Query 014259
Match_columns 428
No_of_seqs 106 out of 124
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 03:23:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/014259.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/014259hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12576 DUF3754: Protein of u 100.0 1.2E-34 2.7E-39 259.9 13.9 121 201-322 1-141 (141)
2 COG3355 Predicted transcriptio 92.4 0.61 1.3E-05 41.9 7.6 71 341-420 31-110 (126)
3 PF01978 TrmB: Sugar-specific 91.0 0.21 4.5E-06 39.0 2.8 54 342-404 13-68 (68)
4 COG1378 Predicted transcriptio 77.3 6.8 0.00015 38.7 6.7 71 341-420 20-92 (247)
5 PF11460 DUF3007: Protein of u 75.4 17 0.00038 31.8 7.8 63 246-308 1-75 (104)
6 PF14394 DUF4423: Domain of un 71.7 9.5 0.00021 35.7 5.8 63 352-421 40-111 (171)
7 PRK04214 rbn ribonuclease BN/u 66.0 1.5E+02 0.0032 31.3 13.9 39 351-398 310-348 (412)
8 TIGR02147 Fsuc_second hypothet 60.0 28 0.0006 35.1 6.9 38 364-401 142-180 (271)
9 COG1802 GntR Transcriptional r 58.9 15 0.00033 34.9 4.7 43 361-404 41-83 (230)
10 TIGR03433 padR_acidobact trans 57.5 91 0.002 26.2 8.7 82 341-423 5-97 (100)
11 PF14015 DUF4231: Protein of u 54.3 59 0.0013 27.2 7.1 18 290-307 67-84 (112)
12 smart00550 Zalpha Z-DNA-bindin 53.3 61 0.0013 25.5 6.5 56 334-400 5-64 (68)
13 PRK06266 transcription initiat 49.8 1.2E+02 0.0025 28.7 8.9 70 344-422 29-106 (178)
14 PF04369 Lactococcin: Lactococ 47.3 13 0.00028 29.6 1.7 28 46-73 1-29 (60)
15 PRK11534 DNA-binding transcrip 45.4 32 0.0007 32.4 4.5 39 365-404 36-74 (224)
16 PF10007 DUF2250: Uncharacteri 44.2 18 0.0004 30.8 2.4 21 376-396 37-57 (92)
17 PF12597 DUF3767: Protein of u 43.9 80 0.0017 28.0 6.4 83 225-315 22-107 (118)
18 PRK06743 flagellar motor prote 42.5 2.1E+02 0.0045 28.7 9.8 67 297-367 64-131 (254)
19 PF14338 Mrr_N: Mrr N-terminal 41.2 80 0.0017 26.1 5.7 35 372-406 52-86 (92)
20 PRK08868 flagellar protein Fla 40.9 25 0.00054 32.5 2.8 63 352-416 68-133 (144)
21 PHA01814 hypothetical protein 40.4 5.6 0.00012 35.2 -1.4 58 62-134 55-112 (137)
22 TIGR00373 conserved hypothetic 39.7 1.6E+02 0.0034 27.2 8.0 72 340-420 17-96 (158)
23 PF07120 DUF1376: Protein of u 38.8 53 0.0012 27.2 4.3 63 301-363 22-87 (88)
24 smart00347 HTH_MARR helix_turn 37.1 2.1E+02 0.0045 22.5 8.7 42 345-395 18-59 (101)
25 smart00529 HTH_DTXR Helix-turn 36.5 1.1E+02 0.0024 24.7 5.8 32 376-407 15-46 (96)
26 PF04391 DUF533: Protein of un 32.6 2.9E+02 0.0062 26.5 8.7 24 278-301 33-56 (188)
27 PRK09990 DNA-binding transcrip 32.4 66 0.0014 30.9 4.5 42 362-404 34-75 (251)
28 PRK10225 DNA-binding transcrip 32.0 67 0.0015 31.0 4.5 41 362-403 36-76 (257)
29 cd00092 HTH_CRP helix_turn_hel 31.8 58 0.0013 24.3 3.2 44 350-402 24-67 (67)
30 PF11880 DUF3400: Domain of un 30.8 48 0.001 25.0 2.4 24 403-426 16-40 (45)
31 smart00345 HTH_GNTR helix_turn 30.2 56 0.0012 23.6 2.8 33 365-398 26-58 (60)
32 PF06969 HemN_C: HemN C-termin 30.2 71 0.0015 24.3 3.5 37 365-402 26-62 (66)
33 PF11469 Ribonucleas_3_2: Ribo 30.1 52 0.0011 29.1 2.9 22 333-356 58-79 (120)
34 PRK11414 colanic acid/biofilm 28.8 94 0.002 29.3 4.7 39 365-404 40-78 (221)
35 PRK08990 flagellar motor prote 28.3 3.4E+02 0.0074 27.1 8.8 64 296-365 65-129 (254)
36 PRK11523 DNA-binding transcrip 28.0 86 0.0019 30.2 4.4 42 362-404 35-76 (253)
37 PF03965 Penicillinase_R: Peni 27.4 1.7E+02 0.0036 25.1 5.7 72 345-424 11-86 (115)
38 cd07377 WHTH_GntR Winged helix 27.1 1.1E+02 0.0025 22.3 4.1 57 334-399 4-64 (66)
39 PRK13777 transcriptional regul 26.8 3.4E+02 0.0075 25.7 8.1 71 346-425 54-131 (185)
40 cd00090 HTH_ARSR Arsenical Res 26.7 1E+02 0.0022 22.5 3.8 54 352-414 21-77 (78)
41 PRK14137 recX recombination re 26.6 64 0.0014 30.9 3.2 66 319-390 21-87 (195)
42 PRK10421 DNA-binding transcrip 26.2 99 0.0021 29.8 4.5 41 362-403 29-69 (253)
43 TIGR03338 phnR_burk phosphonat 25.9 1.2E+02 0.0026 28.2 4.9 40 364-404 39-78 (212)
44 PF11694 DUF3290: Protein of u 24.9 3.5E+02 0.0075 25.0 7.5 23 247-269 13-35 (149)
45 PRK09109 motC flagellar motor 24.5 6.9E+02 0.015 24.7 11.5 11 353-363 120-130 (246)
46 PRK09464 pdhR transcriptional 24.5 1.1E+02 0.0024 29.4 4.5 40 362-402 37-76 (254)
47 COG2979 Uncharacterized protei 23.5 2.6E+02 0.0056 27.7 6.6 26 279-304 62-87 (225)
48 PRK07738 flagellar protein Fla 22.6 92 0.002 27.8 3.2 63 352-416 43-108 (117)
49 PF11286 DUF3087: Protein of u 22.4 6.8E+02 0.015 23.8 10.3 42 323-364 95-144 (165)
50 PRK14999 histidine utilization 22.3 1.5E+02 0.0033 28.3 5.0 56 362-418 39-96 (241)
51 TIGR01889 Staph_reg_Sar staphy 22.2 2E+02 0.0043 24.4 5.1 60 349-417 41-104 (109)
52 PF09840 DUF2067: Uncharacteri 22.1 85 0.0018 30.1 3.1 49 335-409 140-189 (190)
53 COG5631 Predicted transcriptio 21.7 90 0.002 29.8 3.1 45 354-403 98-145 (199)
54 TIGR01714 phage_rep_org_N phag 21.2 1.6E+02 0.0035 26.3 4.5 36 366-402 58-93 (119)
55 PRK03837 transcriptional regul 21.0 1.4E+02 0.003 28.2 4.4 39 365-404 43-81 (241)
56 TIGR02325 C_P_lyase_phnF phosp 20.9 1.4E+02 0.0031 28.2 4.4 37 362-399 35-72 (238)
57 PLN00134 fumarate hydratase; P 20.8 4.2E+02 0.009 28.7 8.3 44 32-75 35-85 (458)
58 PF02985 HEAT: HEAT repeat; I 20.6 80 0.0017 20.8 1.9 29 19-47 1-29 (31)
59 PF10557 Cullin_Nedd8: Cullin 20.5 1.9E+02 0.0042 22.6 4.4 48 348-396 19-66 (68)
60 PHA02888 hypothetical protein; 20.5 1E+02 0.0022 26.0 2.7 28 351-379 35-62 (96)
61 PRK08452 flagellar protein Fla 20.4 99 0.0022 27.8 3.0 61 354-416 52-115 (124)
62 TIGR02698 CopY_TcrY copper tra 20.4 6E+02 0.013 22.4 8.0 48 345-397 12-59 (130)
No 1
>PF12576 DUF3754: Protein of unknown function (DUF3754); InterPro: IPR022227 This domain family is found in bacteria, archaea and eukaryotes, and is typically between 135 and 166 amino acids in length. There is a single completely conserved residue P that may be functionally important.
