Query 027296
Match_columns 225
No_of_seqs 57 out of 59
Neff 2.0
Searched_HMMs 46136
Date Fri Mar 29 07:50:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027296.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027296hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02481 DNA_processg_A: DNA r 98.5 8.6E-07 1.9E-11 74.4 8.7 82 138-221 42-124 (212)
2 TIGR00732 dprA DNA protecting 97.9 6.8E-05 1.5E-09 63.6 9.1 79 141-221 45-124 (220)
3 TIGR00725 conserved hypothetic 97.4 0.00047 1E-08 55.9 6.9 65 141-207 2-66 (159)
4 PRK10736 hypothetical protein; 97.0 0.0035 7.6E-08 58.2 8.9 79 141-221 108-187 (374)
5 COG0758 Smf Predicted Rossmann 95.5 0.11 2.5E-06 48.0 9.8 117 86-222 74-192 (350)
6 TIGR00730 conserved hypothetic 93.7 0.25 5.3E-06 41.1 6.5 65 141-207 1-68 (178)
7 COG1611 Predicted Rossmann fol 88.9 2.4 5.1E-05 36.3 7.7 73 136-210 10-85 (205)
8 PRK13660 hypothetical protein; 83.5 5.1 0.00011 34.2 7.0 82 141-222 2-100 (182)
9 PF06908 DUF1273: Protein of u 81.3 13 0.00029 31.2 8.6 79 141-221 2-99 (177)
10 cd01391 Periplasmic_Binding_Pr 75.4 28 0.0006 25.8 7.9 58 134-192 118-179 (269)
11 PRK09331 Sep-tRNA:Cys-tRNA syn 74.3 5.5 0.00012 35.0 4.6 47 144-192 55-101 (387)
12 TIGR02668 moaA_archaeal probab 72.1 24 0.00052 30.1 7.8 39 128-168 45-83 (302)
13 COG1313 PflX Uncharacterized F 69.9 8.3 0.00018 36.6 4.9 76 84-178 127-202 (335)
14 TIGR02109 PQQ_syn_pqqE coenzym 68.9 49 0.0011 29.0 9.1 78 128-216 45-123 (358)
15 PF13353 Fer4_12: 4Fe-4S singl 68.8 9.4 0.0002 28.2 4.1 58 126-185 38-100 (139)
16 PRK05301 pyrroloquinoline quin 66.2 69 0.0015 28.4 9.6 74 136-217 59-133 (378)
17 PF04055 Radical_SAM: Radical 64.8 30 0.00065 24.7 5.9 73 127-202 32-108 (166)
18 PRK13361 molybdenum cofactor b 64.2 43 0.00094 29.5 8.0 35 134-170 56-90 (329)
19 PLN03032 serine decarboxylase; 59.8 23 0.00049 32.6 5.6 65 126-191 35-107 (374)
20 PRK00164 moaA molybdenum cofac 58.2 56 0.0012 28.4 7.5 39 128-168 54-92 (331)
21 KOG2235 Uncharacterized conser 55.1 1.8 3.8E-05 44.4 -2.4 121 77-205 69-199 (776)
22 cd02951 SoxW SoxW family; SoxW 55.1 24 0.00052 25.9 4.1 32 127-158 1-33 (125)
23 TIGR01706 NAPA periplasmic nit 53.5 34 0.00074 34.1 6.1 60 118-179 114-179 (830)
24 cd01820 PAF_acetylesterase_lik 53.0 53 0.0012 26.3 6.1 70 128-202 17-97 (214)
25 PLN02951 Molybderin biosynthes 51.9 42 0.00092 30.7 6.0 41 128-170 95-135 (373)
26 PF10686 DUF2493: Protein of u 51.8 59 0.0013 23.7 5.6 51 141-192 4-56 (71)
27 PF01972 SDH_sah: Serine dehyd 51.6 48 0.001 30.9 6.3 68 136-204 45-127 (285)
28 cd06452 SepCysS Sep-tRNA:Cys-t 51.6 26 0.00057 30.1 4.4 19 171-189 61-79 (361)
29 TIGR02351 thiH thiazole biosyn 50.7 30 0.00065 31.3 4.8 42 126-167 105-148 (366)
30 TIGR03365 Bsubt_queE 7-cyano-7 50.3 59 0.0013 27.7 6.3 50 127-178 60-110 (238)
31 PF02875 Mur_ligase_C: Mur lig 50.3 31 0.00066 24.5 3.9 58 120-178 20-80 (91)
32 COG0031 CysK Cysteine synthase 48.3 39 0.00084 31.2 5.2 57 155-218 43-105 (300)
33 COG1104 NifS Cysteine sulfinat 48.3 13 0.00029 35.4 2.3 25 169-193 61-85 (386)
34 PF09314 DUF1972: Domain of un 46.3 28 0.00061 29.7 3.8 37 141-177 2-43 (185)
35 PF03807 F420_oxidored: NADP o 46.0 23 0.0005 24.8 2.7 26 142-174 1-29 (96)
36 cd01835 SGNH_hydrolase_like_3 45.7 81 0.0018 24.4 5.9 64 140-203 1-78 (193)
37 PRK10200 putative racemase; Pr 45.7 20 0.00043 30.6 2.8 28 122-149 98-126 (230)
38 TIGR03576 pyridox_MJ0158 pyrid 45.4 39 0.00085 30.1 4.6 40 153-192 54-94 (346)
39 PF12308 Noelin-1: Neurogenesi 45.3 17 0.00036 29.6 2.1 28 197-224 22-53 (101)
40 PRK13762 tRNA-modifying enzyme 45.1 2.4E+02 0.0051 25.5 10.0 69 140-218 130-199 (322)
41 cd06150 YjgF_YER057c_UK114_lik 44.9 8.8 0.00019 28.4 0.5 17 167-183 7-23 (105)
42 cd06502 TA_like Low-specificit 44.9 40 0.00086 28.0 4.3 15 161-175 62-76 (338)
43 TIGR00423 radical SAM domain p 43.9 51 0.0011 28.8 5.0 37 128-164 41-77 (309)
44 cd01542 PBP1_TreR_like Ligand- 43.5 1.6E+02 0.0034 23.0 7.3 66 137-205 111-181 (259)
45 TIGR01275 ACC_deam_rel pyridox 42.9 77 0.0017 27.3 5.9 51 153-204 39-90 (311)
46 cd00758 MoCF_BD MoCF_BD: molyb 42.8 58 0.0013 25.0 4.7 50 128-183 23-72 (133)
47 PRK03910 D-cysteine desulfhydr 41.9 85 0.0018 27.6 6.2 55 153-207 47-101 (331)
48 TIGR00177 molyb_syn molybdenum 41.6 62 0.0013 25.4 4.8 50 128-183 31-80 (144)
49 cd01537 PBP1_Repressors_Sugar_ 41.5 1.6E+02 0.0034 22.4 7.1 37 134-170 112-148 (264)
50 TIGR02666 moaA molybdenum cofa 41.4 71 0.0015 27.8 5.5 41 128-170 48-88 (334)
51 KOG1549 Cysteine desulfurase N 41.0 21 0.00046 34.6 2.5 29 167-195 100-128 (428)
52 PRK13532 nitrate reductase cat 40.9 72 0.0016 31.8 6.1 40 118-157 114-158 (830)
53 cd06286 PBP1_CcpB_like Ligand- 40.8 1.8E+02 0.0038 22.9 7.2 36 135-170 109-144 (260)
54 COG1922 WecG Teichoic acid bio 40.4 1.5E+02 0.0032 26.9 7.5 75 121-202 89-169 (253)
55 PF09743 DUF2042: Uncharacteri 40.4 7.9 0.00017 34.7 -0.5 111 78-192 67-188 (272)
56 TIGR00124 cit_ly_ligase [citra 40.0 37 0.00081 31.0 3.8 45 123-171 121-168 (332)
57 cd01494 AAT_I Aspartate aminot 39.5 51 0.0011 23.6 3.7 19 171-189 19-37 (170)
58 TIGR00035 asp_race aspartate r 39.4 23 0.0005 29.6 2.2 29 122-150 98-127 (229)
59 TIGR03470 HpnH hopanoid biosyn 38.8 1.3E+02 0.0029 26.6 6.9 40 134-175 67-106 (318)
60 PRK03321 putative aminotransfe 38.7 34 0.00074 29.1 3.1 36 156-191 60-96 (352)
61 cd01937 ribokinase_group_D Rib 38.6 32 0.0007 27.8 2.8 48 142-202 1-48 (254)
62 cd06207 CyPoR_like NADPH cytoc 38.6 1.6E+02 0.0035 26.5 7.5 65 128-192 280-352 (382)
63 cd06267 PBP1_LacI_sugar_bindin 38.1 1.8E+02 0.0039 22.2 7.7 34 137-170 113-146 (264)
64 TIGR00696 wecB_tagA_cpsF bacte 37.8 2.4E+02 0.0052 23.5 8.5 78 120-203 28-109 (177)
65 TIGR02493 PFLA pyruvate format 37.4 77 0.0017 25.8 4.9 35 141-177 67-103 (235)
66 PLN02778 3,5-epimerase/4-reduc 36.9 1.1E+02 0.0024 26.3 5.9 54 138-197 7-60 (298)
67 cd00609 AAT_like Aspartate ami 36.7 72 0.0016 25.9 4.6 31 170-204 60-90 (350)
68 PRK13520 L-tyrosine decarboxyl 36.6 74 0.0016 26.9 4.8 36 155-190 61-97 (371)
69 PF03808 Glyco_tran_WecB: Glyc 36.5 2.3E+02 0.005 22.9 8.6 77 121-203 29-110 (172)
70 PF00994 MoCF_biosynth: Probab 36.3 48 0.001 25.5 3.4 49 128-182 21-69 (144)
71 PLN03075 nicotianamine synthas 35.9 1.1E+02 0.0023 28.1 6.0 29 130-158 111-142 (296)
72 cd00615 Orn_deC_like Ornithine 35.9 63 0.0014 27.4 4.3 32 157-190 86-117 (294)
73 PF13377 Peripla_BP_3: Peripla 33.8 1.3E+02 0.0028 22.0 5.1 48 134-182 3-54 (160)
74 smart00852 MoCF_biosynth Proba 33.7 54 0.0012 25.0 3.2 47 128-182 22-70 (135)
75 PRK02769 histidine decarboxyla 33.5 70 0.0015 29.2 4.4 49 154-204 66-117 (380)
76 PRK08361 aspartate aminotransf 33.4 58 0.0013 28.4 3.8 21 156-176 103-123 (391)
77 PRK07324 transaminase; Validat 33.2 45 0.00097 29.3 3.1 21 156-176 90-110 (373)
78 cd00885 cinA Competence-damage 33.2 57 0.0012 26.8 3.5 45 135-183 28-72 (170)
79 cd01829 SGNH_hydrolase_peri2 S 33.2 1.4E+02 0.0031 23.0 5.5 58 142-202 1-67 (200)
80 PF00175 NAD_binding_1: Oxidor 33.1 91 0.002 21.8 4.1 59 128-186 41-108 (109)
81 PRK13392 5-aminolevulinate syn 33.1 53 0.0011 29.0 3.5 37 154-191 92-128 (410)
82 PRK06256 biotin synthase; Vali 32.9 3.4E+02 0.0073 23.7 9.5 65 127-192 95-161 (336)
83 PRK08133 O-succinylhomoserine 32.9 1.1E+02 0.0023 27.7 5.4 21 171-191 78-98 (390)
84 PRK09613 thiH thiamine biosynt 32.3 83 0.0018 30.4 4.9 41 126-166 117-159 (469)
85 PF03059 NAS: Nicotianamine sy 32.1 44 0.00096 30.3 2.9 30 130-159 108-140 (276)
86 TIGR03812 tyr_de_CO2_Arch tyro 32.0 71 0.0015 27.1 4.0 38 153-190 59-97 (373)
87 PF03721 UDPG_MGDP_dh_N: UDP-g 31.8 58 0.0012 26.9 3.3 42 141-192 1-42 (185)
88 cd06450 DOPA_deC_like DOPA dec 31.5 93 0.002 26.0 4.5 42 150-191 35-79 (345)
89 PRK09064 5-aminolevulinate syn 31.0 66 0.0014 28.2 3.7 16 88-103 48-63 (407)
90 TIGR02667 moaB_proteo molybden 30.9 65 0.0014 26.2 3.4 45 135-182 31-76 (163)
91 PLN03083 E3 UFM1-protein ligas 30.7 20 0.00044 37.2 0.6 109 80-192 73-191 (803)
92 PF10727 Rossmann-like: Rossma 30.7 65 0.0014 25.7 3.4 32 136-174 6-37 (127)
93 cd06449 ACCD Aminocyclopropane 30.5 1.9E+02 0.0042 25.0 6.5 49 158-207 40-89 (307)
94 PRK14072 6-phosphofructokinase 30.4 26 0.00057 33.0 1.3 18 173-191 8-27 (416)
95 PF01042 Ribonuc_L-PSP: Endori 30.1 12 0.00026 28.2 -0.9 42 168-222 16-57 (121)
96 cd06287 PBP1_LacI_like_8 Ligan 29.8 3.2E+02 0.0068 22.5 7.6 36 134-170 112-148 (269)
97 cd02762 MopB_1 The MopB_1 CD i 29.7 1.5E+02 0.0032 27.8 5.9 31 119-149 65-100 (539)
98 cd06359 PBP1_Nba_like Type I p 29.7 2.1E+02 0.0046 24.0 6.4 68 132-203 126-195 (333)
99 cd06155 eu_AANH_C_1 A group of 29.5 30 0.00066 25.6 1.2 15 168-182 5-19 (101)
100 cd02750 MopB_Nitrate-R-NarG-li 29.4 1.1E+02 0.0024 28.1 5.0 56 119-176 81-142 (461)
101 cd02763 MopB_2 The MopB_2 CD i 29.2 1.3E+02 0.0028 30.3 5.8 55 119-178 69-127 (679)
102 PRK03604 moaC bifunctional mol 29.1 60 0.0013 29.8 3.3 51 128-183 179-229 (312)
103 cd00886 MogA_MoaB MogA_MoaB fa 29.0 77 0.0017 25.1 3.5 45 135-182 29-74 (152)
104 PRK03670 competence damage-ind 28.9 63 0.0014 28.5 3.3 45 135-182 29-73 (252)
105 PRK03244 argD acetylornithine 28.4 80 0.0017 27.6 3.8 21 171-191 105-125 (398)
106 PLN02822 serine palmitoyltrans 27.9 48 0.001 31.0 2.5 48 144-192 142-192 (481)
107 cd06221 sulfite_reductase_like 27.9 96 0.0021 26.0 4.1 61 128-192 144-212 (253)
108 PRK05406 LamB/YcsF family prot 27.8 52 0.0011 29.8 2.6 59 146-205 72-148 (246)
109 TIGR03700 mena_SCO4494 putativ 27.7 1.3E+02 0.0027 27.1 5.0 43 126-168 81-124 (351)
110 cd06200 SiR_like1 Cytochrome p 27.6 3.5E+02 0.0077 22.6 7.4 63 128-190 154-223 (245)
111 cd01822 Lysophospholipase_L1_l 27.5 1.9E+02 0.0042 21.5 5.3 13 155-167 49-61 (177)
112 COG1669 Predicted nucleotidylt 27.3 51 0.0011 26.3 2.2 16 133-148 16-32 (97)
113 cd06274 PBP1_FruR Ligand bindi 27.1 1.5E+02 0.0033 23.4 4.9 34 137-170 113-146 (264)
114 PRK14489 putative bifunctional 27.1 1.7E+02 0.0036 26.5 5.7 51 123-175 181-238 (366)
115 COG1597 LCB5 Sphingosine kinas 26.9 3.4E+02 0.0074 24.2 7.5 66 130-201 24-89 (301)
116 PRK00950 histidinol-phosphate 26.9 66 0.0014 27.3 2.9 22 156-177 97-118 (361)
117 COG1794 RacX Aspartate racemas 26.8 44 0.00095 30.3 2.0 29 121-149 97-126 (230)
118 TIGR01931 cysJ sulfite reducta 26.5 2.9E+02 0.0062 27.1 7.5 60 128-187 496-562 (597)
119 PF12390 Se-cys_synth_N: Selen 26.4 34 0.00074 22.3 0.9 13 120-132 1-14 (40)
120 cd00368 Molybdopterin-Binding 26.2 2.1E+02 0.0046 24.3 5.9 58 119-178 67-129 (374)
121 cd02754 MopB_Nitrate-R-NapA-li 26.1 1.5E+02 0.0032 27.6 5.3 42 119-160 66-112 (565)
122 TIGR01274 ACC_deam 1-aminocycl 26.1 2.6E+02 0.0056 24.8 6.6 51 156-206 52-102 (337)
123 cd06201 SiR_like2 Cytochrome p 25.9 3.2E+02 0.0068 23.7 7.0 64 128-191 198-266 (289)
124 PF06506 PrpR_N: Propionate ca 25.9 65 0.0014 26.0 2.6 58 126-184 64-139 (176)
125 KOG4435 Predicted lipid kinase 25.8 93 0.002 31.3 4.1 57 143-205 95-152 (535)
126 cd01544 PBP1_GalR Ligand-bindi 25.5 3.5E+02 0.0077 21.6 7.1 35 136-170 108-147 (270)
127 cd06451 AGAT_like Alanine-glyo 25.5 1.1E+02 0.0023 25.9 4.0 17 160-176 64-80 (356)
128 PRK09082 methionine aminotrans 25.3 1E+02 0.0022 27.0 3.9 20 157-176 102-121 (386)
129 PLN02884 6-phosphofructokinase 25.1 45 0.00098 31.7 1.8 38 136-192 39-78 (411)
130 PRK11041 DNA-binding transcrip 25.0 1.5E+02 0.0033 24.1 4.6 34 135-168 147-180 (309)
131 PRK02948 cysteine desulfurase; 25.0 1.2E+02 0.0025 26.2 4.1 22 170-191 61-82 (381)
132 KOG2174 Leptin receptor gene-r 25.0 40 0.00087 28.5 1.3 44 128-175 65-110 (131)
133 TIGR00250 RNAse_H_YqgF RNAse H 24.9 3E+02 0.0066 21.8 6.2 64 137-213 4-67 (130)
134 PF00490 ALAD: Delta-aminolevu 24.8 85 0.0018 29.7 3.5 76 119-194 44-185 (324)
135 PF14734 DUF4469: Domain of un 24.8 51 0.0011 25.9 1.8 30 179-208 47-76 (102)
136 PF03279 Lip_A_acyltrans: Bact 24.8 21 0.00046 30.2 -0.4 15 50-64 281-295 (295)
137 PRK07094 biotin synthase; Prov 24.8 1.7E+02 0.0036 25.4 5.1 41 127-167 74-114 (323)
138 PRK08905 lipid A biosynthesis 24.7 27 0.00058 30.2 0.2 15 50-64 260-274 (289)
139 TIGR01822 2am3keto_CoA 2-amino 24.7 1.3E+02 0.0028 25.9 4.3 46 146-192 73-121 (393)
140 PRK08912 hypothetical protein; 24.7 1.1E+02 0.0023 26.7 3.9 19 171-189 89-107 (387)
141 PRK12390 1-aminocyclopropane-1 24.6 2.8E+02 0.0061 24.5 6.5 52 155-206 52-103 (337)
142 PRK07777 aminotransferase; Val 24.5 61 0.0013 28.2 2.4 18 172-189 88-105 (387)
143 PRK01278 argD acetylornithine 24.5 1.8E+02 0.004 25.4 5.3 48 156-204 76-127 (389)
144 PRK09240 thiH thiamine biosynt 24.5 1.6E+02 0.0034 26.9 5.1 39 127-165 108-147 (371)
145 PF13884 Peptidase_S74: Chaper 24.5 45 0.00097 22.4 1.2 17 146-162 40-56 (58)
146 PRK06939 2-amino-3-ketobutyrat 24.4 97 0.0021 26.4 3.5 36 155-191 89-124 (397)
147 PRK13384 delta-aminolevulinic 24.2 98 0.0021 29.4 3.8 23 126-148 60-83 (322)
148 PRK06756 flavodoxin; Provision 24.1 87 0.0019 24.0 2.9 29 121-150 63-93 (148)
149 cd02755 MopB_Thiosulfate-R-lik 24.1 1.7E+02 0.0037 26.7 5.2 48 126-178 80-129 (454)
150 PRK05764 aspartate aminotransf 24.0 94 0.002 26.8 3.4 21 157-177 102-122 (393)
151 cd04824 eu_ALAD_PBGS_cysteine_ 24.0 1E+02 0.0022 29.3 3.8 23 126-148 50-73 (320)
152 PRK14045 1-aminocyclopropane-1 23.8 1.9E+02 0.0041 25.6 5.3 51 155-205 55-105 (329)
153 PRK11064 wecC UDP-N-acetyl-D-m 23.8 86 0.0019 28.9 3.3 29 140-175 3-31 (415)
154 TIGR01437 selA_rel uncharacter 23.8 92 0.002 27.7 3.4 25 170-194 61-85 (363)
155 PRK07309 aromatic amino acid a 23.7 1.3E+02 0.0029 26.4 4.3 21 156-176 101-121 (391)
156 COG0318 CaiC Acyl-CoA syntheta 23.6 88 0.0019 28.8 3.3 32 172-203 176-222 (534)
157 cd06277 PBP1_LacI_like_1 Ligan 23.4 1.9E+02 0.004 22.9 4.7 36 135-170 113-148 (268)
158 cd04509 PBP1_ABC_transporter_G 23.4 2.7E+02 0.0058 21.5 5.5 39 134-174 130-168 (299)
159 TIGR01825 gly_Cac_T_rel pyrido 23.3 99 0.0022 26.4 3.4 37 154-191 79-115 (385)
160 cd00616 AHBA_syn 3-amino-5-hyd 23.1 1.5E+02 0.0032 24.8 4.3 18 159-176 46-64 (352)
161 PLN02564 6-phosphofructokinase 23.0 49 0.0011 32.4 1.7 39 135-192 72-112 (484)
162 cd06298 PBP1_CcpA_like Ligand- 23.0 3.7E+02 0.0081 21.0 6.9 34 137-170 113-147 (268)
163 TIGR02495 NrdG2 anaerobic ribo 23.0 2.8E+02 0.0061 21.8 5.7 40 128-171 52-91 (191)
164 PRK07682 hypothetical protein; 22.9 1.5E+02 0.0033 25.6 4.5 22 156-177 91-112 (378)
165 TIGR03699 mena_SCO4550 menaqui 22.8 2E+02 0.0043 25.4 5.2 40 126-165 74-114 (340)
166 cd02759 MopB_Acetylene-hydrata 22.8 2.3E+02 0.005 26.0 5.8 58 119-178 69-133 (477)
167 PRK12583 acyl-CoA synthetase; 22.6 1E+02 0.0022 27.3 3.4 10 172-181 206-215 (558)
168 PLN02656 tyrosine transaminase 22.3 1.2E+02 0.0027 26.9 3.9 23 156-178 106-128 (409)
169 PRK06555 pyrophosphate--fructo 22.0 49 0.0011 31.7 1.4 18 173-191 8-27 (403)
170 PLN02651 cysteine desulfurase 22.0 1.3E+02 0.0028 26.0 3.9 7 170-176 88-94 (364)
171 PRK06381 threonine synthase; V 21.8 3E+02 0.0065 23.9 6.0 59 153-218 46-106 (319)
172 cd06368 PBP1_iGluR_non_NMDA_li 21.7 3.6E+02 0.0078 22.2 6.2 83 127-221 168-255 (324)
173 cd06278 PBP1_LacI_like_2 Ligan 21.6 2.3E+02 0.005 22.1 4.8 33 135-167 110-142 (266)
174 COG0113 HemB Delta-aminolevuli 21.5 1.1E+02 0.0023 29.3 3.5 24 126-149 60-84 (330)
175 TIGR01325 O_suc_HS_sulf O-succ 21.5 2.2E+02 0.0048 25.4 5.3 20 158-177 81-100 (380)
176 PLN00175 aminotransferase fami 21.4 1.5E+02 0.0033 26.6 4.3 19 172-190 118-136 (413)
177 PF01118 Semialdhyde_dh: Semia 21.2 1.1E+02 0.0023 23.0 2.9 45 142-188 1-46 (121)
178 cd01563 Thr-synth_1 Threonine 21.2 5E+02 0.011 22.5 7.3 58 154-218 54-113 (324)
179 cd06289 PBP1_MalI_like Ligand- 21.1 4.1E+02 0.0088 20.7 7.0 36 135-170 112-147 (268)
180 TIGR01264 tyr_amTase_E tyrosin 21.0 98 0.0021 27.2 3.0 21 156-176 105-125 (401)
181 TIGR03235 DNA_S_dndA cysteine 20.9 1.3E+02 0.0028 25.7 3.6 34 156-189 45-79 (353)
182 cd01841 NnaC_like NnaC (CMP-Ne 20.7 2.2E+02 0.0048 21.5 4.5 33 169-201 22-58 (174)
183 cd06272 PBP1_hexuronate_repres 20.6 1.9E+02 0.0042 22.8 4.3 34 137-170 108-141 (261)
184 TIGR03551 F420_cofH 7,8-dideme 20.6 2.2E+02 0.0048 25.4 5.1 23 128-150 75-97 (343)
185 COG0352 ThiE Thiamine monophos 20.5 1.6E+02 0.0034 25.7 4.1 51 126-197 147-197 (211)
186 cd06296 PBP1_CatR_like Ligand- 20.4 2.5E+02 0.0054 22.1 4.9 35 135-169 112-146 (270)
187 cd01834 SGNH_hydrolase_like_2 20.3 2.8E+02 0.0061 20.7 4.9 61 141-202 2-69 (191)
188 PF13580 SIS_2: SIS domain; PD 20.3 1.2E+02 0.0025 23.6 2.9 36 167-202 101-136 (138)
189 PRK09920 acetyl-CoA:acetoacety 20.2 1.4E+02 0.003 26.1 3.7 37 165-202 13-51 (219)
190 PRK14093 UDP-N-acetylmuramoyla 20.1 3.5E+02 0.0077 25.1 6.5 65 114-178 340-409 (479)
191 PRK08308 acyl-CoA synthetase; 20.0 1.2E+02 0.0027 26.1 3.3 10 172-181 106-115 (414)
No 1
>PF02481 DNA_processg_A: DNA recombination-mediator protein A; InterPro: IPR003488 The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In Helicobacter pylori, dprA is required for natural chromosomal and plasmid transformation []. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyse the homology-dependent formation of joint molecules. While the Escherichia coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation [].; GO: 0009294 DNA mediated transformation; PDB: 3MAJ_A.
Probab=98.46 E-value=8.6e-07 Score=74.35 Aligned_cols=82 Identities=26% Similarity=0.315 Sum_probs=61.7
Q ss_pred hCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccC-CChhHHHH
Q 027296 138 QGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKK-QPPESQEL 216 (225)
Q Consensus 138 ~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~r-Qp~Es~el 216 (225)
.-.+.|||.|||++.=-..+..+-+.+.|+..|..|++.+|.|+.+++.+|||++ +...+ +|||..|++ .|.|.+++
T Consensus 42 ~~~~~iaIvGsR~~s~~g~~~a~~l~~~l~~~g~~vvSGlA~GiD~~ah~~al~~-~g~tI-aVl~~gl~~~yP~~n~~l 119 (212)
T PF02481_consen 42 NKQPSIAIVGSRNPSEYGLKFAKKLARELAKAGIVVVSGLAKGIDAAAHRGALDA-GGPTI-AVLACGLDNIYPKENREL 119 (212)
T ss_dssp GGS-EEEEE--SS--HHHHHHHHHHHHHHHHHT-EEEE---TTHHHHHHHHHTTT----EE-EE-SS-TTS-SSGGGHHH
T ss_pred ccCceEEEEcCCCCCHHHHHHHHHHHHHHhhCCEEEEcCCCCCHHHHHHHHHHHc-cCCEE-EEECCCcccccchhhHHH
Confidence 3478999999999999999999999999999999999999999999999999999 44444 458999987 59999999
Q ss_pred HHHhh
Q 027296 217 LAKVR 221 (225)
Q Consensus 217 Le~V~ 221 (225)
.+++.
T Consensus 120 ~~~i~ 124 (212)
T PF02481_consen 120 AERIL 124 (212)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99987
No 2
>TIGR00732 dprA DNA protecting protein DprA. Disruption of this gene in both Haemophilus influenzae and Helicobacter pylori drastically reduces the efficiency of transformation with exogenous DNA, but with different levels of effect on chromosomal (linear) and plasmid (circular) DNA. This difference suggests the DprA is not active in recombination, and it has been shown not to affect DNA binding, leaving the intermediate step in natural transformation, DNA processing. In Strep. pneumoniae, inactivation of dprA had no effect on the uptake of DNA. All of these data indicated that DprA is required at a later stage in transformation. Subsequently DprA and RecA were both shown in S. pneumoniae to be required to protect incoming ssDNA from immediate degradation. Role of DprA in non-transformable species is not known. The gene symbol smf was assigned in E. coli, but without assignment of function.
Probab=97.92 E-value=6.8e-05 Score=63.60 Aligned_cols=79 Identities=22% Similarity=0.261 Sum_probs=69.6
Q ss_pred ceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCC-ChhHHHHHHH
Q 027296 141 RAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQ-PPESQELLAK 219 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQ-p~Es~elLe~ 219 (225)
+.|||.|||+..--..++.+-+++.|+..|-.|++-||-|+-+|+.|||+++.. .--.|||..|++- |.|.+++.++
T Consensus 45 ~~iaIvGsR~~s~~~~~~a~~l~~~l~~~g~~IVSG~A~GiD~~ah~~al~~~g--~tIaVl~~gld~~yp~~n~~l~~~ 122 (220)
T TIGR00732 45 RKVAIVGTRRPTKYGERWTRKLAEELAKNGVTIVSGLALGIDGIAHKAALKVNG--RTIAVLGTGLDQIYPRQNSKLAAK 122 (220)
T ss_pred CeEEEEcCCCCCHHHHHHHHHHHHHHHhCCCEEEcCchhhHHHHHHHHHHHcCC--CEEEEECCCCccCCchhhHHHHHH
Confidence 789999999998889999999999999999999999999999999999999832 3335899999886 7888898888
Q ss_pred hh
Q 027296 220 VR 221 (225)
Q Consensus 220 V~ 221 (225)
+.
T Consensus 123 i~ 124 (220)
T TIGR00732 123 IA 124 (220)
T ss_pred HH
Confidence 75
No 3
>TIGR00725 conserved hypothetical protein, DprA/Smf-related, family 1. This model represents one branch of a subfamily of uncharacterized proteins. Both PSI-BLAST and weak hits by this model show a low level of similarity and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting the branches may have distinct functions. This family is one of several families within the scope of PFAM model pfam03641, several members of which are annotated as lysine decarboxylases. That larger family, and the branch described by this model, have a well-conserved motif PGGXGTXXE.
Probab=97.44 E-value=0.00047 Score=55.88 Aligned_cols=65 Identities=26% Similarity=0.238 Sum_probs=56.6
Q ss_pred ceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCccc
Q 027296 141 RAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLK 207 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~ 207 (225)
++||++|+|+.+=-+++..+-|.+.|+..|+.|++=|+.|.=.|+-|||+++ ... ..=|||+.+.
