERkRRekIne~~~~LrsLVP~~~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln 218 (276)
..+.+|+++|||-|..||++|.+|+++||+..-...|..+|..||+||++|+...+.|+.+.+.+.
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 457899999999999999999999999998765459999999999999999998888877666554
No 10
>PLN03217 transcription factor ATBS1; Provisional
Probab=98.03 E-value=1.6e-05 Score=63.54 Aligned_cols=54 Identities=35% Similarity=0.531 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHhcCCCCC------CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 166 REKISERMKILQDLVPGCN------KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 166 RekIne~~~~LrsLVP~~~------K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
-+.|++.+..||.|+|... +. +-+-||++|+.||+.|+++|..|.+.+.+|-..
T Consensus 19 ddqi~dLvsKLq~llPe~r~~r~s~k~-saskvLqEtC~YIrsLhrEvDdLSerLs~LL~t 78 (93)
T PLN03217 19 EDQINDLIIKLQQLLPELRDSRRSDKV-SAARVLQDTCNYIRNLHREVDDLSERLSELLAN 78 (93)
T ss_pred HHHHHHHHHHHHHHChHHHhhhccccc-cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3689999999999999542 33 678899999999999999999999999888654
No 11
>KOG0561 consensus bHLH transcription factor [Transcription]
Probab=97.73 E-value=3.1e-05 Score=73.99 Aligned_cols=50 Identities=28% Similarity=0.482 Sum_probs=44.2
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCC--CCCCCChhhHHHHHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPG--CNKVIGKALVLDEIINYIQSLQRQ 206 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~--~~K~~dKAsIL~eAIdYIk~LQ~q 206 (276)
+.-+..||+|=.-||-.|..|+.|+|. ..|+ +||.||+.+.+||.+|+.+
T Consensus 62 eIANsNERRRMQSINAGFqsLr~LlPr~eGEKL-SKAAILQQTa~yI~~Le~~ 113 (373)
T KOG0561|consen 62 EIANSNERRRMQSINAGFQSLRALLPRKEGEKL-SKAAILQQTADYIHQLEGH 113 (373)
T ss_pred HhhcchHHHHHHhhhHHHHHHHHhcCcccchhh-HHHHHHHHHHHHHHHHHhc
Confidence 456789999999999999999999995 4566 9999999999999988764
No 12
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=97.58 E-value=3.2e-05 Score=80.25 Aligned_cols=85 Identities=21% Similarity=0.270 Sum_probs=70.6
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHhcCCCCCCC----CChhhHHHHHHHHHHH-------HHHHHHHHHHHHHHHhcccC
Q 023847 154 ATDSHSLAERARREKISERMKILQDLVPGCNKV----IGKALVLDEIINYIQS-------LQRQVEFLSMKLEAVNSRMN 222 (276)
Q Consensus 154 a~~~Hs~aERkRRekIne~~~~LrsLVP~~~K~----~dKAsIL~eAIdYIk~-------LQ~qV~~Le~~le~ln~~~~ 222 (276)
....|+.+|++||++|+-+|..|.+++.+...+ +.++.-|+++++||.. ++++...|..+++++++-++
T Consensus 651 r~it~~Sa~qkrr~n~kl~~~~~Ns~~Sn~~~l~s~k~t~~~~~q~~vhYi~~t~~e~~~v~~e~~~lr~~~s~~~A~~~ 730 (856)
T KOG3582|consen 651 RPITHISAEQKRRFNIKLQFDVLNSLSSNSSSLSSIKTTNSNSLQKTVHYINVTQQERVPVQEEAHSLRKEISELNAVIS 730 (856)
T ss_pred CcccCccHHHHHHhhHHhhhHhhhhhccCcccccchhhhccccccCceeeeeccchhccccchhhhhhhhhhHHHHHHHH
Confidence 346799999999999999999999999877654 4566779999999954 45566777788888888775
Q ss_pred CCCCccCCCCCCCCcCCCCCCccccccc
Q 023847 223 LTPTIEGFHPKDLGEQAFDATGMIFGSQ 250 (276)
Q Consensus 223 ~~p~~~~f~~~~~~q~~~~a~g~~~~~q 250 (276)
. |+++.+++|+|....
T Consensus 731 ~------------~~q~p~aT~vp~~r~ 746 (856)
T KOG3582|consen 731 A------------CQQPPPATGVPGTRL 746 (856)
T ss_pred H------------hhcCCCccCCcchhh
Confidence 5 899999999998887
No 13
>KOG3960 consensus Myogenic helix-loop-helix transcription factor [Transcription]
Probab=97.52 E-value=0.00024 Score=66.54 Aligned_cols=55 Identities=25% Similarity=0.356 Sum_probs=47.3
Q ss_pred cHHHHHHHHHHHHHHHHHHh-cCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHH
Q 023847 159 SLAERARREKISERMKILQD-LVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMK 213 (276)
Q Consensus 159 s~aERkRRekIne~~~~Lrs-LVP~~~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~ 213 (276)
.+-||+|=.|+||.|.+|+. -+++-+...-|..||..||+||..||.-++++...