Probab=100.00 E-value=1.2e-34 Score=259.88 Aligned_cols=121 Identities=41% Similarity=0.672 Sum_probs=109.0
Q ss_pred cceEEEEEeeccccC--------------cCCCCeEEEeeCCCCCCCccccccCCCCCCCChhhHHHHHHHHHHhHhhhh
Q 014259 201 FDRIIVLYRQASTKS--------------KAERGVYLKHFRNIPMADMEIVLPEKKNPGLTPLDWVKFLVSAVVGLVAVI 266 (428)
Q Consensus 201 FkrVVvlyR~k~~~~--------------~~~~~l~LK~FkdIP~aDLE~llPekK~~~~~~~D~~~l~v~avvglvav~ 266 (428)
||||||+||.++++. ..+++|+||+||||||+|||+||||+| |+|+|+||+++++++++|+++++
T Consensus 1 f~~vvllyr~~~~~~~~~~~~~~~~~~~~~~~~~i~lK~FkdIP~aDLE~llP~~k-v~~~~~D~~~l~~~~vvg~v~~~ 79 (141)
T PF12576_consen 1 FEEVVLLYRFKDSRKFKAKKESIQEAPKKFKPGPIYLKSFKDIPMADLEMLLPEKK-VRMRPFDRVKLGVSAVVGGVAVF 79 (141)
T ss_pred CcEEEEEEEecccccchhhhhhhhhccccCCCCCeEEEEeCCCCccchhHhCCCCc-CCcCHHHHHHHHHHHHHHHHHHH
Confidence 899999999987543 137999999999999999999999998 89999999999999999999999
Q ss_pred hhcccch----hh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChh
Q 014259 267 TSAQLHE----ID--LWVGMAILSTVIGYCAKTYFTFQQNMAAYQNMITQSMYDKQLDSGKG 322 (428)
Q Consensus 267 ~~l~~~~----~d--~~v~~a~ls~l~g~~~r~~~~y~~~r~rY~~~lt~~LY~K~l~sn~G 322 (428)
+++..+. ++ ++..+++++++++||+|+|++|+|+|.+||+++|++|||||+|||+|
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~r~~~~~~~~~~ry~~~l~~~LY~K~l~sn~G 141 (141)
T PF12576_consen 80 VKLVGMSLLLLSDIFLILILSLLSALGGYAFRQYTGYKNNRARYQLLLTKTLYFKNLDSNRG 141 (141)
T ss_pred HHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC
Confidence 8865543 22 55677778889999999999999999999999999999999999998
No 2
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=92.37 E-value=0.61 Score=41.94 Aligned_cols=71 Identities=21% Similarity=0.244 Sum_probs=53.8
Q ss_pred HHHHHHh-hcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC----Cc----eEEechhhHHHHHh
Q 014259 341 ISFFILM-EQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI----GR----YYCVGLKRSNEIIG 411 (428)
Q Consensus 341 LAY~~Ll-~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~----g~----~~avpL~~A~~~l~ 411 (428)
=+|..|+ .+|++|.++|.+....= +. -|..||++|..-|||.+... |+ |.++|.++..+.+.
T Consensus 31 ~v~~~LL~~~~~~tvdelae~lnr~---rS------tv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~ 101 (126)
T COG3355 31 EVYKALLEENGPLTVDELAEILNRS---RS------TVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKIL 101 (126)
T ss_pred HHHHHHHhhcCCcCHHHHHHHHCcc---HH------HHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHH
Confidence 3677788 68999999998776532 11 37899999999999988642 43 45899999999988
Q ss_pred hhHHHHHHH
Q 014259 412 TTTEEMVLK 420 (428)
Q Consensus 412 ~~w~~~~~~ 420 (428)
..-++...+
T Consensus 102 ~~l~~w~~~ 110 (126)
T COG3355 102 KDLDEWYDK 110 (126)
T ss_pred HHHHHHHHH
Confidence 876655544
No 3
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=90.96 E-value=0.21 Score=39.00 Aligned_cols=54 Identities=28% Similarity=0.372 Sum_probs=40.3
Q ss_pred HHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCC--ceEEechh
Q 014259 342 SFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIG--RYYCVGLK 404 (428)
Q Consensus 342 AY~~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g--~~~avpL~ 404 (428)
+|..|++.|++|.++|.+.+ |++- =.|.++|++|++.|+|.+...+ .|.|+|++
T Consensus 13 vy~~Ll~~~~~t~~eIa~~l--------~i~~-~~v~~~L~~L~~~GlV~~~~~~~~~Y~a~~pe 68 (68)
T PF01978_consen 13 VYLALLKNGPATAEEIAEEL--------GISR-STVYRALKSLEEKGLVEREEGRPKVYRAVPPE 68 (68)
T ss_dssp HHHHHHHHCHEEHHHHHHHH--------TSSH-HHHHHHHHHHHHTTSEEEEEECCEEEEEE-HH
T ss_pred HHHHHHHcCCCCHHHHHHHH--------CcCH-HHHHHHHHHHHHCCCEEEEcCceEEEEEeCCC
Confidence 67777789999999987654 3332 2578999999999999887643 47888875
No 4
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=77.28 E-value=6.8 Score=38.74 Aligned_cols=71 Identities=24% Similarity=0.268 Sum_probs=56.3
Q ss_pred HHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC--CceEEechhhHHHHHhhhHHHHH
Q 014259 341 ISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI--GRYYCVGLKRSNEIIGTTTEEMV 418 (428)
Q Consensus 341 LAY~~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~--g~~~avpL~~A~~~l~~~w~~~~ 418 (428)
=+|.-|+..|++|+.++-+ ..|+.-. -|=|-|+.|++-|+|...++ ..|.|+|+++.++.+...+++.+
T Consensus 20 ~vY~aLl~~g~~tA~eis~--------~sgvP~~-kvY~vl~sLe~kG~v~~~~g~P~~y~av~p~~~i~~~~~~~~~~~ 90 (247)
T COG1378 20 KVYLALLCLGEATAKEISE--------ASGVPRP-KVYDVLRSLEKKGLVEVIEGRPKKYRAVPPEELIERIKEELQELL 90 (247)
T ss_pred HHHHHHHHhCCccHHHHHH--------HcCCCch-hHHHHHHHHHHCCCEEeeCCCCceEEeCCHHHHHHHHHHHHHHHH
Confidence 3799999999999999864 3454433 25578999999999977533 46999999999999999988876
Q ss_pred HH
Q 014259 419 LK 420 (428)
Q Consensus 419 ~~ 420 (428)
..
T Consensus 91 ~~ 92 (247)
T COG1378 91 RE 92 (247)
T ss_pred HH
Confidence 55
No 5
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=75.38 E-value=17 Score=31.78 Aligned_cols=63 Identities=16% Similarity=0.336 Sum_probs=36.1
Q ss_pred CChhhHHHHHHHHHH-hHhhh--hhhcccch--hhHH----HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Q 014259 246 LTPLDWVKFLVSAVV-GLVAV--ITSAQLHE--IDLW----VGMAILSTVIGYCAKTYFT---FQQNMAAYQNMI 308 (428)
Q Consensus 246 ~~~~D~~~l~v~avv-glvav--~~~l~~~~--~d~~----v~~a~ls~l~g~~~r~~~~---y~~~r~rY~~~l 308 (428)
|+..|-+.+++.+.+ |+++. +-.+++++ +..| .++++++=+++|.+|+.++ |.++|.+|...+
T Consensus 1 MtR~dvl~Iglgv~~~Gg~~Y~~l~~~G~d~~~AGi~sq~~lv~glvgW~~sYlfRV~t~~MTy~~Q~k~Ye~a~ 75 (104)
T PF11460_consen 1 MTRIDVLLIGLGVFLLGGLLYGGLQAAGLDSLSAGIWSQALLVLGLVGWVSSYLFRVVTGKMTYMQQRKDYEEAV 75 (104)
T ss_pred CcccceeeecHHHHHHHHHHHHHHHHcCCCchhhhHHHHHHHHHHHHHHHhHHHhhhccCCCcHHHHHHHHHHHH
Confidence 344566665555433 33332 33444432 2233 2334444467799999875 999999998865
No 6
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=71.73 E-value=9.5 Score=35.65 Aligned_cols=63 Identities=22% Similarity=0.275 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec---------hhhHHHHHhhhHHHHHHHH
Q 014259 352 ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG---------LKRSNEIIGTTTEEMVLKA 421 (428)
Q Consensus 352 lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avp---------L~~A~~~l~~~w~~~~~~~ 421 (428)
.+++||.++|-- ++..+ +|.+||+.|+++||+.++.+|.|..+. ...|+......|-++-..|
T Consensus 40 ~d~~~iak~l~p------~is~~-ev~~sL~~L~~~gli~k~~~g~y~~t~~~l~~~~~~~~~avr~~h~q~~~lA~~a 111 (171)
T PF14394_consen 40 PDPEWIAKRLRP------KISAE-EVRDSLEFLEKLGLIKKDGDGKYVQTDKSLTTSSEIPSEAVRSYHKQMLELAQEA 111 (171)
T ss_pred CCHHHHHHHhcC------CCCHH-HHHHHHHHHHHCCCeEECCCCcEEEecceeeCCCCCcHHHHHHHHHHHHHHHHHH
Confidence 467766666511 23322 689999999999999999988885544 4677777777777766554
No 7
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=65.99 E-value=1.5e+02 Score=31.28 Aligned_cols=39 Identities=10% Similarity=0.309 Sum_probs=28.5
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCce
Q 014259 351 KATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY 398 (428)
Q Consensus 351 ~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~ 398 (428)
+.|.++|.++. +.+.+ .+++-+++|++.|++.++.+|.|
T Consensus 310 ~~t~~~La~~l--------~~~~~-~v~~iL~~L~~agLI~~~~~g~~ 348 (412)
T PRK04214 310 ALDVDEIRRLE--------PMGYD-ELGELLCELARIGLLRRGERGQW 348 (412)
T ss_pred CCCHHHHHHHh--------CCCHH-HHHHHHHHHHhCCCeEecCCCce
Confidence 47888876543 33333 57899999999999988776654
No 8
>TIGR02147 Fsuc_second hypothetical protein, TIGR02147. This family consists of the 40 members of a paralogous protein family in the rumen anaerobe Fibrobacter succinogenes S85. Member proteins are about 270 residues long and appear to lack signal sequences and transmembrane helices. The only perfectly conserved residue is a glycine in an otherwise poorly conserved region, suggesting members are not enzymes. The family is not characterized.
