Query 030836
Match_columns 170
No_of_seqs 163 out of 1032
Neff 5.2
Searched_HMMs 46136
Date Fri Mar 29 05:18:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030836.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030836hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00109 Holliday junction res 100.0 2E-32 4.4E-37 213.6 14.5 105 62-169 3-110 (138)
2 PF03652 UPF0081: Uncharacteri 100.0 3.5E-33 7.5E-38 217.1 10.1 105 63-169 1-108 (135)
3 COG0816 Predicted endonuclease 100.0 2.7E-32 5.8E-37 214.5 12.5 105 63-170 2-110 (141)
4 TIGR00250 RNAse_H_YqgF RNAse H 100.0 6.9E-32 1.5E-36 208.7 13.5 101 66-169 1-104 (130)
5 smart00732 YqgFc Likely ribonu 99.6 1.8E-14 4E-19 103.2 11.3 95 64-163 2-99 (99)
6 PRK00039 ruvC Holliday junctio 97.7 0.00043 9.3E-09 55.6 10.6 89 63-154 2-103 (164)
7 PF02075 RuvC: Crossover junct 97.7 0.00065 1.4E-08 53.5 10.3 57 65-121 1-69 (149)
8 cd00529 RuvC_resolvase Hollida 97.6 0.0017 3.8E-08 51.1 11.5 57 64-120 1-69 (154)
9 TIGR00228 ruvC crossover junct 97.4 0.0014 3.1E-08 52.6 9.0 57 65-121 1-68 (156)
10 COG2183 Tex Transcriptional ac 97.0 0.0064 1.4E-07 59.3 10.9 87 64-158 331-424 (780)
11 COG1548 Predicted transcriptio 96.8 0.0054 1.2E-07 53.8 7.3 102 63-167 3-109 (330)
12 PF14639 YqgF: Holliday-juncti 96.5 0.053 1.2E-06 43.0 11.0 91 63-160 5-110 (150)
13 COG0817 RuvC Holliday junction 96.4 0.0063 1.4E-07 49.2 5.0 55 66-120 1-67 (160)
14 TIGR01766 tspaseT_teng_C trans 94.7 0.13 2.7E-06 35.8 5.9 61 99-160 13-82 (82)
15 PF04312 DUF460: Protein of un 94.0 1.1 2.4E-05 35.5 10.5 90 62-168 31-120 (138)
16 PRK09557 fructokinase; Reviewe 94.0 0.5 1.1E-05 40.1 9.2 101 64-167 1-116 (301)
17 COG1940 NagC Transcriptional r 94.0 0.42 9.1E-06 40.7 8.8 104 61-167 4-126 (314)
18 TIGR00744 ROK_glcA_fam ROK fam 92.3 0.74 1.6E-05 39.1 7.8 97 66-166 1-116 (318)
19 PRK05082 N-acetylmannosamine k 92.3 1.6 3.5E-05 36.8 9.8 99 64-166 2-115 (291)
20 PRK13310 N-acetyl-D-glucosamin 91.2 2 4.2E-05 36.5 9.2 97 64-166 1-115 (303)
21 PRK13311 N-acetyl-D-glucosamin 90.8 2.7 5.8E-05 35.0 9.5 100 64-167 1-116 (256)
22 PRK09698 D-allose kinase; Prov 90.3 3.3 7.2E-05 35.0 9.8 99 63-164 4-121 (302)
23 PRK13321 pantothenate kinase; 89.8 6.7 0.00015 33.0 11.2 55 64-118 1-64 (256)
24 PF14239 RRXRR: RRXRR protein 89.5 1.2 2.6E-05 36.6 6.1 21 63-83 51-71 (176)
25 PF07318 DUF1464: Protein of u 88.3 2 4.4E-05 38.7 7.3 56 67-122 1-63 (343)
26 PF01548 DEDD_Tnp_IS110: Trans 88.3 1.5 3.2E-05 33.0 5.6 81 65-160 1-82 (144)
27 PRK00292 glk glucokinase; Prov 87.6 3.7 8.1E-05 35.2 8.3 93 64-159 3-103 (316)
28 PF00480 ROK: ROK family; Int 87.6 2.9 6.3E-05 32.3 7.0 97 67-167 1-111 (179)
29 COG2433 Uncharacterized conser 87.4 4.9 0.00011 38.9 9.6 88 63-167 244-331 (652)
30 PF07282 OrfB_Zn_ribbon: Putat 87.1 0.55 1.2E-05 31.7 2.4 27 136-162 4-30 (69)
31 PHA02942 putative transposase; 85.6 1.5 3.3E-05 39.6 5.0 55 107-161 263-326 (383)
32 COG1646 Predicted phosphate-bi 84.9 3.5 7.5E-05 35.5 6.6 50 97-155 28-77 (240)
33 PRK13320 pantothenate kinase; 84.8 18 0.0004 30.5 11.0 53 64-118 3-56 (244)
34 TIGR03725 bact_YeaZ universal 84.7 15 0.00033 29.7 10.1 84 65-155 1-92 (202)
35 COG1214 Inactive homolog of me 83.6 8.5 0.00018 32.1 8.4 84 64-154 2-95 (220)
36 PRK13318 pantothenate kinase; 83.3 7.9 0.00017 32.5 8.2 55 64-118 1-64 (258)
37 PRK09982 universal stress prot 83.2 5.1 0.00011 30.1 6.4 49 96-154 89-137 (142)
38 PRK12408 glucokinase; Provisio 83.2 2.5 5.4E-05 37.0 5.2 91 62-156 15-118 (336)
39 PF05188 MutS_II: MutS domain 81.4 17 0.00037 26.4 8.5 49 64-117 2-53 (137)
40 PF04848 Pox_A22: Poxvirus A22 79.9 26 0.00057 27.8 9.4 85 64-158 2-91 (143)
41 TIGR03723 bact_gcp putative gl 79.1 21 0.00046 31.1 9.6 85 65-156 1-109 (314)
42 COG4012 Uncharacterized protei 78.3 15 0.00032 32.8 8.2 61 64-127 2-63 (342)
43 PRK15118 universal stress glob 77.6 12 0.00025 27.7 6.6 50 96-155 89-138 (144)
44 TIGR01769 GGGP geranylgeranylg 76.8 10 0.00022 31.6 6.6 46 100-154 14-59 (205)
45 PRK14101 bifunctional glucokin 76.7 7.9 0.00017 36.8 6.7 90 61-155 16-114 (638)
46 PF00582 Usp: Universal stress 75.0 12 0.00026 26.0 5.8 52 96-154 88-139 (140)
47 TIGR01865 cas_Csn1 CRISPR-asso 73.8 2.5 5.4E-05 41.8 2.6 19 64-82 2-20 (805)
48 PRK10116 universal stress prot 73.7 22 0.00048 26.0 7.2 50 96-154 88-137 (142)
49 PF02579 Nitro_FeMo-Co: Dinitr 72.9 21 0.00045 24.5 6.6 52 99-168 42-93 (94)
50 PF03309 Pan_kinase: Type III 72.6 28 0.0006 28.2 8.1 53 65-117 1-60 (206)
51 cd01988 Na_H_Antiporter_C The 71.6 11 0.00024 26.8 5.0 23 97-119 81-103 (132)
52 cd01989 STK_N The N-terminal d 69.9 15 0.00032 27.1 5.5 52 97-154 90-143 (146)
53 PRK13324 pantothenate kinase; 69.1 74 0.0016 27.3 10.8 54 64-117 1-64 (258)
54 PRK09604 UGMP family protein; 69.0 78 0.0017 27.8 10.7 86 63-156 1-111 (332)
55 PRK09605 bifunctional UGMP fam 68.7 55 0.0012 30.3 10.0 88 63-157 1-109 (535)
56 PRK13322 pantothenate kinase; 67.9 33 0.00072 29.0 7.8 52 64-117 1-54 (246)
57 TIGR01768 GGGP-family geranylg 66.9 17 0.00038 30.7 5.9 45 100-154 17-61 (223)
58 PRK15005 universal stress prot 66.6 13 0.00029 27.2 4.7 51 96-154 93-143 (144)
59 PRK13326 pantothenate kinase; 66.2 84 0.0018 27.0 10.1 55 63-117 6-63 (262)
60 PRK10854 exopolyphosphatase; P 66.2 43 0.00093 31.2 8.9 89 57-155 5-117 (513)
61 PF02844 GARS_N: Phosphoribosy 65.9 12 0.00026 27.9 4.2 43 96-152 48-90 (100)
62 PRK09472 ftsA cell division pr 64.0 40 0.00086 30.4 8.0 57 63-119 8-84 (420)
63 PRK15456 universal stress prot 63.8 12 0.00027 27.7 4.0 51 96-154 91-141 (142)
64 PRK15080 ethanolamine utilizat 62.7 95 0.0021 26.3 11.5 88 62-160 23-128 (267)
65 COG0418 PyrC Dihydroorotase [N 61.4 11 0.00023 34.1 3.7 50 116-169 130-187 (344)
66 PRK04169 geranylgeranylglycery 61.0 25 0.00054 29.9 5.8 41 104-154 26-66 (232)
67 PRK13317 pantothenate kinase; 60.3 74 0.0016 27.5 8.7 86 63-168 2-88 (277)
68 COG1924 Activator of 2-hydroxy 60.2 21 0.00045 32.9 5.5 49 34-82 106-154 (396)
69 cd02812 PcrB_like PcrB_like pr 59.8 34 0.00074 28.8 6.4 47 99-154 14-60 (219)
70 PRK03011 butyrate kinase; Prov 59.3 83 0.0018 28.2 9.1 62 63-126 2-86 (358)
71 PF14796 AP3B1_C: Clathrin-ada 59.1 9.4 0.0002 30.4 2.7 40 25-73 103-143 (145)
72 cd02067 B12-binding B12 bindin 58.7 58 0.0012 23.6 6.8 61 86-153 26-86 (119)
73 TIGR00555 panK_eukar pantothen 56.8 76 0.0016 27.7 8.2 88 65-167 2-91 (279)
74 COG3513 Predicted CRISPR-assoc 56.3 9.7 0.00021 38.4 2.8 20 62-81 3-22 (1088)
75 COG0420 SbcD DNA repair exonuc 55.6 45 0.00097 29.5 6.7 54 98-154 28-81 (390)
76 PF00012 HSP70: Hsp70 protein; 55.5 10 0.00023 34.9 2.8 18 65-82 1-18 (602)
77 PF13727 CoA_binding_3: CoA-bi 55.5 25 0.00055 26.3 4.5 45 99-154 130-174 (175)
78 cd01987 USP_OKCHK USP domain i 55.4 69 0.0015 22.7 6.7 24 96-119 71-94 (124)
79 cd02064 FAD_synthetase_N FAD s 55.3 78 0.0017 25.1 7.5 63 98-169 87-157 (180)
80 PF14450 FtsA: Cell division p 54.4 42 0.00091 24.8 5.5 19 65-83 1-19 (120)
81 PF02310 B12-binding: B12 bind 54.2 52 0.0011 23.5 5.9 48 99-154 40-87 (121)
82 TIGR03123 one_C_unchar_1 proba 54.2 73 0.0016 28.4 7.8 81 66-154 1-92 (318)
83 TIGR00329 gcp_kae1 metallohydr 53.8 1.5E+02 0.0032 25.7 10.1 84 66-156 1-108 (305)
84 cd02071 MM_CoA_mut_B12_BD meth 53.8 77 0.0017 23.5 6.9 53 86-144 26-78 (122)
85 PF03932 CutC: CutC family; I 53.1 52 0.0011 27.4 6.3 56 105-169 80-138 (201)
86 cd01844 SGNH_hydrolase_like_6 52.3 63 0.0014 24.8 6.4 52 102-155 49-100 (177)
87 COG4126 Hydantoin racemase [Am 51.6 31 0.00067 29.6 4.8 39 99-152 163-201 (230)
88 cd00851 MTH1175 This uncharact 51.1 64 0.0014 22.4 5.8 49 100-166 53-101 (103)
89 cd00293 USP_Like Usp: Universa 50.9 20 0.00044 24.6 3.1 21 99-119 82-102 (130)
90 PRK09545 znuA high-affinity zi 50.1 64 0.0014 28.1 6.7 39 126-168 234-272 (311)
91 PRK14878 UGMP family protein; 49.8 98 0.0021 27.0 7.9 85 66-157 1-105 (323)
92 PF01884 PcrB: PcrB family; I 49.5 81 0.0018 26.9 7.0 44 99-154 21-65 (230)
93 TIGR00619 sbcd exonuclease Sbc 49.3 93 0.002 26.1 7.4 53 98-154 27-81 (253)
94 PF09547 Spore_IV_A: Stage IV 48.7 46 0.00099 31.5 5.8 58 102-169 173-231 (492)
95 PF03464 eRF1_2: eRF1 domain 2 48.1 43 0.00094 25.3 4.8 87 65-163 4-117 (133)
96 cd01017 AdcA Metal binding pro 47.8 70 0.0015 27.0 6.5 36 127-166 203-238 (282)
97 PRK11175 universal stress prot 47.7 67 0.0014 26.7 6.3 53 97-156 94-146 (305)
98 TIGR00696 wecB_tagA_cpsF bacte 47.0 1.1E+02 0.0025 24.6 7.3 57 96-164 34-90 (177)
99 smart00842 FtsA Cell division 46.6 1.3E+02 0.0028 23.7 7.5 55 65-119 1-75 (187)
100 PRK05627 bifunctional riboflav 46.5 62 0.0014 28.4 6.1 65 98-169 101-172 (305)
101 PF13407 Peripla_BP_4: Peripla 46.2 73 0.0016 25.3 6.1 45 99-157 45-89 (257)
102 TIGR01174 ftsA cell division p 45.8 1.1E+02 0.0023 26.9 7.5 55 65-119 2-76 (371)
103 cd01018 ZntC Metal binding pro 45.7 78 0.0017 26.6 6.4 38 126-167 199-236 (266)
104 KOG1220 Phosphoglucomutase/pho 44.7 49 0.0011 32.1 5.5 49 102-159 90-141 (607)
105 cd06294 PBP1_ycjW_transcriptio 44.5 80 0.0017 25.0 6.0 43 99-156 49-91 (270)
106 PTZ00340 O-sialoglycoprotein e 44.1 2E+02 0.0044 25.9 9.1 84 64-155 2-108 (345)
107 PRK10966 exonuclease subunit S 43.4 1.1E+02 0.0023 27.9 7.3 52 99-154 28-80 (407)
108 PRK11572 copper homeostasis pr 43.3 1.1E+02 0.0024 26.4 7.0 57 104-169 80-139 (248)
109 PF11104 PilM_2: Type IV pilus 43.2 1.1E+02 0.0023 26.6 7.1 54 67-120 1-71 (340)
110 cd00248 Mth938-like Mth938-lik 43.0 1.3E+02 0.0028 22.2 6.5 54 99-167 41-94 (109)
111 cd03416 CbiX_SirB_N Sirohydroc 42.8 1.2E+02 0.0025 21.3 6.7 49 114-167 3-53 (101)
112 TIGR01175 pilM type IV pilus a 42.6 1.7E+02 0.0037 25.1 8.1 59 63-121 3-78 (348)
113 PF12724 Flavodoxin_5: Flavodo 42.3 53 0.0011 24.8 4.5 12 110-121 43-54 (143)
114 cd01137 PsaA Metal binding pro 42.0 1.2E+02 0.0025 26.0 7.0 39 125-167 207-245 (287)
115 cd06297 PBP1_LacI_like_12 Liga 41.9 91 0.002 25.1 6.1 42 100-156 45-86 (269)
116 COG0675 Transposase and inacti 41.8 25 0.00054 29.1 2.8 52 108-162 260-311 (364)
117 PF14331 ImcF-related_N: ImcF- 41.3 54 0.0012 27.9 4.8 56 98-154 9-75 (266)
118 PF00072 Response_reg: Respons 41.3 1.1E+02 0.0024 20.7 7.4 59 99-167 32-90 (112)
119 cd00950 DHDPS Dihydrodipicolin 41.2 1E+02 0.0022 26.0 6.4 52 99-157 84-135 (284)
120 PF14606 Lipase_GDSL_3: GDSL-l 41.1 83 0.0018 25.8 5.7 55 97-155 46-100 (178)
121 cd00562 NifX_NifB This CD repr 41.1 1.2E+02 0.0026 20.9 6.0 51 100-167 51-101 (102)
122 cd01016 TroA Metal binding pro 40.9 1.1E+02 0.0025 25.9 6.7 39 125-167 191-229 (276)
123 TIGR00749 glk glucokinase, pro 40.9 1.1E+02 0.0024 26.2 6.7 86 66-156 1-99 (316)
124 PF13911 AhpC-TSA_2: AhpC/TSA 40.6 85 0.0018 22.6 5.2 46 103-163 6-51 (115)
125 PRK12359 flavodoxin FldB; Prov 40.5 36 0.00078 27.4 3.4 31 114-144 138-168 (172)
126 PF06180 CbiK: Cobalt chelatas 40.5 92 0.002 26.9 6.1 67 84-154 76-147 (262)
127 PRK12564 carbamoyl phosphate s 40.4 39 0.00086 30.4 4.0 47 62-117 177-225 (360)
128 TIGR03192 benz_CoA_bzdQ benzoy 40.1 1.5E+02 0.0033 26.1 7.5 49 63-111 32-83 (293)
129 cd01122 GP4d_helicase GP4d_hel 40.0 65 0.0014 26.5 5.0 59 98-156 128-189 (271)
130 cd00984 DnaB_C DnaB helicase C 39.9 1.4E+02 0.0031 23.9 6.9 59 98-156 111-171 (242)
131 TIGR00671 baf pantothenate kin 39.4 2.3E+02 0.005 23.8 9.6 52 65-117 1-56 (243)
132 cd06533 Glyco_transf_WecG_TagA 39.3 1.6E+02 0.0036 23.1 7.1 58 96-165 32-90 (171)
133 COG0151 PurD Phosphoribosylami 39.1 1.2E+02 0.0025 28.5 6.8 67 98-168 51-135 (428)
134 TIGR02263 benz_CoA_red_C benzo 39.0 87 0.0019 28.0 6.0 50 98-155 309-358 (380)
135 PF08821 CGGC: CGGC domain; I 38.7 92 0.002 23.3 5.2 52 97-153 53-104 (107)
136 KOG4013 Predicted Cu2+ homeost 38.3 78 0.0017 27.1 5.2 43 103-154 87-129 (255)
137 PF03808 Glyco_tran_WecB: Glyc 38.0 1.2E+02 0.0027 23.8 6.2 38 97-144 88-125 (172)
138 PLN03184 chloroplast Hsp70; Pr 38.0 37 0.00081 32.8 3.7 20 62-81 38-57 (673)
139 COG0079 HisC Histidinol-phosph 37.9 1.1E+02 0.0023 27.3 6.3 51 100-158 136-186 (356)
140 TIGR02260 benz_CoA_red_B benzo 37.9 2E+02 0.0043 26.3 8.2 62 99-167 339-406 (413)
141 PF11215 DUF3010: Protein of u 37.9 1.1E+02 0.0025 24.2 5.8 50 99-154 50-100 (138)
142 cd06311 PBP1_ABC_sugar_binding 37.7 1.2E+02 0.0026 24.3 6.1 44 100-156 50-93 (274)
143 PRK13410 molecular chaperone D 37.5 32 0.00069 33.4 3.1 19 63-81 2-20 (668)
144 PF00155 Aminotran_1_2: Aminot 37.2 79 0.0017 26.7 5.2 57 98-160 131-192 (363)
145 cd01828 sialate_O-acetylestera 37.2 1.8E+02 0.0038 21.8 6.9 10 110-119 87-96 (169)
146 COG1433 Uncharacterized conser 37.1 1.8E+02 0.004 22.3 6.7 51 100-168 55-105 (121)
147 PTZ00009 heat shock 70 kDa pro 37.1 35 0.00076 32.8 3.3 21 61-81 2-22 (653)
148 PRK03317 histidinol-phosphate 36.9 1.3E+02 0.0027 26.0 6.5 52 99-159 149-200 (368)
149 TIGR02529 EutJ ethanolamine ut 36.9 2.5E+02 0.0053 23.4 8.6 84 67-160 1-101 (239)
150 PRK07179 hypothetical protein; 36.9 1.2E+02 0.0027 26.5 6.5 53 98-159 169-221 (407)
151 cd01019 ZnuA Zinc binding prot 36.8 1.6E+02 0.0035 25.1 7.0 39 126-168 210-248 (286)
152 PTZ00186 heat shock 70 kDa pre 36.2 41 0.0009 32.6 3.7 20 63-82 27-46 (657)
153 PHA02546 47 endonuclease subun 36.1 1.2E+02 0.0026 26.6 6.3 55 98-154 27-82 (340)
154 PTZ00400 DnaK-type molecular c 36.0 33 0.00072 33.1 3.0 54 11-82 5-60 (663)
155 PRK11678 putative chaperone; P 35.9 42 0.00092 30.9 3.6 18 64-81 1-18 (450)
156 PRK13328 pantothenate kinase; 35.9 2.7E+02 0.0059 23.6 8.7 52 64-117 2-54 (255)
157 COG2205 KdpD Osmosensitive K+ 35.9 1.1E+02 0.0024 31.1 6.6 55 95-156 319-374 (890)
158 PRK13331 pantothenate kinase; 35.9 1.7E+02 0.0037 25.1 7.0 21 63-83 7-27 (251)
159 KOG0237 Glycinamide ribonucleo 35.8 1.2E+02 0.0025 30.1 6.5 68 97-168 55-140 (788)
160 TIGR00674 dapA dihydrodipicoli 35.7 1.2E+02 0.0025 25.8 6.0 50 100-156 83-132 (285)
161 PRK14457 ribosomal RNA large s 35.7 1.7E+02 0.0037 26.2 7.2 61 97-163 271-334 (345)
162 cd06320 PBP1_allose_binding Pe 35.5 1.4E+02 0.0031 23.8 6.2 42 102-156 49-90 (275)
163 PF01261 AP_endonuc_2: Xylose 35.4 1.8E+02 0.0038 22.1 6.5 70 99-168 73-152 (213)
164 TIGR00665 DnaB replicative DNA 35.4 1.3E+02 0.0028 27.0 6.5 57 99-155 294-352 (434)
165 cd03769 SR_IS607_transposase_l 35.1 1.5E+02 0.0033 22.4 6.0 53 98-160 50-102 (134)
166 cd04724 Tryptophan_synthase_al 35.0 1.4E+02 0.003 25.0 6.2 53 98-153 15-81 (242)
167 cd01545 PBP1_SalR Ligand-bindi 34.8 1.2E+02 0.0026 24.0 5.7 18 99-116 45-62 (270)
168 PF03237 Terminase_6: Terminas 34.8 1.8E+02 0.0039 24.0 6.9 59 59-117 222-290 (384)
169 PRK07667 uridine kinase; Provi 34.7 1.5E+02 0.0032 23.6 6.2 51 100-158 4-57 (193)
170 PRK11175 universal stress prot 34.5 62 0.0014 26.9 4.1 50 98-154 249-298 (305)
171 PRK00290 dnaK molecular chaper 34.0 39 0.00084 32.2 3.0 18 64-81 3-20 (627)
172 CHL00073 chlN photochlorophyll 33.9 1.1E+02 0.0023 28.7 5.8 52 96-155 83-135 (457)
173 cd00458 SugarP_isomerase Sugar 33.7 1.3E+02 0.0028 23.6 5.6 48 100-158 10-60 (169)
174 PRK05183 hscA chaperone protei 33.5 45 0.00098 31.8 3.4 19 63-81 19-37 (616)
175 cd01972 Nitrogenase_VnfE_like 32.8 1E+02 0.0023 27.8 5.5 58 96-160 75-133 (426)
176 COG3839 MalK ABC-type sugar tr 32.6 46 0.00099 29.9 3.1 91 67-166 69-169 (338)
177 TIGR00241 CoA_E_activ CoA-subs 32.6 1.1E+02 0.0024 25.3 5.3 17 65-81 2-18 (248)
178 COG0589 UspA Universal stress 32.4 88 0.0019 22.3 4.2 50 99-155 102-151 (154)
179 COG3703 ChaC Uncharacterized p 32.4 51 0.0011 27.6 3.1 21 61-81 56-76 (190)
180 PRK03170 dihydrodipicolinate s 31.9 1.4E+02 0.0031 25.2 5.9 51 99-156 85-135 (292)
181 cd06271 PBP1_AglR_RafR_like Li 31.5 1.5E+02 0.0034 23.2 5.8 19 99-117 48-66 (268)
182 TIGR01198 pgl 6-phosphoglucono 31.5 1.4E+02 0.003 24.8 5.7 37 113-158 29-66 (233)
183 TIGR03722 arch_KAE1 universal 31.5 3.3E+02 0.0072 23.6 8.3 84 66-156 1-105 (322)
184 TIGR03190 benz_CoA_bzdN benzoy 31.3 1.5E+02 0.0032 26.5 6.2 50 98-155 301-350 (377)
185 cd06309 PBP1_YtfQ_like Peripla 31.2 1.8E+02 0.0039 23.2 6.2 42 100-155 46-87 (273)
186 CHL00076 chlB photochlorophyll 31.2 92 0.002 29.2 5.0 56 96-159 71-128 (513)
187 PRK13411 molecular chaperone D 31.2 46 0.001 32.0 3.1 19 63-81 2-20 (653)
188 TIGR01279 DPOR_bchN light-inde 31.2 1.4E+02 0.0031 26.8 6.1 56 97-159 71-127 (407)
189 PF03808 Glyco_tran_WecB: Glyc 31.0 2.5E+02 0.0055 22.0 6.9 58 96-165 34-92 (172)
190 TIGR01175 pilM type IV pilus a 30.9 3.4E+02 0.0074 23.2 10.4 19 64-82 189-207 (348)
191 PRK00923 sirohydrochlorin coba 30.9 2.2E+02 0.0047 20.9 6.5 27 113-144 4-31 (126)
192 COG1410 MetH Methionine syntha 30.8 1.2E+02 0.0026 30.6 5.8 73 68-153 420-492 (842)
193 TIGR03729 acc_ester putative p 30.8 1.8E+02 0.004 23.6 6.2 47 99-154 21-67 (239)
194 TIGR02637 RhaS rhamnose ABC tr 30.7 2.2E+02 0.0047 23.4 6.7 40 103-155 49-88 (302)
195 cd00338 Ser_Recombinase Serine 30.7 1.7E+02 0.0036 21.2 5.4 57 97-161 52-108 (137)
196 PRK11031 guanosine pentaphosph 30.5 3E+02 0.0064 25.6 8.2 84 62-155 5-112 (496)
197 cd06301 PBP1_rhizopine_binding 30.2 1.9E+02 0.0042 22.9 6.2 44 100-157 47-90 (272)
198 PF06050 HGD-D: 2-hydroxygluta 30.1 73 0.0016 27.1 3.9 52 97-155 273-324 (349)
199 PRK09165 replicative DNA helic 29.8 1.6E+02 0.0035 27.5 6.3 57 99-155 330-390 (497)
200 TIGR00083 ribF riboflavin kina 29.6 88 0.0019 27.3 4.3 69 98-169 85-155 (288)
201 cd06533 Glyco_transf_WecG_TagA 29.5 2E+02 0.0043 22.7 6.0 36 99-144 88-123 (171)
202 PF00701 DHDPS: Dihydrodipicol 29.5 3.4E+02 0.0075 22.8 8.9 51 99-156 85-135 (289)
203 cd01829 SGNH_hydrolase_peri2 S 29.5 1.9E+02 0.0041 22.2 5.8 40 101-143 99-138 (200)
204 cd06316 PBP1_ABC_sugar_binding 29.4 1.8E+02 0.004 23.7 6.0 43 100-156 47-89 (294)
205 CHL00094 dnaK heat shock prote 29.4 50 0.0011 31.4 3.0 19 63-81 2-20 (621)
206 cd06323 PBP1_ribose_binding Pe 29.4 2.2E+02 0.0049 22.3 6.4 41 101-155 47-87 (268)
207 PF01297 TroA: Periplasmic sol 29.3 2.7E+02 0.0058 22.8 7.1 17 100-116 189-205 (256)
208 PF14106 DUF4279: Domain of un 29.2 1.2E+02 0.0027 21.8 4.5 43 99-141 68-113 (118)
209 PF01385 OrfB_IS605: Probable 29.1 37 0.00081 26.7 1.8 21 61-81 122-142 (227)
210 cd00954 NAL N-Acetylneuraminic 29.0 2.1E+02 0.0045 24.3 6.5 54 99-158 85-138 (288)
211 TIGR02350 prok_dnaK chaperone 29.0 48 0.001 31.2 2.8 17 65-81 2-18 (595)
212 cd06282 PBP1_GntR_like_2 Ligan 28.9 2.2E+02 0.0047 22.4 6.2 12 106-117 51-62 (266)
213 TIGR01283 nifE nitrogenase mol 28.9 1.6E+02 0.0034 26.9 6.0 56 96-158 107-163 (456)
214 cd01400 6PGL 6PGL: 6-Phosphogl 28.8 1.3E+02 0.0029 24.5 5.1 48 100-158 13-62 (219)
215 TIGR00583 mre11 DNA repair pro 28.8 1.9E+02 0.0041 26.5 6.5 43 98-142 30-72 (405)
216 COG0363 NagB 6-phosphogluconol 28.8 1.5E+02 0.0032 25.2 5.4 38 113-159 33-74 (238)
217 PRK10490 sensor protein KdpD; 28.8 1.2E+02 0.0026 30.3 5.6 52 95-155 321-373 (895)
218 PF04250 DUF429: Protein of un 28.7 1.8E+02 0.0039 23.3 5.8 65 67-140 1-68 (209)
219 TIGR00683 nanA N-acetylneurami 28.5 2.4E+02 0.0053 24.1 6.8 53 99-157 85-137 (290)
220 cd00952 CHBPH_aldolase Trans-o 28.5 2.5E+02 0.0053 24.3 6.9 63 99-168 31-97 (309)
221 cd01967 Nitrogenase_MoFe_alpha 28.4 1.9E+02 0.0041 25.5 6.3 53 96-155 73-125 (406)
222 cd07388 MPP_Tt1561 Thermus the 28.3 2.3E+02 0.005 23.7 6.5 50 97-154 18-68 (224)
223 PF00349 Hexokinase_1: Hexokin 28.2 59 0.0013 26.8 2.9 35 38-81 46-81 (206)
224 PRK13566 anthranilate synthase 28.1 41 0.00088 33.1 2.2 16 61-76 525-540 (720)
225 TIGR02313 HpaI-NOT-DapA 2,4-di 28.1 2E+02 0.0043 24.7 6.2 52 100-157 85-136 (294)
226 cd06307 PBP1_uncharacterized_s 28.1 2.4E+02 0.0053 22.5 6.5 44 100-158 50-93 (275)
227 COG0248 GppA Exopolyphosphatas 27.9 1.8E+02 0.0039 27.5 6.3 85 63-156 3-110 (492)
228 KOG1856 Transcription elongati 27.9 5.7E+02 0.012 27.3 10.1 91 64-157 604-710 (1299)
229 COG0443 DnaK Molecular chapero 27.9 61 0.0013 30.9 3.3 20 63-82 5-24 (579)
230 TIGR02313 HpaI-NOT-DapA 2,4-di 27.8 2.6E+02 0.0057 23.9 6.9 62 99-167 23-88 (294)
231 PLN02417 dihydrodipicolinate s 27.8 2.8E+02 0.006 23.6 7.0 63 99-168 24-90 (280)
232 PRK02261 methylaspartate mutas 27.7 2.8E+02 0.0061 21.2 6.8 52 86-143 30-81 (137)
233 cd05785 DNA_polB_like2_exo Unc 27.6 2.2E+02 0.0048 23.2 6.2 22 96-118 59-80 (207)
234 cd00408 DHDPS-like Dihydrodipi 27.6 1.9E+02 0.0042 24.1 6.0 52 99-157 81-132 (281)
235 PF02833 DHHA2: DHHA2 domain; 27.6 64 0.0014 23.7 2.7 50 65-117 24-73 (127)
236 PRK10550 tRNA-dihydrouridine s 27.6 3E+02 0.0064 24.1 7.3 64 99-168 150-214 (312)
237 PRK08175 aminotransferase; Val 27.5 2.2E+02 0.0048 24.8 6.5 55 99-159 151-207 (395)
238 cd06292 PBP1_LacI_like_10 Liga 27.4 2.1E+02 0.0045 22.7 5.9 47 100-156 45-91 (273)
239 cd01025 TOPRIM_recR TOPRIM_rec 27.3 1.2E+02 0.0027 22.9 4.3 29 99-127 45-73 (112)
240 PF05378 Hydant_A_N: Hydantoin 27.2 2.2E+02 0.0048 22.7 6.0 52 66-117 2-63 (176)
241 cd01968 Nitrogenase_NifE_I Nit 27.2 2E+02 0.0043 25.7 6.3 57 95-158 71-128 (410)
242 cd06317 PBP1_ABC_sugar_binding 27.1 1.9E+02 0.004 22.9 5.6 43 101-157 48-90 (275)
243 PRK01433 hscA chaperone protei 27.1 57 0.0012 31.2 2.9 19 63-81 19-37 (595)
244 PF07355 GRDB: Glycine/sarcosi 27.0 2.3E+02 0.0049 25.8 6.5 55 96-157 66-122 (349)
245 PRK00304 hypothetical protein; 27.0 1.3E+02 0.0029 21.5 4.1 47 98-159 13-59 (75)
246 PF06490 FleQ: Flagellar regul 27.0 2.5E+02 0.0054 20.5 5.8 48 102-160 34-81 (109)
247 cd03414 CbiX_SirB_C Sirohydroc 26.9 2.4E+02 0.0052 20.2 6.3 22 123-144 8-30 (117)
248 cd06277 PBP1_LacI_like_1 Ligan 26.8 2.2E+02 0.0049 22.5 6.0 40 101-156 49-88 (268)
249 cd06322 PBP1_ABC_sugar_binding 26.6 2.5E+02 0.0053 22.2 6.2 42 101-156 47-88 (267)
250 COG1521 Pantothenate kinase ty 26.4 1.8E+02 0.004 25.0 5.7 20 64-83 1-20 (251)
251 TIGR00315 cdhB CO dehydrogenas 26.2 1.9E+02 0.0042 23.2 5.4 36 100-140 18-54 (162)
252 cd02930 DCR_FMN 2,4-dienoyl-Co 26.1 2.3E+02 0.0051 24.9 6.4 66 100-169 227-297 (353)
253 PF07505 Gp37_Gp68: Phage prot 26.1 53 0.0011 28.5 2.3 43 106-154 184-227 (261)
254 cd02070 corrinoid_protein_B12- 26.0 3.4E+02 0.0074 21.8 7.0 64 85-154 108-171 (201)
255 PF13481 AAA_25: AAA domain; P 25.6 1.5E+02 0.0031 22.8 4.6 58 98-156 128-187 (193)
256 PRK15005 universal stress prot 25.4 1.6E+02 0.0035 21.2 4.6 29 112-144 3-31 (144)
257 PF09989 DUF2229: CoA enzyme a 25.4 1E+02 0.0022 25.7 3.9 37 109-155 182-219 (221)
258 TIGR03191 benz_CoA_bzdO benzoy 25.3 2.3E+02 0.0049 26.0 6.4 20 98-117 349-368 (430)
259 COG1609 PurR Transcriptional r 25.2 2.7E+02 0.0058 24.1 6.6 73 71-158 57-147 (333)
260 cd00615 Orn_deC_like Ornithine 25.2 2.3E+02 0.0051 23.7 6.1 51 99-159 142-193 (294)
261 PRK09331 Sep-tRNA:Cys-tRNA syn 25.1 2.2E+02 0.0049 24.8 6.1 52 99-159 141-198 (387)
262 cd05565 PTS_IIB_lactose PTS_II 25.1 1E+02 0.0023 22.7 3.4 35 133-167 57-94 (99)
263 TIGR03286 methan_mark_15 putat 25.0 2.5E+02 0.0055 26.0 6.6 74 33-111 119-194 (404)
264 PRK13392 5-aminolevulinate syn 24.9 3.2E+02 0.007 23.9 7.1 42 109-159 177-218 (410)
265 cd01976 Nitrogenase_MoFe_alpha 24.7 2E+02 0.0043 26.1 5.8 57 96-159 84-142 (421)
266 PF00875 DNA_photolyase: DNA p 24.5 3.2E+02 0.007 20.8 6.9 18 100-117 78-95 (165)
267 PF00370 FGGY_N: FGGY family o 24.5 84 0.0018 25.5 3.1 19 64-82 1-19 (245)
268 PLN03226 serine hydroxymethylt 24.5 3E+02 0.0065 25.5 7.0 51 98-159 171-221 (475)
269 PRK05595 replicative DNA helic 24.4 2.3E+02 0.005 25.7 6.2 55 100-154 301-357 (444)
270 PRK14469 ribosomal RNA large s 24.4 3.4E+02 0.0073 23.9 7.1 60 98-163 268-329 (343)
271 PRK08760 replicative DNA helic 24.3 2.4E+02 0.0052 26.2 6.4 55 100-154 329-385 (476)
272 PF01182 Glucosamine_iso: Gluc 24.3 1.5E+02 0.0032 24.0 4.5 53 99-158 10-62 (199)
273 PF04412 DUF521: Protein of un 24.3 2.2E+02 0.0047 26.2 6.0 51 108-165 287-337 (400)
274 PRK04147 N-acetylneuraminate l 24.1 3.2E+02 0.0069 23.2 6.8 51 100-157 89-139 (293)
275 TIGR01917 gly_red_sel_B glycin 24.1 1.9E+02 0.004 27.2 5.5 53 97-156 63-117 (431)
276 TIGR01918 various_sel_PB selen 24.0 1.9E+02 0.0041 27.1 5.5 53 97-156 63-117 (431)
277 TIGR01295 PedC_BrcD bacterioci 23.9 2.1E+02 0.0045 21.3 5.0 48 99-155 13-60 (122)
278 PRK07324 transaminase; Validat 23.9 2.3E+02 0.0049 24.7 5.9 54 99-159 143-196 (373)
279 PRK11340 phosphodiesterase Yae 23.9 2.4E+02 0.0053 23.7 5.9 20 98-117 68-87 (271)
280 cd06302 PBP1_LsrB_Quorum_Sensi 23.8 1.9E+02 0.0042 23.8 5.2 42 101-156 48-89 (298)
281 cd01981 Pchlide_reductase_B Pc 23.7 1.9E+02 0.0041 26.0 5.5 57 96-159 71-128 (430)
282 TIGR01016 sucCoAbeta succinyl- 23.7 4.8E+02 0.01 23.1 8.0 79 85-169 284-363 (386)
283 TIGR01312 XylB D-xylulose kina 23.7 2.3E+02 0.005 25.4 6.0 17 66-82 1-17 (481)
284 TIGR02634 xylF D-xylose ABC tr 23.6 3E+02 0.0064 22.9 6.4 44 101-157 45-88 (302)
285 PRK12652 putative monovalent c 23.5 1.1E+02 0.0024 27.5 4.0 43 96-142 99-141 (357)
286 PRK11303 DNA-binding transcrip 23.4 2.9E+02 0.0062 22.8 6.2 42 101-156 108-149 (328)
287 TIGR00640 acid_CoA_mut_C methy 23.4 3.4E+02 0.0074 20.7 6.7 53 85-143 28-80 (132)
288 cd06318 PBP1_ABC_sugar_binding 23.3 2.5E+02 0.0053 22.4 5.6 42 101-156 47-88 (282)
289 PRK14463 ribosomal RNA large s 23.2 3.8E+02 0.0082 23.9 7.2 61 97-163 266-329 (349)
290 cd01541 PBP1_AraR Ligand-bindi 23.2 2.4E+02 0.0053 22.4 5.6 47 100-157 46-92 (273)
291 cd06281 PBP1_LacI_like_5 Ligan 23.2 3.2E+02 0.007 21.7 6.3 17 101-117 46-62 (269)
292 PRK08769 DNA polymerase III su 23.2 3.1E+02 0.0067 24.2 6.6 61 107-168 69-135 (319)
293 cd01124 KaiC KaiC is a circadi 23.2 3.2E+02 0.0069 20.6 6.0 58 98-159 83-141 (187)
294 PTZ00125 ornithine aminotransf 23.2 2E+02 0.0044 24.9 5.4 57 99-160 167-223 (400)
295 PF00004 AAA: ATPase family as 23.1 2.2E+02 0.0047 19.9 4.8 54 102-158 15-68 (132)
296 PRK09064 5-aminolevulinate syn 23.1 2.8E+02 0.006 24.2 6.3 51 100-159 165-218 (407)
297 PLN02721 threonine aldolase 23.0 2.7E+02 0.0058 23.3 6.0 55 99-158 120-180 (353)
298 cd06321 PBP1_ABC_sugar_binding 22.9 3.1E+02 0.0068 21.7 6.2 41 102-155 49-89 (271)
299 cd00954 NAL N-Acetylneuraminic 22.9 3.5E+02 0.0077 22.9 6.8 62 99-167 23-89 (288)
300 PF07066 DUF3882: Lactococcus 22.9 3E+02 0.0064 22.4 5.8 48 63-111 2-63 (159)
301 cd01965 Nitrogenase_MoFe_beta_ 22.8 2.5E+02 0.0055 25.2 6.1 61 95-159 66-128 (428)
302 TIGR00502 nagB glucosamine-6-p 22.8 2E+02 0.0044 24.1 5.2 50 100-158 18-75 (259)
303 COG0329 DapA Dihydrodipicolina 22.8 3.3E+02 0.0071 23.6 6.6 50 99-155 88-137 (299)
304 cd03412 CbiK_N Anaerobic cobal 22.8 2.2E+02 0.0048 21.4 5.0 45 113-167 3-48 (127)
305 cd06547 GH85_ENGase Endo-beta- 22.7 3.2E+02 0.0069 24.4 6.7 58 97-156 90-149 (339)
306 cd06295 PBP1_CelR Ligand bindi 22.7 2.8E+02 0.0061 22.0 5.9 42 100-156 54-95 (275)
307 TIGR03025 EPS_sugtrans exopoly 22.7 2.6E+02 0.0057 25.1 6.2 22 99-120 177-198 (445)
308 PRK14478 nitrogenase molybdenu 22.6 2.3E+02 0.005 26.2 5.9 53 96-155 105-157 (475)
309 COG2842 Uncharacterized ATPase 22.5 97 0.0021 27.6 3.3 40 98-137 181-220 (297)
310 cd00610 OAT_like Acetyl ornith 22.5 2.4E+02 0.0053 24.3 5.8 58 98-160 177-236 (413)
311 COG4148 ModC ABC-type molybdat 22.5 2E+02 0.0043 26.1 5.2 87 66-156 69-187 (352)
312 COG2410 Predicted nuclease (RN 22.4 4.5E+02 0.0098 21.8 7.0 85 64-157 2-109 (178)
313 PRK05958 8-amino-7-oxononanoat 22.4 3.3E+02 0.0072 23.0 6.5 52 99-159 155-208 (385)
314 cd01494 AAT_I Aspartate aminot 22.3 1.7E+02 0.0037 21.0 4.2 50 101-159 83-132 (170)
315 cd06315 PBP1_ABC_sugar_binding 22.2 2.3E+02 0.005 23.0 5.4 43 101-156 47-89 (280)
316 cd01833 XynB_like SGNH_hydrola 22.1 3.2E+02 0.007 20.0 7.0 56 100-155 67-124 (157)
317 TIGR03600 phage_DnaB phage rep 22.0 3.9E+02 0.0084 23.9 7.1 56 100-155 294-351 (421)
318 TIGR01821 5aminolev_synth 5-am 22.0 3.4E+02 0.0074 23.6 6.7 51 100-159 164-217 (402)
319 PRK13928 rod shape-determining 21.9 3.4E+02 0.0075 23.3 6.6 16 66-81 6-21 (336)
320 TIGR00289 conserved hypothetic 21.8 3E+02 0.0065 23.1 6.0 48 98-157 73-122 (222)
321 cd06300 PBP1_ABC_sugar_binding 21.8 3E+02 0.0064 21.9 5.8 43 100-156 51-93 (272)
322 TIGR03275 methan_mark_8 putati 21.7 71 0.0015 27.9 2.2 61 59-135 150-210 (259)
323 cd04502 SGNH_hydrolase_like_7 21.6 3.5E+02 0.0077 20.2 6.2 42 111-155 90-131 (171)
324 PRK13329 pantothenate kinase; 21.5 5E+02 0.011 21.9 8.0 18 64-81 2-19 (249)
325 cd08180 PDD 1,3-propanediol de 21.5 1.6E+02 0.0034 25.5 4.4 50 98-155 66-116 (332)
326 COG3643 Glutamate formiminotra 21.5 1.1E+02 0.0023 27.1 3.3 44 112-159 88-131 (302)
327 cd06285 PBP1_LacI_like_7 Ligan 21.5 3.8E+02 0.0081 21.2 6.3 41 101-156 46-86 (265)
328 COG2248 Predicted hydrolase (m 21.4 4.1E+02 0.0089 23.7 6.8 22 100-121 191-212 (304)
329 PF00532 Peripla_BP_1: Peripla 21.4 4.4E+02 0.0095 22.0 7.0 46 72-117 1-63 (279)
330 PRK08574 cystathionine gamma-s 21.3 1.8E+02 0.0039 25.8 4.8 53 99-160 126-178 (385)
331 PRK14476 nitrogenase molybdenu 21.2 2.9E+02 0.0063 25.4 6.2 61 95-159 77-139 (455)
332 PRK07309 aromatic amino acid a 21.2 2.9E+02 0.0064 24.0 6.1 55 99-159 153-209 (391)
333 PRK03692 putative UDP-N-acetyl 21.0 3.3E+02 0.0072 23.1 6.2 36 99-144 146-181 (243)
334 PRK13600 putative ribosomal pr 21.0 3.3E+02 0.0071 19.6 6.2 46 100-157 19-64 (84)
335 PRK10014 DNA-binding transcrip 20.8 3.3E+02 0.0072 22.6 6.1 42 101-156 111-152 (342)
336 TIGR02826 RNR_activ_nrdG3 anae 20.8 3.6E+02 0.0079 20.9 5.9 44 100-154 49-94 (147)
337 CHL00197 carA carbamoyl-phosph 20.7 1.4E+02 0.003 27.3 4.0 47 62-117 192-240 (382)
338 cd08165 MPP_MPPE1 human MPPE1 20.5 4E+02 0.0087 20.5 6.2 21 98-118 26-46 (156)
339 cd06454 KBL_like KBL_like; thi 20.5 2.7E+02 0.006 23.1 5.6 51 100-159 118-172 (349)
340 TIGR03023 WcaJ_sugtrans Undeca 20.4 3.3E+02 0.0072 24.5 6.4 23 99-121 180-202 (451)
341 TIGR00858 bioF 8-amino-7-oxono 20.4 4.2E+02 0.009 22.0 6.6 52 99-159 132-186 (360)
342 cd01979 Pchlide_reductase_N Pc 20.3 1.9E+02 0.0042 25.7 4.8 58 96-160 73-131 (396)
343 cd01399 GlcN6P_deaminase GlcN6 20.3 2.7E+02 0.0059 22.2 5.3 53 99-158 8-61 (232)
344 PF01177 Asp_Glu_race: Asp/Glu 20.2 2E+02 0.0042 22.6 4.4 39 102-152 167-205 (216)
345 COG1693 Repressor of nif and g 20.2 80 0.0017 28.3 2.3 22 62-83 271-292 (325)
346 TIGR02026 BchE magnesium-proto 20.2 3.4E+02 0.0074 25.1 6.6 43 96-143 225-267 (497)
347 cd00642 GTP_cyclohydro1 GTP cy 20.2 65 0.0014 26.5 1.6 39 109-167 91-129 (185)
348 cd01539 PBP1_GGBP Periplasmic 20.1 3.9E+02 0.0085 22.1 6.4 40 104-156 51-90 (303)
349 PHA02533 17 large terminase pr 20.1 6.9E+02 0.015 23.7 8.6 61 56-117 308-378 (534)
350 PHA02542 41 41 helicase; Provi 20.1 3.6E+02 0.0078 25.1 6.7 55 100-154 289-350 (473)
No 1
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=100.00 E-value=2e-32 Score=213.55 Aligned_cols=105 Identities=31% Similarity=0.481 Sum_probs=96.9
Q ss_pred CceEEEEecCCCeEEEEEecC--CeeEEeEEEEccch-hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHH
Q 030836 62 GGFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRGE-KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~--~~a~Pl~~i~~~~~-~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~ 138 (170)
.+++||||||+||||||+||+ .+|+|+.++.+++. ....+|.+++++|+++.||||+|+++||+.+++++.|++|++
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 467999999999999999995 58999999987543 357899999999999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 139 RLAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 139 ~L~~~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
+|++++ ++||++|||||||.+|+++|++
T Consensus 83 ~L~~~~---~~~v~~~DEr~TT~~A~~~l~~ 110 (138)
T PRK00109 83 RLEGRF---GLPVVLVDERLSTVEAERALAD 110 (138)
T ss_pred HHHHHh---CCCEEEEcCCcCHHHHHHHHHH
Confidence 999885 8999999999999999999975
No 2
>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=100.00 E-value=3.5e-33 Score=217.15 Aligned_cols=105 Identities=35% Similarity=0.490 Sum_probs=95.4
Q ss_pred ceEEEEecCCCeEEEEEecCC--eeEEeEEEEccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHH
Q 030836 63 GFSLGVDLGLSRTGLALSKGF--CVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~--~a~Pl~~i~~~~-~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~ 139 (170)
+++||||||+||||||+||+. +|+|+++|.+.+ ...++.|.+++++|+++.||||+|++|||+++++++.+++|+++
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 479999999999999999964 799999999653 35689999999999999999999999999999999999999999
Q ss_pred HHHhhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 140 LAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 140 L~~~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
|+++++ ++||++|||||||.+|+++|++
T Consensus 81 L~~~~~--~ipV~~~DEr~TT~~A~~~l~~ 108 (135)
T PF03652_consen 81 LKKRFP--GIPVILVDERLTTKEAERRLRE 108 (135)
T ss_dssp HHHHH---TSEEEEEECSCSHHCCHCCHHH
T ss_pred HHHhcC--CCcEEEECCChhHHHHHHHHHH
Confidence 999974 8999999999999999998865
No 3
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=99.98 E-value=2.7e-32 Score=214.51 Aligned_cols=105 Identities=31% Similarity=0.439 Sum_probs=98.0
Q ss_pred ceEEEEecCCCeEEEEEecCC--eeEEeEEEEccchh--HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHH
Q 030836 63 GFSLGVDLGLSRTGLALSKGF--CVRPLTVLKLRGEK--LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~--~a~Pl~~i~~~~~~--~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~ 138 (170)
+++||||||+||||||+||.. +|+|+++|.+.+.. .+..|.+++++|+++.||||+|++|+|+.+++++.+++|++
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 689999999999999999964 89999999976653 67899999999999999999999999999999999999999
Q ss_pred HHHHhhccCCccEEEEcCcccHHHHHHHHHcC
Q 030836 139 RLAVRAAERGWRVYLLDEHRTSAEAVDRMINM 170 (170)
Q Consensus 139 ~L~~~~~~~~lpV~lvDER~TT~eA~~~L~e~ 170 (170)
+|++++ ++||++||||+||.+|++.|+++
T Consensus 82 ~L~~r~---~lpv~l~DERltTv~A~~~L~~~ 110 (141)
T COG0816 82 RLKKRF---NLPVVLWDERLSTVEAERMLIEA 110 (141)
T ss_pred HHHHhc---CCCEEEEcCccCHHHHHHHHHHc
Confidence 999996 89999999999999999999763
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=99.98 E-value=6.9e-32 Score=208.68 Aligned_cols=101 Identities=28% Similarity=0.427 Sum_probs=93.9
Q ss_pred EEEecCCCeEEEEEecC--CeeEEeEEEEccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 030836 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~--~~a~Pl~~i~~~~-~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~ 142 (170)
||||||+||||||+||. .+|+|+.++.+++ ...+..|.+++++|+++.||||+|++|||++++++++|++|+++|++
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 69999999999999996 4899999998743 45678999999999999999999999999999999999999999998
Q ss_pred hhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 143 RAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
++ ++||++||||+||.+|+++|++
T Consensus 81 ~~---~~~v~~~DEr~TT~~A~~~l~~ 104 (130)
T TIGR00250 81 RF---GVPVVLWDERLSTVEAESGLFA 104 (130)
T ss_pred Hh---CCCEEEEcCCcCHHHHHHHHHH
Confidence 85 8999999999999999999975
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=99.59 E-value=1.8e-14 Score=103.15 Aligned_cols=95 Identities=26% Similarity=0.364 Sum_probs=78.4
Q ss_pred eEEEEecCCCeEEEEEecC--CeeEEeEEEEc-cchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHH
Q 030836 64 FSLGVDLGLSRTGLALSKG--FCVRPLTVLKL-RGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~--~~a~Pl~~i~~-~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L 140 (170)
++||||+|..+||+|+.|. ....+..+... +.....+.|.+++++++++.|+||.|-..||....... ..|.+.|
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 5899999999999999984 34555554432 22346789999999999999999999999998776654 8999999
Q ss_pred HHhhccCCccEEEEcCcccHHHH
Q 030836 141 AVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 141 ~~~~~~~~lpV~lvDER~TT~eA 163 (170)
++++ ++||+++||++||.+|
T Consensus 80 ~~~~---~~pv~~~nDa~st~~a 99 (99)
T smart00732 80 KERF---NLPVVLVDERLATVYA 99 (99)
T ss_pred HHhh---CCcEEEEeCCcccccC
Confidence 8875 8999999999999875
No 6
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=97.75 E-value=0.00043 Score=55.64 Aligned_cols=89 Identities=24% Similarity=0.172 Sum_probs=55.9
Q ss_pred ceEEEEecCCCeEEEEEecC--Ce--eEEeEEEEccch--------hHHHHHHHHHHHcCCCEEEEeecCCC-CCCCChh
Q 030836 63 GFSLGVDLGLSRTGLALSKG--FC--VRPLTVLKLRGE--------KLELQLLEIAQREETDEFIIGLPKSW-DGSETPQ 129 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~--~~--a~Pl~~i~~~~~--------~~~~~L~~li~e~~v~~IVVGlPl~~-dGt~s~~ 129 (170)
.+|||||+|..++|+|+.+. .. ..-.++|..... ...+.|.+++++|+++.++|=-|.-. |...+-.
