Query 016736
Match_columns 383
No_of_seqs 107 out of 122
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 09:31:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016736.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016736hhsearch_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 2.9E-35 6.2E-40 260.1 14.0 121 156-277 1-141 (141)
2 COG3355 Predicted transcriptio 92.6 0.59 1.3E-05 41.2 7.7 71 296-375 31-110 (126)
3 PF01978 TrmB: Sugar-specific 91.4 0.18 4E-06 38.6 2.8 55 296-359 12-68 (68)
4 PF11460 DUF3007: Protein of u 80.4 9.9 0.00022 32.5 7.6 63 201-263 1-75 (104)
5 COG1378 Predicted transcriptio 77.6 6.9 0.00015 38.0 6.7 71 296-375 20-92 (247)
6 PF14394 DUF4423: Domain of un 72.1 9.5 0.00021 35.0 5.8 63 307-376 40-111 (171)
7 PRK04214 rbn ribonuclease BN/u 71.0 1.1E+02 0.0024 31.6 14.1 39 306-353 310-348 (412)
8 PF14015 DUF4231: Protein of u 62.6 34 0.00073 28.2 6.9 18 245-262 67-84 (112)
9 TIGR02147 Fsuc_second hypothet 62.5 24 0.00052 34.9 6.9 38 319-356 142-180 (271)
10 COG1802 GntR Transcriptional r 60.2 14 0.00031 34.5 4.7 60 289-359 23-83 (230)
11 TIGR03433 padR_acidobact trans 57.4 96 0.0021 25.5 8.7 82 296-378 5-97 (100)
12 PF04369 Lactococcin: Lactococ 54.2 11 0.00023 29.2 2.2 28 1-28 1-29 (60)
13 PRK06266 transcription initiat 49.6 1.2E+02 0.0027 28.0 8.9 70 299-377 29-106 (178)
14 smart00550 Zalpha Z-DNA-bindin 49.1 58 0.0013 25.1 5.7 56 289-355 5-64 (68)
15 PRK06743 flagellar motor prote 49.0 1.6E+02 0.0034 29.0 9.9 66 252-321 64-130 (254)
16 PRK11534 DNA-binding transcrip 46.6 31 0.00067 32.0 4.6 39 320-359 36-74 (224)
17 PF10007 DUF2250: Uncharacteri 46.4 17 0.00036 30.4 2.4 20 331-350 37-56 (92)
18 PRK08868 flagellar protein Fla 45.1 21 0.00045 32.3 3.0 63 307-371 68-133 (144)
19 PF14338 Mrr_N: Mrr N-terminal 43.0 75 0.0016 25.7 5.8 35 327-361 52-86 (92)
20 TIGR00373 conserved hypothetic 41.0 1.5E+02 0.0033 26.7 8.0 72 295-375 17-96 (158)
21 PHA01814 hypothetical protein 40.6 5.3 0.00012 34.6 -1.4 59 16-89 54-112 (137)
22 PF07120 DUF1376: Protein of u 40.4 50 0.0011 26.8 4.3 63 256-318 22-87 (88)
23 PF06969 HemN_C: HemN C-termin 37.8 50 0.0011 24.7 3.7 37 320-357 26-62 (66)
24 PF12597 DUF3767: Protein of u 37.3 1.8E+02 0.0039 25.3 7.5 63 205-270 42-107 (118)
25 PF11469 Ribonucleas_3_2: Ribo 36.8 35 0.00077 29.4 2.9 22 288-311 58-79 (120)
26 smart00529 HTH_DTXR Helix-turn 36.5 1.2E+02 0.0025 24.1 5.9 32 331-362 15-46 (96)
27 smart00347 HTH_MARR helix_turn 35.0 2.1E+02 0.0046 22.1 8.7 42 300-350 18-59 (101)
28 cd00092 HTH_CRP helix_turn_hel 34.2 51 0.0011 24.2 3.2 44 305-357 24-67 (67)
29 PRK10225 DNA-binding transcrip 33.6 62 0.0014 30.7 4.5 41 317-358 36-76 (257)
30 PRK09990 DNA-binding transcrip 33.5 63 0.0014 30.5 4.5 42 317-359 34-75 (251)
31 smart00345 HTH_GNTR helix_turn 31.7 51 0.0011 23.3 2.8 33 320-353 26-58 (60)
32 PF11880 DUF3400: Domain of un 31.1 48 0.001 24.3 2.4 27 353-381 13-40 (45)
33 PRK11414 colanic acid/biofilm 29.8 89 0.0019 28.9 4.8 39 320-359 40-78 (221)
34 PF11694 DUF3290: Protein of u 29.6 2.8E+02 0.0061 25.1 7.7 23 202-224 13-35 (149)
35 PRK11523 DNA-binding transcrip 29.1 81 0.0018 29.9 4.4 42 317-359 35-76 (253)
36 PF03965 Penicillinase_R: Peni 28.6 1.6E+02 0.0034 24.7 5.6 72 300-379 11-86 (115)
37 cd00090 HTH_ARSR Arsenical Res 28.5 94 0.002 22.3 3.8 54 307-369 21-77 (78)
38 PRK14137 recX recombination re 28.5 58 0.0013 30.6 3.2 66 274-345 21-87 (195)
39 cd07377 WHTH_GntR Winged helix 28.5 1.1E+02 0.0023 22.1 4.1 34 320-354 31-64 (66)
40 COG2188 PhnF Transcriptional r 27.9 67 0.0014 30.5 3.6 56 317-373 34-91 (236)
41 PRK10421 DNA-binding transcrip 27.5 93 0.002 29.5 4.5 40 317-357 29-68 (253)
42 PRK13777 transcriptional regul 27.5 3.4E+02 0.0074 25.2 8.1 71 301-380 54-131 (185)
43 TIGR03338 phnR_burk phosphonat 26.7 1.2E+02 0.0025 27.8 4.9 40 319-359 39-78 (212)
44 PRK14999 histidine utilization 26.4 1.2E+02 0.0025 28.6 4.9 56 317-373 39-96 (241)
45 PRK07738 flagellar protein Fla 26.2 73 0.0016 27.8 3.2 63 307-371 43-108 (117)
46 PRK09464 pdhR transcriptional 25.4 1E+02 0.0023 29.0 4.5 40 317-357 37-76 (254)
47 COG2979 Uncharacterized protei 25.2 2.4E+02 0.0052 27.3 6.7 25 234-258 62-86 (225)
48 PF10785 NADH-u_ox-rdase: NADH 23.8 2.8E+02 0.006 22.7 6.0 21 200-220 19-39 (86)
49 COG5631 Predicted transcriptio 23.4 81 0.0018 29.4 3.1 34 325-358 109-145 (199)
50 PF09840 DUF2067: Uncharacteri 23.3 79 0.0017 29.7 3.1 49 290-364 140-189 (190)
51 PRK08990 flagellar motor prote 23.3 6.3E+02 0.014 24.7 9.5 63 251-319 65-128 (254)
52 TIGR01889 Staph_reg_Sar staphy 23.2 1.9E+02 0.0041 24.0 5.1 60 304-372 41-104 (109)
53 COG1291 MotA Flagellar motor c 23.1 6.7E+02 0.015 25.0 9.6 17 211-227 160-176 (266)
54 PF10675 DUF2489: Protein of u 23.0 1.7E+02 0.0036 25.9 4.9 63 239-302 2-66 (131)
55 PF10557 Cullin_Nedd8: Cullin 23.0 1.7E+02 0.0037 22.5 4.4 48 303-351 19-66 (68)
56 PRK08452 flagellar protein Fla 22.9 84 0.0018 27.7 3.0 61 309-371 52-115 (124)
57 PLN00134 fumarate hydratase; P 22.8 3.9E+02 0.0084 28.4 8.4 25 192-218 312-336 (458)
58 TIGR01714 phage_rep_org_N phag 22.8 1.5E+02 0.0032 25.9 4.5 36 321-357 58-93 (119)
59 TIGR02325 C_P_lyase_phnF phosp 22.7 1.3E+02 0.0027 28.0 4.4 37 317-354 35-72 (238)
60 TIGR02404 trehalos_R_Bsub treh 22.4 1.2E+02 0.0025 28.4 4.1 37 317-354 27-64 (233)
61 PLN02975 complex I subunit 22.3 1.7E+02 0.0037 24.8 4.5 21 200-220 25-45 (97)
62 COG2165 PulG Type II secretory 22.2 2.5E+02 0.0055 23.2 5.8 30 231-260 15-44 (149)
63 PRK03837 transcriptional regul 21.9 1.3E+02 0.0029 27.9 4.4 38 320-358 43-80 (241)
64 PHA02888 hypothetical protein; 21.8 92 0.002 25.6 2.7 28 306-334 35-62 (96)
65 PF00392 GntR: Bacterial regul 21.7 1.2E+02 0.0027 22.5 3.4 33 320-353 30-62 (64)
66 TIGR03337 phnR transcriptional 21.5 1.4E+02 0.003 27.6 4.4 33 317-350 28-60 (231)
67 PF00924 MS_channel: Mechanose 21.5 1.7E+02 0.0036 26.5 4.8 38 213-250 9-46 (206)
68 PRK08456 flagellar motor prote 21.4 4.5E+02 0.0098 25.6 8.0 54 262-318 76-130 (257)
69 TIGR02698 CopY_TcrY copper tra 21.2 5.4E+02 0.012 22.3 8.0 48 300-352 12-59 (130)
70 PRK08456 flagellar motor prote 21.2 7.7E+02 0.017 24.0 9.7 31 263-293 62-92 (257)
71 PRK12482 flagellar motor prote 20.9 5.9E+02 0.013 25.5 8.8 43 255-298 71-113 (287)
72 TIGR02018 his_ut_repres histid 20.8 1.8E+02 0.0039 27.1 5.0 56 317-373 28-85 (230)
73 PRK08124 flagellar motor prote 20.8 7.9E+02 0.017 24.0 11.4 59 259-321 75-134 (263)
74 TIGR02812 fadR_gamma fatty aci 20.8 1.4E+02 0.003 27.9 4.2 37 320-357 36-72 (235)