Probab=59.96 E-value=28 Score=35.09 Aligned_cols=38 Identities=18% Similarity=0.325 Sum_probs=28.8
Q ss_pred HHHHHhCCcceec-HHHHHHHHHHcCeeeecCCCceEEe
Q 014259 364 LIKEEFGESCNFD-VDDAVHKLEKLGIVARDTIGRYYCV 401 (428)
Q Consensus 364 ~L~~~fg~~vdFd-v~dAL~kL~rLgLv~~d~~g~~~av 401 (428)
||..+.+-.|.=+ |.+||+.|+++||+.++.+|.|..+
T Consensus 142 ~ia~~l~p~is~~ev~~sL~~L~~~glikk~~~g~y~~t 180 (271)
T TIGR02147 142 ELAKRCFPKISAEQVKESLDLLERLGLIKKNEDGFYKQT 180 (271)
T ss_pred HHHHHhCCCCCHHHHHHHHHHHHHCCCeeECCCCcEEee
Confidence 4445556555554 8999999999999999988887443
No 9
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=58.86 E-value=15 Score=34.92 Aligned_cols=43 Identities=30% Similarity=0.385 Sum_probs=34.4
Q ss_pred HHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 361 CEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 361 ~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
.|+.|.++||++- -+|-+||..|+..|||...++..+.+.|++
T Consensus 41 ~e~~La~~~gvSr-tPVReAL~rL~~eGlv~~~p~rG~~V~~~~ 83 (230)
T COG1802 41 SEEELAEELGVSR-TPVREALRRLEAEGLVEIEPNRGAFVAPLS 83 (230)
T ss_pred cHHHHHHHhCCCC-ccHHHHHHHHHHCCCeEecCCCCCeeCCCC
Confidence 3566778899885 489999999999999999988666555554
No 10
>TIGR03433 padR_acidobact transcriptional regulator, Acidobacterial, PadR-family. Members of this protein family are putative transcriptional regulators of the PadR family, as found in species of the Acidobacteria. This family of proteins has expanded greatly in this lineage, and where it regularly is found in the vicinity of a putative transporter protein
Probab=57.52 E-value=91 Score=26.20 Aligned_cols=82 Identities=12% Similarity=0.160 Sum_probs=54.0
Q ss_pred HHHHH--HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeec--C--CC----ceEEechh-hHHHH
Q 014259 341 ISFFI--LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARD--T--IG----RYYCVGLK-RSNEI 409 (428)
Q Consensus 341 LAY~~--Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d--~--~g----~~~avpL~-~A~~~ 409 (428)
+.|++ ++..+|.+.-+|-+.+++.....+..+- =.+-.+|.+|++.|+|+.. + .| .|..+|-- ++++.
T Consensus 5 l~~~iL~~L~~~~~~GYei~~~l~~~~~~~~~i~~-gtlY~~L~rLe~~GlI~~~~~~~~~~~~rk~y~iT~~Gr~~l~~ 83 (100)
T TIGR03433 5 LDLLILKTLSLGPLHGYGIAQRIQQISEDVLQVEE-GSLYPALHRLERRGWIAAEWGESENNRRAKFYRLTAAGRKQLAA 83 (100)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHcCCccccCC-CcHHHHHHHHHHCCCeEEEeeecCCCCCceEEEECHHHHHHHHH
Confidence 34444 3357889999999999887532222221 1366799999999999872 1 12 25555553 44666
Q ss_pred HhhhHHHHHHHHhc
Q 014259 410 IGTTTEEMVLKAQQ 423 (428)
Q Consensus 410 l~~~w~~~~~~~~~ 423 (428)
....|+++.....+
T Consensus 84 ~~~~~~~~~~~i~~ 97 (100)
T TIGR03433 84 ETESWARLSAAIAR 97 (100)
T ss_pred HHHHHHHHHHHHHH
Confidence 88889998876554
No 11
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=54.32 E-value=59 Score=27.24 Aligned_cols=18 Identities=17% Similarity=0.504 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 014259 290 CAKTYFTFQQNMAAYQNM 307 (428)
Q Consensus 290 ~~r~~~~y~~~r~rY~~~ 307 (428)
++...++|++++.+|...
T Consensus 67 ~~~~~~~~~~~W~~~r~t 84 (112)
T PF14015_consen 67 SLAAFFRFHERWIRYRAT 84 (112)
T ss_pred HHHHHhchhHHHHHHHHH
Confidence 356778899998888763
No 12
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=53.30 E-value=61 Score=25.52 Aligned_cols=56 Identities=25% Similarity=0.394 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHhhcCC--CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecC-C-CceEE
Q 014259 334 QEVKEVIISFFILMEQGK--ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDT-I-GRYYC 400 (428)
Q Consensus 334 Qe~KEaiLAY~~Ll~~g~--lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~-~-g~~~a 400 (428)
.+.+|.||.+ |.++|+ +|..+|. +++|..-. .|...|.+|++.|+|.+++ . +.|..
T Consensus 5 ~~~~~~IL~~--L~~~g~~~~ta~eLa--------~~lgl~~~-~v~r~L~~L~~~G~V~~~~~~~~~W~i 64 (68)
T smart00550 5 DSLEEKILEF--LENSGDETSTALQLA--------KNLGLPKK-EVNRVLYSLEKKGKVCKQGGTPPLWKL 64 (68)
T ss_pred hHHHHHHHHH--HHHCCCCCcCHHHHH--------HHHCCCHH-HHHHHHHHHHHCCCEEecCCCCCceEe
Confidence 4556666654 445666 8988775 45688877 8999999999999998865 3 45543
No 13
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=49.77 E-value=1.2e+02 Score=28.71 Aligned_cols=70 Identities=23% Similarity=0.265 Sum_probs=53.0
Q ss_pred HHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeee----c-CCCceEE---echhhHHHHHhhhHH
Q 014259 344 FILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVAR----D-TIGRYYC---VGLKRSNEIIGTTTE 415 (428)
Q Consensus 344 ~~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~----d-~~g~~~a---vpL~~A~~~l~~~w~ 415 (428)
..|..+|.+|.++|.. ..|.+.. +|-..|.+|.+.|||+. + ..|+++. +..+++..+|..+=.
T Consensus 29 ~~L~~~g~~tdeeLA~--------~Lgi~~~-~VRk~L~~L~e~gLv~~~r~r~~~~Gr~~y~w~l~~~~i~d~ik~~~~ 99 (178)
T PRK06266 29 KALIKKGEVTDEEIAE--------QTGIKLN-TVRKILYKLYDARLADYKREKDEETNWYTYTWKPELEKLPEIIKKKKM 99 (178)
T ss_pred HHHHHcCCcCHHHHHH--------HHCCCHH-HHHHHHHHHHHCCCeEEeeeeccCCCcEEEEEEeCHHHHHHHHHHHHH
Confidence 3466788999988764 4566554 78899999999999983 3 2366544 889999999999887
Q ss_pred HHHHHHh
Q 014259 416 EMVLKAQ 422 (428)
Q Consensus 416 ~~~~~~~ 422 (428)
.++.+-+
T Consensus 100 ~~~~klk 106 (178)
T PRK06266 100 EELKKLK 106 (178)
T ss_pred HHHHHHH
Confidence 7776643
No 14
>PF04369 Lactococcin: Lactococcin-like family; InterPro: IPR007464 Bacteriocins are produced by bacteria to inhibit the growth of similar or closely related bacterial strains. The class II bacteriocins are small heat-stable proteins for which disulphide bonds are the only modification to the peptide. Lactococcin A and B are class-IId bacteriocins (one-peptide non-pediocin-like bacteriocin) [, ].; GO: 0042742 defense response to bacterium, 0005576 extracellular region
Probab=47.32 E-value=13 Score=29.56 Aligned_cols=28 Identities=29% Similarity=0.370 Sum_probs=20.7
Q ss_pred hhhc-CCcccCHHHHHHHhcCCceeeecc
Q 014259 46 MDKS-NFKITTDEEIDVALSGQYLLHLPI 73 (428)
Q Consensus 46 m~~a-nF~~Ls~~e~~~Al~~~yll~Lpi 73 (428)
|++- ||+++|++|++.+-.+.|-+.+..
T Consensus 1 m~~~~nf~~~sdeeL~~i~GG~l~~iqs~ 29 (60)
T PF04369_consen 1 MENQLNFNILSDEELSKINGGGLPYIQSN 29 (60)
T ss_pred CcccccceecCHHHHhhccCCcceeeeec
Confidence 3444 999999999999877765555543
No 15
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=45.42 E-value=32 Score=32.41 Aligned_cols=39 Identities=10% Similarity=0.188 Sum_probs=31.3
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 365 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 365 L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
|.++||++-. .|-+||..|+..|||...++..+.+.|+.
T Consensus 36 Lae~lgVSRt-pVREAL~~L~~eGlv~~~~~~G~~V~~~~ 74 (224)
T PRK11534 36 LTSRYALGVG-PLREALSQLVAERLVTVVNQKGYRVASMS 74 (224)
T ss_pred HHHHHCCChH-HHHHHHHHHHHCCCEEEeCCCceEeCCCC
Confidence 5677888875 99999999999999988777556665554
No 16
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=44.20 E-value=18 Score=30.83 Aligned_cols=21 Identities=33% Similarity=0.559 Sum_probs=18.2
Q ss_pred cHHHHHHHHHHcCeeeecCCC
Q 014259 376 DVDDAVHKLEKLGIVARDTIG 396 (428)
Q Consensus 376 dv~dAL~kL~rLgLv~~d~~g 396 (428)
+|.+++++|+++|||.+..+.