T Consensus 123 TMRERRRLkKVNEAFE~LKRrT~~NPNQRLPKVEILRsAI~YIE~Lq~LL~~~~~~ 178 (284)
T KOG3960|consen 123 TMRERRRLKKVNEAFETLKRRTSSNPNQRLPKVEILRSAIRYIERLQALLQEQDQA 178 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCccccccHHHHHHHHHHHHHHHHHHHHHhhcc
Confidence 48899999999999999976 45666666799999999999999999988887643
No 14
>KOG4029 consensus Transcription factor HAND2/Transcription factor TAL1/TAL2/LYL1 [Transcription]
Probab=97.08 E-value=0.00048 Score=62.23 Aligned_cols=58 Identities=22% Similarity=0.311 Sum_probs=48.7
Q ss_pred cccHHHHHHHHHHHHHHHHHHhcCCCC---CCCCChhhHHHHHHHHHHHHHHHHHHHHHHH
Q 023847 157 SHSLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQRQVEFLSMKL 214 (276)
Q Consensus 157 ~Hs~aERkRRekIne~~~~LrsLVP~~---~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~l 214 (276)
.++..||.|=..+|..|..||.+||.. .|..+|..+|.-||.||++|+.-++.-+..+
T Consensus 112 ~~n~RER~Rv~~vN~~f~~Lr~~lP~~~~~~kklSKveTLr~A~~YI~~L~~lL~~~~~~~ 172 (228)
T KOG4029|consen 112 ARNARERQRVQSVNSAFAELRALLPTEPPQSKKLSKVETLRLATSYIRYLTKLLATQEAPL 172 (228)
T ss_pred hhhhhhhhcccchhhhhHHHHhcCCCCCCcccccCcccchHHHHHHHHHHHHHhcccccCC
Confidence 356779999999999999999999943 3445999999999999999999887766433
No 15
>KOG3910 consensus Helix loop helix transcription factor [Transcription]
Probab=96.30 E-value=0.007 Score=61.50 Aligned_cols=55 Identities=27% Similarity=0.247 Sum_probs=46.0
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCC---CCCCCChhhHHHHHHHHHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPG---CNKVIGKALVLDEIINYIQSLQRQVEFL 210 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~---~~K~~dKAsIL~eAIdYIk~LQ~qV~~L 210 (276)
...+..||-|=..||+.|++|-.|.-- ..|.--|..||..||.-|-.|++||++-
T Consensus 528 ~aNNARERlRVRDINeAfKELGRMCqlHlkSeKpQTKLgILhqAVsVIlsLEQQVRER 585 (632)
T KOG3910|consen 528 MANNARERLRVRDINEAFKELGRMCQLHLKSEKPQTKLGILHQAVSVILSLEQQVRER 585 (632)
T ss_pred hhhhhhhheehhhHHHHHHHHHHHHHHhhcccCcchhhhHHHHHHHHHHHHHHHHHHc
Confidence 568899999988999999999998642 2222368999999999999999999864
No 16
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=92.24 E-value=0.076 Score=46.92 Aligned_cols=49 Identities=24% Similarity=0.395 Sum_probs=43.8
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCCC--CCCCChhhHHHHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPGC--NKVIGKALVLDEIINYIQSLQR 205 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~~--~K~~dKAsIL~eAIdYIk~LQ~ 205 (276)
..|++-||+|-..+|+.|..||.++|.. .|. +|.-.|+-|-.||-+|=+
T Consensus 80 v~anvrerqRtqsLn~AF~~lr~iiptlPsdkl-SkiqtLklA~ryidfl~~ 130 (173)
T KOG4447|consen 80 VMANVRERQRTQSLNEAFAALRKIIPTLPSDKL-SKIQTLKLAARYIDFLYQ 130 (173)
T ss_pred HHHHHHHHHhhhhHHHHHHHHHhhcCCCCcccc-ccccchhhcccCCchhhh
Confidence 4699999999999999999999999964 555 999999999999988854
No 17
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=88.29 E-value=0.34 Score=51.29 Aligned_cols=47 Identities=28% Similarity=0.355 Sum_probs=38.7
Q ss_pred CcccHHHHHHHHHHHHHHHHHHhcCCCCC---CCCChhhHHHHHHHHHHH
Q 023847 156 DSHSLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQS 202 (276)
Q Consensus 156 ~~Hs~aERkRRekIne~~~~LrsLVP~~~---K~~dKAsIL~eAIdYIk~ 202 (276)
+.-.-+.|.||.|-|+-|.+|..+||--. -..|||+|+.-||-|++.
T Consensus 48 EkSRdAARsRRsKEn~~FyeLa~~lPlp~aisshLDkaSimRLtISyLRl 97 (768)
T KOG3558|consen 48 EKSRDAARSRRSKENEEFYELAKLLPLPAAISSHLDKASIMRLTISYLRL 97 (768)
T ss_pred hhhhhhhhhhcccchHHHHHHHHhCCCcchhhhhhhhHHHHHHHHHHHHH
Confidence 34447889999999999999999999332 225999999999999963
No 18
>KOG3898 consensus Transcription factor NeuroD and related HTH proteins [Transcription]
Probab=88.15 E-value=1.1 Score=41.81 Aligned_cols=47 Identities=26% Similarity=0.435 Sum_probs=40.2
Q ss_pred ccHHHHHHHHHHHHHHHHHHhcCCCC---CCCCChhhHHHHHHHHHHHHHH
Q 023847 158 HSLAERARREKISERMKILQDLVPGC---NKVIGKALVLDEIINYIQSLQR 205 (276)
Q Consensus 158 Hs~aERkRRekIne~~~~LrsLVP~~---~K~~dKAsIL~eAIdYIk~LQ~ 205 (276)
=+.-||+|=-.+|+.|+.|+.+||.. .|+ .|+.+|.-+-+||..|++
T Consensus 76 aNaRER~RMH~LNdAld~LReviP~~~~~~kl-skIetl~~a~~yi~als~ 125 (254)
T KOG3898|consen 76 ANARERTRMHDLNDALDALREVIPHGLHPPKL-SKIETLRLAANYIAALSE 125 (254)
T ss_pred ccchhhccccchhHHHHHhHhhccCcCCCCCC-CcchhHHhhhcchhhhcc
Confidence 45779999899999999999999943 344 999999999999988875
No 19
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=83.85 E-value=1.2 Score=45.16 Aligned_cols=45 Identities=27% Similarity=0.330 Sum_probs=38.2
Q ss_pred cHHHHHHHHHHHHHHHHHHhcCCCCC---CCCChhhHHHHHHHHHHHH
Q 023847 159 SLAERARREKISERMKILQDLVPGCN---KVIGKALVLDEIINYIQSL 203 (276)
Q Consensus 159 s~aERkRRekIne~~~~LrsLVP~~~---K~~dKAsIL~eAIdYIk~L 203 (276)
.-+.|.||++-|-.|.+|..|+|-.. .++||++|+.-|.-|||.-
T Consensus 6 KnaA~tRRekEN~EF~eLAklLPLa~AItsQlDKasiiRLtTsYlKmr 53 (598)
T KOG3559|consen 6 KNAARTRREKENYEFYELAKLLPLASAITSQLDKASIIRLTTSYLKMR 53 (598)
T ss_pred hhHHHHHHHhhcchHHHHHhhccchhhhhhccchhhhhhHHHHHHHHH
Confidence 35789999999999999999999442 3369999999999999854
No 20
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=75.32 E-value=2.3 Score=44.35 Aligned_cols=37 Identities=24% Similarity=0.462 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHhcCCC----CCCCCChhhHHHHHHHHHH
Q 023847 164 ARREKISERMKILQDLVPG----CNKVIGKALVLDEIINYIQ 201 (276)
Q Consensus 164 kRRekIne~~~~LrsLVP~----~~K~~dKAsIL~eAIdYIk 201 (276)
+-|+|+|-.++.|.+|+|- .+|+ ||.+||.-+|-|++
T Consensus 35 RHRdRLNaELD~lAsLLPfpqdiisKL-DkLSVLRLSVSyLr 75 (712)
T KOG3560|consen 35 RHRDRLNAELDHLASLLPFPQDIISKL-DKLSVLRLSVSYLR 75 (712)
T ss_pred hHHHHhhhHHHHHHHhcCCCHHHHhhh-hhhhhhhhhHHHHH
Confidence 4489999999999999994 3566 99999999999993
No 21
>KOG4395 consensus Transcription factor Atonal, contains HTH domain [Transcription]
Probab=67.97 E-value=8.8 Score=36.65 Aligned_cols=51 Identities=24% Similarity=0.285 Sum_probs=42.3
Q ss_pred cccHHHHHHHHHHHHHHHHHHhcCCCCC--CCCChhhHHHHHHHHHHHHHHHH
Q 023847 157 SHSLAERARREKISERMKILQDLVPGCN--KVIGKALVLDEIINYIQSLQRQV 207 (276)
Q Consensus 157 ~Hs~aERkRRekIne~~~~LrsLVP~~~--K~~dKAsIL~eAIdYIk~LQ~qV 207 (276)
+-+..||+|=..+|..|+.|+.+||... +..+|-..|+.+-.||--|-...