75 PF09581 Spore_III_AF: Stage I 20.7 3.3E+02 0.0073 24.5 6.6 19 309-327 85-103 (188)
76 smart00419 HTH_CRP helix_turn_ 20.7 1.3E+02 0.0028 20.4 3.1 32 322-355 16-47 (48)
77 PF13730 HTH_36: Helix-turn-he 20.6 89 0.0019 22.4 2.3 25 320-345 31-55 (55)
78 PF12840 HTH_20: Helix-turn-he 20.4 1.7E+02 0.0037 21.6 3.9 42 302-352 20-61 (61)
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=2.9e-35 Score=260.14 Aligned_cols=121 Identities=41% Similarity=0.672 Sum_probs=108.5
Q ss_pred cceeEEEEeeccccC--------------cCCCceEEEeeCCCCCCCccccccCCCCCCCChhhHHHHHHHHHHHHHhhh
Q 016736 156 FDRIIVLYRQASTKS--------------KAERGVYLKHFRNIPMADMEIVLPEKKNPGLTPLDWVKFLVSAVVGLVAVI 221 (383)
Q Consensus 156 F~rVVvlyR~~~~~~--------------~~~~~l~LK~FkdIP~aDLE~llP~~K~~~~~~~d~~~l~v~~vvg~v~v~ 221 (383)
||||||+||.+.++. ..+++|+||+||||||+|||+||||+| |+|+++||+++++++++|+++++
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 899999999876432 137899999999999999999999998 89999999999999999999999
Q ss_pred hhcccch----hh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChh
Q 016736 222 TSAQLHE----ID--LWVGMAILSTVIGYCAKTYFTFQQNMAAYQNMITQSMYDKQLDSGKG 277 (383)
Q Consensus 222 ~~~~~~~----~~--~~~~~a~ls~l~g~~~r~~~~~~~~~~ry~~~l~~~LY~K~l~sn~G 277 (383)
+++..+. ++ ++..+++++++++||+|+|++|+|+|.+||+++|++|||||+|||+|
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 56677778899999999999999999999999999999999999998
No 2
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=92.60 E-value=0.59 Score=41.22 Aligned_cols=71 Identities=21% Similarity=0.244 Sum_probs=53.6
Q ss_pred HHHHHHh-hcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC----Cc----eEEechhhHHHHHh
Q 016736 296 ISFFILM-EQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI----GR----YYCVGLKRSNEIIG 366 (383)
Q Consensus 296 LaY~~Ll-~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~----~~----~~a~pl~~A~~~l~ 366 (383)
=+|..|+ .+|++|.++|.+....==. -|..||++|..-|||.+... |+ |.++|.++..+++.
T Consensus 31 ~v~~~LL~~~~~~tvdelae~lnr~rS---------tv~rsl~~L~~~GlV~Rek~~~~~Ggy~yiY~~i~~ee~k~~i~ 101 (126)
T COG3355 31 EVYKALLEENGPLTVDELAEILNRSRS---------TVYRSLQNLLEAGLVEREKVNLKGGGYYYLYKPIDPEEIKKKIL 101 (126)
T ss_pred HHHHHHHhhcCCcCHHHHHHHHCccHH---------HHHHHHHHHHHcCCeeeeeeccCCCceeEEEecCCHHHHHHHHH
Confidence 3677788 6899999999877653211 37899999999999988653 43 45899999999888
Q ss_pred hhHHHHHHH
Q 016736 367 TTTEEMVLK 375 (383)
Q Consensus 367 ~~~~~~~~~ 375 (383)
..-++...+
T Consensus 102 ~~l~~w~~~ 110 (126)
T COG3355 102 KDLDEWYDK 110 (126)
T ss_pred HHHHHHHHH
Confidence 775555443
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=91.36 E-value=0.18 Score=38.60 Aligned_cols=55 Identities=27% Similarity=0.353 Sum_probs=40.7
Q ss_pred HHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCC--ceEEechh
Q 016736 296 ISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIG--RYYCVGLK 359 (383)
Q Consensus 296 LaY~~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~--~~~a~pl~ 359 (383)
=+|..|++.|++|.++|...+ |++- =.|.++|++|++.|+|.+...+ .|.++|++
T Consensus 12 ~vy~~Ll~~~~~t~~eIa~~l--------~i~~-~~v~~~L~~L~~~GlV~~~~~~~~~Y~a~~pe 68 (68)
T PF01978_consen 12 KVYLALLKNGPATAEEIAEEL--------GISR-STVYRALKSLEEKGLVEREEGRPKVYRAVPPE 68 (68)
T ss_dssp HHHHHHHHHCHEEHHHHHHHH--------TSSH-HHHHHHHHHHHHTTSEEEEEECCEEEEEE-HH
T ss_pred HHHHHHHHcCCCCHHHHHHHH--------CcCH-HHHHHHHHHHHHCCCEEEEcCceEEEEEeCCC
Confidence 367777788999999987654 3332 2578999999999999887643 47888874
No 4
>PF11460 DUF3007: Protein of unknown function (DUF3007); InterPro: IPR021562 This is a family of uncharacterised proteins found in bacteria and eukaryotes.
Probab=80.38 E-value=9.9 Score=32.54 Aligned_cols=63 Identities=16% Similarity=0.336 Sum_probs=36.5
Q ss_pred CChhhHHHHHHHHHH-HHHhh--hhhcccch--hhHH----HHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHH
Q 016736 201 LTPLDWVKFLVSAVV-GLVAV--ITSAQLHE--IDLW----VGMAILSTVIGYCAKTYFT---FQQNMAAYQNMI 263 (383)
Q Consensus 201 ~~~~d~~~l~v~~vv-g~v~v--~~~~~~~~--~~~~----~~~a~ls~l~g~~~r~~~~---~~~~~~ry~~~l 263 (383)
|+..|-+.+++...+ |+++. +..+++++ +..| .++++++=+++|.+|+.++ |.++|.+|...+
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 344566655555433 33332 33444432 2233 2334444467799999875 999999998865
No 5
>COG1378 Predicted transcriptional regulators [Transcription]
Probab=77.57 E-value=6.9 Score=38.03 Aligned_cols=71 Identities=24% Similarity=0.268 Sum_probs=56.2
Q ss_pred HHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC--CceEEechhhHHHHHhhhHHHHH
Q 016736 296 ISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI--GRYYCVGLKRSNEIIGTTTEEMV 373 (383)
Q Consensus 296 LaY~~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~--~~~~a~pl~~A~~~l~~~~~~~~ 373 (383)
=+|.-|+..|++|+.++-+ ..|+.-. -|=|-|+.|++-|+|...++ ..|.|+|+++.++.+...+++.+
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 4799999999999999864 3455433 25578999999999977532 46999999999999999988876
Q ss_pred HH
Q 016736 374 LK 375 (383)
Q Consensus 374 ~~ 375 (383)
..
T Consensus 91 ~~ 92 (247)
T COG1378 91 RE 92 (247)
T ss_pred HH
Confidence 55
No 6
>PF14394 DUF4423: Domain of unknown function (DUF4423)
Probab=72.11 E-value=9.5 Score=35.00 Aligned_cols=63 Identities=22% Similarity=0.275 Sum_probs=44.1
Q ss_pred CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec---------hhhHHHHHhhhHHHHHHHH
Q 016736 307 ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG---------LKRSNEIIGTTTEEMVLKA 376 (383)
Q Consensus 307 ~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p---------l~~A~~~l~~~~~~~~~~~ 376 (383)
.+.+||..+|-- ++..+ +|.+||+.|+++||+.++.+|.|..+. ...|+......|-++-..|
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 467666665511 33322 689999999999999999988885544 4567777777776665544
No 7
>PRK04214 rbn ribonuclease BN/unknown domain fusion protein; Reviewed
Probab=71.03 E-value=1.1e+02 Score=31.62 Aligned_cols=39 Identities=10% Similarity=0.309 Sum_probs=28.6
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCce
Q 016736 306 KATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY 353 (383)
Q Consensus 306 ~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~ 353 (383)
+.|.++|.++. +.+.+ .+++-+++|++.|++.+..+|.|
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
>PF14015 DUF4231: Protein of unknown function (DUF4231)
Probab=62.58 E-value=34 Score=28.23 Aligned_cols=18 Identities=17% Similarity=0.504 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 016736 245 CAKTYFTFQQNMAAYQNM 262 (383)
Q Consensus 245 ~~r~~~~~~~~~~ry~~~ 262 (383)
++...++|++++.+|...
