Query 026881
Match_columns 231
No_of_seqs 170 out of 1146
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 14:01:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026881.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/026881hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03652 UPF0081: Uncharacteri 100.0 3.5E-42 7.7E-47 281.2 8.6 132 63-196 1-135 (135)
2 PRK00109 Holliday junction res 100.0 1.4E-40 3.1E-45 272.6 17.1 132 62-196 3-137 (138)
3 COG0816 Predicted endonuclease 100.0 8.2E-41 1.8E-45 275.8 14.6 134 62-198 1-138 (141)
4 TIGR00250 RNAse_H_YqgF RNAse H 100.0 1.6E-40 3.4E-45 269.9 15.8 127 66-195 1-130 (130)
5 smart00732 YqgFc Likely ribonu 99.5 3.3E-13 7.2E-18 101.7 11.3 95 64-163 2-99 (99)
6 PRK00039 ruvC Holliday junctio 97.6 0.0014 3E-08 55.5 12.1 98 63-167 2-112 (164)
7 PF02075 RuvC: Crossover junct 97.3 0.0029 6.3E-08 52.5 10.4 94 65-167 1-109 (149)
8 cd00529 RuvC_resolvase Hollida 97.1 0.008 1.7E-07 49.9 11.4 91 64-156 1-103 (154)
9 TIGR00228 ruvC crossover junct 96.9 0.0053 1.1E-07 51.9 8.6 96 65-167 1-108 (156)
10 COG2183 Tex Transcriptional ac 96.8 0.0094 2E-07 61.2 10.5 89 63-160 330-426 (780)
11 PF04312 DUF460: Protein of un 96.1 0.093 2E-06 43.7 10.7 107 63-187 32-138 (138)
12 COG2433 Uncharacterized conser 95.9 0.09 2E-06 52.9 11.5 121 44-189 232-352 (652)
13 PF14639 YqgF: Holliday-juncti 95.8 0.15 3.2E-06 42.7 10.8 90 63-160 5-110 (150)
14 COG0817 RuvC Holliday junction 95.4 0.027 5.8E-07 48.0 5.0 95 66-167 1-108 (160)
15 COG1548 Predicted transcriptio 94.3 0.16 3.4E-06 47.0 7.3 103 63-168 3-110 (330)
16 TIGR01766 tspaseT_teng_C trans 92.9 0.41 9E-06 35.0 6.1 60 100-160 14-82 (82)
17 COG1940 NagC Transcriptional r 90.1 1.9 4.2E-05 38.7 8.7 103 62-167 5-126 (314)
18 PRK09557 fructokinase; Reviewe 89.6 2.7 5.9E-05 37.6 9.2 98 64-167 1-116 (301)
19 PF01548 DEDD_Tnp_IS110: Trans 89.3 1.8 3.9E-05 34.4 7.0 107 65-195 1-108 (144)
20 TIGR00744 ROK_glcA_fam ROK fam 88.3 2.5 5.4E-05 37.9 8.0 96 66-167 1-117 (318)
21 PRK05082 N-acetylmannosamine k 86.7 6.3 0.00014 35.0 9.6 97 64-166 2-115 (291)
22 PRK13310 N-acetyl-D-glucosamin 85.4 5.3 0.00012 35.7 8.5 99 64-166 1-115 (303)
23 PRK13321 pantothenate kinase; 83.5 18 0.00039 32.1 10.9 55 64-118 1-64 (256)
24 PF14239 RRXRR: RRXRR protein 83.1 2.8 6.1E-05 36.3 5.4 21 63-83 51-71 (176)
25 PRK09698 D-allose kinase; Prov 82.8 13 0.00027 33.3 9.7 97 63-164 4-121 (302)
26 PF07282 OrfB_Zn_ribbon: Putat 81.6 1.4 3E-05 31.3 2.6 53 136-192 4-69 (69)
27 PRK13311 N-acetyl-D-glucosamin 81.1 15 0.00033 32.2 9.4 98 64-167 1-116 (256)
28 PF04848 Pox_A22: Poxvirus A22 77.8 41 0.00088 28.2 12.6 84 64-157 2-90 (143)
29 PHA02942 putative transposase; 77.5 4.6 9.9E-05 38.6 5.3 88 108-199 264-372 (383)
30 PF00480 ROK: ROK family; Int 75.1 4.6 9.9E-05 32.9 4.1 94 67-166 1-110 (179)
31 PF03932 CutC: CutC family; I 74.5 12 0.00026 32.9 6.7 61 105-174 80-143 (201)
32 cd03409 Chelatase_Class_II Cla 74.1 21 0.00046 26.3 7.2 56 113-173 2-60 (101)
33 PRK00292 glk glucokinase; Prov 73.8 16 0.00034 33.1 7.6 94 64-164 3-108 (316)
34 COG1214 Inactive homolog of me 73.1 20 0.00043 31.6 7.9 91 64-165 2-102 (220)
35 PRK12408 glucokinase; Provisio 72.5 7.2 0.00016 36.1 5.2 92 61-156 14-118 (336)
36 PF05188 MutS_II: MutS domain 72.4 41 0.0009 25.7 11.8 119 64-199 2-129 (137)
37 PRK14101 bifunctional glucokin 71.9 11 0.00025 37.8 6.8 66 59-124 14-84 (638)
38 PRK13318 pantothenate kinase; 71.5 22 0.00048 31.5 7.9 55 64-118 1-64 (258)
39 TIGR03725 bact_YeaZ universal 71.2 44 0.00096 28.6 9.4 89 65-164 1-97 (202)
40 COG1646 Predicted phosphate-bi 69.2 15 0.00033 33.4 6.3 49 98-155 29-77 (240)
41 COG4012 Uncharacterized protei 69.1 31 0.00067 32.4 8.4 117 64-193 2-134 (342)
42 PRK09982 universal stress prot 68.6 20 0.00043 28.4 6.3 48 97-154 90-137 (142)
43 cd03416 CbiX_SirB_N Sirohydroc 67.9 34 0.00073 25.6 7.2 57 113-174 2-60 (101)
44 PRK11572 copper homeostasis pr 66.9 28 0.00061 31.7 7.6 84 104-196 80-167 (248)
45 PRK13320 pantothenate kinase; 61.3 48 0.001 29.5 8.0 53 63-117 2-55 (244)
46 cd03412 CbiK_N Anaerobic cobal 59.1 36 0.00077 27.2 6.2 49 113-171 3-52 (127)
47 PRK00923 sirohydrochlorin coba 58.1 54 0.0012 25.6 7.0 57 112-173 3-61 (126)
48 TIGR01769 GGGP geranylgeranylg 57.6 43 0.00093 29.4 6.9 46 100-154 14-59 (205)
49 TIGR01865 cas_Csn1 CRISPR-asso 56.5 8.1 0.00018 40.4 2.5 18 64-81 2-19 (805)
50 PF00582 Usp: Universal stress 56.2 41 0.00089 24.6 5.7 52 96-154 88-139 (140)
51 TIGR03723 bact_gcp putative gl 55.7 1E+02 0.0022 28.4 9.4 85 65-156 1-109 (314)
52 PRK10116 universal stress prot 55.5 62 0.0013 24.9 6.9 49 97-154 89-137 (142)
53 PF07318 DUF1464: Protein of u 55.1 21 0.00046 34.0 4.8 95 67-165 1-120 (343)
54 cd01989 STK_N The N-terminal d 54.3 34 0.00073 26.6 5.2 21 97-117 90-110 (146)
55 PRK09472 ftsA cell division pr 54.2 67 0.0015 30.6 8.2 57 63-119 8-84 (420)
56 cd01988 Na_H_Antiporter_C The 54.1 31 0.00066 25.9 4.8 23 97-119 81-103 (132)
57 KOG0237 Glycinamide ribonucleo 52.2 35 0.00076 35.2 6.0 74 96-172 54-144 (788)
58 COG0418 PyrC Dihydroorotase [N 52.1 21 0.00044 33.9 4.1 63 116-192 130-200 (344)
59 PF14331 ImcF-related_N: ImcF- 51.3 56 0.0012 29.4 6.8 57 97-154 8-75 (266)
60 PF03309 Pan_kinase: Type III 49.1 1.3E+02 0.0029 25.6 8.5 78 65-155 1-85 (206)
61 COG3142 CutC Uncharacterized p 48.7 1.9E+02 0.0041 26.4 9.5 88 105-201 81-172 (241)
62 PLN03184 chloroplast Hsp70; Pr 47.8 19 0.00041 36.7 3.5 33 49-81 23-57 (673)
63 PRK09545 znuA high-affinity zi 47.7 77 0.0017 29.1 7.2 43 127-173 235-277 (311)
64 cd01018 ZntC Metal binding pro 47.4 75 0.0016 28.2 6.9 52 126-185 199-250 (266)
65 PF02844 GARS_N: Phosphoribosy 46.9 35 0.00076 26.8 4.2 43 96-152 48-90 (100)
66 cd03413 CbiK_C Anaerobic cobal 45.3 1.1E+02 0.0024 23.7 6.8 55 113-173 3-57 (103)
67 PRK15005 universal stress prot 45.2 45 0.00097 25.7 4.6 21 97-117 94-114 (144)
68 cd02064 FAD_synthetase_N FAD s 44.9 1E+02 0.0023 25.7 7.1 63 100-171 89-159 (180)
69 cd01017 AdcA Metal binding pro 44.8 1.1E+02 0.0024 27.3 7.6 44 126-173 202-245 (282)
70 cd03414 CbiX_SirB_C Sirohydroc 44.6 1E+02 0.0022 23.5 6.4 56 113-173 3-60 (117)
71 PF02579 Nitro_FeMo-Co: Dinitr 44.1 55 0.0012 23.7 4.7 51 100-168 43-93 (94)
72 PF00012 HSP70: Hsp70 protein; 44.1 19 0.0004 35.2 2.7 17 65-81 1-17 (602)
73 PRK15080 ethanolamine utilizat 44.0 2.4E+02 0.0051 25.2 11.0 90 62-161 23-129 (267)
74 PRK09604 UGMP family protein; 43.7 1.3E+02 0.0028 27.9 8.1 87 63-156 1-111 (332)
75 PRK15118 universal stress glob 43.6 1E+02 0.0022 23.8 6.5 49 97-155 90-138 (144)
76 TIGR01768 GGGP-family geranylg 43.2 68 0.0015 28.7 5.9 45 100-154 17-61 (223)
77 cd01137 PsaA Metal binding pro 43.2 1.2E+02 0.0026 27.3 7.7 46 124-173 206-251 (287)
78 PRK10966 exonuclease subunit S 42.3 1.7E+02 0.0037 28.0 8.9 71 98-172 27-102 (407)
79 PRK09605 bifunctional UGMP fam 42.3 1.5E+02 0.0033 28.9 8.7 90 63-159 1-111 (535)
80 PRK13324 pantothenate kinase; 42.1 2.6E+02 0.0057 25.2 10.7 80 64-155 1-90 (258)
81 smart00842 FtsA Cell division 41.9 1.2E+02 0.0026 25.3 7.0 55 65-119 1-75 (187)
82 KOG4013 Predicted Cu2+ homeost 41.6 78 0.0017 28.5 5.9 63 103-174 87-153 (255)
83 PRK15456 universal stress prot 41.2 42 0.00092 26.1 3.9 50 97-154 92-141 (142)
84 PRK13322 pantothenate kinase; 40.6 1.7E+02 0.0036 26.2 8.0 79 64-155 1-81 (246)
85 TIGR01174 ftsA cell division p 39.9 1.4E+02 0.003 27.7 7.7 55 65-119 2-76 (371)
86 cd01019 ZnuA Zinc binding prot 39.5 1.4E+02 0.003 26.9 7.4 43 126-172 210-252 (286)
87 PF00072 Response_reg: Respons 38.3 1.5E+02 0.0032 21.2 7.6 64 100-174 33-96 (112)
88 PF07355 GRDB: Glycine/sarcosi 37.6 77 0.0017 30.4 5.6 55 96-157 66-122 (349)
89 cd00984 DnaB_C DnaB helicase C 37.4 1.6E+02 0.0034 25.0 7.2 60 97-156 110-171 (242)
90 cd02812 PcrB_like PcrB_like pr 37.3 1E+02 0.0023 27.4 6.1 46 100-154 15-60 (219)
91 cd01122 GP4d_helicase GP4d_hel 36.6 79 0.0017 27.5 5.3 59 98-156 128-189 (271)
92 PRK10854 exopolyphosphatase; P 36.6 2.1E+02 0.0046 28.2 8.7 100 56-168 4-127 (513)
93 cd01987 USP_OKCHK USP domain i 35.7 1.7E+02 0.0037 21.8 6.5 23 97-119 72-94 (124)
94 cd02067 B12-binding B12 bindin 35.7 1.9E+02 0.0041 22.0 6.8 78 86-172 26-103 (119)
95 PF01261 AP_endonuc_2: Xylose 35.5 2.3E+02 0.005 22.7 7.7 74 99-172 73-156 (213)
96 PRK04169 geranylgeranylglycery 35.2 1.2E+02 0.0025 27.3 6.2 41 104-154 26-66 (232)
97 PRK13326 pantothenate kinase; 35.0 3.4E+02 0.0075 24.5 9.6 20 63-82 6-25 (262)
98 PF14450 FtsA: Cell division p 34.5 1.1E+02 0.0024 23.8 5.3 18 65-82 1-18 (120)
99 PRK13317 pantothenate kinase; 34.0 2.7E+02 0.0059 25.3 8.5 86 63-168 2-88 (277)
100 COG3513 Predicted CRISPR-assoc 33.9 34 0.00073 36.6 2.8 20 62-81 3-22 (1088)
101 KOG1856 Transcription elongati 33.5 5.6E+02 0.012 28.7 11.6 141 64-215 604-771 (1299)
102 PF03464 eRF1_2: eRF1 domain 2 33.2 2.5E+02 0.0054 22.3 8.3 93 64-166 3-120 (133)
103 PF11104 PilM_2: Type IV pilus 32.9 1.6E+02 0.0034 27.0 6.9 54 67-120 1-71 (340)
104 PTZ00400 DnaK-type molecular c 32.7 35 0.00076 34.8 2.7 55 11-81 5-59 (663)
105 PF13727 CoA_binding_3: CoA-bi 32.3 88 0.0019 24.6 4.5 44 100-154 131-174 (175)
106 PF11215 DUF3010: Protein of u 32.3 1.4E+02 0.0031 25.0 5.7 47 97-154 48-100 (138)
107 PRK12359 flavodoxin FldB; Prov 32.3 58 0.0013 27.7 3.6 31 114-144 138-168 (172)
108 PRK13410 molecular chaperone D 31.8 39 0.00085 34.5 2.9 19 63-81 2-20 (668)
109 cd01844 SGNH_hydrolase_like_6 31.8 1.8E+02 0.0038 23.5 6.3 53 102-156 49-101 (177)
110 TIGR00665 DnaB replicative DNA 31.3 1.6E+02 0.0036 27.8 6.8 59 98-156 293-353 (434)
111 COG0675 Transposase and inacti 31.0 59 0.0013 28.5 3.6 82 109-197 261-350 (364)
112 TIGR00539 hemN_rel putative ox 30.9 3.2E+02 0.0069 25.3 8.6 60 110-174 51-113 (360)
113 PF00532 Peripla_BP_1: Peripla 30.8 2.3E+02 0.005 25.1 7.3 86 101-197 47-145 (279)
114 PRK11678 putative chaperone; P 30.8 50 0.0011 32.1 3.3 18 64-81 1-18 (450)
115 TIGR01175 pilM type IV pilus a 30.7 2.5E+02 0.0055 25.3 7.8 59 63-121 3-78 (348)
116 PF01884 PcrB: PcrB family; I 30.4 2.1E+02 0.0045 25.8 6.9 43 100-154 22-65 (230)
117 PF03237 Terminase_6: Terminas 30.2 2.8E+02 0.006 24.2 7.7 76 40-117 205-290 (384)
118 cd00293 USP_Like Usp: Universa 30.0 79 0.0017 22.8 3.6 20 99-118 82-101 (130)
119 PTZ00186 heat shock 70 kDa pre 29.8 57 0.0012 33.4 3.6 20 62-81 26-45 (657)
120 PLN02757 sirohydrochlorine fer 29.7 3E+02 0.0064 22.9 7.4 57 111-172 14-72 (154)
121 KOG1220 Phosphoglucomutase/pho 29.5 1.2E+02 0.0025 31.2 5.6 50 102-160 90-142 (607)
122 PRK00290 dnaK molecular chaper 29.3 45 0.00099 33.5 2.8 19 63-81 2-20 (627)
123 PF08288 PIGA: PIGA (GPI ancho 29.0 2.4E+02 0.0052 22.0 6.2 75 70-158 3-85 (90)
124 PRK14878 UGMP family protein; 28.8 2.9E+02 0.0063 25.5 7.9 87 66-159 1-107 (323)
125 PF12724 Flavodoxin_5: Flavodo 28.7 1.4E+02 0.003 23.8 5.1 39 109-153 42-80 (143)
126 TIGR00749 glk glucokinase, pro 28.0 1.9E+02 0.004 26.3 6.4 87 66-157 1-100 (316)
127 TIGR00619 sbcd exonuclease Sbc 27.8 2.8E+02 0.006 24.5 7.3 53 98-154 27-81 (253)
128 PRK09165 replicative DNA helic 27.8 1.8E+02 0.0039 28.7 6.6 58 99-156 330-391 (497)
129 cd06292 PBP1_LacI_like_10 Liga 27.6 3.7E+02 0.008 22.5 8.5 17 100-116 45-61 (273)
130 PF13911 AhpC-TSA_2: AhpC/TSA 27.6 1.5E+02 0.0033 22.4 4.9 53 103-176 6-58 (115)
131 PF02310 B12-binding: B12 bind 27.4 2.2E+02 0.0049 21.3 5.9 60 100-168 41-100 (121)
132 PRK12564 carbamoyl phosphate s 27.3 89 0.0019 29.7 4.3 47 62-117 177-225 (360)
133 TIGR00111 pelota probable tran 27.2 5.3E+02 0.012 24.2 11.1 125 64-199 137-273 (351)
134 PF00701 DHDPS: Dihydrodipicol 27.2 4.1E+02 0.0089 23.6 8.4 51 99-156 85-135 (289)
135 PF02833 DHHA2: DHHA2 domain; 27.0 86 0.0019 24.3 3.5 60 42-117 14-73 (127)
136 PF07066 DUF3882: Lactococcus 26.8 1.8E+02 0.0039 24.9 5.5 57 63-120 2-74 (159)
137 COG3839 MalK ABC-type sugar tr 26.8 66 0.0014 30.5 3.3 120 67-195 69-206 (338)
138 COG2205 KdpD Osmosensitive K+ 26.7 2.8E+02 0.006 29.9 7.9 55 95-156 319-374 (890)
139 cd06294 PBP1_ycjW_transcriptio 26.5 2.1E+02 0.0046 23.9 6.1 19 99-117 49-67 (270)
140 COG4126 Hydantoin racemase [Am 26.5 1.2E+02 0.0027 27.4 4.7 40 98-152 162-201 (230)
141 PRK13411 molecular chaperone D 26.1 57 0.0012 33.2 2.9 19 63-81 2-20 (653)
142 TIGR01917 gly_red_sel_B glycin 26.1 1.5E+02 0.0033 29.2 5.6 55 96-157 62-118 (431)
143 TIGR01918 various_sel_PB selen 25.8 1.6E+02 0.0034 29.1 5.6 55 96-157 62-118 (431)
144 COG0079 HisC Histidinol-phosph 25.6 1.5E+02 0.0034 27.8 5.5 52 100-159 136-187 (356)
145 COG2884 FtsE Predicted ATPase 25.5 2.5E+02 0.0055 25.3 6.5 104 72-204 78-191 (223)
146 cd01016 TroA Metal binding pro 25.5 2.7E+02 0.0058 24.9 6.9 43 125-171 191-233 (276)
147 COG1433 Uncharacterized conser 25.5 3.5E+02 0.0077 21.9 6.9 54 100-171 55-108 (121)
148 cd00851 MTH1175 This uncharact 25.3 1.5E+02 0.0032 21.7 4.4 48 100-165 53-100 (103)
149 PTZ00009 heat shock 70 kDa pro 25.1 66 0.0014 32.7 3.1 21 61-81 2-22 (653)
150 TIGR02026 BchE magnesium-proto 25.0 3.7E+02 0.0079 26.3 8.2 69 96-173 225-299 (497)
151 cd06297 PBP1_LacI_like_12 Liga 25.0 2.4E+02 0.0051 24.0 6.2 42 100-156 45-86 (269)
152 CHL00094 dnaK heat shock prote 24.9 60 0.0013 32.7 2.8 19 63-81 2-20 (621)
153 PF13481 AAA_25: AAA domain; P 24.7 1.8E+02 0.0038 23.6 5.2 58 98-156 128-187 (193)
154 TIGR00329 gcp_kae1 metallohydr 24.5 5.4E+02 0.012 23.4 9.8 84 66-156 1-108 (305)
155 PRK05627 bifunctional riboflav 24.4 3.3E+02 0.0071 25.2 7.3 63 100-170 103-173 (305)
156 TIGR00241 CoA_E_activ CoA-subs 24.4 1.5E+02 0.0033 25.9 5.0 18 64-81 1-18 (248)
157 PF00155 Aminotran_1_2: Aminot 24.3 1.7E+02 0.0036 26.2 5.3 57 98-160 131-192 (363)
158 PF01297 TroA: Periplasmic sol 24.1 2.8E+02 0.0061 24.1 6.6 45 124-172 179-223 (256)
159 cd01025 TOPRIM_recR TOPRIM_rec 24.1 1.2E+02 0.0026 24.3 3.9 30 98-127 44-73 (112)
160 COG1609 PurR Transcriptional r 24.0 5.6E+02 0.012 23.4 8.9 112 71-197 57-201 (333)
161 PRK11175 universal stress prot 23.7 1.8E+02 0.0038 25.6 5.3 53 97-156 94-146 (305)
162 TIGR01016 sucCoAbeta succinyl- 23.6 5.2E+02 0.011 24.2 8.7 68 98-171 298-365 (386)
163 PRK14046 malate--CoA ligase su 23.6 5.3E+02 0.012 24.6 8.8 71 98-174 298-368 (392)
164 PRK08760 replicative DNA helic 23.5 2.6E+02 0.0055 27.5 6.8 57 99-155 328-386 (476)
165 PRK14457 ribosomal RNA large s 23.5 3.4E+02 0.0074 25.6 7.4 88 98-190 241-339 (345)
166 cd01828 sialate_O-acetylestera 23.3 3.8E+02 0.0081 21.2 6.9 55 98-155 37-94 (169)
167 COG0151 PurD Phosphoribosylami 23.0 2.7E+02 0.0058 27.5 6.7 72 98-172 51-139 (428)
168 PF14606 Lipase_GDSL_3: GDSL-l 22.8 2.2E+02 0.0049 24.5 5.5 56 97-156 46-101 (178)
169 cd01833 XynB_like SGNH_hydrola 22.7 3.7E+02 0.008 20.8 7.1 56 100-155 67-124 (157)
170 cd00950 DHDPS Dihydrodipicolin 22.5 2E+02 0.0043 25.6 5.4 51 99-156 84-134 (284)
171 COG0443 DnaK Molecular chapero 22.2 83 0.0018 31.7 3.2 19 63-81 5-23 (579)
172 TIGR03192 benz_CoA_bzdQ benzoy 22.0 3.8E+02 0.0083 25.0 7.3 48 63-110 32-82 (293)
173 PRK01433 hscA chaperone protei 22.0 97 0.0021 31.3 3.6 19 63-81 19-37 (595)
174 TIGR00555 panK_eukar pantothen 21.8 6.3E+02 0.014 23.2 8.7 89 65-168 2-92 (279)
175 PRK07179 hypothetical protein; 21.5 2.9E+02 0.0064 25.5 6.5 52 99-159 170-221 (407)
176 KOG0968 DNA polymerase zeta, c 21.5 2.9E+02 0.0063 31.0 7.0 105 33-140 653-780 (1488)
177 cd00642 GTP_cyclohydro1 GTP cy 21.4 61 0.0013 28.2 1.8 41 109-169 91-131 (185)
178 cd04724 Tryptophan_synthase_al 21.3 3.2E+02 0.0069 24.1 6.4 54 97-153 14-81 (242)
179 PRK05183 hscA chaperone protei 21.2 85 0.0018 31.7 3.0 20 62-81 18-37 (616)
180 PRK05595 replicative DNA helic 21.1 2.9E+02 0.0064 26.5 6.6 57 99-155 300-358 (444)
181 TIGR00696 wecB_tagA_cpsF bacte 21.0 5.2E+02 0.011 21.9 8.4 59 95-165 33-91 (177)
182 PF10747 DUF2522: Protein of u 21.0 61 0.0013 27.2 1.6 29 43-77 106-134 (142)
183 PF08821 CGGC: CGGC domain; I 21.0 2.8E+02 0.006 21.9 5.3 52 97-153 53-104 (107)
184 cd01829 SGNH_hydrolase_peri2 S 20.8 3.4E+02 0.0074 22.0 6.1 50 101-155 99-148 (200)
185 PRK13331 pantothenate kinase; 20.5 4E+02 0.0087 24.1 6.9 21 62-82 6-26 (251)
186 TIGR03275 methan_mark_8 putati 20.4 55 0.0012 30.1 1.3 56 62-133 153-208 (259)
187 TIGR01312 XylB D-xylulose kina 20.4 1.9E+02 0.0041 27.5 5.1 16 66-81 1-16 (481)
188 cd00338 Ser_Recombinase Serine 20.4 2.7E+02 0.0059 21.2 5.2 56 98-161 53-108 (137)
189 TIGR03600 phage_DnaB phage rep 20.3 4.3E+02 0.0093 25.0 7.4 57 100-156 294-352 (421)
190 PTZ00340 O-sialoglycoprotein e 20.2 4.5E+02 0.0097 25.0 7.5 85 63-155 1-108 (345)
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=100.00 E-value=3.5e-42 Score=281.18 Aligned_cols=132 Identities=36% Similarity=0.524 Sum_probs=121.1
Q ss_pred ceEEEEecCCCeEEEEEecC--ceeeeeeeeeccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHH
Q 026881 63 GFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~--~~A~Pl~~i~~~~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~ 139 (231)
+++||||||+||||||+||. .+|+|+.+|.+.+ ..++..|.+++++|+++.||||+|++|||+++++++.+++|+++
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 47999999999999999995 4799999998653 46789999999999999999999999999999999999999999
Q ss_pred HHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHcc
Q 026881 140 LAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFSM 196 (231)
Q Consensus 140 L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd~ 196 (231)
|+++++ ++||++|||||||.+|++.|++.|++++++|+.+|++||++|||+||++
T Consensus 81 L~~~~~--~ipV~~~DEr~TT~~A~~~l~~~g~~~~k~k~~iD~~AA~iILq~yLd~ 135 (135)
T PF03652_consen 81 LKKRFP--GIPVILVDERLTTKEAERRLRESGLSRKKRKKKIDSIAAAIILQSYLDS 135 (135)
T ss_dssp HHHHH---TSEEEEEECSCSHHCCHCCHHHTT-SHHHHCHHHCCCHHHHHHHHHHCC
T ss_pred HHHhcC--CCcEEEECCChhHHHHHHHHHHcCCChhhcCccccHHHHHHHHHHHHhC
Confidence 999863 8999999999999999999999999999999999999999999999985
No 2
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=100.00 E-value=1.4e-40 Score=272.60 Aligned_cols=132 Identities=33% Similarity=0.500 Sum_probs=122.4
Q ss_pred CceEEEEecCCCeEEEEEecC--ceeeeeeeeeccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHH
Q 026881 62 GGFSLGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~--~~A~Pl~~i~~~~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~ 138 (231)
.+++||||||+||||||+||. .+|+|+.++.+++ ...+.+|.+++++|++++||||+|++|||+++++++.|++|++
T Consensus 3 ~~~iLalD~G~kriGvAv~d~~~~~a~pl~~i~~~~~~~~~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~ 82 (138)
T PRK00109 3 SGRILGLDVGTKRIGVAVSDPLGGTAQPLETIKRNNGTPDWDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFAN 82 (138)
T ss_pred CCcEEEEEeCCCEEEEEEecCCCCEEcCEEEEEcCCCchHHHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHH
Confidence 468999999999999999994 5899999998754 3467899999999999999999999999999999999999999
Q ss_pred HHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHcc
Q 026881 139 RLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFSM 196 (231)
Q Consensus 139 ~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd~ 196 (231)
+|++++ ++||++|||||||.+|+++|++.|.+++++|+.+|++||++|||+||++
T Consensus 83 ~L~~~~---~~~v~~~DEr~TT~~A~~~l~~~~~~~~~~k~~vD~~AA~iILq~yL~~ 137 (138)
T PRK00109 83 RLEGRF---GLPVVLVDERLSTVEAERALADVGSRKKLRKGVIDSLAAVIILQSYLDS 137 (138)
T ss_pred HHHHHh---CCCEEEEcCCcCHHHHHHHHHHcCCChhhcccchhHHHHHHHHHHHHhc
Confidence 999874 8999999999999999999999998888888999999999999999985
No 3
>COG0816 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]
Probab=100.00 E-value=8.2e-41 Score=275.83 Aligned_cols=134 Identities=32% Similarity=0.483 Sum_probs=125.3
Q ss_pred CceEEEEecCCCeEEEEEecCc--eeeeeeeeeccch--hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHH
Q 026881 62 GGFSLGVDLGLSRTGLALSKGF--CVRPLTVLKLRGE--KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~~--~A~Pl~~i~~~~~--~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa 137 (231)
++++||||||+||||||+||.. +|+|+++|.+.+. ..+..|.+++++|+++.||||+|++|+|+++++++.+++|+
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 3689999999999999999954 8999999987654 37889999999999999999999999999999999999999
Q ss_pred HHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHcccC
Q 026881 138 GRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFSMSG 198 (231)
Q Consensus 138 ~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd~~~ 198 (231)
++|++++ ++||++||||+||.+|++.|.++|++++++|+.+|++||++|||+||+...
T Consensus 81 ~~L~~r~---~lpv~l~DERltTv~A~~~L~~~~~~~~~rk~~iD~~AA~~ILq~~ld~~~ 138 (141)
T COG0816 81 ERLKKRF---NLPVVLWDERLSTVEAERMLIEAGVSRKKRKGVIDSLAAVLILESYLDRNH 138 (141)
T ss_pred HHHHHhc---CCCEEEEcCccCHHHHHHHHHHcCCchhhhcchhHHHHHHHHHHHHHHhhh
Confidence 9999984 899999999999999999999999999999999999999999999999753
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=100.00 E-value=1.6e-40 Score=269.95 Aligned_cols=127 Identities=30% Similarity=0.447 Sum_probs=119.3
Q ss_pred EEEecCCCeEEEEEecC--ceeeeeeeeeccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 026881 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~--~~A~Pl~~i~~~~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~ 142 (231)
||||||+||||||+||. .+|+|+.++.+++ ...+..|.+++++|+++.||||+|++|||++++++++|++|+++|++
T Consensus 1 laiD~G~kriGvA~~d~~~~~a~pl~~i~~~~~~~~~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~ 80 (130)
T TIGR00250 1 LGLDFGTKSIGVAGQDITGWTAQGIPTIKAQDGEPDWSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEG 80 (130)
T ss_pred CeEccCCCeEEEEEECCCCCEEeceEEEEecCCcHHHHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHH
Confidence 69999999999999995 5899999998743 45788999999999999999999999999999999999999999998
Q ss_pred HhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHc
Q 026881 143 RAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFS 195 (231)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd 195 (231)
++ ++||++|||||||.+|+++|++.|++++++|..+|++||++|||+||+
T Consensus 81 ~~---~~~v~~~DEr~TT~~A~~~l~~~g~~~~~~k~~vD~~AA~iILq~yLd 130 (130)
T TIGR00250 81 RF---GVPVVLWDERLSTVEAESGLFARGGFRALRKGKIDKAAAVIILQSYLD 130 (130)
T ss_pred Hh---CCCEEEEcCCcCHHHHHHHHHHcCCChhhccccHhHHHHHHHHHHHhC
Confidence 74 899999999999999999999999999999999999999999999996
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=99.50 E-value=3.3e-13 Score=101.65 Aligned_cols=95 Identities=27% Similarity=0.387 Sum_probs=77.6
Q ss_pred eEEEEecCCCeEEEEEec--Cceeeeeeeeec-cchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHH
Q 026881 64 FSLGVDLGLSRTGLALSK--GFCVRPLTVLKL-RGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD--~~~A~Pl~~i~~-~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L 140 (231)
++||||+|..+||+|+.| +.+..+..+... +.....+.|.+++++++++.|+||.|-..+|....... ..|.+.|
T Consensus 2 ~ilgiD~Ggt~i~~a~~d~~g~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~i~Ig~pg~v~g~~~~~~~--~~l~~~l 79 (99)
T smart00732 2 RVLGLDPGRKGIGVAVVDETGKLADPLEVIPRTNKEADAARLKKLIKKYQPDLIVIGLPLNMNGTASRETE--EAFAELL 79 (99)
T ss_pred cEEEEccCCCeEEEEEECCCCCEecCEEEEEecCcchHHHHHHHHHHHhCCCEEEEeCCcCCCCCcCHHHH--HHHHHHH
Confidence 589999999999999998 344555554432 22456789999999999999999999999998776554 7888888
Q ss_pred HHHhccCCCcEEEecCCCcHHHH
Q 026881 141 AVRAAERGWRVYLLDEHRTSAEA 163 (231)
Q Consensus 141 ~~~~~~~~lpV~lvDER~TT~eA 163 (231)
+++ +++||+++||++||.+|
T Consensus 80 ~~~---~~~pv~~~nDa~st~~a 99 (99)
T smart00732 80 KER---FNLPVVLVDERLATVYA 99 (99)
T ss_pred HHh---hCCcEEEEeCCcccccC
Confidence 876 48999999999999865
No 6
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=97.60 E-value=0.0014 Score=55.46 Aligned_cols=98 Identities=22% Similarity=0.173 Sum_probs=60.9
Q ss_pred ceEEEEecCCCeEEEEEecC--cee--eeeeeeeccc--------hhHHHHHHHHHHHcCCCEEEEeecCCC-CCCCChh
Q 026881 63 GFSLGVDLGLSRTGLALSKG--FCV--RPLTVLKLRG--------EKLELQLLEIAQREETDEFIIGLPKSW-DGSETPQ 129 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~--~~A--~Pl~~i~~~~--------~~~~~~L~~li~e~~i~~IVVGLPl~~-dGt~s~~ 129 (231)
.+|||||+|..++|+|+.+. ... --.++|..+. ....+.|.+++++|+++.++|=-|+-. |.+.+-.