T Consensus 2 ~~I~V~gss~~~~~~~~~A~~lg~~La~~g~~lv~Gg~~GlM~a~a~ga~~~-gg~-viGVlp~~l~ 66 (159)
T TIGR00725 2 VQIGVIGSSNKSEELYEIAYRLGKELAKKGHILINGGRTGVMEAVSKGAREA-GGL-VVGILPDEDF 66 (159)
T ss_pred eEEEEEeCCCCChHHHHHHHHHHHHHHHCCCEEEcCCchhHHHHHHHHHHHC-CCe-EEEECChhhc
Confidence 7899999999988999999999999999999999978899999999999988 332 2336898874
No 4
>PRK10736 hypothetical protein; Provisional
Probab=97.04 E-value=0.0035 Score=58.17 Aligned_cols=79 Identities=18% Similarity=0.234 Sum_probs=67.4
Q ss_pred ceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccC-CChhHHHHHHH
Q 027296 141 RAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKK-QPPESQELLAK 219 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~r-Qp~Es~elLe~ 219 (225)
+.|||.|||++.---....+-+++.|+..|-.|+.-+|-|+-+++-+|||.+..+ --.||+-.|++ -|+|.+++.++
T Consensus 108 ~~iaiVGsR~~s~yg~~~~~~l~~~la~~g~~IVSGlA~GiD~~AH~~aL~~~g~--TIaVlg~Gld~~YP~~n~~L~~~ 185 (374)
T PRK10736 108 PQLAVVGSRAHSWYGERWGRLFCEELAKNGLTITSGLARGIDGVAHRAALQAGGK--TIAVLGNGLENIYPRRHARLAES 185 (374)
T ss_pred CeEEEECCCCCCHHHHHHHHHHHHHHHHCCCEEECcchhhHHHHHHHHHHHcCCC--EEEEECCCCCccCCHhHHHHHHH
Confidence 6799999999999999999999999999887666666899999999999998332 33488999987 48889999988
Q ss_pred hh
Q 027296 220 VR 221 (225)
Q Consensus 220 V~ 221 (225)
+.
T Consensus 186 I~ 187 (374)
T PRK10736 186 II 187 (374)
T ss_pred HH
Confidence 83
No 5
>COG0758 Smf Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]
Probab=95.54 E-value=0.11 Score=48.05 Aligned_cols=117 Identities=19% Similarity=0.247 Sum_probs=88.5
Q ss_pred cccccccCCccccCCCCccchhhhcccceeeecccccCCChhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHH
Q 027296 86 NVIGMFGSDEDVGTQIPTQAQSVVEGSGAVMVSEFKPVPDVDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYA 165 (225)
Q Consensus 86 ~~~~~f~~d~~~~~~iptq~~~~v~g~~~v~~~~~~~~p~vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyA 165 (225)
....+++.+|+ +-|..-..+-..+..+-.+. ++|++.+ +.+||+|||++...-.+..+.++..
T Consensus 74 ~~~~~i~~~d~---~YP~~Lk~i~~pP~vLf~kG-----nl~ll~~---------~~vaIVGsR~~S~~g~~~~~~~a~~ 136 (350)
T COG0758 74 PGIKIITLGDE---DYPKLLKEINDPPPVLFYKG-----NLDLLEA---------PSVAIVGSRKPSKYGLDYTRDLAEY 136 (350)
T ss_pred cCCeEeccCCc---cchHHHHhccCCCeEEEEec-----CHhHhcc---------CceEEEeCCCCCHhHHHHHHHHHHH
Confidence 34556677666 67777766666555444333 2444433 8899999999999999999999999
Q ss_pred HHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEE-EecCcccCC-ChhHHHHHHHhhh
Q 027296 166 LVITKNHIYTSGASGTNAAVIRGALRAERPDLLTV-ILPQSLKKQ-PPESQELLAKVRV 222 (225)
Q Consensus 166 lvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTV-iLPQSL~rQ-p~Es~elLe~V~n 222 (225)
|+..|--|++-+|-|.-+++-++||.+. -.|| ||.-.+++= |++-+.+.+++..
T Consensus 137 L~~~g~~IvSGlA~GID~~AH~aaL~~~---G~TiaVl~~Gld~iYP~~n~~l~~~i~~ 192 (350)
T COG0758 137 LAQNGITIVSGLARGIDTEAHKAALNAG---GKTIAVLATGLDKIYPRENIKLAEKIAE 192 (350)
T ss_pred HHhCCeEEEecCcceecHHHHHHHHHcC---CcEEEEEcCCCCccCChhhHHHHHHHHh
Confidence 9999999999999999999999999993 3355 567777764 5677777777643
No 6
>TIGR00730 conserved hypothetical protein, DprA/Smf-related, family 2. This model represents one branch of a subfamily of proteins of unknown function. Both PSI-BLAST and weak hits by this model show a low level of similarity to and suggest an evolutionary relationship of the subfamily to the DprA/Smf family of DNA-processing proteins involved in chromosomal transformation with foreign DNA. Both Aquifex aeolicus and Mycobacterium leprae have one member in each of two branches of this subfamily, suggesting that the branches may have distinct functions.
Probab=93.66 E-value=0.25 Score=41.15 Aligned_cols=65 Identities=17% Similarity=0.123 Sum_probs=50.5
Q ss_pred ceEEEecccccchh--HHHHHHHHHHHHHhhCCeeEecCC-CcchHHHHHhhhhccCCCeeEEEecCccc
Q 027296 141 RAIGFFGTRNMGFM--HQELIEILSYALVITKNHIYTSGA-SGTNAAVIRGALRAERPDLLTVILPQSLK 207 (225)
Q Consensus 141 rrIa~lGsRhvp~~--hq~LIEllsyAlvl~gn~i~TSGA-~GtNaAvIRGalrae~p~lLTViLPQSL~ 207 (225)
|+||++|+-..+.- +.+..+-+.+.|+..|+.|+|-|+ .|.=-||-|||+++. ....=|+|+.|.
T Consensus 1 ~~i~V~~~s~~~~~~~~~~~A~~lG~~la~~g~~lV~GGg~~GlM~a~a~ga~~~g--G~viGi~p~~l~ 68 (178)
T TIGR00730 1 KTVCVYCGSSPGGNAAYKELAAELGAYLAGQGWGLVYGGGRVGLMGAIADAAMENG--GTAVGVNPSGLF 68 (178)
T ss_pred CEEEEECcCCCCCCcHHHHHHHHHHHHHHHCCCEEEECCChHhHHHHHHHHHHhcC--CeEEEecchhhh
Confidence 58999988665333 445677789999999999999997 899999999999872 233347887764
No 7
>COG1611 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]
Probab=88.91 E-value=2.4 Score=36.34 Aligned_cols=73 Identities=33% Similarity=0.302 Sum_probs=56.2
Q ss_pred HhhCCceEEEe-cccc--cchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCC
Q 027296 136 QQQGPRAIGFF-GTRN--MGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQP 210 (225)
Q Consensus 136 Qq~g~rrIa~l-GsRh--vp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp 210 (225)
-+.+-+.|+++ |+.+ .+--..++-.-+.++++.-|+-|||=|..|+=.|+-|||+++ -...+=|+|.++..|-
T Consensus 10 ~~~~~~~i~V~~gs~~~~~~~~~~~~a~~lg~~la~~g~~V~tGG~~GiMea~~~gA~~~--gg~~vGi~p~~~~~~e 85 (205)
T COG1611 10 LFIGIRQIVVICGSARGIEPEEYYELARELGRELAKRGLLVITGGGPGVMEAVARGALEA--GGLVVGILPGLLHEQE 85 (205)
T ss_pred cccCcceEEEEEeCCCCCCCHHHHHHHHHHHHHHHhCCcEEEeCCchhhhhHHHHHHHHc--CCeEEEecCCCchhhc
Confidence 34567777765 5554 444456777788999999999999999999999999999976 3445557888887763
No 8
>PRK13660 hypothetical protein; Provisional
Probab=83.52 E-value=5.1 Score=34.24 Aligned_cols=82 Identities=24% Similarity=0.275 Sum_probs=53.9
Q ss_pred ceEEEecccccch------------hHHHHHHHHHHHHHhhCCeeEecCCCcchH--HHHHhhhhccCCCe-eEEEecCc
Q 027296 141 RAIGFFGTRNMGF------------MHQELIEILSYALVITKNHIYTSGASGTNA--AVIRGALRAERPDL-LTVILPQS 205 (225)
Q Consensus 141 rrIa~lGsRhvp~------------~hq~LIEllsyAlvl~gn~i~TSGA~GtNa--AvIRGalrae~p~l-LTViLPQS 205 (225)
+++||-|-|...+ +-..|-+-|..++-..=-++||+||-|+-- |=+--.|+.+-|++ |-+++|=.
T Consensus 2 k~~~~TGyR~~el~~f~~~dp~~~~IK~aL~~~l~~~~e~G~~wfi~ggalG~d~wAaEvvl~LK~~yp~lkL~~~~PF~ 81 (182)
T PRK13660 2 KRLLVTGYKSFELGIFKDKDPKIKYIKKAIKRKLIALLEEGLEWVIISGQLGVELWAAEVVLELKEEYPDLKLAVITPFE 81 (182)
T ss_pred eEEEEeccCcccCCCccccChhhHHHHHHHHHHHHHHHHCCCCEEEECCcchHHHHHHHHHHHHHhhCCCeEEEEEeCcc
Confidence 5788888888877 333333444444445557899999999864 45555678877886 66677732
Q ss_pred c--cCCChhHHHHHHHhhh
Q 027296 206 L--KKQPPESQELLAKVRV 222 (225)
Q Consensus 206 L--~rQp~Es~elLe~V~n 222 (225)
= ++=.++.|+.+.+++.
T Consensus 82 ~q~~~W~e~~q~~y~~i~~ 100 (182)
T PRK13660 82 EHGENWNEANQEKLANILK 100 (182)
T ss_pred chhhcCCHHHHHHHHHHHH
Confidence 1 2225778888777643
No 9
>PF06908 DUF1273: Protein of unknown function (DUF1273); InterPro: IPR024718 This entry represents a functionally uncharacterised domain.; PDB: 2NX2_A.
Probab=81.31 E-value=13 Score=31.21 Aligned_cols=79 Identities=23% Similarity=0.308 Sum_probs=44.2
Q ss_pred ceEEEeccccc------------chhHHHHHHHHHHHHHhhCCeeEecCCCcchH--HHHHhhhhccCCCe-eEEEecCc
Q 027296 141 RAIGFFGTRNM------------GFMHQELIEILSYALVITKNHIYTSGASGTNA--AVIRGALRAERPDL-LTVILPQS 205 (225)
Q Consensus 141 rrIa~lGsRhv------------p~~hq~LIEllsyAlvl~gn~i~TSGA~GtNa--AvIRGalrae~p~l-LTViLPQS 205 (225)
++|+|-|-|-. .++-..|-+.+..++-..=-++||+||-|+-. |-+--.|+.+-|++ |.+++|=
T Consensus 2 ~~~~~TGyR~~eL~~f~~~~~~~~~ik~~L~~~i~~lie~G~~~fi~GgalG~D~waae~vl~LK~~yp~ikL~~v~Pf- 80 (177)
T PF06908_consen 2 KRCCFTGYRPYELGIFNEKDPKIQVIKKALKKQIIELIEEGVRWFITGGALGVDLWAAEVVLELKKEYPEIKLALVLPF- 80 (177)
T ss_dssp -EEEEEE--GGGGT--SS--HHHHHHHHHHHHHHHHHHTTT--EEEE---TTHHHHHHHHHHTTTTT-TT-EEEEEESS-
T ss_pred eEEEEEecChhhcCCCCCCchhHHHHHHHHHHHHHHHHHCCCCEEEECCcccHHHHHHHHHHHHHhhhhheEEEEEEcc-
Confidence 56777776644 23445555555556666667999999999864 44445567778864 6677773
Q ss_pred ccCC----ChhHHHHHHHhh
Q 027296 206 LKKQ----PPESQELLAKVR 221 (225)
Q Consensus 206 L~rQ----p~Es~elLe~V~ 221 (225)
..| +++.|+.+.+++
T Consensus 81 -~~q~~~W~~~~q~~y~~il 99 (177)
T PF06908_consen 81 -ENQGNNWNEANQERYQSIL 99 (177)
T ss_dssp -B-TTTTS-HHHHHHHHHHH
T ss_pred -cchhhcCCHHHHHHHHHHH
Confidence 344 457888887775
No 10
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=75.41 E-value=28 Score=25.80 Aligned_cols=58 Identities=12% Similarity=0.055 Sum_probs=38.5
Q ss_pred HHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC--Cc--chHHHHHhhhhc
Q 027296 134 AIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA--SG--TNAAVIRGALRA 192 (225)
Q Consensus 134 aiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA--~G--tNaAvIRGalra 192 (225)
.+.++|.++|++++.... -..+..++.+..++...|-.+...-. .+ .....++..++.
T Consensus 118 ~l~~~~~~~i~~i~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 179 (269)
T cd01391 118 YLAEKGWKRVALIYGDDG-AYGRERLEGFKAALKKAGIEVVAIEYGDLDTEKGFQALLQLLKA 179 (269)
T ss_pred HHHHhCCceEEEEecCCc-chhhHHHHHHHHHHHhcCcEEEeccccCCCccccHHHHHHHHhc
Confidence 457778999999998776 45677889888888877644443222 22 133555566665
No 11
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=74.27 E-value=5.5 Score=35.03 Aligned_cols=47 Identities=19% Similarity=0.111 Sum_probs=33.2
Q ss_pred EEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 144 GFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 144 a~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
.-+|..+.| .|.++-|.++..+-. .+-++|+|++..|.++|++.++.
T Consensus 55 ~~~~~~~~~-~~~~l~~~lA~~~g~-~~~~~~~g~t~a~~~al~~l~~~ 101 (387)
T PRK09331 55 GRLDQIKKP-PIADFHEDLAEFLGM-DEARVTHGAREGKFAVMHSLCKK 101 (387)
T ss_pred cccccccCh-HHHHHHHHHHHHhCC-CcEEEeCCHHHHHHHHHHHhcCC
Confidence 344555555 378888888876654 47788888888888888887644
No 12
>TIGR02668 moaA_archaeal probable molybdenum cofactor biosynthesis protein A, archaeal. This model describes an archaeal family related, and predicted to be functionally equivalent, to molybdenum cofactor biosynthesis protein A (MoaA) of bacteria (see TIGR02666).
Probab=72.08 E-value=24 Score=30.09 Aligned_cols=39 Identities=18% Similarity=0.234 Sum_probs=30.6
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHh
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVI 168 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl 168 (225)
+.+.+..+.+.|.+.|.|.|.- |++|..++|++.++-..
T Consensus 45 i~~~i~~~~~~gi~~I~~tGGE--Pll~~~l~~iv~~l~~~ 83 (302)
T TIGR02668 45 IERIVRVASEFGVRKVKITGGE--PLLRKDLIEIIRRIKDY 83 (302)
T ss_pred HHHHHHHHHHcCCCEEEEECcc--cccccCHHHHHHHHHhC
Confidence 4444445567799999999954 99999999999987554
No 13
>COG1313 PflX Uncharacterized Fe-S protein PflX, homolog of pyruvate formate lyase activating proteins [General function prediction only]
Probab=69.88 E-value=8.3 Score=36.58 Aligned_cols=76 Identities=22% Similarity=0.335 Sum_probs=48.5
Q ss_pred cccccccccCCccccCCCCccchhhhcccceeeecccccCCChhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHH
Q 027296 84 EENVIGMFGSDEDVGTQIPTQAQSVVEGSGAVMVSEFKPVPDVDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILS 163 (225)
Q Consensus 84 ~~~~~~~f~~d~~~~~~iptq~~~~v~g~~~v~~~~~~~~p~vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIElls 163 (225)
+=|..|+||-+.| -++.| .| .++++ -|++.=....|+.|.|+|-|.|.--.|.+|+ |+|.|.
T Consensus 127 gCnfrCVfCQNwd-ISq~~---------~g----~~v~~---e~La~i~~~~~~~GakNvN~Vgg~Ptp~lp~-Ile~l~ 188 (335)
T COG1313 127 GCNFRCVFCQNWD-ISQFG---------IG----KEVTP---EDLAEIILELRRHGAKNVNFVGGDPTPHLPF-ILEALR 188 (335)
T ss_pred CcceEEEEecCcc-ccccC---------CC----eEecH---HHHHHHHHHHHHhcCcceeecCCCCCCchHH-HHHHHH
Confidence 3467788888887 22332 11 22332 2355555556779999999999666666664 789999
Q ss_pred HHHHhhCCeeEecCC
Q 027296 164 YALVITKNHIYTSGA 178 (225)
Q Consensus 164 yAlvl~gn~i~TSGA 178 (225)
||... ==-++-|+.
T Consensus 189 ~~~~~-iPvvwNSnm 202 (335)
T COG1313 189 YASEN-IPVVWNSNM 202 (335)
T ss_pred HHhcC-CCEEEecCC
Confidence 98765 334555544
No 14
>TIGR02109 PQQ_syn_pqqE coenzyme PQQ biosynthesis protein E. This model describes coenzyme PQQ biosynthesis protein E, a gene required for the biosynthesis of pyrrolo-quinoline-quinone (coenzyme PQQ). PQQ is required for some glucose dehydrogenases and alcohol dehydrogenases.
Probab=68.85 E-value=49 Score=28.96 Aligned_cols=78 Identities=19% Similarity=0.239 Sum_probs=48.4
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCC-eeEecCCCcchHHHHHhhhhccCCCeeEEEecCcc
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKN-HIYTSGASGTNAAVIRGALRAERPDLLTVILPQSL 206 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn-~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL 206 (225)
++.|+ .+.|.+.|.|.| -=|++|.+++||+.|+--..=. .|.|.| +..+-..++-...+ ..+.+.| ||
T Consensus 45 ii~~~---~~~g~~~v~~~G--GEPll~~~~~~ii~~~~~~g~~~~l~TNG-~ll~~e~~~~L~~~-g~~~v~i----Sl 113 (358)
T TIGR02109 45 VLTQA---AELGVLQLHFSG--GEPLARPDLVELVAHARRLGLYTNLITSG-VGLTEARLDALADA-GLDHVQL----SF 113 (358)
T ss_pred HHHHH---HhcCCcEEEEeC--ccccccccHHHHHHHHHHcCCeEEEEeCC-ccCCHHHHHHHHhC-CCCEEEE----eC
Confidence 44444 345889999998 4689999999999998654212 355554 44454555433333 4555665 66
Q ss_pred cCCChhHHHH
Q 027296 207 KKQPPESQEL 216 (225)
Q Consensus 207 ~rQp~Es~el 216 (225)
+--.+|..+.
T Consensus 114 dg~~~e~~d~ 123 (358)
T TIGR02109 114 QGVDEALADR 123 (358)
T ss_pred cCCCHHHHHH
Confidence 6555555443
No 15
>PF13353 Fer4_12: 4Fe-4S single cluster domain; PDB: 3C8F_A 3CB8_A 3T7V_A 2YX0_A 3CAN_A.
Probab=68.79 E-value=9.4 Score=28.20 Aligned_cols=58 Identities=19% Similarity=0.281 Sum_probs=39.7
Q ss_pred hhHHHHH-HHHHhhCCceEEEecccccchh---HHHHHHHHHHHHHhhC-CeeEecCCCcchHHH
Q 027296 126 VDYLQEL-LAIQQQGPRAIGFFGTRNMGFM---HQELIEILSYALVITK-NHIYTSGASGTNAAV 185 (225)
Q Consensus 126 vD~lqEL-aaiQq~g~rrIa~lGsRhvp~~---hq~LIEllsyAlvl~g-n~i~TSGA~GtNaAv 185 (225)
.+.+.|+ ..+++.+.+.|.|.|.- |++ ...+.|++.++--... ..++.+-+...+...
T Consensus 38 ~~~~~~ii~~~~~~~~~~i~l~GGE--Pll~~~~~~l~~i~~~~k~~~~~~~~~~tng~~~~~~~ 100 (139)
T PF13353_consen 38 EEIIEEIIEELKNYGIKGIVLTGGE--PLLHENYDELLEILKYIKEKFPKKIIILTNGYTLDELL 100 (139)
T ss_dssp HHHHHHHCHHHCCCCCCEEEEECST--GGGHHSHHHHHHHHHHHHHTT-SEEEEEETT--HHHHH
T ss_pred chhhhhhhhHHhcCCceEEEEcCCC--eeeeccHhHHHHHHHHHHHhCCCCeEEEECCCchhHHH
Confidence 3555554 45557899999999955 999 7899999999988888 344444445555443
No 16
>PRK05301 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional
Probab=66.22 E-value=69 Score=28.43 Aligned_cols=74 Identities=23% Similarity=0.358 Sum_probs=46.5
Q ss_pred HhhCCceEEEecccccchhHHHHHHHHHHHHHhhCC-eeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHH
Q 027296 136 QQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKN-HIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQ 214 (225)
Q Consensus 136 Qq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn-~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~ 214 (225)
.+.|.+.|.|.|. =|++|-+++||+.|+-...=. .|.|.| +..+--.++- |.....+.+.| ||+--.+|..
T Consensus 59 ~~~g~~~v~~~GG--EPll~~~~~~il~~~~~~g~~~~i~TNG-~ll~~~~~~~-L~~~g~~~v~i----Sldg~~~e~~ 130 (378)
T PRK05301 59 RALGALQLHFSGG--EPLLRKDLEELVAHARELGLYTNLITSG-VGLTEARLAA-LKDAGLDHIQL----SFQDSDPELN 130 (378)
T ss_pred HHcCCcEEEEECC--ccCCchhHHHHHHHHHHcCCcEEEECCC-ccCCHHHHHH-HHHcCCCEEEE----EecCCCHHHH
Confidence 4568899999995 489999999999998654212 355554 4455555543 33324444444 6666555655
Q ss_pred HHH
Q 027296 215 ELL 217 (225)
Q Consensus 215 elL 217 (225)
+.+
T Consensus 131 d~i 133 (378)
T PRK05301 131 DRL 133 (378)
T ss_pred HHH
Confidence 443
No 17
>PF04055 Radical_SAM: Radical SAM superfamily; InterPro: IPR007197 Radical SAM proteins catalyze diverse reactions, including unusual methylations, isomerization, sulphur insertion, ring formation, anaerobic oxidation and protein radical formation. Evidence exists that these proteins generate a radical species by reductive cleavage of S:-adenosylmethionine (SAM) through an unusual Fe-S centre [, ].; GO: 0003824 catalytic activity, 0051536 iron-sulfur cluster binding; PDB: 2A5H_D 3T7V_A 3C8F_A 3CB8_A 2FB2_A 2FB3_A 3CIX_A 3IIX_A 3IIZ_A 3CIW_A ....
Probab=64.76 E-value=30 Score=24.69 Aligned_cols=73 Identities=19% Similarity=0.262 Sum_probs=47.1
Q ss_pred hHHHHHHHH-HhhCCceEEEecccccchhHHHHHHHHHHHHHh---hCCeeEecCCCcchHHHHHhhhhccCCCeeEEEe
Q 027296 127 DYLQELLAI-QQQGPRAIGFFGTRNMGFMHQELIEILSYALVI---TKNHIYTSGASGTNAAVIRGALRAERPDLLTVIL 202 (225)
Q Consensus 127 D~lqELaai-Qq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl---~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViL 202 (225)
++++++..+ ++.|.+.|.+.|. =|++|.+..+++.++... .....+++.+.-.+-..++-..+. ..+.+.+=+
T Consensus 32 ~i~~~~~~~~~~~~~~~i~~~~g--ep~~~~~~~~~~~~~~~~~~~~~~i~~~t~~~~~~~~~l~~l~~~-~~~~i~~~l 108 (166)
T PF04055_consen 32 EILEEIKELKQDKGVKEIFFGGG--EPTLHPDFIELLELLRKIKKRGIRISINTNGTLLDEELLDELKKL-GVDRIRISL 108 (166)
T ss_dssp HHHHHHHHHHHHTTHEEEEEESS--TGGGSCHHHHHHHHHHHCTCTTEEEEEEEESTTHCHHHHHHHHHT-TCSEEEEEE
T ss_pred HHHHHHHHHhHhcCCcEEEEeec--CCCcchhHHHHHHHHHHhhccccceeeeccccchhHHHHHHHHhc-CccEEeccc
Confidence 488899999 7888555555443 478999999999999987 333334444444446666655555 345555433
No 18
>PRK13361 molybdenum cofactor biosynthesis protein A; Provisional
Probab=64.23 E-value=43 Score=29.50 Aligned_cols=35 Identities=14% Similarity=0.187 Sum_probs=29.1
Q ss_pred HHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 134 AIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 134 aiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
.+-+.|.+.|-|.|.- |++|.+++|++.|+-...+
T Consensus 56 ~~~~~Gv~~I~~tGGE--Pllr~dl~~li~~i~~~~~ 90 (329)
T PRK13361 56 AFTELGVRKIRLTGGE--PLVRRGCDQLVARLGKLPG 90 (329)
T ss_pred HHHHCCCCEEEEECcC--CCccccHHHHHHHHHhCCC
Confidence 3445799999999965 9999999999999876655
No 19
>PLN03032 serine decarboxylase; Provisional
Probab=59.85 E-value=23 Score=32.65 Aligned_cols=65 Identities=14% Similarity=0.051 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHhhCCceEEEecccc-----cchhHHHHHHHHHHHHHhhCC-e--eEecCCCcchHHHHHhhhh
Q 027296 126 VDYLQELLAIQQQGPRAIGFFGTRN-----MGFMHQELIEILSYALVITKN-H--IYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 126 vD~lqELaaiQq~g~rrIa~lGsRh-----vp~~hq~LIEllsyAlvl~gn-~--i~TSGA~GtNaAvIRGalr 191 (225)
.||. ++.++.+-....+|--++-| .--+=.+++++++.-+-.... . ++|||||--|--++++|-.
T Consensus 35 ~~~~-~~~~~~~~~~~~~gnP~s~~~~g~~a~~~e~~v~~~ia~llg~~~~~~~G~fTsGGTEaNl~al~~ar~ 107 (374)
T PLN03032 35 FDYG-ELSQLMKYSINNLGDPFIESNYGVHSRQFEVGVLDWFARLWELEKDEYWGYITTCGTEGNLHGILVGRE 107 (374)
T ss_pred cChH-HHHHHHHhcccCCCCCcccCCCCccHHHHHHHHHHHHHHHhCCCCccCCEEEeCchHHHHHHHHHHHHH
Confidence 5653 47777776666666666655 233445666666665554433 3 8999999999888887743
No 20
>PRK00164 moaA molybdenum cofactor biosynthesis protein A; Reviewed
Probab=58.23 E-value=56 Score=28.36 Aligned_cols=39 Identities=15% Similarity=0.258 Sum_probs=31.3
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHh
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVI 168 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl 168 (225)
+...+..+.+.|.+.|.|.|.- |++|..++|++.++-..
T Consensus 54 i~~~i~~~~~~gi~~I~~tGGE--Pll~~~l~~li~~i~~~ 92 (331)
T PRK00164 54 IERLVRAFVALGVRKVRLTGGE--PLLRKDLEDIIAALAAL 92 (331)
T ss_pred HHHHHHHHHHCCCCEEEEECCC--CcCccCHHHHHHHHHhc
Confidence 5555555667799999999954 99999999999997654
No 21
>KOG2235 consensus Uncharacterized conserved protein [Function unknown]
Probab=55.11 E-value=1.8 Score=44.41 Aligned_cols=121 Identities=27% Similarity=0.303 Sum_probs=79.1
Q ss_pred CCCcccccccccccccCCccccCCCCccchhhhcccceeeecccccCCC--hh-HHHHHH-HHHhhCCceEEEe-ccccc
Q 027296 77 MDGLRSEEENVIGMFGSDEDVGTQIPTQAQSVVEGSGAVMVSEFKPVPD--VD-YLQELL-AIQQQGPRAIGFF-GTRNM 151 (225)
Q Consensus 77 ~~~~~~~~~~~~~~f~~d~~~~~~iptq~~~~v~g~~~v~~~~~~~~p~--vD-~lqELa-aiQq~g~rrIa~l-GsRhv 151 (225)
.-++|..-.|+....+-|-+ .|-.+++-||.-...|....-..+-. +| +++|+. .+|++|.-.||=| |.-++
T Consensus 69 v~GgRaslvDla~tlnVDl~---hIEk~a~dIv~~d~~v~Lv~geiide~Y~d~iaeEinekLqE~gqvtiaeLakq~dl 145 (776)
T KOG2235|consen 69 VAGGRASLVDLAVTLNVDLD---HIEKTARDIVSTDDEVTLVLGEIIDEEYVDRIAEEINEKLQEQGQVTIAELAKQWDL 145 (776)
T ss_pred HhCCcchhHHHHHHhCcCHH---HHHHHHHHHhhcCCceEEehhhhhhHHHHHHHHHHHHHHHHHhcchHHHHHHHhcCC
Confidence 34556666667777777766 67777877776654443332222222 67 889986 5899999888754 55556
Q ss_pred c--hhHHHHHHHHHHHH---HhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCc
Q 027296 152 G--FMHQELIEILSYAL---VITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQS 205 (225)
Q Consensus 152 p--~~hq~LIEllsyAl---vl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQS 205 (225)
| |+.+-|+|=+--.+ .+.|..|||+-=-----|+||||++| +|+.-|=|
T Consensus 146 ~sellqs~l~ek~lg~iikgr~dggviyT~Ayv~r~ka~iRga~~a-----Itrptnvs 199 (776)
T KOG2235|consen 146 PSELLQSLLIEKLLGSIIKGRVDGGVIYTSAYVNRRKAVIRGALIA-----ITRPTNVS 199 (776)
T ss_pred cHHHHHHHHHHHhhccceeeeecCCEEeeHHHHHHHHHHHHHHHHH-----hhcCCcHH
Confidence 5 66666777532222 35678899986655556999999999 66655544
No 22
>cd02951 SoxW SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide fixation during autotrophic growth and the respiratory electron transport chain. It is unclear what the role of SoxW is, since it has been found to be dispensable in the oxidation of thiosulfate to sulfate. SoxW is specifically kept in the reduced state by SoxV, which is essential in thiosulfate oxidation.
Probab=55.08 E-value=24 Score=25.94 Aligned_cols=32 Identities=13% Similarity=0.226 Sum_probs=28.2
Q ss_pred hHHHHHHHHHhhC-CceEEEecccccchhHHHH
Q 027296 127 DYLQELLAIQQQG-PRAIGFFGTRNMGFMHQEL 158 (225)
Q Consensus 127 D~lqELaaiQq~g-~rrIa~lGsRhvp~~hq~L 158 (225)
|+.+||+..+++| +..+-+|++-.||..+...
T Consensus 1 ~~~~~~~~a~~~~~k~vlv~f~a~wC~~C~~~~ 33 (125)
T cd02951 1 DLYEDLAEAAADGKKPLLLLFSQPGCPYCDKLK 33 (125)
T ss_pred ChHHHHHHHHHcCCCcEEEEEeCCCCHHHHHHH
Confidence 6889999999999 8889999999999887654
No 23
>TIGR01706 NAPA periplasmic nitrate reductase, large subunit. The enzymes from Alicagenes eutrophus and Paracoccus pantotrophus have been characterized. In E. coli (as well as other organisms) this gene is part of a large nitrate reduction operon (napFDAGHBC).
Probab=53.50 E-value=34 Score=34.14 Aligned_cols=60 Identities=23% Similarity=0.410 Sum_probs=37.1
Q ss_pred cccccCC---Chh-HHHHHHHHHh-hCCceEEEecccccchhHHHHH-HHHHHHHHhhCCeeEecCCC
Q 027296 118 SEFKPVP---DVD-YLQELLAIQQ-QGPRAIGFFGTRNMGFMHQELI-EILSYALVITKNHIYTSGAS 179 (225)
Q Consensus 118 ~~~~~~p---~vD-~lqELaaiQq-~g~rrIa~lGsRhvp~~hq~LI-EllsyAlvl~gn~i~TSGA~ 179 (225)
.+++++. .+| ++++|.+|++ .|+..|+++|+.+.......+. .++. .++..|++-+++..
