Query 030392
Match_columns 178
No_of_seqs 157 out of 1108
Neff 4.6
Searched_HMMs 46136
Date Fri Mar 29 13:02:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030392.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030392hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03652 UPF0081: Uncharacteri 100.0 2.9E-32 6.2E-37 214.3 9.8 104 63-168 1-107 (135)
2 COG0816 Predicted endonuclease 100.0 1.7E-31 3.7E-36 212.8 12.1 104 63-169 2-109 (141)
3 PRK00109 Holliday junction res 100.0 4.6E-31 1E-35 208.1 14.0 104 62-168 3-109 (138)
4 TIGR00250 RNAse_H_YqgF RNAse H 100.0 3.6E-30 7.8E-35 201.2 12.6 100 66-168 1-103 (130)
5 smart00732 YqgFc Likely ribonu 99.6 6.5E-14 1.4E-18 100.9 11.9 93 64-161 2-97 (99)
6 cd00529 RuvC_resolvase Hollida 97.3 0.0051 1.1E-07 49.0 10.8 92 64-157 1-104 (154)
7 PF02075 RuvC: Crossover junct 97.2 0.0041 9E-08 49.5 9.7 88 65-154 1-100 (149)
8 PRK00039 ruvC Holliday junctio 97.2 0.0048 1E-07 50.2 10.1 87 63-154 2-103 (164)
9 COG1548 Predicted transcriptio 96.4 0.011 2.4E-07 52.8 7.1 101 62-165 2-105 (330)
10 PF14639 YqgF: Holliday-juncti 96.3 0.061 1.3E-06 43.3 10.1 89 62-158 4-108 (150)
11 TIGR00228 ruvC crossover junct 96.0 0.049 1.1E-06 44.5 8.5 57 65-121 1-68 (156)
12 COG2183 Tex Transcriptional ac 94.1 0.38 8.3E-06 48.1 9.9 100 62-171 329-441 (780)
13 TIGR01766 tspaseT_teng_C trans 94.1 0.25 5.4E-06 34.7 6.5 62 98-160 12-82 (82)
14 COG0817 RuvC Holliday junction 92.8 0.13 2.8E-06 42.4 3.7 55 66-120 1-67 (160)
15 COG1940 NagC Transcriptional r 88.8 1.9 4.1E-05 37.0 7.2 93 62-157 5-116 (314)
16 PRK05082 N-acetylmannosamine k 88.3 2.2 4.8E-05 36.2 7.3 91 64-159 2-108 (291)
17 PRK09557 fructokinase; Reviewe 87.2 2 4.3E-05 36.8 6.4 89 65-158 2-107 (301)
18 PRK13310 N-acetyl-D-glucosamin 87.1 2 4.4E-05 36.7 6.4 91 65-158 2-107 (303)
19 TIGR00744 ROK_glcA_fam ROK fam 86.7 2.2 4.7E-05 36.5 6.4 89 66-159 1-109 (318)
20 PHA02942 putative transposase; 86.1 1.6 3.5E-05 39.9 5.5 56 106-161 262-326 (383)
21 PF07282 OrfB_Zn_ribbon: Putat 85.7 0.91 2E-05 31.1 2.9 27 135-161 3-29 (69)
22 PF04312 DUF460: Protein of un 85.6 4.2 9.2E-05 32.9 7.0 91 62-169 31-121 (138)
23 PRK09698 D-allose kinase; Prov 84.0 7.2 0.00016 33.2 8.3 94 62-158 3-115 (302)
24 PF07318 DUF1464: Protein of u 82.0 5.6 0.00012 36.5 7.1 101 67-171 1-140 (343)
25 PRK00292 glk glucokinase; Prov 80.1 7.8 0.00017 33.5 7.1 86 64-156 3-100 (316)
26 PRK13311 N-acetyl-D-glucosamin 78.0 9 0.0002 32.2 6.7 88 65-158 2-107 (256)
27 PRK14101 bifunctional glucokin 75.2 8.6 0.00019 37.0 6.5 89 61-154 16-113 (638)
28 PF14239 RRXRR: RRXRR protein 74.8 2.4 5.3E-05 35.4 2.4 22 62-83 50-71 (176)
29 PRK13318 pantothenate kinase; 72.5 19 0.00042 30.5 7.4 54 65-118 2-64 (258)
30 COG1646 Predicted phosphate-bi 72.4 6.5 0.00014 34.5 4.5 71 97-176 28-101 (240)
31 PF00480 ROK: ROK family; Int 71.4 3.5 7.6E-05 32.1 2.5 83 67-156 1-100 (179)
32 PRK13321 pantothenate kinase; 70.3 22 0.00047 30.3 7.2 54 65-118 2-64 (256)
33 PF01548 DEDD_Tnp_IS110: Trans 70.2 9.7 0.00021 28.8 4.6 50 65-117 1-51 (144)
34 PRK12408 glucokinase; Provisio 70.1 12 0.00026 33.1 5.8 86 63-155 16-117 (336)
35 TIGR03725 bact_YeaZ universal 68.1 48 0.001 27.1 8.6 83 65-154 1-91 (202)
36 cd01833 XynB_like SGNH_hydrola 65.6 40 0.00086 25.3 7.2 58 98-155 65-124 (157)
37 PF05188 MutS_II: MutS domain 64.4 25 0.00054 25.8 5.7 49 64-117 2-53 (137)
38 TIGR00111 pelota probable tran 60.7 70 0.0015 28.9 8.9 97 64-173 137-245 (351)
39 PF00582 Usp: Universal stress 60.3 46 0.001 23.1 6.3 51 97-154 89-139 (140)
40 PF13727 CoA_binding_3: CoA-bi 59.8 27 0.00059 26.3 5.4 45 99-154 130-174 (175)
41 PF14331 ImcF-related_N: ImcF- 59.3 37 0.0008 29.3 6.7 58 96-154 7-75 (266)
42 PF04848 Pox_A22: Poxvirus A22 59.0 45 0.00097 26.9 6.6 86 63-158 1-91 (143)
43 PF01261 AP_endonuc_2: Xylose 58.4 51 0.0011 25.4 6.8 65 97-161 71-138 (213)
44 COG1214 Inactive homolog of me 58.2 13 0.00028 31.4 3.6 85 63-154 1-95 (220)
45 cd01122 GP4d_helicase GP4d_hel 57.6 24 0.00051 29.4 5.1 60 97-156 127-189 (271)
46 PRK09472 ftsA cell division pr 56.4 50 0.0011 30.1 7.3 58 62-119 7-84 (420)
47 COG0079 HisC Histidinol-phosph 55.9 19 0.00042 32.4 4.5 53 98-158 134-186 (356)
48 PF03464 eRF1_2: eRF1 domain 2 55.8 41 0.00089 25.8 5.8 94 65-173 4-124 (133)
49 COG2433 Uncharacterized conser 55.5 45 0.00097 33.2 7.1 84 63-165 244-329 (652)
50 cd00984 DnaB_C DnaB helicase C 54.7 63 0.0014 26.3 7.0 60 97-156 110-171 (242)
51 cd01829 SGNH_hydrolase_peri2 S 54.7 48 0.001 25.8 6.1 52 99-155 97-148 (200)
52 TIGR03123 one_C_unchar_1 proba 53.6 62 0.0014 29.2 7.3 96 66-163 1-103 (318)
53 COG0675 Transposase and inacti 53.4 20 0.00043 29.9 4.0 51 109-162 261-311 (364)
54 PF11104 PilM_2: Type IV pilus 53.3 26 0.00056 30.8 4.8 54 67-120 1-71 (340)
55 cd00338 Ser_Recombinase Serine 53.1 88 0.0019 22.9 7.3 59 97-163 52-110 (137)
56 KOG1220 Phosphoglucomutase/pho 52.3 63 0.0014 31.9 7.5 50 102-160 90-142 (607)
57 PF12724 Flavodoxin_5: Flavodo 52.3 29 0.00064 26.6 4.5 40 109-154 42-81 (143)
58 PF14796 AP3B1_C: Clathrin-ada 52.1 14 0.00031 29.9 2.8 39 26-73 104-143 (145)
59 PRK09604 UGMP family protein; 52.0 70 0.0015 28.4 7.4 93 63-166 1-118 (332)
60 PRK15080 ethanolamine utilizat 51.6 1.5E+02 0.0032 25.4 9.1 88 62-159 23-127 (267)
61 cd00950 DHDPS Dihydrodipicolin 51.4 65 0.0014 27.4 6.9 54 97-157 82-135 (284)
62 cd01988 Na_H_Antiporter_C The 50.6 28 0.00061 24.8 3.9 25 97-121 81-105 (132)
63 PRK13320 pantothenate kinase; 50.6 74 0.0016 27.2 7.1 55 64-120 3-58 (244)
64 COG4012 Uncharacterized protei 50.6 1E+02 0.0022 28.2 8.0 62 63-127 1-63 (342)
65 PF00012 HSP70: Hsp70 protein; 50.5 14 0.00029 34.5 2.7 17 65-81 1-17 (602)
66 PRK09605 bifunctional UGMP fam 50.0 92 0.002 29.1 8.1 97 63-169 1-118 (535)
67 cd03769 SR_IS607_transposase_l 50.0 69 0.0015 24.6 6.2 63 97-169 49-111 (134)
68 PF00701 DHDPS: Dihydrodipicol 48.8 1.3E+02 0.0029 25.6 8.4 54 97-157 83-136 (289)
69 PRK12359 flavodoxin FldB; Prov 48.6 22 0.00047 29.1 3.4 31 114-144 138-168 (172)
70 COG1775 HgdB Benzoyl-CoA reduc 48.6 34 0.00074 31.9 4.9 59 98-164 307-365 (379)
71 TIGR01865 cas_Csn1 CRISPR-asso 47.7 14 0.0003 37.2 2.4 18 64-81 2-19 (805)
72 cd02067 B12-binding B12 bindin 47.5 1.1E+02 0.0024 22.4 6.9 62 85-153 25-86 (119)
73 COG5026 Hexokinase [Carbohydra 47.4 1.7E+02 0.0036 28.2 9.3 116 61-177 73-224 (466)
74 COG1157 FliI Flagellar biosynt 46.7 54 0.0012 31.2 6.0 17 43-59 129-145 (441)
75 TIGR00749 glk glucokinase, pro 45.7 68 0.0015 27.9 6.2 84 66-156 1-99 (316)
76 PF14106 DUF4279: Domain of un 45.6 47 0.001 24.3 4.5 44 98-141 67-113 (118)
77 TIGR00619 sbcd exonuclease Sbc 45.5 1.1E+02 0.0024 25.9 7.4 54 97-154 26-81 (253)
78 PRK15118 universal stress glob 45.1 25 0.00054 26.2 3.0 50 97-156 90-139 (144)
79 cd01989 STK_N The N-terminal d 45.0 38 0.00083 25.0 4.0 23 97-119 90-112 (146)
80 PRK09982 universal stress prot 44.8 25 0.00055 26.5 3.0 48 97-154 90-137 (142)
81 PF13481 AAA_25: AAA domain; P 44.6 44 0.00095 26.0 4.4 58 97-155 127-186 (193)
82 cd01025 TOPRIM_recR TOPRIM_rec 44.2 21 0.00045 27.7 2.4 30 98-127 44-73 (112)
83 PRK15456 universal stress prot 43.1 26 0.00057 26.1 2.9 50 97-154 92-141 (142)
84 PF08821 CGGC: CGGC domain; I 43.0 68 0.0015 24.5 5.1 52 97-153 53-104 (107)
85 cd01828 sialate_O-acetylestera 42.8 1.1E+02 0.0023 23.3 6.3 53 98-151 73-127 (169)
86 PF06050 HGD-D: 2-hydroxygluta 42.6 60 0.0013 27.9 5.3 52 96-155 272-324 (349)
87 TIGR00674 dapA dihydrodipicoli 42.2 1.1E+02 0.0024 26.2 6.9 54 97-157 80-133 (285)
88 cd01844 SGNH_hydrolase_like_6 42.1 1.2E+02 0.0025 23.5 6.5 52 102-155 49-100 (177)
89 PRK07179 hypothetical protein; 42.1 69 0.0015 28.4 5.8 54 98-160 169-222 (407)
90 TIGR02529 EutJ ethanolamine ut 41.5 97 0.0021 26.1 6.3 58 67-124 1-74 (239)
91 cd01832 SGNH_hydrolase_like_1 41.3 95 0.0021 23.7 5.8 56 98-155 93-150 (185)
92 PRK03170 dihydrodipicolinate s 41.3 1.2E+02 0.0025 26.1 6.9 54 97-157 83-136 (292)
93 PRK09112 DNA polymerase III su 40.9 99 0.0022 27.9 6.6 69 103-171 93-166 (351)
94 TIGR00665 DnaB replicative DNA 40.8 97 0.0021 28.0 6.6 59 97-155 292-352 (434)
95 COG1831 Predicted metal-depend 40.8 60 0.0013 29.3 5.1 65 98-165 109-175 (285)
96 cd01987 USP_OKCHK USP domain i 40.6 50 0.0011 23.7 4.0 25 97-121 72-96 (124)
97 PF00155 Aminotran_1_2: Aminot 40.3 68 0.0015 27.4 5.3 62 97-164 130-196 (363)
98 TIGR01175 pilM type IV pilus a 40.2 89 0.0019 27.0 6.1 59 63-121 3-78 (348)
99 PRK10966 exonuclease subunit S 39.7 1.3E+02 0.0029 27.6 7.4 53 98-154 27-80 (407)
100 PRK15005 universal stress prot 39.6 35 0.00076 25.1 3.0 50 97-154 94-143 (144)
101 COG1924 Activator of 2-hydroxy 39.5 45 0.00097 31.3 4.3 49 33-81 105-153 (396)
102 PF01182 Glucosamine_iso: Gluc 39.5 51 0.0011 27.0 4.2 66 98-170 9-74 (199)
103 cd06547 GH85_ENGase Endo-beta- 39.3 1.2E+02 0.0025 27.5 6.8 60 96-157 89-150 (339)
104 cd04724 Tryptophan_synthase_al 38.7 98 0.0021 26.2 6.0 54 97-153 14-81 (242)
105 COG0420 SbcD DNA repair exonuc 38.4 1.3E+02 0.0028 26.9 6.9 55 97-154 27-81 (390)
106 cd05785 DNA_polB_like2_exo Unc 37.9 1.3E+02 0.0028 25.0 6.5 23 96-119 59-81 (207)
107 PRK03317 histidinol-phosphate 37.7 1E+02 0.0022 26.7 6.1 53 98-159 148-200 (368)
108 TIGR00858 bioF 8-amino-7-oxono 37.6 1E+02 0.0022 26.0 5.9 53 98-159 131-186 (360)
109 cd01828 sialate_O-acetylestera 37.3 1.8E+02 0.0039 22.0 7.1 55 98-155 37-94 (169)
110 cd00408 DHDPS-like Dihydrodipi 37.0 1.2E+02 0.0026 25.6 6.3 56 97-159 79-134 (281)
111 PF08915 tRNA-Thr_ED: Archaea- 37.0 1.2E+02 0.0025 24.6 5.8 55 97-153 58-113 (138)
112 PF02310 B12-binding: B12 bind 36.7 1.5E+02 0.0032 21.3 5.9 47 99-153 40-86 (121)
113 TIGR00555 panK_eukar pantothen 36.6 1E+02 0.0022 27.3 5.9 17 65-81 2-18 (279)
114 PF02833 DHHA2: DHHA2 domain; 36.5 34 0.00074 25.5 2.6 49 67-118 26-74 (127)
115 cd06454 KBL_like KBL_like; thi 36.4 1.1E+02 0.0023 25.9 5.8 52 99-159 117-172 (349)
116 cd02172 RfaE_N N-terminal doma 36.3 67 0.0014 25.1 4.3 54 105-165 82-137 (144)
117 PRK09165 replicative DNA helic 36.0 1.1E+02 0.0024 28.8 6.4 59 97-155 328-390 (497)
118 cd02064 FAD_synthetase_N FAD s 35.5 1E+02 0.0022 24.7 5.4 23 100-122 89-111 (180)
119 PF02844 GARS_N: Phosphoribosy 35.4 35 0.00076 25.9 2.5 22 96-117 48-69 (100)
120 TIGR01174 ftsA cell division p 35.4 94 0.002 27.5 5.6 55 65-119 2-76 (371)
121 cd03770 SR_TndX_transposase Se 35.4 1.6E+02 0.0035 22.5 6.3 59 97-162 55-113 (140)
122 PF03129 HGTP_anticodon: Antic 35.2 1.4E+02 0.003 20.7 5.4 43 115-163 2-44 (94)
123 TIGR02398 gluc_glyc_Psyn gluco 35.0 1.8E+02 0.0039 27.8 7.6 69 98-166 303-378 (487)
124 cd01822 Lysophospholipase_L1_l 34.9 1.8E+02 0.0038 21.9 6.3 24 98-121 89-112 (177)
125 PTZ00400 DnaK-type molecular c 34.9 19 0.00042 35.1 1.2 19 63-81 41-59 (663)
126 cd02071 MM_CoA_mut_B12_BD meth 34.8 1.9E+02 0.0042 21.6 7.1 55 85-145 25-79 (122)
127 smart00842 FtsA Cell division 34.8 87 0.0019 25.0 4.8 55 65-119 1-75 (187)
128 TIGR01769 GGGP geranylgeranylg 34.7 1.6E+02 0.0035 24.9 6.6 69 98-175 12-83 (205)
129 PLN03184 chloroplast Hsp70; Pr 34.6 42 0.00091 32.9 3.5 20 62-81 38-57 (673)
130 cd01841 NnaC_like NnaC (CMP-Ne 33.9 1.8E+02 0.0039 22.0 6.3 55 99-155 77-135 (174)
131 cd00293 USP_Like Usp: Universa 33.9 75 0.0016 21.8 3.9 23 99-121 82-104 (130)
132 PRK06234 methionine gamma-lyas 33.8 70 0.0015 28.9 4.5 56 98-161 138-193 (400)
133 cd04506 SGNH_hydrolase_YpmR_li 33.3 2E+02 0.0043 22.5 6.7 56 99-155 108-168 (204)
134 TIGR00683 nanA N-acetylneurami 33.2 2.1E+02 0.0046 24.8 7.3 58 97-160 83-140 (290)
135 PTZ00009 heat shock 70 kDa pro 32.9 41 0.00089 32.7 3.1 21 61-81 2-22 (653)
136 TIGR01312 XylB D-xylulose kina 32.7 68 0.0015 29.1 4.3 16 66-81 1-16 (481)
137 PF03309 Pan_kinase: Type III 32.7 85 0.0018 25.7 4.5 53 65-117 1-60 (206)
138 PRK06703 flavodoxin; Provision 32.6 1.2E+02 0.0026 23.2 5.1 45 98-144 101-147 (151)
139 PRK01033 imidazole glycerol ph 32.6 58 0.0013 27.8 3.6 41 86-126 195-235 (258)
140 TIGR00241 CoA_E_activ CoA-subs 32.5 94 0.002 26.0 4.8 17 65-81 2-18 (248)
141 PRK04147 N-acetylneuraminate l 32.5 2.2E+02 0.0048 24.5 7.3 54 97-157 86-139 (293)
142 cd01820 PAF_acetylesterase_lik 32.3 2.6E+02 0.0057 22.3 7.6 54 100-155 116-171 (214)
143 TIGR02539 SepCysS Sep-tRNA:Cys 32.2 1.4E+02 0.003 26.2 6.1 54 98-160 128-187 (370)
144 PRK09064 5-aminolevulinate syn 32.1 1.4E+02 0.0031 26.2 6.2 53 98-159 163-218 (407)
145 cd00598 GH18_chitinase-like Th 31.9 2.5E+02 0.0055 22.0 7.3 50 96-146 90-139 (210)
146 PF03644 Glyco_hydro_85: Glyco 31.9 1.5E+02 0.0032 26.4 6.2 58 97-156 86-144 (311)
147 PTZ00107 hexokinase; Provision 31.8 1E+02 0.0023 29.2 5.5 107 61-169 72-230 (464)
148 TIGR02237 recomb_radB DNA repa 31.7 2.1E+02 0.0046 22.7 6.6 60 98-158 85-150 (209)
149 COG4126 Hydantoin racemase [Am 31.6 95 0.0021 27.2 4.8 53 85-152 143-201 (230)
150 TIGR02313 HpaI-NOT-DapA 2,4-di 31.6 2.3E+02 0.0051 24.6 7.3 55 98-158 83-137 (294)
151 cd01123 Rad51_DMC1_radA Rad51_ 31.5 1.2E+02 0.0025 24.6 5.1 61 98-158 102-170 (235)
152 TIGR03190 benz_CoA_bzdN benzoy 31.3 1.4E+02 0.003 27.0 6.0 57 96-160 299-355 (377)
153 PRK13392 5-aminolevulinate syn 31.2 1.3E+02 0.0028 26.7 5.7 51 100-159 165-218 (410)
154 PHA02546 47 endonuclease subun 31.2 1.7E+02 0.0036 26.0 6.4 59 97-157 26-89 (340)
155 PF14450 FtsA: Cell division p 31.1 45 0.00097 25.0 2.5 18 65-82 1-18 (120)
156 cd00954 NAL N-Acetylneuraminic 31.1 2.1E+02 0.0045 24.6 6.9 57 97-159 83-139 (288)
157 PRK10116 universal stress prot 31.1 81 0.0018 23.1 3.8 49 97-154 89-137 (142)
158 cd01834 SGNH_hydrolase_like_2 31.0 2.2E+02 0.0048 21.4 6.4 25 129-155 128-152 (191)
159 PF00982 Glyco_transf_20: Glyc 30.9 1.4E+02 0.003 28.3 6.1 69 99-167 295-370 (474)
160 TIGR01295 PedC_BrcD bacterioci 30.1 1.3E+02 0.0029 22.7 4.9 50 99-157 13-62 (122)
161 TIGR02263 benz_CoA_red_C benzo 30.0 94 0.002 28.2 4.7 50 98-155 309-358 (380)
162 PRK08760 replicative DNA helic 30.0 1.7E+02 0.0036 27.6 6.5 58 97-154 326-385 (476)
163 cd01838 Isoamyl_acetate_hydrol 29.8 1.6E+02 0.0034 22.5 5.3 56 98-155 93-161 (199)
164 PF04914 DltD_C: DltD C-termin 29.4 1.4E+02 0.003 23.6 5.0 54 97-150 36-91 (130)
165 cd00458 SugarP_isomerase Sugar 29.2 2.6E+02 0.0056 22.2 6.7 65 99-171 9-73 (169)
166 PRK13331 pantothenate kinase; 29.0 2.7E+02 0.0059 24.2 7.2 21 62-82 6-26 (251)
167 cd01835 SGNH_hydrolase_like_3 28.9 2.7E+02 0.0059 21.5 6.9 43 109-151 110-152 (193)
168 PLN02721 threonine aldolase 28.8 1.5E+02 0.0033 25.0 5.5 57 98-159 119-181 (353)
169 PRK13324 pantothenate kinase; 28.7 2.7E+02 0.0058 24.2 7.2 53 65-117 2-64 (258)
170 cd01121 Sms Sms (bacterial rad 28.4 2E+02 0.0044 26.3 6.6 58 98-156 146-208 (372)
171 cd06549 GH18_trifunctional GH1 28.2 2.3E+02 0.005 24.5 6.7 50 96-149 90-139 (298)
172 TIGR02236 recomb_radA DNA repa 28.0 1.4E+02 0.0029 25.8 5.2 61 98-158 178-247 (310)
173 TIGR00329 gcp_kae1 metallohydr 28.0 2.1E+02 0.0045 25.0 6.4 93 66-169 1-118 (305)
174 cd00951 KDGDH 5-dehydro-4-deox 28.0 2.7E+02 0.0057 24.1 7.0 52 97-155 81-132 (289)
175 TIGR03191 benz_CoA_bzdO benzoy 27.8 1.8E+02 0.004 27.0 6.3 58 97-162 348-405 (430)
176 PRK14865 rnpA ribonuclease P; 27.7 2.4E+02 0.0052 21.3 6.0 66 71-142 43-113 (116)
177 TIGR03286 methan_mark_15 putat 27.7 80 0.0017 29.7 3.9 44 33-81 119-162 (404)
178 TIGR03723 bact_gcp putative gl 27.4 4.3E+02 0.0094 23.3 8.4 84 65-155 1-108 (314)
179 COG3839 MalK ABC-type sugar tr 27.4 33 0.00071 31.3 1.3 86 68-162 70-165 (338)
180 PRK01688 histidinol-phosphate 27.4 97 0.0021 27.0 4.2 53 98-159 135-187 (351)
181 TIGR01285 nifN nitrogenase mol 27.4 1.7E+02 0.0038 27.0 6.1 60 96-159 77-138 (432)
182 COG3513 Predicted CRISPR-assoc 27.3 51 0.0011 34.2 2.7 20 62-81 3-22 (1088)
183 cd06297 PBP1_LacI_like_12 Liga 27.0 2.2E+02 0.0047 23.1 6.0 43 100-157 45-87 (269)
184 TIGR03600 phage_DnaB phage rep 27.0 2.9E+02 0.0062 25.0 7.3 56 99-154 293-350 (421)
185 cd01124 KaiC KaiC is a circadi 26.7 2.5E+02 0.0054 21.5 6.0 60 97-160 82-142 (187)
186 TIGR02260 benz_CoA_red_B benzo 26.6 2E+02 0.0044 26.6 6.3 57 98-161 338-394 (413)
187 TIGR01821 5aminolev_synth 5-am 26.5 1.7E+02 0.0037 25.8 5.7 52 99-159 163-217 (402)
188 cd01494 AAT_I Aspartate aminot 26.4 95 0.0021 22.6 3.5 52 101-161 83-134 (170)
189 PRK05958 8-amino-7-oxononanoat 26.3 2.1E+02 0.0046 24.4 6.1 54 98-160 154-209 (385)
190 PRK11175 universal stress prot 26.1 1.7E+02 0.0037 24.5 5.4 54 97-157 94-147 (305)
191 PRK03011 butyrate kinase; Prov 26.0 4.1E+02 0.009 24.1 8.1 91 63-158 2-131 (358)
192 PRK03158 histidinol-phosphate 25.9 86 0.0019 27.0 3.6 54 98-159 140-193 (359)
193 PF09298 FAA_hydrolase_N: Fuma 25.9 34 0.00074 26.0 1.0 12 71-82 14-25 (107)
194 cd00610 OAT_like Acetyl ornith 25.9 1.8E+02 0.0039 25.3 5.6 58 98-160 177-236 (413)
195 PRK14457 ribosomal RNA large s 25.8 2.6E+02 0.0057 25.3 6.8 56 96-157 270-328 (345)
196 PTZ00125 ornithine aminotransf 25.8 1.5E+02 0.0032 26.0 5.1 57 98-159 166-222 (400)
197 PRK04781 histidinol-phosphate 25.8 1.2E+02 0.0025 26.7 4.5 54 99-159 141-194 (364)
198 PRK13326 pantothenate kinase; 25.4 2.5E+02 0.0054 24.4 6.4 20 63-82 6-25 (262)
199 COG0156 BioF 7-keto-8-aminopel 25.3 1.8E+02 0.004 26.9 5.8 55 97-160 153-212 (388)
200 PRK14807 histidinol-phosphate 25.3 1.8E+02 0.0038 25.2 5.4 53 98-159 136-188 (351)
201 cd01821 Rhamnogalacturan_acety 25.3 1.5E+02 0.0032 23.3 4.6 23 98-120 95-117 (198)
202 TIGR02024 FtcD glutamate formi 25.3 1.1E+02 0.0023 27.8 4.1 39 114-156 90-128 (298)
203 PRK05595 replicative DNA helic 25.2 2.3E+02 0.0049 26.1 6.4 57 98-154 299-357 (444)
204 TIGR03192 benz_CoA_bzdQ benzoy 24.9 2.4E+02 0.0052 25.3 6.3 49 63-111 32-83 (293)
205 PRK13410 molecular chaperone D 24.9 60 0.0013 31.9 2.7 19 63-81 2-20 (668)
206 TIGR01753 flav_short flavodoxi 24.6 1.8E+02 0.0039 21.2 4.7 41 111-154 46-86 (140)
207 PF08608 Wyosine_form: Wyosine 24.4 58 0.0013 22.6 1.9 28 126-158 26-53 (62)
208 cd01836 FeeA_FeeB_like SGNH_hy 24.3 3.3E+02 0.0072 20.9 7.0 57 98-155 92-156 (191)
209 PF01385 OrfB_IS605: Probable 24.2 47 0.001 26.3 1.6 21 61-81 122-142 (227)
210 COG0329 DapA Dihydrodipicolina 24.2 4E+02 0.0086 23.4 7.5 53 97-156 86-138 (299)
211 PF14606 Lipase_GDSL_3: GDSL-l 24.1 2.7E+02 0.0058 23.2 6.1 55 97-155 46-100 (178)
212 cd01825 SGNH_hydrolase_peri1 S 24.1 1.7E+02 0.0036 22.3 4.6 23 98-120 82-106 (189)
213 cd06097 Aspergillopepsin_like 24.0 56 0.0012 27.4 2.1 16 63-78 262-277 (278)
214 PRK11104 hemG protoporphyrinog 24.0 1.5E+02 0.0033 23.8 4.5 38 111-154 47-84 (177)
215 PRK00290 dnaK molecular chaper 24.0 64 0.0014 31.0 2.7 18 64-81 3-20 (627)
216 COG3703 ChaC Uncharacterized p 24.0 83 0.0018 26.8 3.0 20 62-81 57-76 (190)
217 PRK13929 rod-share determining 23.9 4.9E+02 0.011 22.8 8.1 64 64-129 5-74 (335)
218 PRK10812 putative DNAse; Provi 23.9 2.4E+02 0.0051 24.3 5.9 56 97-155 75-131 (265)
219 PTZ00285 glucosamine-6-phospha 23.9 1.7E+02 0.0037 24.8 5.0 68 99-171 17-89 (253)
220 PRK07505 hypothetical protein; 23.8 2.5E+02 0.0055 24.8 6.2 52 98-159 168-219 (402)
221 COG1855 ATPase (PilT family) [ 23.7 3E+02 0.0066 27.1 7.0 73 66-148 213-291 (604)
222 TIGR00502 nagB glucosamine-6-p 23.7 2.4E+02 0.0053 23.9 5.9 69 98-171 16-89 (259)
223 PLN03026 histidinol-phosphate 23.6 1.7E+02 0.0036 25.9 5.1 52 98-159 163-214 (380)
224 cd06542 GH18_EndoS-like Endo-b 23.4 4E+02 0.0086 22.1 7.1 51 96-146 90-143 (255)
225 PRK02731 histidinol-phosphate 23.3 1.2E+02 0.0025 26.2 3.9 54 98-159 143-196 (367)
226 TIGR02400 trehalose_OtsA alpha 23.3 4.1E+02 0.0088 24.8 7.7 69 98-166 277-352 (456)
227 cd04501 SGNH_hydrolase_like_4 23.3 3.4E+02 0.0074 20.7 6.7 55 97-151 83-141 (183)
228 TIGR00604 rad3 DNA repair heli 23.2 1.1E+02 0.0024 29.9 4.1 15 150-164 667-681 (705)
229 PTZ00186 heat shock 70 kDa pre 23.2 76 0.0016 31.2 3.0 19 63-81 27-45 (657)
230 PRK08153 histidinol-phosphate 23.1 1.4E+02 0.003 26.2 4.4 56 98-160 143-198 (369)
231 cd06307 PBP1_uncharacterized_s 23.0 3.8E+02 0.0083 21.5 6.7 45 100-159 50-94 (275)
232 COG1537 PelA Predicted RNA-bin 23.0 6.2E+02 0.013 23.6 9.1 95 63-172 134-239 (352)
233 PF06180 CbiK: Cobalt chelatas 23.0 1.6E+02 0.0035 25.8 4.7 58 84-145 76-136 (262)
234 PRK01433 hscA chaperone protei 22.9 73 0.0016 30.8 2.8 19 63-81 19-37 (595)
235 TIGR00671 baf pantothenate kin 22.9 2.9E+02 0.0063 23.5 6.2 52 65-117 1-56 (243)
236 KOG0968 DNA polymerase zeta, c 22.9 3E+02 0.0065 29.9 7.2 128 30-162 650-808 (1488)
237 PRK13930 rod shape-determining 22.9 70 0.0015 27.5 2.5 17 64-80 9-25 (335)
238 PF00704 Glyco_hydro_18: Glyco 22.8 3.6E+02 0.0079 22.8 6.8 50 96-146 101-151 (343)
239 TIGR02637 RhaS rhamnose ABC tr 22.8 2.9E+02 0.0064 22.8 6.1 44 100-157 47-90 (302)
240 PRK05636 replicative DNA helic 22.6 2.9E+02 0.0062 26.4 6.7 57 98-154 363-421 (505)
241 TIGR01368 CPSaseIIsmall carbam 22.6 1.6E+02 0.0034 27.0 4.8 47 63-116 174-220 (358)
242 PRK04870 histidinol-phosphate 22.5 2E+02 0.0043 24.8 5.2 53 98-159 141-193 (356)
243 TIGR03025 EPS_sugtrans exopoly 22.5 2.5E+02 0.0054 25.5 6.0 23 99-121 177-199 (445)
244 PRK10534 L-threonine aldolase; 22.5 1.3E+02 0.0028 25.6 4.0 53 98-158 112-169 (333)
245 PRK03620 5-dehydro-4-deoxygluc 22.4 4.2E+02 0.0091 23.1 7.2 51 98-155 89-139 (303)
246 PF03808 Glyco_tran_WecB: Glyc 22.3 3.1E+02 0.0067 21.8 6.0 39 97-145 88-126 (172)
247 PRK07324 transaminase; Validat 22.3 2.3E+02 0.005 24.9 5.7 55 98-159 142-196 (373)
248 cd06545 GH18_3CO4_chitinase Th 22.3 3E+02 0.0065 23.0 6.1 48 96-148 85-132 (253)
249 PF13472 Lipase_GDSL_2: GDSL-l 22.3 3.1E+02 0.0067 19.8 6.5 53 100-155 92-148 (179)
250 PF05378 Hydant_A_N: Hydantoin 22.3 2.1E+02 0.0045 23.2 5.0 55 66-120 2-66 (176)
251 TIGR00416 sms DNA repair prote 22.3 3.2E+02 0.007 25.5 6.9 59 98-157 158-221 (454)
252 COG3598 RepA RecA-family ATPas 22.2 2.9E+02 0.0064 26.0 6.4 105 43-155 134-239 (402)
253 COG0589 UspA Universal stress 22.2 1.4E+02 0.003 21.4 3.6 23 97-119 100-122 (154)
254 cd01125 repA Hexameric Replica 22.2 2.9E+02 0.0063 22.7 6.0 60 97-158 98-159 (239)
255 KOG0237 Glycinamide ribonucleo 22.1 1.6E+02 0.0035 29.7 5.0 68 96-167 54-138 (788)
256 cd06311 PBP1_ABC_sugar_binding 21.9 3.6E+02 0.0078 21.7 6.4 47 99-158 49-95 (274)
257 TIGR02350 prok_dnaK chaperone 21.8 73 0.0016 30.3 2.5 17 65-81 2-18 (595)
258 PF13911 AhpC-TSA_2: AhpC/TSA 21.7 2.7E+02 0.0058 20.2 5.1 41 102-157 5-45 (115)
259 TIGR03878 thermo_KaiC_2 KaiC d 21.7 3.3E+02 0.0072 23.1 6.4 60 97-159 118-177 (259)
260 cd00983 recA RecA is a bacter 21.7 3.7E+02 0.008 24.3 6.9 64 96-159 119-193 (325)
261 PHA02542 41 41 helicase; Provi 21.6 3.3E+02 0.0071 25.8 6.8 57 98-154 287-350 (473)
262 cd02874 GH18_CFLE_spore_hydrol 21.5 4.1E+02 0.0089 22.8 7.0 50 96-149 89-138 (313)
263 COG0623 FabI Enoyl-[acyl-carri 21.5 30 0.00065 30.7 -0.1 84 64-161 170-253 (259)
264 TIGR00583 mre11 DNA repair pro 21.4 4.3E+02 0.0093 24.6 7.4 44 97-142 29-72 (405)
265 TIGR01822 2am3keto_CoA 2-amino 21.2 3.2E+02 0.0069 23.7 6.3 54 98-160 153-211 (393)
266 PRK13411 molecular chaperone D 21.2 79 0.0017 30.8 2.7 18 64-81 3-20 (653)
267 PF07066 DUF3882: Lactococcus 21.2 2.1E+02 0.0045 23.8 4.7 49 63-111 2-63 (159)
268 TIGR03881 KaiC_arch_4 KaiC dom 21.2 3.9E+02 0.0085 21.5 6.4 61 96-159 105-167 (229)
269 cd05565 PTS_IIB_lactose PTS_II 21.1 1.8E+02 0.0038 21.8 4.0 59 98-156 16-80 (99)
270 COG0443 DnaK Molecular chapero 21.1 89 0.0019 30.2 3.0 19 63-81 5-23 (579)
271 cd00952 CHBPH_aldolase Trans-o 21.0 4.6E+02 0.0099 23.0 7.2 55 97-157 90-144 (309)
272 COG0363 NagB 6-phosphogluconol 20.9 2.4E+02 0.0052 24.2 5.3 65 99-172 17-87 (238)
273 cd02876 GH18_SI-CLP Stabilin-1 20.9 3.7E+02 0.0081 23.3 6.6 52 96-149 94-148 (318)
274 PF00004 AAA: ATPase family as 20.8 2.1E+02 0.0046 20.1 4.4 54 103-159 16-69 (132)
275 cd01823 SEST_like SEST_like. A 20.8 3.4E+02 0.0073 22.1 6.0 22 100-121 134-157 (259)
276 PRK10949 protease 4; Provision 20.7 3.7E+02 0.008 26.5 7.1 62 97-163 99-160 (618)
277 cd05472 cnd41_like Chloroplast 20.7 88 0.0019 26.5 2.6 19 63-81 280-298 (299)
278 PRK04390 rnpA ribonuclease P; 20.6 3.9E+02 0.0085 20.3 7.1 71 69-144 40-115 (120)
279 PF04250 DUF429: Protein of un 20.5 2.2E+02 0.0048 23.1 4.8 50 67-122 1-52 (209)
280 cd06294 PBP1_ycjW_transcriptio 20.5 3.6E+02 0.0078 21.4 6.0 45 98-157 48-92 (270)
281 cd01400 6PGL 6PGL: 6-Phosphogl 20.5 2.4E+02 0.0052 23.4 5.1 61 100-171 13-75 (219)
282 cd01967 Nitrogenase_MoFe_alpha 20.4 3.1E+02 0.0067 24.5 6.1 57 96-160 73-131 (406)
283 PRK05183 hscA chaperone protei 20.4 89 0.0019 30.2 2.9 20 62-81 18-37 (616)
284 COG3845 ABC-type uncharacteriz 20.4 1.6E+02 0.0035 28.6 4.5 67 97-172 116-185 (501)
285 PRK13844 recombination protein 20.2 74 0.0016 27.1 2.0 30 98-127 126-155 (200)
286 COG2842 Uncharacterized ATPase 20.1 1.1E+02 0.0025 27.6 3.3 41 97-137 180-220 (297)
287 TIGR01315 5C_CHO_kinase FGGY-f 20.0 2E+02 0.0043 27.1 5.0 17 65-81 2-18 (541)
No 1
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=99.97 E-value=2.9e-32 Score=214.26 Aligned_cols=104 Identities=29% Similarity=0.379 Sum_probs=93.1
Q ss_pred ceEEEEecCCceEEEEeecC--CcccccEEEEccC-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~--~~A~Pl~tI~~~~-~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~ 139 (178)
|++||||||+||||||+||+ .+|+|+++|.+.+ ..+++.|.+++++|+++.||||+|++|||+++++++.+++|+++
T Consensus 1 mriL~lD~G~kriGiAvsd~~~~~a~pl~~i~~~~~~~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~ 80 (135)
T PF03652_consen 1 MRILGLDYGTKRIGIAVSDPLGIIASPLETIPRRNREKDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEE 80 (135)
T ss_dssp -EEEEEEECSSEEEEEEEETTTSSEEEEEEEEECCCCCCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHH
T ss_pred CeEEEEEeCCCeEEEEEecCCCCeEeeeEEEECCCCchHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHH
Confidence 58999999999999999995 4799999999764 57899999999999999999999999999999999999999999
Q ss_pred HHHHhccCCCcEEEEcCCCchhhhHHHHH
Q 030392 140 LAVRAAERSFSDILITAIFSFSCHFAIFF 168 (178)
Q Consensus 140 L~~~~~~~glpV~lvDERlSTs~~~a~~~ 168 (178)
|+++++ ++||++|||||||..-...+.
T Consensus 81 L~~~~~--~ipV~~~DEr~TT~~A~~~l~ 107 (135)
T PF03652_consen 81 LKKRFP--GIPVILVDERLTTKEAERRLR 107 (135)
T ss_dssp HHHHH---TSEEEEEECSCSHHCCHCCHH
T ss_pred HHHhcC--CCcEEEECCChhHHHHHHHHH
Confidence 999984 689999999999987665543
No 2
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=99.97 E-value=1.7e-31 Score=212.79 Aligned_cols=104 Identities=26% Similarity=0.358 Sum_probs=97.6
Q ss_pred ceEEEEecCCceEEEEeecC--CcccccEEEEccC-h-hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-E-KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~--~~A~Pl~tI~~~~-~-~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~ 138 (178)
+++||||||+||||||+||. .+|+|+++|.+.+ . .+++.|.+++++|+++.||||+|++|+|+++++++.+++|++
T Consensus 2 ~~ilalD~G~KrIGvA~sd~~~~~A~pl~~i~~~~~~~~~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~~ 81 (141)
T COG0816 2 MRILALDVGTKRIGVAVSDILGSLASPLETIKRKNGKPQDFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFAE 81 (141)
T ss_pred ceEEEEecCCceEEEEEecCCCccccchhhheeccccHhhHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHHH
Confidence 68999999999999999995 4899999999876 3 489999999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCcEEEEcCCCchhhhHHHHHH
Q 030392 139 RLAVRAAERSFSDILITAIFSFSCHFAIFFT 169 (178)
Q Consensus 139 ~L~~~~~~~glpV~lvDERlSTs~~~a~~~~ 169 (178)
+|++++ ++||+|||||+||..-.++++-
T Consensus 82 ~L~~r~---~lpv~l~DERltTv~A~~~L~~ 109 (141)
T COG0816 82 RLKKRF---NLPVVLWDERLSTVEAERMLIE 109 (141)
T ss_pred HHHHhc---CCCEEEEcCccCHHHHHHHHHH
Confidence 999998 5899999999999999988875
No 3
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=99.97 E-value=4.6e-31 Score=208.07 Aligned_cols=104 Identities=27% Similarity=0.388 Sum_probs=94.8
Q ss_pred CceEEEEecCCceEEEEeecC--CcccccEEEEccC-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHH
Q 030392 62 GGFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~--~~A~Pl~tI~~~~-~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~ 138 (178)
.+++||||||+||||||+||. .+|+|+.++.+++ ...++.|.+++++|+++.||||+|++|||+++++++.|++|++
T Consensus 3 ~~~iLalD~G~kriGvAv~d~~~~~a~pl~~i~~~~~~~~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~ 82 (138)
T PRK00109 3 SGRILGLDVGTKRIGVAVSDPLGGTAQPLETIKRNNGTPDWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFAN 82 (138)
T ss_pred CCcEEEEEeCCCEEEEEEecCCCCEEcCEEEEEcCCCchHHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHH
Confidence 578999999999999999994 6899999998764 4578999999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCcEEEEcCCCchhhhHHHHH
Q 030392 139 RLAVRAAERSFSDILITAIFSFSCHFAIFF 168 (178)
Q Consensus 139 ~L~~~~~~~glpV~lvDERlSTs~~~a~~~ 168 (178)
+|++++ ++||++|||||||..-.-+++
T Consensus 83 ~L~~~~---~~~v~~~DEr~TT~~A~~~l~ 109 (138)
T PRK00109 83 RLEGRF---GLPVVLVDERLSTVEAERALA 109 (138)
T ss_pred HHHHHh---CCCEEEEcCCcCHHHHHHHHH
Confidence 999987 589999999999877666554
No 4
>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=99.97 E-value=3.6e-30 Score=201.21 Aligned_cols=100 Identities=24% Similarity=0.346 Sum_probs=91.5
Q ss_pred EEEecCCceEEEEeecC--CcccccEEEEccC-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHH
Q 030392 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD~--~~A~Pl~tI~~~~-~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~ 142 (178)
||||||+||||||+||. .+|+|++++.+++ ...++.|.+++++|+++.||||+|++|||++++++++|++|+++|++
T Consensus 1 laiD~G~kriGvA~~d~~~~~a~pl~~i~~~~~~~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~ 80 (130)
T TIGR00250 1 LGLDFGTKSIGVAGQDITGWTAQGIPTIKAQDGEPDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEG 80 (130)
T ss_pred CeEccCCCeEEEEEECCCCCEEeceEEEEecCCcHHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHH
Confidence 69999999999999995 5899999998754 56789999999999999999999999999999999999999999999
Q ss_pred HhccCCCcEEEEcCCCchhhhHHHHH
Q 030392 143 RAAERSFSDILITAIFSFSCHFAIFF 168 (178)
Q Consensus 143 ~~~~~glpV~lvDERlSTs~~~a~~~ 168 (178)
++ ++||++|||||||..-...+.
T Consensus 81 ~~---~~~v~~~DEr~TT~~A~~~l~ 103 (130)
T TIGR00250 81 RF---GVPVVLWDERLSTVEAESGLF 103 (130)
T ss_pred Hh---CCCEEEEcCCcCHHHHHHHHH
Confidence 87 689999999999987666554
No 5
>smart00732 YqgFc Likely ribonuclease with RNase H fold. YqgF proteins are likely to function as an alternative to RuvC in most bacteria, and could be the principal holliday junction resolvases in low-GC Gram-positive bacteria. In Spt6p orthologues, the catalytic residues are substituted indicating that they lack enzymatic functions.
Probab=99.56 E-value=6.5e-14 Score=100.87 Aligned_cols=93 Identities=24% Similarity=0.375 Sum_probs=78.2
Q ss_pred eEEEEecCCceEEEEeec--CCcccccEEEEccC-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHH
Q 030392 64 FSLGVDLGLSRTGLALSK--GFCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD--~~~A~Pl~tI~~~~-~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L 140 (178)
++||||+|..+||+|+.| +.+..+..+....+ ...++.|.+++++++++.|+||.|-.++|......+ ..|++.|
T Consensus 2 ~ilgiD~Ggt~i~~a~~d~~g~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~--~~l~~~l 79 (99)
T smart00732 2 RVLGLDPGRKGIGVAVVDETGKLADPLEVIPRTNKEADAARLKKLIKKYQPDLIVIGLPLNMNGTASRETE--EAFAELL 79 (99)
T ss_pred cEEEEccCCCeEEEEEECCCCCEecCEEEEEecCcchHHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHH--HHHHHHH
Confidence 589999999999999998 34566665554322 467899999999999999999999999998876654 8999999
Q ss_pred HHHhccCCCcEEEEcCCCchh
Q 030392 141 AVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 141 ~~~~~~~glpV~lvDERlSTs 161 (178)
++++ ++||+++||+.||.
