Query 033269
Match_columns 123
No_of_seqs 130 out of 1041
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 11:51:58 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033269.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033269hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03652 UPF0081: Uncharacteri 99.9 4.8E-28 1E-32 177.0 8.6 86 35-122 1-96 (135)
2 PRK00109 Holliday junction res 99.9 2.4E-27 5.2E-32 173.9 10.1 87 33-122 2-98 (138)
3 COG0816 Predicted endonuclease 99.9 5.4E-27 1.2E-31 173.4 8.7 87 34-123 1-98 (141)
4 TIGR00250 RNAse_H_YqgF RNAse H 99.9 7.5E-26 1.6E-30 164.5 8.6 82 38-122 1-92 (130)
5 smart00732 YqgFc Likely ribonu 99.5 2.4E-13 5.2E-18 91.6 9.1 84 35-122 1-93 (99)
6 PRK00039 ruvC Holliday junctio 98.3 6E-06 1.3E-10 62.2 8.9 84 34-120 1-104 (164)
7 cd00529 RuvC_resolvase Hollida 97.8 0.00022 4.8E-09 52.7 8.9 84 36-122 1-104 (154)
8 PF02075 RuvC: Crossover junct 97.8 0.00016 3.5E-09 53.5 8.2 80 37-119 1-100 (149)
9 COG2183 Tex Transcriptional ac 97.5 0.00059 1.3E-08 62.2 9.0 99 20-122 314-423 (780)
10 TIGR00228 ruvC crossover junct 97.4 0.00074 1.6E-08 50.9 7.3 80 37-119 1-99 (156)
11 PF14639 YqgF: Holliday-juncti 96.8 0.0058 1.3E-07 45.5 6.7 85 34-122 4-107 (150)
12 COG0817 RuvC Holliday junction 96.5 0.0025 5.3E-08 48.4 3.1 59 38-96 1-73 (160)
13 COG1940 NagC Transcriptional r 95.3 0.093 2E-06 41.9 7.4 86 32-121 3-115 (314)
14 PRK05082 N-acetylmannosamine k 94.4 0.2 4.3E-06 39.6 7.0 83 35-121 1-105 (291)
15 PF04312 DUF460: Protein of un 94.2 0.39 8.4E-06 35.8 7.8 67 33-107 30-101 (138)
16 PF07318 DUF1464: Protein of u 94.1 0.17 3.6E-06 42.7 6.4 54 39-93 1-62 (343)
17 PF01548 DEDD_Tnp_IS110: Trans 93.9 0.14 3E-06 36.3 4.9 76 37-121 1-78 (144)
18 COG1548 Predicted transcriptio 93.9 0.17 3.6E-06 41.9 5.8 83 34-120 2-95 (330)
19 COG1214 Inactive homolog of me 93.3 0.16 3.4E-06 39.8 4.6 82 35-119 1-95 (220)
20 PRK09557 fructokinase; Reviewe 93.2 0.31 6.6E-06 38.8 6.2 81 37-121 2-105 (301)
21 PRK13310 N-acetyl-D-glucosamin 91.8 0.55 1.2E-05 37.3 6.0 81 37-121 2-105 (303)
22 PF14239 RRXRR: RRXRR protein 91.7 0.26 5.6E-06 38.0 3.8 24 33-56 49-72 (176)
23 PRK00292 glk glucokinase; Prov 91.5 0.74 1.6E-05 37.0 6.5 84 34-121 1-100 (316)
24 TIGR03725 bact_YeaZ universal 90.8 0.7 1.5E-05 35.2 5.5 80 37-119 1-91 (202)
25 COG2433 Uncharacterized conser 90.4 0.65 1.4E-05 42.0 5.6 67 35-109 244-311 (652)
26 PRK09698 D-allose kinase; Prov 89.8 1.5 3.2E-05 34.8 6.8 82 35-120 4-112 (302)
27 PRK12408 glucokinase; Provisio 89.7 0.76 1.6E-05 37.7 5.2 89 29-120 10-117 (336)
28 TIGR00744 ROK_glcA_fam ROK fam 89.2 1.1 2.4E-05 35.6 5.6 80 38-121 1-106 (318)
29 PRK13321 pantothenate kinase; 87.2 4.2 9E-05 32.1 7.7 52 37-90 2-64 (256)
30 PRK13311 N-acetyl-D-glucosamin 86.5 2.8 6.2E-05 32.6 6.4 81 37-121 2-105 (256)
31 PRK13320 pantothenate kinase; 85.7 5.8 0.00012 31.4 7.8 71 34-109 1-73 (244)
32 PF00480 ROK: ROK family; Int 85.4 1.1 2.3E-05 32.6 3.3 78 39-120 1-99 (179)
33 PRK13318 pantothenate kinase; 84.8 4.8 0.0001 31.7 7.0 52 37-90 2-64 (258)
34 TIGR00555 panK_eukar pantothen 82.9 5 0.00011 32.8 6.5 74 37-121 2-80 (279)
35 PRK14101 bifunctional glucokin 82.5 2.6 5.6E-05 37.5 5.1 81 34-119 17-113 (638)
36 PRK09604 UGMP family protein; 81.4 6.1 0.00013 32.5 6.6 83 35-120 1-110 (332)
37 PF04848 Pox_A22: Poxvirus A22 81.2 6.5 0.00014 29.2 6.1 52 35-90 1-59 (143)
38 PF05188 MutS_II: MutS domain 80.4 9.3 0.0002 26.1 6.3 48 37-89 3-53 (137)
39 PF03309 Pan_kinase: Type III 79.6 9.6 0.00021 29.0 6.7 70 37-109 1-78 (206)
40 TIGR01865 cas_Csn1 CRISPR-asso 78.5 1.9 4.1E-05 39.9 2.9 23 36-58 2-24 (805)
41 PRK09605 bifunctional UGMP fam 77.0 8.3 0.00018 33.3 6.3 83 35-120 1-107 (535)
42 TIGR01175 pilM type IV pilus a 76.1 26 0.00056 28.2 8.6 89 24-120 176-314 (348)
43 PRK13317 pantothenate kinase; 76.0 9 0.0002 31.0 5.9 27 34-60 1-27 (277)
44 PRK13322 pantothenate kinase; 74.9 13 0.00028 29.5 6.5 74 37-119 2-80 (246)
45 PRK15080 ethanolamine utilizat 74.8 40 0.00087 26.7 9.6 81 34-121 23-124 (267)
46 PF13727 CoA_binding_3: CoA-bi 74.7 8.1 0.00018 27.2 4.8 45 71-119 129-174 (175)
47 TIGR03723 bact_gcp putative gl 74.0 6.8 0.00015 32.0 4.8 81 37-120 1-108 (314)
48 PTZ00340 O-sialoglycoprotein e 71.6 15 0.00033 30.9 6.4 83 35-120 1-108 (345)
49 PRK03011 butyrate kinase; Prov 71.5 23 0.00051 29.7 7.5 60 34-96 1-85 (358)
50 cd01025 TOPRIM_recR TOPRIM_rec 70.9 14 0.00031 26.3 5.3 49 59-107 32-82 (112)
51 PRK10854 exopolyphosphatase; P 70.8 22 0.00048 31.0 7.5 89 30-121 6-118 (513)
52 COG4012 Uncharacterized protei 69.1 25 0.00055 29.4 7.0 71 35-107 1-73 (342)
53 PF00012 HSP70: Hsp70 protein; 67.9 5.1 0.00011 34.6 2.9 19 37-55 1-19 (602)
54 PRK13324 pantothenate kinase; 67.7 35 0.00076 27.4 7.5 76 37-119 2-89 (258)
55 COG1646 Predicted phosphate-bi 67.0 16 0.00036 29.5 5.4 45 73-120 32-77 (240)
56 PF00349 Hexokinase_1: Hexokin 66.4 3.6 7.8E-05 31.9 1.5 40 10-57 46-85 (206)
57 TIGR00749 glk glucokinase, pro 65.6 17 0.00036 29.3 5.3 79 38-120 1-98 (316)
58 PF00582 Usp: Universal stress 64.1 11 0.00025 24.5 3.5 44 73-119 93-139 (140)
59 COG5026 Hexokinase [Carbohydra 63.1 33 0.00072 30.2 6.9 60 34-93 74-157 (466)
60 PTZ00400 DnaK-type molecular c 62.7 13 0.00028 33.5 4.6 40 12-54 21-60 (663)
61 PRK13410 molecular chaperone D 62.3 9.5 0.00021 34.5 3.6 22 34-55 1-22 (668)
62 PRK13326 pantothenate kinase; 61.9 75 0.0016 25.5 8.4 22 35-56 6-27 (262)
63 COG3513 Predicted CRISPR-assoc 61.8 7.7 0.00017 36.8 3.0 24 33-56 2-25 (1088)
64 COG0443 DnaK Molecular chapero 61.3 8.9 0.00019 34.2 3.3 23 34-56 4-26 (579)
65 PF12724 Flavodoxin_5: Flavodo 60.5 13 0.00029 26.4 3.5 29 81-109 42-73 (143)
66 CHL00094 dnaK heat shock prote 59.5 11 0.00024 33.5 3.5 22 34-55 1-22 (621)
67 PRK13411 molecular chaperone D 59.1 12 0.00025 33.7 3.6 22 34-55 1-22 (653)
68 PRK00290 dnaK molecular chaper 58.7 12 0.00026 33.3 3.6 22 34-55 1-22 (627)
69 PRK09472 ftsA cell division pr 58.3 31 0.00066 29.2 5.8 57 35-91 8-84 (420)
70 PRK09982 universal stress prot 56.4 35 0.00077 23.8 5.1 43 73-119 94-137 (142)
71 PF02844 GARS_N: Phosphoribosy 56.3 42 0.0009 23.5 5.3 40 70-117 49-90 (100)
72 PRK13328 pantothenate kinase; 55.9 56 0.0012 26.0 6.7 78 36-120 2-82 (255)
73 PF07066 DUF3882: Lactococcus 55.0 8 0.00017 29.3 1.6 49 34-83 1-63 (159)
74 PF11104 PilM_2: Type IV pilus 55.0 27 0.00058 28.4 4.8 53 39-91 1-70 (340)
75 PF00370 FGGY_N: FGGY family o 55.0 23 0.0005 27.0 4.3 24 36-59 1-24 (245)
76 PRK10939 autoinducer-2 (AI-2) 54.9 18 0.00039 31.2 4.0 25 34-58 2-26 (520)
77 PTZ00294 glycerol kinase-like 54.7 18 0.00038 31.1 3.9 25 34-58 1-25 (504)
78 TIGR00329 gcp_kae1 metallohydr 54.7 38 0.00083 27.4 5.7 80 38-120 1-107 (305)
79 cd00950 DHDPS Dihydrodipicolin 54.6 31 0.00067 27.2 5.0 45 73-120 86-133 (284)
80 TIGR01769 GGGP geranylgeranylg 53.8 44 0.00096 26.0 5.7 44 73-119 15-59 (205)
81 PRK13844 recombination protein 53.7 29 0.00063 27.2 4.6 34 72-105 127-162 (200)
82 TIGR03192 benz_CoA_bzdQ benzoy 53.1 22 0.00048 29.4 4.1 61 19-82 16-82 (293)
83 TIGR00671 baf pantothenate kin 53.0 73 0.0016 25.1 6.9 68 37-109 1-74 (243)
84 PTZ00186 heat shock 70 kDa pre 52.9 22 0.00049 32.2 4.4 22 34-55 26-47 (657)
85 PF07520 SrfB: Virulence facto 51.0 15 0.00032 35.3 3.0 49 7-55 525-586 (1002)
86 TIGR00615 recR recombination p 50.8 37 0.00079 26.6 4.7 35 72-106 123-159 (195)
87 PF14450 FtsA: Cell division p 49.6 20 0.00044 24.9 2.9 20 37-56 1-20 (120)
88 TIGR00674 dapA dihydrodipicoli 48.0 46 0.001 26.4 5.1 45 73-120 84-131 (285)
89 PRK00047 glpK glycerol kinase; 46.6 26 0.00057 30.0 3.7 23 36-58 6-28 (498)
90 TIGR01766 tspaseT_teng_C trans 46.1 70 0.0015 20.3 4.9 49 73-122 15-79 (82)
91 PF02310 B12-binding: B12 bind 45.8 55 0.0012 21.9 4.6 43 73-117 42-85 (121)
92 cd00293 USP_Like Usp: Universa 45.5 44 0.00094 21.4 3.9 44 72-118 82-129 (130)
93 PRK10116 universal stress prot 45.5 71 0.0015 21.7 5.2 44 73-119 93-137 (142)
94 PF06050 HGD-D: 2-hydroxygluta 45.3 28 0.00061 27.7 3.5 45 73-120 277-324 (349)
95 TIGR01174 ftsA cell division p 45.2 70 0.0015 26.2 5.9 55 37-91 2-76 (371)
96 PTZ00107 hexokinase; Provision 44.9 24 0.00052 30.8 3.2 40 10-57 57-96 (464)
97 PRK15118 universal stress glob 44.9 72 0.0016 21.8 5.2 42 73-120 94-138 (144)
98 PRK03170 dihydrodipicolinate s 44.5 57 0.0012 25.9 5.1 45 73-120 87-134 (292)
99 PF00701 DHDPS: Dihydrodipicol 44.4 43 0.00093 26.5 4.4 45 73-120 87-134 (289)
100 PRK15027 xylulokinase; Provisi 44.0 27 0.00057 29.8 3.3 24 36-59 1-24 (484)
101 PLN02669 xylulokinase 43.7 38 0.00081 29.9 4.3 28 31-58 4-31 (556)
102 cd01988 Na_H_Antiporter_C The 43.1 38 0.00082 22.4 3.4 44 73-119 85-131 (132)
103 PRK01433 hscA chaperone protei 42.9 33 0.00072 30.6 3.9 20 34-53 18-37 (595)
104 TIGR01175 pilM type IV pilus a 42.9 1.2E+02 0.0026 24.3 6.8 59 35-93 3-78 (348)
105 TIGR00241 CoA_E_activ CoA-subs 42.6 58 0.0013 25.2 4.8 21 37-58 2-22 (248)
106 PF03932 CutC: CutC family; I 42.0 35 0.00076 26.6 3.5 35 77-118 80-119 (201)
107 PLN03184 chloroplast Hsp70; Pr 41.7 32 0.0007 31.1 3.6 22 34-55 38-59 (673)
108 PRK11104 hemG protoporphyrinog 40.8 46 0.00099 24.8 3.8 33 83-117 47-82 (177)
109 PRK04123 ribulokinase; Provisi 40.6 37 0.00081 29.4 3.7 22 36-57 4-26 (548)
110 KOG1220 Phosphoglucomutase/pho 40.4 39 0.00085 30.7 3.9 35 84-121 103-138 (607)
111 COG0248 GppA Exopolyphosphatas 40.1 1E+02 0.0022 27.3 6.3 85 34-121 2-110 (492)
112 KOG4013 Predicted Cu2+ homeost 39.4 41 0.00089 27.0 3.5 42 74-119 86-129 (255)
113 PF05378 Hydant_A_N: Hydantoin 39.3 57 0.0012 24.5 4.1 51 38-89 2-63 (176)
114 COG1924 Activator of 2-hydroxy 39.3 60 0.0013 28.1 4.6 32 30-61 130-161 (396)
115 PRK11678 putative chaperone; P 39.2 34 0.00074 29.5 3.3 18 37-54 2-19 (450)
116 PRK10331 L-fuculokinase; Provi 38.7 38 0.00083 28.7 3.5 23 36-58 3-25 (470)
117 cd06294 PBP1_ycjW_transcriptio 38.7 48 0.001 24.6 3.7 41 73-121 51-91 (270)
118 PLN02295 glycerol kinase 38.5 39 0.00084 29.2 3.5 23 37-59 2-24 (512)
119 TIGR02628 fuculo_kin_coli L-fu 38.0 41 0.00088 28.6 3.5 23 36-58 2-24 (465)
120 TIGR02529 EutJ ethanolamine ut 38.0 1.4E+02 0.003 23.2 6.3 68 39-106 1-85 (239)
121 TIGR01314 gntK_FGGY gluconate 38.0 39 0.00085 29.0 3.4 23 37-59 2-24 (505)
122 TIGR02350 prok_dnaK chaperone 37.4 38 0.00082 29.8 3.3 20 36-55 1-20 (595)
123 PF13911 AhpC-TSA_2: AhpC/TSA 37.0 67 0.0014 21.6 3.9 37 75-121 6-44 (115)
124 cd00458 SugarP_isomerase Sugar 36.9 50 0.0011 24.3 3.5 46 73-122 11-59 (169)
125 PLN02362 hexokinase 36.9 37 0.0008 30.1 3.1 39 10-56 78-116 (509)
126 TIGR01311 glycerol_kin glycero 36.5 44 0.00096 28.6 3.5 24 36-59 2-25 (493)
127 PRK00076 recR recombination pr 36.5 1E+02 0.0023 24.0 5.3 34 73-107 125-159 (196)
128 TIGR00683 nanA N-acetylneurami 36.4 94 0.002 24.9 5.3 46 73-120 87-135 (290)
129 TIGR01315 5C_CHO_kinase FGGY-f 36.3 42 0.00091 29.2 3.4 23 37-59 2-24 (541)
130 PRK04169 geranylgeranylglycery 36.1 1E+02 0.0022 24.5 5.3 40 76-119 26-66 (232)
131 COG0353 RecR Recombinational D 36.1 84 0.0018 24.8 4.7 39 71-109 123-163 (198)
132 PRK10124 putative UDP-glucose 35.7 93 0.002 26.8 5.4 36 73-108 194-229 (463)
133 COG2205 KdpD Osmosensitive K+ 35.7 70 0.0015 30.4 4.8 50 70-121 320-374 (890)
134 cd00408 DHDPS-like Dihydrodipi 35.4 98 0.0021 24.2 5.1 45 73-120 83-130 (281)
135 TIGR03025 EPS_sugtrans exopoly 35.3 94 0.002 26.1 5.3 36 73-108 179-214 (445)
136 TIGR02313 HpaI-NOT-DapA 2,4-di 35.2 96 0.0021 24.9 5.1 46 73-120 86-134 (294)
137 cd06297 PBP1_LacI_like_12 Liga 35.2 66 0.0014 24.3 4.0 40 73-121 46-86 (269)
138 COG1070 XylB Sugar (pentulose 35.2 58 0.0013 28.1 4.1 22 34-55 3-24 (502)
139 PRK13331 pantothenate kinase; 35.1 56 0.0012 26.2 3.7 24 34-57 6-29 (251)
140 PRK04147 N-acetylneuraminate l 35.0 1E+02 0.0022 24.6 5.2 45 73-120 90-137 (293)
141 COG1693 Repressor of nif and g 35.0 61 0.0013 27.2 4.0 48 11-58 239-295 (325)
142 PRK14878 UGMP family protein; 34.8 42 0.0009 27.5 3.0 80 38-120 1-103 (323)
143 TIGR03023 WcaJ_sugtrans Undeca 34.3 96 0.0021 26.1 5.2 35 73-107 182-216 (451)
144 PLN02405 hexokinase 34.3 42 0.00091 29.7 3.1 39 10-56 78-116 (497)
145 PF01012 ETF: Electron transfe 33.9 77 0.0017 22.7 4.0 33 73-109 81-113 (164)
146 TIGR02260 benz_CoA_red_B benzo 33.9 98 0.0021 26.5 5.2 44 73-119 341-387 (413)
147 PRK11031 guanosine pentaphosph 33.9 2.2E+02 0.0048 24.7 7.5 85 34-121 5-113 (496)
148 PF06723 MreB_Mbl: MreB/Mbl pr 33.8 67 0.0015 26.7 4.1 26 36-61 2-27 (326)
149 PLN02914 hexokinase 33.3 44 0.00095 29.5 3.0 39 10-56 78-116 (490)
150 PRK05183 hscA chaperone protei 33.1 50 0.0011 29.5 3.4 21 35-55 19-39 (616)
151 PRK13917 plasmid segregation p 32.9 47 0.001 27.4 3.0 21 34-54 1-21 (344)
152 TIGR03706 exo_poly_only exopol 32.6 2.3E+02 0.0051 22.6 7.0 82 37-121 2-107 (300)
153 PLN02596 hexokinase-like 32.5 46 0.001 29.4 3.1 39 11-57 80-118 (490)
154 PTZ00009 heat shock 70 kDa pro 32.3 48 0.001 29.8 3.2 21 35-55 4-24 (653)
155 cd00954 NAL N-Acetylneuraminic 32.3 1.3E+02 0.0027 24.0 5.3 46 73-120 87-135 (288)
156 PF00072 Response_reg: Respons 32.3 1.1E+02 0.0025 19.3 4.3 44 73-119 34-77 (112)
157 COG4457 SrfB Uncharacterized p 31.9 28 0.00062 32.7 1.7 48 7-54 532-592 (1014)
158 TIGR01312 XylB D-xylulose kina 31.5 38 0.00083 28.4 2.3 22 38-59 1-22 (481)
159 COG4820 EutJ Ethanolamine util 30.8 3E+02 0.0064 22.5 8.2 61 34-109 28-89 (277)
160 COG2441 Predicted butyrate kin 30.5 44 0.00096 28.3 2.5 55 38-93 1-68 (374)
161 PF02636 Methyltransf_28: Puta 30.5 33 0.00072 26.7 1.7 29 13-44 169-197 (252)
162 PRK05399 DNA mismatch repair p 30.5 1.8E+02 0.0039 27.3 6.6 51 33-89 127-178 (854)
163 TIGR03190 benz_CoA_bzdN benzoy 30.5 1.2E+02 0.0027 25.2 5.2 44 73-120 304-350 (377)
164 COG3703 ChaC Uncharacterized p 30.3 67 0.0015 25.1 3.3 23 33-55 56-78 (190)
165 PF07355 GRDB: Glycine/sarcosi 30.1 1E+02 0.0022 26.3 4.6 42 73-117 71-115 (349)
166 TIGR01234 L-ribulokinase L-rib 29.7 67 0.0014 27.9 3.6 22 36-57 2-24 (536)
167 PRK13930 rod shape-determining 29.7 51 0.0011 26.3 2.7 19 35-53 8-26 (335)
168 PRK06242 flavodoxin; Provision 29.3 81 0.0017 22.0 3.4 24 82-105 43-69 (150)
169 PF13407 Peripla_BP_4: Peripla 29.2 85 0.0018 23.3 3.7 42 73-121 47-88 (257)
170 KOG0104 Molecular chaperones G 28.6 58 0.0013 30.8 3.1 34 29-66 16-49 (902)
171 PRK00865 glutamate racemase; P 28.1 1.3E+02 0.0028 23.7 4.7 39 73-118 58-96 (261)
172 COG2971 Predicted N-acetylgluc 28.0 85 0.0018 26.2 3.7 27 33-59 3-29 (301)
173 PRK13929 rod-share determining 27.9 3.1E+02 0.0066 22.2 7.0 59 36-96 5-70 (335)
174 PF01385 OrfB_IS605: Probable 27.6 43 0.00092 24.7 1.8 24 31-54 120-143 (227)
175 smart00842 FtsA Cell division 27.6 57 0.0012 24.1 2.4 55 37-91 1-75 (187)
176 TIGR03286 methan_mark_15 putat 27.5 1.5E+02 0.0033 25.7 5.2 24 34-58 143-166 (404)
177 PRK15005 universal stress prot 27.4 94 0.002 21.1 3.4 44 73-119 98-143 (144)
178 PF08426 ICE2: ICE2; InterPro 27.4 7.5 0.00016 33.7 -2.6 19 38-56 19-37 (412)
179 PRK00170 azoreductase; Reviewe 27.3 1.3E+02 0.0028 22.0 4.3 34 85-120 5-42 (201)
180 PF03237 Terminase_6: Terminas 27.1 2.5E+02 0.0054 21.6 6.1 72 33-109 224-306 (384)
181 PRK14837 undecaprenyl pyrophos 27.1 66 0.0014 25.7 2.8 35 11-45 103-137 (230)
182 PRK13329 pantothenate kinase; 27.0 2.8E+02 0.0061 21.9 6.4 74 36-119 2-83 (249)
183 COG4126 Hydantoin racemase [Am 27.0 76 0.0017 25.6 3.2 37 73-117 165-201 (230)
184 TIGR03722 arch_KAE1 universal 26.7 1.2E+02 0.0027 24.6 4.5 80 38-120 1-104 (322)
185 PRK15456 universal stress prot 26.6 51 0.0011 22.7 1.9 43 73-119 96-141 (142)
186 PRK10490 sensor protein KdpD; 26.5 1.1E+02 0.0024 28.6 4.5 49 70-120 322-373 (895)
187 PF01884 PcrB: PcrB family; I 26.4 1.5E+02 0.0033 23.6 4.8 44 73-120 23-66 (230)
188 cd00952 CHBPH_aldolase Trans-o 26.2 1.7E+02 0.0037 23.7 5.2 46 73-120 94-142 (309)
189 cd06320 PBP1_allose_binding Pe 26.0 1.5E+02 0.0034 22.0 4.6 37 78-120 53-89 (275)
190 PRK12359 flavodoxin FldB; Prov 26.0 44 0.00095 25.2 1.6 24 86-109 138-168 (172)
191 cd01715 ETF_alpha The electron 26.0 68 0.0015 23.3 2.6 33 73-109 74-106 (168)
192 PRK03620 5-dehydro-4-deoxygluc 25.9 1.8E+02 0.0038 23.5 5.2 45 73-120 92-139 (303)
193 PF06180 CbiK: Cobalt chelatas 25.6 1.2E+02 0.0026 24.5 4.1 51 58-110 76-136 (262)
194 cd00951 KDGDH 5-dehydro-4-deox 25.6 1.8E+02 0.0039 23.2 5.1 45 73-120 85-132 (289)
195 TIGR03123 one_C_unchar_1 proba 25.6 2.8E+02 0.006 23.1 6.4 75 38-119 1-92 (318)
196 cd01545 PBP1_SalR Ligand-bindi 25.3 1.6E+02 0.0035 21.7 4.6 40 73-120 47-87 (270)
197 COG0151 PurD Phosphoribosylami 25.3 1.1E+02 0.0024 26.8 4.0 43 70-115 50-117 (428)
198 PF06490 FleQ: Flagellar regul 25.2 1.4E+02 0.0031 20.4 4.0 39 78-122 38-78 (109)
199 TIGR00055 uppS undecaprenyl di 25.0 70 0.0015 25.4 2.6 35 11-45 96-130 (226)
200 TIGR02259 benz_CoA_red_A benzo 24.9 88 0.0019 27.4 3.4 25 34-58 1-25 (432)
201 cd01987 USP_OKCHK USP domain i 24.8 63 0.0014 21.4 2.1 21 73-93 76-96 (124)
202 PF01297 TroA: Periplasmic sol 24.7 1E+02 0.0022 23.7 3.5 44 70-121 186-230 (256)
203 TIGR01768 GGGP-family geranylg 24.5 2.3E+02 0.0049 22.5 5.4 43 73-119 18-61 (223)
204 COG0145 HyuA N-methylhydantoin 24.4 2E+02 0.0043 26.5 5.7 55 34-89 1-64 (674)
205 PRK14839 undecaprenyl pyrophos 24.4 73 0.0016 25.6 2.7 35 11-45 106-140 (239)
206 TIGR02263 benz_CoA_red_C benzo 24.3 1.7E+02 0.0037 24.5 4.9 46 71-120 309-358 (380)
207 PRK11572 copper homeostasis pr 24.3 1E+02 0.0022 24.9 3.5 40 76-118 80-120 (248)
208 cd06307 PBP1_uncharacterized_s 24.2 2.5E+02 0.0053 21.0 5.5 41 73-121 51-91 (275)
209 COG0329 DapA Dihydrodipicolina 24.1 2E+02 0.0043 23.4 5.2 45 73-120 90-137 (299)
210 KOG3062 RNA polymerase II elon 23.7 1.3E+02 0.0028 24.9 3.9 35 85-121 4-39 (281)
211 PRK13111 trpA tryptophan synth 23.6 2.5E+02 0.0055 22.4 5.7 44 73-118 30-94 (258)
212 PF00101 RuBisCO_small: Ribulo 23.6 1.1E+02 0.0023 21.3 3.1 30 21-51 62-93 (99)
213 cd00248 Mth938-like Mth938-lik 23.5 2.1E+02 0.0045 19.7 4.5 40 73-120 43-86 (109)
214 cd06317 PBP1_ABC_sugar_binding 23.2 1.7E+02 0.0037 21.6 4.4 41 73-120 48-88 (275)
215 PRK05463 hypothetical protein; 23.1 1.6E+02 0.0035 24.1 4.4 96 12-121 38-137 (262)
216 cd01989 STK_N The N-terminal d 22.7 76 0.0016 21.7 2.2 44 73-119 94-143 (146)
217 cd06305 PBP1_methylthioribose_ 22.6 2E+02 0.0042 21.3 4.6 42 73-121 47-88 (273)
218 COG1697 DNA topoisomerase VI, 22.5 1.6E+02 0.0035 25.2 4.4 40 74-119 195-240 (356)
219 TIGR01198 pgl 6-phosphoglucono 22.3 1.4E+02 0.003 23.2 3.8 46 73-122 19-65 (233)
220 PRK09267 flavodoxin FldA; Vali 22.3 1.4E+02 0.0031 21.4 3.7 24 82-105 46-73 (169)
221 PRK14838 undecaprenyl pyrophos 22.1 83 0.0018 25.2 2.6 36 11-46 105-140 (242)
222 cd06271 PBP1_AglR_RafR_like Li 22.1 1.2E+02 0.0025 22.4 3.2 40 73-121 50-90 (268)
223 COG0031 CysK Cysteine synthase 22.0 1.9E+02 0.0041 24.0 4.7 33 83-121 170-204 (300)
224 cd06292 PBP1_LacI_like_10 Liga 22.0 2.3E+02 0.005 21.0 4.9 43 73-120 46-90 (273)
225 PRK14841 undecaprenyl pyrophos 21.9 91 0.002 24.8 2.8 35 11-45 100-134 (233)
226 PRK15411 rcsA colanic acid cap 21.9 2.3E+02 0.0049 21.3 4.9 42 73-119 38-83 (207)
227 PF03464 eRF1_2: eRF1 domain 2 21.7 1E+02 0.0022 21.8 2.7 70 37-109 4-97 (133)
228 PF01177 Asp_Glu_race: Asp/Glu 21.7 1.1E+02 0.0025 22.4 3.1 38 73-117 166-205 (216)
229 cd01399 GlcN6P_deaminase GlcN6 21.6 84 0.0018 23.6 2.4 46 73-122 10-60 (232)
230 PRK13927 rod shape-determining 21.5 1.1E+02 0.0024 24.4 3.2 22 34-55 4-25 (334)
231 cd04731 HisF The cyclase subun 21.5 1E+02 0.0022 23.7 2.9 34 73-106 207-241 (243)
232 PF01869 BcrAD_BadFG: BadF/Bad 21.2 1.4E+02 0.003 23.1 3.7 23 38-60 1-23 (271)
233 TIGR01991 HscA Fe-S protein as 21.0 87 0.0019 27.9 2.7 18 37-54 1-18 (599)
234 COG3854 SpoIIIAA ncharacterize 20.8 2.3E+02 0.0049 23.6 4.8 48 76-123 131-180 (308)
235 TIGR00904 mreB cell shape dete 20.8 92 0.002 25.1 2.6 16 38-53 5-20 (333)
236 PTZ00288 glucokinase 1; Provis 20.7 2.8E+02 0.006 23.8 5.6 21 34-54 25-45 (405)
237 PRK13790 phosphoribosylamine-- 20.6 2.7E+02 0.0059 23.1 5.4 33 70-106 14-48 (379)
238 cd06311 PBP1_ABC_sugar_binding 20.5 2.8E+02 0.006 20.7 5.1 42 73-120 51-92 (274)
239 TIGR03022 WbaP_sugtrans Undeca 20.5 2.5E+02 0.0054 23.7 5.3 35 73-107 179-213 (456)
240 KOG1177 Long chain fatty acid 20.4 3.3E+02 0.0072 24.8 6.1 48 49-96 468-524 (596)
241 TIGR03739 PRTRC_D PRTRC system 20.4 78 0.0017 25.6 2.1 27 81-107 100-127 (320)
242 cd06282 PBP1_GntR_like_2 Ligan 20.3 1.7E+02 0.0038 21.4 3.9 35 78-120 51-86 (266)
243 COG1537 PelA Predicted RNA-bin 20.3 5.5E+02 0.012 22.0 8.1 94 22-120 120-225 (352)
244 COG0079 HisC Histidinol-phosph 20.3 1.5E+02 0.0031 24.8 3.7 43 73-122 137-185 (356)
245 cd05785 DNA_polB_like2_exo Unc 20.3 2.3E+02 0.0049 21.7 4.6 18 72-90 62-80 (207)
246 PF03630 Fumble: Fumble ; Int 20.2 2.5E+02 0.0054 23.6 5.1 77 37-121 2-114 (341)
No 1
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=99.95 E-value=4.8e-28 Score=177.01 Aligned_cols=86 Identities=34% Similarity=0.542 Sum_probs=80.0
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhcCcCeEEEeccCC-ChH------HHHHHHHH
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKHKVLGMVVNMPKE-HHE------HVSSFIEQ 104 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~~i~~iVVGlP~~-dGt------~v~~f~~~ 104 (123)
||+||||||+||||+|+||+.+.+|+|+.++.+.+ .++ .|.+++++|++++||||+|++ ||+ .+++|+++
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 79999999999999999999999999999999654 457 999999999999999999999 998 99999999
Q ss_pred HhhcccCCCCCEEEecCC
Q 033269 105 LDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 105 L~~~~~~~~lpV~l~DEr 122 (123)
|+++++ ++||++||||
T Consensus 81 L~~~~~--~ipV~~~DEr 96 (135)
T PF03652_consen 81 LKKRFP--GIPVILVDER 96 (135)
T ss_dssp HHHHH---TSEEEEEECS
T ss_pred HHHhcC--CCcEEEECCC
Confidence 999997 8999999998
No 2
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=99.95 E-value=2.4e-27 Score=173.90 Aligned_cols=87 Identities=33% Similarity=0.561 Sum_probs=81.2
Q ss_pred CCceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhcCcCeEEEeccCC-ChH------HHHHHH
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKHKVLGMVVNMPKE-HHE------HVSSFI 102 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~~i~~iVVGlP~~-dGt------~v~~f~ 102 (123)
++|++||||||+||||+|+||+.+.+|+|+.++.+.+ .++ .|.+++++|++++||||+|++ ||+ .+++|+
T Consensus 2 ~~~~iLalD~G~kriGvAv~d~~~~~a~pl~~i~~~~~~~~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~ 81 (138)
T PRK00109 2 PSGRILGLDVGTKRIGVAVSDPLGGTAQPLETIKRNNGTPDWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFA 81 (138)
T ss_pred CCCcEEEEEeCCCEEEEEEecCCCCEEcCEEEEEcCCCchHHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHH
Confidence 4688999999999999999999999999999998754 347 999999999999999999999 998 889999
Q ss_pred HHHhhcccCCCCCEEEecCC
Q 033269 103 EQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 103 ~~L~~~~~~~~lpV~l~DEr 122 (123)
++|++++ ++||++||||
T Consensus 82 ~~L~~~~---~~~v~~~DEr 98 (138)
T PRK00109 82 NRLEGRF---GLPVVLVDER 98 (138)
T ss_pred HHHHHHh---CCCEEEEcCC
Confidence 9999988 8999999998
No 3
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=99.94 E-value=5.4e-27 Score=173.42 Aligned_cols=87 Identities=31% Similarity=0.482 Sum_probs=81.7
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCccc---cc-chHHHHhhcCcCeEEEeccCC-ChH------HHHHHH
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKA---DQ-ELPQLIEKHKVLGMVVNMPKE-HHE------HVSSFI 102 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~---~~-~L~~li~~~~i~~iVVGlP~~-dGt------~v~~f~ 102 (123)
++++||||||+||||+|+||..+.+|+|++++.+.+. ++ .|.+++++|+++.+|||+|+| +|+ .+++|+
T Consensus 1 ~~~ilalD~G~KrIGvA~sd~~~~~A~pl~~i~~~~~~~~~~~~l~~li~~~~~~~vVVGlP~~m~g~~~~~~~~~~~f~ 80 (141)
T COG0816 1 GMRILALDVGTKRIGVAVSDILGSLASPLETIKRKNGKPQDFNALLKLVKEYQVDTVVVGLPLNMDGTEGPRAELARKFA 80 (141)
T ss_pred CceEEEEecCCceEEEEEecCCCccccchhhheeccccHhhHHHHHHHHHHhCCCEEEEecCcCCCCCcchhHHHHHHHH
Confidence 5799999999999999999999999999999997662 67 999999999999999999999 987 799999
Q ss_pred HHHhhcccCCCCCEEEecCCC
Q 033269 103 EQLDGNEIYRGLPFCYFQKTK 123 (123)
Q Consensus 103 ~~L~~~~~~~~lpV~l~DEr~ 123 (123)
++|++++ ++||++||||-
T Consensus 81 ~~L~~r~---~lpv~l~DERl 98 (141)
T COG0816 81 ERLKKRF---NLPVVLWDERL 98 (141)
T ss_pred HHHHHhc---CCCEEEEcCcc
Confidence 9999999 89999999993
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=99.93 E-value=7.5e-26 Score=164.52 Aligned_cols=82 Identities=24% Similarity=0.440 Sum_probs=77.1
Q ss_pred EEEecCCCeEEEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhcCcCeEEEeccCC-ChH------HHHHHHHHHhh
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKHKVLGMVVNMPKE-HHE------HVSSFIEQLDG 107 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~~i~~iVVGlP~~-dGt------~v~~f~~~L~~ 107 (123)
||||||+||||+|+||+.+.+|+|+.++.+.+ .++ .|.+++++|+++.||||+|++ ||+ .+++|+++|++
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 69999999999999999999999999998744 447 999999999999999999999 998 89999999999
Q ss_pred cccCCCCCEEEecCC
Q 033269 108 NEIYRGLPFCYFQKT 122 (123)
Q Consensus 108 ~~~~~~lpV~l~DEr 122 (123)
++ ++||++||||
T Consensus 81 ~~---~~~v~~~DEr 92 (130)
T TIGR00250 81 RF---GVPVVLWDER 92 (130)
T ss_pred Hh---CCCEEEEcCC
Confidence 98 8999999998
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=99.49 E-value=2.4e-13 Score=91.64 Aligned_cols=84 Identities=31% Similarity=0.481 Sum_probs=72.5
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhcCcCeEEEeccCC-ChH-----HHHHHHHHH
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKHKVLGMVVNMPKE-HHE-----HVSSFIEQL 105 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~~i~~iVVGlP~~-dGt-----~v~~f~~~L 105 (123)
|++||||+|..+||+|+.|..+.+..+..+....+ ..+ .|.++++++++++|+||.|-. ||+ . ..|.+.|
T Consensus 1 ~~ilgiD~Ggt~i~~a~~d~~g~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~-~~l~~~l 79 (99)
T smart00732 1 KRVLGLDPGRKGIGVAVVDETGKLADPLEVIPRTNKEADAARLKKLIKKYQPDLIVIGLPLNMNGTASRETE-EAFAELL 79 (99)
T ss_pred CcEEEEccCCCeEEEEEECCCCCEecCEEEEEecCcchHHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHH-HHHHHHH
Confidence 46899999999999999999999888777655322 335 999999999999999999999 987 4 7888889
Q ss_pred hhcccCCCCCEEEecCC
Q 033269 106 DGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 106 ~~~~~~~~lpV~l~DEr 122 (123)
++++ ++||+++||+
T Consensus 80 ~~~~---~~pv~~~nDa 93 (99)
T smart00732 80 KERF---NLPVVLVDER 93 (99)
T ss_pred HHhh---CCcEEEEeCC
Confidence 8888 8999999997
No 6
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=98.29 E-value=6e-06 Score=62.24 Aligned_cols=84 Identities=15% Similarity=0.222 Sum_probs=57.4
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceee--cceeeeCcc--------ccc--chHHHHhhcCcCeEEEeccCC--ChHHHH
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVE--PLTKFDRAK--------ADQ--ELPQLIEKHKVLGMVVNMPKE--HHEHVS 99 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~--Pl~~i~~~~--------~~~--~L~~li~~~~i~~iVVGlP~~--dGt~v~ 99 (123)
||+|||||||..++|.|+.+..+.-.. -.+++..+. ..+ +|.+++++|+++.++|=-|+- |.+.+.