T Consensus 114 g~~~~iSWDeAl~~iA~kl~~i~~~~G~~si~~~gsg~~~~~~~~~~~~~~~--~~~gt~~~~~~~~~ 179 (830)
T TIGR01706 114 GEFTPVSWDQAFDEMEEQFKRALKEKGPTAIGMFGSGQWTIWEGYAALKLMK--AGFRSNNIDPNARH 179 (830)
T ss_pred CCeeEcCHHHHHHHHHHHHHHHHHHhCCceEEEEecCCcchHHHHHHHHHHH--hhcCCCcccCCccc
Confidence 3566666 266 7788888865 7999999999988775433222 2222 23445566555543
No 24
>cd01820 PAF_acetylesterase_like PAF_acetylhydrolase (PAF-AH)_like subfamily of SGNH-hydrolases. Platelet-activating factor (PAF) and PAF-AH are key players in inflammation and in atherosclerosis. PAF-AH is a calcium independent phospholipase A2 which exhibits strong substrate specificity towards PAF, hydrolyzing an acetyl ester at the sn-2 position. PAF-AH also degrades a family of oxidized PAF-like phospholipids with short sn-2 residues. In addition, PAF and PAF-AH are associated with neural migration and mammalian reproduction.
Probab=53.03 E-value=53 Score=26.34 Aligned_cols=70 Identities=14% Similarity=0.282 Sum_probs=41.3
Q ss_pred HHHHHHHHH---hhCCceEEEecccc---cchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHH-----hhhhccCCC
Q 027296 128 YLQELLAIQ---QQGPRAIGFFGTRN---MGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIR-----GALRAERPD 196 (225)
Q Consensus 128 ~lqELaaiQ---q~g~rrIa~lGsRh---vp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIR-----Galrae~p~ 196 (225)
+..|+.++. +.++.+|.|||.-- ++..- ...+.-...+-.++--|-+|.+..-+. +++...+|+
T Consensus 17 ~~~~~~~~~~~~~~~~~~iv~lGDSit~g~~~~~-----~~~~~~~~~~~~v~N~Gi~G~tt~~~l~r~~~~~l~~~~pd 91 (214)
T cd01820 17 WMSRHERFVAEAKQKEPDVVFIGDSITQNWEFTG-----LEVWRELYAPLHALNFGIGGDRTQNVLWRLENGELDGVNPK 91 (214)
T ss_pred HHHHHHHHHHHhhcCCCCEEEECchHhhhhcccc-----hHHHHHHcCcCCeEeeeeccccHhHHHHHHhcCCccCCCCC
Confidence 677777776 45778999999642 22211 111122234666777777776654332 344445788
Q ss_pred eeEEEe
Q 027296 197 LLTVIL 202 (225)
Q Consensus 197 lLTViL 202 (225)
++.|.+
T Consensus 92 ~VvI~~ 97 (214)
T cd01820 92 VVVLLI 97 (214)
T ss_pred EEEEEe
Confidence 887765
No 25
>PLN02951 Molybderin biosynthesis protein CNX2
Probab=51.88 E-value=42 Score=30.67 Aligned_cols=41 Identities=10% Similarity=0.045 Sum_probs=32.7
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
+.+.+..+...|.+.|-|-|. =|++|..|.|++.|+-.+.|
T Consensus 95 i~~~i~~~~~~Gv~~I~~tGG--EPllr~dl~eli~~l~~~~g 135 (373)
T PLN02951 95 IVRLAGLFVAAGVDKIRLTGG--EPTLRKDIEDICLQLSSLKG 135 (373)
T ss_pred HHHHHHHHHHCCCCEEEEECC--CCcchhhHHHHHHHHHhcCC
Confidence 545455566789999999995 49999999999999877645
No 26
>PF10686 DUF2493: Protein of unknown function (DUF2493); InterPro: IPR019627 This entry is represented by Mycobacteriophage D29, Gp61. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members of this family are mainly Proteobacteria. The function is not known.
Probab=51.79 E-value=59 Score=23.74 Aligned_cols=51 Identities=16% Similarity=0.165 Sum_probs=37.0
Q ss_pred ceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCC--cchHHHHHhhhhc
Q 027296 141 RAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGAS--GTNAAVIRGALRA 192 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~--GtNaAvIRGalra 192 (225)
.||.|-|+|++- =|..|..-|...+...++-++-+|++ |....+-+=|-+.
T Consensus 4 ~rVli~GgR~~~-D~~~i~~~Ld~~~~~~~~~~lvhGga~~GaD~iA~~wA~~~ 56 (71)
T PF10686_consen 4 MRVLITGGRDWT-DHELIWAALDKVHARHPDMVLVHGGAPKGADRIAARWARER 56 (71)
T ss_pred CEEEEEECCccc-cHHHHHHHHHHHHHhCCCEEEEECCCCCCHHHHHHHHHHHC
Confidence 589999999976 45556677777778777776666655 8888777665433
No 27
>PF01972 SDH_sah: Serine dehydrogenase proteinase; InterPro: IPR002825 This family of archaebacterial proteins, formerly known as DUF114, has been found to be a serine dehydrogenase proteinase distantly related to ClpP proteinases that belong to the serine proteinase superfamily. The family belong to MEROPS peptidase family S49; they are mostly unassigned peptidases but include the archaean signal peptide peptidase 1 []. The family has a catalytic triad of Ser, Asp, His residues, which shows an altered residue ordering compared with the ClpP proteinases but similar to that of the carboxypeptidase clan []. ; GO: 0016021 integral to membrane
Probab=51.58 E-value=48 Score=30.90 Aligned_cols=68 Identities=26% Similarity=0.383 Sum_probs=53.7
Q ss_pred HhhCCceEEEecc-ccc--------chhHHHHHHHHHHHHHhhCCe------eEecCCCcchHHHHHhhhhccCCCeeEE
Q 027296 136 QQQGPRAIGFFGT-RNM--------GFMHQELIEILSYALVITKNH------IYTSGASGTNAAVIRGALRAERPDLLTV 200 (225)
Q Consensus 136 Qq~g~rrIa~lGs-Rhv--------p~~hq~LIEllsyAlvl~gn~------i~TSGA~GtNaAvIRGalrae~p~lLTV 200 (225)
+..|+|.|+++=. ..+ .+..+...|-+-+|+-.+++. |-|-|+..-.|--|..+++. .|.-++|
T Consensus 45 ~kr~srvI~~Ihrqe~~~~~giPi~~~I~i~dse~v~raI~~~~~~~~IdLii~TpGG~v~AA~~I~~~l~~-~~~~v~v 123 (285)
T PF01972_consen 45 EKRGSRVITLIHRQERVSFLGIPIYRYIDIDDSEFVLRAIREAPKDKPIDLIIHTPGGLVDAAEQIARALRE-HPAKVTV 123 (285)
T ss_pred HHhCCEEEEEEEeccccceeccccceeEcHhhHHHHHHHHHhcCCCCceEEEEECCCCcHHHHHHHHHHHHh-CCCCEEE
Confidence 4589998887621 223 347777888888898877553 67999999999999999998 8999999
Q ss_pred EecC
Q 027296 201 ILPQ 204 (225)
Q Consensus 201 iLPQ 204 (225)
+.|.
T Consensus 124 ~VP~ 127 (285)
T PF01972_consen 124 IVPH 127 (285)
T ss_pred EECc
Confidence 9996
No 28
>cd06452 SepCysS Sep-tRNA:Cys-tRNA synthase. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Cys-tRNA(Cys) is produced by O-phosphoseryl-tRNA synthetase which ligates O-phosphoserine (Sep) to tRNA(Cys), and Sep-tRNA:Cys-tRNA synthase (SepCysS) converts Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea. SepCysS forms a dimer, each monomer is composed of a large and small domain; the larger, a typical pyridoxal 5'-phosphate (PLP)-dependent-like enzyme fold. In the active site of each monomer, PLP is covalently bound to a conserved Lys residue near the dimer interface.
Probab=51.57 E-value=26 Score=30.09 Aligned_cols=19 Identities=26% Similarity=0.230 Sum_probs=8.1
Q ss_pred CeeEecCCCcchHHHHHhh
Q 027296 171 NHIYTSGASGTNAAVIRGA 189 (225)
Q Consensus 171 n~i~TSGA~GtNaAvIRGa 189 (225)
+-++|+|++..+.+++++.
T Consensus 61 ~i~~~~g~t~al~~~l~~~ 79 (361)
T cd06452 61 EARVTPGAREGKFAVMHSL 79 (361)
T ss_pred eEEEeCCHHHHHHHHHHHh
Confidence 4444444443344444433
No 29
>TIGR02351 thiH thiazole biosynthesis protein ThiH. Members this protein family are the ThiH protein of thiamine biosynthesis, a homolog of the BioB protein of biotin biosynthesis. Genes for the this protein generally are found in operons with other thiamin biosynthesis genes.
Probab=50.65 E-value=30 Score=31.34 Aligned_cols=42 Identities=17% Similarity=0.127 Sum_probs=35.2
Q ss_pred hh-HHHHHHHHHhhCCceEEEecccccchhH-HHHHHHHHHHHH
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGTRNMGFMH-QELIEILSYALV 167 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGsRhvp~~h-q~LIEllsyAlv 167 (225)
.| +.+++.++.+.|.++|.++|.++-+..+ ..|+|++.+.-.
T Consensus 105 ~eEI~~~a~~~~~~Gv~~i~lvgGe~p~~~~~e~l~eii~~Ik~ 148 (366)
T TIGR02351 105 EEEIEREIEAIKKSGFKEILLVTGESEKAAGVEYIAEAIKLARE 148 (366)
T ss_pred HHHHHHHHHHHHhCCCCEEEEeeCCCCCCCCHHHHHHHHHHHHH
Confidence 45 8889999999999999999988888775 569999887764
No 30
>TIGR03365 Bsubt_queE 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE. This uncharacterized enzyme, designated QueE, participates in the biosynthesis, from GTP, of 7-cyano-7-deazaguanosine, also called preQ0 because in many species it is a precursor of queuosine. In most Archaea, it is instead the precursor of a different tRNA modified base, archaeosine.
Probab=50.28 E-value=59 Score=27.71 Aligned_cols=50 Identities=20% Similarity=0.235 Sum_probs=37.1
Q ss_pred hHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCe-eEecCC
Q 027296 127 DYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNH-IYTSGA 178 (225)
Q Consensus 127 D~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~-i~TSGA 178 (225)
++++++..+...|.+.|.|-|. =|++|..|.|++.++-...-+- |-|+|.
T Consensus 60 ei~~~i~~~~~~~~~~V~lTGG--EPll~~~l~~li~~l~~~g~~v~leTNGt 110 (238)
T TIGR03365 60 EVWQELKALGGGTPLHVSLSGG--NPALQKPLGELIDLGKAKGYRFALETQGS 110 (238)
T ss_pred HHHHHHHHHhCCCCCeEEEeCC--chhhhHhHHHHHHHHHHCCCCEEEECCCC
Confidence 4777777776667899999995 5999999999999987653332 345554
No 31
>PF02875 Mur_ligase_C: Mur ligase family, glutamate ligase domain This Prosite entry is a subset of the Pfam family.; InterPro: IPR004101 The bacterial cell wall provides strength and rigidity to counteract internal osmotic pressure, and protection against the environment. The peptidoglycan layer gives the cell wall its strength, and helps maintain the overall shape of the cell. The basic peptidoglycan structure of both Gram-positive and Gram-negative bacteria is comprised of a sheet of glycan chains connected by short cross-linking polypeptides. Biosynthesis of peptidoglycan is a multi-step (11-12 steps) process comprising three main stages: (1) formation of UDP-N-acetylmuramic acid (UDPMurNAc) from N-acetylglucosamine (GlcNAc). (2) addition of a short polypeptide chain to the UDPMurNAc. (3) addition of a second GlcNAc to the disaccharide-pentapeptide building block and transport of this unit through the cytoplasmic membrane and incorporation into the growing peptidoglycan layer. Stage two involves four key Mur ligase enzymes: MurC (6.3.2.8 from EC) [], MurD (6.3.2.9 from EC) [], MurE (6.3.2.13 from EC) [] and MurF (6.3.2.10 from EC) []. These four Mur ligases are responsible for the successive additions of L-alanine, D-glutamate, meso-diaminopimelate or L-lysine, and D-alanyl-D-alanine to UDP-N-acetylmuramic acid. All four Mur ligases are topologically similar to one another, even though they display low sequence identity. They are each composed of three domains: an N-terminal Rossmann-fold domain responsible for binding the UDPMurNAc substrate; a central domain (similar to ATP-binding domains of several ATPases and GTPases); and a C-terminal domain (similar to dihydrofolate reductase fold) that appears to be associated with binding the incoming amino acid. The conserved sequence motifs found in the four Mur enzymes also map to other members of the Mur ligase family, including folylpolyglutamate synthetase, cyanophycin synthetase and the capB enzyme from Bacillales []. This entry represents the C-terminal domain from all four stage 2 Mur enzymes: UDP-N-acetylmuramate-L-alanine ligase (MurC), UDP-N-acetylmuramoylalanine-D-glutamate ligase (MurD), UDP-N-acetylmuramoylalanyl-D-glutamate-2,6-diaminopimelate ligase (MurE), and UDP-N-acetylmuramoyl-tripeptide-D-alanyl-D-alanine ligase (MurF). This entry also includes the C-terminal domain of folylpolyglutamate synthase that transfers glutamate to folylpolyglutamate and cyanophycin synthetase that catalyses the biosynthesis of the cyanobacterial reserve material multi-L-arginyl-poly-L-aspartate (cyanophycin) []. The C-terminal domain is almost always associated with the cytoplasmic peptidoglycan synthetases, N-terminal domain (see IPR000713 from INTERPRO).; GO: 0005524 ATP binding, 0016874 ligase activity, 0009058 biosynthetic process; PDB: 2Y68_A 3UAG_A 4UAG_A 2UAG_A 1E0D_A 2XPC_A 2WJP_A 2VTE_A 2Y67_A 1EEH_A ....
Probab=50.27 E-value=31 Score=24.51 Aligned_cols=58 Identities=19% Similarity=0.342 Sum_probs=34.1
Q ss_pred cccCCC-hh-HHHHHHHHHhhCCceEEEec-ccccchhHHHHHHHHHHHHHhhCCeeEecCC
Q 027296 120 FKPVPD-VD-YLQELLAIQQQGPRAIGFFG-TRNMGFMHQELIEILSYALVITKNHIYTSGA 178 (225)
Q Consensus 120 ~~~~p~-vD-~lqELaaiQq~g~rrIa~lG-sRhvp~~hq~LIEllsyAlvl~gn~i~TSGA 178 (225)
|.--|+ +. +++.|..+- .+.|.|++|| ..+.+---....+.+...+..-...+++.|.
T Consensus 20 ~ahNp~s~~a~l~~l~~~~-~~~~~i~V~G~~~d~g~~~~~~~~~~~~~~~~~~d~vi~~~~ 80 (91)
T PF02875_consen 20 YAHNPDSIRALLEALKELY-PKGRIIAVFGAMGDLGSKDKDFHEEIGELAAQLADVVILTGD 80 (91)
T ss_dssp T--SHHHHHHHHHHHHHHC-TTSEEEEEEEEBTT-HTSHHHCHHHHHHHHTTCSSEEEEETS
T ss_pred CCCCHHHHHHHHHHHHHhc-cCCcEEEEEccccccccccHHHHHHHHHHHHhcCCEEEEcCC
Confidence 766665 33 444444442 2789999999 4664444555556666666665666777654
No 32
>COG0031 CysK Cysteine synthase [Amino acid transport and metabolism]
Probab=48.31 E-value=39 Score=31.23 Aligned_cols=57 Identities=23% Similarity=0.314 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHH----hhCCeeE--ecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHHHHHH
Q 027296 155 HQELIEILSYALV----ITKNHIY--TSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLA 218 (225)
Q Consensus 155 hq~LIEllsyAlv----l~gn~i~--TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~elLe 218 (225)
+.--..|+.+|.. ..|.+|+ |||-+|.-.|.+--++-- .+++++|.. +.+|-+++|+
T Consensus 43 DR~A~~mI~~Ae~~G~l~pG~tIVE~TSGNTGI~LA~vaa~~Gy----~~iivmP~~---~S~er~~~l~ 105 (300)
T COG0031 43 DRIALYMIEDAEKRGLLKPGGTIVEATSGNTGIALAMVAAAKGY----RLIIVMPET---MSQERRKLLR 105 (300)
T ss_pred HHHHHHHHHHHHHcCCCCCCCEEEEcCCChHHHHHHHHHHHcCC----cEEEEeCCC---CCHHHHHHHH
Confidence 4444567777874 4588887 999999998887555443 688999974 5567777775
No 33
>COG1104 NifS Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]
Probab=48.26 E-value=13 Score=35.38 Aligned_cols=25 Identities=40% Similarity=0.526 Sum_probs=21.7
Q ss_pred hCCeeEecCCCcchHHHHHhhhhcc
Q 027296 169 TKNHIYTSGASGTNAAVIRGALRAE 193 (225)
Q Consensus 169 ~gn~i~TSGA~GtNaAvIRGalrae 193 (225)
..+-+||||||=-|-.+|+|++.+.
T Consensus 61 ~~eIiFTSG~TEsnNlaI~g~~~a~ 85 (386)
T COG1104 61 PEEIIFTSGATESNNLAIKGAALAY 85 (386)
T ss_pred CCeEEEecCCcHHHHHHHHhhHHhh
Confidence 4578999999999999999987774
No 34
>PF09314 DUF1972: Domain of unknown function (DUF1972); InterPro: IPR015393 This domain is functionally uncharacterised and found in bacterial glycosyltransferases and rhamnosyltransferases.
Probab=46.32 E-value=28 Score=29.67 Aligned_cols=37 Identities=24% Similarity=0.357 Sum_probs=27.8
Q ss_pred ceEEEecccccchhH---HHHHHHHHHHHHhhCCe--eEecC
Q 027296 141 RAIGFFGTRNMGFMH---QELIEILSYALVITKNH--IYTSG 177 (225)
Q Consensus 141 rrIa~lGsRhvp~~h---q~LIEllsyAlvl~gn~--i~TSG 177 (225)
|+|||+|||-+|--+ ..++|=|+--|+..|+. ++.+.
T Consensus 2 kkIaIiGtrGIPa~YGGfET~ve~L~~~l~~~g~~v~Vyc~~ 43 (185)
T PF09314_consen 2 KKIAIIGTRGIPARYGGFETFVEELAPRLVSKGIDVTVYCRS 43 (185)
T ss_pred ceEEEEeCCCCCcccCcHHHHHHHHHHHHhcCCceEEEEEcc
Confidence 789999999888643 56777777788887874 44443
No 35
>PF03807 F420_oxidored: NADP oxidoreductase coenzyme F420-dependent; InterPro: IPR004455 The function of F420-dependent NADP reductase is the transfer of electrons from reduced coenzyme F420 into an electron transport chain. It catalyses the reduction of F420 with NADP(+) and the reduction of NADP(+) with F420H(2).; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 2IZZ_B 2GR9_B 2GRA_B 2GER_C 2AMF_E 2AHR_C 2VQ3_B 2VNS_B 2RCY_D 2YJZ_D ....
Probab=45.97 E-value=23 Score=24.76 Aligned_cols=26 Identities=31% Similarity=0.586 Sum_probs=20.9
Q ss_pred eEEEecccccchhHHHHHHHHHHHHHhhC---CeeE
Q 027296 142 AIGFFGTRNMGFMHQELIEILSYALVITK---NHIY 174 (225)
Q Consensus 142 rIa~lGsRhvp~~hq~LIEllsyAlvl~g---n~i~ 174 (225)
+|||+|+-||+ +.|...|+..| +.|+
T Consensus 1 kI~iIG~G~mg-------~al~~~l~~~g~~~~~v~ 29 (96)
T PF03807_consen 1 KIGIIGAGNMG-------SALARGLLASGIKPHEVI 29 (96)
T ss_dssp EEEEESTSHHH-------HHHHHHHHHTTS-GGEEE
T ss_pred CEEEECCCHHH-------HHHHHHHHHCCCCceeEE
Confidence 68999999876 45677888888 8877
No 36
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=45.75 E-value=81 Score=24.38 Aligned_cols=64 Identities=14% Similarity=0.227 Sum_probs=34.4
Q ss_pred CceEEEeccccc-ch---hHHHHHHHHHHHHHh--hCCeeEecCCCcchHHHHHh----h----hhccCCCeeEEEec
Q 027296 140 PRAIGFFGTRNM-GF---MHQELIEILSYALVI--TKNHIYTSGASGTNAAVIRG----A----LRAERPDLLTVILP 203 (225)
Q Consensus 140 ~rrIa~lGsRhv-p~---~hq~LIEllsyAlvl--~gn~i~TSGA~GtNaAvIRG----a----lrae~p~lLTViLP 203 (225)
|++|++||.--. ++ .+....+.+.+.+.. .+..++--|-.|.++.-+.- . +..++|++++|.+-
T Consensus 1 ~~~i~~lGDSit~G~~~~~~~~~~~~~~~~~~~~~~~~~~~N~gi~G~t~~~~~~r~~~~~~~~~~~~~pd~V~i~~G 78 (193)
T cd01835 1 PKRLIVVGDSLVYGWGDPEGGGWVGRLRARWMNLGDDPVLYNLGVRGDGSEDVAARWRAEWSRRGELNVPNRLVLSVG 78 (193)
T ss_pred CcEEEEEcCccccCCCCCCCCChHHHHHHHhhccCCCeeEEeecCCCCCHHHHHHHHHHHHHhhcccCCCCEEEEEec
Confidence 678999986221 11 234455555554443 24455556666666532211 1 11258999998763
No 37
>PRK10200 putative racemase; Provisional
Probab=45.73 E-value=20 Score=30.56 Aligned_cols=28 Identities=25% Similarity=0.368 Sum_probs=19.3
Q ss_pred cCCChhHHHHHH-HHHhhCCceEEEeccc
Q 027296 122 PVPDVDYLQELL-AIQQQGPRAIGFFGTR 149 (225)
Q Consensus 122 ~~p~vD~lqELa-aiQq~g~rrIa~lGsR 149 (225)
++|=++...+.+ +++.+|.++||+|||+
T Consensus 98 ~iPii~ii~~~~~~~~~~~~~~VglLaT~ 126 (230)
T PRK10200 98 SLPFLHIADATGRAITGAGMTRVALLGTR 126 (230)
T ss_pred CCCEeehHHHHHHHHHHcCCCeEEEeccH
Confidence 456555444443 3566899999999986
No 38
>TIGR03576 pyridox_MJ0158 pyridoxal phosphate enzyme, MJ0158 family. Members of this archaeal protein family are pyridoxal phosphate enzymes of unknown function. Sequence similarity to SelA, a bacterial enzyme of selenocysteine biosynthesis, has led to some members being misannotated as functionally equivalent, but selenocysteine is made on tRNA in Archaea by a two-step process that does not involve a SelA homolog.
Probab=45.42 E-value=39 Score=30.06 Aligned_cols=40 Identities=13% Similarity=-0.003 Sum_probs=31.9
Q ss_pred hhHHHHHHHHHHHHHh-hCCeeEecCCCcchHHHHHhhhhc
Q 027296 153 FMHQELIEILSYALVI-TKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 153 ~~hq~LIEllsyAlvl-~gn~i~TSGA~GtNaAvIRGalra 192 (225)
-.|++|-|.++.-+-. ..+-++|+|+...|.+++...+..
T Consensus 54 ~~~~~Le~~lA~~~g~~~e~ilv~~gg~~a~~~~~~al~~~ 94 (346)
T TIGR03576 54 IFEEKVQELGREHLGGPEEKILVFNRTSSAILATILALEPP 94 (346)
T ss_pred HHHHHHHHHHHHHcCCCcceEEEECCHHHHHHHHHHHhCCC
Confidence 7788998888877754 367889999999998888877654
No 39
>PF12308 Noelin-1: Neurogenesis glycoprotein; InterPro: IPR022082 This domain family is found in eukaryotes, and is approximately 100 amino acids in length. The family is found in association with PF02191 from PFAM. There are two conserved sequence motifs: SAQ and VQN. Noelin-1 is a glycoprotein which is secreted mainly by postmitotic neurogenic tissues in the developing central and peripheral nervous systems, first appearing after neural tube closure. It is likely that it forms large multimeric complexes.It has a divergent function in neurogenesis. In animal caps neuralized by expression of noggin, co-expression of Noelin-1 causes expression of neuronal differentiation markers several stages before neurogenesis normally occurs in this tissue. Finally, only secreted forms of the protein can activate sensory marker expression, while all forms of the protein can induce early neurogenesis.
Probab=45.28 E-value=17 Score=29.58 Aligned_cols=28 Identities=32% Similarity=0.433 Sum_probs=23.0
Q ss_pred eeEEEecC----cccCCChhHHHHHHHhhhcc
Q 027296 197 LLTVILPQ----SLKKQPPESQELLAKVRVST 224 (225)
Q Consensus 197 lLTViLPQ----SL~rQp~Es~elLe~V~nv~ 224 (225)
.-||+.|+ |-+--....|.+||||.|+.
T Consensus 22 vCTVvaP~q~~CSrD~r~~qlrqllekVqNmS 53 (101)
T PF12308_consen 22 VCTVVAPQQNLCSRDARSRQLRQLLEKVQNMS 53 (101)
T ss_pred EEEEecCCcchhccCccHHHHHHHHHHHHHHH
Confidence 57999997 55666778899999999974
No 40
>PRK13762 tRNA-modifying enzyme; Provisional
Probab=45.05 E-value=2.4e+02 Score=25.52 Aligned_cols=69 Identities=17% Similarity=0.171 Sum_probs=46.3
Q ss_pred CceEEEecccccchhHHHHHHHHHHHHHhhCCe-eEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHHHHHH
Q 027296 140 PRAIGFFGTRNMGFMHQELIEILSYALVITKNH-IYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLA 218 (225)
Q Consensus 140 ~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~-i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~elLe 218 (225)
++.+||-|+ -=|.+|-.|.|++.++-...-+. |.|.|.- -.+++-. .+ .++.+.| ||+--.+|..+.+-
T Consensus 130 ~~~v~iSl~-GEPlL~p~l~eli~~~k~~Gi~~~L~TNG~~---~e~l~~L-~~-~~d~i~V----SLda~~~e~~~~i~ 199 (322)
T PRK13762 130 PKHVAISLS-GEPTLYPYLPELIEEFHKRGFTTFLVTNGTR---PDVLEKL-EE-EPTQLYV----SLDAPDEETYKKIN 199 (322)
T ss_pred CCEEEEeCC-ccccchhhHHHHHHHHHHcCCCEEEECCCCC---HHHHHHH-Hh-cCCEEEE----EccCCCHHHHHHHh
Confidence 678999988 78999999999999887654332 4577742 3455543 33 6666655 66666666655543
No 41
>cd06150 YjgF_YER057c_UK114_like_2 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=44.95 E-value=8.8 Score=28.43 Aligned_cols=17 Identities=18% Similarity=0.520 Sum_probs=13.8
Q ss_pred HhhCCeeEecCCCcchH
Q 027296 167 VITKNHIYTSGASGTNA 183 (225)
Q Consensus 167 vl~gn~i~TSGA~GtNa 183 (225)
+..|+.||+||-.|.+.
T Consensus 7 v~~g~~v~iSGq~~~~~ 23 (105)
T cd06150 7 VVHNGTVYLAGQVADDT 23 (105)
T ss_pred EEECCEEEEeCcCCcCC
Confidence 34689999999998863
No 42
>cd06502 TA_like Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a secondary glycine biosynthetic pathway.
Probab=44.88 E-value=40 Score=27.99 Aligned_cols=15 Identities=7% Similarity=-0.064 Sum_probs=6.3
Q ss_pred HHHHHHHhhCCeeEe
Q 027296 161 ILSYALVITKNHIYT 175 (225)
Q Consensus 161 llsyAlvl~gn~i~T 175 (225)
++-+++...|..|++
T Consensus 62 ~~~~~l~~~gd~v~~ 76 (338)
T cd06502 62 LALAAHTQPGGSVIC 76 (338)
T ss_pred HHHHHhcCCCCeEEE
Confidence 333444444444443
No 43
>TIGR00423 radical SAM domain protein, CofH subfamily. This protein family includes the CofH protein of coenzyme F(420) biosynthesis from Methanocaldococcus jannaschii, but appears to hit genomes more broadly than just the subset that make coenzyme F(420), so that narrower group is being built as a separate family.
Probab=43.94 E-value=51 Score=28.82 Aligned_cols=37 Identities=14% Similarity=0.127 Sum_probs=19.3
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHH
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSY 164 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsy 164 (225)
+++|+.+..+.|-++|+|.|..|...-...+.|++..
T Consensus 41 I~~~~~~~~~~G~~~i~l~gg~~~~~~~~~~~~i~~~ 77 (309)
T TIGR00423 41 ILEKVKEAVAKGATEVCIQGGLNPQLDIEYYEELFRA 77 (309)
T ss_pred HHHHHHHHHHCCCCEEEEecCCCCCCCHHHHHHHHHH
Confidence 5555555555666666666554443333444444433
No 44
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=43.48 E-value=1.6e+02 Score=23.04 Aligned_cols=66 Identities=17% Similarity=0.109 Sum_probs=35.1
Q ss_pred hhCCceEEEeccc-ccchhHHHHHHHHHHHHHhhCC---eeEecC-CCcchHHHHHhhhhccCCCeeEEEecCc
Q 027296 137 QQGPRAIGFFGTR-NMGFMHQELIEILSYALVITKN---HIYTSG-ASGTNAAVIRGALRAERPDLLTVILPQS 205 (225)
Q Consensus 137 q~g~rrIa~lGsR-hvp~~hq~LIEllsyAlvl~gn---~i~TSG-A~GtNaAvIRGalrae~p~lLTViLPQS 205 (225)
++|.|+|+|+|.. .-.-.++.-.+=...++...|- .+++.+ .......+++..+++ .| .++|+-.+
T Consensus 111 ~~g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~-~~--~~~i~~~~ 181 (259)
T cd01542 111 QQGHKNIAYLGVSESDIAVGILRKQGYLDALKEHGICPPNIVETDFSYESAYEAAQELLEP-QP--PDAIVCAT 181 (259)
T ss_pred HcCCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCCChHHeeeccCchhhHHHHHHHHhcC-CC--CCEEEEcC
Confidence 3799999999854 2223445555555555554443 123322 223334456666665 44 55665444
No 45
>TIGR01275 ACC_deam_rel pyridoxal phosphate-dependent enzymes, D-cysteine desulfhydrase family. This model represents a family of pyridoxal phosphate-dependent enzymes closely related to (and often designated as putative examples of) 1-aminocyclopropane-1-carboxylate deaminase. It appears that members of this family include both D-cysteine desulfhydrase (EC 4.4.1.15) and 1-aminocyclopropane-1-carboxylate deaminase (EC 3.5.99.7).
Probab=42.94 E-value=77 Score=27.34 Aligned_cols=51 Identities=22% Similarity=0.101 Sum_probs=29.4
Q ss_pred hhHHHHHHHHHHHHHhhCCeeEecCCCcchHH-HHHhhhhccCCCeeEEEecC
Q 027296 153 FMHQELIEILSYALVITKNHIYTSGASGTNAA-VIRGALRAERPDLLTVILPQ 204 (225)
Q Consensus 153 ~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaA-vIRGalrae~p~lLTViLPQ 204 (225)
|=-.-+..++..|......+|+|+|++.-|.+ .+--+-+. .==..||++|.
