Query 024264
Match_columns 270
No_of_seqs 113 out of 123
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 03:18:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024264.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024264hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF10494 Stk19: Serine-threoni 100.0 1.3E-63 2.9E-68 453.9 18.3 215 44-267 13-250 (250)
2 PRK03573 transcriptional regul 75.2 31 0.00067 28.1 9.1 61 62-122 43-104 (144)
3 PF02082 Rrf2: Transcriptional 73.8 4.3 9.3E-05 30.5 3.4 61 138-198 12-72 (83)
4 PF03965 Penicillinase_R: Peni 66.5 45 0.00097 26.5 8.0 58 61-120 14-77 (115)
5 PRK10265 chaperone-modulator p 65.8 7.8 0.00017 30.7 3.4 40 151-194 7-46 (101)
6 PF04492 Phage_rep_O: Bacterio 65.8 16 0.00034 29.2 5.2 72 21-95 5-85 (100)
7 PF09012 FeoC: FeoC like trans 61.4 8.2 0.00018 28.1 2.6 40 63-102 12-52 (69)
8 COG3355 Predicted transcriptio 58.9 57 0.0012 27.3 7.4 51 68-118 45-97 (126)
9 PF04079 DUF387: Putative tran 56.1 15 0.00031 31.7 3.6 113 63-184 12-126 (159)
10 COG1334 FlaG Uncharacterized f 54.8 8.8 0.00019 31.9 2.0 77 190-266 11-94 (120)
11 cd07377 WHTH_GntR Winged helix 53.2 32 0.00069 23.5 4.5 50 134-183 5-57 (66)
12 PF01372 Melittin: Melittin; 52.4 13 0.00028 22.7 1.9 24 197-220 1-24 (26)
13 PRK10870 transcriptional repre 51.4 1.3E+02 0.0029 25.7 9.0 60 63-122 69-129 (176)
14 PF08220 HTH_DeoR: DeoR-like h 48.3 22 0.00048 25.0 3.0 36 63-98 12-48 (57)
15 TIGR02010 IscR iron-sulfur clu 47.0 22 0.00048 29.1 3.2 47 150-196 24-70 (135)
16 cd07153 Fur_like Ferric uptake 45.6 30 0.00065 27.0 3.7 41 66-106 17-63 (116)
17 PF12512 DUF3717: Protein of u 45.3 10 0.00022 28.7 0.9 47 37-83 3-53 (71)
18 PRK11512 DNA-binding transcrip 44.0 1.8E+02 0.0038 23.7 8.6 59 64-122 53-112 (144)
19 TIGR00738 rrf2_super rrf2 fami 42.0 23 0.0005 28.3 2.6 52 146-197 20-71 (132)
20 PF03646 FlaG: FlaG protein; 41.3 23 0.0005 27.9 2.4 33 234-266 50-82 (107)
21 smart00550 Zalpha Z-DNA-bindin 41.2 65 0.0014 23.4 4.6 60 134-194 6-65 (68)
22 PF05732 RepL: Firmicute plasm 37.5 87 0.0019 27.0 5.6 94 91-194 20-116 (165)
23 PF01475 FUR: Ferric uptake re 37.1 36 0.00078 27.0 3.0 37 66-102 24-66 (120)
24 smart00347 HTH_MARR helix_turn 36.2 1.7E+02 0.0037 21.3 7.5 57 66-122 25-82 (101)
25 PRK00135 scpB segregation and 36.1 81 0.0018 27.9 5.3 107 66-183 21-133 (188)
26 PRK10857 DNA-binding transcrip 35.4 49 0.0011 28.5 3.7 46 149-194 23-68 (164)
27 PRK08452 flagellar protein Fla 35.3 33 0.00072 28.5 2.5 46 221-266 51-98 (124)
28 PF13463 HTH_27: Winged helix 34.7 1.2E+02 0.0027 20.9 5.2 45 68-112 21-66 (68)
29 PRK08868 flagellar protein Fla 33.4 38 0.00083 29.0 2.6 33 234-266 84-116 (144)
30 PF13591 MerR_2: MerR HTH fami 32.8 72 0.0016 24.2 3.9 37 155-196 4-40 (84)
31 cd05029 S-100A6 S-100A6: S-100 32.7 1.1E+02 0.0025 23.3 5.0 45 133-177 10-58 (88)
32 TIGR02337 HpaR homoprotocatech 32.6 2.4E+02 0.0052 22.0 7.5 57 66-122 43-100 (118)
33 PRK11920 rirA iron-responsive 31.8 53 0.0011 27.8 3.3 33 152-184 25-57 (153)
34 TIGR01610 phage_O_Nterm phage 30.6 42 0.00091 26.0 2.3 35 62-96 44-79 (95)
35 PF14338 Mrr_N: Mrr N-terminal 29.5 86 0.0019 23.9 3.8 22 171-194 60-81 (92)
36 PF08820 DUF1803: Domain of un 28.8 59 0.0013 25.8 2.8 28 167-197 43-70 (93)
37 PF09860 DUF2087: Uncharacteri 28.3 47 0.001 24.9 2.1 54 134-193 15-70 (71)
38 PF12802 MarR_2: MarR family; 27.5 58 0.0013 22.3 2.4 36 65-100 21-57 (62)
39 PRK09462 fur ferric uptake reg 25.9 77 0.0017 26.3 3.2 41 66-106 34-80 (148)
40 COG1959 Predicted transcriptio 25.5 64 0.0014 27.3 2.7 61 166-227 40-133 (150)
41 KOG4368 Predicted RNA binding 25.4 67 0.0015 33.6 3.2 48 203-250 120-168 (757)
42 PF11802 CENP-K: Centromere-as 25.3 1.2E+02 0.0026 28.5 4.6 48 134-190 213-260 (268)
43 PF09385 HisK_N: Histidine kin 24.9 77 0.0017 26.8 3.0 23 197-219 80-102 (133)
44 TIGR02944 suf_reg_Xantho FeS a 24.4 68 0.0015 25.8 2.6 47 151-197 25-71 (130)
45 smart00424 STE STE like transc 23.6 4E+02 0.0087 21.6 6.7 31 170-200 78-108 (111)
46 TIGR02698 CopY_TcrY copper tra 23.5 4.1E+02 0.0089 21.7 7.2 52 67-119 20-77 (130)
47 PRK11014 transcriptional repre 23.4 88 0.0019 25.7 3.1 44 151-194 25-68 (141)
48 TIGR01552 phd_fam prevent-host 23.3 2.4E+02 0.0051 18.8 5.0 31 89-120 18-48 (52)
49 TIGR01889 Staph_reg_Sar staphy 23.2 2.5E+02 0.0054 21.9 5.6 59 64-122 42-101 (109)
50 PF11609 DUF3248: Protein of u 23.1 81 0.0018 23.2 2.4 17 80-96 43-59 (63)
51 COG2512 Predicted membrane-ass 22.3 1.6E+02 0.0034 27.4 4.8 56 38-102 191-248 (258)
52 PRK07738 flagellar protein Fla 22.0 95 0.0021 25.6 3.0 45 222-266 45-91 (117)
53 PF13412 HTH_24: Winged helix- 21.5 69 0.0015 21.1 1.7 30 66-95 18-48 (48)
54 cd00591 HU_IHF Integration hos 21.4 35 0.00077 25.3 0.3 55 155-209 3-57 (87)
55 PF01726 LexA_DNA_bind: LexA D 21.1 92 0.002 22.7 2.4 22 75-96 37-58 (65)
56 cd00092 HTH_CRP helix_turn_hel 21.0 2.3E+02 0.0049 19.3 4.5 35 63-97 23-58 (67)
57 TIGR02702 SufR_cyano iron-sulf 20.4 4E+02 0.0087 23.1 6.8 82 152-233 16-103 (203)
No 1
>PF10494 Stk19: Serine-threonine protein kinase 19; InterPro: IPR018865 This serine-threonine protein kinase number 19 is expressed from the MHC and predominantly in the nucleus. Protein kinases are involved in signal transduction pathways and play fundamental roles in the regulation of cell functions. This is a novel Ser/Thr protein kinase, that has Mn2+-dependent protein kinase activity that phosphorylates alpha -casein at Ser/Thr residues and histone at Ser residues. It can be covalently modified by the reactive ATP analogue 5'-p-fluorosulphonylbenzoyladenosine in the absence of ATP, and this modification is prevented in the presence of 1 mM ATP, indicating that the kinase domain of is capable of binding ATP [].
Probab=100.00 E-value=1.3e-63 Score=453.90 Aligned_cols=215 Identities=35% Similarity=0.505 Sum_probs=186.1
Q ss_pred HHHHHHHHHhCCcccccc-CCCeeeehhhhhhcCCcchHHHHHHHHHhcCceeEEEecC-CCCcEEEEehHHHHHHHHHH
Q 024264 44 LVALRIMRAQFPHIDKVS-IRPFILQSQLYSSVNDRTQVDRELESLRRERVLRVFKLNT-GQDDHAIMFLDDYLNQIECV 121 (270)
Q Consensus 44 ~~Al~~lr~~fP~~~~~~-lPPlVl~~qLysll~~~T~VdReL~~L~~~G~lR~f~i~~-g~d~~~lV~t~Dy~~~v~~~ 121 (270)
..+|.+.+..||.-++.+ +||||++|||||+++|||+|||||++|+++|+||+|+|++ ++.+.|+|.++||+.+|...