T Consensus 1 ~m~iLGIDPgl~~tG~avi~~~~~~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~Pd~vaiE~~f~~~n~~sa~ 80 (164)
T PRK00039 1 MMRILGIDPGLRRTGYGVIEVEGRRLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQPDEVAIEEVFFNKNPQSAL 80 (164)
T ss_pred CCEEEEEccccCceeEEEEEecCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEehhhhccChHHHH
Confidence 689999999999999999987654221 234665322 113 899999999999999988876 555222
Q ss_pred H------HHHHHhhcccCCCCCEEEec
Q 033269 100 S------FIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 100 ~------f~~~L~~~~~~~~lpV~l~D 120 (123)
. -+.....+. ++||..+.
T Consensus 81 ~l~~arGvi~la~~~~---~ipv~ey~ 104 (164)
T PRK00039 81 KLGQARGVAILAAAQR---GLPVAEYT 104 (164)
T ss_pred HHHHHHHHHHHHHHHc---CCCEEEEC
Confidence 2 222333333 78887654
No 7
>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=97.79 E-value=0.00022 Score=52.74 Aligned_cols=84 Identities=14% Similarity=0.211 Sum_probs=54.6
Q ss_pred eEEEEecCCCeEEEEEeeCCCceee--cceeeeCccc--------cc--chHHHHhhcCcCeEEEeccCC--ChHHHHH-
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEVE--PLTKFDRAKA--------DQ--ELPQLIEKHKVLGMVVNMPKE--HHEHVSS- 100 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a~--Pl~~i~~~~~--------~~--~L~~li~~~~i~~iVVGlP~~--dGt~v~~- 100 (123)
||||||||..++|.|+.+..+.... -.+++..+.. .+ .|.+++++|+++.++|=-++- |.+.+..
T Consensus 1 rILGIDPGl~~~G~av~~~~~~~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~Pd~vaiE~~~~~~n~~s~~~l 80 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVFFAKNPDSALKL 80 (154)
T ss_pred CEEEEccCcCceEEEEEEeeCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEEEhhcccChHHHHHH
Confidence 6899999999999999886553222 2346653321 13 899999999999999987654 5442222
Q ss_pred -----HHHHHhhcccCCCCCEEEecCC
Q 033269 101 -----FIEQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 101 -----f~~~L~~~~~~~~lpV~l~DEr 122 (123)
-+-....+. ++||..++.+
T Consensus 81 ~~~~Gvi~~~~~~~---~i~v~e~~P~ 104 (154)
T cd00529 81 GQARGALILALANR---NLPVFEYTPN 104 (154)
T ss_pred HHHHHHHHHHHHHc---CCCEEEEccC
Confidence 122222222 7888877654
No 8
>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=97.79 E-value=0.00016 Score=53.46 Aligned_cols=80 Identities=19% Similarity=0.296 Sum_probs=45.9
Q ss_pred EEEEecCCCeEEEEEeeCCCce--eecceeeeCccc--------cc--chHHHHhhcCcCeEEEeccCC--ChH------
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNE--VEPLTKFDRAKA--------DQ--ELPQLIEKHKVLGMVVNMPKE--HHE------ 96 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~--a~Pl~~i~~~~~--------~~--~L~~li~~~~i~~iVVGlP~~--dGt------ 96 (123)
|||||||..++|.|+-+..+.- .-..++|..+.. .+ +|.+++++|+|+.+++=.|+- |-+
T Consensus 1 ILGIDPgl~~tG~avi~~~~~~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~P~~vaiE~~f~~~n~~s~~~l~ 80 (149)
T PF02075_consen 1 ILGIDPGLSNTGYAVIEEDGGKLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYNPDEVAIEEIFFGKNPKSALKLG 80 (149)
T ss_dssp EEEEE--SSEEEEEEEEEETTEEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH--SEEEEEE-S----HHHHHHHH
T ss_pred CEEECCCCCCeeEEEEEeeCCEEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEeehhhhccCHHHHHHHH
Confidence 7999999999999999876532 122345653221 13 899999999999999998887 433
Q ss_pred HHHHHHHHHhhcccCCCCCEEEe
Q 033269 97 HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 97 ~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.++-.+....... ++||..+
T Consensus 81 ~arGvi~l~~~~~---~i~v~~y 100 (149)
T PF02075_consen 81 QARGVILLAAAQR---GIPVFEY 100 (149)
T ss_dssp HHHHHHHHHHHTT---T--EEEE
T ss_pred HHHHHHHHHHHHc---CCeEEEE
Confidence 3333333433333 7887754
No 9
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=97.50 E-value=0.00059 Score=62.23 Aligned_cols=99 Identities=18% Similarity=0.243 Sum_probs=71.4
Q ss_pred hhhhhhhhhccCCCCc-eEEEEecCCCe-EEEEEeeCCCceeecceeeeCcc---cc--c-chHHHHhhcCcCeEEEecc
Q 033269 20 FCGRVEKQCVGENAGL-GILGLDVGNKY-IGVSLFKRHGNEVEPLTKFDRAK---AD--Q-ELPQLIEKHKVLGMVVNMP 91 (123)
Q Consensus 20 ~~~~~~~~~~~~~~~~-riLglD~G~kr-iGlAvsD~~~~~a~Pl~~i~~~~---~~--~-~L~~li~~~~i~~iVVGlP 91 (123)
|-+++..-|...|-.+ .+||||||.+. |=+|+.|..|....-..+++.+. .+ . .|..++..|+|..|.||
T Consensus 314 F~~nL~~lLl~aP~~~~~~lglDPg~rtG~k~Avvd~tGk~l~~~~Iyp~~p~~~~~~~~~~l~~l~~~~~Ve~iaIG-- 391 (780)
T COG2183 314 FAENLKDLLLAAPAKPKATLGLDPGFRTGCKVAVVDDTGKLLDTATIYPHPPVNQSDKAEATLKDLIRKYKVELIAIG-- 391 (780)
T ss_pred HHHHHHHHHhcCCCCCcceeecCCccccccEEEEEcCCCceeceeEEEcCCCccchHHHHHHHHHHHHHhCceEEEEe--
Confidence 4455554555555444 78999999777 77899999987665445555432 11 3 88999999999999999
Q ss_pred CCChH---HHHHHHHHHhhcccCCCCCEEEecCC
Q 033269 92 KEHHE---HVSSFIEQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 92 ~~dGt---~v~~f~~~L~~~~~~~~lpV~l~DEr 122 (123)
||| .+..|+..|-+..+.+++..+.+.|.
T Consensus 392 --ngTaSrete~fv~~vl~~~~~~~~~~viVsEa 423 (780)
T COG2183 392 --NGTASRETEKFVADVLKELPKEKVLKVIVSEA 423 (780)
T ss_pred --cCCcchhHHHHHHHHHHhccCCCCcEEEEccc
Confidence 999 77788877776653236777777774
No 10
>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=97.41 E-value=0.00074 Score=50.91 Aligned_cols=80 Identities=14% Similarity=0.194 Sum_probs=52.9
Q ss_pred EEEEecCCCeEEEEEeeCCCcee--ecceeeeCccc-------cc--chHHHHhhcCcCeEEEeccCC--ChH------H
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEV--EPLTKFDRAKA-------DQ--ELPQLIEKHKVLGMVVNMPKE--HHE------H 97 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a--~Pl~~i~~~~~-------~~--~L~~li~~~~i~~iVVGlP~~--dGt------~ 97 (123)
|||||||..++|.|+-+..+.-. .-.++|..++. .+ .|.+++++|+++.+.|=-++- |.+ .
T Consensus 1 ILGIDPGl~~tG~gvi~~~~~~~~~v~~G~I~t~~~~~~~RL~~I~~~l~~~i~~y~P~~~aiE~~F~~~N~~sa~~lg~ 80 (156)
T TIGR00228 1 ILGIDPGSRVTGYGVIRQVGRQLSYLGSGCIRTKVDDLPSRLKLIYAGVTEIITQFQPNYFAIEQVFMAKNADSALKLGQ 80 (156)
T ss_pred CEeECcccccccEEEEEecCCeEEEEEeeEEECCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEeHHhhccCHHHHHHHHH
Confidence 69999999999999988555422 23346653221 13 899999999999999988776 544 3
Q ss_pred HHHHHHHHhhcccCCCCCEEEe
Q 033269 98 VSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 98 v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
++--+-...... ++||...
T Consensus 81 arGvilla~~~~---~ipv~Ey 99 (156)
T TIGR00228 81 ARGVAIVAAVNQ---ELPVFEY 99 (156)
T ss_pred HHHHHHHHHHHc---CCCEEEE
Confidence 333332222223 7888754
No 11
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=96.78 E-value=0.0058 Score=45.50 Aligned_cols=85 Identities=18% Similarity=0.254 Sum_probs=40.4
Q ss_pred CceEEEEecCCCe----EEEEEeeCCCceeecceee-eCcc------ccc-chHHHHhhcCcCeEEEeccCCChHHHHHH
Q 033269 34 GLGILGLDVGNKY----IGVSLFKRHGNEVEPLTKF-DRAK------ADQ-ELPQLIEKHKVLGMVVNMPKEHHEHVSSF 101 (123)
Q Consensus 34 ~~riLglD~G~kr----iGlAvsD~~~~~a~Pl~~i-~~~~------~~~-~L~~li~~~~i~~iVVGlP~~dGt~v~~f 101 (123)
..||||+-+|.-+ +-.|+-|..|.+.-- ..+ .+.. .+. .|.+++.+++++.|+||- ++..++.+
T Consensus 4 ~~rVla~~~g~g~~~~~~~~v~ld~~G~v~d~-~~~~~~~~~~~~~~~~~~~l~~~i~~~kP~vI~v~g---~~~~s~~l 79 (150)
T PF14639_consen 4 GPRVLALSWGSGDGDDAVFCVVLDENGEVLDH-LKLVYNERDRERKEEDMERLKKFIEKHKPDVIAVGG---NSRESRKL 79 (150)
T ss_dssp ---EEEEE-TT--TTS-EEEEEE-TTS-EEEE-EEE-S-TT-SS-SHHHHHHHHHHHHHH--SEEEE-----SSTHHHHH
T ss_pred CCEEEEEEcCCCCCCCCEEEEEECCCCcEEEE-EEEcCCccchHHHHHHHHHHHHHHHHcCCeEEEEcC---CChhHHHH
Confidence 4689999999765 556888889986552 333 2111 234 899999999999999941 33333333
Q ss_pred HHHHhhcc---c----CCCCCEEEecCC
Q 033269 102 IEQLDGNE---I----YRGLPFCYFQKT 122 (123)
Q Consensus 102 ~~~L~~~~---~----~~~lpV~l~DEr 122 (123)
.+.+++.. . ...++|+++||.
T Consensus 80 ~~~v~~~v~~~~~~~~~~~i~V~~v~~~ 107 (150)
T PF14639_consen 80 YDDVRDIVEELDEDEQMPPIPVVIVDDE 107 (150)
T ss_dssp HHHHHHHHHHTTB-TTS-B--EEE---T
T ss_pred HHHHHHHHHHhhhcccCCCceEEEECcH
Confidence 22222111 0 016899999984
No 12
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=96.51 E-value=0.0025 Score=48.42 Aligned_cols=59 Identities=14% Similarity=0.237 Sum_probs=44.6
Q ss_pred EEEecCCCeEEEEEeeCCCceeec--ceeeeCcc-c-------c-c-chHHHHhhcCcCeEEEeccCC--ChH
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVEP--LTKFDRAK-A-------D-Q-ELPQLIEKHKVLGMVVNMPKE--HHE 96 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~P--l~~i~~~~-~-------~-~-~L~~li~~~~i~~iVVGlP~~--dGt 96 (123)
||||||..+||.++-+..+.-..+ .++|..++ . . . .|.+++++|+++.+.|=..+- |-+
T Consensus 1 lGIDPGl~~~G~gvI~~~~~~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~P~~~AIE~~F~~kN~~ 73 (160)
T COG0817 1 LGIDPGLRRTGYGVIEVEGRQLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQPDEVAIEQVFVNKNAD 73 (160)
T ss_pred CCcCCCccccceEEEEccCCeEEEEeeeEEecCCCccHHHHHHHHHHHHHHHHHHhCCCeeehhHHHHhcChH
Confidence 699999999999999988864333 24565332 1 1 2 888999999999999998776 544
No 13
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=95.27 E-value=0.093 Score=41.87 Aligned_cols=86 Identities=19% Similarity=0.371 Sum_probs=58.1
Q ss_pred CCCceEEEEecCCCeEEEEEeeCCCceeecceeeeCc--cc--c----c--chHHHHhhc----CcCeEEEeccCC-C-h
Q 033269 32 NAGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRA--KA--D----Q--ELPQLIEKH----KVLGMVVNMPKE-H-H 95 (123)
Q Consensus 32 ~~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~--~~--~----~--~L~~li~~~----~i~~iVVGlP~~-d-G 95 (123)
+.++.++|||+|..++=+|+.|..+.+..- ..++.. .. . + .+++++..+ .+.+|.++.|-. + |
T Consensus 3 ~~~~~~lgidIggt~i~~~l~d~~g~~l~~-~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iGIgi~~pg~~~~~ 81 (314)
T COG1940 3 PEAMTVLGIDIGGTKIKVALVDLDGEILLR-ERIPTPTPDPEEAILEAILALVAELLKQAQGRVAIIGIGIPGPGDVDNG 81 (314)
T ss_pred ccCcEEEEEEecCCEEEEEEECCCCcEEEE-EEEecCCCCchhHHHHHHHHHHHHHHHhcCCcCceEEEEeccceeccCC
Confidence 347889999999999999999998875331 222211 11 1 2 555555543 466777777776 3 4
Q ss_pred H-----------HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 96 E-----------HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 96 t-----------~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
+ .--.|++.|++++ ++||...+.
T Consensus 82 ~~~~~~~~~~~~~~~~l~~~L~~~~---~~Pv~veND 115 (314)
T COG1940 82 TVIVPAPNLGWWNGVDLAEELEARL---GLPVFVEND 115 (314)
T ss_pred cEEeecCCCCccccccHHHHHHHHH---CCCEEEecH
Confidence 2 2245899999999 899988654
No 14
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=94.36 E-value=0.2 Score=39.62 Aligned_cols=83 Identities=14% Similarity=0.191 Sum_probs=55.6
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc----ccc--chHHHHhhc--CcCeEEEeccCC-C-hH--------
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK----ADQ--ELPQLIEKH--KVLGMVVNMPKE-H-HE-------- 96 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~----~~~--~L~~li~~~--~i~~iVVGlP~~-d-Gt-------- 96 (123)
|.++|+|+|..++-+++.|..+.+.. ...++.+. ..+ .+.+++++. ++.+|.||.|=. | +.
T Consensus 1 ~~~lgvdig~~~i~~~l~dl~g~i~~-~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~igi~~pG~vd~~~~~~~~~~~ 79 (291)
T PRK05082 1 MTTLAIDIGGTKIAAALVGEDGQIRQ-RRQIPTPASQTPEALRQALSALVSPLQAQADRVAVASTGIINDGILTALNPHN 79 (291)
T ss_pred CcEEEEEECCCEEEEEEEcCCCcEEE-EEEecCCCCCCHHHHHHHHHHHHHHhhhcCcEEEEeCcccccCCeeEEecCCC
Confidence 35899999999999999998887553 23333221 223 566666654 577899998744 2 21
Q ss_pred ----HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 97 ----HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 97 ----~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.-..+.+.|++++ ++||.+.++
T Consensus 80 ~~~w~~~~l~~~l~~~~---~~pv~v~ND 105 (291)
T PRK05082 80 LGGLLHFPLVQTLEQLT---DLPTIALND 105 (291)
T ss_pred CccccCCChHHHHHHHh---CCCEEEECc
Confidence 1224567788888 899887664
No 15
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=94.24 E-value=0.39 Score=35.75 Aligned_cols=67 Identities=15% Similarity=0.233 Sum_probs=47.4
Q ss_pred CCceEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEeccCCChH----HHHHHHHHHhh
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVNMPKEHHE----HVSSFIEQLDG 107 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVGlP~~dGt----~v~~f~~~L~~ 107 (123)
+..-|+|+|||+ .+|+|+-|.+|.+. .+..+.+-+. ++-++|.+++--.||-= |-+ .|++++..+..
T Consensus 30 ~~~lIVGiDPG~-ttgiAildL~G~~l---~l~S~R~~~~~evi~~I~~~G~PviVAt----DV~p~P~~V~Kia~~f~A 101 (138)
T PF04312_consen 30 RRYLIVGIDPGT-TTGIAILDLDGELL---DLKSSRNMSRSEVIEWISEYGKPVIVAT----DVSPPPETVKKIARSFNA 101 (138)
T ss_pred CCCEEEEECCCc-eeEEEEEecCCcEE---EEEeecCCCHHHHHHHHHHcCCEEEEEe----cCCCCcHHHHHHHHHhCC
Confidence 456789999998 68999999999853 3554334455 88899988876555544 444 66666666653
No 16
>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=94.14 E-value=0.17 Score=42.69 Aligned_cols=54 Identities=15% Similarity=0.237 Sum_probs=41.1
Q ss_pred EEecCCCeEEEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhc-CcCeEEE----eccCC
Q 033269 39 GLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKH-KVLGMVV----NMPKE 93 (123)
Q Consensus 39 glD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~-~i~~iVV----GlP~~ 93 (123)
|+|+||+-+-++..|..+.+.. ...+++.. ++- .+.+.++++ +++.|+. |+|+.
T Consensus 1 GIDpGT~s~dv~~~dd~g~v~~-~~~ipt~~v~~~p~~iv~~l~~~~~~dlIa~psGyG~pl~ 62 (343)
T PF07318_consen 1 GIDPGTKSFDVCGLDDDGKVIF-YFSIPTEEVAKNPSIIVEELEEFGDIDLIAGPSGYGLPLK 62 (343)
T ss_pred CCCCCCCcEEEEEEccCCcEEE-EeeccHHHhhhCHHHHHHHHHhccCCCEEEeCCcCCcccc
Confidence 6899999999999998677655 45666433 333 677778887 9999986 66876
No 17
>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=93.93 E-value=0.14 Score=36.32 Aligned_cols=76 Identities=18% Similarity=0.290 Sum_probs=51.5
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCC
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGL 114 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~l 114 (123)
++|||+|....=+++.++.+.... ...+.++...+ .+.+++.++. .++||+ . -|.....++..|... ++
T Consensus 1 ~vGiDv~k~~~~v~v~~~~~~~~~-~~~~~~~~~~~~~l~~~l~~~~--~~~v~~--E~tg~y~~~l~~~L~~~----g~ 71 (144)
T PF01548_consen 1 FVGIDVSKDTHDVCVIDPNGEKLR-RFKFENDPAGLEKLLDWLASLG--PVLVVM--EATGGYWRPLADFLQDA----GI 71 (144)
T ss_pred eEEEEcccCeEEEEEEcCCCcEEE-EEEEeccccchhHHhhhhcccc--cccccc--ccccccchhhhhheecc----cc
Confidence 589999999999999999995444 45666554667 8888888886 445552 2 222344666666653 56
Q ss_pred CEEEecC
Q 033269 115 PFCYFQK 121 (123)
Q Consensus 115 pV~l~DE 121 (123)
+|.+++-
T Consensus 72 ~v~~vnp 78 (144)
T PF01548_consen 72 EVVVVNP 78 (144)
T ss_pred ccccccc
Confidence 7766653
No 18
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=93.88 E-value=0.17 Score=41.91 Aligned_cols=83 Identities=17% Similarity=0.221 Sum_probs=55.2
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeC--ccccc--chHHHHhhcCcCe--EEEeccCCC-----hHHHHHHH
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDR--AKADQ--ELPQLIEKHKVLG--MVVNMPKEH-----HEHVSSFI 102 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~--~~~~~--~L~~li~~~~i~~--iVVGlP~~d-----Gt~v~~f~ 102 (123)
.+.++|||+|...+-+|.+|..... .-+..+|. +...+ .|++++.+++++. +|+---+-| -+-+...+
T Consensus 2 ~~kilGiDIGGAntk~a~~DG~~~~-~d~~YlPMWk~k~rL~~~Lkei~~k~~~~~vgvvMTaELaD~f~tk~eGVe~Ii 80 (330)
T COG1548 2 KMKILGIDIGGANTKIASSDGDNYK-IDHIYLPMWKKKDRLEETLKEIVHKDNVDYVGVVMTAELADAFKTKAEGVEDII 80 (330)
T ss_pred CceEEEeeccCccchhhhccCCeee-eeEEEeccccchhHHHHHHHHHhccCCcceeEEEeeHHHHHHhhhHHhHHHHHH
Confidence 3789999999999999998855531 11222332 22334 8888888888774 444311111 11677788
Q ss_pred HHHhhcccCCCCCEEEec
Q 033269 103 EQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 103 ~~L~~~~~~~~lpV~l~D 120 (123)
+..++.| +.||.++|
T Consensus 81 ~~v~~Af---~~pv~~v~ 95 (330)
T COG1548 81 DTVEKAF---NCPVYVVD 95 (330)
T ss_pred HHHHHhc---CCceEEEe
Confidence 8999999 89999887
No 19
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=93.32 E-value=0.16 Score=39.82 Aligned_cols=82 Identities=17% Similarity=0.224 Sum_probs=54.8
Q ss_pred ceEEEEecCCCeEEEEEeeC--CCceeecceeeeCcc-ccc--chHHHHhhc-----CcCeEEEec-cCC-ChH-HHHHH
Q 033269 35 LGILGLDVGNKYIGVSLFKR--HGNEVEPLTKFDRAK-ADQ--ELPQLIEKH-----KVLGMVVNM-PKE-HHE-HVSSF 101 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~--~~~~a~Pl~~i~~~~-~~~--~L~~li~~~-----~i~~iVVGl-P~~-dGt-~v~~f 101 (123)
|.+|+||--++.|++|+.+. ...++.-.....++. ..+ .+.+++.+. +++.|+||. |=+ -|- ....|
T Consensus 1 m~iLaiDTs~~~~s~ai~~~~~~~vl~~~~~~~~r~hse~l~~~i~~ll~~~~~~~~dld~iav~~GPGSFTGlRIG~~~ 80 (220)
T COG1214 1 MKILAIDTSTSALSVALYLADDGKVLAEHTEKLKRNHAERLMPMIDELLKEAGLSLQDLDAIAVAKGPGSFTGLRIGVAF 80 (220)
T ss_pred CcEEEEEcChhhhhhheeecCCCcEEEEEEEeccccHHHHHHHHHHHHHHHcCCCHHHCCEEEEccCCCcccchhhHHHH
Confidence 67999999999999998876 444455333344322 223 888888777 577899993 222 222 56677
Q ss_pred HHHHhhcccCCCCCEEEe
Q 033269 102 IEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 102 ~~~L~~~~~~~~lpV~l~ 119 (123)
|+-|+-.. ++|++=+
T Consensus 81 AkgLA~~l---~iplvgv 95 (220)
T COG1214 81 AKGLALAL---NIPLVGV 95 (220)
T ss_pred HHHHHHHc---CCCEEEe
Confidence 88887655 7777643
No 20
>PRK09557 fructokinase; Reviewed
Probab=93.19 E-value=0.31 Score=38.79 Aligned_cols=81 Identities=14% Similarity=0.192 Sum_probs=52.2
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc---cc-c-chHHHHhhc-----CcCeEEEeccCC----ChH------
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK---AD-Q-ELPQLIEKH-----KVLGMVVNMPKE----HHE------ 96 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~---~~-~-~L~~li~~~-----~i~~iVVGlP~~----dGt------ 96 (123)
.+|+|+|..++-+|+.|..+.+.. ...++.+. .. + .+.+++++. .+.+|.||.|=. +|.
T Consensus 2 ~lgidig~t~~~~~l~d~~g~i~~-~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgi~~pG~vd~~~g~i~~~~~ 80 (301)
T PRK09557 2 RIGIDLGGTKIEVIALDDAGEELF-RKRLPTPRDDYQQTIEAIATLVDMAEQATGQRGTVGVGIPGSISPYTGLVKNANS 80 (301)
T ss_pred EEEEEECCCcEEEEEECCCCCEEE-EEEecCCCCCHHHHHHHHHHHHHHHHhhcCCceEEEecCcccCcCCCCeEEecCC
Confidence 589999999999999998876543 23443221 12 2 455555443 356788888732 343
Q ss_pred ---HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 97 ---HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 97 ---~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.-..+.+.|++++ ++||.+.+.
T Consensus 81 ~~~~~~~l~~~l~~~~---~~pv~~~ND 105 (301)
T PRK09557 81 TWLNGQPLDKDLSARL---NREVRLAND 105 (301)
T ss_pred ccccCCCHHHHHHHHH---CCCEEEccc
Confidence 1234567788888 789887653
No 21
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=91.77 E-value=0.55 Score=37.29 Aligned_cols=81 Identities=11% Similarity=0.141 Sum_probs=51.8
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc---cc-c-chHHHHhhc----C-cCeEEEeccCC-C---hH------
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK---AD-Q-ELPQLIEKH----K-VLGMVVNMPKE-H---HE------ 96 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~---~~-~-~L~~li~~~----~-i~~iVVGlP~~-d---Gt------ 96 (123)
++|+|+|..++-+++.|..+.+..- ..++... .. + .+.+++++. + +.+|-||.|=. | |.
T Consensus 2 ~lgidig~t~i~~~l~d~~g~i~~~-~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~igia~pG~vd~~~g~~~~~~~ 80 (303)
T PRK13310 2 YYGFDIGGTKIELGVFNEKLELQWE-ERVPTPRDSYDAFLDAVCELVAEADQRFGCKGSVGIGIPGMPETEDGTLYAANV 80 (303)
T ss_pred eEEEEeCCCcEEEEEECCCCcEEEE-EEecCCCcCHHHHHHHHHHHHHHHHhhcCCcceEEEeCCCcccCCCCEEeccCc
Confidence 5999999999999999988765432 2333211 12 2 555555442 2 34688888754 3 32
Q ss_pred ---HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 97 ---HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 97 ---~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.--.+.+.|++++ ++||.+.+.
T Consensus 81 ~~w~~~~l~~~l~~~~---~~pV~ieND 105 (303)
T PRK13310 81 PAASGKPLRADLSARL---GRDVRLDND 105 (303)
T ss_pred ccccCCcHHHHHHHHH---CCCeEEecc
Confidence 1125677888888 899887653
No 22
>PF14239 RRXRR: RRXRR protein
Probab=91.66 E-value=0.26 Score=37.99 Aligned_cols=24 Identities=25% Similarity=0.385 Sum_probs=20.1
Q ss_pred CCceEEEEecCCCeEEEEEeeCCC
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~ 56 (123)
...-.+|||+|+|.+|+|+.+...
T Consensus 49 ~qpi~lgiDpGsk~tGiav~~~~~ 72 (176)
T PF14239_consen 49 TQPIRLGIDPGSKTTGIAVVSEKK 72 (176)
T ss_pred ccCEEEEECCCCCeEEEEEEeCCE
Confidence 345679999999999999998663
No 23
>PRK00292 glk glucokinase; Provisional
Probab=91.48 E-value=0.74 Score=37.00 Aligned_cols=84 Identities=14% Similarity=0.182 Sum_probs=53.4
Q ss_pred CceEEEEecCCCeEEEEEeeC-CCceeecceeeeCcc-ccc--chHHHHhh---cCcCeEEEeccCC-C-hH------HH
Q 033269 34 GLGILGLDVGNKYIGVSLFKR-HGNEVEPLTKFDRAK-ADQ--ELPQLIEK---HKVLGMVVNMPKE-H-HE------HV 98 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~-~~~~a~Pl~~i~~~~-~~~--~L~~li~~---~~i~~iVVGlP~~-d-Gt------~v 98 (123)
|..+||+|+|..++=+++.|. .+.+.. ...++.+. ..+ .+.+++++ .++.++.||.|=. | ++ .-
T Consensus 1 ~~~~lgiDIGgT~i~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~l~~~~~~~~~gigIg~pG~vd~~~i~~~n~~w 79 (316)
T PRK00292 1 MKPALVGDIGGTNARFALCDWANGEIEQ-IKTYATADYPSLEDAIRAYLADEHGVQVRSACFAIAGPVDGDEVRMTNHHW 79 (316)
T ss_pred CceEEEEEcCccceEEEEEecCCCceee-eEEEecCCCCCHHHHHHHHHHhccCCCCceEEEEEeCcccCCEEEecCCCc
Confidence 456899999999999999984 444222 23444222 223 56666664 2578999999754 3 22 00
Q ss_pred HHHHHHHhhcccCCCCC-EEEecC
Q 033269 99 SSFIEQLDGNEIYRGLP-FCYFQK 121 (123)
Q Consensus 99 ~~f~~~L~~~~~~~~lp-V~l~DE 121 (123)
....+.|++++ ++| |.+.+.
T Consensus 80 ~~~~~~l~~~~---~~p~v~l~ND 100 (316)
T PRK00292 80 AFSIAAMKQEL---GLDHLLLIND 100 (316)
T ss_pred ccCHHHHHHHh---CCCeEEEEec
Confidence 11257788888 886 887653
No 24
>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=90.77 E-value=0.7 Score=35.22 Aligned_cols=80 Identities=16% Similarity=0.174 Sum_probs=50.8
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc-cc-c-chHHHHhhc-----CcCeEEEec-cCC-ChH-HHHHHHHHH
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK-AD-Q-ELPQLIEKH-----KVLGMVVNM-PKE-HHE-HVSSFIEQL 105 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~-~~-~-~L~~li~~~-----~i~~iVVGl-P~~-dGt-~v~~f~~~L 105 (123)
+|+||--++.+++|+.+....++.-.....+.. .. + .+.+++++. +++.|++|. |=+ -|- ....+++-|
T Consensus 1 iLaidTs~~~~sval~~~~~~~~~~~~~~~~~h~~~l~~~i~~~l~~~~~~~~~i~~iav~~GPGSfTGlRig~~~akgl 80 (202)
T TIGR03725 1 ILAIDTSTEALSVALLDDGEILAERSEEAGRNHSEILLPMIEELLAEAGLSLQDLDAIAVGVGPGSFTGLRIGLATAKGL 80 (202)
T ss_pred CEEEECCCcceEEEEEECCEEEEEEeehhhHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCCChHHhHHHHHHHHHHH
Confidence 589999999999999985444443211112211 22 3 788888765 578888882 211 221 667788888
Q ss_pred hhcccCCCCCEEEe
Q 033269 106 DGNEIYRGLPFCYF 119 (123)
Q Consensus 106 ~~~~~~~~lpV~l~ 119 (123)
+... ++|++-+
T Consensus 81 a~~~---~~p~~~v 91 (202)
T TIGR03725 81 ALAL---GIPLVGV 91 (202)
T ss_pred HHHh---CCCEEec
Confidence 8665 7777644
No 25
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=90.39 E-value=0.65 Score=41.97 Aligned_cols=67 Identities=16% Similarity=0.244 Sum_probs=48.2
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcc
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~ 109 (123)
.-|+|||||. .+|+|+-|.+|.+.. +..+.+-+. ++.++|.+++--.+|-= |-+-.=.|+++|+..|
T Consensus 244 ~lIVGIDPGi-TtgiAvldldGevl~---~~S~r~~~~~eVve~I~~lG~PvvVAt----DVtp~P~~V~KiAasf 311 (652)
T COG2433 244 SLIVGIDPGI-TTGIAVLDLDGEVLD---LESRRGIDRSEVVEFISELGKPVVVAT----DVTPAPETVKKIAASF 311 (652)
T ss_pred ceEEEeCCCc-eeeEEEEecCCcEEe---eeccccCCHHHHHHHHHHcCCceEEEc----cCCCChHHHHHHHHHc
Confidence 3689999998 689999999998543 444444556 99999999977766665 6664444555555544
No 26
>PRK09698 D-allose kinase; Provisional
Probab=89.79 E-value=1.5 Score=34.75 Aligned_cols=82 Identities=17% Similarity=0.354 Sum_probs=54.2
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc-------ccc--chHHHHhhc--CcCeEEEeccCC-C---hH---
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK-------ADQ--ELPQLIEKH--KVLGMVVNMPKE-H---HE--- 96 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~-------~~~--~L~~li~~~--~i~~iVVGlP~~-d---Gt--- 96 (123)
..++|+|+|..++-+++.|..+.+.. ...++... ..+ .+.++++++ ++.+|-||.|=. | |.
