Query psy8530
Match_columns 68
No_of_seqs 108 out of 390
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 21:18:21 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8530.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8530hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1344|consensus 99.8 8.7E-21 1.9E-25 139.6 5.1 66 2-67 258-324 (324)
2 PF00850 Hist_deacetyl: Histon 99.0 5.1E-10 1.1E-14 81.4 4.8 49 2-50 250-299 (311)
3 COG0123 AcuC Deacetylases, inc 98.9 5.3E-09 1.2E-13 78.1 6.9 47 2-48 249-296 (340)
4 PTZ00063 histone deacetylase; 98.7 5.2E-08 1.1E-12 75.3 6.6 42 2-47 260-302 (436)
5 PTZ00346 histone deacetylase; 98.6 1.1E-07 2.4E-12 73.4 6.8 43 2-48 278-321 (429)
6 KOG1342|consensus 97.1 0.00075 1.6E-08 52.6 4.1 43 2-48 262-305 (425)
7 TIGR00732 dprA DNA protecting 79.1 5.7 0.00012 28.0 4.9 33 23-55 86-122 (220)
8 KOG1343|consensus 78.8 6 0.00013 33.4 5.6 55 3-60 699-755 (797)
9 cd00344 FBP_aldolase_I Fructos 77.2 4.1 8.8E-05 31.2 3.9 38 14-51 232-269 (328)
10 TIGR00729 ribonuclease H, mamm 75.8 6.9 0.00015 27.1 4.5 41 5-50 132-175 (206)
11 COG1363 FrvX Cellulase M and r 74.1 5.7 0.00012 30.4 4.0 28 24-51 273-300 (355)
12 COG0703 AroK Shikimate kinase 71.7 8.1 0.00017 26.9 4.0 30 16-46 54-83 (172)
13 cd06545 GH18_3CO4_chitinase Th 71.2 17 0.00038 25.3 5.7 43 22-64 47-98 (253)
14 COG3355 Predicted transcriptio 70.4 3.7 8E-05 27.4 2.0 50 18-68 24-74 (126)
15 PRK03743 pdxA 4-hydroxythreoni 69.3 23 0.00051 26.9 6.3 53 13-65 178-240 (332)
16 COG3588 Fructose-1,6-bisphosph 68.8 7.6 0.00016 29.9 3.6 36 15-50 233-268 (332)
17 cd00147 cPLA2_like Cytosolic p 68.3 12 0.00027 29.3 4.8 47 19-67 15-73 (438)
18 COG4136 ABC-type uncharacteriz 67.6 6 0.00013 28.5 2.7 18 24-41 175-192 (213)
19 COG1179 Dinucleotide-utilizing 66.9 4 8.7E-05 30.5 1.8 27 25-51 137-163 (263)
20 PRK09856 fructoselysine 3-epim 66.4 23 0.00049 24.4 5.4 37 25-61 94-132 (275)
21 cd06557 KPHMT-like Ketopantoat 66.4 12 0.00026 27.2 4.1 49 15-63 50-103 (254)
22 PRK00015 rnhB ribonuclease HII 65.5 6.3 0.00014 27.5 2.5 46 5-51 130-178 (197)
23 PF13730 HTH_36: Helix-turn-he 65.3 7.3 0.00016 20.9 2.3 17 50-66 39-55 (55)
24 TIGR01544 HAD-SF-IE haloacid d 63.8 8.4 0.00018 28.4 3.0 29 24-53 127-155 (277)
25 cd07182 RNaseH_typeII_bacteria 63.3 7 0.00015 26.7 2.3 45 5-50 111-158 (179)
26 cd04240 AAK_UC AAK_UC: Unchara 63.2 16 0.00035 25.2 4.1 23 24-46 13-36 (203)
27 PRK13926 ribonuclease HII; Pro 62.2 11 0.00025 26.6 3.3 43 5-48 132-177 (207)
28 PF02421 FeoB_N: Ferrous iron 61.5 15 0.00033 24.7 3.7 22 20-41 91-112 (156)
29 TIGR03282 methan_mark_13 putat 59.8 30 0.00066 26.8 5.4 35 32-67 102-137 (352)
30 KOG1325|consensus 59.7 17 0.00038 29.7 4.3 44 18-63 14-75 (571)
31 cd07202 cPLA2_Grp-IVC Group IV 59.7 21 0.00045 28.4 4.6 48 18-67 16-70 (430)
32 PRK05377 fructose-1,6-bisphosp 59.6 5.3 0.00011 30.3 1.3 23 29-51 227-249 (296)
33 PRK00311 panB 3-methyl-2-oxobu 58.8 12 0.00027 27.3 3.1 47 17-63 55-106 (264)
34 TIGR01019 sucCoAalpha succinyl 58.0 24 0.00053 25.9 4.5 37 24-64 77-113 (286)
35 cd00755 YgdL_like Family of ac 57.8 9 0.0002 27.2 2.2 25 24-48 117-141 (231)
36 PF07287 DUF1446: Protein of u 57.7 31 0.00068 26.4 5.2 40 20-63 57-96 (362)
37 PLN02954 phosphoserine phospha 56.9 19 0.00041 23.9 3.5 30 24-54 90-119 (224)
38 smart00518 AP2Ec AP endonuclea 56.6 42 0.00092 23.1 5.3 37 24-60 87-124 (273)
39 TIGR02717 AcCoA-syn-alpha acet 56.4 28 0.00062 26.7 4.8 41 24-64 78-120 (447)
40 PRK05678 succinyl-CoA syntheta 56.3 29 0.00063 25.6 4.7 22 25-46 80-101 (291)
41 cd06279 PBP1_LacI_like_3 Ligan 55.9 40 0.00087 22.8 5.0 40 25-64 70-115 (283)
42 TIGR01668 YqeG_hyp_ppase HAD s 55.6 25 0.00053 23.1 3.9 22 27-48 122-143 (170)
43 PF01261 AP_endonuc_2: Xylose 55.5 47 0.001 21.0 5.1 24 20-43 70-93 (213)
44 cd00949 FBP_aldolase_I_bact Fr 55.4 6.2 0.00013 29.9 1.1 22 29-50 224-245 (292)
45 cd07201 cPLA2_Grp-IVB-IVD-IVE- 55.1 20 0.00043 29.2 3.9 47 19-67 26-84 (541)
46 TIGR02328 conserved hypothetic 54.9 56 0.0012 21.9 5.4 55 12-66 43-119 (120)
47 PF01726 LexA_DNA_bind: LexA D 54.8 4.9 0.00011 23.4 0.4 51 18-68 3-58 (65)
48 TIGR00213 GmhB_yaeD D,D-heptos 54.7 45 0.00097 21.7 5.0 19 26-44 34-52 (176)
49 PF13463 HTH_27: Winged helix 54.1 11 0.00024 20.6 1.7 18 50-67 32-49 (68)
50 TIGR00122 birA_repr_reg BirA b 53.4 23 0.00051 19.9 3.1 36 7-47 16-53 (69)
51 COG4359 Uncharacterized conser 53.2 14 0.0003 27.0 2.5 18 26-43 81-98 (220)
52 cd06295 PBP1_CelR Ligand bindi 52.9 45 0.00097 22.2 4.8 40 25-64 78-124 (275)
53 PRK09552 mtnX 2-hydroxy-3-keto 52.6 16 0.00035 24.5 2.7 19 25-43 81-99 (219)
54 COG0299 PurN Folate-dependent 52.4 37 0.00079 24.5 4.5 24 23-46 39-62 (200)
55 PF10881 DUF2726: Protein of u 52.1 23 0.00049 22.2 3.1 30 17-46 84-114 (126)
56 TIGR00179 murB UDP-N-acetyleno 51.8 17 0.00037 26.4 2.8 21 25-46 27-47 (284)
57 TIGR00515 accD acetyl-CoA carb 51.8 25 0.00055 26.0 3.8 28 20-47 141-169 (285)
58 PRK05312 pdxA 4-hydroxythreoni 51.6 75 0.0016 24.3 6.3 53 13-65 182-245 (336)
59 PF03129 HGTP_anticodon: Antic 50.7 15 0.00032 21.4 2.0 17 26-42 44-60 (94)
60 PF03932 CutC: CutC family; I 50.6 43 0.00093 23.6 4.6 40 25-64 41-85 (201)
61 cd06273 PBP1_GntR_like_1 This 50.6 40 0.00087 22.2 4.3 40 25-64 69-115 (268)
62 cd06282 PBP1_GntR_like_2 Ligan 50.2 59 0.0013 21.2 5.0 39 26-64 71-115 (266)
63 PRK15116 sulfur acceptor prote 50.1 20 0.00042 26.3 2.9 26 24-49 136-161 (268)
64 PRK01060 endonuclease IV; Prov 49.9 66 0.0014 22.2 5.4 24 23-46 91-114 (281)
65 cd01012 YcaC_related YcaC rela 49.8 34 0.00074 22.0 3.8 26 16-41 18-43 (157)
66 PRK05654 acetyl-CoA carboxylas 49.7 19 0.00041 26.8 2.8 26 21-46 143-169 (292)
67 COG1082 IolE Sugar phosphate i 49.7 79 0.0017 21.4 5.8 37 26-62 89-133 (274)
68 PRK13600 putative ribosomal pr 49.1 19 0.0004 22.3 2.3 17 25-41 46-62 (84)
69 PF00274 Glycolytic: Fructose- 48.9 50 0.0011 25.5 5.1 38 14-51 229-266 (348)
70 cd07200 cPLA2_Grp-IVA Group IV 48.6 20 0.00043 28.9 2.9 28 19-46 15-56 (505)
71 PRK13210 putative L-xylulose 5 48.5 87 0.0019 21.5 6.2 23 21-43 94-116 (284)
72 cd07180 RNaseH_typeII_Archaea_ 48.4 38 0.00082 23.4 4.0 41 5-50 131-174 (204)
73 COG1654 BirA Biotin operon rep 48.3 22 0.00048 21.7 2.6 40 3-46 18-59 (79)
74 PF10557 Cullin_Nedd8: Cullin 48.2 15 0.00033 21.2 1.7 24 44-68 39-62 (68)
75 PRK13209 L-xylulose 5-phosphat 47.9 91 0.002 21.5 6.0 22 22-43 100-121 (283)
76 PRK10563 6-phosphogluconate ph 47.8 46 0.001 22.0 4.3 21 27-47 172-192 (221)
77 TIGR02853 spore_dpaA dipicolin 47.8 40 0.00087 24.4 4.2 36 27-62 248-286 (287)
78 cd06660 Aldo_ket_red Aldo-keto 47.5 15 0.00034 25.2 2.0 23 25-47 183-207 (285)
79 cd06296 PBP1_CatR_like Ligand- 47.2 62 0.0013 21.3 4.8 39 26-64 70-116 (270)
80 COG0132 BioD Dethiobiotin synt 47.1 56 0.0012 23.4 4.8 35 17-51 147-181 (223)
81 PF12738 PTCB-BRCT: twin BRCT 46.8 15 0.00033 20.1 1.5 13 27-39 48-60 (63)
82 PF01202 SKI: Shikimate kinase 46.6 59 0.0013 20.9 4.5 33 17-50 45-77 (158)
83 cd02871 GH18_chitinase_D-like 46.6 51 0.0011 23.9 4.6 40 26-65 65-110 (312)
84 cd00860 ThrRS_anticodon ThrRS 46.5 23 0.00051 20.0 2.4 18 26-43 43-60 (91)
85 PF13380 CoA_binding_2: CoA bi 46.5 27 0.00058 21.9 2.8 30 24-53 69-98 (116)
86 cd05014 SIS_Kpsf KpsF-like pro 46.2 26 0.00057 21.2 2.7 33 12-44 52-84 (128)
87 TIGR03637 cas1_YPEST CRISPR-as 46.2 18 0.00039 27.0 2.3 21 25-45 58-78 (307)
88 cd03768 SR_ResInv Serine Recom 46.0 62 0.0013 19.6 4.4 24 25-49 75-98 (126)
89 COG1060 ThiH Thiamine biosynth 46.0 34 0.00074 26.2 3.8 40 24-63 202-243 (370)
90 PRK11440 putative hydrolase; P 45.9 41 0.0009 22.2 3.8 26 16-41 30-55 (188)
91 cd01425 RPS2 Ribosomal protein 45.8 21 0.00046 24.4 2.5 21 21-41 137-157 (193)
92 cd01427 HAD_like Haloacid deha 45.7 57 0.0012 18.6 4.1 20 25-44 31-50 (139)
93 TIGR00513 accA acetyl-CoA carb 45.6 54 0.0012 24.8 4.7 32 14-46 132-164 (316)
94 PF12802 MarR_2: MarR family; 45.4 18 0.0004 19.4 1.7 19 50-68 35-53 (62)
95 PF00318 Ribosomal_S2: Ribosom 45.2 22 0.00049 24.7 2.5 20 22-41 154-173 (211)
96 PRK12319 acetyl-CoA carboxylas 45.2 40 0.00087 24.6 3.9 33 14-47 79-112 (256)
97 cd00861 ProRS_anticodon_short 45.0 23 0.0005 20.3 2.2 16 27-42 47-62 (94)
98 cd07181 RNaseH_typeII_eukaryot 45.0 24 0.00052 24.7 2.7 45 5-51 137-187 (216)
99 TIGR03333 salvage_mtnX 2-hydro 45.0 25 0.00055 23.6 2.7 19 25-43 77-95 (214)
100 PRK14987 gluconate operon tran 44.9 77 0.0017 22.0 5.2 40 25-64 133-179 (331)
101 PRK13937 phosphoheptose isomer 44.8 29 0.00062 23.4 2.9 33 13-45 112-144 (188)
102 TIGR00542 hxl6Piso_put hexulos 44.6 75 0.0016 22.1 5.1 21 24-44 97-117 (279)
103 cd06285 PBP1_LacI_like_7 Ligan 44.5 50 0.0011 21.8 4.1 39 26-64 70-113 (265)
104 cd06271 PBP1_AglR_RafR_like Li 44.5 78 0.0017 20.7 4.9 39 26-64 74-119 (268)
105 cd05017 SIS_PGI_PMI_1 The memb 44.5 27 0.00058 21.5 2.6 33 12-44 48-80 (119)
106 TIGR00557 pdxA 4-hydroxythreon 44.3 1.2E+02 0.0026 23.0 6.4 53 13-65 170-233 (320)
107 CHL00174 accD acetyl-CoA carbo 44.1 47 0.001 25.0 4.2 25 20-44 154-179 (296)
108 PF13407 Peripla_BP_4: Peripla 44.0 21 0.00046 23.6 2.2 19 25-43 71-89 (257)
109 PF09994 DUF2235: Uncharacteri 44.0 19 0.00042 25.8 2.1 23 41-63 252-276 (277)
110 cd06299 PBP1_LacI_like_13 Liga 43.7 58 0.0013 21.4 4.2 40 25-64 69-115 (265)
111 PF10087 DUF2325: Uncharacteri 43.7 39 0.00084 20.3 3.2 22 25-46 66-87 (97)
112 PF02481 DNA_processg_A: DNA r 43.6 61 0.0013 22.5 4.5 35 23-57 86-124 (212)
113 CHL00198 accA acetyl-CoA carbo 43.0 43 0.00094 25.5 3.9 32 14-46 135-168 (322)
114 PF01978 TrmB: Sugar-specific 43.0 19 0.0004 20.2 1.6 19 50-68 36-54 (68)
115 PRK05724 acetyl-CoA carboxylas 42.9 1.2E+02 0.0026 23.0 6.3 34 14-48 132-166 (319)
116 PRK00366 ispG 4-hydroxy-3-meth 42.9 11 0.00024 29.3 0.7 26 19-44 115-141 (360)
117 PRK12677 xylose isomerase; Pro 42.8 82 0.0018 24.0 5.4 20 24-43 117-136 (384)
118 PF01047 MarR: MarR family; I 42.6 22 0.00047 19.0 1.7 19 50-68 31-49 (59)
119 smart00460 TGc Transglutaminas 42.6 36 0.00078 18.3 2.7 19 24-42 14-32 (68)
120 PRK08306 dipicolinate synthase 42.4 13 0.00029 27.0 1.1 38 27-64 249-289 (296)
121 PF07085 DRTGG: DRTGG domain; 42.1 19 0.00042 21.8 1.6 22 20-41 71-92 (105)
122 PLN03229 acetyl-coenzyme A car 42.1 1.3E+02 0.0027 25.8 6.7 33 13-46 222-256 (762)
123 TIGR01491 HAD-SF-IB-PSPlk HAD- 41.9 28 0.00061 22.3 2.5 19 25-43 87-105 (201)
124 smart00450 RHOD Rhodanese Homo 41.6 35 0.00076 18.8 2.6 25 22-46 68-92 (100)
125 PRK05299 rpsB 30S ribosomal pr 41.5 26 0.00056 25.5 2.4 21 21-41 167-187 (258)
126 COG0218 Predicted GTPase [Gene 41.4 35 0.00075 24.4 3.0 23 19-41 120-142 (200)
127 smart00729 Elp3 Elongator prot 41.4 80 0.0017 19.7 4.5 43 21-63 136-179 (216)
128 KOG1936|consensus 41.0 23 0.00049 28.8 2.2 17 26-42 464-480 (518)
129 cd00223 TOPRIM_TopoIIB_SPO TOP 40.9 57 0.0012 21.4 3.9 27 24-50 9-39 (160)
130 cd05710 SIS_1 A subgroup of th 40.9 22 0.00047 22.1 1.7 35 11-45 51-85 (120)
131 PLN00125 Succinyl-CoA ligase [ 40.7 71 0.0015 23.8 4.7 24 25-48 84-107 (300)
132 PRK10339 DNA-binding transcrip 40.6 95 0.0021 21.5 5.1 39 26-64 128-173 (327)
133 cd02874 GH18_CFLE_spore_hydrol 40.0 83 0.0018 22.4 4.8 22 23-44 47-68 (313)
134 cd06324 PBP1_ABC_sugar_binding 39.8 86 0.0019 21.7 4.8 42 23-64 71-133 (305)
135 PF02639 DUF188: Uncharacteriz 39.8 37 0.00079 22.4 2.8 39 26-64 2-52 (130)
136 cd07947 DRE_TIM_Re_CS Clostrid 39.7 1.1E+02 0.0024 22.3 5.5 40 11-50 105-144 (279)
137 COG1648 CysG Siroheme synthase 39.6 78 0.0017 22.2 4.6 43 23-65 86-151 (210)
138 PF01522 Polysacc_deac_1: Poly 39.6 26 0.00057 20.8 1.9 30 20-49 17-46 (123)
139 PRK11572 copper homeostasis pr 39.3 83 0.0018 23.1 4.8 38 27-64 43-86 (248)
140 cd05008 SIS_GlmS_GlmD_1 SIS (S 39.3 24 0.00052 21.3 1.7 35 11-45 50-84 (126)
141 cd01483 E1_enzyme_family Super 39.2 45 0.00097 20.9 3.0 25 23-47 103-127 (143)
142 PRK10826 2-deoxyglucose-6-phos 39.0 30 0.00065 23.1 2.3 40 27-66 178-221 (222)
143 TIGR01684 viral_ppase viral ph 39.0 41 0.00088 25.5 3.2 28 14-45 146-173 (301)
144 PRK01909 pdxA 4-hydroxythreoni 38.6 1.6E+02 0.0035 22.4 6.4 53 13-65 173-236 (329)
145 KOG2707|consensus 38.6 94 0.002 24.7 5.2 43 19-63 288-331 (405)
146 PF00009 GTP_EFTU: Elongation 38.4 28 0.0006 22.7 2.0 25 17-41 105-129 (188)
147 PRK12311 rpsB 30S ribosomal pr 38.3 32 0.00069 26.1 2.6 20 22-41 163-182 (326)
148 COG4445 MiaE Hydroxylase for s 38.1 25 0.00055 25.3 1.9 28 24-51 76-103 (203)
149 TIGR00441 gmhA phosphoheptose 38.1 26 0.00056 22.8 1.8 33 11-43 83-115 (154)
150 PRK10014 DNA-binding transcrip 38.1 99 0.0021 21.4 4.9 40 25-64 135-181 (342)
151 TIGR01011 rpsB_bact ribosomal 38.0 32 0.0007 24.4 2.4 20 22-41 166-185 (225)
152 PRK11543 gutQ D-arabinose 5-ph 37.9 41 0.00088 23.9 3.0 35 12-46 94-128 (321)
153 COG0052 RpsB Ribosomal protein 37.8 40 0.00087 25.1 3.0 27 21-47 166-192 (252)
154 PRK03371 pdxA 4-hydroxythreoni 37.8 1.7E+02 0.0036 22.3 6.3 53 13-65 177-239 (326)
155 PF09497 Med12: Transcription 37.7 31 0.00066 20.5 1.9 17 22-38 41-57 (64)
156 CHL00067 rps2 ribosomal protei 37.6 30 0.00065 24.6 2.2 20 22-41 172-191 (230)
157 PF00205 TPP_enzyme_M: Thiamin 37.6 28 0.00062 21.7 1.9 19 24-42 29-47 (137)
158 PRK00232 pdxA 4-hydroxythreoni 37.3 1.7E+02 0.0037 22.2 6.4 53 13-65 178-240 (332)
159 TIGR02631 xylA_Arthro xylose i 37.3 1.5E+02 0.0032 22.6 6.0 38 24-61 118-161 (382)
160 cd01541 PBP1_AraR Ligand-bindi 37.2 1E+02 0.0022 20.4 4.7 42 23-64 72-120 (273)
161 PF14426 Imm2: Immunity protei 37.0 10 0.00022 22.7 -0.2 24 39-62 7-31 (60)
162 TIGR03134 malonate_gamma malon 36.8 1.6E+02 0.0035 21.2 6.7 35 13-47 44-80 (238)
163 COG1797 CobB Cobyrinic acid a, 36.5 46 0.001 26.7 3.3 33 33-65 283-324 (451)
164 cd04165 GTPBP1_like GTPBP1-lik 36.4 34 0.00073 23.8 2.3 26 16-41 120-145 (224)
165 PF08016 PKD_channel: Polycyst 36.4 30 0.00066 25.9 2.2 42 27-68 105-154 (425)
166 TIGR00789 flhB_rel flhB C-term 36.2 38 0.00083 20.7 2.3 19 21-39 27-45 (82)
167 TIGR03106 trio_M42_hydro hydro 36.1 58 0.0013 24.4 3.6 28 24-51 270-297 (343)
168 cd00019 AP2Ec AP endonuclease 35.8 1.5E+02 0.0032 20.5 6.1 23 24-46 88-110 (279)
169 PRK09484 3-deoxy-D-manno-octul 35.8 45 0.00097 22.1 2.8 24 22-45 52-75 (183)
170 COG4220 Phage DNA packaging pr 35.7 83 0.0018 22.3 4.1 44 18-63 14-57 (174)
171 TIGR01117 mmdA methylmalonyl-C 35.6 1.1E+02 0.0023 24.4 5.2 33 14-47 331-364 (512)
172 PF04187 DUF399: Protein of un 35.5 33 0.00072 23.8 2.1 16 25-40 93-108 (213)
173 PF13242 Hydrolase_like: HAD-h 35.3 64 0.0014 18.1 3.1 24 27-50 35-58 (75)
174 KOG2517|consensus 35.3 55 0.0012 26.5 3.6 34 16-49 393-428 (516)
175 COG2266 GTP:adenosylcobinamide 35.2 34 0.00073 24.2 2.1 27 27-53 56-82 (177)
176 COG0633 Fdx Ferredoxin [Energy 35.1 31 0.00067 21.4 1.8 23 23-45 22-44 (102)
177 COG4108 PrfC Peptide chain rel 35.0 31 0.00068 28.1 2.2 27 15-41 114-140 (528)
178 PRK07535 methyltetrahydrofolat 34.9 1.3E+02 0.0028 21.7 5.1 42 21-62 103-149 (261)
179 cd06270 PBP1_GalS_like Ligand 34.9 95 0.0021 20.5 4.2 38 27-64 71-115 (268)
180 PRK13903 murB UDP-N-acetylenol 34.8 45 0.00097 25.5 2.9 21 25-46 47-67 (363)
181 PLN02306 hydroxypyruvate reduc 34.7 48 0.001 25.3 3.0 39 23-62 98-136 (386)
182 KOG1056|consensus 34.5 45 0.00098 28.7 3.1 27 35-66 124-150 (878)
183 PRK14556 pyrH uridylate kinase 34.4 42 0.00091 24.5 2.6 21 25-45 45-65 (249)
184 PLN03230 acetyl-coenzyme A car 34.3 1.7E+02 0.0036 23.5 6.0 31 14-45 202-234 (431)
185 PRK14851 hypothetical protein; 34.2 48 0.0011 27.3 3.2 24 24-47 150-173 (679)
186 PRK14852 hypothetical protein; 34.0 47 0.001 29.0 3.2 25 24-48 439-463 (989)
187 cd04795 SIS SIS domain. SIS (S 34.0 31 0.00067 19.2 1.5 21 21-41 61-81 (87)
188 TIGR03234 OH-pyruv-isom hydrox 34.0 1.5E+02 0.0033 20.1 5.4 20 25-44 88-107 (254)
189 cd00431 cysteine_hydrolases Cy 33.8 83 0.0018 19.7 3.7 26 16-41 22-47 (161)
190 PF13419 HAD_2: Haloacid dehal 33.7 93 0.002 18.7 3.8 18 26-43 85-102 (176)
191 cd01545 PBP1_SalR Ligand-bindi 33.7 1E+02 0.0022 20.2 4.2 40 25-64 71-117 (270)
192 PF02641 DUF190: Uncharacteriz 33.5 38 0.00082 20.9 2.0 26 24-49 23-50 (101)
193 TIGR01889 Staph_reg_Sar staphy 33.5 42 0.0009 20.6 2.2 19 50-68 57-75 (109)
194 cd01391 Periplasmic_Binding_Pr 33.2 1.2E+02 0.0027 18.8 4.8 39 26-64 74-123 (269)
195 cd06267 PBP1_LacI_sugar_bindin 33.1 1.1E+02 0.0023 19.7 4.1 38 27-64 71-115 (264)
196 PRK13487 chemoreceptor glutami 33.0 61 0.0013 23.0 3.2 31 18-48 123-155 (201)
197 PRK10342 glycerate kinase I; P 32.9 42 0.00091 26.0 2.5 18 25-42 307-324 (381)
198 TIGR03614 RutB pyrimidine util 32.8 84 0.0018 21.6 3.8 27 15-41 43-69 (226)
199 cd06287 PBP1_LacI_like_8 Ligan 32.5 1.5E+02 0.0032 20.2 5.0 39 26-64 71-117 (269)
200 TIGR00612 ispG_gcpE 1-hydroxy- 32.3 22 0.00047 27.6 0.9 25 20-44 107-132 (346)
201 PRK00414 gmhA phosphoheptose i 32.3 59 0.0013 22.1 2.9 33 13-45 117-149 (192)
202 PRK07106 5-aminoimidazole-4-ca 32.1 34 0.00073 26.9 1.9 18 21-38 364-381 (390)
203 TIGR00498 lexA SOS regulatory 32.1 14 0.0003 24.8 -0.2 50 19-68 4-58 (199)
204 TIGR01481 ccpA catabolite cont 32.0 1.4E+02 0.0031 20.5 4.9 40 25-64 129-175 (329)
205 PRK11303 DNA-binding transcrip 31.9 96 0.0021 21.4 4.0 38 27-64 134-178 (328)
206 PRK14648 UDP-N-acetylenolpyruv 31.8 50 0.0011 25.4 2.7 20 25-45 44-63 (354)
207 cd05006 SIS_GmhA Phosphoheptos 31.7 62 0.0013 21.1 2.9 21 24-44 118-138 (177)
208 PRK13925 rnhB ribonuclease HII 31.7 83 0.0018 22.0 3.7 44 5-49 126-172 (198)
209 PRK04123 ribulokinase; Provisi 31.6 1E+02 0.0022 23.9 4.4 33 16-48 418-452 (548)
210 PF13580 SIS_2: SIS domain; PD 31.6 46 0.001 21.2 2.2 17 26-42 122-138 (138)
211 cd00598 GH18_chitinase-like Th 31.6 1.5E+02 0.0032 19.2 5.1 40 26-65 54-104 (210)
212 cd06281 PBP1_LacI_like_5 Ligan 31.5 1.3E+02 0.0027 20.0 4.4 40 25-64 70-115 (269)
213 cd01523 RHOD_Lact_B Member of 31.4 57 0.0012 19.0 2.4 14 33-46 60-73 (100)
214 PF13241 NAD_binding_7: Putati 31.3 45 0.00099 20.2 2.1 22 19-40 70-91 (103)
215 PRK09732 hypothetical protein; 31.3 1.6E+02 0.0034 19.5 4.8 32 14-45 7-40 (134)
216 cd05009 SIS_GlmS_GlmD_2 SIS (S 31.3 63 0.0014 19.9 2.7 33 13-45 67-100 (153)
217 PF14792 DNA_pol_B_palm: DNA p 31.3 39 0.00084 21.3 1.8 44 24-67 12-77 (112)
218 cd06274 PBP1_FruR Ligand bindi 31.1 1.1E+02 0.0024 20.1 4.1 38 27-64 71-115 (264)
219 COG1180 PflA Pyruvate-formate 31.1 1E+02 0.0022 22.1 4.1 27 24-50 102-128 (260)
220 cd01013 isochorismatase Isocho 31.0 97 0.0021 20.9 3.9 26 16-41 52-77 (203)
221 PF01248 Ribosomal_L7Ae: Ribos 30.9 62 0.0013 19.1 2.6 17 25-41 49-65 (95)
222 TIGR00629 uvde UV damage endon 30.9 1.2E+02 0.0026 22.9 4.6 25 38-62 156-181 (312)
223 TIGR01488 HAD-SF-IB Haloacid D 30.9 61 0.0013 20.3 2.7 26 25-51 80-105 (177)
224 COG1535 EntB Isochorismate hyd 30.8 1.4E+02 0.003 21.8 4.7 33 16-48 53-85 (218)
225 cd06292 PBP1_LacI_like_10 Liga 30.8 1.3E+02 0.0027 19.9 4.3 38 27-64 76-121 (273)
226 TIGR00045 glycerate kinase. Th 30.7 44 0.00096 25.8 2.3 18 25-42 306-323 (375)
227 TIGR03127 RuMP_HxlB 6-phospho 30.6 55 0.0012 21.3 2.5 31 14-44 79-109 (179)
228 PF13263 PHP_C: PHP-associated 30.6 57 0.0012 18.0 2.2 18 22-39 3-20 (56)
229 PRK13488 chemoreceptor glutami 30.6 75 0.0016 21.5 3.2 31 18-48 103-135 (157)
230 PF01565 FAD_binding_4: FAD bi 30.5 64 0.0014 19.9 2.7 19 25-43 15-33 (139)
231 PF01820 Dala_Dala_lig_N: D-al 30.5 78 0.0017 19.9 3.1 23 38-61 3-25 (117)
232 PF03975 CheD: CheD chemotacti 30.4 72 0.0016 20.1 2.9 22 24-45 67-88 (114)
233 TIGR02253 CTE7 HAD superfamily 30.3 65 0.0014 21.1 2.8 20 25-44 101-120 (221)
234 PRK09932 glycerate kinase II; 30.3 49 0.0011 25.6 2.5 23 25-48 307-329 (381)
235 cd06254 M14_ASTE_ASPA_like_4 A 30.3 1.7E+02 0.0037 21.0 5.2 42 25-66 161-206 (288)
236 cd06311 PBP1_ABC_sugar_binding 30.3 50 0.0011 22.0 2.3 38 26-63 77-123 (274)
237 PRK02947 hypothetical protein; 30.2 70 0.0015 22.6 3.1 23 24-46 123-145 (246)
238 PRK09697 protein secretion pro 30.2 17 0.00037 24.6 0.0 38 14-51 14-56 (139)
239 TIGR02463 MPGP_rel mannosyl-3- 30.1 41 0.0009 22.3 1.9 27 20-46 18-44 (221)
240 cd01713 PAPS_reductase This do 30.0 25 0.00055 21.6 0.8 26 22-47 146-171 (173)
241 PF13611 Peptidase_S76: Serine 30.0 69 0.0015 21.3 2.9 21 24-44 40-60 (121)
242 COG0420 SbcD DNA repair exonuc 30.0 84 0.0018 23.2 3.6 38 4-42 45-83 (390)
243 PF12787 EcsC: EcsC protein fa 29.9 14 0.00031 25.9 -0.4 31 33-63 215-246 (249)
244 TIGR01489 DKMTPPase-SF 2,3-dik 29.8 75 0.0016 20.0 3.0 26 25-51 79-104 (188)
245 cd02877 GH18_hevamine_XipI_cla 29.8 1.3E+02 0.0028 21.9 4.5 19 27-45 65-83 (280)
246 PRK11609 nicotinamidase/pyrazi 29.7 94 0.002 20.9 3.6 26 16-41 25-50 (212)
247 TIGR01681 HAD-SF-IIIC HAD-supe 29.7 99 0.0021 19.3 3.5 29 19-47 30-58 (128)
248 PRK14551 rnhB ribonuclease HII 29.7 1.5E+02 0.0032 20.8 4.6 41 5-50 128-171 (212)
249 cd01015 CSHase N-carbamoylsarc 29.7 1.2E+02 0.0026 19.8 4.0 26 16-41 22-47 (179)
250 PRK15409 bifunctional glyoxyla 29.5 71 0.0015 23.6 3.1 39 23-62 78-116 (323)
251 TIGR01117 mmdA methylmalonyl-C 29.5 81 0.0017 25.1 3.6 26 21-46 104-131 (512)
252 cd00838 MPP_superfamily metall 29.5 1.1E+02 0.0024 17.2 3.5 16 27-42 51-66 (131)
253 PRK09864 putative peptidase; P 29.5 81 0.0018 24.0 3.5 26 24-50 268-294 (356)
254 cd07203 cPLA2_Fungal_PLB Funga 29.4 59 0.0013 26.6 2.9 29 18-46 27-75 (552)
255 cd05005 SIS_PHI Hexulose-6-pho 29.4 38 0.00082 22.2 1.6 31 12-42 80-110 (179)
256 PF00070 Pyr_redox: Pyridine n 29.3 25 0.00053 20.0 0.6 9 38-46 2-10 (80)
257 PF13788 DUF4180: Domain of un 29.3 87 0.0019 20.5 3.2 32 25-56 60-94 (113)
258 cd00738 HGTP_anticodon HGTP an 29.2 65 0.0014 18.1 2.4 17 27-43 47-63 (94)
259 PRK13906 murB UDP-N-acetylenol 29.2 64 0.0014 23.8 2.9 20 25-45 51-70 (307)
260 PF00926 DHBP_synthase: 3,4-di 29.2 12 0.00027 26.3 -0.8 24 16-39 163-186 (194)
261 PF02595 Gly_kinase: Glycerate 29.0 21 0.00045 27.5 0.3 18 26-43 308-325 (377)
262 PRK04020 rps2P 30S ribosomal p 29.0 59 0.0013 23.1 2.5 21 21-41 124-144 (204)
263 PRK10355 xylF D-xylose transpo 28.8 1.2E+02 0.0026 21.7 4.2 41 25-65 97-145 (330)
264 TIGR03107 glu_aminopep glutamy 28.7 89 0.0019 23.6 3.6 21 24-44 269-289 (350)
265 PRK13602 putative ribosomal pr 28.7 75 0.0016 19.1 2.7 17 25-41 44-60 (82)
266 PLN02820 3-methylcrotonyl-CoA 28.7 60 0.0013 26.3 2.8 27 21-47 151-179 (569)
267 COG0616 SppA Periplasmic serin 28.7 43 0.00093 24.7 1.9 19 27-46 122-145 (317)
268 cd01542 PBP1_TreR_like Ligand- 28.7 1.3E+02 0.0029 19.6 4.1 40 25-64 69-113 (259)
269 TIGR02009 PGMB-YQAB-SF beta-ph 28.6 1.1E+02 0.0023 19.3 3.5 18 26-43 96-113 (185)
270 PF13527 Acetyltransf_9: Acety 28.6 84 0.0018 18.5 2.9 19 24-42 95-113 (127)
271 PHA02546 47 endonuclease subun 28.6 1.1E+02 0.0023 22.6 3.9 17 26-42 68-84 (340)
272 COG3744 PIN domain nuclease, a 28.5 55 0.0012 22.0 2.2 18 23-40 99-116 (130)
273 TIGR00640 acid_CoA_mut_C methy 28.5 1.7E+02 0.0037 18.9 5.0 37 12-48 59-96 (132)
274 smart00345 HTH_GNTR helix_turn 28.2 49 0.0011 17.0 1.6 18 50-67 34-51 (60)
275 cd06283 PBP1_RegR_EndR_KdgR_li 28.1 1.2E+02 0.0026 19.7 3.8 39 26-64 70-115 (267)
276 COG1871 CheD Chemotaxis protei 28.1 60 0.0013 22.8 2.4 30 19-48 111-142 (164)
277 COG1879 RbsB ABC-type sugar tr 28.1 58 0.0013 22.8 2.4 19 25-43 107-125 (322)
278 PF00899 ThiF: ThiF family; I 28.0 76 0.0016 19.8 2.7 23 23-45 106-128 (135)
279 TIGR03641 cas1_HMARI CRISPR-as 27.9 63 0.0014 23.9 2.6 19 26-44 49-67 (322)
280 PRK13495 chemoreceptor glutami 27.8 88 0.0019 21.3 3.2 31 18-48 101-133 (159)
281 PRK00046 murB UDP-N-acetylenol 27.8 65 0.0014 24.4 2.7 21 25-46 35-55 (334)
282 PRK09989 hypothetical protein; 27.8 2.1E+02 0.0044 19.7 5.2 23 23-45 87-109 (258)
283 cd00158 RHOD Rhodanese Homolog 27.8 99 0.0021 16.8 2.9 25 22-46 62-86 (89)
284 PF01872 RibD_C: RibD C-termin 27.7 93 0.002 20.5 3.2 20 25-44 125-144 (200)
285 PF00857 Isochorismatase: Isoc 27.7 1.1E+02 0.0025 19.3 3.5 28 14-41 20-47 (174)
286 TIGR01662 HAD-SF-IIIA HAD-supe 27.6 1.5E+02 0.0032 18.0 4.2 19 26-44 33-51 (132)
287 PF00733 Asn_synthase: Asparag 27.6 1.2E+02 0.0026 19.9 3.7 22 33-56 16-37 (255)
288 cd06255 M14_ASTE_ASPA_like_5 A 27.5 1.9E+02 0.0042 20.9 5.1 37 27-63 171-211 (293)
289 PRK13938 phosphoheptose isomer 27.4 76 0.0016 21.9 2.8 21 24-44 130-150 (196)
290 PRK10886 DnaA initiator-associ 27.3 76 0.0016 22.0 2.8 31 14-44 116-146 (196)
291 cd01540 PBP1_arabinose_binding 27.3 58 0.0013 21.8 2.2 18 24-41 69-86 (289)
292 PRK12480 D-lactate dehydrogena 27.3 1.2E+02 0.0025 22.5 4.0 39 23-62 81-119 (330)
293 cd01534 4RHOD_Repeat_3 Member 27.3 77 0.0017 18.3 2.5 14 31-45 77-90 (95)
294 TIGR01656 Histidinol-ppas hist 27.2 1.7E+02 0.0036 18.4 4.8 20 25-44 34-53 (147)
295 cd06294 PBP1_ycjW_transcriptio 27.2 62 0.0013 21.2 2.3 40 25-64 74-121 (270)
296 PLN02811 hydrolase 27.1 88 0.0019 20.9 3.1 22 26-47 169-190 (220)
297 TIGR00161 conserved hypothetic 27.0 1.5E+02 0.0033 20.9 4.4 25 26-50 158-184 (238)
298 TIGR02417 fruct_sucro_rep D-fr 27.0 2.2E+02 0.0047 19.6 5.1 39 26-64 132-177 (327)
299 cd06272 PBP1_hexuronate_repres 26.9 1.6E+02 0.0034 19.4 4.2 39 26-64 66-110 (261)
300 TIGR01293 Kv_beta voltage-depe 26.8 58 0.0013 23.3 2.2 21 24-44 189-211 (317)
301 TIGR03638 cas1_ECOLI CRISPR-as 26.7 65 0.0014 23.2 2.5 19 26-44 60-78 (269)
302 PRK06846 putative deaminase; V 26.6 2.4E+02 0.0051 20.9 5.5 42 24-66 209-250 (410)
303 PF07685 GATase_3: CobB/CobQ-l 26.6 95 0.0021 20.2 3.1 27 38-64 10-42 (158)
304 PF04443 LuxE: Acyl-protein sy 26.6 61 0.0013 24.5 2.4 28 26-53 206-239 (365)
305 PRK13490 chemoreceptor glutami 26.5 96 0.0021 21.1 3.2 30 19-48 109-140 (162)
306 cd06305 PBP1_methylthioribose_ 26.5 66 0.0014 21.2 2.3 39 25-63 71-116 (273)
307 cd06297 PBP1_LacI_like_12 Liga 26.4 1.4E+02 0.003 20.0 3.9 39 25-63 69-112 (269)
308 cd06300 PBP1_ABC_sugar_binding 26.3 64 0.0014 21.4 2.2 38 26-63 77-121 (272)
309 PF01380 SIS: SIS domain SIS d 26.3 89 0.0019 18.6 2.7 23 23-45 69-91 (131)
310 TIGR03628 arch_S11P archaeal r 26.2 1.7E+02 0.0036 19.1 4.1 18 24-41 53-70 (114)
311 cd01014 nicotinamidase_related 26.2 1.4E+02 0.003 19.1 3.8 27 15-41 20-46 (155)
312 PRK03573 transcriptional regul 26.2 55 0.0012 20.6 1.8 18 51-68 61-78 (144)
313 PF02782 FGGY_C: FGGY family o 26.1 98 0.0021 20.0 3.1 34 16-49 128-163 (198)
314 COG0561 Cof Predicted hydrolas 26.1 1.1E+02 0.0025 20.8 3.5 27 19-45 21-47 (264)
315 cd06312 PBP1_ABC_sugar_binding 26.1 2E+02 0.0044 19.1 5.1 39 26-64 74-124 (271)
316 cd01575 PBP1_GntR Ligand-bindi 26.0 1.9E+02 0.0041 18.8 4.4 40 25-64 69-115 (268)
317 PRK13493 chemoreceptor glutami 26.0 95 0.002 22.2 3.2 30 19-48 136-167 (213)
318 PRK12374 putative dithiobiotin 26.0 1.5E+02 0.0033 20.2 4.2 25 23-47 124-148 (231)
319 cd00858 GlyRS_anticodon GlyRS 25.9 71 0.0015 19.8 2.3 18 26-43 69-86 (121)
320 PF04072 LCM: Leucine carboxyl 25.9 1.1E+02 0.0025 20.2 3.4 39 16-54 55-98 (183)
321 PRK13936 phosphoheptose isomer 25.9 88 0.0019 21.2 2.9 20 25-44 129-148 (197)
322 KOG2120|consensus 25.8 57 0.0012 25.8 2.2 52 13-64 214-266 (419)
323 TIGR01012 Sa_S2_E_A ribosomal 25.8 57 0.0012 23.0 2.0 21 21-41 118-138 (196)
324 PRK10892 D-arabinose 5-phospha 25.7 90 0.0019 22.3 3.1 33 12-44 99-131 (326)
325 PF01867 Cas_Cas1: CRISPR asso 25.7 64 0.0014 22.9 2.3 21 25-45 49-69 (282)
326 PF04413 Glycos_transf_N: 3-De 25.7 51 0.0011 22.4 1.7 17 26-42 110-126 (186)
327 PF00665 rve: Integrase core d 25.6 89 0.0019 18.2 2.6 47 15-63 73-119 (120)
328 cd05013 SIS_RpiR RpiR-like pro 25.4 77 0.0017 18.7 2.3 20 24-43 77-96 (139)
329 PRK15469 ghrA bifunctional gly 25.4 74 0.0016 23.4 2.6 34 30-63 80-113 (312)
330 cd05567 PTS_IIB_mannitol PTS_I 25.4 1.5E+02 0.0033 17.3 3.6 27 37-65 3-29 (87)
331 TIGR00506 ribB 3,4-dihydroxy-2 25.4 26 0.00055 24.9 0.2 25 15-39 167-191 (199)
332 cd06323 PBP1_ribose_binding Pe 25.4 2E+02 0.0043 18.7 4.8 39 25-63 71-117 (268)
333 PRK11230 glycolate oxidase sub 25.4 83 0.0018 24.7 3.0 21 25-46 70-90 (499)
334 PF05343 Peptidase_M42: M42 gl 25.3 1.4E+02 0.0029 21.9 4.0 26 24-50 227-253 (292)
335 TIGR00287 cas1 CRISPR-associat 25.3 71 0.0015 23.3 2.5 19 26-44 50-68 (323)
336 PRK07574 formate dehydrogenase 25.2 73 0.0016 24.4 2.6 39 23-62 126-164 (385)
337 COG0528 PyrH Uridylate kinase 25.2 1.2E+02 0.0027 22.3 3.7 24 21-44 31-54 (238)
338 PF01113 DapB_N: Dihydrodipico 25.2 44 0.00095 21.0 1.2 25 26-50 83-107 (124)
339 PRK12337 2-phosphoglycerate ki 25.1 1.6E+02 0.0034 23.7 4.5 40 18-63 423-462 (475)
340 PLN02743 nicotinamidase 25.1 1.3E+02 0.0027 21.5 3.7 25 17-41 57-81 (239)
341 PRK10736 hypothetical protein; 25.1 1.9E+02 0.0041 22.4 4.8 31 23-53 149-183 (374)
342 cd03109 DTBS Dethiobiotin synt 25.1 1.3E+02 0.0029 18.9 3.5 21 26-46 88-108 (134)
343 cd01539 PBP1_GGBP Periplasmic 24.9 72 0.0016 22.1 2.4 17 25-41 73-89 (303)
344 TIGR03639 cas1_NMENI CRISPR-as 24.9 74 0.0016 23.0 2.5 20 25-44 50-69 (278)
345 KOG1706|consensus 24.8 49 0.0011 26.0 1.6 25 25-49 160-184 (412)