T Consensus 2 m~iLGIDPgl~~tG~avi~~~~~~~~~~~~G~i~t~~~~~~~~Rl~~I~~~l~~~i~~~~Pd~vaiE~~f~~~n~~sa~~ 81 (164)
T PRK00039 2 MRILGIDPGLRRTGYGVIEVEGRRLSYVASGVIRTPSDLDLPERLKQIYDGLSELIDEYQPDEVAIEEVFFNKNPQSALK 81 (164)
T ss_pred CEEEEEccccCceeEEEEEecCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEehhhhccChHHHHH
Confidence 58999999999999999873 212 2334554332 124578999999999999999888742 2222221
Q ss_pred HHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 130 SNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 130 ~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
.-+++--+..... ..++||+.+ |..+.+...
T Consensus 82 l~~arGvi~la~~---~~~ipv~ey----~P~~VKk~v 112 (164)
T PRK00039 82 LGQARGVAILAAA---QRGLPVAEY----TPLQVKKAV 112 (164)
T ss_pred HHHHHHHHHHHHH---HcCCCEEEE----CHHHhhhhh
Confidence 1223332222222 258999865 666665544
No 7
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=97.31 E-value=0.0029 Score=52.49 Aligned_cols=94 Identities=24% Similarity=0.224 Sum_probs=50.3
Q ss_pred EEEEecCCCeEEEEEecC--c--eeeeeeeeeccch--------hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHH-
Q 026881 65 SLGVDLGLSRTGLALSKG--F--CVRPLTVLKLRGE--------KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSN- 131 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~--~--~A~Pl~~i~~~~~--------~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~- 131 (231)
|||||+|..++|.|+.+. . ..--..+|..+.. ...+.|.+++++|+|+.++|=-+... .....+.
T Consensus 1 ILGIDPgl~~tG~avi~~~~~~~~~i~~G~I~t~~~~~~~~Rl~~I~~~l~~li~~~~P~~vaiE~~f~~--~n~~s~~~ 78 (149)
T PF02075_consen 1 ILGIDPGLSNTGYAVIEEDGGKLRLIDYGTIKTSSKDSLPERLKEIYEELEELIEEYNPDEVAIEEIFFG--KNPKSALK 78 (149)
T ss_dssp EEEEE--SSEEEEEEEEEETTEEEEEEEEEEE---S--HHHHHHHHHHHHHHHHHHH--SEEEEEE-S------HHHHHH
T ss_pred CEEECCCCCCeeEEEEEeeCCEEEEEEeCeEECCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEeehhhhc--cCHHHHHH
Confidence 799999999999999883 2 2223355643321 23568999999999999999887642 2211122
Q ss_pred --HHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 132 --KVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 132 --~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
+++-.+..... ..++||+. +|..+.++.+
T Consensus 79 l~~arGvi~l~~~---~~~i~v~~----y~P~~vKk~v 109 (149)
T PF02075_consen 79 LGQARGVILLAAA---QRGIPVFE----YTPSEVKKAV 109 (149)
T ss_dssp HHHHHHHHHHHHH---TTT--EEE----EEHHHHHHHH
T ss_pred HHHHHHHHHHHHH---HcCCeEEE----ECHHHHHHHh
Confidence 22222222222 35888775 4777776654
No 8
>cd00529 RuvC_resolvase Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes only the bacterial and mitochondrial HJR's. These are referred to as the RuvC family of Holliday junction resolvases, RuvC being the E.coli HJR. RuvC and its orthologs are homodimers and are structurely similar to RNase H and Hsp70.
Probab=97.15 E-value=0.008 Score=49.89 Aligned_cols=91 Identities=19% Similarity=0.149 Sum_probs=54.8
Q ss_pred eEEEEecCCCeEEEEEecC--ce--eeeeeeeeccc--------hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHH
Q 026881 64 FSLGVDLGLSRTGLALSKG--FC--VRPLTVLKLRG--------EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSN 131 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~--~~--A~Pl~~i~~~~--------~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~ 131 (231)
+|||||+|..++|+|+.+. .. ..-.++|.... ......|.+++.+|+++.++|=-+.--.+. ..+.
T Consensus 1 rILGIDPGl~~~G~av~~~~~~~~~~~~~g~i~t~~~~~~~~rl~~I~~~l~~~i~~~~Pd~vaiE~~~~~~n~--~s~~ 78 (154)
T cd00529 1 RILGIDPGSRNTGYGVIEQEGRKLIYLASGVIRTSSDAPLPSRLKTIYDGLNEVIDQFQPDVVAIERVFFAKNP--DSAL 78 (154)
T ss_pred CEEEEccCcCceEEEEEEeeCCeEEEEEeeEEECCCCCCHHHHHHHHHHHHHHHHHHhCCCEEEEEEhhcccCh--HHHH
Confidence 5899999999999999873 11 22334564431 134578999999999999999876532222 2222
Q ss_pred HHHHHHHHHHHHhccCCCcEEEecC
Q 026881 132 KVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 132 ~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
++-.+-..+-..+...++||+.++-
T Consensus 79 ~l~~~~Gvi~~~~~~~~i~v~e~~P 103 (154)
T cd00529 79 KLGQARGALILALANRNLPVFEYTP 103 (154)
T ss_pred HHHHHHHHHHHHHHHcCCCEEEEcc
Confidence 2211111111122235889887754
No 9
>TIGR00228 ruvC crossover junction endodeoxyribonuclease RuvC. Endonuclease that resolves Holliday junction intermediates in genetic recombination. The active form of the protein is a dimer. Structure studies reveals that the catalytic center, comprised of four acidic residues, lies at the bottom of a cleft that fits a DNA duplex. The model hits a single Synechocystis PCC6803 protein at a score of 30, below the trusted cutoff, that appears orthologous and may act as authentic RuvC.
Probab=96.95 E-value=0.0053 Score=51.94 Aligned_cols=96 Identities=18% Similarity=0.162 Sum_probs=59.4
Q ss_pred EEEEecCCCeEEEEEecC--ce--eeeeeeeeccch-------hHHHHHHHHHHHcCCCEEEEeecCCC-CCCCChhHHH
Q 026881 65 SLGVDLGLSRTGLALSKG--FC--VRPLTVLKLRGE-------KLELQLLEIAQREETDEFIIGLPKSW-DGSETPQSNK 132 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~--~~--A~Pl~~i~~~~~-------~~~~~L~~li~e~~i~~IVVGLPl~~-dGt~s~~~~~ 132 (231)
|||||+|..++|.||.+. .. .--.++|..+.. ...+.|.+++++|+++.+.|=-++-. |.+..-..-+
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 699999999999999872 22 223355543321 23568999999999999999877632 3222222223
Q ss_pred HHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 133 VRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 133 v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
++--+-.... ..++||+ | ||..+.++..
T Consensus 81 arGvilla~~---~~~ipv~---E-y~P~~vKkav 108 (156)
T TIGR00228 81 ARGVAIVAAV---NQELPVF---E-YAARQVKQTV 108 (156)
T ss_pred HHHHHHHHHH---HcCCCEE---E-ECHHHHHHHh
Confidence 3332222222 2589998 3 6666665554
No 10
>COG2183 Tex Transcriptional accessory protein [Transcription]
Probab=96.79 E-value=0.0094 Score=61.25 Aligned_cols=89 Identities=16% Similarity=0.277 Sum_probs=62.1
Q ss_pred ceEEEEecCCCe-EEEEEecCc--e-----eeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHH
Q 026881 63 GFSLGVDLGLSR-TGLALSKGF--C-----VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVR 134 (231)
Q Consensus 63 g~iLglD~G~kR-IGvAvsD~~--~-----A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~ 134 (231)
..+||||+|... |=+||.|+. . ..|..... ........|..++..|+|+.|.|| +||-| +.+.
T Consensus 330 ~~~lglDPg~rtG~k~Avvd~tGk~l~~~~Iyp~~p~~-~~~~~~~~l~~l~~~~~Ve~iaIG-----ngTaS---rete 400 (780)
T COG2183 330 KATLGLDPGFRTGCKVAVVDDTGKLLDTATIYPHPPVN-QSDKAEATLKDLIRKYKVELIAIG-----NGTAS---RETE 400 (780)
T ss_pred cceeecCCccccccEEEEEcCCCceeceeEEEcCCCcc-chHHHHHHHHHHHHHhCceEEEEe-----cCCcc---hhHH
Confidence 379999999555 567788842 1 12222221 123455688999999999999999 99988 5566
Q ss_pred HHHHHHHHHhccCCCcEEEecCCCcH
Q 026881 135 SVAGRLAVRAAERGWRVYLLDEHRTS 160 (231)
Q Consensus 135 ~Fa~~L~~~~~~~~lpV~lvDER~TT 160 (231)
+|+..+.+..+..++..+.|.|..-|
T Consensus 401 ~fv~~vl~~~~~~~~~~viVsEagAs 426 (780)
T COG2183 401 KFVADVLKELPKEKVLKVIVSEAGAS 426 (780)
T ss_pred HHHHHHHHhccCCCCcEEEEcccccc
Confidence 67777776654457888888886533
No 11
>PF04312 DUF460: Protein of unknown function (DUF460); InterPro: IPR007408 This is an archaeal protein of unknown function.
Probab=96.12 E-value=0.093 Score=43.74 Aligned_cols=107 Identities=18% Similarity=0.177 Sum_probs=66.0
Q ss_pred ceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 026881 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~ 142 (231)
..|.|||+|+ .+|+|+.|-. -.++.+...++- ...++.++|.+++-=.||-= | .++.-..|+ +|+.
T Consensus 32 ~lIVGiDPG~-ttgiAildL~-G~~l~l~S~R~~-~~~evi~~I~~~G~PviVAt-----D--V~p~P~~V~----Kia~ 97 (138)
T PF04312_consen 32 YLIVGIDPGT-TTGIAILDLD-GELLDLKSSRNM-SRSEVIEWISEYGKPVIVAT-----D--VSPPPETVK----KIAR 97 (138)
T ss_pred CEEEEECCCc-eeEEEEEecC-CcEEEEEeecCC-CHHHHHHHHHHcCCEEEEEe-----c--CCCCcHHHH----HHHH
Confidence 5899999998 5899999821 123444433321 23578888888766555543 3 333334444 4444
Q ss_pred HhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHH
Q 026881 143 RAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAV 187 (231)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~ 187 (231)
.| +-.++.=++.+|..|=.++..+.+.+-. -...=|++||+
T Consensus 98 ~f---~A~ly~P~~dlsveeK~~l~~~~~~~~~-n~HeRDALAAA 138 (138)
T PF04312_consen 98 SF---NAVLYTPERDLSVEEKQELAREYSERYE-NDHERDALAAA 138 (138)
T ss_pred Hh---CCcccCCCCcCCHHHHHHHHHhhCCCCC-CchHHhHhhcC
Confidence 42 5567777899998887777776664111 12335888885
No 12
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=95.93 E-value=0.09 Score=52.94 Aligned_cols=121 Identities=21% Similarity=0.266 Sum_probs=80.1
Q ss_pred hhhhcccccccccCCCCCCceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCC
Q 026881 44 VEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWD 123 (231)
Q Consensus 44 ~~~~~~~~~r~~~~~~~~~g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~d 123 (231)
.=||.|.+.++. -.|.|||+|+ .+|+|+.|-.. ..+.+..+++ -...++.++|.+++-=.||-- |
T Consensus 232 rief~pl~~~r~-------~lIVGIDPGi-TtgiAvldldG-evl~~~S~r~-~~~~eVve~I~~lG~PvvVAt-----D 296 (652)
T COG2433 232 RIEFVPLRPERR-------SLIVGIDPGI-TTGIAVLDLDG-EVLDLESRRG-IDRSEVVEFISELGKPVVVAT-----D 296 (652)
T ss_pred ccccccCccccc-------ceEEEeCCCc-eeeEEEEecCC-cEEeeecccc-CCHHHHHHHHHHcCCceEEEc-----c
Confidence 346667776544 3799999998 68999998211 1233333222 234688999999887666654 4
Q ss_pred CCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHH
Q 026881 124 GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVIL 189 (231)
Q Consensus 124 Gt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~II 189 (231)
=+.-| .|+++|+..| +-..+.=|+++|+.+=.+.+...+++-... ..=|++||++-
T Consensus 297 Vtp~P------~~V~KiAasf---~A~ly~P~~dLsveEK~~~~r~~~~~~~dd-H~RDALAAA~k 352 (652)
T COG2433 297 VTPAP------ETVKKIAASF---NAVLYTPDRDLSVEEKQEALRTLKISVSDD-HERDALAAAYK 352 (652)
T ss_pred CCCCh------HHHHHHHHHc---CCcccCCcccCCHHHHHHHHhhcCCCCCCc-hHHHHHHHHHH
Confidence 44433 3556777653 677888899999999887677666654332 23599999874
No 13
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=95.82 E-value=0.15 Score=42.68 Aligned_cols=90 Identities=16% Similarity=0.143 Sum_probs=42.6
Q ss_pred ceEEEEecCCCe----EEEEEec--Cceeeeeeee-e----c-cchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhH
Q 026881 63 GFSLGVDLGLSR----TGLALSK--GFCVRPLTVL-K----L-RGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQS 130 (231)
Q Consensus 63 g~iLglD~G~kR----IGvAvsD--~~~A~Pl~~i-~----~-~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~ 130 (231)
-++|||-||.-+ +-.|+.| |... -...+ . . ...++.+.|.+++.+++++.|+|| | .+..+
T Consensus 5 ~rVla~~~g~g~~~~~~~~v~ld~~G~v~-d~~~~~~~~~~~~~~~~~~~~l~~~i~~~kP~vI~v~------g-~~~~s 76 (150)
T PF14639_consen 5 PRVLALSWGSGDGDDAVFCVVLDENGEVL-DHLKLVYNERDRERKEEDMERLKKFIEKHKPDVIAVG------G-NSRES 76 (150)
T ss_dssp --EEEEE-TT--TTS-EEEEEE-TTS-EE-EEEEE-S-TT-SS-SHHHHHHHHHHHHHH--SEEEE---------SSTHH
T ss_pred CEEEEEEcCCCCCCCCEEEEEECCCCcEE-EEEEEcCCccchHHHHHHHHHHHHHHHHcCCeEEEEc------C-CChhH
Confidence 489999999665 3445555 3221 11112 1 1 123456789999999999999997 4 34445
Q ss_pred HHHHHHHHHHHHHhc----cCCCcEEEecCCCcH
Q 026881 131 NKVRSVAGRLAVRAA----ERGWRVYLLDEHRTS 160 (231)
Q Consensus 131 ~~v~~Fa~~L~~~~~----~~~lpV~lvDER~TT 160 (231)
++..++.+.+-.... ...++|+++||...+
T Consensus 77 ~~l~~~v~~~v~~~~~~~~~~~i~V~~v~~~~A~ 110 (150)
T PF14639_consen 77 RKLYDDVRDIVEELDEDEQMPPIPVVIVDDEVAR 110 (150)
T ss_dssp HHHHHHHHHHHHHTTB-TTS-B--EEE---TTHH
T ss_pred HHHHHHHHHHHHHhhhcccCCCceEEEECcHHHH
Confidence 555555544433321 136899999997654
No 14
>COG0817 RuvC Holliday junction resolvasome, endonuclease subunit [DNA replication, recombination, and repair]
Probab=95.42 E-value=0.027 Score=47.97 Aligned_cols=95 Identities=26% Similarity=0.275 Sum_probs=57.3
Q ss_pred EEEecCCCeEEEEEecC--ceeeee--eeeeccc--------hhHHHHHHHHHHHcCCCEEEEeecCC-CCCCCChhHHH
Q 026881 66 LGVDLGLSRTGLALSKG--FCVRPL--TVLKLRG--------EKLELQLLEIAQREETDEFIIGLPKS-WDGSETPQSNK 132 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~--~~A~Pl--~~i~~~~--------~~~~~~L~~li~e~~i~~IVVGLPl~-~dGt~s~~~~~ 132 (231)
||||+|..+||.+|-+. ...+++ .+|.... ..+.+.|.+++.+|+++.+.|=-.+- .|-+..-..-+
T Consensus 1 lGIDPGl~~~G~gvI~~~~~~l~~v~~G~I~t~~~~~l~~RL~~l~~~l~~vl~~~~P~~~AIE~~F~~kN~~s~lklgQ 80 (160)
T COG0817 1 LGIDPGLRRTGYGVIEVEGRQLSYLASGVIRTSSDAPLAERLKQLYDGLSEVLDEYQPDEVAIEQVFVNKNADSALKLGQ 80 (160)
T ss_pred CCcCCCccccceEEEEccCCeEEEEeeeEEecCCCccHHHHHHHHHHHHHHHHHHhCCCeeehhHHHHhcChHHHHHHHH
Confidence 68999999999999983 233333 4564432 13456788899999999999987753 22222211222
Q ss_pred HHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 133 VRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 133 v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
+|--+-... .+.++||.. ||..+.+...
T Consensus 81 ARGv~~la~---~~~~l~v~e----Y~p~~VKkav 108 (160)
T COG0817 81 ARGVALLAA---ARRGLPVFE----YTPNQVKKAV 108 (160)
T ss_pred HHHHHHHHH---HHcCCChhh----ccHHHHHHHh
Confidence 222222111 135888864 6666666654
No 15
>COG1548 Predicted transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=94.35 E-value=0.16 Score=47.01 Aligned_cols=103 Identities=21% Similarity=0.237 Sum_probs=63.4
Q ss_pred ceEEEEecCCCeEEEEEecCcee-eeeeeeec--cchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHH
Q 026881 63 GFSLGVDLGLSRTGLALSKGFCV-RPLTVLKL--RGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGR 139 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~~A-~Pl~~i~~--~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~ 139 (231)
.++||||.|...+-+|.+||... .-+-.+++ +.+.+...|++++.+++++.+=|=+--.+-.-....++-|+..++.
T Consensus 3 ~kilGiDIGGAntk~a~~DG~~~~~d~~YlPMWk~k~rL~~~Lkei~~k~~~~~vgvvMTaELaD~f~tk~eGVe~Ii~~ 82 (330)
T COG1548 3 MKILGIDIGGANTKIASSDGDNYKIDHIYLPMWKKKDRLEETLKEIVHKDNVDYVGVVMTAELADAFKTKAEGVEDIIDT 82 (330)
T ss_pred ceEEEeeccCccchhhhccCCeeeeeEEEeccccchhHHHHHHHHHhccCCcceeEEEeeHHHHHHhhhHHhHHHHHHHH
Confidence 57999999999999999998532 11222222 2344667888888788887543332111111122344556666777
Q ss_pred HHHHhccCCCcEEEecCC--CcHHHHHHHHH
Q 026881 140 LAVRAAERGWRVYLLDEH--RTSAEAVDRMI 168 (231)
Q Consensus 140 L~~~~~~~~lpV~lvDER--~TT~eA~~~l~ 168 (231)
..+. |+.||+++|=. +-|.+|.+.+.
T Consensus 83 v~~A---f~~pv~~v~~~G~~~ssEa~~~~~ 110 (330)
T COG1548 83 VEKA---FNCPVYVVDVNGNFLSSEALKNPR 110 (330)
T ss_pred HHHh---cCCceEEEeccCcCcChhHhcCHH
Confidence 7766 58999988843 33336766443
No 16
>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=92.85 E-value=0.41 Score=34.99 Aligned_cols=60 Identities=20% Similarity=0.231 Sum_probs=36.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCC---h-hHHH-----HHHHHHHHHHHhccCCCcEEEecCCCcH
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSET---P-QSNK-----VRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s---~-~~~~-----v~~Fa~~L~~~~~~~~lpV~lvDER~TT 160 (231)
..|.+...+ .++.||||...+..+... . ..+. -.+|.+.|+-...++|++|+.|||++||
T Consensus 14 ~~iv~~~~~-~~~~Ivie~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~yka~~~Gi~v~~v~~~yTS 82 (82)
T TIGR01766 14 KQIVEYAKE-NNGTIVLEDLKNIKEMVDKKSKYLRRKLHQWSFRKLISKIKYKAEEYGIEVIEVNPAYTS 82 (82)
T ss_pred HHHHHHHHH-cCCEEEECCccchhhhcchhhHHHHHHHHhhhHHHHHHHHHHHHHHcCCeEEEeCccccc
Confidence 455555556 779999997542322211 1 1111 2334455554444579999999999997
No 17
>COG1940 NagC Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]
Probab=90.08 E-value=1.9 Score=38.68 Aligned_cols=103 Identities=18% Similarity=0.171 Sum_probs=60.4
Q ss_pred CceEEEEecCCCeEEEEEecC--c-eeeeeeeeeccch--h----HHHHHHHHHHHc----CCCEEEEeecCCCCCCC--
Q 026881 62 GGFSLGVDLGLSRTGLALSKG--F-CVRPLTVLKLRGE--K----LELQLLEIAQRE----ETDEFIIGLPKSWDGSE-- 126 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~--~-~A~Pl~~i~~~~~--~----~~~~L~~li~e~----~i~~IVVGLPl~~dGt~-- 126 (231)
...++|||.|..+|=+|+.|. . +..-....+.... . ....+++++..+ .+.+|.++.|...+...
T Consensus 5 ~~~~lgidIggt~i~~~l~d~~g~~l~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iGIgi~~pg~~~~~~~~ 84 (314)
T COG1940 5 AMTVLGIDIGGTKIKVALVDLDGEILLRERIPTPTPDPEEAILEAILALVAELLKQAQGRVAIIGIGIPGPGDVDNGTVI 84 (314)
T ss_pred CcEEEEEEecCCEEEEEEECCCCcEEEEEEEecCCCCchhHHHHHHHHHHHHHHHhcCCcCceEEEEeccceeccCCcEE
Confidence 468999999999999999993 2 2221111111111 2 234455555543 35556666665444321
Q ss_pred --ChhHH--HHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 127 --TPQSN--KVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 127 --s~~~~--~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
.+... .--.|.+.|++++ ++||.+.+.-..-.-|+..+
T Consensus 85 ~~~~~~~~~~~~~l~~~L~~~~---~~Pv~veNDan~aalaE~~~ 126 (314)
T COG1940 85 VPAPNLGWWNGVDLAEELEARL---GLPVFVENDANAAALAEAWF 126 (314)
T ss_pred eecCCCCccccccHHHHHHHHH---CCCEEEecHHHHHHHHHHHh
Confidence 11111 1123678888874 89999999877777776655
No 18
>PRK09557 fructokinase; Reviewed
Probab=89.63 E-value=2.7 Score=37.65 Aligned_cols=98 Identities=16% Similarity=0.158 Sum_probs=56.7
Q ss_pred eEEEEecCCCeEEEEEecC--c-eeeeeeeeecc---chhHHHHHHHHHHHc-----CCCEEEEeecCCC---CCCCC--
Q 026881 64 FSLGVDLGLSRTGLALSKG--F-CVRPLTVLKLR---GEKLELQLLEIAQRE-----ETDEFIIGLPKSW---DGSET-- 127 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~--~-~A~Pl~~i~~~---~~~~~~~L~~li~e~-----~i~~IVVGLPl~~---dGt~s-- 127 (231)
++||+|+|..++-+++.|. . ..+ ..++.. .....+.+.+++++. .+.+|.||.|=.. +|...
T Consensus 1 ~~lgidig~t~~~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgi~~pG~vd~~~g~i~~~ 78 (301)
T PRK09557 1 MRIGIDLGGTKIEVIALDDAGEELFR--KRLPTPRDDYQQTIEAIATLVDMAEQATGQRGTVGVGIPGSISPYTGLVKNA 78 (301)
T ss_pred CEEEEEECCCcEEEEEECCCCCEEEE--EEecCCCCCHHHHHHHHHHHHHHHHhhcCCceEEEecCcccCcCCCCeEEec
Confidence 4799999999999999983 2 221 222221 123344555555432 3567999987322 23211
Q ss_pred --hhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 128 --PQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 128 --~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
.+.. --.+.+.|++++ ++||++.+.--....|+..+
T Consensus 79 ~~~~~~-~~~l~~~l~~~~---~~pv~~~NDa~aaA~aE~~~ 116 (301)
T PRK09557 79 NSTWLN-GQPLDKDLSARL---NREVRLANDANCLAVSEAVD 116 (301)
T ss_pred CCcccc-CCCHHHHHHHHH---CCCEEEccchhHHHHHHHHh
Confidence 1101 123455676664 79999988877766666543
No 19
>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=89.28 E-value=1.8 Score=34.35 Aligned_cols=107 Identities=15% Similarity=0.066 Sum_probs=61.5
Q ss_pred EEEEecCCCeEEEEEecCce-eeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHH
Q 026881 65 SLGVDLGLSRTGLALSKGFC-VRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR 143 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~~~-A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~ 143 (231)
++|||+|....=+++.+... ......+.+ +...+..+.+.+.++. .++|| +..-|..+ ..++..|..
T Consensus 1 ~vGiDv~k~~~~v~v~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~--~~~v~--~E~tg~y~------~~l~~~L~~- 68 (144)
T PF01548_consen 1 FVGIDVSKDTHDVCVIDPNGEKLRRFKFEN-DPAGLEKLLDWLASLG--PVLVV--MEATGGYW------RPLADFLQD- 68 (144)
T ss_pred eEEEEcccCeEEEEEEcCCCcEEEEEEEec-cccchhHHhhhhcccc--ccccc--cccccccc------hhhhhheec-
Confidence 68999999999999998542 333445543 2334466777777665 56666 23334333 123333443
Q ss_pred hccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHc
Q 026881 144 AAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFS 195 (231)
Q Consensus 144 ~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd 195 (231)
.+++|++++=+.....++.. + ++.+-|..-|..|.+-++.
T Consensus 69 ---~g~~v~~vnp~~~~~~~~~~----~-----~~~KtD~~DA~~ia~~~~~ 108 (144)
T PF01548_consen 69 ---AGIEVVVVNPLQVKRFRKSL----G-----RRAKTDKIDARAIARLLRR 108 (144)
T ss_pred ---cccccccccccccccccccc----c-----ccccccccchHHHHHHHhc
Confidence 48999999866654432211 1 2233455555666665555
No 20
>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=88.26 E-value=2.5 Score=37.91 Aligned_cols=96 Identities=16% Similarity=0.158 Sum_probs=55.5
Q ss_pred EEEecCCCeEEEEEecC--c-eeeeeeeeec--cchhHHHH----HHHHHHHc-----CCCEEEEeecCCCCCCCCh---
Q 026881 66 LGVDLGLSRTGLALSKG--F-CVRPLTVLKL--RGEKLELQ----LLEIAQRE-----ETDEFIIGLPKSWDGSETP--- 128 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~--~-~A~Pl~~i~~--~~~~~~~~----L~~li~e~-----~i~~IVVGLPl~~dGt~s~--- 128 (231)
+|||+|..++-+++.|- . .++ ..+.. ......+. +.+++++. ++.+|.||.|=..|...+.
T Consensus 1 lgidig~t~~~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~i~gIgva~pG~vd~~~g~~~~ 78 (318)
T TIGR00744 1 IGVDIGGTTIKLGVVDEEGNILSK--WKVPTDTTPETIVDAIASAVDSFIQHIAKVGHEIVAIGIGAPGPVNRQRGTVYF 78 (318)
T ss_pred CEEEeCCCEEEEEEECCCCCEEEE--EEeCCCCCHHHHHHHHHHHHHHHHHhcCCCccceEEEEEeccccccCCCCEEEe
Confidence 58999999999999992 2 221 12211 12223333 44444433 5778999988433322110
Q ss_pred ----hHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 129 ----QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 129 ----~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
....+ .+.+.|++++ ++||++.+.-.+..-|+..+
T Consensus 79 ~~~~~w~~~-~l~~~l~~~~---~~pv~v~NDa~~~alaE~~~ 117 (318)
T TIGR00744 79 AVNLDWKQE-PLKEKVEARV---GLPVVVENDANAAALGEYKK 117 (318)
T ss_pred cCCCCCCCC-CHHHHHHHHH---CCCEEEechHHHHHHHHHHh
Confidence 01111 3556677664 79999999877766666543
No 21
>PRK05082 N-acetylmannosamine kinase; Provisional
Probab=86.73 E-value=6.3 Score=35.04 Aligned_cols=97 Identities=15% Similarity=0.114 Sum_probs=59.0
Q ss_pred eEEEEecCCCeEEEEEecC--c-eeeeeeeeecc---c-hhHHHHHHHHHHHc--CCCEEEEeecCCCC-CCC---Ch--
Q 026881 64 FSLGVDLGLSRTGLALSKG--F-CVRPLTVLKLR---G-EKLELQLLEIAQRE--ETDEFIIGLPKSWD-GSE---TP-- 128 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~--~-~A~Pl~~i~~~---~-~~~~~~L~~li~e~--~i~~IVVGLPl~~d-Gt~---s~-- 128 (231)
.++|||+|..++-+++.|- . .+ -..++.. + +...+.+.+++.+. ++.+|.||.|=..+ |.. ++
T Consensus 2 ~~lgvdig~~~i~~~l~dl~g~i~~--~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~igi~~pG~vd~~~~~~~~~~~ 79 (291)
T PRK05082 2 TTLAIDIGGTKIAAALVGEDGQIRQ--RRQIPTPASQTPEALRQALSALVSPLQAQADRVAVASTGIINDGILTALNPHN 79 (291)
T ss_pred cEEEEEECCCEEEEEEEcCCCcEEE--EEEecCCCCCCHHHHHHHHHHHHHHhhhcCcEEEEeCcccccCCeeEEecCCC
Confidence 4899999999999999992 2 22 1122211 1 22445666666653 67899999984322 211 10
Q ss_pred --hHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHH
Q 026881 129 --QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (231)
Q Consensus 129 --~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (231)
..+. ..+.+.|+++ +++||++.++-.+...|+..
T Consensus 80 ~~~w~~-~~l~~~l~~~---~~~pv~v~NDa~a~a~aE~~ 115 (291)
T PRK05082 80 LGGLLH-FPLVQTLEQL---TDLPTIALNDAQAAAWAEYQ 115 (291)
T ss_pred CccccC-CChHHHHHHH---hCCCEEEECcHHHHHHHHHH
Confidence 0111 2355667665 48999999987776666643
No 22
>PRK13310 N-acetyl-D-glucosamine kinase; Provisional
Probab=85.42 E-value=5.3 Score=35.72 Aligned_cols=99 Identities=15% Similarity=0.146 Sum_probs=56.4
Q ss_pred eEEEEecCCCeEEEEEecC---ceeeeeeeee-ccchhHHHHHHHHHHHc----C-CCEEEEeecCCCC---CCCCh---
Q 026881 64 FSLGVDLGLSRTGLALSKG---FCVRPLTVLK-LRGEKLELQLLEIAQRE----E-TDEFIIGLPKSWD---GSETP--- 128 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~---~~A~Pl~~i~-~~~~~~~~~L~~li~e~----~-i~~IVVGLPl~~d---Gt~s~--- 128 (231)
+++|||+|..+|-+++.|. +..+-....+ ...+.....|.+++++. . +.+|-||.|=..| |....
T Consensus 1 ~~lgidig~t~i~~~l~d~~g~i~~~~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~~igia~pG~vd~~~g~~~~~~~ 80 (303)
T PRK13310 1 MYYGFDIGGTKIELGVFNEKLELQWEERVPTPRDSYDAFLDAVCELVAEADQRFGCKGSVGIGIPGMPETEDGTLYAANV 80 (303)
T ss_pred CeEEEEeCCCcEEEEEECCCCcEEEEEEecCCCcCHHHHHHHHHHHHHHHHhhcCCcceEEEeCCCcccCCCCEEeccCc
Confidence 4799999999999999993 2221111111 11123445555555432 2 3478898884333 32110
Q ss_pred -hHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHH
Q 026881 129 -QSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (231)
Q Consensus 129 -~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (231)
.... -.+.+.|++++ ++||++.+.-..-..|+..
T Consensus 81 ~~w~~-~~l~~~l~~~~---~~pV~ieNDa~aaalaE~~ 115 (303)
T PRK13310 81 PAASG-KPLRADLSARL---GRDVRLDNDANCFALSEAW 115 (303)
T ss_pred ccccC-CcHHHHHHHHH---CCCeEEeccHhHHHHHHhh
Confidence 0111 14566677664 8999999887766666544
No 23
>PRK13321 pantothenate kinase; Reviewed
Probab=83.51 E-value=18 Score=32.14 Aligned_cols=55 Identities=20% Similarity=0.249 Sum_probs=36.3
Q ss_pred eEEEEecCCCeEEEEEecCceeeeeeeeec---cc-hhHHHHHHHHHHHc-----CCCEEEEee
Q 026881 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKL---RG-EKLELQLLEIAQRE-----ETDEFIIGL 118 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~---~~-~~~~~~L~~li~e~-----~i~~IVVGL 118 (231)
++|+||.|..+|=+|+.|+........++. .+ ......+.++++++ +++.++|+-
T Consensus 1 MiL~IDIGnT~ik~gl~~~~~i~~~~~~~T~~~~~~~~~~~~l~~l~~~~~~~~~~i~~i~vss 64 (256)
T PRK13321 1 MLLLIDVGNTNIKLGVFDGDRLLRSFRLPTDKSRTSDELGILLLSLFRHAGLDPEDIRAVVISS 64 (256)
T ss_pred CEEEEEECCCeEEEEEEECCEEEEEEEEecCCCCCHHHHHHHHHHHHHHcCCChhhCCeEEEEe
Confidence 589999999999999988421111112221 11 23556788888776 489999993
No 24
>PF14239 RRXRR: RRXRR protein
Probab=83.11 E-value=2.8 Score=36.31 Aligned_cols=21 Identities=33% Similarity=0.490 Sum_probs=18.6
Q ss_pred ceEEEEecCCCeEEEEEecCc
Q 026881 63 GFSLGVDLGLSRTGLALSKGF 83 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~ 83 (231)
...||||+|.|.+|+|+.+..
T Consensus 51 pi~lgiDpGsk~tGiav~~~~ 71 (176)
T PF14239_consen 51 PIRLGIDPGSKTTGIAVVSEK 71 (176)
T ss_pred CEEEEECCCCCeEEEEEEeCC
Confidence 468999999999999998854
No 25
>PRK09698 D-allose kinase; Provisional
Probab=82.79 E-value=13 Score=33.26 Aligned_cols=97 Identities=16% Similarity=0.190 Sum_probs=56.5
Q ss_pred ceEEEEecCCCeEEEEEec--C-ceeeeeeeeec---cc----hhHHHHHHHHHHHc--CCCEEEEeecCCCCCCC----
Q 026881 63 GFSLGVDLGLSRTGLALSK--G-FCVRPLTVLKL---RG----EKLELQLLEIAQRE--ETDEFIIGLPKSWDGSE---- 126 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD--~-~~A~Pl~~i~~---~~----~~~~~~L~~li~e~--~i~~IVVGLPl~~dGt~---- 126 (231)
..++|||+|..++-+++.| + ++.+ ..++. .. ..+...+.+++++. ++.+|-||.|=..|...