T Consensus 67 ~~~~~~~~~~~W~~~r~t 84 (112)
T PF14015_consen 67 SLAAFFRFHERWIRYRAT 84 (112)
T ss_pred HHHHHhchhHHHHHHHHH
Confidence 356778899998888773
No 9
>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=62.52 E-value=24 Score=34.85 Aligned_cols=38 Identities=18% Similarity=0.325 Sum_probs=28.9
Q ss_pred HHHHHhCCcceec-HHHHHHHHHHcCeeeecCCCceEEe
Q 016736 319 LIKEEFGESCNFD-VDDAVHKLEKLGIVARDTIGRYYCV 356 (383)
Q Consensus 319 ~l~~~f~~~vdFd-v~dAl~kL~~lgLv~~~~~~~~~a~ 356 (383)
||....+-.|.=+ |.+||+.|+++||+.++.+|.|..+
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 8999999999999999988987443
No 10
>COG1802 GntR Transcriptional regulators [Transcription]
Probab=60.20 E-value=14 Score=34.55 Aligned_cols=60 Identities=30% Similarity=0.403 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHHHhhcCC-CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 289 QEVKEVIISFFILMEQGK-ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 289 Qe~KEaiLaY~~Ll~~g~-~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
++++|.|+.--+- +|. ++ |+.|.++||++- -.|-+||..|...|||...++..+.+.|+.
T Consensus 23 ~~Lr~~Il~g~l~--pG~~l~--------e~~La~~~gvSr-tPVReAL~rL~~eGlv~~~p~rG~~V~~~~ 83 (230)
T COG1802 23 EELREAILSGELA--PGERLS--------EEELAEELGVSR-TPVREALRRLEAEGLVEIEPNRGAFVAPLS 83 (230)
T ss_pred HHHHHHHHhCCCC--CCCCcc--------HHHHHHHhCCCC-ccHHHHHHHHHHCCCeEecCCCCCeeCCCC
Confidence 5566666543221 232 43 566778899885 489999999999999999987666555544
No 11
>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=57.37 E-value=96 Score=25.53 Aligned_cols=82 Identities=12% Similarity=0.160 Sum_probs=53.7
Q ss_pred HHHHH--HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeec--C--CC----ceEEechh-hHHHH
Q 016736 296 ISFFI--LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARD--T--IG----RYYCVGLK-RSNEI 364 (383)
Q Consensus 296 LaY~~--Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~--~--~~----~~~a~pl~-~A~~~ 364 (383)
+.|++ ++..+|.+.-+|-+.+++.....+..+- =.+-.+|.+|++.|+|+.. . .| .|..+|-- ++++.
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 25555543 44566
Q ss_pred HhhhHHHHHHHHhc
Q 016736 365 IGTTTEEMVLKAQQ 378 (383)
Q Consensus 365 l~~~~~~~~~~~~~ 378 (383)
+...|+++.....+
T Consensus 84 ~~~~~~~~~~~i~~ 97 (100)
T TIGR03433 84 ETESWARLSAAIAR 97 (100)
T ss_pred HHHHHHHHHHHHHH
Confidence 88889998876554
No 12
>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=54.23 E-value=11 Score=29.25 Aligned_cols=28 Identities=29% Similarity=0.370 Sum_probs=21.0
Q ss_pred CCCC-CccccCHHHHHhhhcCCeeeeecc
Q 016736 1 MDKS-NFKITTDEEIDVALSGQYLLHLPI 28 (383)
Q Consensus 1 m~~s-~F~~ls~~e~~~A~~~~yll~Lpi 28 (383)
|+.- ||+++|++|++..-.+.|-+.+..
T Consensus 1 m~~~~nf~~~sdeeL~~i~GG~l~~iqs~ 29 (60)
T PF04369_consen 1 MENQLNFNILSDEELSKINGGGLPYIQSN 29 (60)
T ss_pred CcccccceecCHHHHhhccCCcceeeeec
Confidence 5554 999999999998867755555543
No 13
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=49.62 E-value=1.2e+02 Score=27.98 Aligned_cols=70 Identities=23% Similarity=0.265 Sum_probs=52.6
Q ss_pred HHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeee----c-CCCceEE---echhhHHHHHhhhHH
Q 016736 299 FILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVAR----D-TIGRYYC---VGLKRSNEIIGTTTE 370 (383)
Q Consensus 299 ~~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~----~-~~~~~~a---~pl~~A~~~l~~~~~ 370 (383)
..|..+|.+|.++|.. ..|.+.. +|-..|.+|.+.|||+. + ..|+++. +..+++..+|..+-.
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 3466788899988764 4566554 78999999999999983 3 2366544 888999999998877
Q ss_pred HHHHHHh
Q 016736 371 EMVLKAQ 377 (383)
Q Consensus 371 ~~~~~~~ 377 (383)
.++.+-+
T Consensus 100 ~~~~klk 106 (178)
T PRK06266 100 EELKKLK 106 (178)
T ss_pred HHHHHHH
Confidence 7776643
No 14
>smart00550 Zalpha Z-DNA-binding domain in adenosine deaminases. Helix-turn-helix-containing domain. Also known as Zab.
Probab=49.07 E-value=58 Score=25.11 Aligned_cols=56 Identities=25% Similarity=0.394 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHHHhhcCC--CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecC-C-CceEE
Q 016736 289 QEVKEVIISFFILMEQGK--ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDT-I-GRYYC 355 (383)
Q Consensus 289 Qe~KEaiLaY~~Ll~~g~--~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~-~-~~~~a 355 (383)
.+++|.||.+ |.++|+ +|..+|. .++|+.-. .|...|.+|++.|+|.+++ . +.|..
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 8988765 45688877 8999999999999998865 2 45543
No 15
>PRK06743 flagellar motor protein MotP; Reviewed
Probab=49.00 E-value=1.6e+02 Score=29.00 Aligned_cols=66 Identities=15% Similarity=0.123 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHHHHHHHHHHHHHHH-hhcCCCCHHHHHHHHHHHHH
Q 016736 252 FQQNMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFIL-MEQGKATRQDLDLRCEELIK 321 (383)
Q Consensus 252 ~~~~~~ry~~~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KEaiLaY~~L-l~~g~~T~~~Ld~~~E~~l~ 321 (383)
|+.++..|+..+......-+.+...|++ +| +.+-++.++.+++.++- ...|. +++++.+..|+-+.
T Consensus 64 f~~~~~~~~~~i~~l~~la~~aRr~GlL-aL--E~~~~~~~d~fl~~gl~l~vdg~-~~e~i~~~le~~~~ 130 (254)
T PRK06743 64 LHRREEDLEQLTDLFVDFSKKSKKHGLL-SL--EVDGEQVDNPFIQKGIRLMLSGY-DEDELKEVLMKDVE 130 (254)
T ss_pred HcCCCCCHHHHHHHHHHHHHHHHhcCHH-HH--HhhccCCccHHHHHHHHHHHCCC-CHHHHHHHHHHHHH
Confidence 4455667888888877778888888843 33 33345556788888873 33454 66666655555444
No 16
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=46.60 E-value=31 Score=32.00 Aligned_cols=39 Identities=10% Similarity=0.188 Sum_probs=31.1
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
|.++||++-. .|-+||..|+..|||...++..+.+.|+.
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 99999999999999988776556555554
No 17
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=46.38 E-value=17 Score=30.44 Aligned_cols=20 Identities=35% Similarity=0.606 Sum_probs=17.8
Q ss_pred cHHHHHHHHHHcCeeeecCC
Q 016736 331 DVDDAVHKLEKLGIVARDTI 350 (383)
Q Consensus 331 dv~dAl~kL~~lgLv~~~~~ 350 (383)
+|.+++++|+++|||.+..+
T Consensus 37 ~v~~~l~~Le~~GLler~~g 56 (92)
T PF10007_consen 37 EVREALEKLEEMGLLERVEG 56 (92)
T ss_pred HHHHHHHHHHHCCCeEEecC
Confidence 68899999999999988764
No 18
>PRK08868 flagellar protein FlaG; Provisional
Probab=45.14 E-value=21 Score=32.28 Aligned_cols=63 Identities=19% Similarity=0.230 Sum_probs=49.7
Q ss_pred CCHHHHHHHHH---HHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 016736 307 ATRQDLDLRCE---ELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 371 (383)
Q Consensus 307 ~T~~~Ld~~~E---~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~~A~~~l~~~~~~ 371 (383)
++.++|...+| .+|. .++..+.|.+++-..+.. -.++..+++..+.=+|.+++++++...|+.
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 19
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=43.04 E-value=75 Score=25.71 Aligned_cols=35 Identities=20% Similarity=0.190 Sum_probs=29.8
Q ss_pred cceecHHHHHHHHHHcCeeeecCCCceEEechhhH
Q 016736 327 SCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRS 361 (383)
Q Consensus 327 ~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~~A 361 (383)
...+.+.=|+..|.+-|+|.+...|.|...+.-.+
T Consensus 52 ~~~~ri~Wa~~~L~~aGli~~~~rG~~~iT~~G~~ 86 (92)
T PF14338_consen 52 RFKNRIRWARSYLKKAGLIERPKRGIWRITEKGRK 86 (92)
T ss_pred hHHHhHHHHHHHHHHCCCccCCCCCceEECHhHHH
Confidence 68889999999999999998877798988876544
No 20
>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=41.04 E-value=1.5e+02 Score=26.72 Aligned_cols=72 Identities=22% Similarity=0.339 Sum_probs=52.7
Q ss_pred HHHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecC----C-Cc---eEEechhhHHHHHh
Q 016736 295 IISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDT----I-GR---YYCVGLKRSNEIIG 366 (383)
Q Consensus 295 iLaY~~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~----~-~~---~~a~pl~~A~~~l~ 366 (383)
+..--.|..+|.+|.++|.. ..|.+.+ +|...|.+|.+.|||+... + |. +..+..+++...|.