T Consensus 80 ~~~~---~~pv~~~nDa~st~ 97 (99)
T smart00732 80 KERF---NLPVVLVDERLATV 97 (99)
T ss_pred HHhh---CCcEEEEeCCcccc
Confidence 9887 68999999999975
No 6
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=97.25 E-value=0.0051 Score=48.96 Aligned_cols=92 Identities=18% Similarity=0.122 Sum_probs=58.5
Q ss_pred eEEEEecCCceEEEEeecCC--c--ccccEEEEccC--------hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHH
Q 030392 64 FSLGVDLGLSRTGLALSKGF--C--VRPLTVLKLRG--------EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSN 131 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD~~--~--A~Pl~tI~~~~--------~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~ 131 (178)
+|||||.|.+++|+|+-+.. . .--.+++.... ....+.|.+++++++|+.++|=-+.--.+ .+.+.
T Consensus 1 rILGIDPGl~~~G~av~~~~~~~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~Pd~vaiE~~~~~~n--~~s~~ 78 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVFFAKN--PDSAL 78 (154)
T ss_pred CEEEEccCcCceEEEEEEeeCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEEEhhcccC--hHHHH
Confidence 68999999999999998732 1 22344565321 13567999999999999999987763222 23333
Q ss_pred HHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 132 KVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 132 ~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
.+-.+-..+-..+..+++||+.++-+
T Consensus 79 ~l~~~~Gvi~~~~~~~~i~v~e~~P~ 104 (154)
T cd00529 79 KLGQARGALILALANRNLPVFEYTPN 104 (154)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEccC
Confidence 33333223333333357899887643
No 7
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=97.19 E-value=0.0041 Score=49.53 Aligned_cols=88 Identities=24% Similarity=0.280 Sum_probs=47.2
Q ss_pred EEEEecCCceEEEEeecC----CcccccEEEEccCh--------hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHH
Q 030392 65 SLGVDLGLSRTGLALSKG----FCVRPLTVLKLRGE--------KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK 132 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~----~~A~Pl~tI~~~~~--------~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~ 132 (178)
|||||.|..++|.|+=|. ...--.++|..+.+ ...+.|.+++++|+|+.+++=-+.- +.....+..
T Consensus 1 ILGIDPgl~~tG~avi~~~~~~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~P~~vaiE~~f~--~~n~~s~~~ 78 (149)
T PF02075_consen 1 ILGIDPGLSNTGYAVIEEDGGKLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYNPDEVAIEEIFF--GKNPKSALK 78 (149)
T ss_dssp EEEEE--SSEEEEEEEEEETTEEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH--SEEEEEE-S------HHHHHH
T ss_pred CEEECCCCCCeeEEEEEeeCCEEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEeehhhh--ccCHHHHHH
Confidence 799999999999999872 12333455653221 2467899999999999999998864 222223333
Q ss_pred HHHHHHHHHHHhccCCCcEEEE
Q 030392 133 VRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
+-+.-..+.-.+..+|+||+.+
T Consensus 79 l~~arGvi~l~~~~~~i~v~~y 100 (149)
T PF02075_consen 79 LGQARGVILLAAAQRGIPVFEY 100 (149)
T ss_dssp HHHHHHHHHHHHHTTT--EEEE
T ss_pred HHHHHHHHHHHHHHcCCeEEEE
Confidence 3232222222233357888765
No 8
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=97.18 E-value=0.0048 Score=50.23 Aligned_cols=87 Identities=24% Similarity=0.157 Sum_probs=55.8
Q ss_pred ceEEEEecCCceEEEEeecC--Cc--ccccEEEEccC--------hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKG--FC--VRPLTVLKLRG--------EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQS 130 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~--~~--A~Pl~tI~~~~--------~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a 130 (178)
++|||||.|..++|+|+-+. .. .--.+++.... ....+.|.+++++|+|+.++|=-|.-- .....+
T Consensus 2 m~iLGIDPgl~~tG~avi~~~~~~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~Pd~vaiE~~f~~--~n~~sa 79 (164)
T PRK00039 2 MRILGIDPGLRRTGYGVIEVEGRRLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQPDEVAIEEVFFN--KNPQSA 79 (164)
T ss_pred CEEEEEccccCceeEEEEEecCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEehhhhc--cChHHH
Confidence 58999999999999999772 21 22334554321 134679999999999999999988742 222222
Q ss_pred HH---HHHHHHHHHHHhccCCCcEEEE
Q 030392 131 NK---VRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 131 ~~---Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.. ++--+.... ...|+||+.+
T Consensus 80 ~~l~~arGvi~la~---~~~~ipv~ey 103 (164)
T PRK00039 80 LKLGQARGVAILAA---AQRGLPVAEY 103 (164)
T ss_pred HHHHHHHHHHHHHH---HHcCCCEEEE
Confidence 22 232222222 2348899876
No 9
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=96.42 E-value=0.011 Score=52.82 Aligned_cols=101 Identities=17% Similarity=0.145 Sum_probs=70.0
Q ss_pred CceEEEEecCCceEEEEeecCCcc---cccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHH
Q 030392 62 GGFSLGVDLGLSRTGLALSKGFCV---RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~~~A---~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~ 138 (178)
.+.+||||+|...+-+|.+||..- .-+-....+.+.+.+.|++++.+++++.+=|=+--.+-.-....++-|+.-++
T Consensus 2 ~~kilGiDIGGAntk~a~~DG~~~~~d~~YlPMWk~k~rL~~~Lkei~~k~~~~~vgvvMTaELaD~f~tk~eGVe~Ii~ 81 (330)
T COG1548 2 KMKILGIDIGGANTKIASSDGDNYKIDHIYLPMWKKKDRLEETLKEIVHKDNVDYVGVVMTAELADAFKTKAEGVEDIID 81 (330)
T ss_pred CceEEEeeccCccchhhhccCCeeeeeEEEeccccchhHHHHHHHHHhccCCcceeEEEeeHHHHHHhhhHHhHHHHHHH
Confidence 368999999999999999997421 11111222224567789999988888865444443344455667888999899
Q ss_pred HHHHHhccCCCcEEEEcCCCchhhhHH
Q 030392 139 RLAVRAAERSFSDILITAIFSFSCHFA 165 (178)
Q Consensus 139 ~L~~~~~~~glpV~lvDERlSTs~~~a 165 (178)
...+.| +.||+++|=.=++.+-.|
T Consensus 82 ~v~~Af---~~pv~~v~~~G~~~ssEa 105 (330)
T COG1548 82 TVEKAF---NCPVYVVDVNGNFLSSEA 105 (330)
T ss_pred HHHHhc---CCceEEEeccCcCcChhH
Confidence 999888 679999986544443344
No 10
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=96.26 E-value=0.061 Score=43.30 Aligned_cols=89 Identities=15% Similarity=0.170 Sum_probs=43.1
Q ss_pred CceEEEEecCCce-----EEEEeec-CCcccccEEE-----Ecc-ChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHH
Q 030392 62 GGFSLGVDLGLSR-----TGLALSK-GFCVRPLTVL-----KLR-GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQ 129 (178)
Q Consensus 62 ~~rILgLD~G~KR-----IGVAiSD-~~~A~Pl~tI-----~~~-~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~ 129 (178)
.-|+||+-||.-+ +++.+-+ |.. .-...+ .+. ..++.+.|.++|++++|+.|+|| | .+..
T Consensus 4 ~~rVla~~~g~g~~~~~~~~v~ld~~G~v-~d~~~~~~~~~~~~~~~~~~~~l~~~i~~~kP~vI~v~------g-~~~~ 75 (150)
T PF14639_consen 4 GPRVLALSWGSGDGDDAVFCVVLDENGEV-LDHLKLVYNERDRERKEEDMERLKKFIEKHKPDVIAVG------G-NSRE 75 (150)
T ss_dssp ---EEEEE-TT--TTS-EEEEEE-TTS-E-EEEEEE-S-TT-SS-SHHHHHHHHHHHHHH--SEEEE---------SSTH
T ss_pred CCEEEEEEcCCCCCCCCEEEEEECCCCcE-EEEEEEcCCccchHHHHHHHHHHHHHHHHcCCeEEEEc------C-CChh
Confidence 3589999999665 5555544 321 111111 111 13567899999999999999996 3 3445
Q ss_pred HHHHHHHHHHHHHHhc----cCCCcEEEEcCCC
Q 030392 130 SNKVRSVAGRLAVRAA----ERSFSDILITAIF 158 (178)
Q Consensus 130 a~~Vr~Fa~~L~~~~~----~~glpV~lvDERl 158 (178)
+++..++.+.+-+... ...++|+++||..
T Consensus 76 s~~l~~~v~~~v~~~~~~~~~~~i~V~~v~~~~ 108 (150)
T PF14639_consen 76 SRKLYDDVRDIVEELDEDEQMPPIPVVIVDDEV 108 (150)
T ss_dssp HHHHHHHHHHHHHHTTB-TTS-B--EEE---TT
T ss_pred HHHHHHHHHHHHHHhhhcccCCCceEEEECcHH
Confidence 5566555555544432 0247999999975
No 11
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=96.01 E-value=0.049 Score=44.45 Aligned_cols=57 Identities=19% Similarity=0.191 Sum_probs=42.3
Q ss_pred EEEEecCCceEEEEeec--CC--cccccEEEEccC-------hhHHHHHHHHHHHcCCCEEEEeecCC
Q 030392 65 SLGVDLGLSRTGLALSK--GF--CVRPLTVLKLRG-------EKLELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD--~~--~A~Pl~tI~~~~-------~~~~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
|||||-|+.++|.|+=+ +. ..--.++|.... ....+.|.+++++|+|+.+.|=-++-
T Consensus 1 ILGIDPGl~~tG~gvi~~~~~~~~~v~~G~I~t~~~~~~~RL~~I~~~l~~~i~~y~P~~~aiE~~F~ 68 (156)
T TIGR00228 1 ILGIDPGSRVTGYGVIRQVGRQLSYLGSGCIRTKVDDLPSRLKLIYAGVTEIITQFQPNYFAIEQVFM 68 (156)
T ss_pred CEeECcccccccEEEEEecCCeEEEEEeeEEECCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEeHHhh
Confidence 69999999999999976 22 223334554222 13467999999999999999988874
No 12
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=94.12 E-value=0.38 Score=48.05 Aligned_cols=100 Identities=21% Similarity=0.318 Sum_probs=69.2
Q ss_pred CceEEEEecCCceEE--EEeecCC-------cccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHH
Q 030392 62 GGFSLGVDLGLSRTG--LALSKGF-------CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK 132 (178)
Q Consensus 62 ~~rILgLD~G~KRIG--VAiSD~~-------~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~ 132 (178)
+..+||+|-| -|+| +|+.|+. +.-|.+.... .....+.|..+++.|+|+.|.|| +|+ .++.
T Consensus 329 ~~~~lglDPg-~rtG~k~Avvd~tGk~l~~~~Iyp~~p~~~-~~~~~~~l~~l~~~~~Ve~iaIG-----ngT---aSre 398 (780)
T COG2183 329 PKATLGLDPG-FRTGCKVAVVDDTGKLLDTATIYPHPPVNQ-SDKAEATLKDLIRKYKVELIAIG-----NGT---ASRE 398 (780)
T ss_pred CcceeecCCc-cccccEEEEEcCCCceeceeEEEcCCCccc-hHHHHHHHHHHHHHhCceEEEEe-----cCC---cchh
Confidence 3489999999 5555 6777732 1233332211 13456789999999999999999 455 4566
Q ss_pred HHHHHHHHHHHhccCCCcEEEEcCC----CchhhhHHHHHHhh
Q 030392 133 VRSVAGRLAVRAAERSFSDILITAI----FSFSCHFAIFFTVL 171 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glpV~lvDER----lSTs~~~a~~~~~~ 171 (178)
+.+|+..+.+..+..++..+.+.|. ||.|...|.=||=|
T Consensus 399 te~fv~~vl~~~~~~~~~~viVsEagAsvYsaSe~A~~EFPdL 441 (780)
T COG2183 399 TEKFVADVLKELPKEKVLKVIVSEAGASVYSASERAAEEFPDL 441 (780)
T ss_pred HHHHHHHHHHhccCCCCcEEEEcccccchhcccHHHHHHCCCC
Confidence 7778888888775447888888885 67777777666644
No 13
>TIGR01766 tspaseT_teng_C transposase, IS605 OrfB family, central region. This model represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by pfam model pfam01385, and other proteins.
Probab=94.12 E-value=0.25 Score=34.69 Aligned_cols=62 Identities=13% Similarity=0.199 Sum_probs=40.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC---CH-HHH-----HHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSE---TP-QSN-----KVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e---~~-~a~-----~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
....|.+...+ +++.||||...+..+.. +. ..+ .-.+|.+.|+-.....|++|..+||.+||
T Consensus 12 ~a~~iv~~~~~-~~~~Ivie~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~yka~~~Gi~v~~v~~~yTS 82 (82)
T TIGR01766 12 IVKQIVEYAKE-NNGTIVLEDLKNIKEMVDKKSKYLRRKLHQWSFRKLISKIKYKAEEYGIEVIEVNPAYTS 82 (82)
T ss_pred HHHHHHHHHHH-cCCEEEECCccchhhhcchhhHHHHHHHHhhhHHHHHHHHHHHHHHcCCeEEEeCccccc
Confidence 44567776666 67999999976333321 11 122 22345566666655569999999999986
No 14
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=92.82 E-value=0.13 Score=42.43 Aligned_cols=55 Identities=27% Similarity=0.308 Sum_probs=41.6
Q ss_pred EEEecCCceEEEEeecC--Cccc--ccEEEEccC--------hhHHHHHHHHHHHcCCCEEEEeecC
Q 030392 66 LGVDLGLSRTGLALSKG--FCVR--PLTVLKLRG--------EKLELQLLEIAQREETDEFIIGLPK 120 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD~--~~A~--Pl~tI~~~~--------~~~~~~L~~iI~e~~v~~IVVGLPl 120 (178)
||||-|.+++|.++=+. .... ..++|.-.. ....+.|.+++++|+|+.+.|=-.+
T Consensus 1 lGIDPGl~~~G~gvI~~~~~~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~P~~~AIE~~F 67 (160)
T COG0817 1 LGIDPGLRRTGYGVIEVEGRQLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQPDEVAIEQVF 67 (160)
T ss_pred CCcCCCccccceEEEEccCCeEEEEeeeEEecCCCccHHHHHHHHHHHHHHHHHHhCCCeeehhHHH
Confidence 69999999999999883 2333 335665331 1356789999999999999998876
No 15
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=88.80 E-value=1.9 Score=36.98 Aligned_cols=93 Identities=17% Similarity=0.143 Sum_probs=54.6
Q ss_pred CceEEEEecCCceEEEEeecC--C-cc---cccEEEEcc-C--hhHHHHHHHHHHHc--C--CCEEEEeecCCCCCCC--
Q 030392 62 GGFSLGVDLGLSRTGLALSKG--F-CV---RPLTVLKLR-G--EKLELQLLEIAQRE--E--TDEFIIGLPKSWDGSE-- 126 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~--~-~A---~Pl~tI~~~-~--~~~~~~L~~iI~e~--~--v~~IVVGLPl~mdG~e-- 126 (178)
...++|||+|...|=+|+.|. . +. .|.++-... . +...+.+++++.++ . +-+|.++.|...+...
T Consensus 5 ~~~~lgidIggt~i~~~l~d~~g~~l~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iGIgi~~pg~~~~~~~~ 84 (314)
T COG1940 5 AMTVLGIDIGGTKIKVALVDLDGEILLRERIPTPTPDPEEAILEAILALVAELLKQAQGRVAIIGIGIPGPGDVDNGTVI 84 (314)
T ss_pred CcEEEEEEecCCEEEEEEECCCCcEEEEEEEecCCCCchhHHHHHHHHHHHHHHHhcCCcCceEEEEeccceeccCCcEE
Confidence 468999999999999999993 2 12 222221111 0 23445666666654 3 4455555555544331
Q ss_pred --CHHHHHH--HHHHHHHHHHhccCCCcEEEEcCC
Q 030392 127 --TPQSNKV--RSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 127 --~~~a~~V--r~Fa~~L~~~~~~~glpV~lvDER 157 (178)
.+..... -.|++.|++++ ++||...++-
T Consensus 85 ~~~~~~~~~~~~~l~~~L~~~~---~~Pv~veNDa 116 (314)
T COG1940 85 VPAPNLGWWNGVDLAEELEARL---GLPVFVENDA 116 (314)
T ss_pred eecCCCCccccccHHHHHHHHH---CCCEEEecHH
Confidence 1111111 34788999988 5899987754
No 16
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=88.30 E-value=2.2 Score=36.23 Aligned_cols=91 Identities=15% Similarity=0.153 Sum_probs=54.7
Q ss_pred eEEEEecCCceEEEEeec--CC-cccccEEEEc---cC-hhHHHHHHHHHHHc--CCCEEEEeecCCCC-CCC---CH-H
Q 030392 64 FSLGVDLGLSRTGLALSK--GF-CVRPLTVLKL---RG-EKLELQLLEIAQRE--ETDEFIIGLPKSWD-GSE---TP-Q 129 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD--~~-~A~Pl~tI~~---~~-~~~~~~L~~iI~e~--~v~~IVVGLPl~md-G~e---~~-~ 129 (178)
.++|+|+|..++-+++.| +. .+ ...++. .. +...+.+.+++++. ++..|.||.|=-.| |.. .+ .
T Consensus 2 ~~lgvdig~~~i~~~l~dl~g~i~~--~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~igi~~pG~vd~~~~~~~~~~~ 79 (291)
T PRK05082 2 TTLAIDIGGTKIAAALVGEDGQIRQ--RRQIPTPASQTPEALRQALSALVSPLQAQADRVAVASTGIINDGILTALNPHN 79 (291)
T ss_pred cEEEEEECCCEEEEEEEcCCCcEEE--EEEecCCCCCCHHHHHHHHHHHHHHhhhcCcEEEEeCcccccCCeeEEecCCC
Confidence 489999999999999999 22 22 111211 11 23556677777654 57899999984333 211 10 0
Q ss_pred H--HHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 130 S--NKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 130 a--~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
- -.=..+.+.|++++ ++||++.++--+
T Consensus 80 ~~~w~~~~l~~~l~~~~---~~pv~v~NDa~a 108 (291)
T PRK05082 80 LGGLLHFPLVQTLEQLT---DLPTIALNDAQA 108 (291)
T ss_pred CccccCCChHHHHHHHh---CCCEEEECcHHH
Confidence 0 01124667777776 689988776543
No 17
>PRK09557 fructokinase; Reviewed
Probab=87.18 E-value=2 Score=36.77 Aligned_cols=89 Identities=15% Similarity=0.153 Sum_probs=50.9
Q ss_pred EEEEecCCceEEEEeecC--C-cccccEEEEc--cC-hhHHHHHHHHHHHc-----CCCEEEEeecCCC---CCCCC--H
Q 030392 65 SLGVDLGLSRTGLALSKG--F-CVRPLTVLKL--RG-EKLELQLLEIAQRE-----ETDEFIIGLPKSW---DGSET--P 128 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~--~-~A~Pl~tI~~--~~-~~~~~~L~~iI~e~-----~v~~IVVGLPl~m---dG~e~--~ 128 (178)
++|+|+|..++-+|+.|. . ..+ ..++. .+ ....+.+.+++++. .+.+|.||.|=.. +|... +
T Consensus 2 ~lgidig~t~~~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgi~~pG~vd~~~g~i~~~~ 79 (301)
T PRK09557 2 RIGIDLGGTKIEVIALDDAGEELFR--KRLPTPRDDYQQTIEAIATLVDMAEQATGQRGTVGVGIPGSISPYTGLVKNAN 79 (301)
T ss_pred EEEEEECCCcEEEEEECCCCCEEEE--EEecCCCCCHHHHHHHHHHHHHHHHhhcCCceEEEecCcccCcCCCCeEEecC
Confidence 689999999999999992 2 111 12221 11 23455566555553 3567999998332 23211 1
Q ss_pred HHH-HHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 129 QSN-KVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 129 ~a~-~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
..- .-..+.+.|++++ ++||++.+.--
T Consensus 80 ~~~~~~~~l~~~l~~~~---~~pv~~~NDa~ 107 (301)
T PRK09557 80 STWLNGQPLDKDLSARL---NREVRLANDAN 107 (301)
T ss_pred CccccCCCHHHHHHHHH---CCCEEEccchh
Confidence 100 1123566788777 57988776543
No 18
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=87.07 E-value=2 Score=36.69 Aligned_cols=91 Identities=13% Similarity=0.100 Sum_probs=51.9
Q ss_pred EEEEecCCceEEEEeecC---CcccccEEEEccC-hhHHHHHHHHHHHc----C-CCEEEEeecCCCC---CCCCH-HHH
Q 030392 65 SLGVDLGLSRTGLALSKG---FCVRPLTVLKLRG-EKLELQLLEIAQRE----E-TDEFIIGLPKSWD---GSETP-QSN 131 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~---~~A~Pl~tI~~~~-~~~~~~L~~iI~e~----~-v~~IVVGLPl~md---G~e~~-~a~ 131 (178)
++|+|+|..+|-+++.|. +..+-....+... +...+.+.+++++. + +..|-||.|=..| |.... ...
T Consensus 2 ~lgidig~t~i~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~igia~pG~vd~~~g~~~~~~~~ 81 (303)
T PRK13310 2 YYGFDIGGTKIELGVFNEKLELQWEERVPTPRDSYDAFLDAVCELVAEADQRFGCKGSVGIGIPGMPETEDGTLYAANVP 81 (303)
T ss_pred eEEEEeCCCcEEEEEECCCCcEEEEEEecCCCcCHHHHHHHHHHHHHHHHhhcCCcceEEEeCCCcccCCCCEEeccCcc
Confidence 689999999999999992 2221110011112 34456666665543 2 3479999985443 32110 000
Q ss_pred --HHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 132 --KVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 132 --~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.=-.+.+.|++++ ++||++-+.--
T Consensus 82 ~w~~~~l~~~l~~~~---~~pV~ieNDa~ 107 (303)
T PRK13310 82 AASGKPLRADLSARL---GRDVRLDNDAN 107 (303)
T ss_pred cccCCcHHHHHHHHH---CCCeEEeccHh
Confidence 1124677788887 68999877653
No 19
>TIGR00744 ROK_glcA_fam ROK family protein (putative glucokinase). This alignment models one branch of the ROK superfamily of proteins. The three members of the seed alignment for this model all have experimental evidence for activity as glucokinase, but the set of related proteins is crowded with paralogs of different or unknown function. Proteins scoring above the trusted_cutoff will show strong similarity to at least one known glucokinase and may be designated as putative glucokinases. However, definitive identification of glucokinases should be done only with extreme caution.
Probab=86.74 E-value=2.2 Score=36.51 Aligned_cols=89 Identities=13% Similarity=0.135 Sum_probs=50.4
Q ss_pred EEEecCCceEEEEeecC-CcccccEEEEc--cChhHHHHHH----HHHHHc-----CCCEEEEeecCCCCCCCCH-----
Q 030392 66 LGVDLGLSRTGLALSKG-FCVRPLTVLKL--RGEKLELQLL----EIAQRE-----ETDEFIIGLPKSWDGSETP----- 128 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD~-~~A~Pl~tI~~--~~~~~~~~L~----~iI~e~-----~v~~IVVGLPl~mdG~e~~----- 128 (178)
+|+|+|..++-+++.|- ........+.. ..+...+.|. +++++. ++.+|-||.|=-.|...+.
T Consensus 1 lgidig~t~~~~~l~d~~g~i~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~i~gIgva~pG~vd~~~g~~~~~~ 80 (318)
T TIGR00744 1 IGVDIGGTTIKLGVVDEEGNILSKWKVPTDTTPETIVDAIASAVDSFIQHIAKVGHEIVAIGIGAPGPVNRQRGTVYFAV 80 (318)
T ss_pred CEEEeCCCEEEEEEECCCCCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHhcCCCccceEEEEEeccccccCCCCEEEecC
Confidence 58999999999999992 11111111211 1123334444 444433 5678999998433322111
Q ss_pred ---HHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 129 ---QSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 129 ---~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+. . ..+.+.|++++ ++||++.+.--+
T Consensus 81 ~~~w~-~-~~l~~~l~~~~---~~pv~v~NDa~~ 109 (318)
T TIGR00744 81 NLDWK-Q-EPLKEKVEARV---GLPVVVENDANA 109 (318)
T ss_pred CCCCC-C-CCHHHHHHHHH---CCCEEEechHHH
Confidence 11 1 13667788887 689998776554
No 20
>PHA02942 putative transposase; Provisional
Probab=86.14 E-value=1.6 Score=39.92 Aligned_cols=56 Identities=9% Similarity=0.014 Sum_probs=35.3
Q ss_pred HHHcCCCEEEEeecCCCCCCCCHHHHHHH---------HHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 106 AQREETDEFIIGLPKSWDGSETPQSNKVR---------SVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 106 I~e~~v~~IVVGLPl~mdG~e~~~a~~Vr---------~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
..+++++.|||+...+|-......++.+. .|...|+-.....|.+|+.+|+++||.
T Consensus 262 a~~~~~~~IviEdL~gm~k~~~~l~k~~~~~~~~~~~~~l~~~LeYKA~~~G~~Vv~V~p~yTSq 326 (383)
T PHA02942 262 AEDLGANVIKLEDLKNLIKDVNKLPAEFRDKLYLMQYHRIQYWIEWQAKKHGMIVEFVNPSYSSV 326 (383)
T ss_pred HHhCCCCEEEEccHHHHHhcccccchHHHHHhhhhhHHHHHHHHHHHHHHhCCEEEEECCCCCCc
Confidence 34667899999999766543222222222 233345444444689999999999765
No 21
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=85.70 E-value=0.91 Score=31.06 Aligned_cols=27 Identities=15% Similarity=0.230 Sum_probs=21.1
Q ss_pred HHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 135 SVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 135 ~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
+|.+.|+....+.|.+|+.+||.+||.
T Consensus 3 ~~~~~L~yka~~~G~~v~~v~~~~TSq 29 (69)
T PF07282_consen 3 QFRQRLEYKAEEYGIQVVEVDEAYTSQ 29 (69)
T ss_pred HHHHHHHHHHHHhCCEEEEECCCCCcc
Confidence 466666666666799999999999765
No 22
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=85.56 E-value=4.2 Score=32.88 Aligned_cols=91 Identities=14% Similarity=0.115 Sum_probs=59.8
Q ss_pred CceEEEEecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHH
Q 030392 62 GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~ 141 (178)
..-|+|||-|+ .+|||+-| +--.++.+...++ -...++.++|.+++-=.|| .-..++.-..|++++..+.
T Consensus 31 ~~lIVGiDPG~-ttgiAild-L~G~~l~l~S~R~-~~~~evi~~I~~~G~PviV-------AtDV~p~P~~V~Kia~~f~ 100 (138)
T PF04312_consen 31 RYLIVGIDPGT-TTGIAILD-LDGELLDLKSSRN-MSRSEVIEWISEYGKPVIV-------ATDVSPPPETVKKIARSFN 100 (138)
T ss_pred CCEEEEECCCc-eeEEEEEe-cCCcEEEEEeecC-CCHHHHHHHHHHcCCEEEE-------EecCCCCcHHHHHHHHHhC
Confidence 35799999998 58999998 1123444443332 2446788888888544444 3455666666776665554
Q ss_pred HHhccCCCcEEEEcCCCchhhhHHHHHH
Q 030392 142 VRAAERSFSDILITAIFSFSCHFAIFFT 169 (178)
Q Consensus 142 ~~~~~~glpV~lvDERlSTs~~~a~~~~ 169 (178)
...|.=+|.+|..-+..+.--
T Consensus 101 -------A~ly~P~~dlsveeK~~l~~~ 121 (138)
T PF04312_consen 101 -------AVLYTPERDLSVEEKQELARE 121 (138)
T ss_pred -------CcccCCCCcCCHHHHHHHHHh
Confidence 356666999998888877644
No 23
>PRK09698 D-allose kinase; Provisional
Probab=83.97 E-value=7.2 Score=33.21 Aligned_cols=94 Identities=16% Similarity=0.216 Sum_probs=55.3
Q ss_pred CceEEEEecCCceEEEEeec--C-Ccc---cccEEEEccC--hhHHHHHHHHHHHc--CCCEEEEeecCCCCCCC-----
Q 030392 62 GGFSLGVDLGLSRTGLALSK--G-FCV---RPLTVLKLRG--EKLELQLLEIAQRE--ETDEFIIGLPKSWDGSE----- 126 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD--~-~~A---~Pl~tI~~~~--~~~~~~L~~iI~e~--~v~~IVVGLPl~mdG~e----- 126 (178)
...++|+|+|..++-+++.| + +.+ .|........ ....+.+.+++++. ++.+|-||.|=..|.+.
T Consensus 3 ~~~~lgidig~t~i~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~i~gigia~pG~vd~~~g~i~~ 82 (302)
T PRK09698 3 KNVVLGIDMGGTHIRFCLVDAEGEILHCEKKRTAEVIAPDLVSGLGEMIDEYLRRFNARCHGIVMGFPALVSKDRRTVIS 82 (302)
T ss_pred ccEEEEEEcCCcEEEEEEEcCCCCEEEEEEeCCccccchHHHHHHHHHHHHHHHHcCCCeeEEEEeCCcceeCCCCEEEe
Confidence 45799999999999999999 2 222 2222111000 12344566666664 57889999984333211
Q ss_pred CHHH----HHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 127 TPQS----NKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 127 ~~~a----~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
++.. -.-..+++.|++++ ++||++.+.--
T Consensus 83 ~~~~~~~~~~~~~l~~~l~~~~---~~pv~v~NDa~ 115 (302)
T PRK09698 83 TPNLPLTALDLYDLADKLENTL---NCPVFFSRDVN 115 (302)
T ss_pred cCCCCccccccCCHHHHHHHHh---CCCEEEcchHh
Confidence 1111 11124667788877 68998877644
No 24
>PF07318 DUF1464: Protein of unknown function (DUF1464); InterPro: IPR009927 This family consists of several hypothetical archaeal proteins of around 350 residues in length. The function of this family is unknown.
Probab=82.03 E-value=5.6 Score=36.46 Aligned_cols=101 Identities=17% Similarity=0.069 Sum_probs=59.2
Q ss_pred EEecCCceEEEEeecC-CcccccEEEEccC-hhHHHHHHHHHHHc-CCCEEEE----eecCCCCCCCCHH----------
Q 030392 67 GVDLGLSRTGLALSKG-FCVRPLTVLKLRG-EKLELQLLEIAQRE-ETDEFII----GLPKSWDGSETPQ---------- 129 (178)
Q Consensus 67 gLD~G~KRIGVAiSD~-~~A~Pl~tI~~~~-~~~~~~L~~iI~e~-~v~~IVV----GLPl~mdG~e~~~---------- 129 (178)
|+|-|||-+-++.-|. --..-...+++.. .+.-..+.+.++++ ++|.|+. |+|+..-.+.++.
T Consensus 1 GIDpGT~s~dv~~~dd~g~v~~~~~ipt~~v~~~p~~iv~~l~~~~~~dlIa~psGyG~pl~~~~ei~d~e~~l~tl~~~ 80 (343)
T PF07318_consen 1 GIDPGTKSFDVCGLDDDGKVIFYFSIPTEEVAKNPSIIVEELEEFGDIDLIAGPSGYGLPLKRIREITDREIFLLTLIEE 80 (343)
T ss_pred CCCCCCCcEEEEEEccCCcEEEEeeccHHHhhhCHHHHHHHHHhccCCCEEEeCCcCCcccccccccchhhhhceEeecc
Confidence 6899999999999885 2222223333222 22334577778887 9999997 7887644333221
Q ss_pred --HH----HHHHHHHHHHHHhccCCCcEEEE---------cC-------CCchhhhHHHHHHhh
Q 030392 130 --SN----KVRSVAGRLAVRAAERSFSDILI---------TA-------IFSFSCHFAIFFTVL 171 (178)
Q Consensus 130 --a~----~Vr~Fa~~L~~~~~~~glpV~lv---------DE-------RlSTs~~~a~~~~~~ 171 (178)
.. -.+++...+++. ++|++++ +| .+-|+++.|+-|..+
T Consensus 81 ~~~g~~~~Glr~~~~~l~~~----~l~~~~iPgVi~LptVP~~RK~N~IDmGTaDKva~a~lai 140 (343)
T PF07318_consen 81 SEVGRRIGGLRKLVRELAES----NLPAYFIPGVIHLPTVPAWRKINRIDMGTADKVASAALAI 140 (343)
T ss_pred cccccccccHHHHHHHHHhC----CCCEEEeCceeccCCCchHhhhcccccCcHhHHHHHHHHH
Confidence 11 156666666433 4565553 33 135677777766543
No 25
>PRK00292 glk glucokinase; Provisional
Probab=80.06 E-value=7.8 Score=33.50 Aligned_cols=86 Identities=14% Similarity=0.109 Sum_probs=51.8
Q ss_pred eEEEEecCCceEEEEeec-C-CcccccEEEEccC-hhHHHHHHHHHHH---cCCCEEEEeecCCCCCCC-----CHHHHH
Q 030392 64 FSLGVDLGLSRTGLALSK-G-FCVRPLTVLKLRG-EKLELQLLEIAQR---EETDEFIIGLPKSWDGSE-----TPQSNK 132 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD-~-~~A~Pl~tI~~~~-~~~~~~L~~iI~e---~~v~~IVVGLPl~mdG~e-----~~~a~~ 132 (178)
.+||+|+|..+|=+|+.| . ........++.+. +...+.+.+++++ .++..|.||.|=-.|... .++.
T Consensus 3 ~~lgiDIGgT~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~gigIg~pG~vd~~~i~~~n~~w~-- 80 (316)
T PRK00292 3 PALVGDIGGTNARFALCDWANGEIEQIKTYATADYPSLEDAIRAYLADEHGVQVRSACFAIAGPVDGDEVRMTNHHWA-- 80 (316)
T ss_pred eEEEEEcCccceEEEEEecCCCceeeeEEEecCCCCCHHHHHHHHHHhccCCCCceEEEEEeCcccCCEEEecCCCcc--
Confidence 589999999999999987 2 1111112332222 2355667777765 357899999984333211 1121
Q ss_pred HHHHHHHHHHHhccCCCc-EEEEcC
Q 030392 133 VRSVAGRLAVRAAERSFS-DILITA 156 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glp-V~lvDE 156 (178)
...+.|++++ ++| |++.+.
T Consensus 81 --~~~~~l~~~~---~~p~v~l~ND 100 (316)
T PRK00292 81 --FSIAAMKQEL---GLDHLLLIND 100 (316)
T ss_pred --cCHHHHHHHh---CCCeEEEEec
Confidence 1247788776 676 887764
No 26
>PRK13311 N-acetyl-D-glucosamine kinase; Provisional
Probab=77.98 E-value=9 Score=32.16 Aligned_cols=88 Identities=16% Similarity=0.157 Sum_probs=52.5
Q ss_pred EEEEecCCceEEEEeecC---Ccc---cccEEEEccChhHHHHHHHHHHHcC-----CCEEEEeecC--CCC-CCC----
Q 030392 65 SLGVDLGLSRTGLALSKG---FCV---RPLTVLKLRGEKLELQLLEIAQREE-----TDEFIIGLPK--SWD-GSE---- 126 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~---~~A---~Pl~tI~~~~~~~~~~L~~iI~e~~-----v~~IVVGLPl--~md-G~e---- 126 (178)
++|+|+|.-+|-+++.|. ... .|... ....+..+.+.+++++.. +.+|-||.|= +.+ |..
T Consensus 2 ~lgidiggt~i~~~l~d~~g~i~~~~~~~~~~--~~~~~~~~~i~~~i~~~~~~~~~~~gIgv~~pG~vd~~~g~i~~~~ 79 (256)
T PRK13311 2 YYGFDMGGTKIELGVFDENLQRIWHKRVPTPR--EDYPQLLQILRDLTEEADTYCGVQGSVGIGIPGLPNADDGTVFTAN 79 (256)
T ss_pred EEEEEECCCcEEEEEECCCCCEEEEEEecCCC--cCHHHHHHHHHHHHHHHHhhcCCCceEEEEecCcEECCCCEEEccC
Confidence 699999999999999992 221 22211 111344566666665432 3478898884 222 211
Q ss_pred CHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 127 TPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 127 ~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.+.-.. ..+++.|++++ ++||++-++--
T Consensus 80 ~~~w~~-~~l~~~l~~~~---~~pV~leNDan 107 (256)
T PRK13311 80 VPSAMG-QPLQADLSRLI---QREVRIDNDAN 107 (256)
T ss_pred CCcccC-CChHHHHHHHH---CCCEEEEchhh
Confidence 011111 36778888887 57998877644
No 27
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=75.22 E-value=8.6 Score=36.97 Aligned_cols=89 Identities=17% Similarity=0.194 Sum_probs=52.4
Q ss_pred CCceEEEEecCCceEEEEeecCC-cccccEEEEccC-hhHHHHHHHHHHHc---CCCEEEEeecCCCCCCCCHHHH---H
Q 030392 61 RGGFSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRG-EKLELQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSN---K 132 (178)
Q Consensus 61 ~~~rILgLD~G~KRIGVAiSD~~-~A~Pl~tI~~~~-~~~~~~L~~iI~e~---~v~~IVVGLPl~mdG~e~~~a~---~ 132 (178)
..+.+||+|+|.-.|=+|+.|.- .......++... ....+.+.+++++. .++.+.||.|=-.|+..-..+. .
T Consensus 16 ~~~~~L~iDIGGT~ir~al~~~~g~i~~~~~~~t~~~~~~~~~i~~~l~~~~~~~~~~igig~pGpVd~~~~~~~nl~w~ 95 (638)
T PRK14101 16 ADGPRLLADVGGTNARFALETGPGEITQIRVYPGADYPTLTDAIRKYLKDVKIGRVNHAAIAIANPVDGDQVRMTNHDWS 95 (638)
T ss_pred CCCCEEEEEcCchhheeeeecCCCcccceeEEecCCCCCHHHHHHHHHHhcCCCCcceEEEEEecCccCCeeeecCCCcE
Confidence 35789999999998888888721 112223333222 34556777777665 3789999999655543211111 1
Q ss_pred HHHHHHHHHHHhccCCCc-EEEE
Q 030392 133 VRSVAGRLAVRAAERSFS-DILI 154 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glp-V~lv 154 (178)
. . .+.|++++ |+| |++.
T Consensus 96 ~-~-~~~l~~~~---g~~~v~l~ 113 (638)
T PRK14101 96 F-S-IEATRRAL---GFDTLLVV 113 (638)
T ss_pred e-c-HHHHHHHc---CCCeEEEE
Confidence 1 2 26677776 666 4443
No 28
>PF14239 RRXRR: RRXRR protein
Probab=74.79 E-value=2.4 Score=35.44 Aligned_cols=22 Identities=32% Similarity=0.453 Sum_probs=19.0
Q ss_pred CceEEEEecCCceEEEEeecCC
Q 030392 62 GGFSLGVDLGLSRTGLALSKGF 83 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~~ 83 (178)
..-.+|||-|.|.+|+|+.+..
T Consensus 50 qpi~lgiDpGsk~tGiav~~~~ 71 (176)
T PF14239_consen 50 QPIRLGIDPGSKTTGIAVVSEK 71 (176)
T ss_pred cCEEEEECCCCCeEEEEEEeCC
Confidence 4568999999999999998754
No 29
>PRK13318 pantothenate kinase; Reviewed
Probab=72.54 E-value=19 Score=30.48 Aligned_cols=54 Identities=19% Similarity=0.177 Sum_probs=35.4
Q ss_pred EEEEecCCceEEEEeecCCcccccEEEEc---cC-hhHHHHHHHHHHHcC-----CCEEEEee
Q 030392 65 SLGVDLGLSRTGLALSKGFCVRPLTVLKL---RG-EKLELQLLEIAQREE-----TDEFIIGL 118 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~~A~Pl~tI~~---~~-~~~~~~L~~iI~e~~-----v~~IVVGL 118 (178)
+|+||+|..+|=+|+-|.-.......++. .. ....+.+.+++++++ ++.|+||-
T Consensus 2 iL~IDIGnT~iK~al~d~g~i~~~~~~~t~~~~~~~~~~~~l~~l~~~~~~~~~~i~~I~iss 64 (258)
T PRK13318 2 LLAIDVGNTNTVFGLYEGGKLVAHWRISTDSRRTADEYGVWLKQLLGLSGLDPEDITGIIISS 64 (258)
T ss_pred EEEEEECCCcEEEEEEECCEEEEEEEEeCCCCCCHHHHHHHHHHHHHHcCCCcccCceEEEEE
Confidence 79999999999999988421111112221 11 234567777777765 78999998
No 30
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=72.40 E-value=6.5 Score=34.48 Aligned_cols=71 Identities=30% Similarity=0.390 Sum_probs=53.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhH--HHHH-Hhhcc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHF--AIFF-TVLNS 173 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~--a~~~-~~~~~ 173 (178)
...+++.+.+.+-+.|.|.|| |+.+-..+.+++..+++++++ ++||++.-=..|..+-+ |.|| .||||
T Consensus 28 ~~~~ei~~~~~~~GTDaImIG------GS~gvt~~~~~~~v~~ik~~~---~lPvilfP~~~~~is~~aDavff~svLNS 98 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIG------GSDGVTEENVDNVVEAIKERT---DLPVILFPGSPSGISPYADAVFFPSVLNS 98 (240)
T ss_pred cccHHHHHHHHHcCCCEEEEC------CcccccHHHHHHHHHHHHhhc---CCCEEEecCChhccCccCCeEEEEEEecC
Confidence 345678888899999999998 555555678889999999876 68999987666555544 3455 47888
Q ss_pred ccc
Q 030392 174 TSV 176 (178)
Q Consensus 174 ~~~ 176 (178)
...
T Consensus 99 ~n~ 101 (240)
T COG1646 99 DNP 101 (240)
T ss_pred CCc
Confidence 764
No 31
>PF00480 ROK: ROK family; InterPro: IPR000600 A family of bacterial proteins has been described which groups transcriptional repressors, sugar kinases and yet uncharacterised open reading frames []. This family, known as ROK (Repressor, ORF, Kinase) includes the xylose operon repressor, xylR, from Bacillus subtilis, Lactobacillus pentosus and Staphylococcus xylosus; N-acetylglucosamine repressor, nagC, from Escherichia coli; glucokinase 2.7.1.2 from EC from Streptomyces coelicolor; fructokinase 2.7.1.4 from EC from Pediococcus pentosaceus, Streptococcus mutans and Zymomonas mobilis; allokinase 2.7.1.55 from EC and mlc from E. coli; and E. coli hypothetical proteins yajF and yhcI and the corresponding Haemophilus influenzae proteins. The repressor proteins (xylR and nagC) from this family possess an N-terminal region not present in the sugar kinases and which contains an helix-turn-helix DNA-binding motif.; PDB: 2GUP_A 3LM2_B 3EO3_A 2YHY_A 2YHW_A 2YI1_A 3MCP_A 1Z05_A 3HTV_A 3OHR_A ....
Probab=71.43 E-value=3.5 Score=32.09 Aligned_cols=83 Identities=19% Similarity=0.237 Sum_probs=52.2
Q ss_pred EEecCCceEEEEeec--C-Ccc---cccEEEEccChh----HHHHHHHHHHHcCCCEEEEeecCCCCCCC-------CHH
Q 030392 67 GVDLGLSRTGLALSK--G-FCV---RPLTVLKLRGEK----LELQLLEIAQREETDEFIIGLPKSWDGSE-------TPQ 129 (178)
Q Consensus 67 gLD~G~KRIGVAiSD--~-~~A---~Pl~tI~~~~~~----~~~~L~~iI~e~~v~~IVVGLPl~mdG~e-------~~~ 129 (178)
|||+|..++=+++.| + .+. .|+. ..... ..+.+.++..+++...|-|+.|=..|... .+.
T Consensus 1 gidig~~~i~~~l~d~~g~ii~~~~~~~~---~~~~~~~~~l~~~i~~~~~~~~~~gIgi~~pG~v~~~~g~i~~~~~~~ 77 (179)
T PF00480_consen 1 GIDIGGTSIRIALVDLDGEIIYSESIPTP---TSPEELLDALAELIERLLADYGRSGIGISVPGIVDSEKGRIISSPNPG 77 (179)
T ss_dssp EEEEESSEEEEEEEETTSCEEEEEEEEHH---SSHHHHHHHHHHHHHHHHHHHTCEEEEEEESSEEETTTTEEEECSSGT
T ss_pred CEEECCCEEEEEEECCCCCEEEEEEEECC---CCHHHHHHHHHHHHHHHHhhcccccEEEeccccCcCCCCeEEecCCCC
Confidence 799999999999999 2 222 2222 11122 34455666666665599999995433222 122
Q ss_pred HHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 130 SNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 130 a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
-+. ..+++.|++++ ++||++.+.
T Consensus 78 ~~~-~~l~~~l~~~~---~~pv~i~Nd 100 (179)
T PF00480_consen 78 WEN-IPLKEELEERF---GVPVIIEND 100 (179)
T ss_dssp GTT-CEHHHHHHHHH---TSEEEEEEH
T ss_pred ccc-CCHHHHhhccc---ceEEEEecC
Confidence 222 55778898888 579998776
No 32
>PRK13321 pantothenate kinase; Reviewed
Probab=70.32 E-value=22 Score=30.30 Aligned_cols=54 Identities=20% Similarity=0.244 Sum_probs=36.1
Q ss_pred EEEEecCCceEEEEeecCCcccccEEEEc---cC-hhHHHHHHHHHHHc-----CCCEEEEee
Q 030392 65 SLGVDLGLSRTGLALSKGFCVRPLTVLKL---RG-EKLELQLLEIAQRE-----ETDEFIIGL 118 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~~A~Pl~tI~~---~~-~~~~~~L~~iI~e~-----~v~~IVVGL 118 (178)
+|+||+|..+|=+|+-|+-.......++. .. +.....+.++++++ +++.++|+-
T Consensus 2 iL~IDIGnT~ik~gl~~~~~i~~~~~~~T~~~~~~~~~~~~l~~l~~~~~~~~~~i~~i~vss 64 (256)
T PRK13321 2 LLLIDVGNTNIKLGVFDGDRLLRSFRLPTDKSRTSDELGILLLSLFRHAGLDPEDIRAVVISS 64 (256)
T ss_pred EEEEEECCCeEEEEEEECCEEEEEEEEecCCCCCHHHHHHHHHHHHHHcCCChhhCCeEEEEe
Confidence 69999999999999987421111112221 12 34567788888877 488899986
No 33
>PF01548 DEDD_Tnp_IS110: Transposase; InterPro: IPR002525 Transposase proteins are necessary for efficient DNA transposition. This entry represents the N-terminal region of the pilin gene inverting protein (PIVML) and members of the IS111A/IS1328/IS1533 family of transposases [, ]. More information about these proteins can be found at Protein of the Month: Transposase [].; GO: 0003677 DNA binding, 0004803 transposase activity, 0006313 transposition, DNA-mediated
Probab=70.18 E-value=9.7 Score=28.79 Aligned_cols=50 Identities=8% Similarity=-0.029 Sum_probs=32.7
Q ss_pred EEEEecCCceEEEEeecCCc-ccccEEEEccChhHHHHHHHHHHHcCCCEEEEe
Q 030392 65 SLGVDLGLSRTGLALSKGFC-VRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~~-A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVG 117 (178)
++|||+|....=+++.|+.. ......+.+. ...+..+.+.+.++. .++||
T Consensus 1 ~vGiDv~k~~~~v~v~~~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~--~~~v~ 51 (144)
T PF01548_consen 1 FVGIDVSKDTHDVCVIDPNGEKLRRFKFEND-PAGLEKLLDWLASLG--PVLVV 51 (144)
T ss_pred eEEEEcccCeEEEEEEcCCCcEEEEEEEecc-ccchhHHhhhhcccc--ccccc
Confidence 58999999999999988543 3444455432 334566677777665 44444
No 34
>PRK12408 glucokinase; Provisional
Probab=70.09 E-value=12 Score=33.09 Aligned_cols=86 Identities=13% Similarity=0.109 Sum_probs=51.8
Q ss_pred ceEEEEecCCceEEEEeecC--Cc-----ccccEEEEccC-hhHHHHHHHHHHH-cCCCEEEEeecCC-C-CCCCC----
Q 030392 63 GFSLGVDLGLSRTGLALSKG--FC-----VRPLTVLKLRG-EKLELQLLEIAQR-EETDEFIIGLPKS-W-DGSET---- 127 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~--~~-----A~Pl~tI~~~~-~~~~~~L~~iI~e-~~v~~IVVGLPl~-m-dG~e~---- 127 (178)
.++||+|+|..+|=+|+-|. .. ..-...++... +...+.+.+++++ .++..|.||.|=- . +|...