T Consensus 4 ~~~lgidig~t~i~~~l~d~~g~i~~-~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~i~gigia~pG~vd~~~g~i~~ 82 (302)
T PRK09698 4 NVVLGIDMGGTHIRFCLVDAEGEILH-CEKKRTAEVIAPDLVSGLGEMIDEYLRRFNARCHGIVMGFPALVSKDRRTVIS 82 (302)
T ss_pred cEEEEEEcCCcEEEEEEEcCCCCEEE-EEEeCCccccchHHHHHHHHHHHHHHHHcCCCeeEEEEeCCcceeCCCCEEEe
Confidence 46899999999999999998886543 23333211 112 455566554 578899999843 2 21
Q ss_pred ---------HHHHHHHHHhhcccCCCCCEEEec
Q 033269 97 ---------HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 97 ---------~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.-..+.+.|++++ ++||.+.+
T Consensus 83 ~~~~~~~~~~~~~l~~~l~~~~---~~pv~v~N 112 (302)
T PRK09698 83 TPNLPLTALDLYDLADKLENTL---NCPVFFSR 112 (302)
T ss_pred cCCCCccccccCCHHHHHHHHh---CCCEEEcc
Confidence 1124567888888 89988765
No 27
>PRK12408 glucokinase; Provisional
Probab=89.66 E-value=0.76 Score=37.72 Aligned_cols=89 Identities=16% Similarity=0.134 Sum_probs=55.7
Q ss_pred ccCCCCceEEEEecCCCeEEEEEeeCCCcee-----ecceeeeCcc-ccc--chHHHHhh-cCcCeEEEeccC-C--ChH
Q 033269 29 VGENAGLGILGLDVGNKYIGVSLFKRHGNEV-----EPLTKFDRAK-ADQ--ELPQLIEK-HKVLGMVVNMPK-E--HHE 96 (123)
Q Consensus 29 ~~~~~~~riLglD~G~kriGlAvsD~~~~~a-----~Pl~~i~~~~-~~~--~L~~li~~-~~i~~iVVGlP~-~--dGt 96 (123)
++-++|-++|++|+|.-+|=+|+.|..+.++ .-...++... ..+ .+.+++++ .++.++.||.|= . +|+
T Consensus 10 ~~~~~~~~~L~~DIGGT~i~~al~d~~g~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~~~igIg~pG~~~~~g~ 89 (336)
T PRK12408 10 VAVPRPESFVAADVGGTHVRVALVCASPDAAKPVELLDYRTYRCADYPSLAAILADFLAECAPVRRGVIASAGYALDDGR 89 (336)
T ss_pred ccCcccccEEEEEcChhhhheeEEeccCCccccccccceeEecCCCccCHHHHHHHHHhcCCCcCEEEEEecCCceECCE
Confidence 4556677799999999999999998765521 1122333111 222 44455442 347889999875 2 554
Q ss_pred ------HHHHHHHHHhhcccCCCCC-EEEec
Q 033269 97 ------HVSSFIEQLDGNEIYRGLP-FCYFQ 120 (123)
Q Consensus 97 ------~v~~f~~~L~~~~~~~~lp-V~l~D 120 (123)
.-..+.+.|++++ ++| |.+.+
T Consensus 90 v~~~nl~w~~~~~~l~~~~---~~~~V~l~N 117 (336)
T PRK12408 90 VITANLPWTLSPEQIRAQL---GLQAVHLVN 117 (336)
T ss_pred EEecCCCCccCHHHHHHHc---CCCeEEEee
Confidence 0123567888888 785 88765
No 28
>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=89.19 E-value=1.1 Score=35.63 Aligned_cols=80 Identities=16% Similarity=0.352 Sum_probs=51.0
Q ss_pred EEEecCCCeEEEEEeeCCCceeecceeeeCcc--cc-c-ch----HHHHhhc-----CcCeEEEeccCC-C---hH----
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--AD-Q-EL----PQLIEKH-----KVLGMVVNMPKE-H---HE---- 96 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--~~-~-~L----~~li~~~-----~i~~iVVGlP~~-d---Gt---- 96 (123)
+|+|+|..++-+++.|..+.+..- ..++... .. + .+ .+++++. ++.+|-||.|=. | |.
T Consensus 1 lgidig~t~~~~~l~d~~g~i~~~-~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~i~gIgva~pG~vd~~~g~~~~~ 79 (318)
T TIGR00744 1 IGVDIGGTTIKLGVVDEEGNILSK-WKVPTDTTPETIVDAIASAVDSFIQHIAKVGHEIVAIGIGAPGPVNRQRGTVYFA 79 (318)
T ss_pred CEEEeCCCEEEEEEECCCCCEEEE-EEeCCCCCHHHHHHHHHHHHHHHHHhcCCCccceEEEEEeccccccCCCCEEEec
Confidence 589999999999999988765431 3333211 11 2 33 3444433 577889998743 2 32
Q ss_pred -----HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 97 -----HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 97 -----~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.-..+.+.|++++ ++||.+.+.
T Consensus 80 ~~~~w~~~~l~~~l~~~~---~~pv~v~ND 106 (318)
T TIGR00744 80 VNLDWKQEPLKEKVEARV---GLPVVVEND 106 (318)
T ss_pred CCCCCCCCCHHHHHHHHH---CCCEEEech
Confidence 1224677888888 899887653
No 29
>PRK13321 pantothenate kinase; Reviewed
Probab=87.15 E-value=4.2 Score=32.08 Aligned_cols=52 Identities=21% Similarity=0.360 Sum_probs=35.6
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc----cc-c-chHHHHhhc-----CcCeEEEec
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK----AD-Q-ELPQLIEKH-----KVLGMVVNM 90 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~----~~-~-~L~~li~~~-----~i~~iVVGl 90 (123)
+|+||+|..++=+|+.|.. .+... ..++... .. + .+.++++++ ++++++++-
T Consensus 2 iL~IDIGnT~ik~gl~~~~-~i~~~-~~~~T~~~~~~~~~~~~l~~l~~~~~~~~~~i~~i~vss 64 (256)
T PRK13321 2 LLLIDVGNTNIKLGVFDGD-RLLRS-FRLPTDKSRTSDELGILLLSLFRHAGLDPEDIRAVVISS 64 (256)
T ss_pred EEEEEECCCeEEEEEEECC-EEEEE-EEEecCCCCCHHHHHHHHHHHHHHcCCChhhCCeEEEEe
Confidence 6999999999999999954 33321 2333111 12 3 788888776 488999994
No 30
>PRK13311 N-acetyl-D-glucosamine kinase; Provisional
Probab=86.54 E-value=2.8 Score=32.64 Aligned_cols=81 Identities=12% Similarity=0.123 Sum_probs=52.2
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc---cc-c-chHHHHhhcC-----cCeEEEeccCC---C-hH------
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK---AD-Q-ELPQLIEKHK-----VLGMVVNMPKE---H-HE------ 96 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~---~~-~-~L~~li~~~~-----i~~iVVGlP~~---d-Gt------ 96 (123)
++|+|+|..++-+++.|..+.+.. ...++.+. .. + .+.+++++.. +.+|-||.|=- + |.
T Consensus 2 ~lgidiggt~i~~~l~d~~g~i~~-~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgv~~pG~vd~~~g~i~~~~~ 80 (256)
T PRK13311 2 YYGFDMGGTKIELGVFDENLQRIW-HKRVPTPREDYPQLLQILRDLTEEADTYCGVQGSVGIGIPGLPNADDGTVFTANV 80 (256)
T ss_pred EEEEEECCCcEEEEEECCCCCEEE-EEEecCCCcCHHHHHHHHHHHHHHHHhhcCCCceEEEEecCcEECCCCEEEccCC
Confidence 699999999999999998876443 23343221 12 3 5666665432 34687887742 2 32
Q ss_pred ---HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 97 ---HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 97 ---~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.-..+++.|++++ ++||.+-+.
T Consensus 81 ~~w~~~~l~~~l~~~~---~~pV~leND 105 (256)
T PRK13311 81 PSAMGQPLQADLSRLI---QREVRIDND 105 (256)
T ss_pred CcccCCChHHHHHHHH---CCCEEEEch
Confidence 2236678888888 789887654
No 31
>PRK13320 pantothenate kinase; Reviewed
Probab=85.73 E-value=5.8 Score=31.43 Aligned_cols=71 Identities=15% Similarity=0.067 Sum_probs=43.7
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhc-CcCeEEEeccCCChHHHHHHHHHHhhcc
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKH-KVLGMVVNMPKEHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~-~i~~iVVGlP~~dGt~v~~f~~~L~~~~ 109 (123)
|+.+|.||.|..++=.|+.+....+.. ..++ .+... .+.++++.+ +++.+++.-... .....|.+.+++.+
T Consensus 1 ~~M~L~iDiGNT~ik~~~~~~~~~~~~--~~~~-~~~~~~~l~~~~~~~~~i~~i~vsSVvp--~~~~~~~~~~~~~~ 73 (244)
T PRK13320 1 VSMNLVIDIGNTTTKLAVFEGDELLEV--FVVS-TEGVEESLEKLLAKYPAIRDAIVSSVVP--LAEEAFSALLKLLF 73 (244)
T ss_pred CceEEEEEeCCCcEEEEEEECCEEEEE--EEEc-cHHHHHHHHHHHHHCCCCCEEEEEeccc--chHHHHHHHHHHhC
Confidence 467999999999999999985433322 2222 11223 677777766 588888884333 22344555554433
No 32
>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=85.38 E-value=1.1 Score=32.55 Aligned_cols=78 Identities=17% Similarity=0.300 Sum_probs=52.6
Q ss_pred EEecCCCeEEEEEeeCCCceeecceeeeCc-c-cc-c-----chHHHHhhcCcCeEEEeccCC-C-h--H---------H
Q 033269 39 GLDVGNKYIGVSLFKRHGNEVEPLTKFDRA-K-AD-Q-----ELPQLIEKHKVLGMVVNMPKE-H-H--E---------H 97 (123)
Q Consensus 39 glD~G~kriGlAvsD~~~~~a~Pl~~i~~~-~-~~-~-----~L~~li~~~~i~~iVVGlP~~-d-G--t---------~ 97 (123)
|||.|..++=+++.|..+.+.. ...++.+ + .. + .+.++..+++..+|-|+.|=. + + . .
T Consensus 1 gidig~~~i~~~l~d~~g~ii~-~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~gIgi~~pG~v~~~~g~i~~~~~~~~~ 79 (179)
T PF00480_consen 1 GIDIGGTSIRIALVDLDGEIIY-SESIPTPTSPEELLDALAELIERLLADYGRSGIGISVPGIVDSEKGRIISSPNPGWE 79 (179)
T ss_dssp EEEEESSEEEEEEEETTSCEEE-EEEEEHHSSHHHHHHHHHHHHHHHHHHHTCEEEEEEESSEEETTTTEEEECSSGTGT
T ss_pred CEEECCCEEEEEEECCCCCEEE-EEEEECCCCHHHHHHHHHHHHHHHHhhcccccEEEeccccCcCCCCeEEecCCCCcc
Confidence 7999999999999999987655 3445431 1 11 2 444555555544888888765 2 2 1 3
Q ss_pred HHHHHHHHhhcccCCCCCEEEec
Q 033269 98 VSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 98 v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
-..+.+.|++++ ++||.+.+
T Consensus 80 ~~~l~~~l~~~~---~~pv~i~N 99 (179)
T PF00480_consen 80 NIPLKEELEERF---GVPVIIEN 99 (179)
T ss_dssp TCEHHHHHHHHH---TSEEEEEE
T ss_pred cCCHHHHhhccc---ceEEEEec
Confidence 355778888888 78998765
No 33
>PRK13318 pantothenate kinase; Reviewed
Probab=84.85 E-value=4.8 Score=31.69 Aligned_cols=52 Identities=23% Similarity=0.392 Sum_probs=35.3
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcc----ccc--chHHHHhhcC-----cCeEEEec
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK----ADQ--ELPQLIEKHK-----VLGMVVNM 90 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~----~~~--~L~~li~~~~-----i~~iVVGl 90 (123)
+|+||+|..++=+|+.| .+.+.. ...++... .++ .+.++++.++ ++++.+|.
T Consensus 2 iL~IDIGnT~iK~al~d-~g~i~~-~~~~~t~~~~~~~~~~~~l~~l~~~~~~~~~~i~~I~iss 64 (258)
T PRK13318 2 LLAIDVGNTNTVFGLYE-GGKLVA-HWRISTDSRRTADEYGVWLKQLLGLSGLDPEDITGIIISS 64 (258)
T ss_pred EEEEEECCCcEEEEEEE-CCEEEE-EEEEeCCCCCCHHHHHHHHHHHHHHcCCCcccCceEEEEE
Confidence 79999999999999999 444332 12333111 223 6777777654 78999996
No 34
>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=82.87 E-value=5 Score=32.78 Aligned_cols=74 Identities=16% Similarity=0.324 Sum_probs=47.6
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCcccccchHHHHhhcC-----cCeEEEeccCCChHHHHHHHHHHhhcccC
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQELPQLIEKHK-----VLGMVVNMPKEHHEHVSSFIEQLDGNEIY 111 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~~L~~li~~~~-----i~~iVVGlP~~dGt~v~~f~~~L~~~~~~ 111 (123)
.+|||.|...+=+++.|..+.+.. ..+++.+.+ ++.+++++.. +..+.+ -|..+.+|++.+...+
T Consensus 2 ~iGiDiGgT~~Kiv~~~~~~~~~f--~~~~~~~~~-~~~~~l~~~~~~~~~~~~i~~-----TGgGa~k~~~~~~~~~-- 71 (279)
T TIGR00555 2 RIGIDIGGTLIKVVYEEPKGRRKF--KTFETTNID-KFIEWLKNQIHRHSRITTLCA-----TGGGAFKFAELIYESA-- 71 (279)
T ss_pred eEEEEeCcceEEEEEEcCCCcEEE--EEeecccHH-HHHHHHHHHHHhhcCceEEEE-----ECCcHHHHHHHhcccc--
Confidence 589999999999999987777654 566644311 3333333221 122222 2446888888888776
Q ss_pred CCCCEEEecC
Q 033269 112 RGLPFCYFQK 121 (123)
Q Consensus 112 ~~lpV~l~DE 121 (123)
++++...||
T Consensus 72 -~v~~~k~dE 80 (279)
T TIGR00555 72 -GIQLHKFDE 80 (279)
T ss_pred -CCcccchhH
Confidence 677777777
No 35
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=82.55 E-value=2.6 Score=37.49 Aligned_cols=81 Identities=15% Similarity=0.147 Sum_probs=53.3
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc-ccc--chHHHHhhc---CcCeEEEeccCC-ChH--------HH
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK-ADQ--ELPQLIEKH---KVLGMVVNMPKE-HHE--------HV 98 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~-~~~--~L~~li~~~---~i~~iVVGlP~~-dGt--------~v 98 (123)
...+||+|+|.-++=+|+.|..+.+.. ...++... ..+ .+.+++++. .+.++.||.|=. |+. ..
T Consensus 17 ~~~~L~iDIGGT~ir~al~~~~g~i~~-~~~~~t~~~~~~~~~i~~~l~~~~~~~~~~igig~pGpVd~~~~~~~nl~w~ 95 (638)
T PRK14101 17 DGPRLLADVGGTNARFALETGPGEITQ-IRVYPGADYPTLTDAIRKYLKDVKIGRVNHAAIAIANPVDGDQVRMTNHDWS 95 (638)
T ss_pred CCCEEEEEcCchhheeeeecCCCcccc-eeEEecCCCCCHHHHHHHHHHhcCCCCcceEEEEEecCccCCeeeecCCCcE
Confidence 456999999999999999987776543 34555322 223 666666554 378999999876 553 00
Q ss_pred HHHHHHHhhcccCCCCC-EEEe
Q 033269 99 SSFIEQLDGNEIYRGLP-FCYF 119 (123)
Q Consensus 99 ~~f~~~L~~~~~~~~lp-V~l~ 119 (123)
.. .+.|++++ ++| |.+.
T Consensus 96 ~~-~~~l~~~~---g~~~v~l~ 113 (638)
T PRK14101 96 FS-IEATRRAL---GFDTLLVV 113 (638)
T ss_pred ec-HHHHHHHc---CCCeEEEE
Confidence 12 36787777 786 4454
No 36
>PRK09604 UGMP family protein; Validated
Probab=81.39 E-value=6.1 Score=32.51 Aligned_cols=83 Identities=13% Similarity=0.114 Sum_probs=53.9
Q ss_pred ceEEEEecCCCeEEEEEeeCC-Cceeec-ce----------eeeCcc-----ccc--chHHHHhhc-----CcCeEEEec
Q 033269 35 LGILGLDVGNKYIGVSLFKRH-GNEVEP-LT----------KFDRAK-----ADQ--ELPQLIEKH-----KVLGMVVNM 90 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~-~~~a~P-l~----------~i~~~~-----~~~--~L~~li~~~-----~i~~iVVGl 90 (123)
|++||||--...+++|+.|.. ..++.- .. ++|... +.+ .+.+++++. +++.|+++.
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 679999999999999999866 333220 11 111110 122 466666654 479999985
Q ss_pred -cCC-ChH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 91 -PKE-HHE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 91 -P~~-dGt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
|=. .|- ....+++.|+..+ ++|++.++
T Consensus 81 GPG~~tglrvg~~~Ak~La~~~---~ipl~~v~ 110 (332)
T PRK09604 81 GPGLVGALLVGVSFAKALALAL---NKPLIGVN 110 (332)
T ss_pred CCCcHHhHHHHHHHHHHHHHHh---CCCEEeec
Confidence 433 332 6677888998877 78888775
No 37
>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=81.22 E-value=6.5 Score=29.24 Aligned_cols=52 Identities=23% Similarity=0.374 Sum_probs=34.1
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc----ccc---chHHHHhhcCcCeEEEec
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK----ADQ---ELPQLIEKHKVLGMVVNM 90 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~----~~~---~L~~li~~~~i~~iVVGl 90 (123)
|-|+|||+|.+..|..+-+..+.. +..+.-+. .++ .+..+++ ++++.++|=-
T Consensus 1 mii~sIDiGikNlA~~iie~~~~~---i~~~~i~~~~~~~~~~~~~~~dl~~-~~~d~VlIEr 59 (143)
T PF04848_consen 1 MIILSIDIGIKNLAYCIIEFEGNK---IRVIDISKVDWSRDWEYRILKDLLK-YEADTVLIER 59 (143)
T ss_pred CeEEEEecCCCceeEEEEEcCCCe---EEEEEeccCCcccchHHHHHHHHhh-ccCCEEEEec
Confidence 568999999999999999976643 22222111 232 3344444 8888888863
No 38
>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=80.38 E-value=9.3 Score=26.08 Aligned_cols=48 Identities=15% Similarity=0.261 Sum_probs=36.7
Q ss_pred EEEEec--CCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEe
Q 033269 37 ILGLDV--GNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVN 89 (123)
Q Consensus 37 iLglD~--G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVG 89 (123)
++||-. ....+|+|..|..+.... +..+. +. +|...+..++|..||+.
T Consensus 3 l~aI~~~~~~~~~gla~~D~sTGe~~-~~~~~----d~~~L~~~L~~~~P~EIi~~ 53 (137)
T PF05188_consen 3 LAAIYEKNDEDSYGLAYIDLSTGEFY-VTEFE----DYSELKSELARLSPREIIIP 53 (137)
T ss_dssp EEEEEEETCSSEEEEEEEETTTTEEE-EEEEE----CHHHHHHHHHHH-ESEEEEE
T ss_pred EEEEEEecCCCEEEEEEEECCCCEEE-EEEeC----CHHHHHHHHHhcCCeEEEEc
Confidence 566666 777799999998776554 33443 17 99999999999999998
No 39
>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=79.60 E-value=9.6 Score=28.99 Aligned_cols=70 Identities=20% Similarity=0.193 Sum_probs=46.1
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceee--eC--cc-ccc--chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhc
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKF--DR--AK-ADQ--ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGN 108 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i--~~--~~-~~~--~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~ 108 (123)
+|.+|.|..++=+|+.+..........+. .. .. ..+ .+.+++...+.+.+++. + .......+.+.+.+.
T Consensus 1 ~L~iDiGNT~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~is---SV~~~~~~~~~~~~~~~ 77 (206)
T PF03309_consen 1 ILLIDIGNTRIKWALFDGDKLIDPSGRISHSTALDSSSDELLELLESLLPQPKIDAVIIS---SVVPEATEQLLEALLKR 77 (206)
T ss_dssp EEEEEE-SSEEEEEEEETTEEEE-EEEE-EEECTTSSHHHHHHHHHHHHHCTTCGEEEEE---ESSGHHHHHHHHHHHHH
T ss_pred CEEEEECCCeEEEEEEECCEEEeeeeEEEecccccccHHHHHHHHHHHhccccCCcEEEE---EcCCHHHHHHHHHHHHH
Confidence 68999999999999999776554111221 11 11 223 88888888888888888 3 445666777777666
Q ss_pred c
Q 033269 109 E 109 (123)
Q Consensus 109 ~ 109 (123)
+
T Consensus 78 ~ 78 (206)
T PF03309_consen 78 F 78 (206)
T ss_dssp C
T ss_pred h
Confidence 5
No 40
>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=78.47 E-value=1.9 Score=39.95 Aligned_cols=23 Identities=30% Similarity=0.453 Sum_probs=20.5
Q ss_pred eEEEEecCCCeEEEEEeeCCCce
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~ 58 (123)
++||||.|+.-||-||.|.+...
T Consensus 2 y~LGLDiGt~SvGWAVv~~d~~~ 24 (805)
T TIGR01865 2 YILGLDIGIASVGWAIVEDDYKV 24 (805)
T ss_pred ceeEEeecccceeEEEEeccccc
Confidence 58999999999999999977654
No 41
>PRK09605 bifunctional UGMP family protein/serine/threonine protein kinase; Validated
Probab=77.01 E-value=8.3 Score=33.35 Aligned_cols=83 Identities=11% Similarity=0.114 Sum_probs=53.4
Q ss_pred ceEEEEecCCCeEEEEEeeCCC-ceeecceee--------eCc----c-ccc--chHHHHhh-----cCcCeEEEec-cC
Q 033269 35 LGILGLDVGNKYIGVSLFKRHG-NEVEPLTKF--------DRA----K-ADQ--ELPQLIEK-----HKVLGMVVNM-PK 92 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~-~~a~Pl~~i--------~~~----~-~~~--~L~~li~~-----~~i~~iVVGl-P~ 92 (123)
|.|||||-=..-|.+|+.+.++ .++.-...+ |.. - +.+ .+.+++++ .+++.|.++. |-
T Consensus 1 m~il~iets~~~~s~a~~~~~~~~~~~~~~~~~~~~gg~~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~gPg 80 (535)
T PRK09605 1 MIVLGIEGTAWKTSAGIVDSDGDVLFNESDPYKPPSGGIHPREAAEHHAEAIPKVIKEALEEAGLKPEDIDLVAFSQGPG 80 (535)
T ss_pred CEEEEEEccccceEEEEEeCCCcEEEEEEeeccCCcCCCChHHHHHHHHHHHHHHHHHHHHHcCCCHhhCCEEEECCCCC
Confidence 5799999999999999999543 333321111 100 0 223 55666665 4569999983 21
Q ss_pred C-ChH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 93 E-HHE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 93 ~-dGt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
. -|- ....||+.|+..+ ++|++.++
T Consensus 81 ~~~~l~vg~~~ak~la~~~---~~~~~~v~ 107 (535)
T PRK09605 81 LGPCLRVVATAARALALSL---DVPLIGVN 107 (535)
T ss_pred cHhhHHHHHHHHHHHHHHh---CCCeeccc
Confidence 1 111 6677899998887 88988765
No 42
>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=76.14 E-value=26 Score=28.18 Aligned_cols=89 Identities=13% Similarity=0.094 Sum_probs=54.6
Q ss_pred hhhhhccCCCCc-eEEEEecCCCeEEEEEeeCCCceeecceeeeCcc---------------------------------
Q 033269 24 VEKQCVGENAGL-GILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--------------------------------- 69 (123)
Q Consensus 24 ~~~~~~~~~~~~-riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--------------------------------- 69 (123)
+.+.+..+.... .++-+|+|...+-+++......... .+++...
T Consensus 176 ~~~~~~~~~~~~~~~~lvdiG~~~t~l~i~~~g~~~~~--r~i~~G~~~i~~~i~~~~~~~~~~Ae~~k~~~~~~~~~~~ 253 (348)
T TIGR01175 176 LGEQLASRTYRLTDAALVDIGATSSTLNLLHPGRMLFT--REVPFGTRQLTSELSRAYGLNPEEAGEAKQQGGLPLLYDP 253 (348)
T ss_pred HHhhCccccccCceEEEEEECCCcEEEEEEECCeEEEE--EEeechHHHHHHHHHHHcCCCHHHHHHHHhcCCCCCchhH
Confidence 334444444444 4899999999999999985543222 3333210
Q ss_pred --------ccc-chHHHHhhc-------CcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 70 --------ADQ-ELPQLIEKH-------KVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 70 --------~~~-~L~~li~~~-------~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
..+ ++...++-| .+++|++.- .|.....+.+.|++.+ ++||...|
T Consensus 254 ~~~~~~~~~l~~eI~~~l~~~~~~~~~~~i~~I~LtG---gga~~~gl~~~l~~~l---~~~v~~~~ 314 (348)
T TIGR01175 254 EVLRRFKGELVDEIRRSLQFFTAQSGTNSLDGLVLAG---GGATLSGLDAAIYQRL---GLPTEVAN 314 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHhhcCCCCCcccceEEEEC---ccccchhHHHHHHHHH---CCCeEecC
Confidence 112 444555333 477655540 4447778999999888 88888765
No 43
>PRK13317 pantothenate kinase; Provisional
Probab=75.98 E-value=9 Score=31.01 Aligned_cols=27 Identities=11% Similarity=0.161 Sum_probs=22.4
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceee
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVE 60 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~ 60 (123)
|+..+|||+|+..+=+|+.|....+..
T Consensus 1 m~~~iGIDiGstt~K~v~~~~~~~~~~ 27 (277)
T PRK13317 1 MEMKIGIDAGGTLTKIVYLEEKKQRTF 27 (277)
T ss_pred CCceEEEEeCcccEEEEEEcCCCeEEE
Confidence 566799999999999999987766543
No 44
>PRK13322 pantothenate kinase; Reviewed
Probab=74.88 E-value=13 Score=29.47 Aligned_cols=74 Identities=18% Similarity=0.194 Sum_probs=44.9
Q ss_pred EEEEecCCCeEEEEEeeC-CCceeecceeeeCccccc--chHHHHhhcCcCeEEEeccCC-Ch-HHHHHHHHHHhhcccC
Q 033269 37 ILGLDVGNKYIGVSLFKR-HGNEVEPLTKFDRAKADQ--ELPQLIEKHKVLGMVVNMPKE-HH-EHVSSFIEQLDGNEIY 111 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~-~~~~a~Pl~~i~~~~~~~--~L~~li~~~~i~~iVVGlP~~-dG-t~v~~f~~~L~~~~~~ 111 (123)
+|.||.|..++=.++.+. ...+.+ .. ...+...+ .+..+ ...+++.+++. + -+ .....+.+.+++.+
T Consensus 2 ~L~IDiGNT~iK~~l~~~~~~~~~~-~~-~~~t~~~~~~~l~~~-~~~~i~~v~vs---SV~p~~~~~~l~~~l~~~~-- 73 (246)
T PRK13322 2 ILELDCGNSRLKWRVIDNGGQIIEH-GA-HLDSPAELLLGLANL-ASLAPTRCRIV---SVLSEEETARLVAILEKRL-- 73 (246)
T ss_pred EEEEEeCCCcEEEEEEcCCCchhhh-cc-ccCCHHHHHHHHHhC-CccCCCEEEEE---eCCCHHHHHHHHHHHHHHh--
Confidence 799999999999999995 333222 11 11111222 44433 44468999888 3 34 35566777776666
Q ss_pred CCCCEEEe
Q 033269 112 RGLPFCYF 119 (123)
Q Consensus 112 ~~lpV~l~ 119 (123)
++|+.++
T Consensus 74 -~~~~~~v 80 (246)
T PRK13322 74 -GIPVVFA 80 (246)
T ss_pred -CCCeEEE
Confidence 5566554
No 45
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=74.83 E-value=40 Score=26.69 Aligned_cols=81 Identities=16% Similarity=0.295 Sum_probs=47.2
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc--------cc-------c-chHHHHhhc---CcCeEEEeccCC-
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK--------AD-------Q-ELPQLIEKH---KVLGMVVNMPKE- 93 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~--------~~-------~-~L~~li~~~---~i~~iVVGlP~~- 93 (123)
..-++|||+|+.+|=+.+.+.... ++.+....+ .+ + .+.+.++++ .+..+++..|-+
T Consensus 23 ~~~~~~iDiGSssi~~vv~~~~~~---~~~~~~~~~~~vr~G~i~di~~a~~~i~~~~~~ae~~~g~~i~~v~~~vp~~~ 99 (267)
T PRK15080 23 SPLKVGVDLGTANIVLAVLDEDGQ---PVAGALEWADVVRDGIVVDFIGAVTIVRRLKATLEEKLGRELTHAATAIPPGT 99 (267)
T ss_pred CCEEEEEEccCceEEEEEEcCCCC---EEEEEeccccccCCCEEeeHHHHHHHHHHHHHHHHHHhCCCcCeEEEEeCCCC
Confidence 467899999999999888776553 222222111 11 2 333333333 478899999988
Q ss_pred ChHHHHHHHHHHhhcccCCCCCEE-EecC
Q 033269 94 HHEHVSSFIEQLDGNEIYRGLPFC-YFQK 121 (123)
Q Consensus 94 dGt~v~~f~~~L~~~~~~~~lpV~-l~DE 121 (123)
+-...+.+.+.+++ . ++++. +++|
T Consensus 100 ~~~~~~~~~~~~~~-a---Gl~~~~ii~e 124 (267)
T PRK15080 100 SEGDPRAIINVVES-A---GLEVTHVLDE 124 (267)
T ss_pred CchhHHHHHHHHHH-c---CCceEEEech
Confidence 43344445554443 3 66666 4444
No 46
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=74.68 E-value=8.1 Score=27.19 Aligned_cols=45 Identities=24% Similarity=0.584 Sum_probs=31.3
Q ss_pred cc-chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 71 DQ-ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 71 ~~-~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
+. ++.+++++++++.++|=+|.++...+.++.+.+++. +++|.++
T Consensus 129 ~~~~l~~~~~~~~id~v~ial~~~~~~~i~~ii~~~~~~----~v~v~~v 174 (175)
T PF13727_consen 129 DLDDLPELVREHDIDEVIIALPWSEEEQIKRIIEELENH----GVRVRVV 174 (175)
T ss_dssp -GGGHHHHHHHHT--EEEE--TTS-HHHHHHHHHHHHTT----T-EEEE-
T ss_pred CHHHHHHHHHhCCCCEEEEEcCccCHHHHHHHHHHHHhC----CCEEEEe
Confidence 45 899999999999999999999556889999999864 5666554
No 47
>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=73.96 E-value=6.8 Score=32.04 Aligned_cols=81 Identities=14% Similarity=0.093 Sum_probs=50.8
Q ss_pred EEEEecCCCeEEEEEeeCCC-ceeec----------ce-eeeC----cc-ccc--chHHHHhh-----cCcCeEEEec-c
Q 033269 37 ILGLDVGNKYIGVSLFKRHG-NEVEP----------LT-KFDR----AK-ADQ--ELPQLIEK-----HKVLGMVVNM-P 91 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~-~~a~P----------l~-~i~~----~~-~~~--~L~~li~~-----~~i~~iVVGl-P 91 (123)
|||||-=+..+++|+.|... .++.- +. +.|. .. ..+ .+.+++++ .+++.|.|+. |
T Consensus 1 iLaIdTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~GP 80 (314)
T TIGR03723 1 ILGIETSCDETAVAIVDDGKGLLSNIVASQIELHARYGGVVPELASRAHLEAIPPLIEEALAEAGLTLSDIDAIAVTAGP 80 (314)
T ss_pred CEEEECcccceEEEEEECCceEEEEEEeehhhhccCcCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC
Confidence 68999999999999998654 33321 00 1111 00 223 66676665 4578888882 2
Q ss_pred CC-ChH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 92 KE-HHE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 92 ~~-dGt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
=+ -|- ....+|+.|+..+ ++|++.++
T Consensus 81 Gsftglrig~~~Ak~la~~~---~~p~~~v~ 108 (314)
T TIGR03723 81 GLIGALLVGVSFAKALALAL---NKPLIGVN 108 (314)
T ss_pred ChHHhHHHHHHHHHHHHHHh---CCCEEecc
Confidence 22 222 6678888888776 78887764
No 48
>PTZ00340 O-sialoglycoprotein endopeptidase-like protein; Provisional
Probab=71.59 E-value=15 Score=30.90 Aligned_cols=83 Identities=13% Similarity=0.113 Sum_probs=51.7
Q ss_pred ceEEEEecCCCeEEEEEeeCCCc-eeecc---------eeeeCcc-----ccc--chHHHHhh-----cCcCeEEEec-c
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGN-EVEPL---------TKFDRAK-----ADQ--ELPQLIEK-----HKVLGMVVNM-P 91 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~-~a~Pl---------~~i~~~~-----~~~--~L~~li~~-----~~i~~iVVGl-P 91 (123)
|+|||||-=...+++|+.|.++. ++.-. ++++... +.+ -+.+++++ .+++.|.+.. |
T Consensus 1 ~~iLgIETScd~tsvAl~~~~~~il~~~~~sq~~~~G~GvvP~~a~r~H~~~l~~~i~~~l~~a~~~~~did~Iavt~GP 80 (345)
T PTZ00340 1 FLALGIEGSANKLGVGIVTSDGEILSNVRETYITPPGTGFLPRETAQHHREHILSLVKEALEEAKITPSDISLICYTKGP 80 (345)
T ss_pred CeEEEEEccchhhEEEEEECCCcEEEEEEeeccccCCCCcCchHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC
Confidence 57999999999999999986543 33211 3333211 223 55566555 4578888872 1
Q ss_pred CC-ChH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 92 KE-HHE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 92 ~~-dGt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
=. -|= .-..||+.|+..+ ++|++-++
T Consensus 81 Gl~~~LrVG~~~Ak~LA~a~---~~PligV~ 108 (345)
T PTZ00340 81 GMGAPLSVGAVVARTLSLLW---GKPLVGVN 108 (345)
T ss_pred CcHhhHHHHHHHHHHHHHHc---CCCEeecc
Confidence 11 111 6677888888777 78876543
No 49
>PRK03011 butyrate kinase; Provisional
Probab=71.48 E-value=23 Score=29.69 Aligned_cols=60 Identities=13% Similarity=0.248 Sum_probs=38.9
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc------------ccc---chHHHHhhc-----CcCeEEEec---
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK------------ADQ---ELPQLIEKH-----KVLGMVVNM--- 90 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~------------~~~---~L~~li~~~-----~i~~iVVGl--- 90 (123)
|++||+|.||+.-+=+|+.+....+.. +++.-+. .++ .+.+++++. +++.+ +|-
T Consensus 1 ~~~il~inpgststk~a~~~~~~~~~~--~~~~h~~~~~~~~~~~~~q~~~r~~~i~~~l~~~g~~~~~l~av-~~RgG~ 77 (358)
T PRK03011 1 MMRILVINPGSTSTKIAVFEDEKPIFE--ETLRHSAEELEKFKTIIDQYEFRKQAILDFLKEHGIDLSELDAV-VGRGGL 77 (358)
T ss_pred CCEEEEEcCCCchheEEEEcCCceeee--eccccCHHHHhcCCCccchHHHHHHHHHHHHHHcCCChhcceEE-EEcCCC
Confidence 578999999999999999986654433 3332111 122 566677766 34444 888
Q ss_pred --cCCChH
Q 033269 91 --PKEHHE 96 (123)
Q Consensus 91 --P~~dGt 96 (123)
|.+.|+
T Consensus 78 ~~~v~gG~ 85 (358)
T PRK03011 78 LKPIPGGT 85 (358)
T ss_pred CcccCCCC
Confidence 766555
No 50
>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=70.86 E-value=14 Score=26.31 Aligned_cols=49 Identities=18% Similarity=0.259 Sum_probs=33.2
Q ss_pred eecceeeeCccccc-chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhh
Q 033269 59 VEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDG 107 (123)
Q Consensus 59 a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~ 107 (123)
.+|+.-+-...-.+ .|.+.+++.+++.+|+...-+ +|+....|..++-+
T Consensus 32 ispl~gi~p~~l~i~~L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~ 82 (112)
T cd01025 32 ISPLDGIGPDDLNIDKLLERIAKGQVKEVILATNPTVEGEATALYIAKLLK 82 (112)
T ss_pred cCCCCCCCccccCHHHHHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHh
Confidence 44554443122345 899999999999999999999 99855555444433
No 51
>PRK10854 exopolyphosphatase; Provisional
Probab=70.83 E-value=22 Score=31.01 Aligned_cols=89 Identities=6% Similarity=0.105 Sum_probs=56.5
Q ss_pred cCCCCceEEEEecCCCeEEEEEeeCCCceeecceeee----------Ccc-----------ccc-chHHHHhhcCcCeE-
Q 033269 30 GENAGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFD----------RAK-----------ADQ-ELPQLIEKHKVLGM- 86 (123)
Q Consensus 30 ~~~~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~----------~~~-----------~~~-~L~~li~~~~i~~i- 86 (123)
+.+.++.+-+||.|+-.+=+.+.+....-...+.... .++ ..+ .+.+++++|+++.+
T Consensus 6 ~~~~~~~~A~IDIGSNSirL~I~e~~~~~~~~i~~~k~~vrLg~g~~~~g~Ls~e~~~r~~~~L~~F~~~~~~~~v~~v~ 85 (513)
T PRK10854 6 KSPRPQEFAAVDLGSNSFHMVIARVVDGAMQIIGRLKQRVHLADGLDSDNMLSEEAMERGLNCLSLFAERLQGFSPANVC 85 (513)
T ss_pred CCCCCCEEEEEEeccchheEEEEEecCCcEEEeeeeeEEEECCCCcCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCeEE
Confidence 4566788999999999999999885432111111110 011 114 77788889999754
Q ss_pred EEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 87 VVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 87 VVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
+|+---- +-.....|.+++++.+ +++|...+-
T Consensus 86 ~vATsAlReA~N~~~fl~~i~~~t---Gl~i~vIsG 118 (513)
T PRK10854 86 IVGTHTLRQALNATDFLKRAEKVI---PYPIEIISG 118 (513)
T ss_pred EEehHHHHcCcCHHHHHHHHHHHH---CCCeEEeCH
Confidence 4441000 1116788999999988 899987763
No 52
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.06 E-value=25 Score=29.42 Aligned_cols=71 Identities=13% Similarity=0.165 Sum_probs=45.7
Q ss_pred ceEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc--chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhh
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ--ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDG 107 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~--~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~ 107 (123)
|.+|++|+|.-..-+-.-|. ...-++.-+.+...+.+ .|+-+. +......++|-|.--|-..+++.+.|++
T Consensus 1 mkila~DvG~GTqDi~~~d~-~~EnSl~mVmPspt~~~A~R~R~~~-~~g~~l~l~G~~MGGGp~travrrhlk~ 73 (342)
T COG4012 1 MKILAIDVGVGTQDIVAYDG-DPENSLRMVMPSPTSTLAQRLRFML-REGPYLALIGVPMGGGPTTRAVRRHLKK 73 (342)
T ss_pred CceEEEEecCCceeEEEecC-CcccceeEeecCchHHHHHHHHHHh-ccCCcEEEEeeecCCChhhHHHHHHHhc
Confidence 57899999999888887775 23334444555332333 555444 4566888888777666566666666664
No 53
>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=67.91 E-value=5.1 Score=34.57 Aligned_cols=19 Identities=32% Similarity=0.704 Sum_probs=15.9
Q ss_pred EEEEecCCCeEEEEEeeCC
Q 033269 37 ILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~ 55 (123)
|+|||+|+..+.+|+.+..
