Query 037228
Match_columns 171
No_of_seqs 157 out of 1155
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 10:02:25 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037228.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/037228hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07107 WI12: Wound-induced p 99.8 4.8E-21 1E-25 137.0 6.8 96 75-171 12-109 (109)
2 COG3631 Ketosteroid isomerase- 99.8 8.1E-18 1.8E-22 125.8 13.9 115 17-134 3-133 (133)
3 TIGR02096 conserved hypothetic 99.7 3.7E-17 8.1E-22 119.2 13.3 108 22-132 2-129 (129)
4 PF07858 LEH: Limonene-1,2-epo 99.7 5.1E-16 1.1E-20 114.8 15.2 110 19-131 2-123 (125)
5 PRK08241 RNA polymerase factor 99.7 3.2E-16 6.9E-21 132.6 15.1 120 14-137 210-337 (339)
6 PF07366 SnoaL: SnoaL-like pol 99.6 3.9E-15 8.5E-20 108.7 11.3 106 23-131 2-126 (126)
7 cd00781 ketosteroid_isomerase 99.6 3.3E-15 7.2E-20 108.1 9.1 108 17-127 2-120 (122)
8 TIGR02960 SigX5 RNA polymerase 99.6 1.8E-14 4E-19 120.9 14.7 116 15-133 201-324 (324)
9 PF12680 SnoaL_2: SnoaL-like d 99.6 1.7E-14 3.7E-19 99.2 10.2 92 24-118 1-102 (102)
10 COG4308 LimA Limonene-1,2-epox 99.4 3.4E-12 7.4E-17 92.5 9.9 115 14-131 2-126 (130)
11 PRK09636 RNA polymerase sigma 99.3 5.5E-11 1.2E-15 99.1 14.6 111 14-128 167-287 (293)
12 TIGR02957 SigX4 RNA polymerase 99.1 1.7E-09 3.8E-14 89.7 13.1 108 15-128 161-278 (281)
13 COG4922 Uncharacterized protei 99.1 4.8E-10 1E-14 80.9 8.2 105 16-123 3-114 (129)
14 COG5485 Predicted ester cyclas 99.1 1.9E-09 4.2E-14 78.6 9.6 107 22-132 10-131 (131)
15 PRK09635 sigI RNA polymerase s 98.8 1.1E-07 2.4E-12 79.5 11.7 106 15-128 171-281 (290)
16 PF03284 PHZA_PHZB: Phenazine 98.7 1.1E-07 2.5E-12 71.3 8.6 112 17-135 17-152 (162)
17 PF14534 DUF4440: Domain of un 98.5 3E-06 6.5E-11 58.5 10.4 91 21-114 2-104 (107)
18 COG4538 Uncharacterized conser 98.4 8.1E-06 1.7E-10 57.5 11.3 98 19-120 4-109 (112)
19 PF13474 SnoaL_3: SnoaL-like d 98.4 9.3E-06 2E-10 57.6 12.0 98 21-119 2-115 (121)
20 TIGR02246 conserved hypothetic 98.4 9.1E-06 2E-10 58.4 11.9 80 17-96 3-86 (128)
21 cd00531 NTF2_like Nuclear tran 97.9 0.0012 2.7E-08 45.6 13.5 101 21-123 2-124 (124)
22 COG4319 Ketosteroid isomerase 97.9 0.00052 1.1E-08 51.4 11.9 76 19-96 11-91 (137)
23 PF12893 Lumazine_bd_2: Putati 97.8 0.00034 7.4E-09 50.3 9.5 101 17-117 3-112 (116)
24 PF13577 SnoaL_4: SnoaL-like d 97.1 0.01 2.2E-07 42.2 10.6 50 18-67 7-61 (127)
25 PF08332 CaMKII_AD: Calcium/ca 96.7 0.1 2.2E-06 38.8 13.0 100 18-119 3-123 (128)
26 PF10184 DUF2358: Uncharacteri 95.9 0.2 4.3E-06 36.1 10.4 79 33-118 16-113 (113)
27 PF07080 DUF1348: Protein of u 95.6 0.15 3.2E-06 38.2 8.7 105 17-124 9-123 (143)
28 PF11533 DUF3225: Protein of u 95.3 0.45 9.8E-06 35.2 10.5 94 20-118 12-118 (125)
29 PF12870 Lumazine_bd: Lumazine 94.2 0.06 1.3E-06 37.3 3.5 32 17-48 6-37 (111)
30 PF02136 NTF2: Nuclear transpo 92.1 1.6 3.4E-05 30.7 8.2 49 21-69 3-55 (118)
31 PRK10069 3-phenylpropionate di 90.9 6.3 0.00014 30.6 12.3 32 21-52 23-54 (183)
32 cd00667 ring_hydroxylating_dio 89.6 0.49 1.1E-05 35.6 3.8 34 20-53 6-39 (160)
33 cd00780 NTF2 Nuclear transport 87.0 8.9 0.00019 27.2 10.7 48 20-68 6-56 (119)
34 TIGR03231 anthran_1_2_B anthra 85.2 1.3 2.8E-05 33.8 3.8 31 23-53 4-34 (155)
35 TIGR03232 benzo_1_2_benB benzo 80.1 1.7 3.7E-05 33.1 2.7 23 31-53 12-34 (155)
36 PF05223 MecA_N: NTF2-like N-t 79.6 2.2 4.8E-05 30.6 3.1 101 19-132 2-115 (118)
37 PF00866 Ring_hydroxyl_B: Ring 73.1 2.7 5.9E-05 31.4 2.1 24 30-53 5-28 (145)
38 PLN02382 probable sucrose-phos 68.9 74 0.0016 28.0 10.5 76 20-96 284-373 (413)
39 COG4875 Uncharacterized protei 67.3 50 0.0011 24.7 9.7 32 19-50 34-69 (156)
40 PF11006 DUF2845: Protein of u 66.8 12 0.00026 25.5 4.1 19 102-120 67-85 (87)
41 COG4395 Uncharacterized protei 59.5 14 0.00029 31.1 3.8 25 23-47 159-183 (281)
42 COG5517 Small subunit of pheny 54.1 14 0.00031 28.4 2.9 24 30-53 20-43 (164)
43 COG4460 Uncharacterized protei 51.5 65 0.0014 23.6 5.7 68 26-96 18-90 (130)
44 PF04280 Tim44: Tim44-like dom 43.1 13 0.00027 27.3 1.1 28 20-47 24-51 (147)
45 PF11453 DUF2950: Protein of u 41.8 44 0.00095 28.0 4.1 49 19-67 6-55 (271)
46 KOG4353 RNA export factor NXT1 40.7 1.1E+02 0.0024 22.8 5.7 58 10-68 6-65 (139)
47 TIGR03721 exospore_TM BclB C-t 39.1 14 0.00031 28.5 0.8 41 108-148 53-97 (165)
48 COG5439 Uncharacterized conser 36.7 15 0.00032 26.1 0.5 26 145-170 83-110 (112)
49 PF10437 Lip_prot_lig_C: Bacte 36.5 1.3E+02 0.0028 20.0 6.0 18 107-124 21-38 (86)
50 PF06594 HCBP_related: Haemoly 35.9 90 0.002 18.1 4.2 33 84-116 6-38 (43)
51 PF11058 Ral: Antirestriction 31.1 11 0.00023 23.9 -0.8 25 109-133 36-60 (66)
52 PF10055 DUF2292: Uncharacteri 29.8 77 0.0017 18.5 2.7 13 107-119 19-31 (38)
53 COG0268 RpsT Ribosomal protein 28.3 76 0.0016 22.0 3.0 25 21-45 29-53 (88)
54 TIGR00984 3a0801s03tim44 mitoc 28.1 38 0.00081 29.7 1.7 25 23-47 254-278 (378)
55 PF02607 B12-binding_2: B12 bi 24.7 53 0.0012 21.2 1.7 25 22-46 3-27 (79)
56 PF08265 YL1_C: YL1 nuclear pr 23.2 44 0.00095 18.4 0.8 18 151-169 2-21 (30)
57 COG1433 Uncharacterized conser 22.8 1.5E+02 0.0033 21.7 3.9 24 101-124 22-45 (121)
58 PF14759 Reductase_C: Reductas 21.7 2.5E+02 0.0055 18.6 7.0 51 76-129 8-58 (85)
No 1
>PF07107 WI12: Wound-induced protein WI12; InterPro: IPR009798 This entry consists of several plant wound-induced protein sequences related to WI12 from Mesembryanthemum crystallinum (Common ice plant) (Q9XES3 from SWISSPROT). Wounding, methyl jasmonate, and pathogen infection is known to induce local WI12 expression. WI12 expression is also thought to be developmentally controlled in the placenta and developing seeds. WI12 preferentially accumulates in the cell wall and it has been suggested that it plays a role in the reinforcement of cell wall composition after wounding and during plant development [].
Probab=99.84 E-value=4.8e-21 Score=136.99 Aligned_cols=96 Identities=60% Similarity=0.922 Sum_probs=80.8
Q ss_pred ceeEEEEeEEEEeCCEEEEEEEeCceeeeEEEEEEEeCCeEEEEEEecChHHHHHHhCCCCCCCCCCCCccCCCCCceee
Q 037228 75 RCFTFVPLSTVAFGPTVIVEGHSKEHSVSWVHAWTVTDGIITQVREYFNTSVTVTRFGDPQLLSSPVAPVTVSSSCQSVW 154 (171)
Q Consensus 75 ~~~~~~~~~via~Gd~Vvveg~~~g~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg~p~~~~~~~~~~~~~~~~~~~~ 154 (171)
..|+|.|.++.+-|+.|++||...+....|||+|+++||+|+++||||||.....-++....=.+ -+.--.++-|+|||
T Consensus 12 ~sF~F~P~sV~afG~~ViaEG~~~~~~~yWVHaWTV~dGiITqlREYFNT~ltVt~l~~~~~~~~-~~~~~~~~~~~~vW 90 (109)
T PF07107_consen 12 SSFRFVPRSVDAFGSTVIAEGCDETRSVYWVHAWTVKDGIITQLREYFNTSLTVTRLGPGASGSS-SSDSAPSSHCPCVW 90 (109)
T ss_pred CcEEEeccEEEEECCEEEEecccCcCcEEEEEEEEecCCEEEeeeeeeeeEEEEEeccccCCccc-ccccccCCCCCcee
Confidence 47899999999999999999987788999999999999999999999999999888885222111 11122238899999
Q ss_pred eeecCC--CCCccceeeeC
Q 037228 155 QSKLCD--NNSVPGLVLAL 171 (171)
Q Consensus 155 ~~~~~~--~~~~~~~~~~~ 171 (171)
|++++| ++|+|||+||+
T Consensus 91 qS~~~d~~~~SlPGLVLAI 109 (109)
T PF07107_consen 91 QSRLPDRAGKSLPGLVLAI 109 (109)
T ss_pred cccccccccCCcCCEEEeC
Confidence 999988 89999999996
No 2
>COG3631 Ketosteroid isomerase-related protein [General function prediction only]
Probab=99.78 E-value=8.1e-18 Score=125.79 Aligned_cols=115 Identities=22% Similarity=0.251 Sum_probs=91.5
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC--------cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeC
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP--------GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFG 88 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~--------G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~G 88 (171)
.++|+++|+++|+++.+||.+.+.+||+||++|+.|+.+ |.+.....+....+. ....++++..++.+|
T Consensus 3 ~~~~~~~v~~~f~a~~~GD~~~~~~l~a~D~v~~~p~~~~~~~~~~~g~~~~~~~~~~~~r~---~~~~~~~~~~~~~~g 79 (133)
T COG3631 3 EMDNTDLVRRYFAALSRGDLDGLLALLAEDVVWEVPGTPPLSGTFRGGVAIRRDVFALLPRL---IEDGRFTVETVYVSG 79 (133)
T ss_pred cchhhhHHHHHHHHHhcCCHHHHHhhccCceEEEeeCCCCCccccccchhhhhHHhhhChhh---cccccccceEEEEcC
Confidence 788999999999999999999999999999999999832 233334444333321 234578889999999
Q ss_pred CEEEEEEEeCc--------eeeeEEEEEEEeCCeEEEEEEecChHHHHHHhCCC
Q 037228 89 PTVIVEGHSKE--------HSVSWVHAWTVTDGIITQVREYFNTSVTVTRFGDP 134 (171)
Q Consensus 89 d~Vvveg~~~g--------~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg~p 134 (171)
|.+++.+...+ ....++++++++||||++.++|+|+..+.+++|.+
T Consensus 80 D~~~~v~~~~~~~~~~G~~~~~~~~~v~~vrdGrI~~~~~y~D~~~~~~a~~~~ 133 (133)
T COG3631 80 DPVGAVFRTRGRVSRTGKPYENRYAFVIRVRDGRITRYREYVDTLALAEALGGS 133 (133)
T ss_pred CceEEEEEecCcccccCceeecceEEEEEEeCCEEEEEEEEechHhHHHHhcCC
Confidence 98875554432 27777899999999999999999999999999853
No 3
>TIGR02096 conserved hypothetical protein, steroid delta-isomerase-related. This family of proteins about 135 amino acids in length largely restricted to the Proteobacteria. This family and a delta5-3-ketosteroid isomerase from Pseudomonas testosteroni appear homologous, especially toward their respective N-termini. Members, therefore, probably are enzymes.