346 PLN02587 L-galactose dehydroge 24.8 73 0.0016 22.7 2.4 22 24-45 188-211 (314)
347 cd00859 HisRS_anticodon HisRS 24.7 91 0.002 16.9 2.4 19 25-43 42-60 (91)
348 cd01293 Bact_CD Bacterial cyto 24.7 2.5E+02 0.0055 19.8 5.2 40 25-65 193-232 (398)
349 PF06293 Kdo: Lipopolysacchari 24.6 58 0.0013 21.9 1.8 27 20-46 58-84 (206)
350 COG3981 Predicted acetyltransf 24.6 1.7E+02 0.0036 20.7 4.1 22 24-45 120-141 (174)
351 PLN02928 oxidoreductase family 24.4 80 0.0017 23.5 2.7 40 23-62 94-135 (347)
352 PRK06932 glycerate dehydrogena 24.4 1E+02 0.0022 22.6 3.1 38 23-61 77-114 (314)
353 KOG1575|consensus 24.4 60 0.0013 24.9 2.0 22 26-47 202-230 (336)
354 PF09021 HutP: HutP; InterPro 24.4 2.2E+02 0.0048 18.9 4.9 42 26-67 21-63 (130)
355 COG1358 RPL8A Ribosomal protei 24.3 90 0.0019 20.3 2.6 18 24-41 60-77 (116)
356 COG4770 Acetyl/propionyl-CoA c 24.3 69 0.0015 26.8 2.4 19 24-42 15-33 (645)
357 PF03102 NeuB: NeuB family; I 24.3 96 0.0021 22.3 3.0 32 24-55 103-134 (241)
358 TIGR02637 RhaS rhamnose ABC tr 24.3 69 0.0015 21.9 2.2 16 26-41 73-88 (302)
359 PRK10949 protease 4; Provision 24.3 51 0.0011 26.9 1.7 14 29-42 391-404 (618)
360 PF00148 Oxidored_nitro: Nitro 24.3 2.2E+02 0.0048 20.8 4.9 36 27-62 97-133 (398)
361 cd01894 EngA1 EngA1 subfamily. 24.1 1.2E+02 0.0025 18.1 3.0 22 21-42 92-113 (157)
362 TIGR03640 cas1_DVULG CRISPR-as 24.1 74 0.0016 23.6 2.4 20 25-44 53-72 (340)
363 COG0108 RibB 3,4-dihydroxy-2-b 24.1 32 0.00068 24.8 0.5 24 16-39 167-190 (203)
364 cd04252 AAK_NAGK-fArgBP AAK_NA 24.0 78 0.0017 22.3 2.4 51 16-66 70-132 (248)
365 PRK01792 ribB 3,4-dihydroxy-2- 24.0 28 0.00062 25.0 0.2 25 15-39 177-201 (214)
366 KOG2368|consensus 23.9 3.3E+02 0.0072 20.8 6.5 54 11-64 124-182 (316)
367 PRK11172 dkgB 2,5-diketo-D-glu 23.8 50 0.0011 23.1 1.4 23 22-44 160-184 (267)
368 PRK13494 chemoreceptor glutami 23.7 1.1E+02 0.0025 20.9 3.2 30 19-48 111-142 (163)
369 PRK14571 D-alanyl-alanine synt 23.7 78 0.0017 22.3 2.4 13 38-50 3-15 (299)
370 COG1213 Predicted sugar nucleo 23.7 57 0.0012 24.0 1.7 27 39-65 7-46 (239)
371 PRK08410 2-hydroxyacid dehydro 23.7 1.2E+02 0.0027 22.1 3.5 39 23-62 75-113 (311)
372 PRK08942 D,D-heptose 1,7-bisph 23.7 2.1E+02 0.0046 18.4 5.2 20 25-44 36-55 (181)
373 PRK09912 L-glyceraldehyde 3-ph 23.6 61 0.0013 23.7 1.9 21 25-45 207-229 (346)
374 PRK13498 chemoreceptor glutami 23.6 1.2E+02 0.0025 20.8 3.2 31 18-48 111-143 (167)
375 cd01965 Nitrogenase_MoFe_beta_ 23.6 2.7E+02 0.0058 21.0 5.4 37 25-61 102-143 (428)
376 KOG0238|consensus 23.5 63 0.0014 27.0 2.1 18 25-42 12-29 (670)
377 TIGR01487 SPP-like sucrose-pho 23.5 96 0.0021 20.5 2.7 28 19-46 19-46 (215)
378 TIGR01112 mtrD N5-methyltetrah 23.5 60 0.0013 23.8 1.8 28 2-43 112-141 (223)
379 PLN03139 formate dehydrogenase 23.5 89 0.0019 24.0 2.8 39 23-62 133-171 (386)
380 PF00875 DNA_photolyase: DNA p 23.5 1.3E+02 0.0027 19.3 3.2 24 20-43 103-126 (165)
381 PRK01372 ddl D-alanine--D-alan 23.5 78 0.0017 22.1 2.3 31 33-64 3-36 (304)
382 PF02571 CbiJ: Precorrin-6x re 23.5 68 0.0015 23.0 2.1 15 27-41 212-226 (249)
383 PRK15408 autoinducer 2-binding 23.4 71 0.0015 23.2 2.2 18 25-42 96-113 (336)
384 PF00702 Hydrolase: haloacid d 23.4 82 0.0018 20.1 2.3 19 24-42 133-151 (215)
385 TIGR03822 AblA_like_2 lysine-2 23.4 1.8E+02 0.004 21.3 4.3 36 29-64 192-227 (321)
386 TIGR00715 precor6x_red precorr 23.4 70 0.0015 23.1 2.1 15 27-41 216-230 (256)
387 TIGR02130 dapB_plant dihydrodi 23.3 88 0.0019 23.2 2.7 28 26-53 85-112 (275)
388 KOG2623|consensus 23.3 76 0.0016 25.6 2.4 21 24-44 85-105 (467)
389 cd00338 Ser_Recombinase Serine 23.3 1.8E+02 0.0039 17.5 3.9 24 25-49 86-109 (137)
390 cd06543 GH18_PF-ChiA-like PF-C 23.2 2.4E+02 0.0052 20.7 4.9 38 27-64 60-103 (294)
391 cd06301 PBP1_rhizopine_binding 23.2 1.1E+02 0.0023 20.3 2.9 41 22-63 69-119 (272)
392 PF10609 ParA: ParA/MinD ATPas 23.2 90 0.0019 19.2 2.3 17 25-41 44-60 (81)
393 PRK13489 chemoreceptor glutami 23.0 1.1E+02 0.0025 22.3 3.2 31 18-48 121-153 (233)
394 COG2405 Predicted nucleic acid 23.0 1.5E+02 0.0033 20.7 3.6 42 23-68 95-144 (157)
395 PF06969 HemN_C: HemN C-termin 23.0 96 0.0021 16.9 2.3 21 47-67 32-52 (66)
396 PRK13243 glyoxylate reductase; 22.9 1.1E+02 0.0023 22.7 3.0 40 23-63 79-118 (333)
397 TIGR00338 serB phosphoserine p 22.8 1E+02 0.0022 20.3 2.7 21 25-46 92-112 (219)
398 PRK13491 chemoreceptor glutami 22.8 1.2E+02 0.0026 21.7 3.2 30 19-48 112-143 (199)
399 PRK13585 1-(5-phosphoribosyl)- 22.8 86 0.0019 21.4 2.4 35 12-48 54-88 (241)
400 PRK06487 glycerate dehydrogena 22.8 1.2E+02 0.0025 22.3 3.2 38 23-61 78-115 (317)
401 COG1609 PurR Transcriptional r 22.8 2.5E+02 0.0054 20.4 4.9 42 23-64 126-174 (333)
402 cd06313 PBP1_ABC_sugar_binding 22.7 1.2E+02 0.0026 20.4 3.1 40 24-63 70-119 (272)
403 cd01492 Aos1_SUMO Ubiquitin ac 22.7 1.2E+02 0.0027 20.6 3.2 23 24-46 125-147 (197)
404 TIGR01536 asn_synth_AEB aspara 22.6 3E+02 0.0065 20.9 5.5 20 33-54 252-271 (467)
405 PRK11512 DNA-binding transcrip 22.6 77 0.0017 20.0 2.0 18 51-68 69-86 (144)
406 PRK07189 malonate decarboxylas 22.6 93 0.002 23.4 2.7 24 21-44 90-119 (301)
407 TIGR01548 HAD-SF-IA-hyp1 haloa 22.6 95 0.0021 20.2 2.5 20 24-43 112-131 (197)
408 PRK00192 mannosyl-3-phosphogly 22.5 72 0.0016 22.2 2.0 28 18-45 21-48 (273)
409 PRK11587 putative phosphatase; 22.5 91 0.002 20.7 2.5 20 25-44 90-109 (218)
410 COG0400 Predicted esterase [Ge 22.5 1.1E+02 0.0024 21.4 2.9 35 23-58 84-118 (207)
411 COG0825 AccA Acetyl-CoA carbox 22.5 1.5E+02 0.0032 22.9 3.8 45 16-61 133-185 (317)
412 cd05561 Peptidases_S8_4 Peptid 22.5 2.2E+02 0.0047 19.6 4.4 37 26-66 85-122 (239)
413 TIGR03573 WbuX N-acetyl sugar 22.4 1.1E+02 0.0023 22.7 3.0 28 22-49 148-181 (343)
414 TIGR02321 Pphn_pyruv_hyd phosp 22.3 1.8E+02 0.0038 21.5 4.1 45 18-64 56-103 (290)
415 PRK12436 UDP-N-acetylenolpyruv 22.3 1E+02 0.0022 22.7 2.9 22 25-47 51-72 (305)
416 PLN02522 ATP citrate (pro-S)-l 22.3 1.8E+02 0.0039 24.0 4.5 23 25-47 94-116 (608)
417 PRK00968 tetrahydromethanopter 22.3 62 0.0014 24.0 1.7 28 2-43 116-145 (240)
418 cd01485 E1-1_like Ubiquitin ac 22.2 1.2E+02 0.0026 20.6 3.1 22 24-45 128-149 (198)
419 TIGR03351 PhnX-like phosphonat 22.2 1.1E+02 0.0023 20.2 2.7 28 25-53 94-121 (220)
420 cd06318 PBP1_ABC_sugar_binding 22.2 90 0.002 20.7 2.4 38 26-63 72-118 (282)
421 TIGR00162 conserved hypothetic 22.2 2.2E+02 0.0048 19.5 4.4 31 13-43 26-56 (188)
422 PRK10653 D-ribose transporter 22.1 2.7E+02 0.0057 19.0 5.1 39 26-64 99-145 (295)
423 TIGR00393 kpsF KpsF/GutQ famil 22.1 1.2E+02 0.0026 20.7 3.0 33 12-44 52-84 (268)
424 cd01886 EF-G Elongation factor 22.1 78 0.0017 22.6 2.2 25 17-41 99-123 (270)
425 PRK12339 2-phosphoglycerate ki 22.0 1.1E+02 0.0024 20.9 2.9 25 15-39 156-180 (197)
426 cd03174 DRE_TIM_metallolyase D 22.0 2.6E+02 0.0057 18.9 5.7 36 11-46 105-140 (265)
427 PF13500 AAA_26: AAA domain; P 22.0 1.7E+02 0.0036 19.2 3.6 37 25-63 120-156 (199)
428 PRK01221 putative deoxyhypusin 22.0 64 0.0014 24.4 1.7 17 23-39 173-189 (312)
429 TIGR01496 DHPS dihydropteroate 21.9 2.7E+02 0.0059 19.8 4.9 23 23-45 107-129 (257)
430 PF00483 NTP_transferase: Nucl 21.9 84 0.0018 20.9 2.2 27 38-64 2-45 (248)
431 TIGR00107 deoD purine-nucleosi 21.9 2.3E+02 0.0051 19.7 4.5 21 25-45 181-208 (232)
432 TIGR00355 purH phosphoribosyla 21.8 57 0.0012 26.5 1.5 19 21-39 485-503 (511)
433 PF10649 DUF2478: Protein of u 21.8 87 0.0019 21.4 2.2 24 25-48 114-137 (159)
434 PRK13896 cobyrinic acid a,c-di 21.8 1.3E+02 0.0027 23.6 3.4 31 34-64 271-308 (433)
435 cd01524 RHOD_Pyr_redox Member 21.7 1.2E+02 0.0025 17.3 2.6 14 31-45 72-85 (90)
436 PRK05690 molybdopterin biosynt 21.7 1E+02 0.0023 21.7 2.7 22 24-45 137-158 (245)
437 TIGR01449 PGP_bact 2-phosphogl 21.7 1.3E+02 0.0029 19.4 3.1 21 24-44 91-111 (213)
438 COG2129 Predicted phosphoester 21.7 86 0.0019 22.9 2.3 35 27-61 57-91 (226)
439 TIGR02647 DNA conserved hypoth 21.7 87 0.0019 19.5 2.0 22 47-68 30-51 (77)
440 TIGR03664 fut_nucase futalosin 21.7 86 0.0019 21.7 2.3 27 25-51 175-206 (222)
441 cd02115 AAK Amino Acid Kinases 21.6 2.6E+02 0.0057 18.7 4.7 18 32-49 27-44 (248)
442 TIGR03468 HpnG hopanoid-associ 21.6 93 0.002 21.3 2.4 16 25-40 136-151 (212)
443 PRK00912 ribonuclease P protei 21.6 2.4E+02 0.0051 19.4 4.4 17 23-39 156-172 (237)
444 cd02006 TPP_Gcl Thiamine pyrop 21.6 73 0.0016 21.4 1.9 30 17-46 84-115 (202)
445 PRK13288 pyrophosphatase PpaX; 21.6 1.3E+02 0.0028 19.7 3.0 21 24-44 88-108 (214)
446 PF00289 CPSase_L_chain: Carba 21.5 92 0.002 19.6 2.2 18 25-42 16-33 (110)
447 smart00529 HTH_DTXR Helix-turn 21.5 74 0.0016 18.4 1.7 18 51-68 14-31 (96)
448 PF13471 Transglut_core3: Tran 21.5 1.7E+02 0.0036 18.0 3.3 25 18-42 57-81 (117)
449 cd06289 PBP1_MalI_like Ligand- 21.4 95 0.0021 20.3 2.3 39 26-64 71-116 (268)
450 cd02072 Glm_B12_BD B12 binding 21.3 2.2E+02 0.0047 18.7 4.0 21 25-45 69-90 (128)
451 cd07384 MPP_Cdc1_like Saccharo 21.3 2.2E+02 0.0048 18.8 4.1 44 1-44 3-54 (171)
452 PRK13497 chemoreceptor glutami 21.3 1.4E+02 0.0029 20.9 3.2 30 19-48 109-140 (184)
453 TIGR02404 trehalos_R_Bsub treh 21.3 61 0.0013 22.0 1.4 19 50-68 38-56 (233)
454 PRK14476 nitrogenase molybdenu 21.2 2.7E+02 0.0059 21.5 5.1 16 34-49 127-142 (455)
455 PRK06683 hypothetical protein; 21.2 1.3E+02 0.0028 18.1 2.7 17 25-41 44-60 (82)
456 TIGR02325 C_P_lyase_phnF phosp 21.2 61 0.0013 21.8 1.4 18 51-68 47-64 (238)
457 cd01971 Nitrogenase_VnfN_like 21.2 2.2E+02 0.0047 21.6 4.5 23 30-52 112-134 (427)
458 PRK08227 autoinducer 2 aldolas 21.1 3.1E+02 0.0067 20.1 5.1 35 22-56 128-163 (264)
459 smart00419 HTH_CRP helix_turn_ 21.1 89 0.0019 15.5 1.7 18 50-67 22-39 (48)
460 COG1619 LdcA Uncharacterized p 21.1 1.5E+02 0.0032 22.4 3.5 42 4-48 46-88 (313)
461 PRK05773 3,4-dihydroxy-2-butan 21.0 38 0.00082 24.4 0.4 22 17-39 188-209 (219)
462 cd04892 ACT_AK-like_2 ACT doma 21.0 1.2E+02 0.0027 15.2 2.4 20 25-44 19-38 (65)
463 KOG1432|consensus 21.0 1.3E+02 0.0029 23.7 3.3 37 5-43 106-143 (379)
464 COG4948 L-alanine-DL-glutamate 21.0 55 0.0012 24.1 1.2 48 17-64 98-158 (372)
465 PRK11557 putative DNA-binding 21.0 63 0.0014 22.5 1.4 31 13-43 181-211 (278)
466 PRK03971 putative deoxyhypusin 21.0 71 0.0015 24.4 1.8 17 23-39 193-209 (334)
467 cd00757 ThiF_MoeB_HesA_family 21.0 1.3E+02 0.0029 20.6 3.1 22 24-45 126-147 (228)
468 PRK07077 hypothetical protein; 21.0 95 0.0021 22.3 2.4 15 25-39 147-161 (238)
469 TIGR01670 YrbI-phosphatas 3-de 20.9 1.4E+02 0.003 19.2 3.0 21 25-45 35-55 (154)
470 cd06278 PBP1_LacI_like_2 Ligan 20.9 95 0.0021 20.2 2.2 40 25-64 68-114 (266)
471 cd06810 PLPDE_III_ODC_DapDC_li 20.9 3.1E+02 0.0068 19.7 5.1 39 25-63 190-235 (368)
472 smart00344 HTH_ASNC helix_turn 20.8 99 0.0021 18.3 2.2 44 21-68 3-49 (108)
473 PF04207 MtrD: Tetrahydrometha 20.7 72 0.0016 23.4 1.7 28 2-43 112-141 (223)
474 TIGR03104 trio_amidotrans aspa 20.7 3.2E+02 0.007 21.8 5.5 19 32-52 258-276 (589)
475 PF01916 DS: Deoxyhypusine syn 20.7 72 0.0016 23.9 1.8 22 24-48 159-180 (299)
476 PF14370 Topo_C_assoc: C-termi 20.7 68 0.0015 19.6 1.4 17 24-40 34-50 (71)
477 COG1335 PncA Amidases related 20.7 1.5E+02 0.0032 19.5 3.2 31 17-47 32-62 (205)
478 cd02875 GH18_chitobiase Chitob 20.6 2.2E+02 0.0047 21.2 4.3 42 21-64 64-111 (358)
479 PRK02301 putative deoxyhypusin 20.5 73 0.0016 24.2 1.8 17 23-39 174-190 (316)
480 TIGR01482 SPP-subfamily Sucros 20.5 88 0.0019 20.5 2.0 27 19-45 16-42 (225)
481 cd01533 4RHOD_Repeat_2 Member 20.5 1.3E+02 0.0028 17.8 2.6 13 34-46 66-78 (109)
482 COG1846 MarR Transcriptional r 20.5 1E+02 0.0022 17.7 2.2 18 51-68 51-68 (126)
483 PRK10076 pyruvate formate lyas 20.5 1.6E+02 0.0035 20.5 3.4 24 24-47 57-80 (213)
484 PRK00358 pyrH uridylate kinase 20.4 1.2E+02 0.0025 20.8 2.7 16 29-44 34-49 (231)
485 TIGR02634 xylF D-xylose ABC tr 20.3 93 0.002 21.6 2.2 40 25-64 70-117 (302)
486 COG1412 Uncharacterized protei 20.3 1.1E+02 0.0024 20.5 2.5 21 23-43 106-126 (136)
487 smart00022 PLAc Cytoplasmic ph 20.3 1.4E+02 0.003 24.3 3.4 30 17-46 40-88 (549)
488 PRK01158 phosphoglycolate phos 20.3 1.1E+02 0.0025 20.1 2.6 28 19-46 21-48 (230)
489 PRK11778 putative inner membra 20.3 63 0.0014 24.5 1.4 19 27-45 147-170 (330)
490 COG0726 CDA1 Predicted xylanas 20.3 1.2E+02 0.0027 19.7 2.7 36 22-57 79-114 (267)
491 PRK00132 rpsI 30S ribosomal pr 20.3 1.5E+02 0.0032 19.7 3.0 23 37-59 64-89 (130)
492 PRK12408 glucokinase; Provisio 20.2 58 0.0013 23.9 1.2 29 36-64 272-303 (336)
493 PRK00910 ribB 3,4-dihydroxy-2- 20.2 36 0.00077 24.6 0.1 24 15-38 178-201 (218)
494 cd00532 MGS-like MGS-like doma 20.2 1.3E+02 0.0028 18.5 2.6 20 23-42 88-107 (112)
495 cd01991 Asn_Synthase_B_C The C 20.1 1.8E+02 0.0039 19.7 3.6 23 31-55 12-34 (269)
496 cd01481 vWA_collagen_alpha3-VI 20.1 2.1E+02 0.0045 18.7 3.7 29 33-64 104-133 (165)
497 TIGR02884 spore_pdaA delta-lac 20.1 2E+02 0.0044 19.8 3.8 32 23-54 52-83 (224)
498 PRK00945 acetyl-CoA decarbonyl 20.0 1E+02 0.0023 21.3 2.4 18 25-42 54-71 (171)
No 1
>KOG1344|consensus
Probab=99.82 E-value=8.7e-21 Score=139.60 Aligned_cols=66 Identities=53% Similarity=0.777 Sum_probs=64.2
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
-|+++||+| .|++|++||.+||+.||++++.++||++|+.+|||.+.++++|+.||+||+-+|||.
T Consensus 258 TDiLeGDpLG~L~ISp~Gi~~RDelVFr~~R~~~iPvvMltSGGY~K~sArvIaDSI~NL~~qGLi~ 324 (324)
T KOG1344|consen 258 TDILEGDPLGNLAISPEGIIERDELVFRTFRALGIPVVMLTSGGYLKASARVIADSIVNLRLQGLIN 324 (324)
T ss_pred CccccCCCCCCeeecccccchhhHHHHHHHHHcCCcEEEEecCceehhhhhhhHHHHHhHhhhcccC
Confidence 389999999 999999999999999999999999999999999999999999999999999999984
No 2
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=99.00 E-value=5.1e-10 Score=81.39 Aligned_cols=49 Identities=18% Similarity=0.276 Sum_probs=43.1
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
.|.|.+|+| .|+||.+|..+++++|+++|.+.++|++++++|||+.+.-
T Consensus 250 ~D~~~~Dplg~~~lt~~~~~~~~~~~~~~a~~~~~~~v~vleGGY~~~~~ 299 (311)
T PF00850_consen 250 FDAHAGDPLGGLNLTPEGYRELTRRLKSLAKRHCIPVVSVLEGGYNPESL 299 (311)
T ss_dssp STTBTTSTT-SEBB-HHHHHHHHHHHHTTHSHHSGCEEEEE-S-SSHHHH
T ss_pred cccchhccccCcCCCHHHHHHHHHHHHHHHHhcCCcEEEEECCCCChhHH
Confidence 599999999 9999999999999999999999988999999999988543
No 3
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=98.89 E-value=5.3e-09 Score=78.12 Aligned_cols=47 Identities=21% Similarity=0.243 Sum_probs=45.7
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
+|.|.+|+| +|+||.+|...+.++|.++|+.+++|+++|++|||+.+
T Consensus 249 ~D~h~~Dpl~~~~Lt~~~~~~~~~~v~~~a~~~~~~~~~vleGGY~~~ 296 (340)
T COG0123 249 FDAHRGDPLGRLNLTEEGYAKIGRAVRKLAEGYGGPVVAVLEGGYNLD 296 (340)
T ss_pred cccCCCCccceeecCHHHHHHHHHHHHHHHHhcCCCeEEEecCCCChH
Confidence 699999999 99999999999999999999999999999999999876
No 4
>PTZ00063 histone deacetylase; Provisional
Probab=98.68 E-value=5.2e-08 Score=75.29 Aligned_cols=42 Identities=21% Similarity=0.360 Sum_probs=38.9
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
+|.|.+|+| .|+||.+|..+ +++++++.++|+++++||||+.
T Consensus 260 ~D~~~~DpLg~l~Lt~~g~~~----~~~~~~~~~~pil~l~gGGY~~ 302 (436)
T PTZ00063 260 ADSLTGDRLGRFNLTIKGHAA----CVEFVRSLNIPLLVLGGGGYTI 302 (436)
T ss_pred ccccCCCCCCCcccCHHHHHH----HHHHHHhcCCCEEEEeCccCCc
Confidence 699999999 99999999876 6888899999999999999985
No 5
>PTZ00346 histone deacetylase; Provisional
Probab=98.62 E-value=1.1e-07 Score=73.45 Aligned_cols=43 Identities=21% Similarity=0.401 Sum_probs=38.1
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
+|.|.+|+| .|+||.+|..+ +.+++++.++|+++++||||+..
T Consensus 278 ~Da~~~DpLg~l~LT~~g~~~----~~~~l~~~~~plv~vleGGY~~~ 321 (429)
T PTZ00346 278 ADSLAGDRLGLLNLSSFGHGQ----CVQAVRDLGIPMLALGGGGYTIR 321 (429)
T ss_pred ccCCCCCCCCCceeCHHHHHH----HHHHHHhcCCCEEEEeCCcCCcc
Confidence 699999999 99999999987 56666778999999999999853
No 6
>KOG1342|consensus
Probab=97.06 E-value=0.00075 Score=52.57 Aligned_cols=43 Identities=21% Similarity=0.310 Sum_probs=37.6
Q ss_pred CCCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 2 VHTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 2 vD~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
+|-+.|||| -++||..|..+.=++|.++ |+|+.++-||||.-.
T Consensus 262 aDSL~gDRlgcFnLsi~Gh~~Cv~fvksf----n~pllvlGGGGYT~r 305 (425)
T KOG1342|consen 262 ADSLAGDRLGCFNLSIKGHAECVKFVKSF----NLPLLVLGGGGYTLR 305 (425)
T ss_pred CccccCCccceeeecchhHHHHHHHHHHc----CCcEEEecCCccchh
Confidence 688999999 9999999999887766655 999999999999643
No 7
>TIGR00732 dprA DNA protecting protein DprA. Disruption of this gene in both Haemophilus influenzae and Helicobacter pylori drastically reduces the efficiency of transformation with exogenous DNA, but with different levels of effect on chromosomal (linear) and plasmid (circular) DNA. This difference suggests the DprA is not active in recombination, and it has been shown not to affect DNA binding, leaving the intermediate step in natural transformation, DNA processing. In Strep. pneumoniae, inactivation of dprA had no effect on the uptake of DNA. All of these data indicated that DprA is required at a later stage in transformation. Subsequently DprA and RecA were both shown in S. pneumoniae to be required to protect incoming ssDNA from immediate degradation. Role of DprA in non-transformable species is not known. The gene symbol smf was assigned in E. coli, but without assignment of function.
Probab=79.15 E-value=5.7 Score=27.99 Aligned_cols=33 Identities=18% Similarity=0.291 Sum_probs=26.8
Q ss_pred HHHHHHHHHhCCCCEEEEecCC----CccchHHHHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGG----YLKQTARIIAD 55 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGG----Y~~d~~~~v~~ 55 (68)
|....+.|.+.+-|+++|+++| |.++...+.+.
T Consensus 86 D~~ah~~al~~~g~tIaVl~~gld~~yp~~n~~l~~~ 122 (220)
T TIGR00732 86 DGIAHKAALKVNGRTIAVLGTGLDQIYPRQNSKLAAK 122 (220)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCccCCchhhHHHHHH
Confidence 8888999999999999999999 55666655544
No 8
>KOG1343|consensus
Probab=78.80 E-value=6 Score=33.38 Aligned_cols=55 Identities=15% Similarity=0.076 Sum_probs=44.0
Q ss_pred CCCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCc-cchHHHHHHHHHhH
Q psy8530 3 HTWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYL-KQTARIIADSILNL 60 (68)
Q Consensus 3 D~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~-~d~~~~v~~si~~l 60 (68)
|..++|+| +.++|.+|...=...+.+.| +=-+++++=|||. +.+.+....++..|
T Consensus 699 Daa~~dplg~~~vt~~~~~~lt~~l~~la---gGRvv~~LEggy~lt~is~s~~~~~~~l 755 (797)
T KOG1343|consen 699 DAAEGDPLGGYKVTAECFGYLTQQLMGLA---GGRVVLALEGGYDLTAISDSAEACVRAL 755 (797)
T ss_pred cccccCccccccccHhHHHHHHHHHHHhc---CCcEEEEecCCcchhhhhHHHHHHHHhc
Confidence 78899999 99999999999999999987 6678999999997 44444555555444
No 9
>cd00344 FBP_aldolase_I Fructose-bisphosphate aldolase class I. Fructose-1,6-bisphosphate aldolase is an enzyme of the glycolytic and gluconeogenic pathways found in vertebrates, plants, and bacteria. The enzyme catalyzes the cleavage of fructose 1,6-bisphosphate to glyceraldehyde 3-phosphate and dihydroxyacetone phosphate (DHAP). Mutations in the aldolase genes in humans cause hemolytic anemia and hereditary fructose intolerance. The enzyme is a member of the class I aldolase family, which utilizes covalent catalysis through a Schiff base formed between a lysine residue of the enzyme and ketose substrates. Although structurally similar, the class II aldolases use a different mechanism and are believed to have an independent evolutionary origin.
Probab=77.18 E-value=4.1 Score=31.19 Aligned_cols=38 Identities=21% Similarity=0.138 Sum_probs=30.8
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-|.+-+.+-.-..+....-..+|=++.++|||+++.+.
T Consensus 232 ~~~~~va~~t~~~l~~~vP~aVpgVvfLSGGqS~eeAt 269 (328)
T cd00344 232 FSHEEIAMATVTALRRTVPPAVTGVTFLSGGQSEEEAS 269 (328)
T ss_pred CCHHHHHHhhHHHHHhhCCCcCCeEEeccCCCCHHHHH
Confidence 46777888888888887777889899999999987653
No 10
>TIGR00729 ribonuclease H, mammalian HI/archaeal HII subfamily. Archaeal members of this subfamily of RNase H are designated RNase HII and one has been shown to be active as a monomer. A member from Homo sapiens was characterized as RNase HI, large subunit.
Probab=75.82 E-value=6.9 Score=27.14 Aligned_cols=41 Identities=20% Similarity=0.131 Sum_probs=34.4
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+.+|.....++.+-|.+ ||+++-+..+..+. .|-||..|..
T Consensus 132 ~KaD~~~~~VAAASIlAKv~RD~~m~~l~~~~~~-----~GsGY~sd~~ 175 (206)
T TIGR00729 132 HKADAKYPVVSAASIIAKVERDREIESLKRKYGD-----FGSGYPSDPR 175 (206)
T ss_pred eccccccchhhHHHHHHHHHHHHHHHHHHHhcCC-----CCCcCCCCHH
Confidence 36788889999999999 99999999887654 6899997664
No 11
>COG1363 FrvX Cellulase M and related proteins [Carbohydrate transport and metabolism]
Probab=74.07 E-value=5.7 Score=30.43 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=24.8
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
+++++.|+++|||.-.-++.||++|...
T Consensus 273 ~~L~~~A~~~~Ip~Q~~v~~~ggTDA~a 300 (355)
T COG1363 273 KFLLELAEKNNIPYQVDVSPGGGTDAGA 300 (355)
T ss_pred HHHHHHHHHcCCCeEEEecCCCCccHHH
Confidence 4689999999999999999999998765
No 12
>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]
Probab=71.69 E-value=8.1 Score=26.86 Aligned_cols=30 Identities=27% Similarity=0.327 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++-+++...|+..+.+.+ |.+..+|||==
T Consensus 54 E~~FR~~E~~vl~~l~~~~-~~ViaTGGG~v 83 (172)
T COG0703 54 EEGFRRLETEVLKELLEED-NAVIATGGGAV 83 (172)
T ss_pred HHHHHHHHHHHHHHHhhcC-CeEEECCCccc
Confidence 3677888999999999998 99999999953
No 13
>cd06545 GH18_3CO4_chitinase The Bacteroides thetaiotaomicron protein represented by pdb structure 3CO4 is an uncharacterized bacterial member of the family 18 glycosyl hydrolases with homologs found in Flavobacterium, Stigmatella, and Pseudomonas.
Probab=71.19 E-value=17 Score=25.25 Aligned_cols=43 Identities=21% Similarity=0.214 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCCccch---------HHHHHHHHHhHHHcC
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGYLKQT---------ARIIADSILNLADLG 64 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY~~d~---------~~~v~~si~~l~~~~ 64 (68)
+...+.+.|++++++|...+||+..... .+....++.++.++.
T Consensus 47 ~~~~~~~~~~~~~~kvl~sigg~~~~~~~~~~~~~~~r~~fi~~lv~~~~~~ 98 (253)
T cd06545 47 ELNSVVNAAHAHNVKILISLAGGSPPEFTAALNDPAKRKALVDKIINYVVSY 98 (253)
T ss_pred HHHHHHHHHHhCCCEEEEEEcCCCCCcchhhhcCHHHHHHHHHHHHHHHHHh
Confidence 4456788999999999999988754321 123445666666653
No 14
>COG3355 Predicted transcriptional regulator [Transcription]
Probab=70.37 E-value=3.7 Score=27.42 Aligned_cols=50 Identities=22% Similarity=0.297 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHHhCCCCEEE-EecCCCccchHHHHHHHHHhHHHcCCcCC
Q psy8530 18 GIIRRDELVFMKARERRVPIVM-LTSGGYLKQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~IPva~-v~gGGY~~d~~~~v~~si~~l~~~~~~~~ 68 (68)
||-+.|-.||....+.+=|.-+ -++.==++ ...+|.+|++||.++|++.|
T Consensus 24 GLs~~Dv~v~~~LL~~~~~~tvdelae~lnr-~rStv~rsl~~L~~~GlV~R 74 (126)
T COG3355 24 GLSELDVEVYKALLEENGPLTVDELAEILNR-SRSTVYRSLQNLLEAGLVER 74 (126)
T ss_pred CCcHHHHHHHHHHHhhcCCcCHHHHHHHHCc-cHHHHHHHHHHHHHcCCeee
Confidence 5667888888888754434321 11111112 23489999999999999876
No 15
>PRK03743 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=69.35 E-value=23 Score=26.89 Aligned_cols=53 Identities=8% Similarity=0.118 Sum_probs=43.0
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCC--CEEEEec-------CCC-ccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRV--PIVMLTS-------GGY-LKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~I--Pva~v~g-------GGY-~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+.=+...+++++.+| |-.+|.| ||+ +++..++|.-.|+.+.++|+
T Consensus 178 ~it~e~i~~~i~~~~~~l~~~gi~~PrIaV~GLNPHAGE~G~~G~EE~~iI~PAI~~~~~~g~ 240 (332)
T PRK03743 178 YVTKERVLDYIQRCTKALEKLGIKNPKIAVAGLNPHSGEHGLFGDEEVDEIIPAVEAAQEMGI 240 (332)
T ss_pred HhCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCCCCCCCCCCcHHHHHHHHHHHHHHHHCCC
Confidence 57999999999999999998787 6555654 444 67888899999999988864
No 16
>COG3588 Fructose-1,6-bisphosphate aldolase [Carbohydrate transport and metabolism]
Probab=68.78 E-value=7.6 Score=29.86 Aligned_cols=36 Identities=19% Similarity=0.286 Sum_probs=29.9
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
|.+-+.+...+++..-.-+.+|=++.++|||+++.+
T Consensus 233 s~~~vae~tl~~~~~tvP~~vpgIvfLSGG~s~eeA 268 (332)
T COG3588 233 SPDEVAEDTLYSLLSTVPAVVPGIVFLSGGYSSEEA 268 (332)
T ss_pred chHHHHHHHHHHHHhcCCcccceeEEecCCcchHHH
Confidence 778888888888888888899977789999987644
No 17
>cd00147 cPLA2_like Cytosolic phospholipase A2, catalytic domain; hydrolyses arachidonyl phospholipids. Catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond of phospholipids to release arachidonic acid. At the active site, cPLA2 contains a serine nucleophile through which the catalytic mechanism is initiated. The active site is partially covered by a solvent-accessible flexible lid. cPLA2 displays interfacial activation as it exists in both "closed lid" and "open lid" forms. Movement of the cPLA2 lid possibly exposes a greater hydrophobic surface and the active site. cPLA2 belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). Calcium is required for cPLA2 to bind with membranes or phospholipids. Group IV cPLA2 includes six intercellular enzymes: cPLA2alpha, cPLA2beta, cPLA2gamma, cPLA2delta, cP
Probab=68.33 E-value=12 Score=29.30 Aligned_cols=47 Identities=23% Similarity=0.398 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHhC----------CCCEEEEe--cCCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 19 IIRRDELVFMKARER----------RVPIVMLT--SGGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 19 i~~RD~~V~~~a~~~----------~IPva~v~--gGGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
+.+|...|.+..++. ..|++.+. ||||..- -.-.-+++.|.+.|+++
T Consensus 15 l~kR~~~~~~aL~~~L~~~~~~~~~~~p~i~~~~sGGG~Ra~--~~~~G~l~~l~~~gll~ 73 (438)
T cd00147 15 LEKRRKVVAKALKKFLGLENDLNPDEVPVIAILGSGGGYRAM--TGGAGALKALDEGGLLD 73 (438)
T ss_pred HHHHHHHHHHHHHHHHhcccccCcccCceEEEEecCchHHHH--HhhhHHHHHHHhCCchh
Confidence 567888887766653 67876554 8898532 22344667777777764
No 18
>COG4136 ABC-type uncharacterized transport system, ATPase component [General function prediction only]
Probab=67.64 E-value=6 Score=28.50 Aligned_cols=18 Identities=33% Similarity=0.578 Sum_probs=16.6
Q ss_pred HHHHHHHHhCCCCEEEEe
Q psy8530 24 ELVFMKARERRVPIVMLT 41 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~ 41 (68)
++||+.+++.+||++.|.
T Consensus 175 ~wVFs~~r~agiPtv~VT 192 (213)
T COG4136 175 QWVFSEVRAAGIPTVQVT 192 (213)
T ss_pred HHHHHHHHhcCCCeEEEe
Confidence 579999999999999986
No 19
>COG1179 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]
Probab=66.94 E-value=4 Score=30.49 Aligned_cols=27 Identities=15% Similarity=0.320 Sum_probs=22.4
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-.+.+|++++||+...||.|=..|..+
T Consensus 137 ~Li~~c~~~ki~vIss~Gag~k~DPTr 163 (263)
T COG1179 137 ALIAYCRRNKIPVISSMGAGGKLDPTR 163 (263)
T ss_pred HHHHHHHHcCCCEEeeccccCCCCCce
Confidence 357899999999999999888777543
No 20
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=66.42 E-value=23 Score=24.36 Aligned_cols=37 Identities=24% Similarity=0.333 Sum_probs=25.5
Q ss_pred HHHHHHHhCCCCEEEEecC--CCccchHHHHHHHHHhHH
Q psy8530 25 LVFMKARERRVPIVMLTSG--GYLKQTARIIADSILNLA 61 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG--GY~~d~~~~v~~si~~l~ 61 (68)
-.+++|+..|.+.+.+.+| ||..+.++..+..+.+|.
T Consensus 94 ~~i~~a~~lGa~~i~~~~~~~~~~~~~~~~~~~~~~~l~ 132 (275)
T PRK09856 94 LAMDMAKEMNAGYTLISAAHAGYLTPPNVIWGRLAENLS 132 (275)
T ss_pred HHHHHHHHhCCCEEEEcCCCCCCCCCHHHHHHHHHHHHH
Confidence 4679999999999877654 565565555555555544
No 21
>cd06557 KPHMT-like Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a precursor to coenzyme A and is required for penicillin biosynthesis.
Probab=66.41 E-value=12 Score=27.23 Aligned_cols=49 Identities=14% Similarity=0.236 Sum_probs=30.5
Q ss_pred CHHHHHHHHHHHHHH---HHhCCCC-EEEEec-CCCccchHHHHHHHHHhHHHc
Q psy8530 15 DHLGIIRRDELVFMK---ARERRVP-IVMLTS-GGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~---a~~~~IP-va~v~g-GGY~~d~~~~v~~si~~l~~~ 63 (68)
.+.+....|+++... ++..++| |++=++ |||..+.++.++...+-+.+-
T Consensus 50 pDt~~vtl~em~~~~~~V~r~~~~p~viaD~~fg~y~~~~~~av~~a~r~~~~a 103 (254)
T cd06557 50 DSTLPVTLDEMIYHTRAVRRGAPRALVVADMPFGSYQTSPEQALRNAARLMKEA 103 (254)
T ss_pred CCCCCcCHHHHHHHHHHHHhcCCCCeEEEeCCCCcccCCHHHHHHHHHHHHHHh
Confidence 333444445554444 3445678 444367 999999998888877666543
No 22
>PRK00015 rnhB ribonuclease HII; Validated
Probab=65.51 E-value=6.3 Score=27.51 Aligned_cols=46 Identities=20% Similarity=0.117 Sum_probs=36.8
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
..+|.....++.+-|.+ ||+++-++.+... ...+-.+-||+.+...