T Consensus 177 aanarErrrm~gLN~AfD~Lr~v~p~~~~d~~LSkyetLqmaq~yi~~l~~~l 229 (285)
T KOG4395|consen 177 AANARERRRMNGLNSAFDRLRLVVPDGDSDKKLSKYETLQMAQGYILALGCLL 229 (285)
T ss_pred ccchHHHHHhhhHHHHHHHHHHhcCCCCccchhhhhhHHHHHHHHHhhhHHhh
Confidence 4568899999999999999999999653 22489999999999998776544
No 22
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=61.58 E-value=14 Score=29.11 Aligned_cols=25 Identities=28% Similarity=0.340 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 023847 193 LDEIINYIQSLQRQVEFLSMKLEAV 217 (276)
Q Consensus 193 L~eAIdYIk~LQ~qV~~Le~~le~l 217 (276)
++.||+-|.-||.+|++|+++...|
T Consensus 13 iqqAvdTI~LLQmEieELKEknn~l 37 (79)
T COG3074 13 VQQAIDTITLLQMEIEELKEKNNSL 37 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHh
Confidence 5678888888888888888776644
No 23
>PRK00846 hypothetical protein; Provisional
Probab=61.00 E-value=66 Score=25.29 Aligned_cols=47 Identities=15% Similarity=0.147 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHH-----------HHHHHHHHHHHHHHHHHHhccc
Q 023847 165 RREKISERMKILQDLVPGCNKVIGKALVLDEIINY-----------IQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 165 RRekIne~~~~LrsLVP~~~K~~dKAsIL~eAIdY-----------Ik~LQ~qV~~Le~~le~ln~~~ 221 (276)
|-+.+.++|..|..- ....+++|+- |..|+++++.|..++.++.+..
T Consensus 7 ~~~~le~Ri~~LE~r----------lAfQe~tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~~s~ 64 (77)
T PRK00846 7 RDQALEARLVELETR----------LSFQEQALTELSEALADARLTGARNAELIRHLLEDLGKVRSTL 64 (77)
T ss_pred HHhhHHHHHHHHHHH----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 445677777777653 3444444443 3556667777777777766544
No 24
>PRK15422 septal ring assembly protein ZapB; Provisional
Probab=57.14 E-value=19 Score=28.62 Aligned_cols=29 Identities=24% Similarity=0.291 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 192 VLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 192 IL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
-++.|||-|.-||.+|++|+++...+...
T Consensus 12 KIqqAvdtI~LLqmEieELKekn~~L~~e 40 (79)
T PRK15422 12 KVQQAIDTITLLQMEIEELKEKNNSLSQE 40 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999999999999999887776554
No 25
>PRK13729 conjugal transfer pilus assembly protein TraB; Provisional
Probab=57.09 E-value=99 Score=31.93 Aligned_cols=56 Identities=11% Similarity=0.128 Sum_probs=39.3
Q ss_pred cccHHHHH-HHHHHHHHHHHHHhcCCCCCCCCChh---hHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 157 SHSLAERA-RREKISERMKILQDLVPGCNKVIGKA---LVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 157 ~Hs~aERk-RRekIne~~~~LrsLVP~~~K~~dKA---sIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
.+.+.|+. +...+..+|..|+. +.. ..+++.-.-|+.|+.+++.|+.+++++....
T Consensus 68 qSALteqQ~kasELEKqLaaLrq---------Elq~~saq~~dle~KIkeLEaE~~~Lk~Ql~a~~~~~ 127 (475)
T PRK13729 68 QHATTEMQVTAAQMQKQYEEIRR---------ELDVLNKQRGDDQRRIEKLGQDNAALAEQVKALGANP 127 (475)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------HHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHhhhcCC
Confidence 35677777 67888888888853 222 4455666677788888888888887665544
No 26
>KOG3582 consensus Mlx interactors and related transcription factors [Transcription]
Probab=56.96 E-value=3.8 Score=43.80 Aligned_cols=61 Identities=16% Similarity=0.215 Sum_probs=51.0
Q ss_pred CCCcccHHHHHHHHHHHHHHHHHHhcCCCC----CCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 023847 154 ATDSHSLAERARREKISERMKILQDLVPGC----NKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAV 217 (276)
Q Consensus 154 a~~~Hs~aERkRRekIne~~~~LrsLVP~~----~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~l 217 (276)
....|+-++|++|-.+.++|..|-.|.|.. .+..++++||. +.|+.+++.-+.+.++++..
T Consensus 787 v~a~sih~lrr~~~~~~dq~~sL~alrp~v~~~~~ql~S~tS~L~---dp~~~~eq~ska~~e~~~~k 851 (856)
T KOG3582|consen 787 VSAGSIHALRRTRLNWLDQFCSLPALRPQVLLNLRQLLSSTSILT---DPIKQPEQASKAVTEKIEGK 851 (856)
T ss_pred eecchHHHHHHHHHHHhhccccHHHHHHHHHhhHHHhhhhhhccc---CcccchHHHHHHHHhhhhhh
Confidence 335688899999999999999999999943 34468999999 99999999999888877653
No 27
>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=55.48 E-value=24 Score=27.21 Aligned_cols=26 Identities=23% Similarity=0.238 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023847 193 LDEIINYIQSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 193 L~eAIdYIk~LQ~qV~~Le~~le~ln 218 (276)
++.||+-|..||.+|++|+.+...+.
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 56889999999999999988755543
No 28
>smart00338 BRLZ basic region leucin zipper.
Probab=48.50 E-value=21 Score=26.04 Aligned_cols=24 Identities=29% Similarity=0.347 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 197 INYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 197 IdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
-.||..|+.+|+.|+.+.+.|...