T Consensus 2 m~iLGIDPgl~~tG~avi~~~~~~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~Pd~vaiE~~f~~~n~~sa~~ 81 (164)
T PRK00039 2 MRILGIDPGLRRTGYGVIEVEGRRLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQPDEVAIEEVFFNKNPQSALK 81 (164)
T ss_pred CEEEEEccccCceeEEEEEecCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEehhhhccChHHHHH
Confidence 48999999999999999873 22 234446653211 23478999999999999999887642 2222111
Q ss_pred HHHHHHHHHHHHHhhccCCccEEEE
Q 030836 130 SNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 130 ~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.-.++--+.....+ .++||+.+
T Consensus 82 l~~arGvi~la~~~---~~ipv~ey 103 (164)
T PRK00039 82 LGQARGVAILAAAQ---RGLPVAEY 103 (164)
T ss_pred HHHHHHHHHHHHHH---cCCCEEEE
Confidence 12233333223232 48999865
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=97.66 E-value=0.00065 Score=53.54 Aligned_cols=57 Identities=26% Similarity=0.249 Sum_probs=37.0
Q ss_pred EEEEecCCCeEEEEEecC--C--eeEEeEEEEccch--------hHHHHHHHHHHHcCCCEEEEeecCC
Q 030836 65 SLGVDLGLSRTGLALSKG--F--CVRPLTVLKLRGE--------KLELQLLEIAQREETDEFIIGLPKS 121 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~--~--~a~Pl~~i~~~~~--------~~~~~L~~li~e~~v~~IVVGlPl~ 121 (170)
|||||+|..++|+|+-|. . .....++|..... ...+.|.+++++|+|+.+++=-+.-
T Consensus 1 ILGIDPgl~~tG~avi~~~~~~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~P~~vaiE~~f~ 69 (149)
T PF02075_consen 1 ILGIDPGLSNTGYAVIEEDGGKLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYNPDEVAIEEIFF 69 (149)
T ss_dssp EEEEE--SSEEEEEEEEEETTEEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH--SEEEEEE-S-
T ss_pred CEEECCCCCCeeEEEEEeeCCEEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEeehhhh
Confidence 799999999999999983 2 2344456653221 2246899999999999999988764
No 8
>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=97.56 E-value=0.0017 Score=51.10 Aligned_cols=57 Identities=19% Similarity=0.139 Sum_probs=42.3
Q ss_pred eEEEEecCCCeEEEEEecCC--e--eEEeEEEEccch--------hHHHHHHHHHHHcCCCEEEEeecC
Q 030836 64 FSLGVDLGLSRTGLALSKGF--C--VRPLTVLKLRGE--------KLELQLLEIAQREETDEFIIGLPK 120 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~--~--a~Pl~~i~~~~~--------~~~~~L~~li~e~~v~~IVVGlPl 120 (170)
+|||||+|..++|+|+.+.. . ..-.+++..... ...+.|.+++++|+++.++|=-+.
T Consensus 1 rILGIDPGl~~~G~av~~~~~~~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~Pd~vaiE~~~ 69 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVF 69 (154)
T ss_pred CEEEEccCcCceEEEEEEeeCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEEEhh
Confidence 58999999999999998732 2 234456654311 234689999999999999998655
No 9
>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=97.38 E-value=0.0014 Score=52.63 Aligned_cols=57 Identities=18% Similarity=0.141 Sum_probs=42.2
Q ss_pred EEEEecCCCeEEEEEecC--Ce--eEEeEEEEccch-------hHHHHHHHHHHHcCCCEEEEeecCC
Q 030836 65 SLGVDLGLSRTGLALSKG--FC--VRPLTVLKLRGE-------KLELQLLEIAQREETDEFIIGLPKS 121 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~--~~--a~Pl~~i~~~~~-------~~~~~L~~li~e~~v~~IVVGlPl~ 121 (170)
|||||+|..++|+|+-+. .. ..-.++|..+.. ...+.|.+++++|+++.+.|=-+.-
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 699999999999999883 22 334456653221 2246899999999999999987753
No 10
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=97.02 E-value=0.0064 Score=59.34 Aligned_cols=87 Identities=15% Similarity=0.254 Sum_probs=60.0
Q ss_pred eEEEEecCCCe-EEEEEecCC--eeEEeEEEEcc----chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHH
Q 030836 64 FSLGVDLGLSR-TGLALSKGF--CVRPLTVLKLR----GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSV 136 (170)
Q Consensus 64 ~iLgID~G~kR-iGVAvsD~~--~a~Pl~~i~~~----~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F 136 (170)
.+||+|+|-+. |=+|+.|.. ..--..+++.. .....+.|..++..|+|+.|.|| |||.+..+ ..|
T Consensus 331 ~~lglDPg~rtG~k~Avvd~tGk~l~~~~Iyp~~p~~~~~~~~~~l~~l~~~~~Ve~iaIG-----ngTaSret---e~f 402 (780)
T COG2183 331 ATLGLDPGFRTGCKVAVVDDTGKLLDTATIYPHPPVNQSDKAEATLKDLIRKYKVELIAIG-----NGTASRET---EKF 402 (780)
T ss_pred ceeecCCccccccEEEEEcCCCceeceeEEEcCCCccchHHHHHHHHHHHHHhCceEEEEe-----cCCcchhH---HHH
Confidence 79999999555 557888853 22222233322 12345678999999999999999 89988544 456
Q ss_pred HHHHHHhhccCCccEEEEcCcc
Q 030836 137 AGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 137 ~~~L~~~~~~~~lpV~lvDER~ 158 (170)
+..+-+..+..++..+.|.|..
T Consensus 403 v~~vl~~~~~~~~~~viVsEag 424 (780)
T COG2183 403 VADVLKELPKEKVLKVIVSEAG 424 (780)
T ss_pred HHHHHHhccCCCCcEEEEcccc
Confidence 6666665543478888888865
No 11
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=96.76 E-value=0.0054 Score=53.77 Aligned_cols=102 Identities=22% Similarity=0.232 Sum_probs=67.5
Q ss_pred ceEEEEecCCCeEEEEEecCCe-eEEeEEEE--ccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHH
Q 030836 63 GFSLGVDLGLSRTGLALSKGFC-VRPLTVLK--LRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~-a~Pl~~i~--~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~ 139 (170)
.++||||+|...+-+|.+|+.. ..-+.-++ .+...+.+.|++++.+++++.+=|=+--.+-.-....++-|+..++.
T Consensus 3 ~kilGiDIGGAntk~a~~DG~~~~~d~~YlPMWk~k~rL~~~Lkei~~k~~~~~vgvvMTaELaD~f~tk~eGVe~Ii~~ 82 (330)
T COG1548 3 MKILGIDIGGANTKIASSDGDNYKIDHIYLPMWKKKDRLEETLKEIVHKDNVDYVGVVMTAELADAFKTKAEGVEDIIDT 82 (330)
T ss_pred ceEEEeeccCccchhhhccCCeeeeeEEEeccccchhHHHHHHHHHhccCCcceeEEEeeHHHHHHhhhHHhHHHHHHHH
Confidence 5799999999999999999853 22222222 12345667899999888888554433212222344466777888888
Q ss_pred HHHhhccCCccEEEEcC--cccHHHHHHHH
Q 030836 140 LAVRAAERGWRVYLLDE--HRTSAEAVDRM 167 (170)
Q Consensus 140 L~~~~~~~~lpV~lvDE--R~TT~eA~~~L 167 (170)
..+.| +.||+++|= ++-|.||.+.+
T Consensus 83 v~~Af---~~pv~~v~~~G~~~ssEa~~~~ 109 (330)
T COG1548 83 VEKAF---NCPVYVVDVNGNFLSSEALKNP 109 (330)
T ss_pred HHHhc---CCceEEEeccCcCcChhHhcCH
Confidence 88875 899998883 33344676544
No 12
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=96.52 E-value=0.053 Score=43.04 Aligned_cols=91 Identities=15% Similarity=0.104 Sum_probs=42.7
Q ss_pred ceEEEEecCCCe----EEEEEecCC-eeEEeEEE-E----c-cchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHH
Q 030836 63 GFSLGVDLGLSR----TGLALSKGF-CVRPLTVL-K----L-RGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSN 131 (170)
Q Consensus 63 g~iLgID~G~kR----iGVAvsD~~-~a~Pl~~i-~----~-~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~ 131 (170)
-++|||-+|.-+ +-.|+-|.. ...-...+ . . ...+..+.|.+++.+++++.|+|| |. +..++
T Consensus 5 ~rVla~~~g~g~~~~~~~~v~ld~~G~v~d~~~~~~~~~~~~~~~~~~~~l~~~i~~~kP~vI~v~------g~-~~~s~ 77 (150)
T PF14639_consen 5 PRVLALSWGSGDGDDAVFCVVLDENGEVLDHLKLVYNERDRERKEEDMERLKKFIEKHKPDVIAVG------GN-SRESR 77 (150)
T ss_dssp --EEEEE-TT--TTS-EEEEEE-TTS-EEEEEEE-S-TT-SS-SHHHHHHHHHHHHHH--SEEEE--------S-STHHH
T ss_pred CEEEEEEcCCCCCCCCEEEEEECCCCcEEEEEEEcCCccchHHHHHHHHHHHHHHHHcCCeEEEEc------CC-ChhHH
Confidence 379999999665 445556632 12222222 1 1 112345789999999999999997 43 44455
Q ss_pred HHHHHHHHHHHhhc----cCCccEEEEcCcccH
Q 030836 132 KVRSVAGRLAVRAA----ERGWRVYLLDEHRTS 160 (170)
Q Consensus 132 ~vr~F~~~L~~~~~----~~~lpV~lvDER~TT 160 (170)
+..++.+.+-.... ...++|+++||-..+
T Consensus 78 ~l~~~v~~~v~~~~~~~~~~~i~V~~v~~~~A~ 110 (150)
T PF14639_consen 78 KLYDDVRDIVEELDEDEQMPPIPVVIVDDEVAR 110 (150)
T ss_dssp HHHHHHHHHHHHTTB-TTS-B--EEE---TTHH
T ss_pred HHHHHHHHHHHHhhhcccCCCceEEEECcHHHH
Confidence 55544444433321 135899999997543
No 13
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=96.39 E-value=0.0063 Score=49.24 Aligned_cols=55 Identities=27% Similarity=0.299 Sum_probs=40.7
Q ss_pred EEEecCCCeEEEEEecC--CeeE--EeEEEEcc-ch-------hHHHHHHHHHHHcCCCEEEEeecC
Q 030836 66 LGVDLGLSRTGLALSKG--FCVR--PLTVLKLR-GE-------KLELQLLEIAQREETDEFIIGLPK 120 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~--~~a~--Pl~~i~~~-~~-------~~~~~L~~li~e~~v~~IVVGlPl 120 (170)
||||+|..+||+++-+. .... ..++|... +. .+.+.|.+++++|+++.+.|=-.+
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 69999999999999994 3333 34566532 11 235678999999999999988664
No 14
>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=94.65 E-value=0.13 Score=35.82 Aligned_cols=61 Identities=20% Similarity=0.221 Sum_probs=36.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCC---C-hhHHHH-----HHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSE---T-PQSNKV-----RSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~---s-~~~~~v-----r~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
...|.+...+ .++.||||......+.. + ...+.+ ..|.+.|+-+...+|++|+.|||++||
T Consensus 13 a~~iv~~~~~-~~~~Ivie~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~yka~~~Gi~v~~v~~~yTS 82 (82)
T TIGR01766 13 VKQIVEYAKE-NNGTIVLEDLKNIKEMVDKKSKYLRRKLHQWSFRKLISKIKYKAEEYGIEVIEVNPAYTS 82 (82)
T ss_pred HHHHHHHHHH-cCCEEEECCccchhhhcchhhHHHHHHHHhhhHHHHHHHHHHHHHHcCCeEEEeCccccc
Confidence 3456666666 77999999765232221 1 112222 234455554433479999999999997
No 15
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=94.00 E-value=1.1 Score=35.54 Aligned_cols=90 Identities=16% Similarity=0.118 Sum_probs=54.6
Q ss_pred CceEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 030836 62 GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~ 141 (170)
..-|.|||+|+ .+|+|+-|-.. .++.....++ -...++.++|.+|+-=.||-= |=+.- -. ++++|+
T Consensus 31 ~~lIVGiDPG~-ttgiAildL~G-~~l~l~S~R~-~~~~evi~~I~~~G~PviVAt-----DV~p~--P~----~V~Kia 96 (138)
T PF04312_consen 31 RYLIVGIDPGT-TTGIAILDLDG-ELLDLKSSRN-MSRSEVIEWISEYGKPVIVAT-----DVSPP--PE----TVKKIA 96 (138)
T ss_pred CCEEEEECCCc-eeEEEEEecCC-cEEEEEeecC-CCHHHHHHHHHHcCCEEEEEe-----cCCCC--cH----HHHHHH
Confidence 35799999998 68999999332 2333443222 234678888888876655544 33333 33 444555
Q ss_pred HhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 142 VRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 142 ~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
..| +-.++.=++.+|..|=.++..
T Consensus 97 ~~f---~A~ly~P~~dlsveeK~~l~~ 120 (138)
T PF04312_consen 97 RSF---NAVLYTPERDLSVEEKQELAR 120 (138)
T ss_pred HHh---CCcccCCCCcCCHHHHHHHHH
Confidence 543 445555677777776655543
No 16
>PRK09557 fructokinase; Reviewed
Probab=93.96 E-value=0.5 Score=40.11 Aligned_cols=101 Identities=14% Similarity=0.101 Sum_probs=59.3
Q ss_pred eEEEEecCCCeEEEEEecCC-eeEEeEEEEcc--c-hhHHHHHHHHHHHc-----CCCEEEEeecCCC---CCCCC--hh
Q 030836 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLR--G-EKLELQLLEIAQRE-----ETDEFIIGLPKSW---DGSET--PQ 129 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~--~-~~~~~~L~~li~e~-----~v~~IVVGlPl~~---dGt~s--~~ 129 (170)
++||+|+|..++-+++.|.. .......++.. + ....+.+.+++++. .+..|.||.|=.. +|... +.
T Consensus 1 ~~lgidig~t~~~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgi~~pG~vd~~~g~i~~~~~ 80 (301)
T PRK09557 1 MRIGIDLGGTKIEVIALDDAGEELFRKRLPTPRDDYQQTIEAIATLVDMAEQATGQRGTVGVGIPGSISPYTGLVKNANS 80 (301)
T ss_pred CEEEEEECCCcEEEEEECCCCCEEEEEEecCCCCCHHHHHHHHHHHHHHHHhhcCCceEEEecCcccCcCCCCeEEecCC
Confidence 47999999999999999942 11111223221 1 23345555555443 3567999998322 23211 00
Q ss_pred -HHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 130 -SNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 130 -~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
...--.+.+.|++++ ++||++.+.-.....|+.++
T Consensus 81 ~~~~~~~l~~~l~~~~---~~pv~~~NDa~aaA~aE~~~ 116 (301)
T PRK09557 81 TWLNGQPLDKDLSARL---NREVRLANDANCLAVSEAVD 116 (301)
T ss_pred ccccCCCHHHHHHHHH---CCCEEEccchhHHHHHHHHh
Confidence 001124567788775 79999988887777776543
No 17
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=93.95 E-value=0.42 Score=40.68 Aligned_cols=104 Identities=18% Similarity=0.150 Sum_probs=62.4
Q ss_pred CCceEEEEecCCCeEEEEEecCC-e--eEEeEEEEccch--h----HHHHHHHHHHHc----CCCEEEEeecCCCCCCC-
Q 030836 61 RGGFSLGVDLGLSRTGLALSKGF-C--VRPLTVLKLRGE--K----LELQLLEIAQRE----ETDEFIIGLPKSWDGSE- 126 (170)
Q Consensus 61 ~~g~iLgID~G~kRiGVAvsD~~-~--a~Pl~~i~~~~~--~----~~~~L~~li~e~----~v~~IVVGlPl~~dGt~- 126 (170)
....++|||+|..+|=+|+.|.. . ..-....+.... . ..+.+++++..+ .+.+|.++.|...+...
T Consensus 4 ~~~~~lgidIggt~i~~~l~d~~g~~l~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iGIgi~~pg~~~~~~~ 83 (314)
T COG1940 4 EAMTVLGIDIGGTKIKVALVDLDGEILLRERIPTPTPDPEEAILEAILALVAELLKQAQGRVAIIGIGIPGPGDVDNGTV 83 (314)
T ss_pred cCcEEEEEEecCCEEEEEEECCCCcEEEEEEEecCCCCchhHHHHHHHHHHHHHHHhcCCcCceEEEEeccceeccCCcE
Confidence 35689999999999999999953 2 222222221111 2 234455555544 35556666665544321
Q ss_pred ---ChhHHH--HHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 127 ---TPQSNK--VRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 127 ---s~~~~~--vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.+.... --.|++.|++++ ++||...++-..-.-|+..+
T Consensus 84 ~~~~~~~~~~~~~~l~~~L~~~~---~~Pv~veNDan~aalaE~~~ 126 (314)
T COG1940 84 IVPAPNLGWWNGVDLAEELEARL---GLPVFVENDANAAALAEAWF 126 (314)
T ss_pred EeecCCCCccccccHHHHHHHHH---CCCEEEecHHHHHHHHHHHh
Confidence 111111 135789999986 79999999887777776554
No 18
>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=92.32 E-value=0.74 Score=39.09 Aligned_cols=97 Identities=15% Similarity=0.157 Sum_probs=57.3
Q ss_pred EEEecCCCeEEEEEecCC-eeEEeEEEEc--cchhHHHH----HHHHHHHc-----CCCEEEEeecCCCCCCCCh-----
Q 030836 66 LGVDLGLSRTGLALSKGF-CVRPLTVLKL--RGEKLELQ----LLEIAQRE-----ETDEFIIGLPKSWDGSETP----- 128 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~~-~a~Pl~~i~~--~~~~~~~~----L~~li~e~-----~v~~IVVGlPl~~dGt~s~----- 128 (170)
+|||+|..++-+++.|-. .......++. ......+. +.+++++. ++..|.||.|=..|...+.
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 689999999999999932 1111122221 11223333 44444433 5778999998433321110
Q ss_pred --hHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 129 --QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 129 --~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
.... ..+.+.|++++ ++||++.+.-....-|+.+
T Consensus 81 ~~~w~~-~~l~~~l~~~~---~~pv~v~NDa~~~alaE~~ 116 (318)
T TIGR00744 81 NLDWKQ-EPLKEKVEARV---GLPVVVENDANAAALGEYK 116 (318)
T ss_pred CCCCCC-CCHHHHHHHHH---CCCEEEechHHHHHHHHHH
Confidence 0111 14677788875 7999999888777777654
No 19
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=92.27 E-value=1.6 Score=36.78 Aligned_cols=99 Identities=16% Similarity=0.137 Sum_probs=61.5
Q ss_pred eEEEEecCCCeEEEEEecCC-eeEEeEEEEcc---c-hhHHHHHHHHHHHc--CCCEEEEeecCCCC-CCC---Ch----
Q 030836 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLR---G-EKLELQLLEIAQRE--ETDEFIIGLPKSWD-GSE---TP---- 128 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~---~-~~~~~~L~~li~e~--~v~~IVVGlPl~~d-Gt~---s~---- 128 (170)
.++|+|+|..++-+++.|-. ...-...++.. . ....+.+.+++++. ++..|.||.|=..| |.. .+
T Consensus 2 ~~lgvdig~~~i~~~l~dl~g~i~~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~igi~~pG~vd~~~~~~~~~~~~~ 81 (291)
T PRK05082 2 TTLAIDIGGTKIAAALVGEDGQIRQRRQIPTPASQTPEALRQALSALVSPLQAQADRVAVASTGIINDGILTALNPHNLG 81 (291)
T ss_pred cEEEEEECCCEEEEEEEcCCCcEEEEEEecCCCCCCHHHHHHHHHHHHHHhhhcCcEEEEeCcccccCCeeEEecCCCCc
Confidence 38999999999999999932 11112222221 1 12445666666553 67899999984332 211 11
Q ss_pred hHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 129 QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 129 ~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
..+. ..+.+.|++++ ++||++.++-.+...|+..
T Consensus 82 ~w~~-~~l~~~l~~~~---~~pv~v~NDa~a~a~aE~~ 115 (291)
T PRK05082 82 GLLH-FPLVQTLEQLT---DLPTIALNDAQAAAWAEYQ 115 (291)
T ss_pred cccC-CChHHHHHHHh---CCCEEEECcHHHHHHHHHH
Confidence 1111 25677788775 8999999988777777643
No 20
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=91.17 E-value=2 Score=36.47 Aligned_cols=97 Identities=15% Similarity=0.145 Sum_probs=58.3
Q ss_pred eEEEEecCCCeEEEEEecCC---eeEEeEEEEc--c-chhHHHHHHHHHHH----cC-CCEEEEeecCCCC---CCCCh-
Q 030836 64 FSLGVDLGLSRTGLALSKGF---CVRPLTVLKL--R-GEKLELQLLEIAQR----EE-TDEFIIGLPKSWD---GSETP- 128 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~---~a~Pl~~i~~--~-~~~~~~~L~~li~e----~~-v~~IVVGlPl~~d---Gt~s~- 128 (170)
+++|||+|..++-+++.|.. ..+ ..++. . .....+.|.+++++ .+ +..|-||.|=..| |....
T Consensus 1 ~~lgidig~t~i~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~igia~pG~vd~~~g~~~~~ 78 (303)
T PRK13310 1 MYYGFDIGGTKIELGVFNEKLELQWE--ERVPTPRDSYDAFLDAVCELVAEADQRFGCKGSVGIGIPGMPETEDGTLYAA 78 (303)
T ss_pred CeEEEEeCCCcEEEEEECCCCcEEEE--EEecCCCcCHHHHHHHHHHHHHHHHhhcCCcceEEEeCCCcccCCCCEEecc
Confidence 47999999999999999942 221 12221 1 12334555555543 22 3468999885433 32110
Q ss_pred ---hHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 129 ---QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 129 ---~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
..+. -.+.+.|++++ ++||++.+.-..-..|+.+
T Consensus 79 ~~~~w~~-~~l~~~l~~~~---~~pV~ieNDa~aaalaE~~ 115 (303)
T PRK13310 79 NVPAASG-KPLRADLSARL---GRDVRLDNDANCFALSEAW 115 (303)
T ss_pred CcccccC-CcHHHHHHHHH---CCCeEEeccHhHHHHHHhh
Confidence 0111 25677888875 8999999888776666644
No 21
>PRK13311 N-acetyl-D-glucosamine kinase; Provisional
Probab=90.81 E-value=2.7 Score=35.00 Aligned_cols=100 Identities=15% Similarity=0.094 Sum_probs=61.3
Q ss_pred eEEEEecCCCeEEEEEecCC-eeEEeEEEEcc---chhHHHHHHHHHHHc-----CCCEEEEeecCCC--C-CCC----C
Q 030836 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLR---GEKLELQLLEIAQRE-----ETDEFIIGLPKSW--D-GSE----T 127 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~---~~~~~~~L~~li~e~-----~v~~IVVGlPl~~--d-Gt~----s 127 (170)
+++|+|+|..++-+++.|.. .......++.. ..+..+.+.+++++. .+..|-||.|=-. + |.. .
T Consensus 1 ~~lgidiggt~i~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgv~~pG~vd~~~g~i~~~~~ 80 (256)
T PRK13311 1 MYYGFDMGGTKIELGVFDENLQRIWHKRVPTPREDYPQLLQILRDLTEEADTYCGVQGSVGIGIPGLPNADDGTVFTANV 80 (256)
T ss_pred CEEEEEECCCcEEEEEECCCCCEEEEEEecCCCcCHHHHHHHHHHHHHHHHhhcCCCceEEEEecCcEECCCCEEEccCC
Confidence 47999999999999999942 11122222211 123455666666543 2347888888422 2 221 0
Q ss_pred hhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 128 PQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 128 ~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
+.... ..+++.|++++ ++||.+.++-.....|+...
T Consensus 81 ~~w~~-~~l~~~l~~~~---~~pV~leNDanaaAlaE~~~ 116 (256)
T PRK13311 81 PSAMG-QPLQADLSRLI---QREVRIDNDANCFALSEAWD 116 (256)
T ss_pred CcccC-CChHHHHHHHH---CCCEEEEchhhHHHHHHHHh
Confidence 11122 36788888875 79999999888877777543
No 22
>PRK09698 D-allose kinase; Provisional
Probab=90.32 E-value=3.3 Score=34.97 Aligned_cols=99 Identities=15% Similarity=0.160 Sum_probs=58.3
Q ss_pred ceEEEEecCCCeEEEEEecCC-eeEEeEEEEcc---ch----hHHHHHHHHHHHc--CCCEEEEeecCCCCCCC-----C
Q 030836 63 GFSLGVDLGLSRTGLALSKGF-CVRPLTVLKLR---GE----KLELQLLEIAQRE--ETDEFIIGLPKSWDGSE-----T 127 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~---~~----~~~~~L~~li~e~--~v~~IVVGlPl~~dGt~-----s 127 (170)
..++|||+|..++-+++.|.. .......++.. .. .+.+.+.++++++ ++.+|-||.|=..|... +
T Consensus 4 ~~~lgidig~t~i~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~i~gigia~pG~vd~~~g~i~~~ 83 (302)
T PRK09698 4 NVVLGIDMGGTHIRFCLVDAEGEILHCEKKRTAEVIAPDLVSGLGEMIDEYLRRFNARCHGIVMGFPALVSKDRRTVIST 83 (302)
T ss_pred cEEEEEEcCCcEEEEEEEcCCCCEEEEEEeCCccccchHHHHHHHHHHHHHHHHcCCCeeEEEEeCCcceeCCCCEEEec
Confidence 479999999999999999932 11111222211 11 1234566666664 67889999984332111 1
Q ss_pred hhH----HHHHHHHHHHHHhhccCCccEEEEcCcccHHHHH
Q 030836 128 PQS----NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAV 164 (170)
Q Consensus 128 ~~~----~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~ 164 (170)
+.. -.-..+.+.|++++ ++||++.+.-.....|+
T Consensus 84 ~~~~~~~~~~~~l~~~l~~~~---~~pv~v~NDa~aaa~~E 121 (302)
T PRK09698 84 PNLPLTALDLYDLADKLENTL---NCPVFFSRDVNLQLLWD 121 (302)
T ss_pred CCCCccccccCCHHHHHHHHh---CCCEEEcchHhHHHHHH
Confidence 110 01125677788775 89999888766554444
No 23
>PRK13321 pantothenate kinase; Reviewed
Probab=89.79 E-value=6.7 Score=33.02 Aligned_cols=55 Identities=20% Similarity=0.249 Sum_probs=36.8
Q ss_pred eEEEEecCCCeEEEEEecCCeeEEeEEEEc---cc-hhHHHHHHHHHHHc-----CCCEEEEee
Q 030836 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKL---RG-EKLELQLLEIAQRE-----ETDEFIIGL 118 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~---~~-~~~~~~L~~li~e~-----~v~~IVVGl 118 (170)
++|+||+|..+|=+|+.|.........++. .. .+....+.++++++ +++.++|+-
T Consensus 1 MiL~IDIGnT~ik~gl~~~~~i~~~~~~~T~~~~~~~~~~~~l~~l~~~~~~~~~~i~~i~vss 64 (256)
T PRK13321 1 MLLLIDVGNTNIKLGVFDGDRLLRSFRLPTDKSRTSDELGILLLSLFRHAGLDPEDIRAVVISS 64 (256)
T ss_pred CEEEEEECCCeEEEEEEECCEEEEEEEEecCCCCCHHHHHHHHHHHHHHcCCChhhCCeEEEEe
Confidence 479999999999999998532211122221 11 23456788888776 489999993
No 24
>PF14239 RRXRR: RRXRR protein
Probab=89.46 E-value=1.2 Score=36.62 Aligned_cols=21 Identities=33% Similarity=0.490 Sum_probs=19.0
Q ss_pred ceEEEEecCCCeEEEEEecCC
Q 030836 63 GFSLGVDLGLSRTGLALSKGF 83 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~ 83 (170)
...||||+|.|.+|+|+.+..
T Consensus 51 pi~lgiDpGsk~tGiav~~~~ 71 (176)
T PF14239_consen 51 PIRLGIDPGSKTTGIAVVSEK 71 (176)
T ss_pred CEEEEECCCCCeEEEEEEeCC
Confidence 468999999999999999865
No 25
>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=88.34 E-value=2 Score=38.69 Aligned_cols=56 Identities=18% Similarity=0.054 Sum_probs=37.7
Q ss_pred EEecCCCeEEEEEecC-CeeEEeEEEEccch-hHHHHHHHHHHHc-CCCEEEE----eecCCC
Q 030836 67 GVDLGLSRTGLALSKG-FCVRPLTVLKLRGE-KLELQLLEIAQRE-ETDEFII----GLPKSW 122 (170)
Q Consensus 67 gID~G~kRiGVAvsD~-~~a~Pl~~i~~~~~-~~~~~L~~li~e~-~v~~IVV----GlPl~~ 122 (170)
|||+|++-+-++.-|. -...-...+++..- +.-..|.+.++++ ++|.|+. |+|+..
T Consensus 1 GIDpGT~s~dv~~~dd~g~v~~~~~ipt~~v~~~p~~iv~~l~~~~~~dlIa~psGyG~pl~~ 63 (343)
T PF07318_consen 1 GIDPGTKSFDVCGLDDDGKVIFYFSIPTEEVAKNPSIIVEELEEFGDIDLIAGPSGYGLPLKR 63 (343)
T ss_pred CCCCCCCcEEEEEEccCCcEEEEeeccHHHhhhCHHHHHHHHHhccCCCEEEeCCcCCccccc
Confidence 6999999999999886 23334444443211 1123577777777 9999996 677654
No 26
>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=88.26 E-value=1.5 Score=32.99 Aligned_cols=81 Identities=12% Similarity=0.063 Sum_probs=50.1
Q ss_pred EEEEecCCCeEEEEEecCCe-eEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh
Q 030836 65 SLGVDLGLSRTGLALSKGFC-VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~-a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~ 143 (170)
++|||+|....=+++.|+.. ......+.. +...+.++.+++.++. .++||+ ..-|..+ ..++..|.+.
T Consensus 1 ~vGiDv~k~~~~v~v~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~--~~~v~~--E~tg~y~------~~l~~~L~~~ 69 (144)
T PF01548_consen 1 FVGIDVSKDTHDVCVIDPNGEKLRRFKFEN-DPAGLEKLLDWLASLG--PVLVVM--EATGGYW------RPLADFLQDA 69 (144)
T ss_pred eEEEEcccCeEEEEEEcCCCcEEEEEEEec-cccchhHHhhhhcccc--cccccc--ccccccc------hhhhhheecc
Confidence 68999999999999999754 445555653 2334567777777775 555653 1123222 2444455443
Q ss_pred hccCCccEEEEcCcccH
Q 030836 144 AAERGWRVYLLDEHRTS 160 (170)
Q Consensus 144 ~~~~~lpV~lvDER~TT 160 (170)
+++|+.++=+...
T Consensus 70 ----g~~v~~vnp~~~~ 82 (144)
T PF01548_consen 70 ----GIEVVVVNPLQVK 82 (144)
T ss_pred ----ccccccccccccc
Confidence 7788877654443
No 27
>PRK00292 glk glucokinase; Provisional
Probab=87.63 E-value=3.7 Score=35.17 Aligned_cols=93 Identities=14% Similarity=0.156 Sum_probs=54.7
Q ss_pred eEEEEecCCCeEEEEEec-CC-eeEEeEEEEccc-hhHHHHHHHHHHH---cCCCEEEEeecCCCCCCCChhHH-HHHHH
Q 030836 64 FSLGVDLGLSRTGLALSK-GF-CVRPLTVLKLRG-EKLELQLLEIAQR---EETDEFIIGLPKSWDGSETPQSN-KVRSV 136 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD-~~-~a~Pl~~i~~~~-~~~~~~L~~li~e---~~v~~IVVGlPl~~dGt~s~~~~-~vr~F 136 (170)
.+||+|+|..+|=+++.| .. .......++... ....+.+.+++++ .++..|.||.|=-.|...-..+. .-...
T Consensus 3 ~~lgiDIGgT~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~gigIg~pG~vd~~~i~~~n~~w~~~ 82 (316)
T PRK00292 3 PALVGDIGGTNARFALCDWANGEIEQIKTYATADYPSLEDAIRAYLADEHGVQVRSACFAIAGPVDGDEVRMTNHHWAFS 82 (316)
T ss_pred eEEEEEcCccceEEEEEecCCCceeeeEEEecCCCCCHHHHHHHHHHhccCCCCceEEEEEeCcccCCEEEecCCCcccC
Confidence 589999999999999998 22 212223333222 2345667777764 35789999998543321100000 00112
Q ss_pred HHHHHHhhccCCcc-EEEEcCccc
Q 030836 137 AGRLAVRAAERGWR-VYLLDEHRT 159 (170)
Q Consensus 137 ~~~L~~~~~~~~lp-V~lvDER~T 159 (170)
.+.|++++ ++| |++.+.--.
T Consensus 83 ~~~l~~~~---~~p~v~l~ND~~a 103 (316)
T PRK00292 83 IAAMKQEL---GLDHLLLINDFTA 103 (316)
T ss_pred HHHHHHHh---CCCeEEEEecHHH
Confidence 47787775 786 988876443
No 28
>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=87.55 E-value=2.9 Score=32.27 Aligned_cols=97 Identities=18% Similarity=0.140 Sum_probs=61.1
Q ss_pred EEecCCCeEEEEEecCC-eeEEeEEEEc-cc-hhHH----HHHHHHHHHcCCCEEEEeecCCCCCCC-------ChhHHH
Q 030836 67 GVDLGLSRTGLALSKGF-CVRPLTVLKL-RG-EKLE----LQLLEIAQREETDEFIIGLPKSWDGSE-------TPQSNK 132 (170)
Q Consensus 67 gID~G~kRiGVAvsD~~-~a~Pl~~i~~-~~-~~~~----~~L~~li~e~~v~~IVVGlPl~~dGt~-------s~~~~~ 132 (170)
|||+|..++=+++.|-. ...--..++. .. .... +.+.++..+++...|-|+.|=..|... .+..+.
T Consensus 1 gidig~~~i~~~l~d~~g~ii~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~gIgi~~pG~v~~~~g~i~~~~~~~~~~ 80 (179)
T PF00480_consen 1 GIDIGGTSIRIALVDLDGEIIYSESIPTPTSPEELLDALAELIERLLADYGRSGIGISVPGIVDSEKGRIISSPNPGWEN 80 (179)
T ss_dssp EEEEESSEEEEEEEETTSCEEEEEEEEHHSSHHHHHHHHHHHHHHHHHHHTCEEEEEEESSEEETTTTEEEECSSGTGTT
T ss_pred CEEECCCEEEEEEECCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHhhcccccEEEeccccCcCCCCeEEecCCCCccc
Confidence 79999999999999932 1111222332 12 2233 345555556665589999885433221 222233
Q ss_pred HHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 133 VRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 133 vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
..+++.|++++ ++||.+.+.--....|+..+
T Consensus 81 -~~l~~~l~~~~---~~pv~i~Nd~~~~a~ae~~~ 111 (179)
T PF00480_consen 81 -IPLKEELEERF---GVPVIIENDANAAALAEYWF 111 (179)
T ss_dssp -CEHHHHHHHHH---TSEEEEEEHHHHHHHHHHHH
T ss_pred -CCHHHHhhccc---ceEEEEecCCCcceeehhhc
Confidence 46788898886 79999999877777776554
No 29
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=87.36 E-value=4.9 Score=38.92 Aligned_cols=88 Identities=18% Similarity=0.235 Sum_probs=59.8
Q ss_pred ceEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 030836 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~ 142 (170)
--|.|||+|. .+|+|+-|-.. ..+.+..+++ -...++.++|.+|+-=.||-- |=+.-| .|+++|+.
T Consensus 244 ~lIVGIDPGi-TtgiAvldldG-evl~~~S~r~-~~~~eVve~I~~lG~PvvVAt-----DVtp~P------~~V~KiAa 309 (652)
T COG2433 244 SLIVGIDPGI-TTGIAVLDLDG-EVLDLESRRG-IDRSEVVEFISELGKPVVVAT-----DVTPAP------ETVKKIAA 309 (652)
T ss_pred ceEEEeCCCc-eeeEEEEecCC-cEEeeecccc-CCHHHHHHHHHHcCCceEEEc-----cCCCCh------HHHHHHHH
Confidence 3799999997 68999998432 2233333222 234689999999887766655 545544 56677777
Q ss_pred hhccCCccEEEEcCcccHHHHHHHH
Q 030836 143 RAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.| +-+.+.=|+.+|+.|=++.+
T Consensus 310 sf---~A~ly~P~~dLsveEK~~~~ 331 (652)
T COG2433 310 SF---NAVLYTPDRDLSVEEKQEAL 331 (652)
T ss_pred Hc---CCcccCCcccCCHHHHHHHH
Confidence 65 66677778999998876643
No 30
>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=87.12 E-value=0.55 Score=31.74 Aligned_cols=27 Identities=37% Similarity=0.380 Sum_probs=19.0
Q ss_pred HHHHHHHhhccCCccEEEEcCcccHHH
Q 030836 136 VAGRLAVRAAERGWRVYLLDEHRTSAE 162 (170)
Q Consensus 136 F~~~L~~~~~~~~lpV~lvDER~TT~e 162 (170)
|.+.|+.+..+.|++|+.+||++||..
T Consensus 4 ~~~~L~yka~~~G~~v~~v~~~~TSq~ 30 (69)
T PF07282_consen 4 FRQRLEYKAEEYGIQVVEVDEAYTSQT 30 (69)
T ss_pred HHHHHHHHHHHhCCEEEEECCCCCccC
Confidence 444454443336999999999999863
No 31
>PHA02942 putative transposase; Provisional
Probab=85.56 E-value=1.5 Score=39.60 Aligned_cols=55 Identities=11% Similarity=0.055 Sum_probs=33.1
Q ss_pred HHcCCCEEEEeecCCCCCCCChhHHHHH---------HHHHHHHHhhccCCccEEEEcCcccHH
Q 030836 107 QREETDEFIIGLPKSWDGSETPQSNKVR---------SVAGRLAVRAAERGWRVYLLDEHRTSA 161 (170)
Q Consensus 107 ~e~~v~~IVVGlPl~~dGt~s~~~~~vr---------~F~~~L~~~~~~~~lpV~lvDER~TT~ 161 (170)
.+++++.|||+...+|-.......+.+. .|...|+-+...+|++|+.+|+++||.
T Consensus 263 ~~~~~~~IviEdL~gm~k~~~~l~k~~~~~~~~~~~~~l~~~LeYKA~~~G~~Vv~V~p~yTSq 326 (383)
T PHA02942 263 EDLGANVIKLEDLKNLIKDVNKLPAEFRDKLYLMQYHRIQYWIEWQAKKHGMIVEFVNPSYSSV 326 (383)
T ss_pred HhCCCCEEEEccHHHHHhcccccchHHHHHhhhhhHHHHHHHHHHHHHHhCCEEEEECCCCCCc
Confidence 3667889999988655432221222122 222344333223689999999999986
No 32
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=84.87 E-value=3.5 Score=35.52 Aligned_cols=50 Identities=26% Similarity=0.346 Sum_probs=42.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
....++.+.+.+.+.|.|.|| |+.+-..+.+.++.++++++ +++||++.-
T Consensus 28 ~~~~ei~~~~~~~GTDaImIG------GS~gvt~~~~~~~v~~ik~~---~~lPvilfP 77 (240)
T COG1646 28 EEADEIAEAAAEAGTDAIMIG------GSDGVTEENVDNVVEAIKER---TDLPVILFP 77 (240)
T ss_pred cccHHHHHHHHHcCCCEEEEC------CcccccHHHHHHHHHHHHhh---cCCCEEEec
Confidence 345678888889999999999 88888888999999999976 489999864
No 33
>PRK13320 pantothenate kinase; Reviewed
Probab=84.79 E-value=18 Score=30.51 Aligned_cols=53 Identities=23% Similarity=0.270 Sum_probs=36.9
Q ss_pred eEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHc-CCCEEEEee
Q 030836 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIGL 118 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~-~v~~IVVGl 118 (170)
++|.||.|..+|=+|+.+.........+. ..++...+.++++.+ +++.++|.-
T Consensus 3 M~L~iDiGNT~ik~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~i~~i~vsS 56 (244)
T PRK13320 3 MNLVIDIGNTTTKLAVFEGDELLEVFVVS--TEGVEESLEKLLAKYPAIRDAIVSS 56 (244)
T ss_pred eEEEEEeCCCcEEEEEEECCEEEEEEEEc--cHHHHHHHHHHHHHCCCCCEEEEEe
Confidence 69999999999999999854222222222 334456677777776 589999883
No 34
>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=84.70 E-value=15 Score=29.74 Aligned_cols=84 Identities=19% Similarity=0.100 Sum_probs=54.3
Q ss_pred EEEEecCCCeEEEEEecCCeeEEeEEE--Ec-cchhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHHHHH
Q 030836 65 SLGVDLGLSRTGLALSKGFCVRPLTVL--KL-RGEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSV 136 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a~Pl~~i--~~-~~~~~~~~L~~li~e~-----~v~~IVVGlPl~~dGt~s~~~~~vr~F 136 (170)
+|+||--++.++||+.+.......... .+ ..+.+...|.+++++. +++.|+||.= -|+.+. .+-.-.+
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 589999999999999885321111111 11 1223456777777664 6889999831 245554 4555688
Q ss_pred HHHHHHhhccCCccEEEEc
Q 030836 137 AGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 137 ~~~L~~~~~~~~lpV~lvD 155 (170)
++.|+... ++|++-++
T Consensus 77 akgla~~~---~~p~~~vs 92 (202)
T TIGR03725 77 AKGLALAL---GIPLVGVS 92 (202)
T ss_pred HHHHHHHh---CCCEEecC
Confidence 99998664 78988763
No 35
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=83.63 E-value=8.5 Score=32.09 Aligned_cols=84 Identities=20% Similarity=0.077 Sum_probs=55.3
Q ss_pred eEEEEecCCCeEEEEEecC--Ce--eEEeEEEEcc-chhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHH
Q 030836 64 FSLGVDLGLSRTGLALSKG--FC--VRPLTVLKLR-GEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKV 133 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~--~~--a~Pl~~i~~~-~~~~~~~L~~li~e~-----~v~~IVVGlPl~~dGt~s~~~~~v 133 (170)
++|+||--++.|++|+.+. .. +.-.....++ ...+...+.+++.+. ++|.|+||. -=|+.+. .+--
T Consensus 2 ~iLaiDTs~~~~s~ai~~~~~~~vl~~~~~~~~r~hse~l~~~i~~ll~~~~~~~~dld~iav~~---GPGSFTG-lRIG 77 (220)
T COG1214 2 KILAIDTSTSALSVALYLADDGKVLAEHTEKLKRNHAERLMPMIDELLKEAGLSLQDLDAIAVAK---GPGSFTG-LRIG 77 (220)
T ss_pred cEEEEEcChhhhhhheeecCCCcEEEEEEEeccccHHHHHHHHHHHHHHHcCCCHHHCCEEEEcc---CCCcccc-hhhH
Confidence 6999999999999998876 32 2333333321 223456777777766 688899993 1245543 2334
Q ss_pred HHHHHHHHHhhccCCccEEEE
Q 030836 134 RSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 134 r~F~~~L~~~~~~~~lpV~lv 154 (170)
-.|++.|+-.+ ++|++=+
T Consensus 78 ~~~AkgLA~~l---~iplvgv 95 (220)
T COG1214 78 VAFAKGLALAL---NIPLVGV 95 (220)
T ss_pred HHHHHHHHHHc---CCCEEEe
Confidence 58888888664 8888865
No 36
>PRK13318 pantothenate kinase; Reviewed
Probab=83.34 E-value=7.9 Score=32.51 Aligned_cols=55 Identities=16% Similarity=0.154 Sum_probs=36.1
Q ss_pred eEEEEecCCCeEEEEEecCCeeEEeEEEEcc---c-hhHHHHHHHHHHHcC-----CCEEEEee
Q 030836 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLR---G-EKLELQLLEIAQREE-----TDEFIIGL 118 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~---~-~~~~~~L~~li~e~~-----v~~IVVGl 118 (170)
++|+||+|..+|=+|+.|.........++.. . ......+.++++.++ ++.|+||.