T Consensus 4 ~~~lgidig~t~i~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~i~gigia~pG~vd~~~g~i~ 81 (302)
T PRK09698 4 NVVLGIDMGGTHIRFCLVDAEGEILHC--EKKRTAEVIAPDLVSGLGEMIDEYLRRFNARCHGIVMGFPALVSKDRRTVI 81 (302)
T ss_pred cEEEEEEcCCcEEEEEEEcCCCCEEEE--EEeCCccccchHHHHHHHHHHHHHHHHcCCCeeEEEEeCCcceeCCCCEEE
Confidence 5799999999999999998 2 2221 11211 11 12234455666654 67899999984332111
Q ss_pred -ChhH----HHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHH
Q 026881 127 -TPQS----NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAV 164 (231)
Q Consensus 127 -s~~~----~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~ 164 (231)
++.. -.-..+.+.|+++ +++||++.+.--....|+
T Consensus 82 ~~~~~~~~~~~~~~l~~~l~~~---~~~pv~v~NDa~aaa~~E 121 (302)
T PRK09698 82 STPNLPLTALDLYDLADKLENT---LNCPVFFSRDVNLQLLWD 121 (302)
T ss_pred ecCCCCccccccCCHHHHHHHH---hCCCEEEcchHhHHHHHH
Confidence 1100 0112355667766 489999988765544444
No 26
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=81.64 E-value=1.4 Score=31.34 Aligned_cols=53 Identities=32% Similarity=0.345 Sum_probs=32.2
Q ss_pred HHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccc----c---------CCCCcHHHHHHHHHH
Q 026881 136 VAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSA----R---------QTKTDAYAAVILLER 192 (231)
Q Consensus 136 Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkk----r---------K~~vD~lAA~IILq~ 192 (231)
|.+.|+....+.|++|+.+||++||..--. -|...+. + ...=|-.||.-|+++
T Consensus 4 ~~~~L~yka~~~G~~v~~v~~~~TSq~C~~----CG~~~~~~~~~r~~~C~~Cg~~~~rD~naA~NI~~r 69 (69)
T PF07282_consen 4 FRQRLEYKAEEYGIQVVEVDEAYTSQTCPR----CGHRNKKRRSGRVFTCPNCGFEMDRDVNAARNILRR 69 (69)
T ss_pred HHHHHHHHHHHhCCEEEEECCCCCccCccC----cccccccccccceEEcCCCCCEECcHHHHHHHHhcC
Confidence 444555444446999999999999875321 1111111 0 134688999888763
No 27
>PRK13311 N-acetyl-D-glucosamine kinase; Provisional
Probab=81.07 E-value=15 Score=32.23 Aligned_cols=98 Identities=15% Similarity=0.148 Sum_probs=58.5
Q ss_pred eEEEEecCCCeEEEEEecC---ceeeeeeeeec---cchhHHHHHHHHHHHc-----CCCEEEEeecC--CCC-CCC---
Q 026881 64 FSLGVDLGLSRTGLALSKG---FCVRPLTVLKL---RGEKLELQLLEIAQRE-----ETDEFIIGLPK--SWD-GSE--- 126 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~---~~A~Pl~~i~~---~~~~~~~~L~~li~e~-----~i~~IVVGLPl--~~d-Gt~--- 126 (231)
+++|+|+|..+|-+++.|. +..+ ..++. ...+..+.+.+++++. .+.+|-||.|= +.+ |..
T Consensus 1 ~~lgidiggt~i~~~l~d~~g~i~~~--~~~~~~~~~~~~~~~~i~~~i~~~~~~~~~~~gIgv~~pG~vd~~~g~i~~~ 78 (256)
T PRK13311 1 MYYGFDMGGTKIELGVFDENLQRIWH--KRVPTPREDYPQLLQILRDLTEEADTYCGVQGSVGIGIPGLPNADDGTVFTA 78 (256)
T ss_pred CEEEEEECCCcEEEEEECCCCCEEEE--EEecCCCcCHHHHHHHHHHHHHHHHhhcCCCceEEEEecCcEECCCCEEEcc
Confidence 4799999999999999982 2221 12211 1123445566665533 23578888884 222 221
Q ss_pred -ChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHH
Q 026881 127 -TPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRM 167 (231)
Q Consensus 127 -s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l 167 (231)
.+.... ..+++.|++++ ++||++-+.-.+...|+..+
T Consensus 79 ~~~~w~~-~~l~~~l~~~~---~~pV~leNDanaaAlaE~~~ 116 (256)
T PRK13311 79 NVPSAMG-QPLQADLSRLI---QREVRIDNDANCFALSEAWD 116 (256)
T ss_pred CCCcccC-CChHHHHHHHH---CCCEEEEchhhHHHHHHHHh
Confidence 011111 35667777764 79999999877776666543
No 28
>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=77.76 E-value=41 Score=28.18 Aligned_cols=84 Identities=13% Similarity=0.166 Sum_probs=48.7
Q ss_pred eEEEEecCCCeEEEEEecCceeeeeeeeecc----c-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHH
Q 026881 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKLR----G-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAG 138 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~----~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~ 138 (231)
.++|||+|.+..|+.+-+..... +..+... + +.....+.++++ ++++.|+|=- ....++. .++..|.+
T Consensus 2 ii~sIDiGikNlA~~iie~~~~~-i~~~~i~~~~~~~~~~~~~~~dl~~-~~~d~VlIEr----Q~~r~~~-~~i~~fI~ 74 (143)
T PF04848_consen 2 IILSIDIGIKNLAYCIIEFEGNK-IRVIDISKVDWSRDWEYRILKDLLK-YEADTVLIER----QPPRNPN-VKIVHFIH 74 (143)
T ss_pred eEEEEecCCCceeEEEEEcCCCe-EEEEEeccCCcccchHHHHHHHHhh-ccCCEEEEec----CCCCCcc-hhHHHHHH
Confidence 58999999999999999842111 2222211 1 111223444554 8999999972 3333443 34445654
Q ss_pred HHHHHhccCCCcEEEecCC
Q 026881 139 RLAVRAAERGWRVYLLDEH 157 (231)
Q Consensus 139 ~L~~~~~~~~lpV~lvDER 157 (231)
.+- ...+..|..+|=.
T Consensus 75 ~~f---~~~~~kv~~v~p~ 90 (143)
T PF04848_consen 75 GYF---YIKNTKVICVSPK 90 (143)
T ss_pred HHh---ccCCceEEEECcc
Confidence 433 2236788888865
No 29
>PHA02942 putative transposase; Provisional
Probab=77.49 E-value=4.6 Score=38.55 Aligned_cols=88 Identities=14% Similarity=0.054 Sum_probs=52.2
Q ss_pred HcCCCEEEEeecCCCCCCCChhHHHHH---------HHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccc--
Q 026881 108 REETDEFIIGLPKSWDGSETPQSNKVR---------SVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSA-- 176 (231)
Q Consensus 108 e~~i~~IVVGLPl~~dGt~s~~~~~v~---------~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkk-- 176 (231)
+++++.|||+...+|........+.+. +|...|+-.....|++|+.||+++||..-- ..|...+.
T Consensus 264 ~~~~~~IviEdL~gm~k~~~~l~k~~~~~~~~~~~~~l~~~LeYKA~~~G~~Vv~V~p~yTSq~Cs----~CG~~~~~l~ 339 (383)
T PHA02942 264 DLGANVIKLEDLKNLIKDVNKLPAEFRDKLYLMQYHRIQYWIEWQAKKHGMIVEFVNPSYSSVSCP----KCGHKMVEIA 339 (383)
T ss_pred hCCCCEEEEccHHHHHhcccccchHHHHHhhhhhHHHHHHHHHHHHHHhCCEEEEECCCCCCccCC----CCCCccCcCC
Confidence 556789999987666433222222222 222344433334699999999999986432 12321111
Q ss_pred -c---------CCCCcHHHHHHHHHHHHcccCC
Q 026881 177 -R---------QTKTDAYAAVILLERYFSMSGQ 199 (231)
Q Consensus 177 -r---------K~~vD~lAA~IILq~yLd~~~~ 199 (231)
+ ...=|-.||.-|+...+.....
T Consensus 340 ~r~f~C~~CG~~~drD~nAA~NI~~rg~~~~~~ 372 (383)
T PHA02942 340 HRYFHCPSCGYENDRDVIAIMNLNGRGSLTLST 372 (383)
T ss_pred CCEEECCCCCCEeCcHHHHHHHHHHHHHHHhcc
Confidence 1 2457889999999887766544
No 30
>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=75.12 E-value=4.6 Score=32.92 Aligned_cols=94 Identities=19% Similarity=0.208 Sum_probs=56.0
Q ss_pred EEecCCCeEEEEEec--C-ceeeeeeeeec--cchhHH----HHHHHHHHHcCCCEEEEeecCCCCCCC-------ChhH
Q 026881 67 GVDLGLSRTGLALSK--G-FCVRPLTVLKL--RGEKLE----LQLLEIAQREETDEFIIGLPKSWDGSE-------TPQS 130 (231)
Q Consensus 67 glD~G~kRIGvAvsD--~-~~A~Pl~~i~~--~~~~~~----~~L~~li~e~~i~~IVVGLPl~~dGt~-------s~~~ 130 (231)
|||.|..++=+++.| + ++.+ ..++. ...... +.+.++..+++..+|-|+.|=..+... ....
T Consensus 1 gidig~~~i~~~l~d~~g~ii~~--~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~gIgi~~pG~v~~~~g~i~~~~~~~~ 78 (179)
T PF00480_consen 1 GIDIGGTSIRIALVDLDGEIIYS--ESIPTPTSPEELLDALAELIERLLADYGRSGIGISVPGIVDSEKGRIISSPNPGW 78 (179)
T ss_dssp EEEEESSEEEEEEEETTSCEEEE--EEEEHHSSHHHHHHHHHHHHHHHHHHHTCEEEEEEESSEEETTTTEEEECSSGTG
T ss_pred CEEECCCEEEEEEECCCCCEEEE--EEEECCCCHHHHHHHHHHHHHHHHhhcccccEEEeccccCcCCCCeEEecCCCCc
Confidence 799999999999999 2 2222 22222 122333 344455555554589999884332221 1222
Q ss_pred HHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHH
Q 026881 131 NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDR 166 (231)
Q Consensus 131 ~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~ 166 (231)
+. ..+.+.|++++ ++||++.+.--....|+..
T Consensus 79 ~~-~~l~~~l~~~~---~~pv~i~Nd~~~~a~ae~~ 110 (179)
T PF00480_consen 79 EN-IPLKEELEERF---GVPVIIENDANAAALAEYW 110 (179)
T ss_dssp TT-CEHHHHHHHHH---TSEEEEEEHHHHHHHHHHH
T ss_pred cc-CCHHHHhhccc---ceEEEEecCCCcceeehhh
Confidence 22 34667788775 7999999986665555544
No 31
>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=74.48 E-value=12 Score=32.91 Aligned_cols=61 Identities=25% Similarity=0.399 Sum_probs=40.7
Q ss_pred HHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe---cCCCcHHHHHHHHHHcCCCc
Q 026881 105 IAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL---DEHRTSAEAVDRMINMGLSK 174 (231)
Q Consensus 105 li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv---DER~TT~eA~~~l~e~G~~r 174 (231)
.+++.++++||+| .++.||+... ...++|.... .++|++|. |+-....+|-+.|.+.|+.+
T Consensus 80 ~~~~~GadG~VfG-~L~~dg~iD~------~~~~~Li~~a--~~~~~tFHRAfD~~~d~~~al~~L~~lG~~r 143 (201)
T PF03932_consen 80 MLRELGADGFVFG-ALTEDGEIDE------EALEELIEAA--GGMPVTFHRAFDEVPDPEEALEQLIELGFDR 143 (201)
T ss_dssp HHHHTT-SEEEE---BETTSSB-H------HHHHHHHHHH--TTSEEEE-GGGGGSSTHHHHHHHHHHHT-SE
T ss_pred HHHHcCCCeeEEE-eECCCCCcCH------HHHHHHHHhc--CCCeEEEeCcHHHhCCHHHHHHHHHhcCCCE
Confidence 4457899999999 6778898763 2333344333 27899884 89888999999999988754
No 32
>cd03409 Chelatase_Class_II Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the cobaltochelatases, CbiK and CbiX. HemH and SirB are involved in heme and siroheme biosynthesis, respectively, while the cobaltochelatases are associated with cobalamin biosynthesis. Excluded from this family are the ATP-dependent heterotrimeric chelatases (class I) and the multifunctional homodimeric enzymes with dehydrogenase and chelatase activities (class III).
Probab=74.05 E-value=21 Score=26.28 Aligned_cols=56 Identities=20% Similarity=0.297 Sum_probs=36.8
Q ss_pred EEEEeecCCCCCCCC--hhHHHHHHHHHHHHHHhccCCCcEEEecC-CCcHHHHHHHHHHcCCC
Q 026881 113 EFIIGLPKSWDGSET--PQSNKVRSVAGRLAVRAAERGWRVYLLDE-HRTSAEAVDRMINMGLS 173 (231)
Q Consensus 113 ~IVVGLPl~~dGt~s--~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE-R~TT~eA~~~l~e~G~~ 173 (231)
.|+|| .|+.. +....++++++.|+++++...+.+.+... .-+..+|-+.+.+.|.+
T Consensus 2 lllv~-----HGs~~~s~~~~~~~~~~~~l~~~~~~~~v~~a~~~~~~P~i~~~l~~l~~~g~~ 60 (101)
T cd03409 2 LLVVG-----HGSPYKDPYKKDIEAQAHNLAESLPDFPYYVGFQSGLGPDTEEAIRELAEEGYQ 60 (101)
T ss_pred EEEEE-----CCCCCCccHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHcCCC
Confidence 46777 66665 55667888888888775422344456665 57777777777776654
No 33
>PRK00292 glk glucokinase; Provisional
Probab=73.81 E-value=16 Score=33.12 Aligned_cols=94 Identities=14% Similarity=0.139 Sum_probs=55.2
Q ss_pred eEEEEecCCCeEEEEEec-Cc-eeeeeeeeeccc-hhHHHHHHHHHHH---cCCCEEEEeecCCCCC-CC----ChhHHH
Q 026881 64 FSLGVDLGLSRTGLALSK-GF-CVRPLTVLKLRG-EKLELQLLEIAQR---EETDEFIIGLPKSWDG-SE----TPQSNK 132 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD-~~-~A~Pl~~i~~~~-~~~~~~L~~li~e---~~i~~IVVGLPl~~dG-t~----s~~~~~ 132 (231)
.+||+|+|..+|=+++.| .. .......++... ....+.+.+++++ .++.+|.||.|=..|. +. ..+.
T Consensus 3 ~~lgiDIGgT~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~gigIg~pG~vd~~~i~~~n~~w~-- 80 (316)
T PRK00292 3 PALVGDIGGTNARFALCDWANGEIEQIKTYATADYPSLEDAIRAYLADEHGVQVRSACFAIAGPVDGDEVRMTNHHWA-- 80 (316)
T ss_pred eEEEEEcCccceEEEEEecCCCceeeeEEEecCCCCCHHHHHHHHHHhccCCCCceEEEEEeCcccCCEEEecCCCcc--
Confidence 589999999999999987 21 111122332222 2345566677764 2588999999843332 11 1111
Q ss_pred HHHHHHHHHHHhccCCCc-EEEecCCCcHHHHH
Q 026881 133 VRSVAGRLAVRAAERGWR-VYLLDEHRTSAEAV 164 (231)
Q Consensus 133 v~~Fa~~L~~~~~~~~lp-V~lvDER~TT~eA~ 164 (231)
...+.|++++ ++| |++.+.--.-.-|+
T Consensus 81 --~~~~~l~~~~---~~p~v~l~ND~~aaalgE 108 (316)
T PRK00292 81 --FSIAAMKQEL---GLDHLLLINDFTAQALAI 108 (316)
T ss_pred --cCHHHHHHHh---CCCeEEEEecHHHHHccc
Confidence 1246677663 786 98888754443333
No 34
>COG1214 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=73.07 E-value=20 Score=31.55 Aligned_cols=91 Identities=22% Similarity=0.112 Sum_probs=58.7
Q ss_pred eEEEEecCCCeEEEEEecC--c--eeeeeeeeec-cchhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHH
Q 026881 64 FSLGVDLGLSRTGLALSKG--F--CVRPLTVLKL-RGEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKV 133 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~--~--~A~Pl~~i~~-~~~~~~~~L~~li~e~-----~i~~IVVGLPl~~dGt~s~~~~~v 133 (231)
.+|+||--++.|++|+.+. . .+.-.....+ .++.+...+.+++.+. +++.|+||. --|+.+.. +--
T Consensus 2 ~iLaiDTs~~~~s~ai~~~~~~~vl~~~~~~~~r~hse~l~~~i~~ll~~~~~~~~dld~iav~~---GPGSFTGl-RIG 77 (220)
T COG1214 2 KILAIDTSTSALSVALYLADDGKVLAEHTEKLKRNHAERLMPMIDELLKEAGLSLQDLDAIAVAK---GPGSFTGL-RIG 77 (220)
T ss_pred cEEEEEcChhhhhhheeecCCCcEEEEEEEeccccHHHHHHHHHHHHHHHcCCCHHHCCEEEEcc---CCCcccch-hhH
Confidence 6999999999999998775 2 2322233322 2233456677777765 688899992 13455433 444
Q ss_pred HHHHHHHHHHhccCCCcEEEecCCCcHHHHHH
Q 026881 134 RSVAGRLAVRAAERGWRVYLLDEHRTSAEAVD 165 (231)
Q Consensus 134 ~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~ 165 (231)
-.||+.|+-. .++|++=+ ||.++-.
T Consensus 78 ~~~AkgLA~~---l~iplvgv----ssL~~~A 102 (220)
T COG1214 78 VAFAKGLALA---LNIPLVGV----SSLEALA 102 (220)
T ss_pred HHHHHHHHHH---cCCCEEEe----CHHHHHH
Confidence 6788888765 38898865 5666543
No 35
>PRK12408 glucokinase; Provisional
Probab=72.47 E-value=7.2 Score=36.06 Aligned_cols=92 Identities=15% Similarity=0.133 Sum_probs=53.5
Q ss_pred CCceEEEEecCCCeEEEEEecC--ce-----eeeeeeeeccc-hhHHHHHHHHHHH-cCCCEEEEeecCC--CCCCCChh
Q 026881 61 RGGFSLGVDLGLSRTGLALSKG--FC-----VRPLTVLKLRG-EKLELQLLEIAQR-EETDEFIIGLPKS--WDGSETPQ 129 (231)
Q Consensus 61 ~~g~iLglD~G~kRIGvAvsD~--~~-----A~Pl~~i~~~~-~~~~~~L~~li~e-~~i~~IVVGLPl~--~dGt~s~~ 129 (231)
++-++||+|.|--+|=+|+.|. .. ..-...++... ..+...+.+++++ ..+..|.||.|=. .+|... .
T Consensus 14 ~~~~~L~~DIGGT~i~~al~d~~g~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~~~igIg~pG~~~~~g~v~-~ 92 (336)
T PRK12408 14 RPESFVAADVGGTHVRVALVCASPDAAKPVELLDYRTYRCADYPSLAAILADFLAECAPVRRGVIASAGYALDDGRVI-T 92 (336)
T ss_pred ccccEEEEEcChhhhheeEEeccCCccccccccceeEecCCCccCHHHHHHHHHhcCCCcCEEEEEecCCceECCEEE-e
Confidence 3456999999999999999873 21 11112222111 2344556666653 4588999999864 244321 0
Q ss_pred HH-HHHHHHHHHHHHhccCCCc-EEEecC
Q 026881 130 SN-KVRSVAGRLAVRAAERGWR-VYLLDE 156 (231)
Q Consensus 130 ~~-~v~~Fa~~L~~~~~~~~lp-V~lvDE 156 (231)
+. .-..+.+.|+++ +++| |++.|.
T Consensus 93 ~nl~w~~~~~~l~~~---~~~~~V~l~ND 118 (336)
T PRK12408 93 ANLPWTLSPEQIRAQ---LGLQAVHLVND 118 (336)
T ss_pred cCCCCccCHHHHHHH---cCCCeEEEeec
Confidence 00 011245667765 4785 888775
No 36
>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=72.38 E-value=41 Score=25.74 Aligned_cols=119 Identities=17% Similarity=0.087 Sum_probs=69.8
Q ss_pred eEEEEec--CCCeEEEEEecCc-eeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHH
Q 026881 64 FSLGVDL--GLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (231)
Q Consensus 64 ~iLglD~--G~kRIGvAvsD~~-~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L 140 (231)
.++||-. ....+|+|.+|-. .-.-+..+. + ..+|...+..++|..||+. ++..+... ...+
T Consensus 2 yl~aI~~~~~~~~~gla~~D~sTGe~~~~~~~--d---~~~L~~~L~~~~P~EIi~~-----~~~~~~~~------~~~~ 65 (137)
T PF05188_consen 2 YLAAIYEKNDEDSYGLAYIDLSTGEFYVTEFE--D---YSELKSELARLSPREIIIP-----EGFSSSDI------SALL 65 (137)
T ss_dssp EEEEEEEETCSSEEEEEEEETTTTEEEEEEEE--C---HHHHHHHHHHH-ESEEEEE-----TTCSHHHH------HHHH
T ss_pred EEEEEEEecCCCEEEEEEEECCCCEEEEEEeC--C---HHHHHHHHHhcCCeEEEEc-----CCCccccc------chhh
Confidence 4677777 7777999999932 111233332 1 5789999999999999999 67665433 1111
Q ss_pred HHHhccCCCcE-EEecCCCcHHHHHHHHHH-cCCCcccc----CCCCcHHHHHHHHHHHHcccCC
Q 026881 141 AVRAAERGWRV-YLLDEHRTSAEAVDRMIN-MGLSKSAR----QTKTDAYAAVILLERYFSMSGQ 199 (231)
Q Consensus 141 ~~~~~~~~lpV-~lvDER~TT~eA~~~l~e-~G~~rkkr----K~~vD~lAA~IILq~yLd~~~~ 199 (231)
.. .......+ ...+..+.+..|.+.+.+ .+...-+. +..-..++|.-.|=.|+.....
T Consensus 66 ~~-~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~Al~all~Yl~~t~~ 129 (137)
T PF05188_consen 66 SS-LKNSFFKVTETPSWYFDSEFASEDIEEQFGVADLDGFGLEEDKELALSALGALLKYLEETQK 129 (137)
T ss_dssp HC-CTTTCCEEEEETCGGGSHHHHHHHHHHHCTSSSTCCCTTGGGGHHHHHHHHHHHHHHHHTTT
T ss_pred hh-hccccceeeecchhhhhhHHHHHHHHHhhccccccccCccCCCHHHHHHHHHHHHHHHHHCc
Confidence 11 11112233 344566677777666654 22111111 2345678888888899987644
No 37
>PRK14101 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional
Probab=71.95 E-value=11 Score=37.78 Aligned_cols=66 Identities=18% Similarity=0.189 Sum_probs=43.1
Q ss_pred CCCCceEEEEecCCCeEEEEEecCc-eeeeeeeeeccc-hhHHHHHHHHHHHc---CCCEEEEeecCCCCC
Q 026881 59 LWRGGFSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRG-EKLELQLLEIAQRE---ETDEFIIGLPKSWDG 124 (231)
Q Consensus 59 ~~~~g~iLglD~G~kRIGvAvsD~~-~A~Pl~~i~~~~-~~~~~~L~~li~e~---~i~~IVVGLPl~~dG 124 (231)
+-..+++||+|+|.-+|=+|+.|.. .......++... ..+...+.+++++. .+.+|.||.|=..|+
T Consensus 14 ~~~~~~~L~iDIGGT~ir~al~~~~g~i~~~~~~~t~~~~~~~~~i~~~l~~~~~~~~~~igig~pGpVd~ 84 (638)
T PRK14101 14 QHADGPRLLADVGGTNARFALETGPGEITQIRVYPGADYPTLTDAIRKYLKDVKIGRVNHAAIAIANPVDG 84 (638)
T ss_pred cCCCCCEEEEEcCchhheeeeecCCCcccceeEEecCCCCCHHHHHHHHHHhcCCCCcceEEEEEecCccC
Confidence 4456889999999999999998732 111123333222 33556677777654 488999999965554
No 38
>PRK13318 pantothenate kinase; Reviewed
Probab=71.50 E-value=22 Score=31.49 Aligned_cols=55 Identities=18% Similarity=0.184 Sum_probs=35.2
Q ss_pred eEEEEecCCCeEEEEEecCceeeeeeeeec---cc-hhHHHHHHHHHHHcC-----CCEEEEee
Q 026881 64 FSLGVDLGLSRTGLALSKGFCVRPLTVLKL---RG-EKLELQLLEIAQREE-----TDEFIIGL 118 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~---~~-~~~~~~L~~li~e~~-----i~~IVVGL 118 (231)
++|+||.|..+|=+|+.|.-.......++. .+ ......+.++++.++ ++.|+||.
T Consensus 1 MiL~IDIGnT~iK~al~d~g~i~~~~~~~t~~~~~~~~~~~~l~~l~~~~~~~~~~i~~I~iss 64 (258)
T PRK13318 1 MLLAIDVGNTNTVFGLYEGGKLVAHWRISTDSRRTADEYGVWLKQLLGLSGLDPEDITGIIISS 64 (258)
T ss_pred CEEEEEECCCcEEEEEEECCEEEEEEEEeCCCCCCHHHHHHHHHHHHHHcCCCcccCceEEEEE
Confidence 489999999999999998421111122221 11 234456777777654 78999995
No 39
>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=71.19 E-value=44 Score=28.56 Aligned_cols=89 Identities=21% Similarity=0.120 Sum_probs=56.9
Q ss_pred EEEEecCCCeEEEEEecCc--eeeeeeeee-ccchhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHHHHH
Q 026881 65 SLGVDLGLSRTGLALSKGF--CVRPLTVLK-LRGEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSV 136 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~~--~A~Pl~~i~-~~~~~~~~~L~~li~e~-----~i~~IVVGLPl~~dGt~s~~~~~v~~F 136 (231)
+|+||--+..++||+.+.. .+.-..... ...+.+...+.+++++. +++.|+||. --|+.+. .+-.-.+
T Consensus 1 iLaidTs~~~~sval~~~~~~~~~~~~~~~~~h~~~l~~~i~~~l~~~~~~~~~i~~iav~~---GPGSfTG-lRig~~~ 76 (202)
T TIGR03725 1 ILAIDTSTEALSVALLDDGEILAERSEEAGRNHSEILLPMIEELLAEAGLSLQDLDAIAVGV---GPGSFTG-LRIGLAT 76 (202)
T ss_pred CEEEECCCcceEEEEEECCEEEEEEeehhhHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEec---CCChHHh-HHHHHHH
Confidence 5899999999999998742 221111111 12234556777777754 688888882 1355554 4566788
Q ss_pred HHHHHHHhccCCCcEEEecCCCcHHHHH
Q 026881 137 AGRLAVRAAERGWRVYLLDEHRTSAEAV 164 (231)
Q Consensus 137 a~~L~~~~~~~~lpV~lvDER~TT~eA~ 164 (231)
++.|+.. .++|++-+ ||.+|-
T Consensus 77 akgla~~---~~~p~~~v----ssL~~l 97 (202)
T TIGR03725 77 AKGLALA---LGIPLVGV----SSLEAL 97 (202)
T ss_pred HHHHHHH---hCCCEEec----CHHHHH
Confidence 8888865 38898865 455554
No 40
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=69.24 E-value=15 Score=33.36 Aligned_cols=49 Identities=27% Similarity=0.345 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
...++.+.+.+.+.|.|.|| ||.+-....++++.++++.+ +++||++.-
T Consensus 29 ~~~ei~~~~~~~GTDaImIG------GS~gvt~~~~~~~v~~ik~~---~~lPvilfP 77 (240)
T COG1646 29 EADEIAEAAAEAGTDAIMIG------GSDGVTEENVDNVVEAIKER---TDLPVILFP 77 (240)
T ss_pred ccHHHHHHHHHcCCCEEEEC------CcccccHHHHHHHHHHHHhh---cCCCEEEec
Confidence 44678888888999999999 88887778899999999865 589988763
No 41
>COG4012 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.08 E-value=31 Score=32.37 Aligned_cols=117 Identities=25% Similarity=0.287 Sum_probs=73.7
Q ss_pred eEEEEecCCCeEEEEEecCc-eeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 026881 64 FSLGVDLGLSRTGLALSKGF-CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~-~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~ 142 (231)
.||++|+|.-..-+-.-|+. -.|+..+.+.+...+..+|+.+.+ +.+..+++|-|. .|..+ + ++|-+.|++
T Consensus 2 kila~DvG~GTqDi~~~d~~~EnSl~mVmPspt~~~A~R~R~~~~-~g~~l~l~G~~M--GGGp~--t---ravrrhlk~ 73 (342)
T COG4012 2 KILAIDVGVGTQDIVAYDGDPENSLRMVMPSPTSTLAQRLRFMLR-EGPYLALIGVPM--GGGPT--T---RAVRRHLKK 73 (342)
T ss_pred ceEEEEecCCceeEEEecCCcccceeEeecCchHHHHHHHHHHhc-cCCcEEEEeeec--CCChh--h---HHHHHHHhc
Confidence 58999999998888888863 456667776655556677777665 456889999664 56544 2 334445552
Q ss_pred HhccCCCcEEEe-cCCCcHHHHHHHHHHcCCCcc--ccC------------CCCcHHHHHHHHHHH
Q 026881 143 RAAERGWRVYLL-DEHRTSAEAVDRMINMGLSKS--ARQ------------TKTDAYAAVILLERY 193 (231)
Q Consensus 143 ~~~~~~lpV~lv-DER~TT~eA~~~l~e~G~~rk--krK------------~~vD~lAA~IILq~y 193 (231)
+.+||-- |-.+|-..--+++.++|+--. .++ ..+|.-|-..-||+|
T Consensus 74 -----G~rVyatedAAlT~hddleRv~emgi~i~eE~pg~av~~~~~evet~Dfd~~avs~aL~~f 134 (342)
T COG4012 74 -----GTRVYATEDAALTLHDDLERVEEMGILIIEEDPGLAVPPDSPEVETYDFDVSAVSEALQRF 134 (342)
T ss_pred -----CCeeEechhhhhhhhcCHHHHHhhCeEEeccCccccCCCCCceeEEeecCHHHHHHHHHhc
Confidence 7788743 344555445566777775222 011 345666666666665
No 42
>PRK09982 universal stress protein UspD; Provisional
Probab=68.58 E-value=20 Score=28.38 Aligned_cols=48 Identities=17% Similarity=0.239 Sum_probs=32.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
...+.|.++++++++|.||+| .+ .+...+.. ..++++-.. ..+||..+
T Consensus 90 ~p~~~I~~~A~~~~aDLIVmG-----~~-~~~~~~~~-~va~~V~~~---s~~pVLvv 137 (142)
T PRK09982 90 EMPETLLEIMQKEQCDLLVCG-----HH-HSFINRLM-PAYRGMINK---MSADLLIV 137 (142)
T ss_pred CHHHHHHHHHHHcCCCEEEEe-----CC-hhHHHHHH-HHHHHHHhc---CCCCEEEe
Confidence 355788899999999999999 44 33333333 255555544 47888765
No 43
>cd03416 CbiX_SirB_N Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both are found in a wide range of bacteria. This subgroup also contains single domain proteins from archaea and bacteria which may represent the ancestral form of class II chelatases before domain duplication occurred.
Probab=67.89 E-value=34 Score=25.56 Aligned_cols=57 Identities=25% Similarity=0.427 Sum_probs=40.2
Q ss_pred EEEEeecCCCCCCCCh-hHHHHHHHHHHHHHHhccCCCcEEEecC-CCcHHHHHHHHHHcCCCc
Q 026881 113 EFIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLLDE-HRTSAEAVDRMINMGLSK 174 (231)
Q Consensus 113 ~IVVGLPl~~dGt~s~-~~~~v~~Fa~~L~~~~~~~~lpV~lvDE-R~TT~eA~~~l~e~G~~r 174 (231)
.|+|| .|+.++ ....+..++++|+++.+...+.+-+.+. .-+-.+|-+.+.+.|.++
T Consensus 2 ivlv~-----hGS~~~~~~~~~~~l~~~l~~~~~~~~v~~afle~~~p~~~~~l~~l~~~g~~~ 60 (101)
T cd03416 2 LLLVG-----HGSRDPRAAEALEALAERLRERLPGDEVELAFLELAEPSLAEALDELAAQGATR 60 (101)
T ss_pred EEEEE-----cCCCCHHHHHHHHHHHHHHHhhCCCCcEEEEEEEcCCCCHHHHHHHHHHcCCCE
Confidence 47788 898886 4457888999998875423455566766 677788888888777543
No 44
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=66.87 E-value=28 Score=31.69 Aligned_cols=84 Identities=13% Similarity=0.191 Sum_probs=53.0
Q ss_pred HHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEE---ecCCCcHHHHHHHHHHcCCCccccC-C
Q 026881 104 EIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL---LDEHRTSAEAVDRMINMGLSKSARQ-T 179 (231)
Q Consensus 104 ~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~l---vDER~TT~eA~~~l~e~G~~rkkrK-~ 179 (231)
+.+++.++++||+| -++.+|+... ...++|-+.. .+++++| +|+--...+|-+.+.+.|+.+-.-. .
T Consensus 80 ~~~~~~GadGvV~G-~L~~dg~vD~------~~~~~Li~~a--~~~~vTFHRAfD~~~d~~~al~~l~~lG~~rILTSGg 150 (248)
T PRK11572 80 ATVRELGFPGLVTG-VLDVDGHVDM------PRMRKIMAAA--GPLAVTFHRAFDMCANPLNALKQLADLGVARILTSGQ 150 (248)
T ss_pred HHHHHcCCCEEEEe-eECCCCCcCH------HHHHHHHHHh--cCCceEEechhhccCCHHHHHHHHHHcCCCEEECCCC
Confidence 34557899999999 5777888773 2223333333 3789987 5887788899999999887543211 1
Q ss_pred CCcHHHHHHHHHHHHcc
Q 026881 180 KTDAYAAVILLERYFSM 196 (231)
Q Consensus 180 ~vD~lAA~IILq~yLd~ 196 (231)
.-......-.|..+.+.
T Consensus 151 ~~~a~~g~~~L~~lv~~ 167 (248)
T PRK11572 151 QQDAEQGLSLIMELIAA 167 (248)
T ss_pred CCCHHHHHHHHHHHHHh
Confidence 22244444455555443
No 45
>PRK13320 pantothenate kinase; Reviewed
Probab=61.25 E-value=48 Score=29.54 Aligned_cols=53 Identities=23% Similarity=0.286 Sum_probs=34.8
Q ss_pred ceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHHc-CCCEEEEe
Q 026881 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQRE-ETDEFIIG 117 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e~-~i~~IVVG 117 (231)
.++|.||.|..+|=+|+.+.........+. ..++...+.++++.+ +++.++|.