Probab=99.75 E-value=3.7e-17 Score=119.18 Aligned_cols=108 Identities=19% Similarity=0.194 Sum_probs=88.4
Q ss_pred HHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCC-EEEEEEE
Q 037228 22 RVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGP-TVIVEGH 96 (171)
Q Consensus 22 evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd-~Vvveg~ 96 (171)
+++++||++++++|++++.++++||++|+.|++. |++++.+++...... ..++++++..++.+++ .++++.+
T Consensus 2 ~iv~~~~~a~~~~d~~~~~~~~~~d~~~~~~~~~~~~~G~~~~~~~~~~~~~~---~~~~~~~i~~~~~~~~~~v~~~~~ 78 (129)
T TIGR02096 2 ELAQHWIEAFNRGDMDAVLALLAEDVLYDDNQGGRVLGGKAQLARFLAPYRTA---FPDLLVDVVVCRNDEGVRVAAEWT 78 (129)
T ss_pred HHHHHHHHHHHCCCHHHHHHhcCCCeEEEcCCCCcEeccHHHHHHHHHHHHHh---CchhhceeEEEEecCCcEEEEEEE
Confidence 6899999999999999999999999999988632 577777766655442 2356778887777665 8888876
Q ss_pred eCc-------------e--eeeEEEEEEEeCCeEEEEEEecChHHHHHHhC
Q 037228 97 SKE-------------H--SVSWVHAWTVTDGIITQVREYFNTSVTVTRFG 132 (171)
Q Consensus 97 ~~g-------------~--~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg 132 (171)
.+| . ...++++|+|+||||+++++|+|+..+.+|+|
T Consensus 79 ~~g~~~g~~~g~~~~g~~~~~~~~~~~~~~~gkI~~~~~y~D~~~~~~qlg 129 (129)
T TIGR02096 79 VHGTYRTAFLGLPASGKTYSIRGVTFFVFDDGKIKRETTYYNLATFLRQLG 129 (129)
T ss_pred EeeeeccccCCCCCCCCEEEeeeeEEEEEeCCEEEEEEEEecHHHHHHhhC
Confidence 432 1 67888999999999999999999999999987
No 4
>PF07858 LEH: Limonene-1,2-epoxide hydrolase catalytic domain; InterPro: IPR013100 Epoxide hydrolases catalyse the hydrolysis of epoxides to corresponding diols, which is important in detoxification, synthesis of signal molecules, or metabolism. Limonene-1,2- epoxide hydrolase (LEH) differs from many other epoxide hydrolases in its structure and its novel one-step catalytic mechanism. Its main fold consists of a six-stranded mixed beta-sheet, with three N-terminal alpha helices packed to one side to create a pocket that extends into the protein core. A fourth helix lies in such a way that it acts as a rim to this pocket. Although mainly lined by hydrophobic residues, this pocket features a cluster of polar groups that lie at its deepest point and constitute the enzymes active site []. ; PDB: 2BNG_C 1NWW_A 1NU3_B.
Probab=99.72 E-value=5.1e-16 Score=114.80 Aligned_cols=110 Identities=25% Similarity=0.315 Sum_probs=89.5
Q ss_pred hHHHHHHHHHHHHhcCCHHH-HHhhccCCeEEEecC-CC--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEE
Q 037228 19 YNIRVVKTLYDALNSFDVKT-VHRLLTSDLEWWFHG-PP--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVE 94 (171)
Q Consensus 19 ~n~evV~~~~~A~~~gD~da-~~~lla~Dvvw~~~g-p~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvve 94 (171)
+|.++|++|++||..+|+++ +..+++||++|+..| |. |++++.+++.++... ...+.+++.++.++|+.|..|
T Consensus 2 ~~~~vV~~F~~a~~~~D~~~a~~~~~~~d~vy~Nvplp~i~G~~~~~~~l~~~~~~---~~~~e~~i~~iaadg~~VltE 78 (125)
T PF07858_consen 2 TPEEVVRAFLAALEDRDVDAALASLFDDDAVYHNVPLPPIRGRDAIRAFLRGFLDS---LSGFEFDIHRIAADGDVVLTE 78 (125)
T ss_dssp HHHHHHHHHHHHHHHT-HHHHHHHCEECC-EEEETTTEEEESHHHHHHHHHCCHCC---CEEEEEEEEEEEEETTEEEEE
T ss_pred ChHHHHHHHHHHHHcCCHHHHHHHhcCCCcEEEeCCCCCcccHHHHHHHHHHHhcc---cceeEEEEEEEeecCCEEEEE
Confidence 68999999999999999875 567999999999988 43 999999998887432 357789999999999999998
Q ss_pred EEe-----Cc---eeeeEEEEEEEeCCeEEEEEEecChHHHHHHh
Q 037228 95 GHS-----KE---HSVSWVHAWTVTDGIITQVREYFNTSVTVTRF 131 (171)
Q Consensus 95 g~~-----~g---~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~l 131 (171)
-.. .| ...+.|-+|+++||||+.||+|||...+.+++
T Consensus 79 R~D~l~~~dG~~~~~~~V~GvfEv~dGkI~~WRDYFD~~~~~~a~ 123 (125)
T PF07858_consen 79 RTDVLRFADGPLRIQFPVCGVFEVRDGKITLWRDYFDLADFLKAT 123 (125)
T ss_dssp EEEEEEETTTTEEEEEEEEEEEEEETTEEEEEEEE--HHHHHHHH
T ss_pred eEeeeeeecCCeEEEEEEEEEEEEECCEEEEEeccCCHHHHHHHh
Confidence 652 24 27777789999999999999999999998876
No 5
>PRK08241 RNA polymerase factor sigma-70; Validated
Probab=99.71 E-value=3.2e-16 Score=132.60 Aligned_cols=120 Identities=23% Similarity=0.360 Sum_probs=95.1
Q ss_pred CCccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCC
Q 037228 14 DNEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGP 89 (171)
Q Consensus 14 ~~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd 89 (171)
....++++++|++||+||++||++++.++|+||++|+.|+.+ |++++..++.+...... ...+++ ...+++|+
T Consensus 210 ~~~~~~~~~~v~~~~~A~~~gD~~~l~~lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~~-~~~~~~--~~~~~~g~ 286 (339)
T PRK08241 210 EPDDPEERALLARYVAAFEAYDVDALVALLTEDATWSMPPFPLWYRGRDAIAAFLAGQCPGAG-CGGSRL--VPTRANGQ 286 (339)
T ss_pred CCCChHHHHHHHHHHHHHhcCCHHHHHHHhcCCEEEEcCCCCCcccCHHHHHHHHHhhccccC-CCceEE--EEeecCCC
Confidence 356688999999999999999999999999999999988632 88888888877532210 123344 44478899
Q ss_pred EEEEEEEeC--c--eeeeEEEEEEEeCCeEEEEEEecChHHHHHHhCCCCCC
Q 037228 90 TVIVEGHSK--E--HSVSWVHAWTVTDGIITQVREYFNTSVTVTRFGDPQLL 137 (171)
Q Consensus 90 ~Vvveg~~~--g--~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg~p~~~ 137 (171)
.|++++... | ....++++|+|+||||+++++|+|+ ...+++|.|.-|
T Consensus 287 ~v~~~~~~~~~g~~~~~~~v~v~~v~dGkI~~~~~y~d~-~~~~~~~~~~~~ 337 (339)
T PRK08241 287 PAFAQYMRDPDGGGHRPWALHVLELRGGRIAHVTSFLDT-TLFPRFGLPATL 337 (339)
T ss_pred eEEEEEEEcCCCCeeecceEEEEEEeCCEEEEEEEEcCh-hhhhhcCCCCCC
Confidence 998876542 3 3677899999999999999999999 667999988765
No 6
>PF07366 SnoaL: SnoaL-like polyketide cyclase; InterPro: IPR009959 This domain is found in SnoaL [] a polyketide cyclase involved in nogalamycin biosynthesis. This domain was formerly known as DUF1486. It adopts a distorted alpha-beta barrel fold []. Structural data together with site-directed mutagenesis experiments have shown that SnoaL has a different mechanism to that of the classical aldolase for catalysing intramolecular aldol condensation [].; PDB: 2GEY_C 3F9S_A 2GEX_A 3EHC_B 2F99_D 2F98_D 1SJW_A 3K0Z_B.
Probab=99.63 E-value=3.9e-15 Score=108.68 Aligned_cols=106 Identities=20% Similarity=0.293 Sum_probs=84.2
Q ss_pred HHHHHH-HHHhcCCHHHHHhhccCCeEEEecCCC---cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEEEEeC
Q 037228 23 VVKTLY-DALNSFDVKTVHRLLTSDLEWWFHGPP---GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVEGHSK 98 (171)
Q Consensus 23 vV~~~~-~A~~~gD~da~~~lla~Dvvw~~~gp~---G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvveg~~~ 98 (171)
+|.++| ++|+++|++.+.++++||++++.+++. |.+++..++...... +.++++++..++++||+|+++.+..
T Consensus 2 ~v~~~~~~~~n~~d~~~~~~~~~~d~~~~~~~~~~~~G~~~~~~~~~~~~~a---fPD~~~~i~~~~~~gd~v~~~~~~~ 78 (126)
T PF07366_consen 2 IVRRFYEEVWNRGDLDALDELVAPDVVFHDPGPGPPVGREGFKEFLKELRAA---FPDLRFEIEDVVAEGDRVAVRWTFT 78 (126)
T ss_dssp HHHHHHHHHHHTT-GCHHHGTEEEEEEEEGCTTTEEEHHHHHHHHHHHHHHH---STTTEEEEEEEEEETTEEEEEEEEE
T ss_pred HHHHHHHHHHhCCCHHHHHHhcCCCEEEEecCCCCCCCHHHHHHHHHHHHHH---CCCCEEEEEEEEEECCEEEEEEEEE
Confidence 455555 568999999999999999999988633 776666655444332 2467889999999999999987643
Q ss_pred c-------------e--eeeEEEEEEEeCCeEEEEEEecChHHHHHHh
Q 037228 99 E-------------H--SVSWVHAWTVTDGIITQVREYFNTSVTVTRF 131 (171)
Q Consensus 99 g-------------~--~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~l 131 (171)
| + ++..+.+|+|+||||++.|.|+|...+.+||
T Consensus 79 Gth~g~~~g~~ptgk~v~~~~~~~~~~~~gkI~e~~~~~D~~~~~~QL 126 (126)
T PF07366_consen 79 GTHTGEFMGIPPTGKPVEFRGMSIFRFEDGKIVEEWVYFDELSLLRQL 126 (126)
T ss_dssp EEESSEBTTBE-TTEEEEEEEEEEEEEETTEEEEEEEEECHHHHHHHT
T ss_pred EeecCCcCCcCCCCCEEEEEEEEEEEEECCEEEEEEEEECHHHHHhhC
Confidence 3 2 6777899999999999999999999999986
No 7
>cd00781 ketosteroid_isomerase ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon. Ketosteroid isomerases are important members of this class of enzymes which are the most proficient of all enzymes known and have served as a paradigm for enzymatic enolizations since its discovery in 1954. This CD includes members of this class that calalyze the isomerization of various beta,gamma-unsaturated isomers at nearly a diffusion-controlled rate. These enzymes are widely distributed in bacteria.
Probab=99.61 E-value=3.3e-15 Score=108.10 Aligned_cols=108 Identities=15% Similarity=0.138 Sum_probs=82.9
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecC-C-C--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHG-P-P--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVI 92 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~g-p-~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vv 92 (171)
.+++++++++|++++++||++++.++|+||++|+.|. + . |++++.+++...... ...+++........|+.++
T Consensus 2 ~~~~~~~v~~~~~a~~~~D~~~~~~l~aed~~~~~p~~~~~~~G~~~i~~~~~~~~~~---~~~~~~~~~~~~~~g~~~~ 78 (122)
T cd00781 2 PQEMKAAVQRYVEAVNAGDPEGIVALFADDATVEDPVGSPPRSGRAAIAAFYAQSLGG---AKRLELTGPVRASHGGEAA 78 (122)
T ss_pred cHHHHHHHHHHHHHHHCCCHHHHHHHcCCCeEEeCCCCCCCccCHHHHHHHHHHHhcc---CceEEecCceeeecCCEEE
Confidence 5678999999999999999999999999999998764 2 2 888888887765432 1234444445566788776
Q ss_pred EEEE----eCc--eeeeEEEEEEEe-CCeEEEEEEecChHHH
Q 037228 93 VEGH----SKE--HSVSWVHAWTVT-DGIITQVREYFNTSVT 127 (171)
Q Consensus 93 veg~----~~g--~~~~~v~vf~v~-DGkI~~~~~Y~Dt~~~ 127 (171)
++++ ..| ....++++|+|. ||||+++++|+|...+
T Consensus 79 ~~~~~~~~~~g~~~~~~~~~v~~~~~dGkI~~~~~y~d~~~~ 120 (122)
T cd00781 79 FAFRVEFEWEGQPCVVRVIDVMRFDADGRIVSMRAYWGPVNL 120 (122)
T ss_pred EEEEEEEEeCCceEEEEEEEEEEECCCccChHHHHhcCcccc
Confidence 6543 233 367788999995 7999999999998654
No 8
>TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family.
Probab=99.61 E-value=1.8e-14 Score=120.85 Aligned_cols=116 Identities=17% Similarity=0.303 Sum_probs=91.7
Q ss_pred CccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCE
Q 037228 15 NEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPT 90 (171)
Q Consensus 15 ~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~ 90 (171)
...+.+++++++||+|+++||++++.++|+||++|+.|+.. |++.+..++.+..+.. ...++++.+ ...+|+.
T Consensus 201 ~~~~~~~~~v~~~~~a~~~gD~~~l~~Lla~Dv~~~~p~~~~~~~G~~~v~~~~~~~~~~~-~~~~~~~~~--~~~~g~~ 277 (324)
T TIGR02960 201 PPSPEEQDLLERYIAAFESYDLDALTALLHEDAIWEMPPYTLWYQGRPAIVGFIHTVCPGE-GAAGMRLLP--TIANGQP 277 (324)
T ss_pred CCCHHHHHHHHHHHHHHHcCCHHHHHHHhcCCeEEEcCCCCcceeCHHHHHHHHHHhcccc-cCCceeEEE--eeecCCc
Confidence 35567899999999999999999999999999999988522 8888888887762111 123445544 5578888
Q ss_pred EEEEEEeCc----eeeeEEEEEEEeCCeEEEEEEecChHHHHHHhCC
Q 037228 91 VIVEGHSKE----HSVSWVHAWTVTDGIITQVREYFNTSVTVTRFGD 133 (171)
Q Consensus 91 Vvveg~~~g----~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg~ 133 (171)
+++.+...+ ....+|++|+|+||||++++.|+|+..+..+||.
T Consensus 278 ~~v~~~~~~~~~~~~~~~v~~~~~~dGkI~~~~~~~~~~~~~~~~~~ 324 (324)
T TIGR02960 278 AAAMYMRRPDAERHTAFQLHVLEIRGGRITHVTAFLDGPSLFAAFGL 324 (324)
T ss_pred eEEEEEEcCCCCeeeeeEEEEEEEcCCcEEEEEEEcCCHHHHhhcCC
Confidence 877664332 3688889999999999999999999999999984
No 9
>PF12680 SnoaL_2: SnoaL-like domain; PDB: 3F40_A 3RGA_A 3G8Z_A 3DMC_A 3FH1_A 1TUH_A 3F14_A 3ER7_A 1Z1S_A 3F7X_A ....
