Query 038880
Match_columns 276
No_of_seqs 136 out of 337
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 04:11:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038880.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038880hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN00179 acyl- [acyl-carrier p 100.0 1E-109 2E-114 788.2 26.4 276 1-276 100-390 (390)
2 PF03405 FA_desaturase_2: Fatt 100.0 4.8E-99 1E-103 710.5 12.9 273 1-274 43-330 (330)
3 cd01050 Acyl_ACP_Desat Acyl AC 100.0 6.2E-80 1.3E-84 575.2 20.8 241 1-251 41-296 (297)
4 cd00657 Ferritin_like Ferritin 97.1 0.0016 3.5E-08 49.4 6.0 55 93-150 75-129 (130)
5 PF02915 Rubrerythrin: Rubrery 95.7 0.022 4.7E-07 45.4 5.2 50 104-154 7-56 (137)
6 cd01044 Ferritin_CCC1_N Ferrit 95.1 0.042 9E-07 45.0 5.0 45 107-154 10-54 (125)
7 cd00907 Bacterioferritin Bacte 94.9 0.25 5.4E-06 41.0 9.3 59 96-154 82-140 (153)
8 cd01041 Rubrerythrin Rubreryth 93.2 0.24 5.1E-06 40.9 5.9 59 95-153 73-132 (134)
9 PF02915 Rubrerythrin: Rubrery 93.1 0.15 3.3E-06 40.5 4.4 50 98-150 86-136 (137)
10 cd01046 Rubrerythrin_like rubr 93.1 0.23 5.1E-06 40.7 5.6 62 94-155 62-123 (123)
11 cd07908 Mn_catalase_like Manga 92.9 0.72 1.6E-05 38.7 8.4 49 99-150 105-153 (154)
12 cd01051 Mn_catalase Manganese 92.6 0.84 1.8E-05 39.4 8.6 56 95-153 99-154 (156)
13 cd01045 Ferritin_like_AB Uncha 91.6 0.52 1.1E-05 37.3 5.8 50 103-155 6-55 (139)
14 cd01046 Rubrerythrin_like rubr 91.2 1.5 3.2E-05 36.0 8.1 92 107-212 13-105 (123)
15 PRK08326 ribonucleotide-diphos 90.4 0.47 1E-05 45.0 5.2 35 126-160 195-229 (311)
16 cd01045 Ferritin_like_AB Uncha 90.2 0.67 1.4E-05 36.6 5.2 53 95-150 86-138 (139)
17 cd01041 Rubrerythrin Rubreryth 89.1 2.5 5.4E-05 34.8 7.9 97 107-212 13-116 (134)
18 cd01055 Nonheme_Ferritin nonhe 88.7 3.8 8.2E-05 34.2 8.9 63 95-157 80-142 (156)
19 cd07908 Mn_catalase_like Manga 88.7 0.97 2.1E-05 37.9 5.3 53 106-160 27-79 (154)
20 cd00657 Ferritin_like Ferritin 88.6 1.2 2.5E-05 33.5 5.3 47 106-155 9-55 (130)
21 PF13668 Ferritin_2: Ferritin- 88.0 1.3 2.7E-05 36.4 5.5 43 107-152 94-136 (137)
22 PF11583 AurF: P-aminobenzoate 87.9 1.1 2.4E-05 41.8 5.6 46 126-171 199-244 (304)
23 COG1633 Uncharacterized conser 87.9 1.7 3.7E-05 38.3 6.5 60 94-156 112-171 (176)
24 cd07911 RNRR2_Rv0233_like Ribo 87.3 0.91 2E-05 42.1 4.7 35 126-160 176-210 (280)
25 PF00210 Ferritin: Ferritin-li 86.8 3.1 6.8E-05 33.0 7.0 60 95-154 80-139 (142)
26 cd01049 RNRR2 Ribonucleotide R 86.4 1.2 2.7E-05 40.9 5.1 76 96-171 145-225 (288)
27 COG1633 Uncharacterized conser 84.7 1.9 4.1E-05 38.0 5.1 61 95-158 24-84 (176)
28 TIGR00754 bfr bacterioferritin 84.6 9.7 0.00021 32.1 9.3 80 76-155 55-142 (157)
29 PF02332 Phenol_Hydrox: Methan 83.9 3.5 7.6E-05 37.5 6.7 66 95-160 166-233 (233)
30 COG0208 NrdF Ribonucleotide re 80.0 3.6 7.9E-05 40.1 5.6 62 97-161 177-242 (348)
31 PRK07209 ribonucleotide-diphos 79.6 3.3 7.1E-05 40.3 5.2 35 126-160 234-268 (369)
32 PRK09614 nrdF ribonucleotide-d 79.1 3.3 7.2E-05 39.2 4.9 36 126-161 184-219 (324)
33 PRK10635 bacterioferritin; Pro 78.7 21 0.00045 30.8 9.3 60 95-154 82-141 (158)
34 PF00268 Ribonuc_red_sm: Ribon 78.4 5.2 0.00011 37.0 5.9 32 126-157 180-211 (281)
35 COG1592 Rubrerythrin [Energy p 77.3 7.4 0.00016 34.3 6.2 42 114-155 23-64 (166)
36 TIGR02029 AcsF magnesium-proto 77.2 3.3 7.1E-05 40.1 4.3 39 113-152 91-129 (337)
37 PTZ00211 ribonucleoside-diphos 77.2 4.2 9E-05 38.9 5.0 36 126-161 193-228 (330)
38 PLN02508 magnesium-protoporphy 76.7 3.1 6.7E-05 40.5 3.9 41 112-153 96-136 (357)
39 PRK12759 bifunctional gluaredo 75.9 2.6 5.7E-05 41.6 3.4 35 126-160 268-302 (410)
40 PLN02492 ribonucleoside-diphos 74.4 5.7 0.00012 37.8 5.2 35 126-160 182-216 (324)
41 cd01052 DPSL DPS-like protein, 74.0 6.2 0.00014 32.3 4.7 53 97-150 95-147 (148)
42 PF00268 Ribonuc_red_sm: Ribon 73.9 10 0.00022 35.0 6.6 44 118-162 76-119 (281)
43 CHL00185 ycf59 magnesium-proto 73.5 5.2 0.00011 38.9 4.6 40 112-152 96-135 (351)
44 cd01047 ACSF Aerobic Cyclase S 72.5 5.4 0.00012 38.4 4.4 40 112-152 80-119 (323)
45 PRK13654 magnesium-protoporphy 71.5 5.8 0.00013 38.7 4.4 40 112-152 100-139 (355)
46 cd07910 MiaE MiaE tRNA-modifyi 69.7 13 0.00027 33.3 5.8 57 97-156 104-160 (180)
47 PRK09101 nrdB ribonucleotide-d 66.1 9.9 0.00021 37.2 4.9 35 126-160 225-261 (376)
48 PRK12775 putative trifunctiona 62.4 13 0.00029 40.8 5.5 49 103-154 868-916 (1006)
49 COG2186 FadR Transcriptional r 62.2 28 0.00062 31.6 6.8 62 107-171 148-225 (241)
50 PF05138 PaaA_PaaC: Phenylacet 61.1 40 0.00087 31.4 7.7 112 97-223 106-225 (263)
51 COG4445 MiaE Hydroxylase for s 60.9 20 0.00044 32.0 5.4 73 98-174 115-188 (203)
52 cd01048 Ferritin_like_AB2 Unch 59.8 14 0.00029 30.8 4.0 49 99-153 4-52 (135)
53 COG1592 Rubrerythrin [Energy p 59.2 19 0.00041 31.7 4.9 43 114-156 89-131 (166)
54 cd01055 Nonheme_Ferritin nonhe 58.1 29 0.00063 28.8 5.7 47 106-152 14-60 (156)
55 cd01049 RNRR2 Ribonucleotide R 56.7 22 0.00048 32.6 5.2 32 125-156 75-106 (288)
56 cd01044 Ferritin_CCC1_N Ferrit 53.8 20 0.00044 29.0 4.0 38 106-152 87-124 (125)
57 cd01057 AAMH_A Aromatic and Al 52.8 30 0.00064 35.1 5.8 50 110-160 186-235 (465)
58 PRK13967 nrdF1 ribonucleotide- 52.4 20 0.00042 34.3 4.2 30 126-155 181-210 (322)
59 PF04305 DUF455: Protein of un 52.0 55 0.0012 30.6 7.0 87 83-171 122-225 (253)
60 cd00907 Bacterioferritin Bacte 51.3 42 0.00092 27.5 5.6 46 107-152 17-62 (153)
61 PRK13965 ribonucleotide-diphos 51.1 18 0.0004 34.8 3.8 28 126-153 194-221 (335)
62 PRK08326 ribonucleotide-diphos 51.0 28 0.0006 33.1 5.0 40 115-154 80-122 (311)
63 cd01052 DPSL DPS-like protein, 48.5 73 0.0016 25.9 6.6 60 107-167 18-77 (148)
64 cd01051 Mn_catalase Manganese 47.3 47 0.001 28.5 5.4 49 106-156 34-82 (156)
65 PRK13966 nrdF2 ribonucleotide- 47.3 33 0.00071 32.9 4.9 63 95-160 151-217 (324)
66 cd07911 RNRR2_Rv0233_like Ribo 47.0 56 0.0012 30.3 6.3 33 124-156 75-107 (280)
67 PF06667 PspB: Phage shock pro 46.8 37 0.00081 26.2 4.2 40 211-255 22-61 (75)
68 PRK07209 ribonucleotide-diphos 46.3 59 0.0013 31.7 6.5 43 119-162 120-162 (369)
69 PRK10421 DNA-binding transcrip 45.5 1.1E+02 0.0024 27.4 7.9 60 109-171 141-218 (253)
70 smart00337 BCL BCL (B-Cell lym 45.1 31 0.00067 27.3 3.7 32 140-172 9-40 (100)
71 PRK11414 colanic acid/biofilm 44.5 82 0.0018 27.6 6.7 60 109-171 134-209 (221)
72 cd01042 DMQH Demethoxyubiquino 42.9 56 0.0012 28.6 5.3 37 124-161 26-62 (165)
73 cd01058 AAMH_B Aromatic and Al 42.4 64 0.0014 30.7 6.0 66 95-160 193-260 (304)
74 PRK09458 pspB phage shock prot 42.0 39 0.00084 26.2 3.6 38 213-255 24-61 (75)
75 cd01048 Ferritin_like_AB2 Unch 41.7 46 0.001 27.6 4.4 52 95-149 82-133 (135)
76 PF07729 FCD: FCD domain; Int 41.4 1.5E+02 0.0032 22.1 7.4 59 109-170 51-123 (125)
77 PF08158 NUC130_3NT: NUC130/3N 40.9 27 0.00058 25.0 2.4 29 1-29 15-44 (52)
78 KOG3462 Predicted membrane pro 38.9 15 0.00032 29.8 0.9 53 27-81 25-78 (105)
79 KOG1248 Uncharacterized conser 38.3 1.5E+02 0.0033 33.6 8.6 104 127-255 827-930 (1176)
80 PF13763 DUF4167: Domain of un 37.8 1.2E+02 0.0025 23.8 5.7 34 114-154 42-75 (80)
81 PF06175 MiaE: tRNA-(MS[2]IO[6 37.7 36 0.00078 31.8 3.4 57 97-157 156-212 (240)
82 TIGR00865 bcl-2 Apoptosis regu 36.0 81 0.0018 28.8 5.4 43 129-172 67-110 (213)
83 CHL00017 ndhH NADH dehydrogena 33.3 1.6E+02 0.0035 29.2 7.3 130 114-253 48-194 (393)
84 PRK09614 nrdF ribonucleotide-d 33.3 1.2E+02 0.0027 28.6 6.4 33 122-154 83-115 (324)
85 PRK09990 DNA-binding transcrip 33.1 2.2E+02 0.0048 25.4 7.7 61 108-171 148-226 (251)
86 PLN02824 hydrolase, alpha/beta 31.8 36 0.00079 30.5 2.4 68 173-247 60-129 (294)
87 PRK12775 putative trifunctiona 31.6 86 0.0019 34.7 5.6 59 95-156 941-1000(1006)
88 TIGR02976 phageshock_pspB phag 31.3 87 0.0019 24.1 4.1 40 211-255 22-61 (75)
89 PF12902 Ferritin-like: Ferrit 30.8 91 0.002 28.5 4.8 47 107-154 8-55 (227)
90 PF05974 DUF892: Domain of unk 30.5 1.2E+02 0.0026 25.9 5.3 42 112-153 111-152 (159)
91 COG3546 Mn-containing catalase 29.9 63 0.0014 30.7 3.6 114 14-159 64-194 (277)
92 PRK09101 nrdB ribonucleotide-d 29.5 1.9E+02 0.004 28.4 7.0 43 119-162 95-137 (376)
93 PF00452 Bcl-2: Apoptosis regu 28.0 1.7E+02 0.0036 22.5 5.3 33 140-172 9-41 (101)
94 PRK03592 haloalkane dehalogena 27.6 66 0.0014 28.8 3.4 61 173-247 58-120 (295)
95 cd01056 Euk_Ferritin eukaryoti 27.6 3.7E+02 0.008 22.6 8.4 61 94-154 82-143 (161)
96 TIGR03338 phnR_burk phosphonat 27.4 3.3E+02 0.0072 23.4 7.7 60 109-171 134-207 (212)
97 PF13668 Ferritin_2: Ferritin- 27.4 1.4E+02 0.003 24.2 5.0 29 124-152 35-63 (137)
98 PF11583 AurF: P-aminobenzoate 27.1 81 0.0018 29.3 3.9 30 126-155 111-140 (304)
99 PRK04984 fatty acid metabolism 26.9 2.4E+02 0.0052 24.8 6.8 60 109-171 144-217 (239)
100 TIGR02158 PA_CoA_Oxy3 phenylac 26.8 5.1E+02 0.011 24.0 10.5 64 104-171 87-153 (237)
101 PRK11523 DNA-binding transcrip 26.8 3.3E+02 0.0071 24.4 7.7 60 109-171 142-219 (253)
102 cd01043 DPS DPS protein, ferri 26.7 1.4E+02 0.003 24.2 4.9 51 99-149 87-137 (139)
103 PRK06765 homoserine O-acetyltr 25.9 71 0.0015 31.3 3.4 47 201-247 139-188 (389)
104 TIGR02812 fadR_gamma fatty aci 25.7 3.7E+02 0.008 23.6 7.8 60 109-171 143-216 (235)
105 PRK09464 pdhR transcriptional 24.3 3E+02 0.0066 24.5 7.0 60 109-171 149-226 (254)
106 PRK13778 paaA phenylacetate-Co 24.1 6.7E+02 0.014 24.3 11.1 120 95-222 122-251 (314)
107 TIGR01392 homoserO_Ac_trn homo 23.3 77 0.0017 29.7 3.1 47 201-247 105-154 (351)
108 cd06845 Bcl-2_like Apoptosis r 23.1 2E+02 0.0042 23.9 5.2 32 140-172 47-78 (144)
109 PRK10225 DNA-binding transcrip 22.7 4.2E+02 0.0092 23.7 7.7 60 109-171 147-225 (257)
110 PF11902 DUF3422: Protein of u 22.5 8E+02 0.017 24.7 10.4 170 11-231 109-293 (420)
111 KOG4326 Mitochondrial F1F0-ATP 22.0 1.8E+02 0.0039 22.6 4.2 47 97-143 21-70 (81)
112 PF10211 Ax_dynein_light: Axon 22.0 2.3E+02 0.0049 25.1 5.6 72 39-119 3-82 (189)
113 PRK11534 DNA-binding transcrip 21.7 4.8E+02 0.01 22.7 7.7 60 109-171 134-211 (224)
114 TIGR02240 PHA_depoly_arom poly 21.6 1.8E+02 0.0038 25.8 4.9 62 173-248 56-119 (276)
115 PLN02965 Probable pheophorbida 21.3 98 0.0021 27.2 3.2 63 173-248 35-100 (255)
116 PLN02492 ribonucleoside-diphos 20.8 4E+02 0.0087 25.3 7.4 38 119-156 79-116 (324)
117 COG5018 KapD Inhibitor of the 20.7 58 0.0013 29.4 1.5 43 26-85 79-122 (210)
118 PRK13967 nrdF1 ribonucleotide- 20.3 3.6E+02 0.0078 25.8 6.9 37 120-156 81-117 (322)
119 PF04305 DUF455: Protein of un 20.2 78 0.0017 29.6 2.4 22 133-154 104-125 (253)
120 PRK15179 Vi polysaccharide bio 20.1 8.1E+02 0.017 26.2 10.1 115 112-236 87-212 (694)
No 1
>PLN00179 acyl- [acyl-carrier protein] desaturase
Probab=100.00 E-value=1.1e-109 Score=788.18 Aligned_cols=276 Identities=76% Similarity=1.249 Sum_probs=269.4
Q ss_pred ChHHHHHHHHHHhcCCChhhHHhhhhhhhccccCChhhhhhhhhcCCCCCCCCCCCchhhhhh---------------hh
Q 038880 1 GFYEQVKELRERCKQLPAEYFVVLVGDMITEEALPTYQTMLNTIDGVRDETGASLTSWATWIR---------------YL 65 (276)
Q Consensus 1 ~f~~~v~~lr~~a~~Lpd~~~v~lv~~~lTEd~LPtY~~~l~~~~gv~~~~g~~~~~W~~W~~---------------YL 65 (276)
+|.++|++||+++++|||+++|||||||||||||||||++||++||++|++|+++++|++|++ ||
T Consensus 100 ~F~~~v~~lr~~~~~Lpd~~~v~LvgdmiTEeaLPtY~~~Ln~~~gv~d~tg~~~~~W~~Wvr~WTAEENRHgdlL~~YL 179 (390)
T PLN00179 100 GFYDQVKELRERAAELPDDYFVVLVGDMITEEALPTYQTMLNTLDGVRDETGASATPWARWTRAWTAEENRHGDLLNKYL 179 (390)
T ss_pred ChHHHHhhhhHhhcCCChhhhhhhhhcchhhhcchHHHHHHHHhcccccccCCCCCchhhhccccccccchHHHHHHHHH
Confidence 699999999999999999999999999999999999999999999999999999999999998 99
Q ss_pred hhhcCCChHHHHHHHHHHHhcCCCCCCCCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHH
Q 038880 66 YLSGCVDMKQIERSIQYLIRSGMDPKFENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHEL 145 (276)
Q Consensus 66 ~~sg~vDp~~lE~~~~~li~~G~~~~~~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~ 145 (276)
|+||+|||+++|+++|+||++||+|+++++||++|+||||||+||+|||+||||+|+++|||+|++||++||+||+||+.
T Consensus 180 ylTgrVDm~~iE~t~q~li~~G~d~~~~~~py~~~vYtSFQErAT~VSH~NTarlA~~~gDp~la~icg~IAaDE~rHe~ 259 (390)
T PLN00179 180 YLSGRVDMRQIEKTIQYLIGSGMDPKTENNPYLGFIYTSFQERATFISHGNTARLAKEHGDAKLAKICGTIAADEKRHET 259 (390)
T ss_pred hhccCcCHHHHHHHHHHHHhcCCCCCCCCCHHHHHHHHHHHHHHHHHHhhhHHHHHHhcCChHHHHHHHHHhccHHHHHH
Confidence 99999999999999999999999999889999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhcccccccc
Q 038880 146 AYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKLM 225 (276)
Q Consensus 146 fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~~ 225 (276)
||++||+++||+|||+||.||++||+++|+||||+|+||+|++||+||++++|++||||+.||.+||++||++|+|++++
T Consensus 260 fY~~iV~~~le~dPd~tm~Aiadmm~~ki~MPa~~m~dg~d~~lF~~fsavaqr~GVYt~~dy~dIl~~lv~~W~v~~l~ 339 (390)
T PLN00179 260 AYTRIVEKLFEIDPDGAVLAFADMMRKKITMPAHLMYDGRDDNLFDHFSAVAQRLGVYTAKDYADILEHLVRRWKVEELT 339 (390)
T ss_pred HHHHHHHHHHhhCccHHHHHHHHHHHhcCCCCcccCCCCCcchHHHHHHHHHHHhcCCCHHHHHHHHHHHHhhcCcCccc
Confidence 99999999999999999999999999889999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhcchHHHHHHHHHHHhhHhhhCCCCcCceeeeCCcccC
Q 038880 226 GLTSEGRKARDFVCGLPSRIRRLEDKAQANMAKKACSTVPFSWVFGKDIRV 276 (276)
Q Consensus 226 gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~~~~~~~~~~~f~wi~~~~~~~ 276 (276)
|||+||++||||||+||+|++|++||++.|++|.++..++|||||+|+|.|
T Consensus 340 gLs~eg~kArd~l~~l~~rirr~~era~~~~~~~~~~~~~fsWi~~r~v~~ 390 (390)
T PLN00179 340 GLSGEGRRAQDYVCGLPPRIRRLEERAQDRAKKAKPPSIPFSWIFDREVRL 390 (390)
T ss_pred CCCHHHHHHHHHHHHhHHHHHHHHHHHhhHHhccCCCCCceeeecCCccCC
Confidence 999999999999999999999999999999655455679999999999975
No 2
>PF03405 FA_desaturase_2: Fatty acid desaturase; InterPro: IPR005067 Fatty acid desaturases are enzymes that catalyze the insertion of a double bond at the delta position of fatty acids. There seem to be two distinct families of fatty acid desaturases which do not seem to be evolutionary related. Family 1 is composed of: - Stearoyl-CoA desaturase (SCD) (1.14.19.1 from EC) []. Family 2 is composed of: - Bacterial fatty acid desaturases. - Plant stearoyl-acyl-carrier-protein desaturase (1.14.19.1 from EC) [], this enzyme catalyzes the introduction of a double bond at the delta(9) position of steraoyl-ACP to produce oleoyl-ACP. This enzyme is responsible for the conversion of saturated fatty acids to unsaturated fatty acids in the synthesis of vegetable oils. - Cyanobacterial DesA [], an enzyme that can introduce a second cis double bond at the delta(12) position of fatty acid bound to membranes glycerolipids. DesA is involved in chilling tolerance; the phase transition temperature of lipids of cellular membranes being dependent on the degree of unsaturation of fatty acids of the membrane lipids. This entry contains fatty acid desaturases belonging to Family 2. ; GO: 0045300 acyl-[acyl-carrier-protein] desaturase activity, 0006631 fatty acid metabolic process, 0055114 oxidation-reduction process; PDB: 1OQ7_B 1AFR_A 2XZ0_B 1OQB_A 2J2F_E 1OQ4_B 1OQ9_A 2XZ1_A 1ZA0_A.