T Consensus 25 k~~~~~Le~~~~~L~~en~~L~~~ 48 (65)
T smart00338 25 KAEIEELERKVEQLEAENERLKKE 48 (65)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555555555443
No 29
>KOG4447 consensus Transcription factor TWIST [Transcription]
Probab=43.67 E-value=15 Score=32.86 Aligned_cols=45 Identities=29% Similarity=0.349 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCC-CChhhHHHHHHHHHHHHHH
Q 023847 161 AERARREKISERMKILQDLVPGCNKV-IGKALVLDEIINYIQSLQR 205 (276)
Q Consensus 161 aERkRRekIne~~~~LrsLVP~~~K~-~dKAsIL~eAIdYIk~LQ~ 205 (276)
.|+.|..++++.+..|+.|+|+.... +.+.-.|.-+-+||++|.+
T Consensus 29 ~e~~R~~~ls~~s~l~g~l~pgspa~gk~~~ktlr~~~~~~~~~dE 74 (173)
T KOG4447|consen 29 KERGRKRRLSDASTLLGKLEPGSPADGKRGKKTLRIGTDSIQSLDE 74 (173)
T ss_pred HHHhHHhhhhhhhhhccccCCCCCCcccccccccccCCCchhhHHH
Confidence 58888899999999999999976432 1333335556666655543
No 30
>PF13870 DUF4201: Domain of unknown function (DUF4201)
Probab=41.00 E-value=1.4e+02 Score=25.68 Aligned_cols=59 Identities=20% Similarity=0.282 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCCCCChhhH--HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 160 LAERARREKISERMKILQDLVPGCNKVIGKALV--LDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 160 ~aERkRRekIne~~~~LrsLVP~~~K~~dKAsI--L~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
...+..|+++......|+.--...... +.+ .+.+++++..|+..|+.|+.+++.+..++
T Consensus 115 ~~~k~~r~k~~~~~~~l~~~~~~~~~P---~ll~Dy~~~~~~~~~l~~~i~~l~rk~~~l~~~i 175 (177)
T PF13870_consen 115 YRVKKERDKLRKQNKKLRQQGGLLGVP---ALLRDYDKTKEEVEELRKEIKELERKVEILEMRI 175 (177)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCCCc---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 344556677777777776543332221 222 57889999999999999999998887654
No 31
>PF10393 Matrilin_ccoil: Trimeric coiled-coil oligomerisation domain of matrilin; InterPro: IPR019466 This entry represents a short domain found the matrilin (cartilage matrix) proteins. It forms a coiled coil structure and contains a single cysteine residue at its start which is likely to form a di-sulphide bridge with a corresponding cysteine in an upstream EGF domain (IPR006209 from INTERPRO), thereby spanning the VWA domain of the protein (IPR002035 from INTERPRO).This domain is likely to be responsible for protein trimerisation []. ; PDB: 1AQ5_C.
Probab=40.82 E-value=61 Score=23.28 Aligned_cols=32 Identities=25% Similarity=0.473 Sum_probs=26.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 190 ALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 190 AsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
...-.++-.+|+.|..++..+..+++.++-++
T Consensus 15 v~FQ~~v~~~lq~Lt~kL~~vs~RLe~LEn~~ 46 (47)
T PF10393_consen 15 VAFQNKVTSALQSLTQKLDAVSKRLEALENRL 46 (47)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 45567888999999999999999999987653
No 32
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=39.51 E-value=65 Score=26.03 Aligned_cols=31 Identities=26% Similarity=0.269 Sum_probs=24.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 023847 189 KALVLDEIINYIQSLQRQVEFLSMKLEAVNS 219 (276)
Q Consensus 189 KAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~ 219 (276)
...=+.++-+=|+.|...+..|+|+|.+..+
T Consensus 64 i~~eV~kTh~aIq~LdKtIS~LEMELAaARa 94 (95)
T PF13334_consen 64 IMGEVSKTHEAIQSLDKTISSLEMELAAARA 94 (95)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3444577888899999999999999987654
No 33
>PF09006 Surfac_D-trimer: Lung surfactant protein D coiled-coil trimerisation; InterPro: IPR015097 This domain is found in the SFTPD family, which includes lung surfactant protein D (SFTPD), conglutinin, collectin-43 and collectin-46. It forms a triple-helical parallel coiled coil, and mediates trimerisation of the protein []. ; PDB: 4DN8_A 3G84_A 2RIE_C 3IKR_B 1B08_A 2GGX_B 2OS9_C 2ORK_B 1PWB_A 2RIA_C ....
Probab=39.39 E-value=33 Score=24.73 Aligned_cols=22 Identities=27% Similarity=0.454 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHhccc
Q 023847 200 IQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 200 Ik~LQ~qV~~Le~~le~ln~~~ 221 (276)
|..|++||..|+.++..|...+
T Consensus 1 i~aLrqQv~aL~~qv~~Lq~~f 22 (46)
T PF09006_consen 1 INALRQQVEALQGQVQRLQAAF 22 (46)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHH
Confidence 4578888888888888776654
No 34
>PF08826 DMPK_coil: DMPK coiled coil domain like; InterPro: IPR014930 This domain is found in the myotonic dystrophy protein kinase (DMPK) and adopts a coiled coil structure. It plays a role in dimerisation []. ; GO: 0004674 protein serine/threonine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1WT6_D.
Probab=38.99 E-value=65 Score=24.24 Aligned_cols=53 Identities=23% Similarity=0.313 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Q 023847 161 AERARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNS 219 (276)
Q Consensus 161 aERkRRekIne~~~~LrsLVP~~~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~ 219 (276)
+|-+-+..|.+.+...+. .+ ..-..-|+++=...+.|+.+|+.|+.+++.+.+
T Consensus 8 ~EirakQ~~~eEL~kvk~----~n--~~~e~kLqeaE~rn~eL~~ei~~L~~e~ee~r~ 60 (61)
T PF08826_consen 8 AEIRAKQAIQEELTKVKS----AN--LAFESKLQEAEKRNRELEQEIERLKKEMEELRS 60 (61)
T ss_dssp HHHHHHHHHHHHHHHHHH----HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHH----HH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 455556666666655543 11 134567999999999999999999999998764
No 35
>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=38.48 E-value=38 Score=24.64 Aligned_cols=18 Identities=22% Similarity=0.422 Sum_probs=8.0
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 023847 161 AERARREKISERMKILQD 178 (276)
Q Consensus 161 aERkRRekIne~~~~Lrs 178 (276)
+-|+=|.+-...+..|..