Probab=99.59 E-value=1.7e-14 Score=99.24 Aligned_cols=92 Identities=21% Similarity=0.232 Sum_probs=77.4
Q ss_pred HHHHHHHHhcCCHHHHHhhccCCeEEEecCCC--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEEEEeCc--
Q 037228 24 VKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVEGHSKE-- 99 (171)
Q Consensus 24 V~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvveg~~~g-- 99 (171)
|++||++++++|.+++.++|+||++|+.|++. |++++..++...... ....++++..+..+|+.|++++...+
T Consensus 1 V~~~~~a~~~~d~~~i~~~~~~d~~~~~~~~~~~g~~~~~~~~~~~~~~---~~~~~~~~~~~~~~gd~v~~~~~~~~~~ 77 (102)
T PF12680_consen 1 VRRFFEAWNAGDLDAIAALFAPDAVFHDPGGTLRGREAIREFFEEFFES---FPDIRFEIHDIFADGDRVVVEWTVTGTT 77 (102)
T ss_dssp HHHHHHHHHTTHHHHHHHTEEEEEEEEETTSEEESHHHHHHHHHHHHHH---EEEEEEEEEEEEEETTEEEEEEEEEEEE
T ss_pred CHHHHHHHHcCCHHHHHHHcCCCEEEEeCCCcccCHHHHHHHHHHHHhc---CCceEEEEEEEEEcCCEEEEEEEEEEEE
Confidence 68999999999999999999999999999543 888888877666432 35678999999999999999877642
Q ss_pred ------eeeeEEEEEEEeCCeEEEE
Q 037228 100 ------HSVSWVHAWTVTDGIITQV 118 (171)
Q Consensus 100 ------~~~~~v~vf~v~DGkI~~~ 118 (171)
..+.++.+|+++||||+++
T Consensus 78 ~~~g~~~~~~~~~~~~~~dgkI~~~ 102 (102)
T PF12680_consen 78 PPTGQPISFRGCSVFRFEDGKIVEH 102 (102)
T ss_dssp TTTSCEEEEEEEEEEEEETTEEEEE
T ss_pred cCCCCEEEEEEEEEEEEECCEEEEC
Confidence 2678889999999999985
No 10
>COG4308 LimA Limonene-1,2-epoxide hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.39 E-value=3.4e-12 Score=92.50 Aligned_cols=115 Identities=23% Similarity=0.226 Sum_probs=91.2
Q ss_pred CCccchHHHHHHHHHHHHhcCCHHHHH-hhccCCeEEEecCCC---cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCC
Q 037228 14 DNEDEYNIRVVKTLYDALNSFDVKTVH-RLLTSDLEWWFHGPP---GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGP 89 (171)
Q Consensus 14 ~~~~~~n~evV~~~~~A~~~gD~da~~-~lla~Dvvw~~~gp~---G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd 89 (171)
.+++.++.++|+.|.+||.+-|.++.. .++.||-+|..+|-+ |.++.+.++.+..... ..+++.+..+-++|.
T Consensus 2 s~~~~~pi~~V~aF~aA~~~~d~~~avr~~~~~d~v~~n~gis~i~G~~~~ia~l~~~~~~~---~~~ef~I~riAadg~ 78 (130)
T COG4308 2 SSTMPEPIRTVEAFLAALQEDDGDAAVRRLGTPDTVYNNVGISTIHGPAETIALLRPRMAGI---LGFEFKILRIAADGG 78 (130)
T ss_pred CCcCCCcHHHHHHHHHHHHhcCccHHHHHhcCCCeeeccCCcccccchhhhhhhhccccCCc---ceeEEEEEEEecccc
Confidence 467788999999999999999987755 666688888888733 7788888887644432 367899999999999
Q ss_pred EEEEEEEe---Cc---eeeeEEEEEEEeCCeEEEEEEecChHHHHHHh
Q 037228 90 TVIVEGHS---KE---HSVSWVHAWTVTDGIITQVREYFNTSVTVTRF 131 (171)
Q Consensus 90 ~Vvveg~~---~g---~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~l 131 (171)
.|..|... .| .++..|-+|+++||||+.||+|+|...+..+.
T Consensus 79 ~VltER~D~~~~g~~~~~~~V~GvfEV~~~rI~~WRDYFDv~~l~k~~ 126 (130)
T COG4308 79 AVLTERLDARIDGPLWVQFWVCGVFEVEDGRIVLWRDYFDVNDLFKQT 126 (130)
T ss_pred eehhhhhhhhccCCcEEEEEEEEEEEEeCCEEEeehhhhhHHHHHhhc
Confidence 98876432 12 36777789999999999999999998887764
No 11
>PRK09636 RNA polymerase sigma factor SigJ; Provisional
Probab=99.32 E-value=5.5e-11 Score=99.06 Aligned_cols=111 Identities=19% Similarity=0.197 Sum_probs=81.9
Q ss_pred CCccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----------cHHHHHHHHhcCCCCCCCcceeEEEEeE
Q 037228 14 DNEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----------GHQHLMHMLTGSSSSSEDKRCFTFVPLS 83 (171)
Q Consensus 14 ~~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----------G~~~~~~~l~~~~~~~~~~~~~~~~~~~ 83 (171)
....+++++++++|++|+++||++++.+||+||++|+.+|++ |++.+..++.+..... ..........
T Consensus 167 ~~~~~~~~~~v~~f~~A~~~gD~~~l~~Lla~Dv~~~~dggg~~~~~~~~~~G~~~v~~~l~~~~~~~--~~~~~~~~~~ 244 (293)
T PRK09636 167 PVSDEEGAELVEAFFAALASGDLDALVALLAPDVVLHADGGGKVPTALRPIYGADKVARFFLGLARRY--GPGGSTLVRL 244 (293)
T ss_pred CCCchHHHHHHHHHHHHHHhCCHHHHHHHHhhCeEEEecCCCccCCCCccccCHHHHHHHHHHHhhhc--cCCCceEEEE
Confidence 356677899999999999999999999999999999987621 6778888776654421 1111223334
Q ss_pred EEEeCCEEEEEEEeCceeeeEEEEEEEeCCeEEEEEEecChHHHH
Q 037228 84 TVAFGPTVIVEGHSKEHSVSWVHAWTVTDGIITQVREYFNTSVTV 128 (171)
Q Consensus 84 via~Gd~Vvveg~~~g~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~ 128 (171)
...+|+-.++.... | ....+..|+++||||++++...||..+.
T Consensus 245 ~~vnG~~a~~~~~~-~-~~~~~~~~~~~~g~I~~i~~~~~p~kl~ 287 (293)
T PRK09636 245 ALVNGLPGFVTAEA-D-GEPQTTALEVEDGKIVAIYDVRNPDKLT 287 (293)
T ss_pred EEECCceeEEEEeC-C-ceEEEEEEEEECCEEEEEEEEcCHHHhc
Confidence 55677766665433 2 2355678999999999999999998874
No 12
>TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family. This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152.
Probab=99.11 E-value=1.7e-09 Score=89.73 Aligned_cols=108 Identities=14% Similarity=0.163 Sum_probs=78.6
Q ss_pred CccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----------cHHHHHHHHhcCCCCCCCcceeEEEEeEE
Q 037228 15 NEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----------GHQHLMHMLTGSSSSSEDKRCFTFVPLST 84 (171)
Q Consensus 15 ~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----------G~~~~~~~l~~~~~~~~~~~~~~~~~~~v 84 (171)
....+.++++++|.+|+.+||++++.+||+||++++.+|++ |.+.+.+++.+.... +...+++.+.
T Consensus 161 ~~~~~~~~~~~~f~~a~~~gD~~~l~~lL~~dv~~~~dggg~~~~~~~p~~G~~~v~~~~~~~~~~--~~~~~~~~~~-- 236 (281)
T TIGR02957 161 VSREESRQLLERFVEAAQTGDLDGLLELLAEDVVLYGDGGGKVRAALRPIYGADRVARFFFGLVRR--LGPGGRVDPV-- 236 (281)
T ss_pred CChHHHHHHHHHHHHHHHhCCHHHHHHHHhhceEEEecCCCcCCCCCcccccHHHHHHHHHHHhcc--cCCCceEEEE--
Confidence 44556889999999999999999999999999999987632 777888887665432 1123344433
Q ss_pred EEeCCEEEEEEEeCceeeeEEEEEEEeCCeEEEEEEecChHHHH
Q 037228 85 VAFGPTVIVEGHSKEHSVSWVHAWTVTDGIITQVREYFNTSVTV 128 (171)
Q Consensus 85 ia~Gd~Vvveg~~~g~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~ 128 (171)
..+|.-.++... .| ....+..|+++||+|++++.+.||..+.
T Consensus 237 ~vnG~p~~~~~~-~~-~~~~~~~~~~~~g~I~~i~~~~nP~kl~ 278 (281)
T TIGR02957 237 DVNGQPAVLVRI-DG-KLAYVVTFAIEGGGIQNIYIVRNPEKLA 278 (281)
T ss_pred EECCCceEEEEe-CC-cEEEEEEEEEECCEEEEEEEEcCHHHhc
Confidence 455654444332 23 3445677899999999999999998873
No 13
>COG4922 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=99.10 E-value=4.8e-10 Score=80.86 Aligned_cols=105 Identities=16% Similarity=0.172 Sum_probs=82.9
Q ss_pred ccchHHHHHHHHHHH-HhcCCHHHHHhhccCCeEEEecC-CCcHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEE
Q 037228 16 EDEYNIRVVKTLYDA-LNSFDVKTVHRLLTSDLEWWFHG-PPGHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIV 93 (171)
Q Consensus 16 ~~~~n~evV~~~~~A-~~~gD~da~~~lla~Dvvw~~~g-p~G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvv 93 (171)
....|++++-+||.. |+.|.++...+++.|-..-|.|+ |.|++++.++|.+++... ...+..+.+.+++||.|.+
T Consensus 3 q~~~N~~~v~~~y~~~~~~g~veka~a~~vd~YiQHnp~vpdGk~~fv~fFt~ffk~~---P~~~~kiVr~iadGdLV~v 79 (129)
T COG4922 3 QLHANKQVVIQFYRTLFEAGEVEKADAYLVDRYIQHNPMVPDGKDGFVRFFTEFFKEK---PRISTKIVRVIADGDLVTV 79 (129)
T ss_pred hhhhhHHHHHHHHHHHHHCCCHHHhhhhhhhHHHhcCCCCCCchHHHHHHHHHHHHhC---ccccceeeEEeccCCEEEE
Confidence 346799999999976 88999999999999665555555 459999999998877542 2346678899999999988
Q ss_pred EEEeC----c-eeeeEEEEEEEeCCeEEEEEEecC
Q 037228 94 EGHSK----E-HSVSWVHAWTVTDGIITQVREYFN 123 (171)
Q Consensus 94 eg~~~----g-~~~~~v~vf~v~DGkI~~~~~Y~D 123 (171)
..+.+ | +...+++.||+.||||++.|+-.+
T Consensus 80 h~hqt~~~pg~~~~v~~DtfR~ddgkivEHWDviq 114 (129)
T COG4922 80 HYHQTVSEPGSYTTVTFDTFRIDDGKIVEHWDVIQ 114 (129)
T ss_pred EEeeeeCCCCcceeEEEEEEEeeCCceeeccchhh
Confidence 76532 2 367778999999999999987544
No 14
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=99.05 E-value=1.9e-09 Score=78.59 Aligned_cols=107 Identities=16% Similarity=0.138 Sum_probs=78.5
Q ss_pred HHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCCcHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEEEEeC---
Q 037228 22 RVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPPGHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVEGHSK--- 98 (171)
Q Consensus 22 evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvveg~~~--- 98 (171)
++.++|++..+..+++.+.......+ .+...+.|..++.+++...++. ..+++++++.++++|++|+++.+..
T Consensus 10 ~~y~Ay~d~ln~q~~~~l~~fv~~~v-~~ng~~~glsgyr~ml~~df~a---iPdl~f~ie~lvae~~~vaarl~Fdctp 85 (131)
T COG5485 10 DRYRAYLDCLNRQAWDELGSFVDGNV-MHNGRLQGLSGYREMLVRDFSA---IPDLSFEIERLVAEGDRVAARLTFDCTP 85 (131)
T ss_pred HHHHHHHHhhhhhhhhhcccCCcCee-eeCCceechHHHHHHHHhhHhh---CCCcceEEEEEeecCCceEEEEEEccCc
Confidence 56777777777777766555555443 2322234666667666555543 2577999999999999999987753
Q ss_pred ----------ceeeeEE--EEEEEeCCeEEEEEEecChHHHHHHhC
Q 037228 99 ----------EHSVSWV--HAWTVTDGIITQVREYFNTSVTVTRFG 132 (171)
Q Consensus 99 ----------g~~~~~v--~vf~v~DGkI~~~~~Y~Dt~~~~~~lg 132 (171)
|.++.|. ++|+|.||||+++|...|-.++++|||
T Consensus 86 ~G~i~Gip~nGkrV~Fse~vfy~f~~~KI~~vwsv~Dk~ai~rQL~ 131 (131)
T COG5485 86 SGEIMGIPPNGKRVRFSENVFYEFENGKIVEVWSVIDKMAIERQLG 131 (131)
T ss_pred CceEeccCCCCcEEEeehhhhhhhcCCeEEeeehhccHHHHHHhhC
Confidence 2355554 789999999999999999999999986
No 15
>PRK09635 sigI RNA polymerase sigma factor SigI; Provisional
Probab=98.77 E-value=1.1e-07 Score=79.55 Aligned_cols=106 Identities=15% Similarity=0.135 Sum_probs=75.6
Q ss_pred CccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCC---C--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCC
Q 037228 15 NEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGP---P--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGP 89 (171)
Q Consensus 15 ~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp---~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd 89 (171)
.......+++++|.+|+.+||++++.+||+||+..-.+.+ . |.+.+.+++.+.... ..+++.+ ...+|.