T Consensus 1 MiL~IDIGnT~iK~al~d~g~i~~~~~~~t~~~~~~~~~~~~l~~l~~~~~~~~~~i~~I~iss 64 (258)
T PRK13318 1 MLLAIDVGNTNTVFGLYEGGKLVAHWRISTDSRRTADEYGVWLKQLLGLSGLDPEDITGIIISS 64 (258)
T ss_pred CEEEEEECCCcEEEEEEECCEEEEEEEEeCCCCCCHHHHHHHHHHHHHHcCCCcccCceEEEEE
Confidence 4899999999999999984222222223211 1 233456777777664 78999996
No 37
>PRK09982 universal stress protein UspD; Provisional
Probab=83.22 E-value=5.1 Score=30.09 Aligned_cols=49 Identities=16% Similarity=0.229 Sum_probs=33.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
....+.|.++++++++|.||+| .+ .+...+.. ..++++-++ ..+||..+
T Consensus 89 G~p~~~I~~~A~~~~aDLIVmG-----~~-~~~~~~~~-~va~~V~~~---s~~pVLvv 137 (142)
T PRK09982 89 GEMPETLLEIMQKEQCDLLVCG-----HH-HSFINRLM-PAYRGMINK---MSADLLIV 137 (142)
T ss_pred cCHHHHHHHHHHHcCCCEEEEe-----CC-hhHHHHHH-HHHHHHHhc---CCCCEEEe
Confidence 4567789999999999999999 33 33333333 356666555 36888765
No 38
>PRK12408 glucokinase; Provisional
Probab=83.19 E-value=2.5 Score=37.03 Aligned_cols=91 Identities=14% Similarity=0.121 Sum_probs=54.1
Q ss_pred CceEEEEecCCCeEEEEEecC--Ce-----eEEeEEEEccc-hhHHHHHHHHHHH-cCCCEEEEeecCC--CCCCCChhH
Q 030836 62 GGFSLGVDLGLSRTGLALSKG--FC-----VRPLTVLKLRG-EKLELQLLEIAQR-EETDEFIIGLPKS--WDGSETPQS 130 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~--~~-----a~Pl~~i~~~~-~~~~~~L~~li~e-~~v~~IVVGlPl~--~dGt~s~~~ 130 (170)
+-++|++|+|--+|=+|+.|. .. ..-...++... ....+.+.+++++ ..+..|.||.|=. .+|... .+
T Consensus 15 ~~~~L~~DIGGT~i~~al~d~~g~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~~~igIg~pG~~~~~g~v~-~~ 93 (336)
T PRK12408 15 PESFVAADVGGTHVRVALVCASPDAAKPVELLDYRTYRCADYPSLAAILADFLAECAPVRRGVIASAGYALDDGRVI-TA 93 (336)
T ss_pred cccEEEEEcChhhhheeEEeccCCccccccccceeEecCCCccCHHHHHHHHHhcCCCcCEEEEEecCCceECCEEE-ec
Confidence 446999999999999999983 21 12222222111 2334556666653 4588999999863 244321 10
Q ss_pred H-HHHHHHHHHHHhhccCCcc-EEEEcC
Q 030836 131 N-KVRSVAGRLAVRAAERGWR-VYLLDE 156 (170)
Q Consensus 131 ~-~vr~F~~~L~~~~~~~~lp-V~lvDE 156 (170)
. .-..+.+.|++++ ++| |++.+.
T Consensus 94 nl~w~~~~~~l~~~~---~~~~V~l~ND 118 (336)
T PRK12408 94 NLPWTLSPEQIRAQL---GLQAVHLVND 118 (336)
T ss_pred CCCCccCHHHHHHHc---CCCeEEEeec
Confidence 0 0123567788775 785 888764
No 39
>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=81.38 E-value=17 Score=26.41 Aligned_cols=49 Identities=18% Similarity=0.025 Sum_probs=36.6
Q ss_pred eEEEEec--CCCeEEEEEecCC-eeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEe
Q 030836 64 FSLGVDL--GLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 64 ~iLgID~--G~kRiGVAvsD~~-~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVG 117 (170)
.+++|-. ....+|+|..|.. .-.-+..+. + ..+|...+..++|.+||+.
T Consensus 2 yl~aI~~~~~~~~~gla~~D~sTGe~~~~~~~--d---~~~L~~~L~~~~P~EIi~~ 53 (137)
T PF05188_consen 2 YLAAIYEKNDEDSYGLAYIDLSTGEFYVTEFE--D---YSELKSELARLSPREIIIP 53 (137)
T ss_dssp EEEEEEEETCSSEEEEEEEETTTTEEEEEEEE--C---HHHHHHHHHHH-ESEEEEE
T ss_pred EEEEEEEecCCCEEEEEEEECCCCEEEEEEeC--C---HHHHHHHHHhcCCeEEEEc
Confidence 4677777 7777999999953 334455554 1 6789999999999999999
No 40
>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=79.85 E-value=26 Score=27.80 Aligned_cols=85 Identities=13% Similarity=0.174 Sum_probs=49.1
Q ss_pred eEEEEecCCCeEEEEEecCCeeEEeEEEEccc----hhH-HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHH
Q 030836 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLRG----EKL-ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~----~~~-~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~ 138 (170)
.|+|||+|.+..|..+-+...-. +..+.-.. .+. ...+.++++ ++++.|+|=- + ...++.. ++..|.+
T Consensus 2 ii~sIDiGikNlA~~iie~~~~~-i~~~~i~~~~~~~~~~~~~~~dl~~-~~~d~VlIEr--Q--~~r~~~~-~i~~fI~ 74 (143)
T PF04848_consen 2 IILSIDIGIKNLAYCIIEFEGNK-IRVIDISKVDWSRDWEYRILKDLLK-YEADTVLIER--Q--PPRNPNV-KIVHFIH 74 (143)
T ss_pred eEEEEecCCCceeEEEEEcCCCe-EEEEEeccCCcccchHHHHHHHHhh-ccCCEEEEec--C--CCCCcch-hHHHHHH
Confidence 58999999999999999953111 22222111 111 223444554 8999999973 3 3334433 4455665
Q ss_pred HHHHhhccCCccEEEEcCcc
Q 030836 139 RLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 139 ~L~~~~~~~~lpV~lvDER~ 158 (170)
.+-.- .+..|..+|=.+
T Consensus 75 ~~f~~---~~~kv~~v~p~~ 91 (143)
T PF04848_consen 75 GYFYI---KNTKVICVSPKM 91 (143)
T ss_pred HHhcc---CCceEEEECccc
Confidence 44322 256788887543
No 41
>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=79.14 E-value=21 Score=31.15 Aligned_cols=85 Identities=15% Similarity=0.069 Sum_probs=51.6
Q ss_pred EEEEecCCCeEEEEEecCC---eeEEeE-----------EEEc-----cchhHHHHHHHHHHH-----cCCCEEEEeecC
Q 030836 65 SLGVDLGLSRTGLALSKGF---CVRPLT-----------VLKL-----RGEKLELQLLEIAQR-----EETDEFIIGLPK 120 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~---~a~Pl~-----------~i~~-----~~~~~~~~L~~li~e-----~~v~~IVVGlPl 120 (170)
|||||--...++||+.|.. .+.-.. +.+. ..+.+...+.+++++ .++|.|.|+.=
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 6899999999999999842 111110 0000 112234456666655 46899999820
Q ss_pred CCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 121 SWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 121 ~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
-|..+ --+....+|+.|+..+ ++|++.++-
T Consensus 80 --PGsft-glrig~~~Ak~la~~~---~~p~~~v~h 109 (314)
T TIGR03723 80 --PGLIG-ALLVGVSFAKALALAL---NKPLIGVNH 109 (314)
T ss_pred --CChHH-hHHHHHHHHHHHHHHh---CCCEEeccc
Confidence 13322 2344458888888764 899998853
No 42
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=78.31 E-value=15 Score=32.82 Aligned_cols=61 Identities=20% Similarity=0.213 Sum_probs=44.2
Q ss_pred eEEEEecCCCeEEEEEecCC-eeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030836 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSET 127 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s 127 (170)
+||++|+|.-..-|-.-|+. --++.-+.+.....+..+|+-+.++ .+..+++|.| |.|..+
T Consensus 2 kila~DvG~GTqDi~~~d~~~EnSl~mVmPspt~~~A~R~R~~~~~-g~~l~l~G~~--MGGGp~ 63 (342)
T COG4012 2 KILAIDVGVGTQDIVAYDGDPENSLRMVMPSPTSTLAQRLRFMLRE-GPYLALIGVP--MGGGPT 63 (342)
T ss_pred ceEEEEecCCceeEEEecCCcccceeEeecCchHHHHHHHHHHhcc-CCcEEEEeee--cCCChh
Confidence 59999999999999888874 3466666665555556677766654 6689999976 445443
No 43
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=77.62 E-value=12 Score=27.72 Aligned_cols=50 Identities=16% Similarity=0.158 Sum_probs=34.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
....+.|.++++++++|.||+|- .|+ .....-..++++-... .+||..+-
T Consensus 89 G~p~~~I~~~a~~~~~DLIV~Gs----~~~---~~~~lgSva~~v~~~a---~~pVLvv~ 138 (144)
T PRK15118 89 GDLGQVLVDAIKKYDMDLVVCGH----HQD---FWSKLMSSARQLINTV---HVDMLIVP 138 (144)
T ss_pred cCHHHHHHHHHHHhCCCEEEEeC----ccc---HHHHHHHHHHHHHhhC---CCCEEEec
Confidence 45678899999999999999993 232 1222346666666653 68888774
No 44
>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=76.76 E-value=10 Score=31.59 Aligned_cols=46 Identities=17% Similarity=0.245 Sum_probs=36.6
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.++.+.+.+.+.|.|.|| |+.+-....+.+..+.+++. +++||++.
T Consensus 14 ~~ia~~v~~~gtDaI~VG------GS~gvt~~~~~~~v~~ik~~---~~lPvilf 59 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVG------GSLGIVESNLDQTVKKIKKI---TNLPVILF 59 (205)
T ss_pred HHHHHHHHhcCCCEEEEc------CcCCCCHHHHHHHHHHHHhh---cCCCEEEE
Confidence 445667788899999999 77666677888888999876 37999874
No 45
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=76.72 E-value=7.9 Score=36.85 Aligned_cols=90 Identities=17% Similarity=0.213 Sum_probs=54.1
Q ss_pred CCceEEEEecCCCeEEEEEecCC-eeEEeEEEEccc-hhHHHHHHHHHHHc---CCCEEEEeecCCCCCCCChhHH---H
Q 030836 61 RGGFSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRG-EKLELQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSN---K 132 (170)
Q Consensus 61 ~~g~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~~-~~~~~~L~~li~e~---~v~~IVVGlPl~~dGt~s~~~~---~ 132 (170)
..+++||+|+|.-+|=+|+.|.. .......++... ..+.+.+.+++++. .++.|.||.|=-.|+.....+. .
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 35679999999999999988732 112223443222 34556777777665 4789999999655543211110 1
Q ss_pred HHHHHHHHHHhhccCCcc-EEEEc
Q 030836 133 VRSVAGRLAVRAAERGWR-VYLLD 155 (170)
Q Consensus 133 vr~F~~~L~~~~~~~~lp-V~lvD 155 (170)
+ . .+.|++++ ++| |.+.+
T Consensus 96 ~-~-~~~l~~~~---g~~~v~l~N 114 (638)
T PRK14101 96 F-S-IEATRRAL---GFDTLLVVN 114 (638)
T ss_pred e-c-HHHHHHHc---CCCeEEEEc
Confidence 1 2 26677764 786 45544
No 46
>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=74.96 E-value=12 Score=26.01 Aligned_cols=52 Identities=19% Similarity=0.213 Sum_probs=34.9
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
....+.|.++++++++|.||+|-... +.... -..-.+++.|.... .+||..+
T Consensus 88 ~~~~~~i~~~~~~~~~dliv~G~~~~--~~~~~--~~~gs~~~~l~~~~---~~pVlvv 139 (140)
T PF00582_consen 88 GDVADAIIEFAEEHNADLIVMGSRGR--SGLER--LLFGSVAEKLLRHA---PCPVLVV 139 (140)
T ss_dssp SSHHHHHHHHHHHTTCSEEEEESSST--TSTTT--SSSHHHHHHHHHHT---SSEEEEE
T ss_pred eccchhhhhccccccceeEEEeccCC--CCccC--CCcCCHHHHHHHcC---CCCEEEe
Confidence 45678899999999999999996542 11111 11345667777764 5788764
No 47
>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=73.82 E-value=2.5 Score=41.82 Aligned_cols=19 Identities=32% Similarity=0.788 Sum_probs=17.7
Q ss_pred eEEEEecCCCeEEEEEecC
Q 030836 64 FSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~ 82 (170)
++||||.|+.-||+||.|.
T Consensus 2 y~LGLDiGt~SvGWAVv~~ 20 (805)
T TIGR01865 2 YILGLDIGIASVGWAIVED 20 (805)
T ss_pred ceeEEeecccceeEEEEec
Confidence 6899999999999999983
No 48
>PRK10116 universal stress protein UspC; Provisional
Probab=73.70 E-value=22 Score=25.98 Aligned_cols=50 Identities=22% Similarity=0.243 Sum_probs=33.1
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
....+.|.++++++++|.||+|-. |. +...... ..++++-... ++||..+
T Consensus 88 G~~~~~I~~~a~~~~~DLiV~g~~----~~-~~~~~~~-s~a~~v~~~~---~~pVLvv 137 (142)
T PRK10116 88 GELSEHILEVCRKHHFDLVICGNH----NH-SFFSRAS-CSAKRVIASS---EVDVLLV 137 (142)
T ss_pred CCHHHHHHHHHHHhCCCEEEEcCC----cc-hHHHHHH-HHHHHHHhcC---CCCEEEE
Confidence 455678999999999999999942 22 2222222 3456666553 7888876
No 49
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=72.94 E-value=21 Score=24.53 Aligned_cols=52 Identities=19% Similarity=0.203 Sum_probs=38.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
...+.+++.+++++.+|+| ..++ ...+.|++. ++.|+.. ...+-.+|-+.|+
T Consensus 42 ~~~~~~~l~~~~v~~li~~-------~iG~------~~~~~L~~~----gI~v~~~-~~~~i~~~l~~~~ 93 (94)
T PF02579_consen 42 GDKIAKFLAEEGVDVLICG-------GIGE------GAFRALKEA----GIKVYQG-AGGDIEEALEAYL 93 (94)
T ss_dssp STHHHHHHHHTTESEEEES-------CSCH------HHHHHHHHT----TSEEEES-TSSBHHHHHHHHH
T ss_pred chhHHHHHHHcCCCEEEEe-------CCCH------HHHHHHHHC----CCEEEEc-CCCCHHHHHHHHh
Confidence 3567888878999999999 3453 455677765 8999988 7778888876664
No 50
>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=72.58 E-value=28 Score=28.24 Aligned_cols=53 Identities=25% Similarity=0.274 Sum_probs=35.8
Q ss_pred EEEEecCCCeEEEEEecCCee-EEeEEE---Ec--cc-hhHHHHHHHHHHHcCCCEEEEe
Q 030836 65 SLGVDLGLSRTGLALSKGFCV-RPLTVL---KL--RG-EKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a-~Pl~~i---~~--~~-~~~~~~L~~li~e~~v~~IVVG 117 (170)
+|.||.|..+|=+|+.|+... .+...+ .. .. ......+.+++...+.+.+++.
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 689999999999999997532 212222 11 11 2345678888888888888888
No 51
>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=71.57 E-value=11 Score=26.75 Aligned_cols=23 Identities=22% Similarity=0.407 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec
Q 030836 97 KLELQLLEIAQREETDEFIIGLP 119 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlP 119 (170)
...+.|.++++++++|.||+|..
T Consensus 81 ~~~~~I~~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 81 DIASGILRTAKERQADLIIMGWH 103 (132)
T ss_pred CHHHHHHHHHHhcCCCEEEEecC
Confidence 46678999999999999999964
No 52
>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=69.90 E-value=15 Score=27.07 Aligned_cols=52 Identities=17% Similarity=0.265 Sum_probs=31.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHH--HHHHHHHHhhccCCccEEEE
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVR--SVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr--~F~~~L~~~~~~~~lpV~lv 154 (170)
+..+.|.++++++++|.||+|- .|. +...+... ..+.++-++.+ .-+||..+
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~Gs----~g~-~~l~~~~~gssva~~Vi~~a~-~~c~Vlvv 143 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVMGA----SSD-NHFSMKFKKSDVASSVLKEAP-DFCTVYVV 143 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEEec----cCC-CceeecccCCchhHHHHhcCC-CCceEEEE
Confidence 4567899999999999999993 222 22222222 25555555531 11677655
No 53
>PRK13324 pantothenate kinase; Reviewed
Probab=69.08 E-value=74 Score=27.28 Aligned_cols=54 Identities=15% Similarity=0.159 Sum_probs=33.9
Q ss_pred eEEEEecCCCeEEEEEecCCeeEEeEEEEc----c-chhHHHHHHHHHHHc-----CCCEEEEe
Q 030836 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKL----R-GEKLELQLLEIAQRE-----ETDEFIIG 117 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~----~-~~~~~~~L~~li~e~-----~v~~IVVG 117 (170)
++|+||.|..+|=+|+.|.........+.. + .++....+..++..+ .++.+|+.
T Consensus 1 MiL~iDiGNT~ik~gl~~~~~~~~~~r~~t~~~~~t~de~~~~l~~~~~~~~~~~~~i~~viis 64 (258)
T PRK13324 1 MLLVMDMGNSHIHIGVFDGDRIVSQIRYATSSVDSTSDQMGVFLRQALRENSVDLGKIDGCGIS 64 (258)
T ss_pred CEEEEEeCCCceEEEEEECCEEEEEEEEecCccccchHHHHHHHHHHHHhcCCCccCCCeEEEE
Confidence 489999999999999998532111111111 1 123345677777653 57888888
No 54
>PRK09604 UGMP family protein; Validated
Probab=69.00 E-value=78 Score=27.79 Aligned_cols=86 Identities=15% Similarity=0.087 Sum_probs=53.1
Q ss_pred ceEEEEecCCCeEEEEEecC--Ce-eE-EeEE----------EEc-----cchhHHHHHHHHHHHc-----CCCEEEEee
Q 030836 63 GFSLGVDLGLSRTGLALSKG--FC-VR-PLTV----------LKL-----RGEKLELQLLEIAQRE-----ETDEFIIGL 118 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~--~~-a~-Pl~~----------i~~-----~~~~~~~~L~~li~e~-----~v~~IVVGl 118 (170)
+.+||||--...+++|+.|. .. +. -... ++. ..+.+...+.+++++- ++|.|+|+.
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 36999999999999999983 22 11 1111 111 0112234466666653 579999994
Q ss_pred -cCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 119 -PKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 119 -Pl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
| |..+. -+....+++.|+..+ ++|++.++-
T Consensus 81 GP----G~~tg-lrvg~~~Ak~La~~~---~ipl~~v~h 111 (332)
T PRK09604 81 GP----GLVGA-LLVGVSFAKALALAL---NKPLIGVNH 111 (332)
T ss_pred CC----CcHHh-HHHHHHHHHHHHHHh---CCCEEeecC
Confidence 2 33332 344457888898764 899999864
No 55
>PRK09605 bifunctional UGMP family protein/serine/threonine protein kinase; Validated
Probab=68.72 E-value=55 Score=30.27 Aligned_cols=88 Identities=15% Similarity=0.094 Sum_probs=54.8
Q ss_pred ceEEEEecCCCeEEEEEecC---CeeEEeEEEE--------c-----cchhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 030836 63 GFSLGVDLGLSRTGLALSKG---FCVRPLTVLK--------L-----RGEKLELQLLEIAQR-----EETDEFIIGLPKS 121 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~---~~a~Pl~~i~--------~-----~~~~~~~~L~~li~e-----~~v~~IVVGlPl~ 121 (170)
+.|||||-=..-+.+|+.+. ..+.-..++. . ....+...+.+++++ .++|.|.|+.--
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 36999999999999999983 2222212111 0 111233455666655 457999999421
Q ss_pred CCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 122 WDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 122 ~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
|..+ --+....||+.|+..+ ++|++.++..
T Consensus 80 --g~~~-~l~vg~~~ak~la~~~---~~~~~~v~h~ 109 (535)
T PRK09605 80 --GLGP-CLRVVATAARALALSL---DVPLIGVNHC 109 (535)
T ss_pred --CcHh-hHHHHHHHHHHHHHHh---CCCeecccHH
Confidence 3322 2344568899998875 8999988543
No 56
>PRK13322 pantothenate kinase; Reviewed
Probab=67.86 E-value=33 Score=28.99 Aligned_cols=52 Identities=19% Similarity=0.110 Sum_probs=30.6
Q ss_pred eEEEEecCCCeEEEEEecC-CeeEEeEEEEccc-hhHHHHHHHHHHHcCCCEEEEe
Q 030836 64 FSLGVDLGLSRTGLALSKG-FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~-~~a~Pl~~i~~~~-~~~~~~L~~li~e~~v~~IVVG 117 (170)
++|.||.|..+|=+++.|. .....-.. ...+ ......+..+ ..+.++.++|.
T Consensus 1 M~L~IDiGNT~iK~~l~~~~~~~~~~~~-~~~t~~~~~~~l~~~-~~~~i~~v~vs 54 (246)
T PRK13322 1 MILELDCGNSRLKWRVIDNGGQIIEHGA-HLDSPAELLLGLANL-ASLAPTRCRIV 54 (246)
T ss_pred CEEEEEeCCCcEEEEEEcCCCchhhhcc-ccCCHHHHHHHHHhC-CccCCCEEEEE
Confidence 4899999999999999884 21111001 1111 1223344333 34468999988
No 57
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=66.89 E-value=17 Score=30.73 Aligned_cols=45 Identities=24% Similarity=0.349 Sum_probs=36.3
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.++.+.+.+.+.|.|+|| ||.+-..+.+.+..+++++. .+||++.
T Consensus 17 ~~~~~~~~~~gtdai~vG------GS~~vt~~~~~~~v~~ik~~----~lPvilf 61 (223)
T TIGR01768 17 DEIAKAAAESGTDAILIG------GSQGVTYEKTDTLIEALRRY----GLPIILF 61 (223)
T ss_pred HHHHHHHHhcCCCEEEEc------CCCcccHHHHHHHHHHHhcc----CCCEEEe
Confidence 445566677899999999 88877778888999999853 6999974
No 58
>PRK15005 universal stress protein F; Provisional
Probab=66.61 E-value=13 Score=27.15 Aligned_cols=51 Identities=20% Similarity=0.173 Sum_probs=31.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
....+.|.++++++++|.||+|-= ..| -....+-.-++.+-++. ..||..+
T Consensus 93 G~p~~~I~~~a~~~~~DLIV~Gs~--~~~---~~~~llGS~a~~vl~~a---~cpVlvV 143 (144)
T PRK15005 93 GSPKDRILELAKKIPADMIIIASH--RPD---ITTYLLGSNAAAVVRHA---ECSVLVV 143 (144)
T ss_pred CCHHHHHHHHHHHcCCCEEEEeCC--CCC---chheeecchHHHHHHhC---CCCEEEe
Confidence 456678999999999999999931 111 11111223455555553 5787764
No 59
>PRK13326 pantothenate kinase; Reviewed
Probab=66.24 E-value=84 Score=26.95 Aligned_cols=55 Identities=16% Similarity=0.169 Sum_probs=31.1
Q ss_pred ceEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHH-HHc--CCCEEEEe
Q 030836 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIA-QRE--ETDEFIIG 117 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li-~e~--~v~~IVVG 117 (170)
.++|+||+|..+|=+|+-|.......-.+..+.....+++...+ ..+ +++.+++.
T Consensus 6 ~~~L~IDiGNT~ik~glf~~~~l~~~~r~~t~~~~t~de~~~~l~~~~~~~i~~viis 63 (262)
T PRK13326 6 SSQLIIDIGNTSISFALYKDNKMQIFCKLKTKLDLSFDELYSFLKEKFDFKVNQVFVS 63 (262)
T ss_pred cEEEEEEeCCCeEEEEEEECCEEEEEEEeccCCCCCHHHHHHHHhcCCCCCCCEEEEE
Confidence 47999999999999999986421111122211111223333222 222 48888887
No 60
>PRK10854 exopolyphosphatase; Provisional
Probab=66.23 E-value=43 Score=31.23 Aligned_cols=89 Identities=15% Similarity=0.126 Sum_probs=56.6
Q ss_pred cCCCCCceEEEEecCCCeEEEEEecCC--eeEEeE----EEEc-----cch-----------hHHHHHHHHHHHcCCCEE
Q 030836 57 DSLWRGGFSLGVDLGLSRTGLALSKGF--CVRPLT----VLKL-----RGE-----------KLELQLLEIAQREETDEF 114 (170)
Q Consensus 57 ~~~~~~g~iLgID~G~kRiGVAvsD~~--~a~Pl~----~i~~-----~~~-----------~~~~~L~~li~e~~v~~I 114 (170)
|..+|+..+-+||+|+-.|=+.|.+.. ....+. ++.. .+. .......+++++|+++.+
T Consensus 5 ~~~~~~~~~A~IDIGSNSirL~I~e~~~~~~~~i~~~k~~vrLg~g~~~~g~Ls~e~~~r~~~~L~~F~~~~~~~~v~~v 84 (513)
T PRK10854 5 DKSPRPQEFAAVDLGSNSFHMVIARVVDGAMQIIGRLKQRVHLADGLDSDNMLSEEAMERGLNCLSLFAERLQGFSPANV 84 (513)
T ss_pred CCCCCCCEEEEEEeccchheEEEEEecCCcEEEeeeeeEEEECCCCcCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCeE
Confidence 445667789999999999999998721 112221 1110 010 113567778889999754
Q ss_pred -EEeecCCCCCCC-ChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 115 -IIGLPKSWDGSE-TPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 115 -VVGlPl~~dGt~-s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+|| |. --.++....|.+++++.. |++|...+
T Consensus 85 ~~vA-------TsAlReA~N~~~fl~~i~~~t---Gl~i~vIs 117 (513)
T PRK10854 85 CIVG-------THTLRQALNATDFLKRAEKVI---PYPIEIIS 117 (513)
T ss_pred EEEe-------hHHHHcCcCHHHHHHHHHHHH---CCCeEEeC
Confidence 555 21 123444578999999885 88998887
No 61
>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=65.85 E-value=12 Score=27.93 Aligned_cols=43 Identities=26% Similarity=0.398 Sum_probs=29.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY 152 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~ 152 (170)
....+.|.+++++++||.+||| .+.+ .+.-.+..|++. ++|++
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvG-------PE~p---L~~Gl~D~l~~~----gi~vf 90 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVG-------PEAP---LVAGLADALRAA----GIPVF 90 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEES-------SHHH---HHTTHHHHHHHT----T-CEE
T ss_pred CCCHHHHHHHHHHcCCCEEEEC-------ChHH---HHHHHHHHHHHC----CCcEE
Confidence 3456899999999999999999 2333 334455666654 78876
No 62
>PRK09472 ftsA cell division protein FtsA; Reviewed
Probab=64.00 E-value=40 Score=30.45 Aligned_cols=57 Identities=11% Similarity=0.218 Sum_probs=36.8
Q ss_pred ceEEEEecCCCeEEEEEec----C-CeeEEeEEEEcc--------c-hhHHHHHHHHHHH------cCCCEEEEeec
Q 030836 63 GFSLGVDLGLSRTGLALSK----G-FCVRPLTVLKLR--------G-EKLELQLLEIAQR------EETDEFIIGLP 119 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD----~-~~a~Pl~~i~~~--------~-~~~~~~L~~li~e------~~v~~IVVGlP 119 (170)
..+.|||+|+.+|=+.+++ + .........+.. + ....+.|++.+++ .++..+++|.|
T Consensus 8 ~~i~~lDIGsskv~~vv~~~~~~~~~~i~g~~~~~s~gi~~G~I~d~~~~~~aI~~av~~ae~~~g~~i~~v~v~i~ 84 (420)
T PRK09472 8 KLVVGLEIGTAKVAALVGEVLPDGMVNIIGVGSCPSRGMDKGGVNDLESVVKCVQRAIDQAELMADCQISSVYLALS 84 (420)
T ss_pred CEEEEEEcccceEEEEEEEEcCCCCEEEEEEEEccCCCccCCEEEcHHHHHHHHHHHHHHHHHHhCCcccEEEEEec
Confidence 4689999999999887765 2 222333333321 1 1234567777754 67999999987
No 63
>PRK15456 universal stress protein UspG; Provisional
Probab=63.80 E-value=12 Score=27.66 Aligned_cols=51 Identities=18% Similarity=0.210 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
....+.|.++++++++|.||+|- .|. +-....+-..++++-++. ..||..+
T Consensus 91 G~~~~~I~~~a~~~~~DLIVmG~----~g~-~~~~~llGS~a~~v~~~a---~~pVLvV 141 (142)
T PRK15456 91 GSVRDEVNELAEELGADVVVIGS----RNP-SISTHLLGSNASSVIRHA---NLPVLVV 141 (142)
T ss_pred CChHHHHHHHHhhcCCCEEEEcC----CCC-CccceecCccHHHHHHcC---CCCEEEe
Confidence 35667899999999999999994 232 221122344566666653 5787654
No 64
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=62.69 E-value=95 Score=26.25 Aligned_cols=88 Identities=19% Similarity=0.220 Sum_probs=48.9
Q ss_pred CceEEEEecCCCeEEEEEecCCeeEEeEEEEcc----------c-h---hHHHHHHHHHHHc---CCCEEEEeecCCCCC
Q 030836 62 GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLR----------G-E---KLELQLLEIAQRE---ETDEFIIGLPKSWDG 124 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~----------~-~---~~~~~L~~li~e~---~v~~IVVGlPl~~dG 124 (170)
.+.++|||+|+.+|=+.+.+... .++...... + . ....++.+.++++ .+..+++..|-..+-
T Consensus 23 ~~~~~~iDiGSssi~~vv~~~~~-~~~~~~~~~~~~vr~G~i~di~~a~~~i~~~~~~ae~~~g~~i~~v~~~vp~~~~~ 101 (267)
T PRK15080 23 SPLKVGVDLGTANIVLAVLDEDG-QPVAGALEWADVVRDGIVVDFIGAVTIVRRLKATLEEKLGRELTHAATAIPPGTSE 101 (267)
T ss_pred CCEEEEEEccCceEEEEEEcCCC-CEEEEEeccccccCCCEEeeHHHHHHHHHHHHHHHHHHhCCCcCeEEEEeCCCCCc
Confidence 46899999999999988876321 022222110 0 1 1233444444333 478899999976431
Q ss_pred CCChhHHHHHHHHHHHHHhhccCCccEE-EEcCcccH
Q 030836 125 SETPQSNKVRSVAGRLAVRAAERGWRVY-LLDEHRTS 160 (170)
Q Consensus 125 t~s~~~~~vr~F~~~L~~~~~~~~lpV~-lvDER~TT 160 (170)
.+ -+++.+.++.. ++.+. +++|.+..
T Consensus 102 ---~~---~~~~~~~~~~a----Gl~~~~ii~e~~A~ 128 (267)
T PRK15080 102 ---GD---PRAIINVVESA----GLEVTHVLDEPTAA 128 (267)
T ss_pred ---hh---HHHHHHHHHHc----CCceEEEechHHHH
Confidence 11 23444444432 77777 77776543
No 65
>COG0418 PyrC Dihydroorotase [Nucleotide transport and metabolism]
Probab=61.37 E-value=11 Score=34.06 Aligned_cols=50 Identities=30% Similarity=0.389 Sum_probs=34.3
Q ss_pred EeecCCCCCCCChh--------HHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 116 IGLPKSWDGSETPQ--------SNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 116 VGlPl~~dGt~s~~--------~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
+|+|+...|..+.. +..+...-+.|.++|| .+.|++ |+.||+.|-+...+
T Consensus 130 ~gmpLlvHGEvt~~~vDifdrE~~Fi~~vl~pl~~~fP--~LKIV~--EHiTT~dav~~v~~ 187 (344)
T COG0418 130 IGMPLLVHGEVTDAEVDIFDREAAFIESVLEPLRQRFP--KLKIVL--EHITTKDAVEYVKD 187 (344)
T ss_pred cCCeEEEecccCCccccchhhHHHHHHHHHHHHHhhCC--cceEEE--EEeccHHHHHHHHh
Confidence 56776666655442 2344445557778886 677776 99999999887765
No 66
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=61.04 E-value=25 Score=29.91 Aligned_cols=41 Identities=24% Similarity=0.333 Sum_probs=34.2
Q ss_pred HHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 104 EIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 104 ~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
+.+.+.+.|.|+|| |+.+-..+.+.+..+++++ + ++||++.
T Consensus 26 ~~~~~~gtdai~vG------GS~~vt~~~~~~~v~~ik~-~---~lPvilf 66 (232)
T PRK04169 26 EAICESGTDAIIVG------GSDGVTEENVDELVKAIKE-Y---DLPVILF 66 (232)
T ss_pred HHHHhcCCCEEEEc------CCCccchHHHHHHHHHHhc-C---CCCEEEe
Confidence 55667899999999 8887777888899999987 4 7999984
No 67
>PRK13317 pantothenate kinase; Provisional
Probab=60.34 E-value=74 Score=27.47 Aligned_cols=86 Identities=12% Similarity=0.176 Sum_probs=48.1
Q ss_pred ceEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHH-cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 030836 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQR-EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e-~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~ 141 (170)
+..+|||+|...+=+++-|...-.-+..... ...+.+.+++.+ .++..|++= |.-+ ..|++.+.
T Consensus 2 ~~~iGIDiGstt~K~v~~~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~i~~T------G~g~------~~~~~~~~ 66 (277)
T PRK13317 2 EMKIGIDAGGTLTKIVYLEEKKQRTFKTEYS---AEGKKVIDWLINLQDIEKICLT------GGKA------GYLQQLLN 66 (277)
T ss_pred CceEEEEeCcccEEEEEEcCCCeEEEEeecc---HHHHHHHHHhhccCCceEEEEE------Ccch------hhhhHHHh
Confidence 3678999999999999988532222333321 223345554432 345544443 2222 23333221
Q ss_pred HhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 142 VRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 142 ~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
.++|++.+||=..+..+-+.+.
T Consensus 67 -----~~~~~~~v~E~~a~~~g~~~l~ 88 (277)
T PRK13317 67 -----YGYPIAEFVEFEATGLGVRYLL 88 (277)
T ss_pred -----cCCCeeeeHHHHHHHHHHHHHH
Confidence 2678888999777766665553
No 68
>COG1924 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]
Probab=60.23 E-value=21 Score=32.92 Aligned_cols=49 Identities=27% Similarity=0.445 Sum_probs=36.7
Q ss_pred cccccccccchhhhccccccccccCCCCCceEEEEecCCCeEEEEEecC
Q 030836 34 FGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~iLgID~G~kRiGVAvsD~ 82 (170)
+..|+.++.++|++-.=..|+..-+.+..+.+||||.|+..+=.++-+.
T Consensus 106 ~~~~~~~~~~~e~l~~f~~r~~~~~~~~~~~~LGID~GSTtTK~VLm~d 154 (396)
T COG1924 106 FTERLSAFTRMEALEEFVERHSKLREYQGMYTLGIDSGSTTTKAVLMED 154 (396)
T ss_pred cchhhhhhhhHHHHHHHHHHhhhhhhhcCcEEEEEecCCcceeEEEEeC
Confidence 4567777777777755455555556677889999999999998887773
No 69
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=59.76 E-value=34 Score=28.84 Aligned_cols=47 Identities=21% Similarity=0.354 Sum_probs=35.1
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..++.+++.+.+.|.|+|| ||.+-. ....+..+.+++.- ..+||++.
T Consensus 14 ~~~~~~~~~~~gtdai~vG------GS~~v~-~~~~~~~~~ik~~~--~~~Pvilf 60 (219)
T cd02812 14 DEEIAKLAEESGTDAIMVG------GSDGVS-STLDNVVRLIKRIR--RPVPVILF 60 (219)
T ss_pred HHHHHHHHHhcCCCEEEEC------Cccchh-hhHHHHHHHHHHhc--CCCCEEEe
Confidence 4568888988999999999 887665 56677777776642 13888865
No 70
>PRK03011 butyrate kinase; Provisional
Probab=59.31 E-value=83 Score=28.22 Aligned_cols=62 Identities=18% Similarity=0.172 Sum_probs=37.8
Q ss_pred ceEEEEecCCCeEEEEEecCCeeEEeEEEEcc----------chhH---HHHHHHHHHHc-----CCCEEEEee-----c
Q 030836 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLR----------GEKL---ELQLLEIAQRE-----ETDEFIIGL-----P 119 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~----------~~~~---~~~L~~li~e~-----~v~~IVVGl-----P 119 (170)
.+||.|.+|+--+=+|+-+.....--+++... .++. .+.+.+++++. +++.| +|- |
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 47999999999999999985432222233211 0121 24677777766 34445 887 5
Q ss_pred CCCCCCC
Q 030836 120 KSWDGSE 126 (170)
Q Consensus 120 l~~dGt~ 126 (170)
.+ .|+.
T Consensus 81 v~-gG~~ 86 (358)
T PRK03011 81 IP-GGTY 86 (358)
T ss_pred cC-CCCE
Confidence 54 4665
No 71
>PF14796 AP3B1_C: Clathrin-adaptor complex-3 beta-1 subunit C-terminal
Probab=59.11 E-value=9.4 Score=30.41 Aligned_cols=40 Identities=30% Similarity=0.531 Sum_probs=32.2
Q ss_pred ceeecccc-ccccccccccchhhhccccccccccCCCCCceEEEEecCCC
Q 030836 25 KFHLNRTR-NFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLS 73 (170)
Q Consensus 25 ~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~iLgID~G~k 73 (170)
.||+..+. ..+.+++.-.-++.|+|+++-. ..|||||++.
T Consensus 103 ~I~i~~k~l~~g~~i~~F~~I~~L~pg~s~t---------~~lgIDF~DS 143 (145)
T PF14796_consen 103 NIHIGEKKLPAGMRIHEFPEIESLEPGASVT---------VSLGIDFNDS 143 (145)
T ss_pred ceEECCCCCCCCcEeeccCcccccCCCCeEE---------EEEEEecccC
Confidence 67777765 6788888888889998888864 5899999975
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=58.72 E-value=58 Score=23.61 Aligned_cols=61 Identities=18% Similarity=0.210 Sum_probs=39.8
Q ss_pred EEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEE
Q 030836 86 RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL 153 (170)
Q Consensus 86 ~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~l 153 (170)
.++.++.....-..+.+.+.+.+++++.|++. .+.+.....++++++.+++..+ .+++|++
T Consensus 26 ~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS------~~~~~~~~~~~~~i~~l~~~~~-~~~~i~v 86 (119)
T cd02067 26 AGFEVIDLGVDVPPEEIVEAAKEEDADAIGLS------GLLTTHMTLMKEVIEELKEAGL-DDIPVLV 86 (119)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEe------ccccccHHHHHHHHHHHHHcCC-CCCeEEE
Confidence 45555543222335678888888999977776 4445566778888888887642 1455554
No 73
>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=56.76 E-value=76 Score=27.71 Aligned_cols=88 Identities=14% Similarity=0.158 Sum_probs=51.3
Q ss_pred EEEEecCCCeEEEEEecCCeeEEeEEEEccchh-HHHHHHHHHHHc-CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 030836 65 SLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEK-LELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~-~~~~L~~li~e~-~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~ 142 (170)
.+|||.|...+=+++.|...-.-+..+++++-+ ..+.|++..... .+..|.+= |.- ...|++.+..
T Consensus 2 ~iGiDiGgT~~Kiv~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~T------GgG------a~k~~~~~~~ 69 (279)
T TIGR00555 2 RIGIDIGGTLIKVVYEEPKGRRKFKTFETTNIDKFIEWLKNQIHRHSRITTLCAT------GGG------AFKFAELIYE 69 (279)
T ss_pred eEEEEeCcceEEEEEEcCCCcEEEEEeecccHHHHHHHHHHHHHhhcCceEEEEE------CCc------HHHHHHHhcc
Confidence 589999999999999874322224455543322 233344333211 12333222 322 2577777776
Q ss_pred hhccCCccEEEEcCcccHHHHHHHH
Q 030836 143 RAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.+ ++++...||=-+...+-+.+
T Consensus 70 ~~---~v~~~k~dE~~a~~~g~~~l 91 (279)
T TIGR00555 70 SA---GIQLHKFDEFDALIQGLNYL 91 (279)
T ss_pred cc---CCcccchhHHHHHHHHHHHH
Confidence 53 68888999977777766555
No 74
>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]
Probab=56.26 E-value=9.7 Score=38.44 Aligned_cols=20 Identities=30% Similarity=0.717 Sum_probs=18.2
Q ss_pred CceEEEEecCCCeEEEEEec
Q 030836 62 GGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD 81 (170)
..++||+|+|..-||+|++.
T Consensus 3 ~~yilglDIGi~SVGWAvve 22 (1088)
T COG3513 3 KAYILGLDIGINSVGWAVVE 22 (1088)
T ss_pred cceEEEeeccccceeeEEee
Confidence 35899999999999999987
No 75
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=55.59 E-value=45 Score=29.47 Aligned_cols=54 Identities=22% Similarity=0.205 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+.++.+++.+.+||.|||+-=+-. +..|..+.+..|.+.|++.- ..++||+.+
T Consensus 28 ~f~~~l~~a~~~~vD~vliAGDlFd--~~~Ps~~a~~~~~~~l~~l~-~~~Ipv~~I 81 (390)
T COG0420 28 AFDELLEIAKEEKVDFVLIAGDLFD--TNNPSPRALKLFLEALRRLK-DAGIPVVVI 81 (390)
T ss_pred HHHHHHHHHHHccCCEEEEcccccc--CCCCCHHHHHHHHHHHHHhc-cCCCcEEEe
Confidence 4678889999999999999843222 45555666677777776542 237999876
No 76
>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=55.53 E-value=10 Score=34.92 Aligned_cols=18 Identities=33% Similarity=0.639 Sum_probs=15.3
Q ss_pred EEEEecCCCeEEEEEecC
Q 030836 65 SLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~ 82 (170)
++|||+|+..+.||+.+.
T Consensus 1 viGID~Gt~~~~va~~~~ 18 (602)
T PF00012_consen 1 VIGIDLGTTNSKVAVFKN 18 (602)
T ss_dssp EEEEEE-SSEEEEEEEET
T ss_pred CEEEEeccCCEEEEEEEe
Confidence 689999999999998774
No 77
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=55.50 E-value=25 Score=26.26 Aligned_cols=45 Identities=29% Similarity=0.416 Sum_probs=29.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+++.++++++++|.|+|=+|... .+.++++.+.+++. ++.|.++
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 457889999999999999988642 35677888888764 6776654
No 78
>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=55.39 E-value=69 Score=22.70 Aligned_cols=24 Identities=13% Similarity=0.426 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeec
Q 030836 96 EKLELQLLEIAQREETDEFIIGLP 119 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlP 119 (170)
.+..+.|.+.++++++|.||+|..
T Consensus 71 ~~~~~~I~~~~~~~~~dllviG~~ 94 (124)
T cd01987 71 DDVAEAIVEFAREHNVTQIVVGKS 94 (124)
T ss_pred CcHHHHHHHHHHHcCCCEEEeCCC
Confidence 345678999999999999999954
No 79
>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=55.28 E-value=78 Score=25.08 Aligned_cols=63 Identities=11% Similarity=0.246 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCC--CCCCChhHHHHHHHHHHHHHhhccCCccEEEEc------CcccHHHHHHHHHc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSW--DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD------EHRTSAEAVDRMIN 169 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~--dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD------ER~TT~eA~~~L~e 169 (170)
..+.+.+++...+++.||||.=..- ++..+ ....++++ +. +++.|+.++ +..||..-++.+.+
T Consensus 87 ~~~Fi~~il~~~~~~~ivvG~Df~FG~~~~g~--~~~L~~~~----~~---~g~~v~~v~~~~~~~~~iSST~IR~~i~~ 157 (180)
T cd02064 87 AEEFVEDLLVKLNAKHVVVGFDFRFGKGRSGD--AELLKELG----KK---YGFEVTVVPPVTLDGERVSSTRIREALAE 157 (180)
T ss_pred HHHHHHHHHhhcCCeEEEEccCCCCCCCCCCC--HHHHHHhh----hh---cCcEEEEeCcEecCCcEEcHHHHHHHHHh
Confidence 3456777776669999999975432 11111 11122222 22 366777766 46888888887765
No 80
>PF14450 FtsA: Cell division protein FtsA; PDB: 1E4F_T 4A2B_A 4A2A_A 1E4G_T.
Probab=54.41 E-value=42 Score=24.83 Aligned_cols=19 Identities=26% Similarity=0.392 Sum_probs=16.1
Q ss_pred EEEEecCCCeEEEEEecCC
Q 030836 65 SLGVDLGLSRTGLALSKGF 83 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~ 83 (170)
+.+||+|..+|.+++....
T Consensus 1 i~~iDiGs~~~~~~i~~~~ 19 (120)
T PF14450_consen 1 IVVIDIGSSKTKVAIAEDG 19 (120)
T ss_dssp EEEEEE-SSSEEEEEEETT
T ss_pred CEEEEcCCCcEEEEEEEeC
Confidence 5799999999999999963
No 81
>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=54.23 E-value=52 Score=23.51 Aligned_cols=48 Identities=21% Similarity=0.225 Sum_probs=33.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+++.+.+.+++++.|.+.. ..+.....+.++++.+++..| +++|+.=
T Consensus 40 ~~~l~~~~~~~~pd~V~iS~------~~~~~~~~~~~l~~~~k~~~p--~~~iv~G 87 (121)
T PF02310_consen 40 PEELVEALRAERPDVVGISV------SMTPNLPEAKRLARAIKERNP--NIPIVVG 87 (121)
T ss_dssp HHHHHHHHHHTTCSEEEEEE------SSSTHHHHHHHHHHHHHTTCT--TSEEEEE
T ss_pred HHHHHHHHhcCCCcEEEEEc------cCcCcHHHHHHHHHHHHhcCC--CCEEEEE
Confidence 37788888888999988873 255566777888888776653 5666543
No 82
>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=54.17 E-value=73 Score=28.37 Aligned_cols=81 Identities=20% Similarity=0.174 Sum_probs=52.6
Q ss_pred EEEecCCCeEEEEEecCC---e--eE-EeEEEEccchhHHHHHHHHHHHcCC-CEEEEeecCCCCCCCC----hhHHHHH
Q 030836 66 LGVDLGLSRTGLALSKGF---C--VR-PLTVLKLRGEKLELQLLEIAQREET-DEFIIGLPKSWDGSET----PQSNKVR 134 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~~---~--a~-Pl~~i~~~~~~~~~~L~~li~e~~v-~~IVVGlPl~~dGt~s----~~~~~vr 134 (170)
+|+|+|...+=+|..|.. . .+ |..-+ .....+...|.+++++.+. +.+.|= |-|.-. ...+-|+
T Consensus 1 ~G~DiGGA~~K~a~~~~~g~~~~v~~~~~plW-~~~~~L~~~l~~~~~~~~~~~~~avt----MTgELaD~f~~r~~GV~ 75 (318)
T TIGR03123 1 LGIDIGGANTKAAELDEDGRIKEVHQLYCPLW-KGNDKLAETLKEISQDLSSADNVAVT----MTGELADCFEDKAEGVE 75 (318)
T ss_pred CccccccceeeeEEecCCCceeEEEEecCccc-CCchHHHHHHHHHHHhcCccceEEEE----eehhhhhhhcCHHHHHH
Confidence 589999999999977632 1 22 22222 2334566788888887776 555554 445433 5677788
Q ss_pred HHHHHHHHhhccCCccEEEE
Q 030836 135 SVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 135 ~F~~~L~~~~~~~~lpV~lv 154 (170)
..++.+++.|+ -++.++
T Consensus 76 ~i~~~~~~~~~---~~~~i~ 92 (318)
T TIGR03123 76 FILAAVESAFG---SPVSVF 92 (318)
T ss_pred HHHHHHHHhcC---CCeEEE
Confidence 88889998873 355544
No 83
>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=53.84 E-value=1.5e+02 Score=25.66 Aligned_cols=84 Identities=15% Similarity=0.084 Sum_probs=50.9
Q ss_pred EEEecCCCeEEEEEecC--C-eeEEeEE-----------EEc-----cchhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 030836 66 LGVDLGLSRTGLALSKG--F-CVRPLTV-----------LKL-----RGEKLELQLLEIAQR-----EETDEFIIGLPKS 121 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~--~-~a~Pl~~-----------i~~-----~~~~~~~~L~~li~e-----~~v~~IVVGlPl~ 121 (170)
||||--...+++|+.|. . .+.-..+ .+. ....+...+.+++++ .++|.|+|+.=
T Consensus 1 LaidTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~iav~~G-- 78 (305)
T TIGR00329 1 LGIETSCDDTGVAIVDEEGNVLANIKISQIPLHAKYGGVVPEEASRHHAENIPPLLERALIESNVDKSEIDLIAYTQG-- 78 (305)
T ss_pred CEEecCccceEEEEEECCCcEEEEEEecccccccccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecC--
Confidence 68999999999999984 1 2211111 111 112233456666655 35699999841
Q ss_pred CCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 122 WDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 122 ~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
-|..+. -+....+++.|+..+ ++|++.++.
T Consensus 79 -PG~~tg-lrvg~~~Ak~la~~~---~~p~~~v~h 108 (305)
T TIGR00329 79 -PGLGGS-LRVGATFARSLALSL---DKPLIGVNH 108 (305)
T ss_pred -CCchhh-HHHHHHHHHHHHHHh---CCCEeeccc
Confidence 133333 344457899998764 899998853
No 84
>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=53.83 E-value=77 Score=23.46 Aligned_cols=53 Identities=13% Similarity=0.047 Sum_probs=39.1
Q ss_pred EEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 86 RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 86 ~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
.++.++........+++.+.+.+++++.|++. ++.......++++++.|++..
T Consensus 26 ~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS------~~~~~~~~~~~~~~~~L~~~~ 78 (122)
T cd02071 26 AGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLS------SLSGGHMTLFPEVIELLRELG 78 (122)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEc------ccchhhHHHHHHHHHHHHhcC
Confidence 46666654333446788888889999999987 455566777899999998873
No 85
>PF03932 CutC: CutC family; InterPro: IPR005627 Copper transport in Escherichia coli is mediated by the products of at least six genes, cutA, cutB, cutC, cutD, cutE, and cutF. A mutation in one or more of these genes results in an increased copper sensitivity. Members of this family are between 200 and 300 amino acids in length and are found in both eukaryotes and bacteria.; GO: 0005507 copper ion binding, 0055070 copper ion homeostasis; PDB: 2BDQ_A 3IWP_I 1X8C_B 1X7I_A 1TWD_B.