T Consensus 2 ~M~L~iDiGNT~ik~~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~i~~i~vs 55 (244)
T PRK13320 2 SMNLVIDIGNTTTKLAVFEGDELLEVFVVS--TEGVEESLEKLLAKYPAIRDAIVS 55 (244)
T ss_pred ceEEEEEeCCCcEEEEEEECCEEEEEEEEc--cHHHHHHHHHHHHHCCCCCEEEEE
Confidence 479999999999999998853211112221 233445566666665 58888887
No 46
>cd03412 CbiK_N Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), N-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=59.14 E-value=36 Score=27.23 Aligned_cols=49 Identities=12% Similarity=0.247 Sum_probs=32.8
Q ss_pred EEEEeecCCCCCCCChhH-HHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcC
Q 026881 113 EFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMG 171 (231)
Q Consensus 113 ~IVVGLPl~~dGt~s~~~-~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G 171 (231)
.+++| -||..+.+ +.+..+++.++++++ +.+|.+ -|||...++.+.+.|
T Consensus 3 illv~-----fGS~~~~~~~~~~~i~~~l~~~~p--~~~V~~---afts~~i~~~l~~~~ 52 (127)
T cd03412 3 ILLVS-----FGTSYPTAEKTIDAIEDKVRAAFP--DYEVRW---AFTSRMIRKKLKKRG 52 (127)
T ss_pred EEEEe-----CCCCCHHHHHHHHHHHHHHHHHCC--CCeEEE---EecHHHHHHHHHhcC
Confidence 47888 78887744 468888999988765 445543 466666666655544
No 47
>PRK00923 sirohydrochlorin cobaltochelatase; Reviewed
Probab=58.11 E-value=54 Score=25.64 Aligned_cols=57 Identities=21% Similarity=0.346 Sum_probs=38.2
Q ss_pred CEEEEeecCCCCCCCChhH-HHHHHHHHHHHHHhccCCCcEEEec-CCCcHHHHHHHHHHcCCC
Q 026881 112 DEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLLD-EHRTSAEAVDRMINMGLS 173 (231)
Q Consensus 112 ~~IVVGLPl~~dGt~s~~~-~~v~~Fa~~L~~~~~~~~lpV~lvD-ER~TT~eA~~~l~e~G~~ 173 (231)
..|+|| .||..+.+ ..+.+|++.++++.+...+.+-|.+ ..-|-.++-+.+...|.+
T Consensus 3 ~lvlv~-----hGS~~~~~~~~~~~~~~~l~~~~~~~~v~~afle~~~P~l~~~l~~l~~~g~~ 61 (126)
T PRK00923 3 GLLLVG-----HGSRLPYNKEVVTKIAEKIKEKHPFYIVEVGFMEFNEPTIPEALKKLIGTGAD 61 (126)
T ss_pred EEEEEe-----CCCCChHHHHHHHHHHHHHHHhCCCCeEEEEEEEcCCCCHHHHHHHHHHcCCC
Confidence 358889 89887655 6788889988876431123344555 446667777777777754
No 48
>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=57.57 E-value=43 Score=29.44 Aligned_cols=46 Identities=17% Similarity=0.245 Sum_probs=35.3
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
.++.+.+.+.+.|.|.|| |+.+-....+.+..+.+++. +++||++.
T Consensus 14 ~~ia~~v~~~gtDaI~VG------GS~gvt~~~~~~~v~~ik~~---~~lPvilf 59 (205)
T TIGR01769 14 EKIAKNAKDAGTDAIMVG------GSLGIVESNLDQTVKKIKKI---TNLPVILF 59 (205)
T ss_pred HHHHHHHHhcCCCEEEEc------CcCCCCHHHHHHHHHHHHhh---cCCCEEEE
Confidence 345556778899999999 77666667788888888875 47999874
No 49
>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=56.53 E-value=8.1 Score=40.41 Aligned_cols=18 Identities=33% Similarity=0.829 Sum_probs=17.2
Q ss_pred eEEEEecCCCeEEEEEec
Q 026881 64 FSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD 81 (231)
.+||||.|+.-||.||.|
T Consensus 2 y~LGLDiGt~SvGWAVv~ 19 (805)
T TIGR01865 2 YILGLDIGIASVGWAIVE 19 (805)
T ss_pred ceeEEeecccceeEEEEe
Confidence 589999999999999998
No 50
>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=56.23 E-value=41 Score=24.55 Aligned_cols=52 Identities=21% Similarity=0.242 Sum_probs=32.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
......|.+++++.+++.||+|-.-.. +... ...-.++++|... ..+||..+
T Consensus 88 ~~~~~~i~~~~~~~~~dliv~G~~~~~-~~~~---~~~gs~~~~l~~~---~~~pVlvv 139 (140)
T PF00582_consen 88 GDVADAIIEFAEEHNADLIVMGSRGRS-GLER---LLFGSVAEKLLRH---APCPVLVV 139 (140)
T ss_dssp SSHHHHHHHHHHHTTCSEEEEESSSTT-STTT---SSSHHHHHHHHHH---TSSEEEEE
T ss_pred eccchhhhhccccccceeEEEeccCCC-CccC---CCcCCHHHHHHHc---CCCCEEEe
Confidence 345678999999999999999954411 1111 1123345556555 36788764
No 51
>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=55.68 E-value=1e+02 Score=28.41 Aligned_cols=85 Identities=15% Similarity=0.092 Sum_probs=51.5
Q ss_pred EEEEecCCCeEEEEEecC---ceeeeee-----------eee-----ccchhHHHHHHHHHHH-----cCCCEEEEeecC
Q 026881 65 SLGVDLGLSRTGLALSKG---FCVRPLT-----------VLK-----LRGEKLELQLLEIAQR-----EETDEFIIGLPK 120 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~---~~A~Pl~-----------~i~-----~~~~~~~~~L~~li~e-----~~i~~IVVGLPl 120 (231)
|||||-=+..+++|+.|. +++.-.. +.+ ...+.+...+.+++++ .+++.|.|+.
T Consensus 1 iLaIdTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~-- 78 (314)
T TIGR03723 1 ILGIETSCDETAVAIVDDGKGLLSNIVASQIELHARYGGVVPELASRAHLEAIPPLIEEALAEAGLTLSDIDAIAVTA-- 78 (314)
T ss_pred CEEEECcccceEEEEEECCceEEEEEEeehhhhccCcCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEec--
Confidence 689999999999999973 2221010 000 0122344566666665 3689999882
Q ss_pred CCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 121 SWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 121 ~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
--|+.+. .+-...+|+.|... .++|++.++-
T Consensus 79 -GPGsftg-lrig~~~Ak~la~~---~~~p~~~v~h 109 (314)
T TIGR03723 79 -GPGLIGA-LLVGVSFAKALALA---LNKPLIGVNH 109 (314)
T ss_pred -CCChHHh-HHHHHHHHHHHHHH---hCCCEEeccc
Confidence 1233322 24456788888765 3899998854
No 52
>PRK10116 universal stress protein UspC; Provisional
Probab=55.54 E-value=62 Score=24.91 Aligned_cols=49 Identities=22% Similarity=0.252 Sum_probs=31.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
.....|.+.++++++|.||+|-. ..+...... ..++++-.. .++||..+
T Consensus 89 ~~~~~I~~~a~~~~~DLiV~g~~-----~~~~~~~~~-s~a~~v~~~---~~~pVLvv 137 (142)
T PRK10116 89 ELSEHILEVCRKHHFDLVICGNH-----NHSFFSRAS-CSAKRVIAS---SEVDVLLV 137 (142)
T ss_pred CHHHHHHHHHHHhCCCEEEEcCC-----cchHHHHHH-HHHHHHHhc---CCCCEEEE
Confidence 34578889999999999999932 222222222 335555544 47888776
No 53
>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=55.08 E-value=21 Score=34.01 Aligned_cols=95 Identities=18% Similarity=0.107 Sum_probs=53.5
Q ss_pred EEecCCCeEEEEEecC-ceeeeeeeeeccc-hhHHHHHHHHHHHc-CCCEEEE----eecCCCCCCCCh-----------
Q 026881 67 GVDLGLSRTGLALSKG-FCVRPLTVLKLRG-EKLELQLLEIAQRE-ETDEFII----GLPKSWDGSETP----------- 128 (231)
Q Consensus 67 glD~G~kRIGvAvsD~-~~A~Pl~~i~~~~-~~~~~~L~~li~e~-~i~~IVV----GLPl~~dGt~s~----------- 128 (231)
|||+||+-+-+++.|. -...-...+++.. .+.-..|.+.++++ ++|.|+. |+|+..-...++
T Consensus 1 GIDpGT~s~dv~~~dd~g~v~~~~~ipt~~v~~~p~~iv~~l~~~~~~dlIa~psGyG~pl~~~~ei~d~e~~l~tl~~~ 80 (343)
T PF07318_consen 1 GIDPGTKSFDVCGLDDDGKVIFYFSIPTEEVAKNPSIIVEELEEFGDIDLIAGPSGYGLPLKRIREITDREIFLLTLIEE 80 (343)
T ss_pred CCCCCCCcEEEEEEccCCcEEEEeeccHHHhhhCHHHHHHHHHhccCCCEEEeCCcCCcccccccccchhhhhceEeecc
Confidence 6999999999999885 2111223333211 12234577788887 9999986 677653321111
Q ss_pred -hHH----HHHHHHHHHHHHhccCCCcEEEec--CCCcHHHHHH
Q 026881 129 -QSN----KVRSVAGRLAVRAAERGWRVYLLD--EHRTSAEAVD 165 (231)
Q Consensus 129 -~~~----~v~~Fa~~L~~~~~~~~lpV~lvD--ER~TT~eA~~ 165 (231)
... -.+++...|+. .++|++++- =++.|+-+.+
T Consensus 81 ~~~g~~~~Glr~~~~~l~~----~~l~~~~iPgVi~LptVP~~R 120 (343)
T PF07318_consen 81 SEVGRRIGGLRKLVRELAE----SNLPAYFIPGVIHLPTVPAWR 120 (343)
T ss_pred cccccccccHHHHHHHHHh----CCCCEEEeCceeccCCCchHh
Confidence 001 14556666643 367776654 3566665543
No 54
>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=54.27 E-value=34 Score=26.56 Aligned_cols=21 Identities=10% Similarity=0.343 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEe
Q 026881 97 KLELQLLEIAQREETDEFIIG 117 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVG 117 (231)
...+.|.++.++++++.||||
T Consensus 90 ~~~~~I~~~a~~~~~dlIV~G 110 (146)
T cd01989 90 DVAKAIVEYVADHGITKLVMG 110 (146)
T ss_pred cHHHHHHHHHHHcCCCEEEEe
Confidence 455778999999999999999
No 55
>PRK09472 ftsA cell division protein FtsA; Reviewed
Probab=54.16 E-value=67 Score=30.62 Aligned_cols=57 Identities=11% Similarity=0.191 Sum_probs=36.4
Q ss_pred ceEEEEecCCCeEEEEEec----C-ceeeeeeeeecc---------chhHHHHHHHHHHH------cCCCEEEEeec
Q 026881 63 GFSLGVDLGLSRTGLALSK----G-FCVRPLTVLKLR---------GEKLELQLLEIAQR------EETDEFIIGLP 119 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD----~-~~A~Pl~~i~~~---------~~~~~~~L~~li~e------~~i~~IVVGLP 119 (231)
..+.|||.|+.+|=+.+++ + +........+.. -+.....|++.+++ .++..+++|.|
T Consensus 8 ~~i~~lDIGsskv~~vv~~~~~~~~~~i~g~~~~~s~gi~~G~I~d~~~~~~aI~~av~~ae~~~g~~i~~v~v~i~ 84 (420)
T PRK09472 8 KLVVGLEIGTAKVAALVGEVLPDGMVNIIGVGSCPSRGMDKGGVNDLESVVKCVQRAIDQAELMADCQISSVYLALS 84 (420)
T ss_pred CEEEEEEcccceEEEEEEEEcCCCCEEEEEEEEccCCCccCCEEEcHHHHHHHHHHHHHHHHHHhCCcccEEEEEec
Confidence 4689999999999887765 2 222222222211 12344567776664 57999999988
No 56
>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=54.14 E-value=31 Score=25.86 Aligned_cols=23 Identities=22% Similarity=0.407 Sum_probs=19.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec
Q 026881 97 KLELQLLEIAQREETDEFIIGLP 119 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLP 119 (231)
.....|.+++++++++.||+|..
T Consensus 81 ~~~~~I~~~a~~~~~dlIV~G~~ 103 (132)
T cd01988 81 DIASGILRTAKERQADLIIMGWH 103 (132)
T ss_pred CHHHHHHHHHHhcCCCEEEEecC
Confidence 35678999999999999999954
No 57
>KOG0237 consensus Glycinamide ribonucleotide synthetase (GARS)/Aminoimidazole ribonucleotide synthetase (AIRS) [Nucleotide transport and metabolism]
Probab=52.20 E-value=35 Score=35.24 Aligned_cols=74 Identities=11% Similarity=0.060 Sum_probs=50.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEe--ecCCC---------------CCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCC
Q 026881 96 EKLELQLLEIAQREETDEFIIG--LPKSW---------------DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHR 158 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVG--LPl~~---------------dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~ 158 (231)
..++.+|.+++++++|..+|+| +|+-. -+....|.+.-++|++.+..+ +++|---++---
T Consensus 54 ~~d~~ala~f~~e~~I~lVvvGPE~PL~~Gl~~~l~~~gi~~FGPs~~aAqlE~sK~fsK~fm~r---~~IPTA~y~~ft 130 (788)
T KOG0237|consen 54 VADFEALASFCKEHNINLVVVGPELPLVAGLADVLRSAGIPCFGPSKQAAQLEASKNFSKDFMHR---HNIPTAKYKTFT 130 (788)
T ss_pred hhhHHHHHHHHHHcceeEEEECCchhhhhhhhhhhhccCcceeCchHHHHHhhhhHHHHHHHHHh---cCCCcceeeeeC
Confidence 3467899999999999999998 23321 122334555567888888876 689965554333
Q ss_pred cHHHHHHHHHHcCC
Q 026881 159 TSAEAVDRMINMGL 172 (231)
Q Consensus 159 TT~eA~~~l~e~G~ 172 (231)
-+.+|+..+.+..+
T Consensus 131 ~~e~a~sfi~~~~~ 144 (788)
T KOG0237|consen 131 DPEEAKSFIQSATD 144 (788)
T ss_pred CHHHHHHHHHhCCC
Confidence 34778888877654
No 58
>COG0418 PyrC Dihydroorotase [Nucleotide transport and metabolism]
Probab=52.11 E-value=21 Score=33.94 Aligned_cols=63 Identities=29% Similarity=0.325 Sum_probs=40.6
Q ss_pred EeecCCCCCCCChhH--------HHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHH
Q 026881 116 IGLPKSWDGSETPQS--------NKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAV 187 (231)
Q Consensus 116 VGLPl~~dGt~s~~~--------~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~ 187 (231)
+|+|+...|...... +-+...-+.|.++|| .+.|++ |+.||+.|-+..++.+-. +||.
T Consensus 130 ~gmpLlvHGEvt~~~vDifdrE~~Fi~~vl~pl~~~fP--~LKIV~--EHiTT~dav~~v~~~~~n----------laAT 195 (344)
T COG0418 130 IGMPLLVHGEVTDAEVDIFDREAAFIESVLEPLRQRFP--KLKIVL--EHITTKDAVEYVKDANNN----------LAAT 195 (344)
T ss_pred cCCeEEEecccCCccccchhhHHHHHHHHHHHHHhhCC--cceEEE--EEeccHHHHHHHHhcCcc----------eeeE
Confidence 577776667654432 333334456777776 677766 999999999988775421 6666
Q ss_pred HHHHH
Q 026881 188 ILLER 192 (231)
Q Consensus 188 IILq~ 192 (231)
|=.+-
T Consensus 196 IT~hH 200 (344)
T COG0418 196 ITPHH 200 (344)
T ss_pred eehhh
Confidence 65553
No 59
>PF14331 ImcF-related_N: ImcF-related N-terminal domain
Probab=51.30 E-value=56 Score=29.37 Aligned_cols=57 Identities=14% Similarity=0.200 Sum_probs=37.8
Q ss_pred hHHHHHHHHHHHc----CCCEEEEeecCC--CCCCC-----ChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 97 KLELQLLEIAQRE----ETDEFIIGLPKS--WDGSE-----TPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 97 ~~~~~L~~li~e~----~i~~IVVGLPl~--~dGt~-----s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
..|..+.++++++ .+++|||=++.. ++++. ...++.+++-.+.|...+. ..+|||++
T Consensus 8 ~~W~~~L~lL~~~R~r~PlnGvil~vs~~~Ll~~~~~~r~l~~~a~~lR~rL~el~~~lg-~~~PVYvv 75 (266)
T PF14331_consen 8 AEWQAFLDLLRRHRPRQPLNGVILTVSVDDLLNADEAERELEALARALRQRLEELQRTLG-VRLPVYVV 75 (266)
T ss_pred HHHHHHHHHHHhcCCCCCCCEEEEEEEHHHHhcCChhhhHHHHHHHHHHHHHHHHHHHhC-CCCCeEee
Confidence 4567777777755 579999999963 23433 3345666666666666654 57899876
No 60
>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=49.15 E-value=1.3e+02 Score=25.62 Aligned_cols=78 Identities=24% Similarity=0.270 Sum_probs=44.9
Q ss_pred EEEEecCCCeEEEEEecCce-eeeeeee-----eccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHH
Q 026881 65 SLGVDLGLSRTGLALSKGFC-VRPLTVL-----KLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVA 137 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~~~-A~Pl~~i-----~~~~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa 137 (231)
+|.||.|..+|=+|+.++.. ..+...+ .... ..+...+..++...+.+.+++. +..+ .....+.
T Consensus 1 ~L~iDiGNT~ik~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~is-------SV~~--~~~~~~~ 71 (206)
T PF03309_consen 1 ILLIDIGNTRIKWALFDGDKLIDPSGRISHSTALDSSSDELLELLESLLPQPKIDAVIIS-------SVVP--EATEQLL 71 (206)
T ss_dssp EEEEEE-SSEEEEEEEETTEEEE-EEEE-EEECTTSSHHHHHHHHHHHHHCTTCGEEEEE-------ESSG--HHHHHHH
T ss_pred CEEEEECCCeEEEEEEECCEEEeeeeEEEecccccccHHHHHHHHHHHhccccCCcEEEE-------EcCC--HHHHHHH
Confidence 68999999999999998542 2212222 1111 2345678888888888888887 1222 2334455
Q ss_pred HHHHHHhccCCCcEEEec
Q 026881 138 GRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 138 ~~L~~~~~~~~lpV~lvD 155 (231)
+.+.+.+ + +++++.
T Consensus 72 ~~~~~~~---~-~~~~~~ 85 (206)
T PF03309_consen 72 EALLKRF---G-RPHFVK 85 (206)
T ss_dssp HHHHHHC---S---EEES
T ss_pred HHHHHHh---C-CCEEEE
Confidence 5555542 5 666665
No 61
>COG3142 CutC Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]
Probab=48.68 E-value=1.9e+02 Score=26.44 Aligned_cols=88 Identities=22% Similarity=0.303 Sum_probs=63.1
Q ss_pred HHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe---cCCCcHHHHHHHHHHcCCCccc-cCCC
Q 026881 105 IAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL---DEHRTSAEAVDRMINMGLSKSA-RQTK 180 (231)
Q Consensus 105 li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv---DER~TT~eA~~~l~e~G~~rkk-rK~~ 180 (231)
.+++.++++||+|. ++.||+... .. .++|-... .+++|+|. ||--.-.+|-+.+.+.|+.|-. .-..
T Consensus 81 ~~~~lG~~GVV~G~-lt~dg~iD~--~~----le~Li~aA--~gL~vTFHrAFD~~~d~~~ale~li~~Gv~RILTsGg~ 151 (241)
T COG3142 81 LARELGVQGVVLGA-LTADGNIDM--PR----LEKLIEAA--GGLGVTFHRAFDECPDPLEALEQLIELGVERILTSGGK 151 (241)
T ss_pred HHHHcCCCcEEEee-ecCCCccCH--HH----HHHHHHHc--cCCceeeehhhhhcCCHHHHHHHHHHCCCcEEecCCCc
Confidence 45678999999994 677888762 22 23344332 38899874 8988899999999999986543 2244
Q ss_pred CcHHHHHHHHHHHHcccCCCC
Q 026881 181 TDAYAAVILLERYFSMSGQGT 201 (231)
Q Consensus 181 vD~lAA~IILq~yLd~~~~~~ 201 (231)
.+++=..-.|.+|++..+.+.
T Consensus 152 ~sa~eg~~~l~~li~~a~gri 172 (241)
T COG3142 152 ASALEGLDLLKRLIEQAKGRI 172 (241)
T ss_pred CchhhhHHHHHHHHHHhcCCE
Confidence 677777788889998876543
No 62
>PLN03184 chloroplast Hsp70; Provisional
Probab=47.77 E-value=19 Score=36.75 Aligned_cols=33 Identities=27% Similarity=0.401 Sum_probs=23.0
Q ss_pred ccccc-cccCCCC-CCceEEEEecCCCeEEEEEec
Q 026881 49 PNATR-RKKDSLW-RGGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 49 ~~~~r-~~~~~~~-~~g~iLglD~G~kRIGvAvsD 81 (231)
+|-.| +.++|.- .++.++|||+|+..+-+|+.+
T Consensus 23 ~~~~~~~~~~~~~~~~~~viGIDlGTt~s~va~~~ 57 (673)
T PLN03184 23 GNGARRRAGGPLRVVAEKVVGIDLGTTNSAVAAME 57 (673)
T ss_pred ccccccccCCCccccCCCEEEEEeCcCcEEEEEEE
Confidence 44333 3444433 455799999999999999975
No 63
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=47.71 E-value=77 Score=29.10 Aligned_cols=43 Identities=7% Similarity=0.086 Sum_probs=35.8
Q ss_pred ChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCC
Q 026881 127 TPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLS 173 (231)
Q Consensus 127 s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~ 173 (231)
.+..+.+.++++.+++. +++++|++..+++..++.+-.+.|++
T Consensus 235 eps~~~l~~l~~~ik~~----~v~~If~e~~~~~~~~~~la~e~g~~ 277 (311)
T PRK09545 235 QPGAQRLHEIRTQLVEQ----KATCVFAEPQFRPAVIESVAKGTSVR 277 (311)
T ss_pred CCCHHHHHHHHHHHHHc----CCCEEEecCCCChHHHHHHHHhcCCe
Confidence 35578888888888764 89999999999999999888887763
No 64
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=47.43 E-value=75 Score=28.18 Aligned_cols=52 Identities=15% Similarity=0.237 Sum_probs=40.0
Q ss_pred CChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHH
Q 026881 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYA 185 (231)
Q Consensus 126 ~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lA 185 (231)
..+..+.+.++.+.+++. +++++|++...++..++..-.+.|++- ..+|.++
T Consensus 199 ~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~la~~~g~~v----~~ld~~~ 250 (266)
T cd01018 199 KEPSPADLKRLIDLAKEK----GVRVVFVQPQFSTKSAEAIAREIGAKV----VTIDPLA 250 (266)
T ss_pred CCCCHHHHHHHHHHHHHc----CCCEEEEcCCCCcHHHHHHHHHcCCeE----EEeCCcH
Confidence 345678888999888864 899999999999999988778888632 3456554
No 65
>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=46.89 E-value=35 Score=26.84 Aligned_cols=43 Identities=23% Similarity=0.332 Sum_probs=28.7
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY 152 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~ 152 (231)
......|.+++++++||.+||| .+. -.+.-.+..|++ .+++++
T Consensus 48 ~~d~~~l~~~a~~~~idlvvvG-------PE~---pL~~Gl~D~l~~----~gi~vf 90 (100)
T PF02844_consen 48 ITDPEELADFAKENKIDLVVVG-------PEA---PLVAGLADALRA----AGIPVF 90 (100)
T ss_dssp TT-HHHHHHHHHHTTESEEEES-------SHH---HHHTTHHHHHHH----TT-CEE
T ss_pred CCCHHHHHHHHHHcCCCEEEEC-------ChH---HHHHHHHHHHHH----CCCcEE
Confidence 3456789999999999999999 122 333344555655 378876
No 66
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=45.33 E-value=1.1e+02 Score=23.67 Aligned_cols=55 Identities=11% Similarity=0.181 Sum_probs=34.5
Q ss_pred EEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCC
Q 026881 113 EFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLS 173 (231)
Q Consensus 113 ~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~ 173 (231)
.++|| .|+..+.....+.+++.++++.+ ..+.+-+..=.-|-.++-+.+...|.+
T Consensus 3 illvg-----HGSr~~~~~~~~~l~~~l~~~~~-~~v~~~~lE~~P~i~~~l~~l~~~G~~ 57 (103)
T cd03413 3 VVFMG-----HGTDHPSNAVYAALEYVLREEDP-ANVFVGTVEGYPGLDDVLAKLKKAGIK 57 (103)
T ss_pred EEEEE-----CCCCchhhhHHHHHHHHHHhcCC-CcEEEEEEcCCCCHHHHHHHHHHcCCC
Confidence 57788 88888767777888888876532 234455665334445555556666654
No 67
>PRK15005 universal stress protein F; Provisional
Probab=45.21 E-value=45 Score=25.71 Aligned_cols=21 Identities=29% Similarity=0.412 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEe
Q 026881 97 KLELQLLEIAQREETDEFIIG 117 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVG 117 (231)
.....|.+.++++++|.||+|
T Consensus 94 ~p~~~I~~~a~~~~~DLIV~G 114 (144)
T PRK15005 94 SPKDRILELAKKIPADMIIIA 114 (144)
T ss_pred CHHHHHHHHHHHcCCCEEEEe
Confidence 456789999999999999999
No 68
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=44.91 E-value=1e+02 Score=25.74 Aligned_cols=63 Identities=10% Similarity=0.214 Sum_probs=37.1
Q ss_pred HHHHHHHHHcCCCEEEEeecCCC--CCCCChhHHHHHHHHHHHHHHhccCCCcEEEec------CCCcHHHHHHHHHHcC
Q 026881 100 LQLLEIAQREETDEFIIGLPKSW--DGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD------EHRTSAEAVDRMINMG 171 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~--dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD------ER~TT~eA~~~l~e~G 171 (231)
..+.+++...+++.||||.=..- ++.-+ ....+++ ..++++.|+.++ +..||..-++.+.+..
T Consensus 89 ~Fi~~il~~~~~~~ivvG~Df~FG~~~~g~--~~~L~~~-------~~~~g~~v~~v~~~~~~~~~iSST~IR~~i~~G~ 159 (180)
T cd02064 89 EFVEDLLVKLNAKHVVVGFDFRFGKGRSGD--AELLKEL-------GKKYGFEVTVVPPVTLDGERVSSTRIREALAEGD 159 (180)
T ss_pred HHHHHHHhhcCCeEEEEccCCCCCCCCCCC--HHHHHHh-------hhhcCcEEEEeCcEecCCcEEcHHHHHHHHHhCC
Confidence 45666666669999999975542 11111 1112222 122467777766 4688888888876543
No 69
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=44.84 E-value=1.1e+02 Score=27.33 Aligned_cols=44 Identities=11% Similarity=0.142 Sum_probs=35.8
Q ss_pred CChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCC
Q 026881 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLS 173 (231)
Q Consensus 126 ~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~ 173 (231)
..+..+.+.++++.+++. +++++|++..+++..++..-++.|++
T Consensus 202 ~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~la~~~g~~ 245 (282)
T cd01017 202 VEPSPKQLAELVEFVKKS----DVKYIFFEENASSKIAETLAKETGAK 245 (282)
T ss_pred CCCCHHHHHHHHHHHHHc----CCCEEEEeCCCChHHHHHHHHHcCCc
Confidence 345678888888888764 89999999999999998877777753
No 70
>cd03414 CbiX_SirB_C Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase, responsible for the chelation of Co2+ into sirohydrochlorin, an important step in the vitamin B12 biosynthetic pathway. CbiX often contains a C-terminal histidine-rich region that may be important for metal delivery and/or storage, and may also contain an iron-sulfur center. Both CbiX and SirB are found in a wide range of bacteria.
Probab=44.56 E-value=1e+02 Score=23.51 Aligned_cols=56 Identities=20% Similarity=0.291 Sum_probs=37.3
Q ss_pred EEEEeecCCCCCCCCh-hHHHHHHHHHHHHHHhccCCCcEEEecC-CCcHHHHHHHHHHcCCC
Q 026881 113 EFIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLLDE-HRTSAEAVDRMINMGLS 173 (231)
Q Consensus 113 ~IVVGLPl~~dGt~s~-~~~~v~~Fa~~L~~~~~~~~lpV~lvDE-R~TT~eA~~~l~e~G~~ 173 (231)
.|+|| .||..+ ....++++++.++++.+...+.+.|++. .-|-.+|-+.+.+.|.+
T Consensus 3 ~llv~-----HGS~~~~~~~~~~~l~~~l~~~~~~~~v~~afle~~~P~~~~~l~~l~~~g~~ 60 (117)
T cd03414 3 VVLVG-----RGSSDPDANADVAKIARLLEEGTGFARVETAFAAATRPSLPEALERLRALGAR 60 (117)
T ss_pred EEEEc-----CCCCCHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCCCCHHHHHHHHHHcCCC
Confidence 47788 888755 4468888999998765312344567774 56667777777766643
No 71
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=44.09 E-value=55 Score=23.67 Aligned_cols=51 Identities=20% Similarity=0.210 Sum_probs=36.3
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHH
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~ 168 (231)
..+.+++.+++++.+|+| . .++ ...+.|+.. ++.|+.. ...+-.+|-+.|+
T Consensus 43 ~~~~~~l~~~~v~~li~~-----~--iG~------~~~~~L~~~----gI~v~~~-~~~~i~~~l~~~~ 93 (94)
T PF02579_consen 43 DKIAKFLAEEGVDVLICG-----G--IGE------GAFRALKEA----GIKVYQG-AGGDIEEALEAYL 93 (94)
T ss_dssp THHHHHHHHTTESEEEES-----C--SCH------HHHHHHHHT----TSEEEES-TSSBHHHHHHHHH
T ss_pred hhHHHHHHHcCCCEEEEe-----C--CCH------HHHHHHHHC----CCEEEEc-CCCCHHHHHHHHh
Confidence 467777777999999999 2 232 234456653 8999998 7788888776654
No 72
>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=44.09 E-value=19 Score=35.21 Aligned_cols=17 Identities=35% Similarity=0.669 Sum_probs=14.8
Q ss_pred EEEEecCCCeEEEEEec
Q 026881 65 SLGVDLGLSRTGLALSK 81 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD 81 (231)
++|||+|+..+.||+.+
T Consensus 1 viGID~Gt~~~~va~~~ 17 (602)
T PF00012_consen 1 VIGIDLGTTNSKVAVFK 17 (602)
T ss_dssp EEEEEE-SSEEEEEEEE
T ss_pred CEEEEeccCCEEEEEEE
Confidence 68999999999999976
No 73
>PRK15080 ethanolamine utilization protein EutJ; Provisional
Probab=44.05 E-value=2.4e+02 Score=25.21 Aligned_cols=90 Identities=20% Similarity=0.212 Sum_probs=48.8
Q ss_pred CceEEEEecCCCeEEEEEecCc------eeeeeeeeec----cchh---HHHHHHHHHHHc---CCCEEEEeecCCCCCC
Q 026881 62 GGFSLGVDLGLSRTGLALSKGF------CVRPLTVLKL----RGEK---LELQLLEIAQRE---ETDEFIIGLPKSWDGS 125 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~~------~A~Pl~~i~~----~~~~---~~~~L~~li~e~---~i~~IVVGLPl~~dGt 125 (231)
.+.++|||.|+.+|=+.+.+.. ...|-..+.. +-+. ...++.+.++++ .+..+++..|-..+-.
T Consensus 23 ~~~~~~iDiGSssi~~vv~~~~~~~~~~~~~~~~~vr~G~i~di~~a~~~i~~~~~~ae~~~g~~i~~v~~~vp~~~~~~ 102 (267)
T PRK15080 23 SPLKVGVDLGTANIVLAVLDEDGQPVAGALEWADVVRDGIVVDFIGAVTIVRRLKATLEEKLGRELTHAATAIPPGTSEG 102 (267)
T ss_pred CCEEEEEEccCceEEEEEEcCCCCEEEEEeccccccCCCEEeeHHHHHHHHHHHHHHHHHHhCCCcCeEEEEeCCCCCch
Confidence 5689999999999998887621 1112112211 0011 223344433333 4789999999765321
Q ss_pred CChhHHHHHHHHHHHHHHhccCCCcEE-EecCCCcHH
Q 026881 126 ETPQSNKVRSVAGRLAVRAAERGWRVY-LLDEHRTSA 161 (231)
Q Consensus 126 ~s~~~~~v~~Fa~~L~~~~~~~~lpV~-lvDER~TT~ 161 (231)
.-+.+.+-++. .++.+. +++|.+...
T Consensus 103 ------~~~~~~~~~~~----aGl~~~~ii~e~~A~a 129 (267)
T PRK15080 103 ------DPRAIINVVES----AGLEVTHVLDEPTAAA 129 (267)
T ss_pred ------hHHHHHHHHHH----cCCceEEEechHHHHH
Confidence 11233333332 377776 777766433
No 74
>PRK09604 UGMP family protein; Validated
Probab=43.71 E-value=1.3e+02 Score=27.91 Aligned_cols=87 Identities=15% Similarity=0.097 Sum_probs=52.7
Q ss_pred ceEEEEecCCCeEEEEEec-C--ceeee-eee----------eec-----cchhHHHHHHHHHHHc-----CCCEEEEee
Q 026881 63 GFSLGVDLGLSRTGLALSK-G--FCVRP-LTV----------LKL-----RGEKLELQLLEIAQRE-----ETDEFIIGL 118 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD-~--~~A~P-l~~----------i~~-----~~~~~~~~L~~li~e~-----~i~~IVVGL 118 (231)
+.+||||=-...+++|+.| + +++.- ... ++. ..+.+...+.+++++- +++.|+|+.
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 3689999999999999997 2 22211 111 111 1122334566666653 579999994
Q ss_pred cCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 119 PKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 119 Pl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
= -|+.+. -+....+|+.|... .++|++.++.