T Consensus 171 ~~~~~~~~~~~~f~~a~~~gd~~~l~~ll~~d~~~~~~~~~~~~~~G~~~v~~~~~~~~~~----~~~~~~~--~~~ng~ 244 (290)
T PRK09635 171 VEPAQHRVVTRAFIEACSNGDLDTLLEVLDPGVAGEIDARKGVVVVGADRVGPTILRHWSH----PATVLVA--QPVCGQ 244 (290)
T ss_pred CChHHHHHHHHHHHHHHHhCCHHHHHHHhhhhhcCCCcCCCCccccCHHHHHHHHHHhhcc----CceEEEE--eeeCCC
Confidence 4455678999999999999999999999999996433322 1 778888887665321 2334443 344555
Q ss_pred EEEEEEEeCceeeeEEEEEEEeCCeEEEEEEecChHHHH
Q 037228 90 TVIVEGHSKEHSVSWVHAWTVTDGIITQVREYFNTSVTV 128 (171)
Q Consensus 90 ~Vvveg~~~g~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~ 128 (171)
-.++... .| ....+.+|+++||||++++.+.||..+.
T Consensus 245 p~~~~~~-~~-~~~~~~~~~~~~~~I~~i~~~~np~kl~ 281 (290)
T PRK09635 245 PAVLAFV-NR-ALAGVLALSIEAGKITKIHVLVQPSTLD 281 (290)
T ss_pred ceEEEEe-CC-ceEEEEEEEEECCEEEEEEEEcCHHHhh
Confidence 4444222 22 4556788999999999999999998874
No 16
>PF03284 PHZA_PHZB: Phenazine biosynthesis protein A/B; InterPro: IPR004964 The phenazine biosynthesis proteins A and B are involved in the biosynthesis of this antibiotic. Phenazine is a nitrogen-containing heterocyclic molecule with important implications in virulence, competition and biological control.; GO: 0017000 antibiotic biosynthetic process; PDB: 3EX9_A 3JUP_B 3DZL_A 3JUN_A 3JUO_A 3CNM_A 3JUM_B 3JUQ_A 3B4O_A 3B4P_B ....
Probab=98.70 E-value=1.1e-07 Score=71.31 Aligned_cols=112 Identities=19% Similarity=0.264 Sum_probs=72.8
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeE---EEecCC-C----cHHHHHH---HHhcCCCCCCCcceeEEEEeEEE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLE---WWFHGP-P----GHQHLMH---MLTGSSSSSEDKRCFTFVPLSTV 85 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvv---w~~~gp-~----G~~~~~~---~l~~~~~~~~~~~~~~~~~~~vi 85 (171)
.+.|++.|++|...-.+ |-=.=.+||++|-. |..+.+ + |++.+.+ +....++ ++.+....+.
T Consensus 17 R~~NR~~Ve~Ym~t~g~-~RL~Rh~LF~eDG~~glwtTdtG~Piv~~G~~~L~~havwslkcFP------DWeW~nv~if 89 (162)
T PF03284_consen 17 RRINRATVEQYMNTKGQ-DRLRRHELFTEDGCGGLWTTDTGEPIVIRGRDRLAEHAVWSLKCFP------DWEWYNVRIF 89 (162)
T ss_dssp HHHHHHHHHHHHC--GG-GGGGGGGGEEEEEEEEESS-TTSS-EEEESHHHHHHHHHHHHHHST------T-EEEEEEEE
T ss_pred HHhhHHHHHHHHHcCch-hhhhhheeeccCCccccccCCCCceEEEEhHHHHHHHHHHHHHHCC------CcEEEEEEee
Confidence 45789999999874222 22123479999974 333322 2 7765544 4445543 4555555555
Q ss_pred E--eCCEEEEEEEeCc-----------eeeeEEEEEEEeCCeEEEEEEecChHHHHHHhCCCC
Q 037228 86 A--FGPTVIVEGHSKE-----------HSVSWVHAWTVTDGIITQVREYFNTSVTVTRFGDPQ 135 (171)
Q Consensus 86 a--~Gd~Vvveg~~~g-----------~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~~lg~p~ 135 (171)
. +++.+.||....| ++.+|+|.|+++||||++.|+|+|+..-.++||.|.
T Consensus 90 eT~DP~~fwVEcdG~G~i~fpGypeg~y~NHfiHsFel~nGkI~~~REFmNp~qq~RaLgi~v 152 (162)
T PF03284_consen 90 ETQDPNHFWVECDGRGKILFPGYPEGYYENHFIHSFELENGKIKRNREFMNPFQQLRALGIPV 152 (162)
T ss_dssp EBSSTTEEEEEEEEEEEE--TTS--EEEEEEEEEEEEEETTEEEEEEEEE-HHHHHHHTT---
T ss_pred cccCCCEEEEEecCccceecCCCCcccceeeeEEEEEeeCCEEEeehhhcCHHHHHHHcCCCC
Confidence 4 4568888866443 388899999999999999999999999999999853
No 17
>PF14534 DUF4440: Domain of unknown function (DUF4440); PDB: 3HX8_A 3SOY_A 3ROB_B 3GZR_A 3B7C_A 3CU3_A 3FSD_A 2R4I_C 1TP6_A.
Probab=98.47 E-value=3e-06 Score=58.52 Aligned_cols=91 Identities=18% Similarity=0.291 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEEEEeC
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVEGHSK 98 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvveg~~~ 98 (171)
.++.++|++|++++|.+++.++++||+++..+++. |++++.+.+...... ...++++...+...||.+++.+...
T Consensus 2 ~a~~~~~~~A~~~~D~~~~~~~~~~d~~~~~~~g~~~~~~~~l~~~~~~~~~---~~~~~~~~~~v~~~gd~a~~~~~~~ 78 (107)
T PF14534_consen 2 RALEEQYEDAFNAGDIDALASLYADDFVFVGPGGTILGKEAILAAFKSGFAR---FSSIKFEDVEVRVLGDTAVVRGRWT 78 (107)
T ss_dssp HHHHHHHHHHHHTTHHHHHHTTEEEEEEEEETTSEEEEHHHHHHHHHHHCEE---EEEEEEEEEEEEEETTEEEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHhhhCCCEEEECCCCCEeCHHHHHHHHhhccCC---CceEEEEEEEEEEECCEEEEEEEEE
Confidence 46789999999999999999999999999977643 776666666542211 2355677777777799888876632
Q ss_pred ------c----eeeeEEEEEEEeCCe
Q 037228 99 ------E----HSVSWVHAWTVTDGI 114 (171)
Q Consensus 99 ------g----~~~~~v~vf~v~DGk 114 (171)
| ....+..+|+-+||+
T Consensus 79 ~~~~~~g~~~~~~~~~~~v~~k~~g~ 104 (107)
T PF14534_consen 79 FTWRGDGEPVTIRGRFTSVWKKQDGK 104 (107)
T ss_dssp EEETTTTEEEEEEEEEEEEEEEETTE
T ss_pred EEEecCCceEEEEEEEEEEEEEeCCE
Confidence 2 245566777777774
No 18
>COG4538 Uncharacterized conserved protein [Function unknown]
Probab=98.42 E-value=8.1e-06 Score=57.50 Aligned_cols=98 Identities=19% Similarity=0.163 Sum_probs=63.1
Q ss_pred hHHHHHHHHHHHHhcCCHHHHHhhccCCeEEE-ecCC---CcHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEE
Q 037228 19 YNIRVVKTLYDALNSFDVKTVHRLLTSDLEWW-FHGP---PGHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVE 94 (171)
Q Consensus 19 ~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~-~~gp---~G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvve 94 (171)
+...++++-++|.++||++++...|++|+++. +++. +|.+++..+....+... ....++..-+.-|..|+=.
T Consensus 4 e~ed~vq~Ql~AYNa~Dvdaf~a~f~DD~vv~~f~a~~~~gg~aaira~y~e~FaEp----~~~~~ll~Rv~vGs~ViDH 79 (112)
T COG4538 4 EPEDVVQRQLAAYNAGDVDAFAAEFDDDAVVTTFDALDGDGGTAAIRAAYGEQFAEP----APEISLLDRVSVGSYVIDH 79 (112)
T ss_pred chhHHHHHHHHhhccccHHHHHhhcccceEEEecccccccCcHHHHHHHHHHHhcCC----CccceeeeeEEeccEEecc
Confidence 35678999999999999999999999999766 4442 25555554433333221 1233334444456554432
Q ss_pred EEe-C---ceeeeEEEEEEEeCCeEEEEEE
Q 037228 95 GHS-K---EHSVSWVHAWTVTDGIITQVRE 120 (171)
Q Consensus 95 g~~-~---g~~~~~v~vf~v~DGkI~~~~~ 120 (171)
-+. + +.+....++|+|++|||.++|-
T Consensus 80 Ehvtr~~g~ge~dvaciYtv~~g~Iar~wf 109 (112)
T COG4538 80 EHVTRGTGGGERDVACIYTVVEGLIARLWF 109 (112)
T ss_pred eeeccCCCCCceeEEEEEEEeCCeeeeeee
Confidence 221 2 2355556899999999999874
No 19
>PF13474 SnoaL_3: SnoaL-like domain; PDB: 2GXF_A 3KSP_A 3KE7_A 3BB9_E 3CNX_A 3F7S_A 3GWR_B.
Probab=98.42 E-value=9.3e-06 Score=57.56 Aligned_cols=98 Identities=15% Similarity=0.264 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC----cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEEEE
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP----GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVEGH 96 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~----G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvveg~ 96 (171)
++++++|++++++||++++.++++||+++..+++. |++++.+++...+.... .-.+.+....+...++.+.+.+.
T Consensus 2 ~~~~~~~~~a~~~~D~~~~~~~~~~d~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~v~~~~~~a~~~~~ 80 (121)
T PF13474_consen 2 EALLEEWIEAFERGDIDALLSLFSDDFVFFGTGPGEIWRGREAIRAYFERDFESFR-PISIEFEDVQVSVSGDVAVVTGE 80 (121)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHEEEEEEEEETTSSSEEESHHHHHHHHHHHHHTHS-EEEEEEEEEEEEEETTEEEEEEE
T ss_pred HHHHHHHHHHHHhCCHHHHHHhhCCCEEEEcCCCCceECCHHHHHHHHHHHhhhCc-eEEEEEEEEEEEECCCEEEEEEE
Confidence 47899999999999999999999999999887753 77777776655433210 11233344455567887777654
Q ss_pred eC------ce----eeeEEEEEEEeCC--eEEEEE
Q 037228 97 SK------EH----SVSWVHAWTVTDG--IITQVR 119 (171)
Q Consensus 97 ~~------g~----~~~~v~vf~v~DG--kI~~~~ 119 (171)
.. |. ......+|+-+|| ||+++.
T Consensus 81 ~~~~~~~~~~~~~~~~r~t~v~~k~~~~Wki~h~H 115 (121)
T PF13474_consen 81 FRLRFRNDGEEIEMRGRATFVFRKEDGGWKIVHIH 115 (121)
T ss_dssp EEEEEECTTCEEEEEEEEEEEEEEETTEEEEEEEE
T ss_pred EEEEEecCCccceeeEEEEEEEEEECCEEEEEEEE
Confidence 31 21 4455577888887 566553
No 20
>TIGR02246 conserved hypothetical protein. This family consists of uncharacterized proteins found in a number of genera and species, including Streptomyces, Xanthomonas, Oceanobacillus iheyensis, Caulobacter crescentus CB15, and Xylella fastidiosa. The function is unknown.
Probab=98.40 E-value=9.1e-06 Score=58.36 Aligned_cols=80 Identities=16% Similarity=0.089 Sum_probs=54.8
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEE-ecCCC--cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeC-CEEE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWW-FHGPP--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFG-PTVI 92 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~-~~gp~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~G-d~Vv 92 (171)
.++.++++.+|++++++||.+++.++|+||++|. .+|.. |++++.+++............+++++..+...| +.++
T Consensus 3 ~~~i~~l~~~~~~a~~~~D~~~~~~~~~~Da~~~~~~g~~~~G~~~i~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~A~ 82 (128)
T TIGR02246 3 ERAIRALVATWEAAWAAGDAEGFADLFTPDGVFVTVPGQVWKGREAIAAAHEAFLAGPYKGTRVTIDVIEVRFLGPDLAI 82 (128)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHhhCCCceEECCCCCeecCHHHHHHHHHHHhcccCCCcEEEeeeEEEEecCCCEEE
Confidence 4567899999999999999999999999999998 44433 787777766554332100112456555555455 5665
Q ss_pred EEEE
Q 037228 93 VEGH 96 (171)
Q Consensus 93 veg~ 96 (171)
+.+.