Probab=53.08 E-value=52 Score=27.38 Aligned_cols=56 Identities=25% Similarity=0.347 Sum_probs=34.2
Q ss_pred HHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE---cCcccHHHHHHHHHc
Q 030836 105 IAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL---DEHRTSAEAVDRMIN 169 (170)
Q Consensus 105 li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv---DER~TT~eA~~~L~e 169 (170)
.+++.++++||+| .++.||+... ...++|.+.. .+.|++|- |+-....+|-+.|.+
T Consensus 80 ~~~~~GadG~VfG-~L~~dg~iD~------~~~~~Li~~a--~~~~~tFHRAfD~~~d~~~al~~L~~ 138 (201)
T PF03932_consen 80 MLRELGADGFVFG-ALTEDGEIDE------EALEELIEAA--GGMPVTFHRAFDEVPDPEEALEQLIE 138 (201)
T ss_dssp HHHHTT-SEEEE---BETTSSB-H------HHHHHHHHHH--TTSEEEE-GGGGGSSTHHHHHHHHHH
T ss_pred HHHHcCCCeeEEE-eECCCCCcCH------HHHHHHHHhc--CCCeEEEeCcHHHhCCHHHHHHHHHh
Confidence 4467899999999 4777888763 3333444433 27899884 777777777666643
No 86
>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=52.27 E-value=63 Score=24.78 Aligned_cols=52 Identities=15% Similarity=0.201 Sum_probs=34.5
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+.+++..++++.|||-+=-|.-+......+.++.+++.+++..| +.||+++.
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 55666778999988865444322222456778888888888764 56777653
No 87
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=51.57 E-value=31 Score=29.64 Aligned_cols=39 Identities=18% Similarity=0.273 Sum_probs=28.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY 152 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~ 152 (170)
..+..+.+++.+.|.||+| -+..+ ..+++|++.+ ++||+
T Consensus 163 ~~~~~~a~~edgAeaIiLG-----CAGms-------~la~~Lq~~~---gvPVI 201 (230)
T COG4126 163 VIEAAEALKEDGAEAIILG-----CAGMS-------DLADQLQKAF---GVPVI 201 (230)
T ss_pred HHHHHHHhhhcCCCEEEEc-----CccHH-------HHHHHHHHHh---CCCcc
Confidence 4577888889999999999 22222 3377888875 88885
No 88
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=51.08 E-value=64 Score=22.45 Aligned_cols=49 Identities=29% Similarity=0.347 Sum_probs=34.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
..+.+++.+++++.||+| ..++ .....|+.+ ++.++..++ .+-.+|-+.
T Consensus 53 ~~~~~~l~~~~v~~vi~~-------~iG~------~~~~~l~~~----gI~v~~~~~-~~i~~vl~~ 101 (103)
T cd00851 53 GKAAEFLADEGVDVVIVG-------GIGP------RALNKLRNA----GIKVYKGAE-GTVEEAIEA 101 (103)
T ss_pred hHHHHHHHHcCCCEEEeC-------CCCc------CHHHHHHHC----CCEEEEcCC-CCHHHHHHh
Confidence 567777888999999998 2332 334566664 899998887 566665443
No 89
>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=50.92 E-value=20 Score=24.63 Aligned_cols=21 Identities=24% Similarity=0.322 Sum_probs=18.8
Q ss_pred HHHHHHHHHHcCCCEEEEeec
Q 030836 99 ELQLLEIAQREETDEFIIGLP 119 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlP 119 (170)
.+.|.+.++++++|.+|+|.-
T Consensus 82 ~~~i~~~~~~~~~dlvvig~~ 102 (130)
T cd00293 82 AEAILEAAEELGADLIVMGSR 102 (130)
T ss_pred HHHHHHHHHHcCCCEEEEcCC
Confidence 678999999999999999953
No 90
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=50.09 E-value=64 Score=28.06 Aligned_cols=39 Identities=8% Similarity=0.056 Sum_probs=31.9
Q ss_pred CChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 126 ~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
..+..+.+.++++.+++. +++++|++..+++..|+.+-.
T Consensus 234 ~eps~~~l~~l~~~ik~~----~v~~If~e~~~~~~~~~~la~ 272 (311)
T PRK09545 234 IQPGAQRLHEIRTQLVEQ----KATCVFAEPQFRPAVIESVAK 272 (311)
T ss_pred CCCCHHHHHHHHHHHHHc----CCCEEEecCCCChHHHHHHHH
Confidence 346688889999998875 899999999999988876543
No 91
>PRK14878 UGMP family protein; Provisional
Probab=49.76 E-value=98 Score=27.04 Aligned_cols=85 Identities=14% Similarity=0.105 Sum_probs=50.9
Q ss_pred EEEecCCCeEEEEEecCC--eeEEeEEEEc-------------cchhHHHHHHHHHHH-----cCCCEEEEeecCCCCCC
Q 030836 66 LGVDLGLSRTGLALSKGF--CVRPLTVLKL-------------RGEKLELQLLEIAQR-----EETDEFIIGLPKSWDGS 125 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~~--~a~Pl~~i~~-------------~~~~~~~~L~~li~e-----~~v~~IVVGlPl~~dGt 125 (170)
||||-=..-+++|+.|.. .+.-..+..+ ..+.+...+++++++ .++|.|.|+.-- |.
T Consensus 1 l~iets~~~~s~al~~~~~i~~~~~~~~~~~~gg~~p~~~~~~h~~~l~~~i~~~l~~a~~~~~did~Iavt~gP---G~ 77 (323)
T PRK14878 1 LGIESTAHTLGVGIVKEDKVLANVRDTYVPEKGGIHPREAAQHHAEVAPELLRKALEKAGISIEDIDAVAVSQGP---GL 77 (323)
T ss_pred CEEecCCcccEEEEEECCEEEEEEEEecccCcCCcCccHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC---Cc
Confidence 578877788899988742 2222222111 011233456666665 467999999421 33
Q ss_pred CChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 126 ~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
.+ .-+....|++.|+..+ ++|++.++..
T Consensus 78 ~~-~lrvg~~~Ak~la~~~---~~p~~~v~h~ 105 (323)
T PRK14878 78 GP-ALRVGATAARALALKY---NKPLVPVNHC 105 (323)
T ss_pred cc-chHHHHHHHHHHHHHh---CCCccccchH
Confidence 33 2333467889998775 7899988653
No 92
>PF01884 PcrB: PcrB family; InterPro: IPR008205 This entry represents geranylgeranylglyceryl phosphate (GGGP) synthase, which is a prenyltransferase that catalyses the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C3 hydroxyl of sn-glycerol-1-phosphate (G1P). This reaction is the first ether-bond-formation step in the biosynthesis of archaeal membrane lipids. This entry also matches putative glycerol-1-phosphate prenyltransferases that may catalyse the transfer of a prenyl moiety to sn-glycerol-1-phosphate (G1P) []. Some of the prokaryotic proteins in this family are related to pcrB. The Staphylococcus aureus chromosomal gene pcrA encodes a protein with significant similarity (40% identity) to two Escherichia coli helicases: the helicase II encoded by the uvrD gene and the Rep helicase. PcrB gene seems to belong to an operon containing at least one other gene, pcrBA, downstream from pcrB []. The PcrB proteins often contain an FMN binding site although the function of these proteins is still unknown.; GO: 0016765 transferase activity, transferring alkyl or aryl (other than methyl) groups; PDB: 1VIZ_A 2F6X_B 2F6U_B 3VKD_A 3VKA_A 3VK5_B 3VKC_B 3VKB_B.
Probab=49.48 E-value=81 Score=26.89 Aligned_cols=44 Identities=27% Similarity=0.334 Sum_probs=27.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCC-ChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSE-TPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~-s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+.+.+.+.+.+.|.|+|| |+. +.. ..+....+++. +++||++.
T Consensus 21 ~~~~~~~~~~~gtDai~VG------GS~~~~~---~d~vv~~ik~~---~~lPvilf 65 (230)
T PF01884_consen 21 PEEALEAACESGTDAIIVG------GSDTGVT---LDNVVALIKRV---TDLPVILF 65 (230)
T ss_dssp HHHHHHHHHCTT-SEEEEE-------STHCHH---HHHHHHHHHHH---SSS-EEEE
T ss_pred cHHHHHHHHhcCCCEEEEC------CCCCccc---hHHHHHHHHhc---CCCCEEEe
Confidence 3445555588899999999 887 433 34556666655 38999886
No 93
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=49.30 E-value=93 Score=26.08 Aligned_cols=53 Identities=13% Similarity=0.143 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhH-HHHHHHHHHHHHhhccCC-ccEEEE
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERG-WRVYLL 154 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~-~~vr~F~~~L~~~~~~~~-lpV~lv 154 (170)
.++++.+++.++++|.||++-=+-.+...+..+ .....|.++|.+. + +||+++
T Consensus 27 ~l~~l~~~~~~~~~D~lli~GDi~d~~~p~~~~~~~~~~~l~~l~~~----~~i~v~~i 81 (253)
T TIGR00619 27 FLDDLLEFAKAEQIDALLVAGDVFDTANPPAEAQELFNAFFRNLSDA----NPIPIVVI 81 (253)
T ss_pred HHHHHHHHHHHcCCCEEEECCccCCCCCCCHHHHHHHHHHHHHHHhc----CCceEEEE
Confidence 356788888899999888874333223333222 2234555556543 4 788876
No 94
>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.
Probab=48.70 E-value=46 Score=31.52 Aligned_cols=58 Identities=14% Similarity=0.185 Sum_probs=43.4
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-CcccHHHHHHHHHc
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRTSAEAVDRMIN 169 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~TT~eA~~~L~e 169 (170)
+.++=+--++-.||+- +..|.+...++.++.|+++ |++||.-+| +.++...-.+.|.+
T Consensus 173 I~ELk~igKPFvillN-------s~~P~s~et~~L~~eL~ek---Y~vpVlpvnc~~l~~~DI~~Il~~ 231 (492)
T PF09547_consen 173 IEELKEIGKPFVILLN-------STKPYSEETQELAEELEEK---YDVPVLPVNCEQLREEDITRILEE 231 (492)
T ss_pred HHHHHHhCCCEEEEEe-------CCCCCCHHHHHHHHHHHHH---hCCcEEEeehHHcCHHHHHHHHHH
Confidence 3333333456555554 6778888999999999998 599999999 88888887776653
No 95
>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=48.14 E-value=43 Score=25.32 Aligned_cols=87 Identities=16% Similarity=0.163 Sum_probs=48.1
Q ss_pred EEEEecCCCeEEEEEecCCeeEEeEE----EEccch----------------hHHHHHHHHHHHc------CCCEEEEee
Q 030836 65 SLGVDLGLSRTGLALSKGFCVRPLTV----LKLRGE----------------KLELQLLEIAQRE------ETDEFIIGL 118 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a~Pl~~----i~~~~~----------------~~~~~L~~li~e~------~v~~IVVGl 118 (170)
++.+|-|...||+.-..+. ..+.. ++.+.. +.+.++.+.+.++ .++.|||+-
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 7899999999999866543 22222 222210 1234444444444 899999995
Q ss_pred cCCCCCCCChhHHHHHHHHHHHHHhhccCC-ccEEEEcCcccHHHH
Q 030836 119 PKSWDGSETPQSNKVRSVAGRLAVRAAERG-WRVYLLDEHRTSAEA 163 (170)
Q Consensus 119 Pl~~dGt~s~~~~~vr~F~~~L~~~~~~~~-lpV~lvDER~TT~eA 163 (170)
| |. . -..|.+.+....+..+ ..+..+|=..+...+
T Consensus 82 P----Gf---~---k~~f~~~l~~~~~~~~~~~i~~~~~s~~~~~g 117 (133)
T PF03464_consen 82 P----GF---T---KEEFYKYLKAEARRKDKKKIVVVDTSSGGESG 117 (133)
T ss_dssp S----TT---H---HHHHHHHHHHHHHHHTCCEEEEEE-SSSCHHH
T ss_pred C----HH---H---HHHHHHHHHHhhHhhcCCEEEEEECCCCCHHH
Confidence 5 22 1 2467777765543223 346666644444443
No 96
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=47.82 E-value=70 Score=27.04 Aligned_cols=36 Identities=11% Similarity=0.163 Sum_probs=24.8
Q ss_pred ChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 127 TPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 127 s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
.+..+.+.++.+.+++. +++++|++..+++..|+.+
T Consensus 203 eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~l 238 (282)
T cd01017 203 EPSPKQLAELVEFVKKS----DVKYIFFEENASSKIAETL 238 (282)
T ss_pred CCCHHHHHHHHHHHHHc----CCCEEEEeCCCChHHHHHH
Confidence 35566777777777664 6777777777777766654
No 97
>PRK11175 universal stress protein UspE; Provisional
Probab=47.69 E-value=67 Score=26.71 Aligned_cols=53 Identities=8% Similarity=-0.000 Sum_probs=32.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
...+.|.+.++++++|.||+|. .|...-.........++|-... .+||..+-+
T Consensus 94 ~~~~~i~~~a~~~~~DLiV~G~----~~~~~~~~~~~gs~~~~l~~~~---~~pvlvv~~ 146 (305)
T PRK11175 94 RPFEAIIQEVIAGGHDLVVKMT----HQHDKLESVIFTPTDWHLLRKC---PCPVLMVKD 146 (305)
T ss_pred CcHHHHHHHHHhcCCCEEEEeC----CCCcHHHhhccChhHHHHHhcC---CCCEEEecc
Confidence 4567899999999999999994 2322111111123344454443 678887765
No 98
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=46.95 E-value=1.1e+02 Score=24.59 Aligned_cols=57 Identities=16% Similarity=0.129 Sum_probs=40.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAV 164 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~ 164 (170)
.++...|.+...+.+....++| |+.. .+.+.++.|++++| ++.|...+=.++..+..
T Consensus 34 ~dl~~~l~~~~~~~~~~vfllG------~~~~----v~~~~~~~l~~~yP--~l~i~g~~g~f~~~~~~ 90 (177)
T TIGR00696 34 PDLMEELCQRAGKEKLPIFLYG------GKPD----VLQQLKVKLIKEYP--KLKIVGAFGPLEPEERK 90 (177)
T ss_pred HHHHHHHHHHHHHcCCeEEEEC------CCHH----HHHHHHHHHHHHCC--CCEEEEECCCCChHHHH
Confidence 3556778887777888888899 4433 35677888888886 78877777777655443
No 99
>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=46.62 E-value=1.3e+02 Score=23.69 Aligned_cols=55 Identities=20% Similarity=0.347 Sum_probs=33.0
Q ss_pred EEEEecCCCeEEEEEec----C-CeeEEeEEEEcc--------c-hhHHHHHHHHHHHc------CCCEEEEeec
Q 030836 65 SLGVDLGLSRTGLALSK----G-FCVRPLTVLKLR--------G-EKLELQLLEIAQRE------ETDEFIIGLP 119 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD----~-~~a~Pl~~i~~~--------~-~~~~~~L~~li~e~------~v~~IVVGlP 119 (170)
+.|||+|+.+|=+.+.. + +....+...+.+ + ......|++.+++- +++.+++|.|
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 47999999999988774 2 122222222211 1 12335566666533 5778999987
No 100
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=46.54 E-value=62 Score=28.37 Aligned_cols=65 Identities=11% Similarity=0.220 Sum_probs=37.1
Q ss_pred HHHHHHHHH-HHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc------CcccHHHHHHHHHc
Q 030836 98 LELQLLEIA-QREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD------EHRTSAEAVDRMIN 169 (170)
Q Consensus 98 ~~~~L~~li-~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD------ER~TT~eA~~~L~e 169 (170)
..+.+.+++ +..+++.||||.=..- |.... -.+ ++.+.+.+. +++.|+.+| ++.||..-++.+.+
T Consensus 101 ~e~Fi~~~l~~~l~~~~iVvG~Df~F-G~~~~--G~~-~~L~~~~~~---~g~~v~~v~~~~~~~~~ISST~IR~~I~~ 172 (305)
T PRK05627 101 AEEFIEDLLVKGLNAKHVVVGFDFRF-GKKRA--GDF-ELLKEAGKE---FGFEVTIVPEVKEDGERVSSTAIRQALAE 172 (305)
T ss_pred HHHHHHHHHHhccCCCEEEECCCCCC-CCCCC--CCH-HHHHHHHHH---cCcEEEEeccEecCCCcCchHHHHHHHHc
Confidence 345677754 5689999999963321 21110 001 222222222 256666554 68999999888765
No 101
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=46.18 E-value=73 Score=25.29 Aligned_cols=45 Identities=13% Similarity=0.114 Sum_probs=28.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
...+..++ ..++|+|||..+- .+.. ..+.+++.+. ++||+++|--
T Consensus 45 ~~~i~~~i-~~~~d~Iiv~~~~---~~~~------~~~l~~~~~~----gIpvv~~d~~ 89 (257)
T PF13407_consen 45 IEQIEQAI-SQGVDGIIVSPVD---PDSL------APFLEKAKAA----GIPVVTVDSD 89 (257)
T ss_dssp HHHHHHHH-HTTESEEEEESSS---TTTT------HHHHHHHHHT----TSEEEEESST
T ss_pred HHHHHHHH-HhcCCEEEecCCC---HHHH------HHHHHHHhhc----CceEEEEecc
Confidence 34556665 4579999998322 1211 3555666654 8999999854
No 102
>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=45.82 E-value=1.1e+02 Score=26.90 Aligned_cols=55 Identities=15% Similarity=0.205 Sum_probs=34.5
Q ss_pred EEEEecCCCeEEEEEec----C-CeeEEeEEEEc---c------chhHHHHHHHHHHH------cCCCEEEEeec
Q 030836 65 SLGVDLGLSRTGLALSK----G-FCVRPLTVLKL---R------GEKLELQLLEIAQR------EETDEFIIGLP 119 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD----~-~~a~Pl~~i~~---~------~~~~~~~L~~li~e------~~v~~IVVGlP 119 (170)
++|||+|+.+|=+++.. + .........+. + .......|++.+++ .++..++++.|
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 68999999999988865 2 11122222221 0 12334567777764 57888999987
No 103
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=45.70 E-value=78 Score=26.55 Aligned_cols=38 Identities=13% Similarity=0.221 Sum_probs=29.5
Q ss_pred CChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 126 ~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
..+..+.+.++.+.+++. ++++++++...++..++..-
T Consensus 199 ~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~la 236 (266)
T cd01018 199 KEPSPADLKRLIDLAKEK----GVRVVFVQPQFSTKSAEAIA 236 (266)
T ss_pred CCCCHHHHHHHHHHHHHc----CCCEEEEcCCCCcHHHHHHH
Confidence 346678888888888875 78899998888888777543
No 104
>KOG1220 consensus Phosphoglucomutase/phosphomannomutase [Carbohydrate transport and metabolism]
Probab=44.67 E-value=49 Score=32.09 Aligned_cols=49 Identities=24% Similarity=0.318 Sum_probs=34.6
Q ss_pred HHHHHHHcCC---CEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 102 LLEIAQREET---DEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 102 L~~li~e~~v---~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+.+++.+.-. -+||||. ||..+. +.|++..+.-|...+.+|++.+|--+
T Consensus 90 ~a~yl~~~~~~~~~giviG~----D~R~~S-----~~fA~l~a~vf~~~g~~v~lf~~~v~ 141 (607)
T KOG1220|consen 90 LAAYLKNQFPSKNLGIVIGH----DGRYNS-----KRFAELVAAVFLLNGFKVYLFSELVP 141 (607)
T ss_pred HHHHHHHhCCcccceEEEec----CCccch-----HHHHHHHHHHHHhCCceEEEeccccC
Confidence 4444444444 3999997 898884 78888887766545899999995433
No 105
>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=44.50 E-value=80 Score=25.00 Aligned_cols=43 Identities=12% Similarity=0.203 Sum_probs=26.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
...+.+++...++|+||+--+ .. .. ...+.+.+. ++||+++|-
T Consensus 49 ~~~~~~~~~~~~~dgiii~~~-~~---~~-------~~~~~~~~~----~ipvV~~~~ 91 (270)
T cd06294 49 LEEVKKMIQQKRVDGFILLYS-RE---DD-------PIIDYLKEE----KFPFVVIGK 91 (270)
T ss_pred HHHHHHHHHHcCcCEEEEecC-cC---Cc-------HHHHHHHhc----CCCEEEECC
Confidence 456777788888999998521 11 11 223444443 788888873
No 106
>PTZ00340 O-sialoglycoprotein endopeptidase-like protein; Provisional
Probab=44.15 E-value=2e+02 Score=25.89 Aligned_cols=84 Identities=14% Similarity=0.139 Sum_probs=51.6
Q ss_pred eEEEEecCCCeEEEEEec--C-CeeEEe---------EEEEcc-----chhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 030836 64 FSLGVDLGLSRTGLALSK--G-FCVRPL---------TVLKLR-----GEKLELQLLEIAQR-----EETDEFIIGLPKS 121 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD--~-~~a~Pl---------~~i~~~-----~~~~~~~L~~li~e-----~~v~~IVVGlPl~ 121 (170)
.|||||-=...+++|+.| + +.+.-. ++++.. ...+..-+.+++++ .++|.|.|..
T Consensus 2 ~iLgIETScd~tsvAl~~~~~~il~~~~~sq~~~~G~GvvP~~a~r~H~~~l~~~i~~~l~~a~~~~~did~Iavt~--- 78 (345)
T PTZ00340 2 LALGIEGSANKLGVGIVTSDGEILSNVRETYITPPGTGFLPRETAQHHREHILSLVKEALEEAKITPSDISLICYTK--- 78 (345)
T ss_pred eEEEEEccchhhEEEEEECCCcEEEEEEeeccccCCCCcCchHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEec---
Confidence 699999999999999987 2 222211 222210 11223345555554 4689999983
Q ss_pred CCCCCC-hhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 122 WDGSET-PQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 122 ~dGt~s-~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
|=-. .--+--..||+.|+..+ ++|++-++
T Consensus 79 --GPGl~~~LrVG~~~Ak~LA~a~---~~PligV~ 108 (345)
T PTZ00340 79 --GPGMGAPLSVGAVVARTLSLLW---GKPLVGVN 108 (345)
T ss_pred --CCCcHhhHHHHHHHHHHHHHHc---CCCEeecc
Confidence 3222 22344458888888764 89998764
No 107
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=43.37 E-value=1.1e+02 Score=27.86 Aligned_cols=52 Identities=21% Similarity=0.146 Sum_probs=32.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhH-HHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~-~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.++|.+++.++++|.|||.-=+-..+.....+ .....|..+|++. ++||+++
T Consensus 28 l~~l~~~i~~~~~D~viIaGDifD~~~p~~~a~~~~~~~l~~L~~~----~~~v~~I 80 (407)
T PRK10966 28 LDWLLEQVQEHQVDAIIVAGDIFDTGSPPSYARELYNRFVVNLQQT----GCQLVVL 80 (407)
T ss_pred HHHHHHHHHhcCCCEEEECCccccCCCCcHHHHHHHHHHHHHHHhc----CCcEEEE
Confidence 56788888899999998873332223333333 2235666667643 6788877
No 108
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=43.31 E-value=1.1e+02 Score=26.45 Aligned_cols=57 Identities=12% Similarity=0.156 Sum_probs=37.6
Q ss_pred HHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEE---EcCcccHHHHHHHHHc
Q 030836 104 EIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL---LDEHRTSAEAVDRMIN 169 (170)
Q Consensus 104 ~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~l---vDER~TT~eA~~~L~e 169 (170)
+.+++.++++||+|. ++.||+... ...++|-+.. .++|++| +|+---..+|-+.|++
T Consensus 80 ~~~~~~GadGvV~G~-L~~dg~vD~------~~~~~Li~~a--~~~~vTFHRAfD~~~d~~~al~~l~~ 139 (248)
T PRK11572 80 ATVRELGFPGLVTGV-LDVDGHVDM------PRMRKIMAAA--GPLAVTFHRAFDMCANPLNALKQLAD 139 (248)
T ss_pred HHHHHcCCCEEEEee-ECCCCCcCH------HHHHHHHHHh--cCCceEEechhhccCCHHHHHHHHHH
Confidence 345678999999995 677888763 3333343333 2688887 4776666677666654
No 109
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=43.25 E-value=1.1e+02 Score=26.60 Aligned_cols=54 Identities=20% Similarity=0.322 Sum_probs=31.9
Q ss_pred EEecCCCeEEEEEecC----Ce--e-----EEeEEEEcc---c-hhHHHHHHHHHHHcCC--CEEEEeecC
Q 030836 67 GVDLGLSRTGLALSKG----FC--V-----RPLTVLKLR---G-EKLELQLLEIAQREET--DEFIIGLPK 120 (170)
Q Consensus 67 gID~G~kRiGVAvsD~----~~--a-----~Pl~~i~~~---~-~~~~~~L~~li~e~~v--~~IVVGlPl 120 (170)
|||+|+..|-++-.+. .. . .|-..+... + ..+.+.|+++++++++ ..+++++|-
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 8999999999996663 11 1 233333211 1 1335789999988876 579999874
No 110
>cd00248 Mth938-like Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a dimer, although it is monomeric in solution, with one disulfide bond in each monomer. 2P1 is a partially characterized nuclear protein which is homologous to E3-3 from rat and known to be alternately spliced. Xcr35 and Rpa2829 are hypothetical proteins of unknown function from the Xanthomonas campestris and Rhodopseudomonas palustris genomes, respectively, for which the crystal structures have been determined.
Probab=42.99 E-value=1.3e+02 Score=22.24 Aligned_cols=54 Identities=22% Similarity=0.332 Sum_probs=31.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.+.|..++....++.|||| -|.... .--.+..+.|+++ ++.|+..| |.+|=+.|
T Consensus 41 ~~~l~~~~~~~~peiliiG-----TG~~~~--~~~~~~~~~l~~~----gI~vE~m~----T~aAcrTy 94 (109)
T cd00248 41 PEALLPLLAEDRPDILLIG-----TGAEIA--FLPRALRAALRAA----GIGVEVMS----TGAACRTY 94 (109)
T ss_pred HHHHHHHHhhCCCCEEEEc-----CCCCCC--cCCHHHHHHHHHc----CCeEEEeC----cHHHHHHH
Confidence 3567776655359999999 354331 1113444555553 78887654 66665544
No 111
>cd03416 CbiX_SirB_N Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both are found in a wide range of bacteria. This subgroup also contains single domain proteins from archaea and bacteria which may represent the ancestral form of class II chelatases before domain duplication occurred.
Probab=42.81 E-value=1.2e+02 Score=21.33 Aligned_cols=49 Identities=27% Similarity=0.465 Sum_probs=25.6
Q ss_pred EEEeecCCCCCCCCh-hHHHHHHHHHHHHHhhccCCccEEEEcC-cccHHHHHHHH
Q 030836 114 FIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLLDE-HRTSAEAVDRM 167 (170)
Q Consensus 114 IVVGlPl~~dGt~s~-~~~~vr~F~~~L~~~~~~~~lpV~lvDE-R~TT~eA~~~L 167 (170)
|+|| .|+..+ ..+.+..+++.|+++.+...+.+.+.+. .-+-.+|-+.+
T Consensus 3 vlv~-----hGS~~~~~~~~~~~l~~~l~~~~~~~~v~~afle~~~p~~~~~l~~l 53 (101)
T cd03416 3 LLVG-----HGSRDPRAAEALEALAERLRERLPGDEVELAFLELAEPSLAEALDEL 53 (101)
T ss_pred EEEE-----cCCCCHHHHHHHHHHHHHHHhhCCCCcEEEEEEEcCCCCHHHHHHHH
Confidence 5566 566664 3335667777776664322334445554 44444444443
No 112
>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=42.58 E-value=1.7e+02 Score=25.05 Aligned_cols=59 Identities=19% Similarity=0.294 Sum_probs=38.0
Q ss_pred ceEEEEecCCCeEEEEEecC----CeeE-----Ee--EEEEcc----chhHHHHHHHHHHHcCC--CEEEEeecCC
Q 030836 63 GFSLGVDLGLSRTGLALSKG----FCVR-----PL--TVLKLR----GEKLELQLLEIAQREET--DEFIIGLPKS 121 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~----~~a~-----Pl--~~i~~~----~~~~~~~L~~li~e~~v--~~IVVGlPl~ 121 (170)
..++|||+|...|=++.... .... |+ ..+... ...+...|++++++.+. ..+++++|-+
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 36999999999999888762 1221 22 222210 11245678888887765 5799998863
No 113
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=42.25 E-value=53 Score=24.84 Aligned_cols=12 Identities=33% Similarity=0.520 Sum_probs=6.7
Q ss_pred CCCEEEEeecCC
Q 030836 110 ETDEFIIGLPKS 121 (170)
Q Consensus 110 ~v~~IVVGlPl~ 121 (170)
..|.||+|-|..
T Consensus 43 ~yD~vi~gspiy 54 (143)
T PF12724_consen 43 DYDAVIFGSPIY 54 (143)
T ss_pred cCCEEEEEEEEE
Confidence 445566665555
No 114
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=42.00 E-value=1.2e+02 Score=26.00 Aligned_cols=39 Identities=5% Similarity=0.029 Sum_probs=29.8
Q ss_pred CCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 125 SETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 125 t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
...+..+.+.++.+.+++. +++++|++.-+++..++.+-
T Consensus 207 ~~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~ia 245 (287)
T cd01137 207 EEEGTPKQVATLIEQVKKE----KVPAVFVESTVNDRLMKQVA 245 (287)
T ss_pred CCCCCHHHHHHHHHHHHHh----CCCEEEEeCCCChHHHHHHH
Confidence 4456778888888888875 78899998888887776543
No 115
>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=41.86 E-value=91 Score=25.10 Aligned_cols=42 Identities=21% Similarity=0.139 Sum_probs=26.9
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+.+.+..+++|+||+- |.+. + ..+.+.+.+. ++||+++|-
T Consensus 45 ~~~~~~l~~~~vdgvi~~-~~~~----~------~~~~~~l~~~----~iPvv~~~~ 86 (269)
T cd06297 45 RYLESTTLAYLTDGLLLA-SYDL----T------ERLAERRLPT----ERPVVLVDA 86 (269)
T ss_pred HHHHHHHHhcCCCEEEEe-cCcc----C------hHHHHHHhhc----CCCEEEEcc
Confidence 445556778899999996 3222 2 1344555543 789998884
No 116
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=41.85 E-value=25 Score=29.13 Aligned_cols=52 Identities=13% Similarity=0.014 Sum_probs=27.6
Q ss_pred HcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHH
Q 030836 108 REETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAE 162 (170)
Q Consensus 108 e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~e 162 (170)
...++.|++|.... +...+..+- ..|.+.|+-.....+++|..++|++||+.
T Consensus 260 ~~~~~~~~~~~~~~-~~~i~~~~~--~~~~~~l~yka~~~~~~v~~~~~~~tS~~ 311 (364)
T COG0675 260 LVGVETLVVEDLVK-RRSISDWAF--GELRRQLEYKAEWGGIVVKVVPPYYTSKT 311 (364)
T ss_pred eEeeeeeehhhhhh-cccHhhhhH--HHHHHHHHHHHHhCCeEEEECCCCCCccc
Confidence 35566677774433 222222111 23344444322222689999999999864
No 117
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=41.31 E-value=54 Score=27.90 Aligned_cols=56 Identities=14% Similarity=0.206 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHc----CCCEEEEeecCC--CCCCC-----ChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 98 LELQLLEIAQRE----ETDEFIIGLPKS--WDGSE-----TPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 98 ~~~~L~~li~e~----~v~~IVVGlPl~--~dGt~-----s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+..+.++++++ .+++|||=++.. +++.. ...++.++.-.+.|...+. ..+||+++
T Consensus 9 ~W~~~L~lL~~~R~r~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg-~~~PVYvv 75 (266)
T PF14331_consen 9 EWQAFLDLLRRHRPRQPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLG-VRLPVYVV 75 (266)
T ss_pred HHHHHHHHHHhcCCCCCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhC-CCCCeEee
Confidence 345566666544 578999999965 34433 3346666666677766663 57899875
No 118
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=41.29 E-value=1.1e+02 Score=20.68 Aligned_cols=59 Identities=14% Similarity=0.199 Sum_probs=39.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
..+..+.+.+..++.+++++-.. +.. ...+++.|++.. .++|++++=...++....+.+
T Consensus 32 ~~~~~~~~~~~~~d~iiid~~~~--~~~------~~~~~~~i~~~~--~~~~ii~~t~~~~~~~~~~~~ 90 (112)
T PF00072_consen 32 GEEALELLKKHPPDLIIIDLELP--DGD------GLELLEQIRQIN--PSIPIIVVTDEDDSDEVQEAL 90 (112)
T ss_dssp HHHHHHHHHHSTESEEEEESSSS--SSB------HHHHHHHHHHHT--TTSEEEEEESSTSHHHHHHHH
T ss_pred HHHHHHHhcccCceEEEEEeeec--ccc------cccccccccccc--ccccEEEecCCCCHHHHHHHH
Confidence 34556667888999999995332 322 257788887765 378988776666666665554
No 119
>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=41.17 E-value=1e+02 Score=25.96 Aligned_cols=52 Identities=15% Similarity=0.132 Sum_probs=38.0
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
..++.+.+++.+++.|++.-|....-+ .+.+.+|.+.+.+.. ++||+++|--
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~----~~~l~~~~~~ia~~~---~~pi~lYn~P 135 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPS----QEGLYAHFKAIAEAT---DLPVILYNVP 135 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCC----HHHHHHHHHHHHhcC---CCCEEEEECh
Confidence 346777888999999999999653222 255667777777753 7999999853
No 120
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=41.13 E-value=83 Score=25.77 Aligned_cols=55 Identities=11% Similarity=0.159 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.+..++.+++.+-..+.+|+-.=.| .+.....+.+..|.+.|++.-| ..||+++.
T Consensus 46 ~le~~~a~~ia~~~a~~~~ld~~~N--~~~~~~~~~~~~fv~~iR~~hP--~tPIllv~ 100 (178)
T PF14606_consen 46 KLEPEVADLIAEIDADLIVLDCGPN--MSPEEFRERLDGFVKTIREAHP--DTPILLVS 100 (178)
T ss_dssp S--HHHHHHHHHS--SEEEEEESHH--CCTTTHHHHHHHHHHHHHTT-S--SS-EEEEE
T ss_pred ccCHHHHHHHhcCCCCEEEEEeecC--CCHHHHHHHHHHHHHHHHHhCC--CCCEEEEe
Confidence 4566889999888999999887555 5667789999999999999876 78999886
No 121
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=41.07 E-value=1.2e+02 Score=20.92 Aligned_cols=51 Identities=20% Similarity=0.222 Sum_probs=35.9
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
....+++...+++.+|+| ..++ ....+|+.. ++.|+..++..|-.+|-+.|
T Consensus 51 ~~~~~~l~~~~v~~vi~~-------~iG~------~a~~~l~~~----gI~v~~~~~~~~v~eal~~~ 101 (102)
T cd00562 51 KLAARLLALEGCDAVLVG-------GIGG------PAAAKLEAA----GIKPIKAAEGGTIEEALEAL 101 (102)
T ss_pred hHHHHHHHHCCCcEEEEc-------ccCc------cHHHHHHHc----CCEEEEcCCCCcHHHHHHhh
Confidence 456777788999999999 2332 334566664 89999888866777776544
No 122
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=40.90 E-value=1.1e+02 Score=25.87 Aligned_cols=39 Identities=3% Similarity=0.051 Sum_probs=31.9
Q ss_pred CCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 125 SETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 125 t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
...+..+.+.++.+.+++. +++++|+++.+++..|+.+.
T Consensus 191 ~~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~l~ 229 (276)
T cd01016 191 DSEAGLRDINELVDLIVER----KIKAIFVESSVNQKSIEALQ 229 (276)
T ss_pred ccCCCHHHHHHHHHHHHHc----CCCEEEEeCCCCHHHHHHHH
Confidence 4445678889999988875 89999999999998887664
No 123
>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=40.86 E-value=1.1e+02 Score=26.22 Aligned_cols=86 Identities=15% Similarity=0.142 Sum_probs=47.7
Q ss_pred EEEecCCCeEEEEEecC--CeeEEeEEEEccc-hhHHHHHHHHHHHcC------CCEEEEeecCCCCCCCChhHH---HH
Q 030836 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREE------TDEFIIGLPKSWDGSETPQSN---KV 133 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~--~~a~Pl~~i~~~~-~~~~~~L~~li~e~~------v~~IVVGlPl~~dGt~s~~~~---~v 133 (170)
|++|+|--+|=+|+.|. .......+..... ..+.+.+.+++++++ +..+.||.|--.+|..-..+. .+
T Consensus 1 l~~DIGGT~i~~glvd~~g~~l~~~~~~~~~~~~~l~~~i~~~l~~~~~~~~~~~~~~~Igi~Gpv~~~~v~~~nl~w~~ 80 (316)
T TIGR00749 1 LVGDIGGTNARLALCEIAPGEISQAKTYSGLDFPSLEAVVRVYLEEHKVELKDPIAKGCFAIACPITGDWVAMTNHTWAF 80 (316)
T ss_pred CeEecCcceeeEEEEecCCCceeeeEEEecCCCCCHHHHHHHHHHhcccccCCCcCeEEEEEeCcccCCEEEecCCCCee
Confidence 68999999999999873 2222223433112 345677888776543 555677776433442111110 11
Q ss_pred HHHHHHHHHhhccCCc-cEEEEcC
Q 030836 134 RSVAGRLAVRAAERGW-RVYLLDE 156 (170)
Q Consensus 134 r~F~~~L~~~~~~~~l-pV~lvDE 156 (170)
.. +.|++++ ++ ||.+.+-
T Consensus 81 -~~-~~l~~~~---g~~~V~l~ND 99 (316)
T TIGR00749 81 -SI-AELKQNL---GFSHLEIIND 99 (316)
T ss_pred -CH-HHHHHhc---CCCeEEEEec
Confidence 33 3666654 77 5887764
No 124
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=40.64 E-value=85 Score=22.56 Aligned_cols=46 Identities=15% Similarity=0.129 Sum_probs=29.2
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHH
Q 030836 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 103 ~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA 163 (170)
..-+++-+|+.|||| -|+. +.++.|++.. . +..| +++|+...-..|
T Consensus 6 ~~~l~~~gv~lv~I~-----~g~~----~~~~~f~~~~--~---~p~~-ly~D~~~~lY~~ 51 (115)
T PF13911_consen 6 KPELEAAGVKLVVIG-----CGSP----EGIEKFCELT--G---FPFP-LYVDPERKLYKA 51 (115)
T ss_pred HHHHHHcCCeEEEEE-----cCCH----HHHHHHHhcc--C---CCCc-EEEeCcHHHHHH
Confidence 445566899999999 3543 1277888652 2 3578 778875544443
No 125
>PRK12359 flavodoxin FldB; Provisional
Probab=40.51 E-value=36 Score=27.39 Aligned_cols=31 Identities=6% Similarity=0.159 Sum_probs=26.6
Q ss_pred EEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 114 FIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 114 IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
-.||||++.+.......++|.+|++.|+..+
T Consensus 138 ~f~gl~lD~~nq~~~t~~ri~~W~~~~~~~~ 168 (172)
T PRK12359 138 LFVGLALDEVNQYDLSDERIQQWCEQILLEM 168 (172)
T ss_pred EEEEEEEcCCCchhhhHHHHHHHHHHHHHHH
Confidence 3799999998888778899999999998654
No 126
>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=40.49 E-value=92 Score=26.87 Aligned_cols=67 Identities=21% Similarity=0.308 Sum_probs=40.7
Q ss_pred eeEEeEEEEccchhHHHHHHHHHHHcC--CCEEEEeecCCCC-CCCChhHHHHHHHHHHHHHhhcc--CCccEEEE
Q 030836 84 CVRPLTVLKLRGEKLELQLLEIAQREE--TDEFIIGLPKSWD-GSETPQSNKVRSVAGRLAVRAAE--RGWRVYLL 154 (170)
Q Consensus 84 ~a~Pl~~i~~~~~~~~~~L~~li~e~~--v~~IVVGlPl~~d-Gt~s~~~~~vr~F~~~L~~~~~~--~~lpV~lv 154 (170)
..+|+.+++ ....+.|.+.++.+. .+.|+||.|+-.. |.. ...+.++.+++.|.+.++. .+-.++|+
T Consensus 76 ~VQplhiip---G~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~-~~~~D~~~va~aL~~~~~~~~~~~a~vlm 147 (262)
T PF06180_consen 76 VVQPLHIIP---GEEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQE-NSPEDYEAVAEALAEEFPKKRKDEAVVLM 147 (262)
T ss_dssp EEEE--SCS---SHHHHHHHHHHHHHCCCSSEEEEE--SCSS------SHHHHHHHHHHHHCCS-TT-TTEEEEEE
T ss_pred EEeecceeC---cHhHHHHHHHHHHhhccCCeEEeccccccccccc-CChHHHHHHHHHHHHhccccCCCCEEEEE
Confidence 457888886 344567777777664 5799999998763 554 6677889999999876641 23456665
No 127
>PRK12564 carbamoyl phosphate synthase small subunit; Reviewed
Probab=40.45 E-value=39 Score=30.41 Aligned_cols=47 Identities=15% Similarity=0.226 Sum_probs=24.5
Q ss_pred CceEEEEecCCCeEEEEEecCCeeEEe--EEEEccchhHHHHHHHHHHHcCCCEEEEe
Q 030836 62 GGFSLGVDLGLSRTGLALSKGFCVRPL--TVLKLRGEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~~a~Pl--~~i~~~~~~~~~~L~~li~e~~v~~IVVG 117 (170)
+.+|+.||+|.|.- +.+-+..... .+++.. ...+++ ..+++|+||+.
T Consensus 177 ~~~I~viD~G~k~n---ivr~L~~~G~~v~vvp~~--~~~~~i----~~~~~DGIvLS 225 (360)
T PRK12564 177 KYKVVAIDFGVKRN---ILRELAERGCRVTVVPAT--TTAEEI----LALNPDGVFLS 225 (360)
T ss_pred CCEEEEEeCCcHHH---HHHHHHHCCCEEEEEeCC--CCHHHH----HhcCCCEEEEe
Confidence 35899999997752 2222211122 233321 122233 23589999996
No 128
>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=40.10 E-value=1.5e+02 Score=26.12 Aligned_cols=49 Identities=12% Similarity=0.091 Sum_probs=29.2
Q ss_pred ceEEEEecCCCeEEEEEecCCeeEEeEEEEccc---hhHHHHHHHHHHHcCC
Q 030836 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRG---EKLELQLLEIAQREET 111 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~---~~~~~~L~~li~e~~v 111 (170)
+..+|||+|+..+=+++-|.........++... ....+-|.++.++.++
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 468999999999999999853222222332111 1223456666666643
No 129
>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=39.99 E-value=65 Score=26.53 Aligned_cols=59 Identities=15% Similarity=0.138 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC---ChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSE---TPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~---s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+.++.++.+++++.|||=..-.+.... ......+..+...|+....+.+++|+++-+
T Consensus 128 i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll~sq 189 (271)
T cd01122 128 VLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSH 189 (271)
T ss_pred HHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEEEec
Confidence 45677777888999999998654433221 222333455555554332224788887754
No 130
>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=39.90 E-value=1.4e+02 Score=23.92 Aligned_cols=59 Identities=12% Similarity=0.140 Sum_probs=37.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCC-CCC-CChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSW-DGS-ETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~-dGt-~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
+...+..++.+++++.|||=.=-.+ .+. .......+..+.+.|+....+++++|+++-+
T Consensus 111 l~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q 171 (242)
T cd00984 111 IRSRARRLKKEHGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQ 171 (242)
T ss_pred HHHHHHHHHHhcCCCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEecc
Confidence 4567788888889999999843222 222 2334455677777776543235889888764
No 131
>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=39.35 E-value=2.3e+02 Score=23.78 Aligned_cols=52 Identities=23% Similarity=0.251 Sum_probs=32.4
Q ss_pred EEEEecCCCeEEEEEecCCeeEEeEEEE---ccc-hhHHHHHHHHHHHcCCCEEEEe
Q 030836 65 SLGVDLGLSRTGLALSKGFCVRPLTVLK---LRG-EKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a~Pl~~i~---~~~-~~~~~~L~~li~e~~v~~IVVG 117 (170)
.|+||+|..++=+|+-+.......-.++ .++ .+....|..++.+ .++.++|.
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 3789999999999998864221111222 111 1233456676655 58888888
No 132
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=39.31 E-value=1.6e+02 Score=23.13 Aligned_cols=58 Identities=22% Similarity=0.288 Sum_probs=43.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEE-EcCcccHHHHHH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL-LDEHRTSAEAVD 165 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~l-vDER~TT~eA~~ 165 (170)
.++...|.+.+.+.+-...++| |++. .+..+++.|++.+| ++.|+. .|-.+...+..+
T Consensus 32 ~dl~~~ll~~~~~~~~~v~llG------~~~~----~~~~~~~~l~~~yp--~l~i~g~~~g~~~~~~~~~ 90 (171)
T cd06533 32 SDLMPALLELAAQKGLRVFLLG------AKPE----VLEKAAERLRARYP--GLKIVGYHHGYFGPEEEEE 90 (171)
T ss_pred HHHHHHHHHHHHHcCCeEEEEC------CCHH----HHHHHHHHHHHHCC--CcEEEEecCCCCChhhHHH
Confidence 4567888888888888999999 4443 35677788888886 888776 677777665443
No 133
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=39.11 E-value=1.2e+02 Score=28.45 Aligned_cols=67 Identities=16% Similarity=0.178 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHcCCCEEEEee--cCCCCCC----------------CChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 98 LELQLLEIAQREETDEFIIGL--PKSWDGS----------------ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGl--Pl~~dGt----------------~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
..+.|.+++++++||.+|||= |+- .|- ...+-+--+.|++.|-++ ++||-.-...-.+
T Consensus 51 ~~~~lv~fA~~~~idl~vVGPE~pL~-~GvvD~l~~~Gi~vFGPsk~AA~lE~SK~faK~fm~k---~~IPta~y~~f~~ 126 (428)
T COG0151 51 DHEALVAFAKEKNVDLVVVGPEAPLV-AGVVDALRAAGIPVFGPTKAAAQLEGSKAFAKDFMKK---YGIPTAEYEVFTD 126 (428)
T ss_pred CHHHHHHHHHHcCCCEEEECCcHHHh-hhhHHHHHHCCCceeCcCHHHHHHHhhHHHHHHHHHH---cCCCcccccccCC
Confidence 467899999999999999991 111 121 112344456899998887 4899555544445
Q ss_pred HHHHHHHHH
Q 030836 160 SAEAVDRMI 168 (170)
Q Consensus 160 T~eA~~~L~ 168 (170)
..+|+..+.
T Consensus 127 ~e~a~ayi~ 135 (428)
T COG0151 127 PEEAKAYID 135 (428)
T ss_pred HHHHHHHHH
Confidence 666666554
No 134
>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=39.05 E-value=87 Score=28.02 Aligned_cols=50 Identities=16% Similarity=0.149 Sum_probs=33.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
-.+.|.+++++|++|+||.=.-. | -.+..-......+.|++. |+|+..+|
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~---~-C~~~~~e~~~lk~~l~e~----GIP~L~id 358 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPS---F-CDPALLERPMLAARCKEH----GIPQIAFK 358 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhh---c-CChhhhhHHHHHHHHHHC----CCCEEEEE
Confidence 35679999999999999987422 2 223333334445556443 89988886
No 135
>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=38.71 E-value=92 Score=23.32 Aligned_cols=52 Identities=12% Similarity=0.123 Sum_probs=36.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEE
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL 153 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~l 153 (170)
.+...++++. ++++|.|-++-=... ++..+.+..+..+++.|++++ +++|+.
T Consensus 53 ~~~~~~~~l~-~~~~d~IHlssC~~~-~~~~~~CP~~~~~~~~I~~~~---gi~VV~ 104 (107)
T PF08821_consen 53 KLVRRIKKLK-KNGADVIHLSSCMVK-GNPHGPCPHIDEIKKIIEEKF---GIEVVE 104 (107)
T ss_pred HHHHHHHHHH-HCCCCEEEEcCCEec-CCCCCCCCCHHHHHHHHHHHh---CCCEee
Confidence 4555666666 889999998854443 232336667889999999875 788875
No 136
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=38.25 E-value=78 Score=27.13 Aligned_cols=43 Identities=26% Similarity=0.380 Sum_probs=28.8
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 103 ~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
.+|+++++.|++|.| -++.||+... ..++... ... .++||.|.