T Consensus 39 ~K~R~~~~~l~~a~~~g~~~vv~~g~ssGN~g~alA~~a~~-~G~~~~ivvp~ 90 (311)
T TIGR01275 39 NKIRKLEYLLADALSKGADTVITVGAIQSNHARATALAAKK-LGLDAVLVLRE 90 (311)
T ss_pred hhHHHHHHHHHHHHHcCCCEEEEcCCchhHHHHHHHHHHHH-hCCceEEEecC
Confidence 44455666777777666678899875444443 22222222 22347888887
No 46
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=42.84 E-value=58 Score=25.05 Aligned_cols=50 Identities=16% Similarity=0.130 Sum_probs=31.2
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchH
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNA 183 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNa 183 (225)
++.++ +++.|-+. ....+++==...|-|.+..++.. -+-|+|+|++|...
T Consensus 23 ~l~~~--l~~~G~~v---~~~~~v~Dd~~~i~~~i~~~~~~-~DlvittGG~g~g~ 72 (133)
T cd00758 23 ALEAL--LEDLGCEV---IYAGVVPDDADSIRAALIEASRE-ADLVLTTGGTGVGR 72 (133)
T ss_pred HHHHH--HHHCCCEE---EEeeecCCCHHHHHHHHHHHHhc-CCEEEECCCCCCCC
Confidence 44444 56667442 22234444455667777777654 78999999999654
No 47
>PRK03910 D-cysteine desulfhydrase; Validated
Probab=41.92 E-value=85 Score=27.63 Aligned_cols=55 Identities=22% Similarity=0.146 Sum_probs=33.0
Q ss_pred hhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCccc
Q 027296 153 FMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLK 207 (225)
Q Consensus 153 ~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~ 207 (225)
|=-..+.-++..|.......|+|+|++.-|.++-=.++-+..-=..+|++|....
T Consensus 47 ~K~R~~~~~l~~a~~~g~~~vvt~g~s~gN~g~alA~~a~~~G~~~~i~vp~~~~ 101 (331)
T PRK03910 47 NKTRKLEFLLADALAQGADTLITAGAIQSNHARQTAAAAAKLGLKCVLLLENPVP 101 (331)
T ss_pred hHHHHHHHHHHHHHHcCCCEEEEcCcchhHHHHHHHHHHHHhCCcEEEEEcCCCC
Confidence 3344466677777766668899999644444333233322244467888887654
No 48
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=41.64 E-value=62 Score=25.39 Aligned_cols=50 Identities=22% Similarity=0.265 Sum_probs=30.9
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchH
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNA 183 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNa 183 (225)
+++++ +++.|-+.+ ...+++=-...|.|.+..++. .-.-|+|||++|...
T Consensus 31 ~l~~~--l~~~G~~v~---~~~~v~Dd~~~i~~~l~~~~~-~~DliIttGG~g~g~ 80 (144)
T TIGR00177 31 LLAAL--LEEAGFNVS---RLGIVPDDPEEIREILRKAVD-EADVVLTTGGTGVGP 80 (144)
T ss_pred HHHHH--HHHCCCeEE---EEeecCCCHHHHHHHHHHHHh-CCCEEEECCCCCCCC
Confidence 44443 445564322 223344445677888877654 678999999999853
No 49
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=41.49 E-value=1.6e+02 Score=22.42 Aligned_cols=37 Identities=16% Similarity=0.125 Sum_probs=25.4
Q ss_pred HHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 134 AIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 134 aiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
.+.+.|.|+|++++..+-...+...++-+..++...|
T Consensus 112 ~l~~~g~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~ 148 (264)
T cd01537 112 HLAEKGHRRIALLAGPLGSSTARERVAGFKDALKEAG 148 (264)
T ss_pred HHHHhcCCcEEEEECCCCCCcHHHHHHHHHHHHHHcC
Confidence 3456789999999877654566666666666665544
No 50
>TIGR02666 moaA molybdenum cofactor biosynthesis protein A, bacterial. The model for this family describes molybdenum cofactor biosynthesis protein A, or MoaA, as found in bacteria. It does not include the family of probable functional equivalent proteins from the archaea. MoaA works together with MoaC to synthesize precursor Z from guanine.
Probab=41.36 E-value=71 Score=27.85 Aligned_cols=41 Identities=15% Similarity=0.251 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
+.+.+..+.+.|.+.|.|.|. =|++|..++|++.++-...|
T Consensus 48 i~~~i~~~~~~gv~~V~ltGG--EPll~~~l~~li~~i~~~~g 88 (334)
T TIGR02666 48 IERLVRAFVGLGVRKVRLTGG--EPLLRKDLVELVARLAALPG 88 (334)
T ss_pred HHHHHHHHHHCCCCEEEEECc--cccccCCHHHHHHHHHhcCC
Confidence 444444555678888888884 47888888888887554333
No 51
>KOG1549 consensus Cysteine desulfurase NFS1 [Amino acid transport and metabolism]
Probab=41.04 E-value=21 Score=34.64 Aligned_cols=29 Identities=28% Similarity=0.393 Sum_probs=24.0
Q ss_pred HhhCCeeEecCCCcchHHHHHhhhhccCC
Q 027296 167 VITKNHIYTSGASGTNAAVIRGALRAERP 195 (225)
Q Consensus 167 vl~gn~i~TSGA~GtNaAvIRGalrae~p 195 (225)
|-..+-+||||||--|..|++|.-+...-
T Consensus 100 Ad~~dIiFts~ATEs~Nlvl~~v~~~~~~ 128 (428)
T KOG1549|consen 100 ADPSDIVFTSGATESNNLVLKGVARFFGD 128 (428)
T ss_pred CCCCcEEEeCCchHHHHHHHHHhhccccc
Confidence 34566899999999999999999996443
No 52
>PRK13532 nitrate reductase catalytic subunit; Provisional
Probab=40.89 E-value=72 Score=31.79 Aligned_cols=40 Identities=28% Similarity=0.508 Sum_probs=28.8
Q ss_pred cccccCCC---hh-HHHHHHHHHh-hCCceEEEecccccchhHHH
Q 027296 118 SEFKPVPD---VD-YLQELLAIQQ-QGPRAIGFFGTRNMGFMHQE 157 (225)
Q Consensus 118 ~~~~~~p~---vD-~lqELaaiQq-~g~rrIa~lGsRhvp~~hq~ 157 (225)
.+++++.= +| ++++|.+|++ .|++.|+++|+-+.......
T Consensus 114 g~~~~isWdeAl~~iA~~l~~i~~~~G~~~i~~~~~g~~~~~~~~ 158 (830)
T PRK13532 114 GEFTPVSWDQAFDVMAEKFKKALKEKGPTAVGMFGSGQWTIWEGY 158 (830)
T ss_pred CCeEEecHHHHHHHHHHHHHHHHHHhCCCeEEEEecCCcchHHHH
Confidence 35666662 66 7788888754 79999999998777655433
No 53
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=40.79 E-value=1.8e+02 Score=22.86 Aligned_cols=36 Identities=22% Similarity=0.144 Sum_probs=27.7
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
+.++|.++|+|+|.......++.-++=...++...|
T Consensus 109 l~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~ 144 (260)
T cd06286 109 LIQKGYRKIAYCIGRKKSLNSQSRKKAYKDALEEYG 144 (260)
T ss_pred HHHCCCceEEEEcCCcccchhHHHHHHHHHHHHHcC
Confidence 566799999999876555567777787888887766
No 54
>COG1922 WecG Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]
Probab=40.43 E-value=1.5e+02 Score=26.93 Aligned_cols=75 Identities=20% Similarity=0.310 Sum_probs=54.6
Q ss_pred ccCCChhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCC-c----chH-HHHHhhhhccC
Q 027296 121 KPVPDVDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGAS-G----TNA-AVIRGALRAER 194 (225)
Q Consensus 121 ~~~p~vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~-G----tNa-AvIRGalrae~ 194 (225)
..+|-+|+..+|.+.-.+..++|.+||... ..+|-.++-|.....++--.|.. | +.. |+|+ .+.+.+
T Consensus 89 ~rv~G~Dl~~~Ll~~a~~~~~~vfllGgkp------~V~~~a~~~l~~~~p~l~ivg~h~GYf~~~e~~~i~~-~I~~s~ 161 (253)
T COG1922 89 ERVAGTDLVEALLKRAAEEGKRVFLLGGKP------GVAEQAAAKLRAKYPGLKIVGSHDGYFDPEEEEAIVE-RIAASG 161 (253)
T ss_pred ccCChHHHHHHHHHHhCccCceEEEecCCH------HHHHHHHHHHHHHCCCceEEEecCCCCChhhHHHHHH-HHHhcC
Confidence 366778999999999888899999999974 67777777888777744444443 2 222 4554 455559
Q ss_pred CCeeEEEe
Q 027296 195 PDLLTVIL 202 (225)
Q Consensus 195 p~lLTViL 202 (225)
|++|.|=+
T Consensus 162 pdil~Vgm 169 (253)
T COG1922 162 PDILLVGM 169 (253)
T ss_pred CCEEEEeC
Confidence 99999965
No 55
>PF09743 DUF2042: Uncharacterized conserved protein (DUF2042); InterPro: IPR018611 The ubiquitin fold modifier 1 (Ufm1) is the most recently discovered ubiquitin-like modifier whose conjugation (ufmylation) system is conserved in multicellular organisms. Ufm1 is known to covalently attach with cellular protein(s) via a specific E1-activating enzyme (Uba5), an E2-conjugating enzyme (Ufc1), and a E3-ligating enzyme []. This entry represents E3 UFM1-protein ligase 1.
Probab=40.37 E-value=7.9 Score=34.66 Aligned_cols=111 Identities=23% Similarity=0.338 Sum_probs=70.6
Q ss_pred CCcccccccccccccCCccccCCCCccchhhhcccceeeecccccCCC--hh-HHHHHH-HHHhhCCceEEEecccccch
Q 027296 78 DGLRSEEENVIGMFGSDEDVGTQIPTQAQSVVEGSGAVMVSEFKPVPD--VD-YLQELL-AIQQQGPRAIGFFGTRNMGF 153 (225)
Q Consensus 78 ~~~~~~~~~~~~~f~~d~~~~~~iptq~~~~v~g~~~v~~~~~~~~p~--vD-~lqELa-aiQq~g~rrIa~lGsRhvp~ 153 (225)
.++|-.-.++....+-|.+ .|=.+++.+++....+..-.-.-+.+ +| ++.|+. .+|+.|.-.|+=|- ++..+
T Consensus 67 ~gGRv~~~dL~~~LnVd~~---~ie~~~~~i~~~~~~~~l~~gelit~~Yld~l~~Eine~Lqe~G~vsi~eLa-~~~~L 142 (272)
T PF09743_consen 67 HGGRVNLVDLAQALNVDLD---HIERRAQEIVKSDKSLQLVQGELITDSYLDSLAEEINEKLQESGQVSISELA-KQYDL 142 (272)
T ss_pred cCCceEHHHHHHhcCcCHH---HHHHHHHHHHhCCCcEEEECCEEccHHHHHHHHHHHHHHHHHcCeEeHHHHH-HhcCC
Confidence 3455555666677777766 56667777777665444333333333 66 788875 46888877777664 33333
Q ss_pred hHHHHH-HHHHH---HH---HhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 154 MHQELI-EILSY---AL---VITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 154 ~hq~LI-Ellsy---Al---vl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
--.-|. ++++. .+ .+.|+.|||.-=-..+-|.|||+|+|
T Consensus 143 p~efl~~~li~~~lg~~I~g~~d~~~lyT~ayv~r~ka~iRG~l~a 188 (272)
T PF09743_consen 143 PSEFLKEELISKRLGKIIKGRLDGDVLYTEAYVARQKARIRGALSA 188 (272)
T ss_pred cHHHHHHHHhhhhcCcceeEEEeCCEEecHHHHHHHHHHHHHHHhc
Confidence 333333 22222 11 34678999998888899999999998
No 56
>TIGR00124 cit_ly_ligase [citrate (pro-3S)-lyase] ligase. ATP is cleaved to AMP and pyrophosphate during the reaction. The carboxyl end is homologous to a number of cytidyltransferases that also release pyrophosphate.
Probab=39.96 E-value=37 Score=31.01 Aligned_cols=45 Identities=24% Similarity=0.231 Sum_probs=31.6
Q ss_pred CCChh-HHHHHHHHHhhCCceEEEecccccchh--HHHHHHHHHHHHHhhCC
Q 027296 123 VPDVD-YLQELLAIQQQGPRAIGFFGTRNMGFM--HQELIEILSYALVITKN 171 (225)
Q Consensus 123 ~p~vD-~lqELaaiQq~g~rrIa~lGsRhvp~~--hq~LIEllsyAlvl~gn 171 (225)
.|.++ |++.|...++.| ++||++|.-==||+ |+.||| +|+.+-..
T Consensus 121 ~~~~~~y~~~l~~~~~~~-~~i~~~~g~fdP~t~GH~~li~---~A~~~~d~ 168 (332)
T TIGR00124 121 ATRLKRYCSTLPKPRTPG-NKIGSIVMNANPFTNGHRYLIE---QAARQCDW 168 (332)
T ss_pred CcCHHHHHHHHHHhccCC-CcEEEEEeCcCCCchHHHHHHH---HHHHHCCE
Confidence 46666 999999877765 68888888777876 555555 55555444
No 57
>cd01494 AAT_I Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary history of these enzymes. Structure and sequence analysis
Probab=39.49 E-value=51 Score=23.61 Aligned_cols=19 Identities=16% Similarity=0.429 Sum_probs=8.0
Q ss_pred CeeEecCCCcchHHHHHhh
Q 027296 171 NHIYTSGASGTNAAVIRGA 189 (225)
Q Consensus 171 n~i~TSGA~GtNaAvIRGa 189 (225)
+-++|+|++..+..+++.+
T Consensus 19 ~~~~~~~~t~a~~~~~~~~ 37 (170)
T cd01494 19 KAVFVPSGTGANEAALLAL 37 (170)
T ss_pred cEEEeCCcHHHHHHHHHHh
Confidence 3344444444444444443
No 58
>TIGR00035 asp_race aspartate racemase.
Probab=39.38 E-value=23 Score=29.61 Aligned_cols=29 Identities=24% Similarity=0.589 Sum_probs=19.0
Q ss_pred cCCChhHHHHH-HHHHhhCCceEEEecccc
Q 027296 122 PVPDVDYLQEL-LAIQQQGPRAIGFFGTRN 150 (225)
Q Consensus 122 ~~p~vD~lqEL-aaiQq~g~rrIa~lGsRh 150 (225)
++|=+...++. .+++..|.|+||+|||+-
T Consensus 98 ~iPii~i~~~~~~~~~~~~~~~VgvLaT~~ 127 (229)
T TIGR00035 98 GIPLISMIEETAEAVKEDGVKKAGLLGTKG 127 (229)
T ss_pred CCCEechHHHHHHHHHHcCCCEEEEEecHH
Confidence 45544433332 345778999999999873
No 59
>TIGR03470 HpnH hopanoid biosynthesis associated radical SAM protein HpnH. The sequences represented by this model are members of the radical SAM superfamily of enzymes (pfam04055). These enzymes utilize an iron-sulfur redox cluster and S-adenosylmethionine to carry out diverse radical mediated reactions. The members of this clade are frequently found in the same locus as squalene-hopene cyclase (SHC, TIGR01507) and other genes associated with the biosynthesis of hopanoid natural products. The linkage between SHC and this radical SAM enzyme is strong; one is nearly always observed in the same genome where the other is found. A hopanoid biosynthesis locus was described in Zymomonas mobilis consisting of the genes HpnA-E and SHC (HpnF). Continuing past SHC are found a phosphorylase enzyme (ZMO0873, i.e. HpnG, TIGR03468) and this radical SAM enzyme (ZMO0874) which we name here HpnH. Granted, in Z. mobilis, HpnH is in a convergent orientation with respect to HpnA-G, but one gene beyond HpnH
Probab=38.79 E-value=1.3e+02 Score=26.63 Aligned_cols=40 Identities=20% Similarity=0.236 Sum_probs=30.4
Q ss_pred HHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEe
Q 027296 134 AIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYT 175 (225)
Q Consensus 134 aiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~T 175 (225)
.|.+.|.+.|.|.|. =|++|.+|.||+.|+.....+.-++
T Consensus 67 ~i~e~g~~~V~i~GG--EPLL~pdl~eiv~~~~~~g~~v~l~ 106 (318)
T TIGR03470 67 AVDECGAPVVSIPGG--EPLLHPEIDEIVRGLVARKKFVYLC 106 (318)
T ss_pred HHHHcCCCEEEEeCc--cccccccHHHHHHHHHHcCCeEEEe
Confidence 344568899999994 7999999999999997764443333
No 60
>PRK03321 putative aminotransferase; Provisional
Probab=38.69 E-value=34 Score=29.12 Aligned_cols=36 Identities=17% Similarity=0.149 Sum_probs=17.5
Q ss_pred HHHHHHHHHHH-HhhCCeeEecCCCcchHHHHHhhhh
Q 027296 156 QELIEILSYAL-VITKNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 156 q~LIEllsyAl-vl~gn~i~TSGA~GtNaAvIRGalr 191 (225)
..|-|.++.-+ +-..|-++|+|+++...++++..++
T Consensus 60 ~~lr~~ia~~~~~~~~~I~~~~G~~~~l~~~~~~~~~ 96 (352)
T PRK03321 60 VELRAALAEHLGVPPEHVAVGCGSVALCQQLVQATAG 96 (352)
T ss_pred HHHHHHHHHHhCcCHHHEEECCCHHHHHHHHHHHhcC
Confidence 33444444333 2223556666666655555554443
No 61
>cd01937 ribokinase_group_D Ribokinase-like subgroup D. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time.
Probab=38.63 E-value=32 Score=27.78 Aligned_cols=48 Identities=17% Similarity=0.173 Sum_probs=35.2
Q ss_pred eEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEe
Q 027296 142 AIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVIL 202 (225)
Q Consensus 142 rIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViL 202 (225)
||.++|.-++=++.. .+.....-|+.|.|+|+.-+.|.. +..++++|=
T Consensus 1 ~il~iG~~~iD~~~~------------~~~~~~~~GG~~~Nva~~la~lG~-~~~~i~~vG 48 (254)
T cd01937 1 KIVIIGHVTIDEIVT------------NGSGVVKPGGPATYASLTLSRLGL-TVKLVTKVG 48 (254)
T ss_pred CeEEEcceeEEEEec------------CCceEEecCchhhhHHHHHHHhCC-CeEEEEeeC
Confidence 567777776665532 245567779999999999888877 777887754
No 62
>cd06207 CyPoR_like NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced fe
Probab=38.55 E-value=1.6e+02 Score=26.53 Aligned_cols=65 Identities=20% Similarity=0.227 Sum_probs=37.6
Q ss_pred HHHHHHHHHhhCCc-eEEEeccc---ccchhHHHHHHHH--HHHHHhhCC-eeEecCCCc-chHHHHHhhhhc
Q 027296 128 YLQELLAIQQQGPR-AIGFFGTR---NMGFMHQELIEIL--SYALVITKN-HIYTSGASG-TNAAVIRGALRA 192 (225)
Q Consensus 128 ~lqELaaiQq~g~r-rIa~lGsR---hvp~~hq~LIEll--syAlvl~gn-~i~TSGA~G-tNaAvIRGalra 192 (225)
|..||.++++.|.. ++-+.=|| +.+++...|-|.. -+.+...++ ++|..|..+ ...+|.+...+.
T Consensus 280 y~~el~~~~~~~~~~~~~~a~Srd~~~~~yVq~~l~~~~~~~~~~l~~~~~~vYvCG~~~~M~~~V~~~L~~~ 352 (382)
T cd06207 280 YKEELEEYEKSGVLTTLGTAFSRDQPKKVYVQDLIRENSDLVYQLLEEGAGVIYVCGSTWKMPPDVQEAFEEI 352 (382)
T ss_pred HHHHHHHHHhCCCCceEEEEecCCCCCceEhHHHHHHCHHHHHHHHhcCCCEEEEECCcccccHHHHHHHHHH
Confidence 67888888887763 33333344 2446544443311 122344566 899999988 776665554433
No 63
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=38.08 E-value=1.8e+02 Score=22.17 Aligned_cols=34 Identities=26% Similarity=0.174 Sum_probs=21.8
Q ss_pred hhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 137 QQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 137 q~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
++|.++|++++..+-.-.|+.-.+-+..++...|
T Consensus 113 ~~g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~ 146 (264)
T cd06267 113 ELGHRRIAFIGGPPDLSTARERLEGYREALEEAG 146 (264)
T ss_pred HCCCceEEEecCCCccchHHHHHHHHHHHHHHcC
Confidence 4699999999877654445555555555555444
No 64
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=37.80 E-value=2.4e+02 Score=23.55 Aligned_cols=78 Identities=17% Similarity=0.197 Sum_probs=47.8
Q ss_pred cccCCChhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhh--CCeeEec-CCCc-chHHHHHhhhhccCC
Q 027296 120 FKPVPDVDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVIT--KNHIYTS-GASG-TNAAVIRGALRAERP 195 (225)
Q Consensus 120 ~~~~p~vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~--gn~i~TS-GA~G-tNaAvIRGalrae~p 195 (225)
...++..|+..+|..-=.+...+|.++|+.- ..+|-+...|... |..|... |--. .....|.-.+++.+|
T Consensus 28 ~~Rv~G~dl~~~l~~~~~~~~~~vfllG~~~------~v~~~~~~~l~~~yP~l~i~g~~g~f~~~~~~~i~~~I~~s~~ 101 (177)
T TIGR00696 28 QSRVAGPDLMEELCQRAGKEKLPIFLYGGKP------DVLQQLKVKLIKEYPKLKIVGAFGPLEPEERKAALAKIARSGA 101 (177)
T ss_pred CCccChHHHHHHHHHHHHHcCCeEEEECCCH------HHHHHHHHHHHHHCCCCEEEEECCCCChHHHHHHHHHHHHcCC
Confidence 3456667988888765544448999999973 3444444444443 3333332 2221 123456667777799
Q ss_pred CeeEEEec
Q 027296 196 DLLTVILP 203 (225)
Q Consensus 196 ~lLTViLP 203 (225)
++|-|=|-
T Consensus 102 dil~VglG 109 (177)
T TIGR00696 102 GIVFVGLG 109 (177)
T ss_pred CEEEEEcC
Confidence 99999874
No 65
>TIGR02493 PFLA pyruvate formate-lyase 1-activating enzyme. An iron-sulfur protein with a radical-SAM domain (pfam04055). A single glycine residue in EC 2.3.1.54, formate C-acetyltransferase (formate-pyruvate lyase), is oxidized to the corresponding radical by transfer of H from its CH2 to AdoMet with concomitant cleavage of the latter. The reaction requires Fe2+. The first stage is reduction of the AdoMet to give methionine and the 5'-deoxyadenosin-5-yl radical, which then abstracts a hydrogen radical from the glycine residue.
Probab=37.42 E-value=77 Score=25.82 Aligned_cols=35 Identities=20% Similarity=0.346 Sum_probs=20.1
Q ss_pred ceEEEecccccchhHHHHH-HHHHHHHHhhC-CeeEecC
Q 027296 141 RAIGFFGTRNMGFMHQELI-EILSYALVITK-NHIYTSG 177 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LI-EllsyAlvl~g-n~i~TSG 177 (225)
+.|.|.| -=|++|..++ |++.++-...- ..|.|.|
T Consensus 67 ~~I~~~G--GEPll~~~~~~~li~~~~~~g~~~~i~TNG 103 (235)
T TIGR02493 67 GGVTFSG--GEPLLQPEFLSELFKACKELGIHTCLDTSG 103 (235)
T ss_pred CeEEEeC--cccccCHHHHHHHHHHHHHCCCCEEEEcCC
Confidence 4577777 5677777644 66666644321 2344555
No 66
>PLN02778 3,5-epimerase/4-reductase
Probab=36.91 E-value=1.1e+02 Score=26.26 Aligned_cols=54 Identities=13% Similarity=0.146 Sum_probs=41.3
Q ss_pred hCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCe
Q 027296 138 QGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDL 197 (225)
Q Consensus 138 ~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~l 197 (225)
..+++|-|.|. .||+=.+|++.|. ..|+.+..+.+.-.+...+++.++..+||.
T Consensus 7 ~~~~kiLVtG~--tGfiG~~l~~~L~----~~g~~V~~~~~~~~~~~~v~~~l~~~~~D~ 60 (298)
T PLN02778 7 SATLKFLIYGK--TGWIGGLLGKLCQ----EQGIDFHYGSGRLENRASLEADIDAVKPTH 60 (298)
T ss_pred CCCCeEEEECC--CCHHHHHHHHHHH----hCCCEEEEecCccCCHHHHHHHHHhcCCCE
Confidence 45678999996 4899999988664 458888755455567788999999878875
No 67
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=36.71 E-value=72 Score=25.86 Aligned_cols=31 Identities=23% Similarity=0.388 Sum_probs=18.8
Q ss_pred CCeeEecCCCcchHHHHHhhhhccCCCeeEEEecC
Q 027296 170 KNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQ 204 (225)
Q Consensus 170 gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQ 204 (225)
.+-++|+|+++.+.+++++..... -+|++|.
T Consensus 60 ~~~~~~~~~t~a~~~~~~~~~~~g----~~vl~~~ 90 (350)
T cd00609 60 EEIVVTNGAQEALSLLLRALLNPG----DEVLVPD 90 (350)
T ss_pred ceEEEecCcHHHHHHHHHHhCCCC----CEEEEcC
Confidence 356777777777777777664431 2466654
No 68
>PRK13520 L-tyrosine decarboxylase; Provisional
Probab=36.63 E-value=74 Score=26.89 Aligned_cols=36 Identities=28% Similarity=0.362 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHhh-CCeeEecCCCcchHHHHHhhh
Q 027296 155 HQELIEILSYALVIT-KNHIYTSGASGTNAAVIRGAL 190 (225)
Q Consensus 155 hq~LIEllsyAlvl~-gn~i~TSGA~GtNaAvIRGal 190 (225)
+.++.+.++.-+-.. .+-++|+|++..|.++++.+.
T Consensus 61 ~~~~~~~la~~~g~~~~~~~~~~ggt~a~~~a~~~~~ 97 (371)
T PRK13520 61 EEEAVEMLGELLHLPDAYGYITSGGTEANIQAVRAAR 97 (371)
T ss_pred HHHHHHHHHHHhCCCCCCeEEecCcHHHHHHHHHHHH
Confidence 455555555443321 244777777777777776654
No 69
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=36.53 E-value=2.3e+02 Score=22.92 Aligned_cols=77 Identities=23% Similarity=0.283 Sum_probs=49.6
Q ss_pred ccCCChhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC-Cc----chHHHHHhhhhccCC
Q 027296 121 KPVPDVDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA-SG----TNAAVIRGALRAERP 195 (225)
Q Consensus 121 ~~~p~vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA-~G----tNaAvIRGalrae~p 195 (225)
..++..|++.+|...=++..++|.++|+.. ..+|-+...|....-.|-.-|. .| .-...|--.+++.+|
T Consensus 29 ~rv~g~dl~~~l~~~~~~~~~~ifllG~~~------~~~~~~~~~l~~~yP~l~ivg~~~g~f~~~~~~~i~~~I~~~~p 102 (172)
T PF03808_consen 29 ERVTGSDLFPDLLRRAEQRGKRIFLLGGSE------EVLEKAAANLRRRYPGLRIVGYHHGYFDEEEEEAIINRINASGP 102 (172)
T ss_pred cccCHHHHHHHHHHHHHHcCCeEEEEeCCH------HHHHHHHHHHHHHCCCeEEEEecCCCCChhhHHHHHHHHHHcCC
Confidence 445557899999887777788999999973 4455555555555322222232 22 223444446666799
Q ss_pred CeeEEEec
Q 027296 196 DLLTVILP 203 (225)
Q Consensus 196 ~lLTViLP 203 (225)
+++-|-|.
T Consensus 103 div~vglG 110 (172)
T PF03808_consen 103 DIVFVGLG 110 (172)
T ss_pred CEEEEECC
Confidence 99999886
No 70
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=36.28 E-value=48 Score=25.53 Aligned_cols=49 Identities=22% Similarity=0.260 Sum_probs=27.7
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcch
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTN 182 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtN 182 (225)
++++++. +.|-.- .....+|=--..|.|.+..++ ..++-|+|+|++|..
T Consensus 21 ~l~~~l~--~~G~~v---~~~~~v~Dd~~~i~~~l~~~~-~~~D~VittGG~g~~ 69 (144)
T PF00994_consen 21 FLAALLE--ELGIEV---IRYGIVPDDPDAIKEALRRAL-DRADLVITTGGTGPG 69 (144)
T ss_dssp HHHHHHH--HTTEEE---EEEEEEESSHHHHHHHHHHHH-HTTSEEEEESSSSSS
T ss_pred HHHHHHH--HcCCee---eEEEEECCCHHHHHHHHHhhh-ccCCEEEEcCCcCcc
Confidence 5555544 355422 222234434455666664443 344999999999964
No 71
>PLN03075 nicotianamine synthase; Provisional
Probab=35.88 E-value=1.1e+02 Score=28.12 Aligned_cols=29 Identities=21% Similarity=0.334 Sum_probs=23.5
Q ss_pred HHHHHHHhh---CCceEEEecccccchhHHHH
Q 027296 130 QELLAIQQQ---GPRAIGFFGTRNMGFMHQEL 158 (225)
Q Consensus 130 qELaaiQq~---g~rrIa~lGsRhvp~~hq~L 158 (225)
.|...+... ++|+|+++|+-+.|+++.-+
T Consensus 111 lE~~~L~~~~~~~p~~VldIGcGpgpltaiil 142 (296)
T PLN03075 111 LEFDLLSQHVNGVPTKVAFVGSGPLPLTSIVL 142 (296)
T ss_pred HHHHHHHHhhcCCCCEEEEECCCCcHHHHHHH
Confidence 577776554 99999999999999988543
No 72
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=35.86 E-value=63 Score=27.38 Aligned_cols=32 Identities=16% Similarity=0.170 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhh
Q 027296 157 ELIEILSYALVITKNHIYTSGASGTNAAVIRGAL 190 (225)
Q Consensus 157 ~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGal 190 (225)
..++++..+++..|.+|++.-- ...+++.++.
T Consensus 86 ~a~~~~l~al~~~gd~Vlv~~~--~h~s~~~~~~ 117 (294)
T cd00615 86 SSNKAVILAVCGPGDKILIDRN--CHKSVINGLV 117 (294)
T ss_pred HHHHHHHHHcCCCCCEEEEeCC--chHHHHHHHH
Confidence 3456666777888888887642 2334444433
No 73
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=33.75 E-value=1.3e+02 Score=22.03 Aligned_cols=48 Identities=19% Similarity=0.224 Sum_probs=25.1
Q ss_pred HHHhhCCceEEEec-ccccchhHHHHHHHHHHHHHhhC---CeeEecCCCcch
Q 027296 134 AIQQQGPRAIGFFG-TRNMGFMHQELIEILSYALVITK---NHIYTSGASGTN 182 (225)
Q Consensus 134 aiQq~g~rrIa~lG-sRhvp~~hq~LIEllsyAlvl~g---n~i~TSGA~GtN 182 (225)
.+-++|.|+|+|+| ..+....+..+- =...|+...| +.+......+..