T Consensus 83 ~~~~ 86 (128)
T TIGR02246 83 VHAI 86 (128)
T ss_pred EEEE
Confidence 6544
No 21
>cd00531 NTF2_like Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of divergent evolution wherein the proteins have many common structural details but diverge greatly in their function. For example, nuclear transport factor 2 (NTF2) mediates the nuclear import of RanGDP and binds to both RanGDP and FxFG repeat-containing nucleoporins while Ketosteroid isomerases catalyze the isomerization of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by intramolecular transfer of the C4-beta proton to the C6-beta position. While the function of the beta sub-unit of the Ring hydroxylating dioxygenases is not known, Scytalone Dehydratases catalyzes two reactions in the biosynthetic pathway that produces fungal melanin. Members of the NTF2-like superfamily are widely distributed among bacteria, archaea
Probab=97.87 E-value=0.0012 Score=45.60 Aligned_cols=101 Identities=12% Similarity=0.032 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCC----C---cHHHHHHHHhcCCCCCCCcceeEE-EEeEEEEeCC-EE
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGP----P---GHQHLMHMLTGSSSSSEDKRCFTF-VPLSTVAFGP-TV 91 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp----~---G~~~~~~~l~~~~~~~~~~~~~~~-~~~~via~Gd-~V 91 (171)
++++.+|+.++.++|.+.+..+++||++|..+++ . |++++..++....... ....++ ....+...++ .+
T Consensus 2 ~~l~~~y~~~ld~~~~~~l~~~~~~d~~~~~~~~~~~~~~~~g~~~i~~~~~~~~~~~--~~~~h~~~~~~~~~~~~~~~ 79 (124)
T cd00531 2 EQFLYRYARLLDAGDREWLALLYADDAYFEPPGGDGLIYPDDGREAIEDRVRRLPFGP--SRTRHLVSNVDVQPGDDGEG 79 (124)
T ss_pred HHHHHHHHHHhCCchHHHHHhhCcCcEEEEEccCCEEEEcCChHHHHHHHHHhcCCCC--CceEEEEEeEEEEeCCCCEE
Confidence 5789999999999999999999999999998873 2 7778888776654310 112233 3333444433 21
Q ss_pred ---EEEEEeC----c--eeeeEEEEEEEe----CCeEEEEEEecC
Q 037228 92 ---IVEGHSK----E--HSVSWVHAWTVT----DGIITQVREYFN 123 (171)
Q Consensus 92 ---vveg~~~----g--~~~~~v~vf~v~----DGkI~~~~~Y~D 123 (171)
...+... + ....+...++++ ++||.+.+.+++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~w~i~~~~~~~~ 124 (124)
T cd00531 80 VVVSVFGVLRTRGDGEQDVFAGGQTFVLRPQGGGGKIANRRFRLD 124 (124)
T ss_pred EEEEEEEEEEEccCCceeEEEEEEEEEEEEeCCEEEEEEEEEecC
Confidence 1122211 1 123333445554 779999888764
No 22
>COG4319 Ketosteroid isomerase homolog [Function unknown]
Probab=97.86 E-value=0.00052 Score=51.44 Aligned_cols=76 Identities=13% Similarity=0.061 Sum_probs=53.2
Q ss_pred hHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecC-CC--cHHHHHHHHhcCCCCCCCcceeEEEEe--EEEEeCCEEEE
Q 037228 19 YNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHG-PP--GHQHLMHMLTGSSSSSEDKRCFTFVPL--STVAFGPTVIV 93 (171)
Q Consensus 19 ~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~g-p~--G~~~~~~~l~~~~~~~~~~~~~~~~~~--~via~Gd~Vvv 93 (171)
.-++.+..+-+|++++|++++.++++||++|..+. +. |++.+.+.+.+.+.... .+.+++.. .+.++||.+.+
T Consensus 11 ~I~a~i~dw~~Av~a~D~~av~~~YtdDav~f~~~~~~~~Gk~~i~k~~~~~~~~~~--~~~~f~~~el~v~~~GD~a~~ 88 (137)
T COG4319 11 AIRAAIADWAAAVRAKDADAVADFYTDDAVVFPPPGLQRKGKAAIRKAFEGIFAMGI--GPLKFTLEELQVHESGDVAFV 88 (137)
T ss_pred HHHHHHHHHHHHHhcccHHHHHHhcCCceEEecCCCCcccCHHHHHHHHHHHHHhcc--CCCcceeeeeeeeccCCEEEE
Confidence 44566666667999999999999999999887663 33 88777776655544321 23344444 44589998887
Q ss_pred EEE
Q 037228 94 EGH 96 (171)
Q Consensus 94 eg~ 96 (171)
.+.
T Consensus 89 ~~~ 91 (137)
T COG4319 89 TAL 91 (137)
T ss_pred EEe
Confidence 654
No 23
>PF12893 Lumazine_bd_2: Putative lumazine-binding; PDB: 3BLZ_C 3DUK_F 3FKA_C.
Probab=97.77 E-value=0.00034 Score=50.34 Aligned_cols=101 Identities=15% Similarity=0.056 Sum_probs=64.2
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC-----cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP-----GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTV 91 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~-----G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~V 91 (171)
.++-+++|+.||+++..||.+.+.+.|+||+.......+ ..+.+...+.+..............+..+-..|+.+
T Consensus 3 ~~~I~~~v~~Y~dg~~~gD~~~l~~~f~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~i~~i~i~g~~A 82 (116)
T PF12893_consen 3 EAAIEATVQDYFDGLYNGDSEKLRSAFHPDARLQGVRKGKLRTMPIEEFIARVKSRVSPKPPGQERKESILSIDIDGDVA 82 (116)
T ss_dssp HHHHHHHHHHHHHHHHHT-HHHHGGGEEEEEEEEEEETTEEEEEETHHHHHHHHHC---H-SSTT-EEEEEEEEEETTEE
T ss_pred HHHHHHHHHHHHHHHHhcCHHHHHHhhCCCcEEEEEcCCceEEeCHHHHHHHHHhhccccCCCCCceeEEEEEEEECCEE
Confidence 345678999999999999999999999999976544322 346777766653210001234456666777788987
Q ss_pred EEEEEeCceeeeEEEEEEE--eCC--eEEE
Q 037228 92 IVEGHSKEHSVSWVHAWTV--TDG--IITQ 117 (171)
Q Consensus 92 vveg~~~g~~~~~v~vf~v--~DG--kI~~ 117 (171)
.|..........|++.|++ .|| ||+.
T Consensus 83 ~a~v~~~~~~~~~~d~~~L~K~dg~WkIv~ 112 (116)
T PF12893_consen 83 SAKVEYEFPGFWFVDYFTLVKTDGGWKIVS 112 (116)
T ss_dssp EEEEEEEEETEEEEEEEEEEEETTEEEEEE
T ss_pred EEEEEEEECCCceEEEEEEEEECCEEEEEE
Confidence 7766654334455565655 466 4543
No 24
>PF13577 SnoaL_4: SnoaL-like domain; PDB: 3S5C_B 3EJV_A 2RFR_A 3B8L_F 2CHC_A 3A76_A 3EF8_B.
Probab=97.15 E-value=0.01 Score=42.23 Aligned_cols=50 Identities=20% Similarity=0.186 Sum_probs=40.2
Q ss_pred chHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCC--C---cHHHHHHHHhcC
Q 037228 18 EYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGP--P---GHQHLMHMLTGS 67 (171)
Q Consensus 18 ~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp--~---G~~~~~~~l~~~ 67 (171)
++-++++.+|..++..+|.+.+.++|+||+++..++. + |++++..++...
T Consensus 7 ~~I~~l~~~~~~~~D~~~~~~~~~lft~d~~~~~~~~~~~~~~G~~~i~~~~~~~ 61 (127)
T PF13577_consen 7 AAIRDLIARYARALDTGDWEEWADLFTEDAVFDFPGFGFGRYRGRDAIRAFLRAR 61 (127)
T ss_dssp HHHHHHHHHHHHHHHTT-HHHHHTTEEEEEEEEETTTCEEEEESHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhCCCHHHHHhccCCcEEEEEeCccccccCCHHHHHHHHHHh
Confidence 4456788899999999999999999999999998874 2 777777766554
No 25
>PF08332 CaMKII_AD: Calcium/calmodulin dependent protein kinase II Association; InterPro: IPR013543 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (IPR000719 from INTERPRO) at their N terminus []. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release. ; GO: 0004683 calmodulin-dependent protein kinase activity, 0005516 calmodulin binding, 0006468 protein phosphorylation; PDB: 2W2C_F 3H51_B 3SOA_A 2UX0_A 1HKX_M 2F86_B.
Probab=96.73 E-value=0.1 Score=38.77 Aligned_cols=100 Identities=14% Similarity=0.117 Sum_probs=58.8
Q ss_pred chHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecC--CC---cHHHHHHHHhcCCCCCCCcceeEEEE--eEEEEeC-C
Q 037228 18 EYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHG--PP---GHQHLMHMLTGSSSSSEDKRCFTFVP--LSTVAFG-P 89 (171)
Q Consensus 18 ~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~g--p~---G~~~~~~~l~~~~~~~~~~~~~~~~~--~~via~G-d 89 (171)
++-.++.+++.+|+..||.+...++++||+....|- +. |.+....+|....... ....+.++ ..+---| +
T Consensus 3 ~eI~~l~~~w~~ai~tgD~~~~~~ly~~d~av~~Pt~s~~~~~g~~~~~~YF~~~l~~~--~~~~~~tI~~p~V~~lg~~ 80 (128)
T PF08332_consen 3 QEIAALFDRWNDAIQTGDPETYAKLYAPDVAVFEPTVSNQLREGLEFHKFYFDHFLAKK--PQGVNTTILNPHVRLLGDN 80 (128)
T ss_dssp HHHHHHHHHHHHHHHHT-HHHHHHHEEEEEEEEEGGGTTSEEESCHHHHHHHHHTGTTT--SSCEEEEEEEEEEEEESTT
T ss_pred HHHHHHHHHHHHHHHcCCHHHHhhhcCCCeeEeccccCCceecChHHHHHHHhcccccC--CCceeeEecCCeEEEcCCC
Confidence 344567788889999999999999999996555553 22 5555555554433321 12332222 2222224 4
Q ss_pred EEEEEEEeC-------c----eeeeEEEEEEEeCC--eEEEEE
Q 037228 90 TVIVEGHSK-------E----HSVSWVHAWTVTDG--IITQVR 119 (171)
Q Consensus 90 ~Vvveg~~~-------g----~~~~~v~vf~v~DG--kI~~~~ 119 (171)
.++..|.+. | ....+..+|.-+|| ||+++.
T Consensus 81 ~Ai~~gvy~f~~~d~~G~~~~~~areT~v~~~~~g~W~ivhhH 123 (128)
T PF08332_consen 81 AAIDAGVYTFQFVDKDGVPRTVQARETRVWQKRDGKWKIVHHH 123 (128)
T ss_dssp EEEEEEEEEEEEESTTSSEEEEEEEEEEEEEEETTEEEEEEEE
T ss_pred EEEEeeEEEEEeecCCCCeeeEEEeEEEEEEEeCCeEEEEEEe
Confidence 666666531 2 24566678888999 566654
No 26
>PF10184 DUF2358: Uncharacterized conserved protein (DUF2358); InterPro: IPR018790 This entry represents a family of conserved proteins. The function is unknown.
Probab=95.89 E-value=0.2 Score=36.07 Aligned_cols=79 Identities=16% Similarity=0.080 Sum_probs=53.4
Q ss_pred cCCHHHHHhhccCCeEEEecCCC--cHHHHH------HHHhcCCCCCCCcceeEEEEeEEEEeCC-EEEEEEEeCce---
Q 037228 33 SFDVKTVHRLLTSDLEWWFHGPP--GHQHLM------HMLTGSSSSSEDKRCFTFVPLSTVAFGP-TVIVEGHSKEH--- 100 (171)
Q Consensus 33 ~gD~da~~~lla~Dvvw~~~gp~--G~~~~~------~~l~~~~~~~~~~~~~~~~~~~via~Gd-~Vvveg~~~g~--- 100 (171)
.|+.+ .++++|||++..|--. |.+.+. +++... +....++++..+...++ .|.++++..|.
T Consensus 16 ~~~~~--~~iY~~dv~F~Dp~~~f~g~~~Y~~~~~~l~~l~~~-----~~~~~~~~v~~i~~~~~~~I~~rW~~~g~~~l 88 (113)
T PF10184_consen 16 TGDLD--YSIYDEDVVFIDPIVSFKGLDRYKRNLWALRFLGRL-----FFSDPSLEVLSIEQDGEDTIRARWRLRGVPRL 88 (113)
T ss_pred cCCCC--hhhcCCCeEEECCCCceecHHHHHHHHHHHHHHHhh-----ccCCcEEEEEEEEECCCCEEEEEEEEEEEeCC
Confidence 55544 5699999999977533 654433 333331 12356888888988887 88888876652
Q ss_pred ------eeeEEEEEEE-eCCeEEEE
Q 037228 101 ------SVSWVHAWTV-TDGIITQV 118 (171)
Q Consensus 101 ------~~~~v~vf~v-~DGkI~~~ 118 (171)
.+.+...|++ +||||.++
T Consensus 89 ~w~p~~~~~G~S~~~ln~~g~I~~H 113 (113)
T PF10184_consen 89 PWRPRISFDGTSTYTLNSDGLIYRH 113 (113)
T ss_pred CcCCcEEEEEEEEEEECCCCcEEeC
Confidence 5556678888 58999863
No 27
>PF07080 DUF1348: Protein of unknown function (DUF1348); InterPro: IPR009783 This family consists of several highly conserved hypothetical proteins of around 150 residues in length. The function of this family is unknown.; PDB: 2IMJ_B.
Probab=95.58 E-value=0.15 Score=38.19 Aligned_cols=105 Identities=19% Similarity=0.207 Sum_probs=72.2
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCC--CcHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCCEEEEE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGP--PGHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGPTVIVE 94 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp--~G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd~Vvve 94 (171)
.++..+-|+..=++++..|.+.+.--+++|.+|..-.. .|++++..||...... ..+.++.-+-..-.|++++|.
T Consensus 9 ~etA~~KVr~AEdaWNsrdP~~ValaYT~Ds~WRNR~eF~~GR~~I~~FLtrKW~r---E~~YrLiKELwaf~~nRIAVR 85 (143)
T PF07080_consen 9 RETAIQKVRAAEDAWNSRDPEKVALAYTPDSVWRNRDEFLTGREEIVAFLTRKWER---ELDYRLIKELWAFTDNRIAVR 85 (143)
T ss_dssp HHHHHHHHHHHHHHHTTT-HHHHHTTEEEEEEEEETTEEE-SHHHHHHHHHHHHHH---SEEEEEEEEEEEEETTEEEEE
T ss_pred HHHHHHHHHHHHhccccCChhHheeccCCCCcccCcccccCcHHHHHHHHHHHHHH---hhhhhhHHhhhhccCCeEEEE
Confidence 45677889999999999999999999999999997763 3999999988765432 123344444455568899997
Q ss_pred EEeC-----c--eeeeEEEEEEE-eCCeEEEEEEecCh
Q 037228 95 GHSK-----E--HSVSWVHAWTV-TDGIITQVREYFNT 124 (171)
Q Consensus 95 g~~~-----g--~~~~~v~vf~v-~DGkI~~~~~Y~Dt 124 (171)
..+. | .+...-.-++| ++|+..+-..-.+.
T Consensus 86 F~YE~~d~~gqW~RsyGnEnWeFd~~GlM~~R~aSiND 123 (143)
T PF07080_consen 86 FAYEWHDDSGQWFRSYGNENWEFDEDGLMRRRHASIND 123 (143)
T ss_dssp EEEEEE-TTS-EEEEEEEEEEEE-TTS-EEEEEEEEEE
T ss_pred EeEEEEcCCCCEEecccccccccCCCccHHHhhcccCC
Confidence 6532 2 24444556777 57887776554443
No 28
>PF11533 DUF3225: Protein of unknown function (DUF3225); InterPro: IPR024507 This family of proteins has no known function.; PDB: 2OWP_A 2RCD_B.