Probab=100.00 E-value=4.8e-99 Score=710.51 Aligned_cols=273 Identities=52% Similarity=0.920 Sum_probs=238.3
Q ss_pred ChHHHHHHHHHHhcCCChhhHHhhhhhhhccccCChhhhhhhhhcCCCCCCCCCCCchhhhhh---------------hh
Q 038880 1 GFYEQVKELRERCKQLPAEYFVVLVGDMITEEALPTYQTMLNTIDGVRDETGASLTSWATWIR---------------YL 65 (276)
Q Consensus 1 ~f~~~v~~lr~~a~~Lpd~~~v~lv~~~lTEd~LPtY~~~l~~~~gv~~~~g~~~~~W~~W~~---------------YL 65 (276)
+|.+++++||+++++|||++++||||||||||||||||++|+++||++|++|+|+++|++|++ ||
T Consensus 43 ~F~~~~~~w~~~~~~Lpd~~~~alv~~llTEd~LPsY~~~l~~~~~~~~~~ga~~~~W~~wv~~WTAEEnRHg~~L~~YL 122 (330)
T PF03405_consen 43 NFFLGGKDWRPSQSTLPDDARVALVGNLLTEDNLPSYHRELATLFGVRDEDGASDSPWGRWVGRWTAEENRHGDALRDYL 122 (330)
T ss_dssp THHHCCHHHHHHHHTS-HHHHHHHHHHHHHHHTHHHHHHHHTTSTTT--SSSS--SHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHhHhcccCCHhhccCCHHHHHHHHHHHHhhhhhhHHHHHHHhhcCccccCCCCCCcHHHHcccccccccccHHHHHHHH
Confidence 588999999999999999999999999999999999999999999999999999999999887 99
Q ss_pred hhhcCCChHHHHHHHHHHHhcCCCCCCCCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHH
Q 038880 66 YLSGCVDMKQIERSIQYLIRSGMDPKFENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHEL 145 (276)
Q Consensus 66 ~~sg~vDp~~lE~~~~~li~~G~~~~~~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~ 145 (276)
|+||+|||+++|+++++||++||+++++++|+++|+||||||+||+|||+|||++|+++|||+|++||++||+||+||+.
T Consensus 123 ~vsg~vDp~~lE~~r~~~i~~G~~~~~~~~p~~~~vYtsfQE~AT~vsh~n~~~~a~~~~DpvL~~il~~IA~DE~rH~~ 202 (330)
T PF03405_consen 123 YVSGRVDPVALERTRMYLITAGFDPGFESDPYLGFVYTSFQERATQVSHRNTGRLAKQAGDPVLAQILGRIAADEARHEA 202 (330)
T ss_dssp HHCTSS-CCCCCHCCHHHHHH----S-TTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHH
T ss_pred HHhCCCCHHHHHHHHHHHHhcCCCccCCCChHHHHHHHHHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHhhHHHHHH
Confidence 99999999999999999999999999888999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhcccccccc
Q 038880 146 AYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKLM 225 (276)
Q Consensus 146 fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~~ 225 (276)
||+++|+++|++|||+||.||++||+++|+|||++|+||.++++|+||++++|++||||+.+|.+||++||++|+|++++
T Consensus 203 fy~~iv~~~l~~dPd~t~~Ai~~vm~~~f~MPg~~m~dg~d~~lF~~~~a~~a~~GvY~~~dy~dI~~~l~~~W~i~~~~ 282 (330)
T PF03405_consen 203 FYRNIVEAYLELDPDGTMLAIADVMRNKFRMPGHLMPDGRDPDLFERFSAVAARAGVYTPRDYADILEPLLRRWKIESRT 282 (330)
T ss_dssp HHHHHHHHHHHHSHHHHHHHHHHHHHH----TTTT---SS-TTHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHTTGGG--
T ss_pred HHHHHHHHHHhhCcHHHHHHHHHHHHHhccCcchhcccCcchHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhccCccc
Confidence 99999999999999999999999998669999999999999999999999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhcchHHHHHHHHHHHhhHhhhCCCCcCceeeeCCcc
Q 038880 226 GLTSEGRKARDFVCGLPSRIRRLEDKAQANMAKKACSTVPFSWVFGKDI 274 (276)
Q Consensus 226 gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~~~~~~~~~~~f~wi~~~~~ 274 (276)
|||++|++||||||+||.|++||+||++++++++. ..++|||||||+|
T Consensus 283 gL~~eg~~Ard~l~~l~~r~~r~~er~~~~~~~~~-~~~~fswif~r~v 330 (330)
T PF03405_consen 283 GLSGEGEKARDYLCALPARLRRFEERADRRAARMA-KPVPFSWIFNREV 330 (330)
T ss_dssp S--HHHHHHHHHHHHHHHHHHHHTTTTSTTTSSS---EEE-GGGTT-EE
T ss_pred CCChHHHHHHHHHHhhHHHHHHHHHHHHHHHHhcC-CCCceeeecCCCC
Confidence 99999999999999999999999999988854432 5689999999987
No 3
>cd01050 Acyl_ACP_Desat Acyl ACP desaturase, ferritin-like diiron-binding domain. Acyl-Acyl Carrier Protein Desaturase (Acyl_ACP_Desat) is a mu-oxo-bridged diiron-carboxylate enzyme, which belongs to a broad superfamily of ferritin-like proteins and catalyzes the NADPH and O2-dependent formation of a cis-double bond in acyl-ACPs. Acyl-ACP desaturases are found in higher plants and a few bacterial species (Mycobacterium tuberculosis, M. leprae, M. avium and Streptomyces avermitilis, S. coelicolor). In plants, Acyl-ACP desaturase is a plastid-localized, covalently ACP linked, soluble desaturase that introduces the first double bound into saturated fatty acids, resulting in the corresponding monounsaturated fatty acid. Members of this class of soluble desaturases are specific for a particular substrate chain length and introduce the double bond between specific carbon atoms. For example, delta 9 stearoyl-ACP is specific for stearic acid and introduces a double bond between carbon 9 and 1
Probab=100.00 E-value=6.2e-80 Score=575.23 Aligned_cols=241 Identities=60% Similarity=0.997 Sum_probs=232.6
Q ss_pred ChHHHHHHHHHHhcCCChhhHHhhhhhhhccccCChhhhhhhhhcCCCCCCCCCCCchhhhhh---------------hh
Q 038880 1 GFYEQVKELRERCKQLPAEYFVVLVGDMITEEALPTYQTMLNTIDGVRDETGASLTSWATWIR---------------YL 65 (276)
Q Consensus 1 ~f~~~v~~lr~~a~~Lpd~~~v~lv~~~lTEd~LPtY~~~l~~~~gv~~~~g~~~~~W~~W~~---------------YL 65 (276)
+|.+++++||+++++|||++++||++||||||||||||++|+++||++++ +.++|++|++ ||
T Consensus 41 ~f~~~~~~~~~~~~~L~~~~~~~l~~~~itEd~LP~Y~~~L~~~f~~~~~---~~~~w~~w~~~WtaEE~rHg~aL~~YL 117 (297)
T cd01050 41 DFDLDVKELRERAAELPDDARVALVGNLLTEEALPTYHSMLNRLFGLDDE---SPTAWARWVRRWTAEENRHGDLLNKYL 117 (297)
T ss_pred ChhhccccCchhhccCCHHHHHHHHHHHHHhhccHHHHHHHHHHcCcccc---cccHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 58899999999999999999999999999999999999999999999776 6788998887 99
Q ss_pred hhhcCCChHHHHHHHHHHHhcCCCCCCCCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHH
Q 038880 66 YLSGCVDMKQIERSIQYLIRSGMDPKFENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHEL 145 (276)
Q Consensus 66 ~~sg~vDp~~lE~~~~~li~~G~~~~~~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~ 145 (276)
++||+|||+++|++++++++.||+++++++|+++|+|+||||+||++||+||+++++ +|||+|++||++||+||+||+.
T Consensus 118 ~~sg~vdp~~le~~~~~~~~~G~~~~~~~~~~~~~~y~~fqE~aT~v~y~nl~~~a~-~gdPvL~~i~~~IA~DE~rH~~ 196 (297)
T cd01050 118 YLTGRVDPRALERTRQYLIGSGFDPGTDNSPYRGFVYTSFQELATRISHRNTARLAG-AGDPVLAKLLGRIAADEARHEA 196 (297)
T ss_pred HHhCCCCHHHHHHHHHHHHhCCCCCCCcccHHHHHHHHHHHHHHHHHHHHHHHHHhc-CCChHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999889999999999999999999999999988 8999999999999999999999
Q ss_pred HHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhcccccccc
Q 038880 146 AYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKLM 225 (276)
Q Consensus 146 fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~~ 225 (276)
||+++|+++|++|||++|.||++||+ +|+|||++|. ++|++|+++||++||||+.+|++||++++++|+|++++
T Consensus 197 fy~~~v~~~le~dp~~~~~Ai~~v~~-~~~MP~~~~~-----~~f~~~~~~~a~~gvY~~~~~~~V~~~~~~~w~v~~l~ 270 (297)
T cd01050 197 FYRDIVEALFELDPDGAVLAFADMMR-KIVMPGHLMY-----PLFERFAAVAARAGVYTARDYDDILEPLVRRWRVEELT 270 (297)
T ss_pred HHHHHHHHHHHhCchHHHHHHHHHHH-hCCCChhhhh-----hhHHHHHHHHHHHcCCCHHHHHHHHHHHHhhcCccccc
Confidence 99999999999999999999999997 6999999995 33788999999999999999999999999999999999
Q ss_pred CCCHHHHHHHHHHhcchHHHHHHHHH
Q 038880 226 GLTSEGRKARDFVCGLPSRIRRLEDK 251 (276)
Q Consensus 226 gL~~eg~~Ar~~l~~l~~r~~r~~er 251 (276)
|||++|++||||||+||+|++|++||
T Consensus 271 ~l~~eg~~ar~~~~~l~~~~~~~~~r 296 (297)
T cd01050 271 GLSGEGRKAQEYLCALPARLRRLAER 296 (297)
T ss_pred cCCHHHHHHHHHHHHhHHHHHHHHhc
Confidence 99999999999999999999999986
No 4
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=97.06 E-value=0.0016 Score=49.44 Aligned_cols=55 Identities=20% Similarity=0.247 Sum_probs=49.7
Q ss_pred CCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHH
Q 038880 93 ENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKI 150 (276)
Q Consensus 93 ~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~i 150 (276)
..++...+.+....|..+...|.++++.+ .||.+.+++..|+.||++|..+++++
T Consensus 75 ~~~~~~~l~~~~~~E~~~~~~y~~~~~~~---~d~~~~~~~~~~~~~E~~H~~~~~~~ 129 (130)
T cd00657 75 SDDPAEALRAALEVEARAIAAYRELIEQA---DDPELRRLLERILADEQRHAAWFRKL 129 (130)
T ss_pred ccCHHHHHHHHHHHHHHHHHHHHHHHHhc---CChHHHHHHHHHHHHHHHHHHHHHhh
Confidence 35888999999999999999999888864 49999999999999999999999875
No 5
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=95.70 E-value=0.022 Score=45.38 Aligned_cols=50 Identities=24% Similarity=0.233 Sum_probs=44.8
Q ss_pred hhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 104 SFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 104 sfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
.-.|.....+|...|+.++..| |.+..++..||.||.+|..++.++....
T Consensus 7 ~~~E~~~~~~Y~~~a~~~~~~~-p~~~~~f~~lA~~E~~H~~~~~~l~~~~ 56 (137)
T PF02915_consen 7 IKMELEAAKFYRELAEKAKDEG-PELKELFRRLAEEEQEHAKFLEKLLRKL 56 (137)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHHHHHHHCHC
T ss_pred HHHHHHHHHHHHHHHHHhhhcc-cHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3468888899999999988666 9999999999999999999999999876
No 6
>cd01044 Ferritin_CCC1_N Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain. Ferritin-like N-terminal domain present in an uncharacterized family of proteins found in bacteria and archaea. These proteins also have a C-terminal CCC1-like transmembrane domain and are thought to be involved in iron and/or manganese transport. This domain has the conserved residues of a diiron center found in other ferritin-like proteins.
Probab=95.09 E-value=0.042 Score=44.99 Aligned_cols=45 Identities=27% Similarity=0.221 Sum_probs=39.9
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
|.....+|+++|+.++ ||.+.+++..||.+|..|+.++.++....
T Consensus 10 E~~~~~~Y~~la~~~~---~~~~k~~f~~lA~~E~~H~~~~~~~~~~~ 54 (125)
T cd01044 10 EITEAAIYRKLAKREK---DPENREILLKLAEDERRHAEFWKKFLGKR 54 (125)
T ss_pred HHHHHHHHHHHHHHcC---CHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 6777889998888654 99999999999999999999999998764
No 7
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=94.88 E-value=0.25 Score=40.96 Aligned_cols=59 Identities=15% Similarity=0.071 Sum_probs=50.2
Q ss_pred CcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 96 PYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 96 p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
+...+-..-=.|..+-..++...++|...+|+....++..|.+||..|..++++.++.+
T Consensus 82 ~~~~l~~~l~~E~~~~~~y~~~~~~A~~~~D~~t~~~l~~~~~~e~~h~~~l~~~l~~~ 140 (153)
T cd00907 82 VPEMLENDLALEYEAIAALNEAIALCEEVGDYVSRDLLEEILEDEEEHIDWLETQLDLI 140 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666667788888899999999888999999999999999999999999998764
No 8
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=93.23 E-value=0.24 Score=40.86 Aligned_cols=59 Identities=24% Similarity=0.162 Sum_probs=51.7
Q ss_pred CCcchhhhhhhhhhh-HHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERA-TFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 95 ~p~~~~vYtsfQE~A-T~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
+....|-..-=+|.. +-.++.+.+++|...||...+.+...|+.||..|..-|.+.++.
T Consensus 73 ~~~~~l~~~~~~E~~e~~~~y~~~~~~A~~e~d~~~~~~f~~i~~~E~~H~~~l~~~l~~ 132 (134)
T cd01041 73 DTLENLKAAIAGETYEYTEMYPEFAEVAEEEGFKEAARSFEAIAEAEKVHAERYKKALEN 132 (134)
T ss_pred hHHHHHHHHHHhhHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 556677777778885 66789999999999999999999999999999999999998765
No 9
>PF02915 Rubrerythrin: Rubrerythrin; InterPro: IPR003251 Rubrerythrin (Rr), found in anaerobic sulphate-reducing bacteria [], is a fusion protein containing an N-terminal diiron-binding domain and a C-terminal domain homologous to rubredoxin []. The physiological role of Rr has not been identified. The 3-D structure of Desulphovibrio vulgaris rubrerythrin has been solved []. The structure reveals a tetramer of two-domain subunits. In each monomer, the N-terminal 146 residues form a four-alpha-helix bundle containing the diiron-oxo site (centre I), and the C-terminal 45 residues form a rubredoxin-like FeS4 domain.; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1VJX_A 2FZF_A 3SID_B 3QHC_B 3QHB_B 4DI0_A 1J30_B 1YV1_A 1YUZ_B 1YUX_B ....
Probab=93.11 E-value=0.15 Score=40.48 Aligned_cols=50 Identities=20% Similarity=0.288 Sum_probs=39.7
Q ss_pred chhhhhhhh-hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHH
Q 038880 98 NGFIYTSFQ-ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKI 150 (276)
Q Consensus 98 ~~~vYtsfQ-E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~i 150 (276)
...+.++.+ |.-+..+|.++++ ..+||...+++..|+.||..|...++++
T Consensus 86 ~~~l~~a~~~E~~~~~~Y~~~a~---~~~~~~~~~~~~~l~~~E~~H~~~l~~l 136 (137)
T PF02915_consen 86 EEALEMAIKEEKDAYEFYAELAR---KAPDPEIRKLFEELAKEEKEHEDLLEKL 136 (137)
T ss_dssp HHHHHHHHHHHHTHHHHHHHHHH---HTTSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH---HCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444454 7777778886655 6789999999999999999999999876
No 10
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=93.08 E-value=0.23 Score=40.73 Aligned_cols=62 Identities=19% Similarity=0.166 Sum_probs=53.6
Q ss_pred CCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 94 NNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 94 ~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
+++..+|--..=+|.----.+.+++++|...||...+..+..|+.+|..|...|.+.++.++
T Consensus 62 ~~~~~~le~a~~~E~~~~~~~~~~~~~A~~egd~~~~~~~~~~~~~E~~H~~~~~~~l~~~~ 123 (123)
T cd01046 62 EDTKENLEMMLEGEAGANEGKKDAATEAKAEGLDEAHDFFHEAAKDEARHGKMLKGLLERYF 123 (123)
T ss_pred ccHHHHHHHHHHhHHHHHHhHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 36677777777778766666889999999999999999999999999999999999988753
No 11
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=92.85 E-value=0.72 Score=38.72 Aligned_cols=49 Identities=18% Similarity=0.097 Sum_probs=39.7
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHH
Q 038880 99 GFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKI 150 (276)
Q Consensus 99 ~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~i 150 (276)
.+-...--|+.+..+|.+.++. .+||....++..|+.||..|...+.++
T Consensus 105 ~L~~~~~~E~~ai~~Y~~~~~~---~~d~~~r~ll~~I~~eE~~H~~~L~~~ 153 (154)
T cd07908 105 MLKLDIASEKAAIAKYKRQAET---IKDPYIRALLNRIILDEKLHIKILEEL 153 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4444445588888889977764 679999999999999999999988765
No 12
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=92.64 E-value=0.84 Score=39.37 Aligned_cols=56 Identities=14% Similarity=0.098 Sum_probs=43.5
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
++..-+-+---=|.....-|.++.+. ..||.+..+|.+|..||..|..-|.+.++.
T Consensus 99 d~~~~L~~ni~aE~~Ai~~Y~~l~~~---~~Dp~v~~~l~~I~~rE~~H~~~f~~~l~~ 154 (156)
T cd01051 99 NLVADLRSNIAAESRARLTYERLYEM---TDDPGVKDTLSFLLVREIVHQNAFGKALES 154 (156)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44445555555566677778866665 459999999999999999999999998874
No 13
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=91.62 E-value=0.52 Score=37.26 Aligned_cols=50 Identities=24% Similarity=0.220 Sum_probs=42.8
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 103 TSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 103 tsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
.-=.|+....+|...++ ..++|.+..++..||.||.+|...+..++...-
T Consensus 6 a~~~E~~~~~~Y~~~a~---~~~~~~~~~~~~~la~eE~~H~~~l~~~~~~~~ 55 (139)
T cd01045 6 AIKMEEEAAEFYLELAE---KAKDPELKKLFEELAEEEKEHAERLEELYEKLF 55 (139)
T ss_pred HHHHHHHHHHHHHHHHh---HCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 33468888999996666 466999999999999999999999999998865
No 14
>cd01046 Rubrerythrin_like rubrerythrin-like, diiron-binding domain. Rubrerythrin-like domain, similar to rubrerythrin, a nonheme iron binding domain found in many air-sensitive bacteria and archaea, and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system. The rubrerythrin protein has two domains, a binuclear metal center located within a four-helix bundle of the rubrerythrin domain, and a rubredoxin domain. The Rubrerythrin-like domains in this CD are singular domains (no C-terminus rubredoxin domain) and are phylogenetically distinct from rubrerythrin domains of rubrerythrin-rubredoxin proteins.
Probab=91.17 E-value=1.5 Score=36.00 Aligned_cols=92 Identities=20% Similarity=0.165 Sum_probs=64.9
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCc
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQN 186 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~ 186 (276)
|......|.-.++.|+..|.|.+++....+|..|..|..-|.+++.. -|+.+...+...+.. -...