T Consensus 87 v~llk~~GAdGfVFG-aLt~dgsid~--~~C~si~----~~~--rplPVTFH 129 (255)
T KOG4013|consen 87 VELLKKAGADGFVFG-ALTSDGSIDR--TSCQSII----ETA--RPLPVTFH 129 (255)
T ss_pred HHHHHHcCCCceEEe-ecCCCCCcCH--HHHHHHH----Hhc--CCCceeee
Confidence 458899999999999 5778888763 2222222 221 37898874
No 137
>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=38.03 E-value=1.2e+02 Score=23.80 Aligned_cols=38 Identities=18% Similarity=0.241 Sum_probs=29.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
...+.+.+.|++.++|.|+||+ |.... +.|+...+.++
T Consensus 88 ~~~~~i~~~I~~~~pdiv~vgl-----G~PkQ-----E~~~~~~~~~l 125 (172)
T PF03808_consen 88 EEEEAIINRINASGPDIVFVGL-----GAPKQ-----ERWIARHRQRL 125 (172)
T ss_pred hhHHHHHHHHHHcCCCEEEEEC-----CCCHH-----HHHHHHHHHHC
Confidence 4567888999999999999996 54432 57888888776
No 138
>PLN03184 chloroplast Hsp70; Provisional
Probab=37.97 E-value=37 Score=32.82 Aligned_cols=20 Identities=25% Similarity=0.459 Sum_probs=17.4
Q ss_pred CceEEEEecCCCeEEEEEec
Q 030836 62 GGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD 81 (170)
++.++|||+|+..+-+|+.+
T Consensus 38 ~~~viGIDlGTt~s~va~~~ 57 (673)
T PLN03184 38 AEKVVGIDLGTTNSAVAAME 57 (673)
T ss_pred CCCEEEEEeCcCcEEEEEEE
Confidence 34699999999999999876
No 139
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=37.93 E-value=1.1e+02 Score=27.34 Aligned_cols=51 Identities=18% Similarity=0.234 Sum_probs=36.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
+.+.+.+.+ +++.|+|..|-|..|+.-+ .+.+++|++.+.. --++.+||.|
T Consensus 136 ~~~~~~~~~-~~~lv~i~nPNNPTG~~~~-~~~l~~l~~~~~~------~~~vVvDEAY 186 (356)
T COG0079 136 DAILAAIRD-KTKLVFLCNPNNPTGTLLP-REELRALLEALPE------GGLVVIDEAY 186 (356)
T ss_pred HHHHHhhhc-CCCEEEEeCCCCCCCCCCC-HHHHHHHHHhCCC------CcEEEEeCch
Confidence 556666655 8999999999999998765 3334555554432 2488899987
No 140
>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=37.88 E-value=2e+02 Score=26.26 Aligned_cols=62 Identities=18% Similarity=0.167 Sum_probs=36.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE-----cCcc-cHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL-----DEHR-TSAEAVDRM 167 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv-----DER~-TT~eA~~~L 167 (170)
.+.|.+++++|++|+||.=.-. |-.. ..-......+.+.++ .|+|+..+ |+|+ +..+.+-|+
T Consensus 339 ~~~l~~l~ke~~aDGVI~~~~~---~C~~-~~~e~~~~~~~l~e~---~GIP~L~iE~D~~d~r~~d~gQ~~TRi 406 (413)
T TIGR02260 339 VDLLEKYINEYEADGLLINSIK---SCNS-FSAGQLLMMREIEKR---TGKPAAFIETDLVDPRYFSAANVKNRL 406 (413)
T ss_pred HHHHHHHHHHhCCCEEEEeccC---CCCc-chhhhHHHHHHHHHH---cCCCEEEEEcCCCCcccCCHHHHHHHH
Confidence 5679999999999999986432 3221 111123344455543 28997765 4555 445555444
No 141
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=37.87 E-value=1.1e+02 Score=24.21 Aligned_cols=50 Identities=10% Similarity=0.089 Sum_probs=30.6
Q ss_pred HHHHHHHHHHcCCCEEEEeecCC-CCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKS-WDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~-~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
...+.+++++|+||.|||=-=.. -.+.-|+.+-+++.-++.+. +++|.++
T Consensus 50 q~~f~kl~~dy~Vd~VvIk~R~~KGKfAGga~~FKmEaaIQL~~------~~~V~lv 100 (138)
T PF11215_consen 50 QFTFAKLMEDYKVDKVVIKERATKGKFAGGAVGFKMEAAIQLID------DVEVELV 100 (138)
T ss_pred HHHHHHHHHHcCCCEEEEEecccCCCccCCchhHHHHHHHHhcC------CCcEEEE
Confidence 35799999999999999963211 12334455555555554442 4556554
No 142
>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=37.69 E-value=1.2e+02 Score=24.29 Aligned_cols=44 Identities=14% Similarity=0.138 Sum_probs=26.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+.+.+..+++|+|||. |.+.+. +....+++.++ ++||+++|-
T Consensus 50 ~~~~~~l~~~~vDgiii~-~~~~~~--------~~~~i~~~~~~----gIpvV~~d~ 93 (274)
T cd06311 50 NAQQDLLINRKIDALVIL-PFESAP--------LTQPVAKAKKA----GIFVVVVDR 93 (274)
T ss_pred HHHHHHHHHcCCCEEEEe-CCCchh--------hHHHHHHHHHC----CCeEEEEcC
Confidence 455665566799999996 432111 12223444443 899999874
No 143
>PRK13410 molecular chaperone DnaK; Provisional
Probab=37.55 E-value=32 Score=33.36 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=17.3
Q ss_pred ceEEEEecCCCeEEEEEec
Q 030836 63 GFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD 81 (170)
+.++|||+|+..+-||+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (668)
T PRK13410 2 GRIVGIDLGTTNSVVAVME 20 (668)
T ss_pred CcEEEEEeCCCcEEEEEEE
Confidence 5799999999999999986
No 144
>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=37.17 E-value=79 Score=26.73 Aligned_cols=57 Identities=18% Similarity=0.135 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 98 LELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 98 ~~~~L~~li~e~-----~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
..+.|.+.++++ ++..|++-.|-++.|..=+ .+..+++++..++. ++ ++++||.|..
T Consensus 131 d~~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~-~~~l~~l~~~~~~~----~~-~ii~De~y~~ 192 (363)
T PF00155_consen 131 DPEALEEALDELPSKGPRPKAVLICNPNNPTGSVLS-LEELRELAELAREY----NI-IIIVDEAYSD 192 (363)
T ss_dssp THHHHHHHHHTSHTTTETEEEEEEESSBTTTTBB---HHHHHHHHHHHHHT----TS-EEEEEETTTT
T ss_pred cccccccccccccccccccceeeecccccccccccc-cccccchhhhhccc----cc-ceeeeeceec
Confidence 357788887775 5678999999999997433 34456676666553 44 4558887753
No 145
>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=37.16 E-value=1.8e+02 Score=21.80 Aligned_cols=10 Identities=0% Similarity=0.013 Sum_probs=4.8
Q ss_pred CCCEEEEeec
Q 030836 110 ETDEFIIGLP 119 (170)
Q Consensus 110 ~v~~IVVGlP 119 (170)
++..|+++.|
T Consensus 87 ~~~vi~~~~~ 96 (169)
T cd01828 87 NIKIVVQSIL 96 (169)
T ss_pred CCeEEEEecC
Confidence 4444455544
No 146
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=37.15 E-value=1.8e+02 Score=22.33 Aligned_cols=51 Identities=24% Similarity=0.382 Sum_probs=37.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
-.+.+++.+++++.+|++ ..++.+. +.|+.. ++.|+..++ .|..+|-..+.
T Consensus 55 ~~~a~~l~~~gvdvvi~~-------~iG~~a~------~~l~~~----GIkv~~~~~-~~V~e~i~~~~ 105 (121)
T COG1433 55 IRIAELLVDEGVDVVIAS-------NIGPNAY------NALKAA----GIKVYVAPG-GTVEEAIKAFL 105 (121)
T ss_pred HHHHHHHHHcCCCEEEEC-------ccCHHHH------HHHHHc----CcEEEecCC-CCHHHHHHHHh
Confidence 368899999999999999 3444222 355554 899999888 67777766554
No 147
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=37.06 E-value=35 Score=32.76 Aligned_cols=21 Identities=29% Similarity=0.513 Sum_probs=17.9
Q ss_pred CCceEEEEecCCCeEEEEEec
Q 030836 61 RGGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 61 ~~g~iLgID~G~kRiGVAvsD 81 (170)
..+.++|||+|+..+=||+.+
T Consensus 2 ~~~~~iGIDlGTt~s~va~~~ 22 (653)
T PTZ00009 2 TKGPAIGIDLGTTYSCVGVWK 22 (653)
T ss_pred CcccEEEEEeCcccEEEEEEe
Confidence 346799999999999999876
No 148
>PRK03317 histidinol-phosphate aminotransferase; Provisional
Probab=36.94 E-value=1.3e+02 Score=25.96 Aligned_cols=52 Identities=15% Similarity=0.179 Sum_probs=35.6
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.+.+.+.+++.|++-.|-|+.|..-+.. .++++ .+.. ++ ++.+||.|+
T Consensus 149 ~~~l~~~~~~~~~~~i~l~~p~NPtG~~~~~~-~l~~l----~~~~---~~-~lI~DE~y~ 200 (368)
T PRK03317 149 VDAAVAAIAEHRPDVVFLTSPNNPTGTALPLD-DVEAI----LDAA---PG-IVVVDEAYA 200 (368)
T ss_pred HHHHHHHHhccCCCEEEEeCCCCCCCCCCCHH-HHHHH----HHHC---Cc-eEEEeCCch
Confidence 46777777777888999999999989766522 22333 3332 33 778899876
No 149
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=36.90 E-value=2.5e+02 Score=23.36 Aligned_cols=84 Identities=17% Similarity=0.191 Sum_probs=43.6
Q ss_pred EEecCCCeEEEEEecCC-ee-----EEeEEEEcc---c----hhHHHHHHHHHHH---cCCCEEEEeecCCCCCCCChhH
Q 030836 67 GVDLGLSRTGLALSKGF-CV-----RPLTVLKLR---G----EKLELQLLEIAQR---EETDEFIIGLPKSWDGSETPQS 130 (170)
Q Consensus 67 gID~G~kRiGVAvsD~~-~a-----~Pl~~i~~~---~----~~~~~~L~~li~e---~~v~~IVVGlPl~~dGt~s~~~ 130 (170)
|||+|+..|=+.+.+.. .+ .|-..+... + ...+.++.+.++. ..+..+|++.|-+.+...-
T Consensus 1 g~dig~~~ik~v~~~~~~~~~~~~~~~~~~~~~g~I~d~~~~~~~l~~l~~~a~~~~g~~~~~vvisVP~~~~~~~r--- 77 (239)
T TIGR02529 1 GVDLGTANIVIVVLDEDGQPVAGVMQFADVVRDGIVVDFLGAVEIVRRLKDTLEQKLGIELTHAATAIPPGTIEGDP--- 77 (239)
T ss_pred CCCcccceEEEEEEecCCCEEEEEecccccccCCeEEEhHHHHHHHHHHHHHHHHHhCCCcCcEEEEECCCCCcccH---
Confidence 68999999988776632 11 122222110 1 1223444443322 4578999999987654322
Q ss_pred HHHHHHHHHHHHhhccCCccE-EEEcCcccH
Q 030836 131 NKVRSVAGRLAVRAAERGWRV-YLLDEHRTS 160 (170)
Q Consensus 131 ~~vr~F~~~L~~~~~~~~lpV-~lvDER~TT 160 (170)
+...+.++.. ++.+ .++.|.+..
T Consensus 78 ---~a~~~a~~~a----Gl~~~~li~ep~Aa 101 (239)
T TIGR02529 78 ---KVIVNVIESA----GIEVLHVLDEPTAA 101 (239)
T ss_pred ---HHHHHHHHHc----CCceEEEeehHHHH
Confidence 2333333332 6654 455565443
No 150
>PRK07179 hypothetical protein; Provisional
Probab=36.86 E-value=1.2e+02 Score=26.53 Aligned_cols=53 Identities=17% Similarity=0.150 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
..+.|.+.+++.....|+|--|.++.|..-+. ++.++..++ +++ ++.+||.++
T Consensus 169 d~~~l~~~l~~~~~~lV~v~~v~n~tG~i~pl----~~I~~l~~~----~~~-~livDea~~ 221 (407)
T PRK07179 169 DVDHLRRQIERHGPGIIVVDSVYSTTGTIAPL----ADIVDIAEE----FGC-VLVVDESHS 221 (407)
T ss_pred CHHHHHHHHHhcCCeEEEECCCCCCCCccccH----HHHHHHHHH----cCC-EEEEECccc
Confidence 34667777776667778887788888988773 233333332 243 678899876
No 151
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=36.85 E-value=1.6e+02 Score=25.09 Aligned_cols=39 Identities=8% Similarity=0.083 Sum_probs=30.6
Q ss_pred CChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 126 ~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
..+..+.+.++++.+++. +++++|.+...+...|+.+-.
T Consensus 210 ~eps~~~l~~l~~~ik~~----~v~~If~e~~~~~~~~~~ia~ 248 (286)
T cd01019 210 IDPGAKRLAKIRKEIKEK----GATCVFAEPQFHPKIAETLAE 248 (286)
T ss_pred CCCCHHHHHHHHHHHHHc----CCcEEEecCCCChHHHHHHHH
Confidence 456678888888888775 899999998888888876543
No 152
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=36.25 E-value=41 Score=32.56 Aligned_cols=20 Identities=40% Similarity=0.596 Sum_probs=17.9
Q ss_pred ceEEEEecCCCeEEEEEecC
Q 030836 63 GFSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~ 82 (170)
+.++|||+|+..+-+|+.+.
T Consensus 27 ~~viGIDLGTTnS~vA~~~~ 46 (657)
T PTZ00186 27 GDVIGVDLGTTYSCVATMDG 46 (657)
T ss_pred ceEEEEEeCcCeEEEEEEeC
Confidence 57999999999999999874
No 153
>PHA02546 47 endonuclease subunit; Provisional
Probab=36.14 E-value=1.2e+02 Score=26.57 Aligned_cols=55 Identities=13% Similarity=0.045 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHH-HHHhhccCCccEEEE
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR-LAVRAAERGWRVYLL 154 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~-L~~~~~~~~lpV~lv 154 (170)
.++++.+++.++++|.||++-=+- |.. .+.......|+.. +..++...++||+++
T Consensus 27 ~l~~ii~~a~~~~vD~VliaGDlf-D~~-~~~~~~~~~~~~~~l~~~L~~~gi~v~~I 82 (340)
T PHA02546 27 FIKQAIEYSKAHGITTWIQLGDTF-DVR-KAITQNTMNFVREKIFDLLKEAGITLHVL 82 (340)
T ss_pred HHHHHHHHHHHcCCCEEEECCccc-CCC-CCCCHHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 457788888999999999873221 111 1112222334332 222221137899988
No 154
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=36.03 E-value=33 Score=33.08 Aligned_cols=54 Identities=20% Similarity=0.293 Sum_probs=33.0
Q ss_pred CCccccccCCCCCcceeeccccccc--cccccccchhhhccccccccccCCCCCceEEEEecCCCeEEEEEecC
Q 030836 11 NSPLLIFPKFNDNRKFHLNRTRNFG--QRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~iLgID~G~kRiGVAvsD~ 82 (170)
|..+.+-.-.+|++-+-|+|+..+- .-+++ +. ..+.++|||+|+..+-+|+.++
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~~-------~~~~viGIDlGTt~s~va~~~~ 60 (663)
T PTZ00400 5 NKKLIVKSLLTPSIALVLSSAMRSLCTSAIRF-----------AK-------ATGDIVGIDLGTTNSCVAIMEG 60 (663)
T ss_pred chhhhhhhhhccchhhhhHHHHHHHHHHhhhh-----------hh-------hcCcEEEEEECcccEEEEEEeC
Confidence 3333333445777777777763321 12222 21 1246999999999999998863
No 155
>PRK11678 putative chaperone; Provisional
Probab=35.94 E-value=42 Score=30.93 Aligned_cols=18 Identities=22% Similarity=0.499 Sum_probs=16.2
Q ss_pred eEEEEecCCCeEEEEEec
Q 030836 64 FSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD 81 (170)
+++|||+|+..+=||+.+
T Consensus 1 ~~iGID~GTtNs~va~~~ 18 (450)
T PRK11678 1 MFIGFDYGTANCSVAVMR 18 (450)
T ss_pred CeEEEecCccceeeEEee
Confidence 378999999999999986
No 156
>PRK13328 pantothenate kinase; Reviewed
Probab=35.91 E-value=2.7e+02 Score=23.60 Aligned_cols=52 Identities=13% Similarity=-0.089 Sum_probs=30.2
Q ss_pred eEEEEecCCCeEEEEEecCC-eeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEe
Q 030836 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~-~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVG 117 (170)
++|-||.|..|+=+|+.|+. .......... ........++...+.++.+++-
T Consensus 2 M~LliDiGNTriKwa~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~vs 54 (255)
T PRK13328 2 MILLIDAGNSRIKWAWADAGRPWVHSGAFAH--GLDAALAPDWSALPAPRGAWIS 54 (255)
T ss_pred cEEEEEeCccceeEEEEcCCCceeecchhcc--cchHHHHHHHHhCCCCCeEEEE
Confidence 58999999999999999842 2111111110 1111122245555678888776
No 157
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=35.89 E-value=1.1e+02 Score=31.06 Aligned_cols=55 Identities=22% Similarity=0.299 Sum_probs=36.8
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHH-HHHHHHHHHHhhccCCccEEEEcC
Q 030836 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK-VRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 95 ~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~-vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+....|.++++++++..||||-|.. +..... -..|+.+|....+ ++.|+.+..
T Consensus 319 ~~dv~~~i~~ya~~~~~TkiViG~~~~-----~rw~~~~~~~l~~~L~~~~~--~idv~ii~~ 374 (890)
T COG2205 319 GGDVAKAIARYAREHNATKIVIGRSRR-----SRWRRLFKGSLADRLAREAP--GIDVHIVAL 374 (890)
T ss_pred CCcHHHHHHHHHHHcCCeeEEeCCCcc-----hHHHHHhcccHHHHHHhcCC--CceEEEeeC
Confidence 345567899999999999999995433 211111 1567777776654 677776643
No 158
>PRK13331 pantothenate kinase; Reviewed
Probab=35.88 E-value=1.7e+02 Score=25.12 Aligned_cols=21 Identities=24% Similarity=0.112 Sum_probs=19.0
Q ss_pred ceEEEEecCCCeEEEEEecCC
Q 030836 63 GFSLGVDLGLSRTGLALSKGF 83 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~ 83 (170)
.++|+||+|..++=+++-|..
T Consensus 7 ~~~L~iDiGNT~~~~g~f~~~ 27 (251)
T PRK13331 7 NEWLALMIGNSRLHWGYFSGE 27 (251)
T ss_pred CcEEEEEeCCCcEEEEEEECC
Confidence 579999999999999999964
No 159
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=35.76 E-value=1.2e+02 Score=30.09 Aligned_cols=68 Identities=13% Similarity=0.148 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEe--ecCCCCC----------------CCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 97 KLELQLLEIAQREETDEFIIG--LPKSWDG----------------SETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVG--lPl~~dG----------------t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
..+++|.+++++++|..+||| +|+. +| ....|-+.-++|++.+-.+ +++|-.-|+---
T Consensus 55 ~d~~ala~f~~e~~I~lVvvGPE~PL~-~Gl~~~l~~~gi~~FGPs~~aAqlE~sK~fsK~fm~r---~~IPTA~y~~ft 130 (788)
T KOG0237|consen 55 ADFEALASFCKEHNINLVVVGPELPLV-AGLADVLRSAGIPCFGPSKQAAQLEASKNFSKDFMHR---HNIPTAKYKTFT 130 (788)
T ss_pred hhHHHHHHHHHHcceeEEEECCchhhh-hhhhhhhhccCcceeCchHHHHHhhhhHHHHHHHHHh---cCCCcceeeeeC
Confidence 457899999999999999999 2332 22 2233555667899888887 589977665444
Q ss_pred cHHHHHHHHH
Q 030836 159 TSAEAVDRMI 168 (170)
Q Consensus 159 TT~eA~~~L~ 168 (170)
-..+|...+.
T Consensus 131 ~~e~a~sfi~ 140 (788)
T KOG0237|consen 131 DPEEAKSFIQ 140 (788)
T ss_pred CHHHHHHHHH
Confidence 4577776654
No 160
>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=35.71 E-value=1.2e+02 Score=25.79 Aligned_cols=50 Identities=16% Similarity=0.178 Sum_probs=37.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
-++.+.+++.++|.+++.-|..... + .+.+.+|-+.+.+.. ++||+++|-
T Consensus 83 i~~a~~a~~~Gad~v~v~pP~y~~~--~--~~~i~~~~~~i~~~~---~~pi~lYn~ 132 (285)
T TIGR00674 83 ISLTKFAEDVGADGFLVVTPYYNKP--T--QEGLYQHFKAIAEEV---DLPIILYNV 132 (285)
T ss_pred HHHHHHHHHcCCCEEEEcCCcCCCC--C--HHHHHHHHHHHHhcC---CCCEEEEEC
Confidence 4677788899999999999986432 2 355666767777664 789999884
No 161
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=35.67 E-value=1.7e+02 Score=26.17 Aligned_cols=61 Identities=15% Similarity=0.157 Sum_probs=42.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCC---CCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHH
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWD---GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~d---Gt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA 163 (170)
+..++|.++++...+. |==+|+|.- +-..+..+.+++|.+.|++. ++++..-.++..-..|
T Consensus 271 e~a~~La~~l~~l~~~--VnLIPynp~~~~~~~~ps~e~i~~f~~~L~~~----Gi~vtvR~~~G~di~a 334 (345)
T PRK14457 271 EHAEELANLLRGFQSH--VNLIPYNPIDEVEFQRPSPKRIQAFQRVLEQR----GVAVSVRASRGLDANA 334 (345)
T ss_pred HHHHHHHHHHhcCCCe--EEEecCCCCCCCCCCCCCHHHHHHHHHHHHHC----CCeEEEeCCCCCchhh
Confidence 3456788888776542 222566543 33556778899999988764 8999988888876655
No 162
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=35.53 E-value=1.4e+02 Score=23.81 Aligned_cols=42 Identities=14% Similarity=0.198 Sum_probs=23.8
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
+.+.+.++++++||++ |.. +.. +....+.+.+. ++||+++|-
T Consensus 49 ~i~~l~~~~vdgiIi~-~~~-----~~~---~~~~~~~~~~~----~iPvV~~~~ 90 (275)
T cd06320 49 IAENMINKGYKGLLFS-PIS-----DVN---LVPAVERAKKK----GIPVVNVND 90 (275)
T ss_pred HHHHHHHhCCCEEEEC-CCC-----hHH---hHHHHHHHHHC----CCeEEEECC
Confidence 3333455699999986 321 111 12234455443 789999874
No 163
>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=35.41 E-value=1.8e+02 Score=22.08 Aligned_cols=70 Identities=14% Similarity=0.097 Sum_probs=36.4
Q ss_pred HHHHHHHHHHcCCCEEEEeec---CCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH-------HHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLP---KSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS-------AEAVDRMI 168 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlP---l~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT-------~eA~~~L~ 168 (170)
..+..++++..++..++++.+ ...........+.+.+..+.|.+...++++.+.+-...... .++.+.+.
T Consensus 73 ~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~~~~~~~~~~~~~~~l~ 152 (213)
T PF01261_consen 73 LKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIAEEYGVRIALENHPGPFSETPFSVEEIYRLLE 152 (213)
T ss_dssp HHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSSSSSEESSHHHHHHHHH
T ss_pred HHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhhhhhcceEEEecccCccccchhhHHHHHHHHh
Confidence 456777778899999999976 22222222222323333333333322247777665544333 55555543
No 164
>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=35.40 E-value=1.3e+02 Score=26.95 Aligned_cols=57 Identities=16% Similarity=0.161 Sum_probs=35.0
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCC--ChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~--s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
...++++..+++++.|||-+=-.+.+.. ......+..+.+.|+....++++||+.+=
T Consensus 294 ~~~i~~~~~~~~~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi~ls 352 (434)
T TIGR00665 294 RAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALS 352 (434)
T ss_pred HHHHHHHHHhcCCCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEe
Confidence 3566777788899999998653443221 22344566666666543223589988764
No 165
>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=35.10 E-value=1.5e+02 Score=22.35 Aligned_cols=53 Identities=13% Similarity=0.117 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
-+.++.+.++.-+++.|||=- .+..++...++...+-+. .++.|+.++|-+.|
T Consensus 50 ~l~~ll~~i~~g~~d~lvV~~-------ldRl~R~~~d~~~~~l~~---~gv~l~~~~~~~d~ 102 (134)
T cd03769 50 GLLKLLEDVLAGKVERVVITY-------KDRLARFGFELLEELFKA---YGVEIVVINQEENE 102 (134)
T ss_pred HHHHHHHHHHcCCCCEEEEEe-------ccHHHHhhHHHHHHHHHH---CCCEEEEEeCCCCC
Confidence 345666667777788888752 222333333443333222 37888888887643
No 166
>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=34.95 E-value=1.4e+02 Score=24.96 Aligned_cols=53 Identities=17% Similarity=0.255 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecC---CCCCCCChhHH-----------HHHHHHHHHHHhhccCCccEEE
Q 030836 98 LELQLLEIAQREETDEFIIGLPK---SWDGSETPQSN-----------KVRSVAGRLAVRAAERGWRVYL 153 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl---~~dGt~s~~~~-----------~vr~F~~~L~~~~~~~~lpV~l 153 (170)
.+.+..+-+++.++|.|=+|.|. -+||..-+.+- ..-++.+.+++.. ++|+++
T Consensus 15 ~~~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~~---~~pv~l 81 (242)
T cd04724 15 TTLEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKKN---TIPIVL 81 (242)
T ss_pred HHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhcC---CCCEEE
Confidence 34444555566799999999999 56775444322 5556677776542 678665
No 167
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=34.84 E-value=1.2e+02 Score=23.96 Aligned_cols=18 Identities=22% Similarity=0.348 Sum_probs=13.7
Q ss_pred HHHHHHHHHHcCCCEEEE
Q 030836 99 ELQLLEIAQREETDEFII 116 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVV 116 (170)
...+.+.+..+++++||+
T Consensus 45 ~~~~~~~l~~~~vdgiii 62 (270)
T cd01545 45 AERVRALLQRSRVDGVIL 62 (270)
T ss_pred HHHHHHHHHHCCCCEEEE
Confidence 456777777789998877
No 168
>PF03237 Terminase_6: Terminase-like family; InterPro: IPR004921 The terminase is a component of the molecular motor that translocates genomic DNA into empty capsids during DNA packaging []. The large subunit heterodimerises with the small terminase protein, which is docked on the capsid portal protein. The latter forms a ring through which genomic DNA is translocated into the capsid. The terminase protein may have or induce an endonuclease activity to cleave DNA after encapsidation. This entry represents a family of terminase large subunits found in a variety of the Caudovirales and prophage regions of bacterial genomes. Homologues are also found in Gene Transfer Agents (GTA) [], including ORFg2 (RCAP_rcc01683) of the GTA of Rhodobacter capsulatus (Rhodopseudomonas capsulata) [see Fig.1, in ].; PDB: 2O0K_A 3CPE_A 2O0J_A 2O0H_A 3C6H_A 3C6A_A.
Probab=34.75 E-value=1.8e+02 Score=23.99 Aligned_cols=59 Identities=14% Similarity=-0.026 Sum_probs=29.9
Q ss_pred CCCCceEEEEecC----CCeEEEEEe--c-CCeeEEeEEEEcc---chhHHHHHHHHHHHcCCCEEEEe
Q 030836 59 LWRGGFSLGVDLG----LSRTGLALS--K-GFCVRPLTVLKLR---GEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 59 ~~~~g~iLgID~G----~kRiGVAvs--D-~~~a~Pl~~i~~~---~~~~~~~L~~li~e~~v~~IVVG 117 (170)
......++|+|+| ...+++.+. . .....-+...... .....+.+.++...+++..|++=
T Consensus 222 ~~~~~~~~g~D~a~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~d 290 (384)
T PF03237_consen 222 PPDWPIIIGVDPAGGKGGDYTAIVVWEIVDDDGFYVVDDEYERGMSPEEWAERIRELYKKYNPIKIYID 290 (384)
T ss_dssp -TT--EEEEEE--SSCTTB-EEEEEE-E-SSSSEEEEEEEEESSS-TTTHHHHHHHHHHHTTS--EEEE
T ss_pred CCCceEEEEEECCCCCccCCEEEEEEccccccceEEeeehhhcCCCHHHHHHHHHHHHhhcCceEEEEc
Confidence 3445678999999 455555555 2 1222222222211 12446788888889999999886
No 169
>PRK07667 uridine kinase; Provisional
Probab=34.70 E-value=1.5e+02 Score=23.55 Aligned_cols=51 Identities=22% Similarity=0.503 Sum_probs=32.6
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCC-CCChhHHHHHHHHHHHHHhhccCCcc--EEEEcCcc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERGWR--VYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dG-t~s~~~~~vr~F~~~L~~~~~~~~lp--V~lvDER~ 158 (170)
+.|.+.+.+++...+|||+ +| ..+..+-.++.+++.|.+. +++ ++-.|..+
T Consensus 4 ~~~~~~~~~~~~~~~iIgI----~G~~gsGKStla~~L~~~l~~~----~~~~~~i~~Dd~~ 57 (193)
T PRK07667 4 NELINIMKKHKENRFILGI----DGLSRSGKTTFVANLKENMKQE----GIPFHIFHIDDYI 57 (193)
T ss_pred HHHHHHHHhcCCCCEEEEE----ECCCCCCHHHHHHHHHHHHHhC----CCcEEEEEcCccc
Confidence 4566778888888899997 44 3344555566777777643 455 44445433
No 170
>PRK11175 universal stress protein UspE; Provisional
Probab=34.54 E-value=62 Score=26.88 Aligned_cols=50 Identities=12% Similarity=0.155 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..+.|.+.++++++|.||+|-- |..+-.....-.-++++..+. .+||..+
T Consensus 249 ~~~~I~~~a~~~~~DLIVmG~~----~~~~~~~~llGS~a~~v~~~~---~~pVLvv 298 (305)
T PRK11175 249 PEEVIPDLAEHLDAELVILGTV----GRTGLSAAFLGNTAEHVIDHL---NCDLLAI 298 (305)
T ss_pred HHHHHHHHHHHhCCCEEEECCC----ccCCCcceeecchHHHHHhcC---CCCEEEE
Confidence 4456888888999999999942 222111111123345555553 5788877
No 171
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=33.98 E-value=39 Score=32.16 Aligned_cols=18 Identities=28% Similarity=0.529 Sum_probs=16.5
Q ss_pred eEEEEecCCCeEEEEEec
Q 030836 64 FSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD 81 (170)
.++|||+|+..+-+|+.+
T Consensus 3 ~viGIDlGTt~s~va~~~ 20 (627)
T PRK00290 3 KIIGIDLGTTNSCVAVME 20 (627)
T ss_pred cEEEEEeCcccEEEEEEE
Confidence 589999999999999886
No 172
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=33.90 E-value=1.1e+02 Score=28.74 Aligned_cols=52 Identities=15% Similarity=0.182 Sum_probs=38.0
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCh-hHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~-~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+++.+.+.+++++|+++.|+|- .+-.++ +-..+...++++++++ ++||+.++
T Consensus 83 ~~L~~~i~ei~~~~~p~~ifv~-----~TC~t~iIGdDle~va~~~~~~~---gipVV~v~ 135 (457)
T CHL00073 83 EELKRLCLQIKKDRNPSVIVWI-----GTCTTEIIKMDLEGMAPKLEAEI---GIPIVVAR 135 (457)
T ss_pred HHHHHHHHHHHHhCCCCEEEEE-----ccCcHHhhccCHHHHHHHHHHhh---CCCEEEEe
Confidence 4567789999999999998886 232222 3445678888888764 89999876
No 173
>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=33.66 E-value=1.3e+02 Score=23.57 Aligned_cols=48 Identities=17% Similarity=0.205 Sum_probs=25.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhc---cCCccEEEEcCcc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAA---ERGWRVYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~---~~~lpV~lvDER~ 158 (170)
..+.+.+++.+ .++||+ .|..++ ..+.+.|.+... -..+-|++.|||+
T Consensus 10 ~~i~~~~~~~~--~~~i~l----sgGsTp-----~~~y~~L~~~~~~~~w~~v~~f~~DEr~ 60 (169)
T cd00458 10 DKXEKLLEEKD--DMVIGL----GTGSTP-----AYFYKLLGEKLKRGEISDIVGFPTDERY 60 (169)
T ss_pred HHHHHHHHhCC--CEEEEE----CCCccH-----HHHHHHHHhhhhhCCccceEEEECcccc
Confidence 44555555555 345554 255554 344444433211 0246788889985
No 174
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=33.53 E-value=45 Score=31.84 Aligned_cols=19 Identities=26% Similarity=0.546 Sum_probs=17.0
Q ss_pred ceEEEEecCCCeEEEEEec
Q 030836 63 GFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD 81 (170)
..++|||+|+..+-||+.+
T Consensus 19 ~~~iGIDlGTt~s~va~~~ 37 (616)
T PRK05183 19 RLAVGIDLGTTNSLVATVR 37 (616)
T ss_pred CeEEEEEeccccEEEEEEE
Confidence 4699999999999999975
No 175
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=32.81 E-value=1e+02 Score=27.76 Aligned_cols=58 Identities=22% Similarity=0.193 Sum_probs=41.1
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-CcccH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRTS 160 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~TT 160 (170)
+++.+.|.++.++++++.|+|-- .-...-....++.+++.+++++ ++||+.++ +-|..
T Consensus 75 ~kL~~aI~~~~~~~~P~~I~V~t----tC~~~iIGdDi~~v~~~~~~~~---~~pvi~v~t~gf~g 133 (426)
T cd01972 75 KKLEDTIKEAYSRYKPKAIFVAT----SCATGIIGDDVESVVEELEDEI---GIPVVALHCEGFKG 133 (426)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEC----CChHHHhccCHHHHHHHHHHhh---CCCEEEEeCCccCC
Confidence 45678899999999999887761 1122234456788888888774 78999988 55543
No 176
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=32.62 E-value=46 Score=29.94 Aligned_cols=91 Identities=16% Similarity=0.204 Sum_probs=62.1
Q ss_pred EEecCCCeEEEEEecC----------CeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHH
Q 030836 67 GVDLGLSRTGLALSKG----------FCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSV 136 (170)
Q Consensus 67 gID~G~kRiGVAvsD~----------~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F 136 (170)
.+.+..+.||+.+-+- .+++|+..-.....+..+++++.++.-+++.+.==+|..++|... ++| +.
T Consensus 69 ~l~P~~R~iamVFQ~yALyPhmtV~~Niaf~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQr---QRV-Al 144 (338)
T COG3839 69 DLPPEKRGIAMVFQNYALYPHMTVYENIAFGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQR---QRV-AL 144 (338)
T ss_pred CCChhHCCEEEEeCCccccCCCcHHHHhhhhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhH---HHH-HH
Confidence 3667778888877661 145666554322334457888888888888888888998887643 332 55
Q ss_pred HHHHHHhhccCCccEEEEcCcccHHHHHHH
Q 030836 137 AGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (170)
Q Consensus 137 ~~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (170)
++.|-.+ -.|++.||-+|-..|+-+
T Consensus 145 aRAlVr~-----P~v~L~DEPlSnLDa~lR 169 (338)
T COG3839 145 ARALVRK-----PKVFLLDEPLSNLDAKLR 169 (338)
T ss_pred HHHHhcC-----CCEEEecCchhHhhHHHH
Confidence 5555543 369999999999888654
No 177
>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=32.56 E-value=1.1e+02 Score=25.26 Aligned_cols=17 Identities=41% Similarity=0.636 Sum_probs=15.9
Q ss_pred EEEEecCCCeEEEEEec
Q 030836 65 SLGVDLGLSRTGLALSK 81 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD 81 (170)
++|||.|+..+=.++-|
T Consensus 2 ~lGIDiGtts~K~vl~d 18 (248)
T TIGR00241 2 SLGIDSGSTTTKMVLME 18 (248)
T ss_pred EEEEEcChhheEEEEEc
Confidence 78999999999999988
No 178
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=32.42 E-value=88 Score=22.30 Aligned_cols=50 Identities=22% Similarity=0.313 Sum_probs=30.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.+.|.++..++++|.||+|-- |...-..-..-...+++-.. ..+||..+.
T Consensus 102 ~~~i~~~a~~~~adliV~G~~----g~~~l~~~llGsvs~~v~~~---~~~pVlvv~ 151 (154)
T COG0589 102 AEEILELAEEEDADLIVVGSR----GRSGLSRLLLGSVAEKVLRH---APCPVLVVR 151 (154)
T ss_pred HHHHHHHHHHhCCCEEEECCC----CCccccceeeehhHHHHHhc---CCCCEEEEc
Confidence 578888888999999999942 22111111223445555554 368888765
No 179
>COG3703 ChaC Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]
Probab=32.35 E-value=51 Score=27.57 Aligned_cols=21 Identities=38% Similarity=0.525 Sum_probs=18.5
Q ss_pred CCceEEEEecCCCeEEEEEec
Q 030836 61 RGGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 61 ~~g~iLgID~G~kRiGVAvsD 81 (170)
.+|.+||+|.|..-+|||.--
T Consensus 56 ~PGlvl~L~~GGsc~GvafRi 76 (190)
T COG3703 56 QPGLVLGLDRGGSCEGVAYRI 76 (190)
T ss_pred CCceEEEeeCCCcEEEEEEEc
Confidence 358999999999999999764
No 180
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=31.91 E-value=1.4e+02 Score=25.23 Aligned_cols=51 Identities=14% Similarity=0.152 Sum_probs=36.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..++.+.+++.+++.+++.-|....- + .+.+.+|-+.+.+.. ++||+++|-
T Consensus 85 ~i~~a~~a~~~G~d~v~~~pP~~~~~--~--~~~i~~~~~~ia~~~---~~pv~lYn~ 135 (292)
T PRK03170 85 AIELTKFAEKAGADGALVVTPYYNKP--T--QEGLYQHFKAIAEAT---DLPIILYNV 135 (292)
T ss_pred HHHHHHHHHHcCCCEEEECCCcCCCC--C--HHHHHHHHHHHHhcC---CCCEEEEEC
Confidence 34677778889999999999875322 2 255666767777654 789999874
No 181
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=31.52 E-value=1.5e+02 Score=23.21 Aligned_cols=19 Identities=16% Similarity=0.078 Sum_probs=15.0
Q ss_pred HHHHHHHHHHcCCCEEEEe
Q 030836 99 ELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVG 117 (170)
.+.+.+++.++++++||+.
T Consensus 48 ~~~~~~~~~~~~vdgiii~ 66 (268)
T cd06271 48 LEVYRRLVESGLVDGVIIS 66 (268)
T ss_pred HHHHHHHHHcCCCCEEEEe
Confidence 4567777778899999985
No 182
>TIGR01198 pgl 6-phosphogluconolactonase. This enzyme of the pentose phosphate pathway is often found as a part of a multifunctional protein with
Probab=31.51 E-value=1.4e+02 Score=24.80 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=22.8
Q ss_pred EEEEeecCCCCCCCChhHHHHHHHHHHHHH-hhccCCccEEEEcCcc
Q 030836 113 EFIIGLPKSWDGSETPQSNKVRSVAGRLAV-RAAERGWRVYLLDEHR 158 (170)
Q Consensus 113 ~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~-~~~~~~lpV~lvDER~ 158 (170)
.+.+++ .|..++ ..+.+.|.+ .++-..+-|+++|||+
T Consensus 29 ~~~lal----sGGstp-----~~~y~~L~~~~i~w~~v~~f~~DER~ 66 (233)
T TIGR01198 29 QFSLAL----SGGRSP-----IALLEALAAQPLDWSRIHLFLGDERY 66 (233)
T ss_pred cEEEEE----CCCccH-----HHHHHHHhhCCCCcceEEEEEecccc
Confidence 466776 466666 455555553 2221357789999997
No 183
>TIGR03722 arch_KAE1 universal archaeal protein Kae1. This family represents the archaeal protein Kae1. Its partner Bud32 is fused with it in about half of the known archaeal genomes. The pair, which appears universal in the archaea, corresponds to EKC/KEOPS complex in eukaryotes. A recent characterization of the member from Pyrococcus abyssi, as an iron-binding, atypical DNA-binding protein with an apurinic lyase activity, challenges the common annotation of close homologs as O-sialoglycoprotein endopeptidase. The latter annotation is based on a characterized protein from the bacterium Pasteurella haemolytica.
Probab=31.50 E-value=3.3e+02 Score=23.62 Aligned_cols=84 Identities=12% Similarity=0.058 Sum_probs=48.8
Q ss_pred EEEecCCCeEEEEEec-C-C-eeEEeEEEEc-------------cchhHHHHHHHHHHHc-----CCCEEEEeecCCCCC
Q 030836 66 LGVDLGLSRTGLALSK-G-F-CVRPLTVLKL-------------RGEKLELQLLEIAQRE-----ETDEFIIGLPKSWDG 124 (170)
Q Consensus 66 LgID~G~kRiGVAvsD-~-~-~a~Pl~~i~~-------------~~~~~~~~L~~li~e~-----~v~~IVVGlPl~~dG 124 (170)
||||=-..-+++|+.+ . . .+.-..+... ..+.+...+++.+++- ++|.|+|+.-- |
T Consensus 1 Lgiets~~~~s~al~~~~~~i~~~~~~~~~~~~gg~~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~Iavt~gP---g 77 (322)
T TIGR03722 1 LGIEGTAHTFGVGIVDEDGEILANVSDTYVPEKGGIHPREAAEHHAEVAPKLIKEALEEAGVSLEDIDAVAFSQGP---G 77 (322)
T ss_pred CEEeccccceEEEEEECCCeEEEEEEeecccCcCCcChhHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC---c
Confidence 5788877889999887 3 2 2222222110 0112334466666553 67999999521 2
Q ss_pred CCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 125 SETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 125 t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+ .-+.-..+++.|+..+ ++|++.++.
T Consensus 78 ~~~-~l~vg~~~ak~la~~~---~~p~~~v~h 105 (322)
T TIGR03722 78 LGP-CLRVGATAARALALKL---NKPLVGVNH 105 (322)
T ss_pred hHH-hHHHHHHHHHHHHHHh---CCCeechhh
Confidence 222 2234456788888765 899998864
No 184
>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=31.26 E-value=1.5e+02 Score=26.46 Aligned_cols=50 Identities=16% Similarity=0.129 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
-.+.|.+++++|++|+||.=...-=+-. .-......+.|++. |+|+..+|
T Consensus 301 R~~~i~~lv~~~~~DGVI~~~~kfC~~~----~~e~~~lk~~l~e~----GIP~L~iE 350 (377)
T TIGR03190 301 RYDHVLGLAKEYNVQGAIFLQQKFCDPH----EGDYPDLKRHLEAN----GIPTLFLE 350 (377)
T ss_pred HHHHHHHHHHHhCCCEEEEecccCCCcc----hhhhHHHHHHHHHC----CCCEEEEe
Confidence 3567999999999999998754322211 11222333445443 89988876
No 185
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=31.19 E-value=1.8e+02 Score=23.21 Aligned_cols=42 Identities=21% Similarity=0.242 Sum_probs=24.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+.+..+ ..+++|+||+. |.+.+. +....+.+.+. ++||+++|
T Consensus 46 ~~i~~l-~~~~vdgiIi~-~~~~~~--------~~~~i~~~~~~----~iPvV~~~ 87 (273)
T cd06309 46 SAIRSF-IAQGVDVIILA-PVVETG--------WDPVLKEAKAA----GIPVILVD 87 (273)
T ss_pred HHHHHH-HHcCCCEEEEc-CCcccc--------chHHHHHHHHC----CCCEEEEe
Confidence 345554 45689999996 332111 11233445443 78999887
No 186
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=31.19 E-value=92 Score=29.20 Aligned_cols=56 Identities=16% Similarity=0.244 Sum_probs=41.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCC-CCChhHHHHHHHHHHHHHhhccCCccEEEEc-Cccc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRT 159 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dG-t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~T 159 (170)
.++.+.|.+..++++++.|+|. .+ +..-....+..+++.+++.. ++||+.++ +.|.
T Consensus 71 ~kL~~~I~~~~~~~~P~~I~V~-----tTC~~eiIGDDi~~v~~~~~~~~---~~pVi~v~t~~f~ 128 (513)
T CHL00076 71 EKVVDNITRKDKEERPDLIVLT-----PTCTSSILQEDLQNFVDRASIES---DSDVILADVNHYR 128 (513)
T ss_pred HHHHHHHHHHHHhcCCCEEEEC-----CCCchhhhhcCHHHHHHHhhccc---CCCEEEeCCCCCc
Confidence 3456788888899999999998 23 33345667888888887553 78999887 5554
No 187
>PRK13411 molecular chaperone DnaK; Provisional
Probab=31.17 E-value=46 Score=31.99 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=16.8
Q ss_pred ceEEEEecCCCeEEEEEec
Q 030836 63 GFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD 81 (170)
+.++|||+|+..+=+|+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (653)
T PRK13411 2 GKVIGIDLGTTNSCVAVLE 20 (653)
T ss_pred CcEEEEEeCcccEEEEEEE
Confidence 3699999999999999876
No 188
>TIGR01279 DPOR_bchN light-independent protochlorophyllide reductase, N subunit. This enzyme describes the N subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme involved in bacteriochlorophyll biosynthesis. This subunit shows homology to the nitrogenase molybdenum-iron protein NifN.
Probab=31.17 E-value=1.4e+02 Score=26.83 Aligned_cols=56 Identities=13% Similarity=0.116 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-Cccc
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRT 159 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~T 159 (170)
++.+.|.++.++|+++.|+|-- .....-.-..+..++++++++. ++||+.++ +.|.
T Consensus 71 ~L~~aI~~i~~~~~P~~I~V~t----TC~se~IGDDi~~v~~~~~~~~---~~pVi~v~tpgf~ 127 (407)
T TIGR01279 71 ELDRVVEQIKRDRNPSVIFLLS----SCTPEVIKMDLEGLAERLSTNF---GVPVLFAPASGLD 127 (407)
T ss_pred HHHHHHHHHHhhcCCCEEEEEC----CchHHHHHhhHHHHHHHHHHhh---CCCEEEeeCCCcc
Confidence 5677899999999999888871 1223335677888888887763 78999887 5554
No 189
>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=30.99 E-value=2.5e+02 Score=22.04 Aligned_cols=58 Identities=26% Similarity=0.291 Sum_probs=40.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEE-EcCcccHHHHHH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL-LDEHRTSAEAVD 165 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~l-vDER~TT~eA~~ 165 (170)
.++...+.+.+.+.+....++| |++ +.+..+++.|++.+| ++.|+- .+=.++-.+.++
T Consensus 34 ~dl~~~l~~~~~~~~~~ifllG------~~~----~~~~~~~~~l~~~yP--~l~ivg~~~g~f~~~~~~~ 92 (172)
T PF03808_consen 34 SDLFPDLLRRAEQRGKRIFLLG------GSE----EVLEKAAANLRRRYP--GLRIVGYHHGYFDEEEEEA 92 (172)
T ss_pred HHHHHHHHHHHHHcCCeEEEEe------CCH----HHHHHHHHHHHHHCC--CeEEEEecCCCCChhhHHH
Confidence 4567788888888889999999 443 345678889999886 788874 444454334333
No 190
>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=30.86 E-value=3.4e+02 Score=23.17 Aligned_cols=19 Identities=26% Similarity=0.240 Sum_probs=16.9
Q ss_pred eEEEEecCCCeEEEEEecC
Q 030836 64 FSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~ 82 (170)
..+-||+|...+-+.+.+.
T Consensus 189 ~~~lvdiG~~~t~l~i~~~ 207 (348)
T TIGR01175 189 DAALVDIGATSSTLNLLHP 207 (348)
T ss_pred eEEEEEECCCcEEEEEEEC
Confidence 4899999999999998874
No 191
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=30.86 E-value=2.2e+02 Score=20.92 Aligned_cols=27 Identities=22% Similarity=0.484 Sum_probs=17.7
Q ss_pred EEEEeecCCCCCCCChhH-HHHHHHHHHHHHhh
Q 030836 113 EFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRA 144 (170)
Q Consensus 113 ~IVVGlPl~~dGt~s~~~-~~vr~F~~~L~~~~ 144 (170)
.|+|| .|+..+.+ ..+..|++.++++.
T Consensus 4 lvlv~-----hGS~~~~~~~~~~~~~~~l~~~~ 31 (126)
T PRK00923 4 LLLVG-----HGSRLPYNKEVVTKIAEKIKEKH 31 (126)
T ss_pred EEEEe-----CCCCChHHHHHHHHHHHHHHHhC
Confidence 46677 57766544 56677777777654
No 192
>COG1410 MetH Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]
Probab=30.80 E-value=1.2e+02 Score=30.55 Aligned_cols=73 Identities=26% Similarity=0.309 Sum_probs=50.1
Q ss_pred EecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccC
Q 030836 68 VDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAER 147 (170)
Q Consensus 68 ID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~ 147 (170)
=|+|..-+||-++.. .+.++...-.....+|.+..+++++|. ||+ +|-.++........++.++... +
T Consensus 420 HDIGKNiV~vvLs~N----gyeVvdLGv~vp~~~Ile~a~~~~~D~--Igl----SGLit~Sl~~M~~v~~em~r~~--~ 487 (842)
T COG1410 420 HDIGKNIVDVVLSCN----GYEVVDLGVMVPAEKILEAAEEEKADI--IGL----SGLITPSLDEMKEVLEEMNRGG--F 487 (842)
T ss_pred hhhccchhheeeecC----CeEeeeccCcCcHHHHHHHHHHhccce--eee----cccccccHHHHHHHHHHhhhcC--c
Confidence 488888888877752 333333211234567888888888884 564 7888898998899999888732 3
Q ss_pred CccEEE
Q 030836 148 GWRVYL 153 (170)
Q Consensus 148 ~lpV~l 153 (170)
+|+.+
T Consensus 488 -iPvli 492 (842)
T COG1410 488 -IPVLI 492 (842)
T ss_pred -cceee
Confidence 67654
No 193
>TIGR03729 acc_ester putative phosphoesterase. Members of this protein family belong to the larger family pfam00149 (calcineurin-like phosphoesterase), a family largely defined by small motifs of metal-chelating residues. The subfamily in this model shows a good but imperfect co-occurrence in species with domain TIGR03715 that defines a novel class of signal peptide typical of the accessory secretory system.