T Consensus 130 ~kaD~~~~~VaAASIvAKv~RD~~m~~l~~~~~-~yg~~~~sGY~s~~~~ 178 (197)
T PRK00015 130 VKGDAKSPSIAAASILAKVTRDRLMEELDKEYP-GYGFAKHKGYGTKEHL 178 (197)
T ss_pred EcCCcccHHHHHHHHHHHHHHHHHHHHHHHhCc-CCCCcCCCcCCCHHHH
Confidence 46777788999999999 9999988877664 3456677999988764
No 23
>PF13730 HTH_36: Helix-turn-helix domain
Probab=65.28 E-value=7.3 Score=20.88 Aligned_cols=17 Identities=35% Similarity=0.573 Sum_probs=15.2
Q ss_pred HHHHHHHHHhHHHcCCc
Q psy8530 50 ARIIADSILNLADLGLI 66 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~ 66 (68)
.++|.++|..|.++|+|
T Consensus 39 ~~Tv~~~i~~L~~~G~I 55 (55)
T PF13730_consen 39 RRTVQRAIKELEEKGLI 55 (55)
T ss_pred HHHHHHHHHHHHHCcCC
Confidence 56899999999999987
No 24
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=63.82 E-value=8.4 Score=28.45 Aligned_cols=29 Identities=17% Similarity=0.421 Sum_probs=20.4
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARII 53 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v 53 (68)
.-.+++|+++|||++.+- ||....++.+.
T Consensus 127 ~efl~~L~~~GIpv~IvS-~G~~~~Ie~vL 155 (277)
T TIGR01544 127 ENFFDKLQQHSIPVFIFS-AGIGNVLEEVL 155 (277)
T ss_pred HHHHHHHHHCCCcEEEEe-CCcHHHHHHHH
Confidence 347899999999998765 56654444443
No 25
>cd07182 RNaseH_typeII_bacteria_HII_like bacterial Ribonuclease HII-like. Bacterial ribonuclease (RNase) HII has a role in primer removal based on its involvement in ribonucleotide-specific catalytic activity in the presence of RNA/DNA hybrid substrates. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. Several bacteria, such as Bacillus subtilis, have two different type II RNases H, RNases HII and HIII- double deletion of these leads to cellular lethality. It appears that type I and type II RNases H also have overlapping functions in cells, as over-expression of Escherichia coli RNase HII can complement an RNase HI deletion phenotype in E. coli.
Probab=63.25 E-value=7 Score=26.73 Aligned_cols=45 Identities=18% Similarity=0.166 Sum_probs=36.5
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+.+|.....++.+-|.+ ||+++-++.+... ...+-.+-||+.+..
T Consensus 111 ~KaD~~~~~VaAASIvAKv~RD~~m~~l~~~~~-~yg~~~~~GY~s~~h 158 (179)
T cd07182 111 VKGDAKSASIAAASILAKVTRDRLMIELDKKYP-GYGFAKHKGYGTKEH 158 (179)
T ss_pred eccccccHHHHHHHHHHHHHHHHHHHHHHHHCc-CCCCcCCCCCCcHHH
Confidence 56788888999999999 9999998877764 445677899998654
No 26
>cd04240 AAK_UC AAK_UC: Uncharacterized (UC) amino acid kinase-like proteins found mainly in archaea and a few bacteria. Sequences in this CD are members of the Amino Acid Kinase (AAK) superfamily.
Probab=63.20 E-value=16 Score=25.15 Aligned_cols=23 Identities=13% Similarity=0.164 Sum_probs=16.9
Q ss_pred HHHHHHHHhC-CCCEEEEecCCCc
Q psy8530 24 ELVFMKARER-RVPIVMLTSGGYL 46 (68)
Q Consensus 24 ~~V~~~a~~~-~IPva~v~gGGY~ 46 (68)
..+++++.+. +.+++.|.|||--
T Consensus 13 ~~~~~~l~~~~~~~v~iV~GGG~~ 36 (203)
T cd04240 13 VRLLRWLKTLSGGGVVIVPGGGPF 36 (203)
T ss_pred HHHHHHHHhccCCCEEEEcCCcHH
Confidence 3455555554 8999999999963
No 27
>PRK13926 ribonuclease HII; Provisional
Probab=62.16 E-value=11 Score=26.56 Aligned_cols=43 Identities=14% Similarity=0.053 Sum_probs=35.2
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
+.+|.....++.+-|.+ ||+++-++.+..+ ...+-.+-||+..
T Consensus 132 ~KgD~~~~~VaAASIvAKv~RD~~m~~l~~~~~-~yg~~~~kGY~t~ 177 (207)
T PRK13926 132 PKADALSPTVAAASLLAKTERDRLMRELDARYP-GYGFARHKGYGTP 177 (207)
T ss_pred ecCccccHHHHHHHHHHHHHHHHHHHHHHHhCc-cCCCcCCCCCCCH
Confidence 46788888999999999 9999999988764 3456778999844
No 28
>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....
Probab=61.54 E-value=15 Score=24.73 Aligned_cols=22 Identities=18% Similarity=0.418 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhCCCCEEEEe
Q psy8530 20 IRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+|+...+.+.++.++|++.++
T Consensus 91 l~r~l~l~~ql~e~g~P~vvvl 112 (156)
T PF02421_consen 91 LERNLYLTLQLLELGIPVVVVL 112 (156)
T ss_dssp HHHHHHHHHHHHHTTSSEEEEE
T ss_pred HHHHHHHHHHHHHcCCCEEEEE
Confidence 6899999999999999999887
No 29
>TIGR03282 methan_mark_13 putative methanogenesis marker 13 metalloprotein. 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. This metal cluster-binding family is related to nitrogenase structural protein NifD and accessory protein NifE, among others.
Probab=59.82 E-value=30 Score=26.82 Aligned_cols=35 Identities=11% Similarity=0.346 Sum_probs=28.4
Q ss_pred hCCCCEEEEec-CCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 32 ERRVPIVMLTS-GGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 32 ~~~IPva~v~g-GGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
+.++||+.|-. ||| -+...=+....+..+++|+|+
T Consensus 102 ~~giPVI~V~t~GGf-Gdn~~G~~~aLeAiidq~~i~ 137 (352)
T TIGR03282 102 DVDAEVIAVEVHAGF-GDNTEGVIATLESAAEAGIID 137 (352)
T ss_pred CCCCCEEEEECCCCC-ccHHHHHHHHHHHHHHhCCcC
Confidence 46999999976 888 455556778888999999987
No 30
>KOG1325|consensus
Probab=59.73 E-value=17 Score=29.75 Aligned_cols=44 Identities=16% Similarity=0.138 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHhC----------------CCCEEEEe--cCCCccchHHHHHHHHHhHHHc
Q psy8530 18 GIIRRDELVFMKARER----------------RVPIVMLT--SGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~----------------~IPva~v~--gGGY~~d~~~~v~~si~~l~~~ 63 (68)
=+-+|...|-+..++. ++|+++++ ||||..=. .-.-++-.|.++
T Consensus 14 fl~kRk~~v~~AL~~fL~~~~~~l~~~~~~~~d~P~vaIa~SGGG~RAMl--~g~G~Laamder 75 (571)
T KOG1325|consen 14 FLEKRKSKVNEALKSFLSNTTLNLDSDSLVSSDGPVVGIAGSGGGLRAML--SGAGALAAMDER 75 (571)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccccccCCCCeEEEEecCCCHHHHh--hhhHHHHHHHhh
Confidence 3567777776666652 49999888 99995433 234456667777
No 31
>cd07202 cPLA2_Grp-IVC Group IVC cytoplasmic phospholipase A2; catalytic domain; Ca-independent. Group IVC cPLA2, a small 61 kDa protein, is a single domain alpha/beta hydrolase. It lacks a C2 domain; therefore, it has no Ca-dependence. Group IVC cPLA2 is also referred to as cPLA2-gamma. The cPLA2-gamma enzyme is predominantly found in cardiac and skeletal muscles, and to a lesser extent in the brain. Human cPLA2-gamma is approximately 30% identical to cPLA2-alpha. The catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond of phospholipids to release arachidonic acid. At the active site, cPLA2 contains a serine nucleophile through which the catalytic mechanism is initiated. The active site is partially covered by a solvent-accessible flexible lid. cPLA2 displays interfacial activation as it exists in both "closed lid" and "open lid" forms. Movement of the cPLA2 lid possibly exposes a greater hydrophobic surface and the active site. cPLA2 be
Probab=59.65 E-value=21 Score=28.36 Aligned_cols=48 Identities=19% Similarity=0.401 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHhCCC-----CEEEEe--cCCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 18 GIIRRDELVFMKARERRV-----PIVMLT--SGGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~I-----Pva~v~--gGGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
=+.+|...|.+..++.++ |++.+. ||||..=.. -.-++..|.+.|+++
T Consensus 16 ~l~kRr~~t~~aL~~l~l~~d~~P~i~ia~SGGG~RAm~~--~~G~l~al~~~GLl~ 70 (430)
T cd07202 16 AVVKRRKDVLQSLQKLGINADKAPVIAVLGSGGGLRAMIA--CLGVLSELDKAGLLD 70 (430)
T ss_pred HHHHHHHHHHHHHHHcCCCcccCCeEEEEecCccHHHHHh--ccHHHHHhhhCChhh
Confidence 356788888888777764 766444 999953322 223455555556653
No 32
>PRK05377 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=59.57 E-value=5.3 Score=30.31 Aligned_cols=23 Identities=35% Similarity=0.429 Sum_probs=17.3
Q ss_pred HHHhCCCCEEEEecCCCccchHH
Q psy8530 29 KARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 29 ~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
....-+++=++.++|||+++.+.
T Consensus 227 l~~hp~v~rvVaLSGGysr~eA~ 249 (296)
T PRK05377 227 LIDHPRVLRVVALSGGYSRDEAN 249 (296)
T ss_pred hccCCCeeEEEEccCCcCHHHHH
Confidence 34445788889999999988653
No 33
>PRK00311 panB 3-methyl-2-oxobutanoate hydroxymethyltransferase; Reviewed
Probab=58.81 E-value=12 Score=27.34 Aligned_cols=47 Identities=13% Similarity=0.199 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHH---HHhCCCC-EEEEec-CCCccchHHHHHHHHHhHHHc
Q psy8530 17 LGIIRRDELVFMK---ARERRVP-IVMLTS-GGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 17 ~Gi~~RD~~V~~~---a~~~~IP-va~v~g-GGY~~d~~~~v~~si~~l~~~ 63 (68)
.+....|+++... ++..++| |++=|+ |||..+.++.+...+.-+.+-
T Consensus 55 t~~vtl~em~~h~~~V~r~~~~p~vvaD~pfg~y~~~~~~av~~a~r~~~~a 106 (264)
T PRK00311 55 TLPVTLDDMIYHTKAVARGAPRALVVADMPFGSYQASPEQALRNAGRLMKEA 106 (264)
T ss_pred CCCcCHHHHHHHHHHHHhcCCCCcEEEeCCCCCccCCHHHHHHHHHHHHHHh
Confidence 3344445554444 3445565 444467 999988888777776665543
No 34
>TIGR01019 sucCoAalpha succinyl-CoA synthetase, alpha subunit. ATP citrate lyases appear to form an outgroup.
Probab=57.96 E-value=24 Score=25.95 Aligned_cols=37 Identities=5% Similarity=0.050 Sum_probs=26.2
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADLG 64 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~ 64 (68)
.-+++.|.++|++.+.+++.||... -++-+....++.
T Consensus 77 ~~~l~e~~~~Gvk~avIis~Gf~e~----~~~~l~~~a~~~ 113 (286)
T TIGR01019 77 ADAIFEAIDAGIELIVCITEGIPVH----DMLKVKRYMEES 113 (286)
T ss_pred HHHHHHHHHCCCCEEEEECCCCCHH----HHHHHHHHHHHc
Confidence 3467889999999999999999654 223444444443
No 35
>cd00755 YgdL_like Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like substrate, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of the substrate. The exact function of this family is unknown.
Probab=57.76 E-value=9 Score=27.21 Aligned_cols=25 Identities=16% Similarity=0.317 Sum_probs=19.6
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
..+.++|++++||+...+|.|=..|
T Consensus 117 ~~L~~~c~~~~ip~I~s~g~g~~~d 141 (231)
T cd00755 117 VALIAYCRKRKIPVISSMGAGGKLD 141 (231)
T ss_pred HHHHHHHHHhCCCEEEEeCCcCCCC
Confidence 4578999999999999986554433
No 36
>PF07287 DUF1446: Protein of unknown function (DUF1446); InterPro: IPR010839 This family consists of several bacterial and plant proteins of around 400 residues in length. The function of this family is unknown.
Probab=57.74 E-value=31 Score=26.44 Aligned_cols=40 Identities=18% Similarity=0.177 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
.++=+.++..|+++||||++-.||.=... .+.-|+.+.++
T Consensus 57 ~~~L~~~L~~~~~~gIkvI~NaGg~np~~----~a~~v~eia~e 96 (362)
T PF07287_consen 57 VRDLRPLLPAAAEKGIKVITNAGGLNPAG----CADIVREIARE 96 (362)
T ss_pred HHHHHHHHHHHHhCCCCEEEeCCCCCHHH----HHHHHHHHHHh
Confidence 33446899999999999988877664333 33444444444
No 37
>PLN02954 phosphoserine phosphatase
Probab=56.87 E-value=19 Score=23.89 Aligned_cols=30 Identities=27% Similarity=0.422 Sum_probs=20.1
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARIIA 54 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~ 54 (68)
..++++++++|+|++.+ +||+....+.+++
T Consensus 90 ~e~l~~l~~~g~~~~Iv-S~~~~~~i~~~l~ 119 (224)
T PLN02954 90 PELVKKLRARGTDVYLV-SGGFRQMIAPVAA 119 (224)
T ss_pred HHHHHHHHHCCCEEEEE-CCCcHHHHHHHHH
Confidence 34889999999998865 5555444444433
No 38
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=56.55 E-value=42 Score=23.05 Aligned_cols=37 Identities=19% Similarity=0.277 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcc-chHHHHHHHHHhH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLK-QTARIIADSILNL 60 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~-d~~~~v~~si~~l 60 (68)
+..++.|++.|.|.+.+..|.|.. +.++..++.+..|
T Consensus 87 ~~~i~~A~~lGa~~vv~h~g~~~~~~~e~~~~~~~~~l 124 (273)
T smart00518 87 IDEIKRCEELGIKALVFHPGSYLKQSKEEALNRIIESL 124 (273)
T ss_pred HHHHHHHHHcCCCEEEEccccccCCCHHHHHHHHHHHH
Confidence 457888999999998887877642 2233344444333
No 39
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=56.38 E-value=28 Score=26.70 Aligned_cols=41 Identities=12% Similarity=0.178 Sum_probs=28.5
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchH--HHHHHHHHhHHHcC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTA--RIIADSILNLADLG 64 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~--~~v~~si~~l~~~~ 64 (68)
.-+++.|.+.|++-++++++||+..-. ...+..+....++.
T Consensus 78 ~~~l~e~~~~gv~~~vi~s~gf~e~g~~g~~~~~~l~~~a~~~ 120 (447)
T TIGR02717 78 PQVVEECGEKGVKGAVVITAGFKEVGEEGAELEQELVEIARKY 120 (447)
T ss_pred HHHHHHHHhcCCCEEEEECCCccccCcchHHHHHHHHHHHHHc
Confidence 457888999999999999999986432 12334455555444
No 40
>PRK05678 succinyl-CoA synthetase subunit alpha; Validated
Probab=56.30 E-value=29 Score=25.61 Aligned_cols=22 Identities=9% Similarity=0.218 Sum_probs=19.9
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
-+++.|-++|++.+++++.|+.
T Consensus 80 ~~l~e~~~~gvk~avI~s~Gf~ 101 (291)
T PRK05678 80 DAILEAIDAGIDLIVCITEGIP 101 (291)
T ss_pred HHHHHHHHCCCCEEEEECCCCC
Confidence 4678899999999999999997
No 41
>cd06279 PBP1_LacI_like_3 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=55.87 E-value=40 Score=22.80 Aligned_cols=40 Identities=18% Similarity=0.191 Sum_probs=28.8
Q ss_pred HHHHHHHhCCCCEEEEecCC------CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSGG------YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG------Y~~d~~~~v~~si~~l~~~~ 64 (68)
-+++.+++.+||++++-..- ...|.........+.|.++|
T Consensus 70 ~~~~~~~~~~ipvV~~~~~~~~~~~~v~~d~~~~g~~~~~~L~~~g 115 (283)
T cd06279 70 PLVAALLRRGLPVVVVDQPLPPGVPSVGIDDRAAAREAARHLLDLG 115 (283)
T ss_pred HHHHHHHHcCCCEEEEecCCCCCCCEEeeCcHHHHHHHHHHHHHcC
Confidence 36888899999999884321 13456677778888888875
No 42
>TIGR01668 YqeG_hyp_ppase HAD superfamily (subfamily IIIA) phosphatase, TIGR01668. This family consists of sequences from fungi, plants, cyanobacteria, gram-positive bacteria and Deinococcus. There is presently no characterization of any sequence in this family.
Probab=55.64 E-value=25 Score=23.13 Aligned_cols=22 Identities=9% Similarity=-0.026 Sum_probs=18.7
Q ss_pred HHHHHhCCCCEEEEecCCCccc
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d 48 (68)
+..|++.|++.+++..|+++.+
T Consensus 122 i~aA~~aGi~~i~v~~g~~~~~ 143 (170)
T TIGR01668 122 VMGGNRNGSYTILVEPLVHPDQ 143 (170)
T ss_pred HHHHHHcCCeEEEEccCcCCcc
Confidence 6789999999999988877765
No 43
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=55.52 E-value=47 Score=21.05 Aligned_cols=24 Identities=13% Similarity=0.121 Sum_probs=19.6
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
.+.=+..++.|+..|++.+.+.+|
T Consensus 70 ~~~~~~~i~~a~~lg~~~i~~~~g 93 (213)
T PF01261_consen 70 LEYLKKAIDLAKRLGAKYIVVHSG 93 (213)
T ss_dssp HHHHHHHHHHHHHHTBSEEEEECT
T ss_pred HHHHHHHHHHHHHhCCCceeecCc
Confidence 344466789999999999999888
No 44
>cd00949 FBP_aldolase_I_bact Fructose-1.6-bisphosphate aldolase found in gram +/- bacteria. The enzyme catalyzes the cleavage of fructose 1,6-bisphosphate to glyceraldehyde 3-phosphate and dihydroxyacetone phosphate (DHAP). The enzyme is member of the class I aldolase family, which utilizes covalent catalysis through a Schiff base formed between a lysine residue of the enzyme and ketose substrates.
Probab=55.41 E-value=6.2 Score=29.88 Aligned_cols=22 Identities=32% Similarity=0.436 Sum_probs=15.4
Q ss_pred HHHhCCCCEEEEecCCCccchH
Q psy8530 29 KARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 29 ~a~~~~IPva~v~gGGY~~d~~ 50 (68)
....-++--|+.++|||+++.+
T Consensus 224 l~~hp~v~rvvalsggysr~~a 245 (292)
T cd00949 224 LIEHPKVLRVVALSGGYSREEA 245 (292)
T ss_pred HhcCCCeEEEEEcCCCcCHHHH
Confidence 3334455567888999998865
No 45
>cd07201 cPLA2_Grp-IVB-IVD-IVE-IVF Group IVB, IVD, IVE, and IVF cytosolic phospholipase A2; catalytic domain; Ca-dependent. Group IVB, IVD, IVE, and IVF cPLA2 consists of two domains: the regulatory C2 domain and alpha/beta hydrolase PLA2 domain. Group IVB, IVD, IVE, and IVF cPLA2 are also referred to as cPLA2-beta, -delta, -epsilon, and -zeta respectively. cPLA2-beta is approximately 30% identical to cPLA2-alpha and it shows low enzymatic activity compared to cPLA2alpha. cPLA2-beta hydrolyzes palmitic acid from 1-[14C]palmitoyl-2-arachidonoyl-PC and arachidonic acid from 1-palmitoyl-2[14C]arachidonoyl-PC, but not from 1-O-alkyl-2[3H]arachidonoyl-PC. cPLA2-delta, -epsilon, and -zeta are approximately 45-50% identical to cPLA2-beta and 31-37% identical to cPLA2-alpha. It's possible that cPLA2-beta, -delta, -epsilon, and -zeta may have arisen by gene duplication from an ancestral gene. The catalytic domain of cytosolic phospholipase A2 (PLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bon
Probab=55.11 E-value=20 Score=29.22 Aligned_cols=47 Identities=30% Similarity=0.538 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHh----------CCCCEEEEe--cCCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 19 IIRRDELVFMKARE----------RRVPIVMLT--SGGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 19 i~~RD~~V~~~a~~----------~~IPva~v~--gGGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
+.+|...|.+..++ .++|++.+. ||||..=.. -+-++..|.+-||++
T Consensus 26 l~kRr~~t~~aL~~fL~l~~~~~~~~~P~Igia~SGGGyRAml~--gaG~l~al~~~GLLq 84 (541)
T cd07201 26 LQKRKKVVAAALKKALQLEEDLQEDEVPVVAVMTTGGGTRALTS--MYGSLLGLQKLGLLD 84 (541)
T ss_pred HHHHHHHHHHHHHHHhcccccCCcccCCeEEEEecCccHHHHHh--ccHHHHhhhcCCchh
Confidence 55677777666665 378977654 999953322 223444444445553
No 46
>TIGR02328 conserved hypothetical protein. Members of this protein are found in a small number of taxonomically well separated species, yet are strongly conserved, suggesting lateral gene transfer. Members are found in Treponema denticola, Clostridium acetobutylicum, and several of the Firmicutes. The function of this protein is unknown.
Probab=54.93 E-value=56 Score=21.90 Aligned_cols=55 Identities=18% Similarity=0.231 Sum_probs=41.8
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEE----------------------EecCCCccchHHHHHHHHHhHHHcCCc
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVM----------------------LTSGGYLKQTARIIADSILNLADLGLI 66 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~----------------------v~gGGY~~d~~~~v~~si~~l~~~~~~ 66 (68)
+.-|..-+++|.++|.+....+|--+.- +-.==|..-.+.-...++.||.+||..
T Consensus 43 f~~s~~~L~~yH~lv~~EM~~RGY~~~~~W~d~~yRG~~~~~y~~l~~~~~~~PiY~eHd~~Yl~eCl~NL~~KgI~ 119 (120)
T TIGR02328 43 FCYSPYKLFAYHLLVMEEMATRGYHVSKQWLDPNYRGQNCPNYDLLEEIKLTTPIYPEHNDDYLNECLANLRAKGII 119 (120)
T ss_pred hhcCHHHHHHHHHHHHHHHHHcCCCCChhhcCccccCCcCCcccccchhhcCCCCChhhhHHHHHHHHHHHHHcCcc
Confidence 4678899999999999999888754432 333346665667788999999999853
No 47
>PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria. The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A.
Probab=54.83 E-value=4.9 Score=23.44 Aligned_cols=51 Identities=18% Similarity=0.186 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHh----CCCCEE-EEecCCCccchHHHHHHHHHhHHHcCCcCC
Q psy8530 18 GIIRRDELVFMKARE----RRVPIV-MLTSGGYLKQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~----~~IPva-~v~gGGY~~d~~~~v~~si~~l~~~~~~~~ 68 (68)
.+-+|.+-||++.++ +|.|.. -=++-+.+=.+...|..=++.|.+||+|.|
T Consensus 3 ~LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~Le~kG~I~r 58 (65)
T PF01726_consen 3 ELTERQKEVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKALERKGYIRR 58 (65)
T ss_dssp ---HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHHHHTTSEEE
T ss_pred CCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHHHHCcCccC
Confidence 456788888888765 566653 333443333456678888999999999875
No 48
>TIGR00213 GmhB_yaeD D,D-heptose 1,7-bisphosphate phosphatase. This family of proteins formerly designated yaeD resembles the histidinol phosphatase domain of the bifunctional protein HisB. The member from E. coli has been characterized as D,D-heptose 1,7-bisphosphate phosphatase, GmhB, involved in inner core LPS assembly (PubMed:11751812).
Probab=54.65 E-value=45 Score=21.71 Aligned_cols=19 Identities=11% Similarity=0.254 Sum_probs=16.4
Q ss_pred HHHHHHhCCCCEEEEecCC
Q psy8530 26 VFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG 44 (68)
+++.++++|+|++++....
T Consensus 34 ~L~~Lk~~G~~l~i~TN~~ 52 (176)
T TIGR00213 34 ALRELKKMGYALVLVTNQS 52 (176)
T ss_pred HHHHHHHCCCEEEEEeCCc
Confidence 8899999999999998543
No 49
>PF13463 HTH_27: Winged helix DNA-binding domain; PDB: 3GFL_A 2YR2_B 3GFM_A 3GFJ_A 3GF2_A 3GEZ_A 2GXG_A 3GFI_A 2EB7_A.
Probab=54.08 E-value=11 Score=20.60 Aligned_cols=18 Identities=22% Similarity=0.410 Sum_probs=15.1
Q ss_pred HHHHHHHHHhHHHcCCcC
Q psy8530 50 ARIIADSILNLADLGLIS 67 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~ 67 (68)
...+.+.|.+|.++|||.
T Consensus 32 ~~~vs~~i~~L~~~glv~ 49 (68)
T PF13463_consen 32 KSTVSRIIKKLEEKGLVE 49 (68)
T ss_dssp HHHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHHCCCEE
Confidence 446779999999999984
No 50
>TIGR00122 birA_repr_reg BirA biotin operon repressor domain. This model may recognize some other putative repressor proteins, such as DnrO of Streptomyces peucetius with scores below the noise cutoff but with significance shown by low E-value.
Probab=53.35 E-value=23 Score=19.88 Aligned_cols=36 Identities=17% Similarity=0.329 Sum_probs=25.5
Q ss_pred CCcc--cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 7 GDQV--DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 7 ~D~L--~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
..+| .+++|...+.++ ++...+.|+|+... +.||.=
T Consensus 16 ~~eLa~~l~vS~~tv~~~----l~~L~~~g~~i~~~-~~g~~l 53 (69)
T TIGR00122 16 GEKLGEALGMSRTAVNKH----IQTLREWGVDVLTV-GKGYRL 53 (69)
T ss_pred HHHHHHHHCCCHHHHHHH----HHHHHHCCCeEEec-CCceEe
Confidence 3455 688999887654 23334589999888 999864
No 51
>COG4359 Uncharacterized conserved protein [Function unknown]
Probab=53.23 E-value=14 Score=27.00 Aligned_cols=18 Identities=22% Similarity=0.538 Sum_probs=14.7
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
-+++|++++||+.+|-||
T Consensus 81 f~e~ike~di~fiVvSsG 98 (220)
T COG4359 81 FVEWIKEHDIPFIVVSSG 98 (220)
T ss_pred HHHHHHHcCCCEEEEeCC
Confidence 578999999999876554
No 52
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=52.91 E-value=45 Score=22.20 Aligned_cols=40 Identities=13% Similarity=-0.038 Sum_probs=27.8
Q ss_pred HHHHHHHhCCCCEEEEec----CC---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS----GG---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g----GG---Y~~d~~~~v~~si~~l~~~~ 64 (68)
-.++.+++.+||++++-. .. ...|.........+.|.++|
T Consensus 78 ~~~~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~g~~~a~~l~~~g 124 (275)
T cd06295 78 PLPERLAETGLPFVVWGRPLPGQPYCYVGSDNVGGGRLATEHLLARG 124 (275)
T ss_pred HHHHHHHhCCCCEEEECCccCCCCCCEEEECcHHHHHHHHHHHHHCC
Confidence 347888999999998742 11 12455667777788888775
No 53
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=52.59 E-value=16 Score=24.54 Aligned_cols=19 Identities=16% Similarity=0.398 Sum_probs=15.6
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
-++++++++|+|++.+.+|
T Consensus 81 e~l~~l~~~g~~~~IvS~~ 99 (219)
T PRK09552 81 EFVQFVKENNIPFYVVSGG 99 (219)
T ss_pred HHHHHHHHcCCeEEEECCC
Confidence 4789999999999866555
No 54
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=52.41 E-value=37 Score=24.45 Aligned_cols=24 Identities=21% Similarity=0.400 Sum_probs=22.6
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
|.++++.|+++|||..++--..|.
T Consensus 39 ~A~~lerA~~~gIpt~~~~~k~~~ 62 (200)
T COG0299 39 DAYALERAAKAGIPTVVLDRKEFP 62 (200)
T ss_pred CCHHHHHHHHcCCCEEEeccccCC
Confidence 789999999999999999999996
No 55
>PF10881 DUF2726: Protein of unknown function (DUF2726); InterPro: IPR024402 This domain found in bacterial proteins has no known function.
Probab=52.11 E-value=23 Score=22.17 Aligned_cols=30 Identities=17% Similarity=0.255 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEE-ecCCCc
Q psy8530 17 LGIIRRDELVFMKARERRVPIVML-TSGGYL 46 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v-~gGGY~ 46 (68)
+.-.+||+++=+.|++.|||+.-+ .--.|+
T Consensus 84 ~~~~~rD~~k~~~l~~agiplir~~~~~~~~ 114 (126)
T PF10881_consen 84 EKRQERDEFKDRVLKKAGIPLIRISPKDSYS 114 (126)
T ss_pred hhhHHHHHHHHHHHHHCCCCEEEEeCCCCCC
Confidence 357899999999999999999966 345553
No 56
>TIGR00179 murB UDP-N-acetylenolpyruvoylglucosamine reductase. This model describes MurB, UDP-N-acetylenolpyruvoylglucosamine reductase, which is also called UDP-N-acetylmuramate dehydrogenase. It is part of the pathway for the biosynthesis of the UDP-N-acetylmuramoyl-pentapeptide that is a precursor of bacterial peptidoglycan.
Probab=51.77 E-value=17 Score=26.39 Aligned_cols=21 Identities=24% Similarity=0.358 Sum_probs=16.9
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++++|+++++|+. ++|||=+
T Consensus 27 ~~l~~a~~~~~p~~-vlGgGSN 47 (284)
T TIGR00179 27 NVLDNAKEEDQPLL-ILGEGSN 47 (284)
T ss_pred HHHHHHHHcCCCEE-EEecceE
Confidence 46699999999987 6788854
No 57
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=51.76 E-value=25 Score=26.02 Aligned_cols=28 Identities=25% Similarity=0.301 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHhCCCCEEEEe-cCCCcc
Q psy8530 20 IRRDELVFMKARERRVPIVMLT-SGGYLK 47 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~-gGGY~~ 47 (68)
.++=...++.|.+.++|++.+. +||+.-
T Consensus 141 geKi~r~~e~A~~~~lPlV~l~dSgGaRm 169 (285)
T TIGR00515 141 GEKFVRAIEKALEDNCPLIIFSASGGARM 169 (285)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEcCCCccc
Confidence 3555667899999999999887 788753
No 58
>PRK05312 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional
Probab=51.63 E-value=75 Score=24.26 Aligned_cols=53 Identities=21% Similarity=0.258 Sum_probs=42.0
Q ss_pred cCCHHHHHHHHHHHHHHHH-hCCC--CEEEEec-------CC-CccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKAR-ERRV--PIVMLTS-------GG-YLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~-~~~I--Pva~v~g-------GG-Y~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+.=+...+.++ +.+| |-.+|.| || .+++..++|.-.|+.+.++|+
T Consensus 182 ~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLNPHAGE~G~~G~EE~~iI~PAI~~~~~~Gi 245 (336)
T PRK05312 182 ALTPELIVATARITAADLRRRFGIASPRLAVAGLNPHAGEGGALGREDIDIIAPAIEQLRAEGI 245 (336)
T ss_pred HhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEEeeCCCCCCCCCCcHHHHHHHHHHHHHHHHCCC
Confidence 4789999999999999888 5676 6556664 34 558888899999999998875
No 59
>PF03129 HGTP_anticodon: Anticodon binding domain; InterPro: IPR004154 tRNA synthetases, or tRNA ligases are involved in protein synthesis. This domain is found in histidyl, glycyl, threonyl and prolyl tRNA synthetases [] it is probably the anticodon binding domain [].; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding; PDB: 1KOG_B 1EVL_D 1EVK_B 1QF6_A 1FYF_B 2I4O_A 2I4M_A 2I4N_A 2I4L_A 1HC7_D ....
Probab=50.73 E-value=15 Score=21.38 Aligned_cols=17 Identities=12% Similarity=0.315 Sum_probs=14.8
Q ss_pred HHHHHHhCCCCEEEEec
Q psy8530 26 VFMKARERRVPIVMLTS 42 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g 42 (68)
-|..|...|+|.+.++|
T Consensus 44 ~~~~a~~~g~p~~iiiG 60 (94)
T PF03129_consen 44 QIKYADKLGIPFIIIIG 60 (94)
T ss_dssp HHHHHHHTTESEEEEEE
T ss_pred HHHHHhhcCCeEEEEEC
Confidence 46788889999999998
No 60
>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=50.64 E-value=43 Score=23.63 Aligned_cols=40 Identities=25% Similarity=0.514 Sum_probs=27.7
Q ss_pred HHHHHHHhCCCCEEEEe--cCC---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLT--SGG---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~--gGG---Y~~d~~~~v~~si~~l~~~~ 64 (68)
++-...+..+||+.+++ =|| |+.+--+.....|..+.+.|
T Consensus 41 ~i~~~~~~~~ipv~vMIRpr~gdF~Ys~~E~~~M~~dI~~~~~~G 85 (201)
T PF03932_consen 41 LIRQAREAVDIPVHVMIRPRGGDFVYSDEEIEIMKEDIRMLRELG 85 (201)
T ss_dssp HHHHHHHHTTSEEEEE--SSSS-S---HHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHhhcCCceEEEECCCCCCccCCHHHHHHHHHHHHHHHHcC
Confidence 44445557899999988 566 77777778888999888764
No 61
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=50.60 E-value=40 Score=22.20 Aligned_cols=40 Identities=18% Similarity=0.007 Sum_probs=26.7
Q ss_pred HHHHHHHhCCCCEEEEecCC-------CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSGG-------YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG-------Y~~d~~~~v~~si~~l~~~~ 64 (68)
-+++.+++.+||++++-... ...|..+......+.|.++|
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 115 (268)
T cd06273 69 ALLDLLARRGVPYVATWNYSPDSPYPCVGFDNREAGRLAARHLIALG 115 (268)
T ss_pred HHHHHHHhCCCCEEEEcCCCCCCCCCEEEeChHHHHHHHHHHHHHCC
Confidence 44677888999999874321 22344566777777777764
No 62
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=50.16 E-value=59 Score=21.21 Aligned_cols=39 Identities=26% Similarity=0.273 Sum_probs=26.9
Q ss_pred HHHHHHhCCCCEEEEecC---CC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSG---GY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG---GY---~~d~~~~v~~si~~l~~~~ 64 (68)
+++.+.+.|||++++-.. ++ ..|.........+.|.++|
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g 115 (266)
T cd06282 71 ALDLLDAERVPYVLAYNDPQPGRPSVSVDNRAAARDVAQALAALG 115 (266)
T ss_pred HHHHHhhCCCCEEEEeccCCCCCCEEeeCcHHHHHHHHHHHHHcC
Confidence 678899999999877431 21 2455666777778887764
No 63
>PRK15116 sulfur acceptor protein CsdL; Provisional
Probab=50.06 E-value=20 Score=26.25 Aligned_cols=26 Identities=15% Similarity=0.285 Sum_probs=20.0
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccch
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
..+.++|++++||+..++|.|=.-|.
T Consensus 136 ~~L~~~c~~~~ip~I~~gGag~k~dp 161 (268)
T PRK15116 136 AALIAYCRRNKIPLVTTGGAGGQIDP 161 (268)
T ss_pred HHHHHHHHHcCCCEEEECCcccCCCC
Confidence 35789999999999999866544443
No 64
>PRK01060 endonuclease IV; Provisional
Probab=49.90 E-value=66 Score=22.21 Aligned_cols=24 Identities=8% Similarity=0.069 Sum_probs=19.0
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
=+..++.|++.|.|.+.+-.|.|.
T Consensus 91 ~~~~i~~A~~lga~~vv~h~G~~~ 114 (281)
T PRK01060 91 LIQEIERCAALGAKLLVFHPGSHL 114 (281)
T ss_pred HHHHHHHHHHcCCCEEEEcCCcCC
Confidence 445678899999999888887763
No 65
>cd01012 YcaC_related YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them. Multimerisation interface seems not to be conserved in all members.
Probab=49.77 E-value=34 Score=22.04 Aligned_cols=26 Identities=15% Similarity=0.189 Sum_probs=23.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+.++=...++.|+++|+||+.+-
T Consensus 18 ~~~~~~~i~~l~~~ar~~g~pVi~~~ 43 (157)
T cd01012 18 FDELINNTVKLAKAAKLLDVPVILTE 43 (157)
T ss_pred HHHHHHHHHHHHHHHHhcCCCEEEEe
Confidence 67888899999999999999999875
No 66
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=49.69 E-value=19 Score=26.76 Aligned_cols=26 Identities=27% Similarity=0.432 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHhCCCCEEEEe-cCCCc
Q psy8530 21 RRDELVFMKARERRVPIVMLT-SGGYL 46 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~-gGGY~ 46 (68)
++=...++.|.+.++|++.+. +||..
T Consensus 143 eKi~r~~e~A~~~~lPlV~l~dsgGar 169 (292)
T PRK05654 143 EKIVRAVERAIEEKCPLVIFSASGGAR 169 (292)
T ss_pred HHHHHHHHHHHHcCCCEEEEEcCCCcc
Confidence 445567899999999999877 78874
No 67
>COG1082 IolE Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]
Probab=49.66 E-value=79 Score=21.35 Aligned_cols=37 Identities=19% Similarity=0.180 Sum_probs=26.3
Q ss_pred HHHHHHhCCCCEEEEecCCCccchH--------HHHHHHHHhHHH
Q psy8530 26 VFMKARERRVPIVMLTSGGYLKQTA--------RIIADSILNLAD 62 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~d~~--------~~v~~si~~l~~ 62 (68)
+++.|.+.|.+++.+..|++..... +....++..|.+
T Consensus 89 ~i~~a~~lg~~~vv~~~g~~~~~~~~~~~~~~~~~~~~~l~~l~~ 133 (274)
T COG1082 89 AIELAKELGAKVVVVHPGLGAGADDPDSPEEARERWAEALEELAE 133 (274)
T ss_pred HHHHHHHcCCCeEEeecccCCcCCCCCCCcccHHHHHHHHHHHHH
Confidence 9999999999999888776665543 334555555543
No 68
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=49.13 E-value=19 Score=22.33 Aligned_cols=17 Identities=12% Similarity=0.471 Sum_probs=14.8
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
-+...|.+++||++.|-
T Consensus 46 ~l~~lceek~Ip~v~V~ 62 (84)
T PRK13600 46 RVLSQINQKNIPVSFFK 62 (84)
T ss_pred HHHHHHHHcCCCEEEEC
Confidence 67889999999999873
No 69
>PF00274 Glycolytic: Fructose-bisphosphate aldolase class-I; InterPro: IPR000741 Fructose-bisphosphate aldolase (4.1.2.13 from EC) [, ] is a glycolytic enzyme that catalyses the reversible aldol cleavage or condensation of fructose-1,6-bisphosphate into dihydroxyacetone-phosphate and glyceraldehyde 3-phosphate. There are two classes of fructose-bisphosphate aldolases with different catalytic mechanisms: class I enzymes [] do not require a metal ion, and are characterised by the formation of a Schiff base intermediate between a highly conserved active site lysine and a substrate carbonyl group, while the class II enzymes require an active-site divalent metal ion. This entry represents the class I enzymes. In vertebrates, three forms of this enzyme are found: aldolase A is expressed in muscle, aldolase B in liver, kidney, stomach and intestine, and aldolase C in brain, heart and ovary. The different isozymes have different catalytic functions: aldolases A and C are mainly involved in glycolysis, while aldolase B is involved in both glycolysis and gluconeogenesis. Defects in aldolase B result in hereditary fructose intolerance.; GO: 0004332 fructose-bisphosphate aldolase activity, 0006096 glycolysis; PDB: 1EX5_B 6ALD_D 2QUU_B 3DFN_B 1ADO_B 3DFO_A 1ZAL_A 1J4E_C 3DFP_A 1ZAJ_B ....
Probab=48.90 E-value=50 Score=25.49 Aligned_cols=38 Identities=16% Similarity=0.197 Sum_probs=28.0
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-|.+-|..--..+|...--..+|-++-++|||+.+.+.
T Consensus 229 ~~~~~vA~~T~~~l~~~vP~aVpgIvFLSGGqs~e~At 266 (348)
T PF00274_consen 229 ASPEEVAEATVRALRRTVPAAVPGIVFLSGGQSEEEAT 266 (348)
T ss_dssp --HHHHHHHHHHHHHHHSBTTSSEEEEB-TTS-HHHHH
T ss_pred CCHHHHHHHHHHHHHHhcccccceeEecCCCCCHHHHH
Confidence 56777777777888888888999999999999876553
No 70
>cd07200 cPLA2_Grp-IVA Group IVA cytosolic phospholipase A2; catalytic domain; Ca-dependent. Group IVA cPLA2, an 85 kDa protein, consists of two domains: the regulatory C2 domain and the alpha/beta hydrolase PLA2 domain. Group IVA cPLA2 is also referred to as cPLA2-alpha. The catalytic domain of cytosolic phospholipase A2 (cPLA2; EC 3.1.1.4) hydrolyzes the sn-2-acyl ester bond of phospholipids to release arachidonic acid. At the active site, cPLA2 contains a serine nucleophile through which the catalytic mechanism is initiated. The active site is partially covered by a solvent-accessible flexible lid. cPLA2 displays interfacial activation as it exists in both "closed lid" and "open lid" forms. Movement of the cPLA2 lid possibly exposes a greater hydrophobic surface and the active site. cPLA2 belongs to the alpha-beta hydrolase family which is identified by a characteristic nucleophile elbow with a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile
Probab=48.59 E-value=20 Score=28.87 Aligned_cols=28 Identities=29% Similarity=0.388 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHhC------------CCCEEEEe--cCCCc
Q psy8530 19 IIRRDELVFMKARER------------RVPIVMLT--SGGYL 46 (68)
Q Consensus 19 i~~RD~~V~~~a~~~------------~IPva~v~--gGGY~ 46 (68)
+.+|...|.+..++. .+|++++. ||||+
T Consensus 15 l~~R~~~t~~aL~~~L~~~~~~~~~~~~~P~Iaia~SGGGyR 56 (505)
T cd07200 15 RQARKMRVREALRKLLGEEGPKVTSLREVPVIALLGSGGGFR 56 (505)
T ss_pred HHHHHHHHHHHHHHHHhccCccccCcccCCeEEEEecCccHH
Confidence 456666665554442 67877555 99995
No 71
>PRK13210 putative L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=48.46 E-value=87 Score=21.46 Aligned_cols=23 Identities=9% Similarity=-0.005 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhCCCCEEEEecC
Q psy8530 21 RRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~gG 43 (68)
++=+..+++|+..|+|.+.+.|+
T Consensus 94 ~~~~~~i~~a~~lG~~~v~~~~~ 116 (284)
T PRK13210 94 EIMKKAIRLAQDLGIRTIQLAGY 116 (284)
T ss_pred HHHHHHHHHHHHhCCCEEEECCc
Confidence 33467899999999999987544
No 72
>cd07180 RNaseH_typeII_Archaea_like Archaeal ribonuclease HII. Ribonuclease (RNase) H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, archaeal RNase HII and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication or repair. Some archaeal RNase HII show broad divalent cation specificity. It is proposed that three of the four acidic residues at the active site are involved in metal binding and the fourth one involved in the catalytic process in archaea. Most archaeal genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. It appears tha
Probab=48.43 E-value=38 Score=23.36 Aligned_cols=41 Identities=20% Similarity=0.101 Sum_probs=33.1
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
..+|.....++.+-|.+ ||+++-+.-++.+ -.|-||..|..