T Consensus 13 ~~gl~~~~~a~~l~~r~~~lPplV~~~qLysl~~~~T~Vdrel~~L~~~G~lR~f~i~~~~~~g~~l~~~~d~~~iv~~~ 92 (250)
T PF10494_consen 13 RAGLNSTRIAEVLNYRRSTLPPLVLVHQLYSLLQDPTFVDRELEELIRKGKLRKFKIPNRGGLGDVLVGFEDYEAIVRTS 92 (250)
T ss_pred HHHHhHHHHHHhhhhhhhcCCCEEEHHHhhHhhCCCcHHHHHHHHHHHCCCEEEEEECCccccceEEeecccHHHHHHHH
Confidence 568999999988655555 9999999999999999999999999999999999999999 44444666666666655542
Q ss_pred HHHh---hhhh-hc-hHHHHHHHHHHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecC
Q 024264 122 VKRM---EEKK-QV-NLEVFEWFQTHVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIP 196 (270)
Q Consensus 122 ~~~~---~~~~-~~-~~~~~~kF~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiP 196 (270)
.... .... .+ ..++++||++++.++|++.+|++. ..|++++|++||+|||||++++|+++||||+|
T Consensus 93 ~yl~~~~~~~~~~~~~~~~~~kFl~~l~~~~~~~~i~~~---------~~f~~~ei~~LV~aGfLt~~~~d~~sy~ls~P 163 (250)
T PF10494_consen 93 DYLDKILKSSEGLDKSSEVLEKFLELLKENPTDLSISHS---------ELFSDEEISLLVRAGFLTSNEIDAGSYWLSLP 163 (250)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHhhCCCCcccchh---------hccChhHHHHHHHCCcceeeccCCCEEEEECC
Confidence 1100 0000 00 258899999999999999999942 58999999999999999998789999999999
Q ss_pred CchHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHhc----------------cCCCCCcchhhhhhhccCcceEEEecC
Q 024264 197 NIGSVLKGLSQGRKEIISFLNRRKYKEMMLALLEKKH----------------LRFSPLDMRFHLRDLIGSGHLKTIHTP 260 (270)
Q Consensus 197 n~G~flkll~~GR~~ll~~Lkk~kykE~l~~~L~~R~----------------~~~~gl~~~w~L~D~iGaG~Ve~f~Ts 260 (270)
|+|+|+|++++||+||+++|+|+||||||+++|++|| +++|||+|+|||+||+|||+||||+||
T Consensus 164 n~G~flkll~~gR~~ll~~LkkskykE~le~~L~~rw~g~~~~~~~~~~~~k~k~~~gl~~~w~L~D~lGaG~Ve~f~T~ 243 (250)
T PF10494_consen 164 NCGPFLKLLSAGRKWLLSLLKKSKYKEALESDLEERWDGGVLSDDSPGRTRKWKPFYGLGFRWHLADLLGAGLVEVFNTS 243 (250)
T ss_pred CccHHHHHHHHHHHHHHHHHhhcchhhhhHHHHHHHhcccccccccchhhcccccccCcChhhhhhhhcCCCeEEEEECC
Confidence 9999999999999999999999999999999999994 699999999999999999999999999
Q ss_pred ceeeEee
Q 024264 261 TGLVVQI 267 (270)
Q Consensus 261 vG~~vRl 267 (270)
||+|||+
T Consensus 244 vG~~~Rl 250 (250)
T PF10494_consen 244 VGRGVRL 250 (250)
T ss_pred ccceeeC
Confidence 9999996
No 2
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=75.16 E-value=31 Score=28.12 Aligned_cols=61 Identities=16% Similarity=0.187 Sum_probs=49.4
Q ss_pred CCCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 62 IRPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 62 lPPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
.||-++.++|-..+. +++.|=+-|..|.++|-|.+..-+.+.=...|..|+.=.+.+....
T Consensus 43 ~~~~~t~~eLa~~l~~~~~tvt~~v~~Le~~GlV~r~~~~~DrR~~~l~LT~~G~~~~~~~~ 104 (144)
T PRK03573 43 LPPEQSQIQLAKAIGIEQPSLVRTLDQLEEKGLISRQTCASDRRAKRIKLTEKAEPLISEVE 104 (144)
T ss_pred cCCCCCHHHHHHHhCCChhhHHHHHHHHHHCCCEeeecCCCCcCeeeeEEChHHHHHHHHHH
Confidence 355567788877666 9999999999999999999977777666778889988888777644
No 3
>PF02082 Rrf2: Transcriptional regulator; InterPro: IPR000944 The following uncharacterised bacterial proteins have been shown to be evolutionary related, Desulfovibrio vulgaris protein Rrf2; Escherichia coli hypothetical proteins yfhP and yjeB; Bacillus subtilis hypothetical proteins yhdE, yrzC and ywgB; Mycobacterium tuberculosis hypothetical protein Rv1287; and Synechocystis sp. (strain PCC 6803) hypothetical protein slr0846. These are small proteins of 12 to 18kDa which seem to contain a signal sequence, and may represent a family of probable transcriptional regulators.; PDB: 3T8T_A 3T8R_A 3K69_A 3LWF_C 1XD7_A 2Y75_E 1YLF_C.
Probab=73.78 E-value=4.3 Score=30.54 Aligned_cols=61 Identities=16% Similarity=0.102 Sum_probs=41.8
Q ss_pred HHHHHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecCCc
Q 024264 138 WFQTHVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIPNI 198 (270)
Q Consensus 138 kF~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiPn~ 198 (270)
+++-++-.++....++..+|.+.+.-...+-..-+..|+++|++.+..+..|-|+++-|-.
T Consensus 12 ~~l~~la~~~~~~~~s~~eiA~~~~i~~~~l~kil~~L~~~Gli~s~~G~~GGy~L~~~~~ 72 (83)
T PF02082_consen 12 RILLYLARHPDGKPVSSKEIAERLGISPSYLRKILQKLKKAGLIESSRGRGGGYRLARPPE 72 (83)
T ss_dssp HHHHHHHCTTTSC-BEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEETSTTSEEEESS-CC
T ss_pred HHHHHHHhCCCCCCCCHHHHHHHHCcCHHHHHHHHHHHhhCCeeEecCCCCCceeecCCHH
Confidence 4555566666655577777777664444466667899999999998655568999987753
No 4
>PF03965 Penicillinase_R: Penicillinase repressor; InterPro: IPR005650 Proteins in this entry are transcriptional regulators found in a variety of bacteria and a small number of archaea. Many are BlaI/MecI proteins which regulate resistance to penicillins (beta-lactams), though at least one protein (Q47839 from SWISSPROT) appears to be involved in the regulation of copper homeostasis []. BlaI regulators repress the expression of penicillin-degrading enzymes (penicillinases) until the cell encounters the antiobiotic, at which point repression ceases and penicillinase expression occurs, allowing cell growth []. MecI regulators repress the expression of MecA, a cell-wall biosynthetic enzyme not inhibited by penicillins at clinically achievable concentrations, until the presence of the antibiotic is detected []. At this point repression ends and MecA expression occurs which, together with the switching off of the penicillin-sensitive enzymes, allows the cell to grow despite the presence of antibiotic.; GO: 0003677 DNA binding, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G9W_A 2K4B_A 1XSD_A 1SD4_A 1SD7_A 1SD6_A 2P7C_B 1P6R_A 1OKR_B 2D45_B ....
Probab=66.50 E-value=45 Score=26.45 Aligned_cols=58 Identities=14% Similarity=0.111 Sum_probs=45.2
Q ss_pred cCCCeeeehhhhhhcCC-----cchHHHHHHHHHhcCceeEEEecCCCCcE-EEEehHHHHHHHHH
Q 024264 61 SIRPFILQSQLYSSVND-----RTQVDRELESLRRERVLRVFKLNTGQDDH-AIMFLDDYLNQIEC 120 (270)
Q Consensus 61 ~lPPlVl~~qLysll~~-----~T~VdReL~~L~~~G~lR~f~i~~g~d~~-~lV~t~Dy~~~v~~ 120 (270)
..+| ++...++..+.+ +|.|--=|..|.++|.|.+-+.++.. -| .+|.-++|....-+
T Consensus 14 ~~~~-~t~~eI~~~l~~~~~~~~sTv~t~L~rL~~Kg~l~~~~~gr~~-~Y~p~is~~e~~~~~~~ 77 (115)
T PF03965_consen 14 ESGE-ATVREIHEALPEERSWAYSTVQTLLNRLVEKGFLTREKIGRAY-VYSPLISREEYLAQELR 77 (115)
T ss_dssp HHSS-EEHHHHHHHHCTTSS--HHHHHHHHHHHHHTTSEEEEEETTCE-EEEESSSHHHHHHHHHH
T ss_pred hCCC-CCHHHHHHHHHhccccchhHHHHHHHHHHhCCceeEeecCCce-EEEeCCcHHHHHHHHHH
Confidence 3467 899999988763 69999999999999999998886522 23 67788888876543
No 5
>PRK10265 chaperone-modulator protein CbpM; Provisional
Probab=65.80 E-value=7.8 Score=30.71 Aligned_cols=40 Identities=18% Similarity=0.395 Sum_probs=31.1
Q ss_pred ccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEe
Q 024264 151 SVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 151 si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
.++..++|... +.+++.+..||..|++.....+++.|+|.
T Consensus 7 ~lt~~Elc~~~----gi~~~~l~eLve~GlIep~~~~~~~~~F~ 46 (101)
T PRK10265 7 TFTITEFCLHT----GVSEEELNEIVGLGVIEPREIQETTWVFD 46 (101)
T ss_pred EeeHHHHHHHH----CcCHHHHHHHHHCCCeecCCCCcccceEC
Confidence 46677788654 89999999999999999754445677775
No 6
>PF04492 Phage_rep_O: Bacteriophage replication protein O ; InterPro: IPR006497 This entry is represented by the N-terminal domain of Bacteriophage lambda, GpO. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; GO: 0006260 DNA replication
Probab=65.78 E-value=16 Score=29.17 Aligned_cols=72 Identities=21% Similarity=0.178 Sum_probs=53.3
Q ss_pred ccccCCccccc--------cccccccChhhHHHHHHHHHHhCCccccccCCCeeeehhhhhhcC-CcchHHHHHHHHHhc
Q 024264 21 IEAESSSSDRT--------LSLEENLTFSDTLVALRIMRAQFPHIDKVSIRPFILQSQLYSSVN-DRTQVDRELESLRRE 91 (270)
Q Consensus 21 ~~~~~~~~~~~--------~~l~~~~~~~Dv~~Al~~lr~~fP~~~~~~lPPlVl~~qLysll~-~~T~VdReL~~L~~~ 91 (270)
..+.|-|+|.+ +.+.-+++.+.....+..+|..+ .|++. ---|+.+|+-.+-. +++.|-+.+.+|++.
T Consensus 5 ~r~a~~~~GytriaNelld~l~~~dls~rq~ki~~ai~RkTy--G~nKk-~d~Is~sq~~e~tg~~~~~V~~al~~Li~~ 81 (100)
T PF04492_consen 5 NRMADLDDGYTRIANELLDALLRADLSGRQLKILLAIIRKTY--GWNKK-MDRISNSQIAEMTGLSRDHVSKALNELIRR 81 (100)
T ss_pred ccceeccCCeeecHHHHHHHHHhccccHHHHHHHHHHHHHcc--CCCCc-cceeeHHHHHHHHCcCHHHHHHHHHHHHHC
Confidence 33456666555 55567888888888888888864 34322 23577788877665 899999999999999
Q ss_pred Ccee
Q 024264 92 RVLR 95 (270)
Q Consensus 92 G~lR 95 (270)
|.|.
T Consensus 82 ~vI~ 85 (100)
T PF04492_consen 82 GVII 85 (100)
T ss_pred CCEE
Confidence 9993
No 7
>PF09012 FeoC: FeoC like transcriptional regulator; InterPro: IPR015102 This entry contains several transcriptional regulators, including FeoC, which contain a HTH motif. FeoC acts as a [Fe-S] dependent transcriptional repressor []. ; PDB: 1XN7_A 2K02_A.
Probab=61.39 E-value=8.2 Score=28.07 Aligned_cols=40 Identities=20% Similarity=0.252 Sum_probs=31.5
Q ss_pred CCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCC
Q 024264 63 RPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTG 102 (270)
Q Consensus 63 PPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g 102 (270)
.+.++..+|---+. +|..|+-=|+.|+++|.||+...+..