Probab=30.76 E-value=1.8e+02 Score=23.64 Aligned_cols=47 Identities=15% Similarity=0.202 Sum_probs=30.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
...+.+.+.+.++|.||+. |...........+.+.|.+. .+.||+++
T Consensus 21 l~~~~~~~~~~~~d~vv~~------GDl~~~~~~~~~~~~~l~~~---~~~pv~~v 67 (239)
T TIGR03729 21 LETLAQYLKKQKIDHLHIA------GDISNDFQRSLPFIEKLQEL---KGIKVTFN 67 (239)
T ss_pred HHHHHHHHHhcCCCEEEEC------CccccchhhHHHHHHHHHHh---cCCcEEEE
Confidence 4556666667889998888 54433223445666667653 25788877
No 194
>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=30.66 E-value=2.2e+02 Score=23.39 Aligned_cols=40 Identities=15% Similarity=0.229 Sum_probs=23.4
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 103 ~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.+.+...++|+|||- |.. . .......+++.+. ++||+++|
T Consensus 49 i~~l~~~~vdgiIi~-~~~-----~---~~~~~~l~~~~~~----giPvV~~~ 88 (302)
T TIGR02637 49 VNSLIAQKVDAIAIS-AND-----P---DALVPALKKAMKR----GIKVVTWD 88 (302)
T ss_pred HHHHHHcCCCEEEEe-CCC-----h---HHHHHHHHHHHHC----CCEEEEeC
Confidence 333445799999994 532 1 1122334445443 79999987
No 195
>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=30.65 E-value=1.7e+02 Score=21.18 Aligned_cols=57 Identities=14% Similarity=0.042 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHH
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSA 161 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~ 161 (170)
..+.++.+.+++.+++.|||--+-...- ....+..|.+.|... ++.|+.+++.+.+.
T Consensus 52 ~~~~~ll~~~~~~~~d~ivv~~~~Rl~R----~~~~~~~~~~~l~~~----gi~l~~~~~~~~~~ 108 (137)
T cd00338 52 PGLQRLLADVKAGKIDVVLVEKLDRLSR----NLVDLLELLELLEAH----GVRVVTADGEIDLD 108 (137)
T ss_pred HHHHHHHHHHHcCCCCEEEEEecchhhC----CHHHHHHHHHHHHHC----CCEEEEecCCcccC
Confidence 3456666667778899999996544321 222445666677653 89999999877654
No 196
>PRK11031 guanosine pentaphosphate phosphohydrolase; Provisional
Probab=30.51 E-value=3e+02 Score=25.63 Aligned_cols=84 Identities=11% Similarity=0.154 Sum_probs=52.5
Q ss_pred CceEEEEecCCCeEEEEEecCC--eeEEeE----EEEc-----cch-----------hHHHHHHHHHHHcCCCE-EEEee
Q 030836 62 GGFSLGVDLGLSRTGLALSKGF--CVRPLT----VLKL-----RGE-----------KLELQLLEIAQREETDE-FIIGL 118 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~--~a~Pl~----~i~~-----~~~-----------~~~~~L~~li~e~~v~~-IVVGl 118 (170)
+..+-+||+|+--+=+-|.+.. ....+. ++.. .+. +......+++++|+++. .+||
T Consensus 5 ~~~~A~IDIGSNSirL~I~~~~~~~~~~l~~~k~~vrLg~g~~~~g~Ls~e~i~r~~~~L~~F~~~~~~~~v~~i~~vA- 83 (496)
T PRK11031 5 SSLYAAIDLGSNSFHMLVVREVAGSIQTLARIKRKVRLAAGLDSDNALSNEAMERGWQCLRLFAERLQDIPPSQIRVVA- 83 (496)
T ss_pred CCEEEEEEccccceeEEEEEecCCceEEeecceeEEEccCCcCcCCCcCHHHHHHHHHHHHHHHHHHHhCCCCeEEEEE-
Confidence 3467889999999988888721 111211 1110 011 11356777888999985 4555
Q ss_pred cCCCCCCC-ChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 119 PKSWDGSE-TPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 119 Pl~~dGt~-s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
|. --.++....|.+++++.. |++|...+
T Consensus 84 ------TsAvReA~N~~~fl~~i~~~t---Gl~ievIs 112 (496)
T PRK11031 84 ------TATLRLAVNADEFLAKAQEIL---GCPVQVIS 112 (496)
T ss_pred ------eHHHHcCcCHHHHHHHHHHHH---CCCeEEeC
Confidence 21 123445578999999885 88998887
No 197
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=30.22 E-value=1.9e+02 Score=22.93 Aligned_cols=44 Identities=14% Similarity=0.207 Sum_probs=24.8
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
+.+..+ ..+++|+|||. |.. .. ......+.+.+. ++|++++|-.
T Consensus 47 ~~i~~l-~~~~vdgiii~-~~~-----~~---~~~~~~~~l~~~----~iPvv~~~~~ 90 (272)
T cd06301 47 SQVENF-IAQGVDAIIVV-PVD-----TA---ATAPIVKAANAA----GIPLVYVNRR 90 (272)
T ss_pred HHHHHH-HHcCCCEEEEe-cCc-----hh---hhHHHHHHHHHC----CCeEEEecCC
Confidence 344444 45699999997 221 11 112334445443 7899988743
No 198
>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=30.05 E-value=73 Score=27.08 Aligned_cols=52 Identities=17% Similarity=0.123 Sum_probs=30.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.-.+.+.+++++|++|++|......= ....-....+.+.+++.. ++|+..+|
T Consensus 273 ~r~~~~~~~~~~~~~dgvi~~~~~~C----~~~~~~~~~l~~~~~~~~---gIP~l~le 324 (349)
T PF06050_consen 273 RRIEYIDDLIEKYGADGVIFHGHKGC----DPYSYDQPLLKEALREFL---GIPVLFLE 324 (349)
T ss_dssp CHHHHHHHHHHHTT-SEEEEEEETT-----HHHHCCHHHHHHHHHCCH---T--EEEEE
T ss_pred hHHHHHHHHHHHhCCCEEEEhHhcCC----CcHHHHHHHHHHHHHHhc---CCCeEeec
Confidence 44678999999999999999964321 111222345555555432 89997665
No 199
>PRK09165 replicative DNA helicase; Provisional
Probab=29.77 E-value=1.6e+02 Score=27.46 Aligned_cols=57 Identities=14% Similarity=0.180 Sum_probs=34.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCC----CChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGS----ETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt----~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
...++++..+++++.|||-+--.+... .....+.+..+.+.|+....+.++||+..=
T Consensus 330 ~~~ir~l~~~~~~~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel~ipVi~ls 390 (497)
T PRK09165 330 RARARRLKRQHGLDLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKELNIPVIALS 390 (497)
T ss_pred HHHHHHHHHhcCCCEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEee
Confidence 345666777889999999876444321 112334466666555543323589998764
No 200
>TIGR00083 ribF riboflavin kinase/FMN adenylyltransferase. multifunctional enzyme: riboflavin kinase (EC 2.7.1.26) (flavokinase) / FMN adenylyltransferase (EC 2.7.7.2) (FAD pyrophosphorylase) (FAD synthetase).
Probab=29.59 E-value=88 Score=27.29 Aligned_cols=69 Identities=6% Similarity=-0.042 Sum_probs=38.5
Q ss_pred HHHHHHHHHH-HcCCCEEEEeecCCCC-CCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 98 LELQLLEIAQ-REETDEFIIGLPKSWD-GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 98 ~~~~L~~li~-e~~v~~IVVGlPl~~d-Gt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
..+.+.+++. ..++..||||.=.... +..+. ....+++++...-.+ .-+|....||+.||..-++.+.+
T Consensus 85 ~e~Fi~~~l~~~l~~~~ivvG~Df~FG~~~~G~-~~~L~~~~~~~g~~v--~~~~~~~~~~~ISST~IR~~l~~ 155 (288)
T TIGR00083 85 ALQFIDQLIVKHLHVKFLVVGDDFRFGHDRQGD-FLLLQLFGNTTIFCV--IVKQLFCQDIRISSSAIRQALKN 155 (288)
T ss_pred HHHHHHHHHHhccCCcEEEECCCccCCCCCCCC-HHHHHHhccccCcEE--EEeccccCCCeECHHHHHHHHHc
Confidence 3456777775 4899999999754431 11121 233333333221000 01344455688999998888765
No 201
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=29.54 E-value=2e+02 Score=22.66 Aligned_cols=36 Identities=22% Similarity=0.305 Sum_probs=26.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
...+.+.|++.++|.|+||+ |.... +.|+.+.+.++
T Consensus 88 ~~~i~~~I~~~~pdiv~vgl-----G~PkQ-----E~~~~~~~~~l 123 (171)
T cd06533 88 EEEIIERINASGADILFVGL-----GAPKQ-----ELWIARHKDRL 123 (171)
T ss_pred HHHHHHHHHHcCCCEEEEEC-----CCCHH-----HHHHHHHHHHC
Confidence 34588888999999999996 54432 47778887765
No 202
>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=29.46 E-value=3.4e+02 Score=22.80 Aligned_cols=51 Identities=14% Similarity=0.184 Sum_probs=36.5
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.-++.+.+++.++|+++|.-|.....+ .+.+.+|.+.+.+. .++||+++|.
T Consensus 85 ~i~~a~~a~~~Gad~v~v~~P~~~~~s----~~~l~~y~~~ia~~---~~~pi~iYn~ 135 (289)
T PF00701_consen 85 AIELARHAQDAGADAVLVIPPYYFKPS----QEELIDYFRAIADA---TDLPIIIYNN 135 (289)
T ss_dssp HHHHHHHHHHTT-SEEEEEESTSSSCC----HHHHHHHHHHHHHH---SSSEEEEEEB
T ss_pred HHHHHHHHhhcCceEEEEeccccccch----hhHHHHHHHHHHhh---cCCCEEEEEC
Confidence 346667778899999999999764332 34466677777766 3899999985
No 203
>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=29.45 E-value=1.9e+02 Score=22.21 Aligned_cols=40 Identities=18% Similarity=0.227 Sum_probs=22.1
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~ 143 (170)
.+.+.+++.++..|++|.|...... ..+.+..+.+.+++.
T Consensus 99 ~lv~~~~~~~~~vili~~pp~~~~~---~~~~~~~~~~~~~~~ 138 (200)
T cd01829 99 ELLNVARAKGVPVIWVGLPAMRSPK---LSADMVYLNSLYREE 138 (200)
T ss_pred HHHHHHHhCCCcEEEEcCCCCCChh---HhHHHHHHHHHHHHH
Confidence 3444445678888999987643222 234444555444443
No 204
>cd06316 PBP1_ABC_sugar_binding_like_7 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=29.39 E-value=1.8e+02 Score=23.67 Aligned_cols=43 Identities=14% Similarity=0.164 Sum_probs=25.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
+.+..++ ..++|+||+. |.+.++ .....+.+..+ ++||+++|.
T Consensus 47 ~~l~~~~-~~~~dgiii~-~~~~~~--------~~~~i~~~~~~----~iPvV~~~~ 89 (294)
T cd06316 47 ADIETTI-SQKPDIIISI-PVDPVS--------TAAAYKKVAEA----GIKLVFMDN 89 (294)
T ss_pred HHHHHHH-HhCCCEEEEc-CCCchh--------hhHHHHHHHHc----CCcEEEecC
Confidence 3444544 4689999995 322111 12344555543 789999875
No 205
>CHL00094 dnaK heat shock protein 70
Probab=29.39 E-value=50 Score=31.43 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=17.0
Q ss_pred ceEEEEecCCCeEEEEEec
Q 030836 63 GFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD 81 (170)
+.++|||+|+..+-+|+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (621)
T CHL00094 2 GKVVGIDLGTTNSVVAVME 20 (621)
T ss_pred CceEEEEeCcccEEEEEEE
Confidence 3699999999999999986
No 206
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=29.36 E-value=2.2e+02 Score=22.28 Aligned_cols=41 Identities=20% Similarity=0.324 Sum_probs=23.0
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.+.+ +..+++++||++ |. .++ .+..+.+.+... ++|++++|
T Consensus 47 ~~~~-~~~~~~dgii~~-~~-----~~~---~~~~~l~~l~~~----~ipvv~~~ 87 (268)
T cd06323 47 DIED-LITRGVDAIIIN-PT-----DSD---AVVPAVKAANEA----GIPVFTID 87 (268)
T ss_pred HHHH-HHHcCCCEEEEc-CC-----ChH---HHHHHHHHHHHC----CCcEEEEc
Confidence 3444 445789999997 21 111 123344555442 67887774
No 207
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=29.28 E-value=2.7e+02 Score=22.84 Aligned_cols=17 Identities=6% Similarity=0.264 Sum_probs=7.5
Q ss_pred HHHHHHHHHcCCCEEEE
Q 030836 100 LQLLEIAQREETDEFII 116 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVV 116 (170)
.+|.+.+++.++..|+.
T Consensus 189 ~~l~~~ik~~~v~~i~~ 205 (256)
T PF01297_consen 189 AELIKLIKENKVKCIFT 205 (256)
T ss_dssp HHHHHHHHHTT-SEEEE
T ss_pred HHHHHHhhhcCCcEEEe
Confidence 34444444555544444
No 208
>PF14106 DUF4279: Domain of unknown function (DUF4279)
Probab=29.23 E-value=1.2e+02 Score=21.80 Aligned_cols=43 Identities=14% Similarity=0.118 Sum_probs=32.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCCh---hHHHHHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETP---QSNKVRSVAGRLA 141 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~---~~~~vr~F~~~L~ 141 (170)
.+.|.++.++++.+..++++-...+|...+ ....+.+|...|.
T Consensus 68 ~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~i~~l~~lg 113 (118)
T PF14106_consen 68 REIIKELKEKYNLEIQFFCYFSSISGGGFPAIYLSPEIIKFLAALG 113 (118)
T ss_pred HHHHHHHHHhcCcceEEEEEEEecCCCCCcccccCHHHHHHHHhhC
Confidence 367899999999997777777777776666 7777777776664
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=29.09 E-value=37 Score=26.72 Aligned_cols=21 Identities=29% Similarity=0.332 Sum_probs=17.2
Q ss_pred CCceEEEEecCCCeEEEEEec
Q 030836 61 RGGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 61 ~~g~iLgID~G~kRiGVAvsD 81 (170)
..+.++|||+|.+..-++.++
T Consensus 122 ~~~~~vgVDlGi~~~a~~~~~ 142 (227)
T PF01385_consen 122 DTEKVVGVDLGIKNLATVSSG 142 (227)
T ss_pred ccceeeeeccccceeeccccc
Confidence 457899999999988876655
No 210
>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=28.96 E-value=2.1e+02 Score=24.30 Aligned_cols=54 Identities=11% Similarity=0.061 Sum_probs=38.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
..++.+.+++.+++.+++--|.... .+ .+.+.+|-+.+.+..| ++||+++|--.
T Consensus 85 ai~~a~~a~~~Gad~v~~~~P~y~~--~~--~~~i~~~~~~v~~a~~--~lpi~iYn~P~ 138 (288)
T cd00954 85 SQELAKHAEELGYDAISAITPFYYK--FS--FEEIKDYYREIIAAAA--SLPMIIYHIPA 138 (288)
T ss_pred HHHHHHHHHHcCCCEEEEeCCCCCC--CC--HHHHHHHHHHHHHhcC--CCCEEEEeCcc
Confidence 3467778889999999999997643 22 3445666666666643 68999988643
No 211
>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=28.96 E-value=48 Score=31.16 Aligned_cols=17 Identities=29% Similarity=0.624 Sum_probs=15.7
Q ss_pred EEEEecCCCeEEEEEec
Q 030836 65 SLGVDLGLSRTGLALSK 81 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD 81 (170)
++|||+|+..+-+|+.+
T Consensus 2 viGIDlGtt~s~va~~~ 18 (595)
T TIGR02350 2 IIGIDLGTTNSCVAVME 18 (595)
T ss_pred EEEEEeCcccEEEEEEE
Confidence 79999999999999876
No 212
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=28.90 E-value=2.2e+02 Score=22.35 Aligned_cols=12 Identities=25% Similarity=0.434 Sum_probs=8.6
Q ss_pred HHHcCCCEEEEe
Q 030836 106 AQREETDEFIIG 117 (170)
Q Consensus 106 i~e~~v~~IVVG 117 (170)
+..+++|+||+.
T Consensus 51 l~~~~vdgiii~ 62 (266)
T cd06282 51 LLRQRVDGLILT 62 (266)
T ss_pred HHhcCCCEEEEe
Confidence 344688888885
No 213
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=28.85 E-value=1.6e+02 Score=26.94 Aligned_cols=56 Identities=20% Similarity=0.148 Sum_probs=40.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-Ccc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHR 158 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~ 158 (170)
+++.+.|.+++++|+++.|+|=- .....-....++..++.++++. ++||+.++ +-|
T Consensus 107 ~kL~~~I~e~~~~~~P~~I~V~t----tC~~~lIGdDi~~v~~e~~~~~---~~~vi~v~t~gf 163 (456)
T TIGR01283 107 KKLFHAIREIVERYHPPAVFVYS----TCVPGLIGDDLEAVCKAAAEKT---GIPVIPVDSEGF 163 (456)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEC----CChHHHhcCCHHHHHHHHHHHh---CCCEEEEECCCC
Confidence 45678999999999999887751 1223334456788888888764 78999987 444
No 214
>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=28.81 E-value=1.3e+02 Score=24.55 Aligned_cols=48 Identities=25% Similarity=0.295 Sum_probs=27.8
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh--hccCCccEEEEcCcc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR--AAERGWRVYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~--~~~~~lpV~lvDER~ 158 (170)
..+.+.+++.+ .+++|+ .|..++ +.+.+.|.+. ++-..+-++++|||+
T Consensus 13 ~~i~~~i~~~~--~~~l~l----sGGstp-----~~~y~~L~~~~~i~w~~v~~f~~DEr~ 62 (219)
T cd01400 13 EALAAAIAKRG--RFSLAL----SGGSTP-----KPLYELLAAAPALDWSKVHVFLGDERC 62 (219)
T ss_pred HHHHHHHHhcC--eEEEEE----CCCccH-----HHHHHHhccccCCCCceEEEEEeeccc
Confidence 34444444443 567776 366666 4555555543 221356788999997
No 215
>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=28.81 E-value=1.9e+02 Score=26.48 Aligned_cols=43 Identities=19% Similarity=0.289 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~ 142 (170)
.++++.+++.+++||.||++-=+-.++. +..+.+..+.+.|++
T Consensus 30 ~f~eil~~a~~~~vD~VLiaGDLFd~~~--Ps~~~~~~~~~~lr~ 72 (405)
T TIGR00583 30 TFEEVLQIAKEQDVDMILLGGDLFHENK--PSRKSLYQVLRSLRL 72 (405)
T ss_pred HHHHHHHHHHHcCCCEEEECCccCCCCC--CCHHHHHHHHHHHHH
Confidence 4578888999999999999943333333 345556677777765
No 216
>COG0363 NagB 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]
Probab=28.79 E-value=1.5e+02 Score=25.17 Aligned_cols=38 Identities=21% Similarity=0.263 Sum_probs=24.8
Q ss_pred EEEEeecCCCCCCCChhHHHHHHHHHHHHHh----hccCCccEEEEcCccc
Q 030836 113 EFIIGLPKSWDGSETPQSNKVRSVAGRLAVR----AAERGWRVYLLDEHRT 159 (170)
Q Consensus 113 ~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~----~~~~~lpV~lvDER~T 159 (170)
.+++|+ .|..++ ..|-+.|.+. +.-.++-+++.|||+=
T Consensus 33 ~~~l~L----sgGsTP-----~~~ye~L~~~~~~~~~w~~v~~f~~DEr~v 74 (238)
T COG0363 33 RAVLAL----SGGSTP-----LALYEALVKLPQGQLDWSKVTIFNLDERVV 74 (238)
T ss_pred cEEEEE----CCCCCH-----HHHHHHHHhhhccCCCchheEEEecccccc
Confidence 588887 566676 4555555554 2213577999999974
No 217
>PRK10490 sensor protein KdpD; Provisional
Probab=28.78 E-value=1.2e+02 Score=30.28 Aligned_cols=52 Identities=25% Similarity=0.218 Sum_probs=36.5
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHH-HHHHHHHHhhccCCccEEEEc
Q 030836 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVR-SVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 95 ~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr-~F~~~L~~~~~~~~lpV~lvD 155 (170)
..+..+.|.+++++.+++.||||-+... .. ..+ .++++|.+..+ ++.|+.+.
T Consensus 321 ~~dva~~i~~~A~~~~vt~IViG~s~~~-----~~--~~~~s~~~~l~r~~~--~idi~iv~ 373 (895)
T PRK10490 321 DPAEEKAVLRYAREHNLGKIIIGRRASR-----RW--WRRESFADRLARLGP--DLDLVIVA 373 (895)
T ss_pred CCCHHHHHHHHHHHhCCCEEEECCCCCC-----CC--ccCCCHHHHHHHhCC--CCCEEEEe
Confidence 3456678999999999999999976542 11 112 46677777654 77888774
No 218
>PF04250 DUF429: Protein of unknown function (DUF429); InterPro: IPR007362 This is a family of uncharacterised proteins.
Probab=28.67 E-value=1.8e+02 Score=23.28 Aligned_cols=65 Identities=22% Similarity=0.244 Sum_probs=38.3
Q ss_pred EEecC-CCeEEEEEec-CCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCC-CCCCChhHHHHHHHHHHH
Q 030836 67 GVDLG-LSRTGLALSK-GFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSW-DGSETPQSNKVRSVAGRL 140 (170)
Q Consensus 67 gID~G-~kRiGVAvsD-~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~-dGt~s~~~~~vr~F~~~L 140 (170)
|||.+ .+..|||+.+ .....-...+. ..++|.+++.... ..|-|=.|+.+ +++.. +.+...+.++
T Consensus 1 GID~~~~~~~~vav~~~~~~~~~~~~~~-----~~~~i~~~~~~~~-~~v~IDaPlgl~~~~~~---R~~D~~~r~~ 68 (209)
T PF04250_consen 1 GIDLAWSRGTWVAVIDEGGGILRLSVFS-----SDEEILDWIESAP-AVVGIDAPLGLPNESGR---RRCDRAARRR 68 (209)
T ss_pred CcccCccCCcEEEEEEcCCceEEEeecC-----CHHHHHHHhhccC-cEEEEEcCcccCCCCCC---chhhHHHHHh
Confidence 57776 4678888884 33222222221 3456777777767 88889999988 34332 3444444444
No 219
>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=28.50 E-value=2.4e+02 Score=24.09 Aligned_cols=53 Identities=11% Similarity=0.058 Sum_probs=36.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
..++.+..++.++|+|+|.-|.....+ .+.+.+|-+.+.+.. .++||+++|--
T Consensus 85 ~i~la~~a~~~Gad~v~v~~P~y~~~~----~~~i~~yf~~v~~~~--~~lpv~lYn~P 137 (290)
T TIGR00683 85 AVELGKYATELGYDCLSAVTPFYYKFS----FPEIKHYYDTIIAET--GGLNMIVYSIP 137 (290)
T ss_pred HHHHHHHHHHhCCCEEEEeCCcCCCCC----HHHHHHHHHHHHhhC--CCCCEEEEeCc
Confidence 346777888999999999888754333 245566666665543 26899988864
No 220
>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=28.49 E-value=2.5e+02 Score=24.35 Aligned_cols=63 Identities=11% Similarity=0.085 Sum_probs=36.4
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChh----HHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQ----SNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~----~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
.+++.+.+.+.++++|+++ |+.++. .+.-+++.+...+... -.+||+.-==..+|.+|.++.+
T Consensus 31 l~~lv~~li~~Gv~Gi~v~------GstGE~~~Lt~eEr~~v~~~~~~~~~-grvpvi~Gv~~~~t~~ai~~a~ 97 (309)
T cd00952 31 TARLVERLIAAGVDGILTM------GTFGECATLTWEEKQAFVATVVETVA-GRVPVFVGATTLNTRDTIARTR 97 (309)
T ss_pred HHHHHHHHHHcCCCEEEEC------cccccchhCCHHHHHHHHHHHHHHhC-CCCCEEEEeccCCHHHHHHHHH
Confidence 4556666667899999986 555441 1112233333333332 1478876666677888876654
No 221
>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=28.44 E-value=1.9e+02 Score=25.54 Aligned_cols=53 Identities=15% Similarity=0.139 Sum_probs=37.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+++.+.|.++.++|+++.|+|=- .....-....++..++.++++. ++||+.++
T Consensus 73 ~~L~~~i~~~~~~~~P~~i~v~~----tC~~~~iGdDi~~v~~~~~~~~---~~~vi~v~ 125 (406)
T cd01967 73 KKLKKAIKEAYERFPPKAIFVYS----TCPTGLIGDDIEAVAKEASKEL---GIPVIPVN 125 (406)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEC----CCchhhhccCHHHHHHHHHHhh---CCCEEEEe
Confidence 45678899999999999766641 1122234455778888888764 78999887
No 222
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=28.29 E-value=2.3e+02 Score=23.69 Aligned_cols=50 Identities=10% Similarity=0.063 Sum_probs=30.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCCh-hHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~-~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
...+++.+.+++.++|.||+-- |=+... ..+.+..|.+.|... ++|++.+
T Consensus 18 ~~le~l~~~~~~~~~D~vv~~G----Dl~~~g~~~~~~~~~l~~l~~l----~~pv~~V 68 (224)
T cd07388 18 EALEKLVGLAPETGADAIVLIG----NLLPKAAKSEDYAAFFRILGEA----HLPTFYV 68 (224)
T ss_pred HHHHHHHHHHhhcCCCEEEECC----CCCCCCCCHHHHHHHHHHHHhc----CCceEEE
Confidence 3456677777778999877751 222211 345566677777543 5788876
No 223
>PF00349 Hexokinase_1: Hexokinase; InterPro: IPR022672 Hexokinase is an important enzyme that catalyses the ATP-dependent conversion of aldo- and keto-hexose sugars to the hexose-6-phosphate (H6P). The enzyme can catalyse this reaction on glucose, fructose, sorbitol and glucosamine, and as such is the first step in a number of metabolic pathways []. The addition of a phosphate group to the sugar acts to trap it in a cell, since the negatively charged phosphate cannot easily traverse the plasma membrane. The enzyme is widely distributed in eukaryotes. There are three isozymes of hexokinase in yeast (PI, PII and glucokinase): isozymes PI and PII phosphorylate both aldo- and keto-sugars; glucokinase is specific for aldo-hexoses. All three isozymes contain two domains []. Structural studies of yeast hexokinase reveal a well-defined catalytic pocket that binds ATP and hexose, allowing easy transfer of the phosphate from ATP to the sugar []. Vertebrates contain four hexokinase isozymes, designated I to IV, where types I to III contain a duplication of the two-domain yeast-type hexokinases. Both the N- and C-terminal halves bind hexose and H6P, though in types I an III only the C-terminal half supports catalysis, while both halves support catalysis in type II. The N-terminal half is the regulatory region. Type IV hexokinase is similar to the yeast enzyme in containing only the two domains, and is sometimes incorrectly referred to as glucokinase. The different vertebrate isozymes differ in their catalysis, localisation and regulation, thereby contributing to the different patterns of glucose metabolism in different tissues []. Whereas types I to III can phosphorylate a variety of hexose sugars and are inhibited by glucose-6-phosphate (G6P), type IV is specific for glucose and shows no G6P inhibition. Type I enzyme may have a catabolic function, producing H6P for energy production in glycolysis; it is bound to the mitochondrial membrane, which enables the coordination of glycolysis with the TCA cycle. Types II and III enzyme may have anabolic functions, providing H6P for glycogen or lipid synthesis. Type IV enzyme is found in the liver and pancreatic beta-cells, where it is controlled by insulin (activation) and glucagon (inhibition). In pancreatic beta-cells, type IV enzyme acts as a glucose sensor to modify insulin secretion. Mutations in type IV hexokinase have been associated with diabetes mellitus. Hexokinase (2.7.1.1 from EC), a fructose and glucose phosphorylating enzyme, contains two structurally similar domains represented by this family and PF03727 from PFAM. Some hexokinases have two copies of each of these domains. This entry represents the N-terminal domain.; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 3O1W_A 3O6W_A 3O4W_B 3O08_B 3O80_A 3O5B_A 3O8M_A 3O1B_A 1BG3_A 4DHY_A ....
Probab=28.21 E-value=59 Score=26.84 Aligned_cols=35 Identities=29% Similarity=0.378 Sum_probs=24.6
Q ss_pred cccccchh-hhccccccccccCCCCCceEEEEecCCCeEEEEEec
Q 030836 38 IGALSSVE-EFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 38 ~~~~~~~~-~~~~~~~~~~~~~~~~~g~iLgID~G~kRiGVAvsD 81 (170)
+++++|-= .+ |+... .|.+||||+|....=|++..
T Consensus 46 l~MlPs~v~~~-P~G~E--------~G~~LalDlGGTnlRv~~V~ 81 (206)
T PF00349_consen 46 LKMLPSYVTSL-PTGNE--------KGDFLALDLGGTNLRVALVE 81 (206)
T ss_dssp S-EEEESEESS-TTSTT--------EEEEEEEEESSSSEEEEEEE
T ss_pred eeccccccccC-CCCCC--------CceEEEEeecCcEEEEEEEE
Confidence 67765553 33 33333 47999999999999999887
No 224
>PRK13566 anthranilate synthase; Provisional
Probab=28.15 E-value=41 Score=33.14 Aligned_cols=16 Identities=31% Similarity=0.009 Sum_probs=11.8
Q ss_pred CCceEEEEecCCCeEE
Q 030836 61 RGGFSLGVDLGLSRTG 76 (170)
Q Consensus 61 ~~g~iLgID~G~kRiG 76 (170)
.+.+|+-||+|..-++
T Consensus 525 ~g~~IlvID~~dsf~~ 540 (720)
T PRK13566 525 EGKRVLLVDHEDSFVH 540 (720)
T ss_pred CCCEEEEEECCCchHH
Confidence 4568999999965443
No 225
>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=28.14 E-value=2e+02 Score=24.69 Aligned_cols=52 Identities=12% Similarity=0.164 Sum_probs=36.5
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
-++.+..++.++|.+++.-|....-+ .+.+.+|-+.+.+..+ ++||+++|--
T Consensus 85 i~~a~~A~~~Gad~v~v~pP~y~~~~----~~~l~~~f~~ia~a~~--~lpv~iYn~P 136 (294)
T TIGR02313 85 LELTKFAEEAGADAAMVIVPYYNKPN----QEALYDHFAEVADAVP--DFPIIIYNIP 136 (294)
T ss_pred HHHHHHHHHcCCCEEEEcCccCCCCC----HHHHHHHHHHHHHhcc--CCCEEEEeCc
Confidence 35666778899999999999865432 2445565566666542 6899999853
No 226
>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=28.13 E-value=2.4e+02 Score=22.48 Aligned_cols=44 Identities=25% Similarity=0.285 Sum_probs=26.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
..+..+ .. ++|+||+. |.+ . .....+.+.+.+. ++||+++|...
T Consensus 50 ~~i~~~-~~-~vdgiii~-~~~-----~---~~~~~~i~~~~~~----~ipvV~~~~~~ 93 (275)
T cd06307 50 AALLRL-GA-RSDGVALV-APD-----H---PQVRAAVARLAAA----GVPVVTLVSDL 93 (275)
T ss_pred HHHHHH-Hh-cCCEEEEe-CCC-----c---HHHHHHHHHHHHC----CCcEEEEeCCC
Confidence 344443 45 99999986 221 1 1123455666553 78999988653
No 227
>COG0248 GppA Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]
Probab=27.94 E-value=1.8e+02 Score=27.46 Aligned_cols=85 Identities=14% Similarity=0.114 Sum_probs=54.2
Q ss_pred ceEEEEecCCCeEEEEEecCC--eeEEeEEEEc----------c---ch-------hHHHHHHHHHHHcCCCE-EEEeec
Q 030836 63 GFSLGVDLGLSRTGLALSKGF--CVRPLTVLKL----------R---GE-------KLELQLLEIAQREETDE-FIIGLP 119 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~~--~a~Pl~~i~~----------~---~~-------~~~~~L~~li~e~~v~~-IVVGlP 119 (170)
.++-+||.|+--|=+-|.+.. ....+..... . +. ..+....++++.++++. .||+-
T Consensus 3 ~~~A~IDiGSNS~rlvV~~~~~~~~~~l~~~k~~vrLgegl~~~g~L~~eai~R~~~aL~~f~e~~~~~~~~~v~~vAT- 81 (492)
T COG0248 3 RRVAAIDLGSNSFRLVVAEITPGSFQVLFREKRIVRLGEGLDATGNLSEEAIERALSALKRFAELLDGFGAEEVRVVAT- 81 (492)
T ss_pred ceEEEEEecCCeEEEEEEeccCCccchhhhhhhheehhcCccccCCcCHHHHHHHHHHHHHHHHHHhhCCCCEEEEehh-
Confidence 468899999999999999943 1122211110 0 01 12356777888999998 45551
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 120 KSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 120 l~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..--.+....+|.++.++.+ +++|..++.
T Consensus 82 -----sA~R~A~N~~eFl~rv~~~~---G~~ievIsG 110 (492)
T COG0248 82 -----SALRDAPNGDEFLARVEKEL---GLPIEVISG 110 (492)
T ss_pred -----HHHHcCCCHHHHHHHHHHHh---CCceEEecc
Confidence 11223344568999999986 788888763
No 228
>KOG1856 consensus Transcription elongation factor SPT6 [RNA processing and modification]
Probab=27.92 E-value=5.7e+02 Score=27.30 Aligned_cols=91 Identities=13% Similarity=0.115 Sum_probs=49.1
Q ss_pred eEEEEecCCCe----EEEEEec-CCeeEEeEEEE---cc--------chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030836 64 FSLGVDLGLSR----TGLALSK-GFCVRPLTVLK---LR--------GEKLELQLLEIAQREETDEFIIGLPKSWDGSET 127 (170)
Q Consensus 64 ~iLgID~G~kR----iGVAvsD-~~~a~Pl~~i~---~~--------~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s 127 (170)
++||+=+|+.+ ++|-+.. |...--|.... +. ..+..+.+.++|+..+++.|.|+-+ +-...
T Consensus 604 rvl~~~~~~~~~~a~f~v~vn~~Gd~vD~lrl~~~~kr~~~~n~~~r~~k~~d~f~kFI~~~kP~vi~v~g~---~r~~q 680 (1299)
T KOG1856|consen 604 RVLAVCGGTERSDAIFCVLVNFEGDLVDYLRLVDITKRKTLVNDEERKKKFQDLFKKFIEKKKPHVIGVSGE---NRLKQ 680 (1299)
T ss_pred eEEEeccCCCCCceEEEEEEcCCCceeeeeeccchhhhhhccchhhhhhhHHHHHHHHHHhcCCCEEEeeCC---CchhH
Confidence 78888887654 4444443 33322222211 11 1123456888999999999999844 11122
Q ss_pred hhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 128 PQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 128 ~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
.....|+...+.|...=....+||+++|+-
T Consensus 681 ~~~~~I~~~v~el~~~~~~~~ipv~~vd~e 710 (1299)
T KOG1856|consen 681 KIYEAIRQLVHELLISDQGHPIPVIYVDNE 710 (1299)
T ss_pred HHHHHHHHHHHhccccccCCCcceeecccH
Confidence 233444444443332200146899999874
No 229
>COG0443 DnaK Molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=27.90 E-value=61 Score=30.94 Aligned_cols=20 Identities=30% Similarity=0.619 Sum_probs=18.2
Q ss_pred ceEEEEecCCCeEEEEEecC
Q 030836 63 GFSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD~ 82 (170)
..++|||+|+-.+=||+.++
T Consensus 5 ~~~iGIDlGTTNS~vA~~~~ 24 (579)
T COG0443 5 KKAIGIDLGTTNSVVAVMRG 24 (579)
T ss_pred ceEEEEEcCCCcEEEEEEeC
Confidence 47999999999999999993
No 230
>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=27.80 E-value=2.6e+02 Score=23.94 Aligned_cols=62 Identities=10% Similarity=0.062 Sum_probs=35.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhH----HHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQS----NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~----~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.+++.+++.+.++++|+++ |+.++.. +.-+++.+...+... -.+||+.-=-..||.+|-+..
T Consensus 23 l~~lv~~~~~~Gv~gi~v~------GstGE~~~Ls~~Er~~l~~~~~~~~~-g~~pvi~gv~~~~t~~ai~~a 88 (294)
T TIGR02313 23 LRELIEFQIEGGSHAISVG------GTSGEPGSLTLEERKQAIENAIDQIA-GRIPFAPGTGALNHDETLELT 88 (294)
T ss_pred HHHHHHHHHHcCCCEEEEC------ccCcccccCCHHHHHHHHHHHHHHhC-CCCcEEEECCcchHHHHHHHH
Confidence 4566666677899999988 6555411 111233333323222 147887655667887776544
No 231
>PLN02417 dihydrodipicolinate synthase
Probab=27.76 E-value=2.8e+02 Score=23.56 Aligned_cols=63 Identities=13% Similarity=0.105 Sum_probs=35.3
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHH----HHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSN----KVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~----~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
..++.+++.+.++++|+++ |+.++... .-++..+...+... -.+||+.-==..+|.+|-+..+
T Consensus 24 ~~~~i~~l~~~Gv~Gi~~~------GstGE~~~ls~~Er~~~~~~~~~~~~-~~~pvi~gv~~~~t~~~i~~a~ 90 (280)
T PLN02417 24 YDSLVNMQIENGAEGLIVG------GTTGEGQLMSWDEHIMLIGHTVNCFG-GKIKVIGNTGSNSTREAIHATE 90 (280)
T ss_pred HHHHHHHHHHcCCCEEEEC------ccCcchhhCCHHHHHHHHHHHHHHhC-CCCcEEEECCCccHHHHHHHHH
Confidence 4556666666899999997 55554211 11122222222222 1478876666677877766543
No 232
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=27.65 E-value=2.8e+02 Score=21.23 Aligned_cols=52 Identities=10% Similarity=0.111 Sum_probs=33.6
Q ss_pred EEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh
Q 030836 86 RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (170)
Q Consensus 86 ~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~ 143 (170)
.+++++........+++.+.+.+++++.|.+-. ..+.....++++.+.|++.
T Consensus 30 ~G~eVi~LG~~vp~e~i~~~a~~~~~d~V~lS~------~~~~~~~~~~~~~~~L~~~ 81 (137)
T PRK02261 30 AGFEVINLGVMTSQEEFIDAAIETDADAILVSS------LYGHGEIDCRGLREKCIEA 81 (137)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcC------ccccCHHHHHHHHHHHHhc
Confidence 466666543334467888888888888877762 2223445567777888766
No 233
>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=27.62 E-value=2.2e+02 Score=23.22 Aligned_cols=22 Identities=27% Similarity=0.416 Sum_probs=18.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEee
Q 030836 96 EKLELQLLEIAQREETDEFIIGL 118 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGl 118 (170)
.+++.++.+++.++.++ ||||+
T Consensus 59 ~~lL~~f~~~i~~~dPd-ii~g~ 80 (207)
T cd05785 59 KELLEELVAIIRERDPD-VIEGH 80 (207)
T ss_pred HHHHHHHHHHHHHhCCC-EEecc
Confidence 35678899999999998 88896
No 234
>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=27.59 E-value=1.9e+02 Score=24.07 Aligned_cols=52 Identities=13% Similarity=0.112 Sum_probs=36.1
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
..++.+.+++.+++.+++--|.... .+ .+.+.+|.+.+.+.. ++||+++|--
T Consensus 81 ~i~~a~~a~~~Gad~v~v~pP~y~~--~~--~~~~~~~~~~ia~~~---~~pi~iYn~P 132 (281)
T cd00408 81 AIELARHAEEAGADGVLVVPPYYNK--PS--QEGIVAHFKAVADAS---DLPVILYNIP 132 (281)
T ss_pred HHHHHHHHHHcCCCEEEECCCcCCC--CC--HHHHHHHHHHHHhcC---CCCEEEEECc
Confidence 3467778889999999999887543 22 244555555666653 7899988753
No 235
>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=27.58 E-value=64 Score=23.71 Aligned_cols=50 Identities=18% Similarity=0.221 Sum_probs=31.6
Q ss_pred EEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEe
Q 030836 65 SLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 65 iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVG 117 (170)
+=-+++|..++|+|-... .++..+..+...+...+.++.++++.|.+++=
T Consensus 24 ~K~f~~~~~~vgis~v~~---~~~~~~~~~~~~~~~~l~~~~~~~~ld~l~lm 73 (127)
T PF02833_consen 24 YKEFEFGGKKVGISQVET---MDLEELLSRKDELLEELEEFCEERKLDLLFLM 73 (127)
T ss_dssp EEEEEETTEEEEEEEEEE---S-HHHHHTTHHHHHHHHHHHHHHTT-SEEEEE
T ss_pred ceeeecCCeEEEEEeeee---cCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 445666999999986521 11222222224567899999999999976654
No 236
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=27.55 E-value=3e+02 Score=24.12 Aligned_cols=64 Identities=17% Similarity=0.203 Sum_probs=43.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCC-CCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSW-DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~-dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~ 168 (170)
..++.+++++.+++.|.|- +... +|..++... -+.+.++++.+ ++||+..--=.|-..|++.+.
T Consensus 150 ~~~~a~~l~~~Gvd~i~Vh-~Rt~~~~y~g~~~~--~~~i~~ik~~~---~iPVi~nGdI~t~~da~~~l~ 214 (312)
T PRK10550 150 KFEIADAVQQAGATELVVH-GRTKEDGYRAEHIN--WQAIGEIRQRL---TIPVIANGEIWDWQSAQQCMA 214 (312)
T ss_pred HHHHHHHHHhcCCCEEEEC-CCCCccCCCCCccc--HHHHHHHHhhc---CCcEEEeCCcCCHHHHHHHHh
Confidence 4578888899999999996 2222 222222111 14566666664 799999999889999998774
No 237
>PRK08175 aminotransferase; Validated
Probab=27.51 E-value=2.2e+02 Score=24.80 Aligned_cols=55 Identities=11% Similarity=0.033 Sum_probs=34.9
Q ss_pred HHHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~--~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.+.++++ ++..|++..|-|+.|..-+..+ .+++++..++ +++ ++.+||.|.
T Consensus 151 ~~~l~~~l~~~~~~~~~v~i~~p~NPtG~~~~~~~-~~~i~~~a~~----~~i-~ii~De~y~ 207 (395)
T PRK08175 151 FNELERAIRESYPKPKMMILGFPSNPTAQCVELEF-FEKVVALAKR----YDV-LVVHDLAYA 207 (395)
T ss_pred HHHHHHHHhhccCCceEEEEeCCCCCCCCCCCHHH-HHHHHHHHHH----cCc-EEEEecchH
Confidence 56677777654 6778888889888887654333 2455544433 255 556787764
No 238
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=27.36 E-value=2.1e+02 Score=22.73 Aligned_cols=47 Identities=19% Similarity=0.172 Sum_probs=24.4
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.++.+.+...++|+||+ .|...+. ... .....+.+.++ ++||+++|-
T Consensus 45 ~~~i~~l~~~~vdgiIi-~~~~~~~-~~~----~~~~i~~~~~~----~ipvV~i~~ 91 (273)
T cd06292 45 ADYVEDLLARGVRGVVF-ISSLHAD-THA----DHSHYERLAER----GLPVVLVNG 91 (273)
T ss_pred HHHHHHHHHcCCCEEEE-eCCCCCc-ccc----hhHHHHHHHhC----CCCEEEEcC
Confidence 34445555579999998 3322111 111 12233444432 788888873
No 239
>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=27.27 E-value=1.2e+02 Score=22.94 Aligned_cols=29 Identities=24% Similarity=0.303 Sum_probs=24.5
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSET 127 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s 127 (170)
.+.|.+.+++.+|++||+.+.-+.+|..+
T Consensus 45 i~~L~~ri~~~~i~EVIlA~~pt~EGe~T 73 (112)
T cd01025 45 IDKLLERIAKGQVKEVILATNPTVEGEAT 73 (112)
T ss_pred HHHHHHHHhcCCCcEEEEecCCCchHHHH
Confidence 57888989889999999999888877644
No 240
>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=27.24 E-value=2.2e+02 Score=22.70 Aligned_cols=52 Identities=21% Similarity=0.205 Sum_probs=33.3
Q ss_pred EEEecCCCeEEEEEecCC--eeEEeEEEEcc-c--hhHHHHHHHHHHHc-----CCCEEEEe
Q 030836 66 LGVDLGLSRTGLALSKGF--CVRPLTVLKLR-G--EKLELQLLEIAQRE-----ETDEFIIG 117 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~~--~a~Pl~~i~~~-~--~~~~~~L~~li~e~-----~v~~IVVG 117 (170)
+|||+|.-.+=..+.|+. ...-.++.... + ....+.|.++..++ +++.|++|
T Consensus 2 igIDvGGT~TD~v~~d~~~~~~~~~K~~Tt~~d~~~gi~~al~~l~~~~~~~~~~i~~v~~g 63 (176)
T PF05378_consen 2 IGIDVGGTFTDAVLLDEDTGVVATAKVPTTPDDPAEGILEALDALLEESGIDPSDIDRVRHG 63 (176)
T ss_pred eeEecCCCcEEEEEEeCCCCEEEEEEeCCCCcCHHHHHHHHHHhhhcccCCChhhCcEEEec
Confidence 799999999988777753 23333333221 1 22356777777654 67888888
No 241
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=27.24 E-value=2e+02 Score=25.74 Aligned_cols=57 Identities=16% Similarity=0.119 Sum_probs=39.6
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-Ccc
Q 030836 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHR 158 (170)
Q Consensus 95 ~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~ 158 (170)
.+++.+.|.++.++++++.|+|-- .....-....++..++.++++. ++||+.++ +-|
T Consensus 71 ~~~L~~~i~~~~~~~~P~~i~v~~----tC~~~~iGdDi~~v~~~~~~~~---~~~vi~v~t~gf 128 (410)
T cd01968 71 EKKLYKAILEIIERYHPKAVFVYS----TCVVALIGDDIDAVCKTASEKF---GIPVIPVHSPGF 128 (410)
T ss_pred HHHHHHHHHHHHHhCCCCEEEEEC----CCchhhhccCHHHHHHHHHHhh---CCCEEEEECCCc
Confidence 345678899999999999776651 2223334556788888888774 78888775 443
No 242
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic 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=27.14 E-value=1.9e+02 Score=22.91 Aligned_cols=43 Identities=14% Similarity=0.155 Sum_probs=24.6
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
.+.. +..+++++||+. |. . .+. +....+.+.++ ++||+++|-.
T Consensus 48 ~~~~-l~~~~vdgiii~-~~----~-~~~---~~~~l~~~~~~----~iPvV~~~~~ 90 (275)
T cd06317 48 QVED-LIAQKVDGIILW-PT----D-GQA---YIPGLRKAKQA----GIPVVITNSN 90 (275)
T ss_pred HHHH-HHHcCCCEEEEe-cC----C-ccc---cHHHHHHHHHC----CCcEEEeCCC
Confidence 3444 445689999997 21 1 111 12334555543 8999998743
No 243
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=27.06 E-value=57 Score=31.15 Aligned_cols=19 Identities=21% Similarity=0.574 Sum_probs=17.0
Q ss_pred ceEEEEecCCCeEEEEEec
Q 030836 63 GFSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 63 g~iLgID~G~kRiGVAvsD 81 (170)
..++|||+|+....+|+..
T Consensus 19 ~~viGIDlGTT~S~va~~~ 37 (595)
T PRK01433 19 QIAVGIDFGTTNSLIAIAT 37 (595)
T ss_pred ceEEEEEcCcccEEEEEEe
Confidence 4689999999999999975
No 244
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=27.03 E-value=2.3e+02 Score=25.84 Aligned_cols=55 Identities=22% Similarity=0.286 Sum_probs=39.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE--EEcCc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDEH 157 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~--lvDER 157 (170)
++..+++.++++++++|.+|.|=-.| -|..+.+|- ..++.+++++ ++|++ +..|.
T Consensus 66 eea~~~i~~mv~~~~pD~viaGPaFn-agrYG~acg---~v~~aV~e~~---~IP~vtaM~~EN 122 (349)
T PF07355_consen 66 EEALKKILEMVKKLKPDVVIAGPAFN-AGRYGVACG---EVAKAVQEKL---GIPVVTAMYEEN 122 (349)
T ss_pred HHHHHHHHHHHHhcCCCEEEEcCCcC-CchHHHHHH---HHHHHHHHhh---CCCEEEEecccC
Confidence 34568999999999999999994344 577776555 4555566664 78877 44554
No 245
>PRK00304 hypothetical protein; Provisional
Probab=26.99 E-value=1.3e+02 Score=21.47 Aligned_cols=47 Identities=32% Similarity=0.455 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+..-|.+++.+++-| .|.+.+...+|....+.|+. |--|+.|||---
T Consensus 13 L~nLIeefv~ReGTD----------yg~E~sL~~kv~qv~~qL~~-----G~~vIvfse~~e 59 (75)
T PRK00304 13 LTRLIEDFVTRDGTD----------NGDETPLETRVLRVRQALTK-----GQAVILFDPESQ 59 (75)
T ss_pred HHHHHHHHHhccCcc----------CcccccHHHHHHHHHHHHHc-----CCEEEEECCCcc
Confidence 344566666665554 35577788888888888874 566888887543
No 246
>PF06490 FleQ: Flagellar regulatory protein FleQ; InterPro: IPR010518 This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to IPR001789 from INTERPRO, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (IPR001789 from INTERPRO).
Probab=26.98 E-value=2.5e+02 Score=20.54 Aligned_cols=48 Identities=21% Similarity=0.137 Sum_probs=31.7
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
......+..-+.++|| .|+.+ ......+.|.++.+ .+||.+..|..+.
T Consensus 34 ~~~~~~~~~~~~~~v~-----~g~~~----~~~~~l~~l~~~~~--~~Pvlllg~~~~~ 81 (109)
T PF06490_consen 34 WSQADWSSPWEACAVI-----LGSCS----KLAELLKELLKWAP--HIPVLLLGEHDSP 81 (109)
T ss_pred HHHhhhhcCCcEEEEE-----ecCch----hHHHHHHHHHhhCC--CCCEEEECCCCcc
Confidence 3444555666777777 35544 33455666666665 8999999988766
No 247
>cd03414 CbiX_SirB_C Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both CbiX and SirB are found in a wide range of bacteria.