T Consensus 3 ~L~~~G~r~i~~i~~~~~~~~~~~r~~-gf~~~~~~~~~~~~~~~~~~~~~~~ 54 (160)
T PF13377_consen 3 YLIERGHRRIAFIGGPPNSSVSRERLE-GFREALKEHGIEFEELIFFSDDDSE 54 (160)
T ss_dssp HHHHTT-SSEEEEESSTTSHHHHHHHH-HHHHHHHHTTSEEEGEEEEESSSHH
T ss_pred HHHHCCCCeEEEEecCCCChhHHHHHH-HHHHHHHHCCCCCCeeEeecCCcch
Confidence 35579999999999 444445444443 3333334333 234444444433
No 74
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=33.72 E-value=54 Score=24.99 Aligned_cols=47 Identities=23% Similarity=0.270 Sum_probs=28.9
Q ss_pred HHHHHHHHHhhCCce--EEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcch
Q 027296 128 YLQELLAIQQQGPRA--IGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTN 182 (225)
Q Consensus 128 ~lqELaaiQq~g~rr--Ia~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtN 182 (225)
++.++ +++.|-.. ..++. ==...|.|.+.+++. .-+-|+|+|++|.-
T Consensus 22 ~l~~~--l~~~G~~~~~~~~v~-----Dd~~~I~~~l~~~~~-~~dliittGG~g~g 70 (135)
T smart00852 22 ALAEL--LTELGIEVTRYVIVP-----DDKEAIKEALREALE-RADLVITTGGTGPG 70 (135)
T ss_pred HHHHH--HHHCCCeEEEEEEeC-----CCHHHHHHHHHHHHh-CCCEEEEcCCCCCC
Confidence 66665 56777543 33332 223445566666654 46899999999954
No 75
>PRK02769 histidine decarboxylase; Provisional
Probab=33.50 E-value=70 Score=29.24 Aligned_cols=49 Identities=18% Similarity=0.172 Sum_probs=26.2
Q ss_pred hHHHHHHHHHHHHHhhCCe---eEecCCCcchHHHHHhhhhccCCCeeEEEecC
Q 027296 154 MHQELIEILSYALVITKNH---IYTSGASGTNAAVIRGALRAERPDLLTVILPQ 204 (225)
Q Consensus 154 ~hq~LIEllsyAlvl~gn~---i~TSGA~GtNaAvIRGalrae~p~lLTViLPQ 204 (225)
+=.+.+++++.-+-..... ++|||||..|-.++..|... .|+ -.||.++
T Consensus 66 ~e~~~~~~~a~l~g~~~~~~~G~~TsGgTean~~a~~~ar~~-~~~-~~ii~s~ 117 (380)
T PRK02769 66 FERDVMNFFAELFKIPFNESWGYITNGGTEGNLYGCYLAREL-FPD-GTLYYSK 117 (380)
T ss_pred HHHHHHHHHHHHhCCCCCCCCEEEecChHHHHHHHHHHHHHh-CCC-cEEEeCC
Confidence 3345556666544433222 68888888886666555322 232 2455544
No 76
>PRK08361 aspartate aminotransferase; Provisional
Probab=33.45 E-value=58 Score=28.42 Aligned_cols=21 Identities=10% Similarity=0.023 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHhhCCeeEec
Q 027296 156 QELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TS 176 (225)
++.+.++.+++...|.+|++.
T Consensus 103 ~~al~~~~~~l~~~g~~Vlv~ 123 (391)
T PRK08361 103 YEATYLAFESLLEEGDEVIIP 123 (391)
T ss_pred HHHHHHHHHHhcCCCCEEEEc
Confidence 455666666666666655544
No 77
>PRK07324 transaminase; Validated
Probab=33.25 E-value=45 Score=29.28 Aligned_cols=21 Identities=24% Similarity=0.300 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHHhhCCeeEec
Q 027296 156 QELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TS 176 (225)
++.+.++..++.-.|.+|++.
T Consensus 90 ~~al~~~~~~l~~~gd~Vl~~ 110 (373)
T PRK07324 90 TGANFLVLYALVEPGDHVISV 110 (373)
T ss_pred HHHHHHHHHHhCCCCCEEEEc
Confidence 445555555665556655553
No 78
>cd00885 cinA Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, where the domain is presumed to bind molybdopterin.
Probab=33.22 E-value=57 Score=26.80 Aligned_cols=45 Identities=18% Similarity=0.211 Sum_probs=30.9
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchH
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNA 183 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNa 183 (225)
+++.|-+.+ ....+|==...|.+.+.+++. .-.-|+|+|++|...
T Consensus 28 L~~~G~~v~---~~~~v~Dd~~~I~~~l~~~~~-~~dlVIttGG~G~t~ 72 (170)
T cd00885 28 LAELGIEVY---RVTVVGDDEDRIAEALRRASE-RADLVITTGGLGPTH 72 (170)
T ss_pred HHHCCCEEE---EEEEeCCCHHHHHHHHHHHHh-CCCEEEECCCCCCCC
Confidence 445665432 233555556778888888875 578999999999764
No 79
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=33.20 E-value=1.4e+02 Score=23.01 Aligned_cols=58 Identities=14% Similarity=0.216 Sum_probs=34.0
Q ss_pred eEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcch---------HHHHHhhhhccCCCeeEEEe
Q 027296 142 AIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTN---------AAVIRGALRAERPDLLTVIL 202 (225)
Q Consensus 142 rIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtN---------aAvIRGalrae~p~lLTViL 202 (225)
||.|+|.-+.--+--.+.+.+ ....+.+++.-|..|+- .+-++..+...+|+++.+.+
T Consensus 1 ril~iGDS~~~g~~~~l~~~~---~~~~~~~v~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~pd~vii~~ 67 (200)
T cd01829 1 RVLVIGDSLAQGLAPGLLRAL---ADNPGIRVINRSKGSSGLVRPDFFDWPEKLKELIAEEKPDVVVVFL 67 (200)
T ss_pred CEEEEechHHHHHHHHHHHHh---ccCCCcEEEECccccccccCCCcCCHHHHHHHHHhcCCCCEEEEEe
Confidence 578888876532222333322 23456677776655432 13466667777999888773
No 80
>PF00175 NAD_binding_1: Oxidoreductase NAD-binding domain ; InterPro: IPR001433 Bacterial ferredoxin-NADP+ reductase may be bound to the thylakoid membrane or anchored to the thylakoid-bound phycobilisomes. Chloroplast ferredoxin-NADP+ reductase (1.18.1.2 from EC) may play a key role in regulating the relative amounts of cyclic and non-cyclic electron flow to meet the demands of the plant for ATP and reducing power. It is involved in the final step in the linear photosynthetic electron transport chain and has also been implicated in cyclic electron flow around photosystem I where its role would be to return electrons from ferredoxin to the cytochrome B-F complex. This domain is present in a variety of proteins that include, bacterial flavohemoprotein, mammalian NADH-cytochrome b5 reductase, eukaryotic NADPH-cytochrome P450 reductase, nitrate reductase from plants, nitric-oxide synthase, bacterial vanillate demethylase, as well as others.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1UMK_A 1CNE_A 2CND_A 1CNF_A 4FK8_A 4F7D_A 2XNJ_B 1FDR_A 1JB9_A 3LVB_A ....
Probab=33.10 E-value=91 Score=21.79 Aligned_cols=59 Identities=24% Similarity=0.228 Sum_probs=38.6
Q ss_pred HHHHHHHHHhhCCceEEEecc--------cccchhHHHHHHHHHH-HHHhhCCeeEecCCCcchHHHH
Q 027296 128 YLQELLAIQQQGPRAIGFFGT--------RNMGFMHQELIEILSY-ALVITKNHIYTSGASGTNAAVI 186 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGs--------Rhvp~~hq~LIEllsy-Alvl~gn~i~TSGA~GtNaAvI 186 (225)
|..||.++++..+.++-++-. -+.++++..++|-+.. .+...+.++|..|..+...+|-
T Consensus 41 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~v~~~~~~~~~~~~~~~~~~~v~iCGp~~m~~~v~ 108 (109)
T PF00175_consen 41 FRDELEALAQEYPNRFHVVYVSSPDDGWDGFKGRVTDLLLEDLLPEKIDPDDTHVYICGPPPMMKAVR 108 (109)
T ss_dssp THHHHHHHHHHSTTCEEEEEETTTTSSTTSEESSHHHHHHHHHHHHHHCTTTEEEEEEEEHHHHHHHH
T ss_pred chhHHHHHHhhcccccccccccccccccCCceeehhHHHHHhhcccccCCCCCEEEEECCHHHHHHhc
Confidence 778899998888765433311 2345677766553333 4556788899999877766653
No 81
>PRK13392 5-aminolevulinate synthase; Provisional
Probab=33.09 E-value=53 Score=28.98 Aligned_cols=37 Identities=22% Similarity=0.090 Sum_probs=19.3
Q ss_pred hHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhh
Q 027296 154 MHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 154 ~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalr 191 (225)
.|.+|-|.++.-+-....-++|||+ ..|.++|+...+
T Consensus 92 ~~~~Le~~la~~~g~~~~i~~~sG~-~a~~~~i~~l~~ 128 (410)
T PRK13392 92 PHVLLERELADLHGKESALLFTSGY-VSNDAALSTLGK 128 (410)
T ss_pred HHHHHHHHHHHHhCCCCEEEECcHH-HHHHHHHHHHhc
Confidence 3566666665555444444455543 345566665444
No 82
>PRK06256 biotin synthase; Validated
Probab=32.93 E-value=3.4e+02 Score=23.75 Aligned_cols=65 Identities=8% Similarity=-0.005 Sum_probs=44.2
Q ss_pred hHHHHHHHHHhhCCceEEEecccccchhH--HHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 127 DYLQELLAIQQQGPRAIGFFGTRNMGFMH--QELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 127 D~lqELaaiQq~g~rrIa~lGsRhvp~~h--q~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
+++.|...+.+.|.+++.|+++-+-|... ..+.|++.+.-...+=++.+|.+. .+...++-.-+|
T Consensus 95 eI~~~~~~~~~~g~~~~~l~~~g~~p~~~~~~~~~e~i~~i~~~~~i~~~~~~g~-l~~e~l~~Lkea 161 (336)
T PRK06256 95 ELIEAAKEAIEEGAGTFCIVASGRGPSGKEVDQVVEAVKAIKEETDLEICACLGL-LTEEQAERLKEA 161 (336)
T ss_pred HHHHHHHHHHHCCCCEEEEEecCCCCCchHHHHHHHHHHHHHhcCCCcEEecCCc-CCHHHHHHHHHh
Confidence 48888888899999999998766655543 478888776654444456676554 555555543344
No 83
>PRK08133 O-succinylhomoserine sulfhydrylase; Validated
Probab=32.90 E-value=1.1e+02 Score=27.68 Aligned_cols=21 Identities=19% Similarity=0.185 Sum_probs=9.5
Q ss_pred CeeEecCCCcchHHHHHhhhh
Q 027296 171 NHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 171 n~i~TSGA~GtNaAvIRGalr 191 (225)
+-++|+|++..+.+++++.++
T Consensus 78 ~~v~~ssG~~Ai~~al~al~~ 98 (390)
T PRK08133 78 ACVATASGMAAILAVVMALLQ 98 (390)
T ss_pred cEEEECCHHHHHHHHHHHHhC
Confidence 344454444444444444433
No 84
>PRK09613 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=32.35 E-value=83 Score=30.38 Aligned_cols=41 Identities=10% Similarity=0.160 Sum_probs=32.0
Q ss_pred hh-HHHHHHHHHhhCCceEEEecccccch-hHHHHHHHHHHHH
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGTRNMGF-MHQELIEILSYAL 166 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGsRhvp~-~hq~LIEllsyAl 166 (225)
.| +++|..++.+.|-++|+++|..|-+- --..+.|++....
T Consensus 117 ~EEI~~ea~~~~~~G~~~i~LvsGe~p~~~~~eyi~e~i~~I~ 159 (469)
T PRK09613 117 QEEIREEVKALEDMGHKRLALVAGEDPPNCDIEYILESIKTIY 159 (469)
T ss_pred HHHHHHHHHHHHHCCCCEEEEEeCCCCCCCCHHHHHHHHHHHH
Confidence 45 99999999999999999999999443 3456666665544
No 85
>PF03059 NAS: Nicotianamine synthase protein; InterPro: IPR004298 Nicotianamine synthase 2.5.1.43 from EC catalyzes the trimerization of S-adenosylmethionine to yield one molecule of nicotianamine. Nicotianamine has an important role in plant iron uptake mechanisms. Plants adopt two strategies (termed I and II) of iron acquisition. Strategy I is adopted by all higher plants except graminaceous plants, which adopt strategy II [, ]. In strategy I plants, the role of nicotianamine is not fully determined: possible roles include the formation of more stable complexes with ferrous than with ferric ion, which might serve as a sensor of the physiological status of iron within a plant, or which might be involved in the transport of iron []. In strategy II (graminaceous) plants, nicotianamine is the key intermediate (and nicotianamine synthase the key enzyme) in the synthesis of the mugineic family (the only known family in plants) of phytosiderophores. Phytosiderophores are iron chelators whose secretion by the roots is greatly increased in instances of iron deficiency []. The 3D structures of five example NAS from Methanothermobacter thermautotrophicus reveal the monomer to consist of a five-helical bundle N-terminal domain on top of a classic Rossmann fold C-terminal domain. The N-terminal domain is unique to the NAS family, whereas the C-terminal domain is homologous to the class I family of SAM-dependent methyltransferases. An active site is created at the interface of the two domains, at the rim of a large cavity that corresponds to the nucleotide binding site such as is found in other proteins adopting a Rossmann fold [].; GO: 0030410 nicotianamine synthase activity, 0030418 nicotianamine biosynthetic process; PDB: 3O31_B 3FPH_A 3FPJ_A 3FPE_B 3FPF_B 3FPG_B.
Probab=32.08 E-value=44 Score=30.27 Aligned_cols=30 Identities=17% Similarity=0.274 Sum_probs=18.6
Q ss_pred HHHHHHHhhCC---ceEEEecccccchhHHHHH
Q 027296 130 QELLAIQQQGP---RAIGFFGTRNMGFMHQELI 159 (225)
Q Consensus 130 qELaaiQq~g~---rrIa~lGsRhvp~~hq~LI 159 (225)
.|+.++...+. +||+|+||--+|++...|.
T Consensus 108 lE~~~l~~~~~~~p~rVaFIGSGPLPlT~i~la 140 (276)
T PF03059_consen 108 LEYAALRIHAGDPPSRVAFIGSGPLPLTSIVLA 140 (276)
T ss_dssp HHHH-HTT--TT---EEEEE---SS-HHHHHHH
T ss_pred HHHHHHhhcCCcccceEEEEcCCCcchHHHHHH
Confidence 58888887665 6999999999999987765
No 86
>TIGR03812 tyr_de_CO2_Arch tyrosine decarboxylase MnfA. Members of this protein family are the archaeal form, MnfA, of tyrosine decarboxylase, and are involved in methanofuran biosynthesis. Members show clear homology to the Enterococcus form, Tdc, that is involved in tyrosine decarboxylation for resistance to acidic conditions.
Probab=32.01 E-value=71 Score=27.10 Aligned_cols=38 Identities=21% Similarity=0.277 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHHHHHhh-CCeeEecCCCcchHHHHHhhh
Q 027296 153 FMHQELIEILSYALVIT-KNHIYTSGASGTNAAVIRGAL 190 (225)
Q Consensus 153 ~~hq~LIEllsyAlvl~-gn~i~TSGA~GtNaAvIRGal 190 (225)
-+++++.|.++.-+-.. .+-++|+|++..|.++++.+.
T Consensus 59 ~~~~~~~~~la~~~g~~~~~~~~~~g~~~~~~~~~~~~~ 97 (373)
T TIGR03812 59 KIEEEVVGSLGNLLHLPDAYGYIVSGGTEANIQAVRAAK 97 (373)
T ss_pred HHHHHHHHHHHHHhCCCCCCeEEeccHHHHHHHHHHHHH
Confidence 34577778877655543 456888888877777776543
No 87
>PF03721 UDPG_MGDP_dh_N: UDP-glucose/GDP-mannose dehydrogenase family, NAD binding domain; InterPro: IPR001732 The UDP-glucose/GDP-mannose dehydrogenases are a small group of enzymes which possesses the ability to catalyse the NAD-dependent 2-fold oxidation of an alcohol to an acid without the release of an aldehyde intermediate [, ]. The enzymes have a wide range of functions. In plants UDP-glucose dehydrogenase, 1.1.1.22 from EC, is an important enzyme in the synthesis of hemicellulose and pectin [], which are the components of newly formed cell walls; while in zebrafish UDP-glucose dehydrogenase is required for cardiac valve formation []. In Xanthomonas campestris, a plant pathogen, UDP-glucose dehydrogenase is required for virulence []. GDP-mannose dehydrogenase, 1.1.1.132 from EC, catalyses the formation of GDP-mannuronic acid, which is the monomeric unit from which the exopolysaccharide alginate is formed. Alginate is secreted by a number of bacteria, which include Pseudomonas aeruginosa and Azotobacter vinelandii. In P. aeruginosa, alginate is believed to play an important role in the bacteria's resistance to antibiotics and the host immune response [], while in A. vinelandii it is essential for the encystment process []. This entry represents the N-terminal NAD(+)-binding domain. Structural studies indicate that this domain forms an alpha-beta structure containing the six-stranded parallel beta sheet characteristic of the dinucleotide binding Rossman fold [, ].; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0055114 oxidation-reduction process; PDB: 3OJO_A 3OJL_A 1MV8_B 1MUU_A 1MFZ_C 3GG2_D 1DLJ_A 1DLI_A 3G79_B 2Y0E_D ....
Probab=31.84 E-value=58 Score=26.90 Aligned_cols=42 Identities=14% Similarity=0.186 Sum_probs=25.6
Q ss_pred ceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 141 RAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 141 rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
.+||++|.-+++.. +|-+|+..||+++- -=+|...|...-+.
T Consensus 1 M~I~ViGlGyvGl~-------~A~~lA~~G~~V~g---~D~~~~~v~~l~~g 42 (185)
T PF03721_consen 1 MKIAVIGLGYVGLP-------LAAALAEKGHQVIG---VDIDEEKVEALNNG 42 (185)
T ss_dssp -EEEEE--STTHHH-------HHHHHHHTTSEEEE---E-S-HHHHHHHHTT
T ss_pred CEEEEECCCcchHH-------HHHHHHhCCCEEEE---EeCChHHHHHHhhc
Confidence 37899999998875 57778888888873 33555555554333
No 88
>cd06450 DOPA_deC_like DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and glutamate decarboxylase (GDC). DDC is active as a dimer and catalyzes the decarboxylation of tyrosine. GDC catalyzes the decarboxylation of glutamate and HDC catalyzes the decarboxylation of histidine.
Probab=31.54 E-value=93 Score=26.01 Aligned_cols=42 Identities=21% Similarity=0.282 Sum_probs=26.2
Q ss_pred ccchhHHHHHHHHHHHHHhh---CCeeEecCCCcchHHHHHhhhh
Q 027296 150 NMGFMHQELIEILSYALVIT---KNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 150 hvp~~hq~LIEllsyAlvl~---gn~i~TSGA~GtNaAvIRGalr 191 (225)
.+.-+=+.+++.++.-+-.. .+-++|+|++-.|..+++.+..
T Consensus 35 ~~~~le~~~~~~~~~~~g~~~~~~~~~~t~ggt~a~~~al~~~~~ 79 (345)
T cd06450 35 AATEMEAEVVNWLAKLFGLPSEDADGVFTSGGSESNLLALLAARD 79 (345)
T ss_pred hhHHHHHHHHHHHHHHhCCCCCCCCEEEeCChhHHHHHHHHHHHH
Confidence 33334444555554433222 3678999999888888888764
No 89
>PRK09064 5-aminolevulinate synthase; Validated
Probab=31.04 E-value=66 Score=28.17 Aligned_cols=16 Identities=13% Similarity=0.281 Sum_probs=10.4
Q ss_pred cccccCCccccCCCCc
Q 027296 88 IGMFGSDEDVGTQIPT 103 (225)
Q Consensus 88 ~~~f~~d~~~~~~ipt 103 (225)
...|++++-.|...+.
T Consensus 48 ~~~~~s~dylgl~~~p 63 (407)
T PRK09064 48 VTVWCSNDYLGMGQHP 63 (407)
T ss_pred EEEEECCCCcCCCCCH
Confidence 3478888777766443
No 90
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=30.88 E-value=65 Score=26.23 Aligned_cols=45 Identities=13% Similarity=0.059 Sum_probs=28.6
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHH-hhCCeeEecCCCcch
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALV-ITKNHIYTSGASGTN 182 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlv-l~gn~i~TSGA~GtN 182 (225)
+++.|-.-+ . ..++|==...|.|.+..++. ..-.-|+|||++|.-
T Consensus 31 L~~~G~~v~-~--~~iv~Dd~~~i~~~l~~~~~~~~~DlVIttGGtg~g 76 (163)
T TIGR02667 31 LTEAGHRLA-D--RAIVKDDIYQIRAQVSAWIADPDVQVILITGGTGFT 76 (163)
T ss_pred HHHCCCeEE-E--EEEcCCCHHHHHHHHHHHHhcCCCCEEEECCCcCCC
Confidence 556664321 1 22344445667777777764 467899999999864
No 91
>PLN03083 E3 UFM1-protein ligase 1 homolog; Provisional
Probab=30.73 E-value=20 Score=37.25 Aligned_cols=109 Identities=22% Similarity=0.292 Sum_probs=63.9
Q ss_pred cccccccccccccCCccccCCCCccchhhhcccceeeecccccCCC--hh-HHHHHHH-HHhhCCceEEEecccc-cc--
Q 027296 80 LRSEEENVIGMFGSDEDVGTQIPTQAQSVVEGSGAVMVSEFKPVPD--VD-YLQELLA-IQQQGPRAIGFFGTRN-MG-- 152 (225)
Q Consensus 80 ~~~~~~~~~~~f~~d~~~~~~iptq~~~~v~g~~~v~~~~~~~~p~--vD-~lqELaa-iQq~g~rrIa~lGsRh-vp-- 152 (225)
+|-.-.++....+-|-+ .|=.+++.||+....+..-.-..+-+ +| +++|+.. +|+.|.=.|+=|-..+ .|
T Consensus 73 GRvnlvdLa~~LnVD~~---hiEr~~~~iv~~d~~~~l~~GeLit~~Yld~iaeEIne~LqE~G~isI~eLa~~~~Lpse 149 (803)
T PLN03083 73 GRVSLVDLADTIGVDLY---HVERQAQQVVSDDPGLMLVQGEIISQSYWDSIAEEINERLQECSQIALAELARQLQVGSE 149 (803)
T ss_pred CCeeHHHHhhhcCCCHH---HHHHHHHHHhcCCCceEEecCEecchHHHHHHHHHHHHHHHHcCcChHHHHHHhcCChHH
Confidence 34444555666666665 56667777776653333222222222 56 7778764 7888877776554332 22
Q ss_pred hhHHHHHHHHHHHHH---hhCCeeEecCCCcchHHHHHhhhhc
Q 027296 153 FMHQELIEILSYALV---ITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 153 ~~hq~LIEllsyAlv---l~gn~i~TSGA~GtNaAvIRGalra 192 (225)
|+-..|.+-+. ... +.||.|||.-=-.-..|.|||+|+|
T Consensus 150 fl~~~l~~rlG-~iI~g~~~g~~lyT~aYv~r~~a~vRG~l~A 191 (803)
T PLN03083 150 LVTSMLEPRLG-TIVKARLEGGQLYTPAYVARVTAMVRGAARG 191 (803)
T ss_pred HHHHHHHHHhc-cceEEEecCCEEecHHHHHHHHHHHHHHHHH
Confidence 23333333222 111 4789999966666777999999999
No 92
>PF10727 Rossmann-like: Rossmann-like domain; InterPro: IPR019665 This entry represents an NAD/NADP-binding domain with a core Rossmann-type fold, found in an uncharacterised protein family thought to be putative NADP oxidoreductase coenzyme F420-dependent proteins and/or NAD-dependent glycerol-3-phosphate dehydrogenase-like proteins. This Rossmann-fold domain consists of 3-layers alpha/beta/alpha, where the six beta strands are parallel in the order 321456.; PDB: 3DFU_A 3C24_A.
Probab=30.66 E-value=65 Score=25.73 Aligned_cols=32 Identities=25% Similarity=0.360 Sum_probs=23.1
Q ss_pred HhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeE
Q 027296 136 QQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIY 174 (225)
Q Consensus 136 Qq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~ 174 (225)
+|.+.-+|+|+|.-+|+.. |+++|...||+|.
T Consensus 6 ~~~~~l~I~iIGaGrVG~~-------La~aL~~ag~~v~ 37 (127)
T PF10727_consen 6 TQAARLKIGIIGAGRVGTA-------LARALARAGHEVV 37 (127)
T ss_dssp ------EEEEECTSCCCCH-------HHHHHHHTTSEEE
T ss_pred cCCCccEEEEECCCHHHHH-------HHHHHHHCCCeEE
Confidence 3677889999999999974 7888899999975
No 93
>cd06449 ACCD Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia.
Probab=30.52 E-value=1.9e+02 Score=25.02 Aligned_cols=49 Identities=12% Similarity=0.069 Sum_probs=29.3
Q ss_pred HHHHHHHHHHhhCCeeEecCC-CcchHHHHHhhhhccCCCeeEEEecCccc
Q 027296 158 LIEILSYALVITKNHIYTSGA-SGTNAAVIRGALRAERPDLLTVILPQSLK 207 (225)
Q Consensus 158 LIEllsyAlvl~gn~i~TSGA-~GtNaAvIRGalrae~p~lLTViLPQSL~ 207 (225)
+..++..|....-..|+|+|+ +|-.++..--+-+. .==..+|++|....
T Consensus 40 ~~~~l~~a~~~g~~~vv~~ggs~GN~g~alA~~a~~-~G~~~~i~v~~~~~ 89 (307)
T cd06449 40 LEYLLPDALAKGADTLVTVGGIQSNHTRQVAAVAAK-LGLKCVLVQENWVP 89 (307)
T ss_pred HHHHHHHHHHcCCCEEEECCCchhHHHHHHHHHHHH-cCCeEEEEecCCCC
Confidence 555666676665678899875 44444333333333 33457888997655
No 94
>PRK14072 6-phosphofructokinase; Provisional
Probab=30.37 E-value=26 Score=33.00 Aligned_cols=18 Identities=28% Similarity=0.361 Sum_probs=12.7
Q ss_pred eEecCC--CcchHHHHHhhhh
Q 027296 173 IYTSGA--SGTNAAVIRGALR 191 (225)
Q Consensus 173 i~TSGA--~GtNaAvIRGalr 191 (225)
|+|||+ .|.||| |||+.+
T Consensus 8 IltsGGdapGmNaa-Ir~vv~ 27 (416)
T PRK14072 8 YAQSGGPTAVINAS-AAGVIE 27 (416)
T ss_pred EEccCCchHHHHHH-HHHHHH
Confidence 789998 899974 444444
No 95
>PF01042 Ribonuc_L-PSP: Endoribonuclease L-PSP; InterPro: IPR006175 This domain is found in endoribonuclease, that is active on single-stranded mRNA and inhibits protein synthesis by cleavage of mRNA []. Previously it was thought to inhibit protein synthesis initiation []. This endoribonuclease may also be involved in the regulation of purine biosynthesis []. ; PDB: 3GTZ_B 3V4D_E 1J7H_A 3R0P_D 2IG8_A 1QD9_B 3L7Q_E 3VCZ_A 3QUW_A 2EWC_K ....
Probab=30.06 E-value=12 Score=28.23 Aligned_cols=42 Identities=14% Similarity=0.357 Sum_probs=28.9
Q ss_pred hhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHHHHHHHhhh
Q 027296 168 ITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLAKVRV 222 (225)
Q Consensus 168 l~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~elLe~V~n 222 (225)
..|+.||+||-.|.+. +--++. |.+++.|-...-+.|++++.
T Consensus 16 ~~g~~v~isGq~~~d~------------~~~~~~-~~~~~~Q~~~~l~ni~~~L~ 57 (121)
T PF01042_consen 16 RAGDTVFISGQVGIDP------------ATGQVV-PGDIEEQTRQALDNIERILA 57 (121)
T ss_dssp EETTEEEEEEEESBCT------------TTSSBS-SSSHHHHHHHHHHHHHHHHH
T ss_pred EECCEEEEeeeCCcCC------------CCCcCC-CCCHHHHHHHHHHhhhhhhh
Confidence 4799999999888765 222233 77777777776666666654
No 96
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.77 E-value=3.2e+02 Score=22.45 Aligned_cols=36 Identities=14% Similarity=0.031 Sum_probs=22.7
Q ss_pred HHHhhCCceEEEeccc-ccchhHHHHHHHHHHHHHhhC
Q 027296 134 AIQQQGPRAIGFFGTR-NMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 134 aiQq~g~rrIa~lGsR-hvp~~hq~LIEllsyAlvl~g 170 (225)
.+-++|.|+|||+|+. +.. ..+.-.+=...|+...|
T Consensus 112 ~L~~~G~~~I~~i~~~~~~~-~~~~R~~gf~~a~~~~g 148 (269)
T cd06287 112 HLRAQGARQIALIVGSARRN-SYLEAEAAYRAFAAEHG 148 (269)
T ss_pred HHHHcCCCcEEEEeCCcccc-cHHHHHHHHHHHHHHcC
Confidence 4567899999999653 432 33444555566666544
No 97
>cd02762 MopB_1 The MopB_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=29.72 E-value=1.5e+02 Score=27.81 Aligned_cols=31 Identities=29% Similarity=0.576 Sum_probs=22.5
Q ss_pred ccccCC---Chh-HHHHHHHHHh-hCCceEEEeccc
Q 027296 119 EFKPVP---DVD-YLQELLAIQQ-QGPRAIGFFGTR 149 (225)
Q Consensus 119 ~~~~~p---~vD-~lqELaaiQq-~g~rrIa~lGsR 149 (225)
+++++. .+| ++++|.+|++ .|+..|+++++.
T Consensus 65 ~~~~isWdeAl~~ia~kl~~i~~~~G~~~i~~~~g~ 100 (539)
T cd02762 65 SFEEIDWDEAFDEIAERLRAIRARHGGDAVGVYGGN 100 (539)
T ss_pred ceeEeCHHHHHHHHHHHHHHHHHHhCCCeEEEEecC
Confidence 345544 267 7788888876 699999999654
No 98
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=29.71 E-value=2.1e+02 Score=24.03 Aligned_cols=68 Identities=16% Similarity=0.225 Sum_probs=0.0
Q ss_pred HHHHHhhCCceEEEecccccchhHHHHHHHHHHHH--HhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEec
Q 027296 132 LLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYAL--VITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILP 203 (225)
Q Consensus 132 LaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAl--vl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLP 203 (225)
...+.+.|.|+|+|+....-- -+...|.+..++ ...+...+..|.+-....+.+ +++.+||.+.+..+
T Consensus 126 ~~~~~~~g~~~vail~~~~~~--g~~~~~~~~~~~~~~v~~~~~~~~~~~d~~~~i~~--l~~~~pd~v~~~~~ 195 (333)
T cd06359 126 GKYAQDKGYKRVFLIAPNYQA--GKDALAGFKRTFKGEVVGEVYTKLGQLDFSAELAQ--IRAAKPDAVFVFLP 195 (333)
T ss_pred HHHHHHhCCCeEEEEecCchh--hHHHHHHHHHHhCceeeeeecCCCCCcchHHHHHH--HHhCCCCEEEEEcc
No 99
>cd06155 eu_AANH_C_1 A group of hypothetical eukaryotic proteins, characterized by the presence of an adenine nucleotide alpha hydrolase (AANH)-like domain located N-terminal to two distinctly different YjgF-YER057c-UK114-like domains. This CD contains the first of these domains. The YjgF-YER057c-UK114 protein family is a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no functional connection. Members of this family have been implicated in isoleucine (Yeo7, Ibm1, aldR) and purine (YjgF) biosynthesis, as well as threonine anaerobic degradation (tdcF) and mitochondrial DNA maintenance (Ibm1). This domain homotrimerizes forming a distinct intersubunit cavity that may serve as a small molecule binding site.