T Consensus 1 viGID~Gt~~~~va~~~~~ 19 (602)
T PF00012_consen 1 VIGIDLGTTNSKVAVFKNG 19 (602)
T ss_dssp EEEEEE-SSEEEEEEEETT
T ss_pred CEEEEeccCCEEEEEEEec
Confidence 6999999999999998743
No 54
>PRK13324 pantothenate kinase; Reviewed
Probab=67.70 E-value=35 Score=27.38 Aligned_cols=76 Identities=14% Similarity=0.176 Sum_probs=42.3
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeC-----ccccc--chHHHHhhc-----CcCeEEEeccCCChHHHHHHHHH
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDR-----AKADQ--ELPQLIEKH-----KVLGMVVNMPKEHHEHVSSFIEQ 104 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~-----~~~~~--~L~~li~~~-----~i~~iVVGlP~~dGt~v~~f~~~ 104 (123)
+|++|.|..++=.|+.|......+ . .++. +...+ .+..++..+ .++.+++.-= --.....|.+.
T Consensus 2 iL~iDiGNT~ik~gl~~~~~~~~~-~-r~~t~~~~~t~de~~~~l~~~~~~~~~~~~~i~~viisSV--vP~l~~~l~~~ 77 (258)
T PRK13324 2 LLVMDMGNSHIHIGVFDGDRIVSQ-I-RYATSSVDSTSDQMGVFLRQALRENSVDLGKIDGCGISSV--VPHLNYSLGSA 77 (258)
T ss_pred EEEEEeCCCceEEEEEECCEEEEE-E-EEecCccccchHHHHHHHHHHHHhcCCCccCCCeEEEEeC--cchhHHHHHHH
Confidence 799999999999999995433222 1 2221 11122 667776553 5778888810 11133344444
Q ss_pred HhhcccCCCCCEEEe
Q 033269 105 LDGNEIYRGLPFCYF 119 (123)
Q Consensus 105 L~~~~~~~~lpV~l~ 119 (123)
+.+.+ +.++.++
T Consensus 78 ~~~~~---~~~~~~v 89 (258)
T PRK13324 78 VIKYF---NIKPFFI 89 (258)
T ss_pred HHHHh---CCCeEEE
Confidence 44445 4555444
No 55
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=66.96 E-value=16 Score=29.48 Aligned_cols=45 Identities=16% Similarity=0.319 Sum_probs=38.5
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+-+.+.+.|+|.||--.. .++...+..+++++++ ++|++++.
T Consensus 32 ei~~~~~~~GTDaImIGGS~gvt~~~~~~~v~~ik~~~---~lPvilfP 77 (240)
T COG1646 32 EIAEAAAEAGTDAIMIGGSDGVTEENVDNVVEAIKERT---DLPVILFP 77 (240)
T ss_pred HHHHHHHHcCCCEEEECCcccccHHHHHHHHHHHHhhc---CCCEEEec
Confidence 788888889999999996655 5668999999999887 89999864
No 56
>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=66.41 E-value=3.6 Score=31.92 Aligned_cols=40 Identities=28% Similarity=0.434 Sum_probs=29.0
Q ss_pred HHhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCCc
Q 033269 10 VRLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHGN 57 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~~ 57 (123)
..|||+... .++..+..+++||||.|...+=++...-.+.
T Consensus 46 l~MlPs~v~--------~~P~G~E~G~~LalDlGGTnlRv~~V~L~g~ 85 (206)
T PF00349_consen 46 LKMLPSYVT--------SLPTGNEKGDFLALDLGGTNLRVALVELSGN 85 (206)
T ss_dssp S-EEEESEE--------SSTTSTTEEEEEEEEESSSSEEEEEEEEESS
T ss_pred eeccccccc--------cCCCCCCCceEEEEeecCcEEEEEEEEEcCC
Confidence 357777665 3444555789999999999988888776654
No 57
>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=65.64 E-value=17 Score=29.32 Aligned_cols=79 Identities=15% Similarity=0.192 Sum_probs=46.4
Q ss_pred EEEecCCCeEEEEEeeCCCceeecceeeeCcc-ccc--chHHHHhhcC------cCeEEEeccCC-ChH--------HHH
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK-ADQ--ELPQLIEKHK------VLGMVVNMPKE-HHE--------HVS 99 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~-~~~--~L~~li~~~~------i~~iVVGlP~~-dGt--------~v~ 99 (123)
|++|+|.-++=+|+.|..+.+.....+.+... ..+ .+.+++++++ +..+.||.|=. +|. ...
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 68999999999999987653222234433111 223 6666666542 44567777654 443 102
Q ss_pred HHHHHHhhcccCCCC-CEEEec
Q 033269 100 SFIEQLDGNEIYRGL-PFCYFQ 120 (123)
Q Consensus 100 ~f~~~L~~~~~~~~l-pV~l~D 120 (123)
.. +.|++.+ ++ ||.+.+
T Consensus 81 ~~-~~l~~~~---g~~~V~l~N 98 (316)
T TIGR00749 81 SI-AELKQNL---GFSHLEIIN 98 (316)
T ss_pred CH-HHHHHhc---CCCeEEEEe
Confidence 33 3677667 77 487764
No 58
>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=64.13 E-value=11 Score=24.47 Aligned_cols=44 Identities=16% Similarity=0.131 Sum_probs=33.1
Q ss_pred chHHHHhhcCcCeEEEeccCC---ChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE---HHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~---dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.+.+.+++++++.||+|-.-. .+...-.+++.|.+.. ++||..+
T Consensus 93 ~i~~~~~~~~~dliv~G~~~~~~~~~~~~gs~~~~l~~~~---~~pVlvv 139 (140)
T PF00582_consen 93 AIIEFAEEHNADLIVMGSRGRSGLERLLFGSVAEKLLRHA---PCPVLVV 139 (140)
T ss_dssp HHHHHHHHTTCSEEEEESSSTTSTTTSSSHHHHHHHHHHT---SSEEEEE
T ss_pred hhhhccccccceeEEEeccCCCCccCCCcCCHHHHHHHcC---CCCEEEe
Confidence 899999999999999997663 2225556777777766 5787654
No 59
>COG5026 Hexokinase [Carbohydrate transport and metabolism]
Probab=63.13 E-value=33 Score=30.22 Aligned_cols=60 Identities=20% Similarity=0.300 Sum_probs=38.4
Q ss_pred CceEEEEecCCCeEEEEEeeCC--Ccee-------ecceeeeCcc--cc---c--chHHHHhhcCc--------CeEEEe
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH--GNEV-------EPLTKFDRAK--AD---Q--ELPQLIEKHKV--------LGMVVN 89 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~--~~~a-------~Pl~~i~~~~--~~---~--~L~~li~~~~i--------~~iVVG 89 (123)
.+++|+||.|.-+.=++...-. +++- .|.+...... +. + .|+.++.++.+ -++-.-
T Consensus 74 ~g~~LaiD~GGTnlRvc~V~l~g~gt~~~~~sks~lp~e~~~~~~~~~l~~~iadrl~~fi~~~~~~~~~~~l~~gfTFS 153 (466)
T COG5026 74 SGSVLAIDLGGTNLRVCLVVLGGDGTFDIEQSKSFLPVECRDSESRDELFGFIADRLAAFIKEQHPSGYGSKLPIGFTFS 153 (466)
T ss_pred CCCEEEEecCCceEEEEEEEeCCCCCcccccCcccCchhhccCCChHHHHHHHHHHHHHHHHHhCchhccCcceeeEEEe
Confidence 5789999999987776665443 2211 2333333211 11 2 78889999888 677777
Q ss_pred ccCC
Q 033269 90 MPKE 93 (123)
Q Consensus 90 lP~~ 93 (123)
+|.+
T Consensus 154 YP~~ 157 (466)
T COG5026 154 YPLN 157 (466)
T ss_pred cccc
Confidence 7886
No 60
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=62.72 E-value=13 Score=33.52 Aligned_cols=40 Identities=18% Similarity=0.356 Sum_probs=29.6
Q ss_pred hchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeC
Q 033269 12 LIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~ 54 (123)
.+.|.|..+|-+-..|... ++.++|||+|+..+-+|+.+.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~---~~~viGIDlGTt~s~va~~~~ 60 (663)
T PTZ00400 21 VLSSAMRSLCTSAIRFAKA---TGDIVGIDLGTTNSCVAIMEG 60 (663)
T ss_pred hhHHHHHHHHHHhhhhhhh---cCcEEEEEECcccEEEEEEeC
Confidence 4567788888775533322 357999999999999999863
No 61
>PRK13410 molecular chaperone DnaK; Provisional
Probab=62.31 E-value=9.5 Score=34.51 Aligned_cols=22 Identities=23% Similarity=0.308 Sum_probs=19.2
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
|+.++|||+|+..+-+|+.+..
T Consensus 1 m~~viGIDlGTt~s~va~~~~g 22 (668)
T PRK13410 1 MGRIVGIDLGTTNSVVAVMEGG 22 (668)
T ss_pred CCcEEEEEeCCCcEEEEEEECC
Confidence 5679999999999999998754
No 62
>PRK13326 pantothenate kinase; Reviewed
Probab=61.90 E-value=75 Score=25.50 Aligned_cols=22 Identities=32% Similarity=0.498 Sum_probs=19.1
Q ss_pred ceEEEEecCCCeEEEEEeeCCC
Q 033269 35 LGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~ 56 (123)
..+|+||+|..++=+|+.+...
T Consensus 6 ~~~L~IDiGNT~ik~glf~~~~ 27 (262)
T PRK13326 6 SSQLIIDIGNTSISFALYKDNK 27 (262)
T ss_pred cEEEEEEeCCCeEEEEEEECCE
Confidence 5689999999999999999544
No 63
>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]
Probab=61.82 E-value=7.7 Score=36.77 Aligned_cols=24 Identities=29% Similarity=0.459 Sum_probs=21.4
Q ss_pred CCceEEEEecCCCeEEEEEeeCCC
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~ 56 (123)
++.++||||+|..-||-|++..+-
T Consensus 2 ~~~yilglDIGi~SVGWAvve~de 25 (1088)
T COG3513 2 KKAYILGLDIGINSVGWAVVEDDE 25 (1088)
T ss_pred CcceEEEeeccccceeeEEeeccc
Confidence 578999999999999999997665
No 64
>COG0443 DnaK Molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=61.34 E-value=8.9 Score=34.16 Aligned_cols=23 Identities=22% Similarity=0.446 Sum_probs=20.6
Q ss_pred CceEEEEecCCCeEEEEEeeCCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~ 56 (123)
++.++|||+|+-.+=+|+.+...
T Consensus 4 ~~~~iGIDlGTTNS~vA~~~~~~ 26 (579)
T COG0443 4 AKKAIGIDLGTTNSVVAVMRGGG 26 (579)
T ss_pred CceEEEEEcCCCcEEEEEEeCCC
Confidence 56899999999999999999764
No 65
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=60.52 E-value=13 Score=26.39 Aligned_cols=29 Identities=14% Similarity=0.172 Sum_probs=16.5
Q ss_pred cCcCeEEEeccCCChH---HHHHHHHHHhhcc
Q 033269 81 HKVLGMVVNMPKEHHE---HVSSFIEQLDGNE 109 (123)
Q Consensus 81 ~~i~~iVVGlP~~dGt---~v~~f~~~L~~~~ 109 (123)
.+.+.||+|-|...|. .+++|+++....+
T Consensus 42 ~~yD~vi~gspiy~g~~~~~~~~fi~~~~~~l 73 (143)
T PF12724_consen 42 SDYDAVIFGSPIYAGRIPGEMREFIKKNKDNL 73 (143)
T ss_pred ccCCEEEEEEEEECCcCCHHHHHHHHHHHHHH
Confidence 3456667776666443 4566666554433
No 66
>CHL00094 dnaK heat shock protein 70
Probab=59.54 E-value=11 Score=33.52 Aligned_cols=22 Identities=18% Similarity=0.293 Sum_probs=19.0
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
|+.++|||+|+..+=+|+.+..
T Consensus 1 m~~viGIDlGTt~s~va~~~~g 22 (621)
T CHL00094 1 MGKVVGIDLGTTNSVVAVMEGG 22 (621)
T ss_pred CCceEEEEeCcccEEEEEEECC
Confidence 5679999999999999998643
No 67
>PRK13411 molecular chaperone DnaK; Provisional
Probab=59.12 E-value=12 Score=33.72 Aligned_cols=22 Identities=18% Similarity=0.333 Sum_probs=18.9
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
|+.++|||+|+..+=+|+.+..
T Consensus 1 m~~viGIDlGTt~s~va~~~~g 22 (653)
T PRK13411 1 MGKVIGIDLGTTNSCVAVLEGG 22 (653)
T ss_pred CCcEEEEEeCcccEEEEEEECC
Confidence 4579999999999999998753
No 68
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=58.74 E-value=12 Score=33.30 Aligned_cols=22 Identities=23% Similarity=0.341 Sum_probs=18.6
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
|+.++|||+|+..+-+|+.+..
T Consensus 1 m~~viGIDlGTt~s~va~~~~g 22 (627)
T PRK00290 1 MGKIIGIDLGTTNSCVAVMEGG 22 (627)
T ss_pred CCcEEEEEeCcccEEEEEEECC
Confidence 4568999999999999998743
No 69
>PRK09472 ftsA cell division protein FtsA; Reviewed
Probab=58.28 E-value=31 Score=29.17 Aligned_cols=57 Identities=11% Similarity=0.216 Sum_probs=36.0
Q ss_pred ceEEEEecCCCeEEEEEee--CCC-ceeecceeeeCcc------cc----c-chHHHHhh------cCcCeEEEecc
Q 033269 35 LGILGLDVGNKYIGVSLFK--RHG-NEVEPLTKFDRAK------AD----Q-ELPQLIEK------HKVLGMVVNMP 91 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD--~~~-~~a~Pl~~i~~~~------~~----~-~L~~li~~------~~i~~iVVGlP 91 (123)
.-+.|||+|+.+|=+++++ ..+ .........+... .+ . .+++.+++ .++..+++|.|
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 3578999999999887876 233 2222333333211 12 2 66666655 57999999987
No 70
>PRK09982 universal stress protein UspD; Provisional
Probab=56.43 E-value=35 Score=23.80 Aligned_cols=43 Identities=7% Similarity=0.026 Sum_probs=28.7
Q ss_pred chHHHHhhcCcCeEEEeccCCChH-HHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE-HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt-~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.|.+.++++++|.||+|-- ++|- .....++++-+.. .+||..+
T Consensus 94 ~I~~~A~~~~aDLIVmG~~-~~~~~~~~~va~~V~~~s---~~pVLvv 137 (142)
T PRK09982 94 TLLEIMQKEQCDLLVCGHH-HSFINRLMPAYRGMINKM---SADLLIV 137 (142)
T ss_pred HHHHHHHHcCCCEEEEeCC-hhHHHHHHHHHHHHHhcC---CCCEEEe
Confidence 7888899999999999931 1221 1113566666555 6888765
No 71
>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=56.26 E-value=42 Score=23.45 Aligned_cols=40 Identities=25% Similarity=0.431 Sum_probs=27.5
Q ss_pred ccc-chHHHHhhcCcCeEEEeccCCChH-HHHHHHHHHhhcccCCCCCEE
Q 033269 70 ADQ-ELPQLIEKHKVLGMVVNMPKEHHE-HVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 70 ~~~-~L~~li~~~~i~~iVVGlP~~dGt-~v~~f~~~L~~~~~~~~lpV~ 117 (123)
.+. .+.+++++++|+.+||| --. .+.-.+..|++. ++|++
T Consensus 49 ~d~~~l~~~a~~~~idlvvvG----PE~pL~~Gl~D~l~~~----gi~vf 90 (100)
T PF02844_consen 49 TDPEELADFAKENKIDLVVVG----PEAPLVAGLADALRAA----GIPVF 90 (100)
T ss_dssp T-HHHHHHHHHHTTESEEEES----SHHHHHTTHHHHHHHT----T-CEE
T ss_pred CCHHHHHHHHHHcCCCEEEEC----ChHHHHHHHHHHHHHC----CCcEE
Confidence 567 99999999999999999 333 444456666553 56553
No 72
>PRK13328 pantothenate kinase; Reviewed
Probab=55.92 E-value=56 Score=26.01 Aligned_cols=78 Identities=19% Similarity=0.150 Sum_probs=45.9
Q ss_pred eEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEeccCC-ChH-HHHHHHHHHhhcccCC
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVNMPKE-HHE-HVSSFIEQLDGNEIYR 112 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVGlP~~-dGt-~v~~f~~~L~~~~~~~ 112 (123)
.+|-||.|..|+=.|+.+..+..... .... ..... ....+.+...++.+++- + -|. ....|.+.+++.++
T Consensus 2 M~LliDiGNTriKwa~~~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~i~vs---SV~~p~~~~~l~~~l~~~~~-- 74 (255)
T PRK13328 2 MILLIDAGNSRIKWAWADAGRPWVHS-GAFA-HGLDAALAPDWSALPAPRGAWIS---NVAGPAVAARLDALLAARWP-- 74 (255)
T ss_pred cEEEEEeCccceeEEEEcCCCceeec-chhc-ccchHHHHHHHHhCCCCCeEEEE---ecCChhHHHHHHHHHHHHhC--
Confidence 37999999999999999965332221 1111 11111 33345555678888877 2 222 45566677776662
Q ss_pred CCCEEEec
Q 033269 113 GLPFCYFQ 120 (123)
Q Consensus 113 ~lpV~l~D 120 (123)
++++.++.
T Consensus 75 ~~~~~~v~ 82 (255)
T PRK13328 75 GLPVTWVR 82 (255)
T ss_pred CCCeEEEe
Confidence 26776654
No 73
>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=55.04 E-value=8 Score=29.34 Aligned_cols=49 Identities=22% Similarity=0.291 Sum_probs=33.0
Q ss_pred CceEEEEecCCCe-----EEEEEeeCCCceeecceeeeCcc-------cc-c-chHHHHhhcCc
Q 033269 34 GLGILGLDVGNKY-----IGVSLFKRHGNEVEPLTKFDRAK-------AD-Q-ELPQLIEKHKV 83 (123)
Q Consensus 34 ~~riLglD~G~kr-----iGlAvsD~~~~~a~Pl~~i~~~~-------~~-~-~L~~li~~~~i 83 (123)
|..+|+||+-+.- +|-|+-+....+..... ...++ .. . +|+.++++++.
T Consensus 1 ~~~~LslD~STs~~~~~gTG~A~~~~~~~~~~si~-~~~k~Ks~~ER~k~ias~Lk~ii~~~d~ 63 (159)
T PF07066_consen 1 MKKVLSLDFSTSSKKGEGTGWAFFKGSDLVVGSIK-AKHKSKSFFERAKSIASELKTIIQKYDL 63 (159)
T ss_pred CCeeEEEEEecccCCCCCceeEEecCCeEEEeeee-ecCcccCHHHHHHHHHHHHHHHHHHhCC
Confidence 6789999999997 99999985555444321 22122 12 3 88888887764
No 74
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=55.03 E-value=27 Score=28.43 Aligned_cols=53 Identities=23% Similarity=0.445 Sum_probs=0.0
Q ss_pred EEecCCCeEEEEEeeCCCc---------eeecceeeeCcc----ccc--chHHHHhhcCc--CeEEEecc
Q 033269 39 GLDVGNKYIGVSLFKRHGN---------EVEPLTKFDRAK----ADQ--ELPQLIEKHKV--LGMVVNMP 91 (123)
Q Consensus 39 glD~G~kriGlAvsD~~~~---------~a~Pl~~i~~~~----~~~--~L~~li~~~~i--~~iVVGlP 91 (123)
|||+|+..|-++.....+. ...|-..+.... ..+ .|++++.++++ ..+++++|
T Consensus 1 GiDiG~~siK~v~l~~~~~~~~l~~~~~~~~p~~~i~~g~i~d~~~l~~~L~~~~~~~~~~~k~v~~aip 70 (340)
T PF11104_consen 1 GIDIGSSSIKAVELSKKGNRFQLEAFASIPLPPGAISDGEIVDPEALAEALKELLKENKIKGKKVVLAIP 70 (340)
T ss_dssp EEEE-SSEEEEEEEETTTT--EEEEEEEEE--TTSEETTEES-HHHHHHHHHHHHHHHT----EEEEEE-
T ss_pred CeecCCCeEEEEEEEEcCCccEEEEEEEEECCCCCccCCCcCCHHHHHHHHHHHHHHcCCCCCeEEEEeC
No 75
>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=55.02 E-value=23 Score=27.02 Aligned_cols=24 Identities=33% Similarity=0.602 Sum_probs=20.7
Q ss_pred eEEEEecCCCeEEEEEeeCCCcee
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a 59 (123)
.+||||+|+.-+=+++.|..+.+.
T Consensus 1 y~lgiDiGTts~K~~l~d~~g~iv 24 (245)
T PF00370_consen 1 YYLGIDIGTTSVKAVLFDEDGKIV 24 (245)
T ss_dssp EEEEEEECSSEEEEEEEETTSCEE
T ss_pred CEEEEEEcccceEEEEEeCCCCEE
Confidence 379999999999999999888643
No 76
>PRK10939 autoinducer-2 (AI-2) kinase; Provisional
Probab=54.89 E-value=18 Score=31.23 Aligned_cols=25 Identities=28% Similarity=0.440 Sum_probs=21.9
Q ss_pred CceEEEEecCCCeEEEEEeeCCCce
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
|..+||||+|+.-+=.++.|.++.+
T Consensus 2 m~~~lgID~GTts~Ka~l~d~~G~~ 26 (520)
T PRK10939 2 MSYLMALDAGTGSIRAVIFDLNGNQ 26 (520)
T ss_pred CcEEEEEecCCCceEEEEECCCCCE
Confidence 4568999999999999999998853
No 77
>PTZ00294 glycerol kinase-like protein; Provisional
Probab=54.68 E-value=18 Score=31.15 Aligned_cols=25 Identities=24% Similarity=0.244 Sum_probs=22.0
Q ss_pred CceEEEEecCCCeEEEEEeeCCCce
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
|..+||||+|+..|=.++.|.++.+
T Consensus 1 ~~~~lgiDiGTts~Ka~l~d~~G~~ 25 (504)
T PTZ00294 1 MKYIGSIDQGTTSTRFIIFDEKGNV 25 (504)
T ss_pred CcEEEEEecCCCceEEEEECCCCCE
Confidence 4468999999999999999998864
No 78
>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=54.66 E-value=38 Score=27.40 Aligned_cols=80 Identities=13% Similarity=0.108 Sum_probs=50.8
Q ss_pred EEEecCCCeEEEEEeeCCC-ceeecce-----------eeeCc-----cccc--chHHHHhhc-----CcCeEEEec-cC
Q 033269 38 LGLDVGNKYIGVSLFKRHG-NEVEPLT-----------KFDRA-----KADQ--ELPQLIEKH-----KVLGMVVNM-PK 92 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~-~~a~Pl~-----------~i~~~-----~~~~--~L~~li~~~-----~i~~iVVGl-P~ 92 (123)
||||--...+++|+.|.++ .++.-.. +.+.. .+.+ .+.+++++. .++.|.|+. |=
T Consensus 1 LaidTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~iav~~GPG 80 (305)
T TIGR00329 1 LGIETSCDDTGVAIVDEEGNVLANIKISQIPLHAKYGGVVPEEASRHHAENIPPLLERALIESNVDKSEIDLIAYTQGPG 80 (305)
T ss_pred CEEecCccceEEEEEECCCcEEEEEEecccccccccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCCC
Confidence 6899999999999998533 3332110 11110 1223 566666553 468999984 44
Q ss_pred C-ChH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 93 E-HHE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 93 ~-dGt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
+ .|- ....+++.|+..+ ++|++.++
T Consensus 81 ~~tglrvg~~~Ak~la~~~---~~p~~~v~ 107 (305)
T TIGR00329 81 LGGSLRVGATFARSLALSL---DKPLIGVN 107 (305)
T ss_pred chhhHHHHHHHHHHHHHHh---CCCEeecc
Confidence 4 443 6677888888777 88888765
No 79
>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=54.64 E-value=31 Score=27.20 Aligned_cols=45 Identities=20% Similarity=0.275 Sum_probs=37.7
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++.-|.. . ...+.+|.+.+.+.. ++||.+.|
T Consensus 86 ~~a~~a~~~G~d~v~~~~P~~~~~~~~~l~~~~~~ia~~~---~~pi~lYn 133 (284)
T cd00950 86 ELTKRAEKAGADAALVVTPYYNKPSQEGLYAHFKAIAEAT---DLPVILYN 133 (284)
T ss_pred HHHHHHHHcCCCEEEEcccccCCCCHHHHHHHHHHHHhcC---CCCEEEEE
Confidence 888888999999999999977 3 337888888888875 89999876
No 80
>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=53.83 E-value=44 Score=26.04 Aligned_cols=44 Identities=9% Similarity=0.179 Sum_probs=35.2
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.+...+.+...+.|.||-=.. +.+.+.+..+.+++.+ ++||+++
T Consensus 15 ~ia~~v~~~gtDaI~VGGS~gvt~~~~~~~v~~ik~~~---~lPvilf 59 (205)
T TIGR01769 15 KIAKNAKDAGTDAIMVGGSLGIVESNLDQTVKKIKKIT---NLPVILF 59 (205)
T ss_pred HHHHHHHhcCCCEEEEcCcCCCCHHHHHHHHHHHHhhc---CCCEEEE
Confidence 566677888999999994444 5558888999998876 8999875
No 81
>PRK13844 recombination protein RecR; Provisional
Probab=53.68 E-value=29 Score=27.25 Aligned_cols=34 Identities=24% Similarity=0.392 Sum_probs=26.5
Q ss_pred c-chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHH
Q 033269 72 Q-ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQL 105 (123)
Q Consensus 72 ~-~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L 105 (123)
+ .|.+.+++.++..+|+...-+ +|+....|..++
T Consensus 127 i~~L~~Ri~~~~v~EVIlAt~~t~EGe~Ta~yi~~~ 162 (200)
T PRK13844 127 LDILQQIIADRKIDEVILAISPTVEGETTAHFISQM 162 (200)
T ss_pred HHHHHHHHhcCCCcEEEEeCCCCccHHHHHHHHHHH
Confidence 5 888888888999999999999 998544444433
No 82
>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=53.09 E-value=22 Score=29.36 Aligned_cols=61 Identities=15% Similarity=0.123 Sum_probs=38.8
Q ss_pred HhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCCceeecceeeeCccc----cc--chHHHHhhcC
Q 033269 19 KFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKA----DQ--ELPQLIEKHK 82 (123)
Q Consensus 19 ~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~----~~--~L~~li~~~~ 82 (123)
||-.-+||-.-=.+..|..+|||+|+..+=+++-|. +.+.. ..+++ +.. .. .|.++.++.+
T Consensus 16 ~~~~~~~~~~~~~~~~m~~~GIDiGStt~K~Vlld~-~~i~~-~~~~~-tg~~~~~~a~~~l~~~l~~~g 82 (293)
T TIGR03192 16 QENTVFDENKDWKDAKIITCGIDVGSVSSQAVLVCD-GELYG-YNSMR-TGNNSPDSAKNALQGIMDKIG 82 (293)
T ss_pred hhhhhcchhccccccccEEEEEEeCchhEEEEEEeC-CEEEE-EEeec-CCCCHHHHHHHHHHHHHHHcC
Confidence 666666665554555577899999999999999994 44332 33443 321 22 5556666554
No 83
>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=53.04 E-value=73 Score=25.08 Aligned_cols=68 Identities=16% Similarity=0.150 Sum_probs=38.6
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCc----cccc--chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcc
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRA----KADQ--ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~----~~~~--~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~ 109 (123)
+|++|+|..++=+|+.+... +.. .-.++.. ...+ .|..++.. +++.+++.-= .-.....|.+.+.+.+
T Consensus 1 ~L~iDiGNT~i~~g~~~~~~-~~~-~~r~~t~~~~t~de~~~~l~~~~~~-~i~~v~vsSV--vp~~~~~l~~~~~~~~ 74 (243)
T TIGR00671 1 LLLIDVGNTRIVFALNSGNK-VYQ-FWRLATNLMKTYDEHSEFLKELFGK-SLNKAFISSV--VPELTEAVRNMIPKIK 74 (243)
T ss_pred CEEEEECCCcEEEEEEECCE-EEE-EEEecCCCccChHHHHHHHHHHHHh-hCCEEEEEEc--cCChHHHHHHHHHHHh
Confidence 37899999999999998543 222 1122211 1122 56666655 4888888711 1123344555555544
No 84
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=52.90 E-value=22 Score=32.16 Aligned_cols=22 Identities=23% Similarity=0.477 Sum_probs=19.2
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
++.++|||+|+..+-+|+.+..
T Consensus 26 ~~~viGIDLGTTnS~vA~~~~~ 47 (657)
T PTZ00186 26 QGDVIGVDLGTTYSCVATMDGD 47 (657)
T ss_pred cceEEEEEeCcCeEEEEEEeCC
Confidence 5679999999999999998754
No 85
>PF07520 SrfB: Virulence factor SrfB; InterPro: IPR009216 This entry represents proteins of unknown function. It has been shown in Salmonella enterica that srfB is one of the genes activated by the global signal transduction/regulatory system SsrA/B []. This activation takes place within eukaryotic cells. The activated genes include pathogenicity island 2 (SPI-2) genes and at least 10 other genes (srfB is one of them) which are believed to be horizontally acquired, and to be involved in virulence/pathogenicity [].
Probab=50.97 E-value=15 Score=35.30 Aligned_cols=49 Identities=24% Similarity=0.298 Sum_probs=40.8
Q ss_pred hHHHHhchhhhHHhhhhhhhhhccC-------------CCCceEEEEecCCCeEEEEEeeCC
Q 033269 7 NHLVRLIPSHLFKFCGRVEKQCVGE-------------NAGLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~riLglD~G~kriGlAvsD~~ 55 (123)
+.||||--.--.||-|+.|+|+... .+..||-+||+|.=.+=++|++-.
T Consensus 525 ~QlVyLYnE~~~~fgG~~~~FF~~~~rp~~~~~~~~~~~~slriASIDIGGGTTDL~It~Y~ 586 (1002)
T PF07520_consen 525 GQLVYLYNEIQVKFGGRAEEFFALMARPDRQPAPGEDPGPSLRIASIDIGGGTTDLMITQYR 586 (1002)
T ss_pred eeeeehhHHHHHHcCCCHHHHHHHhcCCCccccccCCCCCceEEEEEecCCCcceeeEEEEE
Confidence 4688888888999999999998732 124689999999999999999855
No 86
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=50.78 E-value=37 Score=26.56 Aligned_cols=35 Identities=14% Similarity=0.204 Sum_probs=26.7
Q ss_pred c-chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHh
Q 033269 72 Q-ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLD 106 (123)
Q Consensus 72 ~-~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~ 106 (123)
+ .|.+.+++.++..+|+...-+ +|+....|..++-
T Consensus 123 i~~L~~Ri~~~~v~EVIlAt~~tvEGe~Ta~yi~~~l 159 (195)
T TIGR00615 123 IAALLKRLQEESVKEVILATNPTVEGEATALYIARLL 159 (195)
T ss_pred HHHHHHHHhcCCCcEEEEeCCCCchHHHHHHHHHHHh
Confidence 5 888888888999999999888 9984444444333
No 87
>PF14450 FtsA: Cell division protein FtsA; PDB: 1E4F_T 4A2B_A 4A2A_A 1E4G_T.
Probab=49.64 E-value=20 Score=24.86 Aligned_cols=20 Identities=20% Similarity=0.365 Sum_probs=16.4
Q ss_pred EEEEecCCCeEEEEEeeCCC
Q 033269 37 ILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~ 56 (123)
|.+||.|+.++.+++.....
T Consensus 1 i~~iDiGs~~~~~~i~~~~~ 20 (120)
T PF14450_consen 1 IVVIDIGSSKTKVAIAEDGS 20 (120)
T ss_dssp EEEEEE-SSSEEEEEEETTE
T ss_pred CEEEEcCCCcEEEEEEEeCC
Confidence 57999999999999998633
No 88
>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=47.97 E-value=46 Score=26.43 Aligned_cols=45 Identities=18% Similarity=0.293 Sum_probs=37.5
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. .- ..+.+|.+.+.+.. ++||++.|
T Consensus 84 ~~a~~a~~~Gad~v~v~pP~y~~~~~~~i~~~~~~i~~~~---~~pi~lYn 131 (285)
T TIGR00674 84 SLTKFAEDVGADGFLVVTPYYNKPTQEGLYQHFKAIAEEV---DLPIILYN 131 (285)
T ss_pred HHHHHHHHcCCCEEEEcCCcCCCCCHHHHHHHHHHHHhcC---CCCEEEEE
Confidence 788888999999999999988 43 37778888888776 78998876
No 89
>PRK00047 glpK glycerol kinase; Provisional
Probab=46.60 E-value=26 Score=29.99 Aligned_cols=23 Identities=35% Similarity=0.458 Sum_probs=20.3
Q ss_pred eEEEEecCCCeEEEEEeeCCCce
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~ 58 (123)
.+||||.|+..+=.++.|..+.+
T Consensus 6 ~~lgiD~GTts~Ka~l~d~~g~~ 28 (498)
T PRK00047 6 YILALDQGTTSSRAIIFDHDGNI 28 (498)
T ss_pred EEEEEecCCCceEEEEECCCCCE
Confidence 48999999999999999988753
No 90
>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=46.15 E-value=70 Score=20.33 Aligned_cols=49 Identities=8% Similarity=0.105 Sum_probs=26.6
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch------H---------HHHHHHHHHhhcccCCCCCEEEecCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH------E---------HVSSFIEQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG------t---------~v~~f~~~L~~~~~~~~lpV~l~DEr 122 (123)
.|.+...+ .++.||+|...+ .+ + .-..|.+.|+-.....|++|..+||+
T Consensus 15 ~iv~~~~~-~~~~Ivie~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~yka~~~Gi~v~~v~~~ 79 (82)
T TIGR01766 15 QIVEYAKE-NNGTIVLEDLKNIKEMVDKKSKYLRRKLHQWSFRKLISKIKYKAEEYGIEVIEVNPA 79 (82)
T ss_pred HHHHHHHH-cCCEEEECCccchhhhcchhhHHHHHHHHhhhHHHHHHHHHHHHHHcCCeEEEeCcc
Confidence 34444444 568999998762 11 1 12223333332111128999999986
No 91
>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=45.79 E-value=55 Score=21.85 Aligned_cols=43 Identities=7% Similarity=0.152 Sum_probs=29.7
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~ 117 (123)
++.+.+.+++++.+.+..+.. +-....++++.+++..+ +++|.