T Consensus 12 ~~~~S~~eLa~~~~~s~~~ve~mL~~l~~kG~I~~~~~~~~ 52 (69)
T PF09012_consen 12 RGRVSLAELAREFGISPEAVEAMLEQLIRKGYIRKVDMSSC 52 (69)
T ss_dssp S-SEEHHHHHHHTT--HHHHHHHHHHHHCCTSCEEEEEE--
T ss_pred cCCcCHHHHHHHHCcCHHHHHHHHHHHHHCCcEEEecCCCC
Confidence 45677788877776 99999999999999999999887663
No 8
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=58.93 E-value=57 Score=27.30 Aligned_cols=51 Identities=20% Similarity=0.098 Sum_probs=36.2
Q ss_pred ehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcE-EEEehHHHHHHH
Q 024264 68 QSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDH-AIMFLDDYLNQI 118 (270)
Q Consensus 68 ~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~-~lV~t~Dy~~~v 118 (270)
+--|-..++ ++|.|.|.|..|...|.|-+-+.+..+.++ .+-+.-|+...-
T Consensus 45 vdelae~lnr~rStv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k 97 (126)
T COG3355 45 VDELAEILNRSRSTVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIK 97 (126)
T ss_pred HHHHHHHHCccHHHHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHH
Confidence 334445565 999999999999999999999998755554 333344444443
No 9
>PF04079 DUF387: Putative transcriptional regulators (Ypuh-like); InterPro: IPR005234 This family represents ScpB, which along with ScpA (IPR003768 from INTERPRO) interacts with SMC in vivo forming a complex that is required for chromosome condensation and segregation [, ]. The SMC-Scp complex appears to be similar to the MukB-MukE-Muk-F complex in Escherichia coli [], where MukB (IPR007406 from INTERPRO) is the homologue of SMC. ScpA and ScpB have little sequence similarity to MukE (IPR007385 from INTERPRO) or MukF (IPR005582 from INTERPRO), they are predicted to be structurally similar, being predominantly alpha-helical with coiled coil regions. In general scpA and scpB form an operon in most bacterial genomes. Flanking genes are highly variable suggesting that the operon has moved throughout evolution. Bacteria containing an smc gene also contain scpA or scpB but not necessarily both. An exception is found in Deinococcus radiodurans, which contains scpB but neither smc nor scpA. In the archaea the gene order SMC-ScpA is conserved in nearly all species, as is the very short distance between the two genes, indicating co-transcription of the both in different archaeal genera and arguing that interaction of the gene products is not confined to the homologues in Bacillus subtilis. It would seem probable that, in light of all the studies, SMC, ScpA and ScpB proteins or homologues act together in chromosome condensation and segregation in all prokaryotes []. ; GO: 0051304 chromosome separation; PDB: 1T6S_B 2Z99_A.
Probab=56.07 E-value=15 Score=31.71 Aligned_cols=113 Identities=16% Similarity=0.196 Sum_probs=65.6
Q ss_pred CCeeeehhhhhhcCCcchHHHHHHHHHhcC--ceeEEEecCCCCcEEEEehHHHHHHHHHHHHHhhhhhhchHHHHHHHH
Q 024264 63 RPFILQSQLYSSVNDRTQVDRELESLRRER--VLRVFKLNTGQDDHAIMFLDDYLNQIECVVKRMEEKKQVNLEVFEWFQ 140 (270)
Q Consensus 63 PPlVl~~qLysll~~~T~VdReL~~L~~~G--~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~~~~~~~~~~~~~~~~kF~ 140 (270)
.| |+..+|-.++.++..|++-|++|.++= .=|=|.|-.-++.|.++-..+|...|.+....-.. ..+-..-+
T Consensus 12 ~p-vs~~~La~~l~~~~~v~~~l~~L~~~y~~~~~gl~l~~~~~~y~l~tk~~~~~~v~~~~~~~~~-----~~LS~aal 85 (159)
T PF04079_consen 12 EP-VSIEELAEILGSEDEVEEALEELQEEYNEEDRGLELVEVGGGYRLQTKPEYAEYVEKLFKKPKP-----PKLSQAAL 85 (159)
T ss_dssp S--B-HHHHHHHCT-HHHHHHHHHHHHHHHHHCT-SEEEEEETTEEEEEE-GGGHHHHHHHHCTCCC-----HHHHHHHH
T ss_pred CC-CCHHHHHHHhCCHHHHHHHHHHHHHHhccCCCCEEEEEECCEEEEEEhHHHHHHHHHHhccCcc-----CCCCHHHH
Confidence 45 899999999988999999999888643 22333333336688899999999999876532000 01111111
Q ss_pred HHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccc
Q 024264 141 THVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQ 184 (270)
Q Consensus 141 ~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~ 184 (270)
+.|.=-.-.+-|++.++-..- +.-++..|..|+..|++...
T Consensus 86 EtLAiIAY~QPiTr~eIe~IR---Gv~s~~~i~~L~e~glI~~~ 126 (159)
T PF04079_consen 86 ETLAIIAYKQPITRAEIEEIR---GVNSDSVIKTLLERGLIEEV 126 (159)
T ss_dssp HHHHHHHHH-SEEHHHHHHHH---TS--HCHHHHHHHTTSEEEE
T ss_pred HHHHHHHhcCCcCHHHHHHHc---CCChHHHHHHHHHCCCEEec
Confidence 111100011345565555443 44588999999999999974
No 10
>COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion]
Probab=54.83 E-value=8.8 Score=31.88 Aligned_cols=77 Identities=21% Similarity=0.211 Sum_probs=50.7
Q ss_pred eEEEecCCchHHHHHHHHHHHHHHHHH----h-ccchhHHHHHHHHHhc--cCCCCCcchhhhhhhccCcceEEEecCce
Q 024264 190 MYWFAIPNIGSVLKGLSQGRKEIISFL----N-RRKYKEMMLALLEKKH--LRFSPLDMRFHLRDLIGSGHLKTIHTPTG 262 (270)
Q Consensus 190 ~y~lSiPn~G~flkll~~GR~~ll~~L----k-k~kykE~l~~~L~~R~--~~~~gl~~~w~L~D~iGaG~Ve~f~TsvG 262 (270)
.+.++-+-.+++++.-..--......- + ..+|+|-+....++-+ ...-+-+++|-++|-+|.=+|.++++.+|
T Consensus 11 ~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~qr~~e~L~~~v~~ink~~k~~nt~l~F~~dd~lg~~vVkI~d~~Tg 90 (120)
T COG1334 11 QTSRAREVTRTILEQQSTNIQEVKEESKETIKKEQRSKEKLALIVEDINKLLKSLNTHLNFSYDDELGELVVKIIDKDTG 90 (120)
T ss_pred CceecchhhhhhhhhhhhcccccccchhhcchhhhhhHHHHHHHHHHHHHHHHhhcCceEEEEecccCcEEEEEEECCCC
Confidence 445555555555554433322222222 2 2338888876666533 33447788899999999999999999999
Q ss_pred eeEe
Q 024264 263 LVVQ 266 (270)
Q Consensus 263 ~~vR 266 (270)
..+|
T Consensus 91 eVIR 94 (120)
T COG1334 91 EVIR 94 (120)
T ss_pred cchh
Confidence 9988
No 11
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=53.24 E-value=32 Score=23.46 Aligned_cols=50 Identities=16% Similarity=0.240 Sum_probs=28.6
Q ss_pred HHHHHHHHHhhcc---CCCCccchhhhhhhhhccCCCChHHHHHHHHcCcccc
Q 024264 134 EVFEWFQTHVLDS---KLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTR 183 (270)
Q Consensus 134 ~~~~kF~~~l~~~---~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~ 183 (270)
++.+.+...+... +.....+..+|.+.+..+..--...+..|.+.|+++.
T Consensus 5 ~~~~~i~~~i~~~~~~~~~~~~~~~~la~~~~is~~~v~~~l~~L~~~G~i~~ 57 (66)
T cd07377 5 QIADQLREAILSGELKPGDRLPSERELAEELGVSRTTVREALRELEAEGLVER 57 (66)
T ss_pred HHHHHHHHHHHcCCCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEe
Confidence 4455555554432 2222233667777663222233456888999999986
No 12
>PF01372 Melittin: Melittin; InterPro: IPR002116 Allergies are hypersensitivity reactions of the immune system to specific substances called allergens (such as pollen, stings, drugs, or food) that, in most people, result in no symptoms. A nomenclature system has been established for antigens (allergens) that cause IgE-mediated atopic allergies in humans [WHO/IUIS Allergen Nomenclature Subcommittee King T.P., Hoffmann D., Loewenstein H., Marsh D.G., Platts-Mills T.A.E., Thomas W. Bull. World Health Organ. 72:797-806(1994)]. This nomenclature system is defined by a designation that is composed of the first three letters of the genus; a space; the first letter of the species name; a space and an Arabic number. In the event that two species names have identical designations, they are discriminated from one another by adding one or more letters (as necessary) to each species designation. The allergens in this family include allergens with the following designations: Api m 3. Melittin is the principal protein component of the venom of the honeybee, Apis mellifera. It inhibits protein kinase C, Ca2+/calmodulin-dependent protein kinase II, myosin light chain kinase and Na+/K+-ATPase (synaptosomal membrane) and is a cell membrane lytic factor. Melittin is a small peptide with no disulphide bridge; the N-terminal part of the molecule is predominantly hydrophobic and the C-terminal part is hydrophilic and strongly basic. The molecular mechanisms underlying the various effects of melittin on membranes have not been completely defined and much of the evidence indicates that different molecular mechanisms may underlie different actions of the peptide []. Extensive work with melittin has shown that the venom has multiple effects, probably, as a result of its interaction with negatively changed phospholipids. It inhibits well known transport pumps such as the Na+-K+-ATPase and the H+-K+-ATPase. Melittin increases the permeability of cell membranes to ions, particularly Na+ and indirectly Ca2+, because of the Na+-Ca2+-exchange. This effect results in marked morphological and functional changes, particularly in excitable tissues such as cardiac myocytes. In some other tissues, e.g., cornea, not only Na+ but Cl- permeability is also increased by melittin. Similar effects to melittin on H+-K+-ATPase have been found with the synthetic amphipathic polypeptide Trp-3 []. The study of melittin in model membranes has been useful for the development of methodology for determination of membrane protein structures. A molecular dynamics simulation of melittin in a hydrated dipalmitoylphosphatidylcholine (DPPC) bilayer was carried out. The effect of melittin on the surrounding membrane was localised to its immediate vicinity, and its asymmetry with respect to the two layers may be a result of the fact that it is not fully transmembranal. Melittin's hydrophilic C terminus anchors it at the extracellular interface, leaving the N terminus "loose" in the lower layer of the membrane [].; GO: 0004860 protein kinase inhibitor activity, 0005576 extracellular region; PDB: 3QRX_B 2MLT_A 1BH1_A.
Probab=52.44 E-value=13 Score=22.66 Aligned_cols=24 Identities=33% Similarity=0.692 Sum_probs=20.7
Q ss_pred CchHHHHHHHHHHHHHHHHHhccc
Q 024264 197 NIGSVLKGLSQGRKEIISFLNRRK 220 (270)
Q Consensus 197 n~G~flkll~~GR~~ll~~Lkk~k 220 (270)
|.|.++|-+..|--.|++.+|+.+
T Consensus 1 gIGa~Lkvla~~LP~lISWIK~kr 24 (26)
T PF01372_consen 1 GIGAILKVLATGLPTLISWIKNKR 24 (26)
T ss_dssp -HHHHHHHHHTHHHHHHHHHHHHH
T ss_pred ChhHHHHHHHhcChHHHHHHHHHh
Confidence 579999999999999999998643
No 13
>PRK10870 transcriptional repressor MprA; Provisional
Probab=51.44 E-value=1.3e+02 Score=25.72 Aligned_cols=60 Identities=13% Similarity=0.129 Sum_probs=48.1
Q ss_pred CCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 63 RPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 63 PPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
+|-++.++|-..+. +++.|=|-|..|.++|-|.+..=+.+.=...|..|+.=.+.+....