T Consensus 16 ~~~L~~DIGGT~i~~al~d~~g~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~~~igIg~pG~~~~~g~v~~~nl 95 (336)
T PRK12408 16 ESFVAADVGGTHVRVALVCASPDAAKPVELLDYRTYRCADYPSLAAILADFLAECAPVRRGVIASAGYALDDGRVITANL 95 (336)
T ss_pred ccEEEEEcChhhhheeEEeccCCccccccccceeEecCCCccCHHHHHHHHHhcCCCcCEEEEEecCCceECCEEEecCC
Confidence 45899999999999999872 21 11112222111 2344556666653 3588999999963 2 44321
Q ss_pred HHHHHHHHHHHHHHHHhccCCCc-EEEEc
Q 030392 128 PQSNKVRSVAGRLAVRAAERSFS-DILIT 155 (178)
Q Consensus 128 ~~a~~Vr~Fa~~L~~~~~~~glp-V~lvD 155 (178)
++ ..+.+.|++++ ++| |++.+
T Consensus 96 ~w----~~~~~~l~~~~---~~~~V~l~N 117 (336)
T PRK12408 96 PW----TLSPEQIRAQL---GLQAVHLVN 117 (336)
T ss_pred CC----ccCHHHHHHHc---CCCeEEEee
Confidence 22 23567788776 675 88755
No 35
>TIGR03725 bact_YeaZ universal bacterial protein YeaZ. This family describes a protein family, YeaZ, that appears to be universal in bacteria, but whose function is unknown. This family is related to the gcp (glycoprotease) protein family, also universal in bacteria and unknown in function. In Gram-positive lineages, members of these two related families often belong to the same operon, along with the ribosomal-protein-alanine acetyltransferase gene. Members of this family may occur as fusions with gcp or the ribosomal protein N-acetyltransferase rimI, and is frequently encoded next to rimI.
Probab=68.08 E-value=48 Score=27.15 Aligned_cols=83 Identities=18% Similarity=0.094 Sum_probs=56.4
Q ss_pred EEEEecCCceEEEEeecCC--cccccEEEEcc-ChhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCCHHHHHHHHH
Q 030392 65 SLGVDLGLSRTGLALSKGF--CVRPLTVLKLR-GEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSV 136 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~--~A~Pl~tI~~~-~~~~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e~~~a~~Vr~F 136 (178)
+||||--++.++||+.+.. .+.-.....++ .+.+...+++++++. +++.|+||.= -|+.+. -+....+
T Consensus 1 iLaidTs~~~~sval~~~~~~~~~~~~~~~~~h~~~l~~~i~~~l~~~~~~~~~i~~iav~~G---PGSfTG-lRig~~~ 76 (202)
T TIGR03725 1 ILAIDTSTEALSVALLDDGEILAERSEEAGRNHSEILLPMIEELLAEAGLSLQDLDAIAVGVG---PGSFTG-LRIGLAT 76 (202)
T ss_pred CEEEECCCcceEEEEEECCEEEEEEeehhhHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecC---CChHHh-HHHHHHH
Confidence 5899999999999998742 22111111111 134566777777775 5788888852 377776 6778889
Q ss_pred HHHHHHHhccCCCcEEEE
Q 030392 137 AGRLAVRAAERSFSDILI 154 (178)
Q Consensus 137 a~~L~~~~~~~glpV~lv 154 (178)
|+.|+... ++|++-+
T Consensus 77 akgla~~~---~~p~~~v 91 (202)
T TIGR03725 77 AKGLALAL---GIPLVGV 91 (202)
T ss_pred HHHHHHHh---CCCEEec
Confidence 99998775 5787755
No 36
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. 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=65.58 E-value=40 Score=25.28 Aligned_cols=58 Identities=10% Similarity=0.082 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHcCCC--EEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQREETD--EFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~--~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.++.+.+.+++..++ .+++++|-..+....+..+...+..+++.++.+..+..|.++|
T Consensus 65 ~~~~~i~~i~~~~p~~~ii~~~~~p~~~~~~~~~~~~~n~~l~~~~~~~~~~~~~v~~vd 124 (157)
T cd01833 65 RLRALIDQMRAANPDVKIIVATLIPTTDASGNARIAEYNAAIPGVVADLRTAGSPVVLVD 124 (157)
T ss_pred HHHHHHHHHHHhCCCeEEEEEeCCCCCCcchhHHHHHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 345555556666444 4556655433333334444444444444444322234577777
No 37
>PF05188 MutS_II: MutS domain II; InterPro: IPR007860 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication []. MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base []. MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch []. MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level []. Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure [], and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. The MutS family of proteins is named after the Salmonella typhimurium MutS protein involved in mismatch repair. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. Human MSH has been implicated in non-polyposis colorectal carcinoma (HNPCC) and is a mismatch binding protein [].This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions []. Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts []. This entry represents the connector domain (domain 2) found in proteins of the MutS family. The structure of the MutS connector domain consists of a parallel beta-sheet surrounded by four alpha helices, which is similar to the structure of the Holliday junction resolvase ruvC.; GO: 0005524 ATP binding, 0030983 mismatched DNA binding, 0006298 mismatch repair; PDB: 2O8F_A 3THW_A 3THX_A 2O8C_A 3THY_A 2O8E_A 2O8B_A 3THZ_A 2O8D_A 2WTU_A ....
Probab=64.38 E-value=25 Score=25.78 Aligned_cols=49 Identities=18% Similarity=-0.003 Sum_probs=33.1
Q ss_pred eEEEEec--CCceEEEEeecCC-cccccEEEEccChhHHHHHHHHHHHcCCCEEEEe
Q 030392 64 FSLGVDL--GLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (178)
Q Consensus 64 rILgLD~--G~KRIGVAiSD~~-~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVG 117 (178)
.++||-. ...++|+|..|-. --.-+..+. +...|...+..++|..||+.
T Consensus 2 yl~aI~~~~~~~~~gla~~D~sTGe~~~~~~~-----d~~~L~~~L~~~~P~EIi~~ 53 (137)
T PF05188_consen 2 YLAAIYEKNDEDSYGLAYIDLSTGEFYVTEFE-----DYSELKSELARLSPREIIIP 53 (137)
T ss_dssp EEEEEEEETCSSEEEEEEEETTTTEEEEEEEE-----CHHHHHHHHHHH-ESEEEEE
T ss_pred EEEEEEEecCCCEEEEEEEECCCCEEEEEEeC-----CHHHHHHHHHhcCCeEEEEc
Confidence 3667777 7778999999932 112222232 16788888999999999985
No 38
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=60.71 E-value=70 Score=28.88 Aligned_cols=97 Identities=11% Similarity=0.030 Sum_probs=56.4
Q ss_pred eEEEEecCCceEEEEeecCC--cccccEEEEccC---------hhHHHHHHHHHHHc-CCCEEEEeecCCCCCCCCHHHH
Q 030392 64 FSLGVDLGLSRTGLALSKGF--CVRPLTVLKLRG---------EKLELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQSN 131 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD~~--~A~Pl~tI~~~~---------~~~~~~L~~iI~e~-~v~~IVVGLPl~mdG~e~~~a~ 131 (178)
-++.+|-|...||+--+.+. .+.=-..++.+. .+.+.++.+-+.+. ++++|||+=|= .
T Consensus 137 ~~vv~d~g~A~i~ll~~~~~~~~~~i~~~iP~K~~~~~~e~~~~~Ff~~v~~~l~~~~~v~~iIiaGPG----------f 206 (351)
T TIGR00111 137 AAVVMEEGIAHVGLVRQYSVEEIQKIEYHMPGKKRTLKFGELRKEFYKEIAKKLLNFDDLKTIIVAGPG----------F 206 (351)
T ss_pred EEEEEeCCcEEEEEEcCCEEEEEEEEEEeCCCCcccchhHHHHHHHHHHHHHHHhhhcccCEEEEECCH----------H
Confidence 57889999999998777643 111111121111 23455555555555 79999999872 2
Q ss_pred HHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHHhhcc
Q 030392 132 KVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFTVLNS 173 (178)
Q Consensus 132 ~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~~~~~ 173 (178)
.-..|.+.|.+++++.....+..| +++.+.+-++=+|.+
T Consensus 207 ~k~~f~~~l~~~~~~~~~k~ii~~---~s~g~~~gl~EvL~~ 245 (351)
T TIGR00111 207 YKNDFYDFIFERYPEEANKAVLEN---CSTGGRAGINEVLKR 245 (351)
T ss_pred HHHHHHHHHHHHhhhhhCCcEEEe---cCCCchhHHHHHHhC
Confidence 344555666666543223444555 666677777766654
No 39
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=60.27 E-value=46 Score=23.07 Aligned_cols=51 Identities=18% Similarity=0.204 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...+.+.+.++++++|.||+|-.-.-.-.. -..-..++++.+.. .+||..+
T Consensus 89 ~~~~~i~~~~~~~~~dliv~G~~~~~~~~~----~~~gs~~~~l~~~~---~~pVlvv 139 (140)
T PF00582_consen 89 DVADAIIEFAEEHNADLIVMGSRGRSGLER----LLFGSVAEKLLRHA---PCPVLVV 139 (140)
T ss_dssp SHHHHHHHHHHHTTCSEEEEESSSTTSTTT----SSSHHHHHHHHHHT---SSEEEEE
T ss_pred ccchhhhhccccccceeEEEeccCCCCccC----CCcCCHHHHHHHcC---CCCEEEe
Confidence 466889999999999999999987311111 11334555566555 3577654
No 40
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=59.76 E-value=27 Score=26.30 Aligned_cols=45 Identities=22% Similarity=0.313 Sum_probs=28.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.+.+.++++++++|.|+|=+|... .+.+++..+++++. ++.|..+
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~~~-------~~~i~~ii~~~~~~----~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPWSE-------EEQIKRIIEELENH----GVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TTS--------HHHHHHHHHHHHTT----T-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCccC-------HHHHHHHHHHHHhC----CCEEEEe
Confidence 467889999999999999999752 45677777777643 5666653
No 41
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=59.33 E-value=37 Score=29.28 Aligned_cols=58 Identities=10% Similarity=0.153 Sum_probs=41.9
Q ss_pred hhHHHHHHHHHHHcC----CCEEEEeecCC--CCCCC-----CHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 96 EKLELQLLEIAQREE----TDEFIIGLPKS--WDGSE-----TPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~----v~~IVVGLPl~--mdG~e-----~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...|..+.++++++. +++|||=+|.. +++++ ...++.+|+-.++|.+.+.. .+|||++
T Consensus 7 ~~~W~~~L~lL~~~R~r~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg~-~~PVYvv 75 (266)
T PF14331_consen 7 AAEWQAFLDLLRRHRPRQPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLGV-RLPVYVV 75 (266)
T ss_pred HHHHHHHHHHHHhcCCCCCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhCC-CCCeEee
Confidence 346778888888766 57999999974 34433 44577778888888887753 5899986
No 42
>PF04848 Pox_A22: Poxvirus A22 protein; InterPro: IPR006932 This family, representing the Poxvirus A22 protein, is a Holliday junction resolvase, it specifically cleaves and resolves four-way DNA Holliday junctions into linear duplex products. ; GO: 0000287 magnesium ion binding, 0000400 four-way junction DNA binding, 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination
Probab=58.97 E-value=45 Score=26.94 Aligned_cols=86 Identities=13% Similarity=0.135 Sum_probs=47.5
Q ss_pred ceEEEEecCCceEEEEeecCCcccccEEEEccC---hh--HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRG---EK--LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~---~~--~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa 137 (178)
+.+++||+|.|..|..+-+..--. +..+.-+. +. .-..+.++++ ++++.|+|=- .+.+ ++.. ++..|.
T Consensus 1 mii~sIDiGikNlA~~iie~~~~~-i~~~~i~~~~~~~~~~~~~~~dl~~-~~~d~VlIEr--Q~~r--~~~~-~i~~fI 73 (143)
T PF04848_consen 1 MIILSIDIGIKNLAYCIIEFEGNK-IRVIDISKVDWSRDWEYRILKDLLK-YEADTVLIER--QPPR--NPNV-KIVHFI 73 (143)
T ss_pred CeEEEEecCCCceeEEEEEcCCCe-EEEEEeccCCcccchHHHHHHHHhh-ccCCEEEEec--CCCC--Ccch-hHHHHH
Confidence 368999999999999998842111 32222111 11 1123344444 8888888753 2222 2333 444565
Q ss_pred HHHHHHhccCCCcEEEEcCCC
Q 030392 138 GRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 138 ~~L~~~~~~~glpV~lvDERl 158 (178)
+.+- ..++.+|..+|=.+
T Consensus 74 ~~~f---~~~~~kv~~v~p~~ 91 (143)
T PF04848_consen 74 HGYF---YIKNTKVICVSPKM 91 (143)
T ss_pred HHHh---ccCCceEEEECccc
Confidence 4433 33456788887664
No 43
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=58.37 E-value=51 Score=25.36 Aligned_cols=65 Identities=14% Similarity=0.062 Sum_probs=41.3
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec---CCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 97 KLELQLLEIAQREETDEFIIGLP---KSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLP---l~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
+.+....+++++.++..++++.+ ........+.-+.+.+..++|.+..++.|+.+.+-.....+.
T Consensus 71 ~~~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~~~ 138 (213)
T PF01261_consen 71 EYLKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIAEEYGVRIALENHPGPFS 138 (213)
T ss_dssp HHHHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSSSS
T ss_pred HHHHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhhhhhcceEEEecccCccc
Confidence 45577888889999999999977 333333334444555555555555555577777766666544
No 44
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=58.19 E-value=13 Score=31.43 Aligned_cols=85 Identities=20% Similarity=0.094 Sum_probs=56.0
Q ss_pred ceEEEEecCCceEEEEeecC--C--cccccEEEEcc-ChhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCCHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKG--F--CVRPLTVLKLR-GEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNK 132 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~--~--~A~Pl~tI~~~-~~~~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e~~~a~~ 132 (178)
+.+|+||--++.+++|+-+. . .+.=....+++ .+.+...+.+++.+- ++|.|+||.= -|+.|- .+.
T Consensus 1 m~iLaiDTs~~~~s~ai~~~~~~~vl~~~~~~~~r~hse~l~~~i~~ll~~~~~~~~dld~iav~~G---PGSFTG-lRI 76 (220)
T COG1214 1 MKILAIDTSTSALSVALYLADDGKVLAEHTEKLKRNHAERLMPMIDELLKEAGLSLQDLDAIAVAKG---PGSFTG-LRI 76 (220)
T ss_pred CcEEEEEcChhhhhhheeecCCCcEEEEEEEeccccHHHHHHHHHHHHHHHcCCCHHHCCEEEEccC---CCcccc-hhh
Confidence 46999999999999887775 2 22222223221 134566788888777 5788999852 366664 455
Q ss_pred HHHHHHHHHHHhccCCCcEEEE
Q 030392 133 VRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
--.||+-|+-.+ |+|++=+
T Consensus 77 G~~~AkgLA~~l---~iplvgv 95 (220)
T COG1214 77 GVAFAKGLALAL---NIPLVGV 95 (220)
T ss_pred HHHHHHHHHHHc---CCCEEEe
Confidence 667888887665 5677644
No 45
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=57.56 E-value=24 Score=29.42 Aligned_cols=60 Identities=13% Similarity=0.088 Sum_probs=39.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCC---CHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSE---TPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e---~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
...+.+..++.+++++.|||=..-.+.... ......+.++...|+...++.+++|+++-+
T Consensus 127 ~i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll~sq 189 (271)
T cd01122 127 SVLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSH 189 (271)
T ss_pred HHHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEEEec
Confidence 455677777888999999998765443322 333444666777776655555788888764
No 46
>PRK09472 ftsA cell division protein FtsA; Reviewed
Probab=56.37 E-value=50 Score=30.14 Aligned_cols=58 Identities=10% Similarity=0.234 Sum_probs=36.7
Q ss_pred CceEEEEecCCceEEEEeec----C-CcccccEEEEc----cC-----hhHHHHHHHHHHH------cCCCEEEEeec
Q 030392 62 GGFSLGVDLGLSRTGLALSK----G-FCVRPLTVLKL----RG-----EKLELQLLEIAQR------EETDEFIIGLP 119 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD----~-~~A~Pl~tI~~----~~-----~~~~~~L~~iI~e------~~v~~IVVGLP 119 (178)
...+.|||+|+..|=+.+++ + +........+. ++ +...+.|++.+++ .+++.+++|.|
T Consensus 7 ~~~i~~lDIGsskv~~vv~~~~~~~~~~i~g~~~~~s~gi~~G~I~d~~~~~~aI~~av~~ae~~~g~~i~~v~v~i~ 84 (420)
T PRK09472 7 RKLVVGLEIGTAKVAALVGEVLPDGMVNIIGVGSCPSRGMDKGGVNDLESVVKCVQRAIDQAELMADCQISSVYLALS 84 (420)
T ss_pred CCEEEEEEcccceEEEEEEEEcCCCCEEEEEEEEccCCCccCCEEEcHHHHHHHHHHHHHHHHHHhCCcccEEEEEec
Confidence 34688999999999877765 2 21122222211 11 2345567777766 67999999998
No 47
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=55.85 E-value=19 Score=32.43 Aligned_cols=53 Identities=15% Similarity=0.172 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
+.+.+.+.+.+ +++.++|..|-|..|+.-+ .+.++++++.+.. --+..+||.|
T Consensus 134 d~~~~~~~~~~-~~~lv~i~nPNNPTG~~~~-~~~l~~l~~~~~~------~~~vVvDEAY 186 (356)
T COG0079 134 DLDAILAAIRD-KTKLVFLCNPNNPTGTLLP-REELRALLEALPE------GGLVVIDEAY 186 (356)
T ss_pred CHHHHHHhhhc-CCCEEEEeCCCCCCCCCCC-HHHHHHHHHhCCC------CcEEEEeCch
Confidence 45677777776 8999999999999998776 5667777666653 1489999998
No 48
>PF03464 eRF1_2: eRF1 domain 2; InterPro: IPR005141 This domain is found in the release factor eRF1 which terminates protein biosynthesis by recognizing stop codons at the A site of the ribosome and stimulating peptidyl-tRNA bond hydrolysis at the peptidyl transferase centre. The crystal structure of human eRF1 is known []. The overall shape and dimensions of eRF1 resemble a tRNA molecule with domains 1, 2, and 3 of eRF1 corresponding to the anticodon loop, aminoacyl acceptor stem, and T stem of a tRNA molecule, respectively. The position of the essential GGQ motif at an exposed tip of domain 2 suggests that the Gln residue coordinates a water molecule to mediate the hydrolytic activity at the peptidyl transferase centre. A conserved groove on domain 1, 80 A from the GGQ motif, is proposed to form the codon recognition site []. This domain is also found in other proteins which may also be involved in translation termination ; PDB: 3AGK_A 2VGN_A 2VGM_A 3J16_A 3IZQ 3IR9_A 3OBW_A 3MCA_B 2QI2_A 3E1Y_D ....
Probab=55.78 E-value=41 Score=25.79 Aligned_cols=94 Identities=17% Similarity=0.092 Sum_probs=52.9
Q ss_pred EEEEecCCceEEEEeecCCcccccEEE----EccC----------------hhHHHHHHHHHHHc------CCCEEEEee
Q 030392 65 SLGVDLGLSRTGLALSKGFCVRPLTVL----KLRG----------------EKLELQLLEIAQRE------ETDEFIIGL 118 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~~A~Pl~tI----~~~~----------------~~~~~~L~~iI~e~------~v~~IVVGL 118 (178)
++.+|-|...||+--+.+. ..+..+ +.+. .+.+.++.+-+.++ .++.||||=
T Consensus 4 ~v~id~g~A~i~~l~~~~~--~~~~~i~~~ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIiaG 81 (133)
T PF03464_consen 4 IVVIDEGEANICLLRGYGT--EILQRIESNIPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIAG 81 (133)
T ss_dssp EEEEETTEEEEEEEETTEE--EEEEEEE-GHCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEEE
T ss_pred EEEEeCCCEEEEEEcCCEE--EEEEEEEecCCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEEC
Confidence 6889999999999866532 222222 1111 12334444544444 899999999
Q ss_pred cCCCCCCCCHHHHHHHHHHHHHHHHhccCC-CcEEEEcCCCchhhhHHHHHHhhcc
Q 030392 119 PKSWDGSETPQSNKVRSVAGRLAVRAAERS-FSDILITAIFSFSCHFAIFFTVLNS 173 (178)
Q Consensus 119 Pl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~g-lpV~lvDERlSTs~~~a~~~~~~~~ 173 (178)
|=. .-..|++.+....+..+ ..+..+|= ++.+.+-+.=+|.+
T Consensus 82 PGf----------~k~~f~~~l~~~~~~~~~~~i~~~~~---s~~~~~gl~Evl~~ 124 (133)
T PF03464_consen 82 PGF----------TKEEFYKYLKAEARRKDKKKIVVVDT---SSGGESGLNEVLKR 124 (133)
T ss_dssp STT----------HHHHHHHHHHHHHHHHTCCEEEEEE----SSSCHHHHHHHHHS
T ss_pred CHH----------HHHHHHHHHHHhhHhhcCCEEEEEEC---CCCCHHHHHHHHHh
Confidence 932 33456666666654323 34555543 33555556555544
No 49
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=55.52 E-value=45 Score=33.15 Aligned_cols=84 Identities=18% Similarity=0.177 Sum_probs=55.9
Q ss_pred ceEEEEecCCceEEEEeec--CCcccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSK--GFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD--~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L 140 (178)
.-|+|||-|. .+|||+-| |. ++.+..++ .-+...+.++|.+|+-=.||- -+.+|.-..|++ |
T Consensus 244 ~lIVGIDPGi-TtgiAvldldGe---vl~~~S~r-~~~~~eVve~I~~lG~PvvVA-------tDVtp~P~~V~K----i 307 (652)
T COG2433 244 SLIVGIDPGI-TTGIAVLDLDGE---VLDLESRR-GIDRSEVVEFISELGKPVVVA-------TDVTPAPETVKK----I 307 (652)
T ss_pred ceEEEeCCCc-eeeEEEEecCCc---EEeeeccc-cCCHHHHHHHHHHcCCceEEE-------ccCCCChHHHHH----H
Confidence 4799999997 68999988 32 22222222 234578899999996655553 345555555554 5
Q ss_pred HHHhccCCCcEEEEcCCCchhhhHH
Q 030392 141 AVRAAERSFSDILITAIFSFSCHFA 165 (178)
Q Consensus 141 ~~~~~~~glpV~lvDERlSTs~~~a 165 (178)
+..| |.+.|.=|+++|+.-+..
T Consensus 308 Aasf---~A~ly~P~~dLsveEK~~ 329 (652)
T COG2433 308 AASF---NAVLYTPDRDLSVEEKQE 329 (652)
T ss_pred HHHc---CCcccCCcccCCHHHHHH
Confidence 5554 456677799999988877
No 50
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=54.69 E-value=63 Score=26.26 Aligned_cols=60 Identities=10% Similarity=0.145 Sum_probs=41.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCC-CCC-CCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSW-DGS-ETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~m-dG~-e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
...+.+.+++++++++.|||=.=-.+ .+. .....+.+.++.+.|+....+.|++|+++-+
T Consensus 110 ~l~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q 171 (242)
T cd00984 110 DIRSRARRLKKEHGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQ 171 (242)
T ss_pred HHHHHHHHHHHhcCCCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEecc
Confidence 45667888888899999999753223 222 2345566788888888766556888888774
No 51
>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=54.67 E-value=48 Score=25.84 Aligned_cols=52 Identities=15% Similarity=0.177 Sum_probs=32.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
+..+.+.+++.++..|++|.|--.. ....+.+.++.+.+++..++. .+.++|
T Consensus 97 l~~lv~~~~~~~~~vili~~pp~~~---~~~~~~~~~~~~~~~~~a~~~--~~~~id 148 (200)
T cd01829 97 IDELLNVARAKGVPVIWVGLPAMRS---PKLSADMVYLNSLYREEVAKA--GGEFVD 148 (200)
T ss_pred HHHHHHHHHhCCCcEEEEcCCCCCC---hhHhHHHHHHHHHHHHHHHHc--CCEEEE
Confidence 4455555667889999999876432 233455666666666655433 466666
No 52
>TIGR03123 one_C_unchar_1 probable H4MPT-linked C1 transfer pathway protein. This protein family was identified, by the method of partial phylogenetic profiling, as related to the use of tetrahydromethanopterin (H4MPT) as a C-1 carrier. Characteristic markers of the H4MPT-linked C1 transfer pathway include formylmethanofuran dehydrogenase subunits, methenyltetrahydromethanopterin cyclohydrolase, etc. Tetrahydromethanopterin, a tetrahydrofolate analog, occurs in methanogenic archaea, bacterial methanotrophs, planctomycetes, and a few other lineages.
Probab=53.57 E-value=62 Score=29.22 Aligned_cols=96 Identities=18% Similarity=0.133 Sum_probs=59.8
Q ss_pred EEEecCCceEEEEeec--CC---cc-cccEEEEccChhHHHHHHHHHHHcCC-CEEEEeecCCCCCCCCHHHHHHHHHHH
Q 030392 66 LGVDLGLSRTGLALSK--GF---CV-RPLTVLKLRGEKLELQLLEIAQREET-DEFIIGLPKSWDGSETPQSNKVRSVAG 138 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD--~~---~A-~Pl~tI~~~~~~~~~~L~~iI~e~~v-~~IVVGLPl~mdG~e~~~a~~Vr~Fa~ 138 (178)
+|+|+|...+=+|.-| +. .. .|.+-+ ...+++-+.|.++.++.+. +...|=+-=.+-.....+.+-|+.-++
T Consensus 1 ~G~DiGGA~~K~a~~~~~g~~~~v~~~~~plW-~~~~~L~~~l~~~~~~~~~~~~~avtMTgELaD~f~~r~~GV~~i~~ 79 (318)
T TIGR03123 1 LGIDIGGANTKAAELDEDGRIKEVHQLYCPLW-KGNDKLAETLKEISQDLSSADNVAVTMTGELADCFEDKAEGVEFILA 79 (318)
T ss_pred CccccccceeeeEEecCCCceeEEEEecCccc-CCchHHHHHHHHHHHhcCccceEEEEeehhhhhhhcCHHHHHHHHHH
Confidence 5899999999888665 31 12 223323 3335666788888887776 555543322222334478899999999
Q ss_pred HHHHHhccCCCcEEEEcCCCchhhh
Q 030392 139 RLAVRAAERSFSDILITAIFSFSCH 163 (178)
Q Consensus 139 ~L~~~~~~~glpV~lvDERlSTs~~ 163 (178)
.++++|+. .+-|+--|=.+-|...
T Consensus 80 ~~~~~~~~-~~~i~~s~GG~~s~~~ 103 (318)
T TIGR03123 80 AVESAFGS-PVSVFASDGGFVSAEE 103 (318)
T ss_pred HHHHhcCC-CeEEEecCCCCccHHH
Confidence 99999842 2334455666655443
No 53
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=53.42 E-value=20 Score=29.92 Aligned_cols=51 Identities=6% Similarity=0.018 Sum_probs=28.4
Q ss_pred cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhh
Q 030392 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSC 162 (178)
Q Consensus 109 ~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~ 162 (178)
..++.|++|.... +...+.+ .-.+|.+.|+-.....|++|..++|.+||.+
T Consensus 261 ~~~~~~~~~~~~~-~~~i~~~--~~~~~~~~l~yka~~~~~~v~~~~~~~tS~~ 311 (364)
T COG0675 261 VGVETLVVEDLVK-RRSISDW--AFGELRRQLEYKAEWGGIVVKVVPPYYTSKT 311 (364)
T ss_pred Eeeeeeehhhhhh-cccHhhh--hHHHHHHHHHHHHHhCCeEEEECCCCCCccc
Confidence 4566666666554 2222222 2233444454444333589999999998654
No 54
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=53.27 E-value=26 Score=30.80 Aligned_cols=54 Identities=20% Similarity=0.313 Sum_probs=33.5
Q ss_pred EEecCCceEEEEeecC----C-------cccccEEEEccC----hhHHHHHHHHHHHcCC--CEEEEeecC
Q 030392 67 GVDLGLSRTGLALSKG----F-------CVRPLTVLKLRG----EKLELQLLEIAQREET--DEFIIGLPK 120 (178)
Q Consensus 67 gLD~G~KRIGVAiSD~----~-------~A~Pl~tI~~~~----~~~~~~L~~iI~e~~v--~~IVVGLPl 120 (178)
|||+|+..|-++-.+. . ...|-+.+.... ..+.+.|++++++++. ..+++++|-
T Consensus 1 GiDiG~~siK~v~l~~~~~~~~l~~~~~~~~p~~~i~~g~i~d~~~l~~~L~~~~~~~~~~~k~v~~aip~ 71 (340)
T PF11104_consen 1 GIDIGSSSIKAVELSKKGNRFQLEAFASIPLPPGAISDGEIVDPEALAEALKELLKENKIKGKKVVLAIPG 71 (340)
T ss_dssp EEEE-SSEEEEEEEETTTT--EEEEEEEEE--TTSEETTEES-HHHHHHHHHHHHHHHT----EEEEEE-G
T ss_pred CeecCCCeEEEEEEEEcCCccEEEEEEEEECCCCCccCCCcCCHHHHHHHHHHHHHHcCCCCCeEEEEeCC
Confidence 8999999999986552 1 124444554221 2467789999999877 569999983
No 55
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=53.07 E-value=88 Score=22.91 Aligned_cols=59 Identities=7% Similarity=0.001 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhh
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCH 163 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~ 163 (178)
..+.++.+.+++..++.|||--+-.+.-. ...+..+.+.|.. .|++|+.+++.+.+..-
T Consensus 52 ~~~~~ll~~~~~~~~d~ivv~~~~Rl~R~----~~~~~~~~~~l~~----~gi~l~~~~~~~~~~~~ 110 (137)
T cd00338 52 PGLQRLLADVKAGKIDVVLVEKLDRLSRN----LVDLLELLELLEA----HGVRVVTADGEIDLDSE 110 (137)
T ss_pred HHHHHHHHHHHcCCCCEEEEEecchhhCC----HHHHHHHHHHHHH----CCCEEEEecCCcccCCc
Confidence 45677777777789999999988765444 2344556666654 37899999998876554
No 56
>KOG1220 consensus Phosphoglucomutase/phosphomannomutase [Carbohydrate transport and metabolism]
Probab=52.34 E-value=63 Score=31.94 Aligned_cols=50 Identities=18% Similarity=0.207 Sum_probs=37.2
Q ss_pred HHHHHHHcCCC---EEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 102 LLEIAQREETD---EFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 102 L~~iI~e~~v~---~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
|.+.+.+..++ +||||. ||..+ .++||+..+..|...|.+|++++|--+|
T Consensus 90 ~a~yl~~~~~~~~~giviG~----D~R~~-----S~~fA~l~a~vf~~~g~~v~lf~~~v~T 142 (607)
T KOG1220|consen 90 LAAYLKNQFPSKNLGIVIGH----DGRYN-----SKRFAELVAAVFLLNGFKVYLFSELVPT 142 (607)
T ss_pred HHHHHHHhCCcccceEEEec----CCccc-----hHHHHHHHHHHHHhCCceEEEeccccCC
Confidence 44455555564 899996 66666 6789999998887789999999954433
No 57
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=52.25 E-value=29 Score=26.59 Aligned_cols=40 Identities=15% Similarity=0.114 Sum_probs=24.2
Q ss_pred cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 109 ~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...|.||+|-|.... .....+++|+++..+.++ +.++.++
T Consensus 42 ~~yD~vi~gspiy~g----~~~~~~~~fi~~~~~~l~--~k~v~~f 81 (143)
T PF12724_consen 42 SDYDAVIFGSPIYAG----RIPGEMREFIKKNKDNLK--NKKVALF 81 (143)
T ss_pred ccCCEEEEEEEEECC----cCCHHHHHHHHHHHHHHc--CCcEEEE
Confidence 457788888888742 234556667666665553 2355544
No 58
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=52.11 E-value=14 Score=29.89 Aligned_cols=39 Identities=31% Similarity=0.530 Sum_probs=29.8
Q ss_pred eeecccc-CccccccccccccccccchhccccCCCCCCceEEEEecCCc
Q 030392 26 FHLNRTR-NFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLS 73 (178)
Q Consensus 26 ~~~~~~~-~~~~~~~~~~s~~~~~~na~~~~~~~~~~~~rILgLD~G~K 73 (178)
||+..++ ....+|+.-.-++.|+|++.- ...|||||++.
T Consensus 104 I~i~~k~l~~g~~i~~F~~I~~L~pg~s~---------t~~lgIDF~DS 143 (145)
T PF14796_consen 104 IHIGEKKLPAGMRIHEFPEIESLEPGASV---------TVSLGIDFNDS 143 (145)
T ss_pred eEECCCCCCCCcEeeccCcccccCCCCeE---------EEEEEEecccC
Confidence 6676665 677788888788888887653 46899999875
No 59
>PRK09604 UGMP family protein; Validated
Probab=52.02 E-value=70 Score=28.43 Aligned_cols=93 Identities=17% Similarity=0.139 Sum_probs=57.7
Q ss_pred ceEEEEecCCceEEEEeec-C--Cccc-ccEE----------EEcc-----ChhHHHHHHHHHHHc-----CCCEEEEee
Q 030392 63 GFSLGVDLGLSRTGLALSK-G--FCVR-PLTV----------LKLR-----GEKLELQLLEIAQRE-----ETDEFIIGL 118 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD-~--~~A~-Pl~t----------I~~~-----~~~~~~~L~~iI~e~-----~v~~IVVGL 118 (178)
+.+||||=-...+++|+-| + +++. -... .+.. .+.+...+.+++++- ++|.|+|+.
T Consensus 1 m~iLgIdTS~~~~sval~~~~~~il~~~~~~~~~~~~~~~Gi~P~~a~~~H~~~l~~~i~~~L~~~~~~~~did~iavt~ 80 (332)
T PRK09604 1 MLILGIETSCDETSVAVVDDGRGLLSNVVASQIDLHARYGGVVPELASRAHVENIVPLIEEALKEAGLTLEDIDAIAVTA 80 (332)
T ss_pred CeEEEEEccccceEEEEEECCCcEEEEEEecchhcccccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEec
Confidence 4699999999999999987 2 2211 1111 1110 022344566766664 479999987
Q ss_pred -cCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHH
Q 030392 119 -PKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAI 166 (178)
Q Consensus 119 -Pl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~ 166 (178)
| |..+. -+.-..+|+.|+..+ ++|++.++- --+|.+.
T Consensus 81 GP----G~~tg-lrvg~~~Ak~La~~~---~ipl~~v~h---~~~ha~~ 118 (332)
T PRK09604 81 GP----GLVGA-LLVGVSFAKALALAL---NKPLIGVNH---LEGHLLA 118 (332)
T ss_pred CC----CcHHh-HHHHHHHHHHHHHHh---CCCEEeecC---HHHHHHh
Confidence 5 33333 556667899998776 579988852 2356544
No 60
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=51.60 E-value=1.5e+02 Score=25.36 Aligned_cols=88 Identities=14% Similarity=0.151 Sum_probs=47.6
Q ss_pred CceEEEEecCCceEEEEeecCC------cccccEEEEcc---C-h---hHHHHHHHHHHHc---CCCEEEEeecCCCCCC
Q 030392 62 GGFSLGVDLGLSRTGLALSKGF------CVRPLTVLKLR---G-E---KLELQLLEIAQRE---ETDEFIIGLPKSWDGS 125 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~~------~A~Pl~tI~~~---~-~---~~~~~L~~iI~e~---~v~~IVVGLPl~mdG~ 125 (178)
.+.++|||+|+..|=+.+.+.. ...|-..+... + + ..+.++.+.++++ .+..+++..|-..+-.
T Consensus 23 ~~~~~~iDiGSssi~~vv~~~~~~~~~~~~~~~~~vr~G~i~di~~a~~~i~~~~~~ae~~~g~~i~~v~~~vp~~~~~~ 102 (267)
T PRK15080 23 SPLKVGVDLGTANIVLAVLDEDGQPVAGALEWADVVRDGIVVDFIGAVTIVRRLKATLEEKLGRELTHAATAIPPGTSEG 102 (267)
T ss_pred CCEEEEEEccCceEEEEEEcCCCCEEEEEeccccccCCCEEeeHHHHHHHHHHHHHHHHHHhCCCcCeEEEEeCCCCCch
Confidence 4679999999999987776521 11222222111 0 1 2334444544443 4678999999764311
Q ss_pred CCHHHHHHHHHHHHHHHHhccCCCcEE-EEcCCCc
Q 030392 126 ETPQSNKVRSVAGRLAVRAAERSFSDI-LITAIFS 159 (178)
Q Consensus 126 e~~~a~~Vr~Fa~~L~~~~~~~glpV~-lvDERlS 159 (178)
+ -+.+.+.++ ..|+++. +++|.+.
T Consensus 103 ---~---~~~~~~~~~----~aGl~~~~ii~e~~A 127 (267)
T PRK15080 103 ---D---PRAIINVVE----SAGLEVTHVLDEPTA 127 (267)
T ss_pred ---h---HHHHHHHHH----HcCCceEEEechHHH
Confidence 1 112322222 2377777 7777763
No 61
>cd00950 DHDPS Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue. The functional enzyme is a homotetramer consisting of a dimer of dimers. DHDPS is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways.
Probab=51.38 E-value=65 Score=27.39 Aligned_cols=54 Identities=13% Similarity=0.108 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
....++.+.+++.+++++++.-|....- + .+.+.+|.+.+.+.. ++||+++|--
T Consensus 82 ~~~~~~a~~a~~~G~d~v~~~~P~~~~~--~--~~~l~~~~~~ia~~~---~~pi~lYn~P 135 (284)
T cd00950 82 AEAIELTKRAEKAGADAALVVTPYYNKP--S--QEGLYAHFKAIAEAT---DLPVILYNVP 135 (284)
T ss_pred HHHHHHHHHHHHcCCCEEEEcccccCCC--C--HHHHHHHHHHHHhcC---CCCEEEEECh
Confidence 3556788889999999999999975322 2 366777888888764 5899999864
No 62
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=50.63 E-value=28 Score=24.84 Aligned_cols=25 Identities=24% Similarity=0.389 Sum_probs=21.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
...+.|.++++++++|.||+|..-.
T Consensus 81 ~~~~~I~~~a~~~~~dlIV~G~~~~ 105 (132)
T cd01988 81 DIASGILRTAKERQADLIIMGWHGS 105 (132)
T ss_pred CHHHHHHHHHHhcCCCEEEEecCCC
Confidence 4567899999999999999999854
No 63
>PRK13320 pantothenate kinase; Reviewed
Probab=50.63 E-value=74 Score=27.23 Aligned_cols=55 Identities=22% Similarity=0.239 Sum_probs=34.5
Q ss_pred eEEEEecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHHc-CCCEEEEeecC
Q 030392 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIGLPK 120 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e~-~v~~IVVGLPl 120 (178)
.+|.||.|..||=.|+.++-.......+. .+.....+.++++++ +++.++|.-..
T Consensus 3 M~L~iDiGNT~ik~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~i~~i~vsSVv 58 (244)
T PRK13320 3 MNLVIDIGNTTTKLAVFEGDELLEVFVVS--TEGVEESLEKLLAKYPAIRDAIVSSVV 58 (244)
T ss_pred eEEEEEeCCCcEEEEEEECCEEEEEEEEc--cHHHHHHHHHHHHHCCCCCEEEEEecc
Confidence 48999999999999998742111111121 223345566666665 47888877653
No 64
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=50.59 E-value=1e+02 Score=28.25 Aligned_cols=62 Identities=21% Similarity=0.208 Sum_probs=42.1
Q ss_pred ceEEEEecCCceEEEEeecCCc-ccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030392 63 GFSLGVDLGLSRTGLALSKGFC-VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSET 127 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~~-A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~ 127 (178)
+.||++|+|.-+.-|-.-|+.. -++.-+.+........+|..+.+ +.+...++|-| |.|..+
T Consensus 1 mkila~DvG~GTqDi~~~d~~~EnSl~mVmPspt~~~A~R~R~~~~-~g~~l~l~G~~--MGGGp~ 63 (342)
T COG4012 1 MKILAIDVGVGTQDIVAYDGDPENSLRMVMPSPTSTLAQRLRFMLR-EGPYLALIGVP--MGGGPT 63 (342)
T ss_pred CceEEEEecCCceeEEEecCCcccceeEeecCchHHHHHHHHHHhc-cCCcEEEEeee--cCCChh
Confidence 3699999999988888888632 34444554433445566666554 56799999999 456544
No 65
>PF00012 HSP70: Hsp70 protein; InterPro: IPR013126 Heat shock proteins, Hsp70 chaperones help to fold many proteins. Hsp70 assisted folding involves repeated cycles of substrate binding and release. Hsp70 activity is ATP dependent. Hsp70 proteins are made up of two regions: the amino terminus is the ATPase domain and the carboxyl terminus is the substrate binding region []. Hsp70 proteins have an average molecular weight of 70 kDa [, , ]. In most species,there are many proteins that belong to the hsp70 family. Some of these are only expressed under stress conditions (strictly inducible), while some are present in cells under normal growth conditions and are not heat-inducible (constitutive or cognate) [, ]. Hsp70 proteins can be found in different cellular compartments(nuclear, cytosolic, mitochondrial, endoplasmic reticulum, for example).; PDB: 2P32_D 3D2F_A 2QXL_A 3D2E_C 3C7N_A 3FE1_C 4ANI_C 2V7Y_A 2KHO_A 3DPQ_B ....
Probab=50.55 E-value=14 Score=34.46 Aligned_cols=17 Identities=35% Similarity=0.669 Sum_probs=14.8
Q ss_pred EEEEecCCceEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK 81 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD 81 (178)
++|||+|+..+.||+.+
T Consensus 1 viGID~Gt~~~~va~~~ 17 (602)
T PF00012_consen 1 VIGIDLGTTNSKVAVFK 17 (602)
T ss_dssp EEEEEE-SSEEEEEEEE
T ss_pred CEEEEeccCCEEEEEEE
Confidence 68999999999999877
No 66
>PRK09605 bifunctional UGMP family protein/serine/threonine protein kinase; Validated
Probab=50.04 E-value=92 Score=29.11 Aligned_cols=97 Identities=16% Similarity=0.089 Sum_probs=61.8
Q ss_pred ceEEEEecCCceEEEEeecC---CcccccEEEE-----------ccC--hhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 030392 63 GFSLGVDLGLSRTGLALSKG---FCVRPLTVLK-----------LRG--EKLELQLLEIAQR-----EETDEFIIGLPKS 121 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~---~~A~Pl~tI~-----------~~~--~~~~~~L~~iI~e-----~~v~~IVVGLPl~ 121 (178)
+.|||||--.--+.+|+.+. +.+.-..++. ... +.+...+.+++++ .++|.|.|+.--
T Consensus 1 m~il~iets~~~~s~a~~~~~~~~~~~~~~~~~~~~gg~~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~gP- 79 (535)
T PRK09605 1 MIVLGIEGTAWKTSAGIVDSDGDVLFNESDPYKPPSGGIHPREAAEHHAEAIPKVIKEALEEAGLKPEDIDLVAFSQGP- 79 (535)
T ss_pred CEEEEEEccccceEEEEEeCCCcEEEEEEeeccCCcCCCChHHHHHHHHHHHHHHHHHHHHHcCCCHhhCCEEEECCCC-
Confidence 46999999999999999982 3332222221 000 1234456666666 456999998543
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHH
Q 030392 122 WDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFT 169 (178)
Q Consensus 122 mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~ 169 (178)
|..+. -+....||+.|+..+ ++|++.++--. +|.+.-|.
T Consensus 80 --g~~~~-l~vg~~~ak~la~~~---~~~~~~v~h~~---aH~~~a~~ 118 (535)
T PRK09605 80 --GLGPC-LRVVATAARALALSL---DVPLIGVNHCV---AHVEIGRL 118 (535)
T ss_pred --CcHhh-HHHHHHHHHHHHHHh---CCCeecccHHH---HHHHHhhh
Confidence 33332 456677899999887 67999986443 66655543
No 67
>cd03769 SR_IS607_transposase_like Serine Recombinase (SR) family, IS607-like transposase subfamily, catalytic domain; members contain a DNA binding domain with homology to MerR/SoxR located N-terminal to the catalytic domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. This subfamily is composed of proteins that catalyze the transposition of insertion sequence (IS) elements such as IS607 from Helicobacter and IS1535 from Mycobacterium, and similar proteins from other bacteria and several archaeal species. IS elements are DNA segments that move to new sites in prokaryotic and eukaryotic genomes causing insertion mutations and gene rearrangements.
Probab=49.99 E-value=69 Score=24.61 Aligned_cols=63 Identities=11% Similarity=-0.039 Sum_probs=36.9
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHH
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFT 169 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~ 169 (178)
..+.++.+.++..+++.|||=-.-. .++...++... .+.+.|+.|+.++|.+.|.....++..