Probab=29.49 E-value=30 Score=25.57 Aligned_cols=15 Identities=13% Similarity=0.244 Sum_probs=12.8
Q ss_pred hhCCeeEecCCCcch
Q 027296 168 ITKNHIYTSGASGTN 182 (225)
Q Consensus 168 l~gn~i~TSGA~GtN 182 (225)
..||.+|+||-.|.+
T Consensus 5 ~~g~~v~vSG~~~~~ 19 (101)
T cd06155 5 RTGGLLWISNVTASE 19 (101)
T ss_pred EECCEEEEecCCCCC
Confidence 358999999998876
No 100
>cd02750 MopB_Nitrate-R-NarG-like Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to nitrite and forms part of a redox loop generating a proton-motive force. Found in prokaryotes and some archaea, NarGHI usually functions as a heterotrimer. The alpha chain contains the molybdenum cofactor-containing Mo-bisMGD catalytic subunit. Members of the MopB_Nitrate-R-NarG-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=29.44 E-value=1.1e+02 Score=28.07 Aligned_cols=56 Identities=11% Similarity=0.132 Sum_probs=33.9
Q ss_pred ccccCCC---hh-HHHHHHHHHh-hCCceEEEecc-cccchhHHHHHHHHHHHHHhhCCeeEec
Q 027296 119 EFKPVPD---VD-YLQELLAIQQ-QGPRAIGFFGT-RNMGFMHQELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 119 ~~~~~p~---vD-~lqELaaiQq-~g~rrIa~lGs-Rhvp~~hq~LIEllsyAlvl~gn~i~TS 176 (225)
+++++.= +| ++++|.+|++ .|+..|+++++ .+.+..+..+..-+.. ++.++++...
T Consensus 81 ~~~~isWdeAl~~ia~~l~~i~~~~G~~~i~~~~~~~~~~~~~~~~~~~~~~--~~Gs~~~~~~ 142 (461)
T cd02750 81 KWKRISWDEALELIADAIIDTIKKYGPDRVIGFSPIPAMSMVSYAAGSRFAS--LIGGVSLSFY 142 (461)
T ss_pred ceEEecHHHHHHHHHHHHHHHHHHhCCceEEeeccCCcccchhhHHHHHHHH--hcCCccCCCC
Confidence 5666652 66 7788888865 59999999876 4444444444333333 3444554433
No 101
>cd02763 MopB_2 The MopB_2 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins
Probab=29.18 E-value=1.3e+02 Score=30.27 Aligned_cols=55 Identities=18% Similarity=0.295 Sum_probs=35.7
Q ss_pred ccccCC---Chh-HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC
Q 027296 119 EFKPVP---DVD-YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA 178 (225)
Q Consensus 119 ~~~~~p---~vD-~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA 178 (225)
+++++. .+| ++++|.+|+.+|+..|++++++... +.+...+..+ +.-+++.+.|+
T Consensus 69 ~f~~ISWDEAld~IA~kL~~i~~~gp~~ia~~~g~~~~---~~l~~~f~~~--lGt~n~~~~~~ 127 (679)
T cd02763 69 QFEEIEWEEAFSIATKRLKAARATDPKKFAFFTGRDQM---QALTGWFAGQ--FGTPNYAAHGG 127 (679)
T ss_pred ceEEeCHHHHHHHHHHHHHHHHHhCCCeEEEEeCCccH---HHHHHHHHHh--cCCCCcCCCCC
Confidence 456655 266 7899999999999999999766531 3444444433 44455555443
No 102
>PRK03604 moaC bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional
Probab=29.14 E-value=60 Score=29.83 Aligned_cols=51 Identities=14% Similarity=0.083 Sum_probs=36.0
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchH
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNA 183 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNa 183 (225)
+++++ +++.|-.. ....++|==+..|.|.+..++...-+-|+|||++|...
T Consensus 179 ~L~~~--L~~~G~~v---~~~~iVpDD~~~I~~al~~a~~~~~DlIITTGGtg~g~ 229 (312)
T PRK03604 179 LIVEG--LEEAGFEV---SHYTIIPDEPAEIAAAVAAWIAEGYALIITTGGTGLGP 229 (312)
T ss_pred HHHHH--HHHCCCEE---EEEEEcCCCHHHHHHHHHHhhhCCCCEEEECCCCCCCC
Confidence 55555 56667542 33455566677888888888766679999999999765
No 103
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=29.02 E-value=77 Score=25.09 Aligned_cols=45 Identities=18% Similarity=0.132 Sum_probs=27.7
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHh-hCCeeEecCCCcch
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVI-TKNHIYTSGASGTN 182 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl-~gn~i~TSGA~GtN 182 (225)
+++.|-..+ . ...++==...|.|.+..++.. .-..|+|+|++|.-
T Consensus 29 l~~~G~~v~-~--~~~v~Dd~~~i~~~l~~~~~~~~~DlVittGG~s~g 74 (152)
T cd00886 29 LEEAGHEVV-A--YEIVPDDKDEIREALIEWADEDGVDLILTTGGTGLA 74 (152)
T ss_pred HHHcCCeee-e--EEEcCCCHHHHHHHHHHHHhcCCCCEEEECCCcCCC
Confidence 566664311 1 122333346777888777542 56789999999864
No 104
>PRK03670 competence damage-inducible protein A; Provisional
Probab=28.86 E-value=63 Score=28.53 Aligned_cols=45 Identities=16% Similarity=0.166 Sum_probs=29.6
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcch
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTN 182 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtN 182 (225)
+.+.|-.- .....+|==...|.|.+..++.....-|+|||+.|..
T Consensus 29 L~~~G~~v---~~~~iV~Dd~~~I~~~l~~a~~~~~DlVIttGGlGpt 73 (252)
T PRK03670 29 LTEKGYWV---RRITTVGDDVEEIKSVVLEILSRKPEVLVISGGLGPT 73 (252)
T ss_pred HHHCCCEE---EEEEEcCCCHHHHHHHHHHHhhCCCCEEEECCCccCC
Confidence 44556432 2223344446778888888776566899999999864
No 105
>PRK03244 argD acetylornithine aminotransferase; Provisional
Probab=28.42 E-value=80 Score=27.57 Aligned_cols=21 Identities=14% Similarity=0.164 Sum_probs=11.3
Q ss_pred CeeEecCCCcchHHHHHhhhh
Q 027296 171 NHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 171 n~i~TSGA~GtNaAvIRGalr 191 (225)
+-++|+|++-.|.+++|.+..
T Consensus 105 ~v~~~~sgsea~~~al~~~~~ 125 (398)
T PRK03244 105 RVFFCNSGAEANEAAFKLARL 125 (398)
T ss_pred EEEEeCchHHHHHHHHHHHHH
Confidence 445555555555555555444
No 106
>PLN02822 serine palmitoyltransferase
Probab=27.93 E-value=48 Score=31.04 Aligned_cols=48 Identities=23% Similarity=0.216 Sum_probs=32.7
Q ss_pred EEecccccc---hhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 144 GFFGTRNMG---FMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 144 a~lGsRhvp---~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
+.-|+|++. =.|.+|-|-|+.-+--...-+||+|++ +|.++|+.....
T Consensus 142 g~~g~r~~yg~~~~~~~Lee~La~~~~~~~~i~~s~G~~-a~~sai~a~~~~ 192 (481)
T PLN02822 142 GSCGPRGFYGTIDVHLDCETKIAKFLGTPDSILYSYGLS-TIFSVIPAFCKK 192 (481)
T ss_pred CCcccCccccCHHHHHHHHHHHHHHhCCCCEEEECCHHH-HHHHHHHHhCCC
Confidence 334555532 247777777777776566777888888 689999966543
No 107
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=27.85 E-value=96 Score=26.02 Aligned_cols=61 Identities=18% Similarity=0.184 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhCCc-eEEEeccc-------ccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 128 YLQELLAIQQQGPR-AIGFFGTR-------NMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 128 ~lqELaaiQq~g~r-rIa~lGsR-------hvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
|..||.+++++ ++ ++-++-+| +.++++..|.|+. ...++.++|..|..+...++.+-..+.
T Consensus 144 ~~~~L~~l~~~-~~~~~~~~~s~~~~~~~~~~g~v~~~l~~~~---~~~~~~~vyicGp~~mv~~~~~~L~~~ 212 (253)
T cd06221 144 FKEELKEWAKR-SDVEVILTVDRAEEGWTGNVGLVTDLLPELT---LDPDNTVAIVCGPPIMMRFVAKELLKL 212 (253)
T ss_pred hHHHHHHHHhc-CCeEEEEEeCCCCCCccCCccccchhHHhcC---CCcCCcEEEEECCHHHHHHHHHHHHHc
Confidence 67888888876 32 33333333 3456665544432 233677899999999888877666543
No 108
>PRK05406 LamB/YcsF family protein; Provisional
Probab=27.84 E-value=52 Score=29.77 Aligned_cols=59 Identities=31% Similarity=0.442 Sum_probs=42.0
Q ss_pred ecccccchhHHHHHHHHHHHHHhh----------CCeeEecCC--------CcchHHHHHhhhhccCCCeeEEEecCc
Q 027296 146 FGTRNMGFMHQELIEILSYALVIT----------KNHIYTSGA--------SGTNAAVIRGALRAERPDLLTVILPQS 205 (225)
Q Consensus 146 lGsRhvp~~hq~LIEllsyAlvl~----------gn~i~TSGA--------~GtNaAvIRGalrae~p~lLTViLPQS 205 (225)
||-|+|.+.+.+|.+++.|=+..- =+||=-=|| .....||+++..+. +|++.-+.+|.|
T Consensus 72 FGRR~m~~s~~el~~~v~yQigAL~~~a~~~g~~l~hVKPHGALYN~~~~d~~~a~av~~ai~~~-~~~l~l~~~~~s 148 (246)
T PRK05406 72 FGRRNMDLSPEELYALVLYQIGALQAIARAAGGRVSHVKPHGALYNMAAKDPALADAVAEAVAAV-DPSLILVGLAGS 148 (246)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHcCCeeEEeCccHHHHHHHhcCHHHHHHHHHHHHHh-CCCcEEEecCCh
Confidence 899999999999999999854321 134444455 23445778866665 999888888876
No 109
>TIGR03700 mena_SCO4494 putative menaquinone biosynthesis protein, SCO4494 family. Members of this protein family appear to be involved in menaquinone biosynthesis by an alternate pathway via futalosine, based on close phylogenetic correlation with known markers of the futalosine pathway, gene clustering in many organisms, and paralogy with the SCO4550 protein.
Probab=27.69 E-value=1.3e+02 Score=27.09 Aligned_cols=43 Identities=5% Similarity=0.112 Sum_probs=32.2
Q ss_pred hh-HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHh
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVI 168 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl 168 (225)
.| +++++.++.+.|-++|+|.|..|...--..+.|++.+--..
T Consensus 81 ~eeI~~~a~~~~~~G~~~v~l~~G~~p~~~~~~~~e~i~~Ik~~ 124 (351)
T TIGR03700 81 LEEIVARVKEAYAPGATEVHIVGGLHPNLPFEWYLDMIRTLKEA 124 (351)
T ss_pred HHHHHHHHHHHHHCCCcEEEEecCCCCCCCHHHHHHHHHHHHHH
Confidence 35 88888888999999999998888654445677776655433
No 110
>cd06200 SiR_like1 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD
Probab=27.62 E-value=3.5e+02 Score=22.63 Aligned_cols=63 Identities=22% Similarity=0.184 Sum_probs=37.4
Q ss_pred HHHHHHHHHhhCCc-eEEEeccc---ccchhHHHHHHHHHH--HHHhhCCeeEecCCC-cchHHHHHhhh
Q 027296 128 YLQELLAIQQQGPR-AIGFFGTR---NMGFMHQELIEILSY--ALVITKNHIYTSGAS-GTNAAVIRGAL 190 (225)
Q Consensus 128 ~lqELaaiQq~g~r-rIa~lGsR---hvp~~hq~LIEllsy--Alvl~gn~i~TSGA~-GtNaAvIRGal 190 (225)
|..||.+++..++. ++-+.=|| ..++++..|.|.+.. .+...+-++|..|.. |.-.+|.+...
T Consensus 154 ~~~el~~~~~~~~~~~~~~~~s~~~~~~~~v~~~l~~~~~~~~~~~~~~~~vy~CGp~~~m~~~v~~~l~ 223 (245)
T cd06200 154 CREELEAWQAAGHLARLDLAFSRDQAQKRYVQDRLRAAADELRAWVAEGAAIYVCGSLQGMAPGVDAVLD 223 (245)
T ss_pred HHHHHHHHHHCCCcceEEEEEccCCCCCcchHHHHHHhHHHHHHHHHCCcEEEEECCchhhhHHHHHHHH
Confidence 67888888877653 22222222 245666555544321 112245589999998 88888777554
No 111
>cd01822 Lysophospholipase_L1_like Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity.
Probab=27.54 E-value=1.9e+02 Score=21.55 Aligned_cols=13 Identities=15% Similarity=-0.003 Sum_probs=6.1
Q ss_pred HHHHHHHHHHHHH
Q 027296 155 HQELIEILSYALV 167 (225)
Q Consensus 155 hq~LIEllsyAlv 167 (225)
..++++-+...+.
T Consensus 49 ~~~~~~~l~~~~~ 61 (177)
T cd01822 49 TAGGLARLPALLA 61 (177)
T ss_pred cHHHHHHHHHHHH
Confidence 3445555544443
No 112
>COG1669 Predicted nucleotidyltransferases [General function prediction only]
Probab=27.27 E-value=51 Score=26.26 Aligned_cols=16 Identities=19% Similarity=0.573 Sum_probs=13.4
Q ss_pred HHHH-hhCCceEEEecc
Q 027296 133 LAIQ-QQGPRAIGFFGT 148 (225)
Q Consensus 133 aaiQ-q~g~rrIa~lGs 148 (225)
..++ +.|-++||+|||
T Consensus 16 ~~l~~k~gv~~~~vFGS 32 (97)
T COG1669 16 PELKEKYGVKRVAVFGS 32 (97)
T ss_pred HHHHHHhCCceEEEeee
Confidence 3456 789999999998
No 113
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=27.13 E-value=1.5e+02 Score=23.36 Aligned_cols=34 Identities=18% Similarity=0.079 Sum_probs=23.4
Q ss_pred hhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 137 QQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 137 q~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
++|.|+|+++|...--..++.-++=+..++...|
T Consensus 113 ~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~ 146 (264)
T cd06274 113 AAPPEEVLFLGGLPELSPSRERLAGFRQALADAG 146 (264)
T ss_pred HCCCCcEEEEeCCCcccchHHHHHHHHHHHHHcC
Confidence 4899999999776543445555666666666655
No 114
>PRK14489 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobA/MobB; Provisional
Probab=27.07 E-value=1.7e+02 Score=26.54 Aligned_cols=51 Identities=22% Similarity=0.265 Sum_probs=38.5
Q ss_pred CCChhHHHHHHHHHhh-------CCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEe
Q 027296 123 VPDVDYLQELLAIQQQ-------GPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYT 175 (225)
Q Consensus 123 ~p~vD~lqELaaiQq~-------g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~T 175 (225)
+=++|.-+||..++.. ..+.|+|.|..+.+=+ .|||-+-..|...|-++.+
T Consensus 181 ~~nINTpeDl~~l~~~~~~~~~~~~~~~~~~g~~~~GKt--t~~~~l~~~l~~~g~~v~~ 238 (366)
T PRK14489 181 FFNVNTPEDLEQLRAIPDGTTTGAPPLLGVVGYSGTGKT--TLLEKLIPELIARGYRIGL 238 (366)
T ss_pred cccCCCHHHHHHHhhhhhcccCCCccEEEEecCCCCCHH--HHHHHHHHHHHHcCCEEEE
Confidence 3357788888888776 5789999999999976 4777777777777765543
No 115
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=26.92 E-value=3.4e+02 Score=24.16 Aligned_cols=66 Identities=20% Similarity=0.235 Sum_probs=52.3
Q ss_pred HHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEE
Q 027296 130 QELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVI 201 (225)
Q Consensus 130 qELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTVi 201 (225)
+....+++.|-.-+.+.-+.. -+.+|+...|.....-.|+-.|+=||=-.||-|..+.++|. |.||
T Consensus 24 ~~~~~l~~~g~~~~~~~t~~~-----g~a~~~a~~a~~~~~D~via~GGDGTv~evingl~~~~~~~-Lgil 89 (301)
T COG1597 24 EVEELLEEAGHELSVRVTEEA-----GDAIEIAREAAVEGYDTVIAAGGDGTVNEVANGLAGTDDPP-LGIL 89 (301)
T ss_pred HHHHHHHhcCCeEEEEEeecC-----ccHHHHHHHHHhcCCCEEEEecCcchHHHHHHHHhcCCCCc-eEEe
Confidence 344556777777777766655 46788888888888999999999999999999999997776 6554
No 116
>PRK00950 histidinol-phosphate aminotransferase; Validated
Probab=26.87 E-value=66 Score=27.34 Aligned_cols=22 Identities=14% Similarity=0.271 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHhhCCeeEecC
Q 027296 156 QELIEILSYALVITKNHIYTSG 177 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TSG 177 (225)
+++|.++..++...|.+|+++-
T Consensus 97 ~~~i~~~~~~~~~~gd~vlv~~ 118 (361)
T PRK00950 97 DEVIDTLMRTFIDPGDEVIIPT 118 (361)
T ss_pred HHHHHHHHHHhcCCCCEEEEcC
Confidence 4555566555555565555443
No 117
>COG1794 RacX Aspartate racemase [Cell envelope biogenesis, outer membrane]
Probab=26.80 E-value=44 Score=30.28 Aligned_cols=29 Identities=28% Similarity=0.570 Sum_probs=22.2
Q ss_pred ccCCChhHHHH-HHHHHhhCCceEEEeccc
Q 027296 121 KPVPDVDYLQE-LLAIQQQGPRAIGFFGTR 149 (225)
Q Consensus 121 ~~~p~vD~lqE-LaaiQq~g~rrIa~lGsR 149 (225)
..+|=++++.| ..+|+..|-||+|+||||
T Consensus 97 ~~iPllhIidaTa~~ik~~g~kkvgLLgT~ 126 (230)
T COG1794 97 VGIPLLHIIDATAKAIKAAGAKKVGLLGTR 126 (230)
T ss_pred cCCCeehHHHHHHHHHHhcCCceeEEeecc
Confidence 34566666655 457888999999999997
No 118
>TIGR01931 cysJ sulfite reductase [NADPH] flavoprotein, alpha-component. This model describes an NADPH-dependent sulfite reductase flavoprotein subunit. Most members of this family are found in Cys biosynthesis gene clusters. The closest homologs below the trusted cutoff are designated as subunits nitrate reductase.
Probab=26.53 E-value=2.9e+02 Score=27.07 Aligned_cols=60 Identities=18% Similarity=0.251 Sum_probs=38.1
Q ss_pred HHHHHHHHHhhCCce-EEEeccc---ccchhHHHHHHHHH--HHHHhhCCeeEecC-CCcchHHHHH
Q 027296 128 YLQELLAIQQQGPRA-IGFFGTR---NMGFMHQELIEILS--YALVITKNHIYTSG-ASGTNAAVIR 187 (225)
Q Consensus 128 ~lqELaaiQq~g~rr-Ia~lGsR---hvp~~hq~LIElls--yAlvl~gn~i~TSG-A~GtNaAvIR 187 (225)
|..||...++.|.-. +-.--|| +-++++..|.|-.. +.+...|-++|..| +.+...+|.+
T Consensus 496 y~~El~~~~~~~~l~~l~~afSRd~~~k~yVqd~l~e~~~~~~~~l~~~a~vYvCG~~~~M~~~V~~ 562 (597)
T TIGR01931 496 YQVEWQNYLKKGVLTKMDLAFSRDQAEKIYVQHRIREQGAELWQWLQEGAHIYVCGDAKKMAKDVHQ 562 (597)
T ss_pred HHHHHHHHHHcCCCceeEEEEecCCCCCccHHHHHHHhHHHHHHHHhCCcEEEEECCCccccHHHHH
Confidence 778898888887632 3333355 45677666665432 23344788999999 7777655544
No 119
>PF12390 Se-cys_synth_N: Selenocysteine synthase N terminal
Probab=26.43 E-value=34 Score=22.29 Aligned_cols=13 Identities=46% Similarity=0.782 Sum_probs=9.9
Q ss_pred cccCCChh-HHHHH
Q 027296 120 FKPVPDVD-YLQEL 132 (225)
Q Consensus 120 ~~~~p~vD-~lqEL 132 (225)
|+.||+|| +|++.
T Consensus 1 lR~LPsVD~lL~~~ 14 (40)
T PF12390_consen 1 LRQLPSVDELLQEP 14 (40)
T ss_pred CCCCchHHHHHhCh
Confidence 57899999 77654
No 120
>cd00368 Molybdopterin-Binding Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and tungsten-containing enzymes, including formate dehydrogenase-H (Fdh-H) and -N (Fdh-N), several forms of nitrate reductase (Nap, Nas, NarG), dimethylsulfoxide reductase (DMSOR), thiosulfate reductase, formylmethanofuran dehydrogenase, and arsenite oxidase. Molybdenum is present in most of these enzymes in the form of molybdopterin, a modified pterin ring with a dithiolene side chain, which is responsible for ligating the Mo. In many bacterial and archaeal species, molybdopterin is in the form of a dinucleotide, with two molybdopterin dinucleotide units per molybdenum. These proteins can function as monomers, heterodimers, or heterotrimers, depending on the protein and organism. Also included in the MopB superfamily is
Probab=26.19 E-value=2.1e+02 Score=24.34 Aligned_cols=58 Identities=24% Similarity=0.418 Sum_probs=33.0
Q ss_pred ccccCCC---hh-HHHHHHHHHh-hCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC
Q 027296 119 EFKPVPD---VD-YLQELLAIQQ-QGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA 178 (225)
Q Consensus 119 ~~~~~p~---vD-~lqELaaiQq-~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA 178 (225)
+++++.- +| +++.|..+.+ .|++.|+++++.+....-..++.-+ +..+.++.+.+.+.
T Consensus 67 ~~~~isWdeAl~~ia~~l~~~~~~~g~~~i~~~~~~~~~~~~~~~~~~~--~~~~g~~~~~~~~~ 129 (374)
T cd00368 67 KFVPISWDEALDEIAEKLKEIREKYGPDAIAFYGGGGASNEEAYLLQKL--LRALGSNNVDSHAR 129 (374)
T ss_pred CeEEecHHHHHHHHHHHHHHHHHHhCCceEEEEecCCCCcHHHHHHHHH--HHhcCCCccCCCCc
Confidence 4555542 45 5666766665 5899999887766554333333222 23455566655544
No 121
>cd02754 MopB_Nitrate-R-NapA-like Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol oxidation via a membrane-anchored tetraheme cytochrome. Members of the MopB_Nitrate-R-NapA CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=26.08 E-value=1.5e+02 Score=27.64 Aligned_cols=42 Identities=26% Similarity=0.410 Sum_probs=30.5
Q ss_pred ccccCCC---hh-HHHHHHHHHh-hCCceEEEecccccchhHHHHHH
Q 027296 119 EFKPVPD---VD-YLQELLAIQQ-QGPRAIGFFGTRNMGFMHQELIE 160 (225)
Q Consensus 119 ~~~~~p~---vD-~lqELaaiQq-~g~rrIa~lGsRhvp~~hq~LIE 160 (225)
+++.+.- +| +++.|..|++ .|+..|+++|+.++..-...++.
T Consensus 66 ~~~~iSWdeAl~~ia~kl~~i~~~~G~~~i~~~~~~~~~~e~~~~~~ 112 (565)
T cd02754 66 ELVPVSWDEALDLIAERFKAIQAEYGPDSVAFYGSGQLLTEEYYAAN 112 (565)
T ss_pred CEEEccHHHHHHHHHHHHHHHHHHhCCCeEEEEecCCccHHHHHHHH
Confidence 5666662 66 7788888875 79999999999887755444443
No 122
>TIGR01274 ACC_deam 1-aminocyclopropane-1-carboxylate deaminase. This pyridoxal phosphate-dependent enzyme degrades 1-aminocyclopropane-1-carboxylate, which in plants is a precursor of the ripening hormone ethylene, to ammonia and alpha-ketoglutarate. This model includes all members of this family for which function has been demonstrated experimentally, but excludes a closely related family often annotated as putative members of this family.
Probab=26.08 E-value=2.6e+02 Score=24.79 Aligned_cols=51 Identities=12% Similarity=0.027 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcc
Q 027296 156 QELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSL 206 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL 206 (225)
..+..++..|....--.|+|+|+++-|.+.-=.+.-+..==..+|++|...
T Consensus 52 R~~~~~l~~a~~~G~~~vvs~ggs~gN~g~alA~~a~~~Gl~~~iv~~~~~ 102 (337)
T TIGR01274 52 RKLEYLIPDAQAQGCTTLVSIGGIQSNQTRQVAAVAAHLGMKCVLVQENWV 102 (337)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCCcchHHHHHHHHHHHcCCcEEEEeccCC
Confidence 356667777776666677887766555433333332222233467777643
No 123
>cd06201 SiR_like2 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via F
Probab=25.94 E-value=3.2e+02 Score=23.71 Aligned_cols=64 Identities=16% Similarity=0.118 Sum_probs=39.8
Q ss_pred HHHHHHHHHhhCCc-eEEEeccc--ccchhHHHHHHHHH--HHHHhhCCeeEecCCCcchHHHHHhhhh
Q 027296 128 YLQELLAIQQQGPR-AIGFFGTR--NMGFMHQELIEILS--YALVITKNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 128 ~lqELaaiQq~g~r-rIa~lGsR--hvp~~hq~LIElls--yAlvl~gn~i~TSGA~GtNaAvIRGalr 191 (225)
|..||..++++++. ++-+.-|| ..+++...+.+... ....-.+-.+|..|..+...+|.+....
T Consensus 198 ~~~eL~~l~~~~~~~~~~~~~s~~~~~g~v~~~l~~~~~~l~~~~~~~~~vyiCGp~~M~~~v~~~L~~ 266 (289)
T cd06201 198 YEDELDQYLADGRLTQLHTAFSRTPDGAYVQDRLRADAERLRRLIEDGAQIMVCGSRAMAQGVAAVLEE 266 (289)
T ss_pred HHHHHHHHHHcCCCceEEEEECCCCCcccchhHHHHhHHHHHHHHHCCcEEEEECCHHHHHHHHHHHHH
Confidence 67999999888773 34333455 34566544433221 1122356789999999988877665443
No 124
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=25.92 E-value=65 Score=25.95 Aligned_cols=58 Identities=17% Similarity=0.110 Sum_probs=36.2
Q ss_pred hhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHH------------------HHHHhhCCeeEecCCCcchHH
Q 027296 126 VDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILS------------------YALVITKNHIYTSGASGTNAA 184 (225)
Q Consensus 126 vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIElls------------------yAlvl~gn~i~TSGA~GtNaA 184 (225)
.|+++=|.... +..++||++|.+++-.--..+-+++. .-+...|-.++--|+..++.|
T Consensus 64 ~Dil~al~~a~-~~~~~Iavv~~~~~~~~~~~~~~ll~~~i~~~~~~~~~e~~~~i~~~~~~G~~viVGg~~~~~~A 139 (176)
T PF06506_consen 64 FDILRALAKAK-KYGPKIAVVGYPNIIPGLESIEELLGVDIKIYPYDSEEEIEAAIKQAKAEGVDVIVGGGVVCRLA 139 (176)
T ss_dssp HHHHHHHHHCC-CCTSEEEEEEESS-SCCHHHHHHHHT-EEEEEEESSHHHHHHHHHHHHHTT--EEEESHHHHHHH
T ss_pred hHHHHHHHHHH-hcCCcEEEEecccccHHHHHHHHHhCCceEEEEECCHHHHHHHHHHHHHcCCcEEECCHHHHHHH
Confidence 58888887777 45589999999998764445544442 234456777777666554444
No 125
>KOG4435 consensus Predicted lipid kinase [Lipid transport and metabolism; Signal transduction mechanisms]
Probab=25.75 E-value=93 Score=31.25 Aligned_cols=57 Identities=30% Similarity=0.449 Sum_probs=42.8
Q ss_pred EEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEE-EecCc
Q 027296 143 IGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTV-ILPQS 205 (225)
Q Consensus 143 Ia~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTV-iLPQS 205 (225)
|-|+-|.| |-=.|-++-+|.-...-||--|+-||-.-|+-|.||. +-++++| ++|--
T Consensus 95 V~Ivktd~-----~gqak~l~e~~~t~~Dii~VaGGDGT~~eVVTGi~Rr-r~~~~pv~~~P~G 152 (535)
T KOG4435|consen 95 VDIVKTDN-----QGQAKALAEAVDTQEDIIYVAGGDGTIGEVVTGIFRR-RKAQLPVGFYPGG 152 (535)
T ss_pred EEEEecCc-----HHHHHHHHHHhccCCCeEEEecCCCcHHHhhHHHHhc-ccccCceeeccCc
Confidence 44555554 3345666667777778999999999999999999999 6778777 45543
No 126
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=25.51 E-value=3.5e+02 Score=21.63 Aligned_cols=35 Identities=14% Similarity=0.224 Sum_probs=23.6
Q ss_pred HhhCCceEEEeccccc-----chhHHHHHHHHHHHHHhhC
Q 027296 136 QQQGPRAIGFFGTRNM-----GFMHQELIEILSYALVITK 170 (225)
Q Consensus 136 Qq~g~rrIa~lGsRhv-----p~~hq~LIEllsyAlvl~g 170 (225)
-++|.++|+++|..+- ...+++-+|-+..++..-|
T Consensus 108 ~~~g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~ 147 (270)
T cd01544 108 LELGHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKG 147 (270)
T ss_pred HHcCCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcC
Confidence 3489999999987542 1245556677777776655
No 127
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=25.48 E-value=1.1e+02 Score=25.91 Aligned_cols=17 Identities=12% Similarity=0.114 Sum_probs=9.2
Q ss_pred HHHHHHHHhhCCeeEec
Q 027296 160 EILSYALVITKNHIYTS 176 (225)
Q Consensus 160 EllsyAlvl~gn~i~TS 176 (225)
.++..++...|..|+..
T Consensus 64 ~~~~~~~~~~g~~vl~~ 80 (356)
T cd06451 64 EAALSNLLEPGDKVLVG 80 (356)
T ss_pred HHHHHHhCCCCCEEEEe
Confidence 34444555566666654
No 128
>PRK09082 methionine aminotransferase; Validated
Probab=25.30 E-value=1e+02 Score=26.95 Aligned_cols=20 Identities=20% Similarity=0.104 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHhhCCeeEec
Q 027296 157 ELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 157 ~LIEllsyAlvl~gn~i~TS 176 (225)
+.++++..++...|.+|+..
T Consensus 102 ~al~~~~~~~~~~gd~Vli~ 121 (386)
T PRK09082 102 EALFAAILALVRPGDEVIVF 121 (386)
T ss_pred HHHHHHHHHHcCCCCEEEEe
Confidence 44455555555555555544
No 129
>PLN02884 6-phosphofructokinase
Probab=25.08 E-value=45 Score=31.70 Aligned_cols=38 Identities=29% Similarity=0.461 Sum_probs=24.2
Q ss_pred HhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC--CcchHHHHHhhhhc
Q 027296 136 QQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA--SGTNAAVIRGALRA 192 (225)
Q Consensus 136 Qq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA--~GtNaAvIRGalra 192 (225)
-.-|||+=-+|=.-.+-+ =|+|||+ -|.||| ||++.+.