T Consensus 13 E~~a~~~Y~~~a~~a~~eG~~~~A~~f~~~a~eE~~HA~~~~~~l~~----i~~~~~~~le~a~~~-------E~~~--- 78 (123)
T cd01046 13 ETTEVGMYLAMARVAQREGYPEVAEELKRIAMEEAEHAARFAELLGK----VSEDTKENLEMMLEG-------EAGA--- 78 (123)
T ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHhc----CcccHHHHHHHHHHh-------HHHH---
Confidence 55555667788888989999999999999999999999999986633 235555555555531 1100
Q ss_pred chhhhhHHHHHHHhcCCChhhH-HHHH
Q 038880 187 DKIFYHFSAVAQRLGVYTAKDY-ADIL 212 (276)
Q Consensus 187 ~~lf~~~s~v~araGiY~~~dy-~~Vl 212 (276)
...|..++.++.+-|-|+..+. ..++
T Consensus 79 ~~~~~~~~~~A~~egd~~~~~~~~~~~ 105 (123)
T cd01046 79 NEGKKDAATEAKAEGLDEAHDFFHEAA 105 (123)
T ss_pred HHhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 1336678888888888877763 4443
No 15
>PRK08326 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=90.38 E-value=0.47 Score=45.05 Aligned_cols=35 Identities=26% Similarity=0.227 Sum_probs=33.2
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
-|.++++...|.+||.+|-.|...++..+..-+|+
T Consensus 195 mpgl~~~i~~I~RDE~~H~~fg~~l~~~l~~e~p~ 229 (311)
T PRK08326 195 LPGLQELVRRIGDDERRHIAWGTYTCRRLVAADDS 229 (311)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCch
Confidence 68999999999999999999999999999988886
No 16
>cd01045 Ferritin_like_AB Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria (Ferritin_like_AB). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. This family includes unknown or hypothetical proteins which were sequenced from mostly anaerobic or microaerophilic metal-metabolizing and/or nitrogen-fixing microbes. The family includes sequences from ferric-, sulfate-, and arsenic-reducing bacteria, Geobacter, Magnetospirillum, Desulfovibrio, and Desulfitobacterium. Also included are several nitrogen-fixing endosymbiotic bacteria, Rhizobium, Mesorhizobium, and Bradyrhizobium; also phototrophic purple nonsulfur bacteria, Rhodobacter and Rhodopseudomonas, as well as, obligate thermophiles, Thermotoga, Thermoanaerobacter, and Pyrococcus. The conserved residues of a diiron center are present in this uncharacterized domain.
Probab=90.23 E-value=0.67 Score=36.62 Aligned_cols=53 Identities=13% Similarity=0.176 Sum_probs=44.5
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKI 150 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~i 150 (276)
++...+-...--|.....+|.+++. ...||....++.+|+.||.+|..-++++
T Consensus 86 ~~~~~l~~a~~~E~~~~~~Y~~~~~---~~~d~~~~~~~~~l~~~E~~H~~~l~~~ 138 (139)
T cd01045 86 DPLEALRLAIEIEKDAIEFYEELAE---KAEDPEVKKLFEELAEEERGHLRLLEEL 138 (139)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHH---HcCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 5566777777788888889996666 4669999999999999999999988764
No 17
>cd01041 Rubrerythrin Rubrerythrin, ferritin-like diiron-binding domain. Rubrerythrin domain is a nonheme iron binding domain found in many air-sensitive bacteria and archaea and member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The homodimeric rubrerythrin protein contains a binuclear metal center located within a four helix bundle. Many, but not all, rubrerythrin proteins have a second domain with a rubredoxin-like hexacoordinated iron center. Rubrerythrin is thought to reduce hydrogen peroxide as part of an oxidative stress protection system but its function is still poorly understood.
Probab=89.05 E-value=2.5 Score=34.76 Aligned_cols=97 Identities=21% Similarity=0.197 Sum_probs=62.5
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHH------hcCchhHHHHHHHHHhhccCCcccc
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLF------EIDPDDAILALAGMMKKTIKMPAHL 180 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~l------e~dPd~tm~Aia~~m~~~~~MP~~~ 180 (276)
|......|...++.|+..|-|.++..+..+|.+|..|..-|.+.+..+= ..+.+.+...+...+.. -
T Consensus 13 E~~a~~~Y~~~a~~a~~~g~~~~a~~f~~~a~eE~~HA~~~~~~l~~l~g~~~~~~~~~~~~~~~l~~~~~~-------E 85 (134)
T cd01041 13 ESQARNRYTYFAEKARKEGYEQIARLFRATAENEKEHAKGHFKLLKGLGGGDTGPPIGIGDTLENLKAAIAG-------E 85 (134)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCcCCCCCcchHHHHHHHHHHh-------h
Confidence 5555666888889999999999999999999999999977776665431 11223333333333320 0
Q ss_pred CCCCCcchhhhhHHHHHHHhcCCChhhH-HHHH
Q 038880 181 MYDGQNDKIFYHFSAVAQRLGVYTAKDY-ADIL 212 (276)
Q Consensus 181 m~dg~~~~lf~~~s~v~araGiY~~~dy-~~Vl 212 (276)
. ..-...|...+.++.+.|-++..+. ..|+
T Consensus 86 ~--~e~~~~y~~~~~~A~~e~d~~~~~~f~~i~ 116 (134)
T cd01041 86 T--YEYTEMYPEFAEVAEEEGFKEAARSFEAIA 116 (134)
T ss_pred H--HHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence 0 0012457777788888877777764 3444
No 18
>cd01055 Nonheme_Ferritin nonheme-containing ferritins. Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.
Probab=88.72 E-value=3.8 Score=34.15 Aligned_cols=63 Identities=19% Similarity=0.075 Sum_probs=55.4
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhc
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEI 157 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~ 157 (276)
++...+--..-.|+...-.+.+..++|...|||....++..+..||..|..-+..+++.+=..
T Consensus 80 ~~~~~l~~al~~E~~~~~~~~~l~~~A~~~~D~~~~~~l~~~l~~q~e~~~~~~~~l~~l~~~ 142 (156)
T cd01055 80 SLLEVFEAALEHEQKVTESINNLVDLALEEKDYATFNFLQWFVKEQVEEEALARDILDKLKLA 142 (156)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 667777777888988888999999999999999999999999999999999999998755443
No 19
>cd07908 Mn_catalase_like Manganese catalase-like protein, ferritin-like diiron-binding domain. This uncharacterized bacterial protein family has a ferritin-like domain similar to that of the manganese catalase protein of Lactobacillus plantarum and the bll3758 protein of Bradyrhizobium japonicum. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=88.69 E-value=0.97 Score=37.94 Aligned_cols=53 Identities=17% Similarity=0.043 Sum_probs=39.5
Q ss_pred hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 106 QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 106 QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
-|.++...|-..+...+ .++|.++.++..+|.+|.+|..++.+++..+ .-+|.
T Consensus 27 ~E~~ai~~Y~y~~~~~~-~~~~~~k~~f~~lA~eE~~H~~~l~~~i~~l-gg~p~ 79 (154)
T cd07908 27 SELTAISQYIYQHLISE-EKYPEIAETFLGIAIVEMHHLEILGQLIVLL-GGDPR 79 (154)
T ss_pred hHHHHHHHHHHHHHHcc-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCc
Confidence 35556555554444443 4799999999999999999999999998773 34454
No 20
>cd00657 Ferritin_like Ferritin-like superfamily of diiron-containing four-helix-bundle proteins. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterioferritin, ferritin, rubrerythrin, aromatic and alkene monooxygenase hydroxylases (AAMH), ribonucleotide reductase R2 (RNRR2), acyl-ACP-desaturases (Acyl_ACP_Desat), manganese (Mn) catalases, demethoxyub
Probab=88.58 E-value=1.2 Score=33.45 Aligned_cols=47 Identities=30% Similarity=0.245 Sum_probs=38.3
Q ss_pred hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 106 QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 106 QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
-|......|...+.. ..+|.+.+++..+|.||.+|...+.+++...-
T Consensus 9 ~E~~a~~~y~~~~~~---~~~~~~~~~~~~~a~~E~~H~~~l~~~~~~~g 55 (130)
T cd00657 9 GEYAAIIAYGQLAAR---APDPDLKDELLEIADEERRHADALAERLRELG 55 (130)
T ss_pred HHHHHHHHHHHHHHH---cCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 466666667766665 44999999999999999999999999987753
No 21
>PF13668 Ferritin_2: Ferritin-like domain
Probab=88.00 E-value=1.3 Score=36.38 Aligned_cols=43 Identities=21% Similarity=0.203 Sum_probs=33.5
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
|..-.-.|...+. ...+|.+.+++..|++.|++|...+++++.
T Consensus 94 E~~~~~~Y~g~~~---~~~~~~~~~~~~~i~~~Ea~H~~~ir~ll~ 136 (137)
T PF13668_consen 94 EDVGVSAYKGAAP---QIEDPELKALAASIAGVEARHAAWIRNLLG 136 (137)
T ss_pred HHHHHHHHHHHHH---HcCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4444444554444 356999999999999999999999998864
No 22
>PF11583 AurF: P-aminobenzoate N-oxygenase AurF; PDB: 3CHI_B 3CHT_A 3CHH_A 2JCD_B 3CHU_A.
Probab=87.90 E-value=1.1 Score=41.76 Aligned_cols=46 Identities=17% Similarity=0.161 Sum_probs=39.7
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
.|.+.+++.....||+||..|++.++...+..=+...-..++..+.
T Consensus 199 qP~~r~v~~iH~~DEaRHi~f~~~~l~~~~~~l~~~~r~~~~~~l~ 244 (304)
T PF11583_consen 199 QPLVRQVMRIHVRDEARHIAFAREELRRVWPRLSPAERRALAELLP 244 (304)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-HHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 6899999999999999999999999999999888877777777665
No 23
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=87.86 E-value=1.7 Score=38.28 Aligned_cols=60 Identities=17% Similarity=0.090 Sum_probs=52.3
Q ss_pred CCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 94 NNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 94 ~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
.+....+-...++|+.|-.+|.-.+. ..-++...+++..||.||..|..++......+..
T Consensus 112 ~~~~~~I~~a~~~E~~t~~~Y~~~~~---~~~~~~~~~~~~~~a~~E~~H~~~l~~~~~~~~~ 171 (176)
T COG1633 112 VSYLEAIEAAMEAEKDTIEFYEELLD---ELVNEEAKKLFKTIADDEKGHASGLLSLYNRLTS 171 (176)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHH---HccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 47788999999999999999995555 4559999999999999999999999999887654
No 24
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=87.34 E-value=0.91 Score=42.14 Aligned_cols=35 Identities=20% Similarity=0.081 Sum_probs=32.9
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
-|.+.++...|.+||.+|-.|...++..+...+|+
T Consensus 176 m~g~~~~i~~I~RDE~~H~~fg~~l~~~l~~e~p~ 210 (280)
T cd07911 176 LPGMQEGIRRLGDDESRHIAWGTFTCRRLVAADDA 210 (280)
T ss_pred CcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHChh
Confidence 78999999999999999999999999999988873
No 25
>PF00210 Ferritin: Ferritin-like domain; InterPro: IPR008331 Ferritin is one of the major non-haem iron storage proteins in animals, plants, and microorganisms []. It consists of a mineral core of hydrated ferric oxide, and a multi-subunit protein shell that encloses the former and assures its solubility in an aqueous environment. In animals the protein is mainly cytoplasmic and there are generally two or more genes that encode closely related subunits - in mammals there are two subunits which are known as H(eavy) and L(ight). In plants ferritin is found in the chloroplast []. This entry represents the main structural domain of ferritin. The domain is also found in other ferritin-like proteins such as members of the DNA protection during starvation (DPS) family and bacterioferritins.; GO: 0008199 ferric iron binding, 0006879 cellular iron ion homeostasis; PDB: 1N1Q_C 4DYU_E 2YJJ_D 2YJK_B 2VXX_B 3FVB_A 2WLU_A 2XGW_A 2WLA_A 1Z4A_D ....
Probab=86.82 E-value=3.1 Score=33.02 Aligned_cols=60 Identities=17% Similarity=0.221 Sum_probs=53.9
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
+|...+...---|+...-.+..+.+.|.+.|||.+..++..+..++..|..+.+..+..+
T Consensus 80 ~~~~~l~~~l~~e~~~~~~~~~l~~~a~~~~D~~t~~~~~~~l~~~~~~~~~l~~~l~~l 139 (142)
T PF00210_consen 80 DPREALEAALEDEKEIIEEYRELIKLAEKEGDPETADFLDEFLEEEEKHIWMLQAHLTNL 139 (142)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 777888888888888889999999999888999999999999999999999999888653
No 26
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=86.43 E-value=1.2 Score=40.94 Aligned_cols=76 Identities=18% Similarity=0.185 Sum_probs=50.5
Q ss_pred CcchhhhhhhhhhhHHH-HHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch----hHHHHHHHHH
Q 038880 96 PYNGFIYTSFQERATFI-SHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD----DAILALAGMM 170 (276)
Q Consensus 96 p~~~~vYtsfQE~AT~i-sh~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd----~tm~Aia~~m 170 (276)
.+..++.-.+-|..-+- ++.-+-.+.+..-=|.++++...|++||.+|..|...++..++.-.|+ .....+.+++
T Consensus 145 ~~~~lv~~~~lEgi~f~s~F~~~~~l~~~g~m~g~~~~i~~I~RDE~~H~~~~~~~~~~l~~~~~~~~~~~~~~~v~~l~ 224 (288)
T cd01049 145 FAERLVAFAILEGIFFYSGFAAIFWLARRGKMPGLAEIIELISRDESLHGDFACLLIRELLNENPELFTEEFKEEVYELI 224 (288)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCccchHHHhHHHHccHHHHHHHHHHHHHHHHHhCccccchhHHHHHHHHH
Confidence 34444433666665442 233333443322247899999999999999999999999999998886 3344444444
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 225 ~ 225 (288)
T cd01049 225 K 225 (288)
T ss_pred H
Confidence 3
No 27
>COG1633 Uncharacterized conserved protein [Function unknown]
Probab=84.73 E-value=1.9 Score=38.04 Aligned_cols=61 Identities=18% Similarity=0.145 Sum_probs=51.8
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcC
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEID 158 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~d 158 (276)
++.+.+.+.-.-|..---+|..+++.+. |+.+.+++..||.||.+|..-|.++..+..--.
T Consensus 24 ~~~e~L~~Ai~~E~eA~~fY~~lae~~~---~~~~rk~~~~la~eE~~H~~~f~~l~~~~~~~~ 84 (176)
T COG1633 24 SIEELLAIAIRGELEAIKFYEELAERIE---DEEIRKLFEDLADEEMRHLRKFEKLLEKLTPKE 84 (176)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhcC---CHhHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc
Confidence 4566778888888888889998888755 999999999999999999999999987765444
No 28
>TIGR00754 bfr bacterioferritin. Bacterioferritin is a homomultimer most species. In Neisseria gonorrhoeae, Synechocystis PCC6803, Magnetospirillum magnetotacticum, and Pseudomonas aeruginosa, two types of subunit are found in a heteromultimeric complex, with each species having one member of each type. At present, both types of subunit are including in this single model.
Probab=84.55 E-value=9.7 Score=32.06 Aligned_cols=80 Identities=14% Similarity=0.020 Sum_probs=58.6
Q ss_pred HHHHHHHHHhcCCCCCCC--------CCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHH
Q 038880 76 IERSIQYLIRSGMDPKFE--------NNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAY 147 (276)
Q Consensus 76 lE~~~~~li~~G~~~~~~--------~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY 147 (276)
..+...+++.-|-.|... .++...|-..-=.|+..-.+++...++|...||+....+|..|.+||..|.-++
T Consensus 55 a~~laeri~~lGg~p~~~~i~~~~~~~~~~e~l~~~l~~E~~~~~~~~e~i~~A~~~~D~~t~~ll~~~i~eee~h~~~l 134 (157)
T TIGR00754 55 ADEIIERILFLEGLPNLQDLGKLRIGETVREMLEADLALELDVLNRLKEAIAYAEEVRDYVSRDLLEEILEDEEEHIDWL 134 (157)
T ss_pred HHHHHHHHHHCCCCCCCCcCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHH
Confidence 333344455555444432 244455666666677777778888888888999999999999999999999999
Q ss_pred HHHHHHHH
Q 038880 148 TKIVEKLF 155 (276)
Q Consensus 148 ~~iv~~~l 155 (276)
+..++.+=
T Consensus 135 ~~~l~~~~ 142 (157)
T TIGR00754 135 ETQLELID 142 (157)
T ss_pred HHHHHHHH
Confidence 99887553
No 29
>PF02332 Phenol_Hydrox: Methane/Phenol/Toluene Hydroxylase; InterPro: IPR003430 Bacterial phenol hydroxylase (1.14.13.7 from EC) is a multicomponent enzyme that catabolises phenol and some of its methylated derivatives. This family contains both the P1 and P3 polypeptides of phenol hydroxlase and the alpha and beta chain of methane hydroxylase protein A. Methane hydroxylase protein A (1.14.13.25 from EC) is responsible for the initial oxygenation of methane to methanol in methanotrophs. It also catalyses the monohydroxylation of a variety of unactivated alkenes, alicyclic, aromatic and heterocyclic compounds. Also included in this family is toluene-4-monooxygenase system protein A (1.14.13 from EC), which hydroxylates toluene to form P-cresol.; GO: 0006725 cellular aromatic compound metabolic process, 0055114 oxidation-reduction process; PDB: 3N20_B 3RNA_B 3N1X_B 3RNC_B 3RNG_B 3RNF_B 3N1Z_B 3RN9_B 3N1Y_B 3RNB_B ....
Probab=83.90 E-value=3.5 Score=37.51 Aligned_cols=66 Identities=26% Similarity=0.323 Sum_probs=51.8
Q ss_pred CCcchhhhhh--hhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 95 NPYNGFIYTS--FQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 95 ~p~~~~vYts--fQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
|+.+.++-.. |-=.-|.+....+.+.|...||..+..|+.-|-.||.||..-=..+|+.+++-+|+
T Consensus 166 Dw~E~~va~nlv~e~l~~~l~~~~~~~~A~~nGD~~~~~l~~~~q~d~~r~~~~~~al~~~~~~~~~~ 233 (233)
T PF02332_consen 166 DWFEAFVALNLVFEPLFTNLLFVEFDRLAAANGDFLTPTLTSSIQSDEARHMRWGDALFKMALEDDPN 233 (233)
T ss_dssp SHHHHHHHHHTTHHHHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTTH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 4555444332 23345666777778888889999999999999999999999999999999888775
No 30
>COG0208 NrdF Ribonucleotide reductase, beta subunit [Nucleotide transport and metabolism]
Probab=80.03 E-value=3.6 Score=40.11 Aligned_cols=62 Identities=21% Similarity=0.166 Sum_probs=48.6
Q ss_pred cchhhhhhhhhh----hHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchh
Q 038880 97 YNGFIYTSFQER----ATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDD 161 (276)
Q Consensus 97 ~~~~vYtsfQE~----AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~ 161 (276)
+...+|..+=|- .-+.+.-++++..+ =|-.++|.+.|.+||.+|-.|...++..++...|+.
T Consensus 177 ~~~~v~~~~lEgi~FYsGFa~~~~l~~r~k---M~g~a~iirlI~RDE~~H~~~~~~l~~~~~~e~~~~ 242 (348)
T COG0208 177 LKLVVASVILEGILFYSGFAYPLYLARRGK---MPGTAEIIRLIIRDEALHLYFIGYLIQRLVAENPEL 242 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcHh
Confidence 555666555553 23455677777544 577899999999999999999999999999999984
No 31
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=79.59 E-value=3.3 Score=40.33 Aligned_cols=35 Identities=17% Similarity=0.129 Sum_probs=31.7
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
=|-++++...|++||.+|..|...++..+...+|+
T Consensus 234 M~G~~~~i~~I~RDE~~H~~f~~~l~~~l~~e~p~ 268 (369)
T PRK07209 234 MTGIAEQYQYILRDESMHLNFGIDLINQIKLENPH 268 (369)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 46789999999999999999999999999887775
No 32
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=79.10 E-value=3.3 Score=39.23 Aligned_cols=36 Identities=25% Similarity=0.166 Sum_probs=32.5
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchh
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDD 161 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~ 161 (276)
=|.++++...|++||.+|-.|...++..++...|+.
T Consensus 184 m~g~~~~i~~I~RDE~~H~~f~~~l~~~l~~e~~~~ 219 (324)
T PRK09614 184 MTGTAQIIRLIIRDESLHGYYIGYLFQEGLEELPEL 219 (324)
T ss_pred cccHHHHHHHHHhhhHHHHHHHHHHHHHHHHhCCHh
Confidence 467899999999999999999999999999888764
No 33
>PRK10635 bacterioferritin; Provisional
Probab=78.73 E-value=21 Score=30.79 Aligned_cols=60 Identities=12% Similarity=-0.075 Sum_probs=51.7
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
|+...|-..--.|+-.--.+++..++|...||++-..++..|-.||..|..+....++.+
T Consensus 82 ~v~eml~~dl~~E~~ai~~y~e~i~~a~~~~D~~s~~ll~~iL~dEe~H~~~le~~l~~i 141 (158)
T PRK10635 82 DVEEMLRSDLRLELEGAKDLREAIAYADSVHDYVSRDMMIEILADEEGHIDWLETELDLI 141 (158)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 555666666677888888899999999989999999999999999999999998887653
No 34
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=78.40 E-value=5.2 Score=37.00 Aligned_cols=32 Identities=28% Similarity=0.160 Sum_probs=29.7
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhc
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEI 157 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~ 157 (276)
=|.++++...|.+||.+|..|...++..+.+-
T Consensus 180 m~g~~~~i~~I~RDE~~H~~~~~~l~~~l~~e 211 (281)
T PF00268_consen 180 MPGLAEIIKLIMRDESLHVEFGIYLFRTLVEE 211 (281)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 57899999999999999999999999999864
No 35
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=77.28 E-value=7.4 Score=34.31 Aligned_cols=42 Identities=29% Similarity=0.296 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 114 HGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 114 h~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
|.-.|+.|+.-|.|.++++...||-+|..|..-..+++..+.
T Consensus 23 Y~~~A~~A~~eG~~~va~lfr~iA~~E~~HA~~~~~~l~~~~ 64 (166)
T COG1592 23 YLIFAKVAEEEGYPEIARLFRAIAEAEAVHAKNHLKLLGKLL 64 (166)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 455678888899999999999999999999999999998877
No 36
>TIGR02029 AcsF magnesium-protoporphyrin IX monomethyl ester aerobic oxidative cyclase. This model respresents the oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under aerobic conditions. This enzyme is believed to utilize a binuclear iron center and molecular oxygen. There are two isoforms of this enzyme in some plants and cyanobacterai which are differentially regulated based on the levels of copper and oxygen. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under aerobic conditions (a separate enzyme, BchE, acts under anaerobic conditions). This enzyme is found in plants, cyanobacteria and other photosynthetic bacteria.