T Consensus 16 AAr~~R~RKk~~~~~Le~ 33 (64)
T PF00170_consen 16 AARRSRQRKKQYIEELEE 33 (64)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhHHHHHH
Confidence 333334444444444443
No 36
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=37.46 E-value=62 Score=23.73 Aligned_cols=41 Identities=22% Similarity=0.400 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHH
Q 023847 163 RARREKISERMKILQDLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLS 211 (276)
Q Consensus 163 RkRRekIne~~~~LrsLVP~~~K~~dKAsIL~eAIdYIk~LQ~qV~~Le 211 (276)
|.-|-.+...+.++..++--.. .++|.+||+.+-.+++.+.
T Consensus 17 R~~RHD~~NhLqvI~gllqlg~--------~~~a~eYi~~~~~~~~~~s 57 (62)
T PF14689_consen 17 RAQRHDFLNHLQVIYGLLQLGK--------YEEAKEYIKELSKDLQQES 57 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT---------HHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHHCCC--------HHHHHHHHHHHHHHHHHHH
Confidence 5557777888888888775332 3588999999998888874
No 37
>PF03195 DUF260: Protein of unknown function DUF260; InterPro: IPR004883 The lateral organ boundaries (LOB) gene is expressed at the adaxial base of initiating lateral organs and encodes a plant-specific protein of unknown function. The N-terminal one half of the LOB protein contains a conserved approximately 100-amino acid domain (the LOB domain) that is present in 42 other Arabidopsis thaliana proteins and in proteins from a variety of other plant species. Genes encoding LOB domain (LBD) proteins are expressed in a variety of temporal- and tissue-specific patterns, suggesting that they may function in diverse processes [] The LOB domain contains conserved blocks of amino acids that identify the LBD gene family. In particular, a conserved C-x(2)-C-x(6)-C-x(3)-C motif, which is defining feature of the LOB domain, is present in all LBD proteins. It is possible that this motif forms a new zinc finger [].
Probab=37.43 E-value=1.2e+02 Score=24.74 Aligned_cols=63 Identities=25% Similarity=0.314 Sum_probs=41.1
Q ss_pred ccHHHHHHH-------HHHHHHHHHHHhcCCCCCCCCChhhHHHHH-----------HHHHHHHHHHHHHHHHHHHHHhc
Q 023847 158 HSLAERARR-------EKISERMKILQDLVPGCNKVIGKALVLDEI-----------INYIQSLQRQVEFLSMKLEAVNS 219 (276)
Q Consensus 158 Hs~aERkRR-------ekIne~~~~LrsLVP~~~K~~dKAsIL~eA-----------IdYIk~LQ~qV~~Le~~le~ln~ 219 (276)
+..+++..+ .....-++.|+.+-|.-... --.+|+.+| +..|..||.+++.++.++..+..
T Consensus 21 yFP~~~~~~F~~vhkvFG~sni~k~L~~~~~~~R~~-a~~Sl~yEA~~R~~dPv~Gc~G~i~~L~~ql~~~~~el~~~~~ 99 (101)
T PF03195_consen 21 YFPADQPQRFANVHKVFGVSNISKMLQELPPEQRED-AMRSLVYEANARARDPVYGCVGIISQLQQQLQQLQAELALVRA 99 (101)
T ss_pred CCChhHHHHHHHHHHHHchhHHHHHHHhCCccchhh-HHHHHHHHHHhhccCCCcchHHHHHHHHHHHHHHHHHHHHHHc
Confidence 445565444 33455667888875544332 224455444 67789999999999999988876
Q ss_pred cc
Q 023847 220 RM 221 (276)
Q Consensus 220 ~~ 221 (276)
.|
T Consensus 100 ~l 101 (101)
T PF03195_consen 100 QL 101 (101)
T ss_pred cC
Confidence 53
No 38
>PRK14127 cell division protein GpsB; Provisional
Probab=33.69 E-value=67 Score=26.77 Aligned_cols=31 Identities=19% Similarity=0.389 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 191 LVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 191 sIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
..|+..|+-+..|..++..|++++..++.++
T Consensus 30 ~FLd~V~~dye~l~~e~~~Lk~e~~~l~~~l 60 (109)
T PRK14127 30 KFLDDVIKDYEAFQKEIEELQQENARLKAQV 60 (109)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3577777666555555555555554444443
No 39
>KOG0139 consensus Short-chain acyl-CoA dehydrogenase [Lipid transport and metabolism]
Probab=31.97 E-value=55 Score=32.87 Aligned_cols=27 Identities=37% Similarity=0.559 Sum_probs=22.8
Q ss_pred HHHHHHHHH-------------HHHHHHHHHHHHHHHHHh
Q 023847 192 VLDEIINYI-------------QSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 192 IL~eAIdYI-------------k~LQ~qV~~Le~~le~ln 218 (276)
-++.||+|+ +.||.|+..++.++|+..
T Consensus 288 c~d~tI~Y~q~R~~FGk~l~d~Q~iQhqiA~~~teiEaaR 327 (398)
T KOG0139|consen 288 CFDETIPYAQERLQFGKRLLDFQGLQHQIADMATEIEAAR 327 (398)
T ss_pred HHHhhhHHHHHHHHhcchhhhHHHHHHHHHHHHHHHHHHH
Confidence 368999998 459999999999998864
No 40
>PF11336 DUF3138: Protein of unknown function (DUF3138); InterPro: IPR021485 This family of proteins with unknown function appear to be restricted to Proteobacteria.
Probab=30.59 E-value=83 Score=32.45 Aligned_cols=28 Identities=18% Similarity=0.347 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcccCCC
Q 023847 197 INYIQSLQRQVEFLSMKLEAVNSRMNLT 224 (276)
Q Consensus 197 IdYIk~LQ~qV~~Le~~le~ln~~~~~~ 224 (276)
-+-|+.||.|++.|+.++.+|+..+...
T Consensus 24 a~~i~~L~~ql~aLq~~v~eL~~~laa~ 51 (514)
T PF11336_consen 24 ADQIKALQAQLQALQDQVNELRAKLAAK 51 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 3557777888888887777777776443
No 41
>PF02185 HR1: Hr1 repeat; InterPro: IPR000861 The HR1 repeat was first described as a three times repeated homology region of the N-terminal non-catalytic part of protein kinase PRK1(PKN) []. The first two of these repeats were later shown to bind the small G protein rho [, ] known to activate PKN in its GTP-bound form. Similar rho-binding domains also occur in a number of other protein kinases and in the rho-binding proteins rhophilin and rhotekin. Recently, the structure of the N-terminal HR1 repeat complexed with RhoA has been determined by X-ray crystallography []. It forms an antiparallel coiled-coil fold termed an ACC finger. This entry includes domains found within rho-associated protein kinases.; GO: 0007165 signal transduction, 0005622 intracellular; PDB: 1CXZ_B 3O0Z_C 2RMK_B 1URF_A.