T Consensus 42 ~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p--~~~iv 85 (121)
T PF02310_consen 42 ELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKERNP--NIPIV 85 (121)
T ss_dssp HHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCT--TSEEE
T ss_pred HHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCC--CCEEE
Confidence 666677778888888876655 44477777777777665 55554
No 92
>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=45.50 E-value=44 Score=21.41 Aligned_cols=44 Identities=11% Similarity=0.009 Sum_probs=29.5
Q ss_pred c-chHHHHhhcCcCeEEEeccCCCh---HHHHHHHHHHhhcccCCCCCEEE
Q 033269 72 Q-ELPQLIEKHKVLGMVVNMPKEHH---EHVSSFIEQLDGNEIYRGLPFCY 118 (123)
Q Consensus 72 ~-~L~~li~~~~i~~iVVGlP~~dG---t~v~~f~~~L~~~~~~~~lpV~l 118 (123)
. .|.+.+++++++.+|+|....+. ......++.|-+.. +.|+.+
T Consensus 82 ~~~i~~~~~~~~~dlvvig~~~~~~~~~~~~~~~~~~ll~~~---~~pvli 129 (130)
T cd00293 82 AEAILEAAEELGADLIVMGSRGRSGLRRLLLGSVAERVLRHA---PCPVLV 129 (130)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCCCccceeeeccHHHHHHhCC---CCCEEe
Confidence 5 89999999999999999644311 13444455555444 567764
No 93
>PRK10116 universal stress protein UspC; Provisional
Probab=45.46 E-value=71 Score=21.71 Aligned_cols=44 Identities=7% Similarity=0.038 Sum_probs=30.0
Q ss_pred chHHHHhhcCcCeEEEeccCCChH-HHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE-HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt-~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.+.+.++++++|.||+|-.-.++- ..-.-++++-... ++||..+
T Consensus 93 ~I~~~a~~~~~DLiV~g~~~~~~~~~~~s~a~~v~~~~---~~pVLvv 137 (142)
T PRK10116 93 HILEVCRKHHFDLVICGNHNHSFFSRASCSAKRVIASS---EVDVLLV 137 (142)
T ss_pred HHHHHHHHhCCCEEEEcCCcchHHHHHHHHHHHHHhcC---CCCEEEE
Confidence 788899999999999995432221 2223456666655 6888765
No 94
>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=45.35 E-value=28 Score=27.75 Aligned_cols=45 Identities=22% Similarity=0.274 Sum_probs=32.8
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.+.+++++++++++|.-.... +.. ....+.+.+++.. ++|+..+|
T Consensus 277 ~~~~~~~~~~~dgvi~~~~~~C~~~~~~~~~l~~~~~~~~---gIP~l~le 324 (349)
T PF06050_consen 277 YIDDLIEKYGADGVIFHGHKGCDPYSYDQPLLKEALREFL---GIPVLFLE 324 (349)
T ss_dssp HHHHHHHHTT-SEEEEEEETT-HHHHCCHHHHHHHHHCCH---T--EEEEE
T ss_pred HHHHHHHHhCCCEEEEhHhcCCCcHHHHHHHHHHHHHHhc---CCCeEeec
Confidence 899999999999999998777 443 6667777777765 78986544
No 95
>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=45.24 E-value=70 Score=26.22 Aligned_cols=55 Identities=20% Similarity=0.329 Sum_probs=33.6
Q ss_pred EEEEecCCCeEEEEEeeCC--C-ceeecceeeeCc----c--cc----c-chHHHHhh------cCcCeEEEecc
Q 033269 37 ILGLDVGNKYIGVSLFKRH--G-NEVEPLTKFDRA----K--AD----Q-ELPQLIEK------HKVLGMVVNMP 91 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~--~-~~a~Pl~~i~~~----~--~~----~-~L~~li~~------~~i~~iVVGlP 91 (123)
++|||+|+.+|=+++.... + .........+.. . .+ . .+++.+++ .++..++++.|
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 6899999999999887532 2 111222222211 1 12 2 67777765 56778888886
No 96
>PTZ00107 hexokinase; Provisional
Probab=44.90 E-value=24 Score=30.84 Aligned_cols=40 Identities=10% Similarity=0.157 Sum_probs=30.1
Q ss_pred HHhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCCc
Q 033269 10 VRLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHGN 57 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~~ 57 (123)
..|+|+... .++.....++.||||.|....=++...-.+.
T Consensus 57 l~Mlps~v~--------~lPtG~E~G~fLAlDlGGTN~RV~~V~L~g~ 96 (464)
T PTZ00107 57 FKMLDSCVY--------NLPTGKEKGVYYAIDFGGTNFRAVRVSLRGG 96 (464)
T ss_pred ccccccccC--------CCCCCCccceEEEEecCCceEEEEEEEeCCC
Confidence 457777665 3445556789999999999999888887653
No 97
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=44.87 E-value=72 Score=21.84 Aligned_cols=42 Identities=19% Similarity=0.120 Sum_probs=29.4
Q ss_pred chHHHHhhcCcCeEEEeccCCChH---HHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE---HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt---~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.|.+.++++++|.||+|- .|+ ..-.-++++-+.. ++||..+-
T Consensus 94 ~I~~~a~~~~~DLIV~Gs---~~~~~~~lgSva~~v~~~a---~~pVLvv~ 138 (144)
T PRK15118 94 VLVDAIKKYDMDLVVCGH---HQDFWSKLMSSARQLINTV---HVDMLIVP 138 (144)
T ss_pred HHHHHHHHhCCCEEEEeC---cccHHHHHHHHHHHHHhhC---CCCEEEec
Confidence 788899999999999993 122 2224455665555 68888774
No 98
>PRK03170 dihydrodipicolinate synthase; Provisional
Probab=44.51 E-value=57 Score=25.89 Aligned_cols=45 Identities=22% Similarity=0.351 Sum_probs=36.9
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. . -..+.+|.+.+.+.. ++||++.|
T Consensus 87 ~~a~~a~~~G~d~v~~~pP~~~~~~~~~i~~~~~~ia~~~---~~pv~lYn 134 (292)
T PRK03170 87 ELTKFAEKAGADGALVVTPYYNKPTQEGLYQHFKAIAEAT---DLPIILYN 134 (292)
T ss_pred HHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcC---CCCEEEEE
Confidence 788888999999999999986 3 237778888888776 78998876
No 99
>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=44.44 E-value=43 Score=26.51 Aligned_cols=45 Identities=16% Similarity=0.294 Sum_probs=36.3
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++.-|.. . .+.+.+|.+.+.+.. ++||.+.|
T Consensus 87 ~~a~~a~~~Gad~v~v~~P~~~~~s~~~l~~y~~~ia~~~---~~pi~iYn 134 (289)
T PF00701_consen 87 ELARHAQDAGADAVLVIPPYYFKPSQEELIDYFRAIADAT---DLPIIIYN 134 (289)
T ss_dssp HHHHHHHHTT-SEEEEEESTSSSCCHHHHHHHHHHHHHHS---SSEEEEEE
T ss_pred HHHHHHhhcCceEEEEeccccccchhhHHHHHHHHHHhhc---CCCEEEEE
Confidence 888888999999999999987 3 337788888888766 89998876
No 100
>PRK15027 xylulokinase; Provisional
Probab=43.96 E-value=27 Score=29.84 Aligned_cols=24 Identities=29% Similarity=0.538 Sum_probs=21.1
Q ss_pred eEEEEecCCCeEEEEEeeCCCcee
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a 59 (123)
.+||||+|+..+=.++-|..+.+.
T Consensus 1 ~~lgID~GTts~Ka~l~d~~G~vv 24 (484)
T PRK15027 1 MYIGIDLGTSGVKVILLNEQGEVV 24 (484)
T ss_pred CEEEEEecccceEEEEEcCCCCEE
Confidence 379999999999999999988654
No 101
>PLN02669 xylulokinase
Probab=43.70 E-value=38 Score=29.90 Aligned_cols=28 Identities=11% Similarity=0.115 Sum_probs=23.9
Q ss_pred CCCCceEEEEecCCCeEEEEEeeCCCce
Q 033269 31 ENAGLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 31 ~~~~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
.+....+||||.||..+=.++.|..+.+
T Consensus 4 ~~~~~~~LGiD~GT~s~Ka~l~d~~g~v 31 (556)
T PLN02669 4 LPEDSLFLGFDSSTQSLKATVLDSNLRI 31 (556)
T ss_pred CCCCCeEEEEecccCCeEEEEEcCCCCE
Confidence 4456779999999999999999988875
No 102
>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=43.14 E-value=38 Score=22.42 Aligned_cols=44 Identities=5% Similarity=0.035 Sum_probs=29.6
Q ss_pred chHHHHhhcCcCeEEEeccCCCh--H-HHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHH--E-HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dG--t-~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.|.+++++++++.||+|..-..+ . .....++.+-++. +.||..+
T Consensus 85 ~I~~~a~~~~~dlIV~G~~~~~~~~~~~lGs~~~~v~~~~---~~pvlvv 131 (132)
T cd01988 85 GILRTAKERQADLIIMGWHGSTSLRDRLFGGVIDQVLESA---PCDVAVV 131 (132)
T ss_pred HHHHHHHhcCCCEEEEecCCCCCccceecCchHHHHHhcC---CCCEEEe
Confidence 88889999999999999754411 1 2334455555555 5777654
No 103
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=42.93 E-value=33 Score=30.63 Aligned_cols=20 Identities=15% Similarity=0.210 Sum_probs=17.5
Q ss_pred CceEEEEecCCCeEEEEEee
Q 033269 34 GLGILGLDVGNKYIGVSLFK 53 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD 53 (123)
|..++|||+|+....+|+..
T Consensus 18 ~~~viGIDlGTT~S~va~~~ 37 (595)
T PRK01433 18 RQIAVGIDFGTTNSLIAIAT 37 (595)
T ss_pred CceEEEEEcCcccEEEEEEe
Confidence 44689999999999999985
No 104
>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=42.89 E-value=1.2e+02 Score=24.31 Aligned_cols=59 Identities=20% Similarity=0.426 Sum_probs=37.1
Q ss_pred ceEEEEecCCCeEEEEEeeCCCc--ee-------ecceeeeCcc-cc---c--chHHHHhhcCc--CeEEEeccCC
Q 033269 35 LGILGLDVGNKYIGVSLFKRHGN--EV-------EPLTKFDRAK-AD---Q--ELPQLIEKHKV--LGMVVNMPKE 93 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~~~--~a-------~Pl~~i~~~~-~~---~--~L~~li~~~~i--~~iVVGlP~~ 93 (123)
..++|||+|+..|=++.....+. .. .|-..+.... .+ + .|++++++.+. ..+++++|-+
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 46899999999999888874332 11 1222332111 11 3 78888887765 4688888653
No 105
>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=42.56 E-value=58 Score=25.24 Aligned_cols=21 Identities=29% Similarity=0.518 Sum_probs=18.1
Q ss_pred EEEEecCCCeEEEEEeeCCCce
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~ 58 (123)
++|||.|+..+=.++.| .+.+
T Consensus 2 ~lGIDiGtts~K~vl~d-~g~i 22 (248)
T TIGR00241 2 SLGIDSGSTTTKMVLME-DGKV 22 (248)
T ss_pred EEEEEcChhheEEEEEc-CCEE
Confidence 68999999999999999 5543
No 106
>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=42.00 E-value=35 Score=26.57 Aligned_cols=35 Identities=20% Similarity=0.425 Sum_probs=20.8
Q ss_pred HHhhcCcCeEEEeccCC-ChH----HHHHHHHHHhhcccCCCCCEEE
Q 033269 77 LIEKHKVLGMVVNMPKE-HHE----HVSSFIEQLDGNEIYRGLPFCY 118 (123)
Q Consensus 77 li~~~~i~~iVVGlP~~-dGt----~v~~f~~~L~~~~~~~~lpV~l 118 (123)
.+.+.+++++|+| .++ ||+ ..+.+.+... ++|++|
T Consensus 80 ~~~~~GadG~VfG-~L~~dg~iD~~~~~~Li~~a~------~~~~tF 119 (201)
T PF03932_consen 80 MLRELGADGFVFG-ALTEDGEIDEEALEELIEAAG------GMPVTF 119 (201)
T ss_dssp HHHHTT-SEEEE---BETTSSB-HHHHHHHHHHHT------TSEEEE
T ss_pred HHHHcCCCeeEEE-eECCCCCcCHHHHHHHHHhcC------CCeEEE
Confidence 3456899999999 566 887 4444444332 667776
No 107
>PLN03184 chloroplast Hsp70; Provisional
Probab=41.67 E-value=32 Score=31.11 Aligned_cols=22 Identities=18% Similarity=0.389 Sum_probs=18.5
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
+..++|||+|+..+-+|+.+..
T Consensus 38 ~~~viGIDlGTt~s~va~~~~g 59 (673)
T PLN03184 38 AEKVVGIDLGTTNSAVAAMEGG 59 (673)
T ss_pred CCCEEEEEeCcCcEEEEEEECC
Confidence 3468999999999999998644
No 108
>PRK11104 hemG protoporphyrinogen oxidase; Provisional
Probab=40.84 E-value=46 Score=24.79 Aligned_cols=33 Identities=9% Similarity=0.084 Sum_probs=19.7
Q ss_pred cCeEEEeccCCChH---HHHHHHHHHhhcccCCCCCEE
Q 033269 83 VLGMVVNMPKEHHE---HVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 83 i~~iVVGlP~~dGt---~v~~f~~~L~~~~~~~~lpV~ 117 (123)
.+.||+|-|...|. .++.|.++....+. +.++.
T Consensus 47 yD~vIlGspi~~G~~~~~~~~fl~~~~~~l~--~K~v~ 82 (177)
T PRK11104 47 YDRVVIGASIRYGHFHSALYKFVKKHATQLN--QMPSA 82 (177)
T ss_pred CCEEEEECccccCCcCHHHHHHHHHHHHHhC--CCeEE
Confidence 46788888877443 66777665544332 44444
No 109
>PRK04123 ribulokinase; Provisional
Probab=40.58 E-value=37 Score=29.42 Aligned_cols=22 Identities=27% Similarity=0.496 Sum_probs=19.5
Q ss_pred eEEEEecCCCeEEEEEeeC-CCc
Q 033269 36 GILGLDVGNKYIGVSLFKR-HGN 57 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~-~~~ 57 (123)
.+||||.|+.-+=.++.|. .+.
T Consensus 4 ~~lgiD~GTts~Ka~l~d~~~g~ 26 (548)
T PRK04123 4 YVIGLDFGTDSVRALLVDCATGE 26 (548)
T ss_pred EEEEEecCCCceEEEEEECCCCc
Confidence 5899999999999999994 775
No 110
>KOG1220 consensus Phosphoglucomutase/phosphomannomutase [Carbohydrate transport and metabolism]
Probab=40.45 E-value=39 Score=30.72 Aligned_cols=35 Identities=20% Similarity=0.395 Sum_probs=28.5
Q ss_pred CeEEEeccCCChH-HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 84 LGMVVNMPKEHHE-HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 84 ~~iVVGlP~~dGt-~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
-+||||. ||. .+++||+..+..|...+.+|++++|
T Consensus 103 ~giviG~---D~R~~S~~fA~l~a~vf~~~g~~v~lf~~ 138 (607)
T KOG1220|consen 103 LGIVIGH---DGRYNSKRFAELVAAVFLLNGFKVYLFSE 138 (607)
T ss_pred ceEEEec---CCccchHHHHHHHHHHHHhCCceEEEecc
Confidence 4999997 787 8899999988777445789998874
No 111
>COG0248 GppA Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]
Probab=40.09 E-value=1e+02 Score=27.28 Aligned_cols=85 Identities=13% Similarity=0.209 Sum_probs=55.6
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeC----------cc-----------ccc-chHHHHhhcCcCe-EEEec
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDR----------AK-----------ADQ-ELPQLIEKHKVLG-MVVNM 90 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~----------~~-----------~~~-~L~~li~~~~i~~-iVVGl 90 (123)
++++-+||.|+--|=+-|.+....-.+.+....+ ++ ..+ .+.++++.+++.. .||+-
T Consensus 2 ~~~~A~IDiGSNS~rlvV~~~~~~~~~~l~~~k~~vrLgegl~~~g~L~~eai~R~~~aL~~f~e~~~~~~~~~v~~vAT 81 (492)
T COG0248 2 ARRVAAIDLGSNSFRLVVAEITPGSFQVLFREKRIVRLGEGLDATGNLSEEAIERALSALKRFAELLDGFGAEEVRVVAT 81 (492)
T ss_pred CceEEEEEecCCeEEEEEEeccCCccchhhhhhhheehhcCccccCCcCHHHHHHHHHHHHHHHHHHhhCCCCEEEEehh
Confidence 5788999999999999999966311111111110 00 114 6778888899987 45552
Q ss_pred cCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 91 PKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 91 P~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
--- +-+...+|..+.++.+ +++|..++.
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 111 1127789999999998 899988764
No 112
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=39.44 E-value=41 Score=27.00 Aligned_cols=42 Identities=14% Similarity=0.176 Sum_probs=26.4
Q ss_pred hHHHHhhcCcCeEEEeccCC-ChHHHHHHHH-HHhhcccCCCCCEEEe
Q 033269 74 LPQLIEKHKVLGMVVNMPKE-HHEHVSSFIE-QLDGNEIYRGLPFCYF 119 (123)
Q Consensus 74 L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~-~L~~~~~~~~lpV~l~ 119 (123)
=-+|++++..+++|.| .++ ||+.-+.-.+ .++..- ++||+|.
T Consensus 86 Dv~llk~~GAdGfVFG-aLt~dgsid~~~C~si~~~~r---plPVTFH 129 (255)
T KOG4013|consen 86 DVELLKKAGADGFVFG-ALTSDGSIDRTSCQSIIETAR---PLPVTFH 129 (255)
T ss_pred HHHHHHHcCCCceEEe-ecCCCCCcCHHHHHHHHHhcC---CCceeee
Confidence 3467889999999999 566 8872222222 222222 6888874
No 113
>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=39.30 E-value=57 Score=24.46 Aligned_cols=51 Identities=18% Similarity=0.291 Sum_probs=35.0
Q ss_pred EEEecCCCeEEEEEeeCC-CceeecceeeeCcc---ccc--chHHHHhhc-----CcCeEEEe
Q 033269 38 LGLDVGNKYIGVSLFKRH-GNEVEPLTKFDRAK---ADQ--ELPQLIEKH-----KVLGMVVN 89 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~-~~~a~Pl~~i~~~~---~~~--~L~~li~~~-----~i~~iVVG 89 (123)
+|||+|.-.+=..+.|.. +.+++ ..+..... .-+ .|.++..+. +++.+++|
T Consensus 2 igIDvGGT~TD~v~~d~~~~~~~~-~K~~Tt~~d~~~gi~~al~~l~~~~~~~~~~i~~v~~g 63 (176)
T PF05378_consen 2 IGIDVGGTFTDAVLLDEDTGVVAT-AKVPTTPDDPAEGILEALDALLEESGIDPSDIDRVRHG 63 (176)
T ss_pred eeEecCCCcEEEEEEeCCCCEEEE-EEeCCCCcCHHHHHHHHHHhhhcccCCChhhCcEEEec
Confidence 799999999999998888 45544 33333211 113 777777654 67889998
No 114
>COG1924 Activator of 2-hydroxyglutaryl-CoA dehydratase (HSP70-class ATPase domain) [Lipid metabolism]
Probab=39.27 E-value=60 Score=28.14 Aligned_cols=32 Identities=22% Similarity=0.269 Sum_probs=25.5
Q ss_pred cCCCCceEEEEecCCCeEEEEEeeCCCceeec
Q 033269 30 GENAGLGILGLDVGNKYIGVSLFKRHGNEVEP 61 (123)
Q Consensus 30 ~~~~~~riLglD~G~kriGlAvsD~~~~~a~P 61 (123)
.+-..+..||||.|+..+=.++.+....+...
T Consensus 130 ~~~~~~~~LGID~GSTtTK~VLm~d~~~I~~~ 161 (396)
T COG1924 130 REYQGMYTLGIDSGSTTTKAVLMEDGKEILYG 161 (396)
T ss_pred hhhcCcEEEEEecCCcceeEEEEeCCCeEEEE
Confidence 33346889999999999999999977766653
No 115
>PRK11678 putative chaperone; Provisional
Probab=39.19 E-value=34 Score=29.52 Aligned_cols=18 Identities=22% Similarity=0.573 Sum_probs=16.2
Q ss_pred EEEEecCCCeEEEEEeeC
Q 033269 37 ILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~ 54 (123)
++|||+||..+=+|+.+.
T Consensus 2 ~iGID~GTtNs~va~~~~ 19 (450)
T PRK11678 2 FIGFDYGTANCSVAVMRD 19 (450)
T ss_pred eEEEecCccceeeEEeeC
Confidence 589999999999999973
No 116
>PRK10331 L-fuculokinase; Provisional
Probab=38.71 E-value=38 Score=28.75 Aligned_cols=23 Identities=30% Similarity=0.371 Sum_probs=20.7
Q ss_pred eEEEEecCCCeEEEEEeeCCCce
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~ 58 (123)
.+||||+|+.-+=.++.|.++.+
T Consensus 3 ~~lgID~GTt~~Ka~l~d~~G~~ 25 (470)
T PRK10331 3 VILVLDCGATNVRAIAVDRQGKI 25 (470)
T ss_pred eEEEEecCCCceEEEEEcCCCcE
Confidence 58999999999999999988864
No 117
>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=38.68 E-value=48 Score=24.58 Aligned_cols=41 Identities=27% Similarity=0.552 Sum_probs=25.9
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+.+++...+++++|+--+..+ ....+.+.+ . ++||+++|-
T Consensus 51 ~~~~~~~~~~~dgiii~~~~~~----~~~~~~~~~-~---~ipvV~~~~ 91 (270)
T cd06294 51 EVKKMIQQKRVDGFILLYSRED----DPIIDYLKE-E---KFPFVVIGK 91 (270)
T ss_pred HHHHHHHHcCcCEEEEecCcCC----cHHHHHHHh-c---CCCEEEECC
Confidence 6777777888999998622112 123444543 2 788888873
No 118
>PLN02295 glycerol kinase
Probab=38.53 E-value=39 Score=29.16 Aligned_cols=23 Identities=17% Similarity=0.355 Sum_probs=20.7
Q ss_pred EEEEecCCCeEEEEEeeCCCcee
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a 59 (123)
+||||.|+..+=.++.|.++.+.
T Consensus 2 vlgID~GTts~Ka~l~d~~G~~~ 24 (512)
T PLN02295 2 VGAIDQGTTSTRFIIYDRDARPV 24 (512)
T ss_pred EEEEecCCCceEEEEECCCCCEE
Confidence 79999999999999999988753
No 119
>TIGR02628 fuculo_kin_coli L-fuculokinase. Members of this family are L-fuculokinase, from the clade that includes the L-fuculokinase of Escherichia coli. This enzyme catalyzes the second step in fucose catabolism. This family belongs to FGGY family of carbohydrate kinases (pfam02782, pfam00370). It is encoded by the kinase (K) gene of the fucose (fuc) operon.
Probab=38.01 E-value=41 Score=28.60 Aligned_cols=23 Identities=30% Similarity=0.384 Sum_probs=20.3
Q ss_pred eEEEEecCCCeEEEEEeeCCCce
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~ 58 (123)
.+||||+|+.-+=.++.|..+.+
T Consensus 2 ~ilgiD~GTss~K~~l~d~~g~~ 24 (465)
T TIGR02628 2 VILVLDCGATNLRAIAINRQGKI 24 (465)
T ss_pred eEEEEecCCCcEEEEEEcCCCCE
Confidence 37999999999999999988853
No 120
>TIGR02529 EutJ ethanolamine utilization protein EutJ family protein.
Probab=37.98 E-value=1.4e+02 Score=23.24 Aligned_cols=68 Identities=13% Similarity=0.240 Sum_probs=36.5
Q ss_pred EEecCCCeEEEEEeeCCCc-eee---cceeeeCcc-cc-------c-chHHHHhh---cCcCeEEEeccCC-ChHHHHHH
Q 033269 39 GLDVGNKYIGVSLFKRHGN-EVE---PLTKFDRAK-AD-------Q-ELPQLIEK---HKVLGMVVNMPKE-HHEHVSSF 101 (123)
Q Consensus 39 glD~G~kriGlAvsD~~~~-~a~---Pl~~i~~~~-~~-------~-~L~~li~~---~~i~~iVVGlP~~-dGt~v~~f 101 (123)
|||+|+..|=+.+.+.... +|. |-..+.... .| + ++.+..+. .++..+|++-|-+ +...-+..
T Consensus 1 g~dig~~~ik~v~~~~~~~~~~~~~~~~~~~~~g~I~d~~~~~~~l~~l~~~a~~~~g~~~~~vvisVP~~~~~~~r~a~ 80 (239)
T TIGR02529 1 GVDLGTANIVIVVLDEDGQPVAGVMQFADVVRDGIVVDFLGAVEIVRRLKDTLEQKLGIELTHAATAIPPGTIEGDPKVI 80 (239)
T ss_pred CCCcccceEEEEEEecCCCEEEEEecccccccCCeEEEhHHHHHHHHHHHHHHHHHhCCCcCcEEEEECCCCCcccHHHH
Confidence 6899999998887655552 222 211222111 12 2 33332222 3578999999998 55422334
Q ss_pred HHHHh
Q 033269 102 IEQLD 106 (123)
Q Consensus 102 ~~~L~ 106 (123)
.+.++
T Consensus 81 ~~a~~ 85 (239)
T TIGR02529 81 VNVIE 85 (239)
T ss_pred HHHHH
Confidence 44444
No 121
>TIGR01314 gntK_FGGY gluconate kinase, FGGY type. Gluconate is derived from glucose in two steps. This model describes one form of gluconate kinase, belonging to the FGGY family of carbohydrate kinases. Gluconate kinase phosphoryates gluconate for entry into the Entner-Douderoff pathway.
Probab=37.96 E-value=39 Score=28.98 Aligned_cols=23 Identities=30% Similarity=0.668 Sum_probs=20.4
Q ss_pred EEEEecCCCeEEEEEeeCCCcee
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a 59 (123)
+||||+|+..+=+++.|..+.+.
T Consensus 2 ~lgiDiGtt~~K~~l~d~~g~i~ 24 (505)
T TIGR01314 2 MIGVDIGTTSTKAVLFEENGKIV 24 (505)
T ss_pred EEEEeccccceEEEEEcCCCCEE
Confidence 69999999999999999888643
No 122
>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=37.36 E-value=38 Score=29.79 Aligned_cols=20 Identities=25% Similarity=0.506 Sum_probs=17.2
Q ss_pred eEEEEecCCCeEEEEEeeCC
Q 033269 36 GILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~ 55 (123)
.++|||+|+..+=+|+.+..
T Consensus 1 ~viGIDlGtt~s~va~~~~g 20 (595)
T TIGR02350 1 KIIGIDLGTTNSCVAVMEGG 20 (595)
T ss_pred CEEEEEeCcccEEEEEEECC
Confidence 37999999999999998753
No 123
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=37.03 E-value=67 Score=21.61 Aligned_cols=37 Identities=19% Similarity=0.213 Sum_probs=25.8
Q ss_pred HHHHhhcCcCeEEEeccCCChH--HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 75 PQLIEKHKVLGMVVNMPKEHHE--HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 75 ~~li~~~~i~~iVVGlP~~dGt--~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
..-+++.+++.+||| -|+ .++.|.+. ..+ ..| .+.|+
T Consensus 6 ~~~l~~~gv~lv~I~----~g~~~~~~~f~~~--~~~---p~~-ly~D~ 44 (115)
T PF13911_consen 6 KPELEAAGVKLVVIG----CGSPEGIEKFCEL--TGF---PFP-LYVDP 44 (115)
T ss_pred HHHHHHcCCeEEEEE----cCCHHHHHHHHhc--cCC---CCc-EEEeC
Confidence 445566889999999 565 68888866 335 467 56665
No 124
>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=36.94 E-value=50 Score=24.29 Aligned_cols=46 Identities=9% Similarity=0.031 Sum_probs=29.6
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhccc---CCCCCEEEecCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEI---YRGLPFCYFQKT 122 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~---~~~lpV~l~DEr 122 (123)
.+.+.+++.+...|.++ -|+....+.+.|.+... -+++-|.+.|||
T Consensus 11 ~i~~~~~~~~~~~i~ls----gGsTp~~~y~~L~~~~~~~~w~~v~~f~~DEr 59 (169)
T cd00458 11 KXEKLLEEKDDMVIGLG----TGSTPAYFYKLLGEKLKRGEISDIVGFPTDER 59 (169)
T ss_pred HHHHHHHhCCCEEEEEC----CCccHHHHHHHHHhhhhhCCccceEEEECccc
Confidence 45555666666666666 78777777777654311 025778899997
No 125
>PLN02362 hexokinase
Probab=36.89 E-value=37 Score=30.12 Aligned_cols=39 Identities=13% Similarity=0.111 Sum_probs=29.6
Q ss_pred HHhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCC
Q 033269 10 VRLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~ 56 (123)
..|||+... .++.....++.||||.|....=++..+-.+
T Consensus 78 l~MlPTyv~--------~lPtG~E~G~fLAlDlGGTNfRV~~V~L~g 116 (509)
T PLN02362 78 LKMLLTFVD--------DLPTGSEIGTYYALDLGGTNFRVLRVQLGG 116 (509)
T ss_pred CceecCccC--------CCCCCCcceeEEEEecCCceEEEEEEEecC
Confidence 456776665 344555578999999999999888888766
No 126
>TIGR01311 glycerol_kin glycerol kinase. This model describes glycerol kinase, a member of the FGGY family of carbohydrate kinases.
Probab=36.52 E-value=44 Score=28.56 Aligned_cols=24 Identities=33% Similarity=0.484 Sum_probs=21.0
Q ss_pred eEEEEecCCCeEEEEEeeCCCcee
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a 59 (123)
.+||||+|+..|=+++.|..+.+.
T Consensus 2 ~~lgiDiGtt~iKa~l~d~~g~~l 25 (493)
T TIGR01311 2 YILAIDQGTTSSRAIVFDKDGNIV 25 (493)
T ss_pred eEEEEecCCCceEEEEECCCCCEE
Confidence 479999999999999999888644
No 127
>PRK00076 recR recombination protein RecR; Reviewed
Probab=36.50 E-value=1e+02 Score=24.01 Aligned_cols=34 Identities=18% Similarity=0.243 Sum_probs=25.4
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhh
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDG 107 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~ 107 (123)
.|.+.+ +.++..+|+...-+ +|+....|..++-+
T Consensus 125 ~L~~ri-~~~v~EVIlA~~pt~EGe~Ta~yi~~~lk 159 (196)
T PRK00076 125 ELLERL-DGEVKEVILATNPTVEGEATAHYIARLLK 159 (196)
T ss_pred HHHHHH-hCCCCEEEEeCCCCchHHHHHHHHHHHHH
Confidence 777777 77899999999989 99855555444443
No 128
>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=36.41 E-value=94 Score=24.92 Aligned_cols=46 Identities=11% Similarity=0.140 Sum_probs=35.8
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++.-|.. .. +.+.+|.+.+.+..+ ++|+.+.|
T Consensus 87 ~la~~a~~~Gad~v~v~~P~y~~~~~~~i~~yf~~v~~~~~--~lpv~lYn 135 (290)
T TIGR00683 87 ELGKYATELGYDCLSAVTPFYYKFSFPEIKHYYDTIIAETG--GLNMIVYS 135 (290)
T ss_pred HHHHHHHHhCCCEEEEeCCcCCCCCHHHHHHHHHHHHhhCC--CCCEEEEe
Confidence 788888999999999999987 33 377777777765553 68888776
No 129
>TIGR01315 5C_CHO_kinase FGGY-family pentulose kinase. This model represents a subfamily of the FGGY family of carbohydrate kinases. This subfamily is closely related to a set of ribulose kinases, and many members are designated ribitol kinase. However, the member from Klebsiella pneumoniae, from a ribitol catabolism operon, accepts D-ribulose and to a lesser extent D-arabinitol and ribitol (PubMed:9639934 and JW Lengeler, personal communication); its annotation in GenBank as ribitol kinase is imprecise and may have affected public annotation of related proteins.
Probab=36.32 E-value=42 Score=29.23 Aligned_cols=23 Identities=22% Similarity=0.476 Sum_probs=20.4
Q ss_pred EEEEecCCCeEEEEEeeCCCcee
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a 59 (123)
+||||+|+..|=+++.|.++.+.
T Consensus 2 ~lgID~GTts~Ka~l~d~~G~i~ 24 (541)
T TIGR01315 2 YIGVDVGTGSARACIIDSTGDIL 24 (541)
T ss_pred EEEEEecCcCEEEEEEcCCCCEE
Confidence 69999999999999999888643
No 130
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=36.12 E-value=1e+02 Score=24.54 Aligned_cols=40 Identities=18% Similarity=0.306 Sum_probs=32.0
Q ss_pred HHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 76 QLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 76 ~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
+.+.+...+.|+||--.+ ..+...+..+++++ + ++||+++
T Consensus 26 ~~~~~~gtdai~vGGS~~vt~~~~~~~v~~ik~-~---~lPvilf 66 (232)
T PRK04169 26 EAICESGTDAIIVGGSDGVTEENVDELVKAIKE-Y---DLPVILF 66 (232)
T ss_pred HHHHhcCCCEEEEcCCCccchHHHHHHHHHHhc-C---CCCEEEe
Confidence 566778899999995554 44488899999987 7 7999986
No 131
>COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair]
Probab=36.07 E-value=84 Score=24.77 Aligned_cols=39 Identities=15% Similarity=0.169 Sum_probs=28.9
Q ss_pred cc-chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcc
Q 033269 71 DQ-ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNE 109 (123)
Q Consensus 71 ~~-~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~ 109 (123)
.+ .|.+-+.+.+++.+|+-..-+ +|+....|..++-+.+
T Consensus 123 ~i~~L~~Rl~~~~~~EvIlAtnpTvEGeaTA~YI~~~l~~~ 163 (198)
T COG0353 123 NIDELLQRLAEGSIKEVILATNPTVEGEATALYIARLLKPL 163 (198)
T ss_pred cHHHHHHHHhcCCCceEEEecCCCccchHHHHHHHHHHhhc
Confidence 35 888888889998999999888 9985555555444444
No 132
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=35.75 E-value=93 Score=26.79 Aligned_cols=36 Identities=17% Similarity=0.227 Sum_probs=30.7
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhc
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGN 108 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~ 108 (123)
++.+++++++++.+++-.|..+++..++..+.+++.
T Consensus 194 dL~~~v~~~~IdeViIAip~~~~~~l~ell~~~~~~ 229 (463)
T PRK10124 194 QLVEDAKAGKIHNVYIAMSMCDGARVKKLVRQLADT 229 (463)
T ss_pred HHHHHHHhCCCCEEEEeCCCcchHHHHHHHHHHHHc
Confidence 788899999999999999977766888888888753
No 133
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=35.72 E-value=70 Score=30.45 Aligned_cols=50 Identities=12% Similarity=0.247 Sum_probs=38.6
Q ss_pred ccc--chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 70 ADQ--ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 70 ~~~--~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.++ .|.++.++++++.||||-|.. -.. .-..|+.+|....+ ++.|+.+..
T Consensus 320 ~dv~~~i~~ya~~~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~--~idv~ii~~ 374 (890)
T COG2205 320 GDVAKAIARYAREHNATKIVIGRSRRSRWRRLFKGSLADRLAREAP--GIDVHIVAL 374 (890)
T ss_pred CcHHHHHHHHHHHcCCeeEEeCCCcchHHHHHhcccHHHHHHhcCC--CceEEEeeC
Confidence 445 899999999999999998777 554 33778888887665 777776643
No 134
>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=35.40 E-value=98 Score=24.19 Aligned_cols=45 Identities=20% Similarity=0.330 Sum_probs=36.1
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. . .+.+.+|.+.+.+.. ++||.+.+
T Consensus 83 ~~a~~a~~~Gad~v~v~pP~y~~~~~~~~~~~~~~ia~~~---~~pi~iYn 130 (281)
T cd00408 83 ELARHAEEAGADGVLVVPPYYNKPSQEGIVAHFKAVADAS---DLPVILYN 130 (281)
T ss_pred HHHHHHHHcCCCEEEECCCcCCCCCHHHHHHHHHHHHhcC---CCCEEEEE
Confidence 788888999999999999987 3 237777777777765 78998765
No 135
>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=35.33 E-value=94 Score=26.13 Aligned_cols=36 Identities=19% Similarity=0.419 Sum_probs=29.3
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhc
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGN 108 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~ 108 (123)
++.+++++++++.+++-.|..+.+...+..+.+++.
T Consensus 179 ~l~~~i~~~~id~ViIa~p~~~~~~~~~ll~~~~~~ 214 (445)
T TIGR03025 179 DLVELVRAHRVDEVIIALPLSEEARILELLLQLRDL 214 (445)
T ss_pred HHHHHHHhCCCCEEEEecCcccHHHHHHHHHHHHhc
Confidence 788999999999999999877656677777777653
No 136
>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=35.24 E-value=96 Score=24.94 Aligned_cols=46 Identities=15% Similarity=0.238 Sum_probs=36.2
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++.-|.. .- ..+.+|.+.+.+..+ ++||.++|
T Consensus 86 ~~a~~A~~~Gad~v~v~pP~y~~~~~~~l~~~f~~ia~a~~--~lpv~iYn 134 (294)
T TIGR02313 86 ELTKFAEEAGADAAMVIVPYYNKPNQEALYDHFAEVADAVP--DFPIIIYN 134 (294)
T ss_pred HHHHHHHHcCCCEEEEcCccCCCCCHHHHHHHHHHHHHhcc--CCCEEEEe
Confidence 777778899999999999987 43 367777777776664 68998876
No 137
>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=35.18 E-value=66 Score=24.26 Aligned_cols=40 Identities=10% Similarity=0.042 Sum_probs=26.3
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+...+..++++++|+- |.+ + ..+.+.+.+ . ++|++++|-
T Consensus 46 ~~~~~l~~~~vdgvi~~-~~~~~----~~~~~~l~~-~---~iPvv~~~~ 86 (269)
T cd06297 46 YLESTTLAYLTDGLLLA-SYDLT----ERLAERRLP-T---ERPVVLVDA 86 (269)
T ss_pred HHHHHHHhcCCCEEEEe-cCccC----hHHHHHHhh-c---CCCEEEEcc
Confidence 44455667899999996 444 3 245566654 2 789988873
No 138
>COG1070 XylB Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]
Probab=35.18 E-value=58 Score=28.13 Aligned_cols=22 Identities=27% Similarity=0.507 Sum_probs=20.4
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
|..+||||.|+.-+=.++.|..