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 4577766 6899999999999994322 2 32 23579999999999
Q ss_pred hhHHHHHHH
Q 016736 367 TTTEEMVLK 375 (383)
Q Consensus 367 ~~~~~~~~~ 375 (383)
.+-..++.+
T Consensus 88 ~~~~~~~~~ 96 (158)
T TIGR00373 88 RKLEETAKK 96 (158)
T ss_pred HHHHHHHHH
Confidence 887766654
No 21
>PHA01814 hypothetical protein
Probab=40.61 E-value=5.3 Score=34.57 Aligned_cols=59 Identities=24% Similarity=0.348 Sum_probs=43.1
Q ss_pred hhhcCCeeeeeccccccccchHHHHHHHhhhccCCCCcccccceeeecCCCccccCcchhhHHhHHHHHHHHhH
Q 016736 16 VALSGQYLLHLPITVNESKLDKKLLKRYFEEHHHDHLPDFADKYVIFRRGIGVDQTTDYFFMEKVDMLIGRFWS 89 (383)
Q Consensus 16 ~A~~~~yll~Lpi~vd~~klD~~ll~~y~~~~~~~~l~~~~d~~liF~RG~~~d~~~g~~~~eKld~l~~~~~~ 89 (383)
.-.++.=||||.|+||-+|.==..|+-||.+|.++ --+||+||+-. .-.+|-.+|.+-.
T Consensus 54 d~~~e~dlftldididikkhvfn~l~~yy~~~~~~-------~~iiykk~v~m--------~~tiddvls~fek 112 (137)
T PHA01814 54 DTKNENDLFTLDIDIDIKKHVFNCLKVYYIEHTED-------INIIYKKGVYM--------GCTIDDVLSNFEK 112 (137)
T ss_pred ccccccceEEEEeeeehhhheeeeEEEeeeccccc-------ceeeeecceEE--------ccCHHHHHhhccC
Confidence 34567789999999999998777778888776655 57899998743 3446666665544
No 22
>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=40.43 E-value=50 Score=26.79 Aligned_cols=63 Identities=13% Similarity=0.220 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHH-HHhhcCChhHHHHHHhHH--HHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Q 016736 256 MAAYQNMITQSMY-DKQLDSGKGTLLHLCDDV--IQQEVKEVIISFFILMEQGKATRQDLDLRCEE 318 (383)
Q Consensus 256 ~~ry~~~l~~~LY-~K~l~sn~Gvl~~L~d~a--eeQe~KEaiLaY~~Ll~~g~~T~~~Ld~~~E~ 318 (383)
+-.|..++-.+.. .+.+-++..+|..++... +.+...+.+|..+|....|......+++++++
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 4556666544443 567889999999999876 66788899999999666677887777777664
No 23
>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=37.77 E-value=50 Score=24.65 Aligned_cols=37 Identities=19% Similarity=0.338 Sum_probs=23.7
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
+..+||.+..=...++++++++.|+|..+ ++++.++|
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 44567776333337789999999999775 57877765
No 24
>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=37.27 E-value=1.8e+02 Score=25.29 Aligned_cols=63 Identities=13% Similarity=0.158 Sum_probs=31.9
Q ss_pred hHHHHHHH--HHHHHHhhhhhcccc-hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016736 205 DWVKFLVS--AVVGLVAVITSAQLH-EIDLWVGMAILSTVIGYCAKTYFTFQQNMAAYQNMITQSMYDK 270 (383)
Q Consensus 205 d~~~l~v~--~vvg~v~v~~~~~~~-~~~~~~~~a~ls~l~g~~~r~~~~~~~~~~ry~~~l~~~LY~K 270 (383)
|-++.+++ +++|++.++..-... +.+|-+..-+++.+++| .|=.|+.++.+.+...+...|.+
T Consensus 42 ~slL~Gi~~G~~vG~~~fl~~~~~~~A~nwavgsF~l~s~~~w---e~Cr~~r~~~~~~~~~~~e~~~~ 107 (118)
T PF12597_consen 42 DSLLYGIAGGFGVGGLRFLFTSNPRKAANWAVGSFFLGSLGSW---EYCRYNRRKERQQMKRAVEAMQE 107 (118)
T ss_pred HHHHHHHHHHHHHHhhhhcccCCCccchhhhhHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHH
Confidence 55555555 455555555443332 23455544444444444 44555566666666555554443
No 25
>PF11469 Ribonucleas_3_2: Ribonuclease III; InterPro: IPR021568 This archaeal family of proteins has no known function. ; PDB: 1ZTD_A.
Probab=36.81 E-value=35 Score=29.44 Aligned_cols=22 Identities=27% Similarity=0.572 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCHHH
Q 016736 288 QQEVKEVIISFFILMEQGKATRQD 311 (383)
Q Consensus 288 eQe~KEaiLaY~~Ll~~g~~T~~~ 311 (383)
--++.|+++||+|| .|.+|.+|
T Consensus 58 kGd~aEA~iAyAWL--eg~it~eE 79 (120)
T PF11469_consen 58 KGDIAEALIAYAWL--EGKITIEE 79 (120)
T ss_dssp HHHHHHHHHHHHHH--TTSS-HHH
T ss_pred ccHHHHHHHHHHHH--hccccHHH
Confidence 45788999999999 47777654
No 26
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=36.53 E-value=1.2e+02 Score=24.11 Aligned_cols=32 Identities=25% Similarity=0.215 Sum_probs=25.5
Q ss_pred cHHHHHHHHHHcCeeeecCCCceEEechhhHH
Q 016736 331 DVDDAVHKLEKLGIVARDTIGRYYCVGLKRSN 362 (383)
Q Consensus 331 dv~dAl~kL~~lgLv~~~~~~~~~a~pl~~A~ 362 (383)
.+..++..|++.|+|.+.+++.+...|.-.+.
T Consensus 15 tvs~~l~~L~~~glI~r~~~~~~~lT~~g~~~ 46 (96)
T smart00529 15 TVTQMLKKLEKDGLVEYEPYRGITLTEKGRRL 46 (96)
T ss_pred HHHHHHHHHHHCCCEEEcCCCceEechhHHHH
Confidence 46789999999999999887777777655543
No 27
>smart00347 HTH_MARR helix_turn_helix multiple antibiotic resistance protein.
Probab=35.01 E-value=2.1e+02 Score=22.06 Aligned_cols=42 Identities=33% Similarity=0.473 Sum_probs=30.0
Q ss_pred HHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC
Q 016736 300 ILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI 350 (383)
Q Consensus 300 ~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~ 350 (383)
.|...|++|..+|... ++.+ .-.+..++.+|++.|+|++...
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 3458899999999999987644
No 28
>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=34.21 E-value=51 Score=24.17 Aligned_cols=44 Identities=25% Similarity=0.348 Sum_probs=30.5
Q ss_pred CCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 305 GKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 305 g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
+++|.++|.+ .+|+. .-.|.+++.+|++.|+|..+..|.|...|
T Consensus 24 ~~~s~~ela~--------~~g~s-~~tv~r~l~~L~~~g~i~~~~~~~~~l~~ 67 (67)
T cd00092 24 LPLTRQEIAD--------YLGLT-RETVSRTLKELEEEGLISRRGRGKYRVNP 67 (67)
T ss_pred CCcCHHHHHH--------HHCCC-HHHHHHHHHHHHHCCCEEecCCCeEEeCC
Confidence 3466666654 34443 34578999999999999887657776554
No 29
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=33.61 E-value=62 Score=30.69 Aligned_cols=41 Identities=24% Similarity=0.209 Sum_probs=30.8
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEech
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGL 358 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl 358 (383)
|+-|.++||+.-. .|-+||..|+..|||...++....+.++
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 4455677888754 7999999999999998877655555444
No 30
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=33.47 E-value=63 Score=30.49 Aligned_cols=42 Identities=19% Similarity=0.221 Sum_probs=31.9
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
|+-|.++||+.= =.|-+||..|+..|||...++..+.+.++.
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 489999999999999988776555555543
No 31
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=31.73 E-value=51 Score=23.28 Aligned_cols=33 Identities=27% Similarity=0.361 Sum_probs=25.3
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCce
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY 353 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~ 353 (383)
|.+.+|+.. -.|.+++.+|++.|+|....++.+
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 579999999999999987665544
No 32
>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=31.05 E-value=48 Score=24.30 Aligned_cols=27 Identities=22% Similarity=0.402 Sum_probs=21.1
Q ss_pred eEEechhhHHHHHhhhH-HHHHHHHhcCCC
Q 016736 353 YYCVGLKRSNEIIGTTT-EEMVLKAQQGIS 381 (383)
Q Consensus 353 ~~a~pl~~A~~~l~~~~-~~~~~~~~~~~~ 381 (383)
|.++ +=|..+|++.| .+.|.+|++|+-
T Consensus 13 YIVV--EmA~~lLGe~W~~~~v~~a~~GGI 40 (45)
T PF11880_consen 13 YIVV--EMARHLLGENWQQDYVERANNGGI 40 (45)
T ss_pred eehH--HHHHHHhhhhHHHHHHHHHHcCCe
Confidence 4444 55889999999 578999999863
No 33
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=29.79 E-value=89 Score=28.90 Aligned_cols=39 Identities=15% Similarity=0.262 Sum_probs=30.7
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
|.++||++-. .|-+||..|+..|||+..++..+.+.++.