T Consensus 81 G---PG~~tg-lrvg~~~Ak~La~~---~~ipl~~v~h 111 (332)
T PRK09604 81 G---PGLVGA-LLVGVSFAKALALA---LNKPLIGVNH 111 (332)
T ss_pred C---CCcHHh-HHHHHHHHHHHHHH---hCCCEEeecC
Confidence 1 133332 34456778888866 3789998864
No 75
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=43.65 E-value=1e+02 Score=23.82 Aligned_cols=49 Identities=16% Similarity=0.148 Sum_probs=32.6
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
.....|.+.++++++|.||+|- .|. .. ...-..++++-.. ..+||..+-
T Consensus 90 ~p~~~I~~~a~~~~~DLIV~Gs----~~~--~~-~~lgSva~~v~~~---a~~pVLvv~ 138 (144)
T PRK15118 90 DLGQVLVDAIKKYDMDLVVCGH----HQD--FW-SKLMSSARQLINT---VHVDMLIVP 138 (144)
T ss_pred CHHHHHHHHHHHhCCCEEEEeC----ccc--HH-HHHHHHHHHHHhh---CCCCEEEec
Confidence 4567889999999999999992 232 11 1223556665554 378888774
No 76
>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=43.24 E-value=68 Score=28.69 Aligned_cols=45 Identities=24% Similarity=0.349 Sum_probs=35.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
.++.+-+.+.+.|.|+|| ||.+-....+.+..+.+++ +.+||++.
T Consensus 17 ~~~~~~~~~~gtdai~vG------GS~~vt~~~~~~~v~~ik~----~~lPvilf 61 (223)
T TIGR01768 17 DEIAKAAAESGTDAILIG------GSQGVTYEKTDTLIEALRR----YGLPIILF 61 (223)
T ss_pred HHHHHHHHhcCCCEEEEc------CCCcccHHHHHHHHHHHhc----cCCCEEEe
Confidence 345566677899999999 8887777788888888875 36898864
No 77
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=43.16 E-value=1.2e+02 Score=27.34 Aligned_cols=46 Identities=7% Similarity=0.044 Sum_probs=37.4
Q ss_pred CCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCC
Q 026881 124 GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLS 173 (231)
Q Consensus 124 Gt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~ 173 (231)
....+..+.+.++.+.+++. +++++|++.-+++..++.+-.+.|++
T Consensus 206 ~~~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~ia~~~gv~ 251 (287)
T cd01137 206 TEEEGTPKQVATLIEQVKKE----KVPAVFVESTVNDRLMKQVAKETGAK 251 (287)
T ss_pred CCCCCCHHHHHHHHHHHHHh----CCCEEEEeCCCChHHHHHHHHHhCCc
Confidence 34456788888888888864 89999999999999988887777764
No 78
>PRK10966 exonuclease subunit SbcD; Provisional
Probab=42.28 E-value=1.7e+02 Score=28.04 Aligned_cols=71 Identities=21% Similarity=0.157 Sum_probs=42.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhH-HHHHHHHHHHHHHhccCCCcEEEe----cCCCcHHHHHHHHHHcCC
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLL----DEHRTSAEAVDRMINMGL 172 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~-~~v~~Fa~~L~~~~~~~~lpV~lv----DER~TT~eA~~~l~e~G~ 172 (231)
....|.+++.++++|.|||.==+-..+..+..+ ....+|..+|+. .++||+++ |-.-.......+|...|+
T Consensus 27 ~l~~l~~~i~~~~~D~viIaGDifD~~~p~~~a~~~~~~~l~~L~~----~~~~v~~I~GNHD~~~~l~~~~~~l~~~gi 102 (407)
T PRK10966 27 FLDWLLEQVQEHQVDAIIVAGDIFDTGSPPSYARELYNRFVVNLQQ----TGCQLVVLAGNHDSVATLNESRDLLAFLNT 102 (407)
T ss_pred HHHHHHHHHHhcCCCEEEECCccccCCCCcHHHHHHHHHHHHHHHh----cCCcEEEEcCCCCChhhhhhHHHHHHHCCc
Confidence 346788888899999998873333233333333 223556666654 26888887 333233345666777664
No 79
>PRK09605 bifunctional UGMP family protein/serine/threonine protein kinase; Validated
Probab=42.25 E-value=1.5e+02 Score=28.95 Aligned_cols=90 Identities=14% Similarity=0.084 Sum_probs=55.6
Q ss_pred ceEEEEecCCCeEEEEEecC---ceeeeeeeee--------c-----cchhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 026881 63 GFSLGVDLGLSRTGLALSKG---FCVRPLTVLK--------L-----RGEKLELQLLEIAQR-----EETDEFIIGLPKS 121 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~---~~A~Pl~~i~--------~-----~~~~~~~~L~~li~e-----~~i~~IVVGLPl~ 121 (231)
+.|||||==..-+.+|+.+. +++.-..++. . ..+.+...+.+++++ ..+|.|.|+.-.
T Consensus 1 m~il~iets~~~~s~a~~~~~~~~~~~~~~~~~~~~gg~~p~~~~~~H~~~l~~~i~~~l~~~~~~~~~id~iav~~gP- 79 (535)
T PRK09605 1 MIVLGIEGTAWKTSAGIVDSDGDVLFNESDPYKPPSGGIHPREAAEHHAEAIPKVIKEALEEAGLKPEDIDLVAFSQGP- 79 (535)
T ss_pred CEEEEEEccccceEEEEEeCCCcEEEEEEeeccCCcCCCChHHHHHHHHHHHHHHHHHHHHHcCCCHhhCCEEEECCCC-
Confidence 36999999999999999983 3322212111 0 112233455666655 457999999332
Q ss_pred CCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCc
Q 026881 122 WDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (231)
Q Consensus 122 ~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~T 159 (231)
|..+. -+....||+.|+..+ ++|++.++....
T Consensus 80 --g~~~~-l~vg~~~ak~la~~~---~~~~~~v~h~~a 111 (535)
T PRK09605 80 --GLGPC-LRVVATAARALALSL---DVPLIGVNHCVA 111 (535)
T ss_pred --CcHhh-HHHHHHHHHHHHHHh---CCCeecccHHHH
Confidence 32222 245567888898764 899998865444
No 80
>PRK13324 pantothenate kinase; Reviewed
Probab=42.10 E-value=2.6e+02 Score=25.23 Aligned_cols=80 Identities=14% Similarity=0.190 Sum_probs=45.4
Q ss_pred eEEEEecCCCeEEEEEecCc-eeee--eeeeec-c-chhHHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHH
Q 026881 64 FSLGVDLGLSRTGLALSKGF-CVRP--LTVLKL-R-GEKLELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKV 133 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~-~A~P--l~~i~~-~-~~~~~~~L~~li~e~-----~i~~IVVGLPl~~dGt~s~~~~~v 133 (231)
++|+||.|..+|=+|+.|+. .... +.+-.. + .++....+..++..+ .++.+||. + .-+ ...
T Consensus 1 MiL~iDiGNT~ik~gl~~~~~~~~~~r~~t~~~~~t~de~~~~l~~~~~~~~~~~~~i~~viis-----S--VvP--~l~ 71 (258)
T PRK13324 1 MLLVMDMGNSHIHIGVFDGDRIVSQIRYATSSVDSTSDQMGVFLRQALRENSVDLGKIDGCGIS-----S--VVP--HLN 71 (258)
T ss_pred CEEEEEeCCCceEEEEEECCEEEEEEEEecCccccchHHHHHHHHHHHHhcCCCccCCCeEEEE-----e--Ccc--hhH
Confidence 48999999999999998852 1111 111011 1 123445677777653 57888888 2 222 222
Q ss_pred HHHHHHHHHHhccCCCcEEEec
Q 026881 134 RSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 134 ~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
..|.+.+.+.+ +.+++++.
T Consensus 72 ~~l~~~~~~~~---~~~~~~v~ 90 (258)
T PRK13324 72 YSLGSAVIKYF---NIKPFFIS 90 (258)
T ss_pred HHHHHHHHHHh---CCCeEEEe
Confidence 33434444443 66777775
No 81
>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=41.88 E-value=1.2e+02 Score=25.29 Aligned_cols=55 Identities=22% Similarity=0.386 Sum_probs=32.7
Q ss_pred EEEEecCCCeEEEEEec----C-ceeeeeeeeecc----c-----hhHHHHHHHHHHHc------CCCEEEEeec
Q 026881 65 SLGVDLGLSRTGLALSK----G-FCVRPLTVLKLR----G-----EKLELQLLEIAQRE------ETDEFIIGLP 119 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD----~-~~A~Pl~~i~~~----~-----~~~~~~L~~li~e~------~i~~IVVGLP 119 (231)
+.|||.|+.+|=+.++. + +........+.+ + ......+++.+++- ++..+++++|
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 47999999999988874 2 211112222211 1 23445566666533 5789999977
No 82
>KOG4013 consensus Predicted Cu2+ homeostasis protein CutC [Inorganic ion transport and metabolism]
Probab=41.57 E-value=78 Score=28.52 Aligned_cols=63 Identities=19% Similarity=0.355 Sum_probs=40.0
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe---cCCCcHHHHHH-HHHHcCCCc
Q 026881 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL---DEHRTSAEAVD-RMINMGLSK 174 (231)
Q Consensus 103 ~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv---DER~TT~eA~~-~l~e~G~~r 174 (231)
.+++++++.+++|+| -++.||+... .-++.+-... .++||+|. |=-+--+.+.+ .|.+.|.+|
T Consensus 87 v~llk~~GAdGfVFG-aLt~dgsid~------~~C~si~~~~--rplPVTFHRAfD~~~D~k~~lE~~l~~lGF~r 153 (255)
T KOG4013|consen 87 VELLKKAGADGFVFG-ALTSDGSIDR------TSCQSIIETA--RPLPVTFHRAFDVAYDWKTCLEDALLDLGFKR 153 (255)
T ss_pred HHHHHHcCCCceEEe-ecCCCCCcCH------HHHHHHHHhc--CCCceeeeeehhhhcCHHHHHHHHHHHhhHHH
Confidence 457889999999999 6888998863 1222222222 37999874 55555555555 555666543
No 83
>PRK15456 universal stress protein UspG; Provisional
Probab=41.21 E-value=42 Score=26.11 Aligned_cols=50 Identities=16% Similarity=0.199 Sum_probs=30.1
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
...+.|.++++++++|.||+|- .|. +-....+-..++++-.. .++||..+
T Consensus 92 ~~~~~I~~~a~~~~~DLIVmG~----~g~-~~~~~llGS~a~~v~~~---a~~pVLvV 141 (142)
T PRK15456 92 SVRDEVNELAEELGADVVVIGS----RNP-SISTHLLGSNASSVIRH---ANLPVLVV 141 (142)
T ss_pred ChHHHHHHHHhhcCCCEEEEcC----CCC-CccceecCccHHHHHHc---CCCCEEEe
Confidence 4556788999999999999993 232 21111222334455444 36777654
No 84
>PRK13322 pantothenate kinase; Reviewed
Probab=40.65 E-value=1.7e+02 Score=26.15 Aligned_cols=79 Identities=18% Similarity=0.128 Sum_probs=41.5
Q ss_pred eEEEEecCCCeEEEEEecC-ceeeeeeeeeccch-hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 026881 64 FSLGVDLGLSRTGLALSKG-FCVRPLTVLKLRGE-KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~-~~A~Pl~~i~~~~~-~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~ 141 (231)
++|.||.|..+|=+++.+. ........ ...+. .+...+..+ ..+.++.++|. +=-....... +.+.++
T Consensus 1 M~L~IDiGNT~iK~~l~~~~~~~~~~~~-~~~t~~~~~~~l~~~-~~~~i~~v~vs-----SV~p~~~~~~---l~~~l~ 70 (246)
T PRK13322 1 MILELDCGNSRLKWRVIDNGGQIIEHGA-HLDSPAELLLGLANL-ASLAPTRCRIV-----SVLSEEETAR---LVAILE 70 (246)
T ss_pred CEEEEEeCCCcEEEEEEcCCCchhhhcc-ccCCHHHHHHHHHhC-CccCCCEEEEE-----eCCCHHHHHH---HHHHHH
Confidence 4899999999999999884 21101001 11121 222334322 33468898887 2111122333 444454
Q ss_pred HHhccCCCcEEEec
Q 026881 142 VRAAERGWRVYLLD 155 (231)
Q Consensus 142 ~~~~~~~lpV~lvD 155 (231)
+.+ +++++++.
T Consensus 71 ~~~---~~~~~~v~ 81 (246)
T PRK13322 71 KRL---GIPVVFAK 81 (246)
T ss_pred HHh---CCCeEEEe
Confidence 443 57777764
No 85
>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=39.86 E-value=1.4e+02 Score=27.66 Aligned_cols=55 Identities=15% Similarity=0.205 Sum_probs=34.4
Q ss_pred EEEEecCCCeEEEEEec----C-ceeeeeeeeec----c-----chhHHHHHHHHHHH------cCCCEEEEeec
Q 026881 65 SLGVDLGLSRTGLALSK----G-FCVRPLTVLKL----R-----GEKLELQLLEIAQR------EETDEFIIGLP 119 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD----~-~~A~Pl~~i~~----~-----~~~~~~~L~~li~e------~~i~~IVVGLP 119 (231)
++|||.|+.+|=+++.. + +........+. + -......|++.+++ .++..++++.|
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 68999999999998864 2 21111111111 1 12345567777764 47889999987
No 86
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=39.46 E-value=1.4e+02 Score=26.94 Aligned_cols=43 Identities=9% Similarity=0.115 Sum_probs=35.4
Q ss_pred CChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCC
Q 026881 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGL 172 (231)
Q Consensus 126 ~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~ 172 (231)
..+..+.+.++++.+++. +++++|++...++..|+.+-.+.|.
T Consensus 210 ~eps~~~l~~l~~~ik~~----~v~~If~e~~~~~~~~~~ia~~~g~ 252 (286)
T cd01019 210 IDPGAKRLAKIRKEIKEK----GATCVFAEPQFHPKIAETLAEGTGA 252 (286)
T ss_pred CCCCHHHHHHHHHHHHHc----CCcEEEecCCCChHHHHHHHHhcCc
Confidence 445678888888888764 8999999999999999888878775
No 87
>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=38.26 E-value=1.5e+02 Score=21.23 Aligned_cols=64 Identities=14% Similarity=0.213 Sum_probs=42.7
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCc
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSK 174 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~r 174 (231)
.++.+.+....++.+++++-. .+.. ...+++.|+... .+.||+++=...++....+.+ +.|...
T Consensus 33 ~~~~~~~~~~~~d~iiid~~~--~~~~------~~~~~~~i~~~~--~~~~ii~~t~~~~~~~~~~~~-~~g~~~ 96 (112)
T PF00072_consen 33 EEALELLKKHPPDLIIIDLEL--PDGD------GLELLEQIRQIN--PSIPIIVVTDEDDSDEVQEAL-RAGADD 96 (112)
T ss_dssp HHHHHHHHHSTESEEEEESSS--SSSB------HHHHHHHHHHHT--TTSEEEEEESSTSHHHHHHHH-HTTESE
T ss_pred HHHHHHhcccCceEEEEEeee--cccc------cccccccccccc--ccccEEEecCCCCHHHHHHHH-HCCCCE
Confidence 455666688899999999543 3322 246777787664 478998887666666666555 666543
No 88
>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=37.57 E-value=77 Score=30.38 Aligned_cols=55 Identities=24% Similarity=0.318 Sum_probs=41.3
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE--EecCC
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDEH 157 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~--lvDER 157 (231)
++...++.++++++++|.+|.| |----|..+.+|-.+ ++.+++. .++|++ +..|.
T Consensus 66 eea~~~i~~mv~~~~pD~viaG-PaFnagrYG~acg~v---~~aV~e~---~~IP~vtaM~~EN 122 (349)
T PF07355_consen 66 EEALKKILEMVKKLKPDVVIAG-PAFNAGRYGVACGEV---AKAVQEK---LGIPVVTAMYEEN 122 (349)
T ss_pred HHHHHHHHHHHHhcCCCEEEEc-CCcCCchHHHHHHHH---HHHHHHh---hCCCEEEEecccC
Confidence 4466789999999999999999 544479999887776 5555555 388875 45564
No 89
>cd00984 DnaB_C DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.
Probab=37.41 E-value=1.6e+02 Score=25.01 Aligned_cols=60 Identities=12% Similarity=0.140 Sum_probs=40.3
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCC-CCC-CChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSW-DGS-ETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~-dGt-~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
.+...+..++++++++.|||=.=-.+ .+. .......+..+.+.|+....+++++|+++-+
T Consensus 110 ~l~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~L~~la~~~~~~ii~~~q 171 (242)
T cd00984 110 DIRSRARRLKKEHGLGLIVIDYLQLMSGSKKKGNRQQEVAEISRSLKLLAKELNVPVIALSQ 171 (242)
T ss_pred HHHHHHHHHHHhcCCCEEEEcCchhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEecc
Confidence 34567777888889999999742222 222 2334456777888887655557999998875
No 90
>cd02812 PcrB_like PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between sn-glycerol-1-phosphate (G1P) and geranylgeranyl diphosphate (GGPP), the committed step in archaeal lipid biosynthesis. Therefore, it has been proposed that PcrB-like proteins are either prenyltransferases or are involved in lipoteichoic acid biosynthesis although the exact function is still unknown.
Probab=37.32 E-value=1e+02 Score=27.37 Aligned_cols=46 Identities=20% Similarity=0.311 Sum_probs=33.5
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
..+.+++.+.+.|.|+|| ||.+-. ....+..+.+++.- + .+||++.
T Consensus 15 ~~~~~~~~~~gtdai~vG------GS~~v~-~~~~~~~~~ik~~~-~-~~Pvilf 60 (219)
T cd02812 15 EEIAKLAEESGTDAIMVG------GSDGVS-STLDNVVRLIKRIR-R-PVPVILF 60 (219)
T ss_pred HHHHHHHHhcCCCEEEEC------Cccchh-hhHHHHHHHHHHhc-C-CCCEEEe
Confidence 568888888899999999 888764 56666777776542 1 3887754
No 91
>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases. Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.
Probab=36.64 E-value=79 Score=27.53 Aligned_cols=59 Identities=15% Similarity=0.138 Sum_probs=37.3
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC---ChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSE---TPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~---s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
....+..++.+++++.|||=..-.+.... ......+..+...|+....+++++|+++-+
T Consensus 128 i~~~i~~~~~~~~~~~vvID~l~~l~~~~~~~~~~~~~~~~~~~~L~~la~~~~vtvll~sq 189 (271)
T cd01122 128 VLEKVRYMAVSHGIQHIIIDNLSIMVSDERASGDERKALDEIMTKLRGFATEHGIHITLVSH 189 (271)
T ss_pred HHHHHHHHHhcCCceEEEECCHHHHhccCCCchhHHHHHHHHHHHHHHHHHHhCCEEEEEec
Confidence 44566777778899999998654433221 222334556666666544446899988864
No 92
>PRK10854 exopolyphosphatase; Provisional
Probab=36.59 E-value=2.1e+02 Score=28.19 Aligned_cols=100 Identities=16% Similarity=0.104 Sum_probs=60.7
Q ss_pred cCCCCCCceEEEEecCCCeEEEEEecC--ceeeeee----eeec------cc---h-------hHHHHHHHHHHHcCCCE
Q 026881 56 KDSLWRGGFSLGVDLGLSRTGLALSKG--FCVRPLT----VLKL------RG---E-------KLELQLLEIAQREETDE 113 (231)
Q Consensus 56 ~~~~~~~g~iLglD~G~kRIGvAvsD~--~~A~Pl~----~i~~------~~---~-------~~~~~L~~li~e~~i~~ 113 (231)
+|-.+++..+-+||.|+--|=+.|.+. .....+. ++.. .+ . .......+++++++++.
T Consensus 4 ~~~~~~~~~~A~IDIGSNSirL~I~e~~~~~~~~i~~~k~~vrLg~g~~~~g~Ls~e~~~r~~~~L~~F~~~~~~~~v~~ 83 (513)
T PRK10854 4 HDKSPRPQEFAAVDLGSNSFHMVIARVVDGAMQIIGRLKQRVHLADGLDSDNMLSEEAMERGLNCLSLFAERLQGFSPAN 83 (513)
T ss_pred CCCCCCCCEEEEEEeccchheEEEEEecCCcEEEeeeeeEEEECCCCcCCCCCcCHHHHHHHHHHHHHHHHHHHhCCCCe
Confidence 455677889999999999999988872 1111111 1110 11 1 12346667788899874
Q ss_pred -EEEeecCCCCCCC-ChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHH
Q 026881 114 -FIIGLPKSWDGSE-TPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (231)
Q Consensus 114 -IVVGLPl~~dGt~-s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~ 168 (231)
.+|| |. =..++-...|.++++.. .|++|..++- ..||+-.+.
T Consensus 84 v~~vA-------TsAlReA~N~~~fl~~i~~~---tGl~i~vIsG---~EEA~l~~~ 127 (513)
T PRK10854 84 VCIVG-------THTLRQALNATDFLKRAEKV---IPYPIEIISG---NEEARLIFM 127 (513)
T ss_pred EEEEe-------hHHHHcCcCHHHHHHHHHHH---HCCCeEEeCH---HHHHHHHHh
Confidence 4555 11 11233457899999876 4899988873 256655544
No 93
>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=35.72 E-value=1.7e+02 Score=21.77 Aligned_cols=23 Identities=13% Similarity=0.406 Sum_probs=19.4
Q ss_pred hHHHHHHHHHHHcCCCEEEEeec
Q 026881 97 KLELQLLEIAQREETDEFIIGLP 119 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLP 119 (231)
...+.|.+.+++++++.||+|..
T Consensus 72 ~~~~~I~~~~~~~~~dllviG~~ 94 (124)
T cd01987 72 DVAEAIVEFAREHNVTQIVVGKS 94 (124)
T ss_pred cHHHHHHHHHHHcCCCEEEeCCC
Confidence 35578999999999999999943
No 94
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=35.67 E-value=1.9e+02 Score=22.02 Aligned_cols=78 Identities=17% Similarity=0.182 Sum_probs=47.3
Q ss_pred eeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHH
Q 026881 86 RPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVD 165 (231)
Q Consensus 86 ~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~ 165 (231)
..++++.....-..+.+.+.+.+++++.|++. .+.+.....+.++++.+++..+ .+++|++--=..+. .. +
T Consensus 26 ~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS------~~~~~~~~~~~~~i~~l~~~~~-~~~~i~vGG~~~~~-~~-~ 96 (119)
T cd02067 26 AGFEVIDLGVDVPPEEIVEAAKEEDADAIGLS------GLLTTHMTLMKEVIEELKEAGL-DDIPVLVGGAIVTR-DF-K 96 (119)
T ss_pred CCCEEEECCCCCCHHHHHHHHHHcCCCEEEEe------ccccccHHHHHHHHHHHHHcCC-CCCeEEEECCCCCh-hH-H
Confidence 44555543222234678888889999987775 4445556778889999987632 15666655444443 22 3
Q ss_pred HHHHcCC
Q 026881 166 RMINMGL 172 (231)
Q Consensus 166 ~l~e~G~ 172 (231)
.+.+.|.
T Consensus 97 ~~~~~G~ 103 (119)
T cd02067 97 FLKEIGV 103 (119)
T ss_pred HHHHcCC
Confidence 4556664
No 95
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=35.51 E-value=2.3e+02 Score=22.69 Aligned_cols=74 Identities=14% Similarity=0.094 Sum_probs=43.3
Q ss_pred HHHHHHHHHHcCCCEEEEeec---CCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcH-------HHHHHHHH
Q 026881 99 ELQLLEIAQREETDEFIIGLP---KSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS-------AEAVDRMI 168 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLP---l~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT-------~eA~~~l~ 168 (231)
..+..++.+..++..++++.+ .............+.+..+.|.....++++.+.+-....+. .++.+.+.
T Consensus 73 ~~~~i~~a~~lg~~~i~~~~g~~~~~~~~~~~~~~~~~~~~l~~l~~~a~~~gv~i~lE~~~~~~~~~~~~~~~~~~~l~ 152 (213)
T PF01261_consen 73 LKKAIDLAKRLGAKYIVVHSGRYPSGPEDDTEENWERLAENLRELAEIAEEYGVRIALENHPGPFSETPFSVEEIYRLLE 152 (213)
T ss_dssp HHHHHHHHHHHTBSEEEEECTTESSSTTSSHHHHHHHHHHHHHHHHHHHHHHTSEEEEE-SSSSSSSEESSHHHHHHHHH
T ss_pred HHHHHHHHHHhCCCceeecCcccccccCCCHHHHHHHHHHHHHHHHhhhhhhcceEEEecccCccccchhhHHHHHHHHh
Confidence 456666777889999999966 33233333333333334444444443458877766654443 67777777
Q ss_pred HcCC
Q 026881 169 NMGL 172 (231)
Q Consensus 169 e~G~ 172 (231)
+.+.
T Consensus 153 ~~~~ 156 (213)
T PF01261_consen 153 EVDS 156 (213)
T ss_dssp HHTT
T ss_pred hcCC
Confidence 7653
No 96
>PRK04169 geranylgeranylglyceryl phosphate synthase-like protein; Reviewed
Probab=35.23 E-value=1.2e+02 Score=27.27 Aligned_cols=41 Identities=24% Similarity=0.336 Sum_probs=32.7
Q ss_pred HHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 104 EIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 104 ~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
+.+.+.+.|.|+|| ||.+-....+.+..+.+++ +++||++.
T Consensus 26 ~~~~~~gtdai~vG------GS~~vt~~~~~~~v~~ik~----~~lPvilf 66 (232)
T PRK04169 26 EAICESGTDAIIVG------GSDGVTEENVDELVKAIKE----YDLPVILF 66 (232)
T ss_pred HHHHhcCCCEEEEc------CCCccchHHHHHHHHHHhc----CCCCEEEe
Confidence 55667899999999 8887777788888888875 37888763
No 97
>PRK13326 pantothenate kinase; Reviewed
Probab=34.98 E-value=3.4e+02 Score=24.50 Aligned_cols=20 Identities=30% Similarity=0.375 Sum_probs=18.1
Q ss_pred ceEEEEecCCCeEEEEEecC
Q 026881 63 GFSLGVDLGLSRTGLALSKG 82 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~ 82 (231)
.++|+||.|..+|=+++-++
T Consensus 6 ~~~L~IDiGNT~ik~glf~~ 25 (262)
T PRK13326 6 SSQLIIDIGNTSISFALYKD 25 (262)
T ss_pred cEEEEEEeCCCeEEEEEEEC
Confidence 47999999999999999885
No 98
>PF14450 FtsA: Cell division protein FtsA; PDB: 1E4F_T 4A2B_A 4A2A_A 1E4G_T.
Probab=34.48 E-value=1.1e+02 Score=23.85 Aligned_cols=18 Identities=28% Similarity=0.510 Sum_probs=15.4
Q ss_pred EEEEecCCCeEEEEEecC
Q 026881 65 SLGVDLGLSRTGLALSKG 82 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~ 82 (231)
+.+||.|..+|.+++...
T Consensus 1 i~~iDiGs~~~~~~i~~~ 18 (120)
T PF14450_consen 1 IVVIDIGSSKTKVAIAED 18 (120)
T ss_dssp EEEEEE-SSSEEEEEEET
T ss_pred CEEEEcCCCcEEEEEEEe
Confidence 579999999999999984
No 99
>PRK13317 pantothenate kinase; Provisional
Probab=33.97 E-value=2.7e+02 Score=25.34 Aligned_cols=86 Identities=12% Similarity=0.176 Sum_probs=47.2
Q ss_pred ceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHH-cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 026881 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQR-EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e-~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~ 141 (231)
+..+|||.|...+=+++.|.....-+.....+ ..+.+.+++.+ ..+..|++= |+-+ ..|++.+.
T Consensus 2 ~~~iGIDiGstt~K~v~~~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~~i~~T------G~g~------~~~~~~~~ 66 (277)
T PRK13317 2 EMKIGIDAGGTLTKIVYLEEKKQRTFKTEYSA---EGKKVIDWLINLQDIEKICLT------GGKA------GYLQQLLN 66 (277)
T ss_pred CceEEEEeCcccEEEEEEcCCCeEEEEeeccH---HHHHHHHHhhccCCceEEEEE------Ccch------hhhhHHHh
Confidence 46899999999999999874211112223221 22344444432 345544442 3222 12222221
Q ss_pred HHhccCCCcEEEecCCCcHHHHHHHHH
Q 026881 142 VRAAERGWRVYLLDEHRTSAEAVDRMI 168 (231)
Q Consensus 142 ~~~~~~~lpV~lvDER~TT~eA~~~l~ 168 (231)
.++|++.+||=-.+..+-+.+.
T Consensus 67 -----~~~~~~~v~E~~a~~~g~~~l~ 88 (277)
T PRK13317 67 -----YGYPIAEFVEFEATGLGVRYLL 88 (277)
T ss_pred -----cCCCeeeeHHHHHHHHHHHHHH
Confidence 3788878999777777666654
No 100
>COG3513 Predicted CRISPR-associated nuclease, contains McrA/HNH-nuclease and RuvC-like nuclease domain [Defense mechanisms]
Probab=33.87 E-value=34 Score=36.55 Aligned_cols=20 Identities=30% Similarity=0.717 Sum_probs=18.2
Q ss_pred CceEEEEecCCCeEEEEEec
Q 026881 62 GGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD 81 (231)
...+||+|.|+.-||.|++.
T Consensus 3 ~~yilglDIGi~SVGWAvve 22 (1088)
T COG3513 3 KAYILGLDIGINSVGWAVVE 22 (1088)
T ss_pred cceEEEeeccccceeeEEee
Confidence 35899999999999999986
No 101
>KOG1856 consensus Transcription elongation factor SPT6 [RNA processing and modification]
Probab=33.50 E-value=5.6e+02 Score=28.73 Aligned_cols=141 Identities=16% Similarity=0.131 Sum_probs=70.1
Q ss_pred eEEEEecCCCe----EEEEEec-Cceeeeeeeee----c---c----chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 026881 64 FSLGVDLGLSR----TGLALSK-GFCVRPLTVLK----L---R----GEKLELQLLEIAQREETDEFIIGLPKSWDGSET 127 (231)
Q Consensus 64 ~iLglD~G~kR----IGvAvsD-~~~A~Pl~~i~----~---~----~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s 127 (231)
++||+=+|+.+ ++|-|.. |.+.--|.... . + .+++.+.+.++|+..+++.|.|+-+ +-...
T Consensus 604 rvl~~~~~~~~~~a~f~v~vn~~Gd~vD~lrl~~~~kr~~~~n~~~r~~k~~d~f~kFI~~~kP~vi~v~g~---~r~~q 680 (1299)
T KOG1856|consen 604 RVLAVCGGTERSDAIFCVLVNFEGDLVDYLRLVDITKRKTLVNDEERKKKFQDLFKKFIEKKKPHVIGVSGE---NRLKQ 680 (1299)
T ss_pred eEEEeccCCCCCceEEEEEEcCCCceeeeeeccchhhhhhccchhhhhhhHHHHHHHHHHhcCCCEEEeeCC---CchhH
Confidence 88888888754 4444432 33222222211 1 1 1234456888999999999999844 11122
Q ss_pred hhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCc---HHHHHHHHHHHHccc-------
Q 026881 128 PQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTD---AYAAVILLERYFSMS------- 197 (231)
Q Consensus 128 ~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD---~lAA~IILq~yLd~~------- 197 (231)
.....|+.....|...-....+||+++|+- +..+|.++..+.. +--| -+.=|+=|=+|++.+
T Consensus 681 ~~~~~I~~~v~el~~~~~~~~ipv~~vd~e-----la~lY~nS~~a~~---efpd~pp~~k~avsLAR~iq~PL~EYa~l 752 (1299)
T KOG1856|consen 681 KIYEAIRQLVHELLISDQGHPIPVIYVDNE-----LARLYQNSRRAEA---EFPDYPPTLKQAVSLARYIQDPLIEYAQL 752 (1299)
T ss_pred HHHHHHHHHHHhccccccCCCcceeecccH-----HHHHHHhhhhhHh---hcccCChHHHHHHHHHHHhcCcHHHHHHh
Confidence 333444444333332200147899999973 3445555322211 1222 333344455666543
Q ss_pred -CCCCcccCccchhHHHHH
Q 026881 198 -GQGTEIVLPKRVDLQEKL 215 (231)
Q Consensus 198 -~~~~~~~~~~~~~~~~~~ 215 (231)
.-+.++.-..=++||+-|
T Consensus 753 ~~~dedi~sls~hp~Q~~l 771 (1299)
T KOG1856|consen 753 CSPDEDILSLSLHPLQELL 771 (1299)
T ss_pred cCcccceeeeeechhhhcC
Confidence 222344434446666544
No 102
>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=33.25 E-value=2.5e+02 Score=22.32 Aligned_cols=93 Identities=14% Similarity=0.132 Sum_probs=51.9
Q ss_pred eEEEEecCCCeEEEEEecCce-eeeee-eeeccc----------------hhHHHHHHHHHHHc------CCCEEEEeec
Q 026881 64 FSLGVDLGLSRTGLALSKGFC-VRPLT-VLKLRG----------------EKLELQLLEIAQRE------ETDEFIIGLP 119 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~~-A~Pl~-~i~~~~----------------~~~~~~L~~li~e~------~i~~IVVGLP 119 (231)
-++.+|.|...||+.-+.++. ..-++ .++.+. .+++.++.+.+.++ .++.|||+=|
T Consensus 3 ~~v~id~g~A~i~~l~~~~~~~~~~i~~~ip~K~~~Gg~s~~rf~r~~~~~~f~~~i~~~l~~~f~~~~~~~~~iIiaGP 82 (133)
T PF03464_consen 3 GIVVIDEGEANICLLRGYGTEILQRIESNIPGKHKKGGQSQRRFEREKALEKFFKEIAEALKKYFLVNFDDVKCIIIAGP 82 (133)
T ss_dssp EEEEEETTEEEEEEEETTEEEEEEEEE-GHCCCSSTTCSHHHHHHHHHHHHHHHHHHHHHHHHHCCCHTTTCSEEEEEES
T ss_pred EEEEEeCCCEEEEEEcCCEEEEEEEEEecCCCccCCCCcchhhHHHHHHHHHHHHHHHHHHHHHhhhccccccEEEEECC
Confidence 378999999999998766431 11111 122111 12334444444444 7999999943
Q ss_pred CCCCCCCChhHHHHHHHHHHHHHHhccCC-CcEEEecCCCcHHHHHHH
Q 026881 120 KSWDGSETPQSNKVRSVAGRLAVRAAERG-WRVYLLDEHRTSAEAVDR 166 (231)
Q Consensus 120 l~~dGt~s~~~~~v~~Fa~~L~~~~~~~~-lpV~lvDER~TT~eA~~~ 166 (231)
=. .-..|.+.+....++.+ ..+..+|=+.+...+-.-
T Consensus 83 Gf----------~k~~f~~~l~~~~~~~~~~~i~~~~~s~~~~~gl~E 120 (133)
T PF03464_consen 83 GF----------TKEEFYKYLKAEARRKDKKKIVVVDTSSGGESGLNE 120 (133)
T ss_dssp TT----------HHHHHHHHHHHHHHHHTCCEEEEEE-SSSCHHHHHH
T ss_pred HH----------HHHHHHHHHHHhhHhhcCCEEEEEECCCCCHHHHHH
Confidence 21 13567777765543334 557777766666655443
No 103
>PF11104 PilM_2: Type IV pilus assembly protein PilM;; PDB: 2YCH_A.