T Consensus 69 ~~~it~~eLa~~l~l~~~tvsr~v~rLe~kGlV~R~~~~~DrR~~~v~LT~~G~~~~~~i~ 129 (176)
T PRK10870 69 NHSIQPSELSCALGSSRTNATRIADELEKRGWIERRESDNDRRCLHLQLTEKGHEFLREVL 129 (176)
T ss_pred CCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHH
Confidence 45566677777665 8999999999999999999976666666678889988888887754
No 14
>PF08220 HTH_DeoR: DeoR-like helix-turn-helix domain; InterPro: IPR001034 The deoR-type HTH domain is a DNA-binding, helix-turn-helix (HTH) domain of about 50-60 amino acids present in transcription regulators of the deoR family, involved in sugar catabolism. This family of prokaryotic regulators is named after the Escherichia coli protein DeoR, a repressor of the deo operon, which encodes nucleotide and deoxyribonucleotide catabolic enzymes. DeoR also negatively regulates the expression of nupG and tsx, a nucleoside-specific transport protein and a channel-forming protein, respectively. DeoR-like transcription repressors occur in diverse bacteria as regulators of sugar and nucleoside metabolic systems. The effector molecules for deoR-like regulators are generally phosphorylated intermediates of the relevant metabolic pathway. The DNA-binding deoR-type HTH domain occurs usually in the N-terminal part. The C-terminal part can contain an effector-binding domain and/or an oligomerisation domain. DeoR occurs as an octamer, whilst glpR and agaR are tetramers. Several operators may be bound simultaneously, which could facilitate DNA looping [, ].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular
Probab=48.26 E-value=22 Score=24.98 Aligned_cols=36 Identities=11% Similarity=0.268 Sum_probs=30.6
Q ss_pred CCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEE
Q 024264 63 RPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFK 98 (270)
Q Consensus 63 PPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~ 98 (270)
-+.++..+|-..+. ++..|-|.|+.|.+.|.|++.+
T Consensus 12 ~~~~s~~ela~~~~VS~~TiRRDl~~L~~~g~i~r~~ 48 (57)
T PF08220_consen 12 KGKVSVKELAEEFGVSEMTIRRDLNKLEKQGLIKRTH 48 (57)
T ss_pred cCCEEHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEEc
Confidence 35677888888887 9999999999999999998753
No 15
>TIGR02010 IscR iron-sulfur cluster assembly transcription factor IscR. This model describes IscR, an iron-sulfur binding transcription factor of the ISC iron-sulfur cluster assembly system.
Probab=46.95 E-value=22 Score=29.13 Aligned_cols=47 Identities=15% Similarity=0.104 Sum_probs=29.9
Q ss_pred CccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecC
Q 024264 150 PSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIP 196 (270)
Q Consensus 150 ~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiP 196 (270)
..++..++.+.+.....+-.+-+..|+++|++.+..+..|.|.++-|
T Consensus 24 ~~~s~~~ia~~~~ip~~~l~kil~~L~~~glv~s~~G~~Ggy~l~~~ 70 (135)
T TIGR02010 24 GPVTLADISERQGISLSYLEQLFAKLRKAGLVKSVRGPGGGYQLGRP 70 (135)
T ss_pred CcCcHHHHHHHHCcCHHHHHHHHHHHHHCCceEEEeCCCCCEeccCC
Confidence 34555566655544455777778999999999874333345655554
No 16
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=45.64 E-value=30 Score=27.02 Aligned_cols=41 Identities=22% Similarity=0.388 Sum_probs=32.3
Q ss_pred eeehhhhhhcC------CcchHHHHHHHHHhcCceeEEEecCCCCcE
Q 024264 66 ILQSQLYSSVN------DRTQVDRELESLRRERVLRVFKLNTGQDDH 106 (270)
Q Consensus 66 Vl~~qLysll~------~~T~VdReL~~L~~~G~lR~f~i~~g~d~~ 106 (270)
++...||.-+. +++.|=|.|+.|.+.|.|+++..+++..-|
T Consensus 17 ~sa~ei~~~l~~~~~~i~~~TVYR~L~~L~~~Gli~~~~~~~~~~~y 63 (116)
T cd07153 17 LTAEEIYERLRKKGPSISLATVYRTLELLEEAGLVREIELGDGKARY 63 (116)
T ss_pred CCHHHHHHHHHhcCCCCCHHHHHHHHHHHHhCCCEEEEEeCCCceEE
Confidence 45666666552 789999999999999999999988764444
No 17
>PF12512 DUF3717: Protein of unknown function (DUF3717) ; InterPro: IPR022191 This family of proteins is found in bacteria. Proteins in this family are typically between 75 and 117 amino acids in length. There is a conserved AIN sequence motif. There are two completely conserved residues (L and Y) that may be functionally important.
Probab=45.30 E-value=10 Score=28.69 Aligned_cols=47 Identities=17% Similarity=0.251 Sum_probs=37.1
Q ss_pred ccChhhHHHHHHHHHHhCCc-c-ccccCCCeeeehhhhhh--cCCcchHHH
Q 024264 37 NLTFSDTLVALRIMRAQFPH-I-DKVSIRPFILQSQLYSS--VNDRTQVDR 83 (270)
Q Consensus 37 ~~~~~Dv~~Al~~lr~~fP~-~-~~~~lPPlVl~~qLysl--l~~~T~VdR 83 (270)
++++.|+++||-|-|++-|. . -..-+|+.-..+.+|++ +...+.|+.
T Consensus 3 ~i~I~dIE~AIN~WR~r~Ps~~d~~~Lcpea~aLA~vYalMI~~r~~~v~~ 53 (71)
T PF12512_consen 3 DISITDIEAAINYWRARSPSSGDELALCPEARALAEVYALMIFQRQQEVDE 53 (71)
T ss_pred ccCHHHHHHHHHHHHhcCCCCCcccccCHHHHHHHHHHHHHHHhccccCCh
Confidence 56889999999999999887 2 35677888888999994 456666654
No 18
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=43.96 E-value=1.8e+02 Score=23.72 Aligned_cols=59 Identities=12% Similarity=0.036 Sum_probs=47.2
Q ss_pred CeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 64 PFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 64 PlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
|=++.+.|-..+. +++.|-|-|..|.++|-|++..=+.+.=...|..|+.=.+++..+.
T Consensus 53 ~~~t~~eLa~~l~i~~~tvsr~l~~Le~~GlI~R~~~~~DrR~~~l~LT~~G~~~~~~~~ 112 (144)
T PRK11512 53 ACITPVELKKVLSVDLGALTRMLDRLVCKGWVERLPNPNDKRGVLVKLTTSGAAICEQCH 112 (144)
T ss_pred CCCCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEeccCcccCCeeEeEEChhHHHHHHHHH
Confidence 3477788877666 9999999999999999999977666666668888888777776643
No 19
>TIGR00738 rrf2_super rrf2 family protein (putative transcriptional regulator). This model represents a superfamily of probable transcriptional regulators. One member, RRF2 of Desulfovibrio vulgaris is an apparent regulatory protein experimentally (MEDLINE:97293189). The N-terminal region appears related to the DNA-binding biotin repressor region of the BirA bifunctional according to results after three rounds of PSI-BLAST with a fairly high stringency.
Probab=42.01 E-value=23 Score=28.34 Aligned_cols=52 Identities=19% Similarity=0.153 Sum_probs=32.4
Q ss_pred cCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecCC
Q 024264 146 SKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIPN 197 (270)
Q Consensus 146 ~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiPn 197 (270)
++....++..+|...+.....+..+-+..|+++|++....+..+-|.++-|.