Probab=77.22 E-value=3.3 Score=40.07 Aligned_cols=39 Identities=26% Similarity=0.256 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 113 SHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 113 sh~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
-|.-++|..+ ..+|+|+++-+..|+||+||.-|--+-++
T Consensus 91 LYKEl~rrlk-~~~P~lae~F~~MaRDEARHAGFlNkam~ 129 (337)
T TIGR02029 91 LYKELSRRLK-NRDPVVAELFQLMARDEARHAGFLNKALG 129 (337)
T ss_pred HHHHHHHhcC-CCChHHHHHHHHHhhhhHHHhhhHHHHHH
Confidence 3555555543 35999999999999999999988766554
No 37
>PTZ00211 ribonucleoside-diphosphate reductase small subunit; Provisional
Probab=77.19 E-value=4.2 Score=38.91 Aligned_cols=36 Identities=19% Similarity=0.054 Sum_probs=31.4
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchh
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDD 161 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~ 161 (276)
=|.++++...|++||.+|..|...++..+++.-|.+
T Consensus 193 m~g~~~~i~~I~RDE~~H~~f~~~l~~~l~~~~~~~ 228 (330)
T PTZ00211 193 MPGLTFSNELISRDEGLHTDFACLLYSHLKNKLPRE 228 (330)
T ss_pred CcchHHHHHHHHhhHHHHHHHHHHHHHHHhcCCCHH
Confidence 467889999999999999999999999999765544
No 38
>PLN02508 magnesium-protoporphyrin IX monomethyl ester [oxidative] cyclase
Probab=76.66 E-value=3.1 Score=40.50 Aligned_cols=41 Identities=22% Similarity=0.251 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 112 ISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 112 ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
+-|..++|..+. .+|.|+++-+..|+||+||.-|--+-++.
T Consensus 96 lLYKEl~rrlk~-~nP~lae~F~lMaRDEARHAGFlNkam~D 136 (357)
T PLN02508 96 LLYKELGRRLKK-TNPVVAEIFTLMSRDEARHAGFLNKALSD 136 (357)
T ss_pred hHHHHHHHhccc-CChHHHHHHHHhCchhHHHHhHHHHHHHH
Confidence 346666665542 37999999999999999999987776653
No 39
>PRK12759 bifunctional gluaredoxin/ribonucleoside-diphosphate reductase subunit beta; Provisional
Probab=75.93 E-value=2.6 Score=41.56 Aligned_cols=35 Identities=11% Similarity=0.097 Sum_probs=32.2
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
=|.++++...|++||..|..|...++..+++..|+
T Consensus 268 m~g~~~~i~~I~RDE~lH~~~~~~l~~~l~~e~p~ 302 (410)
T PRK12759 268 MKGMGKVVEWSIRDESMHVEGNAALFRIYCQENPY 302 (410)
T ss_pred CeeHHHHHHHHHHHHHHHHHHHHHHHHHHHHhChh
Confidence 46789999999999999999999999999988876
No 40
>PLN02492 ribonucleoside-diphosphate reductase
Probab=74.43 E-value=5.7 Score=37.82 Aligned_cols=35 Identities=17% Similarity=-0.063 Sum_probs=30.2
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
=|.++++...|++||.+|..|...++..+.+--+.
T Consensus 182 m~g~~~~i~~I~RDE~~H~~~~~~l~~~l~~~~~~ 216 (324)
T PLN02492 182 MPGLTFSNELISRDEGLHCDFACLLYSLLKNKLSE 216 (324)
T ss_pred CcchHHHHHHHHhhHHHHHHHHHHHHHHHHhCCCH
Confidence 46789999999999999999999999988865443
No 41
>cd01052 DPSL DPS-like protein, ferritin-like diiron-binding domain. DPSL (DPS-like). DPSL is a phylogenetically distinct class within the ferritin-like superfamily, and similar in many ways to the DPS (DNA Protecting protein under Starved conditions) proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize hydrogen peroxide in the controlled oxidation of iron, and possess a short N-terminal extension implicated in stabilizing cellular DNA. This domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. These proteins are distantly related to bacterial ferritins which assemble 24 monomers, each of which have a four-helix bundle with a fifth shorter helix at the C terminus and a diiron (ferroxidase) center. Ferritins contain a center where oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical
Probab=74.00 E-value=6.2 Score=32.33 Aligned_cols=53 Identities=13% Similarity=0.060 Sum_probs=41.7
Q ss_pred cchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHH
Q 038880 97 YNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKI 150 (276)
Q Consensus 97 ~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~i 150 (276)
...|--.-=.|...-..+++..++|.. ||+....++..|-.||..|..-+..+
T Consensus 95 ~~~l~~~~~~e~~~i~~~~~~~~~a~~-~D~~t~~ll~~~l~de~~h~~~~~~~ 147 (148)
T cd01052 95 KGILKVNLKAERCAIKVYKELCDMTHG-KDPVTYDLALAILNEEIEHEEDLEEL 147 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcC-CChHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334444444566677778888888765 89999999999999999999998876
No 42
>PF00268 Ribonuc_red_sm: Ribonucleotide reductase, small chain; InterPro: IPR000358 Ribonucleotide reductase (1.17.4.1 from EC) [, ] catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides: 2'-deoxyribonucleoside diphosphate + oxidized thioredoxin + H2O = ribonucleoside diphosphate + reduced thioredoxin It provides the precursors necessary for DNA synthesis. RNRs divide into three classes on the basis of their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, bacteriophage and viruses, use a diiron-tyrosyl radical, Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in anaerobic bacteria and bacteriophage, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. Ribonucleotide reductase is an oligomeric enzyme composed of a large subunit (700 to 1000 residues) and a small subunit (300 to 400 residues) - class II RNRs are less complex, using the small molecule B12 in place of the small chain []. The small chain binds two iron atoms [] (three Glu, one Asp, and two His are involved in metal binding) and contains an active site tyrosine radical. The regions of the sequence that contain the metal-binding residues and the active site tyrosine are conserved in ribonucleotide reductase small chain from prokaryotes, eukaryotes and viruses. We have selected one of these regions as a signature pattern. It contains the active site residue as well as a glutamate and a histidine involved in the binding of iron.; GO: 0004748 ribonucleoside-diphosphate reductase activity, 0009186 deoxyribonucleoside diphosphate metabolic process, 0055114 oxidation-reduction process; PDB: 1JK0_B 1SMS_B 2VUX_B 4DJN_B 3HF1_B 2RCC_B 2BQ1_I 1R2F_A 2R2F_A 2O1Z_A ....
Probab=73.89 E-value=10 Score=35.03 Aligned_cols=44 Identities=20% Similarity=0.219 Sum_probs=36.7
Q ss_pred HHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhH
Q 038880 118 ARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDA 162 (276)
Q Consensus 118 ar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~t 162 (276)
..+.....+|-...+++..+..|+.|..+|+.+++.+. .||+..
T Consensus 76 ~~i~~~~~~~E~~~~l~~q~~~E~iH~~sYs~il~~l~-~~~~~~ 119 (281)
T PF00268_consen 76 PNIMPEITSPEIRAFLTFQAFMEAIHAESYSYILDSLG-NDPKER 119 (281)
T ss_dssp HHHHHHCSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHS-SSHHHH
T ss_pred HHHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CChHHH
Confidence 44444567999999999999999999999999999998 566543
No 43
>CHL00185 ycf59 magnesium-protoporphyrin IX monomethyl ester cyclase; Provisional
Probab=73.48 E-value=5.2 Score=38.94 Aligned_cols=40 Identities=23% Similarity=0.168 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 112 ISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 112 ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
+-|.-++|..+ ..+|.|+++-+..|+||+||.-|--+-++
T Consensus 96 lLYKEl~rrlk-~~nP~lae~F~lMaRDEARHAGFlNkam~ 135 (351)
T CHL00185 96 LLYKELSRKLK-DKNPLLAEGFLLMSRDEARHAGFLNKAMS 135 (351)
T ss_pred HHHHHHHHHhc-cCCcHHHHHHHHHhhhhHHHhhhHHHHHH
Confidence 34566666554 23799999999999999999988766543
No 44
>cd01047 ACSF Aerobic Cyclase System Fe-containing subunit (ACSF), ferritin-like diiron-binding domain. Aerobic Cyclase System, Fe-containing subunit (ACSF) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Rubrivivax gelatinosus acsF codes for a conserved, putative binuclear iron-cluster-containing protein involved in aerobic oxidative cyclization of Mg-protoporphyrin IX monomethyl ester. AcsF and homologs have a leucine zipper and two copies of the conserved glutamate and histidine residues predicted to act as ligands for iron in the Ex(29-35)DExRH motifs. Several homologs of AcsF are found in a wide range of photosynthetic organisms, including Chlamydomonas reinhardtii Crd1 and Pharbitis nil PNZIP, suggesting that this aerobic oxidative cyclization mechanism is conserved from bacteria to plants.
Probab=72.49 E-value=5.4 Score=38.43 Aligned_cols=40 Identities=23% Similarity=0.259 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 112 ISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 112 ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
+-|.-++|..+.. +|.|+++-+..|+||+||.-|--+-++
T Consensus 80 lLYKEl~rrlk~~-nP~lae~F~lMaRDEARHAGFlNkam~ 119 (323)
T cd01047 80 LLYKELGRRLKNT-NPVVAELFRLMARDEARHAGFLNKALS 119 (323)
T ss_pred HHHHHHHHHcccC-CcHHHHHHHHHhhhHHHHhhhHHHHHH
Confidence 3355556654422 799999999999999999998766553
No 45
>PRK13654 magnesium-protoporphyrin IX monomethyl ester cyclase; Provisional
Probab=71.46 E-value=5.8 Score=38.72 Aligned_cols=40 Identities=25% Similarity=0.308 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 112 ISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 112 ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
+-|.-++|..+.. +|.|+++-+..|+||+||.-|--+-++
T Consensus 100 lLYKEl~rrlk~~-nP~lae~F~lMaRDEARHAGFlNkam~ 139 (355)
T PRK13654 100 LLYKELSRRLKDR-NPLLAELFQLMARDEARHAGFLNKAMK 139 (355)
T ss_pred HHHHHHHHhcccc-CcHHHHHHHHHhhhHHHHhhhHHHHHH
Confidence 3455556654433 899999999999999999998766554
No 46
>cd07910 MiaE MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain. MiaE is a nonheme diiron monooxygenase that catalyzes the posttranscriptional allylic hydroxylation of a modified nucleoside in tRNA called 2-methylthio-N-6-isopentenyl adenosine (ms2i6A). ms2i6A is found at position 37, next to the anticodon at the 3' position in almost all eukaryotic and bacterial tRNA's that read codons beginning with uridine. The miaE gene is absent in Escherichia coli, a finding consistent with the absence of the hydroxylated derivative of ms2i6A in this species.
Probab=69.75 E-value=13 Score=33.32 Aligned_cols=57 Identities=21% Similarity=0.242 Sum_probs=47.9
Q ss_pred cchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 97 YNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 97 ~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
++.++..++=| .=||...+.+|..+-|+.|++....+..-|+||+.-|-.+-..++.
T Consensus 104 lD~Llv~alIE---ARScERF~lLa~~l~D~eL~~FY~~Ll~SEarHy~~yl~LA~~y~~ 160 (180)
T cd07910 104 LDRLLVAALIE---ARSCERFALLAPALPDPELKKFYRGLLESEARHYELFLDLARKYFD 160 (180)
T ss_pred HHHHHHHHHHH---HHhHHHHHHHhccCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHcC
Confidence 44555566555 4578899999976689999999999999999999999999999886
No 47
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=66.15 E-value=9.9 Score=37.16 Aligned_cols=35 Identities=26% Similarity=0.246 Sum_probs=31.0
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHHh--cCch
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLFE--IDPD 160 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~le--~dPd 160 (276)
=|-++++...|++||..|-.|...++..+.. .+|+
T Consensus 225 m~g~~~~i~~I~RDE~lH~~~~~~l~~~l~~~~e~p~ 261 (376)
T PRK09101 225 MEGNAKIIRLIARDEALHLTGTQHMLNLMRSGKDDPE 261 (376)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccChh
Confidence 3578999999999999999999999999985 6776
No 48
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=62.37 E-value=13 Score=40.83 Aligned_cols=49 Identities=16% Similarity=0.063 Sum_probs=40.8
Q ss_pred hhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 103 TSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 103 tsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
.-==|+..+.||...|+ +.++|.+.+|...+|..|..|...+.+++...
T Consensus 868 Ai~mE~~g~~FY~~~A~---~a~~~~~K~lF~~LA~eE~~H~~~l~~~~~~~ 916 (1006)
T PRK12775 868 AFEIELGGMAFYARAAK---ETSDPVLKELFLKFAGMEQEHMATLARRYHAA 916 (1006)
T ss_pred HHHHHHHHHHHHHHHHH---HcCCHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 33348889999996555 56799999999999999999999998887643
No 49
>COG2186 FadR Transcriptional regulators [Transcription]
Probab=62.15 E-value=28 Score=31.64 Aligned_cols=62 Identities=19% Similarity=0.151 Sum_probs=47.4
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhh--------------chhhHH--HHHHHHHHHHHHhcCchhHHHHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIA--------------SDEKRH--ELAYTKIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA--------------~DE~rH--~~fY~~iv~~~le~dPd~tm~Aia~~m 170 (276)
..+-.-||.-+++ .+|+|+|..+++-|- ...... ..++..|++++..-||+++-.|+...+
T Consensus 148 ~~aD~~FH~aIa~---as~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~AI~~~D~~~A~~am~~hl 224 (241)
T COG2186 148 AEADLAFHLAIAE---ASGNPVLLLLLEALWDLLRRSVRASTLAALARDETVVLEEHRAIVDAIAAGDPDAAREAMRAHL 224 (241)
T ss_pred HHHHHHHHHHHHH---HhCCHHHHHHHHHHHHHHHHHHHhhchhhcccccchhHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4567889995555 578999999988554 112222 678999999999999999988888877
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 225 ~ 225 (241)
T COG2186 225 E 225 (241)
T ss_pred H
Confidence 5
No 50
>PF05138 PaaA_PaaC: Phenylacetic acid catabolic protein; InterPro: IPR007814 This family includes proteins such as PaaA and PaaC that are part of a catabolic pathway of phenylacetic acid []. These proteins may form part of a dioxygenase complex.; PDB: 3PWQ_K 3PVT_B 1OTK_B 3PW1_B 3PW8_B 3PVR_B 3PVY_B 3Q1G_A 3PF7_B 3PM5_C ....
Probab=61.10 E-value=40 Score=31.45 Aligned_cols=112 Identities=15% Similarity=0.110 Sum_probs=71.3
Q ss_pred cchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcC---chhHHHHHHHHHhhc
Q 038880 97 YNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEID---PDDAILALAGMMKKT 173 (276)
Q Consensus 97 ~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~d---Pd~tm~Aia~~m~~~ 173 (276)
-.+++...|-+.+-.+... .++ .+.++.|+.++.+|-++|.-|..+-.+.|..+-.-. ++.+..||..+..-.
T Consensus 106 a~~v~r~~l~d~~~~~~l~---~l~-~ssy~pla~~a~k~~kEe~yH~~h~~~w~~rL~~gt~es~~r~q~Al~~~wp~~ 181 (263)
T PF05138_consen 106 ADTVARQFLFDRAGKVLLE---ALA-DSSYEPLAAIAAKILKEEAYHLRHGEDWLRRLGDGTEESRERMQAALDRLWPYT 181 (263)
T ss_dssp HHHHHHHHHHHHHHHHHHH---HHT-T-SBHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH---HHH-cCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH
Confidence 3466667777777777666 443 367999999999999999999999999999998444 456677777766421
Q ss_pred cCCccccCCCCCcchhhhhHHHHHHHhcCCChhh-----HHHHHHHHHhcccccc
Q 038880 174 IKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKD-----YADILAFLIERWEVEK 223 (276)
Q Consensus 174 ~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~d-----y~~Vl~~ll~~W~v~~ 223 (276)
-.| ..-.+. ...+...|+-...+ +.+.+.+++...++.-
T Consensus 182 ~el-----F~~~~~------~~~l~~~~~~~~~~~lr~~w~~~v~~~l~~~gL~~ 225 (263)
T PF05138_consen 182 LEL-----FGPDDS------EEALAWGGRAPDNEELRQRWLAEVVPVLEEAGLEV 225 (263)
T ss_dssp HHC-----C-S-HC------HHHHHCTTSSS-HHHHHHHHHHHHHHHHHHTT---
T ss_pred HHH-----cCCCch------HHHHHHCCCCCCHHHHHHHHHHHHHHHHHHcCCCC
Confidence 122 111111 13333444433322 4577888888888764
No 51
>COG4445 MiaE Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=60.95 E-value=20 Score=31.99 Aligned_cols=73 Identities=22% Similarity=0.234 Sum_probs=59.2
Q ss_pred chhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhc-CchhHHHHHHHHHhhcc
Q 038880 98 NGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEI-DPDDAILALAGMMKKTI 174 (276)
Q Consensus 98 ~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~-dPd~tm~Aia~~m~~~~ 174 (276)
+.++-+++=| .-||.+.|++|-.+ |..|++...-+-+-|+||+.-|-.+-..+++. |=++.+.-++.+=..-|
T Consensus 115 D~Livga~IE---ARScERfa~Laphl-deelakFY~gLl~SEaRHfqdYl~LA~qy~d~~dvs~rv~~~~~vEaeLi 188 (203)
T COG4445 115 DKLIVGAYIE---ARSCERFAALAPHL-DEELAKFYKGLLRSEARHFQDYLVLADQYFDEEDVSQRVDYFGIVEAELI 188 (203)
T ss_pred HHHHHHHHHh---hhhHHHHHhhcccc-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHH
Confidence 3555555555 45899999998755 77999999999999999999999999999988 88888888887765433
No 52
>cd01048 Ferritin_like_AB2 Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria, subgroup 2 (Ferritin_like_AB2). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. The conserved residues of a diiron center are present within the putative active site.
Probab=59.77 E-value=14 Score=30.85 Aligned_cols=49 Identities=20% Similarity=0.178 Sum_probs=37.6
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 99 GFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 99 ~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
.+.|.-==|+-.+-+|..++. .+| +.++...||..|.+|+.+..+++++
T Consensus 4 ~L~~Ale~Ek~a~~~Y~~~~~---k~~---~~~~F~~la~~E~~H~~~l~~L~~~ 52 (135)
T cd01048 4 ALLYALEEEKLARDVYLALYE---KFG---GLRPFSNIAESEQRHMDALKTLLER 52 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHH---Hhc---CcchHHHHHHHHHHHHHHHHHHHHH
Confidence 455555568888889996665 454 6789999999999999988777654
No 53
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=59.22 E-value=19 Score=31.75 Aligned_cols=43 Identities=30% Similarity=0.303 Sum_probs=36.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 114 HGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 114 h~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
+-..+..|+..|+...+.-+..++.||++|..-|+.+++.+.+
T Consensus 89 yp~~ae~A~~~g~~~~a~~f~~~~~~Ek~H~~~~~~~Le~~~~ 131 (166)
T COG1592 89 YPVFAEVAEEEGFKEAARSFRAAAKAEKRHAEMFRGLLERLEE 131 (166)
T ss_pred ChHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 3345566778899999999999999999999999999987743
No 54
>cd01055 Nonheme_Ferritin nonheme-containing ferritins. Nonheme Ferritin domain, found in archaea and bacteria, is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The ferritin protein shell is composed of 24 protein subunits arranged in 432 symmetry. Each protein subunit, a four-helix bundle with a fifth short terminal helix, contains a dinuclear ferroxidase center (H type). Unique to this group of proteins is a third metal site in the ferroxidase center. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite.
Probab=58.08 E-value=29 Score=28.78 Aligned_cols=47 Identities=17% Similarity=0.117 Sum_probs=40.1
Q ss_pred hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 106 QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 106 QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
.|......|-..+..+...|-|.++..+...|.+|..|..-+.+.+.
T Consensus 14 ~El~A~~~Yl~~a~~~~~~~~~~~a~~f~~~a~eE~~HA~~l~~~i~ 60 (156)
T cd01055 14 LELYSSYLYLAMAAWFDSKGLDGFANFFRVQAQEEREHAMKFFDYLN 60 (156)
T ss_pred HHHHHHHHHHHHHHHHhhcCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46666777888888888889999999999999999999987776664
No 55
>cd01049 RNRR2 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain. Ribonucleotide Reductase, R2/beta subunit (RNRR2) is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in all eukaryotes, many prokaryotes, several viruses, and few archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites. The beta subunit (R2) contains a diiron cluster that, in its reduced state, reacts with dioxygen to form a stable tyrosyl radical and a diiron(III) cluster. This essential tyrosyl radical is proposed to generate a thiyl radical, located on a cysteine residue in the R1 active site that initiates ribonucleotide reduction. The beta subunit is composed of 10-13 helices, the 8 longest helices form an alpha-
Probab=56.75 E-value=22 Score=32.62 Aligned_cols=32 Identities=22% Similarity=0.171 Sum_probs=29.6
Q ss_pred CCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 125 GDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 125 gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
+.|-....++..+.+|+.|..+|+.+++.+..
T Consensus 75 ~~~e~~~~~~~q~~~E~iH~e~Ys~il~~l~~ 106 (288)
T cd01049 75 QIPEARAFYGFQAFMENIHSESYSYILDTLGK 106 (288)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 58999999999999999999999999988864
No 56
>cd01044 Ferritin_CCC1_N Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain. Ferritin-like N-terminal domain present in an uncharacterized family of proteins found in bacteria and archaea. These proteins also have a C-terminal CCC1-like transmembrane domain and are thought to be involved in iron and/or manganese transport. This domain has the conserved residues of a diiron center found in other ferritin-like proteins.