Probab=26.89 E-value=2.4e+02 Score=20.17 Aligned_cols=22 Identities=27% Similarity=0.367 Sum_probs=11.6
Q ss_pred CCCCCh-hHHHHHHHHHHHHHhh
Q 030836 123 DGSETP-QSNKVRSVAGRLAVRA 144 (170)
Q Consensus 123 dGt~s~-~~~~vr~F~~~L~~~~ 144 (170)
.|+..+ ..+.++.+++.+++++
T Consensus 8 HGS~~~~~~~~~~~l~~~l~~~~ 30 (117)
T cd03414 8 RGSSDPDANADVAKIARLLEEGT 30 (117)
T ss_pred CCCCCHHHHHHHHHHHHHHHHhc
Confidence 455533 3345566666665554
No 248
>cd06277 PBP1_LacI_like_1 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.75 E-value=2.2e+02 Score=22.52 Aligned_cols=40 Identities=15% Similarity=0.155 Sum_probs=23.4
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.+.+.+.++++|+||+- |. ..+ ...+++.+. ++|++++|-
T Consensus 49 ~~~~~l~~~~vdgiii~-~~-----~~~------~~~~~l~~~----~ipvV~~~~ 88 (268)
T cd06277 49 ELPSFLEDGKVDGIILL-GG-----IST------EYIKEIKEL----GIPFVLVDH 88 (268)
T ss_pred HHHHHHHHCCCCEEEEe-CC-----CCh------HHHHHHhhc----CCCEEEEcc
Confidence 44555567899999985 21 121 113444443 678888873
No 249
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=26.55 E-value=2.5e+02 Score=22.22 Aligned_cols=42 Identities=14% Similarity=0.309 Sum_probs=24.1
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.+..+ ..+++|+||+. |.+ .. ......+.+++. ++||+++|-
T Consensus 47 ~~~~~-~~~~vdgiii~-~~~-----~~---~~~~~~~~~~~~----~ipvV~~~~ 88 (267)
T cd06322 47 DVEDF-ITKKVDAIVLS-PVD-----SK---GIRAAIAKAKKA----GIPVITVDI 88 (267)
T ss_pred HHHHH-HHcCCCEEEEc-CCC-----hh---hhHHHHHHHHHC----CCCEEEEcc
Confidence 34444 46799999996 221 11 112334445442 789999984
No 250
>COG1521 Pantothenate kinase type III (Bvg accessory factor family protein) [Transcription]
Probab=26.40 E-value=1.8e+02 Score=25.03 Aligned_cols=20 Identities=35% Similarity=0.413 Sum_probs=17.8
Q ss_pred eEEEEecCCCeEEEEEecCC
Q 030836 64 FSLGVDLGLSRTGLALSKGF 83 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~~ 83 (170)
++|.||+|..++=+|+.++-
T Consensus 1 ~~L~iDiGNT~~~~a~~~~~ 20 (251)
T COG1521 1 MLLLIDIGNTRIVFALYEGG 20 (251)
T ss_pred CeEEEEeCCCeEEEEEecCC
Confidence 47999999999999999853
No 251
>TIGR00315 cdhB CO dehydrogenase/acetyl-CoA synthase complex, epsilon subunit. Nomenclature follows the description for Methanosarcina thermophila. The complex is also found in Archaeoglobus fulgidus, not considered a methanogen, but is otherwise generally associated with methanogenesis.
Probab=26.18 E-value=1.9e+02 Score=23.20 Aligned_cols=36 Identities=8% Similarity=0.160 Sum_probs=24.4
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCC-ChhHHHHHHHHHHH
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSE-TPQSNKVRSVAGRL 140 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~-s~~~~~vr~F~~~L 140 (170)
+.+.+++.+-+==.|||| .|.. ....+.+++|++++
T Consensus 18 ~~aa~lLk~AKRPvIivG-----~ga~~~~a~e~l~~laEkl 54 (162)
T TIGR00315 18 KLVAMMIKRAKRPLLIVG-----PENLEDEEKELIVKFIEKF 54 (162)
T ss_pred HHHHHHHHcCCCcEEEEC-----CCcCcccHHHHHHHHHHHH
Confidence 567777777676789999 4443 34566777777665
No 252
>cd02930 DCR_FMN 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the flavin and iron-sulfur cofactors. Metabolism of unsaturated fatty acids requires auxiliary enzymes in addition to those used in b-oxidation. After a given number of cycles through the b-oxidation pathway, those unsaturated fatty acyl-CoAs with double bonds at even-numbered carbon positions contain 2-trans, 4-cis double bonds that can not be modified by enoyl-CoA hydratase. DCR utilizes NADPH to remove the C4-C5 double bond. DCR can catalyze the reduction of both natural fatty acids with cis double bonds, as well as substrates containing trans double bonds. The reaction is initiated by hybrid transfer from NADPH to FAD, which in turn transfers electrons, one at a time, to FMN via the 4Fe-4S cluster. The fully reduced FMN provi
Probab=26.14 E-value=2.3e+02 Score=24.86 Aligned_cols=66 Identities=12% Similarity=0.077 Sum_probs=38.1
Q ss_pred HHHHHHHHHcCCCEEEEe--e---cCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHHHc
Q 030836 100 LQLLEIAQREETDEFIIG--L---PKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVG--l---Pl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L~e 169 (170)
.++.+.++++++|.|-|. + |........+.. .-..+++++++.+ ++||.....-.|-.+|++.+.+
T Consensus 227 ~~i~~~Le~~G~d~i~vs~g~~e~~~~~~~~~~~~~-~~~~~~~~ik~~v---~iPVi~~G~i~~~~~a~~~i~~ 297 (353)
T cd02930 227 VALAKALEAAGADILNTGIGWHEARVPTIATSVPRG-AFAWATAKLKRAV---DIPVIASNRINTPEVAERLLAD 297 (353)
T ss_pred HHHHHHHHHcCCCEEEeCCCcCCCCCccccccCCch-hhHHHHHHHHHhC---CCCEEEcCCCCCHHHHHHHHHC
Confidence 467777788899998883 2 111111111111 1134567777764 7898776555566668877654
No 253
>PF07505 Gp37_Gp68: Phage protein Gp37/Gp68; InterPro: IPR011101 This entry is represented by Burkholderia phage phiE125, Gp37. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=26.06 E-value=53 Score=28.50 Aligned_cols=43 Identities=19% Similarity=0.292 Sum_probs=29.9
Q ss_pred HHHcCCCEEEEeecCCCCCCCChhHHHHH-HHHHHHHHhhccCCccEEEE
Q 030836 106 AQREETDEFIIGLPKSWDGSETPQSNKVR-SVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 106 i~e~~v~~IVVGlPl~~dGt~s~~~~~vr-~F~~~L~~~~~~~~lpV~lv 154 (170)
....+|+-|||| |..++.++-+. +++..|.+.....++|++|-
T Consensus 184 ~~~~~IdWVIvG------GESG~~ARp~~~~Wvr~irdqC~~~gvpFffK 227 (261)
T PF07505_consen 184 LDLEGIDWVIVG------GESGPGARPMHPDWVRSIRDQCAAAGVPFFFK 227 (261)
T ss_pred ccCCCCCEEEEC------CCcCCCCCcCCHHHHHHHHHHHHHcCCcEEEE
Confidence 345689999999 66666554433 67777776665568998863
No 254
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=25.99 E-value=3.4e+02 Score=21.77 Aligned_cols=64 Identities=13% Similarity=0.118 Sum_probs=41.4
Q ss_pred eEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 85 VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 85 a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..++.++.....-..+.+.+.+.+++++.|.+- .+.+.....++++++.|++..+..+++|..=
T Consensus 108 ~~G~~vi~lG~~~p~~~l~~~~~~~~~d~v~lS------~~~~~~~~~~~~~i~~lr~~~~~~~~~i~vG 171 (201)
T cd02070 108 ANGFEVIDLGRDVPPEEFVEAVKEHKPDILGLS------ALMTTTMGGMKEVIEALKEAGLRDKVKVMVG 171 (201)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEe------ccccccHHHHHHHHHHHHHCCCCcCCeEEEE
Confidence 357777754333346789999999999966555 3334445678888999987642125666543
No 255
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=25.56 E-value=1.5e+02 Score=22.82 Aligned_cols=58 Identities=26% Similarity=0.207 Sum_probs=27.4
Q ss_pred HHHHHHHHHHH-cCCCEEEEeecCCC-CCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 98 LELQLLEIAQR-EETDEFIIGLPKSW-DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 98 ~~~~L~~li~e-~~v~~IVVGlPl~~-dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+++.+++.+ ++++.|||=.=... ++....... +..|...|++...++++.|+++..
T Consensus 128 ~~~~l~~~~~~~~~~~lvviD~l~~~~~~~~~~~~~-~~~~~~~l~~la~~~~~~vi~v~H 187 (193)
T PF13481_consen 128 DLEELEAALKELYGPDLVVIDPLQSLHDGDENSNSA-VAQLMQELKRLAKEYGVAVILVHH 187 (193)
T ss_dssp HHHHHHHHHTT----SEEEEE-GGGG--S-TT-HHH-HHHHHHHHHHHHHHH--EEEEEEE
T ss_pred HHHHHHHHHhhcCCCcEEEEcCHHHHhcCCCCCHHH-HHHHHHHHHHHHHHcCCEEEEEEC
Confidence 35678888887 89999998743333 222222222 245555554422124788887753
No 256
>PRK15005 universal stress protein F; Provisional
Probab=25.38 E-value=1.6e+02 Score=21.24 Aligned_cols=29 Identities=17% Similarity=0.142 Sum_probs=20.9
Q ss_pred CEEEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 112 DEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 112 ~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
..|+|+. ||+....+.++-.++..+++..
T Consensus 3 ~~ILv~~----D~s~~~~~~~a~~~a~~la~~~ 31 (144)
T PRK15005 3 RTILVPI----DISDSELTQRVISHVEAEAKID 31 (144)
T ss_pred ccEEEec----CCCchhHHHHHHHHHHHHHhcc
Confidence 4578885 8887755677778888887653
No 257
>PF09989 DUF2229: CoA enzyme activase uncharacterised domain (DUF2229); InterPro: IPR018709 Proteins containing this domain include various bacterial hypothetical proteins, as well as CoA enzyme activases. The exact function of this domain has not, as yet, been defined.
Probab=25.36 E-value=1e+02 Score=25.65 Aligned_cols=37 Identities=19% Similarity=0.198 Sum_probs=28.1
Q ss_pred cCCCEEEEeecCCC-CCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 109 EETDEFIIGLPKSW-DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 109 ~~v~~IVVGlPl~~-dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
-+..-+|+|-|.+. |-..+ ....++|++. |++|+..|
T Consensus 182 ~~~~Ivl~GrpY~~~D~~in------~~I~~~l~~~----G~~vit~d 219 (221)
T PF09989_consen 182 GKPAIVLLGRPYNIYDPFIN------MGIPDKLRSL----GVPVITED 219 (221)
T ss_pred CCceEEEEcCCCcCCCcccC------CchHHHHHHC----CCeeeCcc
Confidence 46788999999998 76666 4666777764 88888765
No 258
>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=25.30 E-value=2.3e+02 Score=26.05 Aligned_cols=20 Identities=20% Similarity=0.222 Sum_probs=17.2
Q ss_pred HHHHHHHHHHHcCCCEEEEe
Q 030836 98 LELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVG 117 (170)
-.+.|.+++++|++|+||.=
T Consensus 349 R~~~l~~li~e~~vDGVI~~ 368 (430)
T TIGR03191 349 KSEMMLNIARDWNVDGCMLH 368 (430)
T ss_pred HHHHHHHHHHHHCCCEEEEc
Confidence 35789999999999998875
No 259
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=25.18 E-value=2.7e+02 Score=24.13 Aligned_cols=73 Identities=21% Similarity=0.217 Sum_probs=43.7
Q ss_pred CCCeEEEEEecC---C------------eeEEeEEEEccch---hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHH
Q 030836 71 GLSRTGLALSKG---F------------CVRPLTVLKLRGE---KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK 132 (170)
Q Consensus 71 G~kRiGVAvsD~---~------------~a~Pl~~i~~~~~---~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~ 132 (170)
-+..||+.+.|. . ....+.++..... +...++.+.+.++++|+||+=- . ..+
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~----~~~----- 126 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLG-E----RPN----- 126 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEec-C----CCC-----
Confidence 466778877652 1 1245555543222 3346778888899999999861 0 111
Q ss_pred HHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 133 VRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 133 vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
..+.+.+.+. ++|++++|...
T Consensus 127 -~~~~~~l~~~----~~P~V~i~~~~ 147 (333)
T COG1609 127 -DSLLELLAAA----GIPVVVIDRSP 147 (333)
T ss_pred -HHHHHHHHhc----CCCEEEEeCCC
Confidence 2445555553 68888888643
No 260
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=25.17 E-value=2.3e+02 Score=23.68 Aligned_cols=51 Identities=18% Similarity=0.221 Sum_probs=34.3
Q ss_pred HHHHHHHHHH-cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQR-EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e-~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.+.+++ .++..+++-.| +..|...+ ++++++..++. ++ .+++||.+.
T Consensus 142 ~~~l~~~l~~~~~~k~v~l~~p-~~~G~~~d----l~~I~~~~~~~----g~-~livDeA~~ 193 (294)
T cd00615 142 PETFKKALIEHPDAKAAVITNP-TYYGICYN----LRKIVEEAHHR----GL-PVLVDEAHG 193 (294)
T ss_pred HHHHHHHHHhCCCceEEEEECC-CCCCEecC----HHHHHHHHHhc----CC-eEEEECcch
Confidence 4677777765 46888999888 56777655 44555544443 54 577899765
No 261
>PRK09331 Sep-tRNA:Cys-tRNA synthetase; Provisional
Probab=25.13 E-value=2.2e+02 Score=24.84 Aligned_cols=52 Identities=15% Similarity=0.057 Sum_probs=34.6
Q ss_pred HHHHHHHHHHc------CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQRE------ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~------~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.+.+.+. ++..|++-.|-++.|...+ ++++++..++ ++++ +++||.++
T Consensus 141 ~~~l~~~l~~~~~~~~~~~~lV~l~~~~~~tG~~~~----l~~I~~la~~----~g~~-livD~a~~ 198 (387)
T PRK09331 141 PEAYAEKIEEVKEETGKPPALALLTHVDGNYGNLAD----AKKVAKVAHE----YGIP-FLLNGAYT 198 (387)
T ss_pred HHHHHHHHHHhhhccCCCCEEEEEECCCCCCccccc----HHHHHHHHHH----cCCE-EEEECCcc
Confidence 46677766543 6888999988888887655 4444544443 2664 57999876
No 262
>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=25.10 E-value=1e+02 Score=22.68 Aligned_cols=35 Identities=9% Similarity=0.092 Sum_probs=21.2
Q ss_pred HHHHHHHHHHhhccCCccEEEEc-Cccc--HHHHHHHH
Q 030836 133 VRSVAGRLAVRAAERGWRVYLLD-EHRT--SAEAVDRM 167 (170)
Q Consensus 133 vr~F~~~L~~~~~~~~lpV~lvD-ER~T--T~eA~~~L 167 (170)
++...+.+++..+..++||..+| +-|. +..++..|
T Consensus 57 v~~~~~~i~~~~~~~~ipv~~I~~~~Yg~~~~dg~~vl 94 (99)
T cd05565 57 MASYYDELKKDTDRLGIKLVTTTGKQYIELTRDPDGAL 94 (99)
T ss_pred HHHHHHHHHHHhhhcCCCEEEeCHHHHhHHhCCHHHHH
Confidence 44555555555444589999999 4455 54444444
No 263
>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=25.00 E-value=2.5e+02 Score=25.99 Aligned_cols=74 Identities=15% Similarity=0.099 Sum_probs=39.2
Q ss_pred ccccccccccchhhhccccccccccCCCCCceEEEEecCCCeEEEEEecCC--eeEEeEEEEccchhHHHHHHHHHHHcC
Q 030836 33 NFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKGF--CVRPLTVLKLRGEKLELQLLEIAQREE 110 (170)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~iLgID~G~kRiGVAvsD~~--~a~Pl~~i~~~~~~~~~~L~~li~e~~ 110 (170)
....|+.|+.++-+- ... ..-....|..+|||.|+..+=+++-|.. ...-+..-........+.+.+++++.+
T Consensus 119 ~l~tr~ea~~~~~~~--~~~---~~~~~~~g~~lGIDiGSTttK~Vl~dd~~Ii~~~~~~t~~~~~~a~~~l~~~l~~~G 193 (404)
T TIGR03286 119 ELLTRMEALTTIVRR--KSL---LARERQEGLTLGIDSGSTTTKAVVMEDNEVIGTGWVPTTKVIESAEEAVERALEEAG 193 (404)
T ss_pred HHHHHHHHHHHHHhh--hhh---hhhhccCCEEEEEEcChhheeeEEEcCCeEEEEEEeecccHHHHHHHHHHHHHHHcC
Confidence 456788885433311 110 1112345689999999999999888842 222111101111223445666776654
Q ss_pred C
Q 030836 111 T 111 (170)
Q Consensus 111 v 111 (170)
+
T Consensus 194 l 194 (404)
T TIGR03286 194 V 194 (404)
T ss_pred C
Confidence 3
No 264
>PRK13392 5-aminolevulinate synthase; Provisional
Probab=24.87 E-value=3.2e+02 Score=23.91 Aligned_cols=42 Identities=14% Similarity=0.165 Sum_probs=27.8
Q ss_pred cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 109 ~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+...|++-.|.++.|..-+ .+++.+..++ +++ ++++||-++
T Consensus 177 ~~t~~v~i~~~~n~tG~~~~----l~~i~~l~~~----~~~-~livDea~~ 218 (410)
T PRK13392 177 DRPKLIAFESVYSMDGDIAP----IEAICDLADR----YNA-LTYVDEVHA 218 (410)
T ss_pred CCCEEEEEeCCCCCCccccc----HHHHHHHHHH----cCC-EEEEECCcc
Confidence 35668889999999998766 2333333332 243 677999887
No 265
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=24.70 E-value=2e+02 Score=26.12 Aligned_cols=57 Identities=14% Similarity=0.054 Sum_probs=40.8
Q ss_pred hhHHHHHHHHHHHcCC-CEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-Cccc
Q 030836 96 EKLELQLLEIAQREET-DEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRT 159 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v-~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~T 159 (170)
.++.+.|.++.++|++ +.|+|-- .-...-....+..+++.++++. ++||+.++ +.|.
T Consensus 84 ~kL~~~I~~~~~~~~p~~~I~V~t----TC~~~iIGdDi~~v~~~~~~~~---~~pvi~v~t~gf~ 142 (421)
T cd01976 84 KKLAKAIDEAYELFPLNKGISVQS----ECPVGLIGDDIEAVARKASKEL---GIPVVPVRCEGFR 142 (421)
T ss_pred HHHHHHHHHHHHhCCCccEEEEEC----CChHHHhccCHHHHHHHHHHhh---CCCEEEEeCCCcc
Confidence 4567889999999998 8777761 1222335566788888888764 78999997 6654
No 266
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=24.52 E-value=3.2e+02 Score=20.80 Aligned_cols=18 Identities=17% Similarity=0.113 Sum_probs=8.4
Q ss_pred HHHHHHHHHcCCCEEEEe
Q 030836 100 LQLLEIAQREETDEFIIG 117 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVG 117 (170)
+.|.+++++++++.|+.-
T Consensus 78 ~~l~~l~~~~~~~~V~~~ 95 (165)
T PF00875_consen 78 EVLPELAKEYGATAVYFN 95 (165)
T ss_dssp HHHHHHHHHHTESEEEEE
T ss_pred HHHHHHHHhcCcCeeEec
Confidence 344444444454444444
No 267
>PF00370 FGGY_N: FGGY family of carbohydrate kinases, N-terminal domain; InterPro: IPR018484 It has been shown [] that four different type of carbohydrate kinases seem to be evolutionary related. These enzymes include L-fucolokinase (2.7.1.51 from EC) (gene fucK); gluconokinase (2.7.1.12 from EC) (gene gntK); glycerol kinase (2.7.1.30 from EC) (gene glpK); xylulokinase (2.7.1.17 from EC) (gene xylB); and L-xylulose kinase (2.7.1.53 from EC) (gene lyxK). These enzymes are proteins of from 480 to 520 amino acid residues. This entry represents the N-terminal domain of these proteins. It adopts a ribonuclease H-like fold and is structurally related to the C-terminal domain [, ].; GO: 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 3G25_D 3GE1_D 2NLX_A 2ITM_A 2ZF5_Y 3L0Q_B 3GG4_B 3I8B_A 3H3O_C 3FLC_X ....
Probab=24.49 E-value=84 Score=25.53 Aligned_cols=19 Identities=26% Similarity=0.522 Sum_probs=16.9
Q ss_pred eEEEEecCCCeEEEEEecC
Q 030836 64 FSLGVDLGLSRTGLALSKG 82 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD~ 82 (170)
.+||||+|+--+=+++-|.
T Consensus 1 y~lgiDiGTts~K~~l~d~ 19 (245)
T PF00370_consen 1 YYLGIDIGTTSVKAVLFDE 19 (245)
T ss_dssp EEEEEEECSSEEEEEEEET
T ss_pred CEEEEEEcccceEEEEEeC
Confidence 4899999999999999884
No 268
>PLN03226 serine hydroxymethyltransferase; Provisional
Probab=24.49 E-value=3e+02 Score=25.50 Aligned_cols=51 Identities=16% Similarity=0.096 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
..+.|.+++.++++..||+|-. . ..+.-.+..+++ +.++. + -+.++|+..+
T Consensus 171 D~d~Le~~l~~~~pklIv~~~S-----~-~s~~~D~a~i~~-ia~~~---g-a~LlvD~AH~ 221 (475)
T PLN03226 171 DYDKLEKKAMLFRPKLIIAGAS-----A-YPRDWDYARMRK-IADKV---G-ALLMCDMAHI 221 (475)
T ss_pred CHHHHHHHHhhcCCeEEEEecC-----c-CCCccCHHHHHH-HHHHc---C-CEEEEEchhh
Confidence 3578888888888988999732 1 122222344443 33432 3 3677887544
No 269
>PRK05595 replicative DNA helicase; Provisional
Probab=24.37 E-value=2.3e+02 Score=25.72 Aligned_cols=55 Identities=15% Similarity=0.176 Sum_probs=33.7
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCC--ChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~--s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..++++..+++++.|||=+=-.+.++. ......+....+.|+....+.++||+..
T Consensus 301 ~~~r~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~l 357 (444)
T PRK05595 301 SKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIAL 357 (444)
T ss_pred HHHHHHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEe
Confidence 456667677899999997755554322 2233455566555554332358998875
No 270
>PRK14469 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=24.35 E-value=3.4e+02 Score=23.91 Aligned_cols=60 Identities=18% Similarity=0.177 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCC--CCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHH
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSW--DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~--dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA 163 (170)
...+|.+++....+. |-=+|++. .+-..+..+.+++|.+.|++. +++|....++..-..|
T Consensus 268 d~~~La~llk~~~~~--VnLIpynp~~~~~~~ps~e~l~~f~~~l~~~----gi~vtvr~~~g~di~a 329 (343)
T PRK14469 268 DAKKLAELLKGLKVF--VNLIPVNPTVPGLEKPSRERIERFKEILLKN----GIEAEIRREKGSDIEA 329 (343)
T ss_pred HHHHHHHHHhccCcE--EEEEecCCCCccCCCCCHHHHHHHHHHHHHC----CCeEEEeCCCCcchhh
Confidence 345666666655432 33345553 344555677788888888764 7788777776655444
No 271
>PRK08760 replicative DNA helicase; Provisional
Probab=24.33 E-value=2.4e+02 Score=26.18 Aligned_cols=55 Identities=13% Similarity=0.155 Sum_probs=32.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCC--CCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWD--GSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~d--Gt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..++.+..+++++.|||=+=-.+. |........+....+.|+....++++||+..
T Consensus 329 ~~~r~l~~~~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~l 385 (476)
T PRK08760 329 SKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIAL 385 (476)
T ss_pred HHHHHHHHhcCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEEe
Confidence 456667777889999998754443 2212233445555555543322358898865
No 272
>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=24.32 E-value=1.5e+02 Score=23.95 Aligned_cols=53 Identities=19% Similarity=0.181 Sum_probs=27.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
...|.+.+++.+. ++||+ .|..++. ...+.+++.-+..++-..+-++++|||+
T Consensus 10 ~~~i~~~i~~~~~--~~i~L----sgGstp~-~~y~~L~~~~~~~i~w~~v~~~~~DEr~ 62 (199)
T PF01182_consen 10 AEAIEEAIAERGR--AVIAL----SGGSTPK-PLYQELAKLHKERIDWSRVHFFNVDERV 62 (199)
T ss_dssp HHHHHHHHHHCSS--EEEEE------SCTHH-HHHHHHHHHHHTCSCGGGEEEEESEEES
T ss_pred HHHHHHHHHHCCC--EEEEE----cCCHHHH-HHHHHHhhhccccCChhHeEEEeCcccc
Confidence 3566666666544 67776 3666663 2223344333211211246688999997
No 273
>PF04412 DUF521: Protein of unknown function (DUF521); InterPro: IPR007506 This is a group of hypothetical proteins.
Probab=24.25 E-value=2.2e+02 Score=26.23 Aligned_cols=51 Identities=18% Similarity=0.215 Sum_probs=36.9
Q ss_pred HcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHH
Q 030836 108 REETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVD 165 (170)
Q Consensus 108 e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~ 165 (170)
..++|.|++|-| +-..++++.+++.|+.+-...+++++.+=-|..-..|++
T Consensus 287 ~~~~D~V~lGcP-------H~S~~El~~ia~ll~gr~~~~~~~~~i~t~~~v~~~a~~ 337 (400)
T PF04412_consen 287 DEKVDLVALGCP-------HLSLEELREIAELLEGRKVHPNVPLWITTSRAVYELAER 337 (400)
T ss_pred CCCCCEEEECCC-------CCCHHHHHHHHHHHhCCCCCCCceEEEECCHHHHHHHHh
Confidence 349999999966 334567888899998764114788888877777766665
No 274
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=24.11 E-value=3.2e+02 Score=23.22 Aligned_cols=51 Identities=12% Similarity=-0.018 Sum_probs=36.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
-++.+.+++.++|.++|--|.....+ .+.+.+|-+.+.+.. ++||+++|--
T Consensus 89 i~~a~~a~~~Gad~v~v~~P~y~~~~----~~~l~~~f~~va~a~---~lPv~iYn~P 139 (293)
T PRK04147 89 QELAKYATELGYDAISAVTPFYYPFS----FEEICDYYREIIDSA---DNPMIVYNIP 139 (293)
T ss_pred HHHHHHHHHcCCCEEEEeCCcCCCCC----HHHHHHHHHHHHHhC---CCCEEEEeCc
Confidence 46677788899999999999764433 244555555666553 6899999853
No 275
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=24.09 E-value=1.9e+02 Score=27.16 Aligned_cols=53 Identities=17% Similarity=0.322 Sum_probs=37.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE--EEcC
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDE 156 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~--lvDE 156 (170)
+..+++.++++++++|.+|.|=-+| -|.++.+|-. .++.+++++ ++|++ ++-|
T Consensus 63 ea~~~i~~mv~k~~pDv~iaGPaFN-agrYG~acg~---va~aV~e~~---~IP~vtaMy~E 117 (431)
T TIGR01917 63 EAKAKVLEMIKGANPDIFIAGPAFN-AGRYGMAAGA---ITKAVQDEL---GIKAFTAMYEE 117 (431)
T ss_pred HHHHHHHHHHHhcCCCEEEEcCccC-CccHHHHHHH---HHHHHHHhh---CCCeEEEeccc
Confidence 3457899999999999999994344 6777766654 455555554 78876 3445
No 276
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=23.97 E-value=1.9e+02 Score=27.13 Aligned_cols=53 Identities=17% Similarity=0.201 Sum_probs=37.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE--EEcC
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDE 156 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~--lvDE 156 (170)
+..+++.++++++++|.+|.|=-+| .|.++.+|-. .++.+++++ ++|++ ++-|
T Consensus 63 ea~~~i~~mv~k~~pDv~iaGPaFN-agrYG~acg~---va~aV~e~~---~IP~vt~My~E 117 (431)
T TIGR01918 63 EAVARVLEMLKDKEPDIFIAGPAFN-AGRYGVACGE---ICKVVQDKL---NVPAVTSMYVE 117 (431)
T ss_pred HHHHHHHHHHHhcCCCEEEEcCccC-CccHHHHHHH---HHHHHHHhh---CCCeEEEeccc
Confidence 4457899999999999999994344 6777766654 455555554 78876 3445
No 277
>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=23.93 E-value=2.1e+02 Score=21.28 Aligned_cols=48 Identities=23% Similarity=0.392 Sum_probs=29.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
..++.+.+...+...+.+|- +.=+-|+.+....+.+.+. .+++|+++|
T Consensus 13 ~~~~~~~i~~~~~~iv~f~~------~~Cp~C~~~~P~l~~~~~~---~~~~~y~vd 60 (122)
T TIGR01295 13 VVRALEALDKKETATFFIGR------KTCPYCRKFSGTLSGVVAQ---TKAPIYYID 60 (122)
T ss_pred HHHHHHHHHcCCcEEEEEEC------CCChhHHHHhHHHHHHHHh---cCCcEEEEE
Confidence 35677777776666777882 2333444444444444444 368899887
No 278
>PRK07324 transaminase; Validated
Probab=23.92 E-value=2.3e+02 Score=24.68 Aligned_cols=54 Identities=13% Similarity=0.010 Sum_probs=35.5
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.|.+.+. .++..|++-.|-|..|..-+. ..++++++..+++ ++ ++++||-|.
T Consensus 143 ~~~l~~~~~-~~~kli~i~~p~NPtG~~~~~-~~l~~i~~~a~~~----~~-~ii~De~y~ 196 (373)
T PRK07324 143 LDELRRLVR-PNTKLICINNANNPTGALMDR-AYLEEIVEIARSV----DA-YVLSDEVYR 196 (373)
T ss_pred HHHHHHhCC-CCCcEEEEeCCCCCCCCCCCH-HHHHHHHHHHHHC----CC-EEEEEcccc
Confidence 456666554 378899999999988865542 3346666555443 54 667788764
No 279
>PRK11340 phosphodiesterase YaeI; Provisional
Probab=23.87 E-value=2.4e+02 Score=23.66 Aligned_cols=20 Identities=15% Similarity=0.361 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHcCCCEEEEe
Q 030836 98 LELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVG 117 (170)
..+++.+.+++.++|.||++
T Consensus 68 ~l~~~v~~i~~~~pDlVli~ 87 (271)
T PRK11340 68 LISDAIALGIEQKPDLILLG 87 (271)
T ss_pred HHHHHHHHHHhcCCCEEEEc
Confidence 34566677788899999988
No 280
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=23.76 E-value=1.9e+02 Score=23.80 Aligned_cols=42 Identities=14% Similarity=0.185 Sum_probs=23.4
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.+..+ ...++|+||+- |... . ......+++++. ++||+++|-
T Consensus 48 ~i~~~-~~~~~DgiIi~-~~~~-----~---~~~~~~~~~~~~----~iPvV~v~~ 89 (298)
T cd06302 48 IIEDL-IAQGVDAIAVV-PNDP-----D---ALEPVLKKAREA----GIKVVTHDS 89 (298)
T ss_pred HHHHH-HhcCCCEEEEe-cCCH-----H---HHHHHHHHHHHC----CCeEEEEcC
Confidence 34443 45689999995 3221 1 112333444442 789999874
No 281
>cd01981 Pchlide_reductase_B Pchlide_reductase_B: B protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=23.71 E-value=1.9e+02 Score=26.01 Aligned_cols=57 Identities=14% Similarity=0.172 Sum_probs=40.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-Cccc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRT 159 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~T 159 (170)
+++.+.|.++.++++++.|+|-- .....-....++.+++.++++. ++||+.++ +-|.
T Consensus 71 ~kL~~~I~~~~~~~~p~~I~v~~----tC~~~iIGdDi~~v~~~~~~~~---~~~vi~v~t~gf~ 128 (430)
T cd01981 71 EKVVENITRKDKEEKPDLIVLTP----TCTSSILQEDLQNFVRAAGLSS---KSPVLPLDVNHYR 128 (430)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeC----CccHHHHhhCHHHHHHHhhhcc---CCCeEEecCCCcc
Confidence 45678899999999999877761 1223345567788888887663 78999886 4454
No 282
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=23.68 E-value=4.8e+02 Score=23.09 Aligned_cols=79 Identities=13% Similarity=-0.012 Sum_probs=42.4
Q ss_pred eEEeEEEEccchhH-HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHH
Q 030836 85 VRPLTVLKLRGEKL-ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 85 a~Pl~~i~~~~~~~-~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA 163 (170)
+.|+.+-...+.+. ...++.+..+-+++.|+|-.+ |........++.+++.+++.- .+.||+.+-.-....++
T Consensus 284 aNplDlgg~a~~~~~~~al~~l~~dp~vd~ilv~i~----gg~~~~~~va~~i~~a~~~~~--~~kPvvv~~~g~~~~~~ 357 (386)
T TIGR01016 284 ANFLDVGGGASAERVREALKLVLSDKSVKVVFINIF----GGITRCDLVAKGLVEALKEVG--VNVPVVVRLEGTNVEEG 357 (386)
T ss_pred CCcEEecCCCCHHHHHHHHHHHHcCCCCCEEEEECC----CCCCCHHHHHHHHHHHHHhcC--CCCcEEEEeCCccHHHH
Confidence 35666522212233 356777777889999998655 333322334445555444321 12677655443455666
Q ss_pred HHHHHc
Q 030836 164 VDRMIN 169 (170)
Q Consensus 164 ~~~L~e 169 (170)
+++|.+
T Consensus 358 ~~~L~~ 363 (386)
T TIGR01016 358 KKILAE 363 (386)
T ss_pred HHHHHH
Confidence 766654
No 283
>TIGR01312 XylB D-xylulose kinase. D-xylulose kinase (XylB) generally is found with xylose isomerase (XylA) and acts in xylose utilization.
Probab=23.67 E-value=2.3e+02 Score=25.39 Aligned_cols=17 Identities=41% Similarity=0.552 Sum_probs=15.7
Q ss_pred EEEecCCCeEEEEEecC
Q 030836 66 LGVDLGLSRTGLALSKG 82 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~ 82 (170)
||||+|+..+=+++.|.
T Consensus 1 lgIDiGtt~ik~~l~d~ 17 (481)
T TIGR01312 1 LGIDLGTSGVKALLVDE 17 (481)
T ss_pred CceeecCcceEEEEECC
Confidence 68999999999999994
No 284
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=23.55 E-value=3e+02 Score=22.89 Aligned_cols=44 Identities=16% Similarity=0.171 Sum_probs=25.5
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
+..+.+...++|+||+- |.. .. ......+.+.+. ++||+++|..
T Consensus 45 ~~i~~l~~~~vDgIIi~-~~~-----~~---~~~~~l~~~~~~----~iPvV~~d~~ 88 (302)
T TIGR02634 45 SQIENLIARGVDVLVII-PQN-----GQ---VLSNAVQEAKDE----GIKVVAYDRL 88 (302)
T ss_pred HHHHHHHHcCCCEEEEe-CCC-----hh---HHHHHHHHHHHC----CCeEEEecCc
Confidence 34444556799999996 211 11 122334445443 7899999854
No 285
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=23.46 E-value=1.1e+02 Score=27.51 Aligned_cols=43 Identities=14% Similarity=0.183 Sum_probs=30.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~ 142 (170)
.+..+.|.++.+++++|.||+|==++..|+.. ..+..-..|.+
T Consensus 99 G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~----~~~~~~~~~~~ 141 (357)
T PRK12652 99 GDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAP----MLQPLERELAR 141 (357)
T ss_pred CCHHHHHHHHHHHcCCCEEEECCCCCCCCCCc----ccchHHHHHHh
Confidence 45678999999999999999996566655533 33444455554
No 286
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=23.38 E-value=2.9e+02 Score=22.84 Aligned_cols=42 Identities=19% Similarity=0.214 Sum_probs=23.4
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
++.+.+..+++|+||+- |.... . ..+.+.+.+. ++||+++|.
T Consensus 108 ~~~~~l~~~~vdgiIi~-~~~~~---~------~~~~~~l~~~----~iPvV~v~~ 149 (328)
T PRK11303 108 RCAEHLLQRQVDALIVS-TSLPP---E------HPFYQRLQND----GLPIIALDR 149 (328)
T ss_pred HHHHHHHHcCCCEEEEc-CCCCC---C------hHHHHHHHhc----CCCEEEECC
Confidence 44445567799999984 22111 1 1223344432 688888874
No 287
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=23.37 E-value=3.4e+02 Score=20.68 Aligned_cols=53 Identities=8% Similarity=-0.143 Sum_probs=36.5
Q ss_pred eEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh
Q 030836 85 VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (170)
Q Consensus 85 a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~ 143 (170)
+.+++++........+++.+.+.+++++.|++- +..+.....++..++.|+++
T Consensus 28 ~~GfeVi~lg~~~s~e~~v~aa~e~~adii~iS------sl~~~~~~~~~~~~~~L~~~ 80 (132)
T TIGR00640 28 DLGFDVDVGPLFQTPEEIARQAVEADVHVVGVS------SLAGGHLTLVPALRKELDKL 80 (132)
T ss_pred hCCcEEEECCCCCCHHHHHHHHHHcCCCEEEEc------CchhhhHHHHHHHHHHHHhc
Confidence 457777764333345567777778899888775 55555666788888888875
No 288
>cd06318 PBP1_ABC_sugar_binding_like_9 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=23.35 E-value=2.5e+02 Score=22.43 Aligned_cols=42 Identities=14% Similarity=0.215 Sum_probs=24.1
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.|.. +...++|+||+. |.. .. .+....+++.+. ++||+++|.
T Consensus 47 ~i~~-~~~~~~Dgiii~-~~~-----~~---~~~~~i~~~~~~----~iPvV~~~~ 88 (282)
T cd06318 47 DVED-LLTRGVNVLIIN-PVD-----PE---GLVPAVAAAKAA----GVPVVVVDS 88 (282)
T ss_pred HHHH-HHHcCCCEEEEe-cCC-----cc---chHHHHHHHHHC----CCCEEEecC
Confidence 3444 456799999996 211 11 012333445443 789998884
No 289
>PRK14463 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=23.24 E-value=3.8e+02 Score=23.91 Aligned_cols=61 Identities=10% Similarity=0.091 Sum_probs=43.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCC---CCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHH
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWD---GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEA 163 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~d---Gt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA 163 (170)
+...+|.+++.+..+ .|=+ +|.+.- +...+..+.+.+|.+.|++. +++++.-.++.+-..|
T Consensus 266 e~~~~L~~ll~~l~~-~vnl-IPyn~~~~~~~~~ps~e~i~~f~~~L~~~----gi~v~vR~~~G~di~a 329 (349)
T PRK14463 266 EDAKRLVRLLSDIPS-KVNL-IPFNEHEGCDFRSPTQEAIDRFHKYLLDK----HVTVITRSSRGSDISA 329 (349)
T ss_pred HHHHHHHHHHhccCc-eEEE-EecCCCCCCCCCCCCHHHHHHHHHHHHHC----CceEEEeCCCCcchhh
Confidence 345688888887665 3333 777653 24556778899999999874 8999988888776655
No 290
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=23.24 E-value=2.4e+02 Score=22.39 Aligned_cols=47 Identities=17% Similarity=0.161 Sum_probs=24.8
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
+.++.+ ..+++|+||+- |...+.. .+ ...+.+.+... ++||+++|-.
T Consensus 46 ~~i~~l-~~~~vdgii~~-~~~~~~~-~~----~~~~~~~~~~~----~ipvV~~~~~ 92 (273)
T cd01541 46 KCLENM-LSQGIDGLIIE-PTKSALP-NP----NIDLYLKLEKL----GIPYVFINAS 92 (273)
T ss_pred HHHHHH-HHcCCCEEEEe-ccccccc-cc----cHHHHHHHHHC----CCCEEEEecC
Confidence 445554 45799999984 3221111 01 11333444332 7888888743
No 291
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.21 E-value=3.2e+02 Score=21.67 Aligned_cols=17 Identities=24% Similarity=0.425 Sum_probs=11.8
Q ss_pred HHHHHHHHcCCCEEEEe
Q 030836 101 QLLEIAQREETDEFIIG 117 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVG 117 (170)
.+.+.+.++++++||+-
T Consensus 46 ~~i~~l~~~~vdgii~~ 62 (269)
T cd06281 46 EILRSFEQRRMDGIIIA 62 (269)
T ss_pred HHHHHHHHcCCCEEEEe
Confidence 44444566899999984
No 292
>PRK08769 DNA polymerase III subunit delta'; Validated
Probab=23.20 E-value=3.1e+02 Score=24.23 Aligned_cols=61 Identities=16% Similarity=0.229 Sum_probs=40.0
Q ss_pred HHcCCCEEEEe-ecCCCCCC---CChhHHHHHHHHHHHHHhhccCCccEEEEc--CcccHHHHHHHHH
Q 030836 107 QREETDEFIIG-LPKSWDGS---ETPQSNKVRSVAGRLAVRAAERGWRVYLLD--EHRTSAEAVDRMI 168 (170)
Q Consensus 107 ~e~~v~~IVVG-lPl~~dGt---~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD--ER~TT~eA~~~L~ 168 (170)
....+|..+|. .|-. .|. .+-..+.||++.+.+...-..-+..|+.+| |++|...|...|+
T Consensus 69 ~g~HPD~~~i~~~p~~-~~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLK 135 (319)
T PRK08769 69 AGTHPDLQLVSFIPNR-TGDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLK 135 (319)
T ss_pred cCCCCCEEEEecCCCc-ccccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHH
Confidence 44578988886 4532 221 223467788888877654211245788888 8999999988775
No 293
>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=23.16 E-value=3.2e+02 Score=20.65 Aligned_cols=58 Identities=14% Similarity=0.079 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCC-CCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSW-DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~-dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+...+.+.+.+++++.+||=-|-.. +.........+..+...|++. ++.++++.+...
T Consensus 83 ~~~~i~~~~~~~~~~~lviD~~~~~~~~~~~~~~~~i~~l~~~l~~~----g~tvi~v~~~~~ 141 (187)
T cd01124 83 LIQRLKDAIEEFKAKRVVIDSVSGLLLMEQSTARLEIRRLLFALKRF----GVTTLLTSEQSG 141 (187)
T ss_pred HHHHHHHHHHHhCCCEEEEeCcHHHhhcChHHHHHHHHHHHHHHHHC----CCEEEEEecccc
Confidence 4567778888899999999987643 222233445556666666653 788888876544
No 294
>PTZ00125 ornithine aminotransferase-like protein; Provisional
Probab=23.16 E-value=2e+02 Score=24.89 Aligned_cols=57 Identities=18% Similarity=0.176 Sum_probs=34.2
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
.+.|.+.++..++..|++--+.++.|..-+..+..++..+..++ +++ +..+||-+|.
T Consensus 167 ~~~le~~l~~~~~~~v~~ep~~~~~G~~~~~~~~l~~l~~l~~~----~~~-lli~Dev~~g 223 (400)
T PTZ00125 167 VEALEKLLQDPNVAAFIVEPIQGEAGVIVPDDGYLKQVYELCKK----YNV-LLIVDEIQTG 223 (400)
T ss_pred HHHHHHHhCCCCeEEEEEcCccCCCCCccCCHHHHHHHHHHHHH----cCC-EEEEeccccC
Confidence 45677777545677888865556667655543434444443333 355 5678998763
No 295
>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=23.10 E-value=2.2e+02 Score=19.90 Aligned_cols=54 Identities=17% Similarity=0.014 Sum_probs=35.4
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
++.+++..++..+-+-.+...+.......+.++.+.+..++.- .-.|.++||--
T Consensus 15 ~~~la~~l~~~~~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~---~~~vl~iDe~d 68 (132)
T PF00004_consen 15 ARALAQYLGFPFIEIDGSELISSYAGDSEQKIRDFFKKAKKSA---KPCVLFIDEID 68 (132)
T ss_dssp HHHHHHHTTSEEEEEETTHHHTSSTTHHHHHHHHHHHHHHHTS---TSEEEEEETGG
T ss_pred HHHHHhhcccccccccccccccccccccccccccccccccccc---cceeeeeccch
Confidence 3444455566667777666555667777788888888766541 14788999743
No 296
>PRK09064 5-aminolevulinate synthase; Validated
Probab=23.06 E-value=2.8e+02 Score=24.20 Aligned_cols=51 Identities=18% Similarity=0.197 Sum_probs=31.7
Q ss_pred HHHHHHHHH---cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 100 LQLLEIAQR---EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 100 ~~L~~li~e---~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+.+.++++. .++..|++--|.+++|..-+ +++..+..++ ++ -+..+||-++
T Consensus 165 ~~le~~l~~~~~~~~~~v~~~~v~s~~G~~~~----l~~i~~l~~~----~~-~~livDEa~~ 218 (407)
T PRK09064 165 AHLEELLAAADPDRPKLIAFESVYSMDGDIAP----IAEICDLADK----YN-ALTYLDEVHA 218 (407)
T ss_pred HHHHHHHHhccCCCCeEEEEeCCCCCCccccC----HHHHHHHHHH----cC-CEEEEECCCc
Confidence 455566553 35667888888899997765 2333333322 24 3678899986
No 297
>PLN02721 threonine aldolase
Probab=23.04 E-value=2.7e+02 Score=23.30 Aligned_cols=55 Identities=11% Similarity=0.036 Sum_probs=30.3
Q ss_pred HHHHHHHHHHc------CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcc
Q 030836 99 ELQLLEIAQRE------ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (170)
Q Consensus 99 ~~~L~~li~e~------~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~ 158 (170)
.+.+.+.++++ ++..|++--|-+..|....-...++++++..++. +++++. ||.+
T Consensus 120 ~~~l~~~i~~~~~~~~~~~~~v~l~~~~~np~G~~~~~~~l~~l~~l~~~~----g~~liv-D~a~ 180 (353)
T PLN02721 120 LDAIEAAIRPKGDDHFPTTRLICLENTHANCGGRCLSVEYTDKVGELAKRH----GLKLHI-DGAR 180 (353)
T ss_pred HHHHHHHHHhccCCCCCcceEEEEeccccccCCccccHHHHHHHHHHHHHc----CCEEEE-Echh
Confidence 56788888753 5556666544443232222234456666555543 666654 8854
No 298
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=22.89 E-value=3.1e+02 Score=21.72 Aligned_cols=41 Identities=12% Similarity=0.169 Sum_probs=22.8
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+.+.+..+++++||+. |.+ .. ......+.+.+. ++||+++|
T Consensus 49 ~i~~~~~~~~dgiIi~-~~~-----~~---~~~~~i~~~~~~----~ipvv~~~ 89 (271)
T cd06321 49 QIDNFIAAKVDLILLN-AVD-----SK---GIAPAVKRAQAA----GIVVVAVD 89 (271)
T ss_pred HHHHHHHhCCCEEEEe-CCC-----hh---HhHHHHHHHHHC----CCeEEEec
Confidence 3333456789999996 321 11 112333445443 78888887
No 299
>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=22.86 E-value=3.5e+02 Score=22.90 Aligned_cols=62 Identities=13% Similarity=0.073 Sum_probs=34.4
Q ss_pred HHHHHHHHHHc-CCCEEEEeecCCCCCCCChh---H-HHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 99 ELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQ---S-NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 99 ~~~L~~li~e~-~v~~IVVGlPl~~dGt~s~~---~-~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.+++.+++.+. ++++|+++ |+.++. + +.=+++.+...+... -.+||+.-=-..+|.+|.+..
T Consensus 23 ~~~~i~~l~~~~Gv~gi~~~------GstGE~~~Lt~~Er~~~~~~~~~~~~-~~~~viagv~~~~~~~ai~~a 89 (288)
T cd00954 23 LRAIVDYLIEKQGVDGLYVN------GSTGEGFLLSVEERKQIAEIVAEAAK-GKVTLIAHVGSLNLKESQELA 89 (288)
T ss_pred HHHHHHHHHhcCCCCEEEEC------cCCcCcccCCHHHHHHHHHHHHHHhC-CCCeEEeccCCCCHHHHHHHH
Confidence 45666666677 99999887 544431 1 111223333333322 146777655557888776654
No 300
>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=22.85 E-value=3e+02 Score=22.41 Aligned_cols=48 Identities=27% Similarity=0.320 Sum_probs=31.0
Q ss_pred ceEEEEecCCCe-----EEEEEecCC-e-eEEeEEEEccch-------hHHHHHHHHHHHcCC
Q 030836 63 GFSLGVDLGLSR-----TGLALSKGF-C-VRPLTVLKLRGE-------KLELQLLEIAQREET 111 (170)
Q Consensus 63 g~iLgID~G~kR-----iGVAvsD~~-~-a~Pl~~i~~~~~-------~~~~~L~~li~e~~v 111 (170)
..+|+||+-+.- +|.|+-++. . ..... ...+.. ....+|+.++++|+.
T Consensus 2 ~~~LslD~STs~~~~~gTG~A~~~~~~~~~~si~-~~~k~Ks~~ER~k~ias~Lk~ii~~~d~ 63 (159)
T PF07066_consen 2 KKVLSLDFSTSSKKGEGTGWAFFKGSDLVVGSIK-AKHKSKSFFERAKSIASELKTIIQKYDL 63 (159)
T ss_pred CeeEEEEEecccCCCCCceeEEecCCeEEEeeee-ecCcccCHHHHHHHHHHHHHHHHHHhCC
Confidence 369999999997 999999743 2 22221 111111 234688989988764
No 301
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: 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). 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. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=22.81 E-value=2.5e+02 Score=25.22 Aligned_cols=61 Identities=11% Similarity=0.061 Sum_probs=40.7
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhcc-CCccEEEEc-Cccc
Q 030836 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE-RGWRVYLLD-EHRT 159 (170)
Q Consensus 95 ~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~-~~lpV~lvD-ER~T 159 (170)
.+++.+.|.++.+.++++.|+|=- .....-....++..++++++++|. .++||+.++ +-|.