T Consensus 131 ~KgD~~~~~VAaASIlAKv~Rd~~m~~l~~~~~-----~~g~Gy~sd~~ 174 (204)
T cd07180 131 HKADAKYPVVSAASIIAKVERDREIEELKEEYG-----DFGSGYPSDPR 174 (204)
T ss_pred eCCcccCchhhHHHHHHHHHHHHHHHHHHHhcc-----cCCCcCCCCHH
Confidence 35677788999999999 9999999987773 45899987654
No 73
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=48.27 E-value=22 Score=21.74 Aligned_cols=40 Identities=20% Similarity=0.348 Sum_probs=34.4
Q ss_pred CCCCCCcc--cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 3 HTWMGDQV--DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 3 D~~~~D~L--~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
++|.|++| .|.+|...|... .+..++.|++|-.+-+=||.
T Consensus 18 ~~~SGe~La~~LgiSRtaVwK~----Iq~Lr~~G~~I~s~~~kGY~ 59 (79)
T COG1654 18 NFVSGEKLAEELGISRTAVWKH----IQQLREEGVDIESVRGKGYL 59 (79)
T ss_pred CcccHHHHHHHHCccHHHHHHH----HHHHHHhCCceEecCCCcee
Confidence 36888999 999999999864 77888999999999888995
No 74
>PF10557 Cullin_Nedd8: Cullin protein neddylation domain; InterPro: IPR019559 This is the neddylation site of cullin proteins, which are a family of structurally related proteins containing an evolutionarily conserved cullin domain. With the exception of APC2, each member of the cullin family is modified by Nedd8 and several cullins function in Ubiquitin-dependent proteolysis, a process in which the 26S proteasome recognises and subsequently degrades a target protein tagged with K48-linked poly-ubiquitin chains. Cullins are molecular scaffolds responsible for assembling the ROC1/Rbx1 RING-based E3 ubiquitin ligases, of which several play a direct role in tumorigenesis. Nedd8/Rub1 is a small ubiquitin-like protein, which was originally found to be conjugated to Cdc53, a cullin component of the SCF (Skp1-Cdc53/CUL1-F-box protein) E3 Ub ligase complex in Saccharomyces cerevisiae (Baker's yeast), and Nedd8 modification has now emerged as a regulatory pathway of fundamental importance for cell cycle control and for embryogenesis in metazoans. The only identified Nedd8 substrates are cullins. Neddylation results in covalent conjugation of a Nedd8 moiety onto a conserved cullin lysine residue []. ; GO: 0031625 ubiquitin protein ligase binding, 0006511 ubiquitin-dependent protein catabolic process, 0031461 cullin-RING ubiquitin ligase complex; PDB: 3RTR_G 3TDU_D 1LDJ_A 3TDZ_D 1LDK_B 1U6G_A 3O6B_J 3O2P_E 4A0K_A 2HYE_C ....
Probab=48.20 E-value=15 Score=21.16 Aligned_cols=24 Identities=21% Similarity=0.216 Sum_probs=17.3
Q ss_pred CCccchHHHHHHHHHhHHHcCCcCC
Q psy8530 44 GYLKQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 44 GY~~d~~~~v~~si~~l~~~~~~~~ 68 (68)
.+..+ ...+..+|+.|.+++.|.|
T Consensus 39 ~f~~~-~~~ik~~Ie~LIekeyi~R 62 (68)
T PF10557_consen 39 RFPPS-VSDIKKRIESLIEKEYIER 62 (68)
T ss_dssp TS----HHHHHHHHHHHHHTTSEEE
T ss_pred CcCCC-HHHHHHHHHHHHHhhhhhc
Confidence 34433 4579999999999999876
No 75
>PRK13209 L-xylulose 5-phosphate 3-epimerase; Reviewed
Probab=47.87 E-value=91 Score=21.52 Aligned_cols=22 Identities=9% Similarity=0.043 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhCCCCEEEEecC
Q psy8530 22 RDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gG 43 (68)
+=+.++++|+..|.|.+.+-|+
T Consensus 100 ~~~~~i~~a~~lG~~~i~~~~~ 121 (283)
T PRK13209 100 IMRKAIQLAQDLGIRVIQLAGY 121 (283)
T ss_pred HHHHHHHHHHHcCCCEEEECCc
Confidence 3457889999999998876443
No 76
>PRK10563 6-phosphogluconate phosphatase; Provisional
Probab=47.80 E-value=46 Score=21.99 Aligned_cols=21 Identities=5% Similarity=-0.053 Sum_probs=16.7
Q ss_pred HHHHHhCCCCEEEEecCCCcc
Q psy8530 27 FMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~ 47 (68)
++.|++.|+|++.+-.+++..
T Consensus 172 i~aA~~aG~~~i~~~~~~~~~ 192 (221)
T PRK10563 172 AQSGIAAGMEVFYFCADPHNK 192 (221)
T ss_pred HHHHHHCCCEEEEECCCCCCc
Confidence 578999999998886666654
No 77
>TIGR02853 spore_dpaA dipicolinic acid synthetase, A subunit. This predicted Rossman fold-containing protein is the A subunit of dipicolinic acid synthetase as found in most, though not all, endospore-forming low-GC Gram-positive bacteria; it is absent in Clostridium. The B subunit is represented by TIGR02852. This protein is also known as SpoVFA.
Probab=47.75 E-value=40 Score=24.45 Aligned_cols=36 Identities=22% Similarity=0.325 Sum_probs=30.0
Q ss_pred HHHHHhCCCCEEEEe--cCCC-ccchHHHHHHHHHhHHH
Q psy8530 27 FMKARERRVPIVMLT--SGGY-LKQTARIIADSILNLAD 62 (68)
Q Consensus 27 ~~~a~~~~IPva~v~--gGGY-~~d~~~~v~~si~~l~~ 62 (68)
|++|+++|++...+- =|.| .+....+++..|.++.+
T Consensus 248 f~~Ak~~G~~a~~~~glPg~~ap~ta~~i~~~~~~~~~~ 286 (287)
T TIGR02853 248 FEYAKKRGIKALLAPGLPGIVAPKTAGKILANVLSELLL 286 (287)
T ss_pred HHHHHHCCCEEEEeCCCCcccCchhHHHHHHHHHHHHhh
Confidence 589999999999765 6888 66778888999998875
No 78
>cd06660 Aldo_ket_red Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial applications. Members have very distinct functions and include the prokaryotic 2,5-diketo-D-gluconic acid reductases and beta-keto ester reductases, the eukaryotic aldose reductases, aldehyde reductases, hydroxysteroid dehydrogenases, steroid 5beta-reductases, potassium channel beta-subunits and aflatoxin aldehyde reductases, among others.
Probab=47.51 E-value=15 Score=25.21 Aligned_cols=23 Identities=22% Similarity=0.388 Sum_probs=19.3
Q ss_pred HHHHHHHhCCCCEEE--EecCCCcc
Q psy8530 25 LVFMKARERRVPIVM--LTSGGYLK 47 (68)
Q Consensus 25 ~V~~~a~~~~IPva~--v~gGGY~~ 47 (68)
-++++|+++||++.+ .++||.-.
T Consensus 183 ~~~~~~~~~gi~v~~~~~l~~g~l~ 207 (285)
T cd06660 183 ELLPYCREHGIGVIAYSPLAGGLLT 207 (285)
T ss_pred HHHHHHHHcCcEEEEeccccCceec
Confidence 599999999999996 77888653
No 79
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=47.17 E-value=62 Score=21.31 Aligned_cols=39 Identities=15% Similarity=0.099 Sum_probs=28.3
Q ss_pred HHHHHHhCCCCEEEEecC-----CC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSG-----GY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG-----GY---~~d~~~~v~~si~~l~~~~ 64 (68)
.++.+++.+||++++-.- .+ ..|..........+|.++|
T Consensus 70 ~~~~~~~~~ipvV~i~~~~~~~~~~~~v~~d~~~~~~~a~~~l~~~g 116 (270)
T cd06296 70 QRAALRRTGIPFVVVDPAGDPDADVPSVGATNWAGGLAATEHLLELG 116 (270)
T ss_pred HHHHHhcCCCCEEEEecccCCCCCCCEEEeCcHHHHHHHHHHHHHcC
Confidence 478899999999998532 12 4456667777788888875
No 80
>COG0132 BioD Dethiobiotin synthetase [Coenzyme metabolism]
Probab=47.12 E-value=56 Score=23.44 Aligned_cols=35 Identities=23% Similarity=0.321 Sum_probs=26.7
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-|...==.+-.+.++++|+|+..++..||......
T Consensus 147 LGtINHtlLt~eal~~~gl~l~G~I~n~~~~~~~~ 181 (223)
T COG0132 147 LGTINHTLLTVEALRARGLPLAGWVANGINPELDH 181 (223)
T ss_pred ccHHHHHHHHHHHHHHCCCCEEEEEEccCCCchhH
Confidence 35555556677889999999999998888776554
No 81
>PF12738 PTCB-BRCT: twin BRCT domain; PDB: 3PA6_A 3KTF_C 2WT8_C 3EF1_A 3EF0_A.
Probab=46.78 E-value=15 Score=20.13 Aligned_cols=13 Identities=38% Similarity=0.731 Sum_probs=10.9
Q ss_pred HHHHHhCCCCEEE
Q psy8530 27 FMKARERRVPIVM 39 (68)
Q Consensus 27 ~~~a~~~~IPva~ 39 (68)
++.|++.||||+.
T Consensus 48 ~~~A~~~gi~vV~ 60 (63)
T PF12738_consen 48 YRKAKEWGIPVVS 60 (63)
T ss_dssp HHHHHHCTSEEEE
T ss_pred HHHHHHCCCcEEC
Confidence 6789999999984
No 82
>PF01202 SKI: Shikimate kinase; InterPro: IPR000623 Shikimate kinase (2.7.1.71 from EC) catalyses the fifth step in the biosynthesis of aromatic amino acids from chorismate (the so-called shikimate pathway) []. The enzyme catalyses the following reaction: ATP + shikimate = ADP + shikimate-3-phosphate The protein is found in bacteria (gene aroK or aroL), plants and fungi (where it is part of a multifunctional enzyme that catalyses five consecutive steps in this pathway). In 1994, the 3D structure of shikimate kinase was predicted to be very close to that of adenylate kinase, suggesting a functional similarity as well as an evolutionary relationship []. This prediction has since been confirmed experimentally. The protein is reported to possess an alpha/beta fold, consisting of a central sheet of five parallel beta-strands flanked by alpha-helices. Such a topology is very similar to that of adenylate kinase [].; GO: 0004765 shikimate kinase activity, 0005524 ATP binding; PDB: 3VAA_C 1KO8_B 1KO4_B 1KO1_A 1KOF_A 1KNQ_A 1KO5_A 1KAG_A 2PT5_D 1SHK_A ....
Probab=46.63 E-value=59 Score=20.88 Aligned_cols=33 Identities=9% Similarity=0.112 Sum_probs=23.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+.-++....+++.+...+ |.+.+.|||.....+
T Consensus 45 ~~fr~~E~~~l~~l~~~~-~~VIa~GGG~~~~~~ 77 (158)
T PF01202_consen 45 EAFRELESEALRELLKEN-NCVIACGGGIVLKEE 77 (158)
T ss_dssp HHHHHHHHHHHHHHHCSS-SEEEEE-TTGGGSHH
T ss_pred HHHHHHHHHHHHHHhccC-cEEEeCCCCCcCcHH
Confidence 344566677787777777 999999999766554
No 83
>cd02871 GH18_chitinase_D-like GH18 domain of Chitinase D (ChiD). ChiD, a chitinase found in Bacillus circulans, hydrolyzes the 1,4-beta-linkages of N-acetylglucosamine in chitin and chitodextrins. The domain architecture of ChiD includes a catalytic glycosyl hydrolase family 18 (GH18) domain, a chitin-binding domain, and a fibronectin type III domain. The chitin-binding and fibronectin type III domains are located either N-terminal or C-terminal to the catalytic domain. This family includes exochitinase Chi36 from Bacillus cereus.
Probab=46.60 E-value=51 Score=23.90 Aligned_cols=40 Identities=10% Similarity=0.040 Sum_probs=26.7
Q ss_pred HHHHHHhCCCCEEEEecCCCcc------chHHHHHHHHHhHHHcCC
Q psy8530 26 VFMKARERRVPIVMLTSGGYLK------QTARIIADSILNLADLGL 65 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~------d~~~~v~~si~~l~~~~~ 65 (68)
-++.|+++|+.|...+||.-.. ...+..+.++.++.++..
T Consensus 65 ~i~~~q~~G~KVllSiGG~~~~~~~~~~~~~~~fa~sl~~~~~~~g 110 (312)
T cd02871 65 DIKALQAKGKKVLISIGGANGHVDLNHTAQEDNFVDSIVAIIKEYG 110 (312)
T ss_pred HHHHHHHCCCEEEEEEeCCCCccccCCHHHHHHHHHHHHHHHHHhC
Confidence 3567889999999999874332 123455667777776643
No 84
>cd00860 ThrRS_anticodon ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=46.53 E-value=23 Score=19.98 Aligned_cols=18 Identities=11% Similarity=0.414 Sum_probs=15.3
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
-++.|.+.|+|.+.++|.
T Consensus 43 ~~~~a~~~g~~~~iiig~ 60 (91)
T cd00860 43 KIREAQLQKIPYILVVGD 60 (91)
T ss_pred HHHHHHHcCCCEEEEECc
Confidence 467788999999999983
No 85
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=46.53 E-value=27 Score=21.95 Aligned_cols=30 Identities=17% Similarity=0.085 Sum_probs=19.7
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARII 53 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v 53 (68)
.-+++.|.+.|+.-+++.+|.++.+..+..
T Consensus 69 ~~~v~~~~~~g~~~v~~~~g~~~~~~~~~a 98 (116)
T PF13380_consen 69 PEIVDEAAALGVKAVWLQPGAESEELIEAA 98 (116)
T ss_dssp HHHHHHHHHHT-SEEEE-TTS--HHHHHHH
T ss_pred HHHHHHHHHcCCCEEEEEcchHHHHHHHHH
Confidence 457888999999999999996655554443
No 86
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=46.22 E-value=26 Score=21.21 Aligned_cols=33 Identities=15% Similarity=0.184 Sum_probs=23.8
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+-+|..|=-+--.-..+.|+++|+|++++.+..
T Consensus 52 i~iS~sG~t~~~~~~~~~a~~~g~~vi~iT~~~ 84 (128)
T cd05014 52 IAISNSGETDELLNLLPHLKRRGAPIIAITGNP 84 (128)
T ss_pred EEEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCC
Confidence 334555544555667889999999999988753
No 87
>TIGR03637 cas1_YPEST CRISPR-associated endonuclease Cas1, YPEST subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the YPEST subtype of CRISPR/Cas system.
Probab=46.20 E-value=18 Score=26.98 Aligned_cols=21 Identities=14% Similarity=0.150 Sum_probs=18.5
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
-++.+|-++||||.++-+|||
T Consensus 58 ~al~~L~~~gI~V~f~~~~G~ 78 (307)
T TIGR03637 58 AAMRELAKAGVMVGFCGGGGT 78 (307)
T ss_pred HHHHHHHHCCCEEEEECCCCE
Confidence 357889999999999998887
No 88
>cd03768 SR_ResInv Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient phosphoserine linkage between DNA and the enzyme. They are functionally versatile and include resolvases, invertases, integrases, and transposases. Resolvases and invertases affect resolution or inversion and comprise a major phylogenic group. Resolvases (e.g. Tn3, gamma-delta, and Tn5044) normally recombine two sites in direct repeat causing deletion of the DNA between the sites. Invertases (e.g. Gin and Hin) recombine sites in inverted repeat to invert the DNA between the sites. Cointegrate resolution with gamma-delta resolvase requires the formation of a synaptosome of three resolvase dimers bound to each of two res sites on the DNA. Also included in this subfamily are some
Probab=46.05 E-value=62 Score=19.57 Aligned_cols=24 Identities=25% Similarity=0.293 Sum_probs=19.4
Q ss_pred HHHHHHHhCCCCEEEEecCCCccch
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
.+++.|.++||++.++ .++|..+.
T Consensus 75 ~~~~~l~~~gi~l~~~-~~~~~~~~ 98 (126)
T cd03768 75 EIVEELREKGVSLRSL-TEGIDTST 98 (126)
T ss_pred HHHHHHHHCCCEEEEe-cCCCCCCC
Confidence 4778899999999998 77886543
No 89
>COG1060 ThiH Thiamine biosynthesis enzyme ThiH and related uncharacterized enzymes [Coenzyme metabolism / General function prediction only]
Probab=45.96 E-value=34 Score=26.16 Aligned_cols=40 Identities=13% Similarity=0.035 Sum_probs=27.1
Q ss_pred HHHHHHHHhCCCCEEEEe--cCCCccchHHHHHHHHHhHHHc
Q psy8530 24 ELVFMKARERRVPIVMLT--SGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~--gGGY~~d~~~~v~~si~~l~~~ 63 (68)
.-+.+.|.+.|||..+.| |++.++...--.-.-|..|+++
T Consensus 202 le~~~~Ah~lGI~~tatml~Gh~E~~ed~~~hl~~ir~lQ~~ 243 (370)
T COG1060 202 LEIHERAHRLGIPTTATMLLGHVETREDRIDHLEHIRDLQDE 243 (370)
T ss_pred HHHHHHHHHcCCCccceeEEEecCCHHHHHHHHHHHHHHHHH
Confidence 457899999999998554 9999743322223356666665
No 90
>PRK11440 putative hydrolase; Provisional
Probab=45.93 E-value=41 Score=22.24 Aligned_cols=26 Identities=19% Similarity=0.295 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+...=..+++.|+++|+||+.+-
T Consensus 30 ~~~~i~~i~~l~~~ar~~g~pVi~~~ 55 (188)
T PRK11440 30 ADEVVARAARLAAKFRASGSPVVLVR 55 (188)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEe
Confidence 46788888899999999999999875
No 91
>cd01425 RPS2 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of ribosomal protein S1 to the 30s ribosomal subunit. In humans, most likely in all vertebrates, and perhaps in all metazoans, the protein also functions as the 67 kDa laminin receptor (LAMR1 or 67LR), which is formed from a 37 kDa precursor, and is overexpressed in many tumors. 67LR is a cell surface receptor which interacts with a variety of ligands, laminin-1 and others. It is assumed that the ligand interactions are mediated via the conserved C-terminus, which becomes extracellular as the protein undergoes conformational changes which are not well understood. Specifically, a conserved palindromic motif, LMWWML, may participate in the interactions. 67LR plays essential roles in the adhesion of cells to the basement membrane an
Probab=45.81 E-value=21 Score=24.38 Aligned_cols=21 Identities=14% Similarity=0.457 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhCCCCEEEEe
Q psy8530 21 RRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+|..++..|...|||+++..
T Consensus 137 ~~~~~ai~Ea~~l~IP~I~i~ 157 (193)
T cd01425 137 RKEHQAIREASKLGIPVIAIV 157 (193)
T ss_pred ccchHHHHHHHHcCCCEEEEe
Confidence 478899999999999999987
No 92
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=45.66 E-value=57 Score=18.57 Aligned_cols=20 Identities=10% Similarity=0.262 Sum_probs=15.4
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-.++.++++|++++++.++.
T Consensus 31 ~~l~~l~~~g~~i~ivS~~~ 50 (139)
T cd01427 31 EALKELKEKGIKLALATNKS 50 (139)
T ss_pred HHHHHHHHCCCeEEEEeCch
Confidence 56788899999987666555
No 93
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the alpha chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=45.60 E-value=54 Score=24.84 Aligned_cols=32 Identities=16% Similarity=0.216 Sum_probs=23.7
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe-cCCCc
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT-SGGYL 46 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~-gGGY~ 46 (68)
++.+|...- ...++.|.+.++||++++ +.|+.
T Consensus 132 ~~p~g~rKa-~R~m~lA~~f~iPvVtlvDTpGa~ 164 (316)
T TIGR00513 132 PAPEGYRKA-LRLMKMAERFKMPIITFIDTPGAY 164 (316)
T ss_pred CCHHHHHHH-HHHHHHHHHcCCCEEEEEECCCCC
Confidence 567776555 445799999999999998 55544
No 94
>PF12802 MarR_2: MarR family; PDB: 3ECO_B 2QWW_B 3KP6_B 3KP4_B 3KP2_A 3KP5_A 3KP3_B 3KP7_A 3NQO_B 3K0L_B ....
Probab=45.37 E-value=18 Score=19.35 Aligned_cols=19 Identities=21% Similarity=0.408 Sum_probs=15.7
Q ss_pred HHHHHHHHHhHHHcCCcCC
Q psy8530 50 ARIIADSILNLADLGLISR 68 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~~ 68 (68)
...+.+.+..|.++|||.|
T Consensus 35 ~~~vs~~v~~L~~~Glv~r 53 (62)
T PF12802_consen 35 KSTVSRIVKRLEKKGLVER 53 (62)
T ss_dssp HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 3578889999999999864
No 95
>PF00318 Ribosomal_S2: Ribosomal protein S2; InterPro: IPR001865 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal S2 proteins have been shown to belong to a family that includes 40S ribosomal subunit 40kDa proteins, putative laminin-binding proteins, NAB-1 protein and 29.3kDa protein from Haloarcula marismortui [, ]. The laminin-receptor proteins are thus predicted to be the eukaryotic homologue of the eubacterial S2 risosomal proteins [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 2QNH_c 3MR8_B 3PYS_B 3MS0_B 3PYN_B 1VOZ_B 2OW8_c 3PYQ_B 3D5C_B 3PYU_B ....
Probab=45.23 E-value=22 Score=24.66 Aligned_cols=20 Identities=10% Similarity=0.351 Sum_probs=16.9
Q ss_pred HHHHHHHHHHhCCCCEEEEe
Q psy8530 22 RDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~ 41 (68)
.|..++..|...+||++++.
T Consensus 154 ~~~~~i~Ea~~l~IP~i~i~ 173 (211)
T PF00318_consen 154 KNKNAIREANKLNIPTIAIV 173 (211)
T ss_dssp TTHHHHHHHHHTTS-EEEEE
T ss_pred ccchhHHHHHhcCceEEEee
Confidence 46888999999999999987
No 96
>PRK12319 acetyl-CoA carboxylase subunit alpha; Provisional
Probab=45.19 E-value=40 Score=24.56 Aligned_cols=33 Identities=15% Similarity=0.190 Sum_probs=24.2
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe-cCCCcc
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT-SGGYLK 47 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~-gGGY~~ 47 (68)
++.+|..+- ..+++.|.+.++||++++ ++|+..
T Consensus 79 ~~~~g~rKa-~R~~~lA~~~~lPvV~lvDtpGa~~ 112 (256)
T PRK12319 79 PHPEGYRKA-LRLMKQAEKFGRPVVTFINTAGAYP 112 (256)
T ss_pred CCHHHHHHH-HHHHHHHHHcCCCEEEEEECCCcCC
Confidence 567776555 456789999999999998 555543
No 97
>cd00861 ProRS_anticodon_short ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=45.01 E-value=23 Score=20.33 Aligned_cols=16 Identities=19% Similarity=0.322 Sum_probs=14.1
Q ss_pred HHHHHhCCCCEEEEec
Q psy8530 27 FMKARERRVPIVMLTS 42 (68)
Q Consensus 27 ~~~a~~~~IPva~v~g 42 (68)
++.|.+.|+|.++++|
T Consensus 47 i~~a~~~g~~~~iiiG 62 (94)
T cd00861 47 FADADLIGIPYRIVVG 62 (94)
T ss_pred hhHHHhcCCCEEEEEC
Confidence 5678889999999998
No 98
>cd07181 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclease HII; putative role in Okazaki fragment removal during replication. Ribonuclease (RNase) HII endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. RNase H is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is a type II RNase H that is active during replication and is believed to play a role in removal
Probab=44.97 E-value=24 Score=24.69 Aligned_cols=45 Identities=13% Similarity=-0.000 Sum_probs=34.2
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCC---EEEEecCCCccchHH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVP---IVMLTSGGYLKQTAR 51 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IP---va~v~gGGY~~d~~~ 51 (68)
+.+|.....++.+=|.+ ||+++-++.+.. | ...-+|-||..|...
T Consensus 137 ~kaD~~~~~VAAASIvAKV~RD~~m~~l~~~~--~~~~~~~~~gsGYpsd~~t 187 (216)
T cd07181 137 KKADSLYPIVSAASIVAKVTRDRALKNWQFDE--YLIDPDGDFGSGYPSDPKT 187 (216)
T ss_pred eCcccccHHHHHHHHHHHHHHHHHHHHHHhhC--ccccccCCCceECCCHHHH
Confidence 46777788899999999 999999986653 2 122358899988763
No 99
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=44.96 E-value=25 Score=23.57 Aligned_cols=19 Identities=16% Similarity=0.345 Sum_probs=15.7
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
-++++++++|+|++.+.+|
T Consensus 77 e~l~~l~~~g~~~~IvS~~ 95 (214)
T TIGR03333 77 EFVAFINEHGIPFYVISGG 95 (214)
T ss_pred HHHHHHHHCCCeEEEECCC
Confidence 4788999999999976665
No 100
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=44.89 E-value=77 Score=22.00 Aligned_cols=40 Identities=10% Similarity=0.016 Sum_probs=26.8
Q ss_pred HHHHHHHhCCCCEEEEec---CCC----ccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS---GGY----LKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g---GGY----~~d~~~~v~~si~~l~~~~ 64 (68)
-.++.+.+.+||++++.. .+. ..|.........++|.++|
T Consensus 133 ~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~Dn~~~~~~a~~~L~~~G 179 (331)
T PRK14987 133 RTLKMIEVAGIPVVELMDSQSPCLDIAVGFDNFEAARQMTTAIIARG 179 (331)
T ss_pred HHHHHHHhCCCCEEEEecCCCCCCCceEEeCcHHHHHHHHHHHHHCC
Confidence 346778889999997642 111 1345566677788888876
No 101
>PRK13937 phosphoheptose isomerase; Provisional
Probab=44.84 E-value=29 Score=23.36 Aligned_cols=33 Identities=21% Similarity=-0.015 Sum_probs=22.9
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
-+|.-|=-.-=.-+++.|+++|+|++++.+-..
T Consensus 112 ~iS~sG~t~~~~~~~~~ak~~g~~~I~iT~~~~ 144 (188)
T PRK13937 112 GISTSGNSPNVLAALEKARELGMKTIGLTGRDG 144 (188)
T ss_pred EEeCCCCcHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 344444333334578999999999999998554
No 102
>TIGR00542 hxl6Piso_put hexulose-6-phosphate isomerase, putative. This family is conserved at better than 40 % identity among the four known examples from three species: Escherichia coli (SgbU and SgaU), Haemophilus influenzae, and Mycoplasma pneumoniae. The rarity of the family, high level of conservation, and proposed catabolic role suggests lateral transfer may be a part of the evolutionary history of this protein.
Probab=44.62 E-value=75 Score=22.07 Aligned_cols=21 Identities=19% Similarity=0.175 Sum_probs=16.5
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
+-+++.|+..|.|++.+-|+.
T Consensus 97 ~~~i~~a~~lG~~~v~~~~~~ 117 (279)
T TIGR00542 97 EKAIQLARDLGIRTIQLAGYD 117 (279)
T ss_pred HHHHHHHHHhCCCEEEecCcc
Confidence 578899999999988765443
No 103
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=44.55 E-value=50 Score=21.81 Aligned_cols=39 Identities=21% Similarity=0.158 Sum_probs=26.8
Q ss_pred HHHHHHhCCCCEEEEecC--C---CccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSG--G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG--G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
.++.+++.+||++++-.. . -..|.........+.|.++|
T Consensus 70 ~~~~~~~~~iPvv~~~~~~~~~~~V~~d~~~ag~~a~~~L~~~g 113 (265)
T cd06285 70 FLDELTRRGVPFVLVLRHAGTSPAVTGDDVLGGRLATRHLLDLG 113 (265)
T ss_pred HHHHHHHcCCCEEEEccCCCCCCEEEeCcHHHHHHHHHHHHHCC
Confidence 478888899999765321 1 12355667778888888875
No 104
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=44.49 E-value=78 Score=20.66 Aligned_cols=39 Identities=18% Similarity=0.104 Sum_probs=26.0
Q ss_pred HHHHHHhCCCCEEEEec----CCCc---cchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS----GGYL---KQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g----GGY~---~d~~~~v~~si~~l~~~~ 64 (68)
.++.+++.+||++++-. ..|. .|.........++|.++|
T Consensus 74 ~~~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~~~~a~~~l~~~g 119 (268)
T cd06271 74 RVALLLERGFPFVTHGRTELGDPHPWVDFDNEAAAYQAVRRLIALG 119 (268)
T ss_pred HHHHHHhcCCCEEEECCcCCCCCCCeEeeCcHHHHHHHHHHHHHcC
Confidence 35677889999987621 1222 355666777888888765
No 105
>cd05017 SIS_PGI_PMI_1 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to fructose 6-phosphate, and mannose 6-phosphate to fructose 6-phosphate, respectively at an equal rate. This protein contains two SIS domains. This alignment is based on the first SIS domain.
Probab=44.48 E-value=27 Score=21.49 Aligned_cols=33 Identities=30% Similarity=0.342 Sum_probs=23.9
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+-+|..|=-.-=...++.|+++|+|++.+.+.+
T Consensus 48 I~iS~SG~t~e~i~~~~~a~~~g~~iI~IT~~~ 80 (119)
T cd05017 48 IAVSYSGNTEETLSAVEQAKERGAKIVAITSGG 80 (119)
T ss_pred EEEECCCCCHHHHHHHHHHHHCCCEEEEEeCCc
Confidence 345555544555667889999999999999644
No 106
>TIGR00557 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase. This model represents PdxA, an NAD+-dependent 4-hydroxythreonine 4-phosphate dehydrogenase (EC 1.1.1.262) active in pyridoxal phosphate biosynthesis.
Probab=44.29 E-value=1.2e+02 Score=22.98 Aligned_cols=53 Identities=15% Similarity=0.265 Sum_probs=42.0
Q ss_pred cCCHHHHHHHHHHHHHHHH-hCCC--CEEEEec-------CC-CccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKAR-ERRV--PIVMLTS-------GG-YLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~-~~~I--Pva~v~g-------GG-Y~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+.=+.+.++++ ..+| |-.+|.| || .+++..++|.-.|+.+.++|.
T Consensus 170 ~it~~~i~~~i~~~~~~l~~~~gi~~PrIaV~gLNPHAGE~G~~G~EE~~iI~PAI~~~~~~G~ 233 (320)
T TIGR00557 170 ALTPELLVEKLRILHADLRRDFGIARPRIAVAGLNPHAGEGGHLGREEIDIIIPALEALRAEGI 233 (320)
T ss_pred HhCHHHHHHHHHHHHHHHHHHcCCCCCCEEEEecCCCCCCCCCCcHHHHHHHHHHHHHHHHCCC
Confidence 4889999999999999999 5676 6555553 33 557777899999999999874
No 107
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=44.10 E-value=47 Score=24.99 Aligned_cols=25 Identities=20% Similarity=0.388 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhCCCCEEEEe-cCC
Q psy8530 20 IRRDELVFMKARERRVPIVMLT-SGG 44 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~-gGG 44 (68)
-++=..+++.|.+.++|++.+. |||
T Consensus 154 geKi~ra~e~A~~~rlPlV~l~~SGG 179 (296)
T CHL00174 154 GEKITRLIEYATNESLPLIIVCASGG 179 (296)
T ss_pred HHHHHHHHHHHHHcCCCEEEEECCCC
Confidence 3566678999999999999888 555
No 108
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=44.03 E-value=21 Score=23.58 Aligned_cols=19 Identities=26% Similarity=0.443 Sum_probs=16.5
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
-+++.|++.||||+.+-.+
T Consensus 71 ~~l~~~~~~gIpvv~~d~~ 89 (257)
T PF13407_consen 71 PFLEKAKAAGIPVVTVDSD 89 (257)
T ss_dssp HHHHHHHHTTSEEEEESST
T ss_pred HHHHHHhhcCceEEEEecc
Confidence 4678899999999998766
No 109
>PF09994 DUF2235: Uncharacterized alpha/beta hydrolase domain (DUF2235); InterPro: IPR018712 This domain has no known function.
Probab=43.96 E-value=19 Score=25.82 Aligned_cols=23 Identities=17% Similarity=0.215 Sum_probs=16.4
Q ss_pred ecCCCccc--hHHHHHHHHHhHHHc
Q psy8530 41 TSGGYLKQ--TARIIADSILNLADL 63 (68)
Q Consensus 41 ~gGGY~~d--~~~~v~~si~~l~~~ 63 (68)
+||||..+ ...+...|..-+.++
T Consensus 252 VGGGy~~~~~~~~Ls~i~L~WM~~~ 276 (277)
T PF09994_consen 252 VGGGYPPDEAERGLSDIPLNWMLDE 276 (277)
T ss_pred cCCCCCCCCCcchhhHHHHHHHHhc
Confidence 79999975 566777777666543
No 110
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member 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 trans
Probab=43.69 E-value=58 Score=21.38 Aligned_cols=40 Identities=15% Similarity=0.246 Sum_probs=26.9
Q ss_pred HHHHHHHhCCCCEEEEec----CC---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS----GG---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g----GG---Y~~d~~~~v~~si~~l~~~~ 64 (68)
..++.+++.+||++++=. .+ +..|..........+|.++|
T Consensus 69 ~~~~~l~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 115 (265)
T cd06299 69 EQLEDLLKRGIPVVFVDREITGSPIPFVTSDPQPGMTEAVSLLVALG 115 (265)
T ss_pred HHHHHHHhCCCCEEEEecccCCCCCCEEEECcHHHHHHHHHHHHHcC
Confidence 358899999999997732 22 23455556666777777764
No 111
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=43.67 E-value=39 Score=20.32 Aligned_cols=22 Identities=27% Similarity=0.298 Sum_probs=17.9
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.|-+.|++.++|++.+=+-|.+
T Consensus 66 ~vk~~akk~~ip~~~~~~~~~~ 87 (97)
T PF10087_consen 66 KVKKAAKKYGIPIIYSRSRGVS 87 (97)
T ss_pred HHHHHHHHcCCcEEEECCCCHH
Confidence 4678999999999998766654
No 112
>PF02481 DNA_processg_A: DNA recombination-mediator protein A; InterPro: IPR003488 The SMF family, of DNA processing chain A, dprA, are a group of bacterial proteins. In Helicobacter pylori, dprA is required for natural chromosomal and plasmid transformation []. It has now been shown that DprA is found to bind cooperatively to single-stranded DNA (ssDNA) and to interact with RecA. In the process, DprA-RecA-ssDNA filaments are produced and these filaments catalyse the homology-dependent formation of joint molecules. While the Escherichia coli SSB protein limits access of RecA to ssDNA, DprA alleviates this barrier. It is proposed that DprA is a new member of the recombination-mediator protein family, dedicated to natural bacterial transformation [].; GO: 0009294 DNA mediated transformation; PDB: 3MAJ_A.
Probab=43.62 E-value=61 Score=22.54 Aligned_cols=35 Identities=14% Similarity=0.191 Sum_probs=21.8
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC----ccchHHHHHHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY----LKQTARIIADSI 57 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY----~~d~~~~v~~si 57 (68)
|....+.|.+.+-|+++|++.|. .+++..+.++-.
T Consensus 86 D~~ah~~al~~~g~tIaVl~~gl~~~yP~~n~~l~~~i~ 124 (212)
T PF02481_consen 86 DAAAHRGALDAGGPTIAVLACGLDNIYPKENRELAERIL 124 (212)
T ss_dssp HHHHHHHHTTT---EEEE-SS-TTS-SSGGGHHHHHHHH
T ss_pred HHHHHHHHHHccCCEEEEECCCcccccchhhHHHHHHHH
Confidence 77888899999999999999996 444555554433
No 113
>CHL00198 accA acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional
Probab=43.05 E-value=43 Score=25.47 Aligned_cols=32 Identities=16% Similarity=0.250 Sum_probs=24.1
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe--cCCCc
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT--SGGYL 46 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY~ 46 (68)
++++|...- ...+++|.+.++||++++ +|.|.
T Consensus 135 ~~p~g~rKa-~Rlm~lA~~f~lPIItlvDTpGA~~ 168 (322)
T CHL00198 135 PSPGGYRKA-LRLMKHANKFGLPILTFIDTPGAWA 168 (322)
T ss_pred CCHHHHHHH-HHHHHHHHHcCCCEEEEEeCCCcCc
Confidence 567776555 456799999999999998 55553
No 114
>PF01978 TrmB: Sugar-specific transcriptional regulator TrmB; InterPro: IPR002831 TrmB, is a protein of 38,800 apparent molecular weight, that is involved in the maltose-specific regulation of the trehalose/maltose ABC transport operon in Thermococcus litoralis. TrmB has been shown to be a maltose-specific repressor, and this inhibition is counteracted by maltose and trehalose. TrmB binds maltose and trehalose half-maximally at 20 uM and 0.5 mM sugar concentration, respectively []. Other members of this family are annotated as either transcriptional regulators or hypothetical proteins. ; PDB: 2D1H_A 3QPH_A 1SFX_A.
Probab=42.99 E-value=19 Score=20.18 Aligned_cols=19 Identities=21% Similarity=0.441 Sum_probs=15.7
Q ss_pred HHHHHHHHHhHHHcCCcCC
Q psy8530 50 ARIIADSILNLADLGLISR 68 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~~ 68 (68)
...|..++.+|.++|++.|
T Consensus 36 ~~~v~~~L~~L~~~GlV~~ 54 (68)
T PF01978_consen 36 RSTVYRALKSLEEKGLVER 54 (68)
T ss_dssp HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 4578899999999999864
No 115
>PRK05724 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated
Probab=42.92 E-value=1.2e+02 Score=22.99 Aligned_cols=34 Identities=15% Similarity=0.162 Sum_probs=24.2
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe-cCCCccc
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT-SGGYLKQ 48 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~-gGGY~~d 48 (68)
++.+|..+= ...+++|.+.++||++++ ..|+...
T Consensus 132 ~~peg~rKa-~R~m~lA~~f~lPIVtlvDTpGa~~G 166 (319)
T PRK05724 132 PRPEGYRKA-LRLMKMAEKFGLPIITFIDTPGAYPG 166 (319)
T ss_pred CCHHHHHHH-HHHHHHHHHcCCCEEEEEeCCCCCCC
Confidence 556765554 456799999999999998 4444433
No 116
>PRK00366 ispG 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed
Probab=42.85 E-value=11 Score=29.26 Aligned_cols=26 Identities=23% Similarity=0.240 Sum_probs=20.5
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEe-cCC
Q psy8530 19 IIRRDELVFMKARERRVPIVMLT-SGG 44 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~-gGG 44 (68)
+.++=+.|.+.|+++++|+=.=. +|-
T Consensus 115 ~~~~v~~vv~~ak~~~ipIRIGvN~GS 141 (360)
T PRK00366 115 RDERVREVVEAAKDYGIPIRIGVNAGS 141 (360)
T ss_pred hHHHHHHHHHHHHHCCCCEEEecCCcc
Confidence 35677889999999999997655 553
No 117
>PRK12677 xylose isomerase; Provisional
Probab=42.80 E-value=82 Score=23.97 Aligned_cols=20 Identities=15% Similarity=-0.054 Sum_probs=17.1
Q ss_pred HHHHHHHHhCCCCEEEEecC
Q psy8530 24 ELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gG 43 (68)
+..++.|.+.|.|.+.+.+|
T Consensus 117 ~r~IdlA~eLGa~~Vvv~~G 136 (384)
T PRK12677 117 LRNIDLAAELGAKTYVMWGG 136 (384)
T ss_pred HHHHHHHHHhCCCEEEEeeC
Confidence 46789999999999988876
No 118
>PF01047 MarR: MarR family; InterPro: IPR000835 The MarR-type HTH domain is a DNA-binding, winged helix-turn-helix (wHTH) domain of about 135 amino acids present in transcription regulators of the MarR/SlyA family, involved in the development of antibiotic resistance. This family of transcription regulators is named after Escherichia coli MarR, a repressor of genes which activate the multiple antibiotic resistance and oxidative stress regulons, and after slyA from Salmonella typhimurium and E. coli, a transcription regulator that is required for virulence and survival in the macrophage environment. Regulators with the MarR-type HTH domain are present in bacteria and archaea and control a variety of biological functions, including resistance to multiple antibiotics, household disinfectants, organic solvents, oxidative stress agents and regulation of the virulence factor synthesis in pathogens of humans and plants. Many of the MarR-like regulators respond to aromatic compounds [, , ]. The crystal structures of MarR, MexR and SlyA have been determined and show a winged HTH DNA-binding core flanked by helices involved in dimerisation. The DNA-binding domains are ascribed to the superfamily of winged helix proteins, containing a three (four)-helix (H) bundle and a three-stranded antiparallel beta-sheet (B) in the topology: H1-(H1')-H2-B1-H3-H4-B2-B3-H5-H6. Helices 3 and 4 comprise the helix-turn-helix motif and the beta-sheet is called the wing. Helix 4 is termed the recognition helix, like in other HTHs where it binds the DNA major groove. The helices 1, 5 and 6 are involved in dimerisation, as most MarR-like transcription regulators form dimers [, ]. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1JGS_A 2NYX_D 2PEX_B 2PFB_A 3BPX_A 3BPV_A 2BV6_A 3BJA_A 3E6M_B 2ETH_A ....
Probab=42.61 E-value=22 Score=19.05 Aligned_cols=19 Identities=32% Similarity=0.427 Sum_probs=15.5
Q ss_pred HHHHHHHHHhHHHcCCcCC
Q psy8530 50 ARIIADSILNLADLGLISR 68 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~~ 68 (68)
...+.+-+.+|.++|+|.|
T Consensus 31 ~~~~t~~i~~L~~~g~I~r 49 (59)
T PF01047_consen 31 RSTVTRIIKRLEKKGLIER 49 (59)
T ss_dssp HHHHHHHHHHHHHTTSEEE
T ss_pred hhHHHHHHHHHHHCCCEEe
Confidence 3467888999999999864
No 119
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=42.55 E-value=36 Score=18.33 Aligned_cols=19 Identities=16% Similarity=0.267 Sum_probs=15.1
Q ss_pred HHHHHHHHhCCCCEEEEec
Q psy8530 24 ELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g 42 (68)
.+....++..|||.-.+.|
T Consensus 14 ~l~~~llr~~GIpar~v~g 32 (68)
T smart00460 14 ALFVALLRSLGIPARVVSG 32 (68)
T ss_pred HHHHHHHHHCCCCeEEEee
Confidence 3456788999999998864
No 120
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=42.44 E-value=13 Score=26.96 Aligned_cols=38 Identities=21% Similarity=0.302 Sum_probs=31.3
Q ss_pred HHHHHhCCCCEEEE--ecCCC-ccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVML--TSGGY-LKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v--~gGGY-~~d~~~~v~~si~~l~~~~ 64 (68)
|+.|+++|+++... +.|+| ......+.+..|.|+.+..