T Consensus 37 ~v~~~l~~Le~~GLler~~g~ 57 (92)
T PF10007_consen 37 EVREALEKLEEMGLLERVEGK 57 (92)
T ss_pred HHHHHHHHHHHCCCeEEecCc
Confidence 688999999999999887643
No 17
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=43.95 E-value=80 Score=28.04 Aligned_cols=83 Identities=14% Similarity=0.203 Sum_probs=41.9
Q ss_pred eeCCCCCCCccccccCCCCCCCChhhHHHHHHH--HHHhHhhhhhhcccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014259 225 HFRNIPMADMEIVLPEKKNPGLTPLDWVKFLVS--AVVGLVAVITSAQLH-EIDLWVGMAILSTVIGYCAKTYFTFQQNM 301 (428)
Q Consensus 225 ~FkdIP~aDLE~llPekK~~~~~~~D~~~l~v~--avvglvav~~~l~~~-~~d~~v~~a~ls~l~g~~~r~~~~y~~~r 301 (428)
..|.|...|++- =.++|.+| |-+..+++ +++|++.++..-... +.+|-+..-+++.+++| .|=.|+.++
T Consensus 22 A~ksi~~~df~~---~~~iPCfR--~slL~Gi~~G~~vG~~~fl~~~~~~~A~nwavgsF~l~s~~~w---e~Cr~~r~~ 93 (118)
T PF12597_consen 22 AVKSIKLSDFRN---VHKIPCFR--DSLLYGIAGGFGVGGLRFLFTSNPRKAANWAVGSFFLGSLGSW---EYCRYNRRK 93 (118)
T ss_pred HHHhcCHHHHhH---HhcCCcHH--HHHHHHHHHHHHHHhhhhcccCCCccchhhhhHHHHHHHHHHH---HHHHHHHHH
Confidence 445555666621 12346666 44554444 566666666544332 23455544444444444 445555666
Q ss_pred HHHHHHHHHHHHHH
Q 014259 302 AAYQNMITQSMYDK 315 (428)
Q Consensus 302 ~rY~~~lt~~LY~K 315 (428)
.+.+...+...|.+
T Consensus 94 ~~~~~~~~~e~~~~ 107 (118)
T PF12597_consen 94 ERQQMKRAVEAMQE 107 (118)
T ss_pred HHHHHHHHHHHHHH
Confidence 66666555544443
No 18
>PRK06743 flagellar motor protein MotP; Reviewed
Probab=42.49 E-value=2.1e+02 Score=28.72 Aligned_cols=67 Identities=15% Similarity=0.121 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHhHHHHHHHHHHHHH-hhcCCCCHHHHHHHHHHHHHH
Q 014259 297 FQQNMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFIL-MEQGKATRQDLDLRCEELIKE 367 (428)
Q Consensus 297 y~~~r~rY~~~lt~~LY~K~l~sn~GvL~~L~D~AeeQe~KEaiLAY~~L-l~~g~lT~~~Ld~~~E~~L~~ 367 (428)
|+.++..|+..+......-+.+...|++ +| +.+.++.++.++..++- ...|. +++++.+..|+-+..
T Consensus 64 f~~~~~~~~~~i~~l~~la~~aRr~GlL-aL--E~~~~~~~d~fl~~gl~l~vdg~-~~e~i~~~le~~~~~ 131 (254)
T PRK06743 64 LHRREEDLEQLTDLFVDFSKKSKKHGLL-SL--EVDGEQVDNPFIQKGIRLMLSGY-DEDELKEVLMKDVET 131 (254)
T ss_pred HcCCCCCHHHHHHHHHHHHHHHHhcCHH-HH--HhhccCCccHHHHHHHHHHHCCC-CHHHHHHHHHHHHHH
Confidence 4455667888888877778888888843 33 33345556788888874 34454 667766665555543
No 19
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=41.21 E-value=80 Score=26.06 Aligned_cols=35 Identities=20% Similarity=0.190 Sum_probs=29.7
Q ss_pred cceecHHHHHHHHHHcCeeeecCCCceEEechhhH
Q 014259 372 SCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRS 406 (428)
Q Consensus 372 ~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~~A 406 (428)
...+.+.=|+..|.+-|+|.+...|.|...+.-.+
T Consensus 52 ~~~~ri~Wa~~~L~~aGli~~~~rG~~~iT~~G~~ 86 (92)
T PF14338_consen 52 RFKNRIRWARSYLKKAGLIERPKRGIWRITEKGRK 86 (92)
T ss_pred hHHHhHHHHHHHHHHCCCccCCCCCceEECHhHHH
Confidence 68889999999999999998877798988876444
No 20
>PRK08868 flagellar protein FlaG; Provisional
Probab=40.86 E-value=25 Score=32.47 Aligned_cols=63 Identities=19% Similarity=0.230 Sum_probs=49.6
Q ss_pred CCHHHHHHHHH---HHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 014259 352 ATRQDLDLRCE---ELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 416 (428)
Q Consensus 352 lT~~~Ld~~~E---~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~~A~~~l~~~w~~ 416 (428)
++.++|...+| .+|. .++.++.|.+++-..+.. -.++..+++..+.=+|.+++++++...|+.
T Consensus 68 ~~~eel~~aVeklNe~~~-~~n~~L~F~vdeetgr~V-VkViD~~T~EVIRQIP~Ee~L~la~~l~e~ 133 (144)
T PRK08868 68 LNREELEKMVEQMNEFVK-SINKGLSFRVDEESGRDV-VTIYEASTGDIIRQIPDEEMLEVLRRLAEQ 133 (144)
T ss_pred cCHHHHHHHHHHHHHHHH-hhcCceEEEEecCCCCEE-EEEEECCCCceeeeCCCHHHHHHHHHHHHh
Confidence 67888876655 5564 579999999998766554 446667777889999999999999998853
No 21
>PHA01814 hypothetical protein
Probab=40.40 E-value=5.6 Score=35.24 Aligned_cols=58 Identities=24% Similarity=0.371 Sum_probs=43.3
Q ss_pred HhcCCceeeeccccccccchHHHHHHHhhhccCCCCcCccCceeeecCCCccccCcchhhHHhHHHHHHHHHH
Q 014259 62 ALSGQYLLHLPITVNESKLDKKLLKRYFEEHHHDHLPDFADKYVIFRRGIGVDQTTDYFFMEKVDMLIGRFWS 134 (428)
Q Consensus 62 Al~~~yll~Lpi~vd~~klD~~ll~~y~~~~~~~~Lp~~~d~~liFrRG~g~d~~~g~~~~eKld~L~~~~~~ 134 (428)
-.++.=||||.|+||-+|.==..|+-||.+|.++ --+||+||+-. .-.+|-.+|.+=.
T Consensus 55 ~~~e~dlftldididikkhvfn~l~~yy~~~~~~-------~~iiykk~v~m--------~~tiddvls~fek 112 (137)
T PHA01814 55 TKNENDLFTLDIDIDIKKHVFNCLKVYYIEHTED-------INIIYKKGVYM--------GCTIDDVLSNFEK 112 (137)
T ss_pred cccccceEEEEeeeehhhheeeeEEEeeeccccc-------ceeeeecceEE--------ccCHHHHHhhccC
Confidence 4577889999999999998777788888877665 47899998743 3446666665544
No 22
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=39.67 E-value=1.6e+02 Score=27.19 Aligned_cols=72 Identities=22% Similarity=0.340 Sum_probs=53.0
Q ss_pred HHHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeec----CC-Cc---eEEechhhHHHHHh
Q 014259 340 IISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARD----TI-GR---YYCVGLKRSNEIIG 411 (428)
Q Consensus 340 iLAY~~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d----~~-g~---~~avpL~~A~~~l~ 411 (428)
+..--.|..+|.+|.++|.. ..|.+.+ +|...|.+|.+.|||+.. .+ |. +..+..+++...|.
T Consensus 17 v~Vl~aL~~~~~~tdEeLa~--------~Lgi~~~-~VRk~L~~L~e~~Lv~~~r~r~~~~gw~~Y~w~i~~~~i~d~Ik 87 (158)
T TIGR00373 17 GLVLFSLGIKGEFTDEEISL--------ELGIKLN-EVRKALYALYDAGLADYKRRKDDETGWYEYTWRINYEKALDVLK 87 (158)
T ss_pred HHHHHHHhccCCCCHHHHHH--------HHCCCHH-HHHHHHHHHHHCCCceeeeeeecCCCcEEEEEEeCHHHHHHHHH
Confidence 44444577788899988764 4577666 689999999999999432 22 32 23579999999999
Q ss_pred hhHHHHHHH
Q 014259 412 TTTEEMVLK 420 (428)
Q Consensus 412 ~~w~~~~~~ 420 (428)
.+=..++.+
T Consensus 88 ~~~~~~~~~ 96 (158)
T TIGR00373 88 RKLEETAKK 96 (158)
T ss_pred HHHHHHHHH
Confidence 887777665
No 23
>PF07120 DUF1376: Protein of unknown function (DUF1376); InterPro: IPR010781 This entry is represented by Bacteriophage PBC5 (Sinorhizobium phage PBC5), Orf49. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical bacterial proteins of around 95 residues in length. The function of this family is unknown.