T Consensus 20 ~~~~~~~s~~eia~~~~i~~~~v~~il~~L~~~gli~~~~g~~ggy~l~~~~ 71 (132)
T TIGR00738 20 NPDEGPVSVKEIAERQGISRSYLEKILRTLRRAGLVESVRGPGGGYRLARPP 71 (132)
T ss_pred CCCCCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCcEEeccCCCCCccCCCCH
Confidence 3444455666666666444456667789999999998643334456665553
No 20
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=41.33 E-value=23 Score=27.86 Aligned_cols=33 Identities=27% Similarity=0.382 Sum_probs=27.3
Q ss_pred cCCCCCcchhhhhhhccCcceEEEecCceeeEe
Q 024264 234 LRFSPLDMRFHLRDLIGSGHLKTIHTPTGLVVQ 266 (270)
Q Consensus 234 ~~~~gl~~~w~L~D~iGaG~Ve~f~TsvG~~vR 266 (270)
....+-+++|.+++-.|.=+|+++++-+|..+|
T Consensus 50 ~~~~~~~l~F~vde~~~~~vVkViD~~T~eVIR 82 (107)
T PF03646_consen 50 LQALNTSLRFSVDEESGRVVVKVIDKETGEVIR 82 (107)
T ss_dssp HTTSS--EEEEEEEETTEEEEEEEETTT-SEEE
T ss_pred HHhcCCceEEEEecCCCcEEEEEEECCCCcEEE
Confidence 455688899999999999999999999999998
No 21
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=41.18 E-value=65 Score=23.41 Aligned_cols=60 Identities=17% Similarity=0.106 Sum_probs=36.5
Q ss_pred HHHHHHHHHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEe
Q 024264 134 EVFEWFQTHVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 134 ~~~~kF~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
.+.++-+.++..++.. .++..+|-+.+.....-....+..|.+.|++......++.|.++
T Consensus 6 ~~~~~IL~~L~~~g~~-~~ta~eLa~~lgl~~~~v~r~L~~L~~~G~V~~~~~~~~~W~i~ 65 (68)
T smart00550 6 SLEEKILEFLENSGDE-TSTALQLAKNLGLPKKEVNRVLYSLEKKGKVCKQGGTPPLWKLT 65 (68)
T ss_pred HHHHHHHHHHHHCCCC-CcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEecCCCCCceEee
Confidence 4445556666666543 35566676666322234455678899999999743334667665
No 22
>PF05732 RepL: Firmicute plasmid replication protein (RepL); InterPro: IPR008813 This entry consists of proteins thought to be involved in plasmid replication. ; GO: 0006260 DNA replication, 0006276 plasmid maintenance
Probab=37.54 E-value=87 Score=27.00 Aligned_cols=94 Identities=12% Similarity=0.223 Sum_probs=57.3
Q ss_pred cCceeEEEe-c--CCCCcEEEEehHHHHHHHHHHHHHhhhhhhchHHHHHHHHHHhhccCCCCccchhhhhhhhhccCCC
Q 024264 91 ERVLRVFKL-N--TGQDDHAIMFLDDYLNQIECVVKRMEEKKQVNLEVFEWFQTHVLDSKLEPSVGHEELCSLLSIVGKV 167 (270)
Q Consensus 91 ~G~lR~f~i-~--~g~d~~~lV~t~Dy~~~v~~~~~~~~~~~~~~~~~~~kF~~~l~~~~~~~si~~~~L~~~ls~~~~f 167 (270)
.|+|.-+.+ . ....+|.-|..+.+...+.-.. .+ ...++.++++.+- +.+.+..+..+|.+.+.-+-.-
T Consensus 20 TGEi~~~~~~~~~~~~~~Fvkl~~~ni~~~l~l~g-----~k--~~~Vl~~il~~~d-~~N~v~~t~~~ia~~l~iS~~T 91 (165)
T PF05732_consen 20 TGEIQETQVIKRKKKDPNFVKLYLENIIKVLDLIG-----NK--AFRVLMYILENMD-KDNAVVATQKEIAEKLGISKPT 91 (165)
T ss_pred CccEEEEEEEEEeecCCChhhhHHHHHHHHhhhhc-----hh--HHHHHHHHHHhcC-CCCeEEeeHHHHHHHhCCCHHH
Confidence 455554432 1 1334666666676666555321 11 2578888888765 6677777887777666322222
Q ss_pred ChHHHHHHHHcCccccccCCCCeEEEe
Q 024264 168 KDEHISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 168 ~d~eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
--.-+..|..+|||.. ...|.|++-
T Consensus 92 v~r~ik~L~e~~iI~k--~~~G~Y~iN 116 (165)
T PF05732_consen 92 VSRAIKELEEKNIIKK--IRNGAYMIN 116 (165)
T ss_pred HHHHHHHHHhCCcEEE--ccCCeEEEC
Confidence 2345889999999997 456778774
No 23
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=37.07 E-value=36 Score=26.96 Aligned_cols=37 Identities=19% Similarity=0.432 Sum_probs=29.5
Q ss_pred eeehhhhhhcC------CcchHHHHHHHHHhcCceeEEEecCC
Q 024264 66 ILQSQLYSSVN------DRTQVDRELESLRRERVLRVFKLNTG 102 (270)
Q Consensus 66 Vl~~qLysll~------~~T~VdReL~~L~~~G~lR~f~i~~g 102 (270)
++..+||..+. +++.|=|.|+.|.+.|.|+++..+++
T Consensus 24 ~ta~ei~~~l~~~~~~is~~TVYR~L~~L~e~Gli~~~~~~~~ 66 (120)
T PF01475_consen 24 LTAEEIYDKLRKKGPRISLATVYRTLDLLEEAGLIRKIEFGDG 66 (120)
T ss_dssp EEHHHHHHHHHHTTTT--HHHHHHHHHHHHHTTSEEEEEETTS
T ss_pred CCHHHHHHHhhhccCCcCHHHHHHHHHHHHHCCeEEEEEcCCC
Confidence 56666666553 56789999999999999999998863
No 24
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=36.21 E-value=1.7e+02 Score=21.29 Aligned_cols=57 Identities=16% Similarity=0.244 Sum_probs=41.0
Q ss_pred eeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 66 ILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 66 Vl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
++..+|-..+. +++.|-+.|..|.+.|.|.+..-.++.-...+..|+.=...+....
T Consensus 25 ~~~~~la~~~~~s~~~i~~~l~~L~~~g~v~~~~~~~~~r~~~~~lT~~g~~~~~~~~ 82 (101)
T smart00347 25 LSVSELAKRLGVSPSTVTRVLDRLEKKGLIRRLPSPEDRRSVLVSLTEEGRELIEELL 82 (101)
T ss_pred cCHHHHHHHHCCCchhHHHHHHHHHHCCCeEecCCCCCCCeEEEEECHhHHHHHHHHH
Confidence 45556644444 7889999999999999999876655444446667777777766654
No 25
>PRK00135 scpB segregation and condensation protein B; Reviewed
Probab=36.05 E-value=81 Score=27.87 Aligned_cols=107 Identities=16% Similarity=0.244 Sum_probs=65.5
Q ss_pred eeehhhhhhcC-CcchHHHHHHHHHhc-----CceeEEEecCCCCcEEEEehHHHHHHHHHHHHHhhhhhhchHHHHHHH
Q 024264 66 ILQSQLYSSVN-DRTQVDRELESLRRE-----RVLRVFKLNTGQDDHAIMFLDDYLNQIECVVKRMEEKKQVNLEVFEWF 139 (270)
Q Consensus 66 Vl~~qLysll~-~~T~VdReL~~L~~~-----G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~~~~~~~~~~~~~~~~kF 139 (270)
|+..+|-.++. +++.|+.=|++|.+. .-++...+ .+.|.+....+|...|.+....-....-+ ..++ .-
T Consensus 21 ls~~~La~~l~~~~~~v~~~l~~L~~~y~~~~~gi~i~~~---~~~y~l~tk~e~~~~v~~~~~~~~~~~LS-~aaL-Et 95 (188)
T PRK00135 21 LSLEQLAEILELEPTEVQQLLEELQEKYEGDDRGLKLIEF---NDVYKLVTKEENADYLQKLVKTPIKQSLS-QAAL-EV 95 (188)
T ss_pred CCHHHHHHHHCCCHHHHHHHHHHHHHHHhhCCCCEEEEEE---CCEEEEEEcHHHHHHHHHHhcccccCCCC-HHHH-HH
Confidence 45666767665 677898888888664 23555455 44688888999999998754210000111 1111 12
Q ss_pred HHHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCcccc
Q 024264 140 QTHVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTR 183 (270)
Q Consensus 140 ~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~ 183 (270)
+..+- -...|++.++.+.. +.-.+..+..|+..|++..
T Consensus 96 LaiIa---y~qPiTr~eI~~ir---Gv~~~~ii~~L~~~gLI~e 133 (188)
T PRK00135 96 LAIIA---YKQPITRIEIDEIR---GVNSDGALQTLLAKGLIKE 133 (188)
T ss_pred HHHHH---HcCCcCHHHHHHHH---CCCHHHHHHHHHHCCCeEE
Confidence 22222 23456677777655 3335889999999999974
No 26
>PRK10857 DNA-binding transcriptional regulator IscR; Provisional
Probab=35.43 E-value=49 Score=28.45 Aligned_cols=46 Identities=13% Similarity=0.078 Sum_probs=29.4
Q ss_pred CCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEe
Q 024264 149 EPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 149 ~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
...++..++.+.+.....+..+-+..|.++|++.+..+..|-|.++
T Consensus 23 ~~~vs~~eIA~~~~ip~~~l~kIl~~L~~aGLv~s~rG~~GGy~La 68 (164)
T PRK10857 23 AGPVPLADISERQGISLSYLEQLFSRLRKNGLVSSVRGPGGGYLLG 68 (164)
T ss_pred CCcCcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEeCCCCCCCeecc
Confidence 3345666666666444557777899999999999843222334443
No 27
>PRK08452 flagellar protein FlaG; Provisional
Probab=35.25 E-value=33 Score=28.54 Aligned_cols=46 Identities=22% Similarity=0.262 Sum_probs=35.3
Q ss_pred hhHHHHHHHHHhc--cCCCCCcchhhhhhhccCcceEEEecCceeeEe
Q 024264 221 YKEMMLALLEKKH--LRFSPLDMRFHLRDLIGSGHLKTIHTPTGLVVQ 266 (270)
Q Consensus 221 ykE~l~~~L~~R~--~~~~gl~~~w~L~D~iGaG~Ve~f~TsvG~~vR 266 (270)
.+|-+....++-+ ....+-+++|.++|-+|.=+|.++++-+|..+|
T Consensus 51 ~~e~l~~~ve~lN~~~~~~~~~L~F~~de~~~~~vVkVvD~~T~eVIR 98 (124)
T PRK08452 51 LKKKLEELTEKLNEEMKRLDTNIRFGYNDKIKGLVVSVKEANGGKVIR 98 (124)
T ss_pred HHHHHHHHHHHHHHHHHhhCCceEEEEcCCCCcEEEEEEECCCCceee
Confidence 3444444444433 444577899999999999999999999999998
No 28
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=34.75 E-value=1.2e+02 Score=20.88 Aligned_cols=45 Identities=13% Similarity=0.186 Sum_probs=31.6
Q ss_pred ehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehH
Q 024264 68 QSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLD 112 (270)
Q Consensus 68 ~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~ 112 (270)
..+|-..+. +++.|-|.|.+|.+.|-|.+..=+.+.-...+-.|+
T Consensus 21 ~~~l~~~~~~~~~~vs~~i~~L~~~glv~~~~~~~d~R~~~~~LT~ 66 (68)
T PF13463_consen 21 QSDLAERLGISKSTVSRIIKKLEEKGLVEKERDPHDKRSKRYRLTP 66 (68)
T ss_dssp HHHHHHHTT--HHHHHHHHHHHHHTTSEEEEEESSCTTSEEEEE-H
T ss_pred HHHHHHHHCcCHHHHHHHHHHHHHCCCEEecCCCCcCCeeEEEeCC
Confidence 366767666 999999999999999999877665544434444443
No 29
>PRK08868 flagellar protein FlaG; Provisional
Probab=33.44 E-value=38 Score=28.97 Aligned_cols=33 Identities=12% Similarity=0.265 Sum_probs=29.6
Q ss_pred cCCCCCcchhhhhhhccCcceEEEecCceeeEe
Q 024264 234 LRFSPLDMRFHLRDLIGSGHLKTIHTPTGLVVQ 266 (270)
Q Consensus 234 ~~~~gl~~~w~L~D~iGaG~Ve~f~TsvG~~vR 266 (270)
....+-+++|.+++-.|.=+|+++++.+|..+|
T Consensus 84 ~~~~n~~L~F~vdeetgr~VVkViD~~T~EVIR 116 (144)
T PRK08868 84 VKSINKGLSFRVDEESGRDVVTIYEASTGDIIR 116 (144)
T ss_pred HHhhcCceEEEEecCCCCEEEEEEECCCCceee
Confidence 344577899999999999999999999999998
No 30
>PF13591 MerR_2: MerR HTH family regulatory protein
Probab=32.77 E-value=72 Score=24.21 Aligned_cols=37 Identities=19% Similarity=0.510 Sum_probs=26.8
Q ss_pred hhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecC
Q 024264 155 EELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIP 196 (270)
Q Consensus 155 ~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiP 196 (270)
.++|... +...+-+..||..|++.... .++.|+|+--
T Consensus 4 ~e~~~~~----~i~~~~l~~lve~Gli~p~~-~~~~~~f~~~ 40 (84)
T PF13591_consen 4 EEFCEAC----GIEPEFLRELVEEGLIEPEG-EEEEWYFSEE 40 (84)
T ss_pred HHHHHHH----CcCHHHHHHHHHCCCeeecC-CCCeeeECHH
Confidence 4455443 68889999999999999843 3467777643
No 31
>cd05029 S-100A6 S-100A6: S-100A6 domain found in proteins similar to S100A6. S100A6 is a member of the S100 domain family within EF-hand Ca2+-binding proteins superfamily. Note that the S-100 hierarchy, to which this S-100A6 group belongs, contains only S-100 EF-hand domains, other EF-hands have been modeled separately. S100 proteins exhibit unique patterns of tissue- and cell type-specific expression and have been implicated in the Ca2+-dependent regulation of diverse physiological processes, including cell cycle regulation, differentiation, growth, and metabolic control . S100A6 is normally expressed in the G1 phase of the cell cycle in neuronal cells. The function of S100A6 remains unclear, but evidence suggests that it is involved in cell cycle regulation and exocytosis. S100A6 may also be involved in tumorigenesis; the protein is overexpressed in several tumors. Ca2+ binding to S100A6 leads to a conformational change in the protein, which exposes a hydrophobic surface for interact
Probab=32.67 E-value=1.1e+02 Score=23.27 Aligned_cols=45 Identities=20% Similarity=0.219 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhccCCCCccchhhhhhhhh----ccCCCChHHHHHHHH
Q 024264 133 LEVFEWFQTHVLDSKLEPSVGHEELCSLLS----IVGKVKDEHISLLIN 177 (270)
Q Consensus 133 ~~~~~kF~~~l~~~~~~~si~~~~L~~~ls----~~~~f~d~eit~LV~ 177 (270)
..++.-|..+...+...-+|+..+|.+.+. .+..++++++..+++
T Consensus 10 ~~~i~~F~~y~~~~~~~g~Is~~EL~~~l~~~~~lg~k~t~~ev~~m~~ 58 (88)
T cd05029 10 GLLVAIFHKYSGREGDKNTLSKKELKELIQKELTIGSKLQDAEIAKLME 58 (88)
T ss_pred HHHHHHHHHHHccCCCCCEECHHHHHHHHHHHHhcCCCCCHHHHHHHHH
Confidence 367788888888777788999999998884 466789999999986
No 32
>TIGR02337 HpaR homoprotocatechuate degradation operon regulator, HpaR. This Helix-Turn-Helix transcriptional regulator is a member of the MarR family (pfam01047) and is found in association with operons for the degradation of 4-hydroxyphenylacetic acid via homoprotocatechuate.