T Consensus 3 ~~~~lgIDiGTt~~Kavl~d~~ 24 (502)
T COG1070 3 MKYVLGIDIGTTSVKAVLFDED 24 (502)
T ss_pred ccEEEEEEcCCCcEEEEEEeCC
Confidence 6789999999999999999988
No 139
>PRK13331 pantothenate kinase; Reviewed
Probab=35.10 E-value=56 Score=26.24 Aligned_cols=24 Identities=21% Similarity=0.192 Sum_probs=20.7
Q ss_pred CceEEEEecCCCeEEEEEeeCCCc
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGN 57 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~ 57 (123)
-+++|++|+|..++=+|+.+....
T Consensus 6 ~~~~L~iDiGNT~~~~g~f~~~~~ 29 (251)
T PRK13331 6 SNEWLALMIGNSRLHWGYFSGETL 29 (251)
T ss_pred CCcEEEEEeCCCcEEEEEEECCEE
Confidence 478999999999999999995443
No 140
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=35.00 E-value=1e+02 Score=24.60 Aligned_cols=45 Identities=9% Similarity=0.165 Sum_probs=36.4
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. ..+ .+.+|.+.+.+.. ++||.+.|
T Consensus 90 ~~a~~a~~~Gad~v~v~~P~y~~~~~~~l~~~f~~va~a~---~lPv~iYn 137 (293)
T PRK04147 90 ELAKYATELGYDAISAVTPFYYPFSFEEICDYYREIIDSA---DNPMIVYN 137 (293)
T ss_pred HHHHHHHHcCCCEEEEeCCcCCCCCHHHHHHHHHHHHHhC---CCCEEEEe
Confidence 777888899999999999987 543 6777777777766 78998876
No 141
>COG1693 Repressor of nif and glnA expression [Transcription]
Probab=34.98 E-value=61 Score=27.25 Aligned_cols=48 Identities=19% Similarity=0.225 Sum_probs=32.2
Q ss_pred HhchhhhHHhhhhhhhhhccCC---------CCceEEEEecCCCeEEEEEeeCCCce
Q 033269 11 RLIPSHLFKFCGRVEKQCVGEN---------AGLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~---------~~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
|.+|--=..+..++++-+.+.. +..++||++++..+.|+|+..-..-+
T Consensus 239 R~~p~~a~d~ae~~l~~lE~~gl~Gii~vgep~e~vLGlPv~~~~~GvvviGGlnpi 295 (325)
T COG1693 239 RYFPRYARDDAERILRILEKAGLRGIIKVGEPSERVLGLPVADRKVGVVVIGGLNPI 295 (325)
T ss_pred hhcchhHHHHHHHHHHHHhhcCceeEEEeCCCCcceeCcccCCCceEEEEEcCcccc
Confidence 4445444555566655554433 35789999999999999999744433
No 142
>PRK14878 UGMP family protein; Provisional
Probab=34.83 E-value=42 Score=27.50 Aligned_cols=80 Identities=15% Similarity=0.148 Sum_probs=49.1
Q ss_pred EEEecCCCeEEEEEeeCCCceeecceeeeCc-------c------ccc--chHHHHhh-----cCcCeEEEec-cCC-Ch
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVEPLTKFDRA-------K------ADQ--ELPQLIEK-----HKVLGMVVNM-PKE-HH 95 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~Pl~~i~~~-------~------~~~--~L~~li~~-----~~i~~iVVGl-P~~-dG 95 (123)
||||-=..-+++|+.+....++.-.....+. . +.+ .+++++++ .+++.|.++. |-. -|
T Consensus 1 l~iets~~~~s~al~~~~~i~~~~~~~~~~~~gg~~p~~~~~~h~~~l~~~i~~~l~~a~~~~~did~Iavt~gPG~~~~ 80 (323)
T PRK14878 1 LGIESTAHTLGVGIVKEDKVLANVRDTYVPEKGGIHPREAAQHHAEVAPELLRKALEKAGISIEDIDAVAVSQGPGLGPA 80 (323)
T ss_pred CEEecCCcccEEEEEECCEEEEEEEEecccCcCCcCccHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCCCcccc
Confidence 5788778889999988444444322211100 0 123 66666666 4579999984 333 22
Q ss_pred H-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 96 E-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 96 t-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
- ....|++.|+..+ ++|++.++
T Consensus 81 lrvg~~~Ak~la~~~---~~p~~~v~ 103 (323)
T PRK14878 81 LRVGATAARALALKY---NKPLVPVN 103 (323)
T ss_pred hHHHHHHHHHHHHHh---CCCccccc
Confidence 2 4577888888877 78887765
No 143
>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=34.33 E-value=96 Score=26.12 Aligned_cols=35 Identities=17% Similarity=0.436 Sum_probs=29.4
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhh
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDG 107 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~ 107 (123)
++.+++++++++.+++-.|..+.+...++.+.+++
T Consensus 182 dl~~~i~~~~vd~ViIA~p~~~~~~~~~ll~~~~~ 216 (451)
T TIGR03023 182 DLEELIREGEVDEVYIALPLAAEDRILELLDALED 216 (451)
T ss_pred HHHHHHHhcCCCEEEEeeCcccHHHHHHHHHHHHh
Confidence 78889999999999999998766667777777765
No 144
>PLN02405 hexokinase
Probab=34.29 E-value=42 Score=29.67 Aligned_cols=39 Identities=15% Similarity=0.104 Sum_probs=29.3
Q ss_pred HHhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCC
Q 033269 10 VRLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~ 56 (123)
..|||+... .++.....++.||||.|....=+....-.+
T Consensus 78 l~MlpSyv~--------~lPtG~E~G~flAlDlGGTNfRV~~V~L~g 116 (497)
T PLN02405 78 LKMLISYVD--------NLPSGDEKGLFYALDLGGTNFRVLRVLLGG 116 (497)
T ss_pred cceeccccc--------cCCCCCcceeEEEEecCCceEEEEEEEEcC
Confidence 457777665 455555678999999999988888776655
No 145
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=33.92 E-value=77 Score=22.72 Aligned_cols=33 Identities=12% Similarity=0.102 Sum_probs=27.6
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcc
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~ 109 (123)
.|.+++++++++.|++| +.+.-+..+-+|+.++
T Consensus 81 ~l~~~~~~~~~~lVl~~----~t~~g~~la~~lA~~L 113 (164)
T PF01012_consen 81 ALAELIKEEGPDLVLFG----STSFGRDLAPRLAARL 113 (164)
T ss_dssp HHHHHHHHHT-SEEEEE----SSHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCEEEEc----CcCCCCcHHHHHHHHh
Confidence 89999999999999999 7777777888888776
No 146
>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=33.87 E-value=98 Score=26.45 Aligned_cols=44 Identities=16% Similarity=0.290 Sum_probs=32.5
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.|.+++++|++|++|.=.-.. +.. ......+.+.+.. ++|+..+
T Consensus 341 ~l~~l~ke~~aDGVI~~~~~~C~~~~~e~~~~~~~l~e~~---GIP~L~i 387 (413)
T TIGR02260 341 LLEKYINEYEADGLLINSIKSCNSFSAGQLLMMREIEKRT---GKPAAFI 387 (413)
T ss_pred HHHHHHHHhCCCEEEEeccCCCCcchhhhHHHHHHHHHHc---CCCEEEE
Confidence 899999999999999887666 544 3455556676655 7887655
No 147
>PRK11031 guanosine pentaphosphate phosphohydrolase; Provisional
Probab=33.86 E-value=2.2e+02 Score=24.73 Aligned_cols=85 Identities=11% Similarity=0.131 Sum_probs=52.3
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecce----eee------Ccc-----------ccc-chHHHHhhcCcCeE-EEec
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLT----KFD------RAK-----------ADQ-ELPQLIEKHKVLGM-VVNM 90 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~----~i~------~~~-----------~~~-~L~~li~~~~i~~i-VVGl 90 (123)
+..+-+||+|+-.+=+-+.+....-..++. ++. .+. ..+ .+.+++++|+++.+ +||-
T Consensus 5 ~~~~A~IDIGSNSirL~I~~~~~~~~~~l~~~k~~vrLg~g~~~~g~Ls~e~i~r~~~~L~~F~~~~~~~~v~~i~~vAT 84 (496)
T PRK11031 5 SSLYAAIDLGSNSFHMLVVREVAGSIQTLARIKRKVRLAAGLDSDNALSNEAMERGWQCLRLFAERLQDIPPSQIRVVAT 84 (496)
T ss_pred CCEEEEEEccccceeEEEEEecCCceEEeecceeEEEccCCcCcCCCcCHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEe
Confidence 456788999999988888874321111111 110 011 114 77788889999754 4551
Q ss_pred cCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 91 PKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 91 P~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
--- +-.....|.+++++.+ +++|...+-
T Consensus 85 sAvReA~N~~~fl~~i~~~t---Gl~ievIsG 113 (496)
T PRK11031 85 ATLRLAVNADEFLAKAQEIL---GCPVQVISG 113 (496)
T ss_pred HHHHcCcCHHHHHHHHHHHH---CCCeEEeCH
Confidence 000 1117789999999988 899988763
No 148
>PF06723 MreB_Mbl: MreB/Mbl protein; InterPro: IPR004753 Bacterial cell shape varies greatly between species, and characteristic morphologies are used for identification purposes. In addition to individual cell shape, the way in which groups of cells are arranged is also typical of some bacterial species, especially Gram-positive coccoids. For many years, it was believed that micro-organisms with other than spheroidal cell shapes maintained morphology by means of their external cell walls. Recently, however, studies of the Gram-positive rod Bacillus subtilis have revealed two related genes that are essential for the integrity of cell morphogenesis []. Termed mreB and mbl, the gene products localise close to the cell surface, forming filamentous helical structures. Many homologues have been found in diverse bacterial groups, suggesting a common ancestor []. The crystal structure of MreB from Thermotoga maritima has been resolved using X-ray crystallography []. It consists of 19 beta-strands and 15 alpha- helices, and shows remarkable structural similarity to eukaryotic actin. MreB crystals also contain proto-filaments, with individual proteins assembling into polymers like F-actin, in the same orientation. It is hypothesised therefore, that MreB was the forerunner of actin in early eukaryotes [].; GO: 0000902 cell morphogenesis; PDB: 1JCF_A 1JCE_A 2WUS_A 1JCG_A.
Probab=33.83 E-value=67 Score=26.71 Aligned_cols=26 Identities=19% Similarity=0.225 Sum_probs=16.3
Q ss_pred eEEEEecCCCeEEEEEeeCCCceeec
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEVEP 61 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a~P 61 (123)
+-+|||.|+.++=+.+.+....+..|
T Consensus 2 ~~igIDLGT~~t~i~~~~~Giv~~ep 27 (326)
T PF06723_consen 2 KDIGIDLGTSNTRIYVKGKGIVLNEP 27 (326)
T ss_dssp SEEEEEE-SSEEEEEETTTEEEEEEE
T ss_pred CceEEecCcccEEEEECCCCEEEecC
Confidence 34789999988877766544344444
No 149
>PLN02914 hexokinase
Probab=33.33 E-value=44 Score=29.52 Aligned_cols=39 Identities=21% Similarity=0.157 Sum_probs=29.0
Q ss_pred HHhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCC
Q 033269 10 VRLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~ 56 (123)
..|+|+... .++..+..++.||||.|....=++..+-.+
T Consensus 78 l~MlpTyv~--------~lPtG~E~G~fLAlDlGGTNfRV~~V~L~g 116 (490)
T PLN02914 78 LKMILSYVD--------SLPSGNEKGLFYALDLGGTNFRVLRVQLGG 116 (490)
T ss_pred cceeccccC--------CCCCCCeeeEEEEEecCCceEEEEEEEecC
Confidence 356676665 345555578999999999998888887655
No 150
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=33.11 E-value=50 Score=29.50 Aligned_cols=21 Identities=19% Similarity=0.229 Sum_probs=17.9
Q ss_pred ceEEEEecCCCeEEEEEeeCC
Q 033269 35 LGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~ 55 (123)
..++|||+|+..+-+|+.+..
T Consensus 19 ~~~iGIDlGTt~s~va~~~~g 39 (616)
T PRK05183 19 RLAVGIDLGTTNSLVATVRSG 39 (616)
T ss_pred CeEEEEEeccccEEEEEEECC
Confidence 368999999999999998643
No 151
>PRK13917 plasmid segregation protein ParM; Provisional
Probab=32.86 E-value=47 Score=27.39 Aligned_cols=21 Identities=19% Similarity=0.433 Sum_probs=18.4
Q ss_pred CceEEEEecCCCeEEEEEeeC
Q 033269 34 GLGILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~ 54 (123)
||-++|||+|-..+-++.++.
T Consensus 1 ~~~v~~iDiG~g~tK~~~~~~ 21 (344)
T PRK13917 1 NVYVMALDFGNGFVKGKINDE 21 (344)
T ss_pred CceEEEEeccCCeEEEEecCC
Confidence 578999999999999999753
No 152
>TIGR03706 exo_poly_only exopolyphosphatase. It appears that a single enzyme may act as both exopolyphosphatase (Ppx) and guanosine pentaphosphate phosphohydrolase (GppA) in a number of species. Members of the seed alignment use to define this exception-level model are encoded adjacent to a polyphosphate kinase 1 gene, and the trusted cutoff is set high enough (425) that no genome has a second hit. Therefore all members may be presumed to at least share exopolyphospatase activity, and may lack GppA activity. GppA acts in the stringent response.
Probab=32.58 E-value=2.3e+02 Score=22.62 Aligned_cols=82 Identities=13% Similarity=0.221 Sum_probs=49.1
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeee----------Ccc-----------ccc-chHHHHhhcCcCeE-EEeccCC
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFD----------RAK-----------ADQ-ELPQLIEKHKVLGM-VVNMPKE 93 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~----------~~~-----------~~~-~L~~li~~~~i~~i-VVGlP~~ 93 (123)
+-+||.|+..|=+.+.+....-..++.... .+. ..+ .+.+++++|+++.+ +++----
T Consensus 2 ~AvIDiGSNsirl~I~~~~~~~~~~l~~~~~~vrL~~~~~~~g~i~~e~i~~~~~~l~~f~~~~~~~~v~~i~~vaTsa~ 81 (300)
T TIGR03706 2 IAAIDIGSNSVRLVIARGVEGSLQVLFNEKEMVRLGEGLDSTGRLSEEAIERALEALKRFAELLRGFPVDEVRAVATAAL 81 (300)
T ss_pred eEEEEecCCeeeEEEEEecCCcEEEhhheeeeeecCCCCCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEcHHH
Confidence 357899999988888875321111111110 000 114 77778889999644 5552111
Q ss_pred -ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 94 -HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 94 -dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
+......|.+++++++ +++|...+.
T Consensus 82 R~A~N~~~~~~~i~~~t---gi~i~visg 107 (300)
T TIGR03706 82 RDAKNGPEFLREAEAIL---GLPIEVISG 107 (300)
T ss_pred HcCCCHHHHHHHHHHHH---CCCeEEeCh
Confidence 1126678999999888 888887764
No 153
>PLN02596 hexokinase-like
Probab=32.53 E-value=46 Score=29.37 Aligned_cols=39 Identities=10% Similarity=0.025 Sum_probs=28.8
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCeEEEEEeeCCCc
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKYIGVSLFKRHGN 57 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kriGlAvsD~~~~ 57 (123)
.|+|+... .++.....++.||||.|....=++..+-.+.
T Consensus 80 ~MlpTyv~--------~lPtG~E~G~yLAlDlGGTNfRV~~V~L~g~ 118 (490)
T PLN02596 80 NMLVSYVA--------SLPSGDEKGLYYGLNLRGSNFLLLRARLGGK 118 (490)
T ss_pred ceecccCC--------CCCCCCcceEEEEEeeCCceEEEEEEEEcCC
Confidence 45666554 4455555789999999999988888877654
No 154
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=32.35 E-value=48 Score=29.82 Aligned_cols=21 Identities=29% Similarity=0.575 Sum_probs=17.8
Q ss_pred ceEEEEecCCCeEEEEEeeCC
Q 033269 35 LGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD~~ 55 (123)
+.++|||+|+..+=+|+.+..
T Consensus 4 ~~~iGIDlGTt~s~va~~~~g 24 (653)
T PTZ00009 4 GPAIGIDLGTTYSCVGVWKNE 24 (653)
T ss_pred ccEEEEEeCcccEEEEEEeCC
Confidence 568999999999999998653
No 155
>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=32.33 E-value=1.3e+02 Score=23.98 Aligned_cols=46 Identities=15% Similarity=0.255 Sum_probs=37.1
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. . -..+.+|.+.+.+..+ ++||.+.|
T Consensus 87 ~~a~~a~~~Gad~v~~~~P~y~~~~~~~i~~~~~~v~~a~~--~lpi~iYn 135 (288)
T cd00954 87 ELAKHAEELGYDAISAITPFYYKFSFEEIKDYYREIIAAAA--SLPMIIYH 135 (288)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCCCCHHHHHHHHHHHHHhcC--CCCEEEEe
Confidence 788888999999999999987 3 2377777788877765 68988876
No 156
>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=32.26 E-value=1.1e+02 Score=19.30 Aligned_cols=44 Identities=16% Similarity=0.235 Sum_probs=30.7
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
++.+.+.+..++.+++++-..++ ....+++.|++..+ +.|++++
T Consensus 34 ~~~~~~~~~~~d~iiid~~~~~~-~~~~~~~~i~~~~~--~~~ii~~ 77 (112)
T PF00072_consen 34 EALELLKKHPPDLIIIDLELPDG-DGLELLEQIRQINP--SIPIIVV 77 (112)
T ss_dssp HHHHHHHHSTESEEEEESSSSSS-BHHHHHHHHHHHTT--TSEEEEE
T ss_pred HHHHHhcccCceEEEEEeeeccc-cccccccccccccc--cccEEEe
Confidence 67777788999999999766632 33466666766554 6777654
No 157
>COG4457 SrfB Uncharacterized protein conserved in bacteria, putative virulence factor [Function unknown]
Probab=31.90 E-value=28 Score=32.66 Aligned_cols=48 Identities=21% Similarity=0.267 Sum_probs=38.1
Q ss_pred hHHHHhchhhhHHhhhhhhhhhccCCC-------------CceEEEEecCCCeEEEEEeeC
Q 033269 7 NHLVRLIPSHLFKFCGRVEKQCVGENA-------------GLGILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~riLglD~G~kriGlAvsD~ 54 (123)
-+|||+.-..-.+|-|++|+|+....+ ..||-.+|+|.-.+-+|+.+-
T Consensus 532 gqlVylynEa~~~~gGr~~~ff~al~r~d~qpe~g~~~grslrIAsvDiGGGTTDl~it~Y 592 (1014)
T COG4457 532 GQLVYLYNEAQHNYGGRTETFFDALARPDEQPESGPASGRSLRIASVDIGGGTTDLAITTY 592 (1014)
T ss_pred eeEEEEechhhhhcCCCHHHHHHHhcCcccCCCcCCCCCceeeEEEEecCCCcceeeEEEE
Confidence 367888888888888888888765433 246999999999999999864
No 158
>TIGR01312 XylB D-xylulose kinase. D-xylulose kinase (XylB) generally is found with xylose isomerase (XylA) and acts in xylose utilization.
Probab=31.49 E-value=38 Score=28.44 Aligned_cols=22 Identities=27% Similarity=0.576 Sum_probs=19.5
Q ss_pred EEEecCCCeEEEEEeeCCCcee
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a 59 (123)
||||+|+..+=+++.|..+.+.
T Consensus 1 lgIDiGtt~ik~~l~d~~g~i~ 22 (481)
T TIGR01312 1 LGIDLGTSGVKALLVDEQGEVI 22 (481)
T ss_pred CceeecCcceEEEEECCCCCEE
Confidence 5899999999999999988743
No 159
>COG4820 EutJ Ethanolamine utilization protein, possible chaperonin [Amino acid transport and metabolism]
Probab=30.76 E-value=3e+02 Score=22.46 Aligned_cols=61 Identities=21% Similarity=0.315 Sum_probs=38.2
Q ss_pred CceEEEEecCCCeEEEEEeeCCCceeecceeeeCcccccchHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcc
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNE 109 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~ 109 (123)
..-++|+|.|+.-|=.-+.|.++. |+...- +..+.++ ++||+-+ - .=+.+|+..+.|++.+
T Consensus 28 sk~~vGVDLGT~~iV~~vlD~d~~---Pvag~~------~~advVR----DGiVvdf--~eaveiVrrlkd~lEk~l 89 (277)
T COG4820 28 SKLWVGVDLGTCDIVSMVLDRDGQ---PVAGCL------DWADVVR----DGIVVDF--FEAVEIVRRLKDTLEKQL 89 (277)
T ss_pred CceEEEeecccceEEEEEEcCCCC---eEEEEe------hhhhhhc----cceEEeh--hhHHHHHHHHHHHHHHhh
Confidence 467899999999999999998776 433332 1111111 3666642 1 2237777777777765
No 160
>COG2441 Predicted butyrate kinase [Energy production and conversion]
Probab=30.54 E-value=44 Score=28.27 Aligned_cols=55 Identities=18% Similarity=0.308 Sum_probs=34.1
Q ss_pred EEEecCCCeE-EEEEeeCCCceeecceeeeCcc--ccc-chHHHHhhcC-----cCeEEE----eccCC
Q 033269 38 LGLDVGNKYI-GVSLFKRHGNEVEPLTKFDRAK--ADQ-ELPQLIEKHK-----VLGMVV----NMPKE 93 (123)
Q Consensus 38 LglD~G~kri-GlAvsD~~~~~a~Pl~~i~~~~--~~~-~L~~li~~~~-----i~~iVV----GlP~~ 93 (123)
+|||+|++-. =+++-|..+++.. -..|++++ ++- -+.+++++.+ ++.||- |+|+.
T Consensus 1 ~GIDpGT~smdvfgfdDEsg~vi~-~~~I~rdeVtk~p~iiv~ii~e~~~e~g~~daivgpSGyGlPlk 68 (374)
T COG2441 1 IGIDPGTGSMDVFGFDDESGNVIV-DVAIPRDEVTKSPRIIVDIIEEVQAEVGGIDAIVGPSGYGLPLK 68 (374)
T ss_pred CCcCCCCCceeEEEEecCCCCEEE-EEecCHHHhccCchHHHHHHHHHhhhhccccceeccccCCCccc
Confidence 4899999544 5677888888766 34555444 333 5566666554 444453 67775
No 161
>PF02636 Methyltransf_28: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR003788 This entry describes proteins of unknown function.; PDB: 4F3N_A 1ZKD_B.
Probab=30.52 E-value=33 Score=26.69 Aligned_cols=29 Identities=21% Similarity=0.386 Sum_probs=20.8
Q ss_pred chhhhHHhhhhhhhhhccCCCCceEEEEecCC
Q 033269 13 IPSHLFKFCGRVEKQCVGENAGLGILGLDVGN 44 (123)
Q Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~ 44 (123)
+|.....|...+-+.+.. .+.+|.+|||.
T Consensus 169 i~~~~~~~l~~l~~~~~~---~g~~l~iDYG~ 197 (252)
T PF02636_consen 169 IPTGALQWLEQLAERLPK---GGALLIIDYGY 197 (252)
T ss_dssp E-HCHHHHHHHHHHHCCC----EEEEEEEEEE
T ss_pred ECHHHHHHHHHHHHHHhh---CCEEEEEeCCC
Confidence 566677777776655555 68999999998
No 162
>PRK05399 DNA mismatch repair protein MutS; Provisional
Probab=30.51 E-value=1.8e+02 Score=27.31 Aligned_cols=51 Identities=14% Similarity=0.182 Sum_probs=38.0
Q ss_pred CCceEEEEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhcCcCeEEEe
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKHKVLGMVVN 89 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~~i~~iVVG 89 (123)
....+++|..+...+|+|..|....... +..+ .. +|...+..+++..||+.
T Consensus 127 ~~~yl~ai~~~~~~~Gia~~D~stg~~~-~~~~-----~~~~L~~~l~~~~P~Eil~~ 178 (854)
T PRK05399 127 QNNYLAAIAQDGGGYGLAYLDLSTGEFR-VTEL-----DEEELLAELARLNPAEILVP 178 (854)
T ss_pred CCcEEEEEEECCCeEEEEEEECCCCeEE-EEEE-----cHHHHHHHHHhcCCcEEEEc
Confidence 4567899987677899999997775433 2222 23 78888899999999986
No 163
>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=30.46 E-value=1.2e+02 Score=25.22 Aligned_cols=44 Identities=16% Similarity=0.310 Sum_probs=31.4
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.|.++++++++|++|.=...- +-. ......+.|++ . ++|+..+|
T Consensus 304 ~i~~lv~~~~~DGVI~~~~kfC~~~~~e~~~lk~~l~e-~---GIP~L~iE 350 (377)
T TIGR03190 304 HVLGLAKEYNVQGAIFLQQKFCDPHEGDYPDLKRHLEA-N---GIPTLFLE 350 (377)
T ss_pred HHHHHHHHhCCCEEEEecccCCCcchhhhHHHHHHHHH-C---CCCEEEEe
Confidence 899999999999999987766 544 33334455654 3 78877654
No 164
>COG3703 ChaC Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]
Probab=30.35 E-value=67 Score=25.14 Aligned_cols=23 Identities=30% Similarity=0.277 Sum_probs=20.0
Q ss_pred CCceEEEEecCCCeEEEEEeeCC
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~ 55 (123)
.++.+||||.|..-.|+|.-=+.
T Consensus 56 ~PGlvl~L~~GGsc~GvafRip~ 78 (190)
T COG3703 56 QPGLVLGLDRGGSCEGVAYRIPE 78 (190)
T ss_pred CCceEEEeeCCCcEEEEEEEcCc
Confidence 36899999999999999987663
No 165
>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=30.09 E-value=1e+02 Score=26.28 Aligned_cols=42 Identities=10% Similarity=0.158 Sum_probs=36.8
Q ss_pred chHHHHhhcCcCeEEEeccCCC---hHHHHHHHHHHhhcccCCCCCEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEH---HEHVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~d---Gt~v~~f~~~L~~~~~~~~lpV~ 117 (123)
++.++++++++|.+|.|=-+|. |..+-..++.+++++ ++|++
T Consensus 71 ~i~~mv~~~~pD~viaGPaFnagrYG~acg~v~~aV~e~~---~IP~v 115 (349)
T PF07355_consen 71 KILEMVKKLKPDVVIAGPAFNAGRYGVACGEVAKAVQEKL---GIPVV 115 (349)
T ss_pred HHHHHHHhcCCCEEEEcCCcCCchHHHHHHHHHHHHHHhh---CCCEE
Confidence 9999999999999999987883 458888888888888 88876
No 166
>TIGR01234 L-ribulokinase L-ribulokinase. This enzyme catalyzes the second step in arabinose catabolism. The most closely related protein subfamily outside the scope of this model includes ribitol kinase from E. coli.
Probab=29.72 E-value=67 Score=27.88 Aligned_cols=22 Identities=18% Similarity=0.196 Sum_probs=19.5
Q ss_pred eEEEEecCCCeEEEEEee-CCCc
Q 033269 36 GILGLDVGNKYIGVSLFK-RHGN 57 (123)
Q Consensus 36 riLglD~G~kriGlAvsD-~~~~ 57 (123)
.+||||.||.-+=.++.| ..+.
T Consensus 2 ~~lgiD~GTss~Ka~l~d~~~G~ 24 (536)
T TIGR01234 2 YAIGVDFGTLSGRALAVDVATGE 24 (536)
T ss_pred eEEEEecCCCceEEEEEECCCCc
Confidence 479999999999999999 7775
No 167
>PRK13930 rod shape-determining protein MreB; Provisional
Probab=29.65 E-value=51 Score=26.28 Aligned_cols=19 Identities=21% Similarity=0.193 Sum_probs=14.4
Q ss_pred ceEEEEecCCCeEEEEEee
Q 033269 35 LGILGLDVGNKYIGVSLFK 53 (123)
Q Consensus 35 ~riLglD~G~kriGlAvsD 53 (123)
.+.+|||.|+..+-++..+
T Consensus 8 ~~~vgiDlGt~~t~i~~~~ 26 (335)
T PRK13930 8 SKDIGIDLGTANTLVYVKG 26 (335)
T ss_pred ccceEEEcCCCcEEEEECC
Confidence 3559999999887777653
No 168
>PRK06242 flavodoxin; Provisional
Probab=29.30 E-value=81 Score=21.99 Aligned_cols=24 Identities=13% Similarity=-0.025 Sum_probs=11.9
Q ss_pred CcCeEEEeccCCChH---HHHHHHHHH
Q 033269 82 KVLGMVVNMPKEHHE---HVSSFIEQL 105 (123)
Q Consensus 82 ~i~~iVVGlP~~dGt---~v~~f~~~L 105 (123)
+.+.+|+|-|...|+ .++.|.+++
T Consensus 43 ~~d~ii~g~pvy~~~~~~~~~~fl~~~ 69 (150)
T PRK06242 43 EYDLIGFGSGIYFGKFHKSLLKLIEKL 69 (150)
T ss_pred HCCEEEEeCchhcCCcCHHHHHHHHhh
Confidence 345556665544332 455555544
No 169
>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=29.24 E-value=85 Score=23.29 Aligned_cols=42 Identities=21% Similarity=0.443 Sum_probs=27.5
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+.+++. .++++||+.-+-.+ ....+.+++.+. ++||+++|-
T Consensus 47 ~i~~~i~-~~~d~Iiv~~~~~~--~~~~~l~~~~~~----gIpvv~~d~ 88 (257)
T PF13407_consen 47 QIEQAIS-QGVDGIIVSPVDPD--SLAPFLEKAKAA----GIPVVTVDS 88 (257)
T ss_dssp HHHHHHH-TTESEEEEESSSTT--TTHHHHHHHHHT----TSEEEEESS
T ss_pred HHHHHHH-hcCCEEEecCCCHH--HHHHHHHHHhhc----CceEEEEec
Confidence 5666654 56999999843332 233666666653 789999873
No 170
>KOG0104 consensus Molecular chaperones GRP170/SIL1, HSP70 superfamily [Posttranslational modification, protein turnover, chaperones]
Probab=28.63 E-value=58 Score=30.82 Aligned_cols=34 Identities=26% Similarity=0.551 Sum_probs=27.3
Q ss_pred ccCCCCceEEEEecCCCeEEEEEeeCCCceeecceeee
Q 033269 29 VGENAGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFD 66 (123)
Q Consensus 29 ~~~~~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~ 66 (123)
+..+...-+|++|+|+..+=+|+..| | .|+.++-
T Consensus 16 ~~~~~~~AvmsVDlGse~~Kv~vVkP-G---vPmeIvL 49 (902)
T KOG0104|consen 16 VALSSALAVMSVDLGSEWIKVAVVKP-G---VPMEIVL 49 (902)
T ss_pred hcccchhhheeeecccceeEEEEecC-C---CCeEEee
Confidence 35555678999999999999999998 4 4677664
No 171
>PRK00865 glutamate racemase; Provisional
Probab=28.12 E-value=1.3e+02 Score=23.75 Aligned_cols=39 Identities=13% Similarity=0.165 Sum_probs=31.2
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCY 118 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l 118 (123)
++.+.+.+.+++.+||. -+|.+..+.+.|++.+ ++||.=
T Consensus 58 ~~~~~L~~~g~d~iVIa----CNTa~~~~l~~lr~~~---~iPvig 96 (261)
T PRK00865 58 EIVEFLLEYGVKMLVIA----CNTASAVALPDLRERY---DIPVVG 96 (261)
T ss_pred HHHHHHHhCCCCEEEEe----CchHHHHHHHHHHHhC---CCCEEe
Confidence 66667778999999999 8876666778898887 788863
No 172
>COG2971 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]
Probab=27.99 E-value=85 Score=26.20 Aligned_cols=27 Identities=26% Similarity=0.262 Sum_probs=23.5
Q ss_pred CCceEEEEecCCCeEEEEEeeCCCcee
Q 033269 33 AGLGILGLDVGNKYIGVSLFKRHGNEV 59 (123)
Q Consensus 33 ~~~riLglD~G~kriGlAvsD~~~~~a 59 (123)
+|+.+||+|-|..+|=..+.|.++++.
T Consensus 3 ~~~~~lGVDGGGTkt~a~l~~~~g~vl 29 (301)
T COG2971 3 PMPYFLGVDGGGTKTRAVLADEDGNVL 29 (301)
T ss_pred CccEEEEEccCCcceEEEEEcCCCcEE
Confidence 578899999999999999999777654
No 173
>PRK13929 rod-share determining protein MreBH; Provisional
Probab=27.91 E-value=3.1e+02 Score=22.25 Aligned_cols=59 Identities=19% Similarity=0.122 Sum_probs=31.6
Q ss_pred eEEEEecCCCeEEEEEeeCCCceeecceeeeCc-c-cc---c--chHHHHhhcCcCeEEEeccCCChH
Q 033269 36 GILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRA-K-AD---Q--ELPQLIEKHKVLGMVVNMPKEHHE 96 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~-~-~~---~--~L~~li~~~~i~~iVVGlP~~dGt 96 (123)
+.+|||.|+..+=+...+....+-.| .++... + .. + +-.+... ..++.+++-.|+.+|.
T Consensus 5 ~~~giDlGt~~~~i~~~~~~~~~~~p-s~va~~~~~~~~~~vG~~A~~~~~-~~p~~~~~~~pi~~G~ 70 (335)
T PRK13929 5 TEIGIDLGTANILVYSKNKGIILNEP-SVVAVDTETKAVLAIGTEAKNMIG-KTPGKIVAVRPMKDGV 70 (335)
T ss_pred CeEEEEcccccEEEEECCCcEEecCC-cEEEEECCCCeEEEeCHHHHHhhh-cCCCcEEEEecCCCCc
Confidence 46999999999865433322112234 333222 1 21 2 3333332 3466677778998665
No 174
>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=27.61 E-value=43 Score=24.69 Aligned_cols=24 Identities=17% Similarity=0.206 Sum_probs=18.4
Q ss_pred CCCCceEEEEecCCCeEEEEEeeC
Q 033269 31 ENAGLGILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 31 ~~~~~riLglD~G~kriGlAvsD~ 54 (123)
.....+++|||+|.+..-++.++.
T Consensus 120 ~~~~~~~vgVDlGi~~~a~~~~~~ 143 (227)
T PF01385_consen 120 PPDTEKVVGVDLGIKNLATVSSGD 143 (227)
T ss_pred ccccceeeeeccccceeecccccc
Confidence 334678999999999887766553
No 175
>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=27.59 E-value=57 Score=24.13 Aligned_cols=55 Identities=22% Similarity=0.366 Sum_probs=32.7
Q ss_pred EEEEecCCCeEEEEEeeCC--Cc-eeecceeeeCc----c--cc---c--chHHHHhhc------CcCeEEEecc
Q 033269 37 ILGLDVGNKYIGVSLFKRH--GN-EVEPLTKFDRA----K--AD---Q--ELPQLIEKH------KVLGMVVNMP 91 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~--~~-~a~Pl~~i~~~----~--~~---~--~L~~li~~~------~i~~iVVGlP 91 (123)
+.|||+|+.++=+++.... +. -.......+.. . .+ . .+++.+++- ++..++++.|
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 4799999999998888533 22 12222333311 1 12 1 566666544 5778999976
No 176
>TIGR03286 methan_mark_15 putative methanogenesis marker protein 15. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it. Related proteins include the BadF/BadG/BcrA/BcrD ATPase family (pfam01869), which includes an activator for (R)-2-hydroxyglutaryl-CoA dehydratase.
Probab=27.54 E-value=1.5e+02 Score=25.71 Aligned_cols=24 Identities=17% Similarity=0.192 Sum_probs=19.7
Q ss_pred CceEEEEecCCCeEEEEEeeCCCce
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
.+..+|||.|+..+=+++.|. +.+
T Consensus 143 ~g~~lGIDiGSTttK~Vl~dd-~~I 166 (404)
T TIGR03286 143 EGLTLGIDSGSTTTKAVVMED-NEV 166 (404)
T ss_pred CCEEEEEEcChhheeeEEEcC-CeE
Confidence 456899999999999999884 444
No 177
>PRK15005 universal stress protein F; Provisional
Probab=27.40 E-value=94 Score=21.07 Aligned_cols=44 Identities=7% Similarity=-0.007 Sum_probs=27.8
Q ss_pred chHHHHhhcCcCeEEEeccCCC--hHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEH--HEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~d--Gt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.|.+.+++++++.||+|--.+. +-..-.-++++-++. ..||..+
T Consensus 98 ~I~~~a~~~~~DLIV~Gs~~~~~~~~llGS~a~~vl~~a---~cpVlvV 143 (144)
T PRK15005 98 RILELAKKIPADMIIIASHRPDITTYLLGSNAAAVVRHA---ECSVLVV 143 (144)
T ss_pred HHHHHHHHcCCCEEEEeCCCCCchheeecchHHHHHHhC---CCCEEEe
Confidence 7888899999999999932111 002233355555555 5787664
No 178
>PF08426 ICE2: ICE2; InterPro: IPR013635 ICE2 is a fungal ER protein which has been shown to play an important role in forming/maintaining the cortical ER []. It has also been identified as a protein which is necessary for nuclear inner membrane targeting [].