Probab=30.31 E-value=2.3e+02 Score=20.94 Aligned_cols=34 Identities=26% Similarity=0.387 Sum_probs=26.8
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 188 GKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 188 dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
++..++..+-.=|......+..|+++|+.++...
T Consensus 30 ~~~~~~~~~~~~l~~s~~kI~~L~~~L~~l~~~~ 63 (70)
T PF02185_consen 30 DKKKVLSEAESQLRESNQKIELLREQLEKLQQRS 63 (70)
T ss_dssp HHCH-HHHHHHHHHHHHHHHHHHHHHHHHHHCCH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5555788888888888889999998888887654
No 42
>PRK04406 hypothetical protein; Provisional
Probab=30.30 E-value=1.9e+02 Score=22.35 Aligned_cols=23 Identities=17% Similarity=0.309 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHH
Q 023847 168 KISERMKILQDLVPGCNKVIGKALVLDEIINYI 200 (276)
Q Consensus 168 kIne~~~~LrsLVP~~~K~~dKAsIL~eAIdYI 200 (276)
.+.++|..|.. |.+.++++|+-+
T Consensus 8 ~le~Ri~~LE~----------~lAfQE~tIe~L 30 (75)
T PRK04406 8 QLEERINDLEC----------QLAFQEQTIEEL 30 (75)
T ss_pred HHHHHHHHHHH----------HHHHHHHHHHHH
Confidence 35666666654 455566666554
No 43
>PRK02793 phi X174 lysis protein; Provisional
Probab=30.12 E-value=2e+02 Score=21.91 Aligned_cols=19 Identities=26% Similarity=0.438 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHHhc
Q 023847 201 QSLQRQVEFLSMKLEAVNS 219 (276)
Q Consensus 201 k~LQ~qV~~Le~~le~ln~ 219 (276)
..|+++++.|..++..+..
T Consensus 39 ~~L~~~l~~L~~rl~~~~~ 57 (72)
T PRK02793 39 AKLRDHLRLLTEKLKASQP 57 (72)
T ss_pred HHHHHHHHHHHHHHHhhcc
Confidence 4455556666555555543
No 44
>PF14197 Cep57_CLD_2: Centrosome localisation domain of PPC89
Probab=29.47 E-value=1e+02 Score=23.48 Aligned_cols=29 Identities=21% Similarity=0.206 Sum_probs=24.6
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 023847 190 ALVLDEIINYIQSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 190 AsIL~eAIdYIk~LQ~qV~~Le~~le~ln 218 (276)
+.=|+.++.-+..|+.+++.|+.+++...
T Consensus 39 ~~~l~~a~~e~~~Lk~E~e~L~~el~~~r 67 (69)
T PF14197_consen 39 ERQLGDAYEENNKLKEENEALRKELEELR 67 (69)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 55588999999999999999999887653
No 45
>PF13815 Dzip-like_N: Iguana/Dzip1-like DAZ-interacting protein N-terminal
Probab=29.46 E-value=83 Score=25.77 Aligned_cols=29 Identities=24% Similarity=0.378 Sum_probs=19.8
Q ss_pred hHHHHHHHHH----HHHHHHHHHHHHHHHHHhc
Q 023847 191 LVLDEIINYI----QSLQRQVEFLSMKLEAVNS 219 (276)
Q Consensus 191 sIL~eAIdYI----k~LQ~qV~~Le~~le~ln~ 219 (276)
-++|-+|+|+ ++|..++..|+.++..++.
T Consensus 62 rLaQl~ieYLl~~q~~L~~~~~~l~~~~~~~~~ 94 (118)
T PF13815_consen 62 RLAQLSIEYLLHCQEYLSSQLEQLEERLQELQQ 94 (118)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5689999998 4555666666666655543
No 46
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=29.31 E-value=4e+02 Score=25.12 Aligned_cols=36 Identities=17% Similarity=0.302 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHHHhcccCCCCCccCCCCCCCCc
Q 023847 200 IQSLQRQVEFLSMKLEAVNSRMNLTPTIEGFHPKDLGE 237 (276)
Q Consensus 200 Ik~LQ~qV~~Le~~le~ln~~~~~~p~~~~f~~~~~~q 237 (276)
||.|+.+|++|+.+|.+....- .+.-..|....++.
T Consensus 57 L~~a~~ri~eLe~ql~q~~~~~--~~~~ggFL~~lfG~ 92 (247)
T PF09849_consen 57 LKQAQARIQELEAQLQQAQAPQ--AQSSGGFLSGLFGG 92 (247)
T ss_pred HHHHHHHHHHHHHHHHhhcccc--CCCCCcchhhhcCC
Confidence 5788999999999987643322 22344555544543
No 47
>PF02996 Prefoldin: Prefoldin subunit; InterPro: IPR004127 This entry comprises of several prefoldin subunits. Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal alpha subunit, eukaryotic prefoldin subunits 3 and 5 and the UXT (ubiquitously expressed transcript) family. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 1FXK_C 2ZDI_C.
Probab=29.09 E-value=85 Score=24.89 Aligned_cols=29 Identities=28% Similarity=0.581 Sum_probs=22.0
Q ss_pred HHHHHHHH----HHHHHHHHHHHHHHHHHhccc
Q 023847 193 LDEIINYI----QSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 193 L~eAIdYI----k~LQ~qV~~Le~~le~ln~~~ 221 (276)
+++|++|+ +.|+.+.+.|+..+..++.++
T Consensus 75 ~~eA~~~l~~r~~~l~~~~~~l~~~~~~~~~~~ 107 (120)
T PF02996_consen 75 LEEAIEFLKKRIKELEEQLEKLEKELAELQAQI 107 (120)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 78888887 677777777777777776655
No 48
>PF07544 Med9: RNA polymerase II transcription mediator complex subunit 9; InterPro: IPR011425 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. This entry represents subunit Med9 of the Mediator complex. Subunit Med9 is part of the middle module of the Mediator complex []; this associates with the core polymerase subunits to form the RNA polymerase II holoenzyme. Med9 alternatively known as the chromosome segregation protein, CSE2 (P33308 from SWISSPROT) is required, along with CSE1 (P33307 from SWISSPROT) for accurate mitotic chromosome segregation in Saccharomyces cerevisiae (Baker's yeast) [].; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=28.21 E-value=1.6e+02 Score=22.87 Aligned_cols=28 Identities=21% Similarity=0.260 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 193 LDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 193 L~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
+++--++|+.|+++++....-+..+..+
T Consensus 54 ~eeq~~~i~~Le~~i~~k~~~L~~~~~~ 81 (83)
T PF07544_consen 54 VEEQEEEIEELEEQIRKKREVLQKFKER 81 (83)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5677788999999998888777766543
No 49
>PF07716 bZIP_2: Basic region leucine zipper; InterPro: IPR011700 The basic-leucine zipper (bZIP) transcription factors [, ] of eukaryotes are proteins that contain a basic region mediating sequence-specific DNA-binding, followed by a leucine zipper region (see IPR002158 from INTERPRO), which is 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: 1NWQ_A 1H89_B 1H88_A 1GTW_B 2E43_A 1IO4_A 1GU4_B 2E42_A 1H8A_B 1GU5_B ....