Probab=53.78 E-value=20 Score=29.02 Aligned_cols=38 Identities=16% Similarity=0.097 Sum_probs=28.1
Q ss_pred hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 106 QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 106 QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
-|..+..+|...+.. ..++.+|+.||..|+.-..++++
T Consensus 87 ~E~~ai~~Y~~~~~~---------~~~~~~Ii~dE~~H~~~L~~~~~ 124 (125)
T cd01044 87 GEERAIEKYDRLLEE---------RPELKEIIADELEHEEVLIALLD 124 (125)
T ss_pred hHHhhHhhHHhhhhh---------hHHHHHHHHHHHHHHHHHHHhhh
Confidence 466677777755543 35778899999999988877653
No 57
>cd01057 AAMH_A Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain. Aromatic and Alkene Monooxygenase Hydroxylases, subunit A (AAMH_A). Subunit A of the soluble hydroxylase of multicomponent, aromatic and alkene monooxygenases are members of a superfamily of ferritin-like iron-storage proteins. AAMH exists as a hexamer (an alpha2-beta2-gamma2 homodimer) with each alpha-subunit housing one nonheme diiron center embedded in a four-helix bundle. The N-terminal domain of the alpha- and noncatalytic beta-subunits possess nearly identical folds, however, the beta-subunit lacks critical diiron ligands and a C-terminal domain found in the alpha-subunit. Methane monooxygenase is a multicomponent enzyme found in methanotrophic bacteria that catalyzes the hydroxylation of methane and higher alkenes (as large as octane). Phenol monooxygenase, found in a diverse group of bacteria, catalyses the hydroxylation of phenol, chloro- and methyl-phenol and naphtho
Probab=52.82 E-value=30 Score=35.10 Aligned_cols=50 Identities=32% Similarity=0.275 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 110 TFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 110 T~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
|...-.-+++.|...||..+..+..-|=.||.||+.-=..+| .+|.-||+
T Consensus 186 tnl~~~~~~~~Aa~nGD~~tptv~~S~QsDe~Rh~~~g~~ll-~~l~~Dp~ 235 (465)
T cd01057 186 TNLLFVALASDAAANGDYATPTVFLSIQSDEARHMANGYPTL-VLLENDPD 235 (465)
T ss_pred hHHHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhHHHHH-HHHHcCcc
Confidence 444444566777789999999999999999999999988888 88888986
No 58
>PRK13967 nrdF1 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=52.40 E-value=20 Score=34.34 Aligned_cols=30 Identities=17% Similarity=0.098 Sum_probs=25.5
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
=|.++++...|++||..|..|...++...+
T Consensus 181 m~g~~~~i~~I~RDE~~H~~~~~~~~~~~~ 210 (322)
T PRK13967 181 LTNTADLIRLIIRDEAVHGYYIGYKCQRGL 210 (322)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 467899999999999999999998665544
No 59
>PF04305 DUF455: Protein of unknown function (DUF455); InterPro: IPR007402 This is a family of uncharacterised proteins.
Probab=51.97 E-value=55 Score=30.59 Aligned_cols=87 Identities=18% Similarity=0.102 Sum_probs=60.3
Q ss_pred HHhcCCCCCCCCCCcchhhhhhhhhhhHHHH------H-----------HHHHHHHHHhCCHHHHHHHhHhhchhhHHHH
Q 038880 83 LIRSGMDPKFENNPYNGFIYTSFQERATFIS------H-----------GNTARLAKEHGDMKLAQICGVIASDEKRHEL 145 (276)
Q Consensus 83 li~~G~~~~~~~~p~~~~vYtsfQE~AT~is------h-----------~ntar~a~~~gDpvLa~il~~IA~DE~rH~~ 145 (276)
|-.-|++.+. =|.+.-.+-+.|+.+.-+. | ..+.+.-+..||...+.|+..|-.||-.|-.
T Consensus 122 L~~lG~~yGd--~P~h~gLw~~~~~t~~dl~~R~A~vp~~~EArGLD~~p~~~~k~~~~gD~~sa~iL~~I~~DEi~HV~ 199 (253)
T PF04305_consen 122 LEELGSDYGD--LPAHDGLWEAAEQTAHDLLARMALVPRVLEARGLDVTPFIIEKFRSAGDEESAAILEIILRDEIGHVA 199 (253)
T ss_pred HHHhCCCCCC--cchhhHHHHHHHHhccCHHHHHHHHHHHHHhhCCCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 4344887763 5777776666655541111 1 1122222348999999999999999999999
Q ss_pred HHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 146 AYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 146 fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
+=.+=+..+-+.........+...+.
T Consensus 200 ~G~rWf~~~c~~~~~~p~~~f~~lv~ 225 (253)
T PF04305_consen 200 IGNRWFRYLCEQRGLDPWETFRELVR 225 (253)
T ss_pred hhHHHHHHHHHhccccHHHHHHHHHH
Confidence 88888887777777777778888885
No 60
>cd00907 Bacterioferritin Bacterioferritin, ferritin-like diiron-binding domain. Bacterioferritins, also known as cytochrome b1, are members of a broad superfamily of ferritin-like diiron-carboxylate proteins. Similar to ferritin in architecture, Bfr forms an oligomer of 24 subunits that assembles to form a hollow sphere with 432 symmetry. Up to 12 heme cofactor groups (iron protoporphyrin IX or coproporphyrin III) are bound between dimer pairs. The role of the heme is unknown, although it may be involved in mediating iron-core reduction and iron release. Each subunit is composed of a four-helix bundle which carries a diiron ferroxidase center; it is here that initial oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical products, and storage of ferric-hydroxyphosphate at the core. Some bacterioferritins are composed of two subunit types, one conferring heme-binding ability (alpha) and the other (beta) best
Probab=51.32 E-value=42 Score=27.50 Aligned_cols=46 Identities=20% Similarity=0.092 Sum_probs=37.2
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
|......|.+.+..++..|-|.++..+..+|.||..|..-..+.+.
T Consensus 17 E~~a~~~Y~~~a~~~~~~~~~~~~~~f~~~a~ee~~Ha~~lae~i~ 62 (153)
T cd00907 17 ELTAINQYFLHARMLEDWGLEKLAERFRKESIEEMKHADKLIERIL 62 (153)
T ss_pred HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555566777778887788999999999999999999887666654
No 61
>PRK13965 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=51.12 E-value=18 Score=34.77 Aligned_cols=28 Identities=14% Similarity=0.036 Sum_probs=22.2
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
=|.++++...|++||..|-.|-..+...
T Consensus 194 M~g~~~~i~~I~RDE~lH~~~~~~l~~~ 221 (335)
T PRK13965 194 LPNTSDIIRLILRDKVIHNYYSGYKYQQ 221 (335)
T ss_pred CccHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 4678999999999999999874444433
No 62
>PRK08326 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=51.01 E-value=28 Score=33.13 Aligned_cols=40 Identities=15% Similarity=0.196 Sum_probs=31.4
Q ss_pred HHHHHHHHHh---CCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 115 GNTARLAKEH---GDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 115 ~ntar~a~~~---gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
.|++.++... |-|-....+...+.+|++|..+|+.+++.+
T Consensus 80 ~nl~~~i~~~~~~~~~e~~~~l~~q~~~EaiH~e~Y~~~le~l 122 (311)
T PRK08326 80 LDIQPLISAMAAEGRLEDEMYLTQFAFEEAKHTEAFRRWFDAV 122 (311)
T ss_pred HHHHHHHhhccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4555555433 337888899999999999999999999765
No 63
>cd01052 DPSL DPS-like protein, ferritin-like diiron-binding domain. DPSL (DPS-like). DPSL is a phylogenetically distinct class within the ferritin-like superfamily, and similar in many ways to the DPS (DNA Protecting protein under Starved conditions) proteins. Like DPS, these proteins are expressed in response to oxidative stress, form dodecameric cage-like particles, preferentially utilize hydrogen peroxide in the controlled oxidation of iron, and possess a short N-terminal extension implicated in stabilizing cellular DNA. This domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. These proteins are distantly related to bacterial ferritins which assemble 24 monomers, each of which have a four-helix bundle with a fifth shorter helix at the C terminus and a diiron (ferroxidase) center. Ferritins contain a center where oxidation of ferrous iron by molecular oxygen occurs, facilitating the detoxification of iron, protection against dioxygen and radical
Probab=48.52 E-value=73 Score=25.91 Aligned_cols=60 Identities=12% Similarity=-0.003 Sum_probs=46.8
Q ss_pred hhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDAILALA 167 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~tm~Aia 167 (276)
|.+....|.+.+..++..+.+.+...+..++.+|..|.....+.+.. |.-.|...+..+.
T Consensus 18 e~~~~~~y~~~~~~~~g~~f~~l~~~~~~~~~ee~~Had~laEri~~-lGg~p~~~~~~~~ 77 (148)
T cd01052 18 EWLAYYYYTILAKHVKGPEGEGIKEELEEAAEEELNHAELLAERIYE-LGGTPPRDPKDWY 77 (148)
T ss_pred HHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH-hCCCCCCChHHHH
Confidence 33444556777777777778899999999999999999998888866 7778887664443
No 64
>cd01051 Mn_catalase Manganese catalase, ferritin-like diiron-binding domain. Manganese (Mn) catalase is a member of a broad superfamily of ferritin-like diiron enzymes. While many diiron enzymes catalyze dioxygen-dependent reactions, manganese catalase performs peroxide-dependent oxidation-reduction. Catalases are important antioxidant metalloenzymes that catalyze disproportionation of hydrogen peroxide, forming dioxygen and water. Manganese catalase, a nonheme type II catalase, contains a binuclear manganese cluster that catalyzes the redox dismutation of hydrogen peroxide, interconverting between dimanganese(II) [(2,2)] and dimanganese(III) [(3,3)] oxidation states during turnover. Mn catalases are found in a broad range of microorganisms in microaerophilic environments, including the mesophilic lactic acid bacteria (e.g., Lactobacillus plantarum) and bacterial and archaeal thermophiles (e.g., Thermus thermophilus and Pyrobaculum caldifontis). L. plantarum and T. thermophilus holoenz
Probab=47.34 E-value=47 Score=28.54 Aligned_cols=49 Identities=14% Similarity=0.057 Sum_probs=39.7
Q ss_pred hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 106 QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 106 QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
=|..+.+-|-.-+-..+ .+|.+..++..||.+|..|+......|..+..
T Consensus 34 gEl~ai~qYl~q~~~~~--~~~~~~d~l~~ia~eEm~H~e~la~~I~~Lg~ 82 (156)
T cd01051 34 GELSAAMQYLFQSFNFR--EDPKYRDLLLDIGTEELSHLEMVATLIAMLLK 82 (156)
T ss_pred HHHHHHHHHHHHHhhcC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHcC
Confidence 46666666665555442 58999999999999999999999999988887
No 65
>PRK13966 nrdF2 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=47.33 E-value=33 Score=32.90 Aligned_cols=63 Identities=16% Similarity=0.107 Sum_probs=41.5
Q ss_pred CCcchhhhhhhhhhhHHHH----HHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 95 NPYNGFIYTSFQERATFIS----HGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~is----h~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
+++..++..++-|-.-+-| --++++ +..=|.++++...|++||..|-.|...++......-|+
T Consensus 151 ~~~~~~va~~~lEgi~FysgF~~~~~l~~---~~km~g~~~~i~~I~RDE~lH~~f~~~l~~~~~~~~~~ 217 (324)
T PRK13966 151 EPLKRKVASTLLESFLFYSGFYLPMYWSS---RAKLTNTADMIRLIIRDEAVHGYYIGYKFQRGLALVDD 217 (324)
T ss_pred hHHHHHHHHHHHhHHHHHHHHHHHHHHhh---cCCCCcHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCCh
Confidence 3455566555555442222 112222 22356789999999999999999999999877665555
No 66
>cd07911 RNRR2_Rv0233_like Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain. Rv0233 is a Mycobacterium tuberculosis ribonucleotide reductase R2 protein with a heterodinuclear manganese/iron-carboxylate cofactor located in its metal center. The Rv0233-like family may represent a structural/functional counterpart of the evolutionary ancestor of the RNRR2's (Ribonucleotide Reductase, R2/beta subunit) and the bacterial multicomponent monooxygenases. RNRR2s belong to a broad superfamily of ferritin-like diiron-carboxylate proteins. The RNR protein catalyzes the conversion of ribonucleotides to deoxyribonucleotides and is found in prokaryotes and archaea. The catalytically active form of RNR is a proposed alpha2-beta2 tetramer. The homodimeric alpha subunit (R1) contains the active site and redox active cysteines as well as the allosteric binding sites.
Probab=46.97 E-value=56 Score=30.27 Aligned_cols=33 Identities=9% Similarity=0.122 Sum_probs=29.0
Q ss_pred hCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 124 HGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 124 ~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
.++|.....++..+.+|++|..+|+.+++.+..
T Consensus 75 ~~~~e~~~~l~~q~~~EaiH~esYs~~l~tl~~ 107 (280)
T cd07911 75 EGRLEEEMYLTQFLFEEAKHTDFFRRWLDAVGV 107 (280)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 457888899999999999999999999988743
No 67
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=46.81 E-value=37 Score=26.17 Aligned_cols=40 Identities=18% Similarity=0.421 Sum_probs=30.6
Q ss_pred HHHHHHhccccccccCCCHHHHHHHHHHhcchHHHHHHHHHHHhh
Q 038880 211 ILAFLIERWEVEKLMGLTSEGRKARDFVCGLPSRIRRLEDKAQAN 255 (276)
Q Consensus 211 Vl~~ll~~W~v~~~~gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~ 255 (276)
++.|-..+|+... |||++ -++.|..|..+++|++||.+.-
T Consensus 22 L~lHY~sk~~~~~--gLs~~---d~~~L~~L~~~a~rm~eRI~tL 61 (75)
T PF06667_consen 22 LILHYRSKWKSSQ--GLSEE---DEQRLQELYEQAERMEERIETL 61 (75)
T ss_pred HHHHHHHhcccCC--CCCHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 4566678887644 89865 3667889999999999998754
No 68
>PRK07209 ribonucleotide-diphosphate reductase subunit beta; Validated
Probab=46.28 E-value=59 Score=31.69 Aligned_cols=43 Identities=26% Similarity=0.196 Sum_probs=35.3
Q ss_pred HHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhH
Q 038880 119 RLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDA 162 (276)
Q Consensus 119 r~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~t 162 (276)
.+......|-+...++..+..|+.|..+|+.+++.+. .+|+..
T Consensus 120 ~l~~~i~~pE~r~~l~~q~~~E~iHs~sYs~ildtl~-~~~~e~ 162 (369)
T PRK07209 120 AIYRHITNPECRQYLLRQAFEEAIHTHAYQYIVESLG-LDEGEI 162 (369)
T ss_pred HHHHHcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC-CCHHHH
Confidence 3333455899999999999999999999999999984 577653
No 69
>PRK10421 DNA-binding transcriptional repressor LldR; Provisional
Probab=45.50 E-value=1.1e+02 Score=27.42 Aligned_cols=60 Identities=13% Similarity=0.094 Sum_probs=43.1
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhc----------------hh--hHHHHHHHHHHHHHHhcCchhHHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIAS----------------DE--KRHELAYTKIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~----------------DE--~rH~~fY~~iv~~~le~dPd~tm~Aia~~m 170 (276)
+-.-||. .+++.+|+|.|..++..+.. .+ ..-.....+|++++-.-||+.+..++...+
T Consensus 141 ~d~~FH~---~i~~~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~AI~~~D~~~A~~~~~~H~ 217 (253)
T PRK10421 141 ADVRFHL---AIAEASHNVVLLQTMRGFFDVLQSSVKQSRQRMYLVPPVFSQLTEQHQAVMDAILAGDAEGARKAMMAHL 217 (253)
T ss_pred HHHHHHH---HHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 5678899 44446889999888765531 11 112356889999999999999888887777
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 218 ~ 218 (253)
T PRK10421 218 S 218 (253)
T ss_pred H
Confidence 4
No 70
>smart00337 BCL BCL (B-Cell lymphoma); contains BH1, BH2 regions. (BH1, BH2, (BH3 (one helix only)) and not BH4(one helix only)). Involved in apoptosis regulation
Probab=45.09 E-value=31 Score=27.26 Aligned_cols=32 Identities=22% Similarity=0.398 Sum_probs=28.7
Q ss_pred hhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhh
Q 038880 140 EKRHELAYTKIVEKLFEIDPDDAILALAGMMKK 172 (276)
Q Consensus 140 E~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~ 172 (276)
|++|..+|.+++.. |.+.|+.+...|..++++
T Consensus 9 e~~~~~~f~~~~~~-l~~~~~~~~~~f~~Va~~ 40 (100)
T smart00337 9 NKRYERAFSSFSAQ-LHVTPGTAIELFGEVATE 40 (100)
T ss_pred HHHHHHHHHHHHHH-hCCCcccHHHHHHHHHHH
Confidence 78999999999988 788999999999999975
No 71
>PRK11414 colanic acid/biofilm transcriptional regulator; Provisional
Probab=44.55 E-value=82 Score=27.62 Aligned_cols=60 Identities=15% Similarity=0.108 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhc----------------hhhHHHHHHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIAS----------------DEKRHELAYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~----------------DE~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
.-.-||.-+.. .+|+|.|..++..+-. +-........+|++++..-|++++..++...+.
T Consensus 134 ~d~~FH~~i~~---~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~Ai~~~D~~~A~~~~~~hl~ 209 (221)
T PRK11414 134 ANRLFRLAIYH---RSNMPILCEMIEQLWVRMGPSLHYLYEAINPAELREHIENYRLLLAALKAKDKEGCRHCLAEIMQ 209 (221)
T ss_pred HHHHHHHHHHH---HCCCHHHHHHHHHHHHHHHHHHHHHHhccCccchhhhHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45667884444 5789988777665521 111223456789999999999999998888775
No 72
>cd01042 DMQH Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain. Demethoxyubiquinone hydroxylases (DMQH) are members of the ferritin-like, diiron-carboxylate family which are present in eukaryotes (the CLK-1/CAT5 family) and prokaryotes (the Coq7 family). DMQH participates in one of the last steps of ubiquinone biosysnthesis and is responsible for DMQ hydroxylation, resulting in the formation of hydroxyubiquinone, a precursor of ubiquinone. CLK-1 is a mitochondrial inner membrane protein and Coq7 is a proposed interfacial integral membrane protein. Mutations in the Caenorhabditis elegans gene clk-1 affect biological timing and extend longevity. The conserved residues of a diiron center are present in this domain.
Probab=42.94 E-value=56 Score=28.63 Aligned_cols=37 Identities=14% Similarity=0.261 Sum_probs=31.0
Q ss_pred hCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchh
Q 038880 124 HGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDD 161 (276)
Q Consensus 124 ~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~ 161 (276)
.++|.+...+..++..|..|..+|.+.+.. +..-|.-
T Consensus 26 ~~~~~~~~~l~~~~~~E~~Hl~~f~~~i~~-~~~rps~ 62 (165)
T cd01042 26 ARDPAVRPLIKEMLDEEKDHLAWFEELLPE-LGVRPSL 62 (165)
T ss_pred hCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-cCCCCch
Confidence 458999999999999999999999999944 4445654
No 73
>cd01058 AAMH_B Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain. Aromatic and Alkene Monooxygenase Hydroxylases, subunit B (AAMH_B). Subunit B (beta) of the soluble hydroxylase of multicomponent, aromatic and alkene monooxygenases are members of a superfamily of ferritin-like iron-storage proteins. AAMH exists as a hexamer (an alpha2-beta2-gamma2 homodimer) with each alpha-subunit housing one nonheme diiron center embedded in a four-helix bundle. The N-terminal domain of the alpha- and noncatalytic beta-subunits possess nearly identical folds; the beta-subunit lacks the C-terminal domain found in the alpha-subunit. Methane monooxygenase is a multicomponent enzyme found in methanotrophic bacteria that catalyzes the hydroxylation of methane and higher alkenes (as large as octane). Phenol monooxygenase, found in a diverse group of bacteria, catalyses the hydroxylation of phenol, chloro- and methyl-phenol and naphthol. Both enzyme systems consis
Probab=42.40 E-value=64 Score=30.70 Aligned_cols=66 Identities=18% Similarity=0.216 Sum_probs=49.9
Q ss_pred CCcchhhhhhh--hhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch
Q 038880 95 NPYNGFIYTSF--QERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD 160 (276)
Q Consensus 95 ~p~~~~vYtsf--QE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd 160 (276)
||.+.++-+.| -=.-|......+.+.|...||..+..|..-+=.||.||..-=..+|+-+++-+|+
T Consensus 193 Dw~E~~va~nlv~e~l~~~l~~~~~~~~Aa~nGD~~t~~l~~s~q~d~~Rh~~~~~alvk~l~~~~~~ 260 (304)
T cd01058 193 DWGEAFVAQNLVFDPLVGELVRRELDRLAASNGDTLTPLLTEFMLDDAQRHRRWTDALVKTAAEDSPH 260 (304)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHccChh
Confidence 44444443322 3345555566677888889999999999999999999999999999987776666
No 74
>PRK09458 pspB phage shock protein B; Provisional
Probab=42.05 E-value=39 Score=26.20 Aligned_cols=38 Identities=18% Similarity=0.311 Sum_probs=28.9
Q ss_pred HHHHhccccccccCCCHHHHHHHHHHhcchHHHHHHHHHHHhh
Q 038880 213 AFLIERWEVEKLMGLTSEGRKARDFVCGLPSRIRRLEDKAQAN 255 (276)
Q Consensus 213 ~~ll~~W~v~~~~gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~ 255 (276)
-|-..+|+... |||++ -+..|..|..+++|++||.+.-
T Consensus 24 LHY~sk~~~~~--~Ls~~---d~~~L~~L~~~A~rm~~RI~tL 61 (75)
T PRK09458 24 LHYRSKRQGSQ--GLSQE---EQQRLAQLTEKAERMRERIQAL 61 (75)
T ss_pred HhhcccccCCC--CCCHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 34556777765 89965 4557888999999999998754
No 75
>cd01048 Ferritin_like_AB2 Uncharacterized family of ferritin-like proteins found in archaea and bacteria. Ferritin-like domain found in archaea and bacteria, subgroup 2 (Ferritin_like_AB2). This uncharacterized domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins whose function is unknown. The conserved residues of a diiron center are present within the putative active site.