Probab=38.82 E-value=53 Score=27.19 Aligned_cols=63 Identities=13% Similarity=0.220 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHH-HHhhcCChhHHHHHHhHH--HhHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Q 014259 301 MAAYQNMITQSMY-DKQLDSGKGTLLHLCDDV--IQQEVKEVIISFFILMEQGKATRQDLDLRCEE 363 (428)
Q Consensus 301 r~rY~~~lt~~LY-~K~l~sn~GvL~~L~D~A--eeQe~KEaiLAY~~Ll~~g~lT~~~Ld~~~E~ 363 (428)
+-.|..++-.+.. .+.+-++..+|..++... +.+...+.+|..+|....|......+++++++
T Consensus 22 ~gaY~~Ll~~~~~~~~plp~d~~~Lar~~~~s~~~~~~a~~~ll~~f~~~~dg~~~~~r~e~Ei~~ 87 (88)
T PF07120_consen 22 HGAYMRLLDLYYDTEGPLPDDDKRLARICGCSTKEWRKALDFLLREFFRLEDGRWWNKRCEEEIAK 87 (88)
T ss_pred HHHHHHHHHHHHHhCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHhCCCCCCCCEehHHHHHHHHh
Confidence 4566666655444 567889999999999876 66788899999999666677887777777664
No 24
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=37.06 E-value=2.1e+02 Score=22.54 Aligned_cols=42 Identities=33% Similarity=0.473 Sum_probs=30.0
Q ss_pred HHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC
Q 014259 345 ILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI 395 (428)
Q Consensus 345 ~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~ 395 (428)
.|...|++|..+|... ++.+ .-.+..++.+|++.|+|++...
T Consensus 18 ~l~~~~~~~~~~la~~--------~~~s-~~~i~~~l~~L~~~g~v~~~~~ 59 (101)
T smart00347 18 ILYEEGPLSVSELAKR--------LGVS-PSTVTRVLDRLEKKGLIRRLPS 59 (101)
T ss_pred HHHHcCCcCHHHHHHH--------HCCC-chhHHHHHHHHHHCCCeEecCC
Confidence 3445677888888544 2333 3458899999999999987643
No 25
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=36.48 E-value=1.1e+02 Score=24.73 Aligned_cols=32 Identities=25% Similarity=0.215 Sum_probs=25.5
Q ss_pred cHHHHHHHHHHcCeeeecCCCceEEechhhHH
Q 014259 376 DVDDAVHKLEKLGIVARDTIGRYYCVGLKRSN 407 (428)
Q Consensus 376 dv~dAL~kL~rLgLv~~d~~g~~~avpL~~A~ 407 (428)
.+..++..|++.|+|.+.+++.+...|.-.+.
T Consensus 15 tvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~ 46 (96)
T smart00529 15 TVTQMLKKLEKDGLVEYEPYRGITLTEKGRRL 46 (96)
T ss_pred HHHHHHHHHHHCCCEEEcCCCceEechhHHHH
Confidence 46789999999999999887777776655543
No 26
>PF04391 DUF533: Protein of unknown function (DUF533); InterPro: IPR007486 Some family members may be secreted or integral membrane proteins.
Probab=32.57 E-value=2.9e+02 Score=26.52 Aligned_cols=24 Identities=29% Similarity=0.358 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 014259 278 VGMAILSTVIGYCAKTYFTFQQNM 301 (428)
Q Consensus 278 v~~a~ls~l~g~~~r~~~~y~~~r 301 (428)
..++.++++++.++|.|.+|++++
T Consensus 33 ~~~Gg~AalG~lA~~ayq~~q~~~ 56 (188)
T PF04391_consen 33 LKYGGLAALGGLAYKAYQNWQQNQ 56 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccC
Confidence 345566778889999999997764
No 27
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=32.38 E-value=66 Score=30.87 Aligned_cols=42 Identities=19% Similarity=0.221 Sum_probs=32.2
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
|+-|.++||++= =.|-+||..|+..|||...++..+.+.++.
T Consensus 34 E~eLa~~~gVSR-tpVREAL~~L~~eGlV~~~~~~G~~V~~~~ 75 (251)
T PRK09990 34 ERRLCEKLGFSR-SALREGLTVLRGRGIIETAQGRGSFVARLN 75 (251)
T ss_pred HHHHHHHHCCCH-HHHHHHHHHHHHCCCEEEeCCCeeEEecCC
Confidence 455667888874 489999999999999988877555555544
No 28
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=31.98 E-value=67 Score=30.98 Aligned_cols=41 Identities=24% Similarity=0.209 Sum_probs=31.0
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEech
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGL 403 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL 403 (428)
|+-|.++||++-. .|-+||..|+..|||...++....+.+.
T Consensus 36 E~eLa~~~gVSRt-pVREAL~~L~~eGlV~~~~~~G~~V~~~ 76 (257)
T PRK10225 36 EREIAEMLDVTRT-VVREALIMLEIKGLVEVRRGAGIYVLDS 76 (257)
T ss_pred HHHHHHHhCCCHH-HHHHHHHHHHHCCCEEEecCCEEEEeCC
Confidence 4445667888754 7999999999999998877655555554
No 29
>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=31.84 E-value=58 Score=24.32 Aligned_cols=44 Identities=25% Similarity=0.354 Sum_probs=30.5
Q ss_pred CCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 014259 350 GKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 402 (428)
Q Consensus 350 g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avp 402 (428)
+++|.++|.+. +|.+ .-.+.+++.+|++.|+|..+..|.|...|
T Consensus 24 ~~~s~~ela~~--------~g~s-~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIADY--------LGLT-RETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred CCcCHHHHHHH--------HCCC-HHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 34666666543 4443 34578999999999999887657776554
No 30
>PF11880 DUF3400: Domain of unknown function (DUF3400); InterPro: IPR021817 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 50 amino acids in length. This domain is found associated with PF02754 from PFAM, PF02913 from PFAM, PF01565 from PFAM.
Probab=30.77 E-value=48 Score=24.96 Aligned_cols=24 Identities=17% Similarity=0.332 Sum_probs=19.9
Q ss_pred hhhHHHHHhhhH-HHHHHHHhcCCC
Q 014259 403 LKRSNEIIGTTT-EEMVLKAQQGIS 426 (428)
Q Consensus 403 L~~A~~~l~~~w-~~~~~~~~~~~~ 426 (428)
.+=|.++|++.| .+.|.+|++|+-
T Consensus 16 VEmA~~lLGe~W~~~~v~~a~~GGI 40 (45)
T PF11880_consen 16 VEMARHLLGENWQQDYVERANNGGI 40 (45)
T ss_pred HHHHHHHhhhhHHHHHHHHHHcCCe
Confidence 356899999999 578999999963
No 31
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=30.22 E-value=56 Score=23.56 Aligned_cols=33 Identities=27% Similarity=0.361 Sum_probs=25.3
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCce
Q 014259 365 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY 398 (428)
Q Consensus 365 L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~ 398 (428)
|.+.+|++. =.|.+++.+|++.|+|...+++.+
T Consensus 26 la~~~~vs~-~tv~~~l~~L~~~g~i~~~~~~g~ 58 (60)
T smart00345 26 LAAQLGVSR-TTVREALSRLEAEGLVQRRPGSGT 58 (60)
T ss_pred HHHHHCCCH-HHHHHHHHHHHHCCCEEEecCCee
Confidence 445667764 579999999999999987765544
No 32
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=30.19 E-value=71 Score=24.32 Aligned_cols=37 Identities=19% Similarity=0.338 Sum_probs=23.6
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 014259 365 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 402 (428)
Q Consensus 365 L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avp 402 (428)
+.++||.+..=...++++++++.|+|..+ ++++.++|
T Consensus 26 ~~~~~g~~~~~~~~~~l~~l~~~Gll~~~-~~~l~lT~ 62 (66)
T PF06969_consen 26 FEQRFGIDFAEEFQKELEELQEDGLLEID-GGRLRLTE 62 (66)
T ss_dssp HHHHTT--THHH-HHHHHHHHHTTSEEE--SSEEEE-T
T ss_pred HHHHHCcCHHHHHHHHHHHHHHCCCEEEe-CCEEEECc
Confidence 44567766333337789999999999775 57777765
No 33
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function. ; PDB: 1ZTD_A.
Probab=30.06 E-value=52 Score=29.12 Aligned_cols=22 Identities=27% Similarity=0.516 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHHHHhhcCCCCHHH
Q 014259 333 QQEVKEVIISFFILMEQGKATRQD 356 (428)
Q Consensus 333 eQe~KEaiLAY~~Ll~~g~lT~~~ 356 (428)
--++.||++||+||- |.+|.+|
T Consensus 58 kGd~aEA~iAyAWLe--g~it~eE 79 (120)
T PF11469_consen 58 KGDIAEALIAYAWLE--GKITIEE 79 (120)
T ss_dssp HHHHHHHHHHHHHHT--TSS-HHH
T ss_pred ccHHHHHHHHHHHHh--ccccHHH
Confidence 457889999999994 7777654
No 34
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=28.77 E-value=94 Score=29.27 Aligned_cols=39 Identities=15% Similarity=0.262 Sum_probs=30.8
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 365 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 365 L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
|.++||++-. .|-+||..|+..|||+..++..+.+.++.
T Consensus 40 La~~lgVSRt-pVREAL~~L~~eGLV~~~~~~g~~v~~~~ 78 (221)
T PRK11414 40 LAEQLGMSIT-PVREALLRLVSVNALSVAPAQAFTVPEVS 78 (221)
T ss_pred HHHHHCCCch-hHHHHHHHHHHCCCEEecCCCceeecCCC
Confidence 6778898754 89999999999999988776555555544
No 35
>PRK08990 flagellar motor protein PomA; Reviewed
Probab=28.35 E-value=3.4e+02 Score=27.07 Aligned_cols=64 Identities=14% Similarity=0.150 Sum_probs=39.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHhHHHHHHHHHHHHHh-hcCCCCHHHHHHHHHHHH
Q 014259 296 TFQQNMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFILM-EQGKATRQDLDLRCEELI 365 (428)
Q Consensus 296 ~y~~~r~rY~~~lt~~LY~K~l~sn~GvL~~L~D~AeeQe~KEaiLAY~~Ll-~~g~lT~~~Ld~~~E~~L 365 (428)
.|+.++..|...+......-..+...|.+. +++ +++...++.-...+ ..|. .++++.+..|+-+
T Consensus 65 ~~~~~~~~~~~~i~~l~~la~~aR~~Glla--LE~---~~i~d~f~~~~l~l~vdg~-~~~~i~~~l~~~~ 129 (254)
T PRK08990 65 AFMFKIDKPEDLIEQIVEMADAARKGGFLA--LEE---AEISNSFMQKGVDLLVDGH-DGDVVRAALEKDI 129 (254)
T ss_pred hhcCCCCCHHHHHHHHHHHHHHHhhccHhh--hhc---cccchHHHHHHHHHHhcCC-CHHHHHHHHHHHH
Confidence 355666778888888777778888888766 332 24556676666633 3343 5555544444333
No 36
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=27.97 E-value=86 Score=30.24 Aligned_cols=42 Identities=26% Similarity=0.146 Sum_probs=31.9
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
|+-|.++||++- -.|-+||..|+..|||+..++....+.++.