T Consensus 249 ~~~a~~~Gv~~~~~~~lpg~vap~ta~~~~~~~i~~~l~~~ 289 (296)
T PRK08306 249 FEYAEKRGIKALLAPGLPGKVAPKTAGQILANVLSQLLAED 289 (296)
T ss_pred eeehhhCCeEEEEECCCCccCCHHHHHHHHHHHHHHHHHHH
Confidence 46889999999954 48999 6688889999999998653
No 121
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=42.13 E-value=19 Score=21.78 Aligned_cols=22 Identities=23% Similarity=0.376 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHhCCCCEEEEe
Q psy8530 20 IRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~ 41 (68)
..=++.|++.|++.+|||..+=
T Consensus 71 ~~~~~~v~~la~~~~i~vi~t~ 92 (105)
T PF07085_consen 71 LEPSEEVLELAKELGIPVISTP 92 (105)
T ss_dssp ----HHHHHHHHHHT-EEEE-S
T ss_pred CCCCHHHHHHHHHCCCEEEEEC
Confidence 3457889999999999998764
No 122
>PLN03229 acetyl-coenzyme A carboxylase carboxyl transferase subunit alpha; Provisional
Probab=42.07 E-value=1.3e+02 Score=25.83 Aligned_cols=33 Identities=21% Similarity=0.337 Sum_probs=24.4
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEEEEe--cCCCc
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIVMLT--SGGYL 46 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY~ 46 (68)
..+++|.. .=...+++|.+.++||++++ +|.|.
T Consensus 222 ~~~peGyR-KAlRlmkLAekfgLPIVtLVDTpGA~p 256 (762)
T PLN03229 222 MPTPHGYR-KALRMMYYADHHGFPIVTFIDTPGAYA 256 (762)
T ss_pred CCCHHHHH-HHHHHHHHHHHcCCCEEEEEECCCcCC
Confidence 35667754 44556799999999999998 56554
No 123
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=41.90 E-value=28 Score=22.30 Aligned_cols=19 Identities=11% Similarity=0.251 Sum_probs=15.4
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
-+++.++++|+|++.+.+|
T Consensus 87 e~l~~l~~~g~~~~IvS~~ 105 (201)
T TIGR01491 87 ELVRWLKEKGLKTAIVSGG 105 (201)
T ss_pred HHHHHHHHCCCEEEEEeCC
Confidence 4689999999998777655
No 124
>smart00450 RHOD Rhodanese Homology Domain. An alpha beta fold found duplicated in the Rhodanese protein. The the Cysteine containing enzymatically active version of the domain is also found in the CDC25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and stress proteins such as Senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions with a loss of the cysteine are also seen in Dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases. These are likely to play a role in protein interactions.
Probab=41.62 E-value=35 Score=18.77 Aligned_cols=25 Identities=32% Similarity=0.317 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
|-..+...+++.|.+-+.++-|||.
T Consensus 68 ~a~~~~~~l~~~G~~~v~~l~GG~~ 92 (100)
T smart00450 68 RSAKAAWLLRELGFKNVYLLDGGYK 92 (100)
T ss_pred HHHHHHHHHHHcCCCceEEecCCHH
Confidence 3466677777788887777788874
No 125
>PRK05299 rpsB 30S ribosomal protein S2; Provisional
Probab=41.46 E-value=26 Score=25.48 Aligned_cols=21 Identities=19% Similarity=0.529 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHhCCCCEEEEe
Q psy8530 21 RRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+|...+..|...|||+++++
T Consensus 167 ~~~~~ai~Ea~kl~IPiIaiv 187 (258)
T PRK05299 167 NKEHIAVKEARKLGIPVVAIV 187 (258)
T ss_pred CccHHHHHHHHHhCCCEEEEe
Confidence 378889999999999999887
No 126
>COG0218 Predicted GTPase [General function prediction only]
Probab=41.38 E-value=35 Score=24.40 Aligned_cols=23 Identities=13% Similarity=0.124 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 19 IIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~ 41 (68)
+-+=|+.+++++++.+||+..++
T Consensus 120 ~~~~D~em~~~l~~~~i~~~vv~ 142 (200)
T COG0218 120 PKDLDREMIEFLLELGIPVIVVL 142 (200)
T ss_pred CcHHHHHHHHHHHHcCCCeEEEE
Confidence 34458899999999999999876
No 127
>smart00729 Elp3 Elongator protein 3, MiaB family, Radical SAM. This superfamily contains MoaA, NifB, PqqE, coproporphyrinogen III oxidase, biotin synthase and MiaB families, and includes a representative in the eukaryotic elongator subunit, Elp-3. Some members of the family are methyltransferases.
Probab=41.36 E-value=80 Score=19.67 Aligned_cols=43 Identities=16% Similarity=0.074 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHhCC-CCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 21 RRDELVFMKARERR-VPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 21 ~RD~~V~~~a~~~~-IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
++=...++.+++.+ +++.+.+--|+..+..+-+...+.-+.+.
T Consensus 136 ~~~~~~i~~~~~~g~~~v~~~~~~g~~~~~~~~~~~~~~~~~~~ 179 (216)
T smart00729 136 EDVLEAVEKLREAGPIKVSTDLIVGLPGETEEDFEETLKLLKEL 179 (216)
T ss_pred HHHHHHHHHHHHhCCcceEEeEEecCCCCCHHHHHHHHHHHHHc
Confidence 33344677888899 88887776666644455566666655543
No 128
>KOG1936|consensus
Probab=40.95 E-value=23 Score=28.76 Aligned_cols=17 Identities=24% Similarity=0.477 Sum_probs=15.4
Q ss_pred HHHHHHhCCCCEEEEec
Q psy8530 26 VFMKARERRVPIVMLTS 42 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g 42 (68)
=|+.|.+++||.++++|
T Consensus 464 q~~~~e~~~ip~~vi~G 480 (518)
T KOG1936|consen 464 QFQYAEEAGIPLAVILG 480 (518)
T ss_pred HHHHHHhcCCCeEEEec
Confidence 47899999999999997
No 129
>cd00223 TOPRIM_TopoIIB_SPO TOPRIM_TopoIIB_SPO: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IIB family of DNA topoisomerases and Spo11. This subgroup contains proteins similar to Sulfolobus shibatae topoisomerase VI (TopoVI) and Saccharomyces cerevisiae meiotic recombination factor: Spo11. Type II DNA topoisomerases catalyze the ATP-dependent transport of one DNA duplex through another, in the process generating transient double strand breaks via covalent attachments to both DNA strands at the 5' positions. TopoVI enzymes are heterotetramers found in archaea and plants. Spo11 plays a role in generating the double strand breaks that initiate homologous recombination during meiosis. S. shibatae TopoVI relaxes both positive and negative supercoils, and in addition has a strong decatenase activity. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspart
Probab=40.94 E-value=57 Score=21.36 Aligned_cols=27 Identities=26% Similarity=0.468 Sum_probs=18.7
Q ss_pred HHHHHHHHhCCC----CEEEEecCCCccchH
Q psy8530 24 ELVFMKARERRV----PIVMLTSGGYLKQTA 50 (68)
Q Consensus 24 ~~V~~~a~~~~I----Pva~v~gGGY~~d~~ 50 (68)
..||+...+.++ |.+.+.|+||.....
T Consensus 9 ~avf~~L~~~~~~~~~~~ilit~kG~P~~~t 39 (160)
T cd00223 9 EAVFQRLIEEGFHERNNCILITGKGYPDRAT 39 (160)
T ss_pred HHHHHHHHHcCccccCCEEEEEcCCcCCHHH
Confidence 346676666665 578888999985443
No 130
>cd05710 SIS_1 A subgroup of the SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=40.86 E-value=22 Score=22.06 Aligned_cols=35 Identities=20% Similarity=0.203 Sum_probs=25.8
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
-+.+|..|=-+--..+++.|+++|+|++++.+..-
T Consensus 51 ~I~iS~SG~t~~~~~~~~~a~~~g~~vi~iT~~~~ 85 (120)
T cd05710 51 VILASHSGNTKETVAAAKFAKEKGATVIGLTDDED 85 (120)
T ss_pred EEEEeCCCCChHHHHHHHHHHHcCCeEEEEECCCC
Confidence 34455555556667788999999999999887543
No 131
>PLN00125 Succinyl-CoA ligase [GDP-forming] subunit alpha
Probab=40.67 E-value=71 Score=23.80 Aligned_cols=24 Identities=17% Similarity=0.304 Sum_probs=20.5
Q ss_pred HHHHHHHhCCCCEEEEecCCCccc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
-+++.|-++||+.+++++.||+..
T Consensus 84 ~al~e~~~~Gvk~~vIisaGf~e~ 107 (300)
T PLN00125 84 AAILEAMEAELDLVVCITEGIPQH 107 (300)
T ss_pred HHHHHHHHcCCCEEEEECCCCCcc
Confidence 467788889999999999999644
No 132
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=40.62 E-value=95 Score=21.55 Aligned_cols=39 Identities=23% Similarity=0.204 Sum_probs=28.2
Q ss_pred HHHHHHhCCCCEEEEe----cCCCc---cchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLT----SGGYL---KQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~----gGGY~---~d~~~~v~~si~~l~~~~ 64 (68)
+++.+++.++|++++- +..+. .|........+++|.++|
T Consensus 128 ~~~~l~~~~~pvV~~~~~~~~~~~~~V~~D~~~~~~~a~~~l~~~G 173 (327)
T PRK10339 128 LRAAASALTDNICFIDFHEPGSGYDAVDIDLARISKEIIDFYINQG 173 (327)
T ss_pred HHHHHHhcCCCEEEEeCCCCCCCCCEEEECHHHHHHHHHHHHHHCC
Confidence 4567778899998763 12333 466778888899999886
No 133
>cd02874 GH18_CFLE_spore_hydrolase Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the forespore inner membrane and is deposited as a mature enzyme in the cortex layer of the spore. As part of a sensory mechanism capable of initiating germination, CFLE degrades a spore-specific peptidoglycan constituent called muramic-acid delta-lactam that comprises the outer cortex. CFLE has a C-terminal glycosyl hydrolase family 18 (GH18) catalytic domain as well as two N-terminal LysM peptidoglycan-binding domains. In addition to SleB, this family includes YaaH, YdhD, and YvbX from Bacillus subtilis.
Probab=40.03 E-value=83 Score=22.40 Aligned_cols=22 Identities=23% Similarity=0.292 Sum_probs=18.6
Q ss_pred HHHHHHHHHhCCCCEEEEecCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGG 44 (68)
++-+++.|+++++++...+||-
T Consensus 47 ~~~~~~~a~~~~~kv~~~i~~~ 68 (313)
T cd02874 47 DERLIEAAKRRGVKPLLVITNL 68 (313)
T ss_pred CHHHHHHHHHCCCeEEEEEecC
Confidence 4678899999999999999763
No 134
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=39.77 E-value=86 Score=21.66 Aligned_cols=42 Identities=14% Similarity=0.080 Sum_probs=28.3
Q ss_pred HHHHHHHHHhCCCCEEEEecC----C-------------C----ccchHHHHHHHHHhHHHcC
Q psy8530 23 DELVFMKARERRVPIVMLTSG----G-------------Y----LKQTARIIADSILNLADLG 64 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gG----G-------------Y----~~d~~~~v~~si~~l~~~~ 64 (68)
..-+++.+++.+|||+.+-.. + | ..|.........++|.+++
T Consensus 71 ~~~~~~~~~~~giPvV~~~~~~~~~~~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g 133 (305)
T cd06324 71 APELLRLAEGAGVKLFLVNSGLTEAQARELGPPREKFPDWLGQLLPNDEEAGYLMAEALISQA 133 (305)
T ss_pred hHHHHHHHHhCCCeEEEEecCCCcchhhcccccccccCceeeeeccCcHHHHHHHHHHHHHHh
Confidence 344578899999999987531 1 1 2456666677777777764
No 135
>PF02639 DUF188: Uncharacterized BCR, YaiI/YqxD family COG1671; InterPro: IPR003791 This entry describes proteins of unknown function.
Probab=39.76 E-value=37 Score=22.36 Aligned_cols=39 Identities=15% Similarity=0.162 Sum_probs=25.6
Q ss_pred HHHHHHhCCCCEEEEecCCCccch------------HHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSGGYLKQT------------ARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~d~------------~~~v~~si~~l~~~~ 64 (68)
+++.|++++||+.+|-...=.-.. .+.+..-|.|..++|
T Consensus 2 i~~~a~r~~i~vi~Van~~h~~~~~~~~~~i~Vd~g~DaaD~~I~~~~~~g 52 (130)
T PF02639_consen 2 IIRVAKRYGIPVIFVANYSHRLPRSPYVEMIVVDSGFDAADFYIVNHAKPG 52 (130)
T ss_pred HHHHHHHHCCEEEEEeCCCccCCCCCCeEEEEECCCCChHHHHHHHcCCCC
Confidence 688999999999998765433332 334555566655543
No 136
>cd07947 DRE_TIM_Re_CS Clostridium kluyveri Re-citrate synthase and related proteins, catalytic TIM barrel domain. Re-citrate synthase (Re-CS) is a Clostridium kluyveri enzyme that converts acetyl-CoA and oxaloacetate to citrate. In most organisms, this reaction is catalyzed by Si-citrate synthase which is Si-face stereospecific with respect to C-2 of oxaloacetate, and phylogenetically unrelated to Re-citrate synthase. Re-citrate synthase is also found in a few other strictly anaerobic organisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with
Probab=39.68 E-value=1.1e+02 Score=22.27 Aligned_cols=40 Identities=3% Similarity=-0.158 Sum_probs=35.0
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+++.|.+-..++=.-+.+.|+++++.+.+.+.|....+..
T Consensus 105 ~~~~t~~e~l~~~~~~v~~a~~~g~~v~~~~ed~~r~d~~ 144 (279)
T cd07947 105 KLKMTREEAMEKYLEIVEEALDHGIKPRCHLEDITRADIY 144 (279)
T ss_pred HhCcCHHHHHHHHHHHHHHHHHCCCeEEEEEEcccCCCcc
Confidence 6788999999999999999999999999999887777654
No 137
>COG1648 CysG Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]
Probab=39.63 E-value=78 Score=22.25 Aligned_cols=43 Identities=30% Similarity=0.469 Sum_probs=32.5
Q ss_pred HHHHHHHHHhCCCCE-----------------------EEEecCCCccchHHHHHHHHHhHHHcCC
Q psy8530 23 DELVFMKARERRVPI-----------------------VMLTSGGYLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 23 D~~V~~~a~~~~IPv-----------------------a~v~gGGY~~d~~~~v~~si~~l~~~~~ 65 (68)
++.|++.|++++||+ +++-.||=++-.++.+..=|++++...+
T Consensus 86 n~~i~~~a~~~~i~vNv~D~p~~~~f~~Pa~~~r~~l~iaIsT~G~sP~la~~ir~~Ie~~l~~~~ 151 (210)
T COG1648 86 NERIAKAARERRILVNVVDDPELCDFIFPAIVDRGPLQIAISTGGKSPVLARLLREKIEALLPPSL 151 (210)
T ss_pred HHHHHHHHHHhCCceeccCCcccCceecceeeccCCeEEEEECCCCChHHHHHHHHHHHHHcCCch
Confidence 577899999988875 3445677777788888888888776644
No 138
>PF01522 Polysacc_deac_1: Polysaccharide deacetylase; InterPro: IPR002509 This domain is found in polysaccharide deacetylase. This family of polysaccharide deacetylases includes NodB (nodulation protein B from Rhizobium) which is a chitooligosaccharide deacetylase []. It also includes chitin deacetylase from yeast [], and endoxylanases which hydrolyses glucosidic bonds in xylan [].; GO: 0016810 hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, 0005975 carbohydrate metabolic process; PDB: 2IW0_A 2CC0_B 2VYO_A 2J13_A 2C71_A 2C79_A 1W1A_1 1W1B_1 1W17_A 1NY1_B ....
Probab=39.59 E-value=26 Score=20.80 Aligned_cols=30 Identities=7% Similarity=0.223 Sum_probs=20.9
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecCCCccch
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
..--..+++.++++++|..+-+-|++..+.
T Consensus 17 ~~~~~~~~~~l~~~~i~at~fv~~~~~~~~ 46 (123)
T PF01522_consen 17 RDNYDRLLPLLKKYGIPATFFVIGSWVERY 46 (123)
T ss_dssp HTHHHHHHHHHHHTT--EEEEE-HHHHHHH
T ss_pred hhhHHHHHHHHHhcccceeeeecccccccc
Confidence 355677899999999999988888875544
No 139
>PRK11572 copper homeostasis protein CutC; Provisional
Probab=39.31 E-value=83 Score=23.08 Aligned_cols=38 Identities=21% Similarity=0.433 Sum_probs=27.5
Q ss_pred HHHHHh-CCCCEEEEe---cCC--CccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARE-RRVPIVMLT---SGG--YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~-~~IPva~v~---gGG--Y~~d~~~~v~~si~~l~~~~ 64 (68)
++.+++ .+|||.+++ ||+ |+.+.-+.....|..+.+.|
T Consensus 43 i~~~~~~~~ipv~vMIRPR~gdF~Ys~~E~~~M~~di~~~~~~G 86 (248)
T PRK11572 43 LKSVRERVTIPVHPIIRPRGGDFCYSDGEFAAMLEDIATVRELG 86 (248)
T ss_pred HHHHHHhcCCCeEEEEecCCCCCCCCHHHHHHHHHHHHHHHHcC
Confidence 444444 489999888 555 77776777888888887764
No 140
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=39.26 E-value=24 Score=21.32 Aligned_cols=35 Identities=14% Similarity=-0.001 Sum_probs=25.3
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
-+-+|..|=-.-=...++.|+++|+|++++.+..-
T Consensus 50 ~I~iS~sG~t~e~~~~~~~a~~~g~~vi~iT~~~~ 84 (126)
T cd05008 50 VIAISQSGETADTLAALRLAKEKGAKTVAITNVVG 84 (126)
T ss_pred EEEEeCCcCCHHHHHHHHHHHHcCCeEEEEECCCC
Confidence 34455556555556678899999999999987643
No 141
>cd01483 E1_enzyme_family Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common reaction mechanism catalyzed by MoeB, ThiF and the E1 enzymes begins with a nucleophilic attack of the C-terminal carboxylate of MoaD, ThiS and ubiquitin, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS.
Probab=39.20 E-value=45 Score=20.91 Aligned_cols=25 Identities=12% Similarity=0.106 Sum_probs=19.6
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
...+-+.|+++++|...+-..|+.-
T Consensus 103 ~~~l~~~~~~~~i~~i~~~~~g~~g 127 (143)
T cd01483 103 RRALNRACKELGIPVIDAGGLGLGG 127 (143)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCcEE
Confidence 4567789999999999887766543
No 142
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=39.00 E-value=30 Score=23.07 Aligned_cols=40 Identities=15% Similarity=0.280 Sum_probs=25.1
Q ss_pred HHHHHhCCCCEEEEecCCCccc----hHHHHHHHHHhHHHcCCc
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQ----TARIIADSILNLADLGLI 66 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d----~~~~v~~si~~l~~~~~~ 66 (68)
++.|++.|+|.+.+..++=.++ ..+.+-.|+..|.++.++
T Consensus 178 i~aA~~aG~~~i~v~~~~~~~~~~~~~~~~~~~~~~dl~~~~~~ 221 (222)
T PRK10826 178 MIAAKAARMRSIVVPAPEQQNDPRWALADVKLESLTELTAADLL 221 (222)
T ss_pred HHHHHHcCCEEEEecCCccCchhhhhhhheeccCHHHHhhhhhc
Confidence 6789999999988875431111 233444566666666554
No 143
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=38.97 E-value=41 Score=25.49 Aligned_cols=28 Identities=14% Similarity=0.184 Sum_probs=22.1
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
|.++|+.+ +++.++++|+|++.+.+|+-
T Consensus 146 irdPgV~E----aL~~LkekGikLaIaTS~~R 173 (301)
T TIGR01684 146 IRDPRIYD----SLTELKKRGCILVLWSYGDR 173 (301)
T ss_pred cCCHHHHH----HHHHHHHCCCEEEEEECCCH
Confidence 44556554 88999999999999988865
No 144
>PRK01909 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Validated
Probab=38.63 E-value=1.6e+02 Score=22.43 Aligned_cols=53 Identities=13% Similarity=0.251 Sum_probs=41.1
Q ss_pred cCCHHHHHHHHHHHHHHHH-hCCC--CEEEEec-------CC-CccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKAR-ERRV--PIVMLTS-------GG-YLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~-~~~I--Pva~v~g-------GG-Y~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+-=+.+.+.++ +.+| |-.+|.| || .+++..++|.-.|+.+.++|+
T Consensus 173 ~it~e~i~~~i~l~~~~l~~~~gi~~PrIaV~GLNPHAGE~G~~G~EE~~iI~PAi~~~~~~Gi 236 (329)
T PRK01909 173 ALTIDGLVETLAIIDRDLRRDFGLAAPRILVTGLNPHAGENGYLGREEIDVIEPALARARAAGI 236 (329)
T ss_pred HhCHHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCCCCCCCCCCcHHHHHHHHHHHHHHHHCCC
Confidence 5789999999999999888 5565 5555553 34 457778899999999998875
No 145
>KOG2707|consensus
Probab=38.61 E-value=94 Score=24.68 Aligned_cols=43 Identities=14% Similarity=0.122 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHh-CCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 19 IIRRDELVFMKARE-RRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 19 i~~RD~~V~~~a~~-~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
|.+|=+.++++|.. -..|-..|+|||-+.|.. +...+++|...
T Consensus 288 i~~Kt~~ai~~~~l~~~~~~~lV~SGGVAsN~y--ir~~le~l~~~ 331 (405)
T KOG2707|consen 288 ISSKTHRAIKSLLLQPKNVKQLVISGGVASNQY--IRGALEKLSAA 331 (405)
T ss_pred HHHHHHHHHHHhhhcccCCceEEEcCCccchHH--HHHHHHHHHHh
Confidence 45677778888874 477888999999987754 77777777654
No 146
>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site. The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....
Probab=38.40 E-value=28 Score=22.74 Aligned_cols=25 Identities=28% Similarity=0.353 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
+|+-.-.+..+..|++.++|+++++
T Consensus 105 ~g~~~~~~~~l~~~~~~~~p~ivvl 129 (188)
T PF00009_consen 105 DGIQPQTEEHLKILRELGIPIIVVL 129 (188)
T ss_dssp TBSTHHHHHHHHHHHHTT-SEEEEE
T ss_pred cccccccccccccccccccceEEee
Confidence 4566778899999999999988776
No 147
>PRK12311 rpsB 30S ribosomal protein S2/unknown domain fusion protein; Provisional
Probab=38.35 E-value=32 Score=26.10 Aligned_cols=20 Identities=10% Similarity=0.489 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhCCCCEEEEe
Q psy8530 22 RDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~ 41 (68)
+|...+..|.+.|||+++++
T Consensus 163 ~e~~AI~EA~kl~IPvIaiv 182 (326)
T PRK12311 163 KEDIAIQEAQRLGIPVAAIV 182 (326)
T ss_pred cchHHHHHHHHcCCCEEEEe
Confidence 78899999999999999887
No 148
>COG4445 MiaE Hydroxylase for synthesis of 2-methylthio-cis-ribozeatin in tRNA [Nucleotide transport and metabolism / Translation, ribosomal structure and biogenesis]
Probab=38.13 E-value=25 Score=25.26 Aligned_cols=28 Identities=25% Similarity=0.343 Sum_probs=24.1
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
+.|+++.+++|||.+-+-+--|.+..-.
T Consensus 76 eqV~eilq~RnI~~~~i~asrYa~~l~~ 103 (203)
T COG4445 76 EQVLEILQARNIPYVPIPASRYAKGLLA 103 (203)
T ss_pred HHHHHHHHHcCCccccCCccHHHHHHHH
Confidence 4689999999999999999999877544
No 149
>TIGR00441 gmhA phosphoheptose isomerase. Involved in lipopolysaccharide biosynthesis it may have a role in virulence in Haemophilus ducreyi.
Probab=38.11 E-value=26 Score=22.78 Aligned_cols=33 Identities=9% Similarity=0.023 Sum_probs=24.0
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
-+-+|..|--+-=..+++.|+++|+|++++.+-
T Consensus 83 ~i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~ 115 (154)
T TIGR00441 83 LLGISTSGNSKNVLKAIEAAKDKGMKTITLAGK 115 (154)
T ss_pred EEEEcCCCCCHHHHHHHHHHHHCCCEEEEEeCC
Confidence 344555555555567888999999999998874
No 150
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=38.09 E-value=99 Score=21.44 Aligned_cols=40 Identities=15% Similarity=0.111 Sum_probs=27.5
Q ss_pred HHHHHHHhCCCCEEEEec----CCC---ccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS----GGY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g----GGY---~~d~~~~v~~si~~l~~~~ 64 (68)
-.++.+++.+||++++=. .++ ..|.........++|.++|
T Consensus 135 ~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a~~~L~~~G 181 (342)
T PRK10014 135 DLREMAEEKGIPVVFASRASYLDDVDTVRPDNMQAAQLLTEHLIRNG 181 (342)
T ss_pred HHHHHHhhcCCCEEEEecCCCCCCCCEEEeCCHHHHHHHHHHHHHCC
Confidence 457888899999998732 111 2245666777888888876
No 151
>TIGR01011 rpsB_bact ribosomal protein S2, bacterial type. TIGR01012 describes the archaeal and cytosolic forms.
Probab=38.01 E-value=32 Score=24.38 Aligned_cols=20 Identities=20% Similarity=0.576 Sum_probs=18.3
Q ss_pred HHHHHHHHHHhCCCCEEEEe
Q psy8530 22 RDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~ 41 (68)
+|...+..|...|||+++++
T Consensus 166 ~~~~ai~Ea~~l~IP~I~iv 185 (225)
T TIGR01011 166 KEKIAVAEARKLGIPVVAIV 185 (225)
T ss_pred ccHHHHHHHHHcCCCEEEEe
Confidence 68889999999999999887
No 152
>PRK11543 gutQ D-arabinose 5-phosphate isomerase; Provisional
Probab=37.87 E-value=41 Score=23.90 Aligned_cols=35 Identities=9% Similarity=0.197 Sum_probs=25.6
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
+.+|..|=-+-=..+++.|+++|+|++++.+.+-+
T Consensus 94 i~iS~sG~t~~~~~~~~~ak~~g~~vI~iT~~~~s 128 (321)
T PRK11543 94 LFISYSGGAKELDLIIPRLEDKSIALLAMTGKPTS 128 (321)
T ss_pred EEEeCCCCcHHHHHHHHHHHHcCCeEEEEECCCCC
Confidence 33455554455566789999999999999987654
No 153
>COG0052 RpsB Ribosomal protein S2 [Translation, ribosomal structure and biogenesis]
Probab=37.79 E-value=40 Score=25.05 Aligned_cols=27 Identities=19% Similarity=0.372 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 21 RRDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
..|+.-...|++.||||++++===-.+
T Consensus 166 ~~e~iAv~EA~klgIPVvAlvDTn~dp 192 (252)
T COG0052 166 RKEKIAVKEANKLGIPVVALVDTNCDP 192 (252)
T ss_pred cHhHHHHHHHHHcCCCEEEEecCCCCC
Confidence 578888999999999999987443333
No 154
>PRK03371 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase 2; Provisional
Probab=37.76 E-value=1.7e+02 Score=22.32 Aligned_cols=53 Identities=11% Similarity=0.120 Sum_probs=42.1
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCC--CEEEEec-------CCC-ccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRV--PIVMLTS-------GGY-LKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~I--Pva~v~g-------GGY-~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+-=+...+.+++.+| |-.+|.| ||+ +++..++|.-.|+.+.++|+
T Consensus 177 ~it~e~i~~~i~~~~~~l~~~gi~~PrIaV~gLNPHAGE~G~~G~EE~~iI~PAi~~~~~~G~ 239 (326)
T PRK03371 177 TLNTARVETVIGIADTFLKRVGYVKPRIAVAGVNPHAGENGLFGDEEIRIVTPAIEAMRAKGM 239 (326)
T ss_pred HhCHHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCCCCCCCCCCcHHHHHHHHHHHHHHHHCCC
Confidence 47899999999999998887776 5455654 444 57888899999999999874
No 155
>PF09497 Med12: Transcription mediator complex subunit Med12; InterPro: IPR019035 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med12 is a component of the evolutionarily conserved Mediator complex []. The Med12 subunit may specifically regulate transcription of targets of the Wnt signaling pathway and SHH signaling pathway. Med12 is a negative regulator of the Gli3-dependent sonic hedgehog signaling pathway via its interaction with Gli3 within the Mediator. A complex is formed between Med12, Med13, CDK8 and CycC which is responsible for suppression of transcription []. ; GO: 0001104 RNA polymerase II transcription cofactor activity, 0006357 regulation of transcription from RNA polymerase II promoter, 0016592 mediator complex
Probab=37.67 E-value=31 Score=20.46 Aligned_cols=17 Identities=24% Similarity=0.354 Sum_probs=14.7
Q ss_pred HHHHHHHHHHhCCCCEE
Q psy8530 22 RDELVFMKARERRVPIV 38 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva 38 (68)
|-+.+|++|.+++||+.
T Consensus 41 k~~~ll~~l~~~~VP~~ 57 (64)
T PF09497_consen 41 KKEELLEQLCEYNVPLP 57 (64)
T ss_pred cHHHHHHHHHHcCCCch
Confidence 66788999999999974
No 156
>CHL00067 rps2 ribosomal protein S2
Probab=37.62 E-value=30 Score=24.62 Aligned_cols=20 Identities=10% Similarity=0.288 Sum_probs=17.7
Q ss_pred HHHHHHHHHHhCCCCEEEEe
Q psy8530 22 RDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~ 41 (68)
.|...+..|...|||++++.
T Consensus 172 ~~~~ai~Ea~~l~IPvIaiv 191 (230)
T CHL00067 172 EEYTALRECRKLGIPTISIL 191 (230)
T ss_pred ccHHHHHHHHHcCCCEEEEE
Confidence 56788999999999999886
No 157
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=37.61 E-value=28 Score=21.67 Aligned_cols=19 Identities=16% Similarity=0.121 Sum_probs=16.0
Q ss_pred HHHHHHHHhCCCCEEEEec
Q psy8530 24 ELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g 42 (68)
..+.++|.+.|+|+++...
T Consensus 29 ~~l~~lae~~~~Pv~~t~~ 47 (137)
T PF00205_consen 29 EELRELAEKLGIPVATTPM 47 (137)
T ss_dssp HHHHHHHHHHTSEEEEEGG
T ss_pred HHHHHHHHHHCCCEEecCc
Confidence 5678999999999998773
No 158
>PRK00232 pdxA 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed
Probab=37.26 E-value=1.7e+02 Score=22.25 Aligned_cols=53 Identities=15% Similarity=0.278 Sum_probs=42.0
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCC--CEEEEec-------CC-CccchHHHHHHHHHhHHHcCC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRV--PIVMLTS-------GG-YLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~I--Pva~v~g-------GG-Y~~d~~~~v~~si~~l~~~~~ 65 (68)
.||.+.|.+.=+.+.+.+++.+| |-.+|.| || .+++..++|.-.|+.+.++|+
T Consensus 178 ~it~e~i~~~i~~~~~~l~~~gi~~PrIaV~gLNPHAGE~G~~G~EE~~iI~PAI~~~~~~G~ 240 (332)
T PRK00232 178 AITPERLEEVIRILHADLRRKGIAEPRIAVCGLNPHAGEGGHFGREEIDIIIPALEELRAEGI 240 (332)
T ss_pred HhCHHHHHHHHHHHHHHHHHhCCCCCcEEEEeeCCCCCCCCCCCHHHHHHHHHHHHHHHhCCC
Confidence 47899999999999999984465 6566664 23 567888899999999998874
No 159
>TIGR02631 xylA_Arthro xylose isomerase, Arthrobacter type. This model describes a D-xylose isomerase that is also active as a D-glucose isomerase. It is tetrameric and dependent on a divalent cation Mg2+, Co2+ or Mn2+ as characterized in Arthrobacter. Members of this family differ substantially from the D-xylose isomerases of family TIGR02630.
Probab=37.25 E-value=1.5e+02 Score=22.60 Aligned_cols=38 Identities=11% Similarity=-0.108 Sum_probs=25.1
Q ss_pred HHHHHHHHhCCCCEEEEecCCCc------cchHHHHHHHHHhHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYL------KQTARIIADSILNLA 61 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~------~d~~~~v~~si~~l~ 61 (68)
+..++.|.+.|.|.+.+.+|-.. ++.+...+..+++|.
T Consensus 118 kraId~A~eLGa~~v~v~~G~~g~~~~~~~d~~~a~~~~~e~L~ 161 (382)
T TIGR02631 118 LRNMDLGAELGAETYVVWGGREGAEYDGAKDVRAALDRMREALN 161 (382)
T ss_pred HHHHHHHHHhCCCEEEEccCCCCCcCccccCHHHHHHHHHHHHH
Confidence 44778999999999888877322 233455555555553
No 160
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=37.18 E-value=1e+02 Score=20.43 Aligned_cols=42 Identities=14% Similarity=0.240 Sum_probs=27.1
Q ss_pred HHHHHHHHHhCCCCEEEEecC--C-----CccchHHHHHHHHHhHHHcC
Q psy8530 23 DELVFMKARERRVPIVMLTSG--G-----YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gG--G-----Y~~d~~~~v~~si~~l~~~~ 64 (68)
+.-.++.+++.+||++.+-.. + -..|.........++|.++|
T Consensus 72 ~~~~~~~~~~~~ipvV~~~~~~~~~~~~~V~~D~~~~g~~~~~~l~~~G 120 (273)
T cd01541 72 NIDLYLKLEKLGIPYVFINASYEELNFPSLVLDDEKGGYKATEYLIELG 120 (273)
T ss_pred cHHHHHHHHHCCCCEEEEecCCCCCCCCEEEECcHHHHHHHHHHHHHcC
Confidence 445667888899999987532 1 12344555666677777765
No 161
>PF14426 Imm2: Immunity protein Imm2
Probab=37.03 E-value=10 Score=22.66 Aligned_cols=24 Identities=21% Similarity=0.362 Sum_probs=15.8
Q ss_pred EEecCCCccchHH-HHHHHHHhHHH
Q psy8530 39 MLTSGGYLKQTAR-IIADSILNLAD 62 (68)
Q Consensus 39 ~v~gGGY~~d~~~-~v~~si~~l~~ 62 (68)
.+++||+++|..+ -..+-|..+..
T Consensus 7 lILsgg~~pd~v~~~h~~~I~~~l~ 31 (60)
T PF14426_consen 7 LILSGGWHPDVVEMFHRNWIHKLLS 31 (60)
T ss_pred HHHHccCChHHHHHHHHHHHHHHHH
Confidence 3568999998877 44455554443
No 162
>TIGR03134 malonate_gamma malonate decarboxylase, gamma subunit. Members of this protein family are the gamma subunit of malonate decarboxylase. Malonate decarboxylase may be a soluble enzyme, or linked to membrane subunits and active as a sodium pump. In the malonate decarboxylase complex, the beta subunit appears to act as a malonyl-CoA decarboxylase, while the gamma subunit appears either to mediate subunit interaction or to act as a co-decarboxylase with the beta subunit. The beta and gamma subunits exhibit some local sequence similarity.
Probab=36.79 E-value=1.6e+02 Score=21.20 Aligned_cols=35 Identities=14% Similarity=0.047 Sum_probs=26.9
Q ss_pred cCCHHHHHHHHHHHHHHHHh-CCCCEEEEe-cCCCcc
Q psy8530 13 LEDHLGIIRRDELVFMKARE-RRVPIVMLT-SGGYLK 47 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~-~~IPva~v~-gGGY~~ 47 (68)
++..++-++=-++|...|.+ .++||++++ --|+..
T Consensus 44 ~~g~~~~~k~A~~v~~~~d~~f~~PIv~lvDtpG~~~ 80 (238)
T TIGR03134 44 EVGLDEALALAQAVLDVIEADDKRPIVVLVDTPSQAY 80 (238)
T ss_pred cCChHHHHHHHHHHHHHHHhcCCCCEEEEEeCCCCCC
Confidence 45667778888899998865 899999998 555543
No 163
>COG1797 CobB Cobyrinic acid a,c-diamide synthase [Coenzyme metabolism]
Probab=36.51 E-value=46 Score=26.66 Aligned_cols=33 Identities=24% Similarity=0.377 Sum_probs=23.3
Q ss_pred CCCCE---EEEecCCCccchHH------HHHHHHHhHHHcCC
Q psy8530 33 RRVPI---VMLTSGGYLKQTAR------IIADSILNLADLGL 65 (68)
Q Consensus 33 ~~IPv---a~v~gGGY~~d~~~------~v~~si~~l~~~~~ 65 (68)
..+|- ++.+||||..-.++ -..++|.++.+.|.
T Consensus 283 ~~lP~~~D~vYlgGGYPElfA~~L~~n~~~~~~i~~~~~~G~ 324 (451)
T COG1797 283 EELPPDVDAVYLGGGYPELFAEELSANESMRRAIKAFAAAGK 324 (451)
T ss_pred CCCCCCCCEEEeCCCChHHHHHHHhhCHHHHHHHHHHHHcCC
Confidence 46774 57889999876544 34567888888763
No 164
>cd04165 GTPBP1_like GTPBP1-like. Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and
Probab=36.36 E-value=34 Score=23.76 Aligned_cols=26 Identities=19% Similarity=0.262 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+|+..-|+..++++...++|++.++
T Consensus 120 ~~g~~~~d~~~l~~l~~~~ip~ivvv 145 (224)
T cd04165 120 NAGIIGMTKEHLGLALALNIPVFVVV 145 (224)
T ss_pred CCCCcHHHHHHHHHHHHcCCCEEEEE
Confidence 45677889999999999999988776
No 165
>PF08016 PKD_channel: Polycystin cation channel; InterPro: IPR013122 Polycystic kidney diseases (PKD) are disorders characterised by large numbers of cysts distributed throughout grossly-enlarged kidneys. Cyst development is associated with impairment of kidney function, and ultimately kidney failure and death []. Most cases of autosomal dominant PKD result from mutations in the PKD1 gene that cause premature protein termination. A second gene for autosomal dominant polycystic kidney disease has been identified by positional cloning []. The predicted 968-amino acid sequence of the PKD2 gene product (polycystin-2) contains 6 transmembrane domains, with intracellular N- and C-termini. Polycystin-2 shares some similarity with the family of voltage-activated calcium (and sodium) channels, and contains a potential calcium-binding domain. Polycystin-2 is strongly expressed in ovary, foetal and adult kidney, testis, and small intestine. Polycystin-1 requires the presence of this protein for stable expression and is believed to interact with it via its C terminus. All mutations between exons 1 and 11 result in a truncated polycystin-2 that lacks a calcium-binding EF-hand domain and the cytoplasmic domains required for the interaction of polycystin-2 with polycystin-1 []. PKD2, although clinically milder than PKD1, has a deleterious impact on life expectancy. This entry contains proteins belonging to the polycystin family including Mucolipin and Polycystin-1 and -2 (PKD1 and PKD2). The domain contains the cation channel region of PKD1 and PKD2 proteins. PKD1 and PKD2 may function through a common signalling pathway that is necessary for normal tubulogenesis. The PKD2 gene product has six transmembrane spans with intracellular amino- and carboxyl-termini []. Mucolipin is a cationic channel which probably plays a role in the endocytic pathway and in the control of membrane trafficking of proteins and lipids. It could play a major role in the calcium ion transport regulating lysosomal exocytosis [, , ].
Probab=36.36 E-value=30 Score=25.91 Aligned_cols=42 Identities=19% Similarity=0.266 Sum_probs=26.2
Q ss_pred HHHHHhC-CCCEE----EEecCCCccchH---HHHHHHHHhHHHcCCcCC
Q psy8530 27 FMKARER-RVPIV----MLTSGGYLKQTA---RIIADSILNLADLGLISR 68 (68)
Q Consensus 27 ~~~a~~~-~IPva----~v~gGGY~~d~~---~~v~~si~~l~~~~~~~~ 68 (68)
++...+. +.|.- +--||||.-+.. +-....|+.|.+.+||++
T Consensus 105 ~~~~~~~~~~~~~G~~~~Y~~gGY~~~L~~~~~~a~~~l~~L~~~~WiD~ 154 (425)
T PF08016_consen 105 YQSSSELNGYPYWGQFGTYGGGGYVVDLGRNKDEARSILQYLQQNNWIDR 154 (425)
T ss_pred EcchhhcCCCceeeeeeeeCCCcEEEECCCCHHHHHHHHHHHHhCcCccc
Confidence 3333333 55553 334999976643 234567788999999975
No 166
>TIGR00789 flhB_rel flhB C-terminus-related protein. This model describes a short protein (80-93 residues) homologous to the C-terminus of the flagellar biosynthetic protein FlhB. It is found so far only in species that also have FlhB. In a phylogenetic tree based on alignment of both this family and the homologous region of FlhB and its homologs, the members of this family form a monophyletic set.
Probab=36.17 E-value=38 Score=20.72 Aligned_cols=19 Identities=26% Similarity=0.379 Sum_probs=15.1
Q ss_pred HHHHHHHHHHHhCCCCEEE
Q psy8530 21 RRDELVFMKARERRVPIVM 39 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~ 39 (68)
+-=+.+.+.|++++||+.-
T Consensus 27 ~~A~~I~~~A~e~~VPi~~ 45 (82)
T TIGR00789 27 EVAERIIEIAKKHGIPIVE 45 (82)
T ss_pred HHHHHHHHHHHHcCCCEEe
Confidence 3446788999999999973
No 167
>TIGR03106 trio_M42_hydro hydrolase, peptidase M42 family. This model describes a subfamily of MEROPS peptidase family M42, a glutamyl aminopeptidase family that also includes the cellulase CelM from Clostridium thermocellum and deblocking aminopeptidases that can remove acylated amino acids. Members of this family occur in a three gene cassette with an amidotransferase (TIGR03104)in the asparagine synthase (glutamine-hydrolyzing) family, and a probable acetyltransferase (TIGR03103) in the GNAT family.
Probab=36.11 E-value=58 Score=24.35 Aligned_cols=28 Identities=11% Similarity=0.050 Sum_probs=19.9
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
+++.+.|++++||.-.-+..||+.|...
T Consensus 270 ~~l~~~A~~~~Ip~Q~~~~~~~gtDa~~ 297 (343)
T TIGR03106 270 RKLIRLCQDHGIPHRRDVFRYYRSDAAS 297 (343)
T ss_pred HHHHHHHHHcCCCcEEEecCCCCChHHH
Confidence 4688999999999997443444666543
No 168
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=35.83 E-value=1.5e+02 Score=20.52 Aligned_cols=23 Identities=17% Similarity=0.401 Sum_probs=19.0
Q ss_pred HHHHHHHHhCCCCEEEEecCCCc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
+.+++.|++.|+|.+.+..|-|.