T Consensus 66 ~~~L~~~i~~~~~~~~p~~I~v~~----tC~~~liGdDi~~v~~~~~~~~~~~~~~~vi~v~tpgf~ 128 (428)
T cd01965 66 EDNLIEALKNLLSRYKPDVIGVLT----TCLTETIGDDVAGFIKEFRAEGPEPADFPVVYASTPSFK 128 (428)
T ss_pred HHHHHHHHHHHHHhcCCCEEEEEC----CcchhhcCCCHHHHHHHHHhhccCCCCCeEEEeeCCCCC
Confidence 346678899999999999766541 122233445578888888876432 478999885 5444
No 302
>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=22.78 E-value=2e+02 Score=24.07 Aligned_cols=50 Identities=18% Similarity=0.251 Sum_probs=27.6
Q ss_pred HHHHHHHHHcC---CCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh-----hccCCccEEEEcCcc
Q 030836 100 LQLLEIAQREE---TDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR-----AAERGWRVYLLDEHR 158 (170)
Q Consensus 100 ~~L~~li~e~~---v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~-----~~~~~lpV~lvDER~ 158 (170)
+.+.+.+++.. -+.+++++| |..++ +.+-+.|.+. ++-..+-|++.|||+
T Consensus 18 ~~i~~~i~~~~~~~~~~~~i~ls----gGstP-----~~~y~~L~~~~~~~~i~w~~v~~f~~DEr~ 75 (259)
T TIGR00502 18 RHIANRINEFKPTAARPFVLGLP----TGGTP-----IGTYKQLIELHQAGKISFQNVTTFNMDEYA 75 (259)
T ss_pred HHHHHHHHHhCccccCceEEEEc----CCCCh-----HHHHHHHHHHhhccCCchhHeEEEeCeecC
Confidence 45555555522 345778874 55555 3334444331 111246788999996
No 303
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=22.75 E-value=3.3e+02 Score=23.61 Aligned_cols=50 Identities=18% Similarity=0.169 Sum_probs=35.5
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
.-++.+.+++.++|+|++--|.-...+ +......|. .+.+.. ++||++.+
T Consensus 88 ai~lak~a~~~Gad~il~v~PyY~k~~---~~gl~~hf~-~ia~a~---~lPvilYN 137 (299)
T COG0329 88 AIELAKHAEKLGADGILVVPPYYNKPS---QEGLYAHFK-AIAEAV---DLPVILYN 137 (299)
T ss_pred HHHHHHHHHhcCCCEEEEeCCCCcCCC---hHHHHHHHH-HHHHhc---CCCEEEEe
Confidence 457889999999999999999875444 333444444 444443 78998887
No 304
>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=22.75 E-value=2.2e+02 Score=21.37 Aligned_cols=45 Identities=11% Similarity=0.215 Sum_probs=28.8
Q ss_pred EEEEeecCCCCCCCChhH-HHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 113 EFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 113 ~IVVGlPl~~dGt~s~~~-~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
.++|| -|+..+.+ +.+..+++.+++++| +.+|. .-|||...+++|
T Consensus 3 illv~-----fGS~~~~~~~~~~~i~~~l~~~~p--~~~V~---~afts~~i~~~l 48 (127)
T cd03412 3 ILLVS-----FGTSYPTAEKTIDAIEDKVRAAFP--DYEVR---WAFTSRMIRKKL 48 (127)
T ss_pred EEEEe-----CCCCCHHHHHHHHHHHHHHHHHCC--CCeEE---EEecHHHHHHHH
Confidence 46788 58877744 467889999988875 44544 345554444333
No 305
>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=22.75 E-value=3.2e+02 Score=24.35 Aligned_cols=58 Identities=17% Similarity=0.240 Sum_probs=40.8
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhcc--CCccEEEEcC
Q 030836 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE--RGWRVYLLDE 156 (170)
Q Consensus 97 ~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~--~~lpV~lvDE 156 (170)
...++|.++++.|+.|++.|=.=.. +.....+....+|.+.|.+++.+ .+..|+..|=
T Consensus 90 ~~a~kLv~lak~yGfDGw~iN~E~~--~~~~~~~~~l~~F~~~L~~~~~~~~~~~~v~WYDs 149 (339)
T cd06547 90 PVADKLVEVAKYYGFDGWLINIETE--LGDAEKAKRLIAFLRYLKAKLHENVPGSLVIWYDS 149 (339)
T ss_pred HHHHHHHHHHHHhCCCceEeeeecc--CCcHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEec
Confidence 3568999999999999988863111 21345677788888888877632 2567888773
No 306
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=22.71 E-value=2.8e+02 Score=22.03 Aligned_cols=42 Identities=17% Similarity=0.130 Sum_probs=24.5
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+.+.+...++|+||+- |.. . .. ...+++.+. ++||+++|-
T Consensus 54 ~~~~~~l~~~~~dgiii~-~~~--~--~~------~~~~~~~~~----~ipvV~~~~ 95 (275)
T cd06295 54 DWLARYLASGRADGVILI-GQH--D--QD------PLPERLAET----GLPFVVWGR 95 (275)
T ss_pred HHHHHHHHhCCCCEEEEe-CCC--C--Ch------HHHHHHHhC----CCCEEEECC
Confidence 456666677899999883 222 1 11 113344432 788888874
No 307
>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=22.69 E-value=2.6e+02 Score=25.08 Aligned_cols=22 Identities=36% Similarity=0.524 Sum_probs=19.1
Q ss_pred HHHHHHHHHHcCCCEEEEeecC
Q 030836 99 ELQLLEIAQREETDEFIIGLPK 120 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl 120 (170)
.+++.++++++++|.|+|-.|.
T Consensus 177 ~~~l~~~i~~~~id~ViIa~p~ 198 (445)
T TIGR03025 177 LDDLVELVRAHRVDEVIIALPL 198 (445)
T ss_pred HHHHHHHHHhCCCCEEEEecCc
Confidence 4578899999999999999874
No 308
>PRK14478 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional
Probab=22.61 E-value=2.3e+02 Score=26.17 Aligned_cols=53 Identities=17% Similarity=0.137 Sum_probs=38.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+++.+.|.++.++|+++.|+|=- .....-+...++.+++.++++. ++||+.++
T Consensus 105 ~kL~~~I~ei~~~~~P~~I~V~t----TC~~~lIGdDi~~v~~~~~~~~---~~pvi~v~ 157 (475)
T PRK14478 105 KKLFKAIDEIIEKYAPPAVFVYQ----TCVVALIGDDIDAVCKRAAEKF---GIPVIPVN 157 (475)
T ss_pred HHHHHHHHHHHHhcCCCEEEEeC----CChHHHhccCHHHHHHHHHHhh---CCCEEEEE
Confidence 45678899999999999776641 2223334556788888888764 78999887
No 309
>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]
Probab=22.51 E-value=97 Score=27.57 Aligned_cols=40 Identities=15% Similarity=0.279 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHH
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~ 137 (170)
.++.|+.+-.++++..+.||+|..+.+..++.-..++.|.
T Consensus 181 ale~lr~i~d~~Gi~~vLvG~prL~~~l~~~~~~~~rl~s 220 (297)
T COG2842 181 ALEELRRIHDKTGIGVVLVGMPRLFKVLRRPEDELSRLYS 220 (297)
T ss_pred HHHHHHHHHHhhCceEEEecChHHHhccccchHHHHHHHH
Confidence 3578999999999999999999988887777666666654
No 310
>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=22.50 E-value=2.4e+02 Score=24.26 Aligned_cols=58 Identities=19% Similarity=0.161 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHc-CCCEEEEeecCCCC-CCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 98 LELQLLEIAQRE-ETDEFIIGLPKSWD-GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 98 ~~~~L~~li~e~-~v~~IVVGlPl~~d-Gt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
..+.|.+.++++ +-..+||--|.+.. |..-+..+..++..+..++ +++ +..+||-+|-
T Consensus 177 d~~~l~~~l~~~~~~~~~vi~~p~~~~~G~~~~~~~~l~~l~~l~~~----~~~-~li~Dev~~g 236 (413)
T cd00610 177 DLEALEEALEEHPEEVAAVIVEPIQGEGGVIVPPPGYLKALRELCRK----HGI-LLIADEVQTG 236 (413)
T ss_pred HHHHHHHHHhcCCCCEEEEEEccccCCCCCccCCHHHHHHHHHHHHH----cCC-EEEEeccccC
Confidence 346777777664 23355555676544 6544333334444443333 355 4578998763
No 311
>COG4148 ModC ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]
Probab=22.48 E-value=2e+02 Score=26.14 Aligned_cols=87 Identities=10% Similarity=0.125 Sum_probs=52.6
Q ss_pred EEEecCCCeEEEEEecCCeeEEeEEEEccc-----hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCCh------------
Q 030836 66 LGVDLGLSRTGLALSKGFCVRPLTVLKLRG-----EKLELQLLEIAQREETDEFIIGLPKSWDGSETP------------ 128 (170)
Q Consensus 66 LgID~G~kRiGVAvsD~~~a~Pl~~i~~~~-----~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~------------ 128 (170)
+.+=+=.+|||--+-|... +|.-++..+- .....++.+++.--+|+.+.-=+|...+|.+..
T Consensus 69 i~lp~~~RriGYVFQDARL-FpH~tVrgNL~YG~~~~~~~~fd~iv~lLGI~hLL~R~P~~LSGGEkQRVAIGRALLt~P 147 (352)
T COG4148 69 IFLPPEKRRIGYVFQDARL-FPHYTVRGNLRYGMWKSMRAQFDQLVALLGIEHLLDRYPGTLSGGEKQRVAIGRALLTAP 147 (352)
T ss_pred cccChhhheeeeEeecccc-ccceEEecchhhhhcccchHhHHHHHHHhCcHHHHhhCCCccCcchhhHHHHHHHHhcCC
Confidence 4455667889998888543 3444443211 112346677777777777777788888776543
Q ss_pred ---------------hHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 129 ---------------QSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 129 ---------------~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
.-+.+.-|.++|.+.+ ++||.||-.
T Consensus 148 ~LLLmDEPLaSLD~~RK~EilpylERL~~e~---~IPIlYVSH 187 (352)
T COG4148 148 ELLLMDEPLASLDLPRKREILPYLERLRDEI---NIPILYVSH 187 (352)
T ss_pred CeeeecCchhhcccchhhHHHHHHHHHHHhc---CCCEEEEec
Confidence 2234556666666653 677777643
No 312
>COG2410 Predicted nuclease (RNAse H fold) [General function prediction only]
Probab=22.41 E-value=4.5e+02 Score=21.78 Aligned_cols=85 Identities=19% Similarity=0.145 Sum_probs=44.1
Q ss_pred eEEEEecCCCe-EEEEEecCCeeE------------------EeEEEEcc----chhHHHHHHHHHHHcCCCEEEEeecC
Q 030836 64 FSLGVDLGLSR-TGLALSKGFCVR------------------PLTVLKLR----GEKLELQLLEIAQREETDEFIIGLPK 120 (170)
Q Consensus 64 ~iLgID~G~kR-iGVAvsD~~~a~------------------Pl~~i~~~----~~~~~~~L~~li~e~~v~~IVVGlPl 120 (170)
++-|||+|.|| +|+|+--+.... ++..|... ....+..-...+.+|++-. +|+
T Consensus 2 my~GIDla~k~~tavavl~~~~~~~i~~~s~~eeiv~s~~~a~vvaiDAPLs~p~~~~fR~~e~elrk~g~rl----LPl 77 (178)
T COG2410 2 MYAGIDLAVKRSTAVAVLIEGRIEIISAWSSREEIVESCKSAKVVAIDAPLSLPAEGPFRRCELELRKYGARL----LPL 77 (178)
T ss_pred cccccccccCCCceEEEEECCEEEEEEcccccHHHHHHhhccceEEecCCccccccCCchhhHHHHHHcCCcc----CCC
Confidence 57899999888 677765432111 11111110 0112233344444444333 344
Q ss_pred CCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 121 SWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 121 ~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
+.-| .-..+++....++.|... |+||+-.==+
T Consensus 78 ~~pg-Mr~Ls~Rg~~i~r~l~~~----gv~ViEthP~ 109 (178)
T COG2410 78 TFPG-MRELSRRGMSIARLLESE----GVPVIETHPR 109 (178)
T ss_pred Cchh-HHHHHHHHHHHHHHHHhc----CCeEEEecch
Confidence 3323 234667777888888765 8898865433
No 313
>PRK05958 8-amino-7-oxononanoate synthase; Reviewed
Probab=22.35 E-value=3.3e+02 Score=23.01 Aligned_cols=52 Identities=17% Similarity=0.107 Sum_probs=30.8
Q ss_pred HHHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~--~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.++++.. ....+++|-+.+..|...+ +++.++..++. ++ .+.+||-++
T Consensus 155 ~~~l~~~i~~~~~~~~lvi~~~~~~~~G~~~~----l~~i~~ia~~~----~~-~li~De~~~ 208 (385)
T PRK05958 155 VDALEALLAKWRAGRALIVTESVFSMDGDLAP----LAELVALARRH----GA-WLLVDEAHG 208 (385)
T ss_pred HHHHHHHHHhccCCCeEEEEEecccCCCCcCC----HHHHHHHHHHh----CC-EEEEECccc
Confidence 45677777654 3556778877777776554 23333333332 54 456888774
No 314
>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=22.35 E-value=1.7e+02 Score=21.03 Aligned_cols=50 Identities=16% Similarity=0.183 Sum_probs=31.5
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.+.....++..+++..|.+..|...+. +++++...++ ++.+ .+||.++
T Consensus 83 ~~~~~~~~~~~~~v~~~~~~~~~g~~~~~----~~l~~~~~~~----~~~l-i~D~a~~ 132 (170)
T cd01494 83 ILEELKAKPNVALIVITPNTTSGGVLVPL----KEIRKIAKEY----GILL-LVDAASA 132 (170)
T ss_pred hhhhccccCceEEEEEecCcCCCCeEcCH----HHHHHHHHHc----CCEE-EEecccc
Confidence 45455556788999999888877765543 3444443332 5544 4688665
No 315
>cd06315 PBP1_ABC_sugar_binding_like_6 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=22.18 E-value=2.3e+02 Score=22.97 Aligned_cols=43 Identities=14% Similarity=0.032 Sum_probs=24.2
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
++.+.+..+++|+||+= |... +.. ....+.+.+ .++||+++|-
T Consensus 47 ~~i~~l~~~~vdgiil~-~~~~----~~~----~~~~~~~~~----~~iPvV~~d~ 89 (280)
T cd06315 47 AALNQAIALKPDGIVLG-GVDA----AEL----QAELELAQK----AGIPVVGWHA 89 (280)
T ss_pred HHHHHHHHcCCCEEEEc-CCCH----HHH----HHHHHHHHH----CCCCEEEecC
Confidence 44455667899999993 3211 100 122233433 2789999974
No 316
>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=22.13 E-value=3.2e+02 Score=19.99 Aligned_cols=56 Identities=14% Similarity=0.159 Sum_probs=22.9
Q ss_pred HHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 100 LQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 100 ~~L~~li~e~--~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+.+.+.+++. ++..+++++|-..+...........+..+++.++....+..|.++|
T Consensus 67 ~~~i~~i~~~~p~~~ii~~~~~p~~~~~~~~~~~~~n~~l~~~~~~~~~~~~~v~~vd 124 (157)
T cd01833 67 RALIDQMRAANPDVKIIVATLIPTTDASGNARIAEYNAAIPGVVADLRTAGSPVVLVD 124 (157)
T ss_pred HHHHHHHHHhCCCeEEEEEeCCCCCCcchhHHHHHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 3444444444 3444556655433332223333333333333333210123466665
No 317
>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=22.05 E-value=3.9e+02 Score=23.87 Aligned_cols=56 Identities=14% Similarity=0.124 Sum_probs=31.6
Q ss_pred HHHHHHHHHc-CCCEEEEeecCCCCC-CCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 100 LQLLEIAQRE-ETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 100 ~~L~~li~e~-~v~~IVVGlPl~~dG-t~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
..++++..++ +++.|||=+=-.+.+ ........+..+.+.|+....++++||+..-
T Consensus 294 ~~~r~~~~~~~~~~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAke~~i~Vi~ls 351 (421)
T TIGR03600 294 SIARRIKRKKGGLDLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAKELDVPVVLLA 351 (421)
T ss_pred HHHHHHHHhcCCCCEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEec
Confidence 3445555566 688888876433443 2223345555666665543223589988763
No 318
>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=22.02 E-value=3.4e+02 Score=23.63 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=31.6
Q ss_pred HHHHHHHHHc---CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 100 LQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 100 ~~L~~li~e~---~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+.+.++++.. ++..||+--|.+++|..-+ ++++++..++. ++ +..+||-++
T Consensus 164 ~~l~~~l~~~~~~~~~~v~~e~~~~~~G~~~~----l~~i~~l~~~~----~~-~livDea~~ 217 (402)
T TIGR01821 164 AHLEKLLQSVDPNRPKIIAFESVYSMDGDIAP----IEEICDLADKY----GA-LTYLDEVHA 217 (402)
T ss_pred HHHHHHHHhccCCCCeEEEEcCCCCCCCCccC----HHHHHHHHHHc----CC-EEEEeCccc
Confidence 4455666532 4557788888999998776 23333333332 43 677899876
No 319
>PRK13928 rod shape-determining protein Mbl; Provisional
Probab=21.92 E-value=3.4e+02 Score=23.29 Aligned_cols=16 Identities=25% Similarity=0.499 Sum_probs=12.7
Q ss_pred EEEecCCCeEEEEEec
Q 030836 66 LGVDLGLSRTGLALSK 81 (170)
Q Consensus 66 LgID~G~kRiGVAvsD 81 (170)
+|||+|+..+=++..+
T Consensus 6 ~gIDlGt~~~~i~~~~ 21 (336)
T PRK13928 6 IGIDLGTANVLVYVKG 21 (336)
T ss_pred eEEEcccccEEEEECC
Confidence 7888888888887754
No 320
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=21.82 E-value=3e+02 Score=23.12 Aligned_cols=48 Identities=15% Similarity=0.120 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE--EEcCc
Q 030836 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDEH 157 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~--lvDER 157 (170)
..+.+.+.+++.+++.||.| |=....| +.+.+.+.+++ ++..+ +|.+.
T Consensus 73 ~~~~l~~~l~~~gv~~vv~G-----dI~s~~q----r~~~e~vc~~~---gl~~~~PLW~~d 122 (222)
T TIGR00289 73 EVEDLAGQLGELDVEALCIG-----AIESNYQ----KSRIDKVCREL---GLKSIAPLWHAD 122 (222)
T ss_pred HHHHHHHHHHHcCCCEEEEC-----ccccHHH----HHHHHHHHHHc---CCEEeccccCCC
Confidence 45677777788899999999 3333333 44555555543 44433 56533
No 321
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=21.75 E-value=3e+02 Score=21.87 Aligned_cols=43 Identities=21% Similarity=0.251 Sum_probs=24.5
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
..+..++. +++|+||+.- ..... +..-.+.++++ ++||+.+|-
T Consensus 51 ~~~~~~~~-~~vdgiIi~~-----~~~~~----~~~~l~~~~~~----~iPvv~~~~ 93 (272)
T cd06300 51 ADIRNLIA-QGVDAIIINP-----ASPTA----LNPVIEEACEA----GIPVVSFDG 93 (272)
T ss_pred HHHHHHHH-cCCCEEEEeC-----CChhh----hHHHHHHHHHC----CCeEEEEec
Confidence 45555544 5999999972 11111 11223444443 799999884
No 322
>TIGR03275 methan_mark_8 putative methanogenesis marker protein 8. 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.
Probab=21.67 E-value=71 Score=27.92 Aligned_cols=61 Identities=13% Similarity=0.225 Sum_probs=39.9
Q ss_pred CCCCceEEEEecCCCeEEEEEecCCeeEEeEEEEccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHH
Q 030836 59 LWRGGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRS 135 (170)
Q Consensus 59 ~~~~g~iLgID~G~kRiGVAvsD~~~a~Pl~~i~~~~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~ 135 (170)
+...|...|++.|-|||+|-++|. +...+|+++-.+++++.+++|- +.-|-..+-++.+-+
T Consensus 150 Dq~~Gv~~Aie~Gyk~IaVTv~~~--------------~~a~~iRe~e~~~~~~~~if~V--HtTGis~eea~~~~~ 210 (259)
T TIGR03275 150 DQIKGVEKAIELGYKKIAVTVADA--------------EDAKAIRELESESGIDIIIFAV--HTTGIDREDAEEVVQ 210 (259)
T ss_pred cHHHHHHHHHHcCCceEEEEecCH--------------HHHHHHHHhccccCCcEEEEEE--ECCCCCHHHHHHHHH
Confidence 344566778889999999887743 3445677776677888888885 444554444444333
No 323
>cd04502 SGNH_hydrolase_like_7 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=21.57 E-value=3.5e+02 Score=20.21 Aligned_cols=42 Identities=21% Similarity=0.075 Sum_probs=17.4
Q ss_pred CCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 111 TDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 111 v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
+..++++.|-.... .....+++.+-+.+++.... .-.+.++|
T Consensus 90 ~~iil~~~~p~~~~--~~~~~~~~~~n~~~~~~a~~-~~~v~~vD 131 (171)
T cd04502 90 TPIAIISIKPSPAR--WALRPKIRRFNALLKELAET-RPNLTYID 131 (171)
T ss_pred CcEEEEEecCCCcc--hhhHHHHHHHHHHHHHHHhc-CCCeEEEE
Confidence 44555665432221 11223445555555443211 12355665
No 324
>PRK13329 pantothenate kinase; Reviewed
Probab=21.48 E-value=5e+02 Score=21.93 Aligned_cols=18 Identities=28% Similarity=0.351 Sum_probs=16.8
Q ss_pred eEEEEecCCCeEEEEEec
Q 030836 64 FSLGVDLGLSRTGLALSK 81 (170)
Q Consensus 64 ~iLgID~G~kRiGVAvsD 81 (170)
++|-||.|..||=+|+.|
T Consensus 2 m~LliD~GNTriKw~~~~ 19 (249)
T PRK13329 2 TFLAIDVGNTRLKWGLYD 19 (249)
T ss_pred CEEEEEcCcchheeeEec
Confidence 589999999999999998
No 325
>cd08180 PDD 1,3-propanediol dehydrogenase (PPD) catalyzes the reduction of 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol in glycerol metabolism. 1,3-propanediol dehydrogenase (PPD) plays a role in glycerol metabolism of some bacteria in anaerobic conditions. In this degradation pathway, glycerol is converted in a two-step process to 1,3-propanediol (1,3-PD) which is then excreted into the extracellular medium. The first reaction involves the transformation of glycerol into 3-hydroxypropionaldehyde (3-HPA) by a coenzyme B-12-dependent dehydratase. The second reaction involves the dismutation of the 3-hydroxypropionaldehyde (3-HPA) to 1,3-propanediol by the NADH-linked 1,3-propanediol dehydrogenase (PPD). The enzyme require iron ion for its function. Because many genes in this pathway are present in the pdu (propanediol utilisation) operon, they are also named pdu genes. PPD is a member of the iron-containing alcohol dehydrogenase superfamily. The PPD structure has a dehydroquinat
Probab=21.47 E-value=1.6e+02 Score=25.54 Aligned_cols=50 Identities=14% Similarity=0.123 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHcCCCEEE-EeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc
Q 030836 98 LELQLLEIAQREETDEFI-IGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IV-VGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD 155 (170)
...++.+.++++++|.|| || .|+.-..++.+..+..... ...++|++.+-
T Consensus 66 ~v~~~~~~~~~~~~d~IiaiG-----GGs~~D~aKa~a~~~~~~~---~~~~~p~i~VP 116 (332)
T cd08180 66 VVAKGIKKFLDFKPDIVIALG-----GGSAIDAAKAIIYFAKKLG---KKKKPLFIAIP 116 (332)
T ss_pred HHHHHHHHHHhcCCCEEEEEC-----CchHHHHHHHHHHHHhCCC---CCCCCCEEEeC
Confidence 356777888889999988 88 6777666666544432210 11256777664
No 326
>COG3643 Glutamate formiminotransferase [Amino acid transport and metabolism]
Probab=21.46 E-value=1.1e+02 Score=27.07 Aligned_cols=44 Identities=20% Similarity=0.296 Sum_probs=26.7
Q ss_pred CEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 112 DEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 112 ~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.-+|==.|+. |-+..+-.+..+.+++++.+.+ ++||++..+.-|
T Consensus 88 ~DViPfvPl~-d~tteecveiske~gkrvgeel---giPVylYe~aat 131 (302)
T COG3643 88 ADVIPFVPLK-DTTTEECVEISKELGKRVGEEL---GIPVYLYEDAAT 131 (302)
T ss_pred cceeceeecc-cccHHHHHHHHHHHHHHhhHhh---CCcEEEehhhcc
Confidence 3344445654 3333334445566777776664 899999987654
No 327
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.45 E-value=3.8e+02 Score=21.17 Aligned_cols=41 Identities=20% Similarity=0.289 Sum_probs=23.7
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
...+.+..+++|+|++. |.. . .. ...+.+.+. ++||+++|.
T Consensus 46 ~~i~~l~~~~~dgiii~-~~~--~--~~------~~~~~~~~~----~iPvv~~~~ 86 (265)
T cd06285 46 RAIEMLLDRRVDGLILG-DAR--S--DD------HFLDELTRR----GVPFVLVLR 86 (265)
T ss_pred HHHHHHHHcCCCEEEEe-cCC--C--Ch------HHHHHHHHc----CCCEEEEcc
Confidence 44445667899999997 221 1 11 113344432 688888874
No 328
>COG2248 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]
Probab=21.41 E-value=4.1e+02 Score=23.69 Aligned_cols=22 Identities=32% Similarity=0.430 Sum_probs=18.3
Q ss_pred HHHHHHHHHcCCCEEEEeecCC
Q 030836 100 LQLLEIAQREETDEFIIGLPKS 121 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~ 121 (170)
+...+++.++.++.+++|-|..
T Consensus 191 ~~~l~~i~e~~P~v~ii~GPpt 212 (304)
T COG2248 191 DEALEFILEKRPDVLIIGGPPT 212 (304)
T ss_pred cHHHHHHHhcCCCEEEecCCch
Confidence 4566777888999999998876
No 329
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=21.40 E-value=4.4e+02 Score=21.97 Aligned_cols=46 Identities=11% Similarity=0.161 Sum_probs=26.9
Q ss_pred CCeEEEEEecCC---e------------eEEeEEEEcc--chhHHHHHHHHHHHcCCCEEEEe
Q 030836 72 LSRTGLALSKGF---C------------VRPLTVLKLR--GEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 72 ~kRiGVAvsD~~---~------------a~Pl~~i~~~--~~~~~~~L~~li~e~~v~~IVVG 117 (170)
++.|||-+.|.. . ...+.++-.. .....++..+.+.+++||+||+-
T Consensus 1 t~~IGvivp~~~npff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~ 63 (279)
T PF00532_consen 1 TKTIGVIVPDISNPFFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILA 63 (279)
T ss_dssp -CEEEEEESSSTSHHHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEE
T ss_pred CCEEEEEECCCCCcHHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEe
Confidence 467888888831 1 1244444321 11122255567788999999998
No 330
>PRK08574 cystathionine gamma-synthase; Provisional
Probab=21.27 E-value=1.8e+02 Score=25.84 Aligned_cols=53 Identities=13% Similarity=0.020 Sum_probs=34.6
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccH
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT 160 (170)
.+.+.+.+.+.++..|++-.|-|+.|..-+. ++.++..++ ++++| .+||.+++
T Consensus 126 ~~~l~~~i~~~~tklV~ie~p~NPtG~v~dl----~~I~~la~~----~gi~l-ivD~t~a~ 178 (385)
T PRK08574 126 TEDIIEAIKEGRTKLVFIETMTNPTLKVIDV----PEVAKAAKE----LGAIL-VVDNTFAT 178 (385)
T ss_pred HHHHHHhcCccCceEEEEECCCCCCCEecCH----HHHHHHHHH----cCCEE-EEECCCCc
Confidence 3567777765578899998899988876653 333433333 25544 57998754
No 331
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=21.16 E-value=2.9e+02 Score=25.43 Aligned_cols=61 Identities=13% Similarity=0.194 Sum_probs=41.4
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhcc-CCccEEEEc-Cccc
Q 030836 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAE-RGWRVYLLD-EHRT 159 (170)
Q Consensus 95 ~~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~-~~lpV~lvD-ER~T 159 (170)
.+++.+.|.++.+.++++.|+|-- .+...-....+..+++.++++.|. .++||+.+. .-|.
T Consensus 77 ~~~L~~aI~~~~~~~~P~~I~V~t----tC~~eiIGDDi~~v~~~~~~~~p~~~~~pvi~v~tpgF~ 139 (455)
T PRK14476 77 DENVEEAILNICKKAKPKIIGLCT----TGLTETRGDDVAGALKEIRARHPELADTPIVYVSTPDFK 139 (455)
T ss_pred HHHHHHHHHHHHHhhCCCEEEEeC----cchHhhhhccHHHHHHHHHhhccccCCCeEEEecCCCCC
Confidence 346778999999999999887761 122333455678888888876532 268898886 4443
No 332
>PRK07309 aromatic amino acid aminotransferase; Validated
Probab=21.15 E-value=2.9e+02 Score=24.03 Aligned_cols=55 Identities=15% Similarity=0.178 Sum_probs=35.0
Q ss_pred HHHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~--~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.|.+.++++ ++..|++-.|-|..|..-+. ..++++++..++. ++ ++++||.|.
T Consensus 153 ~~~l~~~~~~~~~~~~~i~l~~P~NPtG~~~s~-~~~~~l~~~~~~~----~~-~ii~D~~y~ 209 (391)
T PRK07309 153 PEMLEKAILEQGDKLKAVILNYPANPTGVTYSR-EQIKALADVLKKY----DI-FVISDEVYS 209 (391)
T ss_pred HHHHHHHhhccCCCeEEEEEECCCCCCCcCcCH-HHHHHHHHHHHHc----Cc-EEEEEcccc
Confidence 46777777653 57899998898888864432 3456666555442 44 455677653
No 333
>PRK03692 putative UDP-N-acetyl-D-mannosaminuronic acid transferase; Provisional
Probab=21.04 E-value=3.3e+02 Score=23.08 Aligned_cols=36 Identities=11% Similarity=0.096 Sum_probs=26.0
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhh
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~ 144 (170)
.+++.+-|.+.++|.++||+ |..- . +.|+.+++.++
T Consensus 146 ~~~i~~~I~~s~~dil~Vgl-----G~Pk--Q---E~~~~~~~~~~ 181 (243)
T PRK03692 146 RQALFERIHASGAKIVTVAM-----GSPK--Q---EIFMRDCRLVY 181 (243)
T ss_pred HHHHHHHHHhcCCCEEEEEC-----CCcH--H---HHHHHHHHHhC
Confidence 45688888889999999996 5432 2 45777777664
No 334
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=20.97 E-value=3.3e+02 Score=19.61 Aligned_cols=46 Identities=11% Similarity=0.193 Sum_probs=29.9
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCc
Q 030836 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEH 157 (170)
Q Consensus 100 ~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER 157 (170)
.+..+-++.-++..+||. +..++. .+..+....++ .++||+++|-.
T Consensus 19 kqt~Kai~kg~~~~v~iA------~Da~~~--vv~~l~~lcee----k~Ip~v~V~s~ 64 (84)
T PRK13600 19 KETLKALKKDQVTSLIIA------EDVEVY--LMTRVLSQINQ----KNIPVSFFKSK 64 (84)
T ss_pred HHHHHHHhcCCceEEEEe------CCCCHH--HHHHHHHHHHH----cCCCEEEECCH
Confidence 566677777888899998 333332 34444444444 38999999843
No 335
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=20.81 E-value=3.3e+02 Score=22.61 Aligned_cols=42 Identities=14% Similarity=0.139 Sum_probs=24.2
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 101 ~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
...+.+..+++|+||+- |... . . ....+.+++. ++|++++|.
T Consensus 111 ~~~~~l~~~~vdgiIi~-~~~~--~-~------~~~~~~l~~~----~iPvV~~~~ 152 (342)
T PRK10014 111 QRFSTLLNQGVDGVVIA-GAAG--S-S------DDLREMAEEK----GIPVVFASR 152 (342)
T ss_pred HHHHHHHhCCCCEEEEe-CCCC--C-c------HHHHHHHhhc----CCCEEEEec
Confidence 44444556899999984 3221 1 1 1233444443 789988874
No 336
>TIGR02826 RNR_activ_nrdG3 anaerobic ribonucleoside-triphosphate reductase activating protein. Members of this family represent a set of proteins related to, yet architecturally different from, the activating protein for the glycine radical-containing, oxygen-sensitive ribonucleoside-triphosphate reductase (RNR) as described in model TIGR02491. Members of this family are found paired with members of a similarly divergent set of anaerobic ribonucleoside-triphosphate reductases. Identification of this protein as an RNR activitating protein is partly from pairing with a candidate RNR. It is further supported by our finding that upstream of these operons are examples of a conserved regulatory element (described Rodionov and Gelfand) that is found in nearly all bacteria and that occurs specifically upstream of operons for all three classes of RNR genes.
Probab=20.75 E-value=3.6e+02 Score=20.92 Aligned_cols=44 Identities=14% Similarity=0.094 Sum_probs=29.7
Q ss_pred HHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~--~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
+++.+.+.++ .+..|++. |.+ -+.+.+.++++.++++ ++++.+.
T Consensus 49 eel~~~I~~~~~~~~gVt~S------GGE-l~~~~l~~ll~~lk~~----Gl~i~l~ 94 (147)
T TIGR02826 49 EYLTKTLDKYRSLISCVLFL------GGE-WNREALLSLLKIFKEK----GLKTCLY 94 (147)
T ss_pred HHHHHHHHHhCCCCCEEEEe------chh-cCHHHHHHHHHHHHHC----CCCEEEE
Confidence 4555555554 35677777 555 6777888888888765 6777654
No 337
>CHL00197 carA carbamoyl-phosphate synthase arginine-specific small subunit; Provisional
Probab=20.68 E-value=1.4e+02 Score=27.30 Aligned_cols=47 Identities=11% Similarity=0.114 Sum_probs=25.8
Q ss_pred CceEEEEecCCCeEEEEEecCCeeEE--eEEEEccchhHHHHHHHHHHHcCCCEEEEe
Q 030836 62 GGFSLGVDLGLSRTGLALSKGFCVRP--LTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~~a~P--l~~i~~~~~~~~~~L~~li~e~~v~~IVVG 117 (170)
+.+|+.||+|-|.- +.+-+.... +.+++. ....+.+ ..+++++||+.
T Consensus 192 ~~~I~viD~g~k~n---i~~~L~~~G~~v~vvp~--~~~~~~i----~~~~~dgIilS 240 (382)
T CHL00197 192 QLKIIVIDFGVKYN---ILRRLKSFGCSITVVPA--TSPYQDI----LSYQPDGILLS 240 (382)
T ss_pred CCEEEEEECCcHHH---HHHHHHHCCCeEEEEcC--CCCHHHH----hccCCCEEEEc
Confidence 35899999997752 333222222 233332 1112222 34689999997
No 338
>cd08165 MPP_MPPE1 human MPPE1 and related proteins, metallophosphatase domain. MPPE1 is a functionally uncharacterized metallophosphatase domain-containing protein. The MPPE1 gene is located on chromosome 18 and is a candidate susceptibility gene for Bipolar disorder. MPPE1 belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to
Probab=20.52 E-value=4e+02 Score=20.46 Aligned_cols=21 Identities=10% Similarity=-0.092 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHcCCCEEEEee
Q 030836 98 LELQLLEIAQREETDEFIIGL 118 (170)
Q Consensus 98 ~~~~L~~li~e~~v~~IVVGl 118 (170)
....+.++++++++|.||+.-
T Consensus 26 ~~~~~~~~i~~~~pd~vv~~G 46 (156)
T cd08165 26 MERSFQTSLWLLQPDVVFVLG 46 (156)
T ss_pred HHHHHHHHHHhcCCCEEEECC
Confidence 345788889999999988873
No 339
>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=20.50 E-value=2.7e+02 Score=23.13 Aligned_cols=51 Identities=18% Similarity=0.198 Sum_probs=31.1
Q ss_pred HHHHHHHHH----cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 100 LQLLEIAQR----EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 100 ~~L~~li~e----~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
+.+.+++++ +.+..+++..|-+..|...+. +++.+++ ++. ++ .+.+||-++
T Consensus 118 ~~le~~i~~~~~~~~~~~v~~~~~~~~tG~~~~~-~~i~~~~---~~~----~~-~livD~a~~ 172 (349)
T cd06454 118 EDLEKLLREARRPYGKKLIVTEGVYSMDGDIAPL-PELVDLA---KKY----GA-ILFVDEAHS 172 (349)
T ss_pred HHHHHHHHHhhccCCCeEEEEeccccCCCCccCH-HHHHHHH---HHc----CC-EEEEEcccc
Confidence 467777765 456778888888888877653 3333333 332 43 455788754
No 340
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=20.43 E-value=3.3e+02 Score=24.47 Aligned_cols=23 Identities=35% Similarity=0.413 Sum_probs=19.8
Q ss_pred HHHHHHHHHHcCCCEEEEeecCC
Q 030836 99 ELQLLEIAQREETDEFIIGLPKS 121 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~ 121 (170)
.+++.+++++++++.|+|-.|..
T Consensus 180 ~~dl~~~i~~~~vd~ViIA~p~~ 202 (451)
T TIGR03023 180 LDDLEELIREGEVDEVYIALPLA 202 (451)
T ss_pred HHHHHHHHHhcCCCEEEEeeCcc
Confidence 46789999999999999998853
No 341
>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=20.38 E-value=4.2e+02 Score=22.03 Aligned_cols=52 Identities=15% Similarity=0.174 Sum_probs=31.4
Q ss_pred HHHHHHHHHHc---CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCccc
Q 030836 99 ELQLLEIAQRE---ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (170)
Q Consensus 99 ~~~L~~li~e~---~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~T 159 (170)
.+.|.+.+++. +...|+++-+.++.|...+. +.+.+++ ++ +++ ++.+||-++
T Consensus 132 ~~~l~~~~~~~~~~~~~~v~~~~~~~~~G~~~~~-~~i~~l~---~~----~~~-~li~De~~~ 186 (360)
T TIGR00858 132 VEHLERLLEKNRGERRKLIVTDGVFSMDGDIAPL-PQLVALA---ER----YGA-WLMVDDAHG 186 (360)
T ss_pred HHHHHHHHHHcccCCCeEEEEeCCccCCCCCcCH-HHHHHHH---HH----cCc-EEEEECccc
Confidence 35666766653 46788889888888865543 2233333 22 243 567788765
No 342
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=20.33 E-value=1.9e+02 Score=25.74 Aligned_cols=58 Identities=10% Similarity=0.098 Sum_probs=39.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEc-CcccH
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD-EHRTS 160 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvD-ER~TT 160 (170)
+++.+.|.++.++|+++.|+|-- .....-+-..++.++++++++. ++||+.+. +-|..
T Consensus 73 ~~L~~aI~ei~~~~~P~~I~V~s----TCv~e~IGDDi~~v~~~~~~~~---~~pvi~v~t~gf~g 131 (396)
T cd01979 73 AELDRVVTQIKRDRNPSVIFLIG----SCTTEVIKMDLEGAAPRLSAEI---GVPILVASASGLDY 131 (396)
T ss_pred HHHHHHHHHHHHhcCCCEEEEEC----CCHHHHHhcCHHHHHHHHhhcC---CCcEEEeeCCCccc
Confidence 45667899999999999777761 1222334556778888887653 78888876 44444
No 343
>cd01399 GlcN6P_deaminase GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or deamination. It is the last step of the metabolic pathway of N-acetyl-D-glucosamine-6-phosphate (GlcNAc6P). GlcN6P deaminase is a hexameric enzyme that is allosterically activated by GlcNAc6P.
Probab=20.33 E-value=2.7e+02 Score=22.23 Aligned_cols=53 Identities=15% Similarity=0.137 Sum_probs=26.7
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH-hhccCCccEEEEcCcc
Q 030836 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV-RAAERGWRVYLLDEHR 158 (170)
Q Consensus 99 ~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~-~~~~~~lpV~lvDER~ 158 (170)
...|.+.+++.+ ..+||++ |..++ ....+.+.....+ .+.-.++-|+..|||+
T Consensus 8 a~~l~~~i~~~~--~~~i~ls----gG~T~-~~~~~~l~~~~~~~~~~~~~v~v~~~der~ 61 (232)
T cd01399 8 AELIAELIREKP--PAVLGLA----TGSTP-LGVYEELIELHKEGGLSFSNVTTFNLDEYV 61 (232)
T ss_pred HHHHHHHHHhCC--CcEEEEc----CCCCH-HHHHHHHHHHHHhcCCcHHHeEEEeCceec
Confidence 456777777654 4455552 44443 1222333332100 0111257899999995
No 344
>PF01177 Asp_Glu_race: Asp/Glu/Hydantoin racemase; InterPro: IPR015942 This entry represents a group of related proteins that includes aspartate racemase, glutamate racemase, hydantoin racemase and arylmalonate decarboxylase. Aspartate racemase (5.1.1.13 from EC) and glutamate racemase (5.1.1.3 from EC) are two evolutionary related bacterial enzymes that do not seem to require a cofactor for their activity []. Glutamate racemase, which interconverts L-glutamate into D-glutamate, is required for the biosynthesis of peptidoglycan and some peptide-based antibiotics such as gramicidin S. In addition to characterised aspartate and glutamate racemases, this family also includes a hypothetical protein from Erwinia carotovora and one from Escherichia coli (ygeA). Two conserved cysteines are present in the sequence of these enzymes. They are expected to play a role in catalytic activity by acting as bases in proton abstraction from the substrate.; PDB: 3S7Z_A 3S81_C 3OUT_A 3EIS_B 3IXL_A 3IP8_A 2VLB_D 3DTV_A 3IXM_A 3DG9_A ....
Probab=20.25 E-value=2e+02 Score=22.58 Aligned_cols=39 Identities=18% Similarity=0.245 Sum_probs=23.5
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEE
Q 030836 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY 152 (170)
Q Consensus 102 L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~ 152 (170)
+.+++++.++|.||+| .+.= . .++.+.+.+...+ ++||+
T Consensus 167 ~~~l~~~~~~d~iiLg------Ct~l--~-~~~~~~~~l~~~~---gipVi 205 (216)
T PF01177_consen 167 ARELIKEDGADAIILG------CTHL--P-LLLGAIEALEEEL---GIPVI 205 (216)
T ss_dssp HHHHHHCTTSSEEEEE------STTG--G-GGHHHHHHHHHTC---SSEEE
T ss_pred HHHHhccCCCCEEEEC------CCch--H-HHHHHHHhhcccC---CCEEE
Confidence 3344458899999999 3322 1 1234556666653 67775
No 345
>COG1693 Repressor of nif and glnA expression [Transcription]
Probab=20.24 E-value=80 Score=28.34 Aligned_cols=22 Identities=18% Similarity=0.363 Sum_probs=20.0
Q ss_pred CceEEEEecCCCeEEEEEecCC
Q 030836 62 GGFSLGVDLGLSRTGLALSKGF 83 (170)
Q Consensus 62 ~g~iLgID~G~kRiGVAvsD~~ 83 (170)
..++||+++++.+.|||+.-++
T Consensus 271 ~e~vLGlPv~~~~~GvvviGGl 292 (325)
T COG1693 271 SERVLGLPVADRKVGVVVIGGL 292 (325)
T ss_pred CcceeCcccCCCceEEEEEcCc
Confidence 4689999999999999999875
No 346
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=20.23 E-value=3.4e+02 Score=25.06 Aligned_cols=43 Identities=16% Similarity=0.227 Sum_probs=32.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHh
Q 030836 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (170)
Q Consensus 96 ~~~~~~L~~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~ 143 (170)
+...++|+.+++++++..|.+. |++.+.-.+.+.+|++.|.++
T Consensus 225 e~Vv~Ei~~l~~~~gv~~~~~~-----Dd~f~~~~~~~~~l~~~l~~~ 267 (497)
T TIGR02026 225 KKFVDEIEWLVRTHGVGFFILA-----DEEPTINRKKFQEFCEEIIAR 267 (497)
T ss_pred HHHHHHHHHHHHHcCCCEEEEE-----ecccccCHHHHHHHHHHHHhc
Confidence 3457899999999999998886 554444445678888888765
No 347
>cd00642 GTP_cyclohydro1 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In vertebrates and insects it is the biosynthtic precursor of tetrahydrobiopterin (BH4) which is involved in the formation of catacholamines, nitric oxide, and the stimulation of T lymphocytes. The biosynthetic reaction of BH4 is controlled by a regulatory protein GFRP which mediates feedback inhibition of GTP-CH-I by BH4. This inhibition is reversed by phenylalanine. The decameric GTP-CH-I forms a complex with two pentameric GFRP in the presence of phenylalanine or a combination of GTP and BH4, respectively.
Probab=20.21 E-value=65 Score=26.54 Aligned_cols=39 Identities=28% Similarity=0.247 Sum_probs=27.8
Q ss_pred cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcCcccHHHHHHHH
Q 030836 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (170)
Q Consensus 109 ~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDER~TT~eA~~~L 167 (170)
|-+++-|+|+ |..++.|.-|+++|+- =||+|..-|..+.
T Consensus 91 YiP~~~ViGL--------SKl~RiV~~~arRlQi------------QERLt~qIa~al~ 129 (185)
T cd00642 91 YIPKDKVIGL--------SKLARIVEFFSRRLQV------------QERLTKQIAVAIQ 129 (185)
T ss_pred EecCCeeeeH--------HHHHHHHHHHhcCchH------------HHHHHHHHHHHHH
Confidence 5667788884 6777888888877753 2777777776654
No 348
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=20.14 E-value=3.9e+02 Score=22.06 Aligned_cols=40 Identities=10% Similarity=0.177 Sum_probs=23.4
Q ss_pred HHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHhhccCCccEEEEcC
Q 030836 104 EIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (170)
Q Consensus 104 ~li~e~~v~~IVVGlPl~~dGt~s~~~~~vr~F~~~L~~~~~~~~lpV~lvDE 156 (170)
+-+..+++++|||. |.+ .. .+....+.++. .++||+++|-
T Consensus 51 ~~l~~~~vdgiii~-~~~-----~~---~~~~~~~~~~~----~giPvV~~~~ 90 (303)
T cd01539 51 DTALAKGVDLLAVN-LVD-----PT---AAQTVINKAKQ----KNIPVIFFNR 90 (303)
T ss_pred HHHHHcCCCEEEEe-cCc-----hh---hHHHHHHHHHH----CCCCEEEeCC
Confidence 33456799999996 322 11 12233344544 2899999974
No 349
>PHA02533 17 large terminase protein; Provisional
Probab=20.10 E-value=6.9e+02 Score=23.72 Aligned_cols=61 Identities=8% Similarity=0.025 Sum_probs=40.0
Q ss_pred ccCCCCCceEEEEecCC----CeEEEEEecCCeeEEeEEEEc---cch---hHHHHHHHHHHHcCCCEEEEe
Q 030836 56 KDSLWRGGFSLGVDLGL----SRTGLALSKGFCVRPLTVLKL---RGE---KLELQLLEIAQREETDEFIIG 117 (170)
Q Consensus 56 ~~~~~~~g~iLgID~G~----kRiGVAvsD~~~a~Pl~~i~~---~~~---~~~~~L~~li~e~~v~~IVVG 117 (170)
..|......++|+|++. ...++.|-|.. ..|..++.. +.- ...+.|.++.+.|++..|.|=
T Consensus 308 ~~P~~~~~y~ig~D~a~G~~~D~s~~~V~~~~-~~~~r~v~~~~~~~~~~~~~a~~I~~l~~~Yn~a~i~id 378 (534)
T PHA02533 308 EKPVEGHKYIATLDVSEGRGQDYSALHIIDIT-EYPYKQVAVYHNNTISPLILPDIIVDYLMEYNEAPVYIE 378 (534)
T ss_pred cCCCCCceEEEEEECCCCCCCceeEEEEEccC-CCCcEEEEEEecCCCCHHHHHHHHHHHHHHhCceEEEEe
Confidence 44566777899999984 45566666632 122444442 221 235689999999999988886
No 350
>PHA02542 41 41 helicase; Provisional
Probab=20.06 E-value=3.6e+02 Score=25.14 Aligned_cols=55 Identities=20% Similarity=0.171 Sum_probs=33.2
Q ss_pred HHHHHHHHHcC--CCEEEEeecCCCC-C----CCChhHHHHHHHHHHHHHhhccCCccEEEE
Q 030836 100 LQLLEIAQREE--TDEFIIGLPKSWD-G----SETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (170)
Q Consensus 100 ~~L~~li~e~~--v~~IVVGlPl~~d-G----t~s~~~~~vr~F~~~L~~~~~~~~lpV~lv 154 (170)
..++++..+++ ++.|||=++--|. + ......+.+....+.|+....++++||+..
T Consensus 289 ~~~rrlk~~~g~~~dlVvIDYLqL~~~~~~~~~~~nr~~ei~~Isr~LK~lAkel~vpVi~l 350 (473)
T PHA02542 289 ALLNELKLKKNFKPDVIIVDYLGICASSRLRVSSENSYTYVKAIAEELRGLAVEHDVVVWTA 350 (473)
T ss_pred HHHHHHHHhcCCCCCEEEEechhhccCCcccCCCCChHHHHHHHHHHHHHHHHHhCCeEEEE
Confidence 44555554454 8999999886664 2 112234556666666665433358998764
Done!