T Consensus 35 E~eLae~~gVSR-tpVREAL~~L~~eGlV~~~~~~G~~V~~~~ 76 (253)
T PRK11523 35 ERFIADEKNVSR-TVVREAIIMLEVEGYVEVRKGSGIHVVSNQ 76 (253)
T ss_pred HHHHHHHHCCCH-HHHHHHHHHHHHCCCEEEecCCeeEEecCC
Confidence 445667888874 489999999999999988776555555543
No 37
>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=27.39 E-value=1.7e+02 Score=25.06 Aligned_cols=72 Identities=25% Similarity=0.396 Sum_probs=52.1
Q ss_pred HHhhcCCCCHHHHHHHHHH---HHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc-eEEechhhHHHHHhhhHHHHHHH
Q 014259 345 ILMEQGKATRQDLDLRCEE---LIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR-YYCVGLKRSNEIIGTTTEEMVLK 420 (428)
Q Consensus 345 ~Ll~~g~lT~~~Ld~~~E~---~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~-~~avpL~~A~~~l~~~w~~~~~~ 420 (428)
+||.+|++|..++-+.+.+ |=++ .|---|.+|.+-|+|++...|+ +...|+-.--+.......+++.+
T Consensus 11 ~lW~~~~~t~~eI~~~l~~~~~~~~s--------Tv~t~L~rL~~Kg~l~~~~~gr~~~Y~p~is~~e~~~~~~~~~l~~ 82 (115)
T PF03965_consen 11 ILWESGEATVREIHEALPEERSWAYS--------TVQTLLNRLVEKGFLTREKIGRAYVYSPLISREEYLAQELRQFLDR 82 (115)
T ss_dssp HHHHHSSEEHHHHHHHHCTTSS--HH--------HHHHHHHHHHHTTSEEEEEETTCEEEEESSSHHHHHHHHHHHHHHH
T ss_pred HHHhCCCCCHHHHHHHHHhccccchh--------HHHHHHHHHHhCCceeEeecCCceEEEeCCcHHHHHHHHHHHHHHH
Confidence 5788899999998776653 3222 3667899999999999987554 56667777777777777777776
Q ss_pred HhcC
Q 014259 421 AQQG 424 (428)
Q Consensus 421 ~~~~ 424 (428)
.-.|
T Consensus 83 ~~~g 86 (115)
T PF03965_consen 83 LFDG 86 (115)
T ss_dssp HSTT
T ss_pred HhCC
Confidence 5544
No 38
>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=27.11 E-value=1.1e+02 Score=22.34 Aligned_cols=57 Identities=21% Similarity=0.365 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHh--hcCC-CC-HHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceE
Q 014259 334 QEVKEVIISFFILM--EQGK-AT-RQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYY 399 (428)
Q Consensus 334 Qe~KEaiLAY~~Ll--~~g~-lT-~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~ 399 (428)
+++.|.|....... ..|. .+ .++ |.+.+|++ .=.+..++.+|++.|+|+..++..+.
T Consensus 4 ~~~~~~i~~~i~~~~~~~~~~~~~~~~--------la~~~~is-~~~v~~~l~~L~~~G~i~~~~~~~~~ 64 (66)
T cd07377 4 EQIADQLREAILSGELKPGDRLPSERE--------LAEELGVS-RTTVREALRELEAEGLVERRPGRGTF 64 (66)
T ss_pred HHHHHHHHHHHHcCCCCCCCCCCCHHH--------HHHHHCCC-HHHHHHHHHHHHHCCCEEecCCCeEE
Confidence 45555555554432 2333 22 443 45566776 36788999999999999876544443
No 39
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=26.83 E-value=3.4e+02 Score=25.74 Aligned_cols=71 Identities=13% Similarity=0.048 Sum_probs=40.2
Q ss_pred HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecC---CCceEEech-hhHHHHHhh---hHHHHH
Q 014259 346 LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDT---IGRYYCVGL-KRSNEIIGT---TTEEMV 418 (428)
Q Consensus 346 Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~---~g~~~avpL-~~A~~~l~~---~w~~~~ 418 (428)
|...+++|..+|.+. +..++. .+...+++|++-|+|.+.+ +.|...+-| +++.+.+++ .+++.-
T Consensus 54 L~~~~~itq~eLa~~---l~l~~s------Tvtr~l~rLE~kGlI~R~~~~~DrR~~~I~LTekG~~l~~~l~~~~~~~e 124 (185)
T PRK13777 54 AYHLKGASISEIAKF---GVMHVS------TAFNFSKKLEERGYLTFSKKEDDKRNTYIELTEKGEELLLETMEEYDPEN 124 (185)
T ss_pred HHhCCCcCHHHHHHH---HCCCHh------hHHHHHHHHHHCCCEEecCCCCCCCeeEEEECHHHHHHHHHHHHHHHHHH
Confidence 445566888777543 222211 2788999999999999864 345444433 444444443 344444
Q ss_pred HHHhcCC
Q 014259 419 LKAQQGI 425 (428)
Q Consensus 419 ~~~~~~~ 425 (428)
..+-+|.
T Consensus 125 ~~~~~~~ 131 (185)
T PRK13777 125 NSVFNGA 131 (185)
T ss_pred HHHHhcc
Confidence 4444443
No 40
>cd00090 HTH_ARSR Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to dissociate from DNA in the presence of metal ions.
Probab=26.71 E-value=1e+02 Score=22.52 Aligned_cols=54 Identities=28% Similarity=0.390 Sum_probs=34.0
Q ss_pred CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc--eEEech-hhHHHHHhhhH
Q 014259 352 ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR--YYCVGL-KRSNEIIGTTT 414 (428)
Q Consensus 352 lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~--~~avpL-~~A~~~l~~~w 414 (428)
.+.+++.+ .+|.. .=.+..++..|++.|++.....+. +..+.. +++.+.+.+.|
T Consensus 21 ~~~~ei~~--------~~~i~-~~~i~~~l~~L~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~ 77 (78)
T cd00090 21 LTVSELAE--------RLGLS-QSTVSRHLKKLEEAGLVESRREGRRVYYSLTDAERLLALLESLL 77 (78)
T ss_pred cCHHHHHH--------HHCcC-HhHHHHHHHHHHHCCCeEEEEeccEEEEEeCCchHHHHHHHHhh
Confidence 66666533 34543 234789999999999998765542 223322 56666666554
No 41
>PRK14137 recX recombination regulator RecX; Provisional
Probab=26.63 E-value=64 Score=30.94 Aligned_cols=66 Identities=14% Similarity=0.205 Sum_probs=44.9
Q ss_pred CChhHHHHHHhHHHhHHHHHHHHHHHH-HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCee
Q 014259 319 SGKGTLLHLCDDVIQQEVKEVIISFFI-LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIV 390 (428)
Q Consensus 319 sn~GvL~~L~D~AeeQe~KEaiLAY~~-Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv 390 (428)
+..++...-+.....+|..+.+..|++ +++...-|..||-..-..+ |.+ +-.|+.+|.+|.+.|++
T Consensus 21 ~~~~~~~~~~~~~~~~e~~~~~~~~Al~~Ls~R~rS~~ELr~KL~~k-----g~~-~e~Ie~vI~rL~e~gyL 87 (195)
T PRK14137 21 TEGPVRPERRTPPTPDEAREALLAYAFRALAARAMTAAELRAKLERR-----SED-EALVTEVLERVQELGYQ 87 (195)
T ss_pred CCCCccccccCCCCHHHHHHHHHHHHHHHHhcchhhHHHHHHHHHhc-----CCC-HHHHHHHHHHHHHcCCC
Confidence 334444444555678899999999998 7776666777665433221 222 35688999999999988
No 42
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=26.24 E-value=99 Score=29.81 Aligned_cols=41 Identities=22% Similarity=0.248 Sum_probs=31.2
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEech
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGL 403 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL 403 (428)
|+-|.++||+.-. .|-+||..|+..|||+..+++...+.++
T Consensus 29 E~eLae~~gVSRt-pVREAL~~Le~~GlV~~~~~~G~~V~~~ 69 (253)
T PRK10421 29 ERQLAMQLGVSRN-SLREALAKLVSEGVLLSRRGGGTFIRWR 69 (253)
T ss_pred HHHHHHHhCCCHH-HHHHHHHHHHHCCCEEEeCCCeEEEecC
Confidence 4556677888754 8999999999999998777655555543
No 43
>TIGR03338 phnR_burk phosphonate utilization associated transcriptional regulator. This family of proteins are members of the GntR family (pfam00392) containing an N-terminal helix-turn-helix (HTH) motif. This clade is found adjacent to or inside of operons for the degradation of 2-aminoethylphosphonate (AEP) in Polaromonas, Burkholderia, Ralstonia and Verminephrobacter.