Probab=41.67 E-value=46 Score=27.63 Aligned_cols=52 Identities=6% Similarity=0.131 Sum_probs=41.8
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHH
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTK 149 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~ 149 (276)
+....+-...-.|...--+|..+++ ...||.+.+++.+++.-|..|...|.+
T Consensus 82 s~~~al~~g~~~E~~~i~~ye~~~~---~~~d~d~k~v~~~L~~~e~~H~~~f~~ 133 (135)
T cd01048 82 SLQDALEVGVLIEELDIADYDRLLE---RTQNPDIRDVFENLQAASRNHHLPFFR 133 (135)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHH---hcccHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3455666667779999999996666 455999999999999999999887654
No 76
>PF07729 FCD: FCD domain; InterPro: IPR011711 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 []. 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. The winged-helix DNA-binding domain is well conserved in structure for the whole of the GntR family (IPR000524 from INTERPRO), and is similar in structure to other transcriptional regulator families. The C-terminal effector-binding and oligomerisation domains are more variable and are consequently used to define the subfamilies. Based on the sequence and structure of the C-terminal domains, the GtnR family can be divided into four major groups, as represented by FadR (IPR008920 from INTERPRO), HutC, MocR and YtrA, as well as some minor groups such as those represented by AraR and PlmA []. This entry represents the C-terminal ligand binding domain of many members of the GntR family. This domain probably binds to a range of effector molecules that regulate the transcription of genes through the action of the N-terminal DNA-binding domain. This domain is found in P45427 from SWISSPROT and P31460 from SWISSPROT that are regulators of sugar biosynthesis operons.; PDB: 3SXK_A 3SXY_A 3SXM_B 3SXZ_A 3FMS_A 2DI3_B 2HS5_A 3IHU_B 3C7J_A.
Probab=41.38 E-value=1.5e+02 Score=22.13 Aligned_cols=59 Identities=25% Similarity=0.233 Sum_probs=39.1
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHH--------------HHHHHHHHHHHHhcCchhHHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASDEKRH--------------ELAYTKIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH--------------~~fY~~iv~~~le~dPd~tm~Aia~~m 170 (276)
+..-+|. .+++.+|.|.|.+++..+-.-=.+. ..-+..|++++..-|++.+..++...+
T Consensus 51 ~~~~fh~---~l~~~~~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~h~~i~~ai~~~d~~~a~~~~~~h~ 123 (125)
T PF07729_consen 51 ADIEFHR---ALAEASGNPYLIQILERLRDRLQRFRYLSIRSKEDLERSLEEHREIIDAIRAGDPEAAREALRQHI 123 (125)
T ss_dssp HHHHHHH---HHHHTCSSHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred HHHHHHH---HHHHHcCCchHHHHHHHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence 3456677 4444577888877766653332221 233688999999999999888887765
No 77
>PF08158 NUC130_3NT: NUC130/3NT domain; InterPro: IPR012977 This N-terminal domain is found in a novel nucleolar protein family defined by NUC130/133 [].
Probab=40.89 E-value=27 Score=25.01 Aligned_cols=29 Identities=24% Similarity=0.382 Sum_probs=24.8
Q ss_pred ChHHHHHH-HHHHhcCCChhhHHhhhhhhh
Q 038880 1 GFYEQVKE-LRERCKQLPAEYFVVLVGDMI 29 (276)
Q Consensus 1 ~f~~~v~~-lr~~a~~Lpd~~~v~lv~~~l 29 (276)
+|-+++.+ |++....|+.+++..++..++
T Consensus 15 ~Fp~~L~~lL~~~~~~L~p~lR~~lv~aLi 44 (52)
T PF08158_consen 15 DFPQELIDLLRNHHTVLDPDLRMKLVKALI 44 (52)
T ss_pred HHHHHHHHHHHhccccCCHHHHHHHHHHHH
Confidence 36677666 899999999999999999876
No 78
>KOG3462 consensus Predicted membrane protein [Function unknown]
Probab=38.92 E-value=15 Score=29.82 Aligned_cols=53 Identities=19% Similarity=0.343 Sum_probs=32.9
Q ss_pred hhhccccCChhhhhhhhhcCCCCCCCCCCCchhhhhh-hhhhhcCCChHHHHHHHH
Q 038880 27 DMITEEALPTYQTMLNTIDGVRDETGASLTSWATWIR-YLYLSGCVDMKQIERSIQ 81 (276)
Q Consensus 27 ~~lTEd~LPtY~~~l~~~~gv~~~~g~~~~~W~~W~~-YL~~sg~vDp~~lE~~~~ 81 (276)
+-..||-+|.|...|...|++-+-- -.--|-.|.. |.-.---.+++..|.+.|
T Consensus 25 ~~~~eD~~pdYmn~lgmIfsmcGlM--~r~KwCsWlAl~cs~iSfAn~R~seD~KQ 78 (105)
T KOG3462|consen 25 GAANEDPPPDYMNFLGMIFSMCGLM--FRLKWCSWLALYCSCISFANSRNSEDAKQ 78 (105)
T ss_pred cccccCCChhHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHhccchHHHHH
Confidence 4567999999999999999861100 0002888988 544333345555555444
No 79
>KOG1248 consensus Uncharacterized conserved protein [Function unknown]
Probab=38.34 E-value=1.5e+02 Score=33.57 Aligned_cols=104 Identities=16% Similarity=0.225 Sum_probs=67.4
Q ss_pred HHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCcchhhhhHHHHHHHhcCCChh
Q 038880 127 MKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAK 206 (276)
Q Consensus 127 pvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~ 206 (276)
.++..+|..|++--.--...=-.+++.+.-..|+..+...-.-+- | .+ .....+.-+|=..
T Consensus 827 ~li~~V~~~L~s~sreI~kaAI~fikvlv~~~pe~~l~~~~~~LL-----~----------sl----l~ls~d~k~~~r~ 887 (1176)
T KOG1248|consen 827 KLISMVCLYLASNSREIAKAAIGFIKVLVYKFPEECLSPHLEELL-----P----------SL----LALSHDHKIKVRK 887 (1176)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHcCCHHHHhhhHHHHH-----H----------HH----HHHHHhhhHHHHH
Confidence 356677777776544444555566666667777766655443332 1 11 2233333344444
Q ss_pred hHHHHHHHHHhccccccccCCCHHHHHHHHHHhcchHHHHHHHHHHHhh
Q 038880 207 DYADILAFLIERWEVEKLMGLTSEGRKARDFVCGLPSRIRRLEDKAQAN 255 (276)
Q Consensus 207 dy~~Vl~~ll~~W~v~~~~gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~ 255 (276)
.-+.+++.|+++.+++++.++-+ +..+++=++|||..+|..+.
T Consensus 888 Kvr~LlekLirkfg~~eLe~~~p------ee~~klL~nIRK~r~R~~rK 930 (1176)
T KOG1248|consen 888 KVRLLLEKLIRKFGAEELESFLP------EEDMKLLTNIRKRRRRKKRK 930 (1176)
T ss_pred HHHHHHHHHHHHhCHHHHHhhCH------HHHHHHHHHHHHHHHHhhhh
Confidence 45678999999999999999977 77788888899987776433
No 80
>PF13763 DUF4167: Domain of unknown function (DUF4167)
Probab=37.79 E-value=1.2e+02 Score=23.84 Aligned_cols=34 Identities=29% Similarity=0.289 Sum_probs=28.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 114 HGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 114 h~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
|..+|+=|...||+||+.=|- -|..-|.+|+.+.
T Consensus 42 Y~~LArDA~ssGDrV~aEny~-------QHAeHY~Ril~~~ 75 (80)
T PF13763_consen 42 YNQLARDAQSSGDRVLAENYL-------QHAEHYFRILAAA 75 (80)
T ss_pred HHHHHHHHHHcCCHHHHHHHH-------HHHHHHHHHHHHH
Confidence 889999998899999987765 5888888888654
No 81
>PF06175 MiaE: tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE); InterPro: IPR010386 This family consists of several bacterial tRNA-(MSIO[6]A)-hydroxylase (MiaE) proteins. The modified nucleoside 2-methylthio-N-6-isopentenyl adenosine (ms2i6A) is present at position 37 (3' of the anticodon) of tRNAs that read codons beginning with U except tRNA(I,V Ser) in Escherichia coli. Salmonella typhimurium 2-methylthio-cis-ribozeatin (ms2io6A) is found in tRNA, probably in the corresponding species that have ms2i6A in E. coli. The miaE gene is absent in E. coli, a finding consistent with the absence of the hydroxylated derivative of ms2i6A in this species [].; PDB: 2ITB_B.
Probab=37.66 E-value=36 Score=31.78 Aligned_cols=57 Identities=25% Similarity=0.296 Sum_probs=46.1
Q ss_pred cchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhc
Q 038880 97 YNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEI 157 (276)
Q Consensus 97 ~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~ 157 (276)
++.++..++=| +=||.+.+.+|... |+.|++....+..-|+||+.-|-++-..++..
T Consensus 156 vDrLLv~AlIE---ARSCERF~lLa~~l-D~eL~~FY~~Ll~SEArHy~~yl~LA~~y~~~ 212 (240)
T PF06175_consen 156 VDRLLVGALIE---ARSCERFALLAEHL-DEELAKFYRSLLRSEARHYQDYLKLARQYFDE 212 (240)
T ss_dssp HHHHHHHHHHH---HHHHHHHHHHGGGS--HHHHHHHHHHHHHHHHHHHHHHHHHCCCS-H
T ss_pred HHHHHHHHhHh---hhhHHHHHHHHHhh-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHCCc
Confidence 55677777766 56899999999877 99999999999999999999888877666643
No 82
>TIGR00865 bcl-2 Apoptosis regulator. in artificial membranes at acidic pH, proapoptotic Bcl-2 family proteins (including Bax and Bak) probably induce the mitochondrial permeability transition and cytochrome c release by interacting with permeability transition pores, the most important component for pore fomation of which is VDAC.
Probab=36.05 E-value=81 Score=28.80 Aligned_cols=43 Identities=16% Similarity=0.245 Sum_probs=35.0
Q ss_pred HHHHHhHhhch-hhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhh
Q 038880 129 LAQICGVIASD-EKRHELAYTKIVEKLFEIDPDDAILALAGMMKK 172 (276)
Q Consensus 129 La~il~~IA~D-E~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~ 172 (276)
+++.|.+|+.+ |.+|..+|+++++. |.+.|+.+-..|..|+.+
T Consensus 67 v~~~Lr~igdEle~~~~~~f~~m~~q-L~it~~~a~~~F~~Va~e 110 (213)
T TIGR00865 67 VHQALRRAGDEFERRYRRAFSDMTSQ-LHITPFTARQSFFQVAAE 110 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-hCCCCccHHHHHHHHHHH
Confidence 55555555544 78999999999988 888899999999999975
No 83
>CHL00017 ndhH NADH dehydrogenase subunit 7
Probab=33.29 E-value=1.6e+02 Score=29.18 Aligned_cols=130 Identities=14% Similarity=0.096 Sum_probs=82.7
Q ss_pred HHHHHHHHHHhCCHHHHHHHhHhhchhh-HHHHHHHHHHHHHHhcCchhHHHHHHHHHhhccCCccccCCCCCcchhhhh
Q 038880 114 HGNTARLAKEHGDMKLAQICGVIASDEK-RHELAYTKIVEKLFEIDPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYH 192 (276)
Q Consensus 114 h~ntar~a~~~gDpvLa~il~~IA~DE~-rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~ 192 (276)
||.+-|+++...=...-.++.||..+.. -|+..|...|++++.+.+..-...|.-++.+=-++--|++ .
T Consensus 48 HRGiEKl~E~r~~~q~i~l~eRi~~~~~~~~~~~y~~AVE~l~gievP~RA~~iRvi~~ELeRi~sHL~----------~ 117 (393)
T CHL00017 48 HRGMEKIAENRTIIQYLPYVTRWDYLATMFTEAITVNAPEQLGNIQVPKRASYIRVIMLELSRIASHLL----------W 117 (393)
T ss_pred hHHHHHHHccCCHHHcCeeeeecccccHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHH----------H
Confidence 8888888753321334457778888877 7888999999999999977655555555442112222222 2
Q ss_pred HHHHHHHhcCCChhhH----HHHHHHHHhcccc----------ccc-cCCCHH-HHHHHHHHhcchHHHHHHHHHHH
Q 038880 193 FSAVAQRLGVYTAKDY----ADILAFLIERWEV----------EKL-MGLTSE-GRKARDFVCGLPSRIRRLEDKAQ 253 (276)
Q Consensus 193 ~s~v~araGiY~~~dy----~~Vl~~ll~~W~v----------~~~-~gL~~e-g~~Ar~~l~~l~~r~~r~~er~~ 253 (276)
....+..+|-.++.-| ++-+..+++.+-= ..+ .+|+++ -++.++++..++.++..+++...
T Consensus 118 lg~~~~diG~~t~~~~~~~~RE~il~~~e~itG~R~~~~~~~~GGv~~Dl~~~~~~~i~~~l~~~~~~~~~~~~l~~ 194 (393)
T CHL00017 118 LGPFMADIGAQTPFFYIFRERELIYDLFEAATGMRMMHNYFRIGGVAADLPYGWIDKCLDFCDYFLTGVAEYQKLIT 194 (393)
T ss_pred HHHHHHHhccchHHHHHHHHHHHHHHHHHHhcCcccccCceeecccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4566778898888775 2444444433321 111 356543 46788899999999988877643
No 84
>PRK09614 nrdF ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=33.26 E-value=1.2e+02 Score=28.58 Aligned_cols=33 Identities=21% Similarity=0.173 Sum_probs=29.7
Q ss_pred HHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 122 KEHGDMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 122 ~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
....+|-...+++.++..|+.|..+|+.+++.+
T Consensus 83 ~~~~~~E~~~~~~~q~~~E~iH~~sYs~il~tl 115 (324)
T PRK09614 83 PDITTPEEEAVLANIAFMEAVHAKSYSYIFSTL 115 (324)
T ss_pred HHCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 345589999999999999999999999999975
No 85
>PRK09990 DNA-binding transcriptional regulator GlcC; Provisional
Probab=33.12 E-value=2.2e+02 Score=25.36 Aligned_cols=61 Identities=10% Similarity=0.129 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHHHHHHhCCHHHHHHHhHhhc---------------h-hhH--HHHHHHHHHHHHHhcCchhHHHHHHHH
Q 038880 108 RATFISHGNTARLAKEHGDMKLAQICGVIAS---------------D-EKR--HELAYTKIVEKLFEIDPDDAILALAGM 169 (276)
Q Consensus 108 ~AT~ish~ntar~a~~~gDpvLa~il~~IA~---------------D-E~r--H~~fY~~iv~~~le~dPd~tm~Aia~~ 169 (276)
.+-.-||.-+++ .+|+|.|..++..+.. + ... .......|++++-.-||+.+..++...
T Consensus 148 ~~d~~FH~~i~~---~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~Ai~~~D~~~A~~~~~~H 224 (251)
T PRK09990 148 RLDHAFHLAICE---ASHNPVLVHTLQSLTDLMLSSVFASVNNLYHRPQQKKQIDRQHARLYNAVLQRLPEQAQRAARDH 224 (251)
T ss_pred HHHHHHHHHHHH---HcCCHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 355788995555 6889999888765531 1 111 223578899999999999988888777
Q ss_pred Hh
Q 038880 170 MK 171 (276)
Q Consensus 170 m~ 171 (276)
+.
T Consensus 225 i~ 226 (251)
T PRK09990 225 IR 226 (251)
T ss_pred HH
Confidence 74
No 86
>PLN02824 hydrolase, alpha/beta fold family protein
Probab=31.78 E-value=36 Score=30.49 Aligned_cols=68 Identities=13% Similarity=0.076 Sum_probs=46.7
Q ss_pred ccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhccccccc--cCCCHHHHHHHHHHhcchHHHHH
Q 038880 173 TIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKL--MGLTSEGRKARDFVCGLPSRIRR 247 (276)
Q Consensus 173 ~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~--~gL~~eg~~Ar~~l~~l~~r~~r 247 (276)
.+.+||+.-.+..++..+ .....|+..++.+-+..+++.+++... =|.|-.|.-|..+....|.|+.+
T Consensus 60 ~~DlpG~G~S~~~~~~~~-------~~~~~~~~~~~a~~l~~~l~~l~~~~~~lvGhS~Gg~va~~~a~~~p~~v~~ 129 (294)
T PLN02824 60 AIDLLGYGYSDKPNPRSA-------PPNSFYTFETWGEQLNDFCSDVVGDPAFVICNSVGGVVGLQAAVDAPELVRG 129 (294)
T ss_pred EEcCCCCCCCCCCccccc-------cccccCCHHHHHHHHHHHHHHhcCCCeEEEEeCHHHHHHHHHHHhChhheeE
Confidence 678899975543221000 112368889998888888988888655 39999999998877666655544
No 87
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=31.61 E-value=86 Score=34.73 Aligned_cols=59 Identities=20% Similarity=0.108 Sum_probs=50.0
Q ss_pred CCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCH-HHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 95 NPYNGFIYTSFQERATFISHGNTARLAKEHGDM-KLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 95 ~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDp-vLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
+|...+-+..-.|+.+..+|..+++. ..|+ ...+++..||.-|+.|.....+.++..=+
T Consensus 941 ~~~~al~lAm~~Ekdai~fY~~la~~---~~d~e~~k~l~~~LA~EEk~Hl~~L~~~~d~~~~ 1000 (1006)
T PRK12775 941 DPGNLFRIAIEFERRAVKFFKERVAE---TPDGSVERQLYKELAAEEREHVALLTTEFERWKQ 1000 (1006)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHhh---CCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 56778888888999999999977775 5588 47999999999999999999988876544
No 88
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=31.32 E-value=87 Score=24.08 Aligned_cols=40 Identities=13% Similarity=0.290 Sum_probs=29.6
Q ss_pred HHHHHHhccccccccCCCHHHHHHHHHHhcchHHHHHHHHHHHhh
Q 038880 211 ILAFLIERWEVEKLMGLTSEGRKARDFVCGLPSRIRRLEDKAQAN 255 (276)
Q Consensus 211 Vl~~ll~~W~v~~~~gL~~eg~~Ar~~l~~l~~r~~r~~er~~~~ 255 (276)
++.|-..+|+... |||++ -++.|..|..+++|++||.+.-
T Consensus 22 l~lHY~~k~~~~~--~ls~~---d~~~L~~L~~~a~rm~eRI~tL 61 (75)
T TIGR02976 22 LILHYRSKRKTAA--SLSTD---DQALLQELYAKADRLEERIDTL 61 (75)
T ss_pred HHHHHHhhhccCC--CCCHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 3566677888774 78765 3446788889999999998754
No 89
>PF12902 Ferritin-like: Ferritin-like; PDB: 3HL1_A.
Probab=30.76 E-value=91 Score=28.53 Aligned_cols=47 Identities=21% Similarity=0.155 Sum_probs=31.8
Q ss_pred hhhHHHHHHHHHHHHHHhC-CHHHHHHHhHhhchhhHHHHHHHHHHHHH
Q 038880 107 ERATFISHGNTARLAKEHG-DMKLAQICGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 107 E~AT~ish~ntar~a~~~g-DpvLa~il~~IA~DE~rH~~fY~~iv~~~ 154 (276)
|.+|-.-|- +|-..=+.| ......++..||.+|++|+.--.|++.++
T Consensus 8 E~atip~YL-~a~ySi~~~~~~~~~~~i~~V~~eEMlHl~l~~Nll~al 55 (227)
T PF12902_consen 8 ELATIPPYL-TALYSIKPGTNEEARNLIRSVAIEEMLHLSLAANLLNAL 55 (227)
T ss_dssp HHHHHHHHH-HHHHHBS-TTSH-HHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHH-HHHcccCCCcchhHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 555555554 222211223 23378999999999999999999999886
No 90
>PF05974 DUF892: Domain of unknown function (DUF892); InterPro: IPR010287 This domain is found in several hypothetical bacterial proteins of unknown function.; PDB: 4ERU_B 3OGH_A 2GS4_B 2GYQ_B 3HIU_A.
Probab=30.51 E-value=1.2e+02 Score=25.90 Aligned_cols=42 Identities=26% Similarity=0.303 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHH
Q 038880 112 ISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEK 153 (276)
Q Consensus 112 ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~ 153 (276)
-+|+.+..+|+..|++..+++|...-.+|.......+.+...