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 89999999999999988776555555444
No 34
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=29.60 E-value=2.8e+02 Score=25.07 Aligned_cols=23 Identities=13% Similarity=0.345 Sum_probs=15.5
Q ss_pred ChhhHHHHHHHHHHHHHhhhhhc
Q 016736 202 TPLDWVKFLVSAVVGLVAVITSA 224 (383)
Q Consensus 202 ~~~d~~~l~v~~vvg~v~v~~~~ 224 (383)
...||++..+.+++.++.++..+
T Consensus 13 ~~~~~~~~~~i~~ll~~l~~~~~ 35 (149)
T PF11694_consen 13 SQNDYLRYILIIILLLVLIFFFI 35 (149)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788888888776665555443
No 35
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=29.11 E-value=81 Score=29.89 Aligned_cols=42 Identities=26% Similarity=0.146 Sum_probs=31.6
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
|+-|.++||+.- -.|-+||..|+..|||+..++....+.++.
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 36
>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=28.59 E-value=1.6e+02 Score=24.72 Aligned_cols=72 Identities=25% Similarity=0.396 Sum_probs=52.0
Q ss_pred HHhhcCCCCHHHHHHHHHH---HHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc-eEEechhhHHHHHhhhHHHHHHH
Q 016736 300 ILMEQGKATRQDLDLRCEE---LIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR-YYCVGLKRSNEIIGTTTEEMVLK 375 (383)
Q Consensus 300 ~Ll~~g~~T~~~Ld~~~E~---~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~-~~a~pl~~A~~~l~~~~~~~~~~ 375 (383)
+||.+|++|..++-+.+.+ |=++ .|---|.+|.+-|+|++...|+ +...|+-.--+.......+++.+
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 5788889999998777653 3222 3667899999999999987664 56667766667777777777776
Q ss_pred HhcC
Q 016736 376 AQQG 379 (383)
Q Consensus 376 ~~~~ 379 (383)
--.|
T Consensus 83 ~~~g 86 (115)
T PF03965_consen 83 LFDG 86 (115)
T ss_dssp HSTT
T ss_pred HhCC
Confidence 5544
No 37
>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=28.50 E-value=94 Score=22.33 Aligned_cols=54 Identities=28% Similarity=0.390 Sum_probs=34.2
Q ss_pred CCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc--eEEech-hhHHHHHhhhH
Q 016736 307 ATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR--YYCVGL-KRSNEIIGTTT 369 (383)
Q Consensus 307 ~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~--~~a~pl-~~A~~~l~~~~ 369 (383)
.+..++.. .+|+. .=.+..++..|.+.|++.....+. +..+.. +++.+.+.+.|
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 67666533 34543 234789999999999998765542 233332 56666666654
No 38
>PRK14137 recX recombination regulator RecX; Provisional
Probab=28.49 E-value=58 Score=30.64 Aligned_cols=66 Identities=14% Similarity=0.205 Sum_probs=44.7
Q ss_pred CChhHHHHHHhHHHHHHHHHHHHHHHH-HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCee
Q 016736 274 SGKGTLLHLCDDVIQQEVKEVIISFFI-LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIV 345 (383)
Q Consensus 274 sn~Gvl~~L~d~aeeQe~KEaiLaY~~-Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv 345 (383)
+..|+...-+.....+|..+.+..|++ +++...-|..||-..-..+ |.. .-.|+.+|.+|.+.|++
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 334444445555678899999999998 7766666776665433221 222 35688999999999988
No 39
>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=28.48 E-value=1.1e+02 Score=22.07 Aligned_cols=34 Identities=32% Similarity=0.460 Sum_probs=25.4
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceE
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYY 354 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~ 354 (383)
|.+.+|+. .=.|..++.+|++.|+|+..+...+.
T Consensus 31 la~~~~is-~~~v~~~l~~L~~~G~i~~~~~~~~~ 64 (66)
T cd07377 31 LAEELGVS-RTTVREALRELEAEGLVERRPGRGTF 64 (66)
T ss_pred HHHHHCCC-HHHHHHHHHHHHHCCCEEecCCCeEE
Confidence 55566776 36788999999999999876544443
No 40
>COG2188 PhnF Transcriptional regulators [Transcription]
Probab=27.93 E-value=67 Score=30.53 Aligned_cols=56 Identities=23% Similarity=0.338 Sum_probs=37.8
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceEEec-hhhHHHHHhhhHHHHH
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYYCVG-LKRSNEIIGTTTEEMV 373 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~-~~~~a~p-l~~A~~~l~~~~~~~~ 373 (383)
|+=|.++||++ ...|..||..|+..|+|.+..+ |.+.+-+ ...+...+....+++.
T Consensus 34 E~eLa~~f~VS-R~TvRkAL~~L~~eGli~r~~G~GtfV~~~~~~~~~~~~~~f~e~~~ 91 (236)
T COG2188 34 ERELAEQFGVS-RMTVRKALDELVEEGLIVRRQGKGTFVASPKEQSPLLELTSFSEELK 91 (236)
T ss_pred HHHHHHHHCCc-HHHHHHHHHHHHHCCcEEEEecCeeEEcCccccccccccccHHHHHH
Confidence 44566788887 5789999999999999988765 6666655 2333333444444443
No 41
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=27.50 E-value=93 Score=29.49 Aligned_cols=40 Identities=23% Similarity=0.272 Sum_probs=30.6
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
|+-|.++||+.-. .|-+||..|+..|||+..+++...+.+
T Consensus 29 E~eLae~~gVSRt-pVREAL~~Le~~GlV~~~~~~G~~V~~ 68 (253)
T PRK10421 29 ERQLAMQLGVSRN-SLREALAKLVSEGVLLSRRGGGTFIRW 68 (253)
T ss_pred HHHHHHHhCCCHH-HHHHHHHHHHHCCCEEEeCCCeEEEec
Confidence 4556677888754 899999999999999877765455544
No 42
>PRK13777 transcriptional regulator Hpr; Provisional
Probab=27.46 E-value=3.4e+02 Score=25.23 Aligned_cols=71 Identities=13% Similarity=0.048 Sum_probs=40.0
Q ss_pred HhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecC---CCceEEech-hhHHHHHhh---hHHHHH
Q 016736 301 LMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDT---IGRYYCVGL-KRSNEIIGT---TTEEMV 373 (383)
Q Consensus 301 Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~---~~~~~a~pl-~~A~~~l~~---~~~~~~ 373 (383)
|...+++|..+|... +..++. .+...+++|++-|+|.+.. +.+...+-| +++.+.+++ .+++.-
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 344566888776543 222211 2788999999999999864 345444444 444444443 344444
Q ss_pred HHHhcCC
Q 016736 374 LKAQQGI 380 (383)
Q Consensus 374 ~~~~~~~ 380 (383)
..+-+|.
T Consensus 125 ~~~~~~~ 131 (185)
T PRK13777 125 NSVFNGA 131 (185)
T ss_pred HHHHhcc
Confidence 4444443
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=26.72 E-value=1.2e+02 Score=27.78 Aligned_cols=40 Identities=23% Similarity=0.311 Sum_probs=30.0
Q ss_pred HHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechh
Q 016736 319 LIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLK 359 (383)
Q Consensus 319 ~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~ 359 (383)
=|.++||++-. .|-+||..|+..|||...++..+.+.++.
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 34567787743 89999999999999988776556555543
No 44
>PRK14999 histidine utilization repressor; Provisional
Probab=26.37 E-value=1.2e+02 Score=28.63 Aligned_cols=56 Identities=18% Similarity=0.241 Sum_probs=37.1
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceEEec-hhhHHHHHhhhHHHHH
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYYCVG-LKRSNEIIGTTTEEMV 373 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~-~~~~a~p-l~~A~~~l~~~~~~~~ 373 (383)
|+-|.++||+. .-.|-.||..|++.|+|.+..+ |.+.+-+ .......+...++++.
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 5554322 2333444555566543
No 45
>PRK07738 flagellar protein FlaG; Provisional
Probab=26.20 E-value=73 Score=27.81 Aligned_cols=63 Identities=16% Similarity=0.216 Sum_probs=46.9
Q ss_pred CCHHHHHHHH---HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 016736 307 ATRQDLDLRC---EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 371 (383)
Q Consensus 307 ~T~~~Ld~~~---E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~~A~~~l~~~~~~ 371 (383)
.+.++|+..+ +.+|. ..+..+.|.+++-..... -.++..+++..+.=+|.+++++++...|+.
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 589999999998653321 225556667789999999999999999874
No 46
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=25.44 E-value=1e+02 Score=29.03 Aligned_cols=40 Identities=23% Similarity=0.374 Sum_probs=29.9
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
|.-|.++||+.- -.|-+||..|+..|||+..+++...+.+
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 344566788874 4899999999999999887765444544
No 47
>COG2979 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.25 E-value=2.4e+02 Score=27.29 Aligned_cols=25 Identities=16% Similarity=0.231 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Q 016736 234 GMAILSTVIGYCAKTYFTFQQNMAA 258 (383)
Q Consensus 234 ~~a~ls~l~g~~~r~~~~~~~~~~r 258 (383)
-++.++++++.+.++|.+|++++.+
T Consensus 62 k~GglAAlG~laY~aY~N~q~~q~~ 86 (225)
T COG2979 62 KLGGLAALGALAYKAYQNYQKGQIP 86 (225)
T ss_pred hhhhHHHHHHHHHHHHHHHhccCcc
Confidence 3555677788888999999987744
No 48
>PF10785 NADH-u_ox-rdase: NADH-ubiquinone oxidoreductase complex I, 21 kDa subunit; InterPro: IPR019721 This domain is found in the N-terminal region of NADH-ubiquinone oxidoreductase 21kDa subunits from plants and fungi [].