Probab=95.34 E-value=0.45 Score=35.17 Aligned_cols=94 Identities=16% Similarity=0.126 Sum_probs=51.3
Q ss_pred HHHHHHHHHHHHhcCCHHHHHhhccCCeE-EEecCCC---cHHHHHHHHhcCCCCCCCcceeEEEEeEEEEeCC-EEE--
Q 037228 20 NIRVVKTLYDALNSFDVKTVHRLLTSDLE-WWFHGPP---GHQHLMHMLTGSSSSSEDKRCFTFVPLSTVAFGP-TVI-- 92 (171)
Q Consensus 20 n~evV~~~~~A~~~gD~da~~~lla~Dvv-w~~~gp~---G~~~~~~~l~~~~~~~~~~~~~~~~~~~via~Gd-~Vv-- 92 (171)
-.+...+|.+|+.++|++.+.+||.+|-. ..+.... |++++..|..+.... ...-.+.-..+..-|+ .++
T Consensus 12 v~aaf~~YE~AL~~nDv~~Ld~lFw~~p~TvRyg~~E~LyG~~aI~aFR~~R~~~---~~~R~l~~~~itt~G~d~A~v~ 88 (125)
T PF11533_consen 12 VTAAFDRYERALMANDVDALDALFWDDPRTVRYGAGENLYGHDAIRAFRAARPGG---GPARTLERTVITTFGRDFATVS 88 (125)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHCB--STT-EEEETTEEEESHHHHHHHHHHS--T---TTT-EEEEEEEEEETTTEEEEE
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHhccCCceEEECCCccccCHHHHHHHHhcCCCC---CCCcEEEEEEEEEecCceEEEE
Confidence 34567788899999999999999998852 2333222 888888776555332 1122344445555564 333
Q ss_pred EEEEeCc-----eeeeEEEEEEEeCC-eEEEE
Q 037228 93 VEGHSKE-----HSVSWVHAWTVTDG-IITQV 118 (171)
Q Consensus 93 veg~~~g-----~~~~~v~vf~v~DG-kI~~~ 118 (171)
++.+..| ++.. ...++.+| ||+.-
T Consensus 89 tef~r~~~~~~GRQsQ--tWvr~~~gWrIvaA 118 (125)
T PF11533_consen 89 TEFRRDGSGRIGRQSQ--TWVRFPDGWRIVAA 118 (125)
T ss_dssp EEEEETTECCEEEEEE--EEEEETTEEEEEEE
T ss_pred EEEEECCCCceeEeEE--EEEECCCCEEEEEE
Confidence 3444332 2333 33466777 66653
No 29
>PF12870 Lumazine_bd: Lumazine-binding domain; InterPro: IPR024267 This entry represents a lumazine-binding domain found in a family of putative lipoproteins from bacteria. Lumazine is a fluorescent accessory protein having 6,7-dimethyl-8-(1'-D-ribityl) lumazine (DMRL) as its authentic chromophore; it modulates the emission of bacterial luciferase to shorter wavelengths with increasing luminous strength.; PDB: 3K7C_C.
Probab=94.23 E-value=0.06 Score=37.26 Aligned_cols=32 Identities=25% Similarity=0.313 Sum_probs=24.1
Q ss_pred cchHHHHHHHHHHHHhcCCHHHHHhhccCCeE
Q 037228 17 DEYNIRVVKTLYDALNSFDVKTVHRLLTSDLE 48 (171)
Q Consensus 17 ~~~n~evV~~~~~A~~~gD~da~~~lla~Dvv 48 (171)
..++.++++.||+|+.+||++.+.+++.++..
T Consensus 6 ~~~P~~~v~~f~~al~~gd~~~a~~~~~~~~~ 37 (111)
T PF12870_consen 6 SSTPEEVVKNFFDALKNGDYEKAYAYLSPESR 37 (111)
T ss_dssp ---HHHHHHHHHHHHCTT-HHHHHHTB--TT-
T ss_pred CCCHHHHHHHHHHHHHcCCHHHHHHhhCcccc
Confidence 56788999999999999999999999999964
No 30
>PF02136 NTF2: Nuclear transport factor 2 (NTF2) domain; InterPro: IPR002075 Nuclear transport factor 2 (NTF2) is a homodimer which stimulates efficient nuclear import of a cargo protein. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins. NTF2 folds into a cone with a deep hydrophobic cavity, the opening of which is surrounded by several negatively charged residues. RanGDP binds to NTF2 by inserting a conserved phenylalanine residue into the hydrophobic pocket of NTF2 and making electrostatic interactions with the conserved negatively charged residues that surround the cavity []. This entry represent the main structural domain of NTF2 and related domains which are found in other nuclear import proteins.; GO: 0006810 transport, 0005622 intracellular; PDB: 3UJM_B 1JKG_B 1JN5_B 1M98_A 3MG1_A 3MG2_A 3MG3_B 2Z76_A 2Z7A_D 2Z77_A ....
Probab=92.09 E-value=1.6 Score=30.67 Aligned_cols=49 Identities=20% Similarity=0.454 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccCCeEEE-ecCC-C--cHHHHHHHHhcCCC
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTSDLEWW-FHGP-P--GHQHLMHMLTGSSS 69 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~Dvvw~-~~gp-~--G~~~~~~~l~~~~~ 69 (171)
...+++||+++.+||.+.+.+++++|.... .+|. . |++.+.+++.....
T Consensus 3 ~~Fv~~Yy~~~d~~~~~~L~~~Y~~~~s~~~~~~~~~~~G~~~I~~~~~~l~~ 55 (118)
T PF02136_consen 3 NSFVQQYYQLFDSGDREGLHKLYHDDASFLTWNGNRPVVGREAIQEFFQSLPA 55 (118)
T ss_dssp HHHHHHHHHHHHHTHGGGGGGGEEEEEEEEEETTECEEESHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHccCCHHHHHHHHcCCCeeecCCCchhhhhHHHHHHHHhcCCC
Confidence 467899999999999999999997776544 4444 3 88888888877654
No 31
>PRK10069 3-phenylpropionate dioxygenase subunit beta; Provisional
Probab=90.89 E-value=6.3 Score=30.59 Aligned_cols=32 Identities=13% Similarity=0.154 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccCCeEEEec
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTSDLEWWFH 52 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~ 52 (171)
.+++.++-..+.++|++.+.++|+||+.++.|
T Consensus 23 ~~~l~~eA~lLD~~d~~~Wl~lft~D~~Y~~P 54 (183)
T PRK10069 23 SQFLYREARLLDEWRYDDWLALLAEDIHYTMP 54 (183)
T ss_pred HHHHHHHHHHhchhhHHHHHHhhccccEEEcc
Confidence 34455555668999999999999999998865
No 32
>cd00667 ring_hydroxylating_dioxygenases_beta Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the substrate by nonheme iron-containing dioxygenases. These enzymes consist of two or three soluble proteins that interact to form an electron-transport chain that transfers electrons from reduced nucleotides (NADH) via flavin and [2Fe-2S] redox centers to a terminal dioxygenase. Aromatic-ring-hydroxylating dioxygenases oxidize aromatic hydrocarbons and related compounds to cis-arene diols. These enzymes utilize a mononuclear non-heme iron center to catalyze the addition of dioxygen to their respective substrates. The active site of these enzymes however is in the alpha sub-unit. No functional role has been attributed to the beta sub-unit except for a structural role.
Probab=89.64 E-value=0.49 Score=35.55 Aligned_cols=34 Identities=12% Similarity=0.137 Sum_probs=28.8
Q ss_pred HHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecC
Q 037228 20 NIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHG 53 (171)
Q Consensus 20 n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~g 53 (171)
-.+++-+|-.++..+|++.+.++|+||++++.++
T Consensus 6 I~~ll~~ya~~LD~~~~~~w~~lft~D~~y~~~~ 39 (160)
T cd00667 6 VEQFLYREARLLDDRRWDEWLALFAEDCHYWVPA 39 (160)
T ss_pred HHHHHHHHHHHhcccCHHHHHHhhccccEEEcce
Confidence 3466677778899999999999999999988764
No 33
>cd00780 NTF2 Nuclear transport factor 2 (NTF2) domain plays an important role in the trafficking of macromolecules, ions and small molecules between the cytoplasm and nucleus. This bi-directional transport of macromolecules across the nuclear envelope requires many soluble factors that includes GDP-binding protein Ran (RanGDP). RanGDP is required for both import and export of proteins and poly(A) RNA. RanGDP also has been implicated in cell cycle control, specifically in mitotic spindle assembly. In interphase cells, RanGDP is predominately nuclear and thought to be GTP bound, but it is also present in the cytoplasm, probably in the GDP-bound state. NTF2 mediates the nuclear import of RanGDP. NTF2 binds to both RanGDP and FxFG repeat-containing nucleoporins.
Probab=86.98 E-value=8.9 Score=27.21 Aligned_cols=48 Identities=17% Similarity=0.256 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecC-CC--cHHHHHHHHhcCC
Q 037228 20 NIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHG-PP--GHQHLMHMLTGSS 68 (171)
Q Consensus 20 n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~g-p~--G~~~~~~~l~~~~ 68 (171)
..+-|++||..+. .+.+.+..+++++..+...| .. |.+.+...+....
T Consensus 6 ~~~Fv~~YY~~l~-~~~~~L~~fY~~~s~~~~~~~~~~~g~~~I~~~l~~lp 56 (119)
T cd00780 6 AKAFVQQYYSIFD-NNREGLHRLYGDTSMLSREGMKQVTGRDAIVEKLSSLP 56 (119)
T ss_pred HHHHHHHHHHHHh-cCHHHHHhhcCCCcEEEECCceEecCHHHHHHHHHhCC
Confidence 4578999999999 78999999999999888887 33 8888888887765
No 34
>TIGR03231 anthran_1_2_B anthranilate 1,2-dioxygenase, small subunit. Anthranilate (2-aminobenzoate) is an intermediate of tryptophan (Trp) biosynthesis and degradation. Members of this family are the small subunit of anthranilate 1,2-dioxygenase, which acts in Trp degradation by converting anthranilate to catechol. Closely related paralogs typically are the benzoate 1,2-dioxygenase small subunit, among the larger set of ring-hydroxylating dioxygenases.
Probab=85.20 E-value=1.3 Score=33.76 Aligned_cols=31 Identities=13% Similarity=0.120 Sum_probs=25.9
Q ss_pred HHHHHHHHHhcCCHHHHHhhccCCeEEEecC
Q 037228 23 VVKTLYDALNSFDVKTVHRLLTSDLEWWFHG 53 (171)
Q Consensus 23 vV~~~~~A~~~gD~da~~~lla~Dvvw~~~g 53 (171)
.+-++-..+.+++++.+.++|+||+.+++|.
T Consensus 4 ~l~~ea~llD~~~~~~W~~lf~~d~~Y~vP~ 34 (155)
T TIGR03231 4 FLYRKAELCDAQDWDAYLDLFDEDSEFHLPQ 34 (155)
T ss_pred HHHHHHHHhcccCHHHHHHHhCcCceEEeec
Confidence 4445556689999999999999999999975
No 35
>TIGR03232 benzo_1_2_benB benzoate 1,2-dioxygenase, small subunit. Benzoate 1,2-dioxygenase (EC 1.14.12.10) belongs to the larger family of aromatic ring-hydroxylating dioxygenases. Members of this family should all act on benzoate, but several have additional known activities on various benozate analogs. Some members actually may be named more suitably according to such alternate an activity, such as 2-chlorobenzoate 1,2-dioxygenase (1.14.12.13).
Probab=80.12 E-value=1.7 Score=33.12 Aligned_cols=23 Identities=13% Similarity=0.283 Sum_probs=21.4
Q ss_pred HhcCCHHHHHhhccCCeEEEecC
Q 037228 31 LNSFDVKTVHRLLTSDLEWWFHG 53 (171)
Q Consensus 31 ~~~gD~da~~~lla~Dvvw~~~g 53 (171)
+.+++++.+.+||+||+.+++|.
T Consensus 12 LD~~~~~eWl~L~~eD~~Y~vP~ 34 (155)
T TIGR03232 12 LDDEQWDDWLECYRADASFWMPA 34 (155)
T ss_pred hhhhhHHHHHHhcccCeEEEEEe
Confidence 78999999999999999999886
No 36
>PF05223 MecA_N: NTF2-like N-terminal transpeptidase domain; InterPro: IPR007887 The multiple antibiotic resistance of methicillin-resistant strains of Staphylococcus aureus (MRSA) has become a major clinical problem worldwide. Methicillin resistance in MRSA strains is due to the acquisition of the mecA gene via horizontal transfer from an unidentified species which encodes penicillin-binding protein 2a (PBP2a). The structure of the N-terminal domain from MecA is known [] Q53707 from SWISSPROT and is found to be similar to that found in NTF2 IPR002075 from INTERPRO. The length of the PBP2A N-terminal domain (which positions the transpeptidase active site more than 100A from the expected C terminus of the transmembrane anchor) suggests a possible structural role and potentially gives the transpeptidase domain substantial reach from the cell membrane. This domain seems unlikely to have an enzymatic function.; GO: 0046677 response to antibiotic; PDB: 1MWS_B 1MWT_B 1MWR_A 1MWU_A 1VQQ_A.
Probab=79.61 E-value=2.2 Score=30.59 Aligned_cols=101 Identities=9% Similarity=0.032 Sum_probs=48.5
Q ss_pred hHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC-cHHH----HHHHHhcCCCCCCCcceeEEEEeEEE-EeCCEEE
Q 037228 19 YNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP-GHQH----LMHMLTGSSSSSEDKRCFTFVPLSTV-AFGPTVI 92 (171)
Q Consensus 19 ~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~-G~~~----~~~~l~~~~~~~~~~~~~~~~~~~vi-a~Gd~Vv 92 (171)
.+.+.+++|+++|++||.+++.+++++.. ... ..+. +...+.++.. ..+.++..... .+++...