Probab=28.00 E-value=74 Score=22.50 Aligned_cols=19 Identities=21% Similarity=0.232 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 023847 199 YIQSLQRQVEFLSMKLEAV 217 (276)
Q Consensus 199 YIk~LQ~qV~~Le~~le~l 217 (276)
|+..|+.+|..|+.++..|
T Consensus 26 ~~~~le~~~~~L~~en~~L 44 (54)
T PF07716_consen 26 REEELEQEVQELEEENEQL 44 (54)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3444444444444444333
No 50
>PRK02119 hypothetical protein; Provisional
Probab=27.30 E-value=2.4e+02 Score=21.61 Aligned_cols=18 Identities=22% Similarity=0.494 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 023847 201 QSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 201 k~LQ~qV~~Le~~le~ln 218 (276)
..|+++++.|..++..+.
T Consensus 40 d~L~~ql~~L~~rl~~~~ 57 (73)
T PRK02119 40 DKMQVQLRYMANKLKDMQ 57 (73)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 344555555555554443
No 51
>PF09789 DUF2353: Uncharacterized coiled-coil protein (DUF2353); InterPro: IPR019179 Members of this family have been annotated as being coiled-coil domain-containing protein 149, however they currently have no known function.
Probab=25.92 E-value=2.4e+02 Score=27.64 Aligned_cols=60 Identities=22% Similarity=0.277 Sum_probs=39.9
Q ss_pred HHHHHH--HHHHHHHHHHHH---------hcCCCCCCCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 160 LAERAR--REKISERMKILQ---------DLVPGCNKVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 160 ~aERkR--RekIne~~~~Lr---------sLVP~~~K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
++|+-+ ...++.....|. ++.|...+. .=+.+|.++-+-.+.|+.+|..|..++.++.--
T Consensus 31 MAEqLqer~q~LKkk~~el~~~~~~~~d~~~~~~~~~~-~La~lL~~sre~Nk~L~~Ev~~Lrqkl~E~qGD 101 (319)
T PF09789_consen 31 MAEQLQERYQALKKKYRELIQEAAGFGDPSIPPEKENK-NLAQLLSESREQNKKLKEEVEELRQKLNEAQGD 101 (319)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhcccCCccCCcccchh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhch
Confidence 444433 355666565555 222322222 457889999999999999999999988776543
No 52
>PF05103 DivIVA: DivIVA protein; InterPro: IPR007793 The Bacillus subtilis divIVA1 mutation causes misplacement of the septum during cell division, resulting in the formation of small, circular, anucleate minicells []. Inactivation of divIVA produces a minicell phenotype, whereas overproduction of DivIVA results in a filamentation phenotype []. These proteins appear to contain coiled-coils.; PDB: 2WUK_C 2WUJ_A.
Probab=25.28 E-value=88 Score=25.13 Aligned_cols=31 Identities=26% Similarity=0.404 Sum_probs=23.8
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 191 LVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 191 sIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
..|+..++.|..|+.++..|..+++.|+..+
T Consensus 25 ~fl~~l~~~~~~l~~e~~~L~~~~~~l~~~l 55 (131)
T PF05103_consen 25 DFLDELAEELERLQRENAELKEEIEELQAQL 55 (131)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCCCCT-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 4577778888888888888888888877766
No 53
>PRK14066 exodeoxyribonuclease VII small subunit; Provisional
Probab=23.60 E-value=2.7e+02 Score=21.58 Aligned_cols=52 Identities=10% Similarity=0.142 Sum_probs=38.0
Q ss_pred HHHHHHHHHhcCCCCC----CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 169 ISERMKILQDLVPGCN----KVIGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 169 Ine~~~~LrsLVP~~~----K~~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
+-+.|..|..||-... .+-+-....+++|.++++.+..+..-+.+++.+...
T Consensus 6 fEeal~~LE~IV~~LE~g~l~Leesl~lyeeG~~L~k~C~~~L~~ae~kv~~l~~~ 61 (75)
T PRK14066 6 FETALKKLEEVVKKLEGGELSLDDSLKAFEEGVKHAAFCSKKLDEAERRVEVLLKQ 61 (75)
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 5567777888775332 222335667899999999999999999998887543
No 54
>PF07334 IFP_35_N: Interferon-induced 35 kDa protein (IFP 35) N-terminus; InterPro: IPR009938 This entry represents the N terminus of interferon-induced 35 kDa protein (IFP 35) (approximately 80 residues long), which contains a leucine zipper motif in an alpha helical configuration []. This group of proteins also includes N-myc-interactor (Nmi), a homologous interferon-induced protein.
Probab=22.89 E-value=1.4e+02 Score=23.58 Aligned_cols=29 Identities=17% Similarity=0.275 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 192 VLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 192 IL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
+|++..+.-..|++++++|++++..+...
T Consensus 1 li~ei~eEn~~Lk~eiqkle~ELq~~~~~ 29 (76)
T PF07334_consen 1 LIHEIQEENARLKEEIQKLEAELQQNKRE 29 (76)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35667777888888999888888877554
No 55
>PF01920 Prefoldin_2: Prefoldin subunit; InterPro: IPR002777 Prefoldin (PFD) is a chaperone that interacts exclusively with type II chaperonins, hetero-oligomers lacking an obligate co-chaperonin that are found only in eukaryotes (chaperonin-containing T-complex polypeptide-1 (CCT)) and archaea. Eukaryotic PFD is a multi-subunit complex containing six polypeptides in the molecular mass range of 14-23 kDa. In archaea, on the other hand, PFD is composed of two types of subunits, two alpha and four beta. The six subunits associate to form two back-to-back up-and-down eight-stranded barrels, from which hang six coiled coils. Each subunit contributes one (beta subunits) or two (alpha subunits) beta hairpin turns to the barrels. The coiled coils are formed by the N and C termini of an individual subunit. Overall, this unique arrangement resembles a jellyfish. The eukaryotic PFD hexamer is composed of six different subunits; however, these can be grouped into two alpha-like (PFD3 and -5) and four beta-like (PFD1, -2, -4, and -6) subunits based on amino acid sequence similarity with their archaeal counterparts. Eukaryotic PFD has a six-legged structure similar to that seen in the archaeal homologue [, ]. This family contains the archaeal beta subunit, eukaryotic prefoldin subunits 1, 2, 4 and 6. Eukaryotic PFD has been shown to bind both actin and tubulin co-translationally. The chaperone then delivers the target protein to CCT, interacting with the chaperonin through the tips of the coiled coils. No authentic target proteins of any archaeal PFD have been identified, to date.; GO: 0051082 unfolded protein binding, 0006457 protein folding, 0016272 prefoldin complex; PDB: 2ZDI_B 3AEI_B 2ZQM_A 1FXK_A.