T Consensus 49 p~l~~ll~~i~~g~~d~lvV~~ldR-------l~R~~~d~~~~---~l~~~gv~l~~~~~~~d~~~~~~l~~~ 111 (134)
T cd03769 49 KGLLKLLEDVLAGKVERVVITYKDR-------LARFGFELLEE---LFKAYGVEIVVINQEENEELEQELVED 111 (134)
T ss_pred HHHHHHHHHHHcCCCCEEEEEeccH-------HHHhhHHHHHH---HHHHCCCEEEEEeCCCCCCCHHHHHHH
Confidence 3456777778888899888854322 22222333222 233458999999998854443334333
No 68
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=48.82 E-value=1.3e+02 Score=25.64 Aligned_cols=54 Identities=15% Similarity=0.144 Sum_probs=40.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...-++.+.+++.++|+++|.-|.....+ .+.+.+|.+.+.+.. ++||+++|.-
T Consensus 83 ~~~i~~a~~a~~~Gad~v~v~~P~~~~~s----~~~l~~y~~~ia~~~---~~pi~iYn~P 136 (289)
T PF00701_consen 83 EEAIELARHAQDAGADAVLVIPPYYFKPS----QEELIDYFRAIADAT---DLPIIIYNNP 136 (289)
T ss_dssp HHHHHHHHHHHHTT-SEEEEEESTSSSCC----HHHHHHHHHHHHHHS---SSEEEEEEBH
T ss_pred HHHHHHHHHHhhcCceEEEEeccccccch----hhHHHHHHHHHHhhc---CCCEEEEECC
Confidence 44567778889999999999999764332 455777778888664 5799999874
No 69
>PRK12359 flavodoxin FldB; Provisional
Probab=48.63 E-value=22 Score=29.11 Aligned_cols=31 Identities=6% Similarity=0.159 Sum_probs=27.2
Q ss_pred EEEeecCCCCCCCCHHHHHHHHHHHHHHHHh
Q 030392 114 FIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (178)
Q Consensus 114 IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~ 144 (178)
-.||||++.+.+.....+++.++++.|+..+
T Consensus 138 ~f~gl~lD~~nq~~~t~~ri~~W~~~~~~~~ 168 (172)
T PRK12359 138 LFVGLALDEVNQYDLSDERIQQWCEQILLEM 168 (172)
T ss_pred EEEEEEEcCCCchhhhHHHHHHHHHHHHHHH
Confidence 3799999999988888899999999998665
No 70
>COG1775 HgdB Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]
Probab=48.63 E-value=34 Score=31.94 Aligned_cols=59 Identities=12% Similarity=-0.030 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhH
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHF 164 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~ 164 (178)
.++.+.++++|+++|++|+=+=..-.=...+. -.|++++++.++||+-.+=.+|+++..
T Consensus 307 r~k~i~~mvkE~~vDGvv~~~l~fC~p~~~e~--------~~lk~~~kE~~iPvi~~e~D~~~~d~e 365 (379)
T COG1775 307 RVKYISRMVKEYNVDGVVLYTLRFCKPYSVEY--------PELKRRLKEEGIPVIAIEGDYSNFDVE 365 (379)
T ss_pred HHHHHHHHHHHcCCCeEeehhhhccCcccccc--------HHHHHHHHhcCCcEEEeccccccccHH
Confidence 56789999999999999984422111111111 135666666689999998888877653
No 71
>TIGR01865 cas_Csn1 CRISPR-associated protein, Csn1 family. CRISPR loci appear to be mobile elements with a wide host range. This model represents a protein found only in CRISPR-containing species, near other CRISPR-associated proteins (cas), as part of the NMENI subtype of CRISPR/Cas locus. The species range so far for this protein is animal pathogens and commensals only.
Probab=47.74 E-value=14 Score=37.20 Aligned_cols=18 Identities=33% Similarity=0.829 Sum_probs=17.1
Q ss_pred eEEEEecCCceEEEEeec
Q 030392 64 FSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD 81 (178)
.+||||+|+.-||-||-|
T Consensus 2 y~LGLDiGt~SvGWAVv~ 19 (805)
T TIGR01865 2 YILGLDIGIASVGWAIVE 19 (805)
T ss_pred ceeEEeecccceeEEEEe
Confidence 589999999999999998
No 72
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=47.48 E-value=1.1e+02 Score=22.37 Aligned_cols=62 Identities=16% Similarity=0.197 Sum_probs=39.0
Q ss_pred ccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEE
Q 030392 85 VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDIL 153 (178)
Q Consensus 85 A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~l 153 (178)
...+.++.-...--.+.+.+.+.+++++.|++. ...+.....++++++.+++..+ .+++|++
T Consensus 25 ~~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS------~~~~~~~~~~~~~i~~l~~~~~-~~~~i~v 86 (119)
T cd02067 25 DAGFEVIDLGVDVPPEEIVEAAKEEDADAIGLS------GLLTTHMTLMKEVIEELKEAGL-DDIPVLV 86 (119)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEe------ccccccHHHHHHHHHHHHHcCC-CCCeEEE
Confidence 356666543222234677888889999977763 3334456788888888888754 1344443
No 73
>COG5026 Hexokinase [Carbohydrate transport and metabolism]
Probab=47.44 E-value=1.7e+02 Score=28.20 Aligned_cols=116 Identities=16% Similarity=0.178 Sum_probs=70.5
Q ss_pred CCceEEEEecCCceEEEEeec----CC---cc----cccEEEEccC-hh----HHHHHHHHHHHcCC--------CEEEE
Q 030392 61 RGGFSLGVDLGLSRTGLALSK----GF---CV----RPLTVLKLRG-EK----LELQLLEIAQREET--------DEFII 116 (178)
Q Consensus 61 ~~~rILgLD~G~KRIGVAiSD----~~---~A----~Pl~tI~~~~-~~----~~~~L~~iI~e~~v--------~~IVV 116 (178)
..+++|+||+|.-+.=|+.-. +. .- -|.+...... +. ..+.|+..++++.+ -++-.
T Consensus 73 e~g~~LaiD~GGTnlRvc~V~l~g~gt~~~~~sks~lp~e~~~~~~~~~l~~~iadrl~~fi~~~~~~~~~~~l~~gfTF 152 (466)
T COG5026 73 ESGSVLAIDLGGTNLRVCLVVLGGDGTFDIEQSKSFLPVECRDSESRDELFGFIADRLAAFIKEQHPSGYGSKLPIGFTF 152 (466)
T ss_pred CCCCEEEEecCCceEEEEEEEeCCCCCcccccCcccCchhhccCCChHHHHHHHHHHHHHHHHHhCchhccCcceeeEEE
Confidence 458999999999887766533 21 11 3333332211 22 35688899999998 66777
Q ss_pred eecCCCC----CCCCHHH-------HHHHHHHHHHHHHhccCCCcEEEEcC-CCchhhhHHHHHHhhcccccC
Q 030392 117 GLPKSWD----GSETPQS-------NKVRSVAGRLAVRAAERSFSDILITA-IFSFSCHFAIFFTVLNSTSVG 177 (178)
Q Consensus 117 GLPl~md----G~e~~~a-------~~Vr~Fa~~L~~~~~~~glpV~lvDE-RlSTs~~~a~~~~~~~~~~~~ 177 (178)
-+|++.. |..-.++ -.-..|++.|.+.+..+++||..+== .-||.-..|..|+- -.|.+|
T Consensus 153 SYP~~q~sin~g~l~rwTKgf~i~e~ig~dvv~~l~e~l~~r~~pi~v~aviNDttgtlla~~yt~-~~~~iG 224 (466)
T COG5026 153 SYPLNQTSINEGQLIRWTKGFDIPEVIGTDVVRLLQEALSARNLPIRVVAVINDTTGTLLASVYTS-SETIIG 224 (466)
T ss_pred eccccccccCceeeEeecccCcchhhhhhhHHHHHHHHHHhcCCceEEEEEecccHHHHHHHhhcC-CCCeEE
Confidence 8887642 2211111 11256788888888888898543311 12677788888876 334444
No 74
>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=46.66 E-value=54 Score=31.23 Aligned_cols=17 Identities=18% Similarity=0.243 Sum_probs=12.2
Q ss_pred cccccccchhccccCCC
Q 030392 43 SVEEFLPNATRRKKDSL 59 (178)
Q Consensus 43 s~~~~~~na~~~~~~~~ 59 (178)
+++..|||.+.|+...+
T Consensus 129 ~l~~~pp~pm~R~~I~~ 145 (441)
T COG1157 129 PLDAPPPNPLKRRPIEE 145 (441)
T ss_pred cccCCCCCchhcccccc
Confidence 46677888888777554
No 75
>TIGR00749 glk glucokinase, proteobacterial type. This model represents glucokinase of E. coli and close homologs, mostly from other proteobacteria, presumed to have equivalent function. This glucokinase is more closely related to a number of uncharacterized paralogs than to the glucokinase glcK (fromerly yqgR) of Bacillus subtilis and its closest homologs, so the two sets are represented by separate models.
Probab=45.72 E-value=68 Score=27.85 Aligned_cols=84 Identities=15% Similarity=0.083 Sum_probs=47.5
Q ss_pred EEEecCCceEEEEeec--CCcccccEEEEccC-hhHHHHHHHHHHHcC------CCEEEEeecCCCCCCCC-----HHHH
Q 030392 66 LGVDLGLSRTGLALSK--GFCVRPLTVLKLRG-EKLELQLLEIAQREE------TDEFIIGLPKSWDGSET-----PQSN 131 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD--~~~A~Pl~tI~~~~-~~~~~~L~~iI~e~~------v~~IVVGLPl~mdG~e~-----~~a~ 131 (178)
|++|+|...|=+|+-| +.......+..... +...+.+.+++++.+ +..+.||.|=-.+|..- ++.
T Consensus 1 l~~DIGGT~i~~glvd~~g~~l~~~~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~Igi~Gpv~~~~v~~~nl~w~- 79 (316)
T TIGR00749 1 LVGDIGGTNARLALCEIAPGEISQAKTYSGLDFPSLEAVVRVYLEEHKVELKDPIAKGCFAIACPITGDWVAMTNHTWA- 79 (316)
T ss_pred CeEecCcceeeEEEEecCCCceeeeEEEecCCCCCHHHHHHHHHHhcccccCCCcCeEEEEEeCcccCCEEEecCCCCe-
Confidence 5899999999888877 22212223433222 346677777776643 55577777744344311 221
Q ss_pred HHHHHHHHHHHHhccCCC-cEEEEcC
Q 030392 132 KVRSVAGRLAVRAAERSF-SDILITA 156 (178)
Q Consensus 132 ~Vr~Fa~~L~~~~~~~gl-pV~lvDE 156 (178)
+ .. +.|++++ ++ ||++.+.
T Consensus 80 -~-~~-~~l~~~~---g~~~V~l~ND 99 (316)
T TIGR00749 80 -F-SI-AELKQNL---GFSHLEIIND 99 (316)
T ss_pred -e-CH-HHHHHhc---CCCeEEEEec
Confidence 2 33 3666665 56 5777653
No 76
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=45.63 E-value=47 Score=24.35 Aligned_cols=44 Identities=14% Similarity=0.099 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCH---HHHHHHHHHHHHH
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETP---QSNKVRSVAGRLA 141 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~---~a~~Vr~Fa~~L~ 141 (178)
..+.|.++.++++.+..++++-.+++|...+ ...++.+|...|-
T Consensus 67 ~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~l~~lg 113 (118)
T PF14106_consen 67 KREIIKELKEKYNLEIQFFCYFSSISGGGFPAIYLSPEIIKFLAALG 113 (118)
T ss_pred cHHHHHHHHHhcCcceEEEEEEEecCCCCCcccccCHHHHHHHHhhC
Confidence 3568999999999998888888888888888 8888888877663
No 77
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=45.45 E-value=1.1e+02 Score=25.93 Aligned_cols=54 Identities=15% Similarity=0.157 Sum_probs=33.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHH-HHHHHHHHHHHHHhccCC-CcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERS-FSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a-~~Vr~Fa~~L~~~~~~~g-lpV~lv 154 (178)
..++++.+++.++++|.+|++==+-.+......+ +...+|.++|++. + +||+++
T Consensus 26 ~~l~~l~~~~~~~~~D~lli~GDi~d~~~p~~~~~~~~~~~l~~l~~~----~~i~v~~i 81 (253)
T TIGR00619 26 AFLDDLLEFAKAEQIDALLVAGDVFDTANPPAEAQELFNAFFRNLSDA----NPIPIVVI 81 (253)
T ss_pred HHHHHHHHHHHHcCCCEEEECCccCCCCCCCHHHHHHHHHHHHHHHhc----CCceEEEE
Confidence 3567888888999999887765554444433332 2344555555432 4 688876
No 78
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=45.09 E-value=25 Score=26.16 Aligned_cols=50 Identities=18% Similarity=0.183 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
...+.|.+.++++++|.||+|-= |. ... ..-.-++++-+.. .+||..+-.
T Consensus 90 ~p~~~I~~~a~~~~~DLIV~Gs~----~~--~~~-~lgSva~~v~~~a---~~pVLvv~~ 139 (144)
T PRK15118 90 DLGQVLVDAIKKYDMDLVVCGHH----QD--FWS-KLMSSARQLINTV---HVDMLIVPL 139 (144)
T ss_pred CHHHHHHHHHHHhCCCEEEEeCc----cc--HHH-HHHHHHHHHHhhC---CCCEEEecC
Confidence 45578899999999999999963 22 112 2346677776665 478888743
No 79
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=45.01 E-value=38 Score=25.04 Aligned_cols=23 Identities=9% Similarity=0.302 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec
Q 030392 97 KLELQLLEIAQREETDEFIIGLP 119 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLP 119 (178)
...+.|.+.++++++|.||+|-=
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~Gs~ 112 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVMGAS 112 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEEecc
Confidence 34578899999999999999964
No 80
>PRK09982 universal stress protein UspD; Provisional
Probab=44.83 E-value=25 Score=26.53 Aligned_cols=48 Identities=19% Similarity=0.246 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...+.|.+.++++++|.||+|- + .+ ...+.. ..++++-+.. .+||..+
T Consensus 90 ~p~~~I~~~A~~~~aDLIVmG~--~-~~---~~~~~~-~va~~V~~~s---~~pVLvv 137 (142)
T PRK09982 90 EMPETLLEIMQKEQCDLLVCGH--H-HS---FINRLM-PAYRGMINKM---SADLLIV 137 (142)
T ss_pred CHHHHHHHHHHHcCCCEEEEeC--C-hh---HHHHHH-HHHHHHHhcC---CCCEEEe
Confidence 3457888899999999999993 3 22 223333 3666666554 4787654
No 81
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=44.58 E-value=44 Score=26.03 Aligned_cols=58 Identities=21% Similarity=0.134 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHH-cCCCEEEEeecCCCCC-CCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQR-EETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e-~~v~~IVVGLPl~mdG-~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..++.+.+.+.+ ++++.|||--=..+.+ .+..... +.++.+.|++...+.|+.|.++.
T Consensus 127 ~~~~~l~~~~~~~~~~~lvviD~l~~~~~~~~~~~~~-~~~~~~~l~~la~~~~~~vi~v~ 186 (193)
T PF13481_consen 127 EDLEELEAALKELYGPDLVVIDPLQSLHDGDENSNSA-VAQLMQELKRLAKEYGVAVILVH 186 (193)
T ss_dssp HHHHHHHHHHTT----SEEEEE-GGGG--S-TT-HHH-HHHHHHHHHHHHHHH--EEEEEE
T ss_pred HHHHHHHHHHhhcCCCcEEEEcCHHHHhcCCCCCHHH-HHHHHHHHHHHHHHcCCEEEEEE
Confidence 356788888888 8899999875554433 3333333 36666666654433467777653
No 82
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=44.18 E-value=21 Score=27.70 Aligned_cols=30 Identities=23% Similarity=0.259 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSET 127 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~ 127 (178)
.++.|.+.+++.+++.|++.+.-+++|+.+
T Consensus 44 ~i~~L~~ri~~~~i~EVIlA~~pt~EGe~T 73 (112)
T cd01025 44 NIDKLLERIAKGQVKEVILATNPTVEGEAT 73 (112)
T ss_pred CHHHHHHHHhcCCCcEEEEecCCCchHHHH
Confidence 568899999999999999999999888754
No 83
>PRK15456 universal stress protein UspG; Provisional
Probab=43.11 E-value=26 Score=26.09 Aligned_cols=50 Identities=16% Similarity=0.230 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...+.|.+.++++++|.||+|-= |. +-....+=.-++++.++. .+||..+
T Consensus 92 ~~~~~I~~~a~~~~~DLIVmG~~----g~-~~~~~llGS~a~~v~~~a---~~pVLvV 141 (142)
T PRK15456 92 SVRDEVNELAEELGADVVVIGSR----NP-SISTHLLGSNASSVIRHA---NLPVLVV 141 (142)
T ss_pred ChHHHHHHHHhhcCCCEEEEcCC----CC-CccceecCccHHHHHHcC---CCCEEEe
Confidence 45578899999999999999972 21 211122344456666554 3577654
No 84
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=43.03 E-value=68 Score=24.47 Aligned_cols=52 Identities=6% Similarity=0.056 Sum_probs=38.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDIL 153 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~l 153 (178)
++...++++. ++++|.|-++-=+..+...+ .+..+.++++.|++.+ |++|+.
T Consensus 53 ~~~~~~~~l~-~~~~d~IHlssC~~~~~~~~-~CP~~~~~~~~I~~~~---gi~VV~ 104 (107)
T PF08821_consen 53 KLVRRIKKLK-KNGADVIHLSSCMVKGNPHG-PCPHIDEIKKIIEEKF---GIEVVE 104 (107)
T ss_pred HHHHHHHHHH-HCCCCEEEEcCCEecCCCCC-CCCCHHHHHHHHHHHh---CCCEee
Confidence 4556666666 89999998887776544333 6777899999999887 678764
No 85
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the 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 the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=42.85 E-value=1.1e+02 Score=23.30 Aligned_cols=53 Identities=9% Similarity=0.053 Sum_probs=30.1
Q ss_pred HHHHHHHHHHH--cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcE
Q 030392 98 LELQLLEIAQR--EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSD 151 (178)
Q Consensus 98 ~~~~L~~iI~e--~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV 151 (178)
.++.+.+.+.+ .++..+++++|-.. +........+.++-+.+++..++.++++
T Consensus 73 ~l~~li~~~~~~~~~~~vi~~~~~p~~-~~~~~~~~~~~~~n~~l~~~a~~~~~~~ 127 (169)
T cd01828 73 NYRTILEKLRKHFPNIKIVVQSILPVG-ELKSIPNEQIEELNRQLAQLAQQEGVTF 127 (169)
T ss_pred HHHHHHHHHHHHCCCCeEEEEecCCcC-ccCcCCHHHHHHHHHHHHHHHHHCCCEE
Confidence 34555555555 67778888887543 2223344566666666666554434443
No 86
>PF06050 HGD-D: 2-hydroxyglutaryl-CoA dehydratase, D-component ; InterPro: IPR010327 Degradation of glutamate via the hydroxyglutarate pathway involves the syn-elimination of water from 2-hydroxyglutaryl-CoA. This anaerobic process is catalysed by 2-hydroxyglutaryl-CoA dehydratase, an enzyme with two components (A and D) that reversibly associate during reaction cycles. This component contains one non-reducible [4Fe-4S]2+ cluster and a reduced riboflavin 5'-monophosphate [].; PDB: 3O3O_B 3O3N_D 3O3M_D.
Probab=42.56 E-value=60 Score=27.86 Aligned_cols=52 Identities=13% Similarity=0.039 Sum_probs=32.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccC-CCcEEEEc
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAER-SFSDILIT 155 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~-glpV~lvD 155 (178)
+...+.+.++++++++|++|......-+. .......+++.+.+. |+|+..+|
T Consensus 272 ~~r~~~~~~~~~~~~~dgvi~~~~~~C~~--------~~~~~~~l~~~~~~~~gIP~l~le 324 (349)
T PF06050_consen 272 ERRIEYIDDLIEKYGADGVIFHGHKGCDP--------YSYDQPLLKEALREFLGIPVLFLE 324 (349)
T ss_dssp HCHHHHHHHHHHHTT-SEEEEEEETT-HH--------HHCCHHHHHHHHHCCHT--EEEEE
T ss_pred HhHHHHHHHHHHHhCCCEEEEhHhcCCCc--------HHHHHHHHHHHHHHhcCCCeEeec
Confidence 35678999999999999999998875221 112223344444455 89996665
No 87
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=42.16 E-value=1.1e+02 Score=26.20 Aligned_cols=54 Identities=17% Similarity=0.150 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...-++.+..++.++|++++.-|..... + .+.+.+|-+.+.+.. ++||+++|--
T Consensus 80 ~~~i~~a~~a~~~Gad~v~v~pP~y~~~--~--~~~i~~~~~~i~~~~---~~pi~lYn~P 133 (285)
T TIGR00674 80 EEAISLTKFAEDVGADGFLVVTPYYNKP--T--QEGLYQHFKAIAEEV---DLPIILYNVP 133 (285)
T ss_pred HHHHHHHHHHHHcCCCEEEEcCCcCCCC--C--HHHHHHHHHHHHhcC---CCCEEEEECc
Confidence 3455788889999999999999986432 2 366777777787765 5799999864
No 88
>cd01844 SGNH_hydrolase_like_6 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=42.14 E-value=1.2e+02 Score=23.51 Aligned_cols=52 Identities=15% Similarity=0.209 Sum_probs=33.1
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 102 L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
+.+++..++++.|||-+=-|.-+...+..+.++++++++++..+ +.+|+++.
T Consensus 49 ~~~~~~~~~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~p--~~~iil~~ 100 (177)
T cd01844 49 VAELLRDVPADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETHP--DTPILLVS 100 (177)
T ss_pred HHHHHHhcCCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHCc--CCCEEEEe
Confidence 45666677888888765555333222566777777888877765 34666654
No 89
>PRK07179 hypothetical protein; Provisional
Probab=42.12 E-value=69 Score=28.39 Aligned_cols=54 Identities=13% Similarity=0.110 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+.+.|.+.++++.+..|++--|.++.|..-+. +++.++ .+++ | -+..+||.++.
T Consensus 169 d~~~l~~~l~~~~~~lV~v~~v~n~tG~i~pl-~~I~~l----~~~~---~-~~livDea~~~ 222 (407)
T PRK07179 169 DVDHLRRQIERHGPGIIVVDSVYSTTGTIAPL-ADIVDI----AEEF---G-CVLVVDESHSL 222 (407)
T ss_pred CHHHHHHHHHhcCCeEEEECCCCCCCCccccH-HHHHHH----HHHc---C-CEEEEECcccc
Confidence 55778888877667788888888999988884 233333 2333 3 27889999864
No 90
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=41.48 E-value=97 Score=26.13 Aligned_cols=58 Identities=16% Similarity=0.114 Sum_probs=32.9
Q ss_pred EEecCCceEEEEeecC-C-----cccccEEEEccC-------hhHHHHHHHHHHH---cCCCEEEEeecCCCCC
Q 030392 67 GVDLGLSRTGLALSKG-F-----CVRPLTVLKLRG-------EKLELQLLEIAQR---EETDEFIIGLPKSWDG 124 (178)
Q Consensus 67 gLD~G~KRIGVAiSD~-~-----~A~Pl~tI~~~~-------~~~~~~L~~iI~e---~~v~~IVVGLPl~mdG 124 (178)
|||+|+..|=+-+-+. - .+.|-..+.... ...+.++.+.+++ ..+..+|++.|-+.+.
T Consensus 1 g~dig~~~ik~v~~~~~~~~~~~~~~~~~~~~~g~I~d~~~~~~~l~~l~~~a~~~~g~~~~~vvisVP~~~~~ 74 (239)
T TIGR02529 1 GVDLGTANIVIVVLDEDGQPVAGVMQFADVVRDGIVVDFLGAVEIVRRLKDTLEQKLGIELTHAATAIPPGTIE 74 (239)
T ss_pred CCCcccceEEEEEEecCCCEEEEEecccccccCCeEEEhHHHHHHHHHHHHHHHHHhCCCcCcEEEEECCCCCc
Confidence 6899998887666442 1 123333332111 1234455544433 4578999999987654
No 91
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=41.33 E-value=95 Score=23.74 Aligned_cols=56 Identities=5% Similarity=0.047 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCC--CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKS--WDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~--mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.+..+.+.+++.++..|+++.|-. .+.......+.+.++.+.+++..++.+ |.++|
T Consensus 93 ~~~~~i~~i~~~~~~vil~~~~~~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~--v~~vd 150 (185)
T cd01832 93 DLEEAVRRLRAAGARVVVFTIPDPAVLEPFRRRVRARLAAYNAVIRAVAARYG--AVHVD 150 (185)
T ss_pred HHHHHHHHHHhCCCEEEEecCCCccccchhHHHHHHHHHHHHHHHHHHHHHcC--CEEEe
Confidence 344555555567888888887643 111112234456777777766654433 55554
No 92
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=41.32 E-value=1.2e+02 Score=26.06 Aligned_cols=54 Identities=15% Similarity=0.126 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
+...++.+.+++.+++.+++.-|.--. .+ .+.+.+|-+.+.+.. ++||+++|--
T Consensus 83 ~~~i~~a~~a~~~G~d~v~~~pP~~~~--~~--~~~i~~~~~~ia~~~---~~pv~lYn~P 136 (292)
T PRK03170 83 AEAIELTKFAEKAGADGALVVTPYYNK--PT--QEGLYQHFKAIAEAT---DLPIILYNVP 136 (292)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCcCCC--CC--HHHHHHHHHHHHhcC---CCCEEEEECc
Confidence 455677888899999999999997532 22 366777778887765 4799999853
No 93
>PRK09112 DNA polymerase III subunit delta'; Validated
Probab=40.88 E-value=99 Score=27.92 Aligned_cols=69 Identities=17% Similarity=0.159 Sum_probs=45.0
Q ss_pred HHHHHHcCCCEEEEeecCCCCCC---CCHHHHHHHHHHHHHHHHhccCCCcEEEEcC--CCchhhhHHHHHHhh
Q 030392 103 LEIAQREETDEFIIGLPKSWDGS---ETPQSNKVRSVAGRLAVRAAERSFSDILITA--IFSFSCHFAIFFTVL 171 (178)
Q Consensus 103 ~~iI~e~~v~~IVVGLPl~mdG~---e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE--RlSTs~~~a~~~~~~ 171 (178)
..+.....+|.+++.-|.+..+. ..-..+.||+..+.+...-...+.+|+++|| +++..+-.|++.++=
T Consensus 93 ~~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LE 166 (351)
T PRK09112 93 RQIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLE 166 (351)
T ss_pred HHHHcCCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHh
Confidence 34445567898888888654332 1122456666666666543334689999997 578888888888763
No 94
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=40.84 E-value=97 Score=28.04 Aligned_cols=59 Identities=15% Similarity=0.200 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCC--CHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e--~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.....+.++.++++++.|||-+=-.+.+.. ....+.+..+.+.|+...++.++||+.+=
T Consensus 292 ~i~~~i~~~~~~~~~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi~ls 352 (434)
T TIGR00665 292 ELRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALS 352 (434)
T ss_pred HHHHHHHHHHHhcCCCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEe
Confidence 345567788888999999998654443221 23445566777777765555578888764
No 95
>COG1831 Predicted metal-dependent hydrolase (urease superfamily) [General function prediction only]
Probab=40.78 E-value=60 Score=29.27 Aligned_cols=65 Identities=15% Similarity=-0.004 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHcCCCEE-EEeecCC-CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHH
Q 030392 98 LELQLLEIAQREETDEF-IIGLPKS-WDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFA 165 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~I-VVGLPl~-mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a 165 (178)
.++...++++|..+++| =||.|-- -+-..=+.+.++...|-++++-. +++|.+--|+++......
T Consensus 109 ~lelA~k~v~eg~avaiGEvGrPHypVs~~v~~~~n~vl~~a~elA~dv---dc~vqLHtes~~~~~~~~ 175 (285)
T COG1831 109 ALELAAKLVEEGKAVAIGEVGRPHYPVSEEVWEASNEVLEYAMELAKDV---DCAVQLHTESLDEETYEE 175 (285)
T ss_pred HHHHHHHHHhccceeeeeccCCCCCCCCHHHHHHHHHHHHHHHHHhhcC---CCcEEEecCCCChHHHHH
Confidence 45678899999999999 8999953 34555677888888888888654 799999999998755443
No 96
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=40.64 E-value=50 Score=23.66 Aligned_cols=25 Identities=12% Similarity=0.407 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
...+.|.+.++++++|.||+|..-+
T Consensus 72 ~~~~~I~~~~~~~~~dllviG~~~~ 96 (124)
T cd01987 72 DVAEAIVEFAREHNVTQIVVGKSRR 96 (124)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCCCC
Confidence 3457899999999999999999843
No 97
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=40.27 E-value=68 Score=27.36 Aligned_cols=62 Identities=16% Similarity=0.035 Sum_probs=43.9
Q ss_pred hHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhH
Q 030392 97 KLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHF 164 (178)
Q Consensus 97 ~~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~ 164 (178)
-+.+.|.+.++++ ++..+++--|-++.|..=+ .+..+++++.+++. + -++++||.|+.....
T Consensus 130 ~d~~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~-~~~l~~l~~~~~~~----~-~~ii~De~y~~~~~~ 196 (363)
T PF00155_consen 130 LDPEALEEALDELPSKGPRPKAVLICNPNNPTGSVLS-LEELRELAELAREY----N-IIIIVDEAYSDLIFG 196 (363)
T ss_dssp ETHHHHHHHHHTSHTTTETEEEEEEESSBTTTTBB---HHHHHHHHHHHHHT----T-SEEEEEETTTTGBSS
T ss_pred ccccccccccccccccccccceeeecccccccccccc-cccccchhhhhccc----c-cceeeeeceeccccC
Confidence 3678888888886 5678999999999997433 45566666666543 2 377799999765544
No 98
>TIGR01175 pilM type IV pilus assembly protein PilM. This protein is required for the assembly of the type IV fimbria in Pseudomonas aeruginosa responsible for twitching motility, and for a similar pilus-like structure in Synechocystis. It is also found in species such as Deinococcus described as having natural transformation (for which a type IV pilus-like structure is proposed) but not fimbria.
Probab=40.19 E-value=89 Score=27.04 Aligned_cols=59 Identities=20% Similarity=0.317 Sum_probs=39.4
Q ss_pred ceEEEEecCCceEEEEeecC----Cc-----cccc--EEEEccC----hhHHHHHHHHHHHcCC--CEEEEeecCC
Q 030392 63 GFSLGVDLGLSRTGLALSKG----FC-----VRPL--TVLKLRG----EKLELQLLEIAQREET--DEFIIGLPKS 121 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~----~~-----A~Pl--~tI~~~~----~~~~~~L~~iI~e~~v--~~IVVGLPl~ 121 (178)
..++|||+|...|=++.... .. ..|+ +.+.... +.+...|++++++.+. ..+++++|-.
T Consensus 3 ~~~vgiDIg~~~Ik~v~~~~~~~~~~v~~~~~~~~p~~~i~~g~i~d~~~~~~~l~~~~~~~~~~~k~v~~alp~~ 78 (348)
T TIGR01175 3 SLLVGIDIGSTSVKVAQLKRSGDRYKLEHYAVEPLPAGIFTEGHIVEYQAVAEALKELLSELGINTKKAATAVPGS 78 (348)
T ss_pred CcEEEEEeccCeEEEEEEEecCCceEEEEEEEEECCCCcccCCCccCHHHHHHHHHHHHHHcCCCcceEEEEecCC
Confidence 46899999999998887761 11 1233 3343211 2356788888888876 4699999953
No 99
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=39.75 E-value=1.3e+02 Score=27.65 Aligned_cols=53 Identities=17% Similarity=0.093 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHH-HHHHHHHHHHHHHhccCCCcEEEE
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a-~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.++.+.+++.++++|.|||.==+-..+.....+ +...+|..+|++. ++||+++
T Consensus 27 ~l~~l~~~i~~~~~D~viIaGDifD~~~p~~~a~~~~~~~l~~L~~~----~~~v~~I 80 (407)
T PRK10966 27 FLDWLLEQVQEHQVDAIIVAGDIFDTGSPPSYARELYNRFVVNLQQT----GCQLVVL 80 (407)
T ss_pred HHHHHHHHHHhcCCCEEEECCccccCCCCcHHHHHHHHHHHHHHHhc----CCcEEEE
Confidence 457888899999999988865554344444333 2335666666532 5688876
No 100
>PRK15005 universal stress protein F; Provisional
Probab=39.57 E-value=35 Score=25.11 Aligned_cols=50 Identities=20% Similarity=0.205 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...+.|.+.++++++|.||+|-= . .|- .....-.-++++-++. .+||..+
T Consensus 94 ~p~~~I~~~a~~~~~DLIV~Gs~-~-~~~---~~~llGS~a~~vl~~a---~cpVlvV 143 (144)
T PRK15005 94 SPKDRILELAKKIPADMIIIASH-R-PDI---TTYLLGSNAAAVVRHA---ECSVLVV 143 (144)
T ss_pred CHHHHHHHHHHHcCCCEEEEeCC-C-CCc---hheeecchHHHHHHhC---CCCEEEe
Confidence 34578999999999999999942 1 221 1112233455555554 3577654
No 101
>COG1924 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]
Probab=39.49 E-value=45 Score=31.33 Aligned_cols=49 Identities=27% Similarity=0.450 Sum_probs=33.8
Q ss_pred CccccccccccccccccchhccccCCCCCCceEEEEecCCceEEEEeec
Q 030392 33 NFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 33 ~~~~~~~~~~s~~~~~~na~~~~~~~~~~~~rILgLD~G~KRIGVAiSD 81 (178)
.++.++.++.+-|++--=..|....+++..+..||||.|+..+=.++-+
T Consensus 105 ~~~~~~~~~~~~e~l~~f~~r~~~~~~~~~~~~LGID~GSTtTK~VLm~ 153 (396)
T COG1924 105 SFTERLSAFTRMEALEEFVERHSKLREYQGMYTLGIDSGSTTTKAVLME 153 (396)
T ss_pred ccchhhhhhhhHHHHHHHHHHhhhhhhhcCcEEEEEecCCcceeEEEEe
Confidence 3466777766666654333343444667789999999999999777765
No 102
>PF01182 Glucosamine_iso: Glucosamine-6-phosphate isomerases/6-phosphogluconolactonase; InterPro: IPR006148 This domain is characteristic of the enzymes 6-phosphogluconolactonase (3.1.1.31 from EC), Glucosamine-6-phosphate isomerase (3.5.99.6 from EC), and Galactosamine-6-phosphate isomerase. 6-Phosphogluconolactonase is the enzyme responsible for the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate, the second step in the pentose phosphate pathway. Glucosamine-6-phosphate isomerase (or Glucosamine 6-phosphate deaminase) is the enzyme responsible for the conversion of D-glucosamine 6-phosphate into D-fructose 6-phosphate []. It is the last specific step in the pathway for N-acetylglucosamine (GlcNAC) utilization in bacteria such as Escherichia coli (gene nagB) or in fungi such as Candida albicans (gene NAG1).; GO: 0005975 carbohydrate metabolic process; PDB: 3CSS_A 3CH7_A 1Y89_B 3TX2_A 2BKX_B 2BKV_B 3E15_B 1HOR_B 1JT9_A 1HOT_A ....
Probab=39.46 E-value=51 Score=26.96 Aligned_cols=66 Identities=12% Similarity=0.048 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHHh
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFTV 170 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~~ 170 (178)
..+.|.+.+++. ..++||++ |.-++. ...+.+++.-+..++-.++-+++.|||+=...|..+.|-.
T Consensus 9 i~~~i~~~i~~~--~~~~i~Ls----gGstp~-~~y~~L~~~~~~~i~w~~v~~~~~DEr~v~~~~~~Sn~~~ 74 (199)
T PF01182_consen 9 IAEAIEEAIAER--GRAVIALS----GGSTPK-PLYQELAKLHKERIDWSRVHFFNVDERVVPPDDPDSNYRM 74 (199)
T ss_dssp HHHHHHHHHHHC--SSEEEEE------SCTHH-HHHHHHHHHHHTCSCGGGEEEEESEEESSTTTSTTSHHHH
T ss_pred HHHHHHHHHHHC--CCEEEEEc----CCHHHH-HHHHHHhhhccccCChhHeEEEeCcccccCCCCCccHHHH
Confidence 445677777766 44888987 455553 3344444444222222356799999999445555444443
No 103
>cd06547 GH85_ENGase Endo-beta-N-acetylglucosaminidase (ENGase) hydrolyzes the N-N'-diacetylchitobiosyl core of N-glycosylproteins. The beta-1,4-glycosyl bond located between two N-acetylglucosamine residues is hydrolyzed such that N-acetylglucosamine 1 remains with the protein and N-acetylglucosamine 2 forms the reducing end of the released glycan. ENGase is a key enzyme in the processing of free oligosaccharides in the cytosol of eukaryotes. Oligosaccharides formed in the lumen of the endoplasmic reticulum are transported into the cytosol where they are catabolized by cytosolic ENGases and other enzymes, possibly to maximize the reutilization of the component sugars. ENGases have an eight-stranded alpha/beta barrel topology and are classified as a family 85 glycosyl hydrolase (GH85) domain. The GH85 ENGases are sequence-similar to the family 18 glycosyl hydrolases, also known as GH18 chitinases. An ENGase-like protein is also found in bacteria and is included in this alignment mod
Probab=39.31 E-value=1.2e+02 Score=27.52 Aligned_cols=60 Identities=13% Similarity=0.166 Sum_probs=45.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccC--CCcEEEEcCC
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAER--SFSDILITAI 157 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~--glpV~lvDER 157 (178)
.+.+++|.++++.++.|++.|=.=.. +...+.++..+.|.+.|.+.+++. +..|+++|=-
T Consensus 89 ~~~a~kLv~lak~yGfDGw~iN~E~~--~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs~ 150 (339)
T cd06547 89 FPVADKLVEVAKYYGFDGWLINIETE--LGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDSM 150 (339)
T ss_pred hHHHHHHHHHHHHhCCCceEeeeecc--CCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEecC
Confidence 46789999999999999987754332 213467888899999998887542 4679999864
No 104
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=38.67 E-value=98 Score=26.21 Aligned_cols=54 Identities=17% Similarity=0.282 Sum_probs=37.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecC---CCCCCCCHHHH-----------HHHHHHHHHHHHhccCCCcEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPK---SWDGSETPQSN-----------KVRSVAGRLAVRAAERSFSDIL 153 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl---~mdG~e~~~a~-----------~Vr~Fa~~L~~~~~~~glpV~l 153 (178)
+.+.+..+-+++.++|.|=+|.|. -+||..-+.+- ..-++.+++++.. .+|+++
T Consensus 14 ~~~~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~---~~pv~l 81 (242)
T cd04724 14 ETTLEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKN---TIPIVL 81 (242)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcC---CCCEEE
Confidence 344555556677899999999999 57887655433 5666777776653 367665
No 105
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=38.41 E-value=1.3e+02 Score=26.85 Aligned_cols=55 Identities=22% Similarity=0.190 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
+.+.++.+++.+++||.|||+==+-..+ .|..+.+..|.+.|++. ...|+||+.+
T Consensus 27 ~~f~~~l~~a~~~~vD~vliAGDlFd~~--~Ps~~a~~~~~~~l~~l-~~~~Ipv~~I 81 (390)
T COG0420 27 KAFDELLEIAKEEKVDFVLIAGDLFDTN--NPSPRALKLFLEALRRL-KDAGIPVVVI 81 (390)
T ss_pred HHHHHHHHHHHHccCCEEEEccccccCC--CCCHHHHHHHHHHHHHh-ccCCCcEEEe
Confidence 4678999999999999999976554444 44455666666666544 3457999987
No 106
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=37.86 E-value=1.3e+02 Score=24.97 Aligned_cols=23 Identities=26% Similarity=0.385 Sum_probs=19.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeec
Q 030392 96 EKLELQLLEIAQREETDEFIIGLP 119 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLP 119 (178)
..++.++.+++.+++|+ ||+|+=
T Consensus 59 ~~lL~~f~~~i~~~dPd-ii~g~N 81 (207)
T cd05785 59 KELLEELVAIIRERDPD-VIEGHN 81 (207)
T ss_pred HHHHHHHHHHHHHhCCC-EEeccC
Confidence 46789999999999998 677763
No 107
>PRK03317 histidinol-phosphate aminotransferase; Provisional
Probab=37.72 E-value=1e+02 Score=26.74 Aligned_cols=53 Identities=11% Similarity=0.206 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.+.+.+++.+++.|++--|-|+.|..-+. ++.+++++ .+ + -++.+||-|+
T Consensus 148 d~~~l~~~~~~~~~~~i~l~~p~NPtG~~~~~-~~l~~l~~----~~---~-~~lI~DE~y~ 200 (368)
T PRK03317 148 DVDAAVAAIAEHRPDVVFLTSPNNPTGTALPL-DDVEAILD----AA---P-GIVVVDEAYA 200 (368)
T ss_pred CHHHHHHHHhccCCCEEEEeCCCCCCCCCCCH-HHHHHHHH----HC---C-ceEEEeCCch
Confidence 56788888887889999999999999987653 33444333 22 2 2788999886
No 108
>TIGR00858 bioF 8-amino-7-oxononanoate synthase. This model represents 8-amino-7-oxononanoate synthase, the BioF protein of biotin biosynthesis. This model is based on a careful phylogenetic analysis to separate members of this family from 2-amino-3-ketobutyrate and other related pyridoxal phosphate-dependent enzymes. In several species, including Staphylococcus and Coxiella, a candidate 8-amino-7-oxononanoate synthase is confirmed by location in the midst of a biotin biosynthesis operon but scores below the trusted cutoff of this model.
Probab=37.61 E-value=1e+02 Score=25.97 Aligned_cols=53 Identities=13% Similarity=0.137 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHc---CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~---~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.+.+++. +...|+++-|.++.|...+. +++.++++ +. | -++.+||-++
T Consensus 131 d~~~l~~~~~~~~~~~~~~v~~~~~~~~~G~~~~~-~~i~~l~~----~~---~-~~li~De~~~ 186 (360)
T TIGR00858 131 DVEHLERLLEKNRGERRKLIVTDGVFSMDGDIAPL-PQLVALAE----RY---G-AWLMVDDAHG 186 (360)
T ss_pred CHHHHHHHHHHcccCCCeEEEEeCCccCCCCCcCH-HHHHHHHH----Hc---C-cEEEEECccc
Confidence 456777777764 46788899998888876553 33333332 22 3 3778899886
No 109
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the 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 the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=37.34 E-value=1.8e+02 Score=21.98 Aligned_cols=55 Identities=11% Similarity=0.016 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC---CHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSE---TPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e---~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..+.|.+.+ ..+++.+|+-+-.|.-+.. ....+.++++.+.++++.+ +.+|+++.
T Consensus 37 ~~~~l~~~~-~~~pd~vvl~~G~ND~~~~~~~~~~~~~l~~li~~~~~~~~--~~~vi~~~ 94 (169)
T cd01828 37 LLARLDEDV-ALQPKAIFIMIGINDLAQGTSDEDIVANYRTILEKLRKHFP--NIKIVVQS 94 (169)
T ss_pred HHHHHHHHh-ccCCCEEEEEeeccCCCCCCCHHHHHHHHHHHHHHHHHHCC--CCeEEEEe
Confidence 456777777 7789999999998754432 3445566666666666543 57888874
No 110
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=37.01 E-value=1.2e+02 Score=25.60 Aligned_cols=56 Identities=13% Similarity=0.077 Sum_probs=41.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
....++.+.+++.+++++++--|.... .+ .+.+.+|.+.+.+.. ++||+++|--..
T Consensus 79 ~~~i~~a~~a~~~Gad~v~v~pP~y~~--~~--~~~~~~~~~~ia~~~---~~pi~iYn~P~~ 134 (281)
T cd00408 79 REAIELARHAEEAGADGVLVVPPYYNK--PS--QEGIVAHFKAVADAS---DLPVILYNIPGR 134 (281)
T ss_pred HHHHHHHHHHHHcCCCEEEECCCcCCC--CC--HHHHHHHHHHHHhcC---CCCEEEEECccc
Confidence 345678888999999999999997644 22 356666667777664 579999887643
No 111
>PF08915 tRNA-Thr_ED: Archaea-specific editing domain of threonyl-tRNA synthetase; InterPro: IPR015011 Archaea-specific editing domain of threonyl-tRNA synthetase, with marked structural similarity to D-amino acids deacylases found in eubacteria and eukaryotes. This domain can bind D-amino acids, and ensures high fidelity during translation. It is especially responsible for removing incorrectly attached serine from tRNA-Thr. The domain forms a fold that can be defined as two layers of beta-sheets (a three-stranded sheet and a five-stranded sheet), with two alpha-helices located adjacent to the five-stranded sheet []. ; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0005737 cytoplasm; PDB: 3PD4_B 3PD3_A 2HL0_A 2HL1_A 2HKZ_A 3PD5_B 2HL2_A 3PD2_B 1Y2Q_A.
Probab=36.96 E-value=1.2e+02 Score=24.59 Aligned_cols=55 Identities=15% Similarity=0.204 Sum_probs=33.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecC-CCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPK-SWDGSETPQSNKVRSVAGRLAVRAAERSFSDIL 153 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl-~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~l 153 (178)
+..+.|..+.++.+++.||+ +|+ |++.+.+. -..+.+-.+.|+++++..|++|+.
T Consensus 58 ~av~eI~~~a~kv~~~~ivl-yPyAHLSs~La~-P~~A~~iL~~le~~L~~~g~eV~r 113 (138)
T PF08915_consen 58 KAVEEIKWVAKKVKAKRIVL-YPYAHLSSSLAS-PDVAVEILKKLEERLKSRGFEVYR 113 (138)
T ss_dssp HHHHHHHHHHHHTT-SEEEE-EE-GGGSSSB---HHHHHHHHHHHHHHHHHTT-EEEE
T ss_pred HHHHHHHHHHHhcCCCEEEE-eCcccccCCcCC-hHHHHHHHHHHHHHHHhCCCeEEE
Confidence 45678999999999999887 897 45544332 333444455566666555777763
No 112
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=36.68 E-value=1.5e+02 Score=21.34 Aligned_cols=47 Identities=19% Similarity=0.261 Sum_probs=32.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEE
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDIL 153 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~l 153 (178)
.+++.+.+.+++++.|.+..+ .+.....+.++++.+++..+ +.+|..
T Consensus 40 ~~~l~~~~~~~~pd~V~iS~~------~~~~~~~~~~l~~~~k~~~p--~~~iv~ 86 (121)
T PF02310_consen 40 PEELVEALRAERPDVVGISVS------MTPNLPEAKRLARAIKERNP--NIPIVV 86 (121)
T ss_dssp HHHHHHHHHHTTCSEEEEEES------SSTHHHHHHHHHHHHHTTCT--TSEEEE
T ss_pred HHHHHHHHhcCCCcEEEEEcc------CcCcHHHHHHHHHHHHhcCC--CCEEEE
Confidence 377888888899999888665 44556777888888776553 344443
No 113
>TIGR00555 panK_eukar pantothenate kinase, eukaryotic/staphyloccocal type. This model describes a eukaryotic form of pantothenate kinase, characterized from the fungus Aspergillus nidulans and with similar forms known in several other eukaryotes. It also includes forms from several Gram-positive bacteria suggested to have originated from the eukaryotic form by lateral transfer. It differs in a number of biochemical properties (such as inhibition by acetyl-CoA) from most bacterial CoaA and lacks sequence similarity. This enzyme is the key regulatory step in the biosynthesis of coenzyme A (CoA).
Probab=36.56 E-value=1e+02 Score=27.30 Aligned_cols=17 Identities=18% Similarity=0.450 Sum_probs=15.5
Q ss_pred EEEEecCCceEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK 81 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD 81 (178)
.+|||+|...+=+++.|
T Consensus 2 ~iGiDiGgT~~Kiv~~~ 18 (279)
T TIGR00555 2 RIGIDIGGTLIKVVYEE 18 (279)
T ss_pred eEEEEeCcceEEEEEEc
Confidence 58999999999999986
No 114
>PF02833 DHHA2: DHHA2 domain; InterPro: IPR004097 This domain is called DHHA2 since it is often associated with the DHH domain (IPR001667 from INTERPRO) and is diagnostic of DHH subfamily 2 members []. The domain is about 120 residues long and contains a conserved DXK motif at its amino terminus. It is present in inorganic pyrophosphatases and in exopolyphosphatase of Saccharomyces cerevisiae.; GO: 0016462 pyrophosphatase activity, 0005737 cytoplasm; PDB: 1WPP_A 1K20_A 1I74_A 2HAW_A 1WPN_A 1WPM_B 2IW4_B 1K23_D 2ENX_A 2EB0_A ....