T Consensus 39 ~~agpr~~~~~~p~~~rI------------------aIltsGGdaPGmNa~-Iravv~~ 78 (411)
T PLN02884 39 HRAGPRKKIYFEPEEVKA------------------AIVTCGGLCPGLNDV-IRQIVFT 78 (411)
T ss_pred hhcCCceeEEeCCcceEE------------------EEEcCCCCCccHhHH-HHHHHHH
Confidence 346777666665443332 2789997 899974 6666554
No 130
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=24.99 E-value=1.5e+02 Score=24.09 Aligned_cols=34 Identities=12% Similarity=0.038 Sum_probs=20.8
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHh
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVI 168 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl 168 (225)
+.++|.++|+|++..+---.++.-.|=...++..
T Consensus 147 l~~~G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~ 180 (309)
T PRK11041 147 LHELGHKRIACIAGPEEMPLCHYRLQGYVQALRR 180 (309)
T ss_pred HHHcCCceEEEEeCCccccchHHHHHHHHHHHHH
Confidence 4457999999997665433444445544445443
No 131
>PRK02948 cysteine desulfurase; Provisional
Probab=24.97 E-value=1.2e+02 Score=26.25 Aligned_cols=22 Identities=27% Similarity=0.419 Sum_probs=12.0
Q ss_pred CCeeEecCCCcchHHHHHhhhh
Q 027296 170 KNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 170 gn~i~TSGA~GtNaAvIRGalr 191 (225)
.+-++|+|++..|.++++++++
T Consensus 61 ~~i~~~~g~t~a~~~~~~~~~~ 82 (381)
T PRK02948 61 QGIYFTSGGTESNYLAIQSLLN 82 (381)
T ss_pred CeEEEeCcHHHHHHHHHHHHHH
Confidence 3455566655555555555543
No 132
>KOG2174 consensus Leptin receptor gene-related protein [Signal transduction mechanisms]
Probab=24.95 E-value=40 Score=28.51 Aligned_cols=44 Identities=23% Similarity=0.163 Sum_probs=29.9
Q ss_pred HHHHHHHHHhhCCceEEEecccccc--hhHHHHHHHHHHHHHhhCCeeEe
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMG--FMHQELIEILSYALVITKNHIYT 175 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp--~~hq~LIEllsyAlvl~gn~i~T 175 (225)
-.+|||.---.|. . .|+=-.| +.|-++||-.|-+|+.+||.|+=
T Consensus 65 ~~idlA~FlTg~~-v---vs~falPiVl~ha~lI~~gAc~l~~tg~~iIF 110 (131)
T KOG2174|consen 65 ACIDLAKFLTGAI-V---VSAFALPIVLAHAGLIGWGACALVLTGNSIIF 110 (131)
T ss_pred HHHHHHHHHhcch-h---hhhhhhHHHHHHhhHhhhhhhhhhhcCCchhH
Confidence 5567665544332 2 2333345 45999999999999999988763
No 133
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=24.87 E-value=3e+02 Score=21.81 Aligned_cols=64 Identities=20% Similarity=0.249 Sum_probs=45.4
Q ss_pred hhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhH
Q 027296 137 QQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPES 213 (225)
Q Consensus 137 q~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es 213 (225)
+-|.||||+-++.....+.+ +...+..-........|+-..+.++++.+-|=||-.++-..-+.
T Consensus 4 D~G~kriGvA~~d~~~~~a~-------------pl~~i~~~~~~~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~ 67 (130)
T TIGR00250 4 DFGTKSIGVAGQDITGWTAQ-------------GIPTIKAQDGEPDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPL 67 (130)
T ss_pred ccCCCeEEEEEECCCCCEEe-------------ceEEEEecCCcHHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHH
Confidence 45899999998877654432 22333332334557888889999999999999999988766553
No 134
>PF00490 ALAD: Delta-aminolevulinic acid dehydratase; InterPro: IPR001731 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents porphobilinogen (PBG) synthase (PBGS, or 5-aminoaevulinic acid dehydratase, or ALAD, 4.2.1.24 from EC), which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses a Knorr-type condensation reaction between two molecules of ALA to generate porphobilinogen, the pyrrolic building block used in later steps []. The structure of the enzyme is based on a TIM barrel topology made up of eight identical subunits, where each subunit binds to a metal ion that is essential for activity, usually zinc (in yeast, mammals and certain bacteria) or magnesium (in plants and other bacteria). A lysine has been implicated in the catalytic mechanism []. The lack of PBGS enzyme causes a rare porphyric disorder known as ALAD porphyria, which appears to involve conformational changes in the enzyme [.; GO: 0004655 porphobilinogen synthase activity, 0046872 metal ion binding, 0033014 tetrapyrrole biosynthetic process; PDB: 2C1H_A 1W1Z_A 1GZG_B 1W5O_B 1W5Q_B 2C18_A 1B4K_A 2C19_B 1W56_B 2C13_B ....
Probab=24.80 E-value=85 Score=29.74 Aligned_cols=76 Identities=22% Similarity=0.348 Sum_probs=47.0
Q ss_pred ccccCCC-----hh-HHHHHHHHHhhCCceEEEecc--------------------------------------------
Q 027296 119 EFKPVPD-----VD-YLQELLAIQQQGPRAIGFFGT-------------------------------------------- 148 (225)
Q Consensus 119 ~~~~~p~-----vD-~lqELaaiQq~g~rrIa~lGs-------------------------------------------- 148 (225)
+.+.+|. +| +++|+..+.+.|-+.|.+||.
T Consensus 44 ~I~smPg~~r~sid~l~~~v~~~~~~GI~~v~lFgvi~~~~Kd~~gs~a~~~~g~v~~air~iK~~~pdl~vi~Dvclc~ 123 (324)
T PF00490_consen 44 PISSMPGVYRYSIDSLVKEVEEAVDLGIRAVILFGVIDPSKKDEEGSEAYNPDGLVQRAIRAIKKAFPDLLVITDVCLCE 123 (324)
T ss_dssp EETTSTTEEEEEHHHHHHHHHHHHHTT--EEEEEEE-SCSC-BSS-GGGGSTTSHHHHHHHHHHHHSTTSEEEEEE-STT
T ss_pred eccCCCCeeeeCHHHHHHHHHHHHHCCCCEEEEEeeCCcccCCcchhcccCCCChHHHHHHHHHHhCCCcEEEEeccccc
Confidence 3345554 67 899999999999999999998
Q ss_pred ----cccchhH--------HHHHHHH---HHHHHhhCCe-eEecCCCcchHHHHHhhhhccC
Q 027296 149 ----RNMGFMH--------QELIEIL---SYALVITKNH-IYTSGASGTNAAVIRGALRAER 194 (225)
Q Consensus 149 ----Rhvp~~h--------q~LIEll---syAlvl~gn~-i~TSGA~GtNaAvIRGalrae~ 194 (225)
-||+++. ..-+|+| |-+.+..|=+ |..|+-.---.++||-+|..+.
T Consensus 124 YT~hGHcGil~~~~g~idND~Tl~~Lak~Al~~A~AGADiVAPSdMMDGrV~aIR~aLd~~g 185 (324)
T PF00490_consen 124 YTSHGHCGILDDEDGEIDNDETLERLAKQALSHAEAGADIVAPSDMMDGRVGAIREALDEAG 185 (324)
T ss_dssp TBTSSSSSEB-CTTSSBEHHHHHHHHHHHHHHHHHHT-SEEEE-S--TTHHHHHHHHHHHTT
T ss_pred ccCCCceEEEECCCCeEecHHHHHHHHHHHHHHHHhCCCeeccccccCCHHHHHHHHHHhCC
Confidence 2666661 2233333 3455566644 4466666666778888888753
No 135
>PF14734 DUF4469: Domain of unknown function (DUF4469) with IG-like fold
Probab=24.79 E-value=51 Score=25.88 Aligned_cols=30 Identities=30% Similarity=0.476 Sum_probs=21.4
Q ss_pred CcchHHHHHhhhhccCCCeeEEEecCcccC
Q 027296 179 SGTNAAVIRGALRAERPDLLTVILPQSLKK 208 (225)
Q Consensus 179 ~GtNaAvIRGalrae~p~lLTViLPQSL~r 208 (225)
.|+-..|=...+-.++|+.|.++||++|+.
T Consensus 47 ~g~~~~v~~~~i~~N~ps~l~~~lPa~L~~ 76 (102)
T PF14734_consen 47 EGTETKVPCSSIVRNKPSRLIFILPADLAA 76 (102)
T ss_pred CCceEEecHHHeEeCCCcEEEEECcCccCc
Confidence 343334444456667999999999998864
No 136
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=24.76 E-value=21 Score=30.22 Aligned_cols=15 Identities=47% Similarity=0.716 Sum_probs=13.3
Q ss_pred CCCcccccccccccc
Q 027296 50 SHPTQHSWRARRTKK 64 (225)
Q Consensus 50 s~psQsq~~~rRsR~ 64 (225)
-+|.||.|+++|.|+
T Consensus 281 ~~P~QW~W~h~Rwk~ 295 (295)
T PF03279_consen 281 EHPEQWFWFHRRWKT 295 (295)
T ss_pred cChHhhcchHHhhCc
Confidence 689999999999875
No 137
>PRK07094 biotin synthase; Provisional
Probab=24.75 E-value=1.7e+02 Score=25.37 Aligned_cols=41 Identities=12% Similarity=0.125 Sum_probs=28.9
Q ss_pred hHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHH
Q 027296 127 DYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALV 167 (225)
Q Consensus 127 D~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlv 167 (225)
+++.|+..+.+.|.++|.|.|..+--+-...+.|++.+.-.
T Consensus 74 ei~~~~~~~~~~g~~~i~l~gG~~~~~~~~~l~~l~~~i~~ 114 (323)
T PRK07094 74 EILECAKKAYELGYRTIVLQSGEDPYYTDEKIADIIKEIKK 114 (323)
T ss_pred HHHHHHHHHHHCCCCEEEEecCCCCCCCHHHHHHHHHHHHc
Confidence 37777777778899999888765433446777787766544
No 138
>PRK08905 lipid A biosynthesis lauroyl acyltransferase; Validated
Probab=24.73 E-value=27 Score=30.24 Aligned_cols=15 Identities=40% Similarity=0.627 Sum_probs=13.0
Q ss_pred CCCcccccccccccc
Q 027296 50 SHPTQHSWRARRTKK 64 (225)
Q Consensus 50 s~psQsq~~~rRsR~ 64 (225)
-+|.||.|.|+|.|.
T Consensus 260 ~~PeQW~W~hrRwK~ 274 (289)
T PRK08905 260 RFPTQYLWGYNRYKR 274 (289)
T ss_pred cCcHHhhhhhccCCC
Confidence 689999999999754
No 139
>TIGR01822 2am3keto_CoA 2-amino-3-ketobutyrate coenzyme A ligase. This model represents a narrowly defined clade of animal and bacterial (almost exclusively Proteobacterial) 2-amino-3-ketobutyrate--CoA ligase. This enzyme can act in threonine catabolism. The closest homolog from Bacillus subtilis, and sequences like it, may be functionally equivalent but were not included in the model because of difficulty in finding reports of function.
Probab=24.73 E-value=1.3e+02 Score=25.93 Aligned_cols=46 Identities=22% Similarity=0.196 Sum_probs=26.2
Q ss_pred ecccccc---hhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc
Q 027296 146 FGTRNMG---FMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA 192 (225)
Q Consensus 146 lGsRhvp---~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra 192 (225)
=++||+. -.|.+|-|-++.-+- ..+-|+|+|++..|.+++.+.+..
T Consensus 73 ~~s~~~~G~~~~~~~le~~ia~~~g-~~~~ii~~~~~~a~~~~~~~l~~~ 121 (393)
T TIGR01822 73 SSVRFICGTQDIHKELEAKIAAFLG-TEDTILYASCFDANGGLFETLLGA 121 (393)
T ss_pred CCcCcccCChHHHHHHHHHHHHHhC-CCcEEEECchHHHHHHHHHHhCCC
Confidence 3455442 235556565654333 346777777776677777665443
No 140
>PRK08912 hypothetical protein; Provisional
Probab=24.71 E-value=1.1e+02 Score=26.69 Aligned_cols=19 Identities=32% Similarity=0.302 Sum_probs=8.8
Q ss_pred CeeEecCCCcchHHHHHhh
Q 027296 171 NHIYTSGASGTNAAVIRGA 189 (225)
Q Consensus 171 n~i~TSGA~GtNaAvIRGa 189 (225)
|-++|+|+++...+++++.
T Consensus 89 ~i~~t~G~~~al~~~~~~~ 107 (387)
T PRK08912 89 EVMVTSGATEALAAALLAL 107 (387)
T ss_pred cEEEeCCcHHHHHHHHHHh
Confidence 3344555544444444443
No 141
>PRK12390 1-aminocyclopropane-1-carboxylate deaminase; Provisional
Probab=24.58 E-value=2.8e+02 Score=24.50 Aligned_cols=52 Identities=13% Similarity=0.082 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCcc
Q 027296 155 HQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQSL 206 (225)
Q Consensus 155 hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQSL 206 (225)
-..+..++..|....-..|+++|+++-|.+.-=.+.-+..==..+|++|+-.
T Consensus 52 ~R~~~~~l~~a~~~G~~~vvs~G~s~GN~g~alA~aa~~~G~~~~iv~~~~~ 103 (337)
T PRK12390 52 TRKLEYLVPDALAQGADTLVSIGGVQSNHTRQVAAVAAHLGMKCVLVQENWV 103 (337)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCCCccHHHHHHHHHHHHcCCeEEEEeCCCC
Confidence 3467778888887777888888876655533333332223334566665543
No 142
>PRK07777 aminotransferase; Validated
Probab=24.54 E-value=61 Score=28.19 Aligned_cols=18 Identities=33% Similarity=0.370 Sum_probs=7.9
Q ss_pred eeEecCCCcchHHHHHhh
Q 027296 172 HIYTSGASGTNAAVIRGA 189 (225)
Q Consensus 172 ~i~TSGA~GtNaAvIRGa 189 (225)
-++|+|+++...+++++.
T Consensus 88 i~~t~G~~~al~~~~~~~ 105 (387)
T PRK07777 88 VLVTVGATEAIAAAVLGL 105 (387)
T ss_pred EEEeCCcHHHHHHHHHHh
Confidence 344444444444444433
No 143
>PRK01278 argD acetylornithine transaminase protein; Provisional
Probab=24.53 E-value=1.8e+02 Score=25.36 Aligned_cols=48 Identities=19% Similarity=0.243 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhc----cCCCeeEEEecC
Q 027296 156 QELIEILSYALVITKNHIYTSGASGTNAAVIRGALRA----ERPDLLTVILPQ 204 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalra----e~p~lLTViLPQ 204 (225)
.++-|.|+... -.++-++|+|++-.|.++||-|... .|++.-.||.+.
T Consensus 76 ~~la~~l~~~~-~~~~v~~~~sGseA~~~al~~ar~~~~~~G~~~r~~vi~~~ 127 (389)
T PRK01278 76 ERLAERLVENS-FADKVFFTNSGAEAVECAIKTARRYHYGKGHPERYRIITFE 127 (389)
T ss_pred HHHHHHHHhhC-CCCEEEEcCCcHHHHHHHHHHHHHHHHhcCCCCCCEEEEEC
Confidence 34444444322 1346788888888888888877432 234444555443
No 144
>PRK09240 thiH thiamine biosynthesis protein ThiH; Reviewed
Probab=24.50 E-value=1.6e+02 Score=26.90 Aligned_cols=39 Identities=18% Similarity=0.114 Sum_probs=30.4
Q ss_pred hHHHHHHHHHhhCCceEEEecccccch-hHHHHHHHHHHH
Q 027296 127 DYLQELLAIQQQGPRAIGFFGTRNMGF-MHQELIEILSYA 165 (225)
Q Consensus 127 D~lqELaaiQq~g~rrIa~lGsRhvp~-~hq~LIEllsyA 165 (225)
++++|..++.+.|-++|.|.|.++... --.+++|++...
T Consensus 108 EI~~~a~~~~~~Gv~~i~lvgGe~p~~~~~e~l~~~i~~I 147 (371)
T PRK09240 108 EIEREMAAIKKLGFEHILLLTGEHEAKVGVDYIRRALPIA 147 (371)
T ss_pred HHHHHHHHHHhCCCCEEEEeeCCCCCCCCHHHHHHHHHHH
Confidence 389999999999999999999887653 346677766543
No 145
>PF13884 Peptidase_S74: Chaperone of endosialidase; PDB: 3GUD_A.
Probab=24.46 E-value=45 Score=22.43 Aligned_cols=17 Identities=35% Similarity=0.679 Sum_probs=10.7
Q ss_pred ecccccchhHHHHHHHH
Q 027296 146 FGTRNMGFMHQELIEIL 162 (225)
Q Consensus 146 lGsRhvp~~hq~LIEll 162 (225)
-+.+|+||+.|++.|++
T Consensus 40 ~~~~~~G~IAQev~~v~ 56 (58)
T PF13884_consen 40 EDRRHIGFIAQEVQEVF 56 (58)
T ss_dssp GS--EEE--HHHHHHHH
T ss_pred CCceEEEEeHHHHHHhC
Confidence 35589999999999876
No 146
>PRK06939 2-amino-3-ketobutyrate coenzyme A ligase; Provisional
Probab=24.42 E-value=97 Score=26.35 Aligned_cols=36 Identities=28% Similarity=0.293 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhh
Q 027296 155 HQELIEILSYALVITKNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 155 hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalr 191 (225)
.+.+-+.++.-+-...+-++||| +..|.+++++.++
T Consensus 89 ~~~l~~~la~~~g~~~~i~~tsG-~~a~~~~~~~l~~ 124 (397)
T PRK06939 89 HKELEEKLAKFLGTEDAILYSSC-FDANGGLFETLLG 124 (397)
T ss_pred HHHHHHHHHHHhCCCcEEEEcCh-HHHHHHHHHHhCC
Confidence 34455555544433344555666 3345555665543
No 147
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=24.19 E-value=98 Score=29.39 Aligned_cols=23 Identities=22% Similarity=0.232 Sum_probs=21.3
Q ss_pred hh-HHHHHHHHHhhCCceEEEecc
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGT 148 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGs 148 (225)
+| +++|+..+.+.|-+.|.+||-
T Consensus 60 id~l~~~~~~~~~~Gi~~v~lFgv 83 (322)
T PRK13384 60 ESALADEIERLYALGIRYVMPFGI 83 (322)
T ss_pred HHHHHHHHHHHHHcCCCEEEEeCC
Confidence 57 889999999999999999996
No 148
>PRK06756 flavodoxin; Provisional
Probab=24.10 E-value=87 Score=23.98 Aligned_cols=29 Identities=17% Similarity=0.383 Sum_probs=18.6
Q ss_pred ccCCC-hh-HHHHHHHHHhhCCceEEEecccc
Q 027296 121 KPVPD-VD-YLQELLAIQQQGPRAIGFFGTRN 150 (225)
Q Consensus 121 ~~~p~-vD-~lqELaaiQq~g~rrIa~lGsRh 150 (225)
..+|+ +. ++++|....-+ .|.+++|||-.
T Consensus 63 g~~p~~~~~fl~~l~~~~l~-~k~~~~fgt~~ 93 (148)
T PRK06756 63 GDLPDDFLDFYDAMDSIDLT-GKKAAVFGSCD 93 (148)
T ss_pred CCCcHHHHHHHHHHhcCCCC-CCEEEEEeCCC
Confidence 35675 44 88877654333 46799999843
No 149
>cd02755 MopB_Thiosulfate-R-like The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme that catalyzes the reduction of polysulfide using either hydrogen or formate as the electron donor. Members of the MopB_Thiosulfate-R-like CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=24.06 E-value=1.7e+02 Score=26.73 Aligned_cols=48 Identities=17% Similarity=0.324 Sum_probs=30.8
Q ss_pred hh-HHHHHHHHHhh-CCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC
Q 027296 126 VD-YLQELLAIQQQ-GPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA 178 (225)
Q Consensus 126 vD-~lqELaaiQq~-g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA 178 (225)
+| +++.|.+++++ |++.|++.|+... -..++.-+.. ++..+++++.+.
T Consensus 80 l~~ia~~l~~~~~~~G~~~i~~~~~~~~---~~~~~~~~~~--~lGt~n~~~~~~ 129 (454)
T cd02755 80 LQYIASKLKEIKEQHGPESVLFGGHGGC---YSPFFKHFAA--AFGSPNIFSHES 129 (454)
T ss_pred HHHHHHHHHHHHHhcCCcEEEEEecCCc---ccHHHHHHHH--HhCCCCCCCccc
Confidence 56 77888888875 9999999987764 1223333333 455666655443
No 150
>PRK05764 aspartate aminotransferase; Provisional
Probab=24.05 E-value=94 Score=26.85 Aligned_cols=21 Identities=10% Similarity=0.039 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHhhCCeeEecC
Q 027296 157 ELIEILSYALVITKNHIYTSG 177 (225)
Q Consensus 157 ~LIEllsyAlvl~gn~i~TSG 177 (225)
+.+.++..++...|-+|+++-
T Consensus 102 ~a~~~~~~~~~~~gd~vl~~~ 122 (393)
T PRK05764 102 QALYNAFMALLDPGDEVIIPA 122 (393)
T ss_pred HHHHHHHHHhcCCCCEEEecC
Confidence 445555555555555555443
No 151
>cd04824 eu_ALAD_PBGS_cysteine_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. The eukaryotic PBGSs represented by this model, which contain a cysteine-rich zinc binding motif (DXCXCX(Y/F)X3G(H/Q)CG), require zinc for their activity, they
Probab=24.04 E-value=1e+02 Score=29.29 Aligned_cols=23 Identities=26% Similarity=0.430 Sum_probs=21.6
Q ss_pred hh-HHHHHHHHHhhCCceEEEecc
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGT 148 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGs 148 (225)
+| +++|+..+.+.|-+.|.+||-
T Consensus 50 ~d~l~~~~~~~~~~Gi~~v~LFgv 73 (320)
T cd04824 50 VNRLEEFLRPLVAKGLRSVILFGV 73 (320)
T ss_pred HHHHHHHHHHHHHCCCCEEEEeCC
Confidence 57 899999999999999999996
No 152
>PRK14045 1-aminocyclopropane-1-carboxylate deaminase; Provisional
Probab=23.85 E-value=1.9e+02 Score=25.60 Aligned_cols=51 Identities=22% Similarity=0.160 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEecCc
Q 027296 155 HQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDLLTVILPQS 205 (225)
Q Consensus 155 hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViLPQS 205 (225)
-..+.-++..|.......|+|-|+++-|.+.-=.+.-+..==..+|++|..
T Consensus 55 ~R~~~~~l~~a~~~G~~~vv~~~~ssGN~g~alA~~a~~~G~~~~ivvp~~ 105 (329)
T PRK14045 55 IRKLEYLLGDALSRGADVVITVGAVHSNHAFVTGLAAKKLGLDAVLVLRGK 105 (329)
T ss_pred HHHHHhHHHHHHHcCCCEEEEeCccHHHHHHHHHHHHHHcCCeEEEEEeCC
Confidence 344555666777666677887777666664443333333334578888853
No 153
>PRK11064 wecC UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional
Probab=23.79 E-value=86 Score=28.95 Aligned_cols=29 Identities=14% Similarity=0.222 Sum_probs=24.1
Q ss_pred CceEEEecccccchhHHHHHHHHHHHHHhhCCeeEe
Q 027296 140 PRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYT 175 (225)
Q Consensus 140 ~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~T 175 (225)
.++|||+|.-+|+.. |+.+|+..||+++-
T Consensus 3 ~~kI~VIGlG~~G~~-------~A~~La~~G~~V~~ 31 (415)
T PRK11064 3 FETISVIGLGYIGLP-------TAAAFASRQKQVIG 31 (415)
T ss_pred ccEEEEECcchhhHH-------HHHHHHhCCCEEEE
Confidence 478999999999874 78888888998753
No 154
>TIGR01437 selA_rel uncharacterized pyridoxal phosphate-dependent enzyme. This model describes a protein related to a number of pyridoxal phosphate-dependent enzymes, and in particular to selenocysteine synthase (SelA), which converts Ser to selenocysteine on its tRNA. While resembling SelA, this protein is found only in species that have a better candidate SelA or else lack the other genes (selB, selC, and selD) required for selenocysteine incorporation.
Probab=23.76 E-value=92 Score=27.65 Aligned_cols=25 Identities=16% Similarity=0.197 Sum_probs=21.2
Q ss_pred CCeeEecCCCcchHHHHHhhhhccC
Q 027296 170 KNHIYTSGASGTNAAVIRGALRAER 194 (225)
Q Consensus 170 gn~i~TSGA~GtNaAvIRGalrae~ 194 (225)
.+-++|+|++..+.+++++.+...|
T Consensus 61 ~~~~~~~g~t~al~~al~al~~~Gd 85 (363)
T TIGR01437 61 EDAVIVSSASAGIAQSVAAVITRGN 85 (363)
T ss_pred CeEEEEcCHHHHHHHHHHHHhcCCC
Confidence 4789999999999999999987644
No 155
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=23.67 E-value=1.3e+02 Score=26.38 Aligned_cols=21 Identities=10% Similarity=0.110 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHhhCCeeEec
Q 027296 156 QELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TS 176 (225)
++.++++.+++...|..|++.
T Consensus 101 ~~al~~~~~~~~~~gd~vl~~ 121 (391)
T PRK07309 101 TEALSASLTAILEPGDKVLLP 121 (391)
T ss_pred HHHHHHHHHHhcCCCCEEEEe
Confidence 566777777776666666554
No 156
>COG0318 CaiC Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=23.59 E-value=88 Score=28.81 Aligned_cols=32 Identities=44% Similarity=0.573 Sum_probs=19.8
Q ss_pred eeEecCCCcc-------------hHHHHHhhhh--ccCCCeeEEEec
Q 027296 172 HIYTSGASGT-------------NAAVIRGALR--AERPDLLTVILP 203 (225)
Q Consensus 172 ~i~TSGA~Gt-------------NaAvIRGalr--ae~p~lLTViLP 203 (225)
-+||||.||. |++.+...+. -.+.+..=+.||
T Consensus 176 i~yTSGTTG~PKgv~~th~~~~~~~~~~~~~~~~~~~~~d~~l~~lP 222 (534)
T COG0318 176 LLYTSGTTGLPKGVVLTHRNLLANAAGIAAALGGGLTPDDVVLSWLP 222 (534)
T ss_pred EEeCCCCCCCCCEeEEecHhHHHHHHHHHHHhcccCCCCceEEEecC
Confidence 3569999995 4677777777 434443333333
No 157
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.43 E-value=1.9e+02 Score=22.94 Aligned_cols=36 Identities=28% Similarity=0.295 Sum_probs=22.8
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
+-++|.|+|+++|..+-...++.-.+=.-.++...|
T Consensus 113 l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~ 148 (268)
T cd06277 113 LIEKGHRKIGFVGDPLYSPSFEERYEGYKKALLDHG 148 (268)
T ss_pred HHHCCCCcEEEECCCCCCcchHHHHHHHHHHHHHcC
Confidence 446799999999988653344554444444554443
No 158
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=23.37 E-value=2.7e+02 Score=21.51 Aligned_cols=39 Identities=10% Similarity=0.125 Sum_probs=29.9
Q ss_pred HHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeE
Q 027296 134 AIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIY 174 (225)
Q Consensus 134 aiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~ 174 (225)
.+++.|-++|++++...- ..++..+.+..++...|-.+.
T Consensus 130 ~l~~~~~~~v~iv~~~~~--~~~~~~~~~~~~~~~~g~~i~ 168 (299)
T cd04509 130 YIKEYNWKKVAILYDDDS--YGRGLLEAFKAAFKKKGGTVV 168 (299)
T ss_pred HHHHcCCcEEEEEecCch--HHHHHHHHHHHHHHHcCCEEE
Confidence 356778999999998765 457788888888887776554
No 159
>TIGR01825 gly_Cac_T_rel pyridoxal phosphate-dependent acyltransferase, putative. This model represents an enzyme subfamily related to three known enzymes; it appears closest to glycine C-acteyltransferase, shows no overlap with it in species distribution, and may share that function. The three closely related enzymes are glycine C-acetyltransferase (2-amino-3-ketobutyrate coenzyme A ligase), 5-aminolevulinic acid synthase, and 8-amino-7-oxononanoate synthase. All transfer the R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from coenzyme A to an amino acid (Gly, Gly, Ala, respectively), with release of CO2 for the latter two reactions.
Probab=23.29 E-value=99 Score=26.45 Aligned_cols=37 Identities=32% Similarity=0.422 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhh
Q 027296 154 MHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALR 191 (225)
Q Consensus 154 ~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalr 191 (225)
++..+.+-++.-+-...+-++|||++ .|.++++..+.
T Consensus 79 l~~~l~~~l~~~~g~~~~i~~~sG~~-a~~~a~~~~~~ 115 (385)
T TIGR01825 79 LHEELEEKLAKFKKTEAALVFQSGFN-TNQGVLSALLR 115 (385)
T ss_pred HHHHHHHHHHHHhCCCcEEEECcHHH-HHHHHHHHhCC
Confidence 45566666655444334466677744 35566666543
No 160
>cd00616 AHBA_syn 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary metabolites. Some well studied proteins in this CD are AHBA_synthase, protein product of pleiotropic regulatory gene degT, Arnb aminotransferase and pilin glycosylation protein. The prototype of this family, the AHBA_synthase, is a dimeric PLP dependent enzyme. AHBA_syn is the terminal enzyme of 3-amino-5-hydroxybenzoic acid (AHBA) formation which is involved in the biosynthesis of ansamycin antibiotics, including rifamycin B. Some members of this CD are involved in 4-amino-6-deoxy-monosaccharide D-perosamine synthesis. Perosamine is an important element in the glycosylation of several cell products, such as antibiotics and lipopolysaccharides of gram-positive and gram-negative bacteria. The pilin glycosylation protein
Probab=23.07 E-value=1.5e+02 Score=24.80 Aligned_cols=18 Identities=11% Similarity=0.193 Sum_probs=8.0
Q ss_pred HHHHHHHH-HhhCCeeEec
Q 027296 159 IEILSYAL-VITKNHIYTS 176 (225)
Q Consensus 159 IEllsyAl-vl~gn~i~TS 176 (225)
++++..++ ...|.+|+++
T Consensus 46 l~~~l~~l~~~~gd~vl~~ 64 (352)
T cd00616 46 LHLALRALGIGPGDEVIVP 64 (352)
T ss_pred HHHHHHHcCCCCCCEEEeC
Confidence 34444444 2344555543
No 161
>PLN02564 6-phosphofructokinase
Probab=23.05 E-value=49 Score=32.44 Aligned_cols=39 Identities=31% Similarity=0.520 Sum_probs=26.6
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC--CcchHHHHHhhhhc
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA--SGTNAAVIRGALRA 192 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA--~GtNaAvIRGalra 192 (225)
.-.-|||+=-+|=.-.+-+ =|+|||+ -|.|+ |||++.++
T Consensus 72 ~~~agpr~~i~f~p~~~ri------------------aIlTsGGd~PGmNa-vIRavv~~ 112 (484)
T PLN02564 72 FRRAGPRQKVYFESDEVRA------------------CIVTCGGLCPGLNT-VIREIVCG 112 (484)
T ss_pred ceecCCcceEEEcCcceEE------------------EEECCCCCCccHhH-HHHHHHHH
Confidence 3456888766666555433 3789998 79996 56777654
No 162
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=23.04 E-value=3.7e+02 Score=21.01 Aligned_cols=34 Identities=18% Similarity=0.157 Sum_probs=19.6
Q ss_pred hhCCceEEEeccccc-chhHHHHHHHHHHHHHhhC
Q 027296 137 QQGPRAIGFFGTRNM-GFMHQELIEILSYALVITK 170 (225)
Q Consensus 137 q~g~rrIa~lGsRhv-p~~hq~LIEllsyAlvl~g 170 (225)
++|.|+|+++|+..- -..+..-.+=...++...|
T Consensus 113 ~~g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~ 147 (268)
T cd06298 113 KNGHKKIAFISGPLEDSINGDERLAGYKEALSEAN 147 (268)
T ss_pred HcCCceEEEEeCCcccccchhHHHHHHHHHHHHcC
Confidence 369999999975432 2344444444444554433
No 163
>TIGR02495 NrdG2 anaerobic ribonucleoside-triphosphate reductase activating protein. This enzyme is a member of the radical-SAM family (pfam04055). It is often gene clustered with the class III (anaerobic) ribonucleotide triphosphate reductase (NrdD, TIGR02487) and presumably fulfills the identical function as NrdG which utilizes S-adenosyl methionine, an iron-sulfur cluster and a reductant (dihydroflavodoxin) to produce a glycine-centered radical in NrdD.