T Consensus 88 ~~~i~~A~~lG~~~v~~~~g~~~ 110 (279)
T cd00019 88 KDEIERCEELGIRLLVFHPGSYL 110 (279)
T ss_pred HHHHHHHHHcCCCEEEECCCCCC
Confidence 67889999999998877777554
No 169
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=35.79 E-value=45 Score=22.13 Aligned_cols=24 Identities=13% Similarity=0.101 Sum_probs=19.1
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
||...++.++++|++++.+.|.-+
T Consensus 52 ~d~~~i~~L~~~Gi~v~I~T~~~~ 75 (183)
T PRK09484 52 RDGYGIRCLLTSGIEVAIITGRKS 75 (183)
T ss_pred cchHHHHHHHHCCCEEEEEeCCCc
Confidence 566788999999999997776643
No 170
>COG4220 Phage DNA packaging protein, Nu1 subunit of terminase [DNA replication, recombination, and repair]
Probab=35.67 E-value=83 Score=22.31 Aligned_cols=44 Identities=18% Similarity=0.126 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 18 GIIRRDELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
-|+.++.-..+...++|||| +++||......-=.+.+|.=+.++
T Consensus 14 elf~v~~rtv~~w~~~GiPv--~~~rgkg~e~~fd~a~~i~wyae~ 57 (174)
T COG4220 14 ELFGVSLRTVQKWQEQGIPV--SNGRGKGDEDAFDLAAAISWYAER 57 (174)
T ss_pred HHHcccHHHHHHHHhcCCee--ecCCCCCcchhhhHHHHHHHHHhh
Confidence 35566777777888899997 579998877665556666655543
No 171
>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.
Probab=35.61 E-value=1.1e+02 Score=24.41 Aligned_cols=33 Identities=18% Similarity=0.167 Sum_probs=24.2
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe-cCCCcc
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT-SGGYLK 47 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~-gGGY~~ 47 (68)
++.++..+--+ .++.|.+.++|++++. .+||..
T Consensus 331 ~~~~~~~K~~r-~i~~a~~~~lPlV~lvDs~G~~~ 364 (512)
T TIGR01117 331 LDIDSSDKIAR-FIRFCDAFNIPIVTFVDVPGFLP 364 (512)
T ss_pred CCHHHHHHHHH-HHHHHHHcCCCEEEEEeCcCccc
Confidence 55566554444 4578999999999988 888854
No 172
>PF04187 DUF399: Protein of unknown function, DUF399; InterPro: IPR007314 No function is known for any member of this family.; PDB: 2G5G_X.
Probab=35.49 E-value=33 Score=23.85 Aligned_cols=16 Identities=31% Similarity=0.511 Sum_probs=11.8
Q ss_pred HHHHHHHhCCCCEEEE
Q psy8530 25 LVFMKARERRVPIVML 40 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v 40 (68)
=++++|+++++|+++.
T Consensus 93 pl~~~Ar~~~ipviA~ 108 (213)
T PF04187_consen 93 PLVEFARENGIPVIAL 108 (213)
T ss_dssp HHHHHHHTSS--EEEE
T ss_pred HHHHHHHHCCCCEEEe
Confidence 3889999999999864
No 173
>PF13242 Hydrolase_like: HAD-hyrolase-like; PDB: 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A 2HX1_D 2X4D_A 3HLT_C 3L1U_B ....
Probab=35.30 E-value=64 Score=18.14 Aligned_cols=24 Identities=13% Similarity=0.289 Sum_probs=19.1
Q ss_pred HHHHHhCCCCEEEEecCCCccchH
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+..|++.|++.+.|..|=|+.+..
T Consensus 35 i~~a~~~G~~~ilV~tG~~~~~~~ 58 (75)
T PF13242_consen 35 IEAAKAAGIDTILVLTGVYSPEDL 58 (75)
T ss_dssp HHHHHHTTSEEEEESSSSSCCCGH
T ss_pred HHHHHHcCCcEEEECCCCCCHHHH
Confidence 467899999999999877776543
No 174
>KOG2517|consensus
Probab=35.26 E-value=55 Score=26.54 Aligned_cols=34 Identities=21% Similarity=0.231 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHhCC-CCEEEEe-cCCCccch
Q psy8530 16 HLGIIRRDELVFMKARERR-VPIVMLT-SGGYLKQT 49 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~-IPva~v~-gGGY~~d~ 49 (68)
.|+|...=+.+++.+.+.+ +|+-.+. +||+++|.
T Consensus 393 leai~fqtr~Il~am~~~~~~~i~~L~~~GG~s~N~ 428 (516)
T KOG2517|consen 393 LEAIAFQTREILEAMERDGGHPISTLRVCGGLSKNP 428 (516)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCcceeeeccccccCH
Confidence 5789999999999999998 8998654 99999985
No 175
>COG2266 GTP:adenosylcobinamide-phosphate guanylyltransferase [Coenzyme metabolism]
Probab=35.23 E-value=34 Score=24.18 Aligned_cols=27 Identities=11% Similarity=0.121 Sum_probs=21.8
Q ss_pred HHHHHhCCCCEEEEecCCCccchHHHH
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQTARII 53 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d~~~~v 53 (68)
=++|.+.++|+.-.-|+||=+|....+
T Consensus 56 ~~~~~~~gv~vi~tpG~GYv~Dl~~al 82 (177)
T COG2266 56 KEYLESVGVKVIETPGEGYVEDLRFAL 82 (177)
T ss_pred HHHHHhcCceEEEcCCCChHHHHHHHH
Confidence 357888899999999999988766543
No 176
>COG0633 Fdx Ferredoxin [Energy production and conversion]
Probab=35.08 E-value=31 Score=21.41 Aligned_cols=23 Identities=26% Similarity=0.407 Sum_probs=18.3
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY 45 (68)
++.+++.|.++|||+-..=+||+
T Consensus 22 g~tiLe~a~~~gi~i~~~C~~g~ 44 (102)
T COG0633 22 GETLLEAAERNGIPIEYACRGGA 44 (102)
T ss_pred CcHHHHHHHHCCCcceecCCCCc
Confidence 57899999999999766666663
No 177
>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]
Probab=35.04 E-value=31 Score=28.10 Aligned_cols=27 Identities=26% Similarity=0.346 Sum_probs=24.2
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
+..||-.|-+-.|+-|+-++|||...+
T Consensus 114 aAKGiE~qT~KLfeVcrlR~iPI~TFi 140 (528)
T COG4108 114 AAKGIEPQTLKLFEVCRLRDIPIFTFI 140 (528)
T ss_pred cccCccHHHHHHHHHHhhcCCceEEEe
Confidence 356889999999999999999999877
No 178
>PRK07535 methyltetrahydrofolate:corrinoid/iron-sulfur protein methyltransferase; Validated
Probab=34.95 E-value=1.3e+02 Score=21.70 Aligned_cols=42 Identities=19% Similarity=0.305 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHhCCCCEEEEec--CCCccchHH---HHHHHHHhHHH
Q psy8530 21 RRDELVFMKARERRVPIVMLTS--GGYLKQTAR---IIADSILNLAD 62 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~g--GGY~~d~~~---~v~~si~~l~~ 62 (68)
.|+..++..+++++.|++++.. -|-.++.+. .....+..+.+
T Consensus 103 ~~~~~~~~l~~~~g~~vv~m~~~~~g~P~t~~~~~~~l~~~v~~a~~ 149 (261)
T PRK07535 103 EKLEVVLPLVKKYNAPVVALTMDDTGIPKDAEDRLAVAKELVEKADE 149 (261)
T ss_pred ccCHHHHHHHHHhCCCEEEEecCCCCCCCCHHHHHHHHHHHHHHHHH
Confidence 6778889999999999998765 566655543 23334444443
No 179
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=34.94 E-value=95 Score=20.50 Aligned_cols=38 Identities=16% Similarity=0.212 Sum_probs=26.7
Q ss_pred HHHHHhCCCCEEEEecC--C--C---ccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTSG--G--Y---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gG--G--Y---~~d~~~~v~~si~~l~~~~ 64 (68)
++.+.+.++|++++-.. + + ..|.........++|.++|
T Consensus 71 ~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 115 (268)
T cd06270 71 LIELAAQVPPLVLINRHIPGLADRCIWLDNEQGGYLATEHLIELG 115 (268)
T ss_pred HHHHhhCCCCEEEEeccCCCCCCCeEEECcHHHHHHHHHHHHHCC
Confidence 78888899999987431 2 2 2456667777778887765
No 180
>PRK13903 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=34.77 E-value=45 Score=25.48 Aligned_cols=21 Identities=14% Similarity=0.238 Sum_probs=16.7
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++++|+++++|+. ++|||=+
T Consensus 47 ~~l~~a~~~~~p~~-vlGgGSN 67 (363)
T PRK13903 47 AAVRELDAAGEPLL-VLGGGSN 67 (363)
T ss_pred HHHHHHHHCCCCEE-EEeCCee
Confidence 46699999999987 5788754
No 181
>PLN02306 hydroxypyruvate reductase
Probab=34.68 E-value=48 Score=25.33 Aligned_cols=39 Identities=18% Similarity=0.130 Sum_probs=26.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|+++||+|+-+ .|.++...++.+-..|..+..
T Consensus 98 D~iD~~aa~~~gI~V~n~-pg~~~~~VAE~al~liLal~R 136 (386)
T PLN02306 98 NNVDVEAANKYGIAVGNT-PGVLTETTAELAASLSLAAAR 136 (386)
T ss_pred ccccHHHHHHCCCEEEEC-CCcCHHHHHHHHHHHHHHHHh
Confidence 566788899999999776 455666666655555555543
No 182
>KOG1056|consensus
Probab=34.52 E-value=45 Score=28.74 Aligned_cols=27 Identities=30% Similarity=0.425 Sum_probs=19.2
Q ss_pred CCEEEEecCCCccchHHHHHHHHHhHHHcCCc
Q psy8530 35 VPIVMLTSGGYLKQTARIIADSILNLADLGLI 66 (68)
Q Consensus 35 IPva~v~gGGY~~d~~~~v~~si~~l~~~~~~ 66 (68)
=||+.|+|+||+. +.....||.+-++|
T Consensus 124 p~v~~VIG~s~Ss-----vsi~vanlLrlf~i 150 (878)
T KOG1056|consen 124 PPVVAVIGPSYSS-----VSIAVANLLRLFLI 150 (878)
T ss_pred CceeEEeCCCCch-----HHHHHHHHHHhhcC
Confidence 5789999999986 44445566665555
No 183
>PRK14556 pyrH uridylate kinase; Provisional
Probab=34.37 E-value=42 Score=24.48 Aligned_cols=21 Identities=14% Similarity=0.210 Sum_probs=16.7
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
-.+..+.+.++-++.|+|||-
T Consensus 45 ~~i~~~~~~g~~i~iVvGGGn 65 (249)
T PRK14556 45 NQIKTLTNFGVELALVVGGGN 65 (249)
T ss_pred HHHHHHHhCCcEEEEEECCCH
Confidence 345566778999999999995
No 184
>PLN03230 acetyl-coenzyme A carboxylase carboxyl transferase; Provisional
Probab=34.34 E-value=1.7e+02 Score=23.46 Aligned_cols=31 Identities=19% Similarity=0.312 Sum_probs=23.7
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe--cCCC
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT--SGGY 45 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY 45 (68)
++.+|...--+ .+++|.+.++||++++ +|.|
T Consensus 202 ~~peGyRKAlR-~mklAekf~lPIVtLVDTpGA~ 234 (431)
T PLN03230 202 PQPNGYRKALR-FMRHAEKFGFPILTFVDTPGAY 234 (431)
T ss_pred CCHHHHHHHHH-HHHHHHHcCCCEEEEEeCCCcC
Confidence 66788665554 5689999999999998 4544
No 185
>PRK14851 hypothetical protein; Provisional
Probab=34.20 E-value=48 Score=27.33 Aligned_cols=24 Identities=29% Similarity=0.544 Sum_probs=19.5
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
+++.+.|++++||+++....||+.
T Consensus 150 ~~l~~~c~~~~iP~i~~g~~G~~g 173 (679)
T PRK14851 150 RTLFNMAREKGIPVITAGPLGYSS 173 (679)
T ss_pred HHHHHHHHHCCCCEEEeecccccc
Confidence 468889999999999877667654
No 186
>PRK14852 hypothetical protein; Provisional
Probab=34.01 E-value=47 Score=28.97 Aligned_cols=25 Identities=24% Similarity=0.367 Sum_probs=21.3
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
+++++.|++++||+++.-..||.-.
T Consensus 439 r~l~~~c~~~~IP~I~ag~~G~~g~ 463 (989)
T PRK14852 439 RRLFNRALELGIPVITAGPLGYSCA 463 (989)
T ss_pred HHHHHHHHHcCCCEEEeeccccCee
Confidence 5788999999999999888888643
No 187
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=34.00 E-value=31 Score=19.23 Aligned_cols=21 Identities=19% Similarity=0.284 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHhCCCCEEEEe
Q psy8530 21 RRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~ 41 (68)
..-...++.|+++|+|++++.
T Consensus 61 ~~~~~~~~~a~~~g~~ii~it 81 (87)
T cd04795 61 EELLAALEIAKELGIPVIAIT 81 (87)
T ss_pred HHHHHHHHHHHHcCCeEEEEe
Confidence 333444555555555555443
No 188
>TIGR03234 OH-pyruv-isom hydroxypyruvate isomerase. This enzyme interconverts tartronate semi-aldehyde (TSA, aka 2-hydroxy 3-oxopropionate) and hydroxypyruvate. The E. coli enzyme has been characterized and found to be specific for TSA, contain no cofactors, and have a rather high Km for hydroxypyruvate of 12.5 mM. The gene is ofter found in association with glyoxalate carboligase (which produces TSA), but has been shown to have no effect on growth on glyoxalate when knocked out. This is consistent with the fact that the gene for tartronate semialdehyde reductase (glxR) is also associated and may have primary responsibility for the catabolism of TSA.
Probab=33.99 E-value=1.5e+02 Score=20.10 Aligned_cols=20 Identities=30% Similarity=0.283 Sum_probs=16.4
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
..++.|+..|.|.+.+..|.
T Consensus 88 ~~i~~a~~lg~~~i~~~~g~ 107 (254)
T TIGR03234 88 LAIAYARALGCPQVNCLAGK 107 (254)
T ss_pred HHHHHHHHhCCCEEEECcCC
Confidence 47889999999998777653
No 189
>cd00431 cysteine_hydrolases Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It also contains isochorismatase, an enzyme that catalyzes the conversion of isochorismate to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of the vinyl ether bond, and other related enzymes with unknown function.
Probab=33.84 E-value=83 Score=19.74 Aligned_cols=26 Identities=12% Similarity=0.256 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+.++=..+++.|++.++||+.+-
T Consensus 22 ~~~~~~~i~~l~~~ar~~~~~vi~~~ 47 (161)
T cd00431 22 ADELVPNINRLLAAARAAGIPVIFTR 47 (161)
T ss_pred HHHHHHHHHHHHHHHHHcCCeEEEEE
Confidence 46788888999999999999999876
No 190
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=33.72 E-value=93 Score=18.72 Aligned_cols=18 Identities=17% Similarity=0.702 Sum_probs=15.2
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
+++.++++++|++++.++
T Consensus 85 ~L~~l~~~~~~~~i~Sn~ 102 (176)
T PF13419_consen 85 LLERLKAKGIPLVIVSNG 102 (176)
T ss_dssp HHHHHHHTTSEEEEEESS
T ss_pred hhhhcccccceeEEeecC
Confidence 678888899999998766
No 191
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=33.66 E-value=1e+02 Score=20.16 Aligned_cols=40 Identities=23% Similarity=0.245 Sum_probs=27.7
Q ss_pred HHHHHHHhCCCCEEEEecC----C---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSG----G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG----G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
..++.+.+.+||++.+-.- . ...|.........++|.++|
T Consensus 71 ~~~~~~~~~~ipvv~i~~~~~~~~~~~V~~d~~~~g~~a~~~l~~~g 117 (270)
T cd01545 71 ELLDLLDEAGVPYVRIAPGTPDPDSPCVRIDDRAAAREMTRHLIDLG 117 (270)
T ss_pred HHHHHHHhcCCCEEEEecCCCCCCCCeEEeccHHHHHHHHHHHHHCC
Confidence 3567788899999987421 1 23466667777788888764
No 192
>PF02641 DUF190: Uncharacterized ACR, COG1993; InterPro: IPR003793 This is an uncharacterised domain found in proteins of unknown function.; PDB: 2DCL_C 1O51_A.
Probab=33.52 E-value=38 Score=20.93 Aligned_cols=26 Identities=19% Similarity=0.238 Sum_probs=19.5
Q ss_pred HHHHHHHHhCCCCEEEEe--cCCCccch
Q psy8530 24 ELVFMKARERRVPIVMLT--SGGYLKQT 49 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~--gGGY~~d~ 49 (68)
+.++++|++.||.=|+|+ -.||+++.
T Consensus 23 ~~ll~~~~~~gi~GaTV~rgi~G~G~~~ 50 (101)
T PF02641_consen 23 EWLLERAREAGIAGATVFRGIEGFGSSG 50 (101)
T ss_dssp HHHHHHHHHTT-SEEEEEE-SEEEE---
T ss_pred HHHHHHHHHCCCCeEEEEcceeeeCCCC
Confidence 679999999999999998 56898765
No 193
>TIGR01889 Staph_reg_Sar staphylococcal accessory regulator family. This model represents a family of transcriptional regulatory proteins in Staphylococcus aureus and Staphylococcus epidermidis. Some members contain two tandem copies of this region. This family is related to the MarR transcriptional regulator family described by pfam model pfam01047.
Probab=33.49 E-value=42 Score=20.56 Aligned_cols=19 Identities=21% Similarity=0.368 Sum_probs=16.2
Q ss_pred HHHHHHHHHhHHHcCCcCC
Q psy8530 50 ARIIADSILNLADLGLISR 68 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~~ 68 (68)
...+.++|.+|.++|+|.|
T Consensus 57 ~stvs~~i~~Le~kg~I~r 75 (109)
T TIGR01889 57 QSALVKIIKKLSKKGYLSK 75 (109)
T ss_pred HHHHHHHHHHHHHCCCEec
Confidence 3478899999999999975
No 194
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=33.20 E-value=1.2e+02 Score=18.84 Aligned_cols=39 Identities=21% Similarity=0.180 Sum_probs=24.7
Q ss_pred HHHHHHhCCCCEEEEecCC-----------CccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSGG-----------YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG-----------Y~~d~~~~v~~si~~l~~~~ 64 (68)
+.+.+++.+||++.+.+.. +..+...........|.+++
T Consensus 74 ~~~~~~~~~ip~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 123 (269)
T cd01391 74 VVELAAAAGIPVVSLDATAPDLTGYPYVFRVGPDNEQAGEAAAEYLAEKG 123 (269)
T ss_pred HHHHHHHcCCcEEEecCCCCccCCCceEEEEcCCcHHHHHHHHHHHHHhC
Confidence 6788899999999875431 22334445555555665554
No 195
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=33.11 E-value=1.1e+02 Score=19.66 Aligned_cols=38 Identities=16% Similarity=0.204 Sum_probs=25.9
Q ss_pred HHHHHhCCCCEEEEecC----C---CccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTSG----G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gG----G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
++.+.+.+||++.+-.. . ...|...........|.++|
T Consensus 71 ~~~~~~~~ipvv~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g 115 (264)
T cd06267 71 LEELAALGIPVVLVDRPLDGLGVDSVGIDNRAGAYLAVEHLIELG 115 (264)
T ss_pred HHHHHHcCCCEEEecccccCCCCCEEeeccHHHHHHHHHHHHHCC
Confidence 77788899999987543 1 12345566677777777764
No 196
>PRK13487 chemoreceptor glutamine deamidase CheD; Provisional
Probab=33.03 E-value=61 Score=22.96 Aligned_cols=31 Identities=26% Similarity=0.298 Sum_probs=23.0
Q ss_pred HHHHHH-HHHHHHHHhCCCCEEE-EecCCCccc
Q psy8530 18 GIIRRD-ELVFMKARERRVPIVM-LTSGGYLKQ 48 (68)
Q Consensus 18 Gi~~RD-~~V~~~a~~~~IPva~-v~gGGY~~d 48 (68)
.|=+|+ +++.++.++.+||++. =+||-+++.
T Consensus 123 ~IG~rNi~~a~~~L~~~gI~iva~DvGG~~gR~ 155 (201)
T PRK13487 123 NVGERNAEFVRDYLQTERIPIVAEDLLDIYPRK 155 (201)
T ss_pred CchHHHHHHHHHHHHHcCCcEEEEECCCCCCcE
Confidence 345665 5788889999999985 457777765
No 197
>PRK10342 glycerate kinase I; Provisional
Probab=32.91 E-value=42 Score=26.03 Aligned_cols=18 Identities=17% Similarity=0.193 Sum_probs=15.0
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
-|.+.|+++++|++++-|
T Consensus 307 gVa~~A~~~~vPviai~G 324 (381)
T PRK10342 307 GVANVAKKYHKPVIGIAG 324 (381)
T ss_pred HHHHHHHHhCCCEEEEec
Confidence 367889999999998765
No 198
>TIGR03614 RutB pyrimidine utilization protein B. RL Proc Natl Acad Sci U S A. 2006 Mar 28;103(13):5114-9. Epub 2006 Mar 15.
Probab=32.77 E-value=84 Score=21.63 Aligned_cols=27 Identities=11% Similarity=0.185 Sum_probs=23.5
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
..+.+..+=..+++.|+++++||+.+-
T Consensus 43 ~~~~~i~~i~~l~~~aR~~g~pVI~~~ 69 (226)
T TIGR03614 43 GTKPVIENIKKAVTAARAAGIQVIYFQ 69 (226)
T ss_pred hHHHHHHHHHHHHHHHHHcCCEEEEEe
Confidence 357788888999999999999999874
No 199
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=32.51 E-value=1.5e+02 Score=20.15 Aligned_cols=39 Identities=21% Similarity=0.245 Sum_probs=27.3
Q ss_pred HHHHHHhCCCCEEEEec-----CCCc---cchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS-----GGYL---KQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g-----GGY~---~d~~~~v~~si~~l~~~~ 64 (68)
.++.+.+.++|++.+-. .++. .|..........+|.++|
T Consensus 71 ~~~~l~~~~iPvV~i~~~~~~~~~~~~V~~d~~~~~~~a~~~L~~~G 117 (269)
T cd06287 71 QVARLRQRGIPVVSIGRPPGDRTDVPYVDLQSAATARMLLEHLRAQG 117 (269)
T ss_pred HHHHHHHcCCCEEEeCCCCCCCCCCCeEeeCcHHHHHHHHHHHHHcC
Confidence 45677788999998832 1121 345677888889999886
No 200
>TIGR00612 ispG_gcpE 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase. Chlamydial members of the family have a long insert. The family is largely restricted to Bacteria, where it is widely but not universally distributed. No homology can be detected between the GcpE family and other proteins.
Probab=32.30 E-value=22 Score=27.55 Aligned_cols=25 Identities=24% Similarity=0.193 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHhCCCCEEEEe-cCC
Q psy8530 20 IRRDELVFMKARERRVPIVMLT-SGG 44 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~-gGG 44 (68)
.+|=+.|.+.|+++++|+=.=. +|-
T Consensus 107 ~e~v~~vv~~ak~~~ipIRIGVN~GS 132 (346)
T TIGR00612 107 RERVRDVVEKARDHGKAMRIGVNHGS 132 (346)
T ss_pred HHHHHHHHHHHHHCCCCEEEecCCCC
Confidence 5677889999999999998655 553
No 201
>PRK00414 gmhA phosphoheptose isomerase; Reviewed
Probab=32.29 E-value=59 Score=22.09 Aligned_cols=33 Identities=15% Similarity=-0.000 Sum_probs=23.4
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
-+|..|--.-=...++.|+++|+|++++.+-.-
T Consensus 117 ~iS~SG~t~~~i~~~~~ak~~g~~iI~iT~~~~ 149 (192)
T PRK00414 117 GISTSGNSGNIIKAIEAARAKGMKVITLTGKDG 149 (192)
T ss_pred EEeCCCCCHHHHHHHHHHHHCCCeEEEEeCCCC
Confidence 345555334445678899999999999998643
No 202
>PRK07106 5-aminoimidazole-4-carboxamide ribonucleotide transformylase; Provisional
Probab=32.13 E-value=34 Score=26.91 Aligned_cols=18 Identities=17% Similarity=0.237 Sum_probs=15.2
Q ss_pred HHHHHHHHHHHhCCCCEE
Q psy8530 21 RRDELVFMKARERRVPIV 38 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva 38 (68)
-||+-|++.|-++||..+
T Consensus 364 iRD~evI~aane~giaMv 381 (390)
T PRK07106 364 IRDDNVIETCNKYGMTMA 381 (390)
T ss_pred CCcHHHHHHHHHhCCEEE
Confidence 499999999999996443
No 203
>TIGR00498 lexA SOS regulatory protein LexA. LexA acts as a homodimer to repress a number of genes involved in the response to DNA damage (SOS response), including itself and RecA. RecA, in the presence of single-stranded DNA, acts as a co-protease to activate a latent autolytic protease activity (EC 3.4.21.88) of LexA, where the active site Ser is part of LexA. The autolytic cleavage site is an Ala-Gly bond in LexA (at position 84-85 in E. coli LexA; this sequence is replaced by Gly-Gly in Synechocystis). The cleavage leads to derepression of the SOS regulon and eventually to DNA repair. LexA in Bacillus subtilis is called DinR. LexA is much less broadly distributed than RecA.
Probab=32.11 E-value=14 Score=24.77 Aligned_cols=50 Identities=16% Similarity=0.183 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHhC----CCC-EEEEecCCCccchHHHHHHHHHhHHHcCCcCC
Q psy8530 19 IIRRDELVFMKARER----RVP-IVMLTSGGYLKQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 19 i~~RD~~V~~~a~~~----~IP-va~v~gGGY~~d~~~~v~~si~~l~~~~~~~~ 68 (68)
+-.++..||++..+. ++| .+.-++--.+-++..+|..-+..|.++|+|.+
T Consensus 4 lt~~q~~iL~~l~~~~~~~~~~~~~~ela~~~~~~s~~tv~~~l~~L~~~g~i~~ 58 (199)
T TIGR00498 4 LTARQQEVLDLIRAHIESTGYPPSIREIARAVGLRSPSAAEEHLKALERKGYIER 58 (199)
T ss_pred cCHHHHHHHHHHHHHHHhcCCCCcHHHHHHHhCCCChHHHHHHHHHHHHCCCEec
Confidence 447888888888753 554 33445555555556688899999999999864
No 204
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=32.03 E-value=1.4e+02 Score=20.49 Aligned_cols=40 Identities=13% Similarity=0.138 Sum_probs=26.2
Q ss_pred HHHHHHHhCCCCEEEEec----CCCc---cchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS----GGYL---KQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g----GGY~---~d~~~~v~~si~~l~~~~ 64 (68)
.+++.+.+.++|++++-. .++. .|.........++|.++|
T Consensus 129 ~~~~~l~~~~iPvV~~~~~~~~~~~~~V~~D~~~~~~~a~~~L~~~G 175 (329)
T TIGR01481 129 KLREEFSRSPVPVVLAGTVDKENELPSVNIDYKQATKEAVGELIAKG 175 (329)
T ss_pred HHHHHHHhcCCCEEEEecCCCCCCCCEEEECcHHHHHHHHHHHHHCC
Confidence 355677778999987632 1221 345566677788888875
No 205
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=31.86 E-value=96 Score=21.36 Aligned_cols=38 Identities=11% Similarity=0.148 Sum_probs=25.9
Q ss_pred HHHHHhCCCCEEEEec----CC---CccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTS----GG---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~g----GG---Y~~d~~~~v~~si~~l~~~~ 64 (68)
++.+.+.+||++++=. .+ +..|.........++|.++|
T Consensus 134 ~~~l~~~~iPvV~v~~~~~~~~~~~V~~d~~~~~~~a~~~L~~~G 178 (328)
T PRK11303 134 YQRLQNDGLPIIALDRALDREHFTSVVSDDQDDAEMLAESLLKFP 178 (328)
T ss_pred HHHHHhcCCCEEEECCCCCCCCCCEEEeCCHHHHHHHHHHHHHCC
Confidence 5666778999998732 11 33456667777888888875
No 206
>PRK14648 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=31.77 E-value=50 Score=25.42 Aligned_cols=20 Identities=30% Similarity=0.614 Sum_probs=15.9
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
.++++|++.++|+. ++|||-
T Consensus 44 ~~l~~~~~~~~p~~-iLG~GS 63 (354)
T PRK14648 44 ALIEEAQRARIPLS-LIGGGS 63 (354)
T ss_pred HHHHHHHHcCCCEE-EEecee
Confidence 35689999999976 678874
No 207
>cd05006 SIS_GmhA Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of gram-negative bacteria inner core lipopolysaccharide precursor, L-glycero-D-mannoheptose (Gmh).
Probab=31.73 E-value=62 Score=21.11 Aligned_cols=21 Identities=24% Similarity=0.256 Sum_probs=17.4
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
.-.++.|+++|+|++++.+..
T Consensus 118 i~~~~~ak~~Ga~vI~IT~~~ 138 (177)
T cd05006 118 LKALEAAKERGMKTIALTGRD 138 (177)
T ss_pred HHHHHHHHHCCCEEEEEeCCC
Confidence 356788999999999998764
No 208
>PRK13925 rnhB ribonuclease HII; Provisional
Probab=31.71 E-value=83 Score=21.98 Aligned_cols=44 Identities=20% Similarity=0.167 Sum_probs=33.7
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccch
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
..+|.....++.+=|.+ ||+++-+..++..-. -+-..-||.++.
T Consensus 126 ~kaD~~~~~VaAASIiAKV~RD~~m~~l~~~yp~y-~f~~~kGY~t~~ 172 (198)
T PRK13925 126 VKGDSKSAAIAAASILAKVWRDDLIKRLAKKYPGY-GLEKNKGYGTAQ 172 (198)
T ss_pred cccccccHHHHHHHHHHHHHHHHHHHHHHHHCCCC-CcccCCCCCcHH
Confidence 45778888899999999 999998887764433 456678997654
No 209
>PRK04123 ribulokinase; Provisional
Probab=31.60 E-value=1e+02 Score=23.93 Aligned_cols=33 Identities=15% Similarity=0.120 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCE--EEEecCCCccc
Q psy8530 16 HLGIIRRDELVFMKARERRVPI--VMLTSGGYLKQ 48 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPv--a~v~gGGY~~d 48 (68)
.||+.-.-+.+++..++.++|+ ..+.|||.+++
T Consensus 418 lEgia~~~~~~~e~l~~~g~~~~~i~~~GGg~s~s 452 (548)
T PRK04123 418 IEATAFGTRAIMECFEDQGVPVEEVIAAGGIARKN 452 (548)
T ss_pred HHHHHHHHHHHHHHHHHcCCCcceEEEeCCCcccC
Confidence 5788888888999998887765 45557774555
No 210
>PF13580 SIS_2: SIS domain; PDB: 1TK9_C 2I22_B 2I2W_A 1X92_A 3BJZ_D 2XBL_B 2X3Y_F 2YVA_B 3CVJ_D 3TRJ_D ....
Probab=31.58 E-value=46 Score=21.15 Aligned_cols=17 Identities=29% Similarity=0.448 Sum_probs=13.4
Q ss_pred HHHHHHhCCCCEEEEec
Q psy8530 26 VFMKARERRVPIVMLTS 42 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g 42 (68)
..++|+++|.+|+++.|
T Consensus 122 a~~~Ak~~G~~vIalTg 138 (138)
T PF13580_consen 122 AAEEAKERGMKVIALTG 138 (138)
T ss_dssp HHHHHHHTT-EEEEEEE
T ss_pred HHHHHHHCCCEEEEEeC
Confidence 56788999999998875
No 211
>cd00598 GH18_chitinase-like The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have been identified in viruses, bacteria, fungi, protozoan parasites, insects, and plants. The structure of the GH18 domain is an eight-stranded beta/alpha barrel with a pronounced active-site cleft at the C-terminal end of the beta-barrel. The GH18 family includes chitotriosidase, chitobiase, hevamine, zymocin-alpha, narbonin, SI-CLP (stabilin-1 interacting chitinase-like protein), IDGF (imaginal disc growth factor), CFLE (cortical fragment-lytic enzyme) spore hydrolase, the type III and type V plant chitinases, the endo-beta-N-acetylglucosaminidases, and the chitolectins. The GH85 (glycosyl hydrolase, family 85) ENGases (endo-beta-N-acetylglucosaminidases) are closely related to the GH18 chitinases and are inclu
Probab=31.56 E-value=1.5e+02 Score=19.25 Aligned_cols=40 Identities=8% Similarity=0.066 Sum_probs=23.8
Q ss_pred HHHHHHhC--CCCEEEEecCCCccch---------HHHHHHHHHhHHHcCC
Q psy8530 26 VFMKARER--RVPIVMLTSGGYLKQT---------ARIIADSILNLADLGL 65 (68)
Q Consensus 26 V~~~a~~~--~IPva~v~gGGY~~d~---------~~~v~~si~~l~~~~~ 65 (68)
-++.++++ ++.|...+||...... .+....++.++.++..
T Consensus 54 ~i~~l~~~~~g~kv~~sigg~~~~~~~~~~~~~~~~~~f~~~~~~~v~~~~ 104 (210)
T cd00598 54 ALEELASKKPGLKVLISIGGWTDSSPFTLASDPASRAAFANSLVSFLKTYG 104 (210)
T ss_pred HHHHHHHhCCCCEEEEEEcCCCCCCCchhhcCHHHHHHHHHHHHHHHHHcC
Confidence 34455555 9999999987554331 2234456666666543
No 212
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.51 E-value=1.3e+02 Score=20.00 Aligned_cols=40 Identities=25% Similarity=0.304 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCCEEEEecC---C---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSG---G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG---G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
..++.+++++||++.+-.. . ...|.........++|.++|
T Consensus 70 ~~~~~~~~~~ipvV~i~~~~~~~~~~V~~d~~~~g~~a~~~l~~~G 115 (269)
T cd06281 70 ELVDALASLDLPIVLLDRDMGGGADAVLFDHAAGMRQAVEYLISLG 115 (269)
T ss_pred HHHHHHHhCCCCEEEEecccCCCCCEEEECcHHHHHHHHHHHHHCC
Confidence 4567788899999987432 1 12245556677777887765
No 213
>cd01523 RHOD_Lact_B Member of the Rhodanese Homology Domain superfamily. This CD includes predicted proteins with rhodanese-like domains found N-terminal of the metallo-beta-lactamase domain.
Probab=31.41 E-value=57 Score=18.97 Aligned_cols=14 Identities=0% Similarity=-0.057 Sum_probs=7.1
Q ss_pred CCCCEEEEecCCCc
Q psy8530 33 RRVPIVMLTSGGYL 46 (68)
Q Consensus 33 ~~IPva~v~gGGY~ 46 (68)
.+-|++++-..|..
T Consensus 60 ~~~~ivv~C~~G~r 73 (100)
T cd01523 60 DDQEVTVICAKEGS 73 (100)
T ss_pred CCCeEEEEcCCCCc
Confidence 34455555555544
No 214
>PF13241 NAD_binding_7: Putative NAD(P)-binding; PDB: 3DFZ_B 1PJT_A 1PJS_A 1PJQ_A 1KYQ_B.
Probab=31.34 E-value=45 Score=20.18 Aligned_cols=22 Identities=18% Similarity=0.309 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHhCCCCEEEE
Q psy8530 19 IIRRDELVFMKARERRVPIVML 40 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v 40 (68)
-.+=++.+.+.|++++||+-++
T Consensus 70 d~~~n~~i~~~a~~~~i~vn~~ 91 (103)
T PF13241_consen 70 DPELNEAIYADARARGILVNVV 91 (103)
T ss_dssp -HHHHHHHHHHHHHTTSEEEET
T ss_pred CHHHHHHHHHHHhhCCEEEEEC
Confidence 3455688999999999999764
No 215
>PRK09732 hypothetical protein; Provisional
Probab=31.28 E-value=1.6e+02 Score=19.47 Aligned_cols=32 Identities=9% Similarity=-0.050 Sum_probs=21.7
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe--cCCC
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT--SGGY 45 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY 45 (68)
||.+--.+==...++.|++.|+|++..+ .||.
T Consensus 7 Ltl~~A~~~~~aA~~~A~~~g~~v~iaVvD~~G~ 40 (134)
T PRK09732 7 LSQQMASAIIAAGQEEAQKNNWSVSIAVADDGGH 40 (134)
T ss_pred CCHHHHHHHHHHHHHHHHHhCCCEEEEEEcCCCC
Confidence 4444433334557889999999998655 6775
No 216
>cd05009 SIS_GlmS_GlmD_2 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=31.27 E-value=63 Score=19.86 Aligned_cols=33 Identities=12% Similarity=0.171 Sum_probs=24.4
Q ss_pred cCCHHHH-HHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 13 LEDHLGI-IRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 13 ~lS~~Gi-~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
-+|..|= .++...+++.+++.+.|+.++.+.+.
T Consensus 67 ~is~~g~t~~~~~~~~~~~~~~~~~vi~it~~~~ 100 (153)
T cd05009 67 FLAPEDRLEEKLESLIKEVKARGAKVIVITDDGD 100 (153)
T ss_pred EEecCChhHHHHHHHHHHHHHcCCEEEEEecCCc
Confidence 3454552 34567789999999999999987654
No 217
>PF14792 DNA_pol_B_palm: DNA polymerase beta palm ; PDB: 1RZT_A 3PML_A 2PFN_A 3HX0_K 3HWT_A 2GWS_E 2BCQ_A 3UPQ_A 2BCS_A 3UQ2_A ....
Probab=31.27 E-value=39 Score=21.30 Aligned_cols=44 Identities=16% Similarity=0.256 Sum_probs=28.8
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccc----------------------hHHHHHHHHHhHHHcCCcC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQ----------------------TARIIADSILNLADLGLIS 67 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d----------------------~~~~v~~si~~l~~~~~~~ 67 (68)
.+|.+.+++..==.-+.+.|||.+. ...+...-+..|.++++|.
T Consensus 12 ~~V~~~~~~i~p~~~v~i~GSyRRGK~~~gDiDiLIt~~~~~~~~~~~~~~l~~lv~~L~~~g~i~ 77 (112)
T PF14792_consen 12 EIVKEALEKIDPGLEVEICGSYRRGKETSGDIDILITHPDPSSVSKKLEGLLEKLVKRLEEKGFIT 77 (112)
T ss_dssp HHHHHHHHCCSTT-EEEEEHHHHTT-SEESSEEEEEEETTCSTTTCSTTCHHHHHHHHHHHTTSEE
T ss_pred HHHHHHHHhcCCCcEEEEccccccCCCcCCCeEEEEeCCCcCcchhhHHHHHHHHHHHHHhCCeEE
Confidence 4555655544333457779999765 2457888888888888763
No 218
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=31.14 E-value=1.1e+02 Score=20.15 Aligned_cols=38 Identities=13% Similarity=0.156 Sum_probs=25.8
Q ss_pred HHHHHhCCCCEEEEecC----C---CccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTSG----G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gG----G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
++.+++.++|++++-.. . ...|.........++|.++|
T Consensus 71 ~~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g 115 (264)
T cd06274 71 YYLCQKAGLPVVALDRPGDPSRFPSVVSDNRDGAAELTRELLAAP 115 (264)
T ss_pred HHHHHhcCCCEEEecCccCCCCCCEEEEccHHHHHHHHHHHHHCC
Confidence 67788899999988432 1 13345666677778887765
No 219
>COG1180 PflA Pyruvate-formate lyase-activating enzyme [Posttranslational modification, protein turnover, chaperones]
Probab=31.11 E-value=1e+02 Score=22.14 Aligned_cols=27 Identities=19% Similarity=0.162 Sum_probs=22.8
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
.-+++.|++.|+++++...|-+.++..
T Consensus 102 ~~~~~~ake~Gl~~~l~TnG~~~~~~~ 128 (260)
T COG1180 102 LDLLRAAKERGLHVALDTNGFLPPEAL 128 (260)
T ss_pred HHHHHHHHHCCCcEEEEcCCCCCHHHH
Confidence 347889999999999999998877665
No 220
>cd01013 isochorismatase Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological systems. Isochorismatase is part of the phenazine biosynthesis pathway. Phenazines are antimicrobial compounds that provide the competitive advantage for certain bacteria.
Probab=31.02 E-value=97 Score=20.95 Aligned_cols=26 Identities=15% Similarity=0.116 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+.++=..+++.|++.|+||..+-
T Consensus 52 ~~~~~~~i~~li~~ar~~g~pVi~t~ 77 (203)
T cd01013 52 VPQLIANIARLRDWCRQAGIPVVYTA 77 (203)
T ss_pred HHHHHHHHHHHHHHHHHcCCCEEEEe
Confidence 46688888899999999999999886
No 221
>PF01248 Ribosomal_L7Ae: Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; InterPro: IPR004038 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This family includes: Ribosomal L7A from metazoa, Ribosomal L8-A and L8-B from fungi, 30S ribosomal protein HS6 from archaebacteria, 40S ribosomal protein S12 from eukaryotes, ribosomal protein L30 from eukaryotes and archaebacteria, Gadd45 and MyD118 [].; PDB: 2CZW_A 3V7E_B 2QEX_F 1YJ9_F 1VQ8_F 1YJN_F 3I56_F 1VQ6_F 2OTJ_F 1YIJ_F ....
Probab=30.91 E-value=62 Score=19.06 Aligned_cols=17 Identities=18% Similarity=0.348 Sum_probs=14.5
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
.+-..|++++||+..+.
T Consensus 49 ~l~~~c~~~~Ip~~~~~ 65 (95)
T PF01248_consen 49 HLPALCEEKNIPYVFVP 65 (95)
T ss_dssp HHHHHHHHTTEEEEEES
T ss_pred cchhheeccceeEEEEC
Confidence 67789999999998765
No 222
>TIGR00629 uvde UV damage endonuclease UvdE. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=30.88 E-value=1.2e+02 Score=22.85 Aligned_cols=25 Identities=20% Similarity=0.259 Sum_probs=17.4
Q ss_pred EEEe-cCCCccchHHHHHHHHHhHHH
Q psy8530 38 VMLT-SGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 38 a~v~-gGGY~~d~~~~v~~si~~l~~ 62 (68)
.+|+ .|||..+-+...++-+.|+.+
T Consensus 156 ~iviH~Gg~~gdk~~alerf~~n~~~ 181 (312)
T TIGR00629 156 VIIIHIGGAFGNKDTTLARFHQNYKR 181 (312)
T ss_pred eEEEccCcCCCCHHHHHHHHHHHHHH
Confidence 4444 444447888889998888864
No 223
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=30.87 E-value=61 Score=20.32 Aligned_cols=26 Identities=23% Similarity=0.298 Sum_probs=17.8
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-+++.++++|+|++.+ +||...-.+.