Probab=23.83 E-value=2.8e+02 Score=22.72 Aligned_cols=21 Identities=10% Similarity=0.048 Sum_probs=15.8
Q ss_pred CCChhhHHHHHHHHHHHHHhh
Q 016736 200 GLTPLDWVKFLVSAVVGLVAV 220 (383)
Q Consensus 200 ~~~~~d~~~l~v~~vvg~v~v 220 (383)
.+|+.|.......++++....
T Consensus 19 ~~R~sDy~~~a~~ta~~p~~~ 39 (86)
T PF10785_consen 19 YFRPSDYAIWAGATAASPPLG 39 (86)
T ss_pred hCCHHHHHHHHHHHHHHHHHH
Confidence 579999998887777665544
No 49
>COG5631 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]
Probab=23.42 E-value=81 Score=29.41 Aligned_cols=34 Identities=24% Similarity=0.405 Sum_probs=26.3
Q ss_pred CCcceecHHHHHHHHHHcCeeeecCCCc---eEEech
Q 016736 325 GESCNFDVDDAVHKLEKLGIVARDTIGR---YYCVGL 358 (383)
Q Consensus 325 ~~~vdFdv~dAl~kL~~lgLv~~~~~~~---~~a~pl 358 (383)
+.+=.-.|.-+|.||++.||++++..|+ |.++|+
T Consensus 109 n~eDth~itYslrKL~k~gLit~t~~gkevTy~vTa~ 145 (199)
T COG5631 109 NREDTHNITYSLRKLLKGGLITRTGSGKEVTYEVTAL 145 (199)
T ss_pred ccccchhHHHHHHHHHhccceecCCCCceEEEEEecc
Confidence 3444557889999999999999988775 556655
No 50
>PF09840 DUF2067: Uncharacterized protein conserved in archaea (DUF2067); InterPro: IPR019202 This family of archaeal proteins, have no known function.
Probab=23.29 E-value=79 Score=29.72 Aligned_cols=49 Identities=14% Similarity=0.232 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCce-EEechhhHHHH
Q 016736 290 EVKEVIISFFILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY-YCVGLKRSNEI 364 (383)
Q Consensus 290 e~KEaiLaY~~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~-~a~pl~~A~~~ 364 (383)
..|+++.+|+.+. +-+++|+++.+.+.|++.++.+|+| ...+.++|+..
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 3788888888875 3468899999999999999877855 56677777654
No 51
>PRK08990 flagellar motor protein PomA; Reviewed
Probab=23.28 E-value=6.3e+02 Score=24.69 Aligned_cols=63 Identities=13% Similarity=0.131 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHHHHHHHHHHHHHHHh-hcCCCCHHHHHHHHHHH
Q 016736 251 TFQQNMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFILM-EQGKATRQDLDLRCEEL 319 (383)
Q Consensus 251 ~~~~~~~ry~~~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KEaiLaY~~Ll-~~g~~T~~~Ld~~~E~~ 319 (383)
.|+.++..|...+......-..+...|.+. +++ +++...++.-...+ ..|. .++++.+..|+-
T Consensus 65 ~~~~~~~~~~~~i~~l~~la~~aR~~Glla--LE~---~~i~d~f~~~~l~l~vdg~-~~~~i~~~l~~~ 128 (254)
T PRK08990 65 AFMFKIDKPEDLIEQIVEMADAARKGGFLA--LEE---AEISNSFMQKGVDLLVDGH-DGDVVRAALEKD 128 (254)
T ss_pred hhcCCCCCHHHHHHHHHHHHHHHhhccHhh--hhc---cccchHHHHHHHHHHhcCC-CHHHHHHHHHHH
Confidence 355666778888888777788888888766 332 24556666666633 3343 455554444433
No 52
>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=23.19 E-value=1.9e+02 Score=23.97 Aligned_cols=60 Identities=18% Similarity=0.171 Sum_probs=41.6
Q ss_pred cCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC---Cc-eEEechhhHHHHHhhhHHHH
Q 016736 304 QGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI---GR-YYCVGLKRSNEIIGTTTEEM 372 (383)
Q Consensus 304 ~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~---~~-~~a~pl~~A~~~l~~~~~~~ 372 (383)
.|+.|..+|... .+.+ .=.|..++.+|++.|+|.+..+ .+ ..+.+-+++.+.+++.++++
T Consensus 41 ~~~~t~~eL~~~--------l~~~-~stvs~~i~~Le~kg~I~r~~~~~D~R~~~i~lT~~G~~~~~~~~~~~ 104 (109)
T TIGR01889 41 EGKLTLKEIIKE--------ILIK-QSALVKIIKKLSKKGYLSKERSEDDERKVIISINKEQRSKIESLISEI 104 (109)
T ss_pred CCcCcHHHHHHH--------HCCC-HHHHHHHHHHHHHCCCEeccCCcccCCeEEEEECHHHHHHHHHHHHHH
Confidence 356888877543 2332 3357899999999999997553 33 56666677777787777664
No 53
>COG1291 MotA Flagellar motor component [Cell motility and secretion]
Probab=23.13 E-value=6.7e+02 Score=24.98 Aligned_cols=17 Identities=29% Similarity=0.421 Sum_probs=11.9
Q ss_pred HHHHHHHHhhhhhcccc
Q 016736 211 VSAVVGLVAVITSAQLH 227 (383)
Q Consensus 211 v~~vvg~v~v~~~~~~~ 227 (383)
+.+++|++..++++.-+
T Consensus 160 vgaV~GlI~~l~~l~~p 176 (266)
T COG1291 160 VGAVMGLIHALGNLDDP 176 (266)
T ss_pred HHHHHHHHHHHHcCCCH
Confidence 45677777777777653
No 54
>PF10675 DUF2489: Protein of unknown function (DUF2489); InterPro: IPR019617 This entry represents bacterial uncharacterised proteins.
Probab=22.99 E-value=1.7e+02 Score=25.88 Aligned_cols=63 Identities=11% Similarity=0.193 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHHHHHH--HHHHHHHHHh
Q 016736 239 STVIGYCAKTYFTFQQNMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVK--EVIISFFILM 302 (383)
Q Consensus 239 s~l~g~~~r~~~~~~~~~~ry~~~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~K--EaiLaY~~Ll 302 (383)
.++++|+++.+...++++...+. -...-..+..++=...+..++.++.+++|- |..+=-..|+
T Consensus 2 ~~La~YA~~Ll~~l~~q~~~~~~-~~~~~~~~r~~~i~eSI~iIA~Am~~~qc~lsEg~iRi~~Ll 66 (131)
T PF10675_consen 2 VALAGYAGYLLLKLKKQKEEQQQ-QQAQAIQERRARILESIRIIAKAMLQEQCDLSEGAIRIKVLL 66 (131)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHcCCccHHHHHHHHHHHH
Confidence 34677888888877776644332 222223334444445666666677666653 4444444444
No 55
>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=22.95 E-value=1.7e+02 Score=22.47 Aligned_cols=48 Identities=21% Similarity=0.259 Sum_probs=38.4
Q ss_pred hcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCC
Q 016736 303 EQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIG 351 (383)
Q Consensus 303 ~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~ 351 (383)
+.+.++.++|-.+|...+...|.++. -++..+++.|..-|.+.+|+++
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 44559999999999999988787664 4799999999999999998753
No 56
>PRK08452 flagellar protein FlaG; Provisional
Probab=22.93 E-value=84 Score=27.69 Aligned_cols=61 Identities=13% Similarity=0.170 Sum_probs=43.2
Q ss_pred HHHHHHH---HHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEechhhHHHHHhhhHHH
Q 016736 309 RQDLDLR---CEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGLKRSNEIIGTTTEE 371 (383)
Q Consensus 309 ~~~Ld~~---~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl~~A~~~l~~~~~~ 371 (383)
.++|... +..+|. ..+..+.|.+++-+..+ =-..+..+++..+.=+|+++++++....++.
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 1234555666788999999999999988774
No 57
>PLN00134 fumarate hydratase; Provisional
Probab=22.82 E-value=3.9e+02 Score=28.37 Aligned_cols=25 Identities=24% Similarity=0.464 Sum_probs=15.4
Q ss_pred cccCCCCCCCChhhHHHHHHHHHHHHH
Q 016736 192 VLPEKKNPGLTPLDWVKFLVSAVVGLV 218 (383)
Q Consensus 192 llP~~K~~~~~~~d~~~l~v~~vvg~v 218 (383)
++|+|+||. ....++-....+.|..
T Consensus 312 iMP~KrNPv--~~E~i~~~a~~v~g~~ 336 (458)
T PLN00134 312 IMPGKVNPT--QCEALTMVCAQVMGNH 336 (458)
T ss_pred CCCCCcCCH--HHHHHHHHHHHHHhHH
Confidence 689999973 3355555544555544
No 58
>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=22.81 E-value=1.5e+02 Score=25.91 Aligned_cols=36 Identities=19% Similarity=0.434 Sum_probs=27.4
Q ss_pred HHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 321 KEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 321 ~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
...|+.+++ +|.-||.-++++|||..+.+|.+...-
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 59
>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=22.70 E-value=1.3e+02 Score=28.02 Aligned_cols=37 Identities=24% Similarity=0.405 Sum_probs=28.8
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceE
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYY 354 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~-~~~~ 354 (383)
|+-|.++||+.-. -|-+||..|+..|+|.+..+ |.+.
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 4444
No 60
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=22.38 E-value=1.2e+02 Score=28.38 Aligned_cols=37 Identities=22% Similarity=0.325 Sum_probs=29.0
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceE
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYY 354 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~-~~~~ 354 (383)
|+-|.++||+. ..-|-+||+.|.+.|+|.+..+ |.+.