Probab=32.61 E-value=2.4e+02 Score=22.00 Aligned_cols=57 Identities=16% Similarity=0.100 Sum_probs=45.4
Q ss_pred eeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 66 ILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 66 Vl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
++.++|-..+. +++.|-|-|..|.++|-|.+..-+.+.-...+..|+.=.+.+....
T Consensus 43 ~t~~ela~~~~~~~~tvs~~l~~Le~~GlI~r~~~~~D~R~~~v~LT~~G~~~~~~~~ 100 (118)
T TIGR02337 43 MEFTQLANQACILRPSLTGILARLERDGLVTRLKASNDQRRVYISLTPKGQALYASLS 100 (118)
T ss_pred cCHHHHHHHhCCCchhHHHHHHHHHHCCCEEeccCCCCCCeeEEEECHhHHHHHHHhh
Confidence 56677777665 8899999999999999999987666555567888887777777654
No 33
>PRK11920 rirA iron-responsive transcriptional regulator; Reviewed
Probab=31.83 E-value=53 Score=27.76 Aligned_cols=33 Identities=12% Similarity=0.137 Sum_probs=21.1
Q ss_pred cchhhhhhhhhccCCCChHHHHHHHHcCccccc
Q 024264 152 VGHEELCSLLSIVGKVKDEHISLLINAGILTRQ 184 (270)
Q Consensus 152 i~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~ 184 (270)
++..++-+.+.....|-.+-+..|+++|++.+.
T Consensus 25 ~s~~eIA~~~~is~~~L~kIl~~L~~aGlv~S~ 57 (153)
T PRK11920 25 SRIPEIARAYGVSELFLFKILQPLVEAGLVETV 57 (153)
T ss_pred CcHHHHHHHHCcCHHHHHHHHHHHHHCCCEEee
Confidence 344444444333334666678899999999985
No 34
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=30.63 E-value=42 Score=26.00 Aligned_cols=35 Identities=20% Similarity=0.276 Sum_probs=30.1
Q ss_pred CCCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeE
Q 024264 62 IRPFILQSQLYSSVN-DRTQVDRELESLRRERVLRV 96 (270)
Q Consensus 62 lPPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~ 96 (270)
..+-++..+|-..+. +|+.|-|.|.+|.++|.|++
T Consensus 44 ~~~~is~~eLa~~~g~sr~tVsr~L~~Le~~GlI~r 79 (95)
T TIGR01610 44 KQDRVTATVIAELTGLSRTHVSDAIKSLARRRIIFR 79 (95)
T ss_pred cCCccCHHHHHHHHCcCHHHHHHHHHHHHHCCCeee
Confidence 456677888888776 99999999999999999984
No 35
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=29.46 E-value=86 Score=23.90 Aligned_cols=22 Identities=23% Similarity=0.374 Sum_probs=17.0
Q ss_pred HHHHHHHcCccccccCCCCeEEEe
Q 024264 171 HISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 171 eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
.++.|.++|+|.. ...|.|.|+
T Consensus 60 a~~~L~~aGli~~--~~rG~~~iT 81 (92)
T PF14338_consen 60 ARSYLKKAGLIER--PKRGIWRIT 81 (92)
T ss_pred HHHHHHHCCCccC--CCCCceEEC
Confidence 3889999999986 345677765
No 36
>PF08820 DUF1803: Domain of unknown function (DUF1803); InterPro: IPR014924 This small protein is found in one or two copies in bacteria. The function of this is unknown.
Probab=28.82 E-value=59 Score=25.82 Aligned_cols=28 Identities=29% Similarity=0.520 Sum_probs=23.4
Q ss_pred CChHHHHHHHHcCccccccCCCCeEEEecCC
Q 024264 167 VKDEHISLLINAGILTRQLIDPDMYWFAIPN 197 (270)
Q Consensus 167 f~d~eit~LV~aGfLt~~~~d~~~y~lSiPn 197 (270)
-.|.-+..||.+|++.+ +.+.|.+.+|=
T Consensus 43 ~~D~fie~li~~GYI~r---e~krY~L~~~~ 70 (93)
T PF08820_consen 43 RLDIFIEALIKLGYIER---EEKRYYLNLPF 70 (93)
T ss_pred chhHHHHHHHHcCCeEe---cCCEEEEeccc
Confidence 44667999999999995 67899999884
No 37
>PF09860 DUF2087: Uncharacterized protein conserved in bacteria (DUF2087); InterPro: IPR018656 This domain, found in various hypothetical prokaryotic proteins and transcriptional activators, has no known function.
Probab=28.29 E-value=47 Score=24.87 Aligned_cols=54 Identities=20% Similarity=0.377 Sum_probs=32.6
Q ss_pred HHHHHHHHHhhccCCCCccchhhhhhhhhccCCCChHH--HHHHHHcCccccccCCCCeEEE
Q 024264 134 EVFEWFQTHVLDSKLEPSVGHEELCSLLSIVGKVKDEH--ISLLINAGILTRQLIDPDMYWF 193 (270)
Q Consensus 134 ~~~~kF~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~e--it~LV~aGfLt~~~~d~~~y~l 193 (270)
.++..+.+.+ +....++..++...|.. -+.|-- ...||..|||++. .|.+.||.
T Consensus 15 ~iL~~l~~~f---~~g~~y~E~EVN~~L~~--~~~D~a~LRR~LVd~g~L~R~-~dg~~Ywr 70 (71)
T PF09860_consen 15 VILEYLASRF---EPGREYSEKEVNEILKR--FFDDYATLRRYLVDYGLLERT-RDGSRYWR 70 (71)
T ss_pred HHHHHHHHhC---CCCCccCHHHHHHHHHH--HcccHHHHHHHHHHcCCeeec-CCCCeeee
Confidence 4444444432 34455666666666531 133322 5789999999984 46889995
No 38
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=27.53 E-value=58 Score=22.26 Aligned_cols=36 Identities=17% Similarity=0.231 Sum_probs=29.4
Q ss_pred eeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEec
Q 024264 65 FILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLN 100 (270)
Q Consensus 65 lVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~ 100 (270)
=++.++|-..+. ++..|-+-|..|.++|-|++-.-+
T Consensus 21 ~~t~~~la~~l~~~~~~vs~~v~~L~~~Glv~r~~~~ 57 (62)
T PF12802_consen 21 ELTQSELAERLGISKSTVSRIVKRLEKKGLVERERDP 57 (62)
T ss_dssp GEEHHHHHHHHTS-HHHHHHHHHHHHHTTSEEEEE-S
T ss_pred CcCHHHHHHHHCcCHHHHHHHHHHHHHCCCEEEeCCC
Confidence 368888888776 999999999999999999986443
No 39
>PRK09462 fur ferric uptake regulator; Provisional
Probab=25.91 E-value=77 Score=26.25 Aligned_cols=41 Identities=15% Similarity=0.252 Sum_probs=32.6
Q ss_pred eeehhhhhhcC------CcchHHHHHHHHHhcCceeEEEecCCCCcE
Q 024264 66 ILQSQLYSSVN------DRTQVDRELESLRRERVLRVFKLNTGQDDH 106 (270)
Q Consensus 66 Vl~~qLysll~------~~T~VdReL~~L~~~G~lR~f~i~~g~d~~ 106 (270)
++..+||..+. +++.|=|.|+.|.+.|.|+++.+++|..-|
T Consensus 34 ~sa~eI~~~l~~~~~~i~~aTVYR~L~~L~e~Gli~~~~~~~~~~~y 80 (148)
T PRK09462 34 VSAEDLYKRLIDMGEEIGLATVYRVLNQFDDAGIVTRHNFEGGKSVF 80 (148)
T ss_pred CCHHHHHHHHHhhCCCCCHHHHHHHHHHHHHCCCEEEEEcCCCcEEE
Confidence 46677777553 679999999999999999999987754433
No 40
>COG1959 Predicted transcriptional regulator [Transcription]
Probab=25.55 E-value=64 Score=27.25 Aligned_cols=61 Identities=13% Similarity=0.176 Sum_probs=41.2
Q ss_pred CCChHHHHHHHHcCccccccCCCCeEEE--------------------------e-------cCCchHHHHHHHHHHHHH
Q 024264 166 KVKDEHISLLINAGILTRQLIDPDMYWF--------------------------A-------IPNIGSVLKGLSQGRKEI 212 (270)
Q Consensus 166 ~f~d~eit~LV~aGfLt~~~~d~~~y~l--------------------------S-------iPn~G~flkll~~GR~~l 212 (270)
.|-..-+..|.++|++.+..+-.|-|.| + -|+|+..- .+.+.++++
T Consensus 40 ~~L~kil~~L~kaGlV~S~rG~~GGy~Lar~~~~Isl~dVv~ave~~~~~~~c~~~~~~~~~~~~C~i~~-~~~~~~~~~ 118 (150)
T COG1959 40 SYLEKILSKLRKAGLVKSVRGKGGGYRLARPPEEITLGDVVRALEGPLALVECFSITNNECNTPTCGIRA-AWLKALDAF 118 (150)
T ss_pred HHHHHHHHHHHHcCCEEeecCCCCCccCCCChHHCcHHHHHHHhcCCCCccccCCCCCCCCCCCcchHHH-HHHHHHHHH
Confidence 3556678999999999984211111111 1 46666665 888999999
Q ss_pred HHHHhccchhHHHHH
Q 024264 213 ISFLNRRKYKEMMLA 227 (270)
Q Consensus 213 l~~Lkk~kykE~l~~ 227 (270)
.+.|....-.++...