Probab=36.47 E-value=34 Score=25.50 Aligned_cols=49 Identities=18% Similarity=0.251 Sum_probs=31.0
Q ss_pred EEecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHHcCCCEEEEee
Q 030392 67 GVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGL 118 (178)
Q Consensus 67 gLD~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGL 118 (178)
-+++|.+++|||--. ..++..+........+.+.++.++++.|.+++=.
T Consensus 26 ~f~~~~~~vgis~v~---~~~~~~~~~~~~~~~~~l~~~~~~~~ld~l~lm~ 74 (127)
T PF02833_consen 26 EFEFGGKKVGISQVE---TMDLEELLSRKDELLEELEEFCEERKLDLLFLMT 74 (127)
T ss_dssp EEEETTEEEEEEEEE---ES-HHHHHTTHHHHHHHHHHHHHHTT-SEEEEEE
T ss_pred eeecCCeEEEEEeee---ecCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEEE
Confidence 456699999988642 2223222221145778999999999999866543
No 115
>cd06454 KBL_like KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS), 8-amino-7-oxononanoate synthase (AONS), and 2-amino-3-ketobutyrate CoA ligase (KBL). SPT is responsible for the condensation of L-serine with palmitoyl-CoA to produce 3-ketodihydrospingosine, the reaction of the first step in sphingolipid biosynthesis. ALAS is involved in heme biosynthesis; it catalyzes the synthesis of 5-aminolevulinic acid from glycine and succinyl-coenzyme A. AONS catalyses the decarboxylative condensation of l-alanine and pimeloyl-CoA in the first committed step of biotin biosynthesis. KBL catalyzes the second reaction step of the metabolic degradation pathway for threonine converting 2-amino-3-ketobutyrate, to glycine and acetyl-CoA. The members of this CD are widely found in all three forms of life.
Probab=36.42 E-value=1.1e+02 Score=25.88 Aligned_cols=52 Identities=13% Similarity=0.122 Sum_probs=33.7
Q ss_pred HHHHHHHHHH----cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 99 ELQLLEIAQR----EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 99 ~~~L~~iI~e----~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
.+.+.+++++ +.+..+++..|.+..|...+. +++.+++++ . | -...+||-++
T Consensus 117 ~~~le~~i~~~~~~~~~~~v~~~~~~~~tG~~~~~-~~i~~~~~~----~---~-~~livD~a~~ 172 (349)
T cd06454 117 MEDLEKLLREARRPYGKKLIVTEGVYSMDGDIAPL-PELVDLAKK----Y---G-AILFVDEAHS 172 (349)
T ss_pred HHHHHHHHHHhhccCCCeEEEEeccccCCCCccCH-HHHHHHHHH----c---C-CEEEEEcccc
Confidence 3567777776 456778888888888987664 344444332 2 3 2566799875
No 116
>cd02172 RfaE_N N-terminal domain of RfaE. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in Escherichia coli, and separate proteins in other organisms. Domain I is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose .
Probab=36.28 E-value=67 Score=25.11 Aligned_cols=54 Identities=11% Similarity=0.031 Sum_probs=30.9
Q ss_pred HHHHcCCCEEEEeecCCCCCC--CCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHH
Q 030392 105 IAQREETDEFIIGLPKSWDGS--ETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFA 165 (178)
Q Consensus 105 iI~e~~v~~IVVGLPl~mdG~--e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a 165 (178)
.+++.+++.+|+|.-...... .....-. ++.|++...+ +.+. -+|.+||++..-
T Consensus 82 fi~~l~~~~vv~G~d~~fg~~~~~~~~~g~----~~~l~~~g~~--~~~~-~~~~~sts~li~ 137 (144)
T cd02172 82 IIDALQPNIYVKGGDYENPENDVTGKIAPE----AEAVKAYGGK--IVFT-GEIVFSSSALIN 137 (144)
T ss_pred HHHHhCCCEEEECCCcccCccccccchhhh----HHHHHHhCCE--EEEe-cCCCcchHHHHH
Confidence 455789999999976543211 0111111 3455544321 2355 899999998654
No 117
>PRK09165 replicative DNA helicase; Provisional
Probab=35.97 E-value=1.1e+02 Score=28.84 Aligned_cols=59 Identities=14% Similarity=0.221 Sum_probs=39.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCC----CCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGS----ETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~----e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.....+.++..+++++.|||-+---+... .....+.+..+.+.|+...++.++||+..=
T Consensus 328 ~i~~~ir~l~~~~~~~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel~ipVi~ls 390 (497)
T PRK09165 328 QLRARARRLKRQHGLDLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKELNIPVIALS 390 (497)
T ss_pred HHHHHHHHHHHhcCCCEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEee
Confidence 34456777778889999999887544321 122445677777777766666688888753
No 118
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=35.51 E-value=1e+02 Score=24.69 Aligned_cols=23 Identities=4% Similarity=0.190 Sum_probs=17.7
Q ss_pred HHHHHHHHHcCCCEEEEeecCCC
Q 030392 100 LQLLEIAQREETDEFIIGLPKSW 122 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~m 122 (178)
+.+.+++.+.+++.+|||.-..-
T Consensus 89 ~Fi~~il~~~~~~~ivvG~Df~F 111 (180)
T cd02064 89 EFVEDLLVKLNAKHVVVGFDFRF 111 (180)
T ss_pred HHHHHHHhhcCCeEEEEccCCCC
Confidence 45666776669999999998763
No 119
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=35.43 E-value=35 Score=25.91 Aligned_cols=22 Identities=18% Similarity=0.288 Sum_probs=19.1
Q ss_pred hhHHHHHHHHHHHcCCCEEEEe
Q 030392 96 EKLELQLLEIAQREETDEFIIG 117 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVG 117 (178)
..+.+.|.+.++++++|.+|||
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvG 69 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVG 69 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEES
T ss_pred CCCHHHHHHHHHHcCCCEEEEC
Confidence 3567899999999999999998
No 120
>TIGR01174 ftsA cell division protein FtsA. This bacterial cell division protein interacts with FtsZ, the bacterial homolog of tubulin. It is an ATP-binding protein and shows structural similarities to actin and heat shock cognate protein 70.
Probab=35.42 E-value=94 Score=27.50 Aligned_cols=55 Identities=18% Similarity=0.258 Sum_probs=35.0
Q ss_pred EEEEecCCceEEEEeec----C-Cc-----ccccEEEEccC----hhHHHHHHHHHHH------cCCCEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK----G-FC-----VRPLTVLKLRG----EKLELQLLEIAQR------EETDEFIIGLP 119 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD----~-~~-----A~Pl~tI~~~~----~~~~~~L~~iI~e------~~v~~IVVGLP 119 (178)
++|||+|+..|=+++.. + +. ..|..-+.... +.....|++.+++ .++..++++.|
T Consensus 2 ~~~lDIGs~~ik~vv~~~~~~~~~~i~~~~~~~~~gi~~G~I~d~~~~~~~i~~al~~~e~~~~~~i~~v~~~v~ 76 (371)
T TIGR01174 2 IVGLDIGTSKICAIVAEVLEDGELNIIGVGTHPSRGIKKGVINDIEAAVGSIQRAIEAAELMAGCEIRSVIVSIS 76 (371)
T ss_pred EEEEEeccceEEEEEEEEcCCCCEEEEEEEEecCCCccCcEEEcHHHHHHHHHHHHHHHHHHhCCcccEEEEEEc
Confidence 68999999999888764 2 21 12322222111 2345677777776 56778999987
No 121
>cd03770 SR_TndX_transposase Serine Recombinase (SR) family, TndX-like transposase subfamily, catalytic domain; composed of large serine recombinases similar to Clostridium TndX and TnpX transposases. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. TndX mediates the excision and circularization of the conjugative transposon Tn5397 from Clostridium difficile. TnpX is responsible for the movement of the nonconjugative chloramphenicol resistance elements of the Tn4451/3 family. Mobile genetic elements such as transposons are important vehicles for the transmission of virulence and antibiotic resistance in many microorganisms.
Probab=35.40 E-value=1.6e+02 Score=22.52 Aligned_cols=59 Identities=14% Similarity=-0.079 Sum_probs=36.2
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhh
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSC 162 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~ 162 (178)
..+.+|.+.+++-++|.|||=-.-.+.- ....+..+.+.|.+.+ |+.++.++|.+.+..
T Consensus 55 p~l~~ll~~~~~g~vd~vvv~~ldRl~R----~~~d~~~~~~~l~~~~---gv~l~~~~~~~d~~~ 113 (140)
T cd03770 55 PGFNRMIEDIEAGKIDIVIVKDMSRLGR----NYLKVGLYMEILFPKK---GVRFIAINDGVDSAD 113 (140)
T ss_pred HHHHHHHHHHHcCCCCEEEEeccchhcc----CHHHHHHHHHHHHhhc---CcEEEEecCCcCCCC
Confidence 4557777778888999999843222111 1333444555555432 789999999775443
No 122
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=35.23 E-value=1.4e+02 Score=20.72 Aligned_cols=43 Identities=14% Similarity=0.084 Sum_probs=25.9
Q ss_pred EEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhh
Q 030392 115 IIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCH 163 (178)
Q Consensus 115 VVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~ 163 (178)
|+-+|++.+ .+....+|..+.+.+...|+.+.+-|...|...+
T Consensus 2 v~Ii~~~~~------~~~~~~~a~~l~~~L~~~gi~v~~d~~~~~~~k~ 44 (94)
T PF03129_consen 2 VVIIPVGKK------DEEIIEYAQELANKLRKAGIRVELDDSDKSLGKQ 44 (94)
T ss_dssp EEEEESSCS------HHHHHHHHHHHHHHHHHTTSEEEEESSSSTHHHH
T ss_pred EEEEEeCCC------cHHHHHHHHHHHHHHHHCCCEEEEECCCCchhHH
Confidence 344566533 4455666666666665667778877765554443
No 123
>TIGR02398 gluc_glyc_Psyn glucosylglycerol-phosphate synthase. Glucosylglycerol-phosphate synthase catalyzes the key step in the biosynthesis of the osmolyte glucosylglycerol. It is known in several cyanobacteria and in Pseudomonas anguilliseptica. The enzyme is closely related to the alpha,alpha-trehalose-phosphate synthase, likewise involved in osmolyte biosynthesis, of E. coli and many other bacteria. A close homolog from Xanthomonas campestris is excluded from this model and scores between trusted and noise.
Probab=35.02 E-value=1.8e+02 Score=27.78 Aligned_cols=69 Identities=12% Similarity=0.036 Sum_probs=48.8
Q ss_pred HHHHHHHHHHHcC-----CCEEEEeecCCCCCC-CCHHHHHHHHHHHHHHHHhccCC-CcEEEEcCCCchhhhHHH
Q 030392 98 LELQLLEIAQREE-----TDEFIIGLPKSWDGS-ETPQSNKVRSVAGRLAVRAAERS-FSDILITAIFSFSCHFAI 166 (178)
Q Consensus 98 ~~~~L~~iI~e~~-----v~~IVVGLPl~mdG~-e~~~a~~Vr~Fa~~L~~~~~~~g-lpV~lvDERlSTs~~~a~ 166 (178)
.+..+.++++++- +..+.||-|-..+.. ..+..+.+++.+.++-.+|...+ .||+++...++-....|+
T Consensus 303 kl~Afe~~L~~~Pe~~gkv~Lvqi~~psr~~v~~y~~l~~~v~~~v~~IN~~fg~~~~~pv~~~~~~v~~~el~al 378 (487)
T TIGR02398 303 KLNAYERLLERRPELLGKVTLVTACVPAASGMTIYDELQGQIEQAVGRINGRFARIGWTPLQFFTRSLPYEEVSAW 378 (487)
T ss_pred HHHHHHHHHHhCccccCceEEEEEeCCCcccchHHHHHHHHHHHHHHHHhhccCCCCCccEEEEcCCCCHHHHHHH
Confidence 4567777777643 568889999875543 35567888888888888776544 488998887776665554
No 124
>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=34.87 E-value=1.8e+02 Score=21.92 Aligned_cols=24 Identities=21% Similarity=0.314 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
.+..+.+.+++.++..|+++.|..
T Consensus 89 ~l~~li~~~~~~~~~vil~~~~~~ 112 (177)
T cd01822 89 NLRQMIETAQARGAPVLLVGMQAP 112 (177)
T ss_pred HHHHHHHHHHHCCCeEEEEecCCC
Confidence 445666667777899999998654
No 125
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=34.85 E-value=19 Score=35.09 Aligned_cols=19 Identities=32% Similarity=0.595 Sum_probs=16.7
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
+.++|||+|+...-||+.+
T Consensus 41 ~~viGIDlGTt~s~va~~~ 59 (663)
T PTZ00400 41 GDIVGIDLGTTNSCVAIME 59 (663)
T ss_pred CcEEEEEECcccEEEEEEe
Confidence 5799999999999888875
No 126
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=34.82 E-value=1.9e+02 Score=21.57 Aligned_cols=55 Identities=15% Similarity=0.027 Sum_probs=39.3
Q ss_pred ccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhc
Q 030392 85 VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAA 145 (178)
Q Consensus 85 A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~ 145 (178)
+..+.++......-.+.+.+.+.+++++.|++.. ..+.....++++++.|++..+
T Consensus 25 ~~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~------~~~~~~~~~~~~~~~L~~~~~ 79 (122)
T cd02071 25 DAGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSS------LSGGHMTLFPEVIELLRELGA 79 (122)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcc------cchhhHHHHHHHHHHHHhcCC
Confidence 4677777643333446788888999999988843 345567778999999998743
No 127
>smart00842 FtsA Cell division protein FtsA. FtsA is essential for bacterial cell division, and co-localizes to the septal ring with FtsZ. It has been suggested that the interaction of FtsA-FtsZ has arisen through coevolution in different bacterial strains PUBMED:9352931.
Probab=34.79 E-value=87 Score=25.02 Aligned_cols=55 Identities=20% Similarity=0.370 Sum_probs=32.5
Q ss_pred EEEEecCCceEEEEeec----C-Ccc-----cccEEEEcc---C-hhHHHHHHHHHHHc------CCCEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK----G-FCV-----RPLTVLKLR---G-EKLELQLLEIAQRE------ETDEFIIGLP 119 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD----~-~~A-----~Pl~tI~~~---~-~~~~~~L~~iI~e~------~v~~IVVGLP 119 (178)
+.|||+|+..|=+.+.. + +.. .|-.-+... + +.....+++.+++- +++.+++|.|
T Consensus 1 ~~~lDIGs~~ik~vv~~~~~~~~~~i~g~~~~~s~gi~~G~I~d~~~~~~~I~~ai~~ae~~~~~~i~~V~v~i~ 75 (187)
T smart00842 1 IVGLDIGTSKIKALVAEVDEDGEINVIGVGEVPSRGIRKGVIVDIEAAARAIREAVEEAERMAGVKIDSVYVGIS 75 (187)
T ss_pred CEEEEeccceEEEEEEEEcCCCCEEEEEEEEecCCCccCcEEECHHHHHHHHHHHHHHHHHHhCCcccEEEEEEc
Confidence 47999999999887774 2 111 221112111 1 23445666666644 5678999988
No 128
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=34.69 E-value=1.6e+02 Score=24.86 Aligned_cols=69 Identities=17% Similarity=0.183 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhh--HHHHHH-hhccc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCH--FAIFFT-VLNST 174 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~--~a~~~~-~~~~~ 174 (178)
...++.+.+.+.+.|.|.||=- .+-..+.+.+..+.+++.+ .+||++.-=..+..+. -|+||+ ||||.
T Consensus 12 ~~~~ia~~v~~~gtDaI~VGGS------~gvt~~~~~~~v~~ik~~~---~lPvilfp~~~~~i~~~aD~~~~~sllns~ 82 (205)
T TIGR01769 12 EIEKIAKNAKDAGTDAIMVGGS------LGIVESNLDQTVKKIKKIT---NLPVILFPGNVNGLSRYADAVFFMSLLNSA 82 (205)
T ss_pred HHHHHHHHHHhcCCCEEEEcCc------CCCCHHHHHHHHHHHHhhc---CCCEEEECCCccccCcCCCEEEEEEeecCC
Confidence 3455667788899999999843 2223566777778888765 4799986433332222 245554 56665
Q ss_pred c
Q 030392 175 S 175 (178)
Q Consensus 175 ~ 175 (178)
.
T Consensus 83 ~ 83 (205)
T TIGR01769 83 D 83 (205)
T ss_pred C
Confidence 3
No 129
>PLN03184 chloroplast Hsp70; Provisional
Probab=34.61 E-value=42 Score=32.88 Aligned_cols=20 Identities=25% Similarity=0.459 Sum_probs=17.3
Q ss_pred CceEEEEecCCceEEEEeec
Q 030392 62 GGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD 81 (178)
.+.++|||+|+...-+|+.+
T Consensus 38 ~~~viGIDlGTt~s~va~~~ 57 (673)
T PLN03184 38 AEKVVGIDLGTTNSAVAAME 57 (673)
T ss_pred CCCEEEEEeCcCcEEEEEEE
Confidence 45699999999999999875
No 130
>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=33.87 E-value=1.8e+02 Score=22.02 Aligned_cols=55 Identities=13% Similarity=0.230 Sum_probs=29.4
Q ss_pred HHHHHHHHHHc--CCCEEEEeecCCCCCC--CCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 99 ELQLLEIAQRE--ETDEFIIGLPKSWDGS--ETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 99 ~~~L~~iI~e~--~v~~IVVGLPl~mdG~--e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
+..+.+.+++. ++..++++.|--.... ......++.+|.+.+++...+.+ +.++|
T Consensus 77 ~~~l~~~~~~~~p~~~vi~~~~~p~~~~~~~~~~~~~~~~~~n~~l~~~a~~~~--~~~id 135 (174)
T cd01841 77 YRDIIEQIREEFPNTKIYLLSVLPVLEEDEIKTRSNTRIQRLNDAIKELAPELG--VTFID 135 (174)
T ss_pred HHHHHHHHHHHCCCCEEEEEeeCCcCcccccccCCHHHHHHHHHHHHHHHHHCC--CEEEE
Confidence 34444444444 4557888876432211 12334567777777776654433 55555
No 131
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=33.87 E-value=75 Score=21.81 Aligned_cols=23 Identities=22% Similarity=0.276 Sum_probs=20.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCC
Q 030392 99 ELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
.+.|.+.+++.++|.+|+|...+
T Consensus 82 ~~~i~~~~~~~~~dlvvig~~~~ 104 (130)
T cd00293 82 AEAILEAAEELGADLIVMGSRGR 104 (130)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCC
Confidence 68999999999999999997643
No 132
>PRK06234 methionine gamma-lyase; Provisional
Probab=33.82 E-value=70 Score=28.86 Aligned_cols=56 Identities=9% Similarity=0.062 Sum_probs=36.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
+.+.+.+.+.+ +...|++-.|-|+.|...+ -+.+.+++ ++. + .| -+..+||.|++-
T Consensus 138 d~e~l~~~i~~-~tklI~iesP~NPtG~v~d-l~~I~~la---~~~-~-~~-i~livDea~~~~ 193 (400)
T PRK06234 138 NLEEVRNALKA-NTKVVYLETPANPTLKVTD-IKAISNIA---HEN-N-KE-CLVFVDNTFCTP 193 (400)
T ss_pred CHHHHHHHhcc-CCeEEEEECCCCCCCCcCC-HHHHHHHH---Hhc-C-CC-CEEEEECCCCch
Confidence 35667776654 6789999999999998776 22333333 221 1 13 367899999765
No 133
>cd04506 SGNH_hydrolase_YpmR_like Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid. This subfamily contains sequences similar to Bacillus YpmR.
Probab=33.33 E-value=2e+02 Score=22.47 Aligned_cols=56 Identities=13% Similarity=0.091 Sum_probs=31.2
Q ss_pred HHHHHHHHHHcCC--CEEEEee--cCCCCC-CCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 99 ELQLLEIAQREET--DEFIIGL--PKSWDG-SETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 99 ~~~L~~iI~e~~v--~~IVVGL--Pl~mdG-~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
+..+.+.+++..+ ..+|+|+ |..... ......+.+++|.+.+++..++.+ .+.++|
T Consensus 108 l~~~i~~ir~~~p~~~Ivv~~~~~p~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~-~v~~vd 168 (204)
T cd04506 108 LKKIFKEIRKLNPDAPIFLVGLYNPFYVYFPNITEINDIVNDWNEASQKLASQYK-NAYFVP 168 (204)
T ss_pred HHHHHHHHHHHCCCCeEEEEecCCccccccchHHHHHHHHHHHHHHHHHHHHhCC-CeEEEe
Confidence 4455555666544 4567886 432221 222356778888887777664322 266665
No 134
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=33.22 E-value=2.1e+02 Score=24.76 Aligned_cols=58 Identities=14% Similarity=0.067 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
....++.+..++.++|++++.-|.-...+ .+.+.+|.+.+.+... ++||+++|--..|
T Consensus 83 ~~~i~la~~a~~~Gad~v~v~~P~y~~~~----~~~i~~yf~~v~~~~~--~lpv~lYn~P~~t 140 (290)
T TIGR00683 83 KEAVELGKYATELGYDCLSAVTPFYYKFS----FPEIKHYYDTIIAETG--GLNMIVYSIPFLT 140 (290)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCCcCCCCC----HHHHHHHHHHHHhhCC--CCCEEEEeCcccc
Confidence 45567888899999999999999754433 3567777777765542 4799999976433
No 135
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=32.92 E-value=41 Score=32.71 Aligned_cols=21 Identities=29% Similarity=0.513 Sum_probs=17.7
Q ss_pred CCceEEEEecCCceEEEEeec
Q 030392 61 RGGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 61 ~~~rILgLD~G~KRIGVAiSD 81 (178)
..+.++|||+|+...=||+.+
T Consensus 2 ~~~~~iGIDlGTt~s~va~~~ 22 (653)
T PTZ00009 2 TKGPAIGIDLGTTYSCVGVWK 22 (653)
T ss_pred CcccEEEEEeCcccEEEEEEe
Confidence 356799999999998888875
No 136
>TIGR01312 XylB D-xylulose kinase. D-xylulose kinase (XylB) generally is found with xylose isomerase (XylA) and acts in xylose utilization.
Probab=32.70 E-value=68 Score=29.05 Aligned_cols=16 Identities=44% Similarity=0.603 Sum_probs=15.2
Q ss_pred EEEecCCceEEEEeec
Q 030392 66 LGVDLGLSRTGLALSK 81 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD 81 (178)
||||+|+..+=+++.|
T Consensus 1 lgIDiGtt~ik~~l~d 16 (481)
T TIGR01312 1 LGIDLGTSGVKALLVD 16 (481)
T ss_pred CceeecCcceEEEEEC
Confidence 5899999999999999
No 137
>PF03309 Pan_kinase: Type III pantothenate kinase; InterPro: IPR004619 Pantothenate kinase (PanK or CoaA) catalyses the first step of the universal five step coenzyme A (CoA) biosynthesis pathway. CoA is a ubiquitous and essential cofactor in all living organsims. Pantothenate kinase catalyses the first and rate limiting step in the CoA biosynthetic pathway, which involves transferring a phosphoryl group from ATP to pantothenate, also known as vitamin B5. Three distinct types of pantothenate kinase enzymes have been identified: type I PanK enzymes are typified by the E. coli CoaA protein, type II enzymes are primarily found in eukaryotic organisms whilst type III enzymes have a wider phylogenic distribution and are not feedback inhibited by CoA []. This entry represents the type III pantothenate kinase family, such as that found in Helicobacter pylori. PanK III enzymes have a much wider phylogenic distribution than PanK I, and differs significantly in biochemical activity. PanK III enzymes are are not feedback inhibited by CoA concentration (which is also the case for PanK II enzymes), and PanK III enzymes have an unusually high Km for ATP []. ; GO: 0045893 positive regulation of transcription, DNA-dependent; PDB: 2GTD_E 3BF1_F 3BEX_D 3BF3_F 2NRH_B 2H3G_X 3DJC_J 2F9T_A 2F9W_A.
Probab=32.70 E-value=85 Score=25.71 Aligned_cols=53 Identities=25% Similarity=0.290 Sum_probs=33.9
Q ss_pred EEEEecCCceEEEEeecCC-cccccEEE---Ec--cC-hhHHHHHHHHHHHcCCCEEEEe
Q 030392 65 SLGVDLGLSRTGLALSKGF-CVRPLTVL---KL--RG-EKLELQLLEIAQREETDEFIIG 117 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~-~A~Pl~tI---~~--~~-~~~~~~L~~iI~e~~v~~IVVG 117 (178)
+|.||.|..||=+|+.|+- ...+...+ .. .. +.....+.+++++.+.+.+++.
T Consensus 1 ~L~iDiGNT~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~is 60 (206)
T PF03309_consen 1 ILLIDIGNTRIKWALFDGDKLIDPSGRISHSTALDSSSDELLELLESLLPQPKIDAVIIS 60 (206)
T ss_dssp EEEEEE-SSEEEEEEEETTEEEE-EEEE-EEECTTSSHHHHHHHHHHHHHCTTCGEEEEE
T ss_pred CEEEEECCCeEEEEEEECCEEEeeeeEEEecccccccHHHHHHHHHHHhccccCCcEEEE
Confidence 6899999999999999853 22222222 11 11 2345678888888888766664
No 138
>PRK06703 flavodoxin; Provisional
Probab=32.60 E-value=1.2e+02 Score=23.16 Aligned_cols=45 Identities=9% Similarity=-0.085 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCC--HHHHHHHHHHHHHHHHh
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSET--PQSNKVRSVAGRLAVRA 144 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~--~~a~~Vr~Fa~~L~~~~ 144 (178)
....+.+.+++.+. -++|-|+..++..+ +..+++++|+++|.+.+
T Consensus 101 a~~~l~~~l~~~G~--~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~ 147 (151)
T PRK06703 101 AVTIFEERLVERGA--ELVQEGLKIELAPETDEDVEKCSNFAIAFAEKF 147 (151)
T ss_pred HHHHHHHHHHHCCC--EEcccCeEEecCCCchhHHHHHHHHHHHHHHHH
Confidence 34567777766554 56677887777663 67888889988888665
No 139
>PRK01033 imidazole glycerol phosphate synthase subunit HisF; Provisional
Probab=32.55 E-value=58 Score=27.80 Aligned_cols=41 Identities=15% Similarity=0.106 Sum_probs=30.3
Q ss_pred cccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCC
Q 030392 86 RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSE 126 (178)
Q Consensus 86 ~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e 126 (178)
.+++++...+-...+.+.++.++.+++++++|-+++..|..
T Consensus 195 ~~ipvIasGGv~s~eD~~~l~~~~GvdgVivg~a~~~~~~~ 235 (258)
T PRK01033 195 LKIPLIALGGAGSLDDIVEAILNLGADAAAAGSLFVFKGVY 235 (258)
T ss_pred CCCCEEEeCCCCCHHHHHHHHHHCCCCEEEEcceeeeCccc
Confidence 45666665444455777787778899999999999987543
No 140
>TIGR00241 CoA_E_activ CoA-substrate-specific enzyme activase, putative. This domain may be involved in generating or regenerating the active sites of enzymes related to (R)-2-hydroxyglutaryl-CoA dehydratase and benzoyl-CoA reductase.
Probab=32.50 E-value=94 Score=26.05 Aligned_cols=17 Identities=41% Similarity=0.636 Sum_probs=15.5
Q ss_pred EEEEecCCceEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK 81 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD 81 (178)
++|||.|+..+=.++-|
T Consensus 2 ~lGIDiGtts~K~vl~d 18 (248)
T TIGR00241 2 SLGIDSGSTTTKMVLME 18 (248)
T ss_pred EEEEEcChhheEEEEEc
Confidence 68999999999988887
No 141
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=32.50 E-value=2.2e+02 Score=24.51 Aligned_cols=54 Identities=13% Similarity=-0.035 Sum_probs=40.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...-++.+.+++.++|++++--|.....+ .+.+.+|-+.+.+.. ++||+++|--
T Consensus 86 ~~ai~~a~~a~~~Gad~v~v~~P~y~~~~----~~~l~~~f~~va~a~---~lPv~iYn~P 139 (293)
T PRK04147 86 AEAQELAKYATELGYDAISAVTPFYYPFS----FEEICDYYREIIDSA---DNPMIVYNIP 139 (293)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCcCCCCC----HHHHHHHHHHHHHhC---CCCEEEEeCc
Confidence 34557788889999999999999864432 356677777777664 5799999864
No 142
>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=32.27 E-value=2.6e+02 Score=22.33 Aligned_cols=54 Identities=19% Similarity=0.233 Sum_probs=30.7
Q ss_pred HHHHHHHHHc--CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 100 LQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 100 ~~L~~iI~e~--~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..+.+.+++. ++..+++|.|-.... ..+..+.+.++-+.+++.++. ...|.++|
T Consensus 116 ~~ii~~l~~~~P~~~Iil~~~~p~~~~-~~~~~~~~~~~n~~l~~~~~~-~~~v~~vd 171 (214)
T cd01820 116 LAIVEEIREKLPNAKILLLGLLPRGQN-PNPLRERNAQVNRLLAVRYDG-LPNVTFLD 171 (214)
T ss_pred HHHHHHHHHHCCCCeEEEEeccCCCCC-chhHHHHHHHHHHHHHHHhcC-CCCEEEEe
Confidence 4444445555 345677776533221 344556777777777766543 23677777
No 143
>TIGR02539 SepCysS Sep-tRNA:Cys-tRNA synthase. Aminoacylation of tRNA(Cys) with Cys, and cysteine biosynthesis in the process, happens in Methanocaldococcus jannaschii and several other archaea by misacylation of tRNA(Cys) with O-phosphoserine (Sep), followed by modification of the phosphoserine to cysteine. In some species, direct tRNA-cys aminoacylation also occurs but this pathway is required for Cys biosynthesis. Members of this protein catalyze the second step in this two step pathway, using pyridoxal phosphate and a sulfur donor to synthesize Cys from Sep while attached to the tRNA.
Probab=32.16 E-value=1.4e+02 Score=26.20 Aligned_cols=54 Identities=7% Similarity=0.041 Sum_probs=36.2
Q ss_pred HHHHHHHHHHH------cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQR------EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e------~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+.+.|.+.+++ ++++.|++=.|-++.|...+..+ +.+ +.+.+ | -+.++||.++.
T Consensus 128 d~~~l~~~l~~~~~~~~~~~~lv~~~~p~~~~G~~~~l~~-i~~----la~~~---~-~~livDea~~~ 187 (370)
T TIGR02539 128 DPEGYGEVIEEVEDESGKPPVLALLTHVDGEYGNLPDAGK-VAK----VCREK---G-VPLLLNCAYTV 187 (370)
T ss_pred CHHHHHHHHHHhhhccCCCcEEEEEECCCCCCccccCHHH-HHH----HHHHc---C-CeEEEECcccc
Confidence 56777777764 36778888889888888766443 222 33333 3 36789999875
No 144
>PRK09064 5-aminolevulinate synthase; Validated
Probab=32.13 E-value=1.4e+02 Score=26.23 Aligned_cols=53 Identities=13% Similarity=0.129 Sum_probs=33.8
Q ss_pred HHHHHHHHHHH---cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQR---EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e---~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.++++. .++..|++--|.+++|..-+ -+.+.+++ +++ | -+..+||-++
T Consensus 163 d~~~le~~l~~~~~~~~~~v~~~~v~s~~G~~~~-l~~i~~l~----~~~---~-~~livDEa~~ 218 (407)
T PRK09064 163 DVAHLEELLAAADPDRPKLIAFESVYSMDGDIAP-IAEICDLA----DKY---N-ALTYLDEVHA 218 (407)
T ss_pred CHHHHHHHHHhccCCCCeEEEEeCCCCCCccccC-HHHHHHHH----HHc---C-CEEEEECCCc
Confidence 34556666653 35667888888999998766 23333332 232 2 3788999987
No 145
>cd00598 GH18_chitinase-like The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have been identified in viruses, bacteria, fungi, protozoan parasites, insects, and plants. The structure of the GH18 domain is an eight-stranded beta/alpha barrel with a pronounced active-site cleft at the C-terminal end of the beta-barrel. The GH18 family includes chitotriosidase, chitobiase, hevamine, zymocin-alpha, narbonin, SI-CLP (stabilin-1 interacting chitinase-like protein), IDGF (imaginal disc growth factor), CFLE (cortical fragment-lytic enzyme) spore hydrolase, the type III and type V plant chitinases, the endo-beta-N-acetylglucosaminidases, and the chitolectins. The GH85 (glycosyl hydrolase, family 85) ENGases (endo-beta-N-acetylglucosaminidases) are closely related to the GH18 chitinases and are inclu
Probab=31.92 E-value=2.5e+02 Score=22.01 Aligned_cols=50 Identities=8% Similarity=0.034 Sum_probs=35.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhcc
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE 146 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~ 146 (178)
.+..+.+.+++++++.|+|.|=+-.... ..++..+...+|.++|+++++.
T Consensus 90 ~~f~~~~~~~v~~~~~DGidiD~E~~~~-~~~~~~~~~~~ll~~lr~~l~~ 139 (210)
T cd00598 90 AAFANSLVSFLKTYGFDGVDIDWEYPGA-ADNSDRENFITLLRELRSALGA 139 (210)
T ss_pred HHHHHHHHHHHHHcCCCceEEeeeCCCC-cCccHHHHHHHHHHHHHHHhcc
Confidence 3577899999999999999997654211 1112356777888888888754
No 146
>PF03644 Glyco_hydro_85: Glycosyl hydrolase family 85 ; InterPro: IPR005201 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This group of endo-beta-N-acetylglucosaminidases belong to the glycoside hydrolase family 85 (GH85 from CAZY). These enzymes work on a broad spectrum of substrates.; GO: 0033925 mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase activity, 0005737 cytoplasm; PDB: 2W92_A 2W91_A 2VTF_B 3FHQ_B 3FHA_D 3GDB_A.
Probab=31.89 E-value=1.5e+02 Score=26.44 Aligned_cols=58 Identities=19% Similarity=0.208 Sum_probs=41.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhcc-CCCcEEEEcC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE-RSFSDILITA 156 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~-~glpV~lvDE 156 (178)
..+++|.+|++-++.|+..|=.=-...+ ...++..+.|.+.|.+..++ .+..|.++|=
T Consensus 86 ~~A~kLi~ia~~yGFDGw~iN~E~~~~~--~~~~~~l~~F~~~l~~~~~~~~~~~v~WYDs 144 (311)
T PF03644_consen 86 PYADKLIEIAKYYGFDGWLINIETPLSG--PEDAENLIDFLKYLRKEAHENPGSEVIWYDS 144 (311)
T ss_dssp HHHHHHHHHHHHHT--EEEEEEEESSTT--GGGHHHHHHHHHHHHHHHHHT-T-EEEEES-
T ss_pred HHHHHHHHHHHHcCCCceEEEecccCCc--hhHHHHHHHHHHHHHHHhhcCCCcEEEEeec
Confidence 5678999999999999988865444333 25788999999999988754 2346888886
No 147
>PTZ00107 hexokinase; Provisional
Probab=31.77 E-value=1e+02 Score=29.15 Aligned_cols=107 Identities=10% Similarity=0.097 Sum_probs=57.7
Q ss_pred CCceEEEEecCCceEEEEeec--CC----c-----ccccEEEEc---------cChhHH----HHHHHHHHHcC------
Q 030392 61 RGGFSLGVDLGLSRTGLALSK--GF----C-----VRPLTVLKL---------RGEKLE----LQLLEIAQREE------ 110 (178)
Q Consensus 61 ~~~rILgLD~G~KRIGVAiSD--~~----~-----A~Pl~tI~~---------~~~~~~----~~L~~iI~e~~------ 110 (178)
..|.+||||+|....=|+.-+ +. . +-|-..... ..++++ +.|.+.++++.
T Consensus 72 E~G~fLAlDlGGTN~RV~~V~L~g~~~~~~~~~~~~ip~~~~~~~~~~~~k~~t~~~lFd~IA~~i~~fl~~~~~~~~~~ 151 (464)
T PTZ00107 72 EKGVYYAIDFGGTNFRAVRVSLRGGGKMERTQSKFSLPKSALLGEKGLLDKKATATDLFDHIAKSIKKMMEENGDPEDLN 151 (464)
T ss_pred ccceEEEEecCCceEEEEEEEeCCCCceeeEEEEEeCCHHHhccccccccccCCHHHHHHHHHHHHHHHHHhcccccccc
Confidence 468999999999988887766 21 1 112111111 113443 46777777665
Q ss_pred ---CCEEEEeecCCC----CCCCCHHHHHH------------HHHHHHHHHHhccCCCcEE---EEcCCCchhhhHHHHH
Q 030392 111 ---TDEFIIGLPKSW----DGSETPQSNKV------------RSVAGRLAVRAAERSFSDI---LITAIFSFSCHFAIFF 168 (178)
Q Consensus 111 ---v~~IVVGLPl~m----dG~e~~~a~~V------------r~Fa~~L~~~~~~~glpV~---lvDERlSTs~~~a~~~ 168 (178)
+-++-.-+|.+. +|..-.+++-. +..++.|++.+.+++++|. +++- |+-..+|--|
T Consensus 152 ~~l~lGfTFSFP~~Q~si~~g~Li~WtKGF~~~~~~~~~v~G~DV~~lL~~Al~r~~l~v~v~AivND--TVgTL~a~ay 229 (464)
T PTZ00107 152 KPVPVGFTFSFPCTQLSVNNAILIDWTKGFETGRATNDPVEGKDVGELLNDAFKRNNVPANVVAVLND--TVGTLISCAY 229 (464)
T ss_pred ccccceeEEeeeeecccCCceEEEEeccceeeccCCCCCccCchHHHHHHHHHHHcCCCceEEEEEEc--CHHHHHHHHh
Confidence 234555567654 33322333222 3366777777776677643 4443 3344444444
Q ss_pred H
Q 030392 169 T 169 (178)
Q Consensus 169 ~ 169 (178)
.
T Consensus 230 ~ 230 (464)
T PTZ00107 230 Q 230 (464)
T ss_pred c
Confidence 3
No 148
>TIGR02237 recomb_radB DNA repair and recombination protein RadB. This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).
Probab=31.66 E-value=2.1e+02 Score=22.67 Aligned_cols=60 Identities=5% Similarity=0.144 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCC------CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKS------WDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~------mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.++.+.+++.+++++.|||= ++. ..+......+...++...|.+..++.++.+++..+-.
T Consensus 85 ~~~~l~~~~~~~~~~lvVID-Sis~l~~~~~~~~~~~~~~~l~~~~~~L~~~~~~~~v~vl~t~~~~ 150 (209)
T TIGR02237 85 AIQKTSKFIDRDSASLVVVD-SFTALYRLELSDDRISRNRELARQLTLLLSLARKKNLAVVITNQVY 150 (209)
T ss_pred HHHHHHHHHhhcCccEEEEe-CcHHHhHHHhCCccHHHHHHHHHHHHHHHHHHHHcCCEEEEEcccE
Confidence 46777888888889988872 322 1222222344555566666655555688999998854
No 149
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=31.62 E-value=95 Score=27.21 Aligned_cols=53 Identities=25% Similarity=0.347 Sum_probs=34.6
Q ss_pred ccccEEEEccC------hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEE
Q 030392 85 VRPLTVLKLRG------EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDI 152 (178)
Q Consensus 85 A~Pl~tI~~~~------~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~ 152 (178)
+.+++++.-.+ ..++....+-++|.+.+.||+|=- . ++. .+.+|++.+ |+||+
T Consensus 143 stdl~vL~l~~~~~~~~~~l~~~~~~a~~edgAeaIiLGCA-----G---ms~----la~~Lq~~~---gvPVI 201 (230)
T COG4126 143 STDLPVLALEGPPEEAEALLVIEAAEALKEDGAEAIILGCA-----G---MSD----LADQLQKAF---GVPVI 201 (230)
T ss_pred eCCCCcccccCChHHHHHHHHHHHHHHhhhcCCCEEEEcCc-----c---HHH----HHHHHHHHh---CCCcc
Confidence 45566554322 235678889999999999999842 1 222 267788776 66764
No 150
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=31.61 E-value=2.3e+02 Score=24.58 Aligned_cols=55 Identities=15% Similarity=0.112 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
..-++.+..++.++|++++.-|....-+ .+.+.+|-+.+.+..+ ++||+++|---
T Consensus 83 ~ai~~a~~A~~~Gad~v~v~pP~y~~~~----~~~l~~~f~~ia~a~~--~lpv~iYn~P~ 137 (294)
T TIGR02313 83 ETLELTKFAEEAGADAAMVIVPYYNKPN----QEALYDHFAEVADAVP--DFPIIIYNIPG 137 (294)
T ss_pred HHHHHHHHHHHcCCCEEEEcCccCCCCC----HHHHHHHHHHHHHhcc--CCCEEEEeCch
Confidence 4456777789999999999999864432 3666666677777653 47999998754
No 151
>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .
Probab=31.47 E-value=1.2e+02 Score=24.55 Aligned_cols=61 Identities=15% Similarity=0.149 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHc-CCCEEEEeecC---C--CCCC--CCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQRE-ETDEFIIGLPK---S--WDGS--ETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~-~v~~IVVGLPl---~--mdG~--e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.+..+.+.+.++ +++.|||=-=- . .++. .....+.+.+++..|+....+.++.|++.++--
T Consensus 102 ~l~~l~~~l~~~~~~~liVIDSis~~~~~~~~~~~~~~~r~~~l~~~~~~L~~la~~~~~avl~tn~~~ 170 (235)
T cd01123 102 LLEELEAILIESSRIKLVIVDSVTALFRAEFDGRGELAERQQHLAKLLRTLKRLADEFNVAVVITNQVT 170 (235)
T ss_pred HHHHHHHHHhhcCCeeEEEEeCcHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHhCCEEEEeccEe
Confidence 446777788888 88888874321 1 2232 245667788888888766655688999998654
No 152
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=31.28 E-value=1.4e+02 Score=27.02 Aligned_cols=57 Identities=12% Similarity=0.074 Sum_probs=38.8
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
..-.+.|.++++++++|+||.=...--+-...+.. .++++ |++ .|+|+..+|=.+|.
T Consensus 299 ~~R~~~i~~lv~~~~~DGVI~~~~kfC~~~~~e~~-~lk~~---l~e----~GIP~L~iE~D~~~ 355 (377)
T TIGR03190 299 HTRYDHVLGLAKEYNVQGAIFLQQKFCDPHEGDYP-DLKRH---LEA----NGIPTLFLEFDITN 355 (377)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecccCCCcchhhhH-HHHHH---HHH----CCCCEEEEecCCCC
Confidence 34568899999999999999877766554444322 23332 332 38999888877763
No 153
>PRK13392 5-aminolevulinate synthase; Provisional
Probab=31.20 E-value=1.3e+02 Score=26.73 Aligned_cols=51 Identities=16% Similarity=0.174 Sum_probs=33.1
Q ss_pred HHHHHHHHH---cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 100 LQLLEIAQR---EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 100 ~~L~~iI~e---~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
..+.+.+++ .+...|++--|.++.|..-+ -+.+.++++ ++ + -+.++||-++
T Consensus 165 ~~l~~~l~~~~~~~t~~v~i~~~~n~tG~~~~-l~~i~~l~~----~~---~-~~livDea~~ 218 (410)
T PRK13392 165 ADLEEQLASVDPDRPKLIAFESVYSMDGDIAP-IEAICDLAD----RY---N-ALTYVDEVHA 218 (410)
T ss_pred HHHHHHHHhccCCCCEEEEEeCCCCCCccccc-HHHHHHHHH----Hc---C-CEEEEECCcc
Confidence 345555543 35678899999999998776 333333332 22 3 3778999988
No 154
>PHA02546 47 endonuclease subunit; Provisional
Probab=31.16 E-value=1.7e+02 Score=26.02 Aligned_cols=59 Identities=8% Similarity=-0.054 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHH-HHHHhccCCCcEEEE----cCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR-LAVRAAERSFSDILI----TAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~-L~~~~~~~glpV~lv----DER 157 (178)
..++++.+++++++||.||++==+-.... +.......|+.. +.+++++.|+||+++ |..
T Consensus 26 ~~l~~ii~~a~~~~vD~VliaGDlfD~~~--~~~~~~~~~~~~~l~~~L~~~gi~v~~I~GNHD~~ 89 (340)
T PHA02546 26 KFIKQAIEYSKAHGITTWIQLGDTFDVRK--AITQNTMNFVREKIFDLLKEAGITLHVLVGNHDMY 89 (340)
T ss_pred HHHHHHHHHHHHcCCCEEEECCcccCCCC--CCCHHHHHHHHHHHHHHHHHCCCeEEEEccCCCcc
Confidence 45678888899999999887544321211 112223344443 334443347899998 853
No 155
>PF14450 FtsA: Cell division protein FtsA; PDB: 1E4F_T 4A2B_A 4A2A_A 1E4G_T.
Probab=31.14 E-value=45 Score=25.01 Aligned_cols=18 Identities=28% Similarity=0.510 Sum_probs=15.3
Q ss_pred EEEEecCCceEEEEeecC
Q 030392 65 SLGVDLGLSRTGLALSKG 82 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~ 82 (178)
+.+||+|+.+|.+++...
T Consensus 1 i~~iDiGs~~~~~~i~~~ 18 (120)
T PF14450_consen 1 IVVIDIGSSKTKVAIAED 18 (120)
T ss_dssp EEEEEE-SSSEEEEEEET
T ss_pred CEEEEcCCCcEEEEEEEe
Confidence 579999999999999984
No 156
>cd00954 NAL N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL), which catalyses the reversible aldol reaction of N-acetyl-D-mannosamine and pyruvate to give N-acetyl-D-neuraminic acid (D-sialic acid). It has a widespread application as biocatalyst for the synthesis of sialic acid and its derivatives. This enzyme has been shown to be quite specific for pyruvate as the donor, but flexible to a variety of D- and, to some extent, L-hexoses and pentoses as acceptor substrates. NAL is member of dihydrodipicolinate synthase family that comprises several pyruvate-dependent class I aldolases.
Probab=31.08 E-value=2.1e+02 Score=24.62 Aligned_cols=57 Identities=16% Similarity=0.067 Sum_probs=42.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+...++.+.+++.+++++++--|.... .+ .+.+.+|-+.+.+..+ ++||+++|--..