Probab=32.88 E-value=1.6e+02 Score=27.00 Aligned_cols=54 Identities=20% Similarity=0.308 Sum_probs=32.3
Q ss_pred EEecCCCeEEEEEecC----c--ee-----eeeeeeecc----chhHHHHHHHHHHHcCC--CEEEEeecC
Q 026881 67 GVDLGLSRTGLALSKG----F--CV-----RPLTVLKLR----GEKLELQLLEIAQREET--DEFIIGLPK 120 (231)
Q Consensus 67 glD~G~kRIGvAvsD~----~--~A-----~Pl~~i~~~----~~~~~~~L~~li~e~~i--~~IVVGLPl 120 (231)
|||+|+..|-++-... . .+ .|-.++... ...+...|+++++++++ ..+++++|-
T Consensus 1 GiDiG~~siK~v~l~~~~~~~~l~~~~~~~~p~~~i~~g~i~d~~~l~~~L~~~~~~~~~~~k~v~~aip~ 71 (340)
T PF11104_consen 1 GIDIGSSSIKAVELSKKGNRFQLEAFASIPLPPGAISDGEIVDPEALAEALKELLKENKIKGKKVVLAIPG 71 (340)
T ss_dssp EEEE-SSEEEEEEEETTTT--EEEEEEEEE--TTSEETTEES-HHHHHHHHHHHHHHHT----EEEEEE-G
T ss_pred CeecCCCeEEEEEEEEcCCccEEEEEEEEECCCCCccCCCcCCHHHHHHHHHHHHHHcCCCCCeEEEEeCC
Confidence 8999999999997662 1 11 233333211 12356789999988866 679999884
No 104
>PTZ00400 DnaK-type molecular chaperone; Provisional
Probab=32.69 E-value=35 Score=34.77 Aligned_cols=55 Identities=20% Similarity=0.210 Sum_probs=34.0
Q ss_pred CCccccccCCCCCcceeeccCCCcccccccccchhhhcccccccccCCCCCCceEEEEecCCCeEEEEEec
Q 026881 11 NSPLLIFPKFNDNRKFHLNRTRNFGQRIGALSSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 11 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~g~iLglD~G~kRIGvAvsD 81 (231)
|..+.+-.-.+|++.+-|+|.-..-|. .+.| .....+.++|||+|+..+-+|+.+
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~----~~~~~~~viGIDlGTt~s~va~~~ 59 (663)
T PTZ00400 5 NKKLIVKSLLTPSIALVLSSAMRSLCT------------SAIR----FAKATGDIVGIDLGTTNSCVAIME 59 (663)
T ss_pred chhhhhhhhhccchhhhhHHHHHHHHH------------Hhhh----hhhhcCcEEEEEECcccEEEEEEe
Confidence 333333344577877777776433331 1111 123346799999999999999876
No 105
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=32.34 E-value=88 Score=24.61 Aligned_cols=44 Identities=30% Similarity=0.447 Sum_probs=28.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
+.+.++++++.+|.|+|=+|... ...++++.+.++. .++.|.++
T Consensus 131 ~~l~~~~~~~~id~v~ial~~~~-------~~~i~~ii~~~~~----~~v~v~~v 174 (175)
T PF13727_consen 131 DDLPELVREHDIDEVIIALPWSE-------EEQIKRIIEELEN----HGVRVRVV 174 (175)
T ss_dssp GGHHHHHHHHT--EEEE--TTS--------HHHHHHHHHHHHT----TT-EEEE-
T ss_pred HHHHHHHHhCCCCEEEEEcCccC-------HHHHHHHHHHHHh----CCCEEEEe
Confidence 57889999999999999988753 2456777777765 36777664
No 106
>PF11215 DUF3010: Protein of unknown function (DUF3010); InterPro: IPR021378 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=32.28 E-value=1.4e+02 Score=25.00 Aligned_cols=47 Identities=15% Similarity=0.232 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHcCCCEEEE------eecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 97 KLELQLLEIAQREETDEFII------GLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVV------GLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
++...+.+++++|+|+.||| | .+--|..+.+++.-++.+. +++|.++
T Consensus 48 ~Fq~~f~kl~~dy~Vd~VvIk~R~~KG-----KfAGga~~FKmEaaIQL~~------~~~V~lv 100 (138)
T PF11215_consen 48 KFQFTFAKLMEDYKVDKVVIKERATKG-----KFAGGAVGFKMEAAIQLID------DVEVELV 100 (138)
T ss_pred HHHHHHHHHHHHcCCCEEEEEecccCC-----CccCCchhHHHHHHHHhcC------CCcEEEE
No 107
>PRK12359 flavodoxin FldB; Provisional
Probab=32.28 E-value=58 Score=27.68 Aligned_cols=31 Identities=6% Similarity=0.159 Sum_probs=26.7
Q ss_pred EEEeecCCCCCCCChhHHHHHHHHHHHHHHh
Q 026881 114 FIIGLPKSWDGSETPQSNKVRSVAGRLAVRA 144 (231)
Q Consensus 114 IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~ 144 (231)
-.||||+..+......-.+|.+|+++|+..+
T Consensus 138 ~f~gl~lD~~nq~~~t~~ri~~W~~~~~~~~ 168 (172)
T PRK12359 138 LFVGLALDEVNQYDLSDERIQQWCEQILLEM 168 (172)
T ss_pred EEEEEEEcCCCchhhhHHHHHHHHHHHHHHH
Confidence 4899999998888888899999999998653
No 108
>PRK13410 molecular chaperone DnaK; Provisional
Probab=31.79 E-value=39 Score=34.55 Aligned_cols=19 Identities=32% Similarity=0.578 Sum_probs=17.2
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
+.++|||+|+..+-||+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (668)
T PRK13410 2 GRIVGIDLGTTNSVVAVME 20 (668)
T ss_pred CcEEEEEeCCCcEEEEEEE
Confidence 5799999999999999976
No 109
>cd01844 SGNH_hydrolase_like_6 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=31.77 E-value=1.8e+02 Score=23.55 Aligned_cols=53 Identities=15% Similarity=0.194 Sum_probs=35.6
Q ss_pred HHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 102 LLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 102 L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
+.+++..++++.|||-+=.|.-+......+.++++++++++..+ +.+|+++.=
T Consensus 49 ~~~~~~~~~pd~vii~~G~ND~~~~~~~~~~~~~~i~~i~~~~p--~~~iil~~~ 101 (177)
T cd01844 49 VAELLRDVPADLYIIDCGPNIVGAEAMVRERLGPLVKGLRETHP--DTPILLVSP 101 (177)
T ss_pred HHHHHHhcCCCEEEEEeccCCCccHHHHHHHHHHHHHHHHHHCc--CCCEEEEec
Confidence 55666778999999865555333322456777888888887654 577877653
No 110
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=31.26 E-value=1.6e+02 Score=27.81 Aligned_cols=59 Identities=17% Similarity=0.188 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC--ChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~--s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
....+.++..+++++.|||-+=-.+.+.. ......+..+.+.|+....++++||+.+-.
T Consensus 293 i~~~i~~~~~~~~~~~vvID~l~~i~~~~~~~~r~~~i~~i~~~Lk~lA~e~~i~vi~lsq 353 (434)
T TIGR00665 293 LRAKARRLKREHGLGLIVIDYLQLMSGSGRSENRQQEVSEISRSLKALAKELNVPVIALSQ 353 (434)
T ss_pred HHHHHHHHHHhcCCCEEEEcchHhcCCCCCCCCHHHHHHHHHHHHHHHHHHhCCeEEEEec
Confidence 34466677778899999998553443221 234455666777777555457999988753
No 111
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=31.04 E-value=59 Score=28.47 Aligned_cols=82 Identities=16% Similarity=0.056 Sum_probs=47.1
Q ss_pred cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCC-Cccc-------cCCC
Q 026881 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGL-SKSA-------RQTK 180 (231)
Q Consensus 109 ~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~-~rkk-------rK~~ 180 (231)
..+..|++|.... +...+.++- ..|.+.|+-...+.+++|..++|++||..--. .|. +.+. ..-.
T Consensus 261 ~~~~~~~~~~~~~-~~~i~~~~~--~~~~~~l~yka~~~~~~v~~~~~~~tS~~C~~----cg~~~~r~~~C~~cg~~~~ 333 (364)
T COG0675 261 VGVETLVVEDLVK-RRSISDWAF--GELRRQLEYKAEWGGIVVKVVPPYYTSKTCPC----CGHLSGRLFKCPRCGFVHD 333 (364)
T ss_pred Eeeeeeehhhhhh-cccHhhhhH--HHHHHHHHHHHHhCCeEEEECCCCCCcccccc----cCCccceeEECCCCCCeeh
Confidence 4566677764443 333332222 33444454333333689999999999875421 232 1110 1123
Q ss_pred CcHHHHHHHHHHHHccc
Q 026881 181 TDAYAAVILLERYFSMS 197 (231)
Q Consensus 181 vD~lAA~IILq~yLd~~ 197 (231)
=|-.||.-|+..++...
T Consensus 334 rD~naa~Ni~~~~~~~~ 350 (364)
T COG0675 334 RDVNAALNIARRALGLL 350 (364)
T ss_pred hhHHHHHHHHHHhcccC
Confidence 69999999999998765
No 112
>TIGR00539 hemN_rel putative oxygen-independent coproporphyrinogen III oxidase. Experimentally determined examples of oxygen-independent coproporphyrinogen III oxidase, an enzyme that replaces HemF function under anaerobic conditions, belong to a family of proteins described by the model hemN. This model, hemN_rel, models a closely related protein, shorter at the amino end and lacking the region containing the motif PYRT[SC]YP found in members of the hemN family. Several species, including E. coli, Helicobacter pylori, Aquifex aeolicus, and Chlamydia trachomatis, have members of both this family and the E. coli hemN family. The member of this family from Bacillus subtilis was shown to complement an hemF/hemN double mutant of Salmonella typimurium and to prevent accumulation of coproporphyrinogen III under anaerobic conditions, but the exact role of this protein is still uncertain. It is found in a number of species that do not synthesize heme de novo.
Probab=30.90 E-value=3.2e+02 Score=25.31 Aligned_cols=60 Identities=12% Similarity=0.202 Sum_probs=38.1
Q ss_pred CCCEEEEeecCCCCCCCChh-HHHHHHHHHHHHHHhc-cCCCcEEE-ecCCCcHHHHHHHHHHcCCCc
Q 026881 110 ETDEFIIGLPKSWDGSETPQ-SNKVRSVAGRLAVRAA-ERGWRVYL-LDEHRTSAEAVDRMINMGLSK 174 (231)
Q Consensus 110 ~i~~IVVGLPl~~dGt~s~~-~~~v~~Fa~~L~~~~~-~~~lpV~l-vDER~TT~eA~~~l~e~G~~r 174 (231)
.+..|.+| .|+.+-. ...+.++.+.|++.+. ..+.+|.+ .+-..-|.+--+.|++.|+.+
T Consensus 51 ~v~~i~~G-----GGtPs~l~~~~l~~ll~~i~~~~~~~~~~eitie~np~~lt~e~l~~l~~~Gv~r 113 (360)
T TIGR00539 51 PLESIFIG-----GGTPNTLSVEAFERLFESIYQHASLSDDCEITTEANPELITAEWCKGLKGAGINR 113 (360)
T ss_pred cccEEEeC-----CCchhcCCHHHHHHHHHHHHHhCCCCCCCEEEEEeCCCCCCHHHHHHHHHcCCCE
Confidence 38899999 8988753 5677778887776542 12345543 443333455566778877644
No 113
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=30.82 E-value=2.3e+02 Score=25.07 Aligned_cols=86 Identities=19% Similarity=0.252 Sum_probs=46.4
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHH-hc---------cC-CCcEEEecCCCcHHHHHHHHHH
Q 026881 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVR-AA---------ER-GWRVYLLDEHRTSAEAVDRMIN 169 (231)
Q Consensus 101 ~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~-~~---------~~-~lpV~lvDER~TT~eA~~~l~e 169 (231)
+..+.+.++++|+||+- ....+ . ..+. .+.+. +| .. +++.+.+|.+-...+|.+.|.+
T Consensus 47 ~~i~~l~~~~vDGiI~~-s~~~~---~---~~l~----~~~~~~iPvV~~~~~~~~~~~~~~V~~D~~~a~~~a~~~Li~ 115 (279)
T PF00532_consen 47 EYIELLLQRRVDGIILA-SSEND---D---EELR----RLIKSGIPVVLIDRYIDNPEGVPSVYIDNYEAGYEATEYLIK 115 (279)
T ss_dssp HHHHHHHHTTSSEEEEE-SSSCT---C---HHHH----HHHHTTSEEEEESS-SCTTCTSCEEEEEHHHHHHHHHHHHHH
T ss_pred HHHHHHHhcCCCEEEEe-cccCC---h---HHHH----HHHHcCCCEEEEEeccCCcccCCEEEEcchHHHHHHHHHHHh
Confidence 55566788999999998 22211 1 1222 22221 11 01 3444445544556678888888
Q ss_pred cCCCc--cccCCCCcHHHHHHHHHHHHccc
Q 026881 170 MGLSK--SARQTKTDAYAAVILLERYFSMS 197 (231)
Q Consensus 170 ~G~~r--kkrK~~vD~lAA~IILq~yLd~~ 197 (231)
.|.++ .--....+...+.-=++.|.+.-
T Consensus 116 ~Gh~~~I~~i~~~~~~~~~~~R~~Gy~~Al 145 (279)
T PF00532_consen 116 KGHRRPIAFIGGPEDSSTSRERLQGYRDAL 145 (279)
T ss_dssp TTCCSTEEEEEESTTTHHHHHHHHHHHHHH
T ss_pred cccCCeEEEEecCcchHHHHHHHHHHHHHH
Confidence 88765 11223445556666666666553
No 114
>PRK11678 putative chaperone; Provisional
Probab=30.76 E-value=50 Score=32.13 Aligned_cols=18 Identities=22% Similarity=0.499 Sum_probs=16.2
Q ss_pred eEEEEecCCCeEEEEEec
Q 026881 64 FSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD 81 (231)
+++||||||..+=||+.+
T Consensus 1 ~~iGID~GTtNs~va~~~ 18 (450)
T PRK11678 1 MFIGFDYGTANCSVAVMR 18 (450)
T ss_pred CeEEEecCccceeeEEee
Confidence 478999999999999985
No 115
>TIGR01175 pilM type IV pilus assembly protein PilM. This protein is required for the assembly of the type IV fimbria in Pseudomonas aeruginosa responsible for twitching motility, and for a similar pilus-like structure in Synechocystis. It is also found in species such as Deinococcus described as having natural transformation (for which a type IV pilus-like structure is proposed) but not fimbria.
Probab=30.72 E-value=2.5e+02 Score=25.34 Aligned_cols=59 Identities=20% Similarity=0.344 Sum_probs=38.4
Q ss_pred ceEEEEecCCCeEEEEEec--C--cee-----eee--eeeec----cchhHHHHHHHHHHHcCC--CEEEEeecCC
Q 026881 63 GFSLGVDLGLSRTGLALSK--G--FCV-----RPL--TVLKL----RGEKLELQLLEIAQREET--DEFIIGLPKS 121 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD--~--~~A-----~Pl--~~i~~----~~~~~~~~L~~li~e~~i--~~IVVGLPl~ 121 (231)
..++|||+|...|=++... + +.. .|+ ..+.. +.+.+...|++++++.++ ..+++++|-.
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 3699999999999988876 1 211 222 22221 112355678888887754 5799999853
No 116
>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=30.38 E-value=2.1e+02 Score=25.80 Aligned_cols=43 Identities=28% Similarity=0.346 Sum_probs=27.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCC-ChhHHHHHHHHHHHHHHhccCCCcEEEe
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSE-TPQSNKVRSVAGRLAVRAAERGWRVYLL 154 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~-s~~~~~v~~Fa~~L~~~~~~~~lpV~lv 154 (231)
+.+.+.+.+.+.|.|+|| ||. +. ...+....+++. .++||++.
T Consensus 22 ~~~~~~~~~~gtDai~VG------GS~~~~---~~d~vv~~ik~~---~~lPvilf 65 (230)
T PF01884_consen 22 EEALEAACESGTDAIIVG------GSDTGV---TLDNVVALIKRV---TDLPVILF 65 (230)
T ss_dssp HHHHHHHHCTT-SEEEEE-------STHCH---HHHHHHHHHHHH---SSS-EEEE
T ss_pred HHHHHHHHhcCCCEEEEC------CCCCcc---chHHHHHHHHhc---CCCCEEEe
Confidence 444555578899999999 877 43 345556666654 48998876
No 117
>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=30.17 E-value=2.8e+02 Score=24.20 Aligned_cols=76 Identities=11% Similarity=-0.077 Sum_probs=32.9
Q ss_pred cccchhhhcccccccccCCCCCCceEEEEecC----CCeEEEEEe--c-Cceeeeeeeeecc---chhHHHHHHHHHHHc
Q 026881 40 ALSSVEEFLPNATRRKKDSLWRGGFSLGVDLG----LSRTGLALS--K-GFCVRPLTVLKLR---GEKLELQLLEIAQRE 109 (231)
Q Consensus 40 ~~~~~~~~~~~~~r~~~~~~~~~g~iLglD~G----~kRIGvAvs--D-~~~A~Pl~~i~~~---~~~~~~~L~~li~e~ 109 (231)
++|+.+.+-....... +......++|+|+| ...+++.+. . .....-+.....+ .......+.++...+
T Consensus 205 ~if~~~~~~~~~~~~~--~~~~~~~~~g~D~a~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~ 282 (384)
T PF03237_consen 205 SIFDRFWIERHVRDPI--PPPDWPIIIGVDPAGGKGGDYTAIVVWEIVDDDGFYVVDDEYERGMSPEEWAERIRELYKKY 282 (384)
T ss_dssp BSS-HHHHCC-----B----TT--EEEEEE--SSCTTB-EEEEEE-E-SSSSEEEEEEEEESSS-TTTHHHHHHHHHHHT
T ss_pred CccchHHhhccccccc--cCCCceEEEEEECCCCCccCCEEEEEEccccccceEEeeehhhcCCCHHHHHHHHHHHHhhc
Confidence 3555555433332111 33345678999999 555666665 1 1111112222111 123456788888888
Q ss_pred CCCEEEEe
Q 026881 110 ETDEFIIG 117 (231)
Q Consensus 110 ~i~~IVVG 117 (231)
++..|++=
T Consensus 283 ~~~~i~~d 290 (384)
T PF03237_consen 283 NPIKIYID 290 (384)
T ss_dssp TS--EEEE
T ss_pred CceEEEEc
Confidence 99888885
No 118
>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=29.95 E-value=79 Score=22.81 Aligned_cols=20 Identities=25% Similarity=0.353 Sum_probs=17.9
Q ss_pred HHHHHHHHHHcCCCEEEEee
Q 026881 99 ELQLLEIAQREETDEFIIGL 118 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGL 118 (231)
...|.+.+++.+++.+|+|.
T Consensus 82 ~~~i~~~~~~~~~dlvvig~ 101 (130)
T cd00293 82 AEAILEAAEELGADLIVMGS 101 (130)
T ss_pred HHHHHHHHHHcCCCEEEEcC
Confidence 57899999999999999994
No 119
>PTZ00186 heat shock 70 kDa precursor protein; Provisional
Probab=29.77 E-value=57 Score=33.41 Aligned_cols=20 Identities=35% Similarity=0.469 Sum_probs=18.0
Q ss_pred CceEEEEecCCCeEEEEEec
Q 026881 62 GGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD 81 (231)
.+.++|||+|+..+-+|+.+
T Consensus 26 ~~~viGIDLGTTnS~vA~~~ 45 (657)
T PTZ00186 26 QGDVIGVDLGTTYSCVATMD 45 (657)
T ss_pred cceEEEEEeCcCeEEEEEEe
Confidence 45799999999999999987
No 120
>PLN02757 sirohydrochlorine ferrochelatase
Probab=29.73 E-value=3e+02 Score=22.90 Aligned_cols=57 Identities=12% Similarity=0.153 Sum_probs=32.4
Q ss_pred CCEEEEeecCCCCCCCChhH-HHHHHHHHHHHHHhccCCCcEEEec-CCCcHHHHHHHHHHcCC
Q 026881 111 TDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERGWRVYLLD-EHRTSAEAVDRMINMGL 172 (231)
Q Consensus 111 i~~IVVGLPl~~dGt~s~~~-~~v~~Fa~~L~~~~~~~~lpV~lvD-ER~TT~eA~~~l~e~G~ 172 (231)
...|+|| .||..+.+ ..++++++.|+++.....+.+.|.. ..-|-.+|-+.+.+.|.
T Consensus 14 ~~lllvg-----HGSrd~~a~~~~~~la~~l~~~~~~~~V~~aFle~~~Psl~eal~~l~~~g~ 72 (154)
T PLN02757 14 DGVVIVD-----HGSRRKESNLMLEEFVAMYKQKTGHPIVEPAHMELAEPSIKDAFGRCVEQGA 72 (154)
T ss_pred cEEEEEe-----CCCCCHHHHHHHHHHHHHHHhhCCCCcEEEEEEecCCCCHHHHHHHHHHCCC
Confidence 3567788 78776654 5667777777654321123344554 34455555555555554
No 121
>KOG1220 consensus Phosphoglucomutase/phosphomannomutase [Carbohydrate transport and metabolism]
Probab=29.54 E-value=1.2e+02 Score=31.22 Aligned_cols=50 Identities=24% Similarity=0.313 Sum_probs=35.7
Q ss_pred HHHHHHHcCC---CEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcH
Q 026881 102 LLEIAQREET---DEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (231)
Q Consensus 102 L~~li~e~~i---~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT 160 (231)
|.+.+..... -+||||. ||..+ .++||+..+.-|...|++|++.+|--+|
T Consensus 90 ~a~yl~~~~~~~~~giviG~----D~R~~-----S~~fA~l~a~vf~~~g~~v~lf~~~v~T 142 (607)
T KOG1220|consen 90 LAAYLKNQFPSKNLGIVIGH----DGRYN-----SKRFAELVAAVFLLNGFKVYLFSELVPT 142 (607)
T ss_pred HHHHHHHhCCcccceEEEec----CCccc-----hHHHHHHHHHHHHhCCceEEEeccccCC
Confidence 4444444444 4999995 88887 4778888887776679999999954433
No 122
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=29.29 E-value=45 Score=33.48 Aligned_cols=19 Identities=32% Similarity=0.616 Sum_probs=16.8
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
+.++|||+|+..+-+|+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (627)
T PRK00290 2 GKIIGIDLGTTNSCVAVME 20 (627)
T ss_pred CcEEEEEeCcccEEEEEEE
Confidence 4689999999999999975
No 123
>PF08288 PIGA: PIGA (GPI anchor biosynthesis); InterPro: IPR013234 This domain is found on phosphatidylinositol N-acetylglucosaminyltransferase proteins. These proteins are involved in GPI anchor biosynthesis and are associated with the disease paroxysmal nocturnal haemoglobinuria [].; GO: 0006506 GPI anchor biosynthetic process
Probab=29.02 E-value=2.4e+02 Score=22.02 Aligned_cols=75 Identities=23% Similarity=0.246 Sum_probs=48.0
Q ss_pred cCCCeEEEEEec-Ccee--eeeeeeeccch--h---HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 026881 70 LGLSRTGLALSK-GFCV--RPLTVLKLRGE--K---LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (231)
Q Consensus 70 ~G~kRIGvAvsD-~~~A--~Pl~~i~~~~~--~---~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~ 141 (231)
|| .|+||--.. ++.. -|+.++.+... . ...-++.++..++|+ ||=| .++.|.++.++.--|+
T Consensus 3 yg-~R~GvRyltngLKVYYlP~~~~~~~~t~Pt~~~~~pl~R~IlirE~I~-IVHg-----H~a~S~l~hE~i~hA~--- 72 (90)
T PF08288_consen 3 YG-DRVGVRYLTNGLKVYYLPLKVFYNQCTLPTLFGSFPLLRNILIRERID-IVHG-----HQAFSTLCHEAILHAR--- 72 (90)
T ss_pred CC-CcceeEEcCCCeEEEeecchhhhcCcchHHHHHhhHHHHHHHHHcCee-EEEe-----ehhhhHHHHHHHHHHH---
Confidence 45 678887765 5532 56666643221 1 234677788888887 7777 6777777776533322
Q ss_pred HHhccCCCcEEEecCCC
Q 026881 142 VRAAERGWRVYLLDEHR 158 (231)
Q Consensus 142 ~~~~~~~lpV~lvDER~ 158 (231)
. .|++.++-|.++
T Consensus 73 --~--mGlktVfTDHSL 85 (90)
T PF08288_consen 73 --T--MGLKTVFTDHSL 85 (90)
T ss_pred --h--CCCcEEeecccc
Confidence 2 389999999876
No 124
>PRK14878 UGMP family protein; Provisional
Probab=28.81 E-value=2.9e+02 Score=25.48 Aligned_cols=87 Identities=14% Similarity=0.114 Sum_probs=50.7
Q ss_pred EEEecCCCeEEEEEecC--ceeeeeeeeec-------------cchhHHHHHHHHHHH-----cCCCEEEEeecCCCCCC
Q 026881 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKL-------------RGEKLELQLLEIAQR-----EETDEFIIGLPKSWDGS 125 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~--~~A~Pl~~i~~-------------~~~~~~~~L~~li~e-----~~i~~IVVGLPl~~dGt 125 (231)
||||-=..-+++|+.++ +.+.-..+..+ ..+.+...+++++++ .++|.|.|+.-- |.
T Consensus 1 l~iets~~~~s~al~~~~~i~~~~~~~~~~~~gg~~p~~~~~~h~~~l~~~i~~~l~~a~~~~~did~Iavt~gP---G~ 77 (323)
T PRK14878 1 LGIESTAHTLGVGIVKEDKVLANVRDTYVPEKGGIHPREAAQHHAEVAPELLRKALEKAGISIEDIDAVAVSQGP---GL 77 (323)
T ss_pred CEEecCCcccEEEEEECCEEEEEEEEecccCcCCcCccHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecCC---Cc
Confidence 57777777888888873 22222221110 112233456666665 467999999421 33
Q ss_pred CChhHHHHHHHHHHHHHHhccCCCcEEEecCCCc
Q 026881 126 ETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (231)
Q Consensus 126 ~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~T 159 (231)
.+ .-+....|++.|+..+ ++|++.++....
T Consensus 78 ~~-~lrvg~~~Ak~la~~~---~~p~~~v~h~~~ 107 (323)
T PRK14878 78 GP-ALRVGATAARALALKY---NKPLVPVNHCIA 107 (323)
T ss_pred cc-chHHHHHHHHHHHHHh---CCCccccchHHH
Confidence 32 2244467788888764 789988876433
No 125
>PF12724 Flavodoxin_5: Flavodoxin domain
Probab=28.73 E-value=1.4e+02 Score=23.80 Aligned_cols=39 Identities=21% Similarity=0.218 Sum_probs=24.6
Q ss_pred cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEE
Q 026881 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL 153 (231)
Q Consensus 109 ~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~l 153 (231)
..-|.||+|-|... |... ..+++|++++...+. +.++.+
T Consensus 42 ~~yD~vi~gspiy~-g~~~---~~~~~fi~~~~~~l~--~k~v~~ 80 (143)
T PF12724_consen 42 SDYDAVIFGSPIYA-GRIP---GEMREFIKKNKDNLK--NKKVAL 80 (143)
T ss_pred ccCCEEEEEEEEEC-CcCC---HHHHHHHHHHHHHHc--CCcEEE
Confidence 46788999988885 4433 456677777655443 445543
No 126
>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=27.98 E-value=1.9e+02 Score=26.27 Aligned_cols=87 Identities=15% Similarity=0.136 Sum_probs=47.4
Q ss_pred EEEecCCCeEEEEEecC--ceeeeeeeeeccc-hhHHHHHHHHHHHcC------CCEEEEeecCCCCCCCChhHH---HH
Q 026881 66 LGVDLGLSRTGLALSKG--FCVRPLTVLKLRG-EKLELQLLEIAQREE------TDEFIIGLPKSWDGSETPQSN---KV 133 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~--~~A~Pl~~i~~~~-~~~~~~L~~li~e~~------i~~IVVGLPl~~dGt~s~~~~---~v 133 (231)
|++|+|--+|=+|+.|. .......+..... ..+.+.+.+++++.+ +..+.||.|-..+|..-..+. .+
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 68999999999999872 2111123332111 345667777776542 555777777444443211110 11
Q ss_pred HHHHHHHHHHhccCCC-cEEEecCC
Q 026881 134 RSVAGRLAVRAAERGW-RVYLLDEH 157 (231)
Q Consensus 134 ~~Fa~~L~~~~~~~~l-pV~lvDER 157 (231)
.. +.|++. +++ ||++.|--
T Consensus 81 -~~-~~l~~~---~g~~~V~l~ND~ 100 (316)
T TIGR00749 81 -SI-AELKQN---LGFSHLEIINDF 100 (316)
T ss_pred -CH-HHHHHh---cCCCeEEEEecH
Confidence 22 245554 477 58887763
No 127
>TIGR00619 sbcd exonuclease SbcD. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=27.85 E-value=2.8e+02 Score=24.54 Aligned_cols=53 Identities=13% Similarity=0.143 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhH-HHHHHHHHHHHHHhccCC-CcEEEe
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQS-NKVRSVAGRLAVRAAERG-WRVYLL 154 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~-~~v~~Fa~~L~~~~~~~~-lpV~lv 154 (231)
...++.+++.++++|.|||+==+-.+...+..+ ..+.+|.++|... + +||+++
T Consensus 27 ~l~~l~~~~~~~~~D~lli~GDi~d~~~p~~~~~~~~~~~l~~l~~~----~~i~v~~i 81 (253)
T TIGR00619 27 FLDDLLEFAKAEQIDALLVAGDVFDTANPPAEAQELFNAFFRNLSDA----NPIPIVVI 81 (253)
T ss_pred HHHHHHHHHHHcCCCEEEECCccCCCCCCCHHHHHHHHHHHHHHHhc----CCceEEEE
Confidence 456777888889999888873333233333222 2234555555432 4 888877
No 128
>PRK09165 replicative DNA helicase; Provisional
Probab=27.84 E-value=1.8e+02 Score=28.67 Aligned_cols=58 Identities=14% Similarity=0.187 Sum_probs=38.6
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCC----CChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWDGS----ETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~dGt----~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
...++++..+++++.|||-+--.+... .......+..+.+.|+....+.++||++.-.
T Consensus 330 ~~~ir~l~~~~~~~lvvIDyLqli~~~~~~~~~~r~~ev~~is~~LK~lAkel~ipVi~lsQ 391 (497)
T PRK09165 330 RARARRLKRQHGLDLLVVDYLQLIRGSSKRSSDNRVQEISEITQGLKALAKELNIPVIALSQ 391 (497)
T ss_pred HHHHHHHHHhcCCCEEEEcchHhccCCCCCCCCchHHHHHHHHHHHHHHHHHhCCeEEEeec
Confidence 345666667788999999876444321 1223355777777777665567999998764
No 129
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=27.64 E-value=3.7e+02 Score=22.54 Aligned_cols=17 Identities=6% Similarity=0.014 Sum_probs=11.7
Q ss_pred HHHHHHHHHcCCCEEEE
Q 026881 100 LQLLEIAQREETDEFII 116 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVV 116 (231)
.++.+.+...++|+||+
T Consensus 45 ~~~i~~l~~~~vdgiIi 61 (273)
T cd06292 45 ADYVEDLLARGVRGVVF 61 (273)
T ss_pred HHHHHHHHHcCCCEEEE
Confidence 34445555579999998
No 130
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=27.57 E-value=1.5e+02 Score=22.44 Aligned_cols=53 Identities=13% Similarity=0.137 Sum_probs=34.9
Q ss_pred HHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccc
Q 026881 103 LEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSA 176 (231)
Q Consensus 103 ~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkk 176 (231)
..-+++-+++.|||| -|+.. .+++|++.. . +..| +++|+. +..|...|+.+..
T Consensus 6 ~~~l~~~gv~lv~I~-----~g~~~----~~~~f~~~~--~---~p~~-ly~D~~------~~lY~~lg~~~~~ 58 (115)
T PF13911_consen 6 KPELEAAGVKLVVIG-----CGSPE----GIEKFCELT--G---FPFP-LYVDPE------RKLYKALGLKRGL 58 (115)
T ss_pred HHHHHHcCCeEEEEE-----cCCHH----HHHHHHhcc--C---CCCc-EEEeCc------HHHHHHhCCcccc
Confidence 445566899999999 56542 277787542 1 4677 778883 4466777776543
No 131
>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=27.39 E-value=2.2e+02 Score=21.27 Aligned_cols=60 Identities=18% Similarity=0.232 Sum_probs=36.8
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHH
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMI 168 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~ 168 (231)
+.+.+.+.+++++.|.+..+ .+.....+.++++.+++..+ +++|++=-=.. |...++.+.
T Consensus 41 ~~l~~~~~~~~pd~V~iS~~------~~~~~~~~~~l~~~~k~~~p--~~~iv~GG~~~-t~~~~~~l~ 100 (121)
T PF02310_consen 41 EELVEALRAERPDVVGISVS------MTPNLPEAKRLARAIKERNP--NIPIVVGGPHA-TADPEEILR 100 (121)
T ss_dssp HHHHHHHHHTTCSEEEEEES------SSTHHHHHHHHHHHHHTTCT--TSEEEEEESSS-GHHHHHHHH
T ss_pred HHHHHHHhcCCCcEEEEEcc------CcCcHHHHHHHHHHHHhcCC--CCEEEEECCch-hcChHHHhc
Confidence 67777788889998777633 44455666777777765532 55555544333 344455554
No 132
>PRK12564 carbamoyl phosphate synthase small subunit; Reviewed
Probab=27.32 E-value=89 Score=29.72 Aligned_cols=47 Identities=15% Similarity=0.224 Sum_probs=24.6
Q ss_pred CceEEEEecCCCeEEEEEecCceeeee--eeeeccchhHHHHHHHHHHHcCCCEEEEe
Q 026881 62 GGFSLGVDLGLSRTGLALSKGFCVRPL--TVLKLRGEKLELQLLEIAQREETDEFIIG 117 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~~~A~Pl--~~i~~~~~~~~~~L~~li~e~~i~~IVVG 117 (231)
+.+|+.||+|.|.- +.+.+..... .+++.. . ..+.+ ...++++||+.