Probab=27.36 E-value=7.5 Score=33.71 Aligned_cols=19 Identities=26% Similarity=0.347 Sum_probs=16.1
Q ss_pred EEEecCCCeEEEEEeeCCC
Q 033269 38 LGLDVGNKYIGVSLFKRHG 56 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~ 56 (123)
+|+|+|.+.||+|.|=..-
T Consensus 19 laFdVGG~~cGLafSltL~ 37 (412)
T PF08426_consen 19 LAFDVGGRDCGLAFSLTLF 37 (412)
T ss_pred hhhhccCcchhHHHHHHHH
Confidence 7999999999999886433
No 179
>PRK00170 azoreductase; Reviewed
Probab=27.28 E-value=1.3e+02 Score=22.04 Aligned_cols=34 Identities=9% Similarity=-0.053 Sum_probs=23.2
Q ss_pred eEEEeccCCC-hH---HHHHHHHHHhhcccCCCCCEEEec
Q 033269 85 GMVVNMPKEH-HE---HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 85 ~iVVGlP~~d-Gt---~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.+|.|-|..+ +. .++.|++.+++..+ +..|.+.|
T Consensus 5 l~i~gSpr~~~s~s~~l~~~~~~~l~~~~~--~~~v~~~d 42 (201)
T PRK00170 5 LVIKSSILGDYSQSMQLGDAFIEAYKEAHP--DDEVTVRD 42 (201)
T ss_pred EEEecCCCCCCcHHHHHHHHHHHHHHHhCC--CCeEEEEE
Confidence 5788989764 43 66778888877644 45666555
No 180
>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=27.14 E-value=2.5e+02 Score=21.62 Aligned_cols=72 Identities=15% Similarity=0.173 Sum_probs=34.2
Q ss_pred CCceEEEEecC----CCeEEEEEe--eCCCceeecceeee-Ccc--ccc--chHHHHhhcCcCeEEEeccCCChHHHHHH
Q 033269 33 AGLGILGLDVG----NKYIGVSLF--KRHGNEVEPLTKFD-RAK--ADQ--ELPQLIEKHKVLGMVVNMPKEHHEHVSSF 101 (123)
Q Consensus 33 ~~~riLglD~G----~kriGlAvs--D~~~~~a~Pl~~i~-~~~--~~~--~L~~li~~~~i~~iVVGlP~~dGt~v~~f 101 (123)
....++|+|+| ...+++.+. ...... .-+.... +.. ..+ .+.++...+++..|++= ....-...
T Consensus 224 ~~~~~~g~D~a~~~~~d~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~d----~~~~g~~~ 298 (384)
T PF03237_consen 224 DWPIIIGVDPAGGKGGDYTAIVVWEIVDDDGF-YVVDDEYERGMSPEEWAERIRELYKKYNPIKIYID----ANGAGESV 298 (384)
T ss_dssp T--EEEEEE--SSCTTB-EEEEEE-E-SSSSE-EEEEEEEESSS-TTTHHHHHHHHHHHTTS--EEEE----ESCCHHHH
T ss_pred CceEEEEEECCCCCccCCEEEEEEccccccce-EEeeehhhcCCCHHHHHHHHHHHHhhcCceEEEEc----CCccccch
Confidence 35678999999 566666666 222221 1112222 111 223 77888888999999884 21133445
Q ss_pred HHHHhhcc
Q 033269 102 IEQLDGNE 109 (123)
Q Consensus 102 ~~~L~~~~ 109 (123)
++.|++..
T Consensus 299 ~~~l~~~~ 306 (384)
T PF03237_consen 299 IEILRREG 306 (384)
T ss_dssp HHHHHTTT
T ss_pred hhhhhhhc
Confidence 55555544
No 181
>PRK14837 undecaprenyl pyrophosphate synthase; Provisional
Probab=27.05 E-value=66 Score=25.69 Aligned_cols=35 Identities=9% Similarity=-0.010 Sum_probs=26.3
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCC
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNK 45 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~k 45 (123)
.+||+.+++-+...|+.-..-+.+.-.+|+.||.+
T Consensus 103 ~~Lp~~l~~~i~~~e~~T~~n~~~~Lnia~~Yggr 137 (230)
T PRK14837 103 ESLSEEVKKSIKDAISFTKNFDGLVLNLAINYGGR 137 (230)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCCcEEEEEecCCCH
Confidence 46899999999999865444444455699999984
No 182
>PRK13329 pantothenate kinase; Reviewed
Probab=26.99 E-value=2.8e+02 Score=21.95 Aligned_cols=74 Identities=15% Similarity=0.078 Sum_probs=40.3
Q ss_pred eEEEEecCCCeEEEEEeeC---CCceeecceeeeCccccc-chHH-HHhhcC-cCeEEEeccCC-ChH-HHHHHHHHHhh
Q 033269 36 GILGLDVGNKYIGVSLFKR---HGNEVEPLTKFDRAKADQ-ELPQ-LIEKHK-VLGMVVNMPKE-HHE-HVSSFIEQLDG 107 (123)
Q Consensus 36 riLglD~G~kriGlAvsD~---~~~~a~Pl~~i~~~~~~~-~L~~-li~~~~-i~~iVVGlP~~-dGt-~v~~f~~~L~~ 107 (123)
++|-||.|..|+=.|+.|. .+.+.. ..... ..++ .+.+ ...++. ++.+++- + .|. ....+.+.|+.
T Consensus 2 m~LliD~GNTriKw~~~~~~~~~~~~~~-~~~~~--~~~~~~l~~~~~~~~~~~~~v~vs---sV~~~~~~~~l~~~l~~ 75 (249)
T PRK13329 2 TFLAIDVGNTRLKWGLYDAAQPGAALLA-HGAEF--LAEIDRLAEGAWAGLPAPARVLGC---NVAGDAVARRVAEQLEL 75 (249)
T ss_pred CEEEEEcCcchheeeEecccccCCcccc-cchhh--HHHHHHHhhhhHhhCCCCCeEEEE---ecCcHHHHHHHHHHHHH
Confidence 3788999999999999993 222111 01100 1233 4444 445554 7787776 3 342 44455555533
Q ss_pred cccCCCCCEEEe
Q 033269 108 NEIYRGLPFCYF 119 (123)
Q Consensus 108 ~~~~~~lpV~l~ 119 (123)
+ +.++.++
T Consensus 76 -~---~~~~~~~ 83 (249)
T PRK13329 76 -W---DVAPRWV 83 (249)
T ss_pred -h---CCceEEE
Confidence 4 4455544
No 183
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=26.97 E-value=76 Score=25.55 Aligned_cols=37 Identities=16% Similarity=0.327 Sum_probs=29.7
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~ 117 (123)
+.++.+++-..+.||+| +.---..+++|++.+ ++||+
T Consensus 165 ~~~~a~~edgAeaIiLG-----CAGms~la~~Lq~~~---gvPVI 201 (230)
T COG4126 165 EAAEALKEDGAEAIILG-----CAGMSDLADQLQKAF---GVPVI 201 (230)
T ss_pred HHHHHhhhcCCCEEEEc-----CccHHHHHHHHHHHh---CCCcc
Confidence 78888899999999999 443334499999999 88874
No 184
>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=26.67 E-value=1.2e+02 Score=24.58 Aligned_cols=80 Identities=13% Similarity=0.155 Sum_probs=48.0
Q ss_pred EEEecCCCeEEEEEeeCCCc-eeecceee--------eC----cc-ccc--chHHHHhhc-----CcCeEEEec-cCC-C
Q 033269 38 LGLDVGNKYIGVSLFKRHGN-EVEPLTKF--------DR----AK-ADQ--ELPQLIEKH-----KVLGMVVNM-PKE-H 94 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~-~a~Pl~~i--------~~----~~-~~~--~L~~li~~~-----~i~~iVVGl-P~~-d 94 (123)
||||--..-+++|+.+..+. ++.-.... +. .. +.+ .+++++++. +++.|.++. |-. -
T Consensus 1 Lgiets~~~~s~al~~~~~~i~~~~~~~~~~~~gg~~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~Iavt~gPg~~~ 80 (322)
T TIGR03722 1 LGIEGTAHTFGVGIVDEDGEILANVSDTYVPEKGGIHPREAAEHHAEVAPKLIKEALEEAGVSLEDIDAVAFSQGPGLGP 80 (322)
T ss_pred CEEeccccceEEEEEECCCeEEEEEEeecccCcCCcChhHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCCchHH
Confidence 57888788899999985443 33221111 10 00 123 556665554 578999984 322 2
Q ss_pred hH-HHHHHHHHHhhcccCCCCCEEEec
Q 033269 95 HE-HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 95 Gt-~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
|- ....+++.|+..+ ++|++.++
T Consensus 81 ~l~vg~~~ak~la~~~---~~p~~~v~ 104 (322)
T TIGR03722 81 CLRVGATAARALALKL---NKPLVGVN 104 (322)
T ss_pred hHHHHHHHHHHHHHHh---CCCeechh
Confidence 21 5556788888777 78887765
No 185
>PRK15456 universal stress protein UspG; Provisional
Probab=26.56 E-value=51 Score=22.71 Aligned_cols=43 Identities=16% Similarity=0.110 Sum_probs=27.8
Q ss_pred chHHHHhhcCcCeEEEeccCCChH---HHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE---HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt---~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
.|.+.+++++++.||+|-= ..|- ..-+-++++-++. +.||..+
T Consensus 96 ~I~~~a~~~~~DLIVmG~~-g~~~~~~llGS~a~~v~~~a---~~pVLvV 141 (142)
T PRK15456 96 EVNELAEELGADVVVIGSR-NPSISTHLLGSNASSVIRHA---NLPVLVV 141 (142)
T ss_pred HHHHHHhhcCCCEEEEcCC-CCCccceecCccHHHHHHcC---CCCEEEe
Confidence 7888899999999999941 1110 2233455665555 6777654
No 186
>PRK10490 sensor protein KdpD; Provisional
Probab=26.52 E-value=1.1e+02 Score=28.64 Aligned_cols=49 Identities=10% Similarity=0.140 Sum_probs=34.3
Q ss_pred ccc--chHHHHhhcCcCeEEEeccCCChHHHH-HHHHHHhhcccCCCCCEEEec
Q 033269 70 ADQ--ELPQLIEKHKVLGMVVNMPKEHHEHVS-SFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 70 ~~~--~L~~li~~~~i~~iVVGlP~~dGt~v~-~f~~~L~~~~~~~~lpV~l~D 120 (123)
.++ .|.+++++++++.||||-|...+-..+ .++++|-+..+ ++.|+.+.
T Consensus 322 ~dva~~i~~~A~~~~vt~IViG~s~~~~~~~~~s~~~~l~r~~~--~idi~iv~ 373 (895)
T PRK10490 322 PAEEKAVLRYAREHNLGKIIIGRRASRRWWRRESFADRLARLGP--DLDLVIVA 373 (895)
T ss_pred CCHHHHHHHHHHHhCCCEEEECCCCCCCCccCCCHHHHHHHhCC--CCCEEEEe
Confidence 345 899999999999999997655211111 45666666655 78888774
No 187
>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=26.45 E-value=1.5e+02 Score=23.58 Aligned_cols=44 Identities=11% Similarity=0.141 Sum_probs=28.3
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+.+.+...+.|+||--. .+....+....+++.. ++||+++.
T Consensus 23 ~~~~~~~~~gtDai~VGGS~-~~~~~d~vv~~ik~~~---~lPvilfP 66 (230)
T PF01884_consen 23 EALEAACESGTDAIIVGGSD-TGVTLDNVVALIKRVT---DLPVILFP 66 (230)
T ss_dssp HHHHHHHCTT-SEEEEE-ST-HCHHHHHHHHHHHHHS---SS-EEEET
T ss_pred HHHHHHHhcCCCEEEECCCC-CccchHHHHHHHHhcC---CCCEEEeC
Confidence 55555578899999999322 1225566677777766 89999863
No 188
>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=26.24 E-value=1.7e+02 Score=23.71 Aligned_cols=46 Identities=7% Similarity=0.089 Sum_probs=36.6
Q ss_pred chHHHHhhcCcCeEEEeccCC-C--hHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-H--HEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-d--Gt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. . .+.+.+|.+.+.+..+ ++||.+.+
T Consensus 94 ~~a~~A~~~Gad~vlv~~P~y~~~~~~~l~~yf~~va~a~~--~lPv~iYn 142 (309)
T cd00952 94 ARTRALLDLGADGTMLGRPMWLPLDVDTAVQFYRDVAEAVP--EMAIAIYA 142 (309)
T ss_pred HHHHHHHHhCCCEEEECCCcCCCCCHHHHHHHHHHHHHhCC--CCcEEEEc
Confidence 888888999999999999976 3 3477787788877663 48988765
No 189
>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=26.01 E-value=1.5e+02 Score=22.04 Aligned_cols=37 Identities=14% Similarity=0.339 Sum_probs=22.7
Q ss_pred HhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 78 IEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 78 i~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
+.+++++++|+. |.. .+......+.+.+ . ++||+++|
T Consensus 53 l~~~~vdgiIi~-~~~-~~~~~~~~~~~~~-~---~iPvV~~~ 89 (275)
T cd06320 53 MINKGYKGLLFS-PIS-DVNLVPAVERAKK-K---GIPVVNVN 89 (275)
T ss_pred HHHhCCCEEEEC-CCC-hHHhHHHHHHHHH-C---CCeEEEEC
Confidence 345689999886 332 1223344566654 2 78998887
No 190
>PRK12359 flavodoxin FldB; Provisional
Probab=26.00 E-value=44 Score=25.17 Aligned_cols=24 Identities=13% Similarity=0.245 Sum_probs=19.5
Q ss_pred EEEeccCC-ChH------HHHHHHHHHhhcc
Q 033269 86 MVVNMPKE-HHE------HVSSFIEQLDGNE 109 (123)
Q Consensus 86 iVVGlP~~-dGt------~v~~f~~~L~~~~ 109 (123)
-.||||+. +++ ++.+|+++|+..+
T Consensus 138 ~f~gl~lD~~nq~~~t~~ri~~W~~~~~~~~ 168 (172)
T PRK12359 138 LFVGLALDEVNQYDLSDERIQQWCEQILLEM 168 (172)
T ss_pred EEEEEEEcCCCchhhhHHHHHHHHHHHHHHH
Confidence 47999999 544 9999999998654
No 191
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=25.98 E-value=68 Score=23.32 Aligned_cols=33 Identities=12% Similarity=0.115 Sum_probs=27.0
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcc
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~ 109 (123)
.|.+++++++++.|++| +....+.++-+|+.++
T Consensus 74 al~~~i~~~~p~~Vl~~----~t~~g~~la~rlAa~L 106 (168)
T cd01715 74 ALVALAKKEKPSHILAG----ATSFGKDLAPRVAAKL 106 (168)
T ss_pred HHHHHHHhcCCCEEEEC----CCccccchHHHHHHHh
Confidence 78889999999999999 5556668888888776
No 192
>PRK03620 5-dehydro-4-deoxyglucarate dehydratase; Provisional
Probab=25.93 E-value=1.8e+02 Score=23.47 Aligned_cols=45 Identities=18% Similarity=0.237 Sum_probs=36.7
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. .. +.+.+|.+.+.+.. ++||.+.|
T Consensus 92 ~~~~~a~~~Gadav~~~pP~y~~~~~~~i~~~f~~va~~~---~lpi~lYn 139 (303)
T PRK03620 92 EYAQAAERAGADGILLLPPYLTEAPQEGLAAHVEAVCKST---DLGVIVYN 139 (303)
T ss_pred HHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHHhC---CCCEEEEc
Confidence 777888899999999999976 43 37778888888776 79998876
No 193
>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=25.64 E-value=1.2e+02 Score=24.48 Aligned_cols=51 Identities=22% Similarity=0.208 Sum_probs=32.9
Q ss_pred eeecceeeeCccccc-chHHHHhhcC--cCeEEEeccCC-C------hHHHHHHHHHHhhccc
Q 033269 58 EVEPLTKFDRAKADQ-ELPQLIEKHK--VLGMVVNMPKE-H------HEHVSSFIEQLDGNEI 110 (123)
Q Consensus 58 ~a~Pl~~i~~~~~~~-~L~~li~~~~--i~~iVVGlP~~-d------Gt~v~~f~~~L~~~~~ 110 (123)
+.+|+-+++. ... .|.+.++.+. .+.+++|.|+- . -.-...+++.|...++
T Consensus 76 ~VQplhiipG--~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~~~~~D~~~va~aL~~~~~ 136 (262)
T PF06180_consen 76 VVQPLHIIPG--EEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQENSPEDYEAVAEALAEEFP 136 (262)
T ss_dssp EEEE--SCSS--HHHHHHHHHHHHHCCCSSEEEEE--SCSS-----SHHHHHHHHHHHHCCS-
T ss_pred EEeecceeCc--HhHHHHHHHHHHhhccCCeEEecccccccccccCChHHHHHHHHHHHHhcc
Confidence 4567777762 345 6777776654 68999999998 4 3378888999987764
No 194
>cd00951 KDGDH 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is member of dihydrodipicolinate synthase (DHDPS) family that comprises several pyruvate-dependent class I aldolases. The enzyme is involved in glucarate metabolism, and its mechanism presumbly involves a Schiff-base intermediate similar to members of DHDPS family. While in the case of Pseudomonas sp. 5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to 2,5-dioxopentanoate, in certain species of Enterobacteriaceae it is degraded instead to pyruvate and glycerate.
Probab=25.62 E-value=1.8e+02 Score=23.21 Aligned_cols=45 Identities=18% Similarity=0.192 Sum_probs=36.4
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. .. +.+.+|.+.+.+.. ++||.+.|
T Consensus 85 ~~a~~a~~~Gad~v~~~pP~y~~~~~~~i~~~f~~v~~~~---~~pi~lYn 132 (289)
T cd00951 85 AYAQAAEKAGADGILLLPPYLTEAPQEGLYAHVEAVCKST---DLGVIVYN 132 (289)
T ss_pred HHHHHHHHhCCCEEEECCCCCCCCCHHHHHHHHHHHHhcC---CCCEEEEe
Confidence 778888999999999998877 32 37777778887776 79998876
No 195
>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=25.58 E-value=2.8e+02 Score=23.13 Aligned_cols=75 Identities=17% Similarity=0.243 Sum_probs=44.3
Q ss_pred EEEecCCCeEEEEEeeCCCceee----cceeeeCccccc--chHHHHhhcCc-CeEEEeccCCChH----------HHHH
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVE----PLTKFDRAKADQ--ELPQLIEKHKV-LGMVVNMPKEHHE----------HVSS 100 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~----Pl~~i~~~~~~~--~L~~li~~~~i-~~iVVGlP~~dGt----------~v~~ 100 (123)
+|+|+|...+=+|..|.++.+.. |+...+ ....+ .|.++.++.+. +...|=+ -|+ -|..
T Consensus 1 ~G~DiGGA~~K~a~~~~~g~~~~v~~~~~plW~-~~~~L~~~l~~~~~~~~~~~~~avtM---TgELaD~f~~r~~GV~~ 76 (318)
T TIGR03123 1 LGIDIGGANTKAAELDEDGRIKEVHQLYCPLWK-GNDKLAETLKEISQDLSSADNVAVTM---TGELADCFEDKAEGVEF 76 (318)
T ss_pred CccccccceeeeEEecCCCceeEEEEecCcccC-CchHHHHHHHHHHHhcCccceEEEEe---ehhhhhhhcCHHHHHHH
Confidence 58999999999998887774332 222222 11223 56666766665 4444333 354 4666
Q ss_pred HHHHHhhcccCCCCCEEEe
Q 033269 101 FIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 101 f~~~L~~~~~~~~lpV~l~ 119 (123)
.++.+++.|+ -++.++
T Consensus 77 i~~~~~~~~~---~~~~i~ 92 (318)
T TIGR03123 77 ILAAVESAFG---SPVSVF 92 (318)
T ss_pred HHHHHHHhcC---CCeEEE
Confidence 6777777773 355543
No 196
>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=25.31 E-value=1.6e+02 Score=21.72 Aligned_cols=40 Identities=20% Similarity=0.559 Sum_probs=24.2
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.+.+.+..++++++|+ .|.+ +. ....+.+.+ . ++|++++|
T Consensus 47 ~~~~~l~~~~vdgiii-~~~~~~~---~~~~~~~~~-~---~ipvv~i~ 87 (270)
T cd01545 47 RVRALLQRSRVDGVIL-TPPLSDN---PELLDLLDE-A---GVPYVRIA 87 (270)
T ss_pred HHHHHHHHCCCCEEEE-eCCCCCc---cHHHHHHHh-c---CCCEEEEe
Confidence 6666676788888877 3443 21 233444543 2 67888776
No 197
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=25.28 E-value=1.1e+02 Score=26.82 Aligned_cols=43 Identities=21% Similarity=0.269 Sum_probs=34.2
Q ss_pred ccc-chHHHHhhcCcCeEEEec--cCCChH----------------------HHHHHHHHHhhcccCCCCC
Q 033269 70 ADQ-ELPQLIEKHKVLGMVVNM--PKEHHE----------------------HVSSFIEQLDGNEIYRGLP 115 (123)
Q Consensus 70 ~~~-~L~~li~~~~i~~iVVGl--P~~dGt----------------------~v~~f~~~L~~~~~~~~lp 115 (123)
.+. .|.++.++++++..|||= ||-.|= .++.|++.+-+++ +||
T Consensus 50 ~~~~~lv~fA~~~~idl~vVGPE~pL~~GvvD~l~~~Gi~vFGPsk~AA~lE~SK~faK~fm~k~---~IP 117 (428)
T COG0151 50 TDHEALVAFAKEKNVDLVVVGPEAPLVAGVVDALRAAGIPVFGPTKAAAQLEGSKAFAKDFMKKY---GIP 117 (428)
T ss_pred cCHHHHHHHHHHcCCCEEEECCcHHHhhhhHHHHHHCCCceeCcCHHHHHHHhhHHHHHHHHHHc---CCC
Confidence 356 999999999999999994 222332 7899999999988 777
No 198
>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=25.22 E-value=1.4e+02 Score=20.40 Aligned_cols=39 Identities=8% Similarity=-0.026 Sum_probs=27.2
Q ss_pred HhhcCcCeEEEeccCCChH--HHHHHHHHHhhcccCCCCCEEEecCC
Q 033269 78 IEKHKVLGMVVNMPKEHHE--HVSSFIEQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 78 i~~~~i~~iVVGlP~~dGt--~v~~f~~~L~~~~~~~~lpV~l~DEr 122 (123)
..+..-..++|| .|+ ....+.+.|.++.+ .+||.+..|.
T Consensus 38 ~~~~~~~~~~v~----~g~~~~~~~~l~~l~~~~~--~~Pvlllg~~ 78 (109)
T PF06490_consen 38 DWSSPWEACAVI----LGSCSKLAELLKELLKWAP--HIPVLLLGEH 78 (109)
T ss_pred hhhcCCcEEEEE----ecCchhHHHHHHHHHhhCC--CCCEEEECCC
Confidence 444455556665 444 56778888888887 8999998764
No 199
>TIGR00055 uppS undecaprenyl diphosphate synthase. Alternate name: undecaprenyl pyrophosphate synthetase. Activity has been demonstrated experimentally for members of this family from Micrococcus luteus, E. coli, Haemophilus influenzae, and Streptococcus pneumoniae.
Probab=24.97 E-value=70 Score=25.42 Aligned_cols=35 Identities=11% Similarity=0.143 Sum_probs=26.9
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCC
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNK 45 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~k 45 (123)
.+||+.+.+-+...|+.-..-+.+.-.+|+.||.+
T Consensus 96 ~~Lp~~~~~~i~~~e~~T~~n~~~~lnia~~Yggr 130 (226)
T TIGR00055 96 SLLSKELQEKIKKAEEDTKNNTDFTLNIAFNYGGR 130 (226)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCH
Confidence 36999999999999966555444555699999975
No 200
>TIGR02259 benz_CoA_red_A benzoyl-CoA reductase, bcr type, subunit A. This model describes A, or gamma, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This family shows strong sequence similarity to the 2-hydroxyglutaryl-CoA dehydratase alpha chain and to subunits of different types of benzoyl-CoA reductase (such as the bzd type).
Probab=24.87 E-value=88 Score=27.44 Aligned_cols=25 Identities=20% Similarity=0.341 Sum_probs=21.0
Q ss_pred CceEEEEecCCCeEEEEEeeCCCce
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHGNE 58 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~~~ 58 (123)
|..++|||.|+..+=..+.|..+.+
T Consensus 1 m~y~lGIDIGSTsTKaVVmd~~g~I 25 (432)
T TIGR02259 1 MECFVGIDLGSTTTKAVLMDDKGEV 25 (432)
T ss_pred CceEEEEEcCchhEEEEEEcCCCcE
Confidence 4568999999999999999977643
No 201
>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=24.82 E-value=63 Score=21.43 Aligned_cols=21 Identities=19% Similarity=0.401 Sum_probs=18.3
Q ss_pred chHHHHhhcCcCeEEEeccCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE 93 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~ 93 (123)
.|.+.+++++++.+|+|..-.
T Consensus 76 ~I~~~~~~~~~dllviG~~~~ 96 (124)
T cd01987 76 AIVEFAREHNVTQIVVGKSRR 96 (124)
T ss_pred HHHHHHHHcCCCEEEeCCCCC
Confidence 789999999999999996543
No 202
>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=24.70 E-value=1e+02 Score=23.72 Aligned_cols=44 Identities=27% Similarity=0.411 Sum_probs=29.8
Q ss_pred ccc-chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 70 ADQ-ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 70 ~~~-~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
+.+ ++.+.+++.++..|+.- .+ ...+.++.|++.. +++|...|.
T Consensus 186 ~~l~~l~~~ik~~~v~~i~~e----~~-~~~~~~~~la~~~---g~~vv~ld~ 230 (256)
T PF01297_consen 186 KDLAELIKLIKENKVKCIFTE----PQ-FSSKLAEALAKET---GVKVVYLDP 230 (256)
T ss_dssp HHHHHHHHHHHHTT-SEEEEE----TT-S-THHHHHHHHCC---T-EEEESST
T ss_pred HHHHHHHHHhhhcCCcEEEec----CC-CChHHHHHHHHHc---CCcEEEeCC
Confidence 456 89999999999988876 32 2334566677766 788887774
No 203
>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=24.48 E-value=2.3e+02 Score=22.48 Aligned_cols=43 Identities=21% Similarity=0.359 Sum_probs=33.7
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
++.+-+.+...+.|+||--.+ ..+.+.+..+++++ + .+||+++
T Consensus 18 ~~~~~~~~~gtdai~vGGS~~vt~~~~~~~v~~ik~-~---~lPvilf 61 (223)
T TIGR01768 18 EIAKAAAESGTDAILIGGSQGVTYEKTDTLIEALRR-Y---GLPIILF 61 (223)
T ss_pred HHHHHHHhcCCCEEEEcCCCcccHHHHHHHHHHHhc-c---CCCEEEe
Confidence 666677778999999995555 55588888899985 5 6999875
No 204
>COG0145 HyuA N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=24.43 E-value=2e+02 Score=26.53 Aligned_cols=55 Identities=16% Similarity=0.160 Sum_probs=35.9
Q ss_pred CceEEEEecCCCeEEEEEeeCCC-ceeecceee--eCccccc--chHHHHhhc----CcCeEEEe
Q 033269 34 GLGILGLDVGNKYIGVSLFKRHG-NEVEPLTKF--DRAKADQ--ELPQLIEKH----KVLGMVVN 89 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~~-~~a~Pl~~i--~~~~~~~--~L~~li~~~----~i~~iVVG 89 (123)
|+..+|||.|.-.+=..+-|..+ .+.. ..++ +..-... .+...+..+ .++.+++|
T Consensus 1 ~~~~iGID~GGTfTDaV~~~~~~g~~~~-~K~lTtP~~~~~~~~~~~~~~~~~~~~~~i~~v~~g 64 (674)
T COG0145 1 MMLRIGIDVGGTFTDAVLLDEDGGVLAT-IKVLTTPDLPSGIVNAGIRLALELLEGSEVDLVVHG 64 (674)
T ss_pred CceEEEEEcCCCcEeEEEEeCCCCEEEE-EEccCCCCchhhHHHHHHHHHhhccccccccEEEEe
Confidence 46779999999999988888776 3322 2333 2111222 566666554 58888888
No 205
>PRK14839 undecaprenyl pyrophosphate synthase; Provisional
Probab=24.42 E-value=73 Score=25.61 Aligned_cols=35 Identities=14% Similarity=0.169 Sum_probs=26.6
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCC
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNK 45 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~k 45 (123)
.+||+.+.+.+..+|+.-..-+.+.-.+|+.||.+
T Consensus 106 ~~Lp~~l~~~i~~~e~~T~~n~~~~Lnia~~Yggr 140 (239)
T PRK14839 106 DRLPDGIPEAIARAEAATAGGDRLHLRIAVDYSAR 140 (239)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCH
Confidence 36999999999999965544444455599999974
No 206
>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=24.34 E-value=1.7e+02 Score=24.50 Aligned_cols=46 Identities=15% Similarity=0.251 Sum_probs=31.8
Q ss_pred cc-chHHHHhhcCcCeEEEeccCC-ChH--HHHHHHHHHhhcccCCCCCEEEec
Q 033269 71 DQ-ELPQLIEKHKVLGMVVNMPKE-HHE--HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 71 ~~-~L~~li~~~~i~~iVVGlP~~-dGt--~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
-+ .|.++++++++|++|.=.-.. +-. ......+.|++ . |+|+..+|
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~~C~~~~~e~~~lk~~l~e-~---GIP~L~id 358 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPSFCDPALLERPMLAARCKE-H---GIPQIAFK 358 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhhcCChhhhhHHHHHHHHHH-C---CCCEEEEE
Confidence 35 899999999999999986555 433 33344455544 3 78977664
No 207
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=24.30 E-value=1e+02 Score=24.89 Aligned_cols=40 Identities=8% Similarity=0.094 Sum_probs=23.2
Q ss_pred HHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEE
Q 033269 76 QLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCY 118 (123)
Q Consensus 76 ~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l 118 (123)
+.+.+.+++++|+|. ++ ||+-=....++|-+... ++|++|
T Consensus 80 ~~~~~~GadGvV~G~-L~~dg~vD~~~~~~Li~~a~--~~~vTF 120 (248)
T PRK11572 80 ATVRELGFPGLVTGV-LDVDGHVDMPRMRKIMAAAG--PLAVTF 120 (248)
T ss_pred HHHHHcCCCEEEEee-ECCCCCcCHHHHHHHHHHhc--CCceEE
Confidence 344678999999994 56 88722222222222222 678776
No 208
>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=24.16 E-value=2.5e+02 Score=20.98 Aligned_cols=41 Identities=20% Similarity=0.357 Sum_probs=25.8
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+..+ .. +++++|+. |. +.+....+.+.+.+. ++||+++|.
T Consensus 51 ~i~~~-~~-~vdgiii~-~~-~~~~~~~~i~~~~~~----~ipvV~~~~ 91 (275)
T cd06307 51 ALLRL-GA-RSDGVALV-AP-DHPQVRAAVARLAAA----GVPVVTLVS 91 (275)
T ss_pred HHHHH-Hh-cCCEEEEe-CC-CcHHHHHHHHHHHHC----CCcEEEEeC
Confidence 34343 45 89999986 32 233344566777653 789998875
No 209
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=24.13 E-value=2e+02 Score=23.38 Aligned_cols=45 Identities=22% Similarity=0.296 Sum_probs=36.4
Q ss_pred chHHHHhhcCcCeEEEeccCC-Ch--HHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HH--EHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dG--t~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+..++.+++++++--|.. .. +...++.+.+.+.. ++|+++.+
T Consensus 90 ~lak~a~~~Gad~il~v~PyY~k~~~~gl~~hf~~ia~a~---~lPvilYN 137 (299)
T COG0329 90 ELAKHAEKLGADGILVVPPYYNKPSQEGLYAHFKAIAEAV---DLPVILYN 137 (299)
T ss_pred HHHHHHHhcCCCEEEEeCCCCcCCChHHHHHHHHHHHHhc---CCCEEEEe
Confidence 999999999999999999998 33 36666667777766 78988765
No 210
>KOG3062 consensus RNA polymerase II elongator associated protein [General function prediction only]
Probab=23.70 E-value=1.3e+02 Score=24.85 Aligned_cols=35 Identities=9% Similarity=0.123 Sum_probs=26.3
Q ss_pred eEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 85 GMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 85 ~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
-++.|+|-+ ..++++...+.|+++.. .-.|.++|+
T Consensus 4 Vvi~G~P~SGKstrA~~L~~~l~~~~~--K~~v~ii~d 39 (281)
T KOG3062|consen 4 VVICGLPCSGKSTRAVELREALKERGT--KQSVRIIDD 39 (281)
T ss_pred EEEeCCCCCCchhHHHHHHHHHHhhcc--cceEEEech
Confidence 468899999 88899999999988763 225666654
No 211
>PRK13111 trpA tryptophan synthase subunit alpha; Provisional
Probab=23.60 E-value=2.5e+02 Score=22.38 Aligned_cols=44 Identities=9% Similarity=0.195 Sum_probs=29.8
Q ss_pred chHHHHhhcCcCeEEEeccCC----ChH-----------------HHHHHHHHHhhcccCCCCCEEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE----HHE-----------------HVSSFIEQLDGNEIYRGLPFCY 118 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~----dGt-----------------~v~~f~~~L~~~~~~~~lpV~l 118 (123)
++...+.+..++.|=+|.|++ ||- .+-++.++++++.+ ++|+++
T Consensus 30 ~~~~~l~~~Gad~iElGiPfSDP~aDGpvIq~a~~~AL~~G~~~~~~~~~~~~~r~~~~--~~p~vl 94 (258)
T PRK13111 30 EIIKALVEAGADIIELGIPFSDPVADGPVIQAASLRALAAGVTLADVFELVREIREKDP--TIPIVL 94 (258)
T ss_pred HHHHHHHHCCCCEEEECCCCCCCcccCHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCC--CCCEEE
Confidence 555555668999999999997 776 23455666663333 677654
No 212
>PF00101 RuBisCO_small: Ribulose bisphosphate carboxylase, small chain; InterPro: IPR000894 RuBisCO (ribulose-1,5-bisphosphate carboxylase/oxygenase) is a bifunctional enzyme that catalyses both the carboxylation and oxygenation of ribulose-1,5-bisphosphate (RuBP) [], thus fixing carbon dioxide as the first step of the Calvin cycle. RuBisCO is the major protein in the stroma of chloroplasts, and in higher plants exists as a complex of 8 large and 8 small subunits. The function of the small subunit is unknown []. While the large subunit is coded for by a single gene, the small subunit is coded for by several different genes, which are distributed in a tissue specific manner. They are transcriptionally regulated by light receptor phytochrome [], which results in RuBisCO being more abundant during the day when it is required. The RuBisCo small subunit consists of a central four-stranded beta-sheet, with two helices packed against it [].; PDB: 1BWV_W 1IWA_P 3AXM_X 1WDD_S 3AXK_T 1IR2_K 1RBL_N 1UZH_J 1RSC_P 1UW9_C ....
Probab=23.58 E-value=1.1e+02 Score=21.34 Aligned_cols=30 Identities=20% Similarity=0.499 Sum_probs=21.0
Q ss_pred hhhhhhhhccCCCC--ceEEEEecCCCeEEEEE
Q 033269 21 CGRVEKQCVGENAG--LGILGLDVGNKYIGVSL 51 (123)
Q Consensus 21 ~~~~~~~~~~~~~~--~riLglD~G~kriGlAv 51 (123)
+..+| .|..+.+. -|++|+|.-.++-+++.