T Consensus 80 ~~l~~l~~~g~~~~iv-S~~~~~~i~~ 105 (177)
T TIGR01488 80 ELISWLKERGIDTVIV-SGGFDFFVEP 105 (177)
T ss_pred HHHHHHHHCCCEEEEE-CCCcHHHHHH
Confidence 3678889999997755 6666543333
No 224
>COG1535 EntB Isochorismate hydrolase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=30.81 E-value=1.4e+02 Score=21.82 Aligned_cols=33 Identities=12% Similarity=0.138 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
.+++.+-=+..-.+|+++||||+.+--=|=+.+
T Consensus 53 ~~~li~Ni~~Lr~~~~~~giPVvyTaqp~~qs~ 85 (218)
T COG1535 53 MEQLIANIAKLRIWCKQAGIPVVYTAQPGEQSP 85 (218)
T ss_pred HHHHHHHHHHHHHHHHHcCCcEEEEecCCcCCH
Confidence 456666666777899999999998876554443
No 225
>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=30.78 E-value=1.3e+02 Score=19.92 Aligned_cols=38 Identities=21% Similarity=0.377 Sum_probs=25.5
Q ss_pred HHHHHhCCCCEEEEecC--C------CccchHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTSG--G------YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gG--G------Y~~d~~~~v~~si~~l~~~~ 64 (68)
++.+.+.++|++++-.- + ...|.........+.|.++|
T Consensus 76 i~~~~~~~ipvV~i~~~~~~~~~~~~V~~d~~~~~~~~~~~l~~~g 121 (273)
T cd06292 76 YERLAERGLPVVLVNGRAPPPLKVPHVSTDDALAMRLAVRHLVALG 121 (273)
T ss_pred HHHHHhCCCCEEEEcCCCCCCCCCCEEEECcHHHHHHHHHHHHHCC
Confidence 57778899999987421 1 12345666777778887775
No 226
>TIGR00045 glycerate kinase. The only characterized member of this family so far is the glycerate kinase GlxK (EC 2.7.1.31) of E. coli. This enzyme acts after glyoxylate carboligase and 2-hydroxy-3-oxopropionate reductase (tartronate semialdehyde reductase) in the conversion of glyoxylate to 3-phosphoglycerate (the D-glycerate pathway) as a part of allantoin degradation.
Probab=30.71 E-value=44 Score=25.77 Aligned_cols=18 Identities=22% Similarity=0.405 Sum_probs=14.6
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
-|.+.|+++++|++++-|
T Consensus 306 ~Va~~A~~~~vPviai~G 323 (375)
T TIGR00045 306 GVAKRAKKYGVPVIAIAG 323 (375)
T ss_pred HHHHHHHHhCCeEEEEec
Confidence 478899999999887643
No 227
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=30.57 E-value=55 Score=21.29 Aligned_cols=31 Identities=19% Similarity=0.079 Sum_probs=21.2
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+|.-|--+-=..+++.|+++|+|++++.+-.
T Consensus 79 iS~sG~t~~~i~~~~~ak~~g~~ii~IT~~~ 109 (179)
T TIGR03127 79 ISGSGETESLVTVAKKAKEIGATVAAITTNP 109 (179)
T ss_pred EeCCCCcHHHHHHHHHHHHCCCeEEEEECCC
Confidence 3333433334567888999999999988643
No 228
>PF13263 PHP_C: PHP-associated; PDB: 2Z4G_B 2YXO_B 2YZ5_A 3DCP_B.
Probab=30.56 E-value=57 Score=17.97 Aligned_cols=18 Identities=11% Similarity=0.032 Sum_probs=11.5
Q ss_pred HHHHHHHHHHhCCCCEEE
Q psy8530 22 RDELVFMKARERRVPIVM 39 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~ 39 (68)
.++...++|+++++|...
T Consensus 3 ~N~~A~~~A~~~~lp~~~ 20 (56)
T PF13263_consen 3 ANRRAAELAEKYGLPFTG 20 (56)
T ss_dssp ---HHHHHHHHTT--EEE
T ss_pred HHHHHHHHHHHcCCCeEe
Confidence 457788999999999875
No 229
>PRK13488 chemoreceptor glutamine deamidase CheD; Provisional
Probab=30.55 E-value=75 Score=21.51 Aligned_cols=31 Identities=23% Similarity=0.243 Sum_probs=22.7
Q ss_pred HHHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 18 GIIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 18 Gi~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
.|-+|. +++.++.++++||++.- +||=|++.
T Consensus 103 ~IG~rNi~~a~~~L~~~gi~i~a~dvGG~~gR~ 135 (157)
T PRK13488 103 NIGERNIESAKETLKKLGIRIVAEDVGGDYGRT 135 (157)
T ss_pred ChHHHHHHHHHHHHHHCCCcEEEEEcCCCCCcE
Confidence 355666 57888999999999965 47666654
No 230
>PF01565 FAD_binding_4: FAD binding domain This is only a subset of the Pfam family; InterPro: IPR006094 Various enzymes use FAD as a co-factor, most of these enzymes are oxygen-dependent oxidoreductases, containing a covalently bound FAD group which is attached to a histidine via an 8-alpha-(N3-histidyl)-riboflavin linkage. One of the enzymes Vanillyl-alcohol oxidase (VAO, 1.1.3.38 from EC) has a solved structure, the alignment includes the FAD binding site, called the PP-loop, between residues 99-110 []. The FAD molecule is covalently bound in the known structure, however the residue that links to the FAD is not in the alignment. VAO catalyses the oxidation of a wide variety of substrates, ranging from aromatic amines to 4-alkylphenols. ; GO: 0008762 UDP-N-acetylmuramate dehydrogenase activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZR6_A 3HSU_A 2AXR_A 3D2J_A 3D2H_A 3FW9_A 3FW8_A 3FW7_A 3GSY_A 3FWA_A ....
Probab=30.54 E-value=64 Score=19.87 Aligned_cols=19 Identities=26% Similarity=0.357 Sum_probs=15.2
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
.++++|+++++|+.+.-+|
T Consensus 15 ~~v~~a~~~~~~v~~~g~G 33 (139)
T PF01565_consen 15 AIVKFANENGVPVRVRGGG 33 (139)
T ss_dssp HHHHHHHHTTSEEEEESSS
T ss_pred HHHHHHHHcCCcEEEEcCC
Confidence 4789999999999876543
No 231
>PF01820 Dala_Dala_lig_N: D-ala D-ala ligase N-terminus; InterPro: IPR011127 This entry represents the N-terminal region of the D-alanine--D-alanine ligase enzyme (6.3.2.4 from EC) which is thought to be involved in substrate binding []. D-Alanine is one of the central molecules of the cross-linking step of peptidoglycan assembly. There are three enzymes involved in the D-alanine branch of peptidoglycan biosynthesis: the pyridoxal phosphate-dependent D-alanine racemase (Alr), the ATP-dependent D-alanine:D-alanine ligase (Ddl), and the ATP-dependent D-alanine:D-alanine-adding enzyme (MurF) [].; GO: 0008716 D-alanine-D-alanine ligase activity, 0009252 peptidoglycan biosynthetic process, 0005618 cell wall; PDB: 4EG0_B 3E5N_A 3RFC_A 3R5F_A 1IOV_A 1IOW_A 2DLN_A 3Q1K_D 3I12_C 3N8D_B ....
Probab=30.51 E-value=78 Score=19.85 Aligned_cols=23 Identities=22% Similarity=0.199 Sum_probs=14.8
Q ss_pred EEEecCCCccchHHHHHHHHHhHH
Q psy8530 38 VMLTSGGYLKQTARIIADSILNLA 61 (68)
Q Consensus 38 a~v~gGGY~~d~~~~v~~si~~l~ 61 (68)
++|+=||++.+++ +.-.|-.+..
T Consensus 3 v~vlfGG~S~Ehe-VSl~Sa~~v~ 25 (117)
T PF01820_consen 3 VAVLFGGRSSEHE-VSLRSARNVY 25 (117)
T ss_dssp EEEEEETSSTTHH-HHHHHHHHHH
T ss_pred EEEEeccCchhHH-HHHHHHHHHH
Confidence 5678899999876 3333444433
No 232
>PF03975 CheD: CheD chemotactic sensory transduction; InterPro: IPR005659 CheD deamidates glutamine residues to glutamate on methyl-accepting chemotaxis receptors (MCPs). CheD-mediated MCP deamidation is required for productive communication of the conformational signals of the chemoreceptors to the cheA kinase []. CheC is a CheY-P phosphatase (CheY controls flagellar rotation and is activated by phosphorylation). The activity of CheC is enhanced by its interaction with CheD, forming a CheC-CheD heterodimer. It is suggested that CheC exerts its effect on MCP methylation in Bacillus subtilis by controlling the binding of CheD to the MCPs [].; GO: 0050568 protein-glutamine glutaminase activity, 0006935 chemotaxis; PDB: 2F9Z_D.
Probab=30.36 E-value=72 Score=20.06 Aligned_cols=22 Identities=32% Similarity=0.332 Sum_probs=14.9
Q ss_pred HHHHHHHHhCCCCEEEEecCCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY 45 (68)
+++.++.++++|||+.-==||+
T Consensus 67 ~~a~~~L~~~gi~I~a~dvGG~ 88 (114)
T PF03975_consen 67 EAARELLAEEGIPIVAEDVGGN 88 (114)
T ss_dssp HHHHHHHHHTT--EEEEEE-SS
T ss_pred HHHHHHHHHCCCcEEEeeCCCC
Confidence 5788999999999997664444
No 233
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=30.34 E-value=65 Score=21.09 Aligned_cols=20 Identities=25% Similarity=0.292 Sum_probs=15.4
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.++++|+|++.+.++.
T Consensus 101 ~~L~~L~~~g~~~~i~Tn~~ 120 (221)
T TIGR02253 101 DTLMELRESGYRLGIITDGL 120 (221)
T ss_pred HHHHHHHHCCCEEEEEeCCc
Confidence 37788889999977776654
No 234
>PRK09932 glycerate kinase II; Provisional
Probab=30.32 E-value=49 Score=25.65 Aligned_cols=23 Identities=22% Similarity=0.190 Sum_probs=16.2
Q ss_pred HHHHHHHhCCCCEEEEecCCCccc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
-|.+.|+++++||+++- |-...+
T Consensus 307 ~Va~~A~~~~~Pvi~i~-G~~~~~ 329 (381)
T PRK09932 307 GVASVAKQFNVPVIGIA-GVLGDG 329 (381)
T ss_pred HHHHHHHHcCCCEEEEe-cccCCC
Confidence 36788999999987754 444433
No 235
>cd06254 M14_ASTE_ASPA_like_4 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=30.29 E-value=1.7e+02 Score=20.96 Aligned_cols=42 Identities=24% Similarity=0.418 Sum_probs=29.3
Q ss_pred HHHHHHHhCCCCEEEEecCC---CccchHHHHHHHHHhHHHc-CCc
Q psy8530 25 LVFMKARERRVPIVMLTSGG---YLKQTARIIADSILNLADL-GLI 66 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG---Y~~d~~~~v~~si~~l~~~-~~~ 66 (68)
....++.+.++|-.++=.|| +..+..+...++|.|+.+. |.|
T Consensus 161 ~~~~~a~~~G~~a~tiE~G~~~~~~~~~~~~~~~gi~~~L~~lg~l 206 (288)
T cd06254 161 GSYNYAATRGIPAILLERGGLGTCDAEDVEAYKDDIYNVLRHLGML 206 (288)
T ss_pred cHHHHHHHcCCcEEEEECCCCCCCCHHHHHHHHHHHHHHHHHcCCc
Confidence 44556778899988887666 5566666677788886654 444
No 236
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=30.26 E-value=50 Score=22.01 Aligned_cols=38 Identities=16% Similarity=0.102 Sum_probs=23.5
Q ss_pred HHHHHHhCCCCEEEEecC----CC-----ccchHHHHHHHHHhHHHc
Q psy8530 26 VFMKARERRVPIVMLTSG----GY-----LKQTARIIADSILNLADL 63 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG----GY-----~~d~~~~v~~si~~l~~~ 63 (68)
.++.+++.+|||+.+-.+ +. ..|.........+.|.++
T Consensus 77 ~i~~~~~~gIpvV~~d~~~~~~~~~~~~V~~d~~~~g~~aa~~l~~~ 123 (274)
T cd06311 77 PVAKAKKAGIFVVVVDRGLSSPGAQDLYVAGDNYGMGRVAGEYIATK 123 (274)
T ss_pred HHHHHHHCCCeEEEEcCCCCCCcccceEEcCCcHHHHHHHHHHHHHH
Confidence 468888999999986432 11 224444555566666665
No 237
>PRK02947 hypothetical protein; Provisional
Probab=30.24 E-value=70 Score=22.56 Aligned_cols=23 Identities=26% Similarity=0.342 Sum_probs=19.3
Q ss_pred HHHHHHHHhCCCCEEEEecCCCc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
..+++.|+++|+|++++.+-.++
T Consensus 123 i~~~~~a~~~g~~vI~iT~~~~s 145 (246)
T PRK02947 123 IEMALEAKERGAKVIAVTSLAYS 145 (246)
T ss_pred HHHHHHHHHCCCEEEEEcCCccc
Confidence 34688999999999999987763
No 238
>PRK09697 protein secretion protein GspB; Provisional
Probab=30.15 E-value=17 Score=24.59 Aligned_cols=38 Identities=26% Similarity=0.216 Sum_probs=24.2
Q ss_pred CCHHHHHHHHH-----HHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 14 EDHLGIIRRDE-----LVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 14 lS~~Gi~~RD~-----~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
++.+||+.|-. +|+..|.=.=---.|++=|||.++.+-
T Consensus 14 ~~~~~~~~~~~~~TI~~Vi~L~~~~L~~AG~~~~GGYA~Qlwv 56 (139)
T PRK09697 14 TGHPGIFSRQKHSTIIYVICLLLICLWFAGMVLVGGYARQLWV 56 (139)
T ss_pred ccCcchhhhhhccchHHHHHHHHHHHHHhcceeechhHHHHHH
Confidence 45566666653 566665443333458888999988653
No 239
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=30.14 E-value=41 Score=22.29 Aligned_cols=27 Identities=15% Similarity=0.215 Sum_probs=21.8
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
..+-+-+++.++++|||++.+.|--|.
T Consensus 18 ~~~~~~~l~~l~~~gi~~~i~TgR~~~ 44 (221)
T TIGR02463 18 WQPAAPWLTRLQEAGIPVILCTSKTAA 44 (221)
T ss_pred cHHHHHHHHHHHHCCCeEEEEcCCCHH
Confidence 344567888999999999999987773
No 240
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=30.02 E-value=25 Score=21.60 Aligned_cols=26 Identities=23% Similarity=0.220 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
+.+.|+++++.+++|..-+..-||.+
T Consensus 146 ~~~di~~~~~~~~l~~~~ly~~g~~~ 171 (173)
T cd01713 146 TYEDVWAYLARHGLPYNPLYDQGYRS 171 (173)
T ss_pred CHHHHHHHHHHcCCCCCHHHHcCCCC
Confidence 45678999999999999888888864
No 241
>PF13611 Peptidase_S76: Serine peptidase of plant viral polyprotein, P1
Probab=29.99 E-value=69 Score=21.35 Aligned_cols=21 Identities=24% Similarity=0.260 Sum_probs=16.7
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
+.|.+.|.++|||+-.+=+|+
T Consensus 40 ~~~~~ic~ergiPIe~I~~~k 60 (121)
T PF13611_consen 40 REVTEICCERGIPIEIIDKKK 60 (121)
T ss_pred HHHHHHHHHcCCCEEEecCcc
Confidence 457889999999998875554
No 242
>COG0420 SbcD DNA repair exonuclease [DNA replication, recombination, and repair]
Probab=29.98 E-value=84 Score=23.15 Aligned_cols=38 Identities=13% Similarity=0.177 Sum_probs=25.2
Q ss_pred CCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEec
Q psy8530 4 TWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 4 ~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~g 42 (68)
+++||=+ .-+.|..-+.+=-++ |+.+++.+|||.++-|
T Consensus 45 liAGDlFd~~~Ps~~a~~~~~~~-l~~l~~~~Ipv~~I~G 83 (390)
T COG0420 45 LIAGDLFDTNNPSPRALKLFLEA-LRRLKDAGIPVVVIAG 83 (390)
T ss_pred EEccccccCCCCCHHHHHHHHHH-HHHhccCCCcEEEecC
Confidence 4778888 877777776544333 3344447899987765
No 243
>PF12787 EcsC: EcsC protein family; InterPro: IPR024787 Proteins in this family are related to EcsC from Bacillus subtilis. This protein is found in an operon with EcsA and EcsB which are components of an ABC transport system []. The function of this protein is unknown.
Probab=29.88 E-value=14 Score=25.86 Aligned_cols=31 Identities=6% Similarity=0.115 Sum_probs=20.8
Q ss_pred CCCCEEEEe-cCCCccchHHHHHHHHHhHHHc
Q psy8530 33 RRVPIVMLT-SGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 33 ~~IPva~v~-gGGY~~d~~~~v~~si~~l~~~ 63 (68)
..||++.+. ||+|+--..+-+..--.+.+++
T Consensus 215 q~iPviG~~vGa~~N~~~~~~v~~~A~~~f~~ 246 (249)
T PF12787_consen 215 QAIPVIGAVVGAGANYAFTKHVGETARRHFRK 246 (249)
T ss_pred hhccHHHHHHHHHHhHHHHHHHHHHHHHHHHh
Confidence 799999544 8888776666666655554443
No 244
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=29.83 E-value=75 Score=19.98 Aligned_cols=26 Identities=8% Similarity=0.072 Sum_probs=17.6
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHH
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTAR 51 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~ 51 (68)
-+++.++++|+|++.+. +|.....+.
T Consensus 79 ~ll~~l~~~g~~~~i~S-~~~~~~~~~ 104 (188)
T TIGR01489 79 EFIAFIKEHGIDFIVIS-DGNDFFIDP 104 (188)
T ss_pred HHHHHHHHcCCcEEEEe-CCcHHHHHH
Confidence 37788999999998554 454443343
No 245
>cd02877 GH18_hevamine_XipI_class_III This conserved domain family includes xylanase inhibitor Xip-I, and the class III plant chitinases such as hevamine, concanavalin B, and PPL2, all of which have a glycosyl hydrolase family 18 (GH18) domain. Hevamine is a class III endochitinase that hydrolyzes the linear polysaccharide chains of chitin and peptidoglycan and is important for defense against pathogenic bacteria and fungi. PPL2 (Parkia platycephala lectin 2) is a class III chitinase from Parkia platycephala seeds that hydrolyzes beta(1-4) glycosidic bonds linking 2-acetoamido-2-deoxy-beta-D-glucopyranose units in chitin.
Probab=29.76 E-value=1.3e+02 Score=21.93 Aligned_cols=19 Identities=5% Similarity=0.183 Sum_probs=16.2
Q ss_pred HHHHHhCCCCEEEEecCCC
Q psy8530 27 FMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY 45 (68)
++.|+++++.|...+||..
T Consensus 65 I~~cq~~G~KVlLSIGG~~ 83 (280)
T cd02877 65 IKHCQSKGKKVLLSIGGAG 83 (280)
T ss_pred HHHHHHCCCEEEEEccCCC
Confidence 4689999999999999844
No 246
>PRK11609 nicotinamidase/pyrazinamidase; Provisional
Probab=29.73 E-value=94 Score=20.90 Aligned_cols=26 Identities=12% Similarity=0.141 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+..+=..+++.|+++++||+.+-
T Consensus 25 ~~~~v~~i~~l~~~ar~~g~pVi~~~ 50 (212)
T PRK11609 25 GDSTIDVANRLIDWCQSRGIPVIASQ 50 (212)
T ss_pred HHHHHHHHHHHHHHHHhcCCeEEEEe
Confidence 45667777888999999999999875
No 247
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=29.69 E-value=99 Score=19.30 Aligned_cols=29 Identities=3% Similarity=-0.016 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 19 IIRRDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
++..=+-+++.++++|+|++.+.++....
T Consensus 30 ~~~gv~e~L~~Lk~~g~~l~i~Sn~~~~~ 58 (128)
T TIGR01681 30 TIKEIRDKLQTLKKNGFLLALASYNDDPH 58 (128)
T ss_pred HHHHHHHHHHHHHHCCeEEEEEeCCCCHH
Confidence 55666779999999999999777654543
No 248
>PRK14551 rnhB ribonuclease HII; Provisional
Probab=29.68 E-value=1.5e+02 Score=20.85 Aligned_cols=41 Identities=27% Similarity=0.238 Sum_probs=31.1
Q ss_pred CCCCcccccCCHHHHHH---HHHHHHHHHHhCCCCEEEEecCCCccchH
Q psy8530 5 WMGDQVDMLEDHLGIIR---RDELVFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 5 ~~~D~L~L~lS~~Gi~~---RD~~V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
+.+|...+.++.+-|.+ ||+.+-+.-++.+ -+|-||..|..
T Consensus 128 ~KaD~~~~~VAAASIlAKv~RD~~m~~l~~~y~-----~~GsGYpsd~~ 171 (212)
T PRK14551 128 HGADEEDPLVGAASIVAKVARDAHVAALAAEYG-----DVGSGYPSDPT 171 (212)
T ss_pred ecccchhHHHHHHHHHHHHHHHHHHHHHHHHCC-----CCCCcCCCcHH
Confidence 45677777888888765 7888888887775 36899987764
No 249
>cd01015 CSHase N-carbamoylsarcosine amidohydrolase (CSHase) hydrolyzes N-carbamoylsarcosine to sarcosine, carbon dioxide and ammonia. CSHase is involved in one of the two alternative pathways for creatinine degradation to glycine in microorganisms.This CSHase-containing pathway degrades creatinine via N-methylhydantoin N-carbamoylsarcosine and sarcosine to glycine. Enzymes of this pathway are used in the diagnosis for renal disfunction, for determining creatinine levels in urine and serum.
Probab=29.68 E-value=1.2e+02 Score=19.83 Aligned_cols=26 Identities=19% Similarity=0.280 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+.+.+.=..+++.|+++++||+.+.
T Consensus 22 ~~~~~~ni~~l~~~ar~~~~~Vi~~~ 47 (179)
T cd01015 22 IAAALENVQRLLAAARAAGVPVIHTT 47 (179)
T ss_pred hHHHHHHHHHHHHHHHHcCCCEEEEE
Confidence 46677778889999999999999886
No 250
>PRK15409 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional
Probab=29.52 E-value=71 Score=23.60 Aligned_cols=39 Identities=13% Similarity=0.138 Sum_probs=25.7
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|+++||||+-+ .|.++...++.+-..|..+..
T Consensus 78 d~id~~~~~~~gI~V~n~-~~~~~~~VAE~~~~l~L~~~R 116 (323)
T PRK15409 78 DNFDVDALTARKILLMHT-PTVLTETVADTLMALVLSTAR 116 (323)
T ss_pred ccccHHHHHHCCCEEEeC-CCCCchHHHHHHHHHHHHHHc
Confidence 455678899999998765 455666666665555555544
No 251
>TIGR01117 mmdA methylmalonyl-CoA decarboxylase alpha subunit. This model describes methymalonyl-CoA decarboxylase aplha subunit in archaea and bacteria. Metylmalonyl-CoA decarboxylase Na+ pump is a representative of a class of Na+ transport decarboxylases that couples the energy derived by decarboxylation of carboxylic acid substrates to drive the extrusion of Na+ ion across the membrane.
Probab=29.51 E-value=81 Score=25.07 Aligned_cols=26 Identities=19% Similarity=0.217 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhCCCCEEEEe--cCCCc
Q psy8530 21 RRDELVFMKARERRVPIVMLT--SGGYL 46 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~--gGGY~ 46 (68)
++=...++.|.++++|++.+. ||+..
T Consensus 104 ~K~~r~~e~A~~~~lPlV~l~dSgGarm 131 (512)
T TIGR01117 104 AKIVKIMDLAMKMGAPVVGLNDSGGARI 131 (512)
T ss_pred HHHHHHHHHHHHcCCCEEEEecCCCCCc
Confidence 444567899999999999988 45543
No 252
>cd00838 MPP_superfamily metallophosphatase superfamily, metallophosphatase domain. Metallophosphatases (MPPs), also known as metallophosphoesterases, phosphodiesterases (PDEs), binuclear metallophosphoesterases, and dimetal-containing phosphoesterases (DMPs), represent a diverse superfamily of enzymes with a conserved domain containing an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. This superfamily includes: the phosphoprotein phosphatases (PPPs), Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive me
Probab=29.51 E-value=1.1e+02 Score=17.23 Aligned_cols=16 Identities=6% Similarity=0.135 Sum_probs=8.3
Q ss_pred HHHHHhCCCCEEEEec
Q psy8530 27 FMKARERRVPIVMLTS 42 (68)
Q Consensus 27 ~~~a~~~~IPva~v~g 42 (68)
+...+..+.|+.++.|
T Consensus 51 ~~~~~~~~~~~~~~~G 66 (131)
T cd00838 51 LALLLLLGIPVYVVPG 66 (131)
T ss_pred HHHhhcCCCCEEEeCC
Confidence 3444555666655444
No 253
>PRK09864 putative peptidase; Provisional
Probab=29.46 E-value=81 Score=23.99 Aligned_cols=26 Identities=12% Similarity=0.137 Sum_probs=18.9
Q ss_pred HHHHHHHHhCCCCEEE-EecCCCccchH
Q psy8530 24 ELVFMKARERRVPIVM-LTSGGYLKQTA 50 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~-v~gGGY~~d~~ 50 (68)
+++.+.|+++|||.-. ++.|| +.|..
T Consensus 268 ~~l~~~A~~~~Ip~Q~~~~~~g-gTDa~ 294 (356)
T PRK09864 268 AALKSCAAHNDLPLQFSTMKTG-ATDGG 294 (356)
T ss_pred HHHHHHHHHcCCCceEEEcCCC-CchHH
Confidence 4688999999999986 56655 44433
No 254
>cd07203 cPLA2_Fungal_PLB Fungal Phospholipase B-like; cPLA2 GrpIVA homologs; catalytic domain. Fungal phospholipase B are Group IV cPLA2 homologs. Aspergillus PLA2 is Ca-dependent, yet it does not contain a C2 domain. PLB deacylates both sn-1 and sn-2 chains of phospholipids and are abundantly expressed in fungi. It shows lysophospholipase (lysoPL) and transacylase activities. The active site residues from cPLA2 are also conserved in PLB. Like cPLA2, PLB also has a consensus sequence of Sm-X-Nu-Sm (Sm = small residue, X = any residue and Nu = nucleophile). It includes PLB1 from Schizosaccharomyces pombe, PLB2 from Candida glabrata, and PLB3 from Saccharomyces cerevisiae. PLB1, PLB2, and PLB3 show PLB and lysoPL activities; PLB3 is specific for phosphoinositides.
Probab=29.44 E-value=59 Score=26.55 Aligned_cols=29 Identities=17% Similarity=0.349 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHHHHh----C--------------CCCEEEE--ecCCCc
Q psy8530 18 GIIRRDELVFMKARE----R--------------RVPIVML--TSGGYL 46 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~----~--------------~IPva~v--~gGGY~ 46 (68)
=|.+|...+.+..++ . ++|++.+ -||||+
T Consensus 27 ~l~~R~~~t~~aL~~fL~~~~i~~fd~~~~~~~~~~P~Igia~SGGGyR 75 (552)
T cd07203 27 YLEKRRSITNSALKDFLSRANLNGDDDLDSNNSSNGPRIGIAVSGGGYR 75 (552)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcccchhhhcCcccCCeEEEEecCccHH
Confidence 366777777665444 1 4575544 399995
No 255
>cd05005 SIS_PHI Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with formadelhyde to become hexulose-6-phosphate, which is then isomerized to fructose-6-phosphate by PHI.
Probab=29.38 E-value=38 Score=22.19 Aligned_cols=31 Identities=19% Similarity=0.117 Sum_probs=21.7
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEec
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~g 42 (68)
+-+|..|--..=...++.|+++|+|++++.+
T Consensus 80 I~iS~sG~t~~~i~~~~~ak~~g~~iI~IT~ 110 (179)
T cd05005 80 IAISGSGETSSVVNAAEKAKKAGAKVVLITS 110 (179)
T ss_pred EEEcCCCCcHHHHHHHHHHHHCCCeEEEEEC
Confidence 3344444444445678999999999998875
No 256
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=29.33 E-value=25 Score=20.02 Aligned_cols=9 Identities=33% Similarity=1.025 Sum_probs=6.5
Q ss_pred EEEecCCCc
Q psy8530 38 VMLTSGGYL 46 (68)
Q Consensus 38 a~v~gGGY~ 46 (68)
++++||||.
T Consensus 2 vvViGgG~i 10 (80)
T PF00070_consen 2 VVVIGGGFI 10 (80)
T ss_dssp EEEESSSHH
T ss_pred EEEECcCHH
Confidence 467888883
No 257
>PF13788 DUF4180: Domain of unknown function (DUF4180)
Probab=29.29 E-value=87 Score=20.46 Aligned_cols=32 Identities=19% Similarity=0.159 Sum_probs=26.5
Q ss_pred HHHHHHHhCCCCEEEE--ecCC-CccchHHHHHHH
Q psy8530 25 LVFMKARERRVPIVML--TSGG-YLKQTARIIADS 56 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v--~gGG-Y~~d~~~~v~~s 56 (68)
.++|.+-..++.+|.| +++. .++...+.|..|
T Consensus 60 eiLQKf~NY~iklAivGD~s~~~~S~~l~dfi~Es 94 (113)
T PF13788_consen 60 EILQKFVNYRIKLAIVGDFSAYATSKSLRDFIYES 94 (113)
T ss_pred HHHHHHHhhceeEEEEEcccccccchhHHHHHHHh
Confidence 5789999999999999 7777 787777777665
No 258
>cd00738 HGTP_anticodon HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only. This domain is also found in the accessory subunit of mitochondrial polymerase gamma (Pol gamma b).
Probab=29.22 E-value=65 Score=18.12 Aligned_cols=17 Identities=29% Similarity=0.483 Sum_probs=14.7
Q ss_pred HHHHHhCCCCEEEEecC
Q psy8530 27 FMKARERRVPIVMLTSG 43 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gG 43 (68)
++.|.+.|+|.+.++|.
T Consensus 47 ~~~a~~~g~~~~iiig~ 63 (94)
T cd00738 47 FREADLRGVPFAVVVGE 63 (94)
T ss_pred HHHHHhCCCCEEEEECC
Confidence 67788899999999985
No 259
>PRK13906 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=29.21 E-value=64 Score=23.78 Aligned_cols=20 Identities=20% Similarity=0.328 Sum_probs=15.4
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
.++++|+++++|+.. +|||=
T Consensus 51 ~~v~~a~~~~ip~~v-lGgGS 70 (307)
T PRK13906 51 AVVKYAYQNEIPVTY-LGNGS 70 (307)
T ss_pred HHHHHHHHcCCCEEE-EcCce
Confidence 466999999999865 66664
No 260
>PF00926 DHBP_synthase: 3,4-dihydroxy-2-butanone 4-phosphate synthase; InterPro: IPR000422 3,4-dihydroxy-2-butanone 4-phosphate synthase (4.1.99.12 from EC) (DHBP synthase) (RibB) catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (IPR000926 from INTERPRO). No sequences with significant homology to DHBP synthase are found in the metazoa.; GO: 0008686 3,4-dihydroxy-2-butanone-4-phosphate synthase activity, 0009231 riboflavin biosynthetic process; PDB: 1K4O_A 1K4L_A 1K4P_A 1K49_A 1K4I_A 1TKU_A 1TKS_B 2RIS_A 2RIU_A 3MIO_A ....
Probab=29.20 E-value=12 Score=26.27 Aligned_cols=24 Identities=25% Similarity=0.270 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
++|=..|-..+.++|+++++|++.
T Consensus 163 ~dG~~~~~~~~~~fA~~~~l~~vs 186 (194)
T PF00926_consen 163 DDGDMARRDELEEFAKKHGLPIVS 186 (194)
T ss_dssp TTSSBHCHHHHHHHHHHTT-EEEE
T ss_pred CCCCcCCHHHHHHHHHHcCCcEEE
Confidence 455556677788999999999975
No 261
>PF02595 Gly_kinase: Glycerate kinase family; InterPro: IPR004381 This family includes glycerate kinase 2 (2.7.1.31 from EC), which catalyses the phosphorylation of (R)-glycerate to 3-phospho-(R)-glycerate in the presence of ATP. These proteins consist of two different alpha/beta domains: domain 1 has a flavodoxin-like fold, while domain 2 has a restriction enzyme-like fold (domain 2 is inserted into domain 1).; GO: 0008887 glycerate kinase activity, 0031388 organic acid phosphorylation; PDB: 3CWC_B 1TO6_A.
Probab=29.00 E-value=21 Score=27.55 Aligned_cols=18 Identities=22% Similarity=0.425 Sum_probs=13.0
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
|.+.|+++++|++++-|-
T Consensus 308 Va~~A~~~~vPviav~G~ 325 (377)
T PF02595_consen 308 VARLAKKHGVPVIAVAGS 325 (377)
T ss_dssp HHCCHCCTT--EEEEECE
T ss_pred HHHHHHHcCCcEEEEeCC
Confidence 667899999999988764
No 262
>PRK04020 rps2P 30S ribosomal protein S2; Provisional
Probab=28.98 E-value=59 Score=23.10 Aligned_cols=21 Identities=33% Similarity=0.436 Sum_probs=18.1
Q ss_pred HHHHHHHHHHHhCCCCEEEEe
Q psy8530 21 RRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~ 41 (68)
.+|...+..|.+.|||++++.
T Consensus 124 ~~~~~AI~EA~kl~IP~Iaiv 144 (204)
T PRK04020 124 RGDAQAVKEAIEVGIPVVALC 144 (204)
T ss_pred cccHHHHHHHHHhCCCEEEEE
Confidence 467788899999999999887
No 263
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=28.79 E-value=1.2e+02 Score=21.66 Aligned_cols=41 Identities=10% Similarity=0.054 Sum_probs=29.1
Q ss_pred HHHHHHHhCCCCEEEEe----cCC----CccchHHHHHHHHHhHHHcCC
Q psy8530 25 LVFMKARERRVPIVMLT----SGG----YLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~----gGG----Y~~d~~~~v~~si~~l~~~~~ 65 (68)
-.++.+.+.+||++.+- ..+ ...|.........++|.+++.
T Consensus 97 ~~l~~~~~~~iPvV~id~~~~~~~~~~~V~~D~~~~g~~a~~~L~~~g~ 145 (330)
T PRK10355 97 NVIKEAKQEGIKVLAYDRMINNADIDFYISFDNEKVGELQAKALVDKVP 145 (330)
T ss_pred HHHHHHHHCCCeEEEECCCCCCCCccEEEecCHHHHHHHHHHHHHHhcC
Confidence 35688889999999872 122 245667777778888888753
No 264
>TIGR03107 glu_aminopep glutamyl aminopeptidase. This model represents the M42.001 clade within MEROPS family M42. M42 includes glutamyl aminopeptidase as in the present model, deblocking aminopeptidases as from Pyrococcus horikoshii and related species, and endo-1,4-beta-glucanase (cellulase M) as from Clostridium thermocellum. The current family includes
Probab=28.75 E-value=89 Score=23.56 Aligned_cols=21 Identities=14% Similarity=0.311 Sum_probs=17.2
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
+++.+.|++++||.-.++.||
T Consensus 269 ~~l~~~A~~~~I~~Q~~~~~g 289 (350)
T TIGR03107 269 DFLLTTAEEAGIKYQYYVAKG 289 (350)
T ss_pred HHHHHHHHHcCCCcEEecCCC
Confidence 468899999999999876655
No 265
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=28.74 E-value=75 Score=19.05 Aligned_cols=17 Identities=29% Similarity=0.317 Sum_probs=13.8
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
.+.+.|..++||+..+-
T Consensus 44 ~i~~~c~~~~Vp~~~~~ 60 (82)
T PRK13602 44 KVEALANEKGVPVSKVD 60 (82)
T ss_pred HHHHHHHHcCCCEEEEC
Confidence 46788999999997653
No 266
>PLN02820 3-methylcrotonyl-CoA carboxylase, beta chain
Probab=28.67 E-value=60 Score=26.33 Aligned_cols=27 Identities=30% Similarity=0.406 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHhCCCCEEEEe-cCC-Ccc
Q psy8530 21 RRDELVFMKARERRVPIVMLT-SGG-YLK 47 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~-gGG-Y~~ 47 (68)
++=...++.|.+.++|++.++ +|| +-.
T Consensus 151 ~Ki~r~~elA~~~~lPlV~l~DSgGarl~ 179 (569)
T PLN02820 151 KKHLRAQEIAAQCRLPCIYLVDSGGANLP 179 (569)
T ss_pred HHHHHHHHHHHHcCCCEEEEEeCCCcCCc
Confidence 455678899999999999998 555 543
No 267
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=28.66 E-value=43 Score=24.73 Aligned_cols=19 Identities=37% Similarity=0.859 Sum_probs=13.3
Q ss_pred HHHHHhCCCCEEEEe-----cCCCc
Q psy8530 27 FMKARERRVPIVMLT-----SGGYL 46 (68)
Q Consensus 27 ~~~a~~~~IPva~v~-----gGGY~ 46 (68)
++..++.+ ||.+.| +|||-
T Consensus 122 l~~l~~~~-PV~v~v~~~AASGGY~ 145 (317)
T COG0616 122 LKRLRAKK-PVVVSVGGYAASGGYY 145 (317)
T ss_pred HHHHhhcC-CEEEEECCeecchhhh
Confidence 45556667 999776 68883
No 268
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=28.65 E-value=1.3e+02 Score=19.59 Aligned_cols=40 Identities=18% Similarity=0.090 Sum_probs=25.8
Q ss_pred HHHHHHHhCCCCEEEEecC--C---CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSG--G---YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG--G---Y~~d~~~~v~~si~~l~~~~ 64 (68)
.+++.+++.+||++.+-.- + -..|.........+.|.+++
T Consensus 69 ~~~~~~~~~~ipvv~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 113 (259)
T cd01542 69 EHREAIKKLNVPVVVVGQDYPGISSVVYDDYGAGYELGEYLAQQG 113 (259)
T ss_pred HHHHHHhcCCCCEEEEeccCCCCCEEEECcHHHHHHHHHHHHHcC
Confidence 4667788889999987421 1 12344556666777777764
No 269
>TIGR02009 PGMB-YQAB-SF beta-phosphoglucomutase family hydrolase. All of these are members of the larger Haloacid dehalogenase (HAD) subfamily IA and include the "variant 3" glu-asp version of the third conserved HAD domain (TIGR01509).
Probab=28.58 E-value=1.1e+02 Score=19.33 Aligned_cols=18 Identities=6% Similarity=0.252 Sum_probs=14.2
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
+++.++++|++++.+.++
T Consensus 96 ~l~~l~~~g~~i~i~S~~ 113 (185)
T TIGR02009 96 FLKRLKKKGIAVGLGSSS 113 (185)
T ss_pred HHHHHHHcCCeEEEEeCc
Confidence 678888899999766655
No 270
>PF13527 Acetyltransf_9: Acetyltransferase (GNAT) domain; PDB: 3SXN_C 2I00_D 1M4D_B 1M44_A 1M4G_B 1M4I_A 2OZG_A 2HV2_F 3N7Z_A 3RYO_B ....
Probab=28.58 E-value=84 Score=18.51 Aligned_cols=19 Identities=37% Similarity=0.649 Sum_probs=14.6
Q ss_pred HHHHHHHHhCCCCEEEEec
Q psy8530 24 ELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g 42 (68)
+.+++.++++++|++++.+
T Consensus 95 ~~~~~~~~~~g~~~~~l~~ 113 (127)
T PF13527_consen 95 RALLERARERGVPFIFLFP 113 (127)
T ss_dssp HHHHHHHHHTT-SEEEEE-
T ss_pred HHHHHHHHhCCCCEEEEec
Confidence 4578899999999999887
No 271
>PHA02546 47 endonuclease subunit; Provisional
Probab=28.56 E-value=1.1e+02 Score=22.58 Aligned_cols=17 Identities=18% Similarity=0.364 Sum_probs=11.0
Q ss_pred HHHHHHhCCCCEEEEec
Q psy8530 26 VFMKARERRVPIVMLTS 42 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g 42 (68)
.++..++.+|||.++.|
T Consensus 68 l~~~L~~~gi~v~~I~G 84 (340)
T PHA02546 68 IFDLLKEAGITLHVLVG 84 (340)
T ss_pred HHHHHHHCCCeEEEEcc
Confidence 45555666777777764
No 272
>COG3744 PIN domain nuclease, a component of toxin-antitoxin system (PIN domain) [Signal transduction mechanisms]
Probab=28.50 E-value=55 Score=22.01 Aligned_cols=18 Identities=17% Similarity=0.525 Sum_probs=16.2
Q ss_pred HHHHHHHHHhCCCCEEEE
Q psy8530 23 DELVFMKARERRVPIVML 40 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v 40 (68)
||++..+|..+++|++.+
T Consensus 99 DRiiiAqa~~~~~~l~t~ 116 (130)
T COG3744 99 DRIIIAQAQEENITLATV 116 (130)
T ss_pred HHHHHHHHHhcCCeEecc
Confidence 788999999999999865
No 273
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=28.47 E-value=1.7e+02 Score=18.91 Aligned_cols=37 Identities=11% Similarity=-0.016 Sum_probs=22.2
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEe-cCCCccc
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLT-SGGYLKQ 48 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~-gGGY~~d 48 (68)
++-+...-.+--..+.+.+++++.+-+.++ ||...++
T Consensus 59 iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~ 96 (132)
T TIGR00640 59 VSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQ 96 (132)
T ss_pred EcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChH
Confidence 344444455556778888888887544444 5445543
No 274
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=28.22 E-value=49 Score=17.04 Aligned_cols=18 Identities=17% Similarity=0.385 Sum_probs=14.5
Q ss_pred HHHHHHHHHhHHHcCCcC
Q psy8530 50 ARIIADSILNLADLGLIS 67 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~ 67 (68)
..++...+..|.++|+|.
T Consensus 34 ~~tv~~~l~~L~~~g~i~ 51 (60)
T smart00345 34 RTTVREALSRLEAEGLVQ 51 (60)
T ss_pred HHHHHHHHHHHHHCCCEE
Confidence 347888899999998874
No 275
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. 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 b
Probab=28.13 E-value=1.2e+02 Score=19.75 Aligned_cols=39 Identities=13% Similarity=0.319 Sum_probs=26.6
Q ss_pred HHHHHHhCCCCEEEEecC----CC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTSG----GY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG----GY---~~d~~~~v~~si~~l~~~~ 64 (68)
.++.+++.+||++++-.. ++ ..|.........+.|.++|
T Consensus 70 ~l~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g 115 (267)
T cd06283 70 LYQRLAKNGKPVVLVDRKIPELGVDTVTLDNYEAAKEAVDHLIEKG 115 (267)
T ss_pred HHHHHhcCCCCEEEEcCCCCCCCCCEEEeccHHHHHHHHHHHHHcC
Confidence 367888899999988532 11 2345666777777777765
No 276
>COG1871 CheD Chemotaxis protein; stimulates methylation of MCP proteins [Cell motility and secretion / Signal transduction mechanisms]
Probab=28.10 E-value=60 Score=22.76 Aligned_cols=30 Identities=23% Similarity=0.296 Sum_probs=21.8
Q ss_pred HHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
|=+|. ++|.++.++.+||+++- +||=+++.