T Consensus 177 ~~~I~viD~G~k~n---ivr~L~~~G~~v~vvp~~-~-~~~~i----~~~~~DGIvLS 225 (360)
T PRK12564 177 KYKVVAIDFGVKRN---ILRELAERGCRVTVVPAT-T-TAEEI----LALNPDGVFLS 225 (360)
T ss_pred CCEEEEEeCCcHHH---HHHHHHHCCCEEEEEeCC-C-CHHHH----HhcCCCEEEEe
Confidence 35899999997752 2222211122 222222 1 12233 23589999997
No 133
>TIGR00111 pelota probable translation factor pelota. This model describes the Drosophila protein Pelota, the budding yeast protein DOM34 which it can replace, and a set of closely related archaeal proteins. Members contain a proposed RNA binding motif. The meiotic defect in pelota mutants may be a complex result of a protein translation defect, as suggested in yeast by ribosomal protein RPS30A being a multicopy suppressor and by an altered polyribosome profile in DOM34 mutants rescued by RPS30A. This family is homologous to a family of peptide chain release factors. Pelota is proposed to act in protein translation.
Probab=27.16 E-value=5.3e+02 Score=24.23 Aligned_cols=125 Identities=9% Similarity=0.136 Sum_probs=64.2
Q ss_pred eEEEEecCCCeEEEEEecCce-eeeee-eeeccc---------hhHHHHHHHHHHHc-CCCEEEEeecCCCCCCCChhHH
Q 026881 64 FSLGVDLGLSRTGLALSKGFC-VRPLT-VLKLRG---------EKLELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQSN 131 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD~~~-A~Pl~-~i~~~~---------~~~~~~L~~li~e~-~i~~IVVGLPl~~dGt~s~~~~ 131 (231)
-++.+|-|...||+--+.+.. ..-+. .++.+. .+++.++.+.+..+ ++++|||+=| + .
T Consensus 137 ~~vv~d~g~A~i~ll~~~~~~~~~~i~~~iP~K~~~~~~e~~~~~Ff~~v~~~l~~~~~v~~iIiaGP-------G---f 206 (351)
T TIGR00111 137 AAVVMEEGIAHVGLVRQYSVEEIQKIEYHMPGKKRTLKFGELRKEFYKEIAKKLLNFDDLKTIIVAGP-------G---F 206 (351)
T ss_pred EEEEEeCCcEEEEEEcCCEEEEEEEEEEeCCCCcccchhHHHHHHHHHHHHHHHhhhcccCEEEEECC-------H---H
Confidence 468899999999998777541 11111 122111 13445555545455 7999999922 2 2
Q ss_pred HHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHcccCC
Q 026881 132 KVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFSMSGQ 199 (231)
Q Consensus 132 ~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd~~~~ 199 (231)
.-..|.+.|..+.++.....++.|=+++...+-.-+.+.+.-.+ .-...-..-..-++++|++....
T Consensus 207 ~k~~f~~~l~~~~~~~~~k~ii~~~s~g~~~gl~EvL~~~~v~~-~l~d~k~~~E~~~l~~f~~~l~k 273 (351)
T TIGR00111 207 YKNDFYDFIFERYPEEANKAVLENCSTGGRAGINEVLKRGLVAR-ILQETRYAKEIMVIDEFLEHLAK 273 (351)
T ss_pred HHHHHHHHHHHHhhhhhCCcEEEecCCCchhHHHHHHhChHHHH-HHhhhhHHHHHHHHHHHHHHHhc
Confidence 23556666665543223344555533333333332222221000 11223344456789999987543
No 134
>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=27.15 E-value=4.1e+02 Score=23.61 Aligned_cols=51 Identities=14% Similarity=0.184 Sum_probs=37.0
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
.-++.+..++.++++++|.-|.....+ .+.+.+|.+.+... .++||+++|-
T Consensus 85 ~i~~a~~a~~~Gad~v~v~~P~~~~~s----~~~l~~y~~~ia~~---~~~pi~iYn~ 135 (289)
T PF00701_consen 85 AIELARHAQDAGADAVLVIPPYYFKPS----QEELIDYFRAIADA---TDLPIIIYNN 135 (289)
T ss_dssp HHHHHHHHHHTT-SEEEEEESTSSSCC----HHHHHHHHHHHHHH---SSSEEEEEEB
T ss_pred HHHHHHHHhhcCceEEEEeccccccch----hhHHHHHHHHHHhh---cCCCEEEEEC
Confidence 346666778899999999999765443 24566777777765 4899999986
No 135
>PF02833 DHHA2: DHHA2 domain; InterPro: IPR004097 This domain is called DHHA2 since it is often associated with the DHH domain (IPR001667 from INTERPRO) and is diagnostic of DHH subfamily 2 members []. The domain is about 120 residues long and contains a conserved DXK motif at its amino terminus. It is present in inorganic pyrophosphatases and in exopolyphosphatase of Saccharomyces cerevisiae.; GO: 0016462 pyrophosphatase activity, 0005737 cytoplasm; PDB: 1WPP_A 1K20_A 1I74_A 2HAW_A 1WPN_A 1WPM_B 2IW4_B 1K23_D 2ENX_A 2EB0_A ....
Probab=27.01 E-value=86 Score=24.32 Aligned_cols=60 Identities=20% Similarity=0.241 Sum_probs=37.1
Q ss_pred cchhhhcccccccccCCCCCCceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEe
Q 026881 42 SSVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIG 117 (231)
Q Consensus 42 ~~~~~~~~~~~r~~~~~~~~~g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVG 117 (231)
+|.++++..- +=-+++|..++|++-... .++..+..+...+...+.++.++++.+.+++=
T Consensus 14 ls~~~lL~~D-------------~K~f~~~~~~vgis~v~~---~~~~~~~~~~~~~~~~l~~~~~~~~ld~l~lm 73 (127)
T PF02833_consen 14 LSPEDLLRKD-------------YKEFEFGGKKVGISQVET---MDLEELLSRKDELLEELEEFCEERKLDLLFLM 73 (127)
T ss_dssp S-HHHHTTTT-------------EEEEEETTEEEEEEEEEE---S-HHHHHTTHHHHHHHHHHHHHHTT-SEEEEE
T ss_pred CCHHHHHHhC-------------ceeeecCCeEEEEEeeee---cCHHHHHHHHHHHHHHHHHHHHhCCCCEEEEE
Confidence 4777775544 334556999999998632 22333322224567899999999999977654
No 136
>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=26.80 E-value=1.8e+02 Score=24.87 Aligned_cols=57 Identities=26% Similarity=0.302 Sum_probs=35.7
Q ss_pred ceEEEEecCCCe-----EEEEEecCc-e-eeeeeeeeccc-------hhHHHHHHHHHHHcCC--CEEEEeecC
Q 026881 63 GFSLGVDLGLSR-----TGLALSKGF-C-VRPLTVLKLRG-------EKLELQLLEIAQREET--DEFIIGLPK 120 (231)
Q Consensus 63 g~iLglD~G~kR-----IGvAvsD~~-~-A~Pl~~i~~~~-------~~~~~~L~~li~e~~i--~~IVVGLPl 120 (231)
..+|+||+-|.- +|.|+-++- . .+... ..... .....+|+.+++++++ .-|||=-|.
T Consensus 2 ~~~LslD~STs~~~~~gTG~A~~~~~~~~~~si~-~~~k~Ks~~ER~k~ias~Lk~ii~~~d~~~y~i~IE~~v 74 (159)
T PF07066_consen 2 KKVLSLDFSTSSKKGEGTGWAFFKGSDLVVGSIK-AKHKSKSFFERAKSIASELKTIIQKYDLKFYIIVIEKPV 74 (159)
T ss_pred CeeEEEEEecccCCCCCceeEEecCCeEEEeeee-ecCcccCHHHHHHHHHHHHHHHHHHhCCCcceEEEeccc
Confidence 479999999997 999998642 2 22211 11111 1234688989998854 356666553
No 137
>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]
Probab=26.77 E-value=66 Score=30.52 Aligned_cols=120 Identities=17% Similarity=0.215 Sum_probs=71.0
Q ss_pred EEecCCCeEEEEEecC-c---------eeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHH
Q 026881 67 GVDLGLSRTGLALSKG-F---------CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSV 136 (231)
Q Consensus 67 glD~G~kRIGvAvsD~-~---------~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~F 136 (231)
.+.+..+.||+-+-+- + +|+||..-.....+..+++.+..+--+++.+.==+|..++|... ++| +.
T Consensus 69 ~l~P~~R~iamVFQ~yALyPhmtV~~Niaf~Lk~~~~~k~ei~~rV~eva~~L~l~~lL~r~P~~LSGGQr---QRV-Al 144 (338)
T COG3839 69 DLPPEKRGIAMVFQNYALYPHMTVYENIAFGLKLRGVPKAEIDKRVKEVAKLLGLEHLLNRKPLQLSGGQR---QRV-AL 144 (338)
T ss_pred CCChhHCCEEEEeCCccccCCCcHHHHhhhhhhhCCCchHHHHHHHHHHHHHcCChhHHhcCcccCChhhH---HHH-HH
Confidence 3566667777766542 1 23444332211233456788888877888888888999888764 332 34
Q ss_pred HHHHHHHhccCCCcEEEecCCCcHHHHHHHHHH-cCCCccccC-------CCCcHHHHHHHHHHHHc
Q 026881 137 AGRLAVRAAERGWRVYLLDEHRTSAEAVDRMIN-MGLSKSARQ-------TKTDAYAAVILLERYFS 195 (231)
Q Consensus 137 a~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e-~G~~rkkrK-------~~vD~lAA~IILq~yLd 195 (231)
++.|-. .-.|++.||-+|-..|+-+..- .-+++-.++ -.-|+.-|.-+-.+..=
T Consensus 145 aRAlVr-----~P~v~L~DEPlSnLDa~lR~~mr~ei~~lh~~l~~T~IYVTHDq~EAmtladri~V 206 (338)
T COG3839 145 ARALVR-----KPKVFLLDEPLSNLDAKLRVLMRSEIKKLHERLGTTTIYVTHDQVEAMTLADRIVV 206 (338)
T ss_pred HHHHhc-----CCCEEEecCchhHhhHHHHHHHHHHHHHHHHhcCCcEEEEcCCHHHHHhhCCEEEE
Confidence 455543 4579999999999888655321 111111111 23588888776555443
No 138
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=26.72 E-value=2.8e+02 Score=29.89 Aligned_cols=55 Identities=22% Similarity=0.302 Sum_probs=36.7
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHH-HHHHHHHHHHHhccCCCcEEEecC
Q 026881 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK-VRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 95 ~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~-v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
+.+....|.++.+++++..||||-|. .+.+... -..|+.+|....+ ++.|+.+..
T Consensus 319 ~~dv~~~i~~ya~~~~~TkiViG~~~-----~~rw~~~~~~~l~~~L~~~~~--~idv~ii~~ 374 (890)
T COG2205 319 GGDVAKAIARYAREHNATKIVIGRSR-----RSRWRRLFKGSLADRLAREAP--GIDVHIVAL 374 (890)
T ss_pred CCcHHHHHHHHHHHcCCeeEEeCCCc-----chHHHHHhcccHHHHHHhcCC--CceEEEeeC
Confidence 34556789999999999999999443 3322211 1567777776543 677777754
No 139
>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=26.48 E-value=2.1e+02 Score=23.85 Aligned_cols=19 Identities=21% Similarity=0.314 Sum_probs=14.3
Q ss_pred HHHHHHHHHHcCCCEEEEe
Q 026881 99 ELQLLEIAQREETDEFIIG 117 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVG 117 (231)
...+..++...++++|||-
T Consensus 49 ~~~~~~~~~~~~~dgiii~ 67 (270)
T cd06294 49 LEEVKKMIQQKRVDGFILL 67 (270)
T ss_pred HHHHHHHHHHcCcCEEEEe
Confidence 3567777777889998885
No 140
>COG4126 Hydantoin racemase [Amino acid transport and metabolism]
Probab=26.47 E-value=1.2e+02 Score=27.42 Aligned_cols=40 Identities=20% Similarity=0.300 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY 152 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~ 152 (231)
++....+.+++-+.+.||+| -+.-+ ..+.+|++.+ ++||+
T Consensus 162 l~~~~~~a~~edgAeaIiLG-----CAGms-------~la~~Lq~~~---gvPVI 201 (230)
T COG4126 162 LVIEAAEALKEDGAEAIILG-----CAGMS-------DLADQLQKAF---GVPVI 201 (230)
T ss_pred HHHHHHHHhhhcCCCEEEEc-----CccHH-------HHHHHHHHHh---CCCcc
Confidence 34456666777788888888 22222 2256677663 77764
No 141
>PRK13411 molecular chaperone DnaK; Provisional
Probab=26.10 E-value=57 Score=33.16 Aligned_cols=19 Identities=32% Similarity=0.618 Sum_probs=16.8
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
+.++|||+|+..+=+|+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (653)
T PRK13411 2 GKVIGIDLGTTNSCVAVLE 20 (653)
T ss_pred CcEEEEEeCcccEEEEEEE
Confidence 4699999999999999965
No 142
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=26.06 E-value=1.5e+02 Score=29.20 Aligned_cols=55 Identities=20% Similarity=0.365 Sum_probs=40.4
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE--EecCC
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDEH 157 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~--lvDER 157 (231)
++...++.++++++++|.+|.| |--..|.++.+|-.+ ++.+++. .++|++ ++-|.
T Consensus 62 eea~~~i~~mv~k~~pDv~iaG-PaFNagrYG~acg~v---a~aV~e~---~~IP~vtaMy~EN 118 (431)
T TIGR01917 62 EEAKAKVLEMIKGANPDIFIAG-PAFNAGRYGMAAGAI---TKAVQDE---LGIKAFTAMYEEN 118 (431)
T ss_pred HHHHHHHHHHHHhcCCCEEEEc-CccCCccHHHHHHHH---HHHHHHh---hCCCeEEEecccC
Confidence 3445789999999999999999 544479999888776 4445554 378875 44563
No 143
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=25.78 E-value=1.6e+02 Score=29.14 Aligned_cols=55 Identities=20% Similarity=0.248 Sum_probs=40.5
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE--EecCC
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY--LLDEH 157 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~--lvDER 157 (231)
++...++.++++++++|.+|.| |--..|.++.+|-.+ ++.+++. .++|++ ++-|.
T Consensus 62 eea~~~i~~mv~k~~pDv~iaG-PaFNagrYG~acg~v---a~aV~e~---~~IP~vt~My~EN 118 (431)
T TIGR01918 62 EEAVARVLEMLKDKEPDIFIAG-PAFNAGRYGVACGEI---CKVVQDK---LNVPAVTSMYVEN 118 (431)
T ss_pred HHHHHHHHHHHHhcCCCEEEEc-CccCCccHHHHHHHH---HHHHHHh---hCCCeEEEecccC
Confidence 3455789999999999999999 544479999888776 4445554 378875 44564
No 144
>COG0079 HisC Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]
Probab=25.58 E-value=1.5e+02 Score=27.79 Aligned_cols=52 Identities=17% Similarity=0.243 Sum_probs=36.3
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCc
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~T 159 (231)
+.+...+.+ +++.|+|..|-|+.|+.-.. ..+++|++.+. .--++.+||.|-
T Consensus 136 ~~~~~~~~~-~~~lv~i~nPNNPTG~~~~~-~~l~~l~~~~~------~~~~vVvDEAY~ 187 (356)
T COG0079 136 DAILAAIRD-KTKLVFLCNPNNPTGTLLPR-EELRALLEALP------EGGLVVIDEAYI 187 (356)
T ss_pred HHHHHhhhc-CCCEEEEeCCCCCCCCCCCH-HHHHHHHHhCC------CCcEEEEeCchh
Confidence 455555555 89999999999999988654 44555555443 124788999873
No 145
>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]
Probab=25.54 E-value=2.5e+02 Score=25.28 Aligned_cols=104 Identities=16% Similarity=0.201 Sum_probs=64.5
Q ss_pred CCeEEEEEecC-c---------eeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHH
Q 026881 72 LSRTGLALSKG-F---------CVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLA 141 (231)
Q Consensus 72 ~kRIGvAvsD~-~---------~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~ 141 (231)
+++||+-+-|- + .|.|+.++-....+.-.++.+.++.-+...=.=-+|..++|.+.....-+| .+-
T Consensus 78 RR~IGvVFQD~rLL~~~tvyeNVA~pL~v~G~~~~~i~~rV~~~L~~VgL~~k~~~lP~~LSGGEQQRvaIAR----AiV 153 (223)
T COG2884 78 RRQIGVVFQDFRLLPDRTVYENVALPLRVIGKPPREIRRRVSEVLDLVGLKHKARALPSQLSGGEQQRVAIAR----AIV 153 (223)
T ss_pred hheeeeEeeeccccccchHhhhhhhhhhccCCCHHHHHHHHHHHHHHhccchhhhcCccccCchHHHHHHHHH----HHc
Confidence 57899999882 1 478888885443334445555554333333333478888888764433332 222
Q ss_pred HHhccCCCcEEEecCCCcHHHHHHHHHHcCCCccccCCCCcHHHHHHHHHHHHcccCCCCccc
Q 026881 142 VRAAERGWRVYLLDEHRTSAEAVDRMINMGLSKSARQTKTDAYAAVILLERYFSMSGQGTEIV 204 (231)
Q Consensus 142 ~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~rkkrK~~vD~lAA~IILq~yLd~~~~~~~~~ 204 (231)
. .-++.+-||- -+++|.--|+-|++-|-+-...|+..+
T Consensus 154 ~-----~P~vLlADEP--------------------TGNLDp~~s~~im~lfeeinr~GtTVl 191 (223)
T COG2884 154 N-----QPAVLLADEP--------------------TGNLDPDLSWEIMRLFEEINRLGTTVL 191 (223)
T ss_pred c-----CCCeEeecCC--------------------CCCCChHHHHHHHHHHHHHhhcCcEEE
Confidence 1 3468888982 357888888888887776666665444
No 146
>cd01016 TroA Metal binding protein TroA. These proteins have been shown to function as initial receptors in ABC transport of Zn2+ and possibly Fe3+ in many eubacterial species. The TroA proteins belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=25.50 E-value=2.7e+02 Score=24.91 Aligned_cols=43 Identities=2% Similarity=0.019 Sum_probs=34.1
Q ss_pred CCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcC
Q 026881 125 SETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMG 171 (231)
Q Consensus 125 t~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G 171 (231)
...+..+.+.++.+.+++. +++++|+++.+++..|+.+..+.|
T Consensus 191 ~~eps~~~l~~l~~~ik~~----~v~~if~e~~~~~~~~~~l~~~~~ 233 (276)
T cd01016 191 DSEAGLRDINELVDLIVER----KIKAIFVESSVNQKSIEALQDAVK 233 (276)
T ss_pred ccCCCHHHHHHHHHHHHHc----CCCEEEEeCCCCHHHHHHHHHHHh
Confidence 3345578888888888764 899999999999999888866543
No 147
>COG1433 Uncharacterized conserved protein [Function unknown]
Probab=25.45 E-value=3.5e+02 Score=21.91 Aligned_cols=54 Identities=22% Similarity=0.343 Sum_probs=39.0
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcC
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMG 171 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G 171 (231)
-.+.+++.+++++.||++ ..++.+.. .|+. .++.|+..++ .|..+|-+.+.+..
T Consensus 55 ~~~a~~l~~~gvdvvi~~-------~iG~~a~~------~l~~----~GIkv~~~~~-~~V~e~i~~~~~g~ 108 (121)
T COG1433 55 IRIAELLVDEGVDVVIAS-------NIGPNAYN------ALKA----AGIKVYVAPG-GTVEEAIKAFLEGE 108 (121)
T ss_pred HHHHHHHHHcCCCEEEEC-------ccCHHHHH------HHHH----cCcEEEecCC-CCHHHHHHHHhcCC
Confidence 368899999999999998 23332222 3554 3899999988 88888887776543
No 148
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=25.28 E-value=1.5e+02 Score=21.70 Aligned_cols=48 Identities=29% Similarity=0.368 Sum_probs=31.6
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHH
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVD 165 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~ 165 (231)
..+.+++.+++++.||+| + .++. ....|+.+ ++.++..++ .+-.+|-+
T Consensus 53 ~~~~~~l~~~~v~~vi~~-----~--iG~~------~~~~l~~~----gI~v~~~~~-~~i~~vl~ 100 (103)
T cd00851 53 GKAAEFLADEGVDVVIVG-----G--IGPR------ALNKLRNA----GIKVYKGAE-GTVEEAIE 100 (103)
T ss_pred hHHHHHHHHcCCCEEEeC-----C--CCcC------HHHHHHHC----CCEEEEcCC-CCHHHHHH
Confidence 457777777999999998 2 2211 23345543 899998887 56555544
No 149
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=25.06 E-value=66 Score=32.67 Aligned_cols=21 Identities=29% Similarity=0.513 Sum_probs=17.8
Q ss_pred CCceEEEEecCCCeEEEEEec
Q 026881 61 RGGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 61 ~~g~iLglD~G~kRIGvAvsD 81 (231)
..+.++|||+|+..+=+|+.+
T Consensus 2 ~~~~~iGIDlGTt~s~va~~~ 22 (653)
T PTZ00009 2 TKGPAIGIDLGTTYSCVGVWK 22 (653)
T ss_pred CcccEEEEEeCcccEEEEEEe
Confidence 346799999999999999875
No 150
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=24.97 E-value=3.7e+02 Score=26.31 Aligned_cols=69 Identities=17% Similarity=0.188 Sum_probs=44.2
Q ss_pred hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCC-CcEEEe-cCCCc----HHHHHHHHHH
Q 026881 96 EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERG-WRVYLL-DEHRT----SAEAVDRMIN 169 (231)
Q Consensus 96 ~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~-lpV~lv-DER~T----T~eA~~~l~e 169 (231)
+...++|+.+++++++..|++. |.+.+.--+.+.+|++.|.++ + +.+.+. .-|.+ +.+--+.|.+
T Consensus 225 e~Vv~Ei~~l~~~~gv~~~~~~-----Dd~f~~~~~~~~~l~~~l~~~----~~l~i~w~~~~r~~~i~~d~ell~~l~~ 295 (497)
T TIGR02026 225 KKFVDEIEWLVRTHGVGFFILA-----DEEPTINRKKFQEFCEEIIAR----NPISVTWGINTRVTDIVRDADILHLYRR 295 (497)
T ss_pred HHHHHHHHHHHHHcCCCEEEEE-----ecccccCHHHHHHHHHHHHhc----CCCCeEEEEecccccccCCHHHHHHHHH
Confidence 4567889999999999988886 555443345678888888764 3 555442 22322 2344556777
Q ss_pred cCCC
Q 026881 170 MGLS 173 (231)
Q Consensus 170 ~G~~ 173 (231)
+|..
T Consensus 296 aG~~ 299 (497)
T TIGR02026 296 AGLV 299 (497)
T ss_pred hCCc
Confidence 7753
No 151
>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=24.97 E-value=2.4e+02 Score=23.98 Aligned_cols=42 Identities=21% Similarity=0.132 Sum_probs=24.2
Q ss_pred HHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 100 LQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 100 ~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
..+...+..+++|+||+- |.+. +. .+.+.+.+ .++||+++|-
T Consensus 45 ~~~~~~l~~~~vdgvi~~-~~~~----~~------~~~~~l~~----~~iPvv~~~~ 86 (269)
T cd06297 45 RYLESTTLAYLTDGLLLA-SYDL----TE------RLAERRLP----TERPVVLVDA 86 (269)
T ss_pred HHHHHHHHhcCCCEEEEe-cCcc----Ch------HHHHHHhh----cCCCEEEEcc
Confidence 344455667889999996 3322 11 12344443 2778877773
No 152
>CHL00094 dnaK heat shock protein 70
Probab=24.93 E-value=60 Score=32.68 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=17.0
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
+.++|||+|+..+-+|+.+
T Consensus 2 ~~viGIDlGTt~s~va~~~ 20 (621)
T CHL00094 2 GKVVGIDLGTTNSVVAVME 20 (621)
T ss_pred CceEEEEeCcccEEEEEEE
Confidence 4699999999999999976
No 153
>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.
Probab=24.73 E-value=1.8e+02 Score=23.64 Aligned_cols=58 Identities=21% Similarity=0.137 Sum_probs=28.8
Q ss_pred HHHHHHHHHHH-cCCCEEEEeecCCCCC-CCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 98 LELQLLEIAQR-EETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 98 ~~~~L~~li~e-~~i~~IVVGLPl~~dG-t~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
..+.+.+.+.+ ++++.|||=.=....+ ..... ..+.+|...|++...++++.|+++..
T Consensus 128 ~~~~l~~~~~~~~~~~lvviD~l~~~~~~~~~~~-~~~~~~~~~l~~la~~~~~~vi~v~H 187 (193)
T PF13481_consen 128 DLEELEAALKELYGPDLVVIDPLQSLHDGDENSN-SAVAQLMQELKRLAKEYGVAVILVHH 187 (193)
T ss_dssp HHHHHHHHHTT----SEEEEE-GGGG--S-TT-H-HHHHHHHHHHHHHHHHH--EEEEEEE
T ss_pred HHHHHHHHHhhcCCCcEEEEcCHHHHhcCCCCCH-HHHHHHHHHHHHHHHHcCCEEEEEEC
Confidence 34677888877 7899888873333322 22222 22356666666543345788877753
No 154
>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=24.48 E-value=5.4e+02 Score=23.40 Aligned_cols=84 Identities=15% Similarity=0.096 Sum_probs=50.8
Q ss_pred EEEecCCCeEEEEEecC---ceeeeeee-----------eec-----cchhHHHHHHHHHHH-----cCCCEEEEeecCC
Q 026881 66 LGVDLGLSRTGLALSKG---FCVRPLTV-----------LKL-----RGEKLELQLLEIAQR-----EETDEFIIGLPKS 121 (231)
Q Consensus 66 LglD~G~kRIGvAvsD~---~~A~Pl~~-----------i~~-----~~~~~~~~L~~li~e-----~~i~~IVVGLPl~ 121 (231)
||||=-...+++|+.|. +++.-... ++. ..+.+...+.+++++ ..++.|+|+.=
T Consensus 1 LaidTs~~~~sval~~~~~~il~~~~~~~~~~~~~~gGi~p~~~~~~H~~~l~~~i~~~l~~~~~~~~did~iav~~G-- 78 (305)
T TIGR00329 1 LGIETSCDDTGVAIVDEEGNVLANIKISQIPLHAKYGGVVPEEASRHHAENIPPLLERALIESNVDKSEIDLIAYTQG-- 78 (305)
T ss_pred CEEecCccceEEEEEECCCcEEEEEEecccccccccCCcCcchhHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEecC--
Confidence 68898999999999874 22211100 010 122344456666655 35799999831
Q ss_pred CCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 122 WDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 122 ~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
-|+.+. .+..-.+|+.|...+ ++|++.++.
T Consensus 79 -PG~~tg-lrvg~~~Ak~la~~~---~~p~~~v~h 108 (305)
T TIGR00329 79 -PGLGGS-LRVGATFARSLALSL---DKPLIGVNH 108 (305)
T ss_pred -CCchhh-HHHHHHHHHHHHHHh---CCCEeeccc
Confidence 134333 344567888888763 899999864
No 155
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=24.37 E-value=3.3e+02 Score=25.22 Aligned_cols=63 Identities=11% Similarity=0.215 Sum_probs=36.0
Q ss_pred HHHHHHH-HHcCCCEEEEeecCCCCCCCCh-hHHHHHHHHHHHHHHhccCCCcEEEec------CCCcHHHHHHHHHHc
Q 026881 100 LQLLEIA-QREETDEFIIGLPKSWDGSETP-QSNKVRSVAGRLAVRAAERGWRVYLLD------EHRTSAEAVDRMINM 170 (231)
Q Consensus 100 ~~L~~li-~e~~i~~IVVGLPl~~dGt~s~-~~~~v~~Fa~~L~~~~~~~~lpV~lvD------ER~TT~eA~~~l~e~ 170 (231)
+.+++++ +..+++.||||.=..- |.... -....++ +.+ .++..|+.++ ++.||..-++.+.+.
T Consensus 103 ~Fi~~~l~~~l~~~~iVvG~Df~F-G~~~~G~~~~L~~----~~~---~~g~~v~~v~~~~~~~~~ISST~IR~~I~~G 173 (305)
T PRK05627 103 EFIEDLLVKGLNAKHVVVGFDFRF-GKKRAGDFELLKE----AGK---EFGFEVTIVPEVKEDGERVSSTAIRQALAEG 173 (305)
T ss_pred HHHHHHHHhccCCCEEEECCCCCC-CCCCCCCHHHHHH----HHH---HcCcEEEEeccEecCCCcCchHHHHHHHHcC
Confidence 4566644 4589999999954432 22111 1122222 222 2366666664 689999888887653
No 156
>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=24.37 E-value=1.5e+02 Score=25.88 Aligned_cols=18 Identities=39% Similarity=0.619 Sum_probs=16.3
Q ss_pred eEEEEecCCCeEEEEEec
Q 026881 64 FSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 64 ~iLglD~G~kRIGvAvsD 81 (231)
.++|||.|+..|=.++.|
T Consensus 1 ~~lGIDiGtts~K~vl~d 18 (248)
T TIGR00241 1 ISLGIDSGSTTTKMVLME 18 (248)
T ss_pred CEEEEEcChhheEEEEEc
Confidence 378999999999999988
No 157
>PF00155 Aminotran_1_2: Aminotransferase class I and II 1-aminocyclopropane-1-carboxylate synthase signature aspartate aminotransferase signature; InterPro: IPR004839 Aminotransferases share certain mechanistic features with other pyridoxal-phosphate dependent enzymes, such as the covalent binding of the pyridoxal-phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into class I and class II. This entry includes proteins from both subfamilies.; GO: 0016769 transferase activity, transferring nitrogenous groups, 0030170 pyridoxal phosphate binding, 0009058 biosynthetic process; PDB: 3NRA_B 3P6K_B 3OP7_A 3ASB_A 3ASA_A 1W7M_A 3FVX_A 1W7N_A 3FVU_B 3FVS_A ....
Probab=24.34 E-value=1.7e+02 Score=26.17 Aligned_cols=57 Identities=18% Similarity=0.135 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHc-----CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcH
Q 026881 98 LELQLLEIAQRE-----ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (231)
Q Consensus 98 ~~~~L~~li~e~-----~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT 160 (231)
....|.+.+++. ++..|++--|-++.|..=+ ....+++++..++ +++ ++++||.|..
T Consensus 131 d~~~l~~~l~~~~~~~~~~~~v~~~~p~nPtG~~~~-~~~l~~l~~~~~~----~~~-~ii~De~y~~ 192 (363)
T PF00155_consen 131 DPEALEEALDELPSKGPRPKAVLICNPNNPTGSVLS-LEELRELAELARE----YNI-IIIVDEAYSD 192 (363)
T ss_dssp THHHHHHHHHTSHTTTETEEEEEEESSBTTTTBB---HHHHHHHHHHHHH----TTS-EEEEEETTTT
T ss_pred cccccccccccccccccccceeeecccccccccccc-cccccchhhhhcc----ccc-ceeeeeceec
Confidence 456788888775 5678999999999997533 2444555555543 244 4558887765
No 158
>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=24.08 E-value=2.8e+02 Score=24.05 Aligned_cols=45 Identities=11% Similarity=0.115 Sum_probs=31.8
Q ss_pred CCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCC
Q 026881 124 GSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGL 172 (231)
Q Consensus 124 Gt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~ 172 (231)
....+..+.+.++.+.+++. ++++++.+...++..++.+-.+.|+
T Consensus 179 ~~~~ps~~~l~~l~~~ik~~----~v~~i~~e~~~~~~~~~~la~~~g~ 223 (256)
T PF01297_consen 179 PGEEPSPKDLAELIKLIKEN----KVKCIFTEPQFSSKLAEALAKETGV 223 (256)
T ss_dssp SSSSS-HHHHHHHHHHHHHT----T-SEEEEETTS-THHHHHHHHCCT-
T ss_pred cccCCCHHHHHHHHHHhhhc----CCcEEEecCCCChHHHHHHHHHcCC
Confidence 34456678888888888764 8999999998888888777666664
No 159
>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=24.06 E-value=1.2e+02 Score=24.28 Aligned_cols=30 Identities=23% Similarity=0.259 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCC
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSET 127 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s 127 (231)
....|.+.+++.++..||+.+..+..|..+
T Consensus 44 ~i~~L~~ri~~~~i~EVIlA~~pt~EGe~T 73 (112)
T cd01025 44 NIDKLLERIAKGQVKEVILATNPTVEGEAT 73 (112)
T ss_pred CHHHHHHHHhcCCCcEEEEecCCCchHHHH
Confidence 357888888889999999999888887654
No 160
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=23.99 E-value=5.6e+02 Score=23.41 Aligned_cols=112 Identities=21% Similarity=0.195 Sum_probs=60.5
Q ss_pred CCCeEEEEEecC---c------------eeeeeeeeeccc---hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHH
Q 026881 71 GLSRTGLALSKG---F------------CVRPLTVLKLRG---EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNK 132 (231)
Q Consensus 71 G~kRIGvAvsD~---~------------~A~Pl~~i~~~~---~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~ 132 (231)
-+.-||+.+.+- . ....+.++-.+. .+....+.+.+.++++|+||+=- -..+
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-----~~~~----- 126 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLG-----ERPN----- 126 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEec-----CCCC-----
Confidence 566778877641 1 124444443222 23445677788889999999861 1111
Q ss_pred HHHHHHHHHHHhccCCCcEEEecCCCc--------------HHHHHHHHHHcCCCcccc-CCCCcHHHHHHHHHHHHccc
Q 026881 133 VRSVAGRLAVRAAERGWRVYLLDEHRT--------------SAEAVDRMINMGLSKSAR-QTKTDAYAAVILLERYFSMS 197 (231)
Q Consensus 133 v~~Fa~~L~~~~~~~~lpV~lvDER~T--------------T~eA~~~l~e~G~~rkkr-K~~vD~lAA~IILq~yLd~~ 197 (231)
..+.+.+.+. ++|++++|.... ..+|-+.|.+.|.++--- -...|..++..=++.|.+..