T Consensus 62 l~el~-~c~~~~p~~yVRlig~D~~~q~r~~~~ 93 (99)
T PF00101_consen 62 LAELE-ACLAEHPGEYVRLIGFDNKRQRRVLEF 93 (99)
T ss_dssp HHHHH-HHHHHSTTSEEEEEEEETTTTEEEEEE
T ss_pred HHHHH-HHHHhCCCceEEEEEEcCcccEEEEEE
Confidence 34444 44444443 68899999999988875
No 213
>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=23.53 E-value=2.1e+02 Score=19.74 Aligned_cols=40 Identities=10% Similarity=0.125 Sum_probs=25.7
Q ss_pred chHHHHhhcCcCeEEEeccCCChH----HHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE----HVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt----~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.|..++....++-+|+| -|. -..+..+.|.+. ++.++..|
T Consensus 43 ~l~~~~~~~~peiliiG----TG~~~~~~~~~~~~~l~~~----gI~vE~m~ 86 (109)
T cd00248 43 ALLPLLAEDRPDILLIG----TGAEIAFLPRALRAALRAA----GIGVEVMS 86 (109)
T ss_pred HHHHHHhhCCCCEEEEc----CCCCCCcCCHHHHHHHHHc----CCeEEEeC
Confidence 66666664459999999 665 333444555543 67777665
No 214
>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=23.21 E-value=1.7e+02 Score=21.60 Aligned_cols=41 Identities=15% Similarity=0.307 Sum_probs=24.5
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.+.. +..++++++|+. |.+ .+......+.+.+. ++|++++|
T Consensus 48 ~~~~-l~~~~vdgiii~-~~~-~~~~~~~l~~~~~~----~iPvV~~~ 88 (275)
T cd06317 48 QVED-LIAQKVDGIILW-PTD-GQAYIPGLRKAKQA----GIPVVITN 88 (275)
T ss_pred HHHH-HHHcCCCEEEEe-cCC-ccccHHHHHHHHHC----CCcEEEeC
Confidence 3444 445689999996 222 11234455666542 78998886
No 215
>PRK05463 hypothetical protein; Provisional
Probab=23.09 E-value=1.6e+02 Score=24.14 Aligned_cols=96 Identities=13% Similarity=0.119 Sum_probs=57.1
Q ss_pred hchhhhHHhhhhhhhhhccCCCCceEE-EEecCCCeEEEEEeeCCCceeecceeeeCccccc-chHHHHhhc--CcCeEE
Q 033269 12 LIPSHLFKFCGRVEKQCVGENAGLGIL-GLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKADQ-ELPQLIEKH--KVLGMV 87 (123)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~riL-glD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~~~-~L~~li~~~--~i~~iV 87 (123)
.||+.+ -..++.||+.-++.-.+| ..|+|.-....--.|.+-.+-.|.-.+-++.+.. +...+.+-| ....++
T Consensus 38 iLP~~~---A~DF~~FC~rNpkpCPLL~v~~~G~~~~~~la~~~DIRTD~P~Y~vy~~G~l~~e~~di~~~w~dD~V~Fl 114 (262)
T PRK05463 38 ILPKDW---AYDFLLFCQRNPKPCPLLDVTEPGSPELPLLGPDADIRTDVPRYRVYRDGELVEEVTDITDLWRDDLVTFL 114 (262)
T ss_pred EecHHH---HHHHHHHHhhCCCCCCceeecCCCCCcccccCCCcccccCCCceEEEECCEEeeecCchHHhCccCeEEEE
Confidence 356553 366788999988888887 4688987776632344444444444443344433 444444444 455889
Q ss_pred EeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 88 VNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 88 VGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
+| =+=.|-+.|.+. ++|+.-++|
T Consensus 115 iG-------CSFSFE~AL~~a----Gip~Rhi~~ 137 (262)
T PRK05463 115 IG-------CSFSFEHALLEA----GIPVRHIEE 137 (262)
T ss_pred ee-------cCCcHHHHHHHC----CCCcccccC
Confidence 99 555666666654 566654443
No 216
>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=22.75 E-value=76 Score=21.67 Aligned_cols=44 Identities=7% Similarity=0.154 Sum_probs=27.2
Q ss_pred chHHHHhhcCcCeEEEeccCCChH--HH-H-HHHHHHhhcccCCC--CCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE--HV-S-SFIEQLDGNEIYRG--LPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt--~v-~-~f~~~L~~~~~~~~--lpV~l~ 119 (123)
.|.+..++++++.||+|-=-..|- .. . ..+.++-++. . .||..+
T Consensus 94 ~I~~~a~~~~~dlIV~Gs~g~~~l~~~~~gssva~~Vi~~a---~~~c~Vlvv 143 (146)
T cd01989 94 AIVEYVADHGITKLVMGASSDNHFSMKFKKSDVASSVLKEA---PDFCTVYVV 143 (146)
T ss_pred HHHHHHHHcCCCEEEEeccCCCceeecccCCchhHHHHhcC---CCCceEEEE
Confidence 788889999999999993111110 11 1 3556665554 4 676654
No 217
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) 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. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=22.58 E-value=2e+02 Score=21.34 Aligned_cols=42 Identities=19% Similarity=0.388 Sum_probs=24.8
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+..++. ++++++|+-.+ + .+......+.+.+. ++|++.+|-
T Consensus 47 ~l~~~~~-~~vdgii~~~~-~-~~~~~~~i~~~~~~----~ipvV~~~~ 88 (273)
T cd06305 47 QIDQAIA-QKVDAIIIQHG-R-AEVLKPWVKRALDA----GIPVVAFDV 88 (273)
T ss_pred HHHHHHH-cCCCEEEEecC-C-hhhhHHHHHHHHHc----CCCEEEecC
Confidence 4444544 58999999621 1 12334445556542 789988873
No 218
>COG1697 DNA topoisomerase VI, subunit A [DNA replication, recombination, and repair]
Probab=22.52 E-value=1.6e+02 Score=25.24 Aligned_cols=40 Identities=23% Similarity=0.472 Sum_probs=28.7
Q ss_pred hHHHHhhc---CcCeEEEeccCCChH---HHHHHHHHHhhcccCCCCCEEEe
Q 033269 74 LPQLIEKH---KVLGMVVNMPKEHHE---HVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 74 L~~li~~~---~i~~iVVGlP~~dGt---~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
+.+|+++. +-..|+|+. .|. ..|.|.++|.+.+ ++||..+
T Consensus 195 f~rLv~e~~~~k~nailVt~---KGqP~raTRrflkrL~eel---~lpv~vf 240 (356)
T COG1697 195 FQRLVEEGFWEKENAILVTL---KGQPDRATRRFLKRLNEEL---DLPVYVF 240 (356)
T ss_pred HHHHHHhhhhhhcCeEEEec---CCCccHHHHHHHHHHHHHh---CCCEEEE
Confidence 44555544 344777774 565 9999999999988 8998743
No 219
>TIGR01198 pgl 6-phosphogluconolactonase. This enzyme of the pentose phosphate pathway is often found as a part of a multifunctional protein with
Probab=22.29 E-value=1.4e+02 Score=23.20 Aligned_cols=46 Identities=7% Similarity=0.130 Sum_probs=27.9
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhc-ccCCCCCEEEecCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGN-EIYRGLPFCYFQKT 122 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~-~~~~~lpV~l~DEr 122 (123)
.+.+.+++.+...+.+- -|+.-..+.+.|.+. +.-+++.+.+.|||
T Consensus 19 ~i~~~i~~~~~~~lals----GGstp~~~y~~L~~~~i~w~~v~~f~~DER 65 (233)
T TIGR01198 19 KLQTALAERGQFSLALS----GGRSPIALLEALAAQPLDWSRIHLFLGDER 65 (233)
T ss_pred HHHHHHHhcCcEEEEEC----CCccHHHHHHHHhhCCCCcceEEEEEeccc
Confidence 34444555554444443 577777777777642 22136789999998
No 220
>PRK09267 flavodoxin FldA; Validated
Probab=22.26 E-value=1.4e+02 Score=21.40 Aligned_cols=24 Identities=17% Similarity=0.250 Sum_probs=16.1
Q ss_pred CcCeEEEeccCC-ChH---HHHHHHHHH
Q 033269 82 KVLGMVVNMPKE-HHE---HVSSFIEQL 105 (123)
Q Consensus 82 ~i~~iVVGlP~~-dGt---~v~~f~~~L 105 (123)
+-+.+|+|-|.. .|. .+..|.+.+
T Consensus 46 ~~d~vi~g~pt~~~G~~~~~~~~fl~~~ 73 (169)
T PRK09267 46 AYDLLILGIPTWGYGELQCDWDDFLPEL 73 (169)
T ss_pred hCCEEEEEecCcCCCCCCHHHHHHHHHH
Confidence 345678888777 665 566676665
No 221
>PRK14838 undecaprenyl pyrophosphate synthase; Provisional
Probab=22.11 E-value=83 Score=25.23 Aligned_cols=36 Identities=11% Similarity=0.195 Sum_probs=27.6
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCCe
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNKY 46 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~kr 46 (123)
.+||+.+.+-...+|+.-..-+.+.-.+|+.||.+-
T Consensus 105 ~~Lp~~l~~~i~~~e~~T~~~~~~~lnia~~Yggr~ 140 (242)
T PRK14838 105 AKLPEEVQERLNECEEHTAKNTGMCLVLALSYSSRW 140 (242)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCceEEEEeecCCCHH
Confidence 368999999999999665555455556999999763
No 222
>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=22.10 E-value=1.2e+02 Score=22.41 Aligned_cols=40 Identities=20% Similarity=0.378 Sum_probs=24.1
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
.+.+++.+++++++|+. |.+ +... .+.+.+ . ++|++++|.
T Consensus 50 ~~~~~~~~~~vdgiii~-~~~~~~~~----~~~~~~-~---~ipvV~~~~ 90 (268)
T cd06271 50 VYRRLVESGLVDGVIIS-RTRPDDPR----VALLLE-R---GFPFVTHGR 90 (268)
T ss_pred HHHHHHHcCCCCEEEEe-cCCCCChH----HHHHHh-c---CCCEEEECC
Confidence 56667777789999985 333 3211 233433 2 678888874
No 223
>COG0031 CysK Cysteine synthase [Amino acid transport and metabolism]
Probab=22.00 E-value=1.9e+02 Score=24.04 Aligned_cols=33 Identities=9% Similarity=0.077 Sum_probs=28.4
Q ss_pred cCeEEEeccCCChH--HHHHHHHHHhhcccCCCCCEEEecC
Q 033269 83 VLGMVVNMPKEHHE--HVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 83 i~~iVVGlP~~dGt--~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
++.+|.| =|| .+.-.++.|+++.| ++.++.+|-
T Consensus 170 ~d~fVag----vGTGGTitGvar~Lk~~~p--~i~iv~vdP 204 (300)
T COG0031 170 VDAFVAG----VGTGGTITGVARYLKERNP--NVRIVAVDP 204 (300)
T ss_pred CCEEEEe----CCcchhHHHHHHHHHhhCC--CcEEEEECC
Confidence 9999999 788 88888889999887 788888874
No 224
>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=21.95 E-value=2.3e+02 Score=20.98 Aligned_cols=43 Identities=21% Similarity=0.282 Sum_probs=25.2
Q ss_pred chHHHHhhcCcCeEEEeccCC--ChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE--HHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~--dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
++.+.+...+++++|+ .|.. +-.......+.+.+. ++||+++|
T Consensus 46 ~~i~~l~~~~vdgiIi-~~~~~~~~~~~~~~i~~~~~~----~ipvV~i~ 90 (273)
T cd06292 46 DYVEDLLARGVRGVVF-ISSLHADTHADHSHYERLAER----GLPVVLVN 90 (273)
T ss_pred HHHHHHHHcCCCEEEE-eCCCCCcccchhHHHHHHHhC----CCCEEEEc
Confidence 4444455578999888 3332 222344455555442 68888886
No 225
>PRK14841 undecaprenyl pyrophosphate synthase; Provisional
Probab=21.94 E-value=91 Score=24.82 Aligned_cols=35 Identities=14% Similarity=0.227 Sum_probs=26.3
Q ss_pred HhchhhhHHhhhhhhhhhccCCCCceEEEEecCCC
Q 033269 11 RLIPSHLFKFCGRVEKQCVGENAGLGILGLDVGNK 45 (123)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~riLglD~G~k 45 (123)
.+||+.+++-...+|+.-..-+.+.--+|+.||.+
T Consensus 100 ~~Lp~~~~~~i~~~e~~T~~~~~~~Lnia~~Yggr 134 (233)
T PRK14841 100 EGLPEKVLKKWQEVEEKTKEFDRMTLVIAFNYGGR 134 (233)
T ss_pred hhCCHHHHHHHHHHHHHhcCCCCcEEEEEecCCCH
Confidence 37999999999999955544444444599999976
No 226
>PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional
Probab=21.93 E-value=2.3e+02 Score=21.33 Aligned_cols=42 Identities=14% Similarity=0.179 Sum_probs=30.0
Q ss_pred chHHHHhhcCcCeEEEe----ccCCChHHHHHHHHHHhhcccCCCCCEEEe
Q 033269 73 ELPQLIEKHKVLGMVVN----MPKEHHEHVSSFIEQLDGNEIYRGLPFCYF 119 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVG----lP~~dGt~v~~f~~~L~~~~~~~~lpV~l~ 119 (123)
++.+++.+.+++.+++. +|..+|. ..++.|.+..| +.+|..+
T Consensus 38 ~~~~~~~~~~pDlvLlDl~~~l~~~~g~---~~i~~i~~~~p--~~~iivl 83 (207)
T PRK15411 38 DLAIACDSLRPSVVFINEDCFIHDASNS---QRIKQIINQHP--NTLFIVF 83 (207)
T ss_pred HHHHHHhccCCCEEEEeCcccCCCCChH---HHHHHHHHHCC--CCeEEEE
Confidence 55566677789999999 6655664 47777777776 6776654
No 227
>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=21.70 E-value=1e+02 Score=21.77 Aligned_cols=70 Identities=14% Similarity=0.099 Sum_probs=38.8
Q ss_pred EEEEecCCCeEEEEEeeCCCceeecceeeeCccc----------------cc--chHHHHhhc------CcCeEEEeccC
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAKA----------------DQ--ELPQLIEKH------KVLGMVVNMPK 92 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~~----------------~~--~L~~li~~~------~i~~iVVGlP~ 92 (123)
++.+|-|...+|+.-+.......+=-..+|.+.. .+ ++.+-+.++ .++.|||+-|
T Consensus 4 ~v~id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIiaGP- 82 (133)
T PF03464_consen 4 IVVIDEGEANICLLRGYGTEILQRIESNIPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIAGP- 82 (133)
T ss_dssp EEEEETTEEEEEEEETTEEEEEEEEE-GHCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEEES-
T ss_pred EEEEeCCCEEEEEEcCCEEEEEEEEEecCCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECC-
Confidence 6889999999999854322222221111222110 12 444444444 7899999854
Q ss_pred CChHHHHHHHHHHhhcc
Q 033269 93 EHHEHVSSFIEQLDGNE 109 (123)
Q Consensus 93 ~dGt~v~~f~~~L~~~~ 109 (123)
|..-..|.+.+....
T Consensus 83 --Gf~k~~f~~~l~~~~ 97 (133)
T PF03464_consen 83 --GFTKEEFYKYLKAEA 97 (133)
T ss_dssp --TTHHHHHHHHHHHHH
T ss_pred --HHHHHHHHHHHHHhh
Confidence 446666777666543
No 228
>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=21.67 E-value=1.1e+02 Score=22.38 Aligned_cols=38 Identities=18% Similarity=0.316 Sum_probs=26.3
Q ss_pred chHHHHhhcCcCeEEEeccCCChH--HHHHHHHHHhhcccCCCCCEE
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE--HVSSFIEQLDGNEIYRGLPFC 117 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt--~v~~f~~~L~~~~~~~~lpV~ 117 (123)
.+.+++++.+++.||+| -.. .++.+.+.+.+.. ++||+
T Consensus 166 ~~~~l~~~~~~d~iiLg----Ct~l~~~~~~~~~l~~~~---gipVi 205 (216)
T PF01177_consen 166 AARELIKEDGADAIILG----CTHLPLLLGAIEALEEEL---GIPVI 205 (216)
T ss_dssp HHHHHHHCTTSSEEEEE----STTGGGGHHHHHHHHHTC---SSEEE
T ss_pred HHHHHhccCCCCEEEEC----CCchHHHHHHHHhhcccC---CCEEE
Confidence 33444458999999999 322 4557888888776 67764
No 229
>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=21.56 E-value=84 Score=23.62 Aligned_cols=46 Identities=9% Similarity=0.021 Sum_probs=27.6
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhc-----ccCCCCCEEEecCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGN-----EIYRGLPFCYFQKT 122 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~-----~~~~~lpV~l~DEr 122 (123)
.|.+.+++.+...|.+. -|+....+.+.|... +.-+++.|+..|||
T Consensus 10 ~l~~~i~~~~~~~i~ls----gG~T~~~~~~~l~~~~~~~~~~~~~v~v~~~der 60 (232)
T cd01399 10 LIAELIREKPPAVLGLA----TGSTPLGVYEELIELHKEGGLSFSNVTTFNLDEY 60 (232)
T ss_pred HHHHHHHhCCCcEEEEc----CCCCHHHHHHHHHHHHHhcCCcHHHeEEEeCcee
Confidence 56667766654455555 576566666666432 11126788999997
No 230
>PRK13927 rod shape-determining protein MreB; Provisional
Probab=21.55 E-value=1.1e+02 Score=24.44 Aligned_cols=22 Identities=23% Similarity=0.149 Sum_probs=15.5
Q ss_pred CceEEEEecCCCeEEEEEeeCC
Q 033269 34 GLGILGLDVGNKYIGVSLFKRH 55 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~~ 55 (123)
+.+.+|||.|+..+=+...+..
T Consensus 4 ~~~~igIDlGt~~~~i~~~~~~ 25 (334)
T PRK13927 4 FSNDLGIDLGTANTLVYVKGKG 25 (334)
T ss_pred CcceeEEEcCcceEEEEECCCc
Confidence 3556899999987766655543
No 231
>cd04731 HisF The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and plants, or peformed by a heterodimer (HisH-glutaminase and HisF-cyclase), like in bacteria.
Probab=21.50 E-value=1e+02 Score=23.66 Aligned_cols=34 Identities=12% Similarity=0.068 Sum_probs=21.9
Q ss_pred chHHHHhhcCcCeEEEeccCCChH-HHHHHHHHHh
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHE-HVSSFIEQLD 106 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt-~v~~f~~~L~ 106 (123)
.+.++++..+++++++|.++++|+ ....+.+.|+
T Consensus 207 di~~~l~~~g~dgv~vg~al~~~~~~~~~~~~~~~ 241 (243)
T cd04731 207 HFVEAFEEGGADAALAASIFHFGEYTIAELKEYLA 241 (243)
T ss_pred HHHHHHHhCCCCEEEEeHHHHcCCCCHHHHHHHHh
Confidence 566666666888999998888554 3444444443
No 232
>PF01869 BcrAD_BadFG: BadF/BadG/BcrA/BcrD ATPase family; InterPro: IPR002731 This domain is found in the BadF (O07462 from SWISSPROT) and BadG (O07463 from SWISSPROT) proteins that are two subunits of Benzoyl-CoA reductase, that may be involved in ATP hydrolysis. The family also includes an activase subunit from the enzyme 2-hydroxyglutaryl-CoA dehydratase (P11568 from SWISSPROT). The hypothetical protein AQ_278 from Aquifex aeolicus O66634 from SWISSPROT contains two copies of this region suggesting that the family may structurally dimerise.; PDB: 2E2N_B 2E2Q_A 2E2P_B 2E2O_A 1ZBS_A 2CH6_A 2CH5_D 1ZC6_A 1HUX_A.
Probab=21.23 E-value=1.4e+02 Score=23.11 Aligned_cols=23 Identities=30% Similarity=0.466 Sum_probs=20.2
Q ss_pred EEEecCCCeEEEEEeeCCCceee
Q 033269 38 LGLDVGNKYIGVSLFKRHGNEVE 60 (123)
Q Consensus 38 LglD~G~kriGlAvsD~~~~~a~ 60 (123)
||||-|..+|=.++.|..+.+..
T Consensus 1 lGIDgGgTkt~~vl~d~~g~il~ 23 (271)
T PF01869_consen 1 LGIDGGGTKTKAVLVDENGNILG 23 (271)
T ss_dssp EEEEECSSEEEEEEEETTSEEEE
T ss_pred CEEeeChheeeeEEEeCCCCEEE
Confidence 79999999999999999887443
No 233
>TIGR01991 HscA Fe-S protein assembly chaperone HscA. The Heat Shock Cognate proteins HscA and HscB act together as chaperones. HscA resembles DnaK but belongs in a separate clade. The apparent function is to aid assembly of iron-sulfur cluster proteins. Homologs from Buchnera and Wolbachia are clearly in the same clade but are highly derived and score lower than some examples of DnaK.
Probab=21.02 E-value=87 Score=27.88 Aligned_cols=18 Identities=22% Similarity=0.399 Sum_probs=15.9
Q ss_pred EEEEecCCCeEEEEEeeC
Q 033269 37 ILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~ 54 (123)
++|||+|+..+=+|+.+.
T Consensus 1 ~iGIDlGTtns~va~~~~ 18 (599)
T TIGR01991 1 AVGIDLGTTNSLVASVRS 18 (599)
T ss_pred CEEEEEccccEEEEEEEC
Confidence 489999999999999874
No 234
>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]
Probab=20.84 E-value=2.3e+02 Score=23.65 Aligned_cols=48 Identities=6% Similarity=0.083 Sum_probs=33.5
Q ss_pred HHHhhcCcCeEEEeccCC-ChHHHHHHHHHHhhccc-CCCCCEEEecCCC
Q 033269 76 QLIEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEI-YRGLPFCYFQKTK 123 (123)
Q Consensus 76 ~li~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~-~~~lpV~l~DEr~ 123 (123)
.+.+.-....+++|-|-. .-|.-+..|+.++.-.. +.+..|..+|||.
T Consensus 131 ~ly~~g~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers 180 (308)
T COG3854 131 DLYQNGWLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS 180 (308)
T ss_pred HHHhcCceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc
Confidence 333433455999998887 77788888888875411 0156899999983
No 235
>TIGR00904 mreB cell shape determining protein, MreB/Mrl family. A close homolog is found in the Archaeon Methanobacterium thermoautotrophicum, and a more distant homolog in Archaeoglobus fulgidus. The family is related to cell division protein FtsA and heat shock protein DnaK.
Probab=20.78 E-value=92 Score=25.06 Aligned_cols=16 Identities=25% Similarity=0.374 Sum_probs=13.7
Q ss_pred EEEecCCCeEEEEEee
Q 033269 38 LGLDVGNKYIGVSLFK 53 (123)
Q Consensus 38 LglD~G~kriGlAvsD 53 (123)
+|||.|+..+=++...
T Consensus 5 ~giDlGt~~s~i~~~~ 20 (333)
T TIGR00904 5 IGIDLGTANTLVYVKG 20 (333)
T ss_pred eEEecCcceEEEEECC
Confidence 8999999999888754
No 236
>PTZ00288 glucokinase 1; Provisional
Probab=20.73 E-value=2.8e+02 Score=23.83 Aligned_cols=21 Identities=29% Similarity=0.419 Sum_probs=18.6
Q ss_pred CceEEEEecCCCeEEEEEeeC
Q 033269 34 GLGILGLDVGNKYIGVSLFKR 54 (123)
Q Consensus 34 ~~riLglD~G~kriGlAvsD~ 54 (123)
...++|.|+|...+=+|+++.
T Consensus 25 ~~~~~~~DiGgt~~R~~~~~~ 45 (405)
T PTZ00288 25 GPIFVGCDVGGTNARVGFARE 45 (405)
T ss_pred CCeEEEEEecCCceEEEEEec
Confidence 467899999999999999986
No 237
>PRK13790 phosphoribosylamine--glycine ligase; Provisional
Probab=20.59 E-value=2.7e+02 Score=23.07 Aligned_cols=33 Identities=12% Similarity=0.274 Sum_probs=23.1
Q ss_pred ccc-chHHHHhhcCcCeEEEeccCCChH-HHHHHHHHHh
Q 033269 70 ADQ-ELPQLIEKHKVLGMVVNMPKEHHE-HVSSFIEQLD 106 (123)
Q Consensus 70 ~~~-~L~~li~~~~i~~iVVGlP~~dGt-~v~~f~~~L~ 106 (123)
.+. .|.+++++++++.+|+| ... .+..+++.|+
T Consensus 14 ~d~~~l~~~~~~~~id~vi~g----~E~~l~~~~~d~l~ 48 (379)
T PRK13790 14 SDHQAILDFAKQQNVDWVVIG----PEQPLIDGLADILR 48 (379)
T ss_pred CCHHHHHHHHHHhCCCEEEEC----CcHHHHHHHHHHHH
Confidence 456 88999999999999988 332 3444455554
No 238
>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=20.48 E-value=2.8e+02 Score=20.70 Aligned_cols=42 Identities=14% Similarity=0.225 Sum_probs=25.5
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
.+.+.+..+++++||+. |.+ .+......+++.+. ++||+++|
T Consensus 51 ~~~~~l~~~~vDgiii~-~~~-~~~~~~~i~~~~~~----gIpvV~~d 92 (274)
T cd06311 51 AQQDLLINRKIDALVIL-PFE-SAPLTQPVAKAKKA----GIFVVVVD 92 (274)
T ss_pred HHHHHHHHcCCCEEEEe-CCC-chhhHHHHHHHHHC----CCeEEEEc
Confidence 55555556789999996 443 12233334445432 78999887
No 239
>TIGR03022 WbaP_sugtrans Undecaprenyl-phosphate galactose phosphotransferase, WbaP. This model includes the enterobacterial enzymes, where the function is presumed to be identical to the S. typhimurium enzyme as well as a somewhat broader group which are likely to catalyze the same or highly similar reactions based on a phylogenetic tree-building analysis of the broader sugar transferase family. Most of these genes are found within large operons dedicated to the production of complex exopolysaccharides such as the enterobacterial O-antigen. The most likely heterogeneity would be in the precise nature of the sugar molecule transferred.
Probab=20.46 E-value=2.5e+02 Score=23.67 Aligned_cols=35 Identities=17% Similarity=0.380 Sum_probs=27.4
Q ss_pred chHHHHhhcCcCeEEEeccCCChHHHHHHHHHHhh
Q 033269 73 ELPQLIEKHKVLGMVVNMPKEHHEHVSSFIEQLDG 107 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~dGt~v~~f~~~L~~ 107 (123)
++.+++++++++.++|..|..+....++..+.+++
T Consensus 179 ~l~~~i~~~~id~ViIAip~~~~~~~~~ll~~l~~ 213 (456)
T TIGR03022 179 DALRLYARTRYAYVIVAMPGTQAEDMARLVRKLGA 213 (456)
T ss_pred HHHHHHHhCCCCEEEEecCCccHHHHHHHHHHHHh
Confidence 56678889999999999997655566777777764
No 240
>KOG1177 consensus Long chain fatty acid acyl-CoA ligase [Lipid transport and metabolism]
Probab=20.44 E-value=3.3e+02 Score=24.81 Aligned_cols=48 Identities=23% Similarity=0.334 Sum_probs=34.6
Q ss_pred EEEeeCCCce---eecceeeeCccccc---chHHHHhhcC--cCeEEEeccCC-ChH
Q 033269 49 VSLFKRHGNE---VEPLTKFDRAKADQ---ELPQLIEKHK--VLGMVVNMPKE-HHE 96 (123)
Q Consensus 49 lAvsD~~~~~---a~Pl~~i~~~~~~~---~L~~li~~~~--i~~iVVGlP~~-dGt 96 (123)
+|+.|..|.+ .+--..|.+.+.++ +|++++.++. .+.-|||-|-. -|+
T Consensus 468 i~~m~enG~i~iVGRskdmI~rGGENVyP~ElE~fL~~hp~V~~a~VVGV~D~R~GE 524 (596)
T KOG1177|consen 468 IAVMDENGTIEIVGRSKDMIIRGGENVYPTELEDFLNKHPLVKEAHVVGVPDERLGE 524 (596)
T ss_pred eEEEcCCCcEEEEEcccCeEEeCCcccChHHHHHHHhhCCCeeeEEEEccCCCcccc
Confidence 7788888853 33334444444554 9999999886 56889999998 888
No 241
>TIGR03739 PRTRC_D PRTRC system protein D. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated PRTRC system protein D. The gray zone, between trusted and noise, includes proteins found in the same genomes as other proteins of the PRTRC systems, but not in the same contiguous gene region.
Probab=20.40 E-value=78 Score=25.55 Aligned_cols=27 Identities=19% Similarity=0.303 Sum_probs=20.7
Q ss_pred cCcCeEEEeccCC-ChHHHHHHHHHHhh
Q 033269 81 HKVLGMVVNMPKE-HHEHVSSFIEQLDG 107 (123)
Q Consensus 81 ~~i~~iVVGlP~~-dGt~v~~f~~~L~~ 107 (123)
..++.+|+|+|.+ -++.-.+|.+.|..
T Consensus 100 ~~~~~lv~GLP~~~~~~~k~~l~~~l~g 127 (320)
T TIGR03739 100 REIDQLVVGLPVATLTTYKSALEKAVTG 127 (320)
T ss_pred CCCCEEEECCCHHHHHHHHHHHHHHhcc
Confidence 3577899999999 77666777776653
No 242
>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=20.32 E-value=1.7e+02 Score=21.40 Aligned_cols=35 Identities=17% Similarity=0.420 Sum_probs=20.4
Q ss_pred HhhcCcCeEEEeccCC-ChHHHHHHHHHHhhcccCCCCCEEEec
Q 033269 78 IEKHKVLGMVVNMPKE-HHEHVSSFIEQLDGNEIYRGLPFCYFQ 120 (123)
Q Consensus 78 i~~~~i~~iVVGlP~~-dGt~v~~f~~~L~~~~~~~~lpV~l~D 120 (123)
+..++++++|+. |.+ +. .++.+.+.+. ++|++++|
T Consensus 51 l~~~~vdgiii~-~~~~~~---~~~~~~~~~~----~ipvV~~~ 86 (266)
T cd06282 51 LLRQRVDGLILT-VADAAT---SPALDLLDAE----RVPYVLAY 86 (266)
T ss_pred HHhcCCCEEEEe-cCCCCc---hHHHHHHhhC----CCCEEEEe
Confidence 344789999886 222 21 2355555542 67887765
No 243
>COG1537 PelA Predicted RNA-binding proteins [General function prediction only]
Probab=20.29 E-value=5.5e+02 Score=21.96 Aligned_cols=94 Identities=11% Similarity=0.016 Sum_probs=54.6
Q ss_pred hhhhhhhccC-CCCceEEEEecCCCeEEEEEeeCCCceeecceeeeCcc----c---c-c-chHHHHhhc-CcCeEEEec
Q 033269 22 GRVEKQCVGE-NAGLGILGLDVGNKYIGVSLFKRHGNEVEPLTKFDRAK----A---D-Q-ELPQLIEKH-KVLGMVVNM 90 (123)
Q Consensus 22 ~~~~~~~~~~-~~~~riLglD~G~kriGlAvsD~~~~~a~Pl~~i~~~~----~---~-~-~L~~li~~~-~i~~iVVGl 90 (123)
+++.|.|..+ +|.--++++|-|..-+++--.-....+..=-...+.+. . . + ++.+.++++ +++.+||.-
T Consensus 120 erLkeA~~~~~~~~~~~v~~degea~i~iv~~ygi~~~~~i~~~~~gK~~~~~~~~~k~~~~i~~~~~~~~~~~~iIvaG 199 (352)
T COG1537 120 ERLKEAVEASKRPEVAIVVVDEGEAAIAIVRDYGIIILGKIRSGIPGKREGDIRAERKFFDEIAKALKEYANLDIIIVAG 199 (352)
T ss_pred HHHHHHhhcccCCceEEEEEecCceEEEEEeccceEEEEEEeccCCCCcccchhhHHHHHHHHHHHHHHhhCCCeEEEeC
Confidence 3455555443 34456789999998888764432222211111111111 1 2 3 777777777 666555542
Q ss_pred cCCChHHHHHHHHHHhhcccCCCCC-EEEec
Q 033269 91 PKEHHEHVSSFIEQLDGNEIYRGLP-FCYFQ 120 (123)
Q Consensus 91 P~~dGt~v~~f~~~L~~~~~~~~lp-V~l~D 120 (123)
-|-....|.+.+.+++| +++ ++..|
T Consensus 200 ---PGF~k~~~~~~~~~~~p--~~~~~~~~~ 225 (352)
T COG1537 200 ---PGFAKEDFYDFLRERYP--ELANIVIED 225 (352)
T ss_pred ---CchHHHHHHHHHHHhcc--cccceEEEe
Confidence 57788889999999887 666 54443
No 244
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=20.29 E-value=1.5e+02 Score=24.78 Aligned_cols=43 Identities=12% Similarity=0.186 Sum_probs=30.1
Q ss_pred chHHHHhhcCcCeEEEeccCC-ChH-----HHHHHHHHHhhcccCCCCCEEEecCC
Q 033269 73 ELPQLIEKHKVLGMVVNMPKE-HHE-----HVSSFIEQLDGNEIYRGLPFCYFQKT 122 (123)
Q Consensus 73 ~L~~li~~~~i~~iVVGlP~~-dGt-----~v~~f~~~L~~~~~~~~lpV~l~DEr 122 (123)
.+.+.+.+ +++.+++..|=| .|+ .++.|++.+.. . -+..+||.
T Consensus 137 ~~~~~~~~-~~~lv~i~nPNNPTG~~~~~~~l~~l~~~~~~-~-----~~vVvDEA 185 (356)
T COG0079 137 AILAAIRD-KTKLVFLCNPNNPTGTLLPREELRALLEALPE-G-----GLVVIDEA 185 (356)
T ss_pred HHHHhhhc-CCCEEEEeCCCCCCCCCCCHHHHHHHHHhCCC-C-----cEEEEeCc
Confidence 44444454 799999999999 998 55555555543 2 37888884
No 245
>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=20.26 E-value=2.3e+02 Score=21.69 Aligned_cols=18 Identities=17% Similarity=0.180 Sum_probs=15.9
Q ss_pred c-chHHHHhhcCcCeEEEec
Q 033269 72 Q-ELPQLIEKHKVLGMVVNM 90 (123)
Q Consensus 72 ~-~L~~li~~~~i~~iVVGl 90 (123)
+ .+.+++.++.++ +|+|+
T Consensus 62 L~~f~~~i~~~dPd-ii~g~ 80 (207)
T cd05785 62 LEELVAIIRERDPD-VIEGH 80 (207)
T ss_pred HHHHHHHHHHhCCC-EEecc
Confidence 5 999999999998 88896
No 246
>PF03630 Fumble: Fumble ; InterPro: IPR004567 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 family describes the type II (primarily eukaryotic) form of pantothenate kinase PanK, characterised from the fungus Emericella 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 type I PanK enzymes and shows little sequence similarity [, ].; GO: 0004594 pantothenate kinase activity, 0005524 ATP binding, 0015937 coenzyme A biosynthetic process; PDB: 3SMP_B 2I7N_B 2EWS_B 2I7P_C 3SMS_A 3MK6_D.
Probab=20.20 E-value=2.5e+02 Score=23.57 Aligned_cols=77 Identities=9% Similarity=0.197 Sum_probs=43.4
Q ss_pred EEEEecCCCeEEEEEeeCCCceeec--------------ceee------------eCccccc-chHHHHhhc--------
Q 033269 37 ILGLDVGNKYIGVSLFKRHGNEVEP--------------LTKF------------DRAKADQ-ELPQLIEKH-------- 81 (123)
Q Consensus 37 iLglD~G~kriGlAvsD~~~~~a~P--------------l~~i------------~~~~~~~-~L~~li~~~-------- 81 (123)
.+|+|+|..-+=|+...+......+ ...+ .....++ +..+++++.
T Consensus 2 ~faiDIGGTL~KlVYfs~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~L~Fi~FeT~~ie~~i~fi~~~~~~~~~~~ 81 (341)
T PF03630_consen 2 HFAIDIGGTLVKLVYFSPVDSSPDNQDKEDDSLRSLRREMHEIESKERGGRLHFIKFETKNIEECIDFIKENILEHKGIS 81 (341)
T ss_dssp EEEEEE-SSEEEEEEEEESS--CHHHHHCHHHHHHHHH-EEEEEETTEEEEEEEEEEEGGGHHHHHHHHHHS--S-TTGG
T ss_pred eEEEEcCCceEEEEEEeecCCCcccccccccchhhhhhhhccccccCcCCEEEEEEechhhHHHHHHHHHHhhhhccccC
Confidence 4799999999999988776642210 0011 1111334 555555552
Q ss_pred -CcCeEEEeccCCChHHHHHHHHHHhhcccCCCCCEEEecC
Q 033269 82 -KVLGMVVNMPKEHHEHVSSFIEQLDGNEIYRGLPFCYFQK 121 (123)
Q Consensus 82 -~i~~iVVGlP~~dGt~v~~f~~~L~~~~~~~~lpV~l~DE 121 (123)
....|.+ -|--+.+|++.+++++ ++++...||
T Consensus 82 ~~~~~I~a-----TGGGA~Ky~~~~~~~L---gv~v~K~DE 114 (341)
T PF03630_consen 82 QKITKICA-----TGGGAFKYADLFKEKL---GVEVQKEDE 114 (341)
T ss_dssp GCSSEEEE-----ESTTHHHHHCHHHCTS---TSEEEE--H
T ss_pred ccceEEEE-----eCCcHHHHHHHHHHhc---CCCeeEehH
Confidence 2222222 2335678999999988 889999998
Done!