Probab=22.10 E-value=71 Score=24.56 Aligned_cols=54 Identities=17% Similarity=0.279 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhcCCCC--CCC-------CChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 167 EKISERMKILQDLVPGC--NKV-------IGKALVLDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 167 ekIne~~~~LrsLVP~~--~K~-------~dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
..+...+.+|..+-|.. -+. .++..++..--+.++.|+.++..|+..++.+...
T Consensus 29 ~~~~~~~~eL~~l~~~~~~y~~vG~~fv~~~~~~~~~~L~~~~~~~~~~i~~l~~~~~~l~~~ 91 (106)
T PF01920_consen 29 RELELTLEELEKLDDDRKVYKSVGKMFVKQDKEEAIEELEERIEKLEKEIKKLEKQLKYLEKK 91 (106)
T ss_dssp HHHHHHHHHHHTSSTT-EEEEEETTEEEEEEHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCCcchhHHHHhHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 36777888888876652 111 2666666666666666666666666655555443
No 56
>PRK00736 hypothetical protein; Provisional
Probab=21.66 E-value=3.6e+02 Score=20.32 Aligned_cols=30 Identities=7% Similarity=0.315 Sum_probs=15.3
Q ss_pred hhhHHHHHHHHH-----------HHHHHHHHHHHHHHHHHh
Q 023847 189 KALVLDEIINYI-----------QSLQRQVEFLSMKLEAVN 218 (276)
Q Consensus 189 KAsIL~eAIdYI-----------k~LQ~qV~~Le~~le~ln 218 (276)
|...++++|+-+ ..|+++++.|..++..+.
T Consensus 13 klafqe~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00736 13 RVAEQEKTIEELSDQLAEQWKTVEQMRKKLDALTERFLSLE 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 445555555544 344555555555554443
No 57
>PHA03386 P10 fibrous body protein; Provisional
Probab=21.55 E-value=1.7e+02 Score=24.05 Aligned_cols=15 Identities=33% Similarity=0.527 Sum_probs=7.6
Q ss_pred ChhhHHHHHHHHHHH
Q 023847 188 GKALVLDEIINYIQS 202 (276)
Q Consensus 188 dKAsIL~eAIdYIk~ 202 (276)
+|-+||--+..-|+.
T Consensus 2 SKpnILl~Ir~dIka 16 (94)
T PHA03386 2 SKPSVLTQILDAVQE 16 (94)
T ss_pred CcchHHHHHHHHHHH
Confidence 455555555555544
No 58
>PF03961 DUF342: Protein of unknown function (DUF342); InterPro: IPR005646 This family of bacterial proteins has no known function. The proteins are in the region of 500-600 amino acid residues in length.
Probab=21.37 E-value=2.8e+02 Score=27.55 Aligned_cols=34 Identities=15% Similarity=0.234 Sum_probs=27.7
Q ss_pred ChhhHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Q 023847 188 GKALVLDEIINYIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 188 dKAsIL~eAIdYIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
.+-..++...+..+.|.++++.|+.++..+...+
T Consensus 372 ~~~~~~~~l~~~~~~l~~~~~~l~~~~~~l~~~l 405 (451)
T PF03961_consen 372 EKKEQLKKLKEKKKELKEELKELKEELKELKEEL 405 (451)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5667788888888888888888888888887766
No 59
>PF11853 DUF3373: Protein of unknown function (DUF3373); InterPro: IPR021803 This family of proteins are functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 472 to 574 amino acids in length.
Probab=21.08 E-value=1.5e+02 Score=30.80 Aligned_cols=23 Identities=30% Similarity=0.511 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhccc
Q 023847 199 YIQSLQRQVEFLSMKLEAVNSRM 221 (276)
Q Consensus 199 YIk~LQ~qV~~Le~~le~ln~~~ 221 (276)
=|..|++|+++|+++++.++.++
T Consensus 32 kie~L~kql~~Lk~q~~~l~~~v 54 (489)
T PF11853_consen 32 KIEALKKQLEELKAQQDDLNDRV 54 (489)
T ss_pred HHHHHHHHHHHHHHhhccccccc
Confidence 47788888888888877666654
No 60
>PRK14011 prefoldin subunit alpha; Provisional
Probab=20.63 E-value=1.6e+02 Score=25.44 Aligned_cols=28 Identities=18% Similarity=0.259 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 023847 193 LDEIINYIQSLQRQVEFLSMKLEAVNSR 220 (276)
Q Consensus 193 L~eAIdYIk~LQ~qV~~Le~~le~ln~~ 220 (276)
|+.-+.||+.|++|++.|...+..|+..
T Consensus 5 lq~~~~~l~~~~~qie~L~~si~~L~~a 32 (144)
T PRK14011 5 LQNQFMALEVYNQQVQKLQEELSSIDMM 32 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5566778888888888888888777654
No 61
>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=20.36 E-value=3.1e+02 Score=20.39 Aligned_cols=32 Identities=22% Similarity=0.329 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHhcCCCCCCCCChhhHHHHHHHHH
Q 023847 166 REKISERMKILQDLVPGCNKVIGKALVLDEIINYI 200 (276)
Q Consensus 166 RekIne~~~~LrsLVP~~~K~~dKAsIL~eAIdYI 200 (276)
-+.|++++..++.-.|.... .++.+| -|++..
T Consensus 27 a~~i~~~i~~~~~~~~~~~~--~~~~vl-aaLnla 58 (89)
T PF05164_consen 27 AELINEKINEIKKKYPKLSP--ERLAVL-AALNLA 58 (89)
T ss_dssp HHHHHHHHHHHCTTCCTSSH--HHHHHH-HHHHHH
T ss_pred HHHHHHHHHHHHHHcCCCCH--HHHHHH-HHHHHH
Confidence 36899999999999885553 355554 334333
No 62
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=20.31 E-value=1e+02 Score=22.19 Aligned_cols=16 Identities=25% Similarity=0.466 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHH
Q 023847 201 QSLQRQVEFLSMKLEA 216 (276)
Q Consensus 201 k~LQ~qV~~Le~~le~ 216 (276)
+.++++++.|+.++++
T Consensus 51 ~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 51 RRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 5555555555555544
Done!