T Consensus 119 ~~~L~~~tladl~~~ 133 (150)
T COG1959 119 LEVLDNITLADLVED 133 (150)
T ss_pred HHHHhcCcHHHHHhh
Confidence 999988777666554
No 41
>KOG4368 consensus Predicted RNA binding protein, contains SWAP, RPR and G-patch domains [General function prediction only]
Probab=25.36 E-value=67 Score=33.57 Aligned_cols=48 Identities=23% Similarity=0.290 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHHHHhccchhHHHHHHHHHhcc-CCCCCcchhhhhhhcc
Q 024264 203 KGLSQGRKEIISFLNRRKYKEMMLALLEKKHL-RFSPLDMRFHLRDLIG 250 (270)
Q Consensus 203 kll~~GR~~ll~~Lkk~kykE~l~~~L~~R~~-~~~gl~~~w~L~D~iG 250 (270)
.++++|.+|+.+.-+--.+.|++..-|+.|-+ .-+++.++.||--+|.
T Consensus 120 d~is~~k~w~f~~~~s~~~~e~~~~~l~n~~~~~~~~~~lrlh~~ylin 168 (757)
T KOG4368|consen 120 DAISAGKNWMFSNAKSPPHCELMAGHLRNRITADGAHFELRLHLIYLIN 168 (757)
T ss_pred HHHHHhhhhhhhcCCCchHHHHHHHHHHhhhcccccchhhhhhhHHHHH
Confidence 36889999999999999999999999999864 5558888888766653
No 42
>PF11802 CENP-K: Centromere-associated protein K; InterPro: IPR020993 Cenp-K is one of seven new Cenp-A-nucleosome distal (CAD) centromere components (the others being Cenp-L, Cenp-O, Cenp-P, Cenp-Q, Cenp-R and Cenp-S) that are identified as assembling on the Cenp-A nucleosome associated complex, NAC []. The Cenp-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival despite continued centromere-derived mitotic checkpoint signalling. Cenp-K is centromere-associated through its interaction with one or more components of the Cenp-A NAC.; GO: 0005634 nucleus
Probab=25.31 E-value=1.2e+02 Score=28.54 Aligned_cols=48 Identities=31% Similarity=0.408 Sum_probs=36.6
Q ss_pred HHHHHHHHHhhccCCCCccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCe
Q 024264 134 EVFEWFQTHVLDSKLEPSVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDM 190 (270)
Q Consensus 134 ~~~~kF~~~l~~~~~~~si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~ 190 (270)
++++-.++.+...|.+.+|.- ...|=..-|..|+|+|+-.+++.|++-
T Consensus 213 eilE~LmN~l~~~p~DpYv~i---------~~~~WPpyie~LlR~GIa~rHP~D~~k 260 (268)
T PF11802_consen 213 EILEILMNKLLDSPHDPYVKI---------DDSFWPPYIELLLRSGIALRHPEDPSK 260 (268)
T ss_pred HHHHHHHHHhcCCCCCCceec---------CcccChHHHHHHHHcCCeeeCCCCccc
Confidence 666777777777777777654 235777889999999999998877653
No 43
>PF09385 HisK_N: Histidine kinase N terminal; InterPro: IPR018984 This domain is found at the N-terminal of sensor histidine kinase proteins. ; PDB: 3PMC_B 3PMD_A.
Probab=24.95 E-value=77 Score=26.79 Aligned_cols=23 Identities=30% Similarity=0.625 Sum_probs=20.8
Q ss_pred CchHHHHHHHHHHHHHHHHHhcc
Q 024264 197 NIGSVLKGLSQGRKEIISFLNRR 219 (270)
Q Consensus 197 n~G~flkll~~GR~~ll~~Lkk~ 219 (270)
|.|-|+-+++-||+.+++.+.+.
T Consensus 80 NIgeFVYN~NlGR~~~~~~l~~~ 102 (133)
T PF09385_consen 80 NIGEFVYNVNLGRSELLKYLFKL 102 (133)
T ss_dssp -THHHHHHHHHHHHHHHHHHHCC
T ss_pred cHHHHHHHhhHhHHHHHHHHHhC
Confidence 78999999999999999999874
No 44
>TIGR02944 suf_reg_Xantho FeS assembly SUF system regulator, gammaproteobacterial. The SUF system is an oxygen-resistant iron-sulfur cluster assembly system found in both aerobes and facultative anaerobes. Its presence appears to be a marker of oxygen tolerance; strict anaerobes and microaerophiles tend to have different FeS cluster biosynthesis systems. Members of this protein family belong to the rrf2 family of transcriptional regulators and are found, typically, as the first gene of a SUF operon. It is found only in a subset of genomes that encode the SUF system, including the genus Xanthomonas. The conserved location suggests an autoregulatory role.
Probab=24.43 E-value=68 Score=25.78 Aligned_cols=47 Identities=17% Similarity=0.095 Sum_probs=32.2
Q ss_pred ccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecCC
Q 024264 151 SVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIPN 197 (270)
Q Consensus 151 si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiPn 197 (270)
.++..+|.+.+.....+-.+.+..|+++|++.......+.|.++-|.
T Consensus 25 ~~s~~eia~~l~is~~~v~~~l~~L~~~Gli~~~~g~~ggy~l~~~~ 71 (130)
T TIGR02944 25 PYSAAEIAEQTGLNAPTVSKILKQLSLAGIVTSKRGVEGGYTLARAP 71 (130)
T ss_pred CccHHHHHHHHCcCHHHHHHHHHHHHHCCcEEecCCCCCChhhcCCc
Confidence 45666777766555557777899999999998643334567665544
No 45
>smart00424 STE STE like transcription factors.
Probab=23.63 E-value=4e+02 Score=21.58 Aligned_cols=31 Identities=19% Similarity=0.421 Sum_probs=21.5
Q ss_pred HHHHHHHHcCccccccCCCCeEEEecCCchH
Q 024264 170 EHISLLINAGILTRQLIDPDMYWFAIPNIGS 200 (270)
Q Consensus 170 ~eit~LV~aGfLt~~~~d~~~y~lSiPn~G~ 200 (270)
+=++-|-+.|.+..+-..-=-||||+|----
T Consensus 78 ~fL~fL~kN~CirTQKKQKVFyWfsVPHD~L 108 (111)
T smart00424 78 PFLDFLFKNMCLRTQKKQKVFFWFSVPHDRL 108 (111)
T ss_pred HHHHHHHHcccceeccceEEEEEEecCchhh
Confidence 3478888999998753223358999996433
No 46
>TIGR02698 CopY_TcrY copper transport repressor, CopY/TcrY family. This family includes metal-fist type transcriptional repressors of copper transport systems such as copYZAB of Enterococcus hirae and tcrYAZB (transferble copper resistance) of an Enterocuccus faecium plasmid. High levels of copper can displace zinc and prevent binding by the repressor, activating efflux by copper resistance transporters. The most closely related proteins excluded by this model are antibiotic resistance regulators including the methicillin resistance regulatory protein MecI.
Probab=23.50 E-value=4.1e+02 Score=21.68 Aligned_cols=52 Identities=12% Similarity=0.055 Sum_probs=36.9
Q ss_pred eehhhhhhcC-----CcchHHHHHHHHHhcCceeEEEecCCCCcE-EEEehHHHHHHHH
Q 024264 67 LQSQLYSSVN-----DRTQVDRELESLRRERVLRVFKLNTGQDDH-AIMFLDDYLNQIE 119 (270)
Q Consensus 67 l~~qLysll~-----~~T~VdReL~~L~~~G~lR~f~i~~g~d~~-~lV~t~Dy~~~v~ 119 (270)
+...|+..+. ++|.|-.=|..|.++|-|.+-+.++.. -| .+|.-++|.+...
T Consensus 20 t~~eI~~~l~~~~~~~~tTv~T~L~rL~~KG~v~~~k~gr~~-~Y~p~vs~ee~~~~~~ 77 (130)
T TIGR02698 20 TSRDIIRILAEKKDWSDSTIKTLLGRLVDKGCLTTEKEGRKF-IYTALVSEDEAVENAA 77 (130)
T ss_pred CHHHHHHHHhhccCCcHHHHHHHHHHHHHCCceeeecCCCcE-EEEecCCHHHHHHHHH
Confidence 5556555442 679999999999999999875554422 23 6788899966554
No 47
>PRK11014 transcriptional repressor NsrR; Provisional
Probab=23.40 E-value=88 Score=25.67 Aligned_cols=44 Identities=14% Similarity=0.040 Sum_probs=27.6
Q ss_pred ccchhhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEe
Q 024264 151 SVGHEELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFA 194 (270)
Q Consensus 151 si~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lS 194 (270)
.++..+|.+.+.-+..+-.+-+..|.++|++.+..+-.|-|.++
T Consensus 25 ~~s~~~ia~~~~is~~~vrk~l~~L~~~Glv~s~~G~~GG~~l~ 68 (141)
T PRK11014 25 MTSISEVTEVYGVSRNHMVKIINQLSRAGYVTAVRGKNGGIRLG 68 (141)
T ss_pred ccCHHHHHHHHCcCHHHHHHHHHHHHhCCEEEEecCCCCCeeec
Confidence 45555666655444456667789999999999853322334443
No 48
>TIGR01552 phd_fam prevent-host-death family protein. This model recognizes a region of about 55 amino acids toward the N-terminal end of bacterial proteins of about 85 amino acids in length. The best-characterized member is prevent-host-death (phd) of bacteriophage P1, the antidote partner of death-on-curing (doc) (TIGR01550) in an addiction module. Addiction modules prevent plasmid curing by killing the host cell as the longer-lived killing protein persists while the gene for the shorter-lived antidote is lost. Note, however, that relatively few members of this family appear to be plasmid or phage-encoded. Also, there is little overlap, except for phage P1 itself, of species with this family and with the doc family.
Probab=23.35 E-value=2.4e+02 Score=18.83 Aligned_cols=31 Identities=19% Similarity=0.134 Sum_probs=23.4
Q ss_pred HhcCceeEEEecCCCCcEEEEehHHHHHHHHH
Q 024264 89 RRERVLRVFKLNTGQDDHAIMFLDDYLNQIEC 120 (270)
Q Consensus 89 ~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~ 120 (270)
...|. ..+...+|...++||-.++|..+...