T Consensus 83 ~~ai~~a~~a~~~Gad~v~~~~P~y~~--~~--~~~i~~~~~~v~~a~~--~lpi~iYn~P~~ 139 (288)
T cd00954 83 KESQELAKHAEELGYDAISAITPFYYK--FS--FEEIKDYYREIIAAAA--SLPMIIYHIPAL 139 (288)
T ss_pred HHHHHHHHHHHHcCCCEEEEeCCCCCC--CC--HHHHHHHHHHHHHhcC--CCCEEEEeCccc
Confidence 455678888999999999999998643 22 3567777777777653 479999998653
No 157
>PRK10116 universal stress protein UspC; Provisional
Probab=31.05 E-value=81 Score=23.14 Aligned_cols=49 Identities=20% Similarity=0.255 Sum_probs=32.9
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...+.|.+.++++++|.||+|-.-. ++ ..... .-++++.... ++||..+
T Consensus 89 ~~~~~I~~~a~~~~~DLiV~g~~~~-~~----~~~~~-s~a~~v~~~~---~~pVLvv 137 (142)
T PRK10116 89 ELSEHILEVCRKHHFDLVICGNHNH-SF----FSRAS-CSAKRVIASS---EVDVLLV 137 (142)
T ss_pred CHHHHHHHHHHHhCCCEEEEcCCcc-hH----HHHHH-HHHHHHHhcC---CCCEEEE
Confidence 3457888999999999999998743 22 12211 3466666554 5788765
No 158
>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=31.01 E-value=2.2e+02 Score=21.44 Aligned_cols=25 Identities=16% Similarity=0.141 Sum_probs=13.3
Q ss_pred HHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 129 QSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 129 ~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..+.++++.+.+++...+. .+.++|
T Consensus 128 ~~~~~~~~n~~l~~~a~~~--~~~~iD 152 (191)
T cd01834 128 YNANLAAYADAVRELAAEN--GVAFVD 152 (191)
T ss_pred HHHHHHHHHHHHHHHHHHc--CCeEEe
Confidence 3455666666665544332 466665
No 159
>PF00982 Glyco_transf_20: Glycosyltransferase family 20; InterPro: IPR001830 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 20 GT20 from CAZY comprises enzymes with only one known activity; alpha, alpha-trehalose-phosphate synthase [UDP-forming] (2.4.1.15 from EC). Synthesis of trehalose in the yeast Saccharomyces cerevisiae is catalysed by the trehalose-6-phosphate (Tre6P) synthase/phosphatase complex, which is composed of at least three different subunits encoded by the genes TPS1, TPS2, and TSL1. Tps1 and Tps2 carry the catalytic activities of trehalose synthesis, namely Tre6P synthase (Tps1) and Tre6P phosphatase (Tps2), while TsI1 has regulatory functions. There is some evidence that TsI1 and Tps3 may share a common function with respect to regulation and/or structural stabilisation of the Tre6P synthase/phosphatase complex in exponentially growing, heat-shocked cells []. OtsA (trehalose-6-phosphate synthase) from Escherichia coli has homology to the full-length TPS1, the N-terminal part of TPS2 and an internal region of TPS3 (TSL1) of yeast [].; GO: 0003824 catalytic activity, 0005992 trehalose biosynthetic process; PDB: 1UQU_A 2WTX_A 1UQT_B 1GZ5_B.
Probab=30.89 E-value=1.4e+02 Score=28.28 Aligned_cols=69 Identities=17% Similarity=0.176 Sum_probs=44.4
Q ss_pred HHHHHHHHHH-----cCCCEEEEeecCCCCCC-CCHHHHHHHHHHHHHHHHhccCC-CcEEEEcCCCchhhhHHHH
Q 030392 99 ELQLLEIAQR-----EETDEFIIGLPKSWDGS-ETPQSNKVRSVAGRLAVRAAERS-FSDILITAIFSFSCHFAIF 167 (178)
Q Consensus 99 ~~~L~~iI~e-----~~v~~IVVGLPl~mdG~-e~~~a~~Vr~Fa~~L~~~~~~~g-lpV~lvDERlSTs~~~a~~ 167 (178)
+..+.+++++ .++..+-|+.|-..+.. ..+..+++.+.+.++..++...+ .||.++.+.++.....|++
T Consensus 295 l~Afe~fL~~~P~~~~kv~liQi~~psr~~~~~y~~~~~~v~~~v~~IN~~~g~~~~~PI~~~~~~~~~~~~~aly 370 (474)
T PF00982_consen 295 LRAFERFLERYPEYRGKVVLIQIAVPSREDVPEYQELRREVEELVGRINGKYGTPDWTPIIYIYRSLSFEELLALY 370 (474)
T ss_dssp HHHHHHHHHH-GGGTTTEEEEEE--B-STTSHHHHHHHHHHHHHHHHHHHHH-BTTB-SEEEE-S---HHHHHHHH
T ss_pred HHHHHHHHHhCcCccCcEEEEEEeeccCccchhHHHHHHHHHHHHHHHHhhcccCCceeEEEEecCCCHHHHHHHH
Confidence 4566666666 34777889999776553 45678899999999999987644 5899999999877776665
No 160
>TIGR01295 PedC_BrcD bacteriocin transport accessory protein, putative. This model describes a small family of proteins believed to aid in the export of various class II bacteriocins, which are ribosomally-synthesized, non-lantibiotic bacterial peptide antibiotics. Members of this family are found in operons for pediocin PA-1 from Pediococcus acidilactici and brochocin-C from Brochothrix campestris.
Probab=30.06 E-value=1.3e+02 Score=22.71 Aligned_cols=50 Identities=24% Similarity=0.279 Sum_probs=32.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
.+++.+.+.+.+...+.+|-|- |-.++.|.-.|++...+.+.+|+++|=.
T Consensus 13 ~~~~~~~i~~~~~~iv~f~~~~---------Cp~C~~~~P~l~~~~~~~~~~~y~vdvd 62 (122)
T TIGR01295 13 VVRALEALDKKETATFFIGRKT---------CPYCRKFSGTLSGVVAQTKAPIYYIDSE 62 (122)
T ss_pred HHHHHHHHHcCCcEEEEEECCC---------ChhHHHHhHHHHHHHHhcCCcEEEEECC
Confidence 3578888887777778888772 4455555555544443335788888743
No 161
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=29.99 E-value=94 Score=28.18 Aligned_cols=50 Identities=16% Similarity=0.209 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
-.+.|.++++++++|++|.=.-.--+-...+ ...+++ .|+ +.|+|+..+|
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~~C~~~~~e-~~~lk~---~l~----e~GIP~L~id 358 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPSFCDPALLE-RPMLAA---RCK----EHGIPQIAFK 358 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhhcCChhhhh-HHHHHH---HHH----HCCCCEEEEE
Confidence 5688999999999999998766544433222 122222 232 3489988885
No 162
>PRK08760 replicative DNA helicase; Provisional
Probab=29.97 E-value=1.7e+02 Score=27.62 Aligned_cols=58 Identities=12% Similarity=0.173 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCC--CCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWD--GSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~md--G~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.....++++..+++++.|||=+=-.|. |......+.+.+..+.|+...++.++||+..
T Consensus 326 ~I~~~~r~l~~~~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~l 385 (476)
T PRK08760 326 VLRSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIAL 385 (476)
T ss_pred HHHHHHHHHHHhcCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEEe
Confidence 344567777788899999998764443 2222344556666666666555557888764
No 163
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is 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=29.76 E-value=1.6e+02 Score=22.48 Aligned_cols=56 Identities=13% Similarity=0.040 Sum_probs=30.4
Q ss_pred HHHHHHHHHHH--cCCCEEEEeecCCCCC-----------CCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQR--EETDEFIIGLPKSWDG-----------SETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e--~~v~~IVVGLPl~mdG-----------~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.+..+.+.+++ .++..|+++.|..... ......+.+..|.+.+++..++. .+.++|
T Consensus 93 ~~~~~i~~~~~~~~~~~ii~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~--~~~~iD 161 (199)
T cd01838 93 NLRKIVSHLKSLSPKTKVILITPPPVDEEAWEKSLEDGGSQPGRTNELLKQYAEACVEVAEEL--GVPVID 161 (199)
T ss_pred HHHHHHHHHHhhCCCCeEEEeCCCCCCHHHHhhhhccccCCccccHHHHHHHHHHHHHHHHHh--CCcEEE
Confidence 34455555555 5778888888753221 11223455666666665554433 355555
No 164
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=29.42 E-value=1.4e+02 Score=23.58 Aligned_cols=54 Identities=9% Similarity=0.058 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCC--CCCCCHHHHHHHHHHHHHHHHhccCCCc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSW--DGSETPQSNKVRSVAGRLAVRAAERSFS 150 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~m--dG~e~~~a~~Vr~Fa~~L~~~~~~~glp 150 (178)
.++..+.+++++.+++.++|=.|.|- -.-.|-..++-..|.++++..+.+.|.+
T Consensus 36 ~Dl~l~L~~~k~~g~~~lfVi~PvNg~wydytG~~~~~r~~~y~kI~~~~~~~gf~ 91 (130)
T PF04914_consen 36 DDLQLLLDVCKELGIDVLFVIQPVNGKWYDYTGLSKEMRQEYYKKIKYQLKSQGFN 91 (130)
T ss_dssp HHHHHHHHHHHHTT-EEEEEE----HHHHHHTT--HHHHHHHHHHHHHHHHTTT--
T ss_pred HHHHHHHHHHHHcCCceEEEecCCcHHHHHHhCCCHHHHHHHHHHHHHHHHHCCCE
Confidence 57889999999999999999999862 0122334567778888888888766653
No 165
>cd00458 SugarP_isomerase SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium, the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate. 6PGL converts 6-phosphoglucono-1,5-lactone to 6-phosphogluconate, the second step of the oxidative phase of the pentose phosphate pathway.
Probab=29.18 E-value=2.6e+02 Score=22.16 Aligned_cols=65 Identities=12% Similarity=0.099 Sum_probs=35.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHHhh
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFTVL 171 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~~~ 171 (178)
.+.+.+.+++.+ .++||++ |..++. ...+.+++..... .-..+-|++.|||+=...|..+.|-.+
T Consensus 9 ~~~i~~~~~~~~--~~~i~ls----gGsTp~-~~y~~L~~~~~~~-~w~~v~~f~~DEr~v~~~~~~Sn~~~~ 73 (169)
T cd00458 9 EDKXEKLLEEKD--DMVIGLG----TGSTPA-YFYKLLGEKLKRG-EISDIVGFPTDERYVPLDSDQSNFRQA 73 (169)
T ss_pred HHHHHHHHHhCC--CEEEEEC----CCccHH-HHHHHHHhhhhhC-CccceEEEECccccCCCCCchHHHHHH
Confidence 344555555444 5678877 444442 2233333332221 012467899999986666766665543
No 166
>PRK13331 pantothenate kinase; Reviewed
Probab=28.98 E-value=2.7e+02 Score=24.24 Aligned_cols=21 Identities=24% Similarity=0.180 Sum_probs=19.1
Q ss_pred CceEEEEecCCceEEEEeecC
Q 030392 62 GGFSLGVDLGLSRTGLALSKG 82 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD~ 82 (178)
..++|++|+|..+|=+|+-|+
T Consensus 6 ~~~~L~iDiGNT~~~~g~f~~ 26 (251)
T PRK13331 6 SNEWLALMIGNSRLHWGYFSG 26 (251)
T ss_pred CCcEEEEEeCCCcEEEEEEEC
Confidence 578999999999999999885
No 167
>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=28.93 E-value=2.7e+02 Score=21.48 Aligned_cols=43 Identities=7% Similarity=0.057 Sum_probs=23.5
Q ss_pred cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcE
Q 030392 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSD 151 (178)
Q Consensus 109 ~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV 151 (178)
.+...+++++|-..........+.+.++.+.+++...+.++++
T Consensus 110 ~~~~vi~~~~~p~~~~~~~~~~~~~~~~n~~~~~~a~~~~~~~ 152 (193)
T cd01835 110 RLVPVLVVGPTPVDEAKMPYSNRRIARLETAFAEVCLRRDVPF 152 (193)
T ss_pred cCCcEEEEeCCCccccccchhhHHHHHHHHHHHHHHHHcCCCe
Confidence 4567888888743221111224566667777766654444443
No 168
>PLN02721 threonine aldolase
Probab=28.77 E-value=1.5e+02 Score=25.04 Aligned_cols=57 Identities=7% Similarity=-0.126 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHc------CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQRE------ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~------~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.+.+.++++ ++..+++--|-+..|....-.+.++++++..++. |+.+ .+||-++
T Consensus 119 d~~~l~~~i~~~~~~~~~~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~----g~~l-ivD~a~~ 181 (353)
T PLN02721 119 DLDAIEAAIRPKGDDHFPTTRLICLENTHANCGGRCLSVEYTDKVGELAKRH----GLKL-HIDGARI 181 (353)
T ss_pred CHHHHHHHHHhccCCCCCcceEEEEeccccccCCccccHHHHHHHHHHHHHc----CCEE-EEEchhh
Confidence 568888888764 5666666555554443333345566665555542 4444 4599653
No 169
>PRK13324 pantothenate kinase; Reviewed
Probab=28.69 E-value=2.7e+02 Score=24.18 Aligned_cols=53 Identities=15% Similarity=0.196 Sum_probs=31.9
Q ss_pred EEEEecCCceEEEEeecCC--ccc-ccEE--EEccChhHHHHHHHHHHHc-----CCCEEEEe
Q 030392 65 SLGVDLGLSRTGLALSKGF--CVR-PLTV--LKLRGEKLELQLLEIAQRE-----ETDEFIIG 117 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~--~A~-Pl~t--I~~~~~~~~~~L~~iI~e~-----~v~~IVVG 117 (178)
+|++|+|..+|=+|+.|+- ..+ -+.+ ..+..++....+..+++++ +++.+++.
T Consensus 2 iL~iDiGNT~ik~gl~~~~~~~~~~r~~t~~~~~t~de~~~~l~~~~~~~~~~~~~i~~viis 64 (258)
T PRK13324 2 LLVMDMGNSHIHIGVFDGDRIVSQIRYATSSVDSTSDQMGVFLRQALRENSVDLGKIDGCGIS 64 (258)
T ss_pred EEEEEeCCCceEEEEEECCEEEEEEEEecCccccchHHHHHHHHHHHHhcCCCccCCCeEEEE
Confidence 8999999999999998842 111 1111 1111123455677777663 46667766
No 170
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=28.43 E-value=2e+02 Score=26.26 Aligned_cols=58 Identities=17% Similarity=0.146 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeec-----CCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 98 LELQLLEIAQREETDEFIIGLP-----KSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLP-----l~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
.++.|.+.+++++++.+||=-= ...++..+.. ..+|+++..|.+..++.++.|+++-+
T Consensus 146 ~le~I~~~i~~~~~~lVVIDSIq~l~~~~~~~~~g~~-~qvr~~~~~L~~lak~~~itvilvgh 208 (372)
T cd01121 146 NLEDILASIEELKPDLVIIDSIQTVYSSELTSAPGSV-SQVRECTAELMRFAKERNIPIFIVGH 208 (372)
T ss_pred cHHHHHHHHHhcCCcEEEEcchHHhhccccccCCCCH-HHHHHHHHHHHHHHHHcCCeEEEEee
Confidence 3567788888899999888531 1222333333 45788888777776667889988854
No 171
>cd06549 GH18_trifunctional GH18 domain of an uncharacterized family of bacterial proteins, which share a common three-domain architecture: an N-terminal glycosyl hydrolase family 18 (GH18) domain, a glycosyl transferase family 2 domain, and a C-terminal polysaccharide deacetylase domain.
Probab=28.21 E-value=2.3e+02 Score=24.53 Aligned_cols=50 Identities=12% Similarity=0.169 Sum_probs=36.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCC
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSF 149 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~gl 149 (178)
.+.++.+.+++++++.|+|.|=+..- .. +..+....|.++|++++...|.
T Consensus 90 ~~fi~~iv~~~~~~~~dGidiD~E~~---~~-~d~~~~~~fl~eL~~~l~~~~~ 139 (298)
T cd06549 90 AKFIANIAAYLERNQADGIVLDFEEL---PA-DDLPKYVAFLSELRRRLPAQGK 139 (298)
T ss_pred HHHHHHHHHHHHHhCCCCEEEecCCC---Ch-hHHHHHHHHHHHHHHHhhhcCc
Confidence 45788999999999999999987642 12 2234566788888888754343
No 172
>TIGR02236 recomb_radA DNA repair and recombination protein RadA. This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.
Probab=28.03 E-value=1.4e+02 Score=25.80 Aligned_cols=61 Identities=10% Similarity=0.067 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHcC--CCEEEE---eecCC--CCC--CCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQREE--TDEFII---GLPKS--WDG--SETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~~--v~~IVV---GLPl~--mdG--~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
..+.+.+++.+.+ +..||| --+.. .+| ...+..+...+++..|.......++.|++.++-.
T Consensus 178 lld~l~~~i~~~~~~~~lVVIDSisa~~r~e~~~~~~~~~r~~~l~~~~~~L~~~a~~~~~~v~~tnqv~ 247 (310)
T TIGR02236 178 LVEKAEDLIKELNNPVKLLIVDSLTSHFRAEYVGRGALAERQQKLNKHLHDLLRLADLYNAAVVVTNQVM 247 (310)
T ss_pred HHHHHHHHHHhcCCCceEEEEecchHhhhHhhcCchhHHHHHHHHHHHHHHHHHHHHHhCcEEEEeceee
Confidence 3567788888764 888888 44432 233 2333445566777777765555688999988744
No 173
>TIGR00329 gcp_kae1 metallohydrolase, glycoprotease/Kae1 family. This subfamily includes the well-studied secreted O-sialoglycoprotein endopeptidase (glycoprotease, EC 3.4.24.57) of Pasteurella haemolytica, a pathogen. A member from Riemerella anatipestifer, associated with cohemolysin activity, likewise is exported without benefit of a classical signal peptide and shows glycoprotease activity on the test substrate glycophorin. However, archaeal members of this subfamily show unrelated activities as demonstrated in Pyrococcus abyssi: DNA binding, iron binding, apurinic endonuclease activity, genomic association with a kinase domain, and no glycoprotease activity. This family thus pulls together a set of proteins as a homology group that appears to be near-universal in life, yet heterogeneous in assayed function between bacteria and archaea.
Probab=28.02 E-value=2.1e+02 Score=25.03 Aligned_cols=93 Identities=17% Similarity=0.097 Sum_probs=56.3
Q ss_pred EEEecCCceEEEEeecC---CcccccEE-----------EEc-----cChhHHHHHHHHHHHc-----CCCEEEEee-cC
Q 030392 66 LGVDLGLSRTGLALSKG---FCVRPLTV-----------LKL-----RGEKLELQLLEIAQRE-----ETDEFIIGL-PK 120 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD~---~~A~Pl~t-----------I~~-----~~~~~~~~L~~iI~e~-----~v~~IVVGL-Pl 120 (178)
||||=-...+++|+-|. +++.-..+ .+. ..+.+...+.+++++- ++|.|+|+. |
T Consensus 1 LaidTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~iav~~GP- 79 (305)
T TIGR00329 1 LGIETSCDDTGVAIVDEEGNVLANIKISQIPLHAKYGGVVPEEASRHHAENIPPLLERALIESNVDKSEIDLIAYTQGP- 79 (305)
T ss_pred CEEecCccceEEEEEECCCcEEEEEEecccccccccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC-
Confidence 68888888999999873 22211100 010 0123445667776663 468999987 5
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhhHHHHHH
Q 030392 121 SWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCHFAIFFT 169 (178)
Q Consensus 121 ~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~~a~~~~ 169 (178)
|..+. -+.-..+|+.|+..+ ++|++.++- --+|.+.-|.
T Consensus 80 ---G~~tg-lrvg~~~Ak~la~~~---~~p~~~v~h---l~~ha~~a~~ 118 (305)
T TIGR00329 80 ---GLGGS-LRVGATFARSLALSL---DKPLIGVNH---LLGHIYAPRL 118 (305)
T ss_pred ---Cchhh-HHHHHHHHHHHHHHh---CCCEeeccc---HHHHHHHhhh
Confidence 33333 566667899998876 579998853 2356555443
No 174
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=27.99 E-value=2.7e+02 Score=24.08 Aligned_cols=52 Identities=8% Similarity=0.121 Sum_probs=38.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
...-++.+.+++.+++++++--|..... + .+.+.+|-+.+.+.. ++||+++|
T Consensus 81 ~~~i~~a~~a~~~Gad~v~~~pP~y~~~--~--~~~i~~~f~~v~~~~---~~pi~lYn 132 (289)
T cd00951 81 ATAIAYAQAAEKAGADGILLLPPYLTEA--P--QEGLYAHVEAVCKST---DLGVIVYN 132 (289)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCCCCCC--C--HHHHHHHHHHHHhcC---CCCEEEEe
Confidence 3445678888999999999988875432 2 466677777777664 58999998
No 175
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=27.77 E-value=1.8e+02 Score=27.03 Aligned_cols=58 Identities=14% Similarity=0.074 Sum_probs=34.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhh
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSC 162 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~ 162 (178)
.-.+.+.++++++++|++|.=.=..-+....++. .++++. ++ .|+|+..+|=.+|-.+
T Consensus 348 ~R~~~l~~li~e~~vDGVI~~~~~~C~~~s~e~~-~ik~~l---~~----~GIP~L~ietD~~d~r 405 (430)
T TIGR03191 348 IKSEMMLNIARDWNVDGCMLHLNRGCEGLSIGIM-ENRLAI---AK----AGIPIMTFEGNMGDER 405 (430)
T ss_pred HHHHHHHHHHHHHCCCEEEEcCCCCCccchHhHH-HHHHHH---HH----cCCCEEEEECCCCCCc
Confidence 4568899999999999988632222222222222 344443 22 3889887766665433
No 176
>PRK14865 rnpA ribonuclease P; Provisional
Probab=27.74 E-value=2.4e+02 Score=21.32 Aligned_cols=66 Identities=15% Similarity=0.059 Sum_probs=34.0
Q ss_pred CCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHH-----cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHH
Q 030392 71 GLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQR-----EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (178)
Q Consensus 71 G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e-----~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~ 142 (178)
+.-|+|+++|--. +-.+. ++. .-..|.+++.. .+.|.+||..|--.+-+..+..+.+.+..+++..
T Consensus 43 ~~~RvG~sVsKKv---g~AV~-RNR--iKR~lRE~~R~~~~~l~~~divii~r~~~~~~~~~~l~~~l~~ll~~~~~ 113 (116)
T PRK14865 43 TGTKIGITVSRKV---GNAVV-RNR--IKRLVREFYRLNKSLFIVADYNIIAKKGAEQLDFQQISRELANALERLRK 113 (116)
T ss_pred CCcEEEEEEeccc---Ccchh-HHH--HHHHHHHHHHHhhccCCCCCEEEEEeCCcccCCHHHHHHHHHHHHHHHHh
Confidence 4579999998631 11222 211 11222333221 2568888888765555555555555555444443
No 177
>TIGR03286 methan_mark_15 putative methanogenesis marker protein 15. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. Related proteins include the BadF/BadG/BcrA/BcrD ATPase family (pfam01869), which includes an activator for (R)-2-hydroxyglutaryl-CoA dehydratase.
Probab=27.66 E-value=80 Score=29.67 Aligned_cols=44 Identities=20% Similarity=0.360 Sum_probs=28.5
Q ss_pred CccccccccccccccccchhccccCCCCCCceEEEEecCCceEEEEeec
Q 030392 33 NFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 33 ~~~~~~~~~~s~~~~~~na~~~~~~~~~~~~rILgLD~G~KRIGVAiSD 81 (178)
....||.|+.++- ....+..|. ...+..+|||.|+..+=+++-|
T Consensus 119 ~l~tr~ea~~~~~--~~~~~~~~~---~~~g~~lGIDiGSTttK~Vl~d 162 (404)
T TIGR03286 119 ELLTRMEALTTIV--RRKSLLARE---RQEGLTLGIDSGSTTTKAVVME 162 (404)
T ss_pred HHHHHHHHHHHHH--hhhhhhhhh---ccCCEEEEEEcChhheeeEEEc
Confidence 4557888886443 222221122 2346799999999999988877
No 178
>TIGR03723 bact_gcp putative glycoprotease GCP. This model represents bacterial members of a protein family that is widely distributed. In a few pathogenic species, the protein is exported in a way that may represent an exceptional secondary function. This model plus companion (archaeal) model TIGR03722 together span the prokaryotic member sequences of TIGR00329, a protein family that appears universal in life, and whose broad function is unknown. A member of TIGR03722 has been characterized as a DNA-binding protein with apurinic endopeptidase activity. In contrast, the rare characterized members of the present family show O-sialoglycoprotein endopeptidase (EC. 3.4.24.57) activity after export. These include glycoprotease (gcp) from Pasteurella haemolytica A1 and a cohemolysin from Riemerella anatipestifer (GB|AAG39646.1). The member from Staphylococcus aureus is essential and is related to cell wall dynamics and the modulation of autolysis, but members are also found in the Mycoplasmas
Probab=27.43 E-value=4.3e+02 Score=23.28 Aligned_cols=84 Identities=17% Similarity=0.084 Sum_probs=52.6
Q ss_pred EEEEecCCceEEEEeecC---Cccc----------ccEEE-Ec---c--ChhHHHHHHHHHHH-----cCCCEEEEeecC
Q 030392 65 SLGVDLGLSRTGLALSKG---FCVR----------PLTVL-KL---R--GEKLELQLLEIAQR-----EETDEFIIGLPK 120 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~---~~A~----------Pl~tI-~~---~--~~~~~~~L~~iI~e-----~~v~~IVVGLPl 120 (178)
|||||--+..++||+-|. +++. |++=| +. + .+.+...+.+++++ .++|.|.|+.=
T Consensus 1 iLaIdTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~G- 79 (314)
T TIGR03723 1 ILGIETSCDETAVAIVDDGKGLLSNIVASQIELHARYGGVVPELASRAHLEAIPPLIEEALAEAGLTLSDIDAIAVTAG- 79 (314)
T ss_pred CEEEECcccceEEEEEECCceEEEEEEeehhhhccCcCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecC-
Confidence 689999999999999873 2221 11101 00 1 12345567777666 45788888742
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 121 SWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 121 ~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
-|..+- -+.-..+|+.|+..+ ++|++.++
T Consensus 80 --PGsftg-lrig~~~Ak~la~~~---~~p~~~v~ 108 (314)
T TIGR03723 80 --PGLIGA-LLVGVSFAKALALAL---NKPLIGVN 108 (314)
T ss_pred --CChHHh-HHHHHHHHHHHHHHh---CCCEEecc
Confidence 233332 466678888888776 57998884
No 179
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=27.37 E-value=33 Score=31.32 Aligned_cols=86 Identities=10% Similarity=0.086 Sum_probs=55.2
Q ss_pred EecCCceEEEEeec----C-C-----cccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHH
Q 030392 68 VDLGLSRTGLALSK----G-F-----CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (178)
Q Consensus 68 LD~G~KRIGVAiSD----~-~-----~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa 137 (178)
+.-..+.||+-.-+ + + +|+|+..-........+++++..+--+++.+.==.|..++|..-.... .|
T Consensus 70 l~P~~R~iamVFQ~yALyPhmtV~~Niaf~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQrQRVA----la 145 (338)
T COG3839 70 LPPEKRGIAMVFQNYALYPHMTVYENIAFGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQRQRVA----LA 145 (338)
T ss_pred CChhHCCEEEEeCCccccCCCcHHHHhhhhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhHHHHH----HH
Confidence 33444677766544 1 1 467776543222334567888888888888888899999988543333 34
Q ss_pred HHHHHHhccCCCcEEEEcCCCchhh
Q 030392 138 GRLAVRAAERSFSDILITAIFSFSC 162 (178)
Q Consensus 138 ~~L~~~~~~~glpV~lvDERlSTs~ 162 (178)
+.|-. ..+|++.||-+|.-+
T Consensus 146 RAlVr-----~P~v~L~DEPlSnLD 165 (338)
T COG3839 146 RALVR-----KPKVFLLDEPLSNLD 165 (338)
T ss_pred HHHhc-----CCCEEEecCchhHhh
Confidence 44542 357999999998544
No 180
>PRK01688 histidinol-phosphate aminotransferase; Provisional
Probab=27.36 E-value=97 Score=26.98 Aligned_cols=53 Identities=6% Similarity=0.033 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+++.+.+.+ .+.+.+++-.|-|..|..-+.. .++++++..+ . + -++.+||.|.
T Consensus 135 d~~~l~~~~--~~~~lv~l~nPnNPTG~~~~~~-~l~~l~~~~~----~-~-~~vivDEay~ 187 (351)
T PRK01688 135 DLPAIADNL--DGVKVVYVCSPNNPTGNLINPQ-DLRTLLELTR----G-K-AIVVADEAYI 187 (351)
T ss_pred CHHHHHHhc--cCCcEEEEeCCCCCCCCCCCHH-HHHHHHHhCC----C-C-cEEEEECchh
Confidence 456666655 3789999999999999876543 4455544332 1 2 3678999873
No 181
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=27.35 E-value=1.7e+02 Score=26.97 Aligned_cols=60 Identities=12% Similarity=0.215 Sum_probs=41.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhcc-CCCcEEEEcC-CCc
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE-RSFSDILITA-IFS 159 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~-~glpV~lvDE-RlS 159 (178)
+++.+.|.++.++++++.|+|=- ..-..-+-..+..+++++++++++ .++||+.++- .|.
T Consensus 77 ~~L~~~I~~~~~~~~P~~I~V~t----tC~~eiIGDDi~~v~~~~~~e~p~~~~~pvi~v~tpgf~ 138 (432)
T TIGR01285 77 EHIEEAIDTLCQRNKPKAIGLLS----TGLTETRGEDIARVVRQFREKHPQHKGTAVVTVNTPDFK 138 (432)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeC----CCcccccccCHHHHHHHHHhhcccccCCeEEEecCCCcC
Confidence 57888999999999999887721 122223445677777778776643 2788888773 354
No 182
>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]
Probab=27.32 E-value=51 Score=34.19 Aligned_cols=20 Identities=30% Similarity=0.717 Sum_probs=18.2
Q ss_pred CceEEEEecCCceEEEEeec
Q 030392 62 GGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD 81 (178)
...+||+|+|+.-||-|+..
T Consensus 3 ~~yilglDIGi~SVGWAvve 22 (1088)
T COG3513 3 KAYILGLDIGINSVGWAVVE 22 (1088)
T ss_pred cceEEEeeccccceeeEEee
Confidence 36899999999999999986
No 183
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. 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.
Probab=27.05 E-value=2.2e+02 Score=23.08 Aligned_cols=43 Identities=16% Similarity=0.071 Sum_probs=27.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
+.+.+.+.++++|+||+- |.+.+ + ..++++++ .|+||+++|-.
T Consensus 45 ~~~~~~l~~~~vdgvi~~-~~~~~----~------~~~~~l~~----~~iPvv~~~~~ 87 (269)
T cd06297 45 RYLESTTLAYLTDGLLLA-SYDLT----E------RLAERRLP----TERPVVLVDAE 87 (269)
T ss_pred HHHHHHHHhcCCCEEEEe-cCccC----h------HHHHHHhh----cCCCEEEEccC
Confidence 445556778899999995 53322 1 23344443 37899999854
No 184
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=27.03 E-value=2.9e+02 Score=25.01 Aligned_cols=56 Identities=11% Similarity=0.135 Sum_probs=35.1
Q ss_pred HHHHHHHHHHc-CCCEEEEeecCCCCC-CCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 99 ELQLLEIAQRE-ETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 99 ~~~L~~iI~e~-~v~~IVVGLPl~mdG-~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
...++++..++ +++.|||=+=-.+.+ ......+.+....+.|+...++.++||+..
T Consensus 293 ~~~~r~~~~~~~~~~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAke~~i~Vi~l 350 (421)
T TIGR03600 293 RSIARRIKRKKGGLDLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAKELDVPVVLL 350 (421)
T ss_pred HHHHHHHHHhcCCCCEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEe
Confidence 34455555566 699999876534443 223345666777777766655557888875
No 185
>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs. A related protein is found in archaea.
Probab=26.75 E-value=2.5e+02 Score=21.48 Aligned_cols=60 Identities=10% Similarity=0.066 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCC-CCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSW-DGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~m-dG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
.....+.+.+.+++++.+||=-|-.. +.........+.++...|++ .|..++++.+....
T Consensus 82 ~~~~~i~~~~~~~~~~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~----~g~tvi~v~~~~~~ 142 (187)
T cd01124 82 ELIQRLKDAIEEFKAKRVVIDSVSGLLLMEQSTARLEIRRLLFALKR----FGVTTLLTSEQSGL 142 (187)
T ss_pred HHHHHHHHHHHHhCCCEEEEeCcHHHhhcChHHHHHHHHHHHHHHHH----CCCEEEEEeccccC
Confidence 34577888888999999999998753 33333444555666666654 36788888776643
No 186
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=26.60 E-value=2e+02 Score=26.60 Aligned_cols=57 Identities=16% Similarity=0.026 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
-.+.|.++++++++|++|.=.-..-+....+... ++ +.+.+. .|+|+..+|=.++.+
T Consensus 338 R~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~-~~---~~l~e~---~GIP~L~iE~D~~d~ 394 (413)
T TIGR02260 338 RVDLLEKYINEYEADGLLINSIKSCNSFSAGQLL-MM---REIEKR---TGKPAAFIETDLVDP 394 (413)
T ss_pred HHHHHHHHHHHhCCCEEEEeccCCCCcchhhhHH-HH---HHHHHH---cCCCEEEEEcCCCCc
Confidence 4678999999999999998666555544433222 22 223332 388987776555544
No 187
>TIGR01821 5aminolev_synth 5-aminolevulinic acid synthase. This model represents 5-aminolevulinic acid synthase, an enzyme for one of two routes to the heme precursor 5-aminolevulinate. The protein is a pyridoxal phosphate-dependent enzyme related to 2-amino-3-ketobutyrate CoA tranferase and 8-amino-7-oxononanoate synthase. This enzyme appears restricted to the alpha Proteobacteria and mitochondrial derivatives.
Probab=26.46 E-value=1.7e+02 Score=25.77 Aligned_cols=52 Identities=13% Similarity=0.157 Sum_probs=33.3
Q ss_pred HHHHHHHHHHc---CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 99 ELQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 99 ~~~L~~iI~e~---~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
.+.+.++++.. ++..|++--|.+++|..-+. +++.++++ ++ | -+.++||-++
T Consensus 163 ~~~l~~~l~~~~~~~~~~v~~e~~~~~~G~~~~l-~~i~~l~~----~~---~-~~livDea~~ 217 (402)
T TIGR01821 163 VAHLEKLLQSVDPNRPKIIAFESVYSMDGDIAPI-EEICDLAD----KY---G-ALTYLDEVHA 217 (402)
T ss_pred HHHHHHHHHhccCCCCeEEEEcCCCCCCCCccCH-HHHHHHHH----Hc---C-CEEEEeCccc
Confidence 35566666543 45678888899999988762 33333332 22 3 3788999987
No 188
>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=26.42 E-value=95 Score=22.58 Aligned_cols=52 Identities=13% Similarity=0.099 Sum_probs=33.7
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchh
Q 030392 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFS 161 (178)
Q Consensus 101 ~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs 161 (178)
.+.+.....++..+++..|.+..|...+. +++++..++ .|+ ...+||.++..
T Consensus 83 ~~~~~~~~~~~~~v~~~~~~~~~g~~~~~----~~l~~~~~~----~~~-~li~D~a~~~~ 134 (170)
T cd01494 83 ILEELKAKPNVALIVITPNTTSGGVLVPL----KEIRKIAKE----YGI-LLLVDAASAGG 134 (170)
T ss_pred hhhhccccCceEEEEEecCcCCCCeEcCH----HHHHHHHHH----cCC-EEEEecccccc
Confidence 45555567789999999999988876665 333333332 243 55579987643
No 189
>PRK05958 8-amino-7-oxononanoate synthase; Reviewed
Probab=26.31 E-value=2.1e+02 Score=24.38 Aligned_cols=54 Identities=15% Similarity=0.052 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHc--CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~--~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+.+.+.+.+++. ....+++|-|.+..|...+. +++.+.++ +. |+ .+.+||-++.
T Consensus 154 d~~~l~~~i~~~~~~~~lvi~~~~~~~~G~~~~l-~~i~~ia~----~~---~~-~li~De~~~~ 209 (385)
T PRK05958 154 DVDALEALLAKWRAGRALIVTESVFSMDGDLAPL-AELVALAR----RH---GA-WLLVDEAHGT 209 (385)
T ss_pred CHHHHHHHHHhccCCCeEEEEEecccCCCCcCCH-HHHHHHHH----Hh---CC-EEEEECcccc
Confidence 456778888765 35667888888888876552 23333332 22 32 6778999863
No 190
>PRK11175 universal stress protein UspE; Provisional
Probab=26.15 E-value=1.7e+02 Score=24.48 Aligned_cols=54 Identities=6% Similarity=-0.018 Sum_probs=33.3
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...+.|.+.++++++|.||+|.--. .+-.....-..+.+|-... .+||..+-+.
T Consensus 94 ~~~~~i~~~a~~~~~DLiV~G~~~~----~~~~~~~~gs~~~~l~~~~---~~pvlvv~~~ 147 (305)
T PRK11175 94 RPFEAIIQEVIAGGHDLVVKMTHQH----DKLESVIFTPTDWHLLRKC---PCPVLMVKDQ 147 (305)
T ss_pred CcHHHHHHHHHhcCCCEEEEeCCCC----cHHHhhccChhHHHHHhcC---CCCEEEeccc
Confidence 3457899999999999999996432 1111111123344454443 4788888763
No 191
>PRK03011 butyrate kinase; Provisional
Probab=25.98 E-value=4.1e+02 Score=24.13 Aligned_cols=91 Identities=15% Similarity=0.176 Sum_probs=51.2
Q ss_pred ceEEEEecCCceEEEEeecCC-------cccccEEEEc-c---Chh--HHHHHHHHHHHcC-----CCEEEEee-----c
Q 030392 63 GFSLGVDLGLSRTGLALSKGF-------CVRPLTVLKL-R---GEK--LELQLLEIAQREE-----TDEFIIGL-----P 119 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~-------~A~Pl~tI~~-~---~~~--~~~~L~~iI~e~~-----v~~IVVGL-----P 119 (178)
.+||.|..|+.-+=+|+-+.. +..+..-+.. . .+. -.+.+.+.+++.+ ++.| +|- |
T Consensus 2 ~~il~inpgststk~a~~~~~~~~~~~~~~h~~~~~~~~~~~~~q~~~r~~~i~~~l~~~g~~~~~l~av-~~RgG~~~~ 80 (358)
T PRK03011 2 MRILVINPGSTSTKIAVFEDEKPIFEETLRHSAEELEKFKTIIDQYEFRKQAILDFLKEHGIDLSELDAV-VGRGGLLKP 80 (358)
T ss_pred CEEEEEcCCCchheEEEEcCCceeeeeccccCHHHHhcCCCccchHHHHHHHHHHHHHHcCCChhcceEE-EEcCCCCcc
Confidence 479999999999999998842 1222222211 0 111 2356777777764 4444 888 6
Q ss_pred CCCCCCC----------------CHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 120 KSWDGSE----------------TPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 120 l~mdG~e----------------~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.+ .|.. .+...----.+.++.+.+ |+|++.+|=-|
T Consensus 81 v~-gG~~~v~~~~~~~l~~~~~~~~~~nl~~~~a~~~~~~~---~~p~~v~D~~~ 131 (358)
T PRK03011 81 IP-GGTYRVNEAMLEDLKNGKYGEHASNLGAIIAYEIAKEL---GIPAFIVDPVV 131 (358)
T ss_pred cC-CCCEEcCHHHHHHHHhcCCCCCCCCHHHHHHHHHHHhc---CCCEEEECCcc
Confidence 54 5554 222222222334444443 68998888744
No 192
>PRK03158 histidinol-phosphate aminotransferase; Provisional
Probab=25.86 E-value=86 Score=27.01 Aligned_cols=54 Identities=13% Similarity=0.115 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+++.+.+.+. .++..+++--|-|..|..-+.. ++.++++..+ .+ -++.+||-|.
T Consensus 140 d~~~l~~~~~-~~~~~v~i~~p~NPtG~~~~~~-~l~~~~~~~~-----~~-~~ii~De~y~ 193 (359)
T PRK03158 140 DLEAMLKAID-EQTKIVWICNPNNPTGTYVNHE-ELLSFLESVP-----SH-VLVVLDEAYY 193 (359)
T ss_pred CHHHHHHhcC-CCCCEEEEeCCCCCCCCCCCHH-HHHHHHHhCC-----CC-cEEEEECchH
Confidence 4566666554 4788899999999999876653 4555554432 12 2677899884
No 193
>PF09298 FAA_hydrolase_N: Fumarylacetoacetase N-terminal; InterPro: IPR015377 Fumarylacetoacetase (3.7.1.2 from EC; also known as fumarylacetoacetate hydrolase or FAH) catalyses the hydrolytic cleavage of a carbon-carbon bond in fumarylacetoacetate to yield fumarate and acetoacetate as the final step in phenylalanine and tyrosine degradation []. This is an essential metabolic function in humans, the lack of FAH causing type I tyrosinaemia, which is associated with liver and kidney abnormalities and neurological disorders [, ]. The enzyme mechanism involves a catalytic metal ion, a Glu/His catalytic dyad, and a charged oxyanion hole []. FAH folds into two domains: an N-terminal domain SH3-like beta-barrel, and a C-terminal with an unusual fold consisting of three layers of beta-sheet structures []. This entry represents the N-terminal domain of fumarylacetoacetase.; GO: 0004334 fumarylacetoacetase activity, 0009072 aromatic amino acid family metabolic process; PDB: 1QCN_B 1QCO_B 2HZY_A 1QQJ_B 1HYO_A.
Probab=25.86 E-value=34 Score=25.99 Aligned_cols=12 Identities=25% Similarity=0.415 Sum_probs=10.6
Q ss_pred CCceEEEEeecC
Q 030392 71 GLSRTGLALSKG 82 (178)
Q Consensus 71 G~KRIGVAiSD~ 82 (178)
+..|+||||+|.
T Consensus 14 ~~pR~gvaIGd~ 25 (107)
T PF09298_consen 14 PSPRVGVAIGDQ 25 (107)
T ss_dssp ESEEEEEEETTE
T ss_pred CCCeeEEEECCE
Confidence 678999999995
No 194
>cd00610 OAT_like Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase, alanine-glyoxylate aminotransferase, dialkylglycine decarboxylase, 4-aminobutyrate aminotransferase, beta-alanine-pyruvate aminotransferase, adenosylmethionine-8-amino-7-oxononanoate aminotransferase, and glutamate-1-semialdehyde 2,1-aminomutase. All the enzymes belonging to this family act on basic amino acids and their derivatives are involved in transamination or decarboxylation.
Probab=25.85 E-value=1.8e+02 Score=25.34 Aligned_cols=58 Identities=12% Similarity=0.048 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHc-CCCEEEEeecCC-CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQRE-ETDEFIIGLPKS-WDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~-~v~~IVVGLPl~-mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+++.|.+.++++ +-..+||--|.+ +.|..-+..+..++.++..+ ++ |. +..+||-+|-
T Consensus 177 d~~~l~~~l~~~~~~~~~vi~~p~~~~~G~~~~~~~~l~~l~~l~~-~~---~~-~li~Dev~~g 236 (413)
T cd00610 177 DLEALEEALEEHPEEVAAVIVEPIQGEGGVIVPPPGYLKALRELCR-KH---GI-LLIADEVQTG 236 (413)
T ss_pred HHHHHHHHHhcCCCCEEEEEEccccCCCCCccCCHHHHHHHHHHHH-Hc---CC-EEEEeccccC
Confidence 667888888764 233455556764 44654444444444443333 22 33 5689999873
No 195
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=25.83 E-value=2.6e+02 Score=25.29 Aligned_cols=56 Identities=9% Similarity=0.094 Sum_probs=35.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCC---CCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDG---SETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG---~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...+++|.++++...+. |==+|+|.-| -..+..+.+++|.+.|++. |+++..-.++
T Consensus 270 ~e~a~~La~~l~~l~~~--VnLIPynp~~~~~~~~ps~e~i~~f~~~L~~~----Gi~vtvR~~~ 328 (345)
T PRK14457 270 PEHAEELANLLRGFQSH--VNLIPYNPIDEVEFQRPSPKRIQAFQRVLEQR----GVAVSVRASR 328 (345)
T ss_pred HHHHHHHHHHHhcCCCe--EEEecCCCCCCCCCCCCCHHHHHHHHHHHHHC----CCeEEEeCCC
Confidence 35667788888776542 2225665433 3456778888888877643 6777665544
No 196
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=25.77 E-value=1.5e+02 Score=25.99 Aligned_cols=57 Identities=14% Similarity=0.140 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.+.++..++..|++--|.++.|..-+..+..++..+..+ ++ |. +..+||-++
T Consensus 166 d~~~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~-~~---~~-lli~Dev~~ 222 (400)
T PTZ00125 166 DVEALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCK-KY---NV-LLIVDEIQT 222 (400)
T ss_pred CHHHHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHH-Hc---CC-EEEEecccc
Confidence 45777887765678888886666777766554443444333332 33 33 678999986
No 197
>PRK04781 histidinol-phosphate aminotransferase; Provisional
Probab=25.77 E-value=1.2e+02 Score=26.65 Aligned_cols=54 Identities=9% Similarity=0.159 Sum_probs=35.5
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
.+.+.+.+.+.+++.+++-.|-|..|..-+ .++++++++..+ .+ -++.+||.|.
T Consensus 141 ~~~l~~~~~~~~~~lv~l~~p~NPTG~~~~-~~~~~~l~~~~~-----~~-~~iI~Deay~ 194 (364)
T PRK04781 141 VPAIVAAALASNAKLVFLCSPSNPAGSAIA-LDQIERALQALQ-----GK-ALVVVDEAYG 194 (364)
T ss_pred HHHHHHHHhccCCeEEEEcCCCCCCCCCcC-HHHHHHHHHhCC-----CC-cEEEEeCcch
Confidence 455544444678999999999999998766 334445444322 13 3578899885
No 198
>PRK13326 pantothenate kinase; Reviewed
Probab=25.38 E-value=2.5e+02 Score=24.41 Aligned_cols=20 Identities=30% Similarity=0.375 Sum_probs=17.8
Q ss_pred ceEEEEecCCceEEEEeecC
Q 030392 63 GFSLGVDLGLSRTGLALSKG 82 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~ 82 (178)
..+|+||+|..+|=+|+-|+
T Consensus 6 ~~~L~IDiGNT~ik~glf~~ 25 (262)
T PRK13326 6 SSQLIIDIGNTSISFALYKD 25 (262)
T ss_pred cEEEEEEeCCCeEEEEEEEC
Confidence 46899999999999999885
No 199
>COG0156 BioF 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]
Probab=25.33 E-value=1.8e+02 Score=26.90 Aligned_cols=55 Identities=15% Similarity=0.099 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHcC-----CCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 97 KLELQLLEIAQREE-----TDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 97 ~~~~~L~~iI~e~~-----v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
.+.+.|.++++++. ...||+===++|||+.-|..+.+ .|+++|. =..++||..++
T Consensus 153 nD~~~Le~~l~~~~~~~~~~~~IvtegVfSMdGdiApL~~l~-----~L~~ky~----a~L~VDEAHa~ 212 (388)
T COG0156 153 NDLDHLEALLEEARENGARRKLIVTEGVFSMDGDIAPLPELV-----ELAEKYG----ALLYVDEAHAV 212 (388)
T ss_pred CCHHHHHHHHHhhhccCCCceEEEEeccccCCCCcCCHHHHH-----HHHHHhC----cEEEEEccccc
Confidence 35588999998853 35566666689999988876654 4788874 38999999875
No 200
>PRK14807 histidinol-phosphate aminotransferase; Provisional
Probab=25.29 E-value=1.8e+02 Score=25.24 Aligned_cols=53 Identities=6% Similarity=0.149 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.+.+.+.+.+++.+++-.|-|..|..-+. +++.++++ .. + -++.+||.|.