T Consensus 2 ~p~~~~~~f~~aw~~~dy~~m~~~~~~~~-----k~~~s~~~~~~~~~~i~~~l~~-----~~l~v~~~~~~~~~~~~~~ 71 (118)
T PF05223_consen 2 SPEETAEAFLEAWEKGDYAAMYELTSDPS-----KSQYSKEDFVERYQNIYEGLGA-----ENLKVEAEKVKKDEDDTAT 71 (118)
T ss_dssp ---HHHHHHHHHHHTT-HHHHHHTB-HHH-----HHHHHHHHHHTHHHHHHHHHT-------EEEEEEEEEEECCTTEEE
T ss_pred CHHHHHHHHHHHHHcCCHHHHHHhhchhh-----hccccHHHHHHHHHHHHhhCCc-----cceEEEeccceecCCCceE
Confidence 46789999999999999999999988773 100 1222 2223333321 24455444433 3345544
Q ss_pred EEEEe-----CceeeeEEEEEEE--eCCeEEEEEEecChHHHHHHhC
Q 037228 93 VEGHS-----KEHSVSWVHAWTV--TDGIITQVREYFNTSVTVTRFG 132 (171)
Q Consensus 93 veg~~-----~g~~~~~v~vf~v--~DGkI~~~~~Y~Dt~~~~~~lg 132 (171)
+-.+. .|....+...+++ .+|. |+.-++|..++..|+
T Consensus 72 ~~~~~~~~t~~g~~~~~~~~~~l~~~~~~---W~V~W~ps~I~P~L~ 115 (118)
T PF05223_consen 72 VPYTVTMDTPAGGIWTYNYTLTLVKEDDD---WKVDWDPSLIFPGLK 115 (118)
T ss_dssp EEEEEEEEETTEEE-EEEEEEEEEEETTC---EEE---GGGTSTT--
T ss_pred EEEEEEEEeCCCCceeeEEEEEEEecCCc---EEEEeCccCCCCCCC
Confidence 43332 2222232233444 3444 777788888877775
No 37
>PF00866 Ring_hydroxyl_B: Ring hydroxylating beta subunit; InterPro: IPR000391 The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the substrate by nonhaem iron-containing dioxygenases. These enzymes consist of two or three soluble proteins that interact to form an electron-transport chain that transfers electrons from reduced nucleotides (NADH) via flavin and [2Fe-2S] redox centres to a terminal dioxygenase []. Aromatic-ring-hydroxylating dioxygenases oxidise aromatic hydrocarbons and related compounds to cis-arene diols. These enzymes utilise a mononuclear non-haem iron centre to catalyse the addition of dioxygen to their respective substrates. Naphthalene 1,2-dioxygenase (NDO) from Pseudomonas sp. NCIB9816-4 has a domain structure and iron coordination of the Rieske domain is very similar to that of the cytochrome bc1 domain. The active-site iron centre of one of the alpha subunits is directly connected by hydrogen bonds through a single amino acid, Asp205, to the Rieske [2Fe-2S] centre in a neighbouring alpha subunit. This may be the main route for electron transfer [].; GO: 0003824 catalytic activity, 0006725 cellular aromatic compound metabolic process, 0055114 oxidation-reduction process; PDB: 1ULJ_B 1ULI_D 1WQL_B 2GBX_D 2GBW_B 2XSH_D 2XR8_X 2XRX_V 2YFL_B 2YFJ_J ....
Probab=73.13 E-value=2.7 Score=31.40 Aligned_cols=24 Identities=21% Similarity=0.362 Sum_probs=20.9
Q ss_pred HHhcCCHHHHHhhccCCeEEEecC
Q 037228 30 ALNSFDVKTVHRLLTSDLEWWFHG 53 (171)
Q Consensus 30 A~~~gD~da~~~lla~Dvvw~~~g 53 (171)
.+.+++++.+.+||+||+.+++|.
T Consensus 5 lLD~~~~~eWl~l~~~D~~Y~vp~ 28 (145)
T PF00866_consen 5 LLDERRYDEWLALFTEDCHYWVPA 28 (145)
T ss_dssp HHHTT-HHHHHHTEEEEEEEEEEE
T ss_pred HhhhhHHHHHHHHhccCeEEEEEe
Confidence 478899999999999999999885
No 38
>PLN02382 probable sucrose-phosphatase
Probab=68.94 E-value=74 Score=27.99 Aligned_cols=76 Identities=11% Similarity=0.027 Sum_probs=44.9
Q ss_pred HHHHHH--HHHHHHhcCC-------HHHHHhhccCCeEEEecCCC--cHHHHHHHHhcCCCCCCCcceeEEEEeEEE---
Q 037228 20 NIRVVK--TLYDALNSFD-------VKTVHRLLTSDLEWWFHGPP--GHQHLMHMLTGSSSSSEDKRCFTFVPLSTV--- 85 (171)
Q Consensus 20 n~evV~--~~~~A~~~gD-------~da~~~lla~Dvvw~~~gp~--G~~~~~~~l~~~~~~~~~~~~~~~~~~~vi--- 85 (171)
-.++|+ .+|+.|-+|+ ++++++.|+|+++...|.+. ...+....|+...-.+. ...+++.++++.
T Consensus 284 ~~evv~~~~~~e~W~~~~~~~~~~~~~~l~~~~~p~~~~v~p~G~~~~~~~~~~~~~~~~G~~~-g~~~~i~vd~~~~~~ 362 (413)
T PLN02382 284 AHEVVKFYLFYEKWRRGEVENSDEVFQRLKSSCAPNGVFVHPSGVEKSLHDSIDELRSCYGDKK-GKKFRVWVDRVLSTQ 362 (413)
T ss_pred HHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHhcCCCeeEECCCcccCCHHHHHHHHHHhhCCCC-CCEEEEEEeeEEEEE
Confidence 556665 5567788876 67899999999998877543 33444444444333211 112666554443
Q ss_pred EeCCEEEEEEE
Q 037228 86 AFGPTVIVEGH 96 (171)
Q Consensus 86 a~Gd~Vvveg~ 96 (171)
...+.++|...
T Consensus 363 ~~~~~~~v~~~ 373 (413)
T PLN02382 363 LGPDTWLVKFD 373 (413)
T ss_pred EcCCeEEEEEe
Confidence 33466666543
No 39
>COG4875 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]
Probab=67.30 E-value=50 Score=24.65 Aligned_cols=32 Identities=28% Similarity=0.253 Sum_probs=23.2
Q ss_pred hHHHHHHHHHH----HHhcCCHHHHHhhccCCeEEE
Q 037228 19 YNIRVVKTLYD----ALNSFDVKTVHRLLTSDLEWW 50 (171)
Q Consensus 19 ~n~evV~~~~~----A~~~gD~da~~~lla~Dvvw~ 50 (171)
..++-|.++|+ ++..||.+.+.+.++||.+.-
T Consensus 34 ~t~~~vAaLFdrWN~~L~TGdP~kV~anyApDaVLL 69 (156)
T COG4875 34 VTEREVAALFDRWNAALTTGDPNKVAANYAPDAVLL 69 (156)
T ss_pred ccHHHHHHHHHHHHhhhhcCChHHHHhhcCCceEee
Confidence 33444445554 456899999999999998754
No 40
>PF11006 DUF2845: Protein of unknown function (DUF2845); InterPro: IPR021268 This bacterial family of proteins has no known function.
Probab=66.75 E-value=12 Score=25.52 Aligned_cols=19 Identities=11% Similarity=0.358 Sum_probs=15.6
Q ss_pred eeEEEEEEEeCCeEEEEEE
Q 037228 102 VSWVHAWTVTDGIITQVRE 120 (171)
Q Consensus 102 ~~~v~vf~v~DGkI~~~~~ 120 (171)
..++.+++|+|||+++++.
T Consensus 67 ~~~~~~l~f~~Gkl~~I~~ 85 (87)
T PF11006_consen 67 NGFMQILTFENGKLVRIES 85 (87)
T ss_pred CCcEEEEEEECCEEEEEEe
Confidence 4556789999999999864
No 41
>COG4395 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.50 E-value=14 Score=31.12 Aligned_cols=25 Identities=28% Similarity=0.360 Sum_probs=19.4
Q ss_pred HHHHHHHHHhcCCHHHHHhhccCCe
Q 037228 23 VVKTLYDALNSFDVKTVHRLLTSDL 47 (171)
Q Consensus 23 vV~~~~~A~~~gD~da~~~lla~Dv 47 (171)
..+..-.+|..+|.+++..|++|++
T Consensus 159 a~~~Iq~a~~~~D~~tL~~L~tpev 183 (281)
T COG4395 159 AYEMIQQAYGAGDRKTLRELLTPEV 183 (281)
T ss_pred HHHHHHHHhhhccHHHHHHhcCHHH
Confidence 3334445678899999999999996
No 42
>COG5517 Small subunit of phenylpropionate dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=54.06 E-value=14 Score=28.39 Aligned_cols=24 Identities=17% Similarity=0.300 Sum_probs=22.3
Q ss_pred HHhcCCHHHHHhhccCCeEEEecC
Q 037228 30 ALNSFDVKTVHRLLTSDLEWWFHG 53 (171)
Q Consensus 30 A~~~gD~da~~~lla~Dvvw~~~g 53 (171)
.+..+|++++.++|.+++.+++|+
T Consensus 20 llDd~dwd~Wla~f~e~~~y~m~~ 43 (164)
T COG5517 20 LLDDRDWDAWLAQFDEQAEYWMPP 43 (164)
T ss_pred HhccccHHHHHHHHHhhheEeCCc
Confidence 478999999999999999999886
No 43
>COG4460 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.46 E-value=65 Score=23.55 Aligned_cols=68 Identities=7% Similarity=-0.014 Sum_probs=39.1
Q ss_pred HHHHHHhcCCHHHHHhhccCCeEEEecCCC--cHHHHHHHHhcCCCCCCCcceeEEEE--eEEEEeC-CEEEEEEE
Q 037228 26 TLYDALNSFDVKTVHRLLTSDLEWWFHGPP--GHQHLMHMLTGSSSSSEDKRCFTFVP--LSTVAFG-PTVIVEGH 96 (171)
Q Consensus 26 ~~~~A~~~gD~da~~~lla~Dvvw~~~gp~--G~~~~~~~l~~~~~~~~~~~~~~~~~--~~via~G-d~Vvveg~ 96 (171)
.++.+-..+-+|++..-|++|++.+.|++- .+.++..+++....- ..++.+.+ .+..+++ |.+++.++
T Consensus 18 dWl~~~~adtldal~arfaedftMitP~GviLD~~Alg~~frs~rac---rpGl~I~ie~i~l~a~~~dga~l~Yr 90 (130)
T COG4460 18 DWLVAARADTLDALRARFAEDFTMITPSGVILDRDALGDHFRSSRAC---RPGLAISIEDIRLGAQTEDGAVLLYR 90 (130)
T ss_pred HHHHhcccccHHHHHHHHhcCceEecCCceEeccHHHHHHHHhccCC---CCCeEEEEecccccccCCCceeeeeh
Confidence 334443456689999999999998877654 455666665543321 12444444 4445554 44545443
No 44
>PF04280 Tim44: Tim44-like domain; InterPro: IPR007379 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane []. Tim44 is thought to bind phospholipids of the mitochondrial inner membrane both by electrostatic interactions and by penetrating the polar head group region [].; GO: 0015450 P-P-bond-hydrolysis-driven protein transmembrane transporter activity, 0006886 intracellular protein transport, 0005744 mitochondrial inner membrane presequence translocase complex; PDB: 2CW9_A 2FXT_A 3QK9_A.
Probab=43.15 E-value=13 Score=27.26 Aligned_cols=28 Identities=21% Similarity=0.281 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHhcCCHHHHHhhccCCe
Q 037228 20 NIRVVKTLYDALNSFDVKTVHRLLTSDL 47 (171)
Q Consensus 20 n~evV~~~~~A~~~gD~da~~~lla~Dv 47 (171)
-++....+.+||.+||.+.+..+++|++
T Consensus 24 ak~~f~~i~~A~~~~D~~~l~~~~t~~~ 51 (147)
T PF04280_consen 24 AKEAFLPIQEAWAKGDLEALRPLLTEEL 51 (147)
T ss_dssp HHHTHHHHHHHHHHT-HHHHHHHB-HHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHhCHHH
Confidence 4556667778999999999999999985
No 45
>PF11453 DUF2950: Protein of unknown function (DUF2950); InterPro: IPR021556 This is a bacterial family of uncharacterised proteins.
Probab=41.85 E-value=44 Score=27.97 Aligned_cols=49 Identities=14% Similarity=0.112 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC-cHHHHHHHHhcC
Q 037228 19 YNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP-GHQHLMHMLTGS 67 (171)
Q Consensus 19 ~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~-G~~~~~~~l~~~ 67 (171)
++.+.+.+|-+|+.++|.+++.++|-+|..-..|+.. ..+.+.+|+...
T Consensus 6 tPe~Aa~Al~~Av~~~d~~aL~~vLG~~~~~~vp~~~~d~~~~~~Fl~~w 55 (271)
T PF11453_consen 6 TPEAAADALVDAVATNDEDALAKVLGPDWRDLVPSGGADREDRYRFLRAW 55 (271)
T ss_pred CHHHHHHHHHHHHhcCCHHHHHHHhCccHHhccCCCCccHHHHHHHHHHH
Confidence 5677889999999999999999999999765555433 455566665544
No 46
>KOG4353 consensus RNA export factor NXT1 [RNA processing and modification]
Probab=40.74 E-value=1.1e+02 Score=22.82 Aligned_cols=58 Identities=17% Similarity=0.297 Sum_probs=42.0
Q ss_pred CcccCCccchHHHHHHHHHHHHhcCCHHHHHhhccCCeEEEecCCC--cHHHHHHHHhcCC
Q 037228 10 KASVDNEDEYNIRVVKTLYDALNSFDVKTVHRLLTSDLEWWFHGPP--GHQHLMHMLTGSS 68 (171)
Q Consensus 10 ~~~~~~~~~~n~evV~~~~~A~~~gD~da~~~lla~Dvvw~~~gp~--G~~~~~~~l~~~~ 68 (171)
|.-+|++-...++.++.||+.+..+ -.++..|+-+.....-.|.+ |.+.+..++....
T Consensus 6 k~~ves~cr~A~eFv~~YY~smD~r-R~~i~rlY~~~atlvWNGn~v~g~esls~ff~~LP 65 (139)
T KOG4353|consen 6 KTYVESACRAAEEFVNVYYSSMDKR-RRGIGRLYLDNATLVWNGNPVSGTESLSEFFNMLP 65 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHhhccceEEEcCCcchhHHHHHHHHHhCC
Confidence 4456777778899999999998753 45788899998866666643 7776666665443
No 47
>TIGR03721 exospore_TM BclB C-terminal domain. This domain occurs as the C-terminal region in a number of proteins that have extensive collagen-like triple helix repeat regions. Member domains are predicted by TmHMM to have four or five transmembrane helices. Members are found mostly in the Firmicutes, but also in Acanthamoeba polyphaga mimivirus. Members include spore surface glycoprotein BclB from Bacillus anthracis, a protein of the exosporium. The exosporium is an additional outermost spore layer, lacking in B. subtilis and most other spore formers, consisting of a basal layer and, above it, a nap of fine filaments.