Probab=22.96 E-value=2.8e+02 Score=21.80 Aligned_cols=40 Identities=15% Similarity=0.014 Sum_probs=26.2
Q ss_pred HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCC
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKN 171 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn 171 (225)
++.++... ....+.|.|.| -=|++|-+++|++.|+-.. |.
T Consensus 52 i~~~i~~~-~~~~~~i~~sG--GEPll~~~l~~li~~~~~~-g~ 91 (191)
T TIGR02495 52 LLEFLRSR-QGLIDGVVITG--GEPTLQAGLPDFLRKVREL-GF 91 (191)
T ss_pred HHHHHHHh-cCCCCeEEEEC--CcccCcHhHHHHHHHHHHC-CC
Confidence 55555443 22357888888 4478888888888887654 44
No 164
>PRK07682 hypothetical protein; Validated
Probab=22.92 E-value=1.5e+02 Score=25.58 Aligned_cols=22 Identities=5% Similarity=0.194 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHhhCCeeEecC
Q 027296 156 QELIEILSYALVITKNHIYTSG 177 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TSG 177 (225)
++.++++.++++..|..|++.-
T Consensus 91 ~~al~~~~~~l~~~gd~vl~~~ 112 (378)
T PRK07682 91 SQALDVAMRAIINPGDEVLIVE 112 (378)
T ss_pred HHHHHHHHHHhCCCCCEEEEeC
Confidence 5667777777776777666553
No 165
>TIGR03699 mena_SCO4550 menaquinone biosynthesis protein, SCO4550 family. members of this protein family are involved in menaquinone biosynthesis by an alternate pathway via futalosine.
Probab=22.82 E-value=2e+02 Score=25.35 Aligned_cols=40 Identities=18% Similarity=0.150 Sum_probs=27.2
Q ss_pred hh-HHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHH
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYA 165 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyA 165 (225)
+| +++++..+.+.|-++|.|.|..+--.-...+.|++.+.
T Consensus 74 ~eei~~~~~~~~~~G~~~i~l~gG~~p~~~~~~~~~li~~I 114 (340)
T TIGR03699 74 VEEILQKIEELVAYGGTQILLQGGVNPDLGLDYYEDLFRAI 114 (340)
T ss_pred HHHHHHHHHHHHHcCCcEEEEecCCCCCCCHHHHHHHHHHH
Confidence 34 77777788888999999988766433344455566544
No 166
>cd02759 MopB_Acetylene-hydratase The MopB_Acetylene-hydratase CD contains acetylene hydratase (Ahy) and other related proteins. The acetylene hydratase of Pelobacter acetylenicus is a tungsten iron-sulfur protein involved in the fermentation of acetylene to ethanol and acetate. Members of this CD belong to the molybdopterin_binding (MopB) superfamily of proteins.
Probab=22.78 E-value=2.3e+02 Score=26.01 Aligned_cols=58 Identities=21% Similarity=0.381 Sum_probs=34.5
Q ss_pred ccccCC---Chh-HHHHHHHHHh-hCCceEEEe-cccccchhHHHHHHH-HHHHHHhhCCeeEecCC
Q 027296 119 EFKPVP---DVD-YLQELLAIQQ-QGPRAIGFF-GTRNMGFMHQELIEI-LSYALVITKNHIYTSGA 178 (225)
Q Consensus 119 ~~~~~p---~vD-~lqELaaiQq-~g~rrIa~l-GsRhvp~~hq~LIEl-lsyAlvl~gn~i~TSGA 178 (225)
+++++. .+| +++.|.++++ .|+..|+++ |+-+.......+... +.. ++..+++..++.
T Consensus 69 ~~~~isWdeAl~~ia~~l~~~~~~~G~~~i~~~~g~~~~~~~~~~~~~~~~~~--~~Gs~~~~~~~~ 133 (477)
T cd02759 69 KWERISWDEALDEIAEKLAEIKAEYGPESIATAVGTGRGTMWQDSLFWIRFVR--LFGSPNLFLSGE 133 (477)
T ss_pred cEEEecHHHHHHHHHHHHHHHHHHhCCceEEEeccCCCccccchhHHHHHHHH--hcCCCcccCCcc
Confidence 345544 256 7788888886 699999997 666666444433321 222 345555665544
No 167
>PRK12583 acyl-CoA synthetase; Provisional
Probab=22.63 E-value=1e+02 Score=27.32 Aligned_cols=10 Identities=50% Similarity=0.717 Sum_probs=8.9
Q ss_pred eeEecCCCcc
Q 027296 172 HIYTSGASGT 181 (225)
Q Consensus 172 ~i~TSGA~Gt 181 (225)
.++|||.||.
T Consensus 206 i~~TSGsTG~ 215 (558)
T PRK12583 206 IQYTSGTTGF 215 (558)
T ss_pred EEECCCCCCC
Confidence 4899999997
No 168
>PLN02656 tyrosine transaminase
Probab=22.34 E-value=1.2e+02 Score=26.94 Aligned_cols=23 Identities=13% Similarity=0.124 Sum_probs=16.4
Q ss_pred HHHHHHHHHHHHhhCCeeEecCC
Q 027296 156 QELIEILSYALVITKNHIYTSGA 178 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TSGA 178 (225)
++.+.++..++...|.+|+.+--
T Consensus 106 ~~al~~~~~~l~~~gd~Vlv~~p 128 (409)
T PLN02656 106 TQAIDVALSMLARPGANILLPRP 128 (409)
T ss_pred HHHHHHHHHHHhCCCCeEEEeCC
Confidence 56777778888777777776543
No 169
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=22.03 E-value=49 Score=31.68 Aligned_cols=18 Identities=17% Similarity=0.434 Sum_probs=14.2
Q ss_pred eEecCC--CcchHHHHHhhhh
Q 027296 173 IYTSGA--SGTNAAVIRGALR 191 (225)
Q Consensus 173 i~TSGA--~GtNaAvIRGalr 191 (225)
|+|||+ .|.|| +|||+.+
T Consensus 8 IltsGGdapGmNa-aI~~vv~ 27 (403)
T PRK06555 8 LLTAGGLAPCLSS-AVGGLIE 27 (403)
T ss_pred EECCCCCchhHHH-HHHHHHH
Confidence 789997 79997 5677764
No 170
>PLN02651 cysteine desulfurase
Probab=22.01 E-value=1.3e+02 Score=25.99 Aligned_cols=7 Identities=43% Similarity=0.781 Sum_probs=3.1
Q ss_pred CCeeEec
Q 027296 170 KNHIYTS 176 (225)
Q Consensus 170 gn~i~TS 176 (225)
|.+|+++
T Consensus 88 g~~vl~~ 94 (364)
T PLN02651 88 KKHVITT 94 (364)
T ss_pred CCEEEEc
Confidence 4444443
No 171
>PRK06381 threonine synthase; Validated
Probab=21.82 E-value=3e+02 Score=23.95 Aligned_cols=59 Identities=14% Similarity=0.110 Sum_probs=35.5
Q ss_pred hhHHHHHHHHHHHHHhhCCeeE--ecCCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHHHHHH
Q 027296 153 FMHQELIEILSYALVITKNHIY--TSGASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLA 218 (225)
Q Consensus 153 ~~hq~LIEllsyAlvl~gn~i~--TSGA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~elLe 218 (225)
|=..-+.-++.+|......+|+ |||-.|...|.+--++.- -.+|++|... +.+-.++++
T Consensus 46 ~K~R~a~~~l~~a~~~g~~~lv~aSsGN~g~alA~~aa~~G~----~~~ivvp~~~---~~~~~~~l~ 106 (319)
T PRK06381 46 QKDRIAEAHVRRAMRLGYSGITVGTCGNYGASIAYFARLYGL----KAVIFIPRSY---SNSRVKEME 106 (319)
T ss_pred cHHHHHHHHHHHHHHcCCCEEEEeCCcHHHHHHHHHHHHcCC----cEEEEECCCC---CHHHHHHHH
Confidence 4445566677777776667788 666555555554444333 4789999753 444444443
No 172
>cd06368 PBP1_iGluR_non_NMDA_like N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the non-NMDA (N-methyl-d-asparate) subtypes of ionotropic glutamate receptors. While this N-terminal domain belongs to the periplasmic-binding fold type I superfamily, the glutamate-binding domain of the iGluR is structurally homologous to the periplasmic-binding fold type II. The LIVBP-like domain of iGluRs is thought to play a role in the initial assembly of iGluR subunits, but it is not well understood how this domain is arranged and functions in intact iGluR. Glutamate mediates the majority of excitatory synaptic transmission in the central nervous system via two broad classes of ionotropic receptors, characterized by their response to glutamate agonists: N-methyl-d -aspartate (NMDA) and non-NMDA receptors. NMDA receptors
Probab=21.70 E-value=3.6e+02 Score=22.23 Aligned_cols=83 Identities=19% Similarity=0.059 Sum_probs=44.7
Q ss_pred hHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHH-----hhCCeeEecCCCcchHHHHHhhhhccCCCeeEEE
Q 027296 127 DYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALV-----ITKNHIYTSGASGTNAAVIRGALRAERPDLLTVI 201 (225)
Q Consensus 127 D~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlv-----l~gn~i~TSGA~GtNaAvIRGalrae~p~lLTVi 201 (225)
|+-.+|..|++.++++|-+.+.- .....++..|.- ...+.|++.+..... .. .+...+ .- ..|..
T Consensus 168 d~~~~l~~i~~~~~d~Vi~~~~~------~~~~~i~~qa~~~g~~~~~~~~i~~~~~~~~~-~~-~~~~~~-~~-~~~~~ 237 (324)
T cd06368 168 MYRPLLKEIKREKERRIILDCSP------ERLKEFLEQAVEVGMMSEYYHYILTNLDFHTL-DL-ELFRYG-GV-NITGF 237 (324)
T ss_pred HHHHHHHHHhhccCceEEEECCH------HHHHHHHHHHHHhccccCCcEEEEccCCcccc-ch-hhhhcC-Cc-eEEEE
Confidence 79999999999999999776642 233333332222 223567776655432 11 111111 22 23433
Q ss_pred ecCcccCCChhHHHHHHHhh
Q 027296 202 LPQSLKKQPPESQELLAKVR 221 (225)
Q Consensus 202 LPQSL~rQp~Es~elLe~V~ 221 (225)
... ..+.++.++.+++..
T Consensus 238 ~~~--~~~~~~~~~f~~~~~ 255 (324)
T cd06368 238 RLV--DPDNPEVQKFIQRWE 255 (324)
T ss_pred EEe--cCCChHHHHHHHHHH
Confidence 222 235677777776554
No 173
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.58 E-value=2.3e+02 Score=22.05 Aligned_cols=33 Identities=24% Similarity=0.212 Sum_probs=20.0
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHH
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALV 167 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlv 167 (225)
+.++|.++|++++.+.-...+++-.+-...++.
T Consensus 110 l~~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~ 142 (266)
T cd06278 110 LLAKGCRRIAFIGGPADTSTSRERERGFRDALA 142 (266)
T ss_pred HHHCCCceEEEEcCCCcccchHHHHHHHHHHHH
Confidence 445799999999765444444444444444443
No 174
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=21.47 E-value=1.1e+02 Score=29.34 Aligned_cols=24 Identities=25% Similarity=0.404 Sum_probs=22.0
Q ss_pred hh-HHHHHHHHHhhCCceEEEeccc
Q 027296 126 VD-YLQELLAIQQQGPRAIGFFGTR 149 (225)
Q Consensus 126 vD-~lqELaaiQq~g~rrIa~lGsR 149 (225)
+| ++.|+..+.+.|-+.|.+||--
T Consensus 60 ~d~l~~~~~~~~~lGi~av~LFgvp 84 (330)
T COG0113 60 LDRLVEEAEELVDLGIPAVILFGVP 84 (330)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeCCC
Confidence 67 8899999999999999999975
No 175
>TIGR01325 O_suc_HS_sulf O-succinylhomoserine sulfhydrylase. This model describes O-succinylhomoserine sulfhydrylase, one of several related pyridoxal phosphate-dependent enzymes of cysteine and methionine metabolism. This enzyme is part of an alternative pathway of homocysteine biosynthesis, a step in methionine biosynthesis.
Probab=21.46 E-value=2.2e+02 Score=25.43 Aligned_cols=20 Identities=20% Similarity=0.272 Sum_probs=11.9
Q ss_pred HHHHHHHHHHhhCCeeEecC
Q 027296 158 LIEILSYALVITKNHIYTSG 177 (225)
Q Consensus 158 LIEllsyAlvl~gn~i~TSG 177 (225)
.|+++-.+++..|.+|+++.
T Consensus 81 Ai~~al~al~~~Gd~Vl~~~ 100 (380)
T TIGR01325 81 AIQAALMTLLQAGDHVVASR 100 (380)
T ss_pred HHHHHHHHHhCCCCEEEEec
Confidence 44444456666677777654
No 176
>PLN00175 aminotransferase family protein; Provisional
Probab=21.37 E-value=1.5e+02 Score=26.63 Aligned_cols=19 Identities=37% Similarity=0.377 Sum_probs=9.5
Q ss_pred eeEecCCCcchHHHHHhhh
Q 027296 172 HIYTSGASGTNAAVIRGAL 190 (225)
Q Consensus 172 ~i~TSGA~GtNaAvIRGal 190 (225)
-++|+|+++....++++.+
T Consensus 118 I~vt~G~~~al~~~~~~l~ 136 (413)
T PLN00175 118 VTVTSGCTEAIAATILGLI 136 (413)
T ss_pred EEEeCCHHHHHHHHHHHhC
Confidence 4455555555444555443
No 177
>PF01118 Semialdhyde_dh: Semialdehyde dehydrogenase, NAD binding domain; InterPro: IPR000534 The semialdehyde dehydrogenase family is found in N-acetyl-glutamine semialdehyde dehydrogenase (AgrC), which is involved in arginine biosynthesis, and aspartate-semialdehyde dehydrogenase [], an enzyme involved in the biosynthesis of various amino acids from aspartate. This family is also found in yeast and fungal Arg5,6 protein, which is cleaved into the enzymes N-acety-gamma-glutamyl-phosphate reductase and acetylglutamate kinase. These are also involved in arginine biosynthesis. All proteins in this entry contain a NAD binding region of semialdehyde dehydrogenase.; GO: 0016620 oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0006520 cellular amino acid metabolic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 3Q0E_B 1MB4_A 3PZR_A 1MC4_A 3TZ6_A 3VOS_A 2CVO_B 2R00_C 2QZ9_A 2EP5_C ....
Probab=21.21 E-value=1.1e+02 Score=22.99 Aligned_cols=45 Identities=16% Similarity=0.288 Sum_probs=32.9
Q ss_pred eEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCC-CcchHHHHHh
Q 027296 142 AIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGA-SGTNAAVIRG 188 (225)
Q Consensus 142 rIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA-~GtNaAvIRG 188 (225)
||||+|.. +++=++|+++|...--.+--.++-+.. .|...+...+
T Consensus 1 rV~IvGAt--G~vG~~l~~lL~~hp~~e~~~~~~~~~~~g~~~~~~~~ 46 (121)
T PF01118_consen 1 RVAIVGAT--GYVGRELLRLLAEHPDFELVALVSSSRSAGKPLSEVFP 46 (121)
T ss_dssp EEEEESTT--SHHHHHHHHHHHHTSTEEEEEEEESTTTTTSBHHHTTG
T ss_pred CEEEECCC--CHHHHHHHHHHhcCCCccEEEeeeeccccCCeeehhcc
Confidence 79999932 677789999998865555556666666 7777776655
No 178
>cd01563 Thr-synth_1 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants, OPH is an intermediate between the methionine and threonine/isoleucine pathways. Thus threonine synthase competes for OPH with cystathionine-gamma-synthase, the first enzyme in the methionine pathway. These enzymes are in general dimers. Members of this CD, Thr-synth_1, are widely distributed in bacteria, archaea and higher plants.
Probab=21.19 E-value=5e+02 Score=22.50 Aligned_cols=58 Identities=12% Similarity=0.042 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHHHHhhCCeeEec--CCCcchHHHHHhhhhccCCCeeEEEecCcccCCChhHHHHHH
Q 027296 154 MHQELIEILSYALVITKNHIYTS--GASGTNAAVIRGALRAERPDLLTVILPQSLKKQPPESQELLA 218 (225)
Q Consensus 154 ~hq~LIEllsyAlvl~gn~i~TS--GA~GtNaAvIRGalrae~p~lLTViLPQSL~rQp~Es~elLe 218 (225)
=..-+.-++.+|....+.+|+++ |-+|...|.+-..+. =-.+|++|... +++-+++|+
T Consensus 54 K~R~a~~~l~~a~~~g~~~vv~~SsGN~g~alA~~a~~~G----~~~~ivvp~~~---~~~k~~~l~ 113 (324)
T cd01563 54 KDRGMTVAVSKAKELGVKAVACASTGNTSASLAAYAARAG----IKCVVFLPAGK---ALGKLAQAL 113 (324)
T ss_pred HHhhHHHHHHHHHHcCCCEEEEeCCCHHHHHHHHHHHHcC----CceEEEEeCCC---CHHHHHHHH
Confidence 34445667778877778888875 223333343333333 34899999875 455555554
No 179
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.07 E-value=4.1e+02 Score=20.71 Aligned_cols=36 Identities=22% Similarity=0.210 Sum_probs=22.7
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
+-++|.++|++++...--..+++.++=...++...|
T Consensus 112 l~~~g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~ 147 (268)
T cd06289 112 LISLGHRRIAFIGGLEDSSTRRERLAGYRAALAEAG 147 (268)
T ss_pred HHHCCCCCEEEecCCccccchHHHHHHHHHHHHHcC
Confidence 345699999999754322356666666666664443
No 180
>TIGR01264 tyr_amTase_E tyrosine aminotransferase, eukaryotic. This model describes tyrosine aminotransferase as found in animals and Trypanosoma cruzi. It is the first enzyme of a pathway of tyrosine degradation via homogentisate. Several plant enzyme designated as probable tyrosine aminotransferases are very closely related to an experimentally demonstrated nicotianamine aminotransferase, an enzyme in a siderophore (iron uptake chelator) biosynthesis pathway. These plant sequences are excluded from the model seed and score between the trusted an noise cutoffs.
Probab=21.04 E-value=98 Score=27.16 Aligned_cols=21 Identities=24% Similarity=0.216 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHhhCCeeEec
Q 027296 156 QELIEILSYALVITKNHIYTS 176 (225)
Q Consensus 156 q~LIEllsyAlvl~gn~i~TS 176 (225)
++.+.++..++...|.+|+..
T Consensus 105 ~~al~~~~~~l~~~gd~v~i~ 125 (401)
T TIGR01264 105 SHAIEMCIAALANAGQNILVP 125 (401)
T ss_pred HHHHHHHHHHhCCCCCEEEEe
Confidence 456666666666666655554
No 181
>TIGR03235 DNA_S_dndA cysteine desulfurase DndA. This model describes DndA, a protein related to IscS and part of a larger family of cysteine desulfurases. It is encoded, typically, divergently from a conserved, sparsely distributed operon for sulfur modification of DNA. This modification system is designated dnd, after the phenotype of DNA degradation during electrophoresis. The system is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=20.93 E-value=1.3e+02 Score=25.65 Aligned_cols=34 Identities=29% Similarity=0.345 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHhh-CCeeEecCCCcchHHHHHhh
Q 027296 156 QELIEILSYALVIT-KNHIYTSGASGTNAAVIRGA 189 (225)
Q Consensus 156 q~LIEllsyAlvl~-gn~i~TSGA~GtNaAvIRGa 189 (225)
.++.|.++.-+-.. .+-++|+|++..+.+++++.
T Consensus 45 ~~~r~~la~~~g~~~~~v~~~~g~t~a~~~~l~~l 79 (353)
T TIGR03235 45 ERARKQVAEALGADTEEVIFTSGATESNNLAILGL 79 (353)
T ss_pred HHHHHHHHHHhCCCCCeEEEeCCHHHHHHHHHHHH
Confidence 33444444333222 34555555554444444444
No 182
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=20.72 E-value=2.2e+02 Score=21.49 Aligned_cols=33 Identities=15% Similarity=0.267 Sum_probs=14.5
Q ss_pred hCCeeEecCCCcchHHH----HHhhhhccCCCeeEEE
Q 027296 169 TKNHIYTSGASGTNAAV----IRGALRAERPDLLTVI 201 (225)
Q Consensus 169 ~gn~i~TSGA~GtNaAv----IRGalrae~p~lLTVi 201 (225)
.+..++-.|-.|.++.- +...+.+.+|+++.|.
T Consensus 22 ~~~~v~n~g~~G~t~~~~~~~~~~~~~~~~pd~v~i~ 58 (174)
T cd01841 22 KGKTVNNLGIAGISSRQYLEHIEPQLIQKNPSKVFLF 58 (174)
T ss_pred CCCeEEecccccccHHHHHHHHHHHHHhcCCCEEEEE
Confidence 34445555555544322 2223334455555444
No 183
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=20.61 E-value=1.9e+02 Score=22.75 Aligned_cols=34 Identities=9% Similarity=0.143 Sum_probs=23.3
Q ss_pred hhCCceEEEecccccchhHHHHHHHHHHHHHhhC
Q 027296 137 QQGPRAIGFFGTRNMGFMHQELIEILSYALVITK 170 (225)
Q Consensus 137 q~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~g 170 (225)
++|.|+|+++|.......+++-.+-...++...|
T Consensus 108 ~~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~ 141 (261)
T cd06272 108 EKGHKKIAYIGDLSLDRRQRKRFKGFLETCDENG 141 (261)
T ss_pred HcCchhEEEeecccccccHHHHHHHHHHHHHHcC
Confidence 4699999999876654556655565666665544
No 184
>TIGR03551 F420_cofH 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, CofH subunit. This enzyme, together with CofG, complete the biosynthesis of 7,8-didemethyl-8-hydroxy-5-deazariboflavin synthase, the chromophore of coenzyme F420. The chromophore is also used in cyanobacteria DNA photolyases.
Probab=20.59 E-value=2.2e+02 Score=25.37 Aligned_cols=23 Identities=9% Similarity=0.091 Sum_probs=14.8
Q ss_pred HHHHHHHHHhhCCceEEEecccc
Q 027296 128 YLQELLAIQQQGPRAIGFFGTRN 150 (225)
Q Consensus 128 ~lqELaaiQq~g~rrIa~lGsRh 150 (225)
+++|+..+.+.|.++|.|.|..+
T Consensus 75 I~e~~~~~~~~G~~~i~l~gG~~ 97 (343)
T TIGR03551 75 IAERAAEAWKAGATEVCIQGGIH 97 (343)
T ss_pred HHHHHHHHHHCCCCEEEEEeCCC
Confidence 66666666666777777765544
No 185
>COG0352 ThiE Thiamine monophosphate synthase [Coenzyme metabolism]
Probab=20.47 E-value=1.6e+02 Score=25.70 Aligned_cols=51 Identities=24% Similarity=0.360 Sum_probs=32.0
Q ss_pred hhHHHHHHHHHhhCCceEEEecccccchhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHhhhhccCCCe
Q 027296 126 VDYLQELLAIQQQGPRAIGFFGTRNMGFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRGALRAERPDL 197 (225)
Q Consensus 126 vD~lqELaaiQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRGalrae~p~l 197 (225)
++.++++..+.+ ...|||=|. .-+++-|++ .+|+.|+ |||++.++++||..
T Consensus 147 ~~~l~~~~~~~~--iP~vAIGGi-----~~~nv~~v~------------~~Ga~gV--Avvsai~~a~d~~~ 197 (211)
T COG0352 147 LEGLREIRELVN--IPVVAIGGI-----NLENVPEVL------------EAGADGV--AVVSAITSAADPAA 197 (211)
T ss_pred HHHHHHHHHhCC--CCEEEEcCC-----CHHHHHHHH------------HhCCCeE--EehhHhhcCCCHHH
Confidence 456665544443 556776553 345555544 3577775 89999999977753
No 186
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.42 E-value=2.5e+02 Score=22.08 Aligned_cols=35 Identities=20% Similarity=0.205 Sum_probs=22.0
Q ss_pred HHhhCCceEEEecccccchhHHHHHHHHHHHHHhh
Q 027296 135 IQQQGPRAIGFFGTRNMGFMHQELIEILSYALVIT 169 (225)
Q Consensus 135 iQq~g~rrIa~lGsRhvp~~hq~LIEllsyAlvl~ 169 (225)
+.++|.++|++++...-...++.-.+=...++...
T Consensus 112 l~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~ 146 (270)
T cd06296 112 LLELGHRRIGFITGPPDLLCSRARLDGYRAALAEA 146 (270)
T ss_pred HHHcCCCcEEEEcCCCcchhHHHHHHHHHHHHHHc
Confidence 45579999999976543344555555555555443
No 187
>cd01834 SGNH_hydrolase_like_2 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=20.31 E-value=2.8e+02 Score=20.70 Aligned_cols=61 Identities=18% Similarity=0.295 Sum_probs=30.4
Q ss_pred ceEEEeccccc---chhHHHHHHHHHHHHHhhCCeeEecCCCcchHHHHHh----hhhccCCCeeEEEe
Q 027296 141 RAIGFFGTRNM---GFMHQELIEILSYALVITKNHIYTSGASGTNAAVIRG----ALRAERPDLLTVIL 202 (225)
Q Consensus 141 rrIa~lGsRhv---p~~hq~LIEllsyAlvl~gn~i~TSGA~GtNaAvIRG----alrae~p~lLTViL 202 (225)
+||.++|.-.. ++. ..+.+.|.....-.+-.++.-|-+|..++-+.. .+...+|++++|-+
T Consensus 2 ~~v~~~GDSit~g~~~~-~~~~~~l~~~~~~~~~~v~n~g~~G~t~~~~~~~~~~~~~~~~~d~v~l~~ 69 (191)
T cd01834 2 DRIVFIGNSITDRGGYV-GYVETYLAARYPELKLTFRNLGWSGDTVSDLAARRDRDVLPAKPDVVSIMF 69 (191)
T ss_pred CEEEEeCCChhhccccH-HHHHHHHHHhCCCCCcEEEEcccCccchhhhhhhhhcccccCCCCEEEEEe
Confidence 57788886432 222 222222222211123466666766665543322 22345788888854
No 188
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=20.30 E-value=1.2e+02 Score=23.55 Aligned_cols=36 Identities=19% Similarity=0.270 Sum_probs=26.0
Q ss_pred HhhCCeeEecCCCcchHHHHHhhhhccCCCeeEEEe
Q 027296 167 VITKNHIYTSGASGTNAAVIRGALRAERPDLLTVIL 202 (225)
Q Consensus 167 vl~gn~i~TSGA~GtNaAvIRGalrae~p~lLTViL 202 (225)
+..|.-++.=-++|.|..+|+.+..|.+-...||.|
T Consensus 101 ~~~gDvli~iS~SG~s~~vi~a~~~Ak~~G~~vIal 136 (138)
T PF13580_consen 101 IRPGDVLIVISNSGNSPNVIEAAEEAKERGMKVIAL 136 (138)
T ss_dssp --TT-EEEEEESSS-SHHHHHHHHHHHHTT-EEEEE
T ss_pred CCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEE
Confidence 567777887778999999999999997777777754
No 189
>PRK09920 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha; Provisional
Probab=20.21 E-value=1.4e+02 Score=26.10 Aligned_cols=37 Identities=22% Similarity=0.240 Sum_probs=31.2
Q ss_pred HHHhhCCeeEecCCC--cchHHHHHhhhhccCCCeeEEEe
Q 027296 165 ALVITKNHIYTSGAS--GTNAAVIRGALRAERPDLLTVIL 202 (225)
Q Consensus 165 Alvl~gn~i~TSGA~--GtNaAvIRGalrae~p~lLTViL 202 (225)
+++..|.+|..+|-. |+-.|+|+...|. .|.-||+|-
T Consensus 13 ~~I~DG~ti~~gGf~~~~~P~ali~al~r~-~~~dLtli~ 51 (219)
T PRK09920 13 GFFRDGMTIMVGGFMGIGTPSRLVEALLES-GVRDLTLIA 51 (219)
T ss_pred hcCCCCCEEEECcccCcCCHHHHHHHHHhc-CCCceEEEE
Confidence 368899999998864 5888999998888 888899997
No 190
>PRK14093 UDP-N-acetylmuramoylalanyl-D-glutamyl-2,6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional
Probab=20.14 E-value=3.5e+02 Score=25.12 Aligned_cols=65 Identities=18% Similarity=0.238 Sum_probs=35.0
Q ss_pred eeeecccccCCC-hh-HHHHHHHHHh-hCCceEEEeccc-ccchhHHHHHHHHHHHHHh-hCCeeEecCC
Q 027296 114 AVMVSEFKPVPD-VD-YLQELLAIQQ-QGPRAIGFFGTR-NMGFMHQELIEILSYALVI-TKNHIYTSGA 178 (225)
Q Consensus 114 ~v~~~~~~~~p~-vD-~lqELaaiQq-~g~rrIa~lGsR-hvp~~hq~LIEllsyAlvl-~gn~i~TSGA 178 (225)
.+.+.-|.--|+ +. .++.|..+.. ...|+|++||.= |.+=-.+.+-+-+...+.. .-.+++.-|-
T Consensus 340 ~iIDDsYahnP~s~~aaL~~l~~~~~~~~~r~i~V~G~m~elg~~~~~~h~~~~~~~~~~~~d~v~~~G~ 409 (479)
T PRK14093 340 TLIDESYNANPASMAAALGVLGRAPVGPQGRRIAVLGDMLELGPRGPELHRGLAEAIRANAIDLVFCCGP 409 (479)
T ss_pred EEEECCCCCCHHHHHHHHHHHHhhhccCCCCEEEEECChHHcCcHHHHHHHHHHHHHHHcCCCEEEEEch
Confidence 344444888776 44 5555555432 245899999862 4332233333333334443 2367877764
No 191
>PRK08308 acyl-CoA synthetase; Validated
Probab=20.01 E-value=1.2e+02 Score=26.08 Aligned_cols=10 Identities=40% Similarity=0.763 Sum_probs=8.4
Q ss_pred eeEecCCCcc
Q 027296 172 HIYTSGASGT 181 (225)
Q Consensus 172 ~i~TSGA~Gt 181 (225)
-++|||.||.
T Consensus 106 i~~TSGtTG~ 115 (414)
T PRK08308 106 LQYSSGTTGE 115 (414)
T ss_pred EEECCCCCCC
Confidence 4789999995
Done!