T Consensus 136 d~~~l~~~~~~~~~k~v~l~~p~NPtG~~~~~-~~l~~l~~----~~---~-~~~ivDe~y~ 188 (351)
T PRK14807 136 DVGSFIKVIEKYQPKLVFLCNPNNPTGSVIER-EDIIKIIE----KS---R-GIVVVDEAYF 188 (351)
T ss_pred CHHHHHHHhhccCCCEEEEeCCCCCCCCCCCH-HHHHHHHH----hC---C-CEEEEeCcch
Confidence 45777787877789999999999999976653 33444443 22 2 2677899984
No 201
>cd01821 Rhamnogalacturan_acetylesterase_like Rhamnogalacturan_acetylesterase_like subgroup of SGNH-hydrolases. Rhamnogalacturan acetylesterase removes acetyl esters from rhamnogalacturonan substrates, and renders them susceptible to degradation by rhamnogalacturonases. Rhamnogalacturonans are highly branched regions in pectic polysaccharides, consisting of repeating -(1,2)-L-Rha-(1,4)-D-GalUA disaccharide units, with many rhamnose residues substituted by neutral oligosaccharides such as arabinans, galactans and arabinogalactans. Extracellular enzymes participating in the degradation of plant cell wall polymers, such as Rhamnogalacturonan acetylesterase, would typically be found in saprophytic and plant pathogenic fungi and bacteria.
Probab=25.29 E-value=1.5e+02 Score=23.26 Aligned_cols=23 Identities=4% Similarity=0.034 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecC
Q 030392 98 LELQLLEIAQREETDEFIIGLPK 120 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl 120 (178)
.+..+.+.+++.++..|++..|-
T Consensus 95 nl~~ii~~~~~~~~~~il~tp~~ 117 (198)
T cd01821 95 YLRRYIAEARAKGATPILVTPVT 117 (198)
T ss_pred HHHHHHHHHHHCCCeEEEECCcc
Confidence 44566666777788777776553
No 202
>TIGR02024 FtcD glutamate formiminotransferase. This model covers enzymes from metazoa as well as gram-positive bacteria and archaea. In humans, deficiency of this enzyme results in a disease phenotype. The crystal structure of the enzyme has been studied in the context of the catalytic mechanism.
Probab=25.27 E-value=1.1e+02 Score=27.78 Aligned_cols=39 Identities=13% Similarity=0.066 Sum_probs=29.2
Q ss_pred EEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 114 FIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 114 IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
+|-=.|+. +-+..+-++-++.|++++.+++ ++||||+-|
T Consensus 90 vipf~Pl~-~~t~eec~~lA~~vg~~i~~~l---~VPVyLY~~ 128 (298)
T TIGR02024 90 VIPFIPVR-NVTMEECVELAKEFGKRLGEEL---GVPVYLYEE 128 (298)
T ss_pred eeeeeeCC-CCCHHHHHHHHHHHHHHHHHhh---CCCEEEehh
Confidence 44445664 5566677888889999998887 689999944
No 203
>PRK05595 replicative DNA helicase; Provisional
Probab=25.25 E-value=2.3e+02 Score=26.12 Aligned_cols=57 Identities=12% Similarity=0.187 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC--CHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e--~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
....++++..+++++.|||=+=--|.+.. ......+.+..+.|+...++.++||+..
T Consensus 299 i~~~~r~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~l 357 (444)
T PRK05595 299 MRSKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIAL 357 (444)
T ss_pred HHHHHHHHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEe
Confidence 44566777777899999997765554322 2344556666666666655557888765
No 204
>TIGR03192 benz_CoA_bzdQ benzoyl-CoA reductase, bzd-type, Q subunit. Members of this family are the Q subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=24.93 E-value=2.4e+02 Score=25.34 Aligned_cols=49 Identities=12% Similarity=0.091 Sum_probs=28.5
Q ss_pred ceEEEEecCCceEEEEeecCCcccccEEEEccC---hhHHHHHHHHHHHcCC
Q 030392 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRG---EKLELQLLEIAQREET 111 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~---~~~~~~L~~iI~e~~v 111 (178)
+..+|||+|+..+=+++-|.-..--...++... +...+.|.++.++.+.
T Consensus 32 m~~~GIDiGStt~K~Vlld~~~i~~~~~~~tg~~~~~~a~~~l~~~l~~~g~ 83 (293)
T TIGR03192 32 IITCGIDVGSVSSQAVLVCDGELYGYNSMRTGNNSPDSAKNALQGIMDKIGM 83 (293)
T ss_pred cEEEEEEeCchhEEEEEEeCCEEEEEEeecCCCCHHHHHHHHHHHHHHHcCC
Confidence 468999999999998888842111112222111 2234566666666653
No 205
>PRK13410 molecular chaperone DnaK; Provisional
Probab=24.86 E-value=60 Score=31.87 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=16.9
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
+.++|||+|+...-||+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (668)
T PRK13410 2 GRIVGIDLGTTNSVVAVME 20 (668)
T ss_pred CcEEEEEeCCCcEEEEEEE
Confidence 4699999999999999876
No 206
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=24.63 E-value=1.8e+02 Score=21.25 Aligned_cols=41 Identities=12% Similarity=0.024 Sum_probs=22.9
Q ss_pred CCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 111 TDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 111 v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.|.||+|-|....|... ...++.|.++|...- ..|.++..+
T Consensus 46 ~d~iilgspty~~g~~p--~~~~~~f~~~l~~~~-~~gk~~~vf 86 (140)
T TIGR01753 46 YDAVLLGCSTWGDEDLE--QDDFEPFFEELEDID-LGGKKVALF 86 (140)
T ss_pred CCEEEEEcCCCCCCCCC--cchHHHHHHHhhhCC-CCCCEEEEE
Confidence 67888888876656443 245556666665431 124455444
No 207
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=24.44 E-value=58 Score=22.62 Aligned_cols=28 Identities=18% Similarity=0.038 Sum_probs=19.5
Q ss_pred CCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 126 ETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 126 e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
.-|..++|++|+++|.+.+ .....||+-
T Consensus 26 nmp~h~eV~~F~~~l~~~~-----~y~i~~e~~ 53 (62)
T PF08608_consen 26 NMPWHEEVLDFAEELAELL-----GYEITDEHE 53 (62)
T ss_dssp GS--HHHHHHHHHHHHTTS-----TEEEEEEEC
T ss_pred CCCcHHHHHHHHHHHHhhc-----CCEEEeccc
Confidence 4578999999999999764 355566654
No 208
>cd01836 FeeA_FeeB_like SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it turn are loaded onto the acyl carrier protein FeeL. 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=24.32 E-value=3.3e+02 Score=20.90 Aligned_cols=57 Identities=12% Similarity=0.056 Sum_probs=30.1
Q ss_pred HHHHHHHHHHH--cCCCEEEEeecCCCCCCC--C----HHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQR--EETDEFIIGLPKSWDGSE--T----PQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e--~~v~~IVVGLPl~mdG~e--~----~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.+..+.+.+++ -++..+|++.|--..... . ...+.+++|-+.+++...+. -.+.++|
T Consensus 92 ~l~~li~~i~~~~~~~~iiv~~~p~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~-~~~~~id 156 (191)
T cd01836 92 QLAELVDALRAKFPGARVVVTAVPPLGRFPALPQPLRWLLGRRARLLNRALERLASEA-PRVTLLP 156 (191)
T ss_pred HHHHHHHHHHhhCCCCEEEEECCCCcccCCCCcHHHHHHHHHHHHHHHHHHHHHHhcC-CCeEEEe
Confidence 44566666666 456677778764321111 1 12345566666666665432 2566666
No 209
>PF01385 OrfB_IS605: Probable transposase; InterPro: IPR001959 This entry represents a conserved region of a probable transposase family, which is found in a number of uncharacterised bacterial proteins. A novel insertion sequence (IS)-like element of the Bacillus PS3 (Thermophilic bacterium PS-3) that promotes expression of the alanine carrier protein-encoding gene belongs to this entry, including IS891 [], IS1136 [], and IS1341 []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=24.23 E-value=47 Score=26.34 Aligned_cols=21 Identities=29% Similarity=0.332 Sum_probs=16.9
Q ss_pred CCceEEEEecCCceEEEEeec
Q 030392 61 RGGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 61 ~~~rILgLD~G~KRIGVAiSD 81 (178)
..+.++|||+|.+..-++.++
T Consensus 122 ~~~~~vgVDlGi~~~a~~~~~ 142 (227)
T PF01385_consen 122 DTEKVVGVDLGIKNLATVSSG 142 (227)
T ss_pred ccceeeeeccccceeeccccc
Confidence 357899999999999765554
No 210
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=24.16 E-value=4e+02 Score=23.43 Aligned_cols=53 Identities=15% Similarity=0.116 Sum_probs=38.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
...-++.+..++.++|+|++=-|+-...+ .+.+.++-+.+.+.. ++|+++++=
T Consensus 86 ~eai~lak~a~~~Gad~il~v~PyY~k~~----~~gl~~hf~~ia~a~---~lPvilYN~ 138 (299)
T COG0329 86 AEAIELAKHAEKLGADGILVVPPYYNKPS----QEGLYAHFKAIAEAV---DLPVILYNI 138 (299)
T ss_pred HHHHHHHHHHHhcCCCEEEEeCCCCcCCC----hHHHHHHHHHHHHhc---CCCEEEEeC
Confidence 45568999999999999999999875555 333444445555554 589999984
No 211
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=24.10 E-value=2.7e+02 Score=23.17 Aligned_cols=55 Identities=11% Similarity=0.180 Sum_probs=41.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.+...+.+++.+-..+.+|+-.=.| .+.....+++..|.+.|++.-|+ .||+++.
T Consensus 46 ~le~~~a~~ia~~~a~~~~ld~~~N--~~~~~~~~~~~~fv~~iR~~hP~--tPIllv~ 100 (178)
T PF14606_consen 46 KLEPEVADLIAEIDADLIVLDCGPN--MSPEEFRERLDGFVKTIREAHPD--TPILLVS 100 (178)
T ss_dssp S--HHHHHHHHHS--SEEEEEESHH--CCTTTHHHHHHHHHHHHHTT-SS--S-EEEEE
T ss_pred ccCHHHHHHHhcCCCCEEEEEeecC--CCHHHHHHHHHHHHHHHHHhCCC--CCEEEEe
Confidence 4566888999999999999988766 46668899999999999988765 6999886
No 212
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; 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=24.06 E-value=1.7e+02 Score=22.31 Aligned_cols=23 Identities=9% Similarity=0.286 Sum_probs=15.2
Q ss_pred HHHHHHHHHHH--cCCCEEEEeecC
Q 030392 98 LELQLLEIAQR--EETDEFIIGLPK 120 (178)
Q Consensus 98 ~~~~L~~iI~e--~~v~~IVVGLPl 120 (178)
.++.+.+.+++ .++..+++|.|-
T Consensus 82 ~~~~li~~i~~~~~~~~iv~~~~~~ 106 (189)
T cd01825 82 QLREFIKRLRQILPNASILLVGPPD 106 (189)
T ss_pred HHHHHHHHHHHHCCCCeEEEEcCCc
Confidence 34555555666 467788899874
No 213
>cd06097 Aspergillopepsin_like Aspergillopepsin_like, aspartic proteases of fungal origin. The members of this family are aspartic proteases of fungal origin, including aspergillopepsin, rhizopuspepsin, endothiapepsin, and rodosporapepsin. The various fungal species in this family may be the most economically important genus of fungi. They may serve as virulence factors or as industrial aids. For example, Aspergillopepsin from A. fumigatus is involved in invasive aspergillosis owing to its elastolytic activity and Aspergillopepsins from the mold A. saitoi are used in fermentation industry. Aspartic proteinases are a group of proteolytic enzymes in which the scissile peptide bond is attacked by a nucleophilic water molecule activated by two aspartic residues in a DT(S)G motif at the active site. They have a similar fold composed of two beta-barrel domains. Between the N-terminal and C-terminal domains, each of which contributes one catalytic aspartic residue, there is an extended active-
Probab=24.02 E-value=56 Score=27.38 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=13.5
Q ss_pred ceEEEEecCCceEEEE
Q 030392 63 GFSLGVDLGLSRTGLA 78 (178)
Q Consensus 63 ~rILgLD~G~KRIGVA 78 (178)
+....+|++.+|||+|
T Consensus 262 ~~y~vfD~~~~~ig~A 277 (278)
T cd06097 262 AQYVVFDVGGPKLGFA 277 (278)
T ss_pred ceeEEEcCCCceeeec
Confidence 4456699999999998
No 214
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=24.01 E-value=1.5e+02 Score=23.81 Aligned_cols=38 Identities=11% Similarity=0.190 Sum_probs=23.7
Q ss_pred CCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 111 TDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 111 v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
.|.||+|-|....+- ...++.|.++....+. +.+|.++
T Consensus 47 yD~vIlGspi~~G~~----~~~~~~fl~~~~~~l~--~K~v~~F 84 (177)
T PRK11104 47 YDRVVIGASIRYGHF----HSALYKFVKKHATQLN--QMPSAFF 84 (177)
T ss_pred CCEEEEECccccCCc----CHHHHHHHHHHHHHhC--CCeEEEE
Confidence 578999999863332 4566777766655553 3455544
No 215
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=23.98 E-value=64 Score=31.02 Aligned_cols=18 Identities=28% Similarity=0.529 Sum_probs=16.1
Q ss_pred eEEEEecCCceEEEEeec
Q 030392 64 FSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD 81 (178)
.++|||+|+...-+|+.+
T Consensus 3 ~viGIDlGTt~s~va~~~ 20 (627)
T PRK00290 3 KIIGIDLGTTNSCVAVME 20 (627)
T ss_pred cEEEEEeCcccEEEEEEE
Confidence 589999999999898875
No 216
>COG3703 ChaC Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]
Probab=23.97 E-value=83 Score=26.80 Aligned_cols=20 Identities=40% Similarity=0.526 Sum_probs=18.1
Q ss_pred CceEEEEecCCceEEEEeec
Q 030392 62 GGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD 81 (178)
.|.+||+|.|...+|||.--
T Consensus 57 PGlvl~L~~GGsc~GvafRi 76 (190)
T COG3703 57 PGLVLGLDRGGSCEGVAYRI 76 (190)
T ss_pred CceEEEeeCCCcEEEEEEEc
Confidence 48999999999999999864
No 217
>PRK13929 rod-share determining protein MreBH; Provisional
Probab=23.94 E-value=4.9e+02 Score=22.77 Aligned_cols=64 Identities=16% Similarity=0.168 Sum_probs=32.9
Q ss_pred eEEEEecCCceEEEEeec-CC-cccccEEEEc-cChh--HH-HHHHHHHHHcCCCEEEEeecCCCCCCCCHH
Q 030392 64 FSLGVDLGLSRTGLALSK-GF-CVRPLTVLKL-RGEK--LE-LQLLEIAQREETDEFIIGLPKSWDGSETPQ 129 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD-~~-~A~Pl~tI~~-~~~~--~~-~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~ 129 (178)
+.+|||+|+..+=|...+ +. .-.|=-+... ++.+ .+ ++-.+. ....++.+++-.|+. +|...+.
T Consensus 5 ~~~giDlGt~~~~i~~~~~~~~~~~ps~va~~~~~~~~~~vG~~A~~~-~~~~p~~~~~~~pi~-~G~I~d~ 74 (335)
T PRK13929 5 TEIGIDLGTANILVYSKNKGIILNEPSVVAVDTETKAVLAIGTEAKNM-IGKTPGKIVAVRPMK-DGVIADY 74 (335)
T ss_pred CeEEEEcccccEEEEECCCcEEecCCcEEEEECCCCeEEEeCHHHHHh-hhcCCCcEEEEecCC-CCccCCH
Confidence 468999999999765433 32 2223222211 1111 11 111222 224577777779995 6765543
No 218
>PRK10812 putative DNAse; Provisional
Probab=23.89 E-value=2.4e+02 Score=24.29 Aligned_cols=56 Identities=16% Similarity=0.086 Sum_probs=33.7
Q ss_pred hHHHHHHHHHHHcCCCEE-EEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 97 KLELQLLEIAQREETDEF-IIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~I-VVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..++.|.+++++.++.+| =|||....+... .....+-|-..|+-.. +.++||.+--
T Consensus 75 ~~~~~l~~~~~~~~vvaIGEiGLD~~~~~~~--~~~Q~~vf~~ql~lA~-e~~~Pv~iH~ 131 (265)
T PRK10812 75 YDVEELRRLAAEEGVVAMGETGLDYYYTPET--KVRQQESFRHHIQIGR-ELNKPVIVHT 131 (265)
T ss_pred hHHHHHHHHhcCCCEEEEEeeecCcCCCCCC--HHHHHHHHHHHHHHHH-HhCCCeEEEe
Confidence 456778888876666677 789998643322 3344444544444332 2378888763
No 219
>PTZ00285 glucosamine-6-phosphate isomerase; Provisional
Probab=23.88 E-value=1.7e+02 Score=24.78 Aligned_cols=68 Identities=12% Similarity=0.162 Sum_probs=35.1
Q ss_pred HHHHHHHHHH---cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHH-HhccCCCcEEEEcCCC-chhhhHHHHHHhh
Q 030392 99 ELQLLEIAQR---EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV-RAAERSFSDILITAIF-SFSCHFAIFFTVL 171 (178)
Q Consensus 99 ~~~L~~iI~e---~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~-~~~~~glpV~lvDERl-STs~~~a~~~~~~ 171 (178)
.+.+.+.+++ .+=+.+++++| |.-++ ...-+.+++...+ .+.-..+-|++.|||+ =...|-.++|-.+
T Consensus 17 a~~i~~~i~~~~~~~~~~~~i~ls----gG~tP-~~~y~~L~~~~~~~~i~w~~v~if~~DEr~~Vp~~~~~Sn~~~~ 89 (253)
T PTZ00285 17 SNYIIKRINDFKPTSDRPFVLGLP----TGSTP-LPTYQELIRAYREGRVSFSNVVTFNMDEYVGLPRDHPQSYHYFM 89 (253)
T ss_pred HHHHHHHHHHHhhhcCCCeEEEEc----CCCCH-HHHHHHHHHHHhhcCCchhHeEEECCcEEecCCCCchHHHHHHH
Confidence 3455555554 23346888888 44444 2223333332211 1222346799999998 3445555555443
No 220
>PRK07505 hypothetical protein; Provisional
Probab=23.75 E-value=2.5e+02 Score=24.82 Aligned_cols=52 Identities=13% Similarity=0.018 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+++.+.+.+.+ +...+|+--|.+..|..-+. +.++ +|.+++ | -+..+||-++
T Consensus 168 d~~~l~~~~~~-~~~~~vl~~p~~~~G~~~~~-~~i~----~l~~~~---~-~~li~DEa~~ 219 (402)
T PRK07505 168 DLDALEDICKT-NKTVAYVADGVYSMGGIAPV-KELL----RLQEKY---G-LFLYIDDAHG 219 (402)
T ss_pred CHHHHHHHHhc-CCCEEEEEecccccCCcCCH-HHHH----HHHHHc---C-CEEEEECccc
Confidence 55677777754 35789999999888877662 3333 344443 2 4889999974
No 221
>COG1855 ATPase (PilT family) [General function prediction only]
Probab=23.71 E-value=3e+02 Score=27.13 Aligned_cols=73 Identities=29% Similarity=0.289 Sum_probs=43.0
Q ss_pred EEEecCCceEEEE---eecCC--cc-cccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHH
Q 030392 66 LGVDLGLSRTGLA---LSKGF--CV-RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (178)
Q Consensus 66 LgLD~G~KRIGVA---iSD~~--~A-~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~ 139 (178)
.-+-++.-||-+| +||++ +| +|.--+.-....+-++|.+-+++..=..+|-|-|= .|+ + -||+.
T Consensus 213 tVvQlrn~RIvIarPPfSd~~EITavRPvvk~~ledY~L~dkl~eRL~eraeGILIAG~PG--aGK----s----TFaqA 282 (604)
T COG1855 213 TVVQLRNYRIVIARPPFSDRWEITAVRPVVKLSLEDYGLSDKLKERLEERAEGILIAGAPG--AGK----S----TFAQA 282 (604)
T ss_pred eEEEeccEEEEEecCCCCCceEEEEEeeeEEechhhcCCCHHHHHHHHhhhcceEEecCCC--CCh----h----HHHHH
Confidence 4567788888877 46653 33 66654433233455677777777655666777773 233 1 25666
Q ss_pred HHHHhccCC
Q 030392 140 LAVRAAERS 148 (178)
Q Consensus 140 L~~~~~~~g 148 (178)
|++.|.+.|
T Consensus 283 lAefy~~~G 291 (604)
T COG1855 283 LAEFYASQG 291 (604)
T ss_pred HHHHHHhcC
Confidence 666665544
No 222
>TIGR00502 nagB glucosamine-6-phosphate isomerase. The set of proteins recognized by this model includes a closely related pair from Bacillus subtilis, one of which is uncharacterized but included as a member of the orthologous set.
Probab=23.69 E-value=2.4e+02 Score=23.90 Aligned_cols=69 Identities=10% Similarity=0.169 Sum_probs=37.9
Q ss_pred HHHHHHHHHHH-c--CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHH-HHhccCCCcEEEEcCCC-chhhhHHHHHHhh
Q 030392 98 LELQLLEIAQR-E--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA-VRAAERSFSDILITAIF-SFSCHFAIFFTVL 171 (178)
Q Consensus 98 ~~~~L~~iI~e-~--~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~-~~~~~~glpV~lvDERl-STs~~~a~~~~~~ 171 (178)
..+.+.+.+++ . +-+.++|++| |..+|. ..-+.+++... ..++-.++-|++.|||+ =+..|..++|-.+
T Consensus 16 ~a~~i~~~i~~~~~~~~~~~~i~ls----gGstP~-~~y~~L~~~~~~~~i~w~~v~~f~~DEr~~vp~~~~~Sn~~~~ 89 (259)
T TIGR00502 16 AARHIANRINEFKPTAARPFVLGLP----TGGTPI-GTYKQLIELHQAGKISFQNVTTFNMDEYAGLSEEHPESYHSFM 89 (259)
T ss_pred HHHHHHHHHHHhCccccCceEEEEc----CCCChH-HHHHHHHHHhhccCCchhHeEEEeCeecCCCCCCchHHHHHHH
Confidence 34566666666 2 2456889987 444442 22233333211 11222356799999997 6666666665544
No 223
>PLN03026 histidinol-phosphate aminotransferase; Provisional
Probab=23.58 E-value=1.7e+02 Score=25.91 Aligned_cols=52 Identities=10% Similarity=0.170 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.+.++..+++.|++-.|-|..|..-+. +.++++++. . -++.+||.|.
T Consensus 163 d~~~l~~~~~~~~~~~v~l~~P~NPTG~~~~~-~~l~~l~~~--------~-~~vi~DeaY~ 214 (380)
T PLN03026 163 DVPRIVEAVETHKPKLLFLTSPNNPDGSIISD-DDLLKILEL--------P-ILVVLDEAYI 214 (380)
T ss_pred CHHHHHHHHhccCCcEEEEeCCCCCCCCCCCH-HHHHHHHhc--------C-CEEEEECcch
Confidence 45677777766789999999999999987654 333444321 1 3788999984
No 224
>cd06542 GH18_EndoS-like Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain. Some members also have an additional C-terminal glycosyl hydrolase family 20 (GH20) domain while others have an N-terminal domain of unknown function (pfam08522). Members of this family include endo-beta-N-acetylglucosaminidase S (EndoS) from Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and EndoH from Flavobacterium meningosepticum, and EndoE from Enterococcus faecalis. EndoS is a secreted endoglycosidase from Streptococcus pyogenes that specifically hydrolyzes the glycan on human IgG between two core N-acetylglucosamine residues. EndoE is a secreted endoglycosidase, encoded by the ndoE gene in Enterococcus faecalis, that hydrolyzes the glycan on human RNase B.
Probab=23.44 E-value=4e+02 Score=22.08 Aligned_cols=51 Identities=10% Similarity=0.062 Sum_probs=35.8
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCC---CCCCHHHHHHHHHHHHHHHHhcc
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWD---GSETPQSNKVRSVAGRLAVRAAE 146 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~md---G~e~~~a~~Vr~Fa~~L~~~~~~ 146 (178)
++.+..+.+++++++.|+|-|-+=.... |......+....|+++|+++++.
T Consensus 90 ~~fa~~l~~~v~~yglDGiDiD~E~~~~~~~~~~~~~~~~~~~lv~~Lr~~~~~ 143 (255)
T cd06542 90 KAYAKAIVDTVDKYGLDGVDFDDEYSGYGKNGTSQPSNEAFVRLIKELRKYMGP 143 (255)
T ss_pred HHHHHHHHHHHHHhCCCceEEeeeecccCCCCCCcchHHHHHHHHHHHHHHhCc
Confidence 4567899999999999999996532211 11123456677889999988853
No 225
>PRK02731 histidinol-phosphate aminotransferase; Validated
Probab=23.31 E-value=1.2e+02 Score=26.20 Aligned_cols=54 Identities=13% Similarity=0.162 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.+.+.+. .++..|++-.|-+..|..-+.. +++++++..+ .+ -++++||.|.
T Consensus 143 ~~~~l~~~~~-~~~~~v~l~~p~nptG~~~~~~-~l~~l~~~~~-----~~-~~li~De~y~ 196 (367)
T PRK02731 143 DLDAMLAAVT-PRTRLVFIANPNNPTGTYLPAE-EVERFLAGVP-----PD-VLVVLDEAYA 196 (367)
T ss_pred CHHHHHHHhC-CCCcEEEEeCCCCCCCcCCCHH-HHHHHHHhCC-----CC-cEEEEECcHH
Confidence 4567777665 4788899999999999876643 4455544321 12 2688899875
No 226
>TIGR02400 trehalose_OtsA alpha,alpha-trehalose-phosphate synthase [UDP-forming]. This enzyme catalyzes the key, penultimate step in biosynthesis of trehalose, a compatible solute made as an osmoprotectant in some species in all three domains of life. The gene symbol OtsA stands for osmotically regulated trehalose synthesis A. Trehalose helps protect against both osmotic and thermal stresses, and is made from two glucose subunits. This model excludes glucosylglycerol-phosphate synthase, an enzyme of an analogous osmoprotectant system in many cyanobacterial strains. This model does not identify archaeal examples, as they are more divergent than glucosylglycerol-phosphate synthase. Sequences that score in the gray zone between the trusted and noise cutoffs include a number of yeast multidomain proteins in which the N-terminal domain may be functionally equivalent to this family. The gray zone also includes the OtsA of Cornyebacterium glutamicum (and related species), shown to be responsib
Probab=23.30 E-value=4.1e+02 Score=24.77 Aligned_cols=69 Identities=14% Similarity=0.120 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHc-----CCCEEEEeecCCCCCCC-CHHHHHHHHHHHHHHHHhccCC-CcEEEEcCCCchhhhHHH
Q 030392 98 LELQLLEIAQRE-----ETDEFIIGLPKSWDGSE-TPQSNKVRSVAGRLAVRAAERS-FSDILITAIFSFSCHFAI 166 (178)
Q Consensus 98 ~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e-~~~a~~Vr~Fa~~L~~~~~~~g-lpV~lvDERlSTs~~~a~ 166 (178)
.++.+.++.+++ ++..++||-|..-+|.+ .+..+.+++.+.++..++...+ .||++....++.....|+
T Consensus 277 ll~A~~~ll~~~p~~~~~v~Lv~v~~p~rg~~~~~~~l~~~i~~lv~~in~~~~~~~~~pv~~l~~~~~~~el~al 352 (456)
T TIGR02400 277 RLLAFERFLEEHPEWRGKVVLVQIAVPSRGDVPEYQQLRRQVEELVGRINGRFGTLDWTPIRYLNRSYDREELMAL 352 (456)
T ss_pred HHHHHHHHHHhCccccCceEEEEEecCCccCchHHHHHHHHHHHHHHHHHhccCCCCCccEEEEcCCCCHHHHHHH
Confidence 456677766654 24477889997644432 2334444554444444432222 368887776665555444
No 227
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, 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 from other serine hydrolases, but may lack the carboxlic acid.
Probab=23.26 E-value=3.4e+02 Score=20.67 Aligned_cols=55 Identities=16% Similarity=0.038 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCC----CHHHHHHHHHHHHHHHHhccCCCcE
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSE----TPQSNKVRSVAGRLAVRAAERSFSD 151 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e----~~~a~~Vr~Fa~~L~~~~~~~glpV 151 (178)
+.++.+.+.+++.++..|+++.|-..+... +.....+.+|.+.+++...+.++++
T Consensus 83 ~~~~~li~~~~~~~~~~il~~~~p~~~~~~~~~~~~~~~~~~~~n~~~~~~a~~~~v~~ 141 (183)
T cd04501 83 DNIRSMVELAEANGIKVILASPLPVDDYPWKPQWLRPANKLKSLNRWLKDYARENGLLF 141 (183)
T ss_pred HHHHHHHHHHHHCCCcEEEEeCCCcCccccchhhcchHHHHHHHHHHHHHHHHHcCCCE
Confidence 345667777778888877777553211111 1223556666666665554444443
No 228
>TIGR00604 rad3 DNA repair helicase (rad3). All proteins in this family for which funcitons are known are DNA-DNA helicases that funciton in the initiation of transcription and nucleotide excision repair as part of the TFIIH complex. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=23.25 E-value=1.1e+02 Score=29.93 Aligned_cols=15 Identities=20% Similarity=0.142 Sum_probs=11.8
Q ss_pred cEEEEcCCCchhhhH
Q 030392 150 SDILITAIFSFSCHF 164 (178)
Q Consensus 150 pV~lvDERlSTs~~~ 164 (178)
-|++.|+||++....
T Consensus 667 ~iillD~R~~~~~~~ 681 (705)
T TIGR00604 667 SIVLLDKRYARSNKR 681 (705)
T ss_pred EEEEEehhcCCcchh
Confidence 499999999875543
No 229
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=23.20 E-value=76 Score=31.18 Aligned_cols=19 Identities=37% Similarity=0.511 Sum_probs=17.3
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
+.++|||+|+...-||+.+
T Consensus 27 ~~viGIDLGTTnS~vA~~~ 45 (657)
T PTZ00186 27 GDVIGVDLGTTYSCVATMD 45 (657)
T ss_pred ceEEEEEeCcCeEEEEEEe
Confidence 5799999999999999987
No 230
>PRK08153 histidinol-phosphate aminotransferase; Provisional
Probab=23.07 E-value=1.4e+02 Score=26.22 Aligned_cols=56 Identities=20% Similarity=0.205 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+++.+.+.+.+.+++.|++=.|-|.-|..-+.. +.+++++.. +. +. +..+||.|+-
T Consensus 143 ~~~~l~~~~~~~~~~~i~l~~P~NPtG~~~~~~-~l~~l~~~~----~~-~~-~lI~DE~y~~ 198 (369)
T PRK08153 143 DLDALLDAARRENAPLVYLANPDNPMGSWHPAA-DIVAFIEAL----PE-TT-LLVLDEAYCE 198 (369)
T ss_pred CHHHHHHHhcccCCcEEEEeCCCCCCCCCCCHH-HHHHHHHhC----CC-Cc-EEEEeCchhh
Confidence 445666556567888998888988888866544 344444432 22 33 6778999853
No 231
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=23.01 E-value=3.8e+02 Score=21.53 Aligned_cols=45 Identities=18% Similarity=0.270 Sum_probs=26.7
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
..+..+ .+ ++|+||+. |.+ ......+.+.+.+ .|+||+++|...+
T Consensus 50 ~~i~~~-~~-~vdgiii~-~~~--------~~~~~~~i~~~~~----~~ipvV~~~~~~~ 94 (275)
T cd06307 50 AALLRL-GA-RSDGVALV-APD--------HPQVRAAVARLAA----AGVPVVTLVSDLP 94 (275)
T ss_pred HHHHHH-Hh-cCCEEEEe-CCC--------cHHHHHHHHHHHH----CCCcEEEEeCCCC
Confidence 445454 45 89999984 433 1112334455553 2789999987653
No 232
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=22.99 E-value=6.2e+02 Score=23.56 Aligned_cols=95 Identities=15% Similarity=0.057 Sum_probs=60.5
Q ss_pred ceEEEEecCCceEEEEeecCCc-ccccE-EEEcc-------ChhHHHHHHHHHHHc-CCCEEEEeecCCCCCCCCHHHHH
Q 030392 63 GFSLGVDLGLSRTGLALSKGFC-VRPLT-VLKLR-------GEKLELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQSNK 132 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~~-A~Pl~-tI~~~-------~~~~~~~L~~iI~e~-~v~~IVVGLPl~mdG~e~~~a~~ 132 (178)
--++++|.|..-|++=-.-++. -.... ..+.+ ..+.+..+.+.++++ +++.|||.-|- ..
T Consensus 134 ~~~v~~degea~i~iv~~ygi~~~~~i~~~~~gK~~~~~~~~~k~~~~i~~~~~~~~~~~~iIvaGPG----------F~ 203 (352)
T COG1537 134 VAIVVVDEGEAAIAIVRDYGIIILGKIRSGIPGKREGDIRAERKFFDEIAKALKEYANLDIIIVAGPG----------FA 203 (352)
T ss_pred eEEEEEecCceEEEEEeccceEEEEEEeccCCCCcccchhhHHHHHHHHHHHHHHhhCCCeEEEeCCc----------hH
Confidence 4678999999999986655541 11111 11011 125677888888888 99999998882 34
Q ss_pred HHHHHHHHHHHhccCCCc-EEEEcCCCchhhhHHHHHHhhc
Q 030392 133 VRSVAGRLAVRAAERSFS-DILITAIFSFSCHFAIFFTVLN 172 (178)
Q Consensus 133 Vr~Fa~~L~~~~~~~glp-V~lvDERlSTs~~~a~~~~~~~ 172 (178)
...|+..+.+++|+ ++ ++..| +|+...|-+|-+|-
T Consensus 204 k~~~~~~~~~~~p~--~~~~~~~~---~s~~g~~gi~EvLk 239 (352)
T COG1537 204 KEDFYDFLRERYPE--LANIVIED---TSTGGRAGINEVLK 239 (352)
T ss_pred HHHHHHHHHHhccc--ccceEEEe---ccCcchHHHHHHHh
Confidence 56788889988865 33 55544 33445555666554
No 233
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=22.98 E-value=1.6e+02 Score=25.79 Aligned_cols=58 Identities=22% Similarity=0.351 Sum_probs=36.1
Q ss_pred cccccEEEEccChhHHHHHHHHHHHcC--CCEEEEeecCCCC-CCCCHHHHHHHHHHHHHHHHhc
Q 030392 84 CVRPLTVLKLRGEKLELQLLEIAQREE--TDEFIIGLPKSWD-GSETPQSNKVRSVAGRLAVRAA 145 (178)
Q Consensus 84 ~A~Pl~tI~~~~~~~~~~L~~iI~e~~--v~~IVVGLPl~md-G~e~~~a~~Vr~Fa~~L~~~~~ 145 (178)
..+|+-+++ + .-.+.|.+.++++. .+.|+||.|+-.. |.+ +..+.++++++.|.+.++
T Consensus 76 ~VQplhiip--G-~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~-~~~~D~~~va~aL~~~~~ 136 (262)
T PF06180_consen 76 VVQPLHIIP--G-EEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQE-NSPEDYEAVAEALAEEFP 136 (262)
T ss_dssp EEEE--SCS--S-HHHHHHHHHHHHHCCCSSEEEEE--SCSS------SHHHHHHHHHHHHCCS-
T ss_pred EEeecceeC--c-HhHHHHHHHHHHhhccCCeEEeccccccccccc-CChHHHHHHHHHHHHhcc
Confidence 357776664 2 33466777777765 4799999998653 655 778899999999998776
No 234
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=22.95 E-value=73 Score=30.82 Aligned_cols=19 Identities=21% Similarity=0.574 Sum_probs=16.8
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
..++|||+|+....||+..
T Consensus 19 ~~viGIDlGTT~S~va~~~ 37 (595)
T PRK01433 19 QIAVGIDFGTTNSLIAIAT 37 (595)
T ss_pred ceEEEEEcCcccEEEEEEe
Confidence 3689999999999999975
No 235
>TIGR00671 baf pantothenate kinase, type III. This model describes a family of proteins found in a single copy in at least ten different early completed bacterial genomes. The only characterized member of the family is Bvg accessory factor (Baf), a protein required, in addition to the regulatory operon bvgAS, for heterologous transcription of the Bordetella pertussis toxin operon (ptx) in E. coli.
Probab=22.91 E-value=2.9e+02 Score=23.49 Aligned_cols=52 Identities=23% Similarity=0.251 Sum_probs=29.5
Q ss_pred EEEEecCCceEEEEeecCCcccccEEEE---ccC-hhHHHHHHHHHHHcCCCEEEEe
Q 030392 65 SLGVDLGLSRTGLALSKGFCVRPLTVLK---LRG-EKLELQLLEIAQREETDEFIIG 117 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD~~~A~Pl~tI~---~~~-~~~~~~L~~iI~e~~v~~IVVG 117 (178)
.|++|+|..+|=+|+-|+-.....-.+. .+. +.....|..++.+ +++.+++.
T Consensus 1 ~L~iDiGNT~i~~g~~~~~~~~~~~r~~t~~~~t~de~~~~l~~~~~~-~i~~v~vs 56 (243)
T TIGR00671 1 LLLIDVGNTRIVFALNSGNKVYQFWRLATNLMKTYDEHSEFLKELFGK-SLNKAFIS 56 (243)
T ss_pred CEEEEECCCcEEEEEEECCEEEEEEEecCCCccChHHHHHHHHHHHHh-hCCEEEEE
Confidence 3789999999999998752111111111 111 2233456666655 47777765
No 236
>KOG0968 consensus DNA polymerase zeta, catalytic subunit [Replication, recombination and repair]
Probab=22.90 E-value=3e+02 Score=29.91 Aligned_cols=128 Identities=11% Similarity=0.098 Sum_probs=73.9
Q ss_pred cccCccccccccccccccccchhccc--cCCCCCC--ceEEEEecC--------CceEEEEeec---CCc---------c
Q 030392 30 RTRNFGQRIGALSSVEEFLPNATRRK--KDSLWRG--GFSLGVDLG--------LSRTGLALSK---GFC---------V 85 (178)
Q Consensus 30 ~~~~~~~~~~~~~s~~~~~~na~~~~--~~~~~~~--~rILgLD~G--------~KRIGVAiSD---~~~---------A 85 (178)
-...-+|.+.-+ |+|.- ..+|.- +||.+.. .-+++++=- ..++||+|-| +-. +
T Consensus 650 ~~~~~~~~Lt~l-siElh--a~sr~dl~PDP~~D~V~~l~~~vq~dtp~pd~~si~~~gv~Vv~~~~~ds~~~t~~~~~~ 726 (1488)
T KOG0968|consen 650 KPVEQTQLLTIL-SIELH--ATSRGDLEPDPVFDSVASLFLCVQEDTPMPDADSIVSVGVIVVDKVCPDSHVQTTTLGGI 726 (1488)
T ss_pred ccccccceeeee-eeecc--ccccCCCCCCcccccchhhhhhhccCCCCCcccceeeeeEEEEeccCccccccccccCCc
Confidence 334445555544 56543 334433 3443322 223454433 7899999998 211 1
Q ss_pred cccEEEEccC-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccC---CCcEEEEcCC---C
Q 030392 86 RPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAER---SFSDILITAI---F 158 (178)
Q Consensus 86 ~Pl~tI~~~~-~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~---glpV~lvDER---l 158 (178)
....+..... ..+++++.+++.+|.|| |++|+=.+ +++-|-..+++..+.-.|-..+... ......=||| +
T Consensus 727 ~~~~V~~~~sE~elf~ev~~~i~q~DPD-Il~GyEi~-~~SWGyl~eR~~~l~~di~~~lsRv~~~~~~n~~d~~~ewg~ 804 (1488)
T KOG0968|consen 727 YGCRVVVMESELELFEEVAKLIVQYDPD-ILLGYEIH-NLSWGYLIERAKLLGIDISRDLSRVKCYEKTNESDDEREWGY 804 (1488)
T ss_pred CCceEEEehhHHHHHHHHHHHHHhcCcc-eeeeeeec-ccchHHHHHHHHHhcchHHHHHhcCCChhhhhhhhhhhhccc
Confidence 2333443333 46889999999999998 67899987 5677777777776655554443221 1124445677 5
Q ss_pred chhh
Q 030392 159 SFSC 162 (178)
Q Consensus 159 STs~ 162 (178)
+|.+
T Consensus 805 tt~S 808 (1488)
T KOG0968|consen 805 TTIS 808 (1488)
T ss_pred eeec
Confidence 5554
No 237
>PRK13930 rod shape-determining protein MreB; Provisional
Probab=22.85 E-value=70 Score=27.52 Aligned_cols=17 Identities=29% Similarity=0.485 Sum_probs=13.1
Q ss_pred eEEEEecCCceEEEEee
Q 030392 64 FSLGVDLGLSRTGLALS 80 (178)
Q Consensus 64 rILgLD~G~KRIGVAiS 80 (178)
+.+|||+|+.++-++..
T Consensus 9 ~~vgiDlGt~~t~i~~~ 25 (335)
T PRK13930 9 KDIGIDLGTANTLVYVK 25 (335)
T ss_pred cceEEEcCCCcEEEEEC
Confidence 45999999987776654
No 238
>PF00704 Glyco_hydro_18: Glycosyl hydrolases family 18; InterPro: IPR001223 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Some members of this family, GH18 from CAZY, belong to the chitinase class II group which includes chitinase, chitodextrinase and the killer toxin of Kluyveromyces lactis. The chitinases hydrolyse chitin oligosaccharides. The family also includes various glycoproteins from mammals; cartilage glycoprotein and the oviduct-specific glycoproteins are two examples.; GO: 0004553 hydrolase activity, hydrolyzing O-glycosyl compounds, 0005975 carbohydrate metabolic process; PDB: 1ITX_A 3ALG_A 3ALF_A 1NAR_A 3QOK_A 3G6L_A 3G6M_A 2DT1_A 2B31_A 2O92_A ....
Probab=22.84 E-value=3.6e+02 Score=22.79 Aligned_cols=50 Identities=8% Similarity=0.076 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCC-CCCCHHHHHHHHHHHHHHHHhcc
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWD-GSETPQSNKVRSVAGRLAVRAAE 146 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~md-G~e~~~a~~Vr~Fa~~L~~~~~~ 146 (178)
+..++.|.+++++++.|+|-|=+-.... +. .........|.++|++.+++
T Consensus 101 ~~f~~~i~~~l~~y~~DGidiD~e~~~~~~~-~~~~~~~~~~l~~L~~~l~~ 151 (343)
T PF00704_consen 101 QNFINNIVSFLKKYGFDGIDIDWEYPSSSGD-PQDKDNYTAFLKELRKALKR 151 (343)
T ss_dssp HHHHHHHHHHHHHHT-SEEEEEESSTTSTSS-TTHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhhhhhcccCcceeeeeeeecccccc-chhhhhhhhhhhhhhhhhcc
Confidence 4578899999999999999995554322 22 34567777788888877755
No 239
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=22.81 E-value=2.9e+02 Score=22.81 Aligned_cols=44 Identities=7% Similarity=0.014 Sum_probs=25.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
..+.. +.+.++|+||| .|.+ ........+++++ .|+||+++|-.
T Consensus 47 ~~i~~-l~~~~vdgiIi-~~~~--------~~~~~~~l~~~~~----~giPvV~~~~~ 90 (302)
T TIGR02637 47 EVVNS-LIAQKVDAIAI-SAND--------PDALVPALKKAMK----RGIKVVTWDSG 90 (302)
T ss_pred HHHHH-HHHcCCCEEEE-eCCC--------hHHHHHHHHHHHH----CCCEEEEeCCC
Confidence 34444 44578999999 5642 1122222333432 37899999843
No 240
>PRK05636 replicative DNA helicase; Provisional
Probab=22.64 E-value=2.9e+02 Score=26.39 Aligned_cols=57 Identities=14% Similarity=0.207 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCC-CC-CCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWD-GS-ETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~md-G~-e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
....++++..+++++.|||=+=--|. +. .....+.+-++.+.|+...++.++||+..
T Consensus 363 I~~~~r~~~~~~~~~lvvIDYLql~~~~~~~~~r~~ei~~isr~LK~lAkel~ipVi~l 421 (505)
T PRK05636 363 IRSKARRLKQKHDLKLIVVDYLQLMSSGKRVESRQQEVSEFSRQLKLLAKELDVPLIAI 421 (505)
T ss_pred HHHHHHHHHHhcCCCEEEEcchHhcCCCCCCCcHHHHHHHHHHHHHHHHHHhCCeEEEE
Confidence 34456666678899999997754454 22 12334567777777777766667888764
No 241
>TIGR01368 CPSaseIIsmall carbamoyl-phosphate synthase, small subunit. This model represents the whole of the small chain of the glutamine-dependent form (EC 6.3.5.5) of carbamoyl phosphate synthase, CPSase II. The C-terminal domain has glutamine amidotransferase activity. Note that the sequence from the mammalian urea cycle form has lost the active site Cys, resulting in an ammonia-dependent form, CPSase I (EC 6.3.4.16). CPSases of pyrimidine biosynthesis, arginine biosynthesis, and the urea cycle may be encoded by one or by several genes, depending on the species.
Probab=22.57 E-value=1.6e+02 Score=26.97 Aligned_cols=47 Identities=11% Similarity=0.191 Sum_probs=23.9
Q ss_pred ceEEEEecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHHcCCCEEEE
Q 030392 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFII 116 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVV 116 (178)
.+|+.+|+|.|.- +-+.+......+.........+++ .++.+|+||+
T Consensus 174 ~~i~viD~G~k~n---i~~~L~~~G~~v~vvp~~~~~~~i----~~~~pDGIiL 220 (358)
T TIGR01368 174 KRVVVIDFGVKQN---ILRRLVKRGCEVTVVPYDTDAEEI----KKYNPDGIFL 220 (358)
T ss_pred cEEEEEeCCcHHH---HHHHHHHCCCEEEEEcCCCCHHHH----HhhCCCEEEE
Confidence 3799999998852 322222223322221111122232 3457899988
No 242
>PRK04870 histidinol-phosphate aminotransferase; Provisional
Probab=22.50 E-value=2e+02 Score=24.76 Aligned_cols=53 Identities=8% Similarity=0.090 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.+.+.+.++..+++..|-|..|..-+.. +.++.++.. +. ++.+||.|.
T Consensus 141 d~~~l~~~~~~~~~~~v~l~~p~NPtG~~~~~~-~~~~i~~~~-------~~-~ii~De~y~ 193 (356)
T PRK04870 141 DLPAMLAAIAEHRPALVFLAYPNNPTGNLFDDA-DVERIIEAA-------PG-LVVVDEAYQ 193 (356)
T ss_pred CHHHHHHHhhcCCCCEEEEcCCCCCCCCCCCHH-HHHHHHHHC-------CC-EEEEECCch
Confidence 467888888778899999999988888766533 334433322 22 577899884
No 243
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=22.49 E-value=2.5e+02 Score=25.52 Aligned_cols=23 Identities=39% Similarity=0.533 Sum_probs=19.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCC
Q 030392 99 ELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
.+++.++++++++|.|+|-.|..