Probab=39.10 E-value=14 Score=28.46 Aligned_cols=41 Identities=29% Similarity=0.529 Sum_probs=28.8
Q ss_pred EEE-eCCeEEEEEEecChHHHHHHhCC---CCCCCCCCCCccCCC
Q 037228 108 WTV-TDGIITQVREYFNTSVTVTRFGD---PQLLSSPVAPVTVSS 148 (171)
Q Consensus 108 f~v-~DGkI~~~~~Y~Dt~~~~~~lg~---p~~~~~~~~~~~~~~ 148 (171)
|.+ |||.|+.+-.||..-.....+|. -.+|.++.++||+=.
T Consensus 53 F~~PRdG~ITSiaa~Fs~T~alsl~gtiti~aQly~apa~sN~FT 97 (165)
T TIGR03721 53 FSMPRDGIITSLAAYFSATAALALLGPVTITAQLYIAPAPSNVFT 97 (165)
T ss_pred EecCCCcEEEEEEEeeEeeehhhccccEEEEEEEEeccCCCCccc
Confidence 445 99999999999998755556653 456666666665543
No 48
>COG5439 Uncharacterized conserved protein [Function unknown]
Probab=36.73 E-value=15 Score=26.08 Aligned_cols=26 Identities=35% Similarity=0.451 Sum_probs=20.8
Q ss_pred cCCCCCceeeeee-cCC-CCCccceeee
Q 037228 145 TVSSSCQSVWQSK-LCD-NNSVPGLVLA 170 (171)
Q Consensus 145 ~~~~~~~~~~~~~-~~~-~~~~~~~~~~ 170 (171)
.|.-++...||+| +|| .---|||||-
T Consensus 83 vvrGs~~ipWQ~KSLpNLkkLhP~l~L~ 110 (112)
T COG5439 83 VVRGSKNIPWQMKSLPNLKKLHPDLTLE 110 (112)
T ss_pred EEecCCCCcchhccccchHhhCCCceEe
Confidence 3556778899999 999 7778899874
No 49
>PF10437 Lip_prot_lig_C: Bacterial lipoate protein ligase C-terminus; InterPro: IPR019491 This is the C-terminal domain of a bacterial lipoate protein ligase. There is no conservation between this C terminus and that of vertebrate lipoate protein ligase C-termini, but both are associated with IPR004143 from INTERPRO, further upstream. This C-terminal domain is more stable than IPR004143 from INTERPRO and the hypothesis is that the C-terminal domain has a role in recognising the lipoyl domain and/or transferring the lipoyl group onto it from the lipoyl-AMP intermediate. C-terminal fragments of length 172 to 193 amino acid residues are observed in the eubacterial enzymes whereas in their archaeal counterparts the C-terminal segment is significantly smaller, ranging in size from 87 to 107 amino acid residues. ; PDB: 1X2G_A 3A7R_A 3A7A_A 1X2H_C 1VQZ_A 3R07_C.
Probab=36.55 E-value=1.3e+02 Score=19.98 Aligned_cols=18 Identities=28% Similarity=0.482 Sum_probs=15.7
Q ss_pred EEEEeCCeEEEEEEecCh
Q 037228 107 AWTVTDGIITQVREYFNT 124 (171)
Q Consensus 107 vf~v~DGkI~~~~~Y~Dt 124 (171)
-+.+++|+|..++-|.|-
T Consensus 21 ~~~V~~G~I~~i~i~gDf 38 (86)
T PF10437_consen 21 HLNVKNGIIKDIKIYGDF 38 (86)
T ss_dssp EEEEETTEEEEEEEEECB
T ss_pred EEEEECCEEEEEEEECCC
Confidence 478999999999999883
No 50
>PF06594 HCBP_related: Haemolysin-type calcium binding protein related domain; InterPro: IPR010566 This family consists of a number of bacteria specific domains, which are found in haemolysin-type calcium binding proteins. This family is found in conjunction with IPR001343 from INTERPRO and is often found in multiple copies.
Probab=35.89 E-value=90 Score=18.06 Aligned_cols=33 Identities=9% Similarity=0.158 Sum_probs=22.4
Q ss_pred EEEeCCEEEEEEEeCceeeeEEEEEEEeCCeEE
Q 037228 84 TVAFGPTVIVEGHSKEHSVSWVHAWTVTDGIIT 116 (171)
Q Consensus 84 via~Gd~Vvveg~~~g~~~~~v~vf~v~DGkI~ 116 (171)
+...+|.+.+...+.+.....+.-++|.||.+-
T Consensus 6 i~~s~d~iti~~~f~~~~~~~Ie~i~FaDGt~w 38 (43)
T PF06594_consen 6 IKGSGDSITIKNWFSSDGSYRIEQIEFADGTVW 38 (43)
T ss_pred EcCCCcEEEEeeeECccCCCcEeEEEEcCCCEe
Confidence 344568888877665543445678899999764
No 51
>PF11058 Ral: Antirestriction protein Ral ; InterPro: IPR022759 Ral alleviates restriction and enhances modification by the E.coli restriction and modification system [].
Probab=31.14 E-value=11 Score=23.87 Aligned_cols=25 Identities=16% Similarity=0.244 Sum_probs=22.1
Q ss_pred EEeCCeEEEEEEecChHHHHHHhCC
Q 037228 109 TVTDGIITQVREYFNTSVTVTRFGD 133 (171)
Q Consensus 109 ~v~DGkI~~~~~Y~Dt~~~~~~lg~ 133 (171)
-.+||||+.-|....++.+++.||-
T Consensus 36 v~edgk~vdkwairttamiarelgk 60 (66)
T PF11058_consen 36 VMEDGKYVDKWAIRTTAMIARELGK 60 (66)
T ss_pred ecccCchhhhHHHHHHHHHHHHHHh
Confidence 3489999999999999999999885
No 52
>PF10055 DUF2292: Uncharacterized small protein (DUF2292); InterPro: IPR018743 Members of this family of hypothetical bacterial proteins have no known function.
Probab=29.78 E-value=77 Score=18.46 Aligned_cols=13 Identities=23% Similarity=0.501 Sum_probs=10.1
Q ss_pred EEEEeCCeEEEEE
Q 037228 107 AWTVTDGIITQVR 119 (171)
Q Consensus 107 vf~v~DGkI~~~~ 119 (171)
.+.+.||+|+++.
T Consensus 19 ~iiiqdG~vvQIe 31 (38)
T PF10055_consen 19 TIIIQDGRVVQIE 31 (38)
T ss_pred EEEEECCEEEEEE
Confidence 4678999998874
No 53
>COG0268 RpsT Ribosomal protein S20 [Translation, ribosomal structure and biogenesis]
Probab=28.28 E-value=76 Score=22.02 Aligned_cols=25 Identities=16% Similarity=0.171 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHhcCCHHHHHhhccC
Q 037228 21 IRVVKTLYDALNSFDVKTVHRLLTS 45 (171)
Q Consensus 21 ~evV~~~~~A~~~gD~da~~~lla~ 45 (171)
+..|+.|..++..||.|...++|..
T Consensus 29 rT~iKk~~~ai~~gd~~~A~~~l~~ 53 (88)
T COG0268 29 RTAIKKVEAAIEAGDKEAAKAALKE 53 (88)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHH
Confidence 4688999999999999988887764
No 54
>TIGR00984 3a0801s03tim44 mitochondrial import inner membrane, translocase subunit. translocase (Tom) import receptor, five proteins of the Tom channel complex, five proteins of the inner membrane translocase (Tim) and three "motor" proteins. This family is specific for the Tim proteins.
Probab=28.09 E-value=38 Score=29.74 Aligned_cols=25 Identities=12% Similarity=0.178 Sum_probs=22.1
Q ss_pred HHHHHHHHHhcCCHHHHHhhccCCe
Q 037228 23 VVKTLYDALNSFDVKTVHRLLTSDL 47 (171)
Q Consensus 23 vV~~~~~A~~~gD~da~~~lla~Dv 47 (171)
++....+||..||.+.+..+|++++
T Consensus 254 I~p~ILeAf~kGD~e~LK~~lse~v 278 (378)
T TIGR00984 254 IVPEILEAYVKGDLEVLKSWCSEAP 278 (378)
T ss_pred HHHHHHHHHHcCCHHHHHHhhCHHH
Confidence 3577789999999999999999994
No 55
>PF02607 B12-binding_2: B12 binding domain; InterPro: IPR003759 Cobalamin-dependent methionine synthase (2.1.1.13 from EC) is a large modular protein that catalyses methyl transfer from methyltetrahydrofolate (CH3-H4folate) to homocysteine. During the catalytic cycle, it supports three distinct methyl transfer reactions, each involving the cobalamin (vitamin B12) cofactor and a substrate bound to its own functional unit []. The cobalamin cofactor plays an essential role in this reaction, accepting the methyl group from CH3-H4folate to form methylcob(III)alamin, and in turn donating the methyl group to homocysteine to generate methionine and cob(I)alamin. Methionine synthase is a large enzyme composed of four structurally and functionally distinct modules: the first two modules bind homocysteine and CH3-H4folate, the third module binds the cobalamin cofactor and the C-terminal module binds S-adenosylmethionine. The cobalamin-binding module is composed of two structurally distinct domains: a 4-helical bundle cap domain (residues 651-740 in the Escherichia coli enzyme) and an alpha/beta B12-binding domain (residues 741-896) (IPR006158 from INTERPRO). The 4-helical bundle forms a cap over the alpha/beta domain, which acts to shield the methyl ligand of cobalamin from solvent []. Furthermore, in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO). The alpha/beta domain is a common cobalamin-binding motif, whereas the 4-helical bundle domain with its methyl cap is a distinctive feature of methionine synthases. This entry represents the 4-helical bundle cap domain. This domain is also present in other shorter proteins that bind to B12, and is always found N terminus to the alpha/beta B12-binding domain.; GO: 0008705 methionine synthase activity, 0031419 cobalamin binding, 0046872 metal ion binding, 0009086 methionine biosynthetic process; PDB: 3EZX_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 2I2X_P.
Probab=24.67 E-value=53 Score=21.17 Aligned_cols=25 Identities=28% Similarity=0.347 Sum_probs=18.9
Q ss_pred HHHHHHHHHHhcCCHHHHHhhccCC
Q 037228 22 RVVKTLYDALNSFDVKTVHRLLTSD 46 (171)
Q Consensus 22 evV~~~~~A~~~gD~da~~~lla~D 46 (171)
++++++++++.+||.+.+.+++..=
T Consensus 3 ~~~~~l~~al~~~d~~~~~~~~~~~ 27 (79)
T PF02607_consen 3 ELIERLLDALLAGDEEEAEALLEEA 27 (79)
T ss_dssp HHHHHHHHHHHTT-CCHHHHHHHHH
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 5788999999999988777665544
No 56
>PF08265 YL1_C: YL1 nuclear protein C-terminal domain; InterPro: IPR013272 This domain is found at the C terminus in proteins of the YL1 family []. These proteins have been shown to be DNA-binding and may be transcription factors []. This domain is also found in proteins that do not belong to the YL1 family.
Probab=23.21 E-value=44 Score=18.39 Aligned_cols=18 Identities=11% Similarity=0.041 Sum_probs=12.3
Q ss_pred ceeeeee-cCC-CCCccceee
Q 037228 151 QSVWQSK-LCD-NNSVPGLVL 169 (171)
Q Consensus 151 ~~~~~~~-~~~-~~~~~~~~~ 169 (171)
-|.+ .+ .+. +||+|||--
T Consensus 2 ~C~i-TglpA~Y~DP~T~l~Y 21 (30)
T PF08265_consen 2 YCDI-TGLPARYRDPKTGLPY 21 (30)
T ss_pred cccc-cCCCccccCCCCCCcc
Confidence 3556 45 556 999999853
No 57
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=22.85 E-value=1.5e+02 Score=21.67 Aligned_cols=24 Identities=25% Similarity=0.261 Sum_probs=21.2
Q ss_pred eeeEEEEEEEeCCeEEEEEEecCh
Q 037228 101 SVSWVHAWTVTDGIITQVREYFNT 124 (171)
Q Consensus 101 ~~~~v~vf~v~DGkI~~~~~Y~Dt 124 (171)
+.++..+++++||.|..++-+.++
T Consensus 22 rap~F~Ivd~e~g~i~~vev~~np 45 (121)
T COG1433 22 RAPYFTIVDVEDGEIKNVEVIENP 45 (121)
T ss_pred CCceEEEEEecCCcEEEEEEeecc
Confidence 566668899999999999999998
No 58
>PF14759 Reductase_C: Reductase C-terminal; PDB: 3FG2_P 3LXD_A 2YVG_A 2GR1_A 2GQW_A 2GR3_A 2YVF_A 1F3P_A 2GR0_A 2GR2_A ....
Probab=21.70 E-value=2.5e+02 Score=18.58 Aligned_cols=51 Identities=12% Similarity=0.090 Sum_probs=33.5
Q ss_pred eeEEEEeEEEEeCCEEEEEEEeCceeeeEEEEEEEeCCeEEEEEEecChHHHHH
Q 037228 76 CFTFVPLSTVAFGPTVIVEGHSKEHSVSWVHAWTVTDGIITQVREYFNTSVTVT 129 (171)
Q Consensus 76 ~~~~~~~~via~Gd~Vvveg~~~g~~~~~v~vf~v~DGkI~~~~~Y~Dt~~~~~ 129 (171)
+.++.+......++.+++++..... .|+. |-++||+++..-..-.+..+..
T Consensus 8 ~~~iq~~G~~~~~~~~v~rg~~~~~--~~~~-~y~~~g~lva~~~vn~~~~~~~ 58 (85)
T PF14759_consen 8 GVRIQIAGLPGGADEVVVRGDPESG--KFVA-FYLRDGRLVAAVSVNRPRDLRA 58 (85)
T ss_dssp TEEEEEEE-STTSSEEEEEEETTTT--EEEE-EEEETTEEEEEEEES-HHHHHH
T ss_pred CCeEEEEECCCCCCEEEEEccCCCC--cEEE-EEEcCCEEEEEEecCCHHHHHH
Confidence 3466666666667888888875533 3334 4449999999998887765543
Done!