T Consensus 127 -~~~~~~l~~~----~~P~V~i~~~~~~~~~~~V~~Dn~~~~~~a~~~L~~~G~~~i~~i~~~~~~~~~~~R~~Gf~~al 201 (333)
T COG1609 127 -DSLLELLAAA----GIPVVVIDRSPPGLGVPSVGIDNFAGAYLATEHLIELGHRRIAFIGGPLDSSASRERLEGYRAAL 201 (333)
T ss_pred -HHHHHHHHhc----CCCEEEEeCCCccCCCCEEEEChHHHHHHHHHHHHHCCCceEEEEeCCCccccHhHHHHHHHHHH
Confidence 1233344432 677777765333 455666777776432110 11225555566677777654
No 161
>PRK11175 universal stress protein UspE; Provisional
Probab=23.72 E-value=1.8e+02 Score=25.57 Aligned_cols=53 Identities=8% Similarity=-0.017 Sum_probs=31.3
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
.....|.+.++++++|.||+|- .|...-.....-..+.+|-.. ..+||.++-+
T Consensus 94 ~~~~~i~~~a~~~~~DLiV~G~----~~~~~~~~~~~gs~~~~l~~~---~~~pvlvv~~ 146 (305)
T PRK11175 94 RPFEAIIQEVIAGGHDLVVKMT----HQHDKLESVIFTPTDWHLLRK---CPCPVLMVKD 146 (305)
T ss_pred CcHHHHHHHHHhcCCCEEEEeC----CCCcHHHhhccChhHHHHHhc---CCCCEEEecc
Confidence 3457789999999999999993 232211111111223444433 3688888865
No 162
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=23.61 E-value=5.2e+02 Score=24.19 Aligned_cols=68 Identities=13% Similarity=0.055 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcC
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMG 171 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G 171 (231)
....|+.+...-+++.|+|-++ |........++..++.+++. . .+.||+.+-.-....+++++|.+.|
T Consensus 298 ~~~al~~l~~dp~vd~ilv~i~----gg~~~~~~va~~i~~a~~~~-~-~~kPvvv~~~g~~~~~~~~~L~~~G 365 (386)
T TIGR01016 298 VREALKLVLSDKSVKVVFINIF----GGITRCDLVAKGLVEALKEV-G-VNVPVVVRLEGTNVEEGKKILAESG 365 (386)
T ss_pred HHHHHHHHHcCCCCCEEEEECC----CCCCCHHHHHHHHHHHHHhc-C-CCCcEEEEeCCccHHHHHHHHHHcC
Confidence 3456666777789999998655 22222233334444434331 0 1378765554445567788788888
No 163
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=23.55 E-value=5.3e+02 Score=24.62 Aligned_cols=71 Identities=7% Similarity=-0.008 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHHcCCCc
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMINMGLSK 174 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e~G~~r 174 (231)
....|+.+...-+++.|+|-++ .| .......++..++.+++. ..+.||+.+-.-....+++++|.+.|+.-
T Consensus 298 ~~~aL~~ll~Dp~VdaVlv~i~---gg-i~~~~~vA~~Ii~a~~~~--~~~kPvvv~l~G~~~e~~~~iL~~~Gipv 368 (392)
T PRK14046 298 VAKAFRLVLSDRNVKAILVNIF---AG-INRCDWVAEGVVQAAREV--GIDVPLVVRLAGTNVEEGRKILAESGLPI 368 (392)
T ss_pred HHHHHHHHHcCCCCCEEEEEcC---CC-CCCHHHHHHHHHHHHHhc--CCCCcEEEEcCCCCHHHHHHHHHHcCCCe
Confidence 3456666777789999998766 23 222223333334333321 13678755543345667777788888643
No 164
>PRK08760 replicative DNA helicase; Provisional
Probab=23.50 E-value=2.6e+02 Score=27.48 Aligned_cols=57 Identities=12% Similarity=0.155 Sum_probs=35.9
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCC--CCCChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWD--GSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~d--Gt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
...++++..+.+++.|||=+=-.+. |........+....+.|+....++++||+..=
T Consensus 328 ~~~~r~l~~~~~~~lVvIDyLql~~~~~~~~~r~~ei~~Isr~LK~lAkel~ipVi~ls 386 (476)
T PRK08760 328 RSKCRRLKREHDLGLIVIDYLQLMSVPGNSENRATEISEISRSLKGLAKELNVPVIALS 386 (476)
T ss_pred HHHHHHHHHhcCCCEEEEecHHhcCCCCCCcccHHHHHHHHHHHHHHHHHhCCEEEEee
Confidence 3456666667789989987654443 22223345566666776665555689988764
No 165
>PRK14457 ribosomal RNA large subunit methyltransferase N; Provisional
Probab=23.46 E-value=3.4e+02 Score=25.57 Aligned_cols=88 Identities=14% Similarity=0.007 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEE---Eec----CCCcHHH---HHHHH
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVY---LLD----EHRTSAE---AVDRM 167 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~---lvD----ER~TT~e---A~~~l 167 (231)
+.+.+.++..+.+ ..|.+=+|+=.+=+.+ ...++++++.|+.. + ..+.++ -+. ++.|..+ ..+.|
T Consensus 241 l~~~~~~y~~~~g-r~I~iey~LIpGvNDs--~e~a~~La~~l~~l-~-~~VnLIPynp~~~~~~~~ps~e~i~~f~~~L 315 (345)
T PRK14457 241 LLEDCRHYVAITG-RRVSFEYILLGGVNDL--PEHAEELANLLRGF-Q-SHVNLIPYNPIDEVEFQRPSPKRIQAFQRVL 315 (345)
T ss_pred HHHHHHHHHHHhC-CEEEEEEEEECCcCCC--HHHHHHHHHHHhcC-C-CeEEEecCCCCCCCCCCCCCHHHHHHHHHHH
Confidence 3445555555443 2577777764322222 24445555555432 1 122221 111 2233322 23445
Q ss_pred HHcCCCccccCC-CCcHHHHHHHH
Q 026881 168 INMGLSKSARQT-KTDAYAAVILL 190 (231)
Q Consensus 168 ~e~G~~rkkrK~-~vD~lAA~IIL 190 (231)
...|+.-..|+. =.|-.|||--|
T Consensus 316 ~~~Gi~vtvR~~~G~di~aaCGqL 339 (345)
T PRK14457 316 EQRGVAVSVRASRGLDANAACGQL 339 (345)
T ss_pred HHCCCeEEEeCCCCCchhhccccc
Confidence 566776554443 35777777544
No 166
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=23.31 E-value=3.8e+02 Score=21.15 Aligned_cols=55 Identities=11% Similarity=0.016 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCC---ChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSE---TPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~---s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
...+|.+++ ..+++.|||-+-.|.-+.. ....+.++++++.+++.. .+.+|+++.
T Consensus 37 ~~~~l~~~~-~~~pd~vvl~~G~ND~~~~~~~~~~~~~l~~li~~~~~~~--~~~~vi~~~ 94 (169)
T cd01828 37 LLARLDEDV-ALQPKAIFIMIGINDLAQGTSDEDIVANYRTILEKLRKHF--PNIKIVVQS 94 (169)
T ss_pred HHHHHHHHh-ccCCCEEEEEeeccCCCCCCCHHHHHHHHHHHHHHHHHHC--CCCeEEEEe
Confidence 445666666 6788999988777654332 233344555555555542 367787765
No 167
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=22.98 E-value=2.7e+02 Score=27.51 Aligned_cols=72 Identities=17% Similarity=0.177 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHcCCCEEEEee--cCC--------CCC-------CCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcH
Q 026881 98 LELQLLEIAQREETDEFIIGL--PKS--------WDG-------SETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTS 160 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGL--Pl~--------~dG-------t~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT 160 (231)
....|.++.++++|+.+|||= ||- ..| ....+-+--+.|++.+-++ +++|---...-.+.
T Consensus 51 ~~~~lv~fA~~~~idl~vVGPE~pL~~GvvD~l~~~Gi~vFGPsk~AA~lE~SK~faK~fm~k---~~IPta~y~~f~~~ 127 (428)
T COG0151 51 DHEALVAFAKEKNVDLVVVGPEAPLVAGVVDALRAAGIPVFGPTKAAAQLEGSKAFAKDFMKK---YGIPTAEYEVFTDP 127 (428)
T ss_pred CHHHHHHHHHHcCCCEEEECCcHHHhhhhHHHHHHCCCceeCcCHHHHHHHhhHHHHHHHHHH---cCCCcccccccCCH
Confidence 467899999999999999991 111 011 1122334456788888876 58994444433355
Q ss_pred HHHHHHHHHcCC
Q 026881 161 AEAVDRMINMGL 172 (231)
Q Consensus 161 ~eA~~~l~e~G~ 172 (231)
.+|+..+.+.|.
T Consensus 128 e~a~ayi~~~g~ 139 (428)
T COG0151 128 EEAKAYIDEKGA 139 (428)
T ss_pred HHHHHHHHHcCC
Confidence 667777777553
No 168
>PF14606 Lipase_GDSL_3: GDSL-like Lipase/Acylhydrolase family; PDB: 3SKV_B.
Probab=22.78 E-value=2.2e+02 Score=24.54 Aligned_cols=56 Identities=11% Similarity=0.153 Sum_probs=41.0
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
.....+.+++.+-..+.+|+-.=.| .+.....+.+..|.+.|++.-| +.||+++.-
T Consensus 46 ~le~~~a~~ia~~~a~~~~ld~~~N--~~~~~~~~~~~~fv~~iR~~hP--~tPIllv~~ 101 (178)
T PF14606_consen 46 KLEPEVADLIAEIDADLIVLDCGPN--MSPEEFRERLDGFVKTIREAHP--DTPILLVSP 101 (178)
T ss_dssp S--HHHHHHHHHS--SEEEEEESHH--CCTTTHHHHHHHHHHHHHTT-S--SS-EEEEE-
T ss_pred ccCHHHHHHHhcCCCCEEEEEeecC--CCHHHHHHHHHHHHHHHHHhCC--CCCEEEEec
Confidence 4556888999999999999887666 5666788999999999998754 899998873
No 169
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=22.66 E-value=3.7e+02 Score=20.84 Aligned_cols=56 Identities=14% Similarity=0.159 Sum_probs=23.5
Q ss_pred HHHHHHHHHc--CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 100 LQLLEIAQRE--ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 100 ~~L~~li~e~--~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
.++.+.+++. ++..+++++|...+...........+..+++.++....+..|.++|
T Consensus 67 ~~~i~~i~~~~p~~~ii~~~~~p~~~~~~~~~~~~~n~~l~~~~~~~~~~~~~v~~vd 124 (157)
T cd01833 67 RALIDQMRAANPDVKIIVATLIPTTDASGNARIAEYNAAIPGVVADLRTAGSPVVLVD 124 (157)
T ss_pred HHHHHHHHHhCCCeEEEEEeCCCCCCcchhHHHHHHHHHHHHHHHHHhcCCCCEEEEe
Confidence 3444444444 3445556654433332223333333333333332211124577777
No 170
>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=22.54 E-value=2e+02 Score=25.57 Aligned_cols=51 Identities=16% Similarity=0.136 Sum_probs=37.4
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
..++.+.+++.++++|++.-|....-+ ...+.+|.+.+.+. .++||+++|-
T Consensus 84 ~~~~a~~a~~~G~d~v~~~~P~~~~~~----~~~l~~~~~~ia~~---~~~pi~lYn~ 134 (284)
T cd00950 84 AIELTKRAEKAGADAALVVTPYYNKPS----QEGLYAHFKAIAEA---TDLPVILYNV 134 (284)
T ss_pred HHHHHHHHHHcCCCEEEEcccccCCCC----HHHHHHHHHHHHhc---CCCCEEEEEC
Confidence 346777788899999999999754332 24566777777765 3799999985
No 171
>COG0443 DnaK Molecular chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=22.17 E-value=83 Score=31.70 Aligned_cols=19 Identities=26% Similarity=0.536 Sum_probs=17.8
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
..++|||+|+-.+=||+.+
T Consensus 5 ~~~iGIDlGTTNS~vA~~~ 23 (579)
T COG0443 5 KKAIGIDLGTTNSVVAVMR 23 (579)
T ss_pred ceEEEEEcCCCcEEEEEEe
Confidence 5799999999999999988
No 172
>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=22.05 E-value=3.8e+02 Score=24.96 Aligned_cols=48 Identities=13% Similarity=0.097 Sum_probs=28.5
Q ss_pred ceEEEEecCCCeEEEEEecCceeeeeeeeeccc---hhHHHHHHHHHHHcC
Q 026881 63 GFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRG---EKLELQLLEIAQREE 110 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~---~~~~~~L~~li~e~~ 110 (231)
+..+|||.|...+=+++-|.....-..+++... +...+.|.++.++.+
T Consensus 32 m~~~GIDiGStt~K~Vlld~~~i~~~~~~~tg~~~~~~a~~~l~~~l~~~g 82 (293)
T TIGR03192 32 IITCGIDVGSVSSQAVLVCDGELYGYNSMRTGNNSPDSAKNALQGIMDKIG 82 (293)
T ss_pred cEEEEEEeCchhEEEEEEeCCEEEEEEeecCCCCHHHHHHHHHHHHHHHcC
Confidence 478999999999999998842111122232211 123345666666654
No 173
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=22.01 E-value=97 Score=31.28 Aligned_cols=19 Identities=21% Similarity=0.574 Sum_probs=17.0
Q ss_pred ceEEEEecCCCeEEEEEec
Q 026881 63 GFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD 81 (231)
..++|||+|+....+|+..
T Consensus 19 ~~viGIDlGTT~S~va~~~ 37 (595)
T PRK01433 19 QIAVGIDFGTTNSLIAIAT 37 (595)
T ss_pred ceEEEEEcCcccEEEEEEe
Confidence 4699999999999999975
No 174
>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=21.79 E-value=6.3e+02 Score=23.23 Aligned_cols=89 Identities=13% Similarity=0.190 Sum_probs=49.4
Q ss_pred EEEEecCCCeEEEEEecCceeeeeeeeeccc-hhHHHHHHHHHHHc-CCCEEEEeecCCCCCCCChhHHHHHHHHHHHHH
Q 026881 65 SLGVDLGLSRTGLALSKGFCVRPLTVLKLRG-EKLELQLLEIAQRE-ETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAV 142 (231)
Q Consensus 65 iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~-~~~~~~L~~li~e~-~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~ 142 (231)
.+|||.|...+=+++.|..--.-+..++++. ++..+.|++..... .+..|.+ -|.- ..+|++.+..
T Consensus 2 ~iGiDiGgT~~Kiv~~~~~~~~~f~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~------TGgG------a~k~~~~~~~ 69 (279)
T TIGR00555 2 RIGIDIGGTLIKVVYEEPKGRRKFKTFETTNIDKFIEWLKNQIHRHSRITTLCA------TGGG------AFKFAELIYE 69 (279)
T ss_pred eEEEEeCcceEEEEEEcCCCcEEEEEeecccHHHHHHHHHHHHHhhcCceEEEE------ECCc------HHHHHHHhcc
Confidence 5899999999999998631111134444433 22223333322211 1222222 2332 2456666665
Q ss_pred HhccCCCcEEEecCCCcHHHHHHHHH
Q 026881 143 RAAERGWRVYLLDEHRTSAEAVDRMI 168 (231)
Q Consensus 143 ~~~~~~lpV~lvDER~TT~eA~~~l~ 168 (231)
. +++++...||=-+...+-+.+.
T Consensus 70 ~---~~v~~~k~dE~~a~~~g~~~ll 92 (279)
T TIGR00555 70 S---AGIQLHKFDEFDALIQGLNYLL 92 (279)
T ss_pred c---cCCcccchhHHHHHHHHHHHHh
Confidence 4 3678888999777777776663
No 175
>PRK07179 hypothetical protein; Provisional
Probab=21.50 E-value=2.9e+02 Score=25.54 Aligned_cols=52 Identities=17% Similarity=0.208 Sum_probs=34.4
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCc
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRT 159 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~T 159 (231)
.+.|.+.+++.....|+|--|.++.|...+. +.+.++ . ++ +++ ++++||.++
T Consensus 170 ~~~l~~~l~~~~~~lV~v~~v~n~tG~i~pl-~~I~~l---~-~~---~~~-~livDea~~ 221 (407)
T PRK07179 170 VDHLRRQIERHGPGIIVVDSVYSTTGTIAPL-ADIVDI---A-EE---FGC-VLVVDESHS 221 (407)
T ss_pred HHHHHHHHHhcCCeEEEECCCCCCCCccccH-HHHHHH---H-HH---cCC-EEEEECccc
Confidence 4567777776667778887788899988774 233222 2 22 243 678899886
No 176
>KOG0968 consensus DNA polymerase zeta, catalytic subunit [Replication, recombination and repair]
Probab=21.47 E-value=2.9e+02 Score=30.98 Aligned_cols=105 Identities=11% Similarity=0.102 Sum_probs=59.7
Q ss_pred CcccccccccchhhhcccccccccCCCCCC--ceEEEEecC--------CCeEEEEEec---Ccee---------eeeee
Q 026881 33 NFGQRIGALSSVEEFLPNATRRKKDSLWRG--GFSLGVDLG--------LSRTGLALSK---GFCV---------RPLTV 90 (231)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~--g~iLglD~G--------~kRIGvAvsD---~~~A---------~Pl~~ 90 (231)
..++.+ .++|+|..---+---.+||.+-. .-.++++=- ..++||+|.| ...+ ....+
T Consensus 653 ~~~~~L-t~lsiElha~sr~dl~PDP~~D~V~~l~~~vq~dtp~pd~~si~~~gv~Vv~~~~~ds~~~t~~~~~~~~~~V 731 (1488)
T KOG0968|consen 653 EQTQLL-TILSIELHATSRGDLEPDPVFDSVASLFLCVQEDTPMPDADSIVSVGVIVVDKVCPDSHVQTTTLGGIYGCRV 731 (1488)
T ss_pred ccccee-eeeeeeccccccCCCCCCcccccchhhhhhhccCCCCCcccceeeeeEEEEeccCccccccccccCCcCCceE
Confidence 344443 35588876333322234454422 233444433 7799999998 2111 22233
Q ss_pred eeccc-hhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHH
Q 026881 91 LKLRG-EKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRL 140 (231)
Q Consensus 91 i~~~~-~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L 140 (231)
....+ .+++.++.+++..|.+| |++|+=.+ +++-|-..+++..+.-.|
T Consensus 732 ~~~~sE~elf~ev~~~i~q~DPD-Il~GyEi~-~~SWGyl~eR~~~l~~di 780 (1488)
T KOG0968|consen 732 VVMESELELFEEVAKLIVQYDPD-ILLGYEIH-NLSWGYLIERAKLLGIDI 780 (1488)
T ss_pred EEehhHHHHHHHHHHHHHhcCcc-eeeeeeec-ccchHHHHHHHHHhcchH
Confidence 33333 35788999999999997 67898877 466665555544444333
No 177
>cd00642 GTP_cyclohydro1 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In vertebrates and insects it is the biosynthtic precursor of tetrahydrobiopterin (BH4) which is involved in the formation of catacholamines, nitric oxide, and the stimulation of T lymphocytes. The biosynthetic reaction of BH4 is controlled by a regulatory protein GFRP which mediates feedback inhibition of GTP-CH-I by BH4. This inhibition is reversed by phenylalanine. The decameric GTP-CH-I forms a complex with two pentameric GFRP in the presence of phenylalanine or a combination of GTP and BH4, respectively.
Probab=21.38 E-value=61 Score=28.17 Aligned_cols=41 Identities=24% Similarity=0.135 Sum_probs=32.7
Q ss_pred cCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHHHHHH
Q 026881 109 EETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVDRMIN 169 (231)
Q Consensus 109 ~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~~l~e 169 (231)
|-+++-|+| .|..++.|+-|+++|+- =||+|...|..+...
T Consensus 91 YiP~~~ViG--------LSKl~RiV~~~arRlQi------------QERLt~qIa~al~~~ 131 (185)
T cd00642 91 YIPKDKVIG--------LSKLARIVEFFSRRLQV------------QERLTKQIAVAIQEI 131 (185)
T ss_pred EecCCeeee--------HHHHHHHHHHHhcCchH------------HHHHHHHHHHHHHHh
Confidence 667788888 67888999999888873 389999999877654
No 178
>cd04724 Tryptophan_synthase_alpha Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both strongly stimulated by the formation of the complex. The alpha subunit catalyzes the cleavage of indole 3-glycerol phosphate (IGP) to indole and d-glyceraldehyde 3-phosphate (G3P). Indole is then channeled to the active site of the beta subunit, a PLP-dependent enzyme that catalyzes a replacement reaction to convert L-serine into L-tryptophan.
Probab=21.29 E-value=3.2e+02 Score=24.07 Aligned_cols=54 Identities=17% Similarity=0.261 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecC---CCCCCCChhHH-----------HHHHHHHHHHHHhccCCCcEEE
Q 026881 97 KLELQLLEIAQREETDEFIIGLPK---SWDGSETPQSN-----------KVRSVAGRLAVRAAERGWRVYL 153 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl---~~dGt~s~~~~-----------~v~~Fa~~L~~~~~~~~lpV~l 153 (231)
+.+.+..+-+++.++|.|=+|.|. -+||..=+.+. ..-++.+.+++. .++|+++
T Consensus 14 ~~~~~~~~~l~~~Gad~iel~iPfsdPv~DG~~I~~a~~~al~~g~~~~~~~~~~~~vr~~---~~~pv~l 81 (242)
T cd04724 14 ETTLEILKALVEAGADIIELGIPFSDPVADGPVIQAASERALANGVTLKDVLELVKEIRKK---NTIPIVL 81 (242)
T ss_pred HHHHHHHHHHHHCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHhhc---CCCCEEE
Confidence 344455555666799999999999 66776544322 455566666543 3678665
No 179
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=21.16 E-value=85 Score=31.70 Aligned_cols=20 Identities=25% Similarity=0.503 Sum_probs=17.5
Q ss_pred CceEEEEecCCCeEEEEEec
Q 026881 62 GGFSLGVDLGLSRTGLALSK 81 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD 81 (231)
...++|||+|+..+-||+.+
T Consensus 18 ~~~~iGIDlGTt~s~va~~~ 37 (616)
T PRK05183 18 RRLAVGIDLGTTNSLVATVR 37 (616)
T ss_pred CCeEEEEEeccccEEEEEEE
Confidence 35799999999999999975
No 180
>PRK05595 replicative DNA helicase; Provisional
Probab=21.06 E-value=2.9e+02 Score=26.49 Aligned_cols=57 Identities=14% Similarity=0.175 Sum_probs=37.1
Q ss_pred HHHHHHHHHHcCCCEEEEeecCCCCCCC--ChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 99 ELQLLEIAQREETDEFIIGLPKSWDGSE--TPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 99 ~~~L~~li~e~~i~~IVVGLPl~~dGt~--s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
...++++..+.+++.|||=+=-.|.++. ......+....+.|+....+.++||+..-
T Consensus 300 ~~~~r~~~~~~~~~~vvIDylql~~~~~~~~~r~~~v~~is~~LK~lAke~~i~vi~ls 358 (444)
T PRK05595 300 RSKCRRLKIEHGIDMILIDYLQLMSGGKGSESRQQEVSEISRSIKALAKEMECPVIALS 358 (444)
T ss_pred HHHHHHHHHhcCCCEEEEeHHHhccCCCCCccHHHHHHHHHHHHHHHHHHhCCeEEEee
Confidence 3456666667789999987654554322 23345566777777765555799998763
No 181
>TIGR00696 wecB_tagA_cpsF bacterial polymer biosynthesis proteins, WecB/TagA/CpsF family. The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.
Probab=21.05 E-value=5.2e+02 Score=21.92 Aligned_cols=59 Identities=17% Similarity=0.160 Sum_probs=42.0
Q ss_pred chhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHHHHHH
Q 026881 95 GEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSAEAVD 165 (231)
Q Consensus 95 ~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~eA~~ 165 (231)
+.++...|.+.....+....++| |++. .+.+.+++|++++| ++.|.-.+=.++..+..+
T Consensus 33 G~dl~~~l~~~~~~~~~~vfllG------~~~~----v~~~~~~~l~~~yP--~l~i~g~~g~f~~~~~~~ 91 (177)
T TIGR00696 33 GPDLMEELCQRAGKEKLPIFLYG------GKPD----VLQQLKVKLIKEYP--KLKIVGAFGPLEPEERKA 91 (177)
T ss_pred hHHHHHHHHHHHHHcCCeEEEEC------CCHH----HHHHHHHHHHHHCC--CCEEEEECCCCChHHHHH
Confidence 34566778887778888899999 4443 45667888888876 788877777776554433
No 182
>PF10747 DUF2522: Protein of unknown function (DUF2522); InterPro: IPR019683 This entry represents the Sporulation inhibitor of replication (sirA) family of proteins from Bacillus sp. Induction of sporulation in rapidly growing cells inhibits replication; this is thought to be through the action of SirA protein and independent of phosphorylated Spo0A; however SirA protein synthesis is induced by Spo0A [].
Probab=20.99 E-value=61 Score=27.22 Aligned_cols=29 Identities=24% Similarity=0.204 Sum_probs=22.1
Q ss_pred chhhhcccccccccCCCCCCceEEEEecCCCeEEE
Q 026881 43 SVEEFLPNATRRKKDSLWRGGFSLGVDLGLSRTGL 77 (231)
Q Consensus 43 ~~~~~~~~~~r~~~~~~~~~g~iLglD~G~kRIGv 77 (231)
+.|-.+-+++|.- .++.||+|++.++.|.
T Consensus 106 ~aet~~FevLrk~------~~~FlAvd~~~~ryGW 134 (142)
T PF10747_consen 106 DAETDFFEVLRKI------SPCFLAVDFENKRYGW 134 (142)
T ss_pred HHHHHHHHHHHhC------CCceEEEecCCCcccC
Confidence 5666666777633 3699999999999995
No 183
>PF08821 CGGC: CGGC domain; InterPro: IPR014925 Proteins in this entry are a quite highly conserved sequence of CGGC in its central region. The region has many conserved cysteines and histidines suggestive of a zinc binding function.
Probab=20.96 E-value=2.8e+02 Score=21.91 Aligned_cols=52 Identities=10% Similarity=0.082 Sum_probs=35.5
Q ss_pred hHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEE
Q 026881 97 KLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYL 153 (231)
Q Consensus 97 ~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~l 153 (231)
.+...++++. +++++.|-++-=...+ ...+.+..+..+++.|++.+ +++|+.
T Consensus 53 ~~~~~~~~l~-~~~~d~IHlssC~~~~-~~~~~CP~~~~~~~~I~~~~---gi~VV~ 104 (107)
T PF08821_consen 53 KLVRRIKKLK-KNGADVIHLSSCMVKG-NPHGPCPHIDEIKKIIEEKF---GIEVVE 104 (107)
T ss_pred HHHHHHHHHH-HCCCCEEEEcCCEecC-CCCCCCCCHHHHHHHHHHHh---CCCEee
Confidence 4555566665 8999999988444432 22226677888888898864 788874
No 184
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=20.81 E-value=3.4e+02 Score=21.95 Aligned_cols=50 Identities=20% Similarity=0.263 Sum_probs=27.7
Q ss_pred HHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 101 QLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 101 ~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
.+.+.+++.++..|+++.|...... ....+.++.+.+++...+.+ +.++|
T Consensus 99 ~lv~~~~~~~~~vili~~pp~~~~~---~~~~~~~~~~~~~~~a~~~~--~~~id 148 (200)
T cd01829 99 ELLNVARAKGVPVIWVGLPAMRSPK---LSADMVYLNSLYREEVAKAG--GEFVD 148 (200)
T ss_pred HHHHHHHhCCCcEEEEcCCCCCChh---HhHHHHHHHHHHHHHHHHcC--CEEEE
Confidence 3444455678888999987643322 23444555555554433233 66666
No 185
>PRK13331 pantothenate kinase; Reviewed
Probab=20.47 E-value=4e+02 Score=24.12 Aligned_cols=21 Identities=24% Similarity=0.180 Sum_probs=19.0
Q ss_pred CceEEEEecCCCeEEEEEecC
Q 026881 62 GGFSLGVDLGLSRTGLALSKG 82 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~ 82 (231)
..++|+||.|..+|=+++-++
T Consensus 6 ~~~~L~iDiGNT~~~~g~f~~ 26 (251)
T PRK13331 6 SNEWLALMIGNSRLHWGYFSG 26 (251)
T ss_pred CCcEEEEEeCCCcEEEEEEEC
Confidence 468999999999999999885
No 186
>TIGR03275 methan_mark_8 putative methanogenesis marker protein 8. Members of this protein family, to date, are found in a completed prokaryotic genome if and only if the species is one of the archaeal methanogens. The exact function is unknown, but likely is linked to methanogenesis or a process closely connected to it.
Probab=20.45 E-value=55 Score=30.10 Aligned_cols=56 Identities=14% Similarity=0.259 Sum_probs=36.8
Q ss_pred CceEEEEecCCCeEEEEEecCceeeeeeeeeccchhHHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHH
Q 026881 62 GGFSLGVDLGLSRTGLALSKGFCVRPLTVLKLRGEKLELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKV 133 (231)
Q Consensus 62 ~g~iLglD~G~kRIGvAvsD~~~A~Pl~~i~~~~~~~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v 133 (231)
.|...|++.|-|||+|-+.+.. ...+|+++-.+.+++.+++| .|..|-..+-++.+
T Consensus 153 ~Gv~~Aie~Gyk~IaVTv~~~~--------------~a~~iRe~e~~~~~~~~if~--VHtTGis~eea~~~ 208 (259)
T TIGR03275 153 KGVEKAIELGYKKIAVTVADAE--------------DAKAIRELESESGIDIIIFA--VHTTGIDREDAEEV 208 (259)
T ss_pred HHHHHHHHcCCceEEEEecCHH--------------HHHHHHHhccccCCcEEEEE--EECCCCCHHHHHHH
Confidence 3555678889999988876432 23456666667788999999 45556544444443
No 187
>TIGR01312 XylB D-xylulose kinase. D-xylulose kinase (XylB) generally is found with xylose isomerase (XylA) and acts in xylose utilization.
Probab=20.40 E-value=1.9e+02 Score=27.45 Aligned_cols=16 Identities=44% Similarity=0.603 Sum_probs=15.2
Q ss_pred EEEecCCCeEEEEEec
Q 026881 66 LGVDLGLSRTGLALSK 81 (231)
Q Consensus 66 LglD~G~kRIGvAvsD 81 (231)
||||+|+..+=+++.|
T Consensus 1 lgIDiGtt~ik~~l~d 16 (481)
T TIGR01312 1 LGIDLGTSGVKALLVD 16 (481)
T ss_pred CceeecCcceEEEEEC
Confidence 5899999999999999
No 188
>cd00338 Ser_Recombinase Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and serine recombinase. Serine recombinases demonstrate functional versatility and include resolvases, invertases, integrases, and transposases. Resolvases and invertases (i.e. Tn3, gamma-delta, Tn5044 resolvases, Gin and Hin invertases) in this family contain a C-terminal DNA binding domain and comprise a major phylogenic group. Also included are phage- and bacterial-encoded recombinases such as phiC31 integrase, SpoIVCA excisionase, and Tn4451 TnpX transposase. These integrases and transposases have larger C-terminal domains compared to resolvases/invertases and are referred to as large serine recombinases. Also belonging to this family are protei
Probab=20.36 E-value=2.7e+02 Score=21.18 Aligned_cols=56 Identities=14% Similarity=0.044 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHcCCCEEEEeecCCCCCCCChhHHHHHHHHHHHHHHhccCCCcEEEecCCCcHH
Q 026881 98 LELQLLEIAQREETDEFIIGLPKSWDGSETPQSNKVRSVAGRLAVRAAERGWRVYLLDEHRTSA 161 (231)
Q Consensus 98 ~~~~L~~li~e~~i~~IVVGLPl~~dGt~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDER~TT~ 161 (231)
.+.++.+.++...++.|||--+-...-+. ..+..|.+.|.. .++.|+.+++.+.+.
T Consensus 53 ~~~~ll~~~~~~~~d~ivv~~~~Rl~R~~----~~~~~~~~~l~~----~gi~l~~~~~~~~~~ 108 (137)
T cd00338 53 GLQRLLADVKAGKIDVVLVEKLDRLSRNL----VDLLELLELLEA----HGVRVVTADGEIDLD 108 (137)
T ss_pred HHHHHHHHHHcCCCCEEEEEecchhhCCH----HHHHHHHHHHHH----CCCEEEEecCCcccC
Confidence 45666677777789999998655442222 244456666654 389999999776653
No 189
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=20.32 E-value=4.3e+02 Score=24.96 Aligned_cols=57 Identities=14% Similarity=0.132 Sum_probs=34.6
Q ss_pred HHHHHHHHHc-CCCEEEEeecCCCCC-CCChhHHHHHHHHHHHHHHhccCCCcEEEecC
Q 026881 100 LQLLEIAQRE-ETDEFIIGLPKSWDG-SETPQSNKVRSVAGRLAVRAAERGWRVYLLDE 156 (231)
Q Consensus 100 ~~L~~li~e~-~i~~IVVGLPl~~dG-t~s~~~~~v~~Fa~~L~~~~~~~~lpV~lvDE 156 (231)
..++++..++ +++.|||=+=-.+.+ ........+..+.+.|+....++++||+..-.
T Consensus 294 ~~~r~~~~~~~~~~lvvIDyLql~~~~~~~~~~~~~~~i~~~Lk~lAke~~i~Vi~lsQ 352 (421)
T TIGR03600 294 SIARRIKRKKGGLDLIVVDYIQLMAPTRGRDRNEELGGISRGLKALAKELDVPVVLLAQ 352 (421)
T ss_pred HHHHHHHHhcCCCCEEEEecccccCCCCCCCHHHHHHHHHHHHHHHHHHhCCcEEEecc
Confidence 3444454455 688888876433433 22334456667777777655557899987753
No 190
>PTZ00340 O-sialoglycoprotein endopeptidase-like protein; Provisional
Probab=20.22 E-value=4.5e+02 Score=25.00 Aligned_cols=85 Identities=13% Similarity=0.128 Sum_probs=0.0
Q ss_pred ceEEEEecCCCeEEEEEec---Cceee--------------eeeeeeccchhHHHHHHHHHHH-----cCCCEEEEeecC
Q 026881 63 GFSLGVDLGLSRTGLALSK---GFCVR--------------PLTVLKLRGEKLELQLLEIAQR-----EETDEFIIGLPK 120 (231)
Q Consensus 63 g~iLglD~G~kRIGvAvsD---~~~A~--------------Pl~~i~~~~~~~~~~L~~li~e-----~~i~~IVVGLPl 120 (231)
..+||||==...+++|+.| .+++. |-.......+.+..-+.+++++ ..++.|.|.
T Consensus 1 ~~iLgIETScd~tsvAl~~~~~~il~~~~~sq~~~~G~GvvP~~a~r~H~~~l~~~i~~~l~~a~~~~~did~Iavt--- 77 (345)
T PTZ00340 1 FLALGIEGSANKLGVGIVTSDGEILSNVRETYITPPGTGFLPRETAQHHREHILSLVKEALEEAKITPSDISLICYT--- 77 (345)
T ss_pred CeEEEEEccchhhEEEEEECCCcEEEEEEeeccccCCCCcCchHHHHHHHHHHHHHHHHHHHHcCCCHHHCCEEEEe---
Q ss_pred CCCCCCC-hhHHHHHHHHHHHHHHhccCCCcEEEec
Q 026881 121 SWDGSET-PQSNKVRSVAGRLAVRAAERGWRVYLLD 155 (231)
Q Consensus 121 ~~dGt~s-~~~~~v~~Fa~~L~~~~~~~~lpV~lvD 155 (231)
.|=-. .--+---.||+.|+..+ ++|++-++
T Consensus 78 --~GPGl~~~LrVG~~~Ak~LA~a~---~~PligV~ 108 (345)
T PTZ00340 78 --KGPGMGAPLSVGAVVARTLSLLW---GKPLVGVN 108 (345)
T ss_pred --cCCCcHhhHHHHHHHHHHHHHHc---CCCEeecc
Done!