Probab=25.92 E-value=1.2e+02 Score=28.19 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=30.3
Q ss_pred HHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 364 LIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 364 ~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
=|.++||++-. .|-+||..|+..|||...++..+.+.+++
T Consensus 39 ~La~~lgVSRt-pVReAL~~L~~eGlv~~~~~~G~~V~~~~ 78 (212)
T TIGR03338 39 DIAARLGVSRG-PVREAFRALEEAGLVRNEKNRGVFVREIS 78 (212)
T ss_pred HHHHHhCCChH-HHHHHHHHHHHCCCEEEecCCCeEEecCC
Confidence 34567787744 89999999999999988777666665543
No 44
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=24.89 E-value=3.5e+02 Score=25.02 Aligned_cols=23 Identities=13% Similarity=0.345 Sum_probs=15.8
Q ss_pred ChhhHHHHHHHHHHhHhhhhhhc
Q 014259 247 TPLDWVKFLVSAVVGLVAVITSA 269 (428)
Q Consensus 247 ~~~D~~~l~v~avvglvav~~~l 269 (428)
...||++..+.+++.++.++..+
T Consensus 13 ~~~~~~~~~~i~~ll~~l~~~~~ 35 (149)
T PF11694_consen 13 SQNDYLRYILIIILLLVLIFFFI 35 (149)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888776666555443
No 45
>PRK09109 motC flagellar motor protein; Reviewed
Probab=24.51 E-value=6.9e+02 Score=24.66 Aligned_cols=11 Identities=9% Similarity=-0.003 Sum_probs=5.1
Q ss_pred CHHHHHHHHHH
Q 014259 353 TRQDLDLRCEE 363 (428)
Q Consensus 353 T~~~Ld~~~E~ 363 (428)
+++++.+..|+
T Consensus 120 ~~~~i~~~le~ 130 (246)
T PRK09109 120 EPESIRSVLEV 130 (246)
T ss_pred CHHHHHHHHHH
Confidence 45554444443
No 46
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=24.47 E-value=1.1e+02 Score=29.39 Aligned_cols=40 Identities=23% Similarity=0.374 Sum_probs=30.1
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 402 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avp 402 (428)
|.-|.++||+.- -.|-+||..|+..|||+..+++...+.+
T Consensus 37 E~eLa~~lgVSR-tpVREAL~~L~~eGlv~~~~~~G~~V~~ 76 (254)
T PRK09464 37 ERELAKQFDVSR-PSLREAIQRLEAKGLLLRRQGGGTFVQS 76 (254)
T ss_pred HHHHHHHhCCCH-HHHHHHHHHHHHCCCEEEecCceeEEec
Confidence 344556788774 4899999999999999887765555544
No 47
>COG2979 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.50 E-value=2.6e+02 Score=27.67 Aligned_cols=26 Identities=15% Similarity=0.194 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 014259 279 GMAILSTVIGYCAKTYFTFQQNMAAY 304 (428)
Q Consensus 279 ~~a~ls~l~g~~~r~~~~y~~~r~rY 304 (428)
-++.++++++.+.++|.+|++++.+-
T Consensus 62 k~GglAAlG~laY~aY~N~q~~q~~~ 87 (225)
T COG2979 62 KLGGLAALGALAYKAYQNYQKGQIPA 87 (225)
T ss_pred hhhhHHHHHHHHHHHHHHHhccCccc
Confidence 35556777888889999999877443
No 48
>PRK07738 flagellar protein FlaG; Provisional
Probab=22.59 E-value=92 Score=27.79 Aligned_cols=63 Identities=16% Similarity=0.216 Sum_probs=46.9
Q ss_pred CCHHHHHHHH---HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 014259 352 ATRQDLDLRC---EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 416 (428)
Q Consensus 352 lT~~~Ld~~~---E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~~A~~~l~~~w~~ 416 (428)
.+.++++..+ +++|. ..+.++.|.+++-.+... -.++..+++..+.=+|.+++++++...|+.
T Consensus 43 ~s~eel~~aveklN~~l~-~~~~~L~F~vdeet~~~v-VkVvD~~T~EVIRQIPpEe~L~l~~~m~e~ 108 (117)
T PRK07738 43 VSKEDLEEVVDGMNELLE-PSQTSLKFELHEKLNEYY-VQVVDERTNEVIREIPPKKLLDMYAAMMEF 108 (117)
T ss_pred CCHHHHHHHHHHHHHHHH-hcCCceEEEEecCCCcEE-EEEEECCCCeeeeeCCCHHHHHHHHHHHHH
Confidence 5667777655 56665 489999999998653221 225556667789999999999999999874
No 49
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=22.36 E-value=6.8e+02 Score=23.77 Aligned_cols=42 Identities=21% Similarity=0.230 Sum_probs=21.9
Q ss_pred HHHHHHhHHHhHHHHH-HHHHHHHHhhc------C-CCCHHHHHHHHHHH
Q 014259 323 TLLHLCDDVIQQEVKE-VIISFFILMEQ------G-KATRQDLDLRCEEL 364 (428)
Q Consensus 323 vL~~L~D~AeeQe~KE-aiLAY~~Ll~~------g-~lT~~~Ld~~~E~~ 364 (428)
.++.+-.+|++-+..- .+|.||+.... + ..|-.++..+.|+.
T Consensus 95 kl~~ik~aa~~~d~~Al~iL~FYy~g~~Q~~~LD~NTltl~~l~~e~~~l 144 (165)
T PF11286_consen 95 KLHKIKAAAEQGDPDALKILRFYYQGLRQVYQLDDNTLTLSDLEKEQEQL 144 (165)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHhHHHHHHhcCCcccHHHHHHHHHHH
Confidence 3455555555444332 24566665532 2 27777776665543
No 50
>PRK14999 histidine utilization repressor; Provisional
Probab=22.34 E-value=1.5e+02 Score=28.34 Aligned_cols=56 Identities=18% Similarity=0.241 Sum_probs=36.6
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceEEec-hhhHHHHHhhhHHHHH
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYYCVG-LKRSNEIIGTTTEEMV 418 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~-g~~~avp-L~~A~~~l~~~w~~~~ 418 (428)
|+-|.++||+. .-.|-+||..|++.|+|.+..+ |.+.+-+ .......+...++++.
T Consensus 39 E~eLa~~~gVS-R~TVR~Al~~L~~eGli~r~~GkGTfV~~~~~~~~~~~~~~~~~~~~ 96 (241)
T PRK14999 39 EAELVAQYGFS-RMTINRALRELTDEGWLVRLQGVGTFVAEPKGQSALFEVRSIAEEIA 96 (241)
T ss_pred HHHHHHHHCCC-HHHHHHHHHHHHHCCCEEEecCcEEEECCCCccccHHHHHHHHHHHH
Confidence 45566788876 3579999999999999988764 4444322 2333344555555543
No 51
>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=22.24 E-value=2e+02 Score=24.35 Aligned_cols=60 Identities=18% Similarity=0.160 Sum_probs=41.7
Q ss_pred cCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC---Cc-eEEechhhHHHHHhhhHHHH
Q 014259 349 QGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI---GR-YYCVGLKRSNEIIGTTTEEM 417 (428)
Q Consensus 349 ~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~---g~-~~avpL~~A~~~l~~~w~~~ 417 (428)
.|+.|..+|.... +.+ .=.|..++.+|++.|+|.+..+ .| ..+.+-+++.+.++.-++++
T Consensus 41 ~~~~t~~eL~~~l--------~~~-~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~~ 104 (109)
T TIGR01889 41 EGKLTLKEIIKEI--------LIK-QSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKIESLISEI 104 (109)
T ss_pred CCcCcHHHHHHHH--------CCC-HHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHHHHHHHHH
Confidence 3568888775432 322 3357899999999999997553 33 56666677777787777664
No 52
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=22.11 E-value=85 Score=30.12 Aligned_cols=49 Identities=14% Similarity=0.232 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCce-EEechhhHHHH
Q 014259 335 EVKEVIISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY-YCVGLKRSNEI 409 (428)
Q Consensus 335 e~KEaiLAY~~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~-~avpL~~A~~~ 409 (428)
.+|+++.+|+.+. +-+++|+++.+.+.|++.++.+|+| ...+.++|++.
T Consensus 140 ~aK~vi~~~s~~~--------------------------g~~p~evie~~~e~Gll~~~E~~k~~L~~~~~~a~~~ 189 (190)
T PF09840_consen 140 KAKRVIAAVSYAT--------------------------GLDPEEVIEELLEKGLLEEGEDGKIELRKDWEQALRR 189 (190)
T ss_pred HHHHHHHHHHHHh--------------------------CCCHHHHHHHHHhCcccccCCCceEEEecCHHHHHhc
Confidence 4788888888875 3468899999999999999887855 56677777654
No 53
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=21.71 E-value=90 Score=29.77 Aligned_cols=45 Identities=22% Similarity=0.392 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc---eEEech
Q 014259 354 RQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR---YYCVGL 403 (428)
Q Consensus 354 ~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~---~~avpL 403 (428)
++.|.+-|-. .+.+=.-.+.-+|.||++.||++++.+|+ |.++|+
T Consensus 98 ~K~laDic~~-----ln~eDth~itYslrKL~k~gLit~t~~gkevTy~vTa~ 145 (199)
T COG5631 98 PKSLADICQM-----LNREDTHNITYSLRKLLKGGLITRTGSGKEVTYEVTAL 145 (199)
T ss_pred hhhHHHHHHH-----hccccchhHHHHHHHHHhccceecCCCCceEEEEEecc
Confidence 4445555532 23444557889999999999999987765 556665
No 54
>TIGR01714 phage_rep_org_N phage replisome organizer, putative, N-terminal region. This model represents the N-terminal domain of a small family of phage proteins. The protein contains a region of low-complexity sequence that reflects DNA direct repeats able to function as an origin of phage replication. The region covered by this model is N-terminal to the low-complexity region.