T Consensus 177 ~~~l~~~i~~~~id~ViIa~p~~ 199 (445)
T TIGR03025 177 LDDLVELVRAHRVDEVIIALPLS 199 (445)
T ss_pred HHHHHHHHHhCCCCEEEEecCcc
Confidence 46788999999999999998853
No 244
>PRK10534 L-threonine aldolase; Provisional
Probab=22.47 E-value=1.3e+02 Score=25.58 Aligned_cols=53 Identities=8% Similarity=0.041 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHc-----CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 98 LELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 98 ~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
++++|.+.+.++ +.+.|++.-|- +|..-+ .+.++++++..++. ++ +.++||.|
T Consensus 112 d~~~l~~~i~~~~~~~~~~~lv~l~np~--~G~v~~-~~~l~~i~~~~~~~----~~-~lvvDEA~ 169 (333)
T PRK10534 112 PLDKVAAKIKPDDIHFARTRLLSLENTH--NGKVLP-REYLKQAWEFTRER----NL-ALHVDGAR 169 (333)
T ss_pred CHHHHHHhhcccCcCcccceEEEEecCC--CCeecC-HHHHHHHHHHHHHc----CC-eEEeeHHH
Confidence 467777777543 57789999886 477655 34566666655432 22 67799964
No 245
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=22.37 E-value=4.2e+02 Score=23.06 Aligned_cols=51 Identities=10% Similarity=0.160 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
..-++.+.+++.+++++++--|.....+ .+.+.+|-+.+.+.. ++||+++|
T Consensus 89 ~~i~~~~~a~~~Gadav~~~pP~y~~~~----~~~i~~~f~~va~~~---~lpi~lYn 139 (303)
T PRK03620 89 QAIEYAQAAERAGADGILLLPPYLTEAP----QEGLAAHVEAVCKST---DLGVIVYN 139 (303)
T ss_pred HHHHHHHHHHHhCCCEEEECCCCCCCCC----HHHHHHHHHHHHHhC---CCCEEEEc
Confidence 4456777889999999999888754332 466777777787765 57999998
No 246
>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=22.34 E-value=3.1e+02 Score=21.83 Aligned_cols=39 Identities=18% Similarity=0.178 Sum_probs=30.2
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAA 145 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~ 145 (178)
...+.+.+-|++.++|.|+||+..- +=+.|+.+.+++++
T Consensus 88 ~~~~~i~~~I~~~~pdiv~vglG~P----------kQE~~~~~~~~~l~ 126 (172)
T PF03808_consen 88 EEEEAIINRINASGPDIVFVGLGAP----------KQERWIARHRQRLP 126 (172)
T ss_pred hhHHHHHHHHHHcCCCEEEEECCCC----------HHHHHHHHHHHHCC
Confidence 4567899999999999999999743 23467778887764
No 247
>PRK07324 transaminase; Validated
Probab=22.34 E-value=2.3e+02 Score=24.90 Aligned_cols=55 Identities=9% Similarity=0.025 Sum_probs=37.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+.|.+.+. .++..|++-.|-|..|..-+ .+.+++.++..++. ++ ++++||-|+
T Consensus 142 d~~~l~~~~~-~~~kli~i~~p~NPtG~~~~-~~~l~~i~~~a~~~----~~-~ii~De~y~ 196 (373)
T PRK07324 142 DLDELRRLVR-PNTKLICINNANNPTGALMD-RAYLEEIVEIARSV----DA-YVLSDEVYR 196 (373)
T ss_pred CHHHHHHhCC-CCCcEEEEeCCCCCCCCCCC-HHHHHHHHHHHHHC----CC-EEEEEcccc
Confidence 4567777665 36889999999999887654 33445555554432 33 778899764
No 248
>cd06545 GH18_3CO4_chitinase The Bacteroides thetaiotaomicron protein represented by pdb structure 3CO4 is an uncharacterized bacterial member of the family 18 glycosyl hydrolases with homologs found in Flavobacterium, Stigmatella, and Pseudomonas.
Probab=22.34 E-value=3e+02 Score=23.01 Aligned_cols=48 Identities=8% Similarity=-0.042 Sum_probs=34.8
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCC
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERS 148 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~g 148 (178)
++.++.+.+++++++.|+|.|=+..-.. . .+....|.++|++.++..|
T Consensus 85 ~~fi~~lv~~~~~~~~DGIdiDwE~~~~--~---~~~~~~fv~~Lr~~l~~~~ 132 (253)
T cd06545 85 KALVDKIINYVVSYNLDGIDVDLEGPDV--T---FGDYLVFIRALYAALKKEG 132 (253)
T ss_pred HHHHHHHHHHHHHhCCCceeEEeeccCc--c---HhHHHHHHHHHHHHHhhcC
Confidence 3577899999999999999998764321 1 3456678888888875434
No 249
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=22.29 E-value=3.1e+02 Score=19.78 Aligned_cols=53 Identities=8% Similarity=0.066 Sum_probs=27.6
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCC----CHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 100 LQLLEIAQREETDEFIIGLPKSWDGSE----TPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~mdG~e----~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
.++.+.+.+.. ..+++++|-...... ........++.+.+++..+.. .+.++|
T Consensus 92 ~~~i~~~~~~~-~vi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~--~~~~id 148 (179)
T PF13472_consen 92 RRIIEQLRPHG-PVILVSPPPRGPDPRDPKQDYLNRRIDRYNQAIRELAKKY--GVPFID 148 (179)
T ss_dssp HHHHHHHHTTS-EEEEEE-SCSSSSTTTTHTTCHHHHHHHHHHHHHHHHHHC--TEEEEE
T ss_pred HHHHHhhcccC-cEEEecCCCcccccccccchhhhhhHHHHHHHHHHHHHHc--CCEEEE
Confidence 33444444444 778888874332222 235666666666666655443 455554
No 250
>PF05378 Hydant_A_N: Hydantoinase/oxoprolinase N-terminal region; InterPro: IPR008040 This domain is found at the N terminus of the hydantoinase/oxoprolinase IPR002821 from INTERPRO family.
Probab=22.29 E-value=2.1e+02 Score=23.20 Aligned_cols=55 Identities=20% Similarity=0.180 Sum_probs=33.0
Q ss_pred EEEecCCceEEEEeecCC--cccccEEEEc-cC--hhHHHHHHHHHHHc-----CCCEEEEeecC
Q 030392 66 LGVDLGLSRTGLALSKGF--CVRPLTVLKL-RG--EKLELQLLEIAQRE-----ETDEFIIGLPK 120 (178)
Q Consensus 66 LgLD~G~KRIGVAiSD~~--~A~Pl~tI~~-~~--~~~~~~L~~iI~e~-----~v~~IVVGLPl 120 (178)
+|||+|.-.+=..+-|+- ...-.++... .+ .-..+.|.++..++ +++.|++|--.
T Consensus 2 igIDvGGT~TD~v~~d~~~~~~~~~K~~Tt~~d~~~gi~~al~~l~~~~~~~~~~i~~v~~gTT~ 66 (176)
T PF05378_consen 2 IGIDVGGTFTDAVLLDEDTGVVATAKVPTTPDDPAEGILEALDALLEESGIDPSDIDRVRHGTTV 66 (176)
T ss_pred eeEecCCCcEEEEEEeCCCCEEEEEEeCCCCcCHHHHHHHHHHhhhcccCCChhhCcEEEeccHH
Confidence 799999988876666632 2222222211 11 23566788887765 67888887653
No 251
>TIGR00416 sms DNA repair protein RadA. The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).
Probab=22.28 E-value=3.2e+02 Score=25.55 Aligned_cols=59 Identities=14% Similarity=0.125 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeec-----CCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 98 LELQLLEIAQREETDEFIIGLP-----KSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLP-----l~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
.++.|.+.+++++++.+||--= -+.++..+.. .++++++..|.+..++.|+.++++-+-
T Consensus 158 ~~~~I~~~i~~~~~~~vVIDSIq~l~~~~~~~~~g~~-~q~r~~~~~L~~~ak~~giTvllt~hv 221 (454)
T TIGR00416 158 NWEQICANIEEENPQACVIDSIQTLYSPDISSAPGSV-SQVRECTAELMRLAKTRGIAIFIVGHV 221 (454)
T ss_pred CHHHHHHHHHhcCCcEEEEecchhhcccccccCCCCH-HHHHHHHHHHHHHHHHhCCEEEEEecc
Confidence 4567888889999999888621 1112222222 346777777766655668899988543
No 252
>COG3598 RepA RecA-family ATPase [DNA replication, recombination, and repair]
Probab=22.22 E-value=2.9e+02 Score=25.99 Aligned_cols=105 Identities=16% Similarity=0.137 Sum_probs=62.8
Q ss_pred cccccccchhccccCCCCCCceEEEEecCCceEEEEeecCC-cccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCC
Q 030392 43 SVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKS 121 (178)
Q Consensus 43 s~~~~~~na~~~~~~~~~~~~rILgLD~G~KRIGVAiSD~~-~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~ 121 (178)
|+|+-++.+++|..+.. .-|||--|..|. +-+.|-. -|-|-.++. .++.+++..++++-.++.+||--=..
T Consensus 134 slEl~re~~L~Rl~~v~----a~mgLsPadvrn-~dltd~~Gaa~~~d~l~---pkl~rRfek~~~Q~rp~~vViDp~v~ 205 (402)
T COG3598 134 SLELYREDILERLEPVR----ARMGLSPADVRN-MDLTDVSGAADESDVLS---PKLYRRFEKILEQKRPDFVVIDPFVA 205 (402)
T ss_pred EeccChHHHHHHHHHHH----HHcCCChHhhhh-eeccccccCCCcccccc---HHHHHHHHHHHHHhCCCeEEEcchhh
Confidence 67777777776554221 112332232222 1123311 233344442 26778899999999999999854344
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc
Q 030392 122 WDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT 155 (178)
Q Consensus 122 mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD 155 (178)
--+.++-....++.|++.+++.....++-|+|+-
T Consensus 206 f~~G~s~s~vqv~~fi~~~rkla~~l~caIiy~h 239 (402)
T COG3598 206 FYEGKSISDVQVKEFIKKTRKLARNLECAIIYIH 239 (402)
T ss_pred hcCCccchhHHHHHHHHHHHHHHHhcCCeEEEEe
Confidence 4445555568899998888877655567788874
No 253
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=22.22 E-value=1.4e+02 Score=21.44 Aligned_cols=23 Identities=26% Similarity=0.486 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec
Q 030392 97 KLELQLLEIAQREETDEFIIGLP 119 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLP 119 (178)
...+.+.++..++++|.||+|--
T Consensus 100 ~~~~~i~~~a~~~~adliV~G~~ 122 (154)
T COG0589 100 PSAEEILELAEEEDADLIVVGSR 122 (154)
T ss_pred CcHHHHHHHHHHhCCCEEEECCC
Confidence 34688889999999999999975
No 254
>cd01125 repA Hexameric Replicative Helicase RepA. RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.
Probab=22.19 E-value=2.9e+02 Score=22.70 Aligned_cols=60 Identities=18% Similarity=0.115 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCC-C-CCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSW-D-GSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~m-d-G~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
..++.|.+.+...+++.|||- |+.. . +.+.+ ....+.|.+.|++...+.|+.|.++-..-
T Consensus 98 ~~~~~l~~~~~~~~~~lvviD-pl~~~~~~~~~d-~~~~~~~~~~L~~~a~~~g~avl~v~H~~ 159 (239)
T cd01125 98 PEFERIIEQLLIRRIDLVVID-PLVSFHGVSEND-NGAMDAVIKALRRIAAQTGAAILLVHHVR 159 (239)
T ss_pred HHHHHHHHHHHhcCCCEEEEC-ChHHhCCCCcCC-HHHHHHHHHHHHHHHHHhCCEEEEEeccC
Confidence 344566665667899999999 8742 1 11221 23344455555444333467888877654
No 255
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=22.11 E-value=1.6e+02 Score=29.69 Aligned_cols=68 Identities=12% Similarity=0.113 Sum_probs=47.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEe--ecCCC---------------CCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 96 EKLELQLLEIAQREETDEFIIG--LPKSW---------------DGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVG--LPl~m---------------dG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
..++++|.+..+||+|..+|+| +|+-. -+....+-+..++|++.+-.++ |+|..-|+ .|
T Consensus 54 ~~d~~ala~f~~e~~I~lVvvGPE~PL~~Gl~~~l~~~gi~~FGPs~~aAqlE~sK~fsK~fm~r~---~IPTA~y~-~f 129 (788)
T KOG0237|consen 54 VADFEALASFCKEHNINLVVVGPELPLVAGLADVLRSAGIPCFGPSKQAAQLEASKNFSKDFMHRH---NIPTAKYK-TF 129 (788)
T ss_pred hhhHHHHHHHHHHcceeEEEECCchhhhhhhhhhhhccCcceeCchHHHHHhhhhHHHHHHHHHhc---CCCcceee-ee
Confidence 3578999999999999999998 34421 1123456677789999999886 67866553 55
Q ss_pred chhhhHHHH
Q 030392 159 SFSCHFAIF 167 (178)
Q Consensus 159 STs~~~a~~ 167 (178)
|-..+.-.|
T Consensus 130 t~~e~a~sf 138 (788)
T KOG0237|consen 130 TDPEEAKSF 138 (788)
T ss_pred CCHHHHHHH
Confidence 555444444
No 256
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=21.93 E-value=3.6e+02 Score=21.67 Aligned_cols=47 Identities=6% Similarity=0.077 Sum_probs=27.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCC
Q 030392 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIF 158 (178)
Q Consensus 99 ~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERl 158 (178)
...+.+.+..+++|+|||. |.+.+. +....++++ +.|+||+.+|-..
T Consensus 49 ~~~~~~~l~~~~vDgiii~-~~~~~~--------~~~~i~~~~----~~gIpvV~~d~~~ 95 (274)
T cd06311 49 QNAQQDLLINRKIDALVIL-PFESAP--------LTQPVAKAK----KAGIFVVVVDRGL 95 (274)
T ss_pred HHHHHHHHHHcCCCEEEEe-CCCchh--------hHHHHHHHH----HCCCeEEEEcCCC
Confidence 3456665667889999995 543221 112223333 2479999998654
No 257
>TIGR02350 prok_dnaK chaperone protein DnaK. Members of this family are the chaperone DnaK, of the DnaK-DnaJ-GrpE chaperone system. All members of the seed alignment were taken from completely sequenced bacterial or archaeal genomes and (except for Mycoplasma sequence) found clustered with other genes of this systems. This model excludes DnaK homologs that are not DnaK itself, such as the heat shock cognate protein HscA (TIGR01991). However, it is not designed to distinguish among DnaK paralogs in eukaryotes. Note that a number of dnaK genes have shadow ORFs in the same reverse (relative to dnaK) reading frame, a few of which have been assigned glutamate dehydrogenase activity. The significance of this observation is unclear; lengths of such shadow ORFs are highly variable as if the presumptive protein product is not conserved.
Probab=21.76 E-value=73 Score=30.30 Aligned_cols=17 Identities=29% Similarity=0.624 Sum_probs=15.3
Q ss_pred EEEEecCCceEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK 81 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD 81 (178)
++|||+|+...-+|+-+
T Consensus 2 viGIDlGtt~s~va~~~ 18 (595)
T TIGR02350 2 IIGIDLGTTNSCVAVME 18 (595)
T ss_pred EEEEEeCcccEEEEEEE
Confidence 79999999999888875
No 258
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=21.75 E-value=2.7e+02 Score=20.15 Aligned_cols=41 Identities=12% Similarity=0.162 Sum_probs=26.7
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 102 L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...-+++-+++.+|||. |+ .+.+++|++. ..++ .| .|+|+.
T Consensus 5 ~~~~l~~~gv~lv~I~~-----g~----~~~~~~f~~~--~~~p---~~-ly~D~~ 45 (115)
T PF13911_consen 5 RKPELEAAGVKLVVIGC-----GS----PEGIEKFCEL--TGFP---FP-LYVDPE 45 (115)
T ss_pred hHHHHHHcCCeEEEEEc-----CC----HHHHHHHHhc--cCCC---Cc-EEEeCc
Confidence 34556778999999992 33 2238888765 2333 47 778884
No 259
>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family. This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.
Probab=21.74 E-value=3.3e+02 Score=23.06 Aligned_cols=60 Identities=10% Similarity=-0.014 Sum_probs=37.3
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
.....+.+.+++++++.+||= +++.--... ....+++..+|...+++.++.++++.|..+
T Consensus 118 ~l~~~l~~~i~~~~~~~vVID-Sls~l~~~~--~~~~r~~~~~L~~~lk~~~~t~ll~~e~~~ 177 (259)
T TIGR03878 118 NLLATLAYAIKEYKVKNTVID-SITGLYEAK--EMMAREIVRQLFNFMKKWYQTALFVSQKRS 177 (259)
T ss_pred HHHHHHHHHHHhhCCCEEEEc-CchHhcccc--hHHHHHHHHHHHHHHHHcCCeEEEEecccc
Confidence 456788888999999988884 332101111 133455555555555555789999988544
No 260
>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange.
Probab=21.67 E-value=3.7e+02 Score=24.34 Aligned_cols=64 Identities=16% Similarity=0.179 Sum_probs=42.3
Q ss_pred hhHHHHHHHHHHHcCCCEEEEe----e-cC-CCCCCC-----CHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 96 EKLELQLLEIAQREETDEFIIG----L-PK-SWDGSE-----TPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVG----L-Pl-~mdG~e-----~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
++.+..+..++++..++.|||= + |. ..+|.. +.+++...++..+|...+...++.|++.++-.+
T Consensus 119 eq~l~i~~~li~s~~~~lIVIDSvaal~~~~E~~~~~~~~~~~~qaR~l~~~Lr~L~~~~~k~~~~vI~tNQvr~ 193 (325)
T cd00983 119 EQALEIADSLVRSGAVDLIVVDSVAALVPKAEIEGEMGDSHVGLQARLMSQALRKLTGSINKSNTTVIFINQLRE 193 (325)
T ss_pred HHHHHHHHHHHhccCCCEEEEcchHhhcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCEEEEEEcccc
Confidence 3456677788888999999873 3 32 233433 234555556777777666666899999988654
No 261
>PHA02542 41 41 helicase; Provisional
Probab=21.64 E-value=3.3e+02 Score=25.78 Aligned_cols=57 Identities=18% Similarity=0.134 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHcC--CCEEEEeecCCCC-C----CCCHHHHHHHHHHHHHHHHhccCCCcEEEE
Q 030392 98 LELQLLEIAQREE--TDEFIIGLPKSWD-G----SETPQSNKVRSVAGRLAVRAAERSFSDILI 154 (178)
Q Consensus 98 ~~~~L~~iI~e~~--v~~IVVGLPl~md-G----~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lv 154 (178)
....+.++..+++ ++.|||=++--|. + ......+.+....+.|+...++.++||+..
T Consensus 287 ir~~~rrlk~~~g~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel~vpVi~l 350 (473)
T PHA02542 287 FRALLNELKLKKNFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEHDVVVWTA 350 (473)
T ss_pred HHHHHHHHHHhcCCCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHhCCeEEEE
Confidence 3345555555555 8999999886664 2 112345667777777777766667888754
No 262
>cd02874 GH18_CFLE_spore_hydrolase Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the forespore inner membrane and is deposited as a mature enzyme in the cortex layer of the spore. As part of a sensory mechanism capable of initiating germination, CFLE degrades a spore-specific peptidoglycan constituent called muramic-acid delta-lactam that comprises the outer cortex. CFLE has a C-terminal glycosyl hydrolase family 18 (GH18) catalytic domain as well as two N-terminal LysM peptidoglycan-binding domains. In addition to SleB, this family includes YaaH, YdhD, and YvbX from Bacillus subtilis.
Probab=21.54 E-value=4.1e+02 Score=22.79 Aligned_cols=50 Identities=14% Similarity=0.156 Sum_probs=36.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCC
Q 030392 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSF 149 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~gl 149 (178)
++.++.+.+++++++.|+|.|-+..-. ....+....|.++|++++...+.
T Consensus 89 ~~fi~~iv~~l~~~~~DGidiDwE~~~----~~d~~~~~~fl~~lr~~l~~~~~ 138 (313)
T cd02874 89 QRLINNILALAKKYGYDGVNIDFENVP----PEDREAYTQFLRELSDRLHPAGY 138 (313)
T ss_pred HHHHHHHHHHHHHhCCCcEEEecccCC----HHHHHHHHHHHHHHHHHhhhcCc
Confidence 457889999999999999999886521 12345577888888888754343
No 263
>COG0623 FabI Enoyl-[acyl-carrier-protein]
Probab=21.51 E-value=30 Score=30.74 Aligned_cols=84 Identities=15% Similarity=0.187 Sum_probs=46.2
Q ss_pred eEEEEecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHH
Q 030392 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~ 143 (178)
|+||-|+|.+ ||-+ ..+.|-|+.|+....-.++..+.+..+++. |+..+=+..+...-+--+...|..-
T Consensus 170 RyLA~dlG~~--gIRV-NaISAGPIrTLAasgI~~f~~~l~~~e~~a--------Pl~r~vt~eeVG~tA~fLlSdLssg 238 (259)
T COG0623 170 RYLAADLGKE--GIRV-NAISAGPIRTLAASGIGDFRKMLKENEANA--------PLRRNVTIEEVGNTAAFLLSDLSSG 238 (259)
T ss_pred HHHHHHhCcc--CeEE-eeecccchHHHHhhccccHHHHHHHHHhhC--------CccCCCCHHHhhhhHHHHhcchhcc
Confidence 4555566655 3333 234578888886554345566666666654 4443333333344444444444432
Q ss_pred hccCCCcEEEEcCCCchh
Q 030392 144 AAERSFSDILITAIFSFS 161 (178)
Q Consensus 144 ~~~~glpV~lvDERlSTs 161 (178)
. .| +|+++|--|+..
T Consensus 239 i--TG-ei~yVD~G~~i~ 253 (259)
T COG0623 239 I--TG-EIIYVDSGYHIM 253 (259)
T ss_pred c--cc-ceEEEcCCceee
Confidence 2 23 799999888653
No 264
>TIGR00583 mre11 DNA repair protein (mre11). All proteins in this family for which functions are known are subunits of a nuclease complex made up of multiple proteins including MRE11 and RAD50 homologs. The functions of this nuclease complex include recombinational repair and non-homolgous end joining. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). The proteins in this family are distantly related to proteins in the SbcCD complex of bacteria.
Probab=21.41 E-value=4.3e+02 Score=24.58 Aligned_cols=44 Identities=16% Similarity=0.237 Sum_probs=32.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHH
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~ 142 (178)
..++++.+++.+++||.||++==+-.++..+ .+.+.++.+.|++
T Consensus 29 ~~f~eil~~a~~~~vD~VLiaGDLFd~~~Ps--~~~~~~~~~~lr~ 72 (405)
T TIGR00583 29 NTFEEVLQIAKEQDVDMILLGGDLFHENKPS--RKSLYQVLRSLRL 72 (405)
T ss_pred HHHHHHHHHHHHcCCCEEEECCccCCCCCCC--HHHHHHHHHHHHH
Confidence 3568899999999999999987665454444 5666667777765
No 265
>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=21.24 E-value=3.2e+02 Score=23.70 Aligned_cols=54 Identities=9% Similarity=0.009 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHc-----CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCch
Q 030392 98 LELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSF 160 (178)
Q Consensus 98 ~~~~L~~iI~e~-----~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlST 160 (178)
+.+.|.+.+++. +...|+++-+.++.|...+. ++.++..+ +. | -+..+||-++.
T Consensus 153 d~~~l~~~i~~~~~~~~~~~~v~~~~v~~~tG~~~~l----~~i~~la~-~~---~-~~li~De~~~~ 211 (393)
T TIGR01822 153 DMADLEAQLKEARAAGARHRLIATDGVFSMDGVIAPL----DEICDLAD-KY---D-ALVMVDECHAT 211 (393)
T ss_pred CHHHHHHHHHhhhhcCCCceEEEEeCCccCCCCcCCH----HHHHHHHH-Hc---C-CEEEEECCccc
Confidence 445666666652 56688888888999987652 33333222 22 3 26788999853
No 266
>PRK13411 molecular chaperone DnaK; Provisional
Probab=21.22 E-value=79 Score=30.80 Aligned_cols=18 Identities=28% Similarity=0.530 Sum_probs=16.0
Q ss_pred eEEEEecCCceEEEEeec
Q 030392 64 FSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 64 rILgLD~G~KRIGVAiSD 81 (178)
.++|||+|+...=||+.+
T Consensus 3 ~viGIDlGTt~s~va~~~ 20 (653)
T PRK13411 3 KVIGIDLGTTNSCVAVLE 20 (653)
T ss_pred cEEEEEeCcccEEEEEEE
Confidence 689999999999888865
No 267
>PF07066 DUF3882: Lactococcus phage M3 protein; InterPro: IPR009773 This family consists of several Lactococcus bacteriophage 712, middle-3 (M3) proteins of around 160 residues in length. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. The function of this family is unknown.
Probab=21.20 E-value=2.1e+02 Score=23.80 Aligned_cols=49 Identities=24% Similarity=0.332 Sum_probs=31.7
Q ss_pred ceEEEEecCCce-----EEEEeecC--CcccccEEEE-cc-----ChhHHHHHHHHHHHcCC
Q 030392 63 GFSLGVDLGLSR-----TGLALSKG--FCVRPLTVLK-LR-----GEKLELQLLEIAQREET 111 (178)
Q Consensus 63 ~rILgLD~G~KR-----IGVAiSD~--~~A~Pl~tI~-~~-----~~~~~~~L~~iI~e~~v 111 (178)
..+|+||+-+.- +|-|+-++ +..+....-. .+ ....+.+|+.++++++.
T Consensus 2 ~~~LslD~STs~~~~~gTG~A~~~~~~~~~~si~~~~k~Ks~~ER~k~ias~Lk~ii~~~d~ 63 (159)
T PF07066_consen 2 KKVLSLDFSTSSKKGEGTGWAFFKGSDLVVGSIKAKHKSKSFFERAKSIASELKTIIQKYDL 63 (159)
T ss_pred CeeEEEEEecccCCCCCceeEEecCCeEEEeeeeecCcccCHHHHHHHHHHHHHHHHHHhCC
Confidence 468999999997 99999863 2222221111 01 12356789999999874
No 268
>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family. Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.
Probab=21.17 E-value=3.9e+02 Score=21.51 Aligned_cols=61 Identities=13% Similarity=0.072 Sum_probs=38.5
Q ss_pred hhHHHHHHHHHHHc--CCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 96 EKLELQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 96 ~~~~~~L~~iI~e~--~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
++....+.++++++ +++.+||-.+-.+--.+... .+++...|...+++.|+++++.-+...
T Consensus 105 ~~~~~~i~~~~~~~~~~~~~vvIDsl~~l~~~~~~~---~r~~~~~l~~~l~~~~~tvil~~~~~~ 167 (229)
T TIGR03881 105 EELLNKVIEAKKYLGYGHARLVIDSMSAFWLDKPAM---ARKYSYYLKRVLNRWNFTILLTSQYAI 167 (229)
T ss_pred HHHHHHHHHHHHhhccCceEEEecCchhhhccChHH---HHHHHHHHHHHHHhCCCEEEEEecccc
Confidence 34667778887775 46788998876553222222 345555555555555889999987543
No 269
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=21.07 E-value=1.8e+02 Score=21.84 Aligned_cols=59 Identities=10% Similarity=-0.101 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCC-----CC-CCCHHHHHHHHHHHHHHHHhccCCCcEEEEcC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSW-----DG-SETPQSNKVRSVAGRLAVRAAERSFSDILITA 156 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~m-----dG-~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDE 156 (178)
...++++.+++++++.-|.-.|... ++ +.==.+-.++..-..+++.++..|+||..+|.
T Consensus 16 la~km~~~a~~~gi~~~i~a~~~~e~~~~~~~~Dvill~PQv~~~~~~i~~~~~~~~ipv~~I~~ 80 (99)
T cd05565 16 LANALNKGAKERGVPLEAAAGAYGSHYDMIPDYDLVILAPQMASYYDELKKDTDRLGIKLVTTTG 80 (99)
T ss_pred HHHHHHHHHHHCCCcEEEEEeeHHHHHHhccCCCEEEEcChHHHHHHHHHHHhhhcCCCEEEeCH
Confidence 4567778888887777666666432 11 00012334566666777777666899999994
No 270
>COG0443 DnaK Molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=21.06 E-value=89 Score=30.24 Aligned_cols=19 Identities=26% Similarity=0.536 Sum_probs=17.7
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
+.++|||+|+-..=||+.+
T Consensus 5 ~~~iGIDlGTTNS~vA~~~ 23 (579)
T COG0443 5 KKAIGIDLGTTNSVVAVMR 23 (579)
T ss_pred ceEEEEEcCCCcEEEEEEe
Confidence 5799999999999999998
No 271
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=21.03 E-value=4.6e+02 Score=22.99 Aligned_cols=55 Identities=7% Similarity=-0.018 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
...-++.+..++.++|+++|--|.-...+ .+.+.+|-+.+.+..+ ++||+++|=-
T Consensus 90 ~~ai~~a~~A~~~Gad~vlv~~P~y~~~~----~~~l~~yf~~va~a~~--~lPv~iYn~P 144 (309)
T cd00952 90 RDTIARTRALLDLGADGTMLGRPMWLPLD----VDTAVQFYRDVAEAVP--EMAIAIYANP 144 (309)
T ss_pred HHHHHHHHHHHHhCCCEEEECCCcCCCCC----HHHHHHHHHHHHHhCC--CCcEEEEcCc
Confidence 45567888999999999999999754332 3666777777877642 3799999754
No 272
>COG0363 NagB 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]
Probab=20.89 E-value=2.4e+02 Score=24.22 Aligned_cols=65 Identities=9% Similarity=0.056 Sum_probs=40.4
Q ss_pred HHHHHHHHHHcCCC--EEEEeecCCCCCCCCHHHHHHHHHHHHHHHH----hccCCCcEEEEcCCCchhhhHHHHHHhhc
Q 030392 99 ELQLLEIAQREETD--EFIIGLPKSWDGSETPQSNKVRSVAGRLAVR----AAERSFSDILITAIFSFSCHFAIFFTVLN 172 (178)
Q Consensus 99 ~~~L~~iI~e~~v~--~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~----~~~~glpV~lvDERlSTs~~~a~~~~~~~ 172 (178)
.+.+.+.+++-... .++||++ |.-+|. .|-+.|.+. +.-.++.+++.|||+=+.+|.-+-|..++
T Consensus 17 a~~i~~~~~~~~~~~~~~~l~Ls----gGsTP~-----~~ye~L~~~~~~~~~w~~v~~f~~DEr~vp~~~~~Sn~~~~~ 87 (238)
T COG0363 17 AEIIADKLQAAKAERGRAVLALS----GGSTPL-----ALYEALVKLPQGQLDWSKVTIFNLDERVVPPDDPESNYGLMR 87 (238)
T ss_pred HHHHHHHHHhhhhccCcEEEEEC----CCCCHH-----HHHHHHHhhhccCCCchheEEEeccccccCCCCchhHHHHHH
Confidence 34444444444333 5888886 455553 333444443 33346789999999988888887776654
No 273
>cd02876 GH18_SI-CLP Stabilin-1 interacting chitinase-like protein (SI-CLP) is a eukaryotic chitinase-like protein of unknown function that interacts with the endocytic/sorting transmembrane receptor stabilin-1 and is secreted from the lysosome. SI-CLP has a glycosyl hydrolase family 18 (GH18) domain but lacks a chitin-binding domain. The catalytic amino acids of the GH18 domain are not conserved in SI-CLP, similar to the chitolectins YKL-39, YKL-40, and YM1/2. Human SI-CLP is sorted to late endosomes and secretory lysosomes in alternatively activated macrophages.
Probab=20.86 E-value=3.7e+02 Score=23.26 Aligned_cols=52 Identities=15% Similarity=0.178 Sum_probs=35.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEe---ecCCCCCCCCHHHHHHHHHHHHHHHHhccCCC
Q 030392 96 EKLELQLLEIAQREETDEFIIG---LPKSWDGSETPQSNKVRSVAGRLAVRAAERSF 149 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVVG---LPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~gl 149 (178)
++.++.+.+++++++.|+|.|= .|-. .|.. +-.+....|.++|++++...|.
T Consensus 94 ~~fi~s~~~~~~~~~~DGidiD~we~p~~-~~~~-~d~~~~~~~l~el~~~l~~~~~ 148 (318)
T cd02876 94 EKLIKLLVTTAKKNHFDGIVLEVWSQLAA-YGVP-DKRKELIQLVIHLGETLHSANL 148 (318)
T ss_pred HHHHHHHHHHHHHcCCCcEEEechhhhcc-cCCH-HHHHHHHHHHHHHHHHHhhcCC
Confidence 4578899999999999999885 3422 2221 2234456778888877754443
No 274
>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....
Probab=20.83 E-value=2.1e+02 Score=20.14 Aligned_cols=54 Identities=15% Similarity=-0.002 Sum_probs=37.2
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCc
Q 030392 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFS 159 (178)
Q Consensus 103 ~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlS 159 (178)
+.+++..++..+-+-.+...+....+..+.++.+.++.++.- ...|.++||=-.
T Consensus 16 ~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~---~~~vl~iDe~d~ 69 (132)
T PF00004_consen 16 RALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA---KPCVLFIDEIDK 69 (132)
T ss_dssp HHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS---TSEEEEEETGGG
T ss_pred HHHHhhcccccccccccccccccccccccccccccccccccc---cceeeeeccchh
Confidence 344455566677777776666677888888888888866542 146999998543
No 275
>cd01823 SEST_like SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this 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, but may lack the carboxylic acid.
Probab=20.77 E-value=3.4e+02 Score=22.13 Aligned_cols=22 Identities=14% Similarity=0.391 Sum_probs=12.7
Q ss_pred HHHHHHHHHc--CCCEEEEeecCC
Q 030392 100 LQLLEIAQRE--ETDEFIIGLPKS 121 (178)
Q Consensus 100 ~~L~~iI~e~--~v~~IVVGLPl~ 121 (178)
..+.+.+++. +...+|+|+|.-
T Consensus 134 ~~~l~~i~~~~p~a~I~~~gyp~~ 157 (259)
T cd01823 134 KAVLDRIRERAPNARVVVVGYPRL 157 (259)
T ss_pred HHHHHHHHhhCCCcEEEEeccccc
Confidence 3444444443 355689998753
No 276
>PRK10949 protease 4; Provisional
Probab=20.73 E-value=3.7e+02 Score=26.47 Aligned_cols=62 Identities=6% Similarity=0.120 Sum_probs=45.2
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCCCchhhh
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAIFSFSCH 163 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDERlSTs~~ 163 (178)
+..+.|++..++.+|.+||+=+- ++.|......+.+++-.+++++. |.||+-+.+.+++..-
T Consensus 99 div~~i~~Aa~D~rIkgivL~i~-s~gG~~~a~~~eI~~ai~~fk~s----GKpVvA~~~~~~s~~Y 160 (618)
T PRK10949 99 DIVNTIRQAKDDRNITGIVLDLK-NFAGADQPSMQYIGKALREFRDS----GKPVYAVGDSYSQGQY 160 (618)
T ss_pred HHHHHHHHHhcCCCceEEEEEeC-CCCCccHHHHHHHHHHHHHHHHh----CCeEEEEecCccchhh
Confidence 46778888889999999998774 23344445567777777777643 6799999999976543
No 277
>cd05472 cnd41_like Chloroplast Nucleoids DNA-binding Protease, catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase. Chloroplast Nucleoids DNA-binding Protease catalyzes the degradation of ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) in senescent leaves of tobacco. Antisense tobacco with reduced amount of CND41 maintained green leaves and constant protein levels, especially Rubisco. CND41 has DNA-binding as well as aspartic protease activities. The pepsin-like aspartic protease domain is located at the C-terminus of the protein. The enzyme is characterized by having two aspartic protease catalytic site motifs, the Asp-Thr-Gly-Ser in the N-terminal and Asp-Ser-Gly-Ser in the C-terminal region. Aspartic proteases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localized between the two lobes of the molecule. One lobe may be evolved from the other through ancient gene-duplication event. This fami
Probab=20.70 E-value=88 Score=26.45 Aligned_cols=19 Identities=26% Similarity=0.321 Sum_probs=15.6
Q ss_pred ceEEEEecCCceEEEEeec
Q 030392 63 GFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 63 ~rILgLD~G~KRIGVAiSD 81 (178)
......|++.+|||+|-.|
T Consensus 280 ~~~vvfD~~~~~igfa~~~ 298 (299)
T cd05472 280 TFRVVYDVAGGRIGFAPGG 298 (299)
T ss_pred ceEEEEECCCCEEeEecCC
Confidence 3456799999999999765
No 278
>PRK04390 rnpA ribonuclease P; Reviewed
Probab=20.57 E-value=3.9e+02 Score=20.33 Aligned_cols=71 Identities=14% Similarity=0.110 Sum_probs=37.8
Q ss_pred ecCCceEEEEeecCCcccccEEEEccChhHHHHHHHHHHH-----cCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHH
Q 030392 69 DLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQR-----EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (178)
Q Consensus 69 D~G~KRIGVAiSD~~~A~Pl~tI~~~~~~~~~~L~~iI~e-----~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~ 143 (178)
|.+.-|+|++||--..-. .+.++ ..-..|.+++.. .+.|.||+.-|--++-+..+..+.+.+...++..+
T Consensus 40 ~~~~~R~G~~VsKK~~~~---AV~RN--RiKR~lRE~~R~~~~~l~~~DiVvi~r~~~~~~~~~~l~~~l~~ll~k~~~~ 114 (120)
T PRK04390 40 GLDHPRLGLVVGKKTAKR---AVERN--YMKRVIREWFRLNQHRLPPVDFVVRVQRKFDRATAKQAVAELAQLMAKLPAT 114 (120)
T ss_pred CCCCceEEEEEecccCcc---hhhhh--HHHHHHHHHHHhccccCCCceEEEEeCCCcccCCHHHHHHHHHHHHHHHHhh
Confidence 356778999988632111 11121 111223333332 24688999988665555556666666655555444
Q ss_pred h
Q 030392 144 A 144 (178)
Q Consensus 144 ~ 144 (178)
.
T Consensus 115 ~ 115 (120)
T PRK04390 115 G 115 (120)
T ss_pred h
Confidence 3
No 279
>PF04250 DUF429: Protein of unknown function (DUF429); InterPro: IPR007362 This is a family of uncharacterised proteins.
Probab=20.55 E-value=2.2e+02 Score=23.09 Aligned_cols=50 Identities=22% Similarity=0.256 Sum_probs=30.9
Q ss_pred EEecC-CceEEEEeec-CCcccccEEEEccChhHHHHHHHHHHHcCCCEEEEeecCCC
Q 030392 67 GVDLG-LSRTGLALSK-GFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSW 122 (178)
Q Consensus 67 gLD~G-~KRIGVAiSD-~~~A~Pl~tI~~~~~~~~~~L~~iI~e~~v~~IVVGLPl~m 122 (178)
|||.+ .+..|||+.+ +....-...+ ...++|.+.+.+.. ..|-|-.|+.+
T Consensus 1 GID~~~~~~~~vav~~~~~~~~~~~~~-----~~~~~i~~~~~~~~-~~v~IDaPlgl 52 (209)
T PF04250_consen 1 GIDLAWSRGTWVAVIDEGGGILRLSVF-----SSDEEILDWIESAP-AVVGIDAPLGL 52 (209)
T ss_pred CcccCccCCcEEEEEEcCCceEEEeec-----CCHHHHHHHhhccC-cEEEEEcCccc
Confidence 56766 4667888874 2111111111 13466777777777 88999999988
No 280
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of 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=20.49 E-value=3.6e+02 Score=21.36 Aligned_cols=45 Identities=20% Similarity=0.248 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI 157 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER 157 (178)
....+.+++..+++|+||+--+ ..+ . ...+++++ .|+||+++|-.
T Consensus 48 ~~~~~~~~~~~~~~dgiii~~~-~~~---~-------~~~~~~~~----~~ipvV~~~~~ 92 (270)
T cd06294 48 LLEEVKKMIQQKRVDGFILLYS-RED---D-------PIIDYLKE----EKFPFVVIGKP 92 (270)
T ss_pred HHHHHHHHHHHcCcCEEEEecC-cCC---c-------HHHHHHHh----cCCCEEEECCC
Confidence 4467777888888999988422 111 1 11233332 37899999843
No 281
>cd01400 6PGL 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard against the accumulation of the delta form of the lactone, which may be toxic through its reaction with endogenous cellular nucleophiles.
Probab=20.46 E-value=2.4e+02 Score=23.37 Aligned_cols=61 Identities=15% Similarity=0.078 Sum_probs=34.9
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHH--hccCCCcEEEEcCCCchhhhHHHHHHhh
Q 030392 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR--AAERSFSDILITAIFSFSCHFAIFFTVL 171 (178)
Q Consensus 100 ~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~--~~~~glpV~lvDERlSTs~~~a~~~~~~ 171 (178)
+.+.+.+++. ..+++|+| |.-++. .+-+.|.+. +.-.++-++++|||+=...|..+.|-.+
T Consensus 13 ~~i~~~i~~~--~~~~l~ls----GGstp~-----~~y~~L~~~~~i~w~~v~~f~~DEr~Vp~~~~~Sn~~~~ 75 (219)
T cd01400 13 EALAAAIAKR--GRFSLALS----GGSTPK-----PLYELLAAAPALDWSKVHVFLGDERCVPPDDPDSNYRLA 75 (219)
T ss_pred HHHHHHHHhc--CeEEEEEC----CCccHH-----HHHHHhccccCCCCceEEEEEeeccccCCCCcccHHHHH
Confidence 4455545444 36788887 555554 233344432 3224577999999985555555555443
No 282
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=20.43 E-value=3.1e+02 Score=24.46 Aligned_cols=57 Identities=14% Similarity=0.116 Sum_probs=38.1
Q ss_pred hhHHHHHHHHHHHcCCCEEEE-eecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEc-CCCch
Q 030392 96 EKLELQLLEIAQREETDEFII-GLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILIT-AIFSF 160 (178)
Q Consensus 96 ~~~~~~L~~iI~e~~v~~IVV-GLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvD-ERlST 160 (178)
+++.+.|.++.++++++.|+| +-+.. .-....+...++++++++ ++||+.++ +-|..
T Consensus 73 ~~L~~~i~~~~~~~~P~~i~v~~tC~~-----~~iGdDi~~v~~~~~~~~---~~~vi~v~t~gf~g 131 (406)
T cd01967 73 KKLKKAIKEAYERFPPKAIFVYSTCPT-----GLIGDDIEAVAKEASKEL---GIPVIPVNCEGFRG 131 (406)
T ss_pred HHHHHHHHHHHHhCCCCEEEEECCCch-----hhhccCHHHHHHHHHHhh---CCCEEEEeCCCeeC
Confidence 567889999999999995544 44332 122334777777777665 57888877 55544
No 283
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=20.42 E-value=89 Score=30.22 Aligned_cols=20 Identities=25% Similarity=0.503 Sum_probs=17.1
Q ss_pred CceEEEEecCCceEEEEeec
Q 030392 62 GGFSLGVDLGLSRTGLALSK 81 (178)
Q Consensus 62 ~~rILgLD~G~KRIGVAiSD 81 (178)
...++|||+|+...-||+.+
T Consensus 18 ~~~~iGIDlGTt~s~va~~~ 37 (616)
T PRK05183 18 RRLAVGIDLGTTNSLVATVR 37 (616)
T ss_pred CCeEEEEEeccccEEEEEEE
Confidence 34689999999999999864
No 284
>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]
Probab=20.41 E-value=1.6e+02 Score=28.57 Aligned_cols=67 Identities=15% Similarity=0.105 Sum_probs=53.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHHHHHHHHhccCCCcEEEEcCC---CchhhhHHHHHHhhc
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERSFSDILITAI---FSFSCHFAIFFTVLN 172 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa~~L~~~~~~~glpV~lvDER---lSTs~~~a~~~~~~~ 172 (178)
+..++++++.++| |+|++.+-..++.+--.+...+-|+.-| +|..+...||- +|.+-...+|-++-+
T Consensus 116 ~~~~~i~~l~~~y-------Gl~vdp~~~V~dLsVG~qQRVEIlKaLy--r~a~iLILDEPTaVLTP~E~~~lf~~l~~ 185 (501)
T COG3845 116 QARARIKELSERY-------GLPVDPDAKVADLSVGEQQRVEILKALY--RGARLLILDEPTAVLTPQEADELFEILRR 185 (501)
T ss_pred HHHHHHHHHHHHh-------CCCCCccceeecCCcchhHHHHHHHHHh--cCCCEEEEcCCcccCCHHHHHHHHHHHHH
Confidence 4556899999998 7899999888888888889999999888 57899999997 455555566655543
No 285
>PRK13844 recombination protein RecR; Provisional
Probab=20.23 E-value=74 Score=27.13 Aligned_cols=30 Identities=23% Similarity=0.292 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030392 98 LELQLLEIAQREETDEFIIGLPKSWDGSET 127 (178)
Q Consensus 98 ~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~ 127 (178)
.++.|.+.+++.+++.||+.+.-+.+|+.+
T Consensus 126 ~i~~L~~Ri~~~~v~EVIlAt~~t~EGe~T 155 (200)
T PRK13844 126 KLDILQQIIADRKIDEVILAISPTVEGETT 155 (200)
T ss_pred CHHHHHHHHhcCCCcEEEEeCCCCccHHHH
Confidence 467888889888999999999999888755
No 286
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=20.12 E-value=1.1e+02 Score=27.61 Aligned_cols=41 Identities=15% Similarity=0.294 Sum_probs=33.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCHHHHHHHHHH
Q 030392 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (178)
Q Consensus 97 ~~~~~L~~iI~e~~v~~IVVGLPl~mdG~e~~~a~~Vr~Fa 137 (178)
..++.|+++-.++.+..+.||.|.-+.+..++--+.++.|.
T Consensus 180 ~ale~lr~i~d~~Gi~~vLvG~prL~~~l~~~~~~~~rl~s 220 (297)
T COG2842 180 RALEELRRIHDKTGIGVVLVGMPRLFKVLRRPEDELSRLYS 220 (297)
T ss_pred HHHHHHHHHHHhhCceEEEecChHHHhccccchHHHHHHHH
Confidence 35789999999999999999999877777666666666654
No 287
>TIGR01315 5C_CHO_kinase FGGY-family pentulose kinase. This model represents a subfamily of the FGGY family of carbohydrate kinases. This subfamily is closely related to a set of ribulose kinases, and many members are designated ribitol kinase. However, the member from Klebsiella pneumoniae, from a ribitol catabolism operon, accepts D-ribulose and to a lesser extent D-arabinitol and ribitol (PubMed:9639934 and JW Lengeler, personal communication); its annotation in GenBank as ribitol kinase is imprecise and may have affected public annotation of related proteins.
Probab=20.04 E-value=2e+02 Score=27.15 Aligned_cols=17 Identities=24% Similarity=0.458 Sum_probs=15.9
Q ss_pred EEEEecCCceEEEEeec
Q 030392 65 SLGVDLGLSRTGLALSK 81 (178)
Q Consensus 65 ILgLD~G~KRIGVAiSD 81 (178)
+||||+|+..+=+++-|
T Consensus 2 ~lgID~GTts~Ka~l~d 18 (541)
T TIGR01315 2 YIGVDVGTGSARACIID 18 (541)
T ss_pred EEEEEecCcCEEEEEEc
Confidence 79999999999999988
Done!