T Consensus 18 v~~~~-pv~It~~g~~~avlv~~~~y~~l~~~ 48 (52)
T TIGR01552 18 VRDGE-PVTITKRGRPVAVLVSAADYDRLQET 48 (52)
T ss_pred HHCCC-CEEEEECCcceEEEeeHHHHHHHHHH
Confidence 34565 66667778888899999999887654
No 49
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=23.18 E-value=2.5e+02 Score=21.85 Aligned_cols=59 Identities=8% Similarity=0.143 Sum_probs=47.8
Q ss_pred CeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCCCCcEEEEehHHHHHHHHHHH
Q 024264 64 PFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTGQDDHAIMFLDDYLNQIECVV 122 (270)
Q Consensus 64 PlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g~d~~~lV~t~Dy~~~v~~~~ 122 (270)
+=++.++|-..+. +++.|-|-|..|.++|-|.+..-+.+.=...|..|+.=.+.+....
T Consensus 42 ~~~t~~eL~~~l~~~~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~~~~~ 101 (109)
T TIGR01889 42 GKLTLKEIIKEILIKQSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKIESLI 101 (109)
T ss_pred CcCcHHHHHHHHCCCHHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHHHHHH
Confidence 4567777777666 9999999999999999999988777666667888887777776654
No 50
>PF11609 DUF3248: Protein of unknown function (DUF3248); InterPro: IPR021650 This family of proteins is thought to be the product of the gene TT1592 from Thermus thermophilus however this cannot be confirmed. Currently there is no known function. ; PDB: 2E6X_A.
Probab=23.13 E-value=81 Score=23.23 Aligned_cols=17 Identities=35% Similarity=0.423 Sum_probs=13.2
Q ss_pred hHHHHHHHHHhcCceeE
Q 024264 80 QVDRELESLRRERVLRV 96 (270)
Q Consensus 80 ~VdReL~~L~~~G~lR~ 96 (270)
.=|.||+++.+.|.||.
T Consensus 43 v~daeie~~~~~G~vrv 59 (63)
T PF11609_consen 43 VSDAEIEAAVQEGRVRV 59 (63)
T ss_dssp --HHHHHHHHHCT-EEE
T ss_pred CCHHHHHHHHHcCcEEE
Confidence 34999999999999985
No 51
>COG2512 Predicted membrane-associated trancriptional regulator [Transcription]
Probab=22.30 E-value=1.6e+02 Score=27.41 Aligned_cols=56 Identities=20% Similarity=0.271 Sum_probs=39.4
Q ss_pred cChhhH-HHHHHHHHHhCCccccccCCCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEEEecCC
Q 024264 38 LTFSDT-LVALRIMRAQFPHIDKVSIRPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVFKLNTG 102 (270)
Q Consensus 38 ~~~~Dv-~~Al~~lr~~fP~~~~~~lPPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f~i~~g 102 (270)
..++|. ..+|.||+.+==+ |+++-|-..+. .+|.|-|-|.+|-+.|.|++++.+++
T Consensus 191 ~~L~~~e~~il~~i~~~GGr---------i~Q~eL~r~lglsktTvsR~L~~LEk~GlIe~~K~G~~ 248 (258)
T COG2512 191 YDLNEDEKEILDLIRERGGR---------ITQAELRRALGLSKTTVSRILRRLEKRGLIEKEKKGRT 248 (258)
T ss_pred CCCCHHHHHHHHHHHHhCCE---------EeHHHHHHhhCCChHHHHHHHHHHHhCCceEEEEeCCe
Confidence 334333 4588999988322 23333333343 79999999999999999999998773
No 52
>PRK07738 flagellar protein FlaG; Provisional
Probab=22.00 E-value=95 Score=25.60 Aligned_cols=45 Identities=18% Similarity=0.296 Sum_probs=34.3
Q ss_pred hHHHHHHHHHhc--cCCCCCcchhhhhhhccCcceEEEecCceeeEe
Q 024264 222 KEMMLALLEKKH--LRFSPLDMRFHLRDLIGSGHLKTIHTPTGLVVQ 266 (270)
Q Consensus 222 kE~l~~~L~~R~--~~~~gl~~~w~L~D~iGaG~Ve~f~TsvG~~vR 266 (270)
+|-+...+.+-+ ....+-+++|.+++-.|.=+|+++++-+|..+|
T Consensus 45 ~eel~~aveklN~~l~~~~~~L~F~vdeet~~~vVkVvD~~T~EVIR 91 (117)
T PRK07738 45 KEDLEEVVDGMNELLEPSQTSLKFELHEKLNEYYVQVVDERTNEVIR 91 (117)
T ss_pred HHHHHHHHHHHHHHHHhcCCceEEEEecCCCcEEEEEEECCCCeeee
Confidence 344444444432 334577999999999999999999999999998
No 53
>PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A ....
Probab=21.55 E-value=69 Score=21.12 Aligned_cols=30 Identities=27% Similarity=0.458 Sum_probs=24.2
Q ss_pred eeehhhhhhcC-CcchHHHHHHHHHhcCcee
Q 024264 66 ILQSQLYSSVN-DRTQVDRELESLRRERVLR 95 (270)
Q Consensus 66 Vl~~qLysll~-~~T~VdReL~~L~~~G~lR 95 (270)
+++.+|-..+. +.+.|-+.|.+|.++|.|+
T Consensus 18 ~t~~ela~~~~is~~tv~~~l~~L~~~g~I~ 48 (48)
T PF13412_consen 18 ITQKELAEKLGISRSTVNRYLKKLEEKGLIE 48 (48)
T ss_dssp S-HHHHHHHHTS-HHHHHHHHHHHHHTTSEE
T ss_pred CCHHHHHHHhCCCHHHHHHHHHHHHHCcCcC
Confidence 67777777676 8899999999999999885
No 54
>cd00591 HU_IHF Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and higher-order nucleoprotein complex assembly. The dimer subunits associate to form a compact globular core from which two beta ribbon arms (one from each subunit) protrude. The beta arms track and bind the DNA minor groove. Despite sequence and structural similarity, IHF and HU can be distinguished by their different DNA substrate preferences.
Probab=21.44 E-value=35 Score=25.32 Aligned_cols=55 Identities=11% Similarity=0.021 Sum_probs=29.1
Q ss_pred hhhhhhhhccCCCChHHHHHHHHcCccccccCCCCeEEEecCCchHHHHHHHHHH
Q 024264 155 EELCSLLSIVGKVKDEHISLLINAGILTRQLIDPDMYWFAIPNIGSVLKGLSQGR 209 (270)
Q Consensus 155 ~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~~d~~~y~lSiPn~G~flkll~~GR 209 (270)
.+|++.++...+++.+++...+.+=+-.....=.+...+.+||.|+|--....+|
T Consensus 3 ~~l~~~ia~~~~~~~~~v~~vl~~~~~~i~~~L~~g~~V~l~~~G~F~~~~~~~r 57 (87)
T cd00591 3 SELIEAIAEKTGLSKKDAEAAVDAFLDVITEALAKGEKVELPGFGTFEVRERAAR 57 (87)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHhCCCeEEEeCCEEEEEEEECCe
Confidence 3445555545566666666665543333310001223788888888865554433
No 55
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=21.14 E-value=92 Score=22.70 Aligned_cols=22 Identities=27% Similarity=0.513 Sum_probs=20.0
Q ss_pred cCCcchHHHHHHHHHhcCceeE
Q 024264 75 VNDRTQVDRELESLRRERVLRV 96 (270)
Q Consensus 75 l~~~T~VdReL~~L~~~G~lR~ 96 (270)
+.++..|.+.|..|.++|-|++
T Consensus 37 ~~S~~tv~~~L~~Le~kG~I~r 58 (65)
T PF01726_consen 37 LKSTSTVQRHLKALERKGYIRR 58 (65)
T ss_dssp SSSHHHHHHHHHHHHHTTSEEE
T ss_pred CCChHHHHHHHHHHHHCcCccC
Confidence 3589999999999999999986
No 56
>cd00092 HTH_CRP helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family.
Probab=21.03 E-value=2.3e+02 Score=19.34 Aligned_cols=35 Identities=17% Similarity=0.257 Sum_probs=29.1
Q ss_pred CCeeeehhhhhhcC-CcchHHHHHHHHHhcCceeEE
Q 024264 63 RPFILQSQLYSSVN-DRTQVDRELESLRRERVLRVF 97 (270)
Q Consensus 63 PPlVl~~qLysll~-~~T~VdReL~~L~~~G~lR~f 97 (270)
.+-++..+|-..+. ++..|-|-|..|.+.|.|.+.
T Consensus 23 ~~~~s~~ela~~~g~s~~tv~r~l~~L~~~g~i~~~ 58 (67)
T cd00092 23 QLPLTRQEIADYLGLTRETVSRTLKELEEEGLISRR 58 (67)
T ss_pred cCCcCHHHHHHHHCCCHHHHHHHHHHHHHCCCEEec
Confidence 34467888888776 899999999999999999863
No 57
>TIGR02702 SufR_cyano iron-sulfur cluster biosynthesis transcriptional regulator SufR. All members of this cyanobacterial protein family are the transcriptional regulator SufR and regulate the SUF system, which makes possible iron-sulfur cluster biosynthesis despite exposure to oxygen. In all cases, the sufR gene is encoded near SUF system genes but in the opposite direction. This DNA-binding protein belongs to the the DeoR family of helix-loop-helix proteins. All members also have a probable metal-binding motif C-X(12)-C-X(13)-C-X(14)-C near the C-terminus.
Probab=20.43 E-value=4e+02 Score=23.12 Aligned_cols=82 Identities=15% Similarity=0.145 Sum_probs=39.8
Q ss_pred cchhhhhhhhhccCCCChHHHHHHHHcCcccccc----CCCC--eEEEecCCchHHHHHHHHHHHHHHHHHhccchhHHH
Q 024264 152 VGHEELCSLLSIVGKVKDEHISLLINAGILTRQL----IDPD--MYWFAIPNIGSVLKGLSQGRKEIISFLNRRKYKEMM 225 (270)
Q Consensus 152 i~~~~L~~~ls~~~~f~d~eit~LV~aGfLt~~~----~d~~--~y~lSiPn~G~flkll~~GR~~ll~~Lkk~kykE~l 225 (270)
++..+|.+.+..+...--.++..|++.|++.... .+.. .|.++=.+.-.|-+....--..++..+...=-.|..
T Consensus 16 ~t~~eLA~~lgis~~tV~~~L~~Le~~GlV~r~~~~~~~gRp~~~y~LT~~G~~~~~~~~~~~~~~ll~~l~~~l~~~~~ 95 (203)
T TIGR02702 16 ATAAALAEALAISPQAVRRHLKDLETEGLIEYEAVVQGMGRPQYHYQLSRQGREQFPQRHGRFAVSLLDSLAETLGPEQF 95 (203)
T ss_pred CCHHHHHHHHCcCHHHHHHHHHHHHHCCCeEEeecccCCCCCceEEEECcchhhhccccHHHHHHHHHHHHHHHcCHHHH
Confidence 3344555555222223345789999999998641 1111 245553433344443333333444433332224455
Q ss_pred HHHHHHhc
Q 024264 226 LALLEKKH 233 (270)
Q Consensus 226 ~~~L~~R~ 233 (270)
...+..+|
T Consensus 96 ~~l~~~~~ 103 (203)
T TIGR02702 96 EAVLQKQW 103 (203)
T ss_pred HHHHHHHH
Confidence 55555565
Done!