T Consensus 111 A~Y~tL~~~A~~lG~~e~a~lL~~~L~EE~~~~~~L~~~a~~ 152 (159)
T PF05974_consen 111 AAYGTLIALAKQLGDEEAAQLLEQNLDEEEAADEKLTQLAES 152 (159)
T ss_dssp HHHHHHHHHHHHCT-HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 358999999999999999999999999999999888887753
No 91
>COG3546 Mn-containing catalase [Inorganic ion transport and metabolism]
Probab=29.90 E-value=63 Score=30.75 Aligned_cols=114 Identities=16% Similarity=0.185 Sum_probs=66.2
Q ss_pred cCCChhhHHhhhhhhhccccCC----------------hhhhhhhhhcCCCCCCCCCCCchhhhhh-hhhhhcCCChHHH
Q 038880 14 KQLPAEYFVVLVGDMITEEALP----------------TYQTMLNTIDGVRDETGASLTSWATWIR-YLYLSGCVDMKQI 76 (276)
Q Consensus 14 ~~Lpd~~~v~lv~~~lTEd~LP----------------tY~~~l~~~~gv~~~~g~~~~~W~~W~~-YL~~sg~vDp~~l 76 (276)
.+|+---.|+-+.+++++.+-. +||..+....|- +..+|.=..|++ |+..||.+--.-.
T Consensus 64 EEl~HlEmvat~I~~L~~ga~~e~~~~~~l~~s~~~~~n~~h~~~~~~g~----~p~dS~G~pWta~YI~~sGnliaDlr 139 (277)
T COG3546 64 EELSHLEMVATMINLLNKGATGEGAEEAELYGSGLGGMNPHHISVLLYGA----GPADSAGVPWTAAYIVASGNLIADLR 139 (277)
T ss_pred HHHHHHHHHHHHHHHHhcCCCCCCCcchhhHHhhccCCCchhhhhhccCC----CCcccCCCccchhhhhccCccHHHHH
Confidence 4455555666667777776655 233333333221 113445567888 9999998732222
Q ss_pred HHHHHHHHhcCCCCCCCCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 77 ERSIQYLIRSGMDPKFENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 77 E~~~~~li~~G~~~~~~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
++. ....| -++-+. ++-+-+.||.+..+|.-+-.=|.-|...|.+-++.+=+
T Consensus 140 ~Ni---aaE~~----------------------aR~~y~---rLy~mtdDpgvrd~L~fLl~Re~~H~~~f~kAL~~l~~ 191 (277)
T COG3546 140 SNI---AAEAR----------------------ARLQYE---RLYEMTDDPGVRDTLSFLLTREIAHQNAFRKALESLEN 191 (277)
T ss_pred HHH---HHHhc----------------------cceeee---eeeecCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 221 11111 111122 33334779999999999888899999999888776655
Q ss_pred cCc
Q 038880 157 IDP 159 (276)
Q Consensus 157 ~dP 159 (276)
..+
T Consensus 192 ~~~ 194 (277)
T COG3546 192 EED 194 (277)
T ss_pred ccc
Confidence 554
No 92
>PRK09101 nrdB ribonucleotide-diphosphate reductase subunit beta; Reviewed
Probab=29.52 E-value=1.9e+02 Score=28.37 Aligned_cols=43 Identities=21% Similarity=0.226 Sum_probs=35.8
Q ss_pred HHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCchhH
Q 038880 119 RLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPDDA 162 (276)
Q Consensus 119 r~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd~t 162 (276)
.+....-+|-+..+++..+.-|+.|...|+.|++.++. +|+..
T Consensus 95 ~~~~~i~~pE~~~~~~~q~~~E~IHs~sYs~il~tl~~-~~~e~ 137 (376)
T PRK09101 95 ALLPLVSIPELETWIETWSFSETIHSRSYTHIIRNIVN-DPSVV 137 (376)
T ss_pred HHHHHCChHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC-CHHHH
Confidence 33444568999999999999999999999999999966 66643
No 93
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=27.97 E-value=1.7e+02 Score=22.47 Aligned_cols=33 Identities=18% Similarity=0.307 Sum_probs=23.6
Q ss_pred hhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhh
Q 038880 140 EKRHELAYTKIVEKLFEIDPDDAILALAGMMKK 172 (276)
Q Consensus 140 E~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~ 172 (276)
|..|..+|.+++..+....|+.+...|..++.+
T Consensus 9 e~~~~~~f~~~~~~l~~~~~~~~~~~f~~v~~~ 41 (101)
T PF00452_consen 9 ERKYEDFFENMLNQLNINTPDNAYETFNEVAEE 41 (101)
T ss_dssp HHHHHHHHHHHHHHHCSSSTTTHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHH
Confidence 667777788887777765666677777777763
No 94
>PRK03592 haloalkane dehalogenase; Provisional
Probab=27.58 E-value=66 Score=28.81 Aligned_cols=61 Identities=18% Similarity=0.180 Sum_probs=45.7
Q ss_pred ccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhcccccccc--CCCHHHHHHHHHHhcchHHHHH
Q 038880 173 TIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKLM--GLTSEGRKARDFVCGLPSRIRR 247 (276)
Q Consensus 173 ~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~~--gL~~eg~~Ar~~l~~l~~r~~r 247 (276)
.+.|||+.-.+... +-|+..++.+-+..+++.+++.+.. |.|-.|--|..+....|.|+++
T Consensus 58 a~D~~G~G~S~~~~--------------~~~~~~~~a~dl~~ll~~l~~~~~~lvGhS~Gg~ia~~~a~~~p~~v~~ 120 (295)
T PRK03592 58 APDLIGMGASDKPD--------------IDYTFADHARYLDAWFDALGLDDVVLVGHDWGSALGFDWAARHPDRVRG 120 (295)
T ss_pred EEcCCCCCCCCCCC--------------CCCCHHHHHHHHHHHHHHhCCCCeEEEEECHHHHHHHHHHHhChhheeE
Confidence 67889887554321 1278888877788899999987664 8899999998888777776665
No 95
>cd01056 Euk_Ferritin eukaryotic ferritins. Eukaryotic Ferritin (Euk_Ferritin) domain. Ferritins are the primary iron storage proteins of most living organisms and members of a broad superfamily of ferritin-like diiron-carboxylate proteins. The iron-free (apoferritin) ferritin molecule is a protein shell composed of 24 protein chains arranged in 432 symmetry. Iron storage involves the uptake of iron (II) at the protein shell, its oxidation by molecular oxygen at the dinuclear ferroxidase centers, and the movement of iron (III) into the cavity for deposition as ferrihydrite; the protein shell can hold up to 4500 iron atoms. In vertebrates, two types of chains (subunits) have been characterized, H or M (fast) and L (slow), which differ in rates of iron uptake and mineralization. Fe(II) oxidation in the H/M subunits take place initially at the ferroxidase center, a carboxylate-bridged diiron center, located within the subunit four-helix bundle. In a complementary role, negatively charged r
Probab=27.56 E-value=3.7e+02 Score=22.56 Aligned_cols=61 Identities=16% Similarity=0.113 Sum_probs=50.2
Q ss_pred CCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhH-hhchhhHHHHHHHHHHHHH
Q 038880 94 NNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGV-IASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 94 ~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~-IA~DE~rH~~fY~~iv~~~ 154 (276)
.++...|-..-=+|+--.-+..++.++|...+|+.....+.. +=.++..|...+..+++.+
T Consensus 82 ~~~~e~l~~al~~E~~vt~~~~~l~~~A~~~~D~~t~~fl~~~fl~eQ~e~~~~~~~~l~~l 143 (161)
T cd01056 82 GSGLEALELALDLEKLVNQSLLDLHKLASEHNDPHLADFLESEFLEEQVESIKKLAGYITNL 143 (161)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHhHcCCHhHHHHHHHHhhHHHHHHHHHHHHHHHHH
Confidence 355666766666777666667789999999999999999997 9999999999999888654
No 96
>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=27.43 E-value=3.3e+02 Score=23.43 Aligned_cols=60 Identities=13% Similarity=0.118 Sum_probs=40.2
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhch-----------hh---HHHHHHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASD-----------EK---RHELAYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~D-----------E~---rH~~fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
+-.-||.-+.. .+|+|.|..++..+-.. .. .-..-...|++++.+-||+++..++...+.
T Consensus 134 ~d~~FH~~i~~---~~~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~H~~i~~ai~~~d~~~A~~~~~~Hl~ 207 (212)
T TIGR03338 134 LNLRFHDALVE---HAGNNKLTDTYRRLVKELSLFRRAALADGGAMAVSAAEHRAIVDAIASGDAERAGALMRAHVA 207 (212)
T ss_pred HHHHHHHHHHH---HCCChHHHHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 45678984444 68899988766554311 11 112446678899999999998888877764
No 97
>PF13668 Ferritin_2: Ferritin-like domain
Probab=27.41 E-value=1.4e+02 Score=24.18 Aligned_cols=29 Identities=21% Similarity=0.156 Sum_probs=26.7
Q ss_pred hCCHHHHHHHhHhhchhhHHHHHHHHHHH
Q 038880 124 HGDMKLAQICGVIASDEKRHELAYTKIVE 152 (276)
Q Consensus 124 ~gDpvLa~il~~IA~DE~rH~~fY~~iv~ 152 (276)
..++....++..|+.+|..|..+.++.++
T Consensus 35 ~~~~~~~~~~~~i~~~E~~H~~~l~~~l~ 63 (137)
T PF13668_consen 35 ALDPEVRDLFQEIADQEQGHVDFLQAALE 63 (137)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45889999999999999999999999986
No 98
>PF11583 AurF: P-aminobenzoate N-oxygenase AurF; PDB: 3CHI_B 3CHT_A 3CHH_A 2JCD_B 3CHU_A.
Probab=27.13 E-value=81 Score=29.26 Aligned_cols=30 Identities=20% Similarity=0.279 Sum_probs=24.0
Q ss_pred CHHHHHHHhHhhchhhHHHHHHHHHHHHHH
Q 038880 126 DMKLAQICGVIASDEKRHELAYTKIVEKLF 155 (276)
Q Consensus 126 DpvLa~il~~IA~DE~rH~~fY~~iv~~~l 155 (276)
++...+-+-....||.+|..+|.+++.+.-
T Consensus 111 ~~~~~~~~~~~i~DE~rH~~mf~~~~~~~~ 140 (304)
T PF11583_consen 111 DDDAKRYALTEIADEARHSLMFARAINRTG 140 (304)
T ss_dssp -HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344556666788999999999999998877
No 99
>PRK04984 fatty acid metabolism regulator; Provisional
Probab=26.92 E-value=2.4e+02 Score=24.84 Aligned_cols=60 Identities=13% Similarity=-0.039 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhc------------hh--hHHHHHHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIAS------------DE--KRHELAYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~------------DE--~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
+..-||..++. .+|++.|..++..+.. .+ ..-.....+|++++-+-|++.+..++...+.
T Consensus 144 ~d~~FH~~i~~---~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~Ai~~~D~~~a~~~~~~H~~ 217 (239)
T PRK04984 144 FDYNLFRGLAF---ASGNPIYGLILNGLKGLYTRVGRYYFSNPEARELALGFYHKLSALCEEGNHDQVPECVRQYGI 217 (239)
T ss_pred hHHHHHHHHHH---HcCCcHHHHHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 45667886655 4789988776654432 11 1122578899999999999999988887774
No 100
>TIGR02158 PA_CoA_Oxy3 phenylacetate-CoA oxygenase, PaaI subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=26.83 E-value=5.1e+02 Score=23.95 Aligned_cols=64 Identities=16% Similarity=0.072 Sum_probs=47.6
Q ss_pred hhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCc---hhHHHHHHHHHh
Q 038880 104 SFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDP---DDAILALAGMMK 171 (276)
Q Consensus 104 sfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dP---d~tm~Aia~~m~ 171 (276)
.|-..+..+ ++..+.+ +.|+.|+.++.+|-+.|.-|..+=.+.+..+-+-.. ..+-.|+..+..
T Consensus 87 ~l~d~~~~~---~l~~L~~-ss~~pla~ia~K~~kEe~yH~~h~~~w~~rL~~gt~es~~r~Q~Ald~~wp 153 (237)
T TIGR02158 87 FLYDAYKVL---LLEALTQ-SRDVPLAAIAAKALKEARYHLQHAKTWLERLGLGTEESHRRLQEALNELWP 153 (237)
T ss_pred HHHHHHHHH---HHHHHHh-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence 344455444 3446654 669999999999999999999999999999875533 356667777664
No 101
>PRK11523 DNA-binding transcriptional repressor ExuR; Provisional
Probab=26.81 E-value=3.3e+02 Score=24.37 Aligned_cols=60 Identities=20% Similarity=0.167 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhch----------------hhH-H-HHHHHHHHHHHHhcCchhHHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASD----------------EKR-H-ELAYTKIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~D----------------E~r-H-~~fY~~iv~~~le~dPd~tm~Aia~~m 170 (276)
+-.-||. .+++.+|+|.|.+++..+..- +.. + ......|++++-.-||+.+..++...+
T Consensus 142 ~d~~FH~---~i~~~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~eH~~I~~Ai~~~D~~~A~~~~~~Hi 218 (253)
T PRK11523 142 WDLQFHV---QVALATQNSALAAIVEKMWTQRSHNPYWKKLHEHIDDRTVDNWCDDHDQILKALIRKDPHAAKLAMWQHL 218 (253)
T ss_pred HHHHHHH---HHHHHCCCHHHHHHHHHHHHHHHhhHHHHHHHHhhcchhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4567999 444468899998877665321 101 1 134678888888888888888777766
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 219 ~ 219 (253)
T PRK11523 219 E 219 (253)
T ss_pred H
Confidence 4
No 102
>cd01043 DPS DPS protein, ferritin-like diiron-binding domain. DPS (DNA Protecting protein under Starved conditions) domain is a member of a broad superfamily of ferritin-like diiron-carboxylate proteins. Some DPS proteins nonspecifically bind DNA, protecting it from cleavage caused by reactive oxygen species such as the hydroxyl radicals produced during oxidation of Fe(II) by hydrogen peroxide. These proteins assemble into dodecameric structures, some form DPS-DNA co-crystalline complexes, and possess iron and H2O2 detoxification capabilities. Expression of DPS is induced by oxidative or nutritional stress, including metal ion starvation. Members of the DPS family are homopolymers formed by 12 four-helix bundle subunits that assemble with 23 symmetry into a hollow shell. The DPS ferroxidase site is unusual in that it is not located in a four-helix bundle as in ferritin, but is shared by 2-fold symmetry-related subunits providing the iron ligands. Many DPS sequences (e.g., E. coli) disp
Probab=26.68 E-value=1.4e+02 Score=24.21 Aligned_cols=51 Identities=14% Similarity=0.034 Sum_probs=39.2
Q ss_pred hhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHH
Q 038880 99 GFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTK 149 (276)
Q Consensus 99 ~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~ 149 (276)
.+--..=-|..+...++...+.|...||++.+.++..|-.++..|--|...
T Consensus 87 ~l~~~~~~~~~~i~~~~~~i~~a~~~~D~~t~~ll~~il~~~ek~~w~l~a 137 (139)
T cd01043 87 MVAELLEDYETLIEELREAIELADEAGDPATADLLTEIIRELEKQAWMLRA 137 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 344444455666677888888887789999999999999999998877654
No 103
>PRK06765 homoserine O-acetyltransferase; Provisional
Probab=25.94 E-value=71 Score=31.27 Aligned_cols=47 Identities=23% Similarity=0.398 Sum_probs=41.3
Q ss_pred cCCChhhHHHHHHHHHhcccccccc---CCCHHHHHHHHHHhcchHHHHH
Q 038880 201 GVYTAKDYADILAFLIERWEVEKLM---GLTSEGRKARDFVCGLPSRIRR 247 (276)
Q Consensus 201 GiY~~~dy~~Vl~~ll~~W~v~~~~---gL~~eg~~Ar~~l~~l~~r~~r 247 (276)
..|+..|+.+.+..+++..+|.++. |-|=.|-.|.++....|.++++
T Consensus 139 P~~t~~d~~~~~~~ll~~lgi~~~~~vvG~SmGG~ial~~a~~~P~~v~~ 188 (389)
T PRK06765 139 PVVTILDFVRVQKELIKSLGIARLHAVMGPSMGGMQAQEWAVHYPHMVER 188 (389)
T ss_pred CcCcHHHHHHHHHHHHHHcCCCCceEEEEECHHHHHHHHHHHHChHhhhe
Confidence 4689999988888899999999764 8899999999999999988877
No 104
>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=25.74 E-value=3.7e+02 Score=23.63 Aligned_cols=60 Identities=8% Similarity=-0.036 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhc-----------hhhH---HHHHHHHHHHHHHhcCchhHHHHHHHHHh
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIAS-----------DEKR---HELAYTKIVEKLFEIDPDDAILALAGMMK 171 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~-----------DE~r---H~~fY~~iv~~~le~dPd~tm~Aia~~m~ 171 (276)
+..-||.-+.+ .+|+|.|..++..+.. +..+ -.....+|++++-.-||+.+..++...+.
T Consensus 143 ~d~~FH~~i~~---~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~Ai~~~d~~~A~~~m~~H~~ 216 (235)
T TIGR02812 143 FDYQLFRGLAF---ASGNPIYGLILNGLKGLYTRIGRYYFANPEARELALQFYKELQALCKAGNHDEVPDCIRQYGI 216 (235)
T ss_pred HHHHHHHHHHH---HcCCHHHHHHHHHHHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 45678984444 6889998777765432 1111 22457789999999999998888877775
No 105
>PRK09464 pdhR transcriptional regulator PdhR; Reviewed
Probab=24.29 E-value=3e+02 Score=24.51 Aligned_cols=60 Identities=12% Similarity=0.076 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhch--------------h---hHHHHHHH-HHHHHHHhcCchhHHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASD--------------E---KRHELAYT-KIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~D--------------E---~rH~~fY~-~iv~~~le~dPd~tm~Aia~~m 170 (276)
+-.-||. .++..+|+|.|.+++..|..- . ..-..... +|++++..-||+.+..++...+
T Consensus 149 ~d~~FH~---~l~~~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~~I~~Ai~~~D~~~A~~~~~~Hl 225 (254)
T PRK09464 149 AVMQYQI---AVTEAAHNVVLLHLLRCMEPMLEQNVRQNFELLYRRREMLPKVSSHRARIFEAIVAGKPEKAREASHRHL 225 (254)
T ss_pred HHHHHHH---HHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHhhccCcchHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 4567898 444468899988877655321 0 01112334 8899999999999888877766
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 226 ~ 226 (254)
T PRK09464 226 A 226 (254)
T ss_pred H
Confidence 4
No 106
>PRK13778 paaA phenylacetate-CoA oxygenase subunit PaaA; Provisional
Probab=24.13 E-value=6.7e+02 Score=24.34 Aligned_cols=120 Identities=16% Similarity=0.007 Sum_probs=71.8
Q ss_pred CCcchhhhh-hhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcCch---hHHHHHHHHH
Q 038880 95 NPYNGFIYT-SFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEIDPD---DAILALAGMM 170 (276)
Q Consensus 95 ~p~~~~vYt-sfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~dPd---~tm~Aia~~m 170 (276)
-|...|++| .+|=+-...-+-|...+.+ +-++.|+.++.+|-+.|.-|..+=...|..+-+=.+. .+-.||...-
T Consensus 122 ~P~~dwAdtvvr~~L~D~a~~~~~~~L~~-sSy~plA~~a~Ki~KEe~yH~rhg~~wl~rL~~GT~esr~r~Q~Ald~~W 200 (314)
T PRK13778 122 YPTLTWADVGVIGWLVDGAAIMNQVPLCR-CSYGPYARAMVRICKEESFHQRQGEEILLALARGTPAQKQMAQDALNRWW 200 (314)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHhc-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHH
Confidence 344555554 3333333333445556664 6699999999999999999999999999999765443 3445666555
Q ss_pred hhccCCccccCCCCCcchhhhhHHHHHHHhcCC--Chhh----HHHHHHHHHhccccc
Q 038880 171 KKTIKMPAHLMYDGQNDKIFYHFSAVAQRLGVY--TAKD----YADILAFLIERWEVE 222 (276)
Q Consensus 171 ~~~~~MP~~~m~dg~~~~lf~~~s~v~araGiY--~~~d----y~~Vl~~ll~~W~v~ 222 (276)
.-...|=| .+|.. ...++...+-||- ++.+ +.+.+.++++.-++.
T Consensus 201 p~~~emFg--~~d~~-----s~~~~~~~~~Gik~~~n~eLR~~w~~~v~~~l~~~gL~ 251 (314)
T PRK13778 201 WPALMMFG--PPDDD-----SPHSAQSMAWKIKRFSNDELRQKFVDATVPQAEVLGLT 251 (314)
T ss_pred HHHHhhcC--CCcch-----hhhHHHHHHhCCCCCCHHHHHHHHHHHHHHHHHHcCCC
Confidence 42222211 11111 1134444555555 3333 456777777777654
No 107
>TIGR01392 homoserO_Ac_trn homoserine O-acetyltransferase. This family describes homoserine-O-acetyltransferase, an enzyme of methionine biosynthesis. This model has been rebuilt to identify sequences more broadly, including a number of sequences suggested to be homoserine O-acetyltransferase based on proximity to other Met biosynthesis genes.