Probab=21.20 E-value=1.6e+02 Score=26.25 Aligned_cols=36 Identities=19% Similarity=0.434 Sum_probs=27.5
Q ss_pred HHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 014259 366 KEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 402 (428)
Q Consensus 366 ~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avp 402 (428)
...|+.+++ +|.-||.-++++|||..+.+|.+...-
T Consensus 58 A~~~~~~~~-~V~~Al~~f~k~glIe~~d~g~i~i~~ 93 (119)
T TIGR01714 58 ATMFNRNVG-DIRITLQTLESLGLIEKKNNGDIFLEN 93 (119)
T ss_pred HHHHCCCHH-HHHHHHHHHHHCCCEEEecCCcEEehh
Confidence 455666666 588999999999999988777655443
No 55
>PRK03837 transcriptional regulator NanR; Provisional
Probab=20.97 E-value=1.4e+02 Score=28.24 Aligned_cols=39 Identities=21% Similarity=0.210 Sum_probs=29.2
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 014259 365 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 404 (428)
Q Consensus 365 L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~ 404 (428)
|.++||++-. .|-+||..|+..|||+..++....+.++.
T Consensus 43 Lae~~gVSRt-~VREAL~~L~~eGlv~~~~~~G~~V~~~~ 81 (241)
T PRK03837 43 LMAFFGVGRP-AVREALQALKRKGLVQISHGERARVSRPS 81 (241)
T ss_pred HHHHhCCCHH-HHHHHHHHHHHCCCEEEecCCceeEecCC
Confidence 4467787754 79999999999999988776555555543
No 56
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=20.95 E-value=1.4e+02 Score=28.17 Aligned_cols=37 Identities=24% Similarity=0.405 Sum_probs=28.7
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceE
Q 014259 362 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYY 399 (428)
Q Consensus 362 E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~-g~~~ 399 (428)
|+-|.++||+.-. -|-+||..|+..|+|.+..+ |.+.
T Consensus 35 E~eLa~~~~VSR~-TvR~Al~~L~~eGli~r~~G~GtfV 72 (238)
T TIGR02325 35 EMQLAERFGVNRH-TVRRAIAALVERGLLRAEQGRGTFV 72 (238)
T ss_pred HHHHHHHHCCCHH-HHHHHHHHHHHCCCEEEecCCEEEE
Confidence 4456678898755 89999999999999988764 4443
No 57
>PLN00134 fumarate hydratase; Provisional
Probab=20.83 E-value=4.2e+02 Score=28.66 Aligned_cols=44 Identities=14% Similarity=0.138 Sum_probs=25.9
Q ss_pred ccchhhhhchHHHHhhhcCCcccCHHHHHH---Hh----cCCceeeecccc
Q 014259 32 SHFVMFSYFPFMQVMDKSNFKITTDEEIDV---AL----SGQYLLHLPITV 75 (428)
Q Consensus 32 ~~~~~~~~~~~~q~m~~anF~~Ls~~e~~~---Al----~~~yll~Lpi~v 75 (428)
...++++....--++..+.-.+|++++-+. |+ .+.+--++|+++
T Consensus 35 ~~i~a~~~v~~A~a~~l~~~G~l~~~~a~~I~~al~ei~~~~~~~~f~~~~ 85 (458)
T PLN00134 35 PIVRAFGIVKKAAAKVNMEYGLLDPDIGKAIMQAADEVAEGKLDDHFPLVV 85 (458)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHcCcccCCccccc
Confidence 344477776554455555556799888774 33 234445666665
No 58
>PF02985 HEAT: HEAT repeat; InterPro: IPR000357 The HEAT repeat is a tandemly repeated, 37-47 amino acid long module occurring in a number of cytoplasmic proteins, including the four name-giving proteins huntingtin, elongation factor 3 (EF3), the 65 Kd alpha regulatory subunit of protein phosphatase 2A (PP2A) and the yeast PI3-kinase TOR1 []. Arrays of HEAT repeats consists of 3 to 36 units forming a rod-like helical structure and appear to function as protein-protein interaction surfaces. It has been noted that many HEAT repeat-containing proteins are involved in intracellular transport processes. In the crystal structure of PP2A PR65/A [], the HEAT repeats consist of pairs of antiparallel alpha helices [].; GO: 0005515 protein binding; PDB: 3FGA_A 2PF4_C 2IAE_A 2BKU_D 3EA5_B 3ND2_A 2BPT_A 2NYL_A 2NPP_D 2PKG_B ....
Probab=20.62 E-value=80 Score=20.81 Aligned_cols=29 Identities=14% Similarity=0.194 Sum_probs=21.6
Q ss_pred HHHHHhhhccCCCccchhhhhchHHHHhh
Q 014259 19 IMRICMQLFKSPISHFVMFSYFPFMQVMD 47 (428)
Q Consensus 19 ~~~~~~~~~~~~~~~~~~~~~~~~~q~m~ 47 (428)
|+-.++++..||+...|..|..+|-++.+
T Consensus 1 llp~l~~~l~D~~~~VR~~a~~~l~~i~~ 29 (31)
T PF02985_consen 1 LLPILLQLLNDPSPEVRQAAAECLGAIAE 29 (31)
T ss_dssp HHHHHHHHHT-SSHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHcCCCCHHHHHHHHHHHHHHHh
Confidence 35577889999999999888877766554
No 59
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae (Baker's yeast), and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue []. ; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_B 1U6G_A 3O6B_J 3O2P_E 4A0K_A 2HYE_C ....
Probab=20.55 E-value=1.9e+02 Score=22.64 Aligned_cols=48 Identities=21% Similarity=0.259 Sum_probs=38.5
Q ss_pred hcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCC
Q 014259 348 EQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIG 396 (428)
Q Consensus 348 ~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g 396 (428)
+.+.++.++|-.+|...+...|..+. -++..+++.|-+-|.+.+|+++
T Consensus 19 ~~k~~~~~~L~~~v~~~l~~~f~~~~-~~ik~~Ie~LIekeyi~Rd~~d 66 (68)
T PF10557_consen 19 QEKKLSHDELINEVIEELKKRFPPSV-SDIKKRIESLIEKEYIERDEDD 66 (68)
T ss_dssp HSSEEEHHHHHHHHHHHTTTTS---H-HHHHHHHHHHHHTTSEEEESSE
T ss_pred hcCceeHHHHHHHHHHHhcCCcCCCH-HHHHHHHHHHHHhhhhhcCCCC
Confidence 44569999999999999988787664 4799999999999999998753
No 60
>PHA02888 hypothetical protein; Provisional
Probab=20.49 E-value=1e+02 Score=26.04 Aligned_cols=28 Identities=25% Similarity=0.253 Sum_probs=24.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcceecHHH
Q 014259 351 KATRQDLDLRCEELIKEEFGESCNFDVDD 379 (428)
Q Consensus 351 ~lT~~~Ld~~~E~~L~~~fg~~vdFdv~d 379 (428)
++|++||. -+.+||.++-+.=++|++|=
T Consensus 35 ~mt~~el~-yiq~wllekhdlfiefpidl 62 (96)
T PHA02888 35 AMTPQELA-YIQEWLLEKHDLFIEFPIDL 62 (96)
T ss_pred CCCHHHHH-HHHHHHHhhcceeEEccHHH
Confidence 38999996 47889999999999999874
No 61
>PRK08452 flagellar protein FlaG; Provisional
Probab=20.42 E-value=99 Score=27.82 Aligned_cols=61 Identities=13% Similarity=0.170 Sum_probs=43.2
Q ss_pred HHHHHHH---HHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 014259 354 RQDLDLR---CEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 416 (428)
Q Consensus 354 ~~~Ld~~---~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~~~avpL~~A~~~l~~~w~~ 416 (428)
.++|... ...+|. ..+.++.|.+++-++.+ =-..+..+++..+.=+|.++++++....|+.
T Consensus 52 ~e~l~~~ve~lN~~~~-~~~~~L~F~~de~~~~~-vVkVvD~~T~eVIRqIP~Ee~L~l~~~m~e~ 115 (124)
T PRK08452 52 KKKLEELTEKLNEEMK-RLDTNIRFGYNDKIKGL-VVSVKEANGGKVIREIPSKEAIELMEYMRDV 115 (124)
T ss_pred HHHHHHHHHHHHHHHH-hhCCceEEEEcCCCCcE-EEEEEECCCCceeeeCCCHHHHHHHHHHHHh
Confidence 3444443 445664 57999999999866542 1234555666789999999999999988875
No 62
>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=20.40 E-value=6e+02 Score=22.45 Aligned_cols=48 Identities=19% Similarity=0.240 Sum_probs=33.8
Q ss_pred HHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc
Q 014259 345 ILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR 397 (428)
Q Consensus 345 ~Ll~~g~lT~~~Ld~~~E~~L~~~fg~~vdFdv~dAL~kL~rLgLv~~d~~g~ 397 (428)
+||..|+.|..++-+..+. ..|..-. -|-.-|.+|.+-|+|.+...|+
T Consensus 12 vlW~~~~~t~~eI~~~l~~----~~~~~~t-Tv~T~L~rL~~KG~v~~~k~gr 59 (130)
T TIGR02698 12 VVWTLGETTSRDIIRILAE----KKDWSDS-TIKTLLGRLVDKGCLTTEKEGR 59 (130)
T ss_pred HHHcCCCCCHHHHHHHHhh----ccCCcHH-HHHHHHHHHHHCCceeeecCCC
Confidence 3578899999987766542 2232211 5677899999999999876665
Done!