T Consensus 27 E~eLa~~~gVS-R~TVR~Al~~L~~eGli~r~~G~GTfV 64 (233)
T TIGR02404 27 EHELMDQYGAS-RETVRKALNLLTEAGYIQKIQGKGSIV 64 (233)
T ss_pred HHHHHHHHCCC-HHHHHHHHHHHHHCCCEEEeCCceEEE
Confidence 45566788886 4579999999999999988764 5554
No 61
>PLN02975 complex I subunit
Probab=22.30 E-value=1.7e+02 Score=24.84 Aligned_cols=21 Identities=19% Similarity=0.401 Sum_probs=16.0
Q ss_pred CCChhhHHHHHHHHHHHHHhh
Q 016736 200 GLTPLDWVKFLVSAVVGLVAV 220 (383)
Q Consensus 200 ~~~~~d~~~l~v~~vvg~v~v 220 (383)
.+++.|+......+++|....
T Consensus 25 yfr~sDY~~~a~~ta~s~~~~ 45 (97)
T PLN02975 25 NFSALDYLRFATITGVSVTVG 45 (97)
T ss_pred hCCHHHHHHHHHHHHHHHHHH
Confidence 679999999887777665443
No 62
>COG2165 PulG Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=22.23 E-value=2.5e+02 Score=23.15 Aligned_cols=30 Identities=13% Similarity=0.116 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 016736 231 LWVGMAILSTVIGYCAKTYFTFQQNMAAYQ 260 (383)
Q Consensus 231 ~~~~~a~ls~l~g~~~r~~~~~~~~~~ry~ 260 (383)
+++++++++++.+.+.-.+.++.++..+.+
T Consensus 15 lLVvl~Iigil~~~~~p~~~~~~~~~~~~~ 44 (149)
T COG2165 15 LLVVLAIIGILAALALPSLQGSIDKAKRLE 44 (149)
T ss_pred HHHHHHHHHHHHHHHHhhhhhHHHHHHHHH
Confidence 455666667766676667776666553433
No 63
>PRK03837 transcriptional regulator NanR; Provisional
Probab=21.87 E-value=1.3e+02 Score=27.90 Aligned_cols=38 Identities=21% Similarity=0.215 Sum_probs=28.7
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEech
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVGL 358 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~pl 358 (383)
|.++||++-. .|-+||..|+..|||+..++....+.++
T Consensus 43 Lae~~gVSRt-~VREAL~~L~~eGlv~~~~~~G~~V~~~ 80 (241)
T PRK03837 43 LMAFFGVGRP-AVREALQALKRKGLVQISHGERARVSRP 80 (241)
T ss_pred HHHHhCCCHH-HHHHHHHHHHHCCCEEEecCCceeEecC
Confidence 4567787754 7999999999999998876644555554
No 64
>PHA02888 hypothetical protein; Provisional
Probab=21.84 E-value=92 Score=25.59 Aligned_cols=28 Identities=25% Similarity=0.253 Sum_probs=24.2
Q ss_pred CCCHHHHHHHHHHHHHHHhCCcceecHHH
Q 016736 306 KATRQDLDLRCEELIKEEFGESCNFDVDD 334 (383)
Q Consensus 306 ~~T~~~Ld~~~E~~l~~~f~~~vdFdv~d 334 (383)
++|++||. -+..||.++-+.=++|++|=
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 65
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=21.67 E-value=1.2e+02 Score=22.52 Aligned_cols=33 Identities=27% Similarity=0.435 Sum_probs=24.6
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCce
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRY 353 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~ 353 (383)
|.++||+.-. .|.+|+..|+..|+|...+...+
T Consensus 30 la~~~~vsr~-tvr~al~~L~~~g~i~~~~~~G~ 62 (64)
T PF00392_consen 30 LAERYGVSRT-TVREALRRLEAEGLIERRPGRGT 62 (64)
T ss_dssp HHHHHTS-HH-HHHHHHHHHHHTTSEEEETTTEE
T ss_pred HHHHhccCCc-HHHHHHHHHHHCCcEEEECCceE
Confidence 4456777654 68899999999999988765443
No 66
>TIGR03337 phnR transcriptional regulator protein. 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 Salmonella, Vibrio Aeromonas hydrophila, Hahella chejuensis and Psychromonas ingrahamii.
Probab=21.54 E-value=1.4e+02 Score=27.62 Aligned_cols=33 Identities=24% Similarity=0.476 Sum_probs=29.3
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI 350 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~ 350 (383)
|+-|.++||+. ..-|-.||..|...|++.+...
T Consensus 28 E~eLa~~~~Vs-r~Tvr~Al~~L~~eGli~~~~g 60 (231)
T TIGR03337 28 ERDLGERFNTT-RVTIREALQQLEAEGLIYREDR 60 (231)
T ss_pred HHHHHHHHCCC-HHHHHHHHHHHHHCCeEEEeCC
Confidence 77788899998 8999999999999999988654
No 67
>PF00924 MS_channel: Mechanosensitive ion channel; InterPro: IPR006685 Mechanosensitive (MS) channels provide protection against hypo-osmotic shock, responding both to stretching of the cell membrane and to membrane depolarisation. They are present in the membranes of organisms from the three domains of life: bacteria, archaea, and eukarya []. There are two families of MS channels: large-conductance MS channels (MscL) and small-conductance MS channels (MscS or YGGB). The pressure threshold for MscS opening is 50% that of MscL []. The MscS family is much larger and more variable in size and sequence than the MscL family. Much of the diversity in MscS proteins occurs in the size of the transmembrane regions, which ranges from three to eleven transmembrane helices, although the three C-terminal helices are conserved. This family contains sequences form the MscS family of proteins. MscS folds as a homo-heptamer with a cylindrical shape, and can be divided into transmembrane and extramembrane regions: an N-terminal periplasmic region, a transmembrane region, and a C-terminal cytoplasmic region (middle and C-terminal domains). The transmembrane region forms a channel through the membrane that opens into a chamber enclosed by the extramembrane portion, the latter connecting to the cytoplasm through distinct portals [].; GO: 0055085 transmembrane transport, 0016020 membrane; PDB: 2OAU_E 2VV5_F.
Probab=21.50 E-value=1.7e+02 Score=26.50 Aligned_cols=38 Identities=16% Similarity=0.427 Sum_probs=19.8
Q ss_pred HHHHHHhhhhhcccchhhHHHHHHHHHHHHHHHHHHHH
Q 016736 213 AVVGLVAVITSAQLHEIDLWVGMAILSTVIGYCAKTYF 250 (383)
Q Consensus 213 ~vvg~v~v~~~~~~~~~~~~~~~a~ls~l~g~~~r~~~ 250 (383)
.+++++.++..+..+...+..+.+++++.+|++++-+.
T Consensus 9 ~~~~~~~~l~~~g~~~~~l~~~~g~~~~~i~f~~~~~~ 46 (206)
T PF00924_consen 9 IIVGILIILSILGIDVSSLLASLGVLGLAIGFAFQDII 46 (206)
T ss_dssp HHHHHHHHHHCCT--SCCHHHHHHHHHHHHHHHHCHHH
T ss_pred HHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444555544444466666666777777665443
No 68
>PRK08456 flagellar motor protein MotA; Validated
Probab=21.38 E-value=4.5e+02 Score=25.60 Aligned_cols=54 Identities=13% Similarity=0.168 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcCChhHHHHHHhHHHHHHHHHHHHHHHH-HhhcCCCCHHHHHHHHHH
Q 016736 262 MITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFI-LMEQGKATRQDLDLRCEE 318 (383)
Q Consensus 262 ~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KEaiLaY~~-Ll~~g~~T~~~Ld~~~E~ 318 (383)
.+-+.+|+-.-.....=+..|+++. ++....++..++ +...|. +++++++..|+
T Consensus 76 ~li~~l~~l~~~~r~~g~laLe~~~--~~~~~~fl~~gL~~~~~g~-~~~~i~~~le~ 130 (257)
T PRK08456 76 ERIKQLVELATLARKDGVLALEGRV--AQIEDEFLKNGLSMLVDGK-DLEEIKESMEI 130 (257)
T ss_pred HHHHHHHHHHHHhhhhhHHHHhhcc--cCcHHHHHHHHHHHhhcCC-CHHHHHHHHHH
Confidence 3334455555444444455666554 333345555554 333343 55555555443
No 69
>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=21.24 E-value=5.4e+02 Score=22.25 Aligned_cols=48 Identities=19% Similarity=0.240 Sum_probs=33.8
Q ss_pred HHhhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc
Q 016736 300 ILMEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR 352 (383)
Q Consensus 300 ~Ll~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~ 352 (383)
+||..|+.|..++-+.+.. ..|..-. -|-.-|.+|.+-|+|.+...|+
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
No 70
>PRK08456 flagellar motor protein MotA; Validated
Probab=21.20 E-value=7.7e+02 Score=23.98 Aligned_cols=31 Identities=3% Similarity=-0.070 Sum_probs=18.8
Q ss_pred HHHHHHHHhhcCChhHHHHHHhHHHHHHHHH
Q 016736 263 ITQSMYDKQLDSGKGTLLHLCDDVIQQEVKE 293 (383)
Q Consensus 263 l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KE 293 (383)
..+..+.+...+...++..+.+-++.-+.++
T Consensus 62 ~~~~~f~~~~~~~~~li~~l~~l~~~~r~~g 92 (257)
T PRK08456 62 ELKIVFKNPGVNLNERIKQLVELATLARKDG 92 (257)
T ss_pred HHHHHhccCCCCHHHHHHHHHHHHHHhhhhh
Confidence 3344455556666677777777766665554
No 71
>PRK12482 flagellar motor protein MotA; Provisional
Probab=20.95 E-value=5.9e+02 Score=25.52 Aligned_cols=43 Identities=9% Similarity=0.074 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCChhHHHHHHhHHHHHHHHHHHHHH
Q 016736 255 NMAAYQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISF 298 (383)
Q Consensus 255 ~~~ry~~~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KEaiLaY 298 (383)
+..+|...+......-+.+...| +..|=++.++-+--+.+..|
T Consensus 71 ~~~~y~~~i~~lv~ls~~aRr~G-llaLE~~i~~~~d~p~f~~~ 113 (287)
T PRK12482 71 GVEFQRQLLLLLYELLEMVQEGG-LKRLDQHIEIPEESSLFQKY 113 (287)
T ss_pred ChhhHHHHHHHHHHHHHHHHhcC-HHHHHHhhcCcccCHHHHhC
Confidence 34567777777777777777777 44455444333312455555
No 72
>TIGR02018 his_ut_repres histidine utilization repressor, proteobacterial. This model represents a proteobacterial histidine utilization repressor. It is usually found clustered with the enzymes HutUHIG so that it can regulate its own expression as well. A number of species have several paralogs and may fine-tune the regulation according to levels of degradation intermediates such as urocanate. This family belongs to the larger GntR family of transcriptional regulators.