Probab=23.35 E-value=77 Score=29.67 Aligned_cols=47 Identities=21% Similarity=0.420 Sum_probs=40.1
Q ss_pred cCCChhhHHHHHHHHHhcccccc---ccCCCHHHHHHHHHHhcchHHHHH
Q 038880 201 GVYTAKDYADILAFLIERWEVEK---LMGLTSEGRKARDFVCGLPSRIRR 247 (276)
Q Consensus 201 GiY~~~dy~~Vl~~ll~~W~v~~---~~gL~~eg~~Ar~~l~~l~~r~~r 247 (276)
+-|+..++.+.+..+++.+++.+ +-|.|=.|--|+.+.+..|.|+++
T Consensus 105 ~~~~~~~~~~~~~~~~~~l~~~~~~~l~G~S~Gg~ia~~~a~~~p~~v~~ 154 (351)
T TIGR01392 105 PLITIRDDVKAQKLLLDHLGIEQIAAVVGGSMGGMQALEWAIDYPERVRA 154 (351)
T ss_pred CCCcHHHHHHHHHHHHHHcCCCCceEEEEECHHHHHHHHHHHHChHhhhe
Confidence 35788888888888899999987 469999999999999888888776
No 108
>cd06845 Bcl-2_like Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane segment. Some homologous proteins, which are not included in this model, may miss either the BH4 (Bax, Bak) or the BH2 (Bcl-X(S)) region, and some appear to only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1). This family is involved in the regulation of the outer mitochondrial membrane's permeability and in promoting or preventing the release of apoptogenic factors, which in turn may trigger apoptosis by activating caspases. Bcl-2 and the closely related Bcl-X(L) are anti-apoptotic key regulators of programmed cell death. They are assumed to function via heterodimeric protein-protein interactions, binding pro-apoptotic proteins such as Bad (BCL2-antagonist of cell death), Bid, and Bim, by specifically interacting
Probab=23.05 E-value=2e+02 Score=23.85 Aligned_cols=32 Identities=22% Similarity=0.474 Sum_probs=26.5
Q ss_pred hhHHHHHHHHHHHHHHhcCchhHHHHHHHHHhh
Q 038880 140 EKRHELAYTKIVEKLFEIDPDDAILALAGMMKK 172 (276)
Q Consensus 140 E~rH~~fY~~iv~~~le~dPd~tm~Aia~~m~~ 172 (276)
|.+|..+|.++...+- ..|+.+...|..|+.+
T Consensus 47 e~~~~~~f~~~~~~l~-~~~~~~~~~f~~v~~~ 78 (144)
T cd06845 47 EEKHRRLFENMCRQLN-ISPDNAYEVFQEVARE 78 (144)
T ss_pred HHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHH
Confidence 4588999999988777 7888888888888875
No 109
>PRK10225 DNA-binding transcriptional repressor UxuR; Provisional
Probab=22.69 E-value=4.2e+02 Score=23.65 Aligned_cols=60 Identities=15% Similarity=0.028 Sum_probs=42.9
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhch----------------hhHH---HHHHHHHHHHHHhcCchhHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASD----------------EKRH---ELAYTKIVEKLFEIDPDDAILALAGM 169 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~D----------------E~rH---~~fY~~iv~~~le~dPd~tm~Aia~~ 169 (276)
+-.-||.-+ ++.+|+|.|.+++..+..- .... ..--.+|++++..-||+.+..++...
T Consensus 147 ~d~~FH~~i---~~~s~N~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~H~~I~~Ai~~~D~~~A~~~m~~H 223 (257)
T PRK10225 147 GDMQFHLAI---AEATHNSMLVELFRQSWQWRENNPMWIQLHSHLDDSLYRKEWLGDHKQILAALIKKDARAAKLAMWQH 223 (257)
T ss_pred hHHHHHHHH---HHHcCCHHHHHHHHHHHHHHHhhhHHHHHHHhhcccchhHHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence 567889944 4468899999888776320 0000 12357899999999999999988887
Q ss_pred Hh
Q 038880 170 MK 171 (276)
Q Consensus 170 m~ 171 (276)
+.
T Consensus 224 i~ 225 (257)
T PRK10225 224 LE 225 (257)
T ss_pred HH
Confidence 75
No 110
>PF11902 DUF3422: Protein of unknown function (DUF3422); InterPro: IPR021830 This family of proteins are functionally uncharacterised. This protein is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 426 to 444 amino acids in length.
Probab=22.47 E-value=8e+02 Score=24.69 Aligned_cols=170 Identities=19% Similarity=0.268 Sum_probs=99.4
Q ss_pred HHhcCCChhhHHhhhhhhhccccCChhhh-hhhhhcCCCCCCCCC--CC---chhhhh-------hhhhhhcCCChHHHH
Q 038880 11 ERCKQLPAEYFVVLVGDMITEEALPTYQT-MLNTIDGVRDETGAS--LT---SWATWI-------RYLYLSGCVDMKQIE 77 (276)
Q Consensus 11 ~~a~~Lpd~~~v~lv~~~lTEd~LPtY~~-~l~~~~gv~~~~g~~--~~---~W~~W~-------~YL~~sg~vDp~~lE 77 (276)
+-...+|..+++++-..++.++..+.-.. .....|+-.+-.|.. ++ .|..+. ++|+..+..++.++=
T Consensus 109 ~wl~~lpG~~i~a~~l~v~~~~~~~~~~~~~~~~~f~~~~l~gs~v~~g~a~v~TDFr~~~dGf~R~lv~~~~l~~~q~G 188 (420)
T PF11902_consen 109 DWLASLPGEVIVAVHLEVLPADPPAESPDELSAWHFDGNSLVGSRVAGGAARVWTDFRLDEDGFSRFLVLDRGLSPRQAG 188 (420)
T ss_pred hHHhcCCCcEEEEEEEEEecCCCCcchhhhHHHhccCccceeeeeecCCceEEEeeccCCCCCCeEEEEECCCCCHHHHH
Confidence 44567888888888888887776666652 223335433322221 12 243332 299999999999999
Q ss_pred HHHHHHHhcCCCCCCCCCCcchhhhhhhhhhhHHHHHHHHHHHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHhc
Q 038880 78 RSIQYLIRSGMDPKFENNPYNGFIYTSFQERATFISHGNTARLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFEI 157 (276)
Q Consensus 78 ~~~~~li~~G~~~~~~~~p~~~~vYtsfQE~AT~ish~ntar~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le~ 157 (276)
+..|.++.=+ + |..++..+|-+- ...+.. +.++ |..|+.|...|+.++..-. .+++.+
T Consensus 189 RlvQRLlEIE-------t-YR~mALL~LP~A-r~~~~~-L~~~-----E~~L~~l~~~~~~~~~~~~----~LL~~L--- 246 (420)
T PF11902_consen 189 RLVQRLLEIE-------T-YRMMALLGLPVA-RELSPE-LSEL-----EQRLAALTQRMASSEDTDD----ELLDEL--- 246 (420)
T ss_pred HHHHHHHHHH-------H-HHHHHHccCHHH-HHHHHH-HHHH-----HHHHHHHHHHHhcCCCCHH----HHHHHH---
Confidence 9999887651 2 666666655432 111111 2222 6667888888887765555 222221
Q ss_pred CchhHHHHHHHHHhhccCCccccCCCCCcchhhhhHHHHHHH-hcCCChhh-HHHHHHHHHhccccccccCCCHHH
Q 038880 158 DPDDAILALAGMMKKTIKMPAHLMYDGQNDKIFYHFSAVAQR-LGVYTAKD-YADILAFLIERWEVEKLMGLTSEG 231 (276)
Q Consensus 158 dPd~tm~Aia~~m~~~~~MP~~~m~dg~~~~lf~~~s~v~ar-aGiY~~~d-y~~Vl~~ll~~W~v~~~~gL~~eg 231 (276)
..++.-+ ...+++ .-=+++.. |.+||..-|...+-..+.|+..=+
T Consensus 247 ------t~LAa~v-----------------------E~~~a~t~~RF~As~AY~~iV~~RL~eLrE~~i~g~~tl~ 293 (420)
T PF11902_consen 247 ------TRLAAEV-----------------------EALAARTSYRFSASRAYYEIVEQRLAELREERIPGYQTLS 293 (420)
T ss_pred ------HHHHHHH-----------------------HHHHHHhcccchhhHHHHHHHHHHHHHhcccccCCCCcHH
Confidence 1122211 111111 11235666 999999999999988888765444
No 111
>KOG4326 consensus Mitochondrial F1F0-ATP synthase, subunit e [Energy production and conversion]
Probab=22.02 E-value=1.8e+02 Score=22.59 Aligned_cols=47 Identities=26% Similarity=0.199 Sum_probs=34.3
Q ss_pred cchhhhhhhhhhhHHHHHHHHHHHH---HHhCCHHHHHHHhHhhchhhHH
Q 038880 97 YNGFIYTSFQERATFISHGNTARLA---KEHGDMKLAQICGVIASDEKRH 143 (276)
Q Consensus 97 ~~~~vYtsfQE~AT~ish~ntar~a---~~~gDpvLa~il~~IA~DE~rH 143 (276)
..+.+|.+|.=+.-.-.|....... +...|..++.=..+-|.||+|-
T Consensus 21 ~lGvaYGa~r~~~l~~~~e~~Rei~a~eKav~da~~a~ekKr~a~~eaR~ 70 (81)
T KOG4326|consen 21 SLGVAYGAFRLRQLREYHEDIREIDAHEKAVADAEEAAEKKRWAKDEARY 70 (81)
T ss_pred HHHHHHhHHHHHHHhHHHHHHHHHHHHHHHHHhHHHHHHHHhhHHHHHHH
Confidence 4588999998777777776655543 3355777777888889999873
No 112
>PF10211 Ax_dynein_light: Axonemal dynein light chain; InterPro: IPR019347 Axonemal dynein light chain proteins play a dynamic role in flagellar and cilial motility. Eukaryotic cilia and flagella are complex organelles consisting of a core structure, the axoneme, which is composed of nine microtubule doublets forming a cylinder that surrounds a pair of central singlet microtubules. This ultra-structural arrangement seems to be one of the most stable micro-tubular assemblies known and is responsible for the flagellar and ciliary movement of a large number of organisms ranging from protozoan to mammals. This light chain interacts directly with the N-terminal half of the heavy chains [].
Probab=22.01 E-value=2.3e+02 Score=25.12 Aligned_cols=72 Identities=21% Similarity=0.354 Sum_probs=51.2
Q ss_pred hhhhhhcCCCCCCCCCCCch----hhhhhhhhh--hcCCChHHHHHHHHH-HHhcCCCCCCCCCCcchhhhh-hhhhhhH
Q 038880 39 TMLNTIDGVRDETGASLTSW----ATWIRYLYL--SGCVDMKQIERSIQY-LIRSGMDPKFENNPYNGFIYT-SFQERAT 110 (276)
Q Consensus 39 ~~l~~~~gv~~~~g~~~~~W----~~W~~YL~~--sg~vDp~~lE~~~~~-li~~G~~~~~~~~p~~~~vYt-sfQE~AT 110 (276)
..||++||.+ -| ..|+.|.-. |.+.|...|.+.... |-..+-++. +=.|+..-+|. +|.|+-.
T Consensus 3 ~il~~i~ppr--------~~~~~~~~~~q~vS~~p~tR~dVi~L~e~Ld~~L~~~~ar~~-gIcpvr~~ly~~~F~ELIR 73 (189)
T PF10211_consen 3 DILNSILPPR--------EWEEDGQLWIQFVSSAPATRQDVIQLQEWLDKMLQQRQARET-GICPVREELYSQCFDELIR 73 (189)
T ss_pred hhHHhhCCch--------hhhcCCeeeEeeeCCCCCCHHHHHHHHHHHHHHHHHhcCCcc-cccHHHHHHHHHHHHHHHH
Confidence 3578888743 34 357666554 677899999988544 555565543 34788888998 9999999
Q ss_pred HHHHHHHHH
Q 038880 111 FISHGNTAR 119 (276)
Q Consensus 111 ~ish~ntar 119 (276)
+||-...-|
T Consensus 74 QVTi~C~ER 82 (189)
T PF10211_consen 74 QVTIDCPER 82 (189)
T ss_pred HHHhCcHHH
Confidence 999875555
No 113
>PRK11534 DNA-binding transcriptional regulator CsiR; Provisional
Probab=21.73 E-value=4.8e+02 Score=22.72 Aligned_cols=60 Identities=12% Similarity=-0.005 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHHHHhCCHHHHHHHhHhhch----------------hhHH--HHHHHHHHHHHHhcCchhHHHHHHHHH
Q 038880 109 ATFISHGNTARLAKEHGDMKLAQICGVIASD----------------EKRH--ELAYTKIVEKLFEIDPDDAILALAGMM 170 (276)
Q Consensus 109 AT~ish~ntar~a~~~gDpvLa~il~~IA~D----------------E~rH--~~fY~~iv~~~le~dPd~tm~Aia~~m 170 (276)
+-..||.-+.+ .+|++.|.+++..+-.- +... ..--.+|++++-+-||+++..++...+
T Consensus 134 ~d~~FH~~i~~---~s~N~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~eH~~Il~Ai~~~D~~~A~~~~~~Hi 210 (224)
T PRK11534 134 RHQAFHTAIVA---GCGSHYLLQMRERLFDLAARYRFIWLRRTVLSVEMLEDKHDQHQTLTAAILARDTARASELMRQHL 210 (224)
T ss_pred HHHHHHHHHHH---HCCCHHHHHHHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence 45788995444 68899988876654321 1111 123578999999999999988887776
Q ss_pred h
Q 038880 171 K 171 (276)
Q Consensus 171 ~ 171 (276)
.
T Consensus 211 ~ 211 (224)
T PRK11534 211 L 211 (224)
T ss_pred H
Confidence 4
No 114
>TIGR02240 PHA_depoly_arom poly(3-hydroxyalkanoate) depolymerase. This family consists of the polyhydroxyalkanoic acid (PHA) depolymerase of Pseudomonas oleovorans, Pseudomonas putida BM01, and related species. This enzyme is part of polyester storage and mobilization system as in many bacteria. However, species containing this enzyme are unusual in their capacity to produce aromatic polyesters when grown on carbon sources such as benzoic acid or phenylacetic acid.
Probab=21.57 E-value=1.8e+02 Score=25.81 Aligned_cols=62 Identities=18% Similarity=0.315 Sum_probs=45.8
Q ss_pred ccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhccccccc--cCCCHHHHHHHHHHhcchHHHHHH
Q 038880 173 TIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVEKL--MGLTSEGRKARDFVCGLPSRIRRL 248 (276)
Q Consensus 173 ~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~~~--~gL~~eg~~Ar~~l~~l~~r~~r~ 248 (276)
.+.+|||.-.+... +-|+..++.+-+..+++..++.+. =|-|=.|--|..+....|.+++++
T Consensus 56 ~~Dl~G~G~S~~~~--------------~~~~~~~~~~~~~~~i~~l~~~~~~LvG~S~GG~va~~~a~~~p~~v~~l 119 (276)
T TIGR02240 56 AFDVPGVGGSSTPR--------------HPYRFPGLAKLAARMLDYLDYGQVNAIGVSWGGALAQQFAHDYPERCKKL 119 (276)
T ss_pred EECCCCCCCCCCCC--------------CcCcHHHHHHHHHHHHHHhCcCceEEEEECHHHHHHHHHHHHCHHHhhhe
Confidence 67889986554321 246777777777788888887655 388888998888888888877775
No 115
>PLN02965 Probable pheophorbidase
Probab=21.33 E-value=98 Score=27.17 Aligned_cols=63 Identities=14% Similarity=0.240 Sum_probs=44.1
Q ss_pred ccCCccccCCCCCcchhhhhHHHHHHHhcCCChhhHHHHHHHHHhccccc-cc--cCCCHHHHHHHHHHhcchHHHHHH
Q 038880 173 TIKMPAHLMYDGQNDKIFYHFSAVAQRLGVYTAKDYADILAFLIERWEVE-KL--MGLTSEGRKARDFVCGLPSRIRRL 248 (276)
Q Consensus 173 ~~~MP~~~m~dg~~~~lf~~~s~v~araGiY~~~dy~~Vl~~ll~~W~v~-~~--~gL~~eg~~Ar~~l~~l~~r~~r~ 248 (276)
.+.||||.-.+... .+.|+..+|.+-+..+++..++. +. =|-|=.|--|..+....|.|+.++
T Consensus 35 a~Dl~G~G~S~~~~-------------~~~~~~~~~a~dl~~~l~~l~~~~~~~lvGhSmGG~ia~~~a~~~p~~v~~l 100 (255)
T PLN02965 35 CVDLTGAGISLTDS-------------NTVSSSDQYNRPLFALLSDLPPDHKVILVGHSIGGGSVTEALCKFTDKISMA 100 (255)
T ss_pred EecCCcCCCCCCCc-------------cccCCHHHHHHHHHHHHHhcCCCCCEEEEecCcchHHHHHHHHhCchheeEE
Confidence 67888887554321 13678888877777778877653 33 488888888888887777776553
No 116
>PLN02492 ribonucleoside-diphosphate reductase
Probab=20.79 E-value=4e+02 Score=25.29 Aligned_cols=38 Identities=18% Similarity=0.239 Sum_probs=31.8
Q ss_pred HHHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 119 RLAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 119 r~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
.+....-.|-+..+++..+.-|+.|...|+.+++.+..
T Consensus 79 ~~~~~~~~~E~~~~~~~q~~~E~iH~~sYs~i~~tl~~ 116 (324)
T PLN02492 79 RFMKEVQVPEARAFYGFQIAIENIHSEMYSLLLDTYIK 116 (324)
T ss_pred HHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 44444558999999999999999999999999988653
No 117
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=20.73 E-value=58 Score=29.38 Aligned_cols=43 Identities=30% Similarity=0.472 Sum_probs=30.4
Q ss_pred hhhhccccCChhhhhhhhhcCCCCCCCCCCCchhhhhhhhhhhcCCChHHHHHH-HHHHHh
Q 038880 26 GDMITEEALPTYQTMLNTIDGVRDETGASLTSWATWIRYLYLSGCVDMKQIERS-IQYLIR 85 (276)
Q Consensus 26 ~~~lTEd~LPtY~~~l~~~~gv~~~~g~~~~~W~~W~~YL~~sg~vDp~~lE~~-~~~li~ 85 (276)
.+|+-|| +.+.||.+.|. -.+.|++|..| ||+.+++- +++++.
T Consensus 79 fs~v~E~----f~r~L~~h~Pr------~~~~wa~wG~~-------Dm~~l~q~~~~~~~~ 122 (210)
T COG5018 79 FSMVFED----FIRKLNEHDPR------KNSTWATWGNM-------DMKVLKQNCMFNHIP 122 (210)
T ss_pred HHHHHHH----HHHHHHhcCcc------cCCccccccch-------hHHHHHHHHHhcCCC
Confidence 3455454 78899999875 23369999665 99999887 555555
No 118
>PRK13967 nrdF1 ribonucleotide-diphosphate reductase subunit beta; Provisional
Probab=20.32 E-value=3.6e+02 Score=25.76 Aligned_cols=37 Identities=16% Similarity=0.161 Sum_probs=32.0
Q ss_pred HHHHhCCHHHHHHHhHhhchhhHHHHHHHHHHHHHHh
Q 038880 120 LAKEHGDMKLAQICGVIASDEKRHELAYTKIVEKLFE 156 (276)
Q Consensus 120 ~a~~~gDpvLa~il~~IA~DE~rH~~fY~~iv~~~le 156 (276)
+......|-...+++..+.-|+.|...|+.+++.+..
T Consensus 81 ~~~~~~~~e~~~~l~~~~~~E~iHs~sYs~il~tl~~ 117 (322)
T PRK13967 81 MIDDAVTPHEEAVLTNMAFMESVHAKSYSSIFSTLCS 117 (322)
T ss_pred HHHhcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 3345678989999999999999999999999999854
No 119
>PF04305 DUF455: Protein of unknown function (DUF455); InterPro: IPR007402 This is a family of uncharacterised proteins.
Probab=20.16 E-value=78 Score=29.57 Aligned_cols=22 Identities=32% Similarity=0.291 Sum_probs=18.1
Q ss_pred HhHhhchhhHHHHHHHHHHHHH
Q 038880 133 CGVIASDEKRHELAYTKIVEKL 154 (276)
Q Consensus 133 l~~IA~DE~rH~~fY~~iv~~~ 154 (276)
.-++|.||.||+.-+.+-++++
T Consensus 104 ~~~va~dEarHf~ll~~rL~~l 125 (253)
T PF04305_consen 104 WLRVADDEARHFRLLRERLEEL 125 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3478999999999999988553
No 120
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=20.06 E-value=8.1e+02 Score=26.21 Aligned_cols=115 Identities=8% Similarity=-0.009 Sum_probs=72.0
Q ss_pred HHHHHHHHHHHHhC-CHHHHHHHhHhhchhhHHHHHHHHHHHHHHhcC-chhHHHHHHHHHhhccCCccccCCCCCcchh
Q 038880 112 ISHGNTARLAKEHG-DMKLAQICGVIASDEKRHELAYTKIVEKLFEID-PDDAILALAGMMKKTIKMPAHLMYDGQNDKI 189 (276)
Q Consensus 112 ish~ntar~a~~~g-DpvLa~il~~IA~DE~rH~~fY~~iv~~~le~d-Pd~tm~Aia~~m~~~~~MP~~~m~dg~~~~l 189 (276)
-.|.|+|++....| .+....++.++..=.--|..+..++...+.+.. .++++..+...+.. -|+. .+.
T Consensus 87 ~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--------~p~~--~~~ 156 (694)
T PRK15179 87 LFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--------GSSS--ARE 156 (694)
T ss_pred HHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--------CCCC--HHH
Confidence 34788888877766 345556666555555566666667766666665 66777777777752 2222 234
Q ss_pred hhhHHHHHHHhcCCChhh--HHHHHHHH------Hhccccc-cccCCCHHHHHHHH
Q 038880 190 FYHFSAVAQRLGVYTAKD--YADILAFL------IERWEVE-KLMGLTSEGRKARD 236 (276)
Q Consensus 190 f~~~s~v~araGiY~~~d--y~~Vl~~l------l~~W~v~-~~~gL~~eg~~Ar~ 236 (276)
.-..+...++.|-|...+ |++++... +=.|+.. +.+|..+++..|=+
T Consensus 157 ~~~~a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~ 212 (694)
T PRK15179 157 ILLEAKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQ 212 (694)
T ss_pred HHHHHHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence 456788888999999888 78888422 2222222 22477776665544
Done!