Probab=20.85 E-value=1.8e+02 Score=27.10 Aligned_cols=56 Identities=21% Similarity=0.348 Sum_probs=35.4
Q ss_pred HHHHHHHhCCcceecHHHHHHHHHHcCeeeecCC-CceEEec-hhhHHHHHhhhHHHHH
Q 016736 317 EELIKEEFGESCNFDVDDAVHKLEKLGIVARDTI-GRYYCVG-LKRSNEIIGTTTEEMV 373 (383)
Q Consensus 317 E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~-~~~~a~p-l~~A~~~l~~~~~~~~ 373 (383)
|+-|.++||+. ..-|-.||..|++.|+|.+..+ |.+.+-+ .......+...++++.
T Consensus 28 E~eLa~~~~VS-R~TVR~Al~~L~~eGli~r~~G~GtfV~~~~~~~~~~~~~~~~~~~~ 85 (230)
T TIGR02018 28 EHELVAQYGCS-RMTVNRALRELTDAGLLERRQGVGTFVAEPKAQSALLEIRNIADEIV 85 (230)
T ss_pred HHHHHHHHCCC-HHHHHHHHHHHHHCCCEEEecCCEEEEccCcccchhhcchhHHHHHH
Confidence 34455778876 4579999999999999988765 4443322 2223333444555544
No 73
>PRK08124 flagellar motor protein MotA; Validated
Probab=20.82 E-value=7.9e+02 Score=24.00 Aligned_cols=59 Identities=17% Similarity=0.214 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHhhcCChhHHHHHHhHHHHHHHHHHHHHHHH-HhhcCCCCHHHHHHHHHHHHH
Q 016736 259 YQNMITQSMYDKQLDSGKGTLLHLCDDVIQQEVKEVIISFFI-LMEQGKATRQDLDLRCEELIK 321 (383)
Q Consensus 259 y~~~l~~~LY~K~l~sn~Gvl~~L~d~aeeQe~KEaiLaY~~-Ll~~g~~T~~~Ld~~~E~~l~ 321 (383)
|...+ +.+|+-.-.....=+..|+++.+ +..+..+.-.+ +...|. +++++++..|+-+.
T Consensus 75 ~~~~i-~~l~~l~~~~r~~g~laLe~~~~--~~~~~fl~~gl~~~v~g~-~~~~i~~~le~~i~ 134 (263)
T PRK08124 75 KEELI-EQFVEWASESRREGLLALEAQLD--EIDDPFLKRGLKMVIDGQ-SPEFIRDVLEEEIE 134 (263)
T ss_pred HHHHH-HHHHHHHHHhchhhHHHHHHhhc--CchhHHHHHHHHHHhcCC-CHHHHHHHHHHHHH
Confidence 44444 33444433333333446665543 23455665555 333344 66666666555444
No 74
>TIGR02812 fadR_gamma fatty acid metabolism transcriptional regulator FadR. Members of this family are FadR, a transcriptional regulator of fatty acid metabolism, including both biosynthesis and beta-oxidation. It is found exclusively in a subset of Gammaproteobacteria, with strictly one copy per genome. It has an N-terminal DNA-binding domain and a less well conserved C-terminal long chain acyl-CoA-binding domain. FadR from this family heterologously expressed in Escherichia coli show differences in regulatory response and fatty acid binding profiles. The family is nevertheless designated equivalog, as all member proteins have at least nominally the same function.
Probab=20.77 E-value=1.4e+02 Score=27.89 Aligned_cols=37 Identities=11% Similarity=0.137 Sum_probs=28.3
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCeeeecCCCceEEec
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYCVG 357 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a~p 357 (383)
|.++||++=. .|-+||..|+..|||+..++....+.+
T Consensus 36 La~~lgVSRt-pVREAL~~Le~eGlV~~~~~~G~~V~~ 72 (235)
T TIGR02812 36 LSELIGVTRT-TLREVLQRLARDGWLTIQHGKPTKVNN 72 (235)
T ss_pred HHHHHCcCHH-HHHHHHHHHHHCCCEEEeCCCccEecC
Confidence 4467887743 899999999999999887765555554
No 75
>PF09581 Spore_III_AF: Stage III sporulation protein AF (Spore_III_AF); InterPro: IPR014245 This family represents the stage III sporulation protein AF (SpoIIIAF) of the bacterial endospore formation program, which exists in some but not all members of the Firmicutes (formerly called low-GC Gram-positives). The C-terminal region of these proteins is poorly conserved.
Probab=20.69 E-value=3.3e+02 Score=24.55 Aligned_cols=19 Identities=16% Similarity=0.546 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHHhCCc
Q 016736 309 RQDLDLRCEELIKEEFGES 327 (383)
Q Consensus 309 ~~~Ld~~~E~~l~~~f~~~ 327 (383)
.+.|..+|++-+.+.+|..
T Consensus 85 ~~~l~~~i~~~l~~~~g~~ 103 (188)
T PF09581_consen 85 EEQLEKQIKALLEDKYGVE 103 (188)
T ss_pred HHHHHHHHHHHHhhhcCCc
Confidence 6678888998888888844
No 76
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=20.68 E-value=1.3e+02 Score=20.37 Aligned_cols=32 Identities=31% Similarity=0.497 Sum_probs=22.4
Q ss_pred HHhCCcceecHHHHHHHHHHcCeeeecCCCceEE
Q 016736 322 EEFGESCNFDVDDAVHKLEKLGIVARDTIGRYYC 355 (383)
Q Consensus 322 ~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~~~a 355 (383)
+.+|... =.+.+++.+|++.|++..+. |.|.+
T Consensus 16 ~~l~~s~-~tv~~~l~~L~~~g~l~~~~-~~~~i 47 (48)
T smart00419 16 ELLGLTR-ETVSRTLKRLEKEGLISREG-GRIVI 47 (48)
T ss_pred HHHCCCH-HHHHHHHHHHHHCCCEEEeC-CEEEE
Confidence 3445442 34789999999999998764 65543
No 77
>PF13730 HTH_36: Helix-turn-helix domain
Probab=20.63 E-value=89 Score=22.36 Aligned_cols=25 Identities=28% Similarity=0.571 Sum_probs=20.2
Q ss_pred HHHHhCCcceecHHHHHHHHHHcCee
Q 016736 320 IKEEFGESCNFDVDDAVHKLEKLGIV 345 (383)
Q Consensus 320 l~~~f~~~vdFdv~dAl~kL~~lgLv 345 (383)
|.+..|+. .=.|.+|+..|++.|++
T Consensus 31 la~~~g~s-~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 31 LAKDLGVS-RRTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHCcC-HHHHHHHHHHHHHCcCC
Confidence 33445888 77899999999999975
No 78
>PF12840 HTH_20: Helix-turn-helix domain; PDB: 1ULY_A 2CWE_A 1Y0U_B 2QUF_B 2QLZ_C 2OQG_B 2ZKZ_C 3PQK_A 3PQJ_D 3F6O_B ....
Probab=20.39 E-value=1.7e+02 Score=21.59 Aligned_cols=42 Identities=29% Similarity=0.385 Sum_probs=30.7
Q ss_pred hhcCCCCHHHHHHHHHHHHHHHhCCcceecHHHHHHHHHHcCeeeecCCCc
Q 016736 302 MEQGKATRQDLDLRCEELIKEEFGESCNFDVDDAVHKLEKLGIVARDTIGR 352 (383)
Q Consensus 302 l~~g~~T~~~Ld~~~E~~l~~~f~~~vdFdv~dAl~kL~~lgLv~~~~~~~ 352 (383)
...+++|..+|.+.+ |+... .+..-|.+|++.|||+....|+
T Consensus 20 ~~~~~~t~~ela~~l--------~~~~~-t~s~hL~~L~~aGli~~~~~gr 61 (61)
T PF12840_consen 20 ASNGPMTVSELAEEL--------GISQS-TVSYHLKKLEEAGLIEVEREGR 61 (61)
T ss_dssp HHCSTBEHHHHHHHH--------TS-HH-HHHHHHHHHHHTTSEEEEEETT
T ss_pred hcCCCCCHHHHHHHH--------CCCHH-HHHHHHHHHHHCCCeEEeccCC
Confidence 467889999987766 33333 2677899999999998876553
Done!