T Consensus 111 IG~rNv~~~~~~L~~~~IpilaeD~Gg~~gR~ 142 (164)
T COG1871 111 IGERNVEFAKEFLKDEGIPILAEDTGGDSGRT 142 (164)
T ss_pred hhhHHHHHHHHHHHHcCCcEEEhhhCCCCCcE
Confidence 33554 68999999999999865 46655554
No 277
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=28.09 E-value=58 Score=22.77 Aligned_cols=19 Identities=26% Similarity=0.420 Sum_probs=15.7
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
-+++.+.+.||||+.+=..
T Consensus 107 ~~v~~a~~aGIpVv~~d~~ 125 (322)
T COG1879 107 PAVKKAKAAGIPVVTVDSD 125 (322)
T ss_pred HHHHHHHHCCCcEEEEecC
Confidence 3678899999999988754
No 278
>PF00899 ThiF: ThiF family; InterPro: IPR000594 Ubiquitin-activating enzyme (E1 enzyme) [, ] activates ubiquitin by first adenylating with ATP its C-terminal glycine residue and thereafter linking this residue to the side chain of a cysteine residue in E1, yielding an ubiquitin-E1 thiolester and free AMP. Later the ubiquitin moiety is transferred to a cysteine residue on one of the many forms of ubiquitin- conjugating enzymes (E2). The family of ubiquitin-activating enzymes shares in its catalytic domain significant similarity with a large family of NAD/FAD-binding proteins. This domain is based on the common NAD/FAD-binding fold and finds members of several families, including UBA ubiquitin activating enzymes; the hesA/moeB/thiF family; NADH peroxidases; the LDH family; sarcosin oxidase; phytoene dehydrogenases; alanine dehydrogenases; hydroxyacyl-CoA dehydrogenases and many other NAD/FAD dependent dehydrogenases and oxidases.; GO: 0003824 catalytic activity; PDB: 1ZKM_D 1ZUD_3 1ZFN_D 1R4M_G 2NVU_A 1R4N_C 3DBR_A 3DBH_C 3DBL_G 1YOV_A ....
Probab=28.01 E-value=76 Score=19.75 Aligned_cols=23 Identities=22% Similarity=0.322 Sum_probs=16.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY 45 (68)
...+-+.|+++++|+..+..-|+
T Consensus 106 ~~~l~~~~~~~~~p~i~~~~~g~ 128 (135)
T PF00899_consen 106 RLLLNEICREYGIPFIDAGVNGF 128 (135)
T ss_dssp HHHHHHHHHHTT-EEEEEEEETT
T ss_pred HHHHHHHHHHcCCCEEEEEeecC
Confidence 45677899999999987764444
No 279
>TIGR03641 cas1_HMARI CRISPR-associated endonuclease Cas1, HMARI/TNEAP subtype. It describes Cas1 subgroup that includes Cas1 proteins of the related HMARI and TNEAP subtypes of CRISPR/Cas system.
Probab=27.88 E-value=63 Score=23.85 Aligned_cols=19 Identities=16% Similarity=0.289 Sum_probs=16.7
Q ss_pred HHHHHHhCCCCEEEEecCC
Q psy8530 26 VFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG 44 (68)
++..|.++||||++.-+.|
T Consensus 49 al~~l~~~gI~v~f~~~~G 67 (322)
T TIGR03641 49 ALSFLSKKGIPIHFFNYYG 67 (322)
T ss_pred HHHHHHHCCCeEEEECCCC
Confidence 6789999999999988777
No 280
>PRK13495 chemoreceptor glutamine deamidase CheD; Provisional
Probab=27.82 E-value=88 Score=21.31 Aligned_cols=31 Identities=23% Similarity=0.248 Sum_probs=22.2
Q ss_pred HHHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 18 GIIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 18 Gi~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
.|-+|+ +++.++.++++||++.- +||=|++.
T Consensus 101 ~IG~rNi~~a~~~L~~~gI~i~a~dvGG~~gR~ 133 (159)
T PRK13495 101 NIGARNVEAVKKHLKDFGIKLVAEDTGGNRARS 133 (159)
T ss_pred ChHHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 345665 57888899999999965 46666554
No 281
>PRK00046 murB UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=27.79 E-value=65 Score=24.36 Aligned_cols=21 Identities=24% Similarity=0.463 Sum_probs=15.8
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++++|++.++|+ .++|||-+
T Consensus 35 ~~~~~~~~~~~p~-~vlG~GSN 55 (334)
T PRK00046 35 EALADARAAGLPV-LVLGGGSN 55 (334)
T ss_pred HHHHHHHHcCCCE-EEEeceEE
Confidence 4568899999995 45788753
No 282
>PRK09989 hypothetical protein; Provisional
Probab=27.77 E-value=2.1e+02 Score=19.66 Aligned_cols=23 Identities=17% Similarity=0.052 Sum_probs=17.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY 45 (68)
=+.+++.|+..|.|.+.++.|..
T Consensus 87 l~~~i~~A~~lg~~~v~v~~g~~ 109 (258)
T PRK09989 87 IDLALEYALALNCEQVHVMAGVV 109 (258)
T ss_pred HHHHHHHHHHhCcCEEEECccCC
Confidence 35688889999999887766543
No 283
>cd00158 RHOD Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins such as sulfide dehydrogenases and certain stress proteins such as senesence specific protein 1 in plants, PspE and GlpE in bacteria and cyanide and arsenate resistance proteins. Inactive versions (no active site cysteine) are also seen in dual specificity phosphatases, ubiquitin hydrolases from yeast and in sulfuryltransferases, where they are believed to play a regulatory role in multidomain proteins.
Probab=27.75 E-value=99 Score=16.77 Aligned_cols=25 Identities=24% Similarity=0.142 Sum_probs=15.4
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
|-..+....++.|.+=+.++-|||.
T Consensus 62 ~a~~~~~~l~~~G~~~v~~l~gG~~ 86 (89)
T cd00158 62 RSARAAKLLRKAGGTNVYNLEGGML 86 (89)
T ss_pred hHHHHHHHHHHhCcccEEEecCChh
Confidence 4455566666666666666667763
No 284
>PF01872 RibD_C: RibD C-terminal domain; InterPro: IPR002734 This domain is found in the C terminus of the bifunctional deaminase-reductase of Escherichia coli, Bacillus subtilis and other bacteria in combination with IPR002125 from INTERPRO that catalyses the second and third steps in the biosynthesis of riboflavin, i.e., the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (deaminase) and the subsequent reduction of the ribosyl side chain (reductase) []. The domain is also present in some HTP reductases from archaea and fungi.; GO: 0008703 5-amino-6-(5-phosphoribosylamino)uracil reductase activity, 0009231 riboflavin biosynthetic process, 0055114 oxidation-reduction process; PDB: 3KY8_B 3KGY_B 2GD9_B 3JTW_B 2XW7_B 2D5N_B 2B3Z_A 3EX8_B 2AZN_A 2P4G_A ....
Probab=27.71 E-value=93 Score=20.52 Aligned_cols=20 Identities=20% Similarity=0.378 Sum_probs=17.5
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.++++++.-+.+.|||
T Consensus 125 ~~l~~L~~~g~~~i~v~GG~ 144 (200)
T PF01872_consen 125 EALRRLKERGGKDILVEGGG 144 (200)
T ss_dssp HHHHHHHHTTTSEEEEEEHH
T ss_pred HHHHHHHhcCCCEEEEechH
Confidence 46788999999999999887
No 285
>PF00857 Isochorismatase: Isochorismatase family; InterPro: IPR000868 This is a family of hydrolase enzymes. Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate (3.3.2.1 from EC).; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1XN4_A 3KL2_F 1YZV_A 3IRV_A 1IM5_A 1ILW_A 3PL1_A 1NF9_A 1NF8_A 1X9G_A ....
Probab=27.66 E-value=1.1e+02 Score=19.30 Aligned_cols=28 Identities=21% Similarity=0.254 Sum_probs=23.7
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
-..+.+..+=...++.|+++++||..+-
T Consensus 20 ~~~~~~i~~i~~l~~~~r~~~~~Vi~~~ 47 (174)
T PF00857_consen 20 PNAEAIIPNINRLLDAARAAGVPVIHTR 47 (174)
T ss_dssp TTHHHHHHHHHHHHHHHHHTTEEEEEEE
T ss_pred cCHHHHHHHHHHHHHHHHHhCCCeEEEE
Confidence 3467788888899999999999999776
No 286
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=27.64 E-value=1.5e+02 Score=17.95 Aligned_cols=19 Identities=16% Similarity=0.317 Sum_probs=16.1
Q ss_pred HHHHHHhCCCCEEEEecCC
Q psy8530 26 VFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG 44 (68)
+++.+++.|++++.+.++.
T Consensus 33 ~l~~L~~~g~~l~i~Sn~~ 51 (132)
T TIGR01662 33 ALAELKEAGYKVVIVTNQS 51 (132)
T ss_pred HHHHHHHCCCEEEEEECCc
Confidence 7889999999998887665
No 287
>PF00733 Asn_synthase: Asparagine synthase; InterPro: IPR001962 This domain is always found associated with (IPR000583 from INTERPRO). Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B (6.3.5.4 from EC) catalyzes the assembly of asparagine from aspartate, Mg(2+)ATP, and glutamine. The three-dimensional architecture of the N-terminal domain of asparagine synthetase B is similar to that observed for glutamine phosphoribosylpyrophosphate amidotransferase while the molecular motif of the C-domain is reminiscent to that observed for GMP synthetase [].; GO: 0004066 asparagine synthase (glutamine-hydrolyzing) activity, 0006529 asparagine biosynthetic process; PDB: 1JGT_A 1M1Z_B 1MB9_B 1MBZ_B 1MC1_A 1Q15_D 1Q19_C 1CT9_C 3K32_F.
Probab=27.61 E-value=1.2e+02 Score=19.92 Aligned_cols=22 Identities=36% Similarity=0.490 Sum_probs=13.9
Q ss_pred CCCCEEEEecCCCccchHHHHHHH
Q psy8530 33 RRVPIVMLTSGGYLKQTARIIADS 56 (68)
Q Consensus 33 ~~IPva~v~gGGY~~d~~~~v~~s 56 (68)
..-|+++.++||. |+.-+...+
T Consensus 16 ~~~~i~~~LSGGl--DSs~i~~~~ 37 (255)
T PF00733_consen 16 SDKPIGILLSGGL--DSSAIAALA 37 (255)
T ss_dssp CTSEEEEE--SSH--HHHHHHHHH
T ss_pred cCCCEEEECCCCh--hHHHHHHHH
Confidence 5889999999999 555444433
No 288
>cd06255 M14_ASTE_ASPA_like_5 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the arginine succinyltransferase pathway, and aspartoacylase (ASPA, also known as aminoacylase 2, and ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid (NAA) into aspartate and acetate. NAA is abundant in the brain, and hydrolysis of NAA by ASPA may help maintain white matter. ASPA is an NAA scavenger in other tissues. Mutations in the gene encoding ASPA cause Canavan disease (CD), a fatal progressive neurodegenerative disorder involving dysmyelination and spongiform degeneration of white matter in children. This enzyme binds zinc which is necessary for activity. Measurement of elevated NAA levels in urine is used in the diagnosis of CD.
Probab=27.53 E-value=1.9e+02 Score=20.87 Aligned_cols=37 Identities=22% Similarity=0.242 Sum_probs=21.2
Q ss_pred HHHHHhCC-CCEEEEecCC---CccchHHHHHHHHHhHHHc
Q psy8530 27 FMKARERR-VPIVMLTSGG---YLKQTARIIADSILNLADL 63 (68)
Q Consensus 27 ~~~a~~~~-IPva~v~gGG---Y~~d~~~~v~~si~~l~~~ 63 (68)
...+..++ ||..++=.|| ++++..+...++|.|+...
T Consensus 171 ~~~a~~~g~ipait~E~G~~~~~d~~~~~~~~~GI~~vL~~ 211 (293)
T cd06255 171 AGVLDYQCLVPAFMVELGGGGPYQPENVERAATGLRNMLRH 211 (293)
T ss_pred HHHHHHCCCCcEEEEeCCCCccCCHHHHHHHHHHHHHHHHH
Confidence 33455666 7766665444 3444445556677776654
No 289
>PRK13938 phosphoheptose isomerase; Provisional
Probab=27.42 E-value=76 Score=21.94 Aligned_cols=21 Identities=29% Similarity=0.218 Sum_probs=17.5
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
...++.|+++|+|++++.+..
T Consensus 130 i~a~~~Ak~~G~~vI~iT~~~ 150 (196)
T PRK13938 130 LRAAKTARELGVTVVAMTGES 150 (196)
T ss_pred HHHHHHHHHCCCEEEEEeCCC
Confidence 356788999999999999754
No 290
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=27.33 E-value=76 Score=21.97 Aligned_cols=31 Identities=26% Similarity=0.086 Sum_probs=21.8
Q ss_pred CCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 14 EDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 14 lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+|..|=-+-=...++.|+++|+|++++.|.+
T Consensus 116 iS~SG~s~~v~~a~~~Ak~~G~~vI~IT~~~ 146 (196)
T PRK10886 116 ISTRGNSRDIVKAVEAAVTRDMTIVALTGYD 146 (196)
T ss_pred EeCCCCCHHHHHHHHHHHHCCCEEEEEeCCC
Confidence 3444433334457899999999999999754
No 291
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=27.32 E-value=58 Score=21.81 Aligned_cols=18 Identities=17% Similarity=0.301 Sum_probs=14.7
Q ss_pred HHHHHHHHhCCCCEEEEe
Q psy8530 24 ELVFMKARERRVPIVMLT 41 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~ 41 (68)
.-.++.+++.+||++++-
T Consensus 69 ~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 69 PAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred HHHHHHHHhCCCeEEEec
Confidence 346788999999999874
No 292
>PRK12480 D-lactate dehydrogenase; Provisional
Probab=27.28 E-value=1.2e+02 Score=22.48 Aligned_cols=39 Identities=15% Similarity=0.069 Sum_probs=24.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|+++||+|+.+ .|.++...++.+-..+..+..
T Consensus 81 d~id~~~~~~~gI~v~n~-~~~~~~~vAE~~~~l~L~~~R 119 (330)
T PRK12480 81 DMYDLDLAKKHNIVISNV-PSYSPETIAEYSVSIALQLVR 119 (330)
T ss_pred chhhHHHHHHCCCEEEeC-CCCChHHHHHHHHHHHHHHHH
Confidence 456678899999999875 334445555555445544433
No 293
>cd01534 4RHOD_Repeat_3 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative catalytic Cys residue.
Probab=27.26 E-value=77 Score=18.31 Aligned_cols=14 Identities=21% Similarity=0.297 Sum_probs=5.9
Q ss_pred HhCCCCEEEEecCCC
Q psy8530 31 RERRVPIVMLTSGGY 45 (68)
Q Consensus 31 ~~~~IPva~v~gGGY 45 (68)
++.|.+ +.++-|||
T Consensus 77 ~~~G~~-v~~l~GG~ 90 (95)
T cd01534 77 AQMGWE-VYVLEGGL 90 (95)
T ss_pred HHcCCE-EEEecCcH
Confidence 334444 34444444
No 294
>TIGR01656 Histidinol-ppas histidinol-phosphate phosphatase family domain. This domain is a member of the haloacid-dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. This superfamily is distinguished by the presence of three motifs: an N-terminal motif containing the nucleophilic aspartate, a central motif containing an conserved serine or threonine, and a C-terminal motif containing a conserved lysine (or arginine) and conserved aspartates. More specifically, the domian modelled here is a member of subfamily III of the HAD-superfamily by virtue of lacking a "capping" domain in either of the two common positions, between motifs 1 and 2, or between motifs 2 and 3.
Probab=27.21 E-value=1.7e+02 Score=18.44 Aligned_cols=20 Identities=15% Similarity=0.273 Sum_probs=17.1
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.++++|++++.+.++.
T Consensus 34 ~~l~~Lk~~g~~~~I~Sn~~ 53 (147)
T TIGR01656 34 PALLTLRAAGYTVVVVTNQS 53 (147)
T ss_pred HHHHHHHHCCCEEEEEeCCC
Confidence 48999999999999888653
No 295
>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=27.17 E-value=62 Score=21.24 Aligned_cols=40 Identities=18% Similarity=0.226 Sum_probs=27.4
Q ss_pred HHHHHHHhCCCCEEEEec---C--CC---ccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS---G--GY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g---G--GY---~~d~~~~v~~si~~l~~~~ 64 (68)
-.++.+.+.+||++++-. + ++ ..|.........++|.++|
T Consensus 74 ~~~~~~~~~~ipvV~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g 121 (270)
T cd06294 74 PIIDYLKEEKFPFVVIGKPEDDKENITYVDNDNIQAGYDATEYLIKLG 121 (270)
T ss_pred HHHHHHHhcCCCEEEECCCCCCCCCCCeEEECcHHHHHHHHHHHHHcC
Confidence 457888899999998832 1 11 2345667777788888775
No 296
>PLN02811 hydrolase
Probab=27.08 E-value=88 Score=20.91 Aligned_cols=22 Identities=18% Similarity=0.163 Sum_probs=16.8
Q ss_pred HHHHHHhCCCCEEEEecCCCcc
Q psy8530 26 VFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~ 47 (68)
-++.|++.|+|++.+--|.++.
T Consensus 169 di~aA~~aG~~~i~v~~~~~~~ 190 (220)
T PLN02811 169 GVEAAKNAGMSVVMVPDPRLDK 190 (220)
T ss_pred hHHHHHHCCCeEEEEeCCCCcH
Confidence 3688999999999886654443
No 297
>TIGR00161 conserved hypothetical protein TIGR00161. This ortholog set includes MJ0106 from Methanococcus jannaschii and AF1251 from Archaeoglobus fulgidus, but not MJ1210 or AF0525.
Probab=27.03 E-value=1.5e+02 Score=20.94 Aligned_cols=25 Identities=12% Similarity=0.251 Sum_probs=19.6
Q ss_pred HHHHHHhCCCCEEEEec--CCCccchH
Q psy8530 26 VFMKARERRVPIVMLTS--GGYLKQTA 50 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g--GGY~~d~~ 50 (68)
.+..|..+|+|.+|++| =||..|..
T Consensus 158 ll~~a~~~gi~~i~Ll~et~~~~PDP~ 184 (238)
T TIGR00161 158 LLTRCAVNDIPAICLLAETLGPYPDPR 184 (238)
T ss_pred HHHHHHHcCCCEEEEEEeCCCCCCCHH
Confidence 67799999999999995 35656654
No 298
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=26.96 E-value=2.2e+02 Score=19.65 Aligned_cols=39 Identities=18% Similarity=0.305 Sum_probs=26.0
Q ss_pred HHHHHHhCCCCEEEEec----CCC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS----GGY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g----GGY---~~d~~~~v~~si~~l~~~~ 64 (68)
.++.+.+.++|++++-. ..+ ..|.........++|.++|
T Consensus 132 ~~~~l~~~~iPvV~~~~~~~~~~~~~V~~dn~~~~~~~~~~L~~~G 177 (327)
T TIGR02417 132 YYQKLQNEGLPVVALDRSLDDEHFCSVISDDVDAAAELIERLLSQH 177 (327)
T ss_pred HHHHHHhcCCCEEEEccccCCCCCCEEEeCcHHHHHHHHHHHHHCC
Confidence 35677788999997632 111 2255666777888888876
No 299
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=26.89 E-value=1.6e+02 Score=19.38 Aligned_cols=39 Identities=18% Similarity=0.284 Sum_probs=26.1
Q ss_pred HHHHHHhCCCCEEEEec---CCC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS---GGY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g---GGY---~~d~~~~v~~si~~l~~~~ 64 (68)
.+..+++.+||++++-. .++ ..|.........++|.++|
T Consensus 66 ~~~~~~~~~ipvV~~~~~~~~~~~~V~~d~~~~~~~~~~~l~~~g 110 (261)
T cd06272 66 EYLYKIKLAIPVVSYGVDYDLKYPIVNVDNEKAMELAVLYLAEKG 110 (261)
T ss_pred HHHHHHHcCCCEEEEcccCCCCCCEEEEChHHHHHHHHHHHHHcC
Confidence 35667789999998742 122 3456666777777777765
No 300
>TIGR01293 Kv_beta voltage-dependent potassium channel beta subunit, animal. Plant beta subunits and their closely related bacterial homologs (in Deinococcus radiudurans, Xylella fastidiosa, etc.) appear more closely related to each other than to animal forms. However, the bacterial species lack convincing counterparts the Kv alpha subunit and the Kv beta homolog may serve as an enzyme. Cutoffs are set for this model such that yeast and plant forms and bacterial close homologs score between trusted and noise cutoffs.
Probab=26.76 E-value=58 Score=23.34 Aligned_cols=21 Identities=10% Similarity=-0.145 Sum_probs=16.5
Q ss_pred HHHHHHHHhCCCCEEE--EecCC
Q psy8530 24 ELVFMKARERRVPIVM--LTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~--v~gGG 44 (68)
..++++|+++||++.+ .+++|
T Consensus 189 ~~l~~~~~~~gi~v~a~spl~~G 211 (317)
T TIGR01293 189 VQLPELYHKIGVGAMTWSPLACG 211 (317)
T ss_pred HHHHHHHHHcCCeEEEecccccc
Confidence 3688999999999885 55655
No 301
>TIGR03638 cas1_ECOLI CRISPR-associated endonuclease Cas1, ECOLI subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the ECOLI subtype of CRISPR/Cas system.
Probab=26.66 E-value=65 Score=23.23 Aligned_cols=19 Identities=16% Similarity=0.216 Sum_probs=16.8
Q ss_pred HHHHHHhCCCCEEEEecCC
Q psy8530 26 VFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG 44 (68)
++..|-++||||+++-++|
T Consensus 60 al~~l~~~gI~v~~~~~~G 78 (269)
T TIGR03638 60 AVKLLARHGCLVVWVGEGG 78 (269)
T ss_pred HHHHHHHCCCEEEEECCCC
Confidence 5788999999999998777
No 302
>PRK06846 putative deaminase; Validated
Probab=26.64 E-value=2.4e+02 Score=20.94 Aligned_cols=42 Identities=7% Similarity=-0.080 Sum_probs=25.2
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcCCc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADLGLI 66 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~~~ 66 (68)
+.+++.|+++|.|+.+=+.-.- .+....++.-+..+.+.++.
T Consensus 209 ~~~~~lA~~~g~~v~~Hv~e~~-~~~~~~~~~~~~~~~~~gl~ 250 (410)
T PRK06846 209 DTMFQIAVDFNKGVDIHLHDTG-PLGVATIKYLVETTEEAQWK 250 (410)
T ss_pred HHHHHHHHHhCCCcEEEECCCC-ChhHHHHHHHHHHHHHhCCC
Confidence 3478888889999888776332 22233344445555555543
No 303
>PF07685 GATase_3: CobB/CobQ-like glutamine amidotransferase domain; InterPro: IPR011698 This group of enzymes was suggested to be related to the MinD family of ATPases involved in regulation of cell division in bacteria and archaea []. Further sequence analysis suggests a model for the interaction of CobB and CobQ with their respective substrates []. CobB and CobQ were also found to contain unusual Triad family (class I) glutamine amidotransferase domains with conserved Cys and His residues, but lacking the Glu residue of the catalytic triad []. ; GO: 0003824 catalytic activity, 0009236 cobalamin biosynthetic process
Probab=26.61 E-value=95 Score=20.19 Aligned_cols=27 Identities=26% Similarity=0.391 Sum_probs=17.5
Q ss_pred EEEecCCCccchHHHHH------HHHHhHHHcC
Q psy8530 38 VMLTSGGYLKQTARIIA------DSILNLADLG 64 (68)
Q Consensus 38 a~v~gGGY~~d~~~~v~------~si~~l~~~~ 64 (68)
+..++|||..-.+.... .+|.+..+.|
T Consensus 10 ~i~lpGg~pe~~~~~l~~~~~~~~~I~~~~~~G 42 (158)
T PF07685_consen 10 GIYLPGGYPELFALELSRNRGLKEAIREAAEAG 42 (158)
T ss_pred EEEECCCcHHHHHHHHHHHhCHHHHHHHHHHcC
Confidence 56789999876655433 3566665554
No 304
>PF04443 LuxE: Acyl-protein synthetase, LuxE; InterPro: IPR007534 LuxE is an acyl-protein synthetase found in bioluminescent bacteria. LuxE catalyses the formation of an acyl-protein thiolester from a fatty acid and a protein. This is the second step in the bioluminescent fatty acid reduction system, which converts tetradecanoic acid to the aldehyde substrate of the luciferase-catalysed bioluminescence reaction []. A conserved cysteine found at position 364 in Photobacterium phosphoreum LuxE (Q52100 from SWISSPROT) is thought to be acylated during the transfer of the acyl group from the synthetase subunit to the reductase. The C-terminal of the synthetase is though to act as a flexible arm to transfer acyl groups between the sites of activation and reduction []. A LuxE domain is also found in the Vibrio cholerae RBFN protein (Q06961 from SWISSPROT), which is involved in the biosynthesis of the O-antigen component 3-deoxy-L-glycero-tetronic acid. This entry represents the LuxE domain, which is found in archaeal and bacterial proteins.; GO: 0047474 long-chain fatty acid luciferin component ligase activity, 0008218 bioluminescence
Probab=26.55 E-value=61 Score=24.54 Aligned_cols=28 Identities=14% Similarity=0.388 Sum_probs=18.2
Q ss_pred HHHHHHhCCCCE-----EEEe-cCCCccchHHHH
Q psy8530 26 VFMKARERRVPI-----VMLT-SGGYLKQTARII 53 (68)
Q Consensus 26 V~~~a~~~~IPv-----a~v~-gGGY~~d~~~~v 53 (68)
+++.+++++++. ..|| ||||-+-..+.|
T Consensus 206 ~~~~l~~~~~~~~L~~~s~vi~~GGwK~~~~e~v 239 (365)
T PF04443_consen 206 LLDELEERGIRFRLPKGSIVIHGGGWKGRRKEAV 239 (365)
T ss_pred HHHHHHhcCCcccCCCCCEEEeCCCCCccccCcc
Confidence 456778887754 2344 999977655444
No 305
>PRK13490 chemoreceptor glutamine deamidase CheD; Provisional
Probab=26.53 E-value=96 Score=21.11 Aligned_cols=30 Identities=27% Similarity=0.305 Sum_probs=22.2
Q ss_pred HHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
|-+|. +++.+..++++||++.- +||=|++.
T Consensus 109 IG~rNv~~a~~~L~~~gI~i~a~dvGG~~gR~ 140 (162)
T PRK13490 109 IGNRNGKAVKKKLKELSIPILAEDIGGNKGRT 140 (162)
T ss_pred hhHHHHHHHHHHHHHcCCcEEEEECCCCCCcE
Confidence 44555 57888999999999965 47766654
No 306
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=26.48 E-value=66 Score=21.21 Aligned_cols=39 Identities=13% Similarity=0.107 Sum_probs=26.4
Q ss_pred HHHHHHHhCCCCEEEEecCC-------CccchHHHHHHHHHhHHHc
Q psy8530 25 LVFMKARERRVPIVMLTSGG-------YLKQTARIIADSILNLADL 63 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG-------Y~~d~~~~v~~si~~l~~~ 63 (68)
-+++.+++.+||++++-.-- -..|.........++|.++
T Consensus 71 ~~i~~~~~~~ipvV~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~ 116 (273)
T cd06305 71 PWVKRALDAGIPVVAFDVDSDNPKVNNTTQDDYSLARLSLDQLVKD 116 (273)
T ss_pred HHHHHHHHcCCCEEEecCCCCCCccceeeechHHHHHHHHHHHHHH
Confidence 45788899999999885321 1134566667777888773
No 307
>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=26.41 E-value=1.4e+02 Score=20.01 Aligned_cols=39 Identities=13% Similarity=0.047 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCCEEEEec--CC---CccchHHHHHHHHHhHHHc
Q psy8530 25 LVFMKARERRVPIVMLTS--GG---YLKQTARIIADSILNLADL 63 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g--GG---Y~~d~~~~v~~si~~l~~~ 63 (68)
-.++.+++.++|++++-. .+ ...|.........++|.++
T Consensus 69 ~~~~~l~~~~iPvv~~~~~~~~~~~v~~d~~~~g~~a~~~L~~~ 112 (269)
T cd06297 69 RLAERRLPTERPVVLVDAENPRFDSFYLDNRLGGRLAGAYLADF 112 (269)
T ss_pred HHHHHHhhcCCCEEEEccCCCCCCEEEECcHHHHHHHHHHHHHh
Confidence 356778889999998741 22 2345566777777777776
No 308
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=26.30 E-value=64 Score=21.41 Aligned_cols=38 Identities=18% Similarity=0.126 Sum_probs=27.0
Q ss_pred HHHHHHhCCCCEEEEec---CC----CccchHHHHHHHHHhHHHc
Q psy8530 26 VFMKARERRVPIVMLTS---GG----YLKQTARIIADSILNLADL 63 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g---GG----Y~~d~~~~v~~si~~l~~~ 63 (68)
+++.+++.+||++++-. +. -..|.........++|.++
T Consensus 77 ~l~~~~~~~iPvv~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~ 121 (272)
T cd06300 77 VIEEACEAGIPVVSFDGTVTTPCAYNVNEDQAEFGKQGAEWLVKE 121 (272)
T ss_pred HHHHHHHCCCeEEEEecCCCCCceeEecCCHHHHHHHHHHHHHHH
Confidence 67888999999998753 11 1235666777777888776
No 309
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=26.30 E-value=89 Score=18.57 Aligned_cols=23 Identities=26% Similarity=0.349 Sum_probs=17.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY 45 (68)
=...++.++++|+|++++.+-+-
T Consensus 69 ~~~~~~~ak~~g~~vi~iT~~~~ 91 (131)
T PF01380_consen 69 LIELLRFAKERGAPVILITSNSE 91 (131)
T ss_dssp HHHHHHHHHHTTSEEEEEESSTT
T ss_pred hhhhhHHHHhcCCeEEEEeCCCC
Confidence 34567799999999988876543
No 310
>TIGR03628 arch_S11P archaeal ribosomal protein S11P. This model describes exclusively the archaeal ribosomal protein S11P. It excludes homologous ribosomal proteins S14 from eukaryotes and S11 from bacteria.
Probab=26.24 E-value=1.7e+02 Score=19.10 Aligned_cols=18 Identities=22% Similarity=0.196 Sum_probs=15.4
Q ss_pred HHHHHHHHhCCCCEEEEe
Q psy8530 24 ELVFMKARERRVPIVMLT 41 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~ 41 (68)
+.|.+.|+++||..+-+.
T Consensus 53 ~~~~~~~~~~Gi~~v~v~ 70 (114)
T TIGR03628 53 GRAAEKAKERGITGLHIK 70 (114)
T ss_pred HHHHHHHHHcCCcEEEEE
Confidence 578899999999999665
No 311
>cd01014 nicotinamidase_related Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia.
Probab=26.19 E-value=1.4e+02 Score=19.09 Aligned_cols=27 Identities=11% Similarity=0.288 Sum_probs=23.7
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
..+.+.++=..+++.++++++||+.+.
T Consensus 20 ~~~~~v~~i~~li~~~r~~~~~Vi~~~ 46 (155)
T cd01014 20 NNEAALENIAALIAAARAAGIPVIHVR 46 (155)
T ss_pred CHHHHHHHHHHHHHHHHHCCCeEEEEE
Confidence 567888888999999999999999875
No 312
>PRK03573 transcriptional regulator SlyA; Provisional
Probab=26.17 E-value=55 Score=20.58 Aligned_cols=18 Identities=33% Similarity=0.501 Sum_probs=15.7
Q ss_pred HHHHHHHHhHHHcCCcCC
Q psy8530 51 RIIADSILNLADLGLISR 68 (68)
Q Consensus 51 ~~v~~si~~l~~~~~~~~ 68 (68)
.++.+.|..|.++|||.|
T Consensus 61 ~tvt~~v~~Le~~GlV~r 78 (144)
T PRK03573 61 PSLVRTLDQLEEKGLISR 78 (144)
T ss_pred hhHHHHHHHHHHCCCEee
Confidence 378899999999999875
No 313
>PF02782 FGGY_C: FGGY family of carbohydrate kinases, C-terminal domain; InterPro: IPR018485 It has been shown [] that four different type of carbohydrate kinases seem to be evolutionary related. These enzymes include L-fucolokinase (2.7.1.51 from EC) (gene fucK); gluconokinase (2.7.1.12 from EC) (gene gntK); glycerol kinase (2.7.1.30 from EC) (gene glpK); xylulokinase (2.7.1.17 from EC) (gene xylB); and L-xylulose kinase (2.7.1.53 from EC) (gene lyxK). These enzymes are proteins of from 480 to 520 amino acid residues. This entry represents the C-terminal domain of these proteins. It adopts a ribonuclease H-like fold and is structurally related to the N-terminal domain [, ].; GO: 0016773 phosphotransferase activity, alcohol group as acceptor, 0005975 carbohydrate metabolic process; PDB: 4E1J_B 2W40_C 2W41_A 2UYT_A 2CGK_B 2CGL_A 2CGJ_A 3GBT_A 3LL3_B 3HZ6_A ....
Probab=26.12 E-value=98 Score=19.97 Aligned_cols=34 Identities=26% Similarity=0.272 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHHHHhC-CCCEE-EEecCCCccch
Q psy8530 16 HLGIIRRDELVFMKARER-RVPIV-MLTSGGYLKQT 49 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~-~IPva-~v~gGGY~~d~ 49 (68)
.||+.-.-+..++..++. ++|+- .++.||-+++.
T Consensus 128 ~Egia~~~~~~~~~l~~~~~~~~~~i~~~GG~~~n~ 163 (198)
T PF02782_consen 128 LEGIAFSLRQILEELEELTGIPIRRIRVSGGGAKNP 163 (198)
T ss_dssp HHHHHHHHHHHHHHHHHHHTSCESEEEEESGGGGSH
T ss_pred HHhHHHHHHHhhhhccccccccceeeEeccccccCh
Confidence 488888899999999887 77765 44455555543
No 314
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=26.12 E-value=1.1e+02 Score=20.78 Aligned_cols=27 Identities=22% Similarity=0.300 Sum_probs=24.6
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 19 IIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
+-++-..+++.+++.|++++.+.|--|
T Consensus 21 i~~~~~~al~~~~~~g~~v~iaTGR~~ 47 (264)
T COG0561 21 ISPETKEALARLREKGVKVVLATGRPL 47 (264)
T ss_pred cCHHHHHHHHHHHHCCCEEEEECCCCh
Confidence 667888899999999999999999888
No 315
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=26.08 E-value=2e+02 Score=19.06 Aligned_cols=39 Identities=13% Similarity=0.147 Sum_probs=26.8
Q ss_pred HHHHHHhCCCCEEEEec---C-----CC---ccchHHHHHHHHHhHHH-cC
Q psy8530 26 VFMKARERRVPIVMLTS---G-----GY---LKQTARIIADSILNLAD-LG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g---G-----GY---~~d~~~~v~~si~~l~~-~~ 64 (68)
.++.+++++||++++-. + .+ ..|.........++|.+ +|
T Consensus 74 ~l~~~~~~~ipvV~~~~~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~~g 124 (271)
T cd06312 74 AIKRAVAAGIPVISFNAGDPKYKELGALAYVGQDEYAAGEAAGERLAELKG 124 (271)
T ss_pred HHHHHHHCCCeEEEeCCCCCccccccceEEeccChHHHHHHHHHHHHHhcC
Confidence 57888899999998842 1 11 12556677778888887 44
No 316
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=26.00 E-value=1.9e+02 Score=18.82 Aligned_cols=40 Identities=15% Similarity=0.012 Sum_probs=26.6
Q ss_pred HHHHHHHhCCCCEEEEec---CC----CccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTS---GG----YLKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g---GG----Y~~d~~~~v~~si~~l~~~~ 64 (68)
..++.+++.+||++++-. .. ...|.........+.|.++|
T Consensus 69 ~~~~~~~~~~ipvv~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 115 (268)
T cd01575 69 RTRQLLRAAGIPVVEIMDLPPDPIDMAVGFSHAEAGRAMARHLLARG 115 (268)
T ss_pred HHHHHHHhcCCCEEEEecCCCCCCCCeEEeCcHHHHHHHHHHHHHCC
Confidence 356677888999998731 11 13356667777777887765
No 317
>PRK13493 chemoreceptor glutamine deamidase CheD; Provisional
Probab=25.96 E-value=95 Score=22.23 Aligned_cols=30 Identities=17% Similarity=0.345 Sum_probs=22.8
Q ss_pred HHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
|-+|+ +++.+..++.||||+.- +||-+++.
T Consensus 136 IG~rNi~~a~~~L~~~gI~Iva~DvGG~~gRk 167 (213)
T PRK13493 136 VGEKNVEFVLEYAKREKLNVVAQDLGGAQPRK 167 (213)
T ss_pred HhHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 45665 57889999999999955 57777665
No 318
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=25.96 E-value=1.5e+02 Score=20.24 Aligned_cols=25 Identities=8% Similarity=-0.068 Sum_probs=16.0
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
+..++++.+..+.|+..|.+.+-..
T Consensus 124 ~~~~~d~~~~~~~pvilV~~~~lg~ 148 (231)
T PRK12374 124 LRPLSEWVVQEQLPVLMVVGIQEGC 148 (231)
T ss_pred cccHHHHHHHhCCCEEEEECCCcCh
Confidence 3456666777777777777555544
No 319
>cd00858 GlyRS_anticodon GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=25.89 E-value=71 Score=19.77 Aligned_cols=18 Identities=11% Similarity=0.169 Sum_probs=15.1
Q ss_pred HHHHHHhCCCCEEEEecC
Q psy8530 26 VFMKARERRVPIVMLTSG 43 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gG 43 (68)
-++.|.+.|+|.+.++|.
T Consensus 69 qlk~A~k~g~~~~iiiG~ 86 (121)
T cd00858 69 RYARQDEIGTPFCVTVDF 86 (121)
T ss_pred HHHHhHhcCCCEEEEECc
Confidence 467788899999999984
No 320
>PF04072 LCM: Leucine carboxyl methyltransferase; InterPro: IPR007213 This entry represents a group of leucine carboxymethyltransferases which methylate the carboxyl group of leucine residues to form alpha-leucine ester residues. It includes LCTM1 which regulates the activity of serine/threonine phosphatase 2A (PP2A) through methylation of the C-terminal leucine residue of the catalytic subunit of PP2A [, , ]. This affects the heteromultimeric composition of PP2A which in turn affects protein recognition and substrate specificity. Like many other methyltransferases LCTM1 uses S-adenosylmethionine (SAM) as the methyl donor. LCTM1 contains the common SAM-dependent methyltransferase core fold, with various insertions and additions creating a specific PP2A binding site []. This entry also contains LCTM2, a homologue of LCTM1 which is not necessary for PP2A methylation and whose function is not clear.; GO: 0008168 methyltransferase activity; PDB: 2UYQ_A 2CKD_B 2UYO_A 2ZZK_B 2ZWA_B 2ZW9_B 1RJE_C 2OB2_B 1RJF_A 1RJD_A ....
Probab=25.88 E-value=1.1e+02 Score=20.15 Aligned_cols=39 Identities=15% Similarity=0.066 Sum_probs=23.9
Q ss_pred HHHHHHHH----HHHHHHHHh-CCCCEEEEecCCCccchHHHHH
Q psy8530 16 HLGIIRRD----ELVFMKARE-RRVPIVMLTSGGYLKQTARIIA 54 (68)
Q Consensus 16 ~~Gi~~RD----~~V~~~a~~-~~IPva~v~gGGY~~d~~~~v~ 54 (68)
..|+..|- ..|-+++.+ .++-.++.+|-||.+-..++-.
T Consensus 55 ~~~~~~Rt~~iD~~v~~~i~~~~~~~qvV~LGaGlDTr~~Rl~~ 98 (183)
T PF04072_consen 55 NRGYAARTRYIDDAVREFIAKHPGARQVVNLGAGLDTRAYRLDN 98 (183)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTESEEEEET-TT--HHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHhhccCCCCcEEEEcCCCCCchHHHhhc
Confidence 45677774 455566654 4555899999999877666543
No 321
>PRK13936 phosphoheptose isomerase; Provisional
Probab=25.86 E-value=88 Score=21.22 Aligned_cols=20 Identities=30% Similarity=0.370 Sum_probs=17.0
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
..++.|+++|+|++++.+.+
T Consensus 129 ~~~~~ak~~g~~iI~IT~~~ 148 (197)
T PRK13936 129 QAIQAAHEREMHVVALTGRD 148 (197)
T ss_pred HHHHHHHHCCCeEEEEECCC
Confidence 35789999999999999754
No 322
>KOG2120|consensus
Probab=25.84 E-value=57 Score=25.79 Aligned_cols=52 Identities=15% Similarity=0.216 Sum_probs=43.6
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEE-EEecCCCccchHHHHHHHHHhHHHcC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIV-MLTSGGYLKQTARIIADSILNLADLG 64 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva-~v~gGGY~~d~~~~v~~si~~l~~~~ 64 (68)
+||.||+.-=|-.|-..|+..+.--. ..|.-|+..+..+++-.|-..|.|-+
T Consensus 214 ~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LN 266 (419)
T KOG2120|consen 214 NLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDELN 266 (419)
T ss_pred hccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhcC
Confidence 57889999999999999999887544 67789999999999988888877754
No 323
>TIGR01012 Sa_S2_E_A ribosomal protein Sa(cytosolic)/S2(archaeal). TIGR01011 describes the related protein of organelles and bacteria.
Probab=25.79 E-value=57 Score=23.02 Aligned_cols=21 Identities=38% Similarity=0.528 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHhCCCCEEEEe
Q psy8530 21 RRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~ 41 (68)
..|...+..|.+.|||+.++.
T Consensus 118 ~~~~~Av~EA~~l~IP~Iai~ 138 (196)
T TIGR01012 118 RADHQALKEASEVGIPIVALC 138 (196)
T ss_pred ccccHHHHHHHHcCCCEEEEe
Confidence 356777889999999999886
No 324
>PRK10892 D-arabinose 5-phosphate isomerase; Provisional
Probab=25.74 E-value=90 Score=22.30 Aligned_cols=33 Identities=12% Similarity=0.111 Sum_probs=23.4
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+.+|..|=-+-=.-.++.|+++|+|++++.+..
T Consensus 99 I~iS~sG~t~~~~~~~~~ak~~g~~vi~iT~~~ 131 (326)
T PRK10892 99 IAISNSGESSEILALIPVLKRLHVPLICITGRP 131 (326)
T ss_pred EEEeCCCCCHHHHHHHHHHHHCCCcEEEEECCC
Confidence 344544533444557899999999999998865
No 325
>PF01867 Cas_Cas1: CRISPR associated protein Cas1; InterPro: IPR002729 Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) are a family of DNA direct repeats separated by regularly sized non-repetitive spacer sequences that are found in most bacterial and archaeal genomes []. CRISPRs appear to provide acquired resistance against bacteriophages, possibly acting with an RNA interference-like mechanism to inhibit gene functions of invasive DNA elements [, ]. Differences in the number and type of spacers between CRISPR repeats correlate with phage sensitivity. It is thought that following phage infection, bacteria integrate new spacers derived from phage genomic sequences, and that the removal or addition of particular spacers modifies the phage-resistance phenotype of the cell. Therefore, the specificity of CRISPRs may be determined by spacer-phage sequence similarity. In addition, there are many protein families known as CRISPR-associated sequences (Cas), which are encoded in the vicinity of CRISPR loci []. CRISPR/cas gene regions can be quite large, with up to 20 different, tandem-arranged cas genes next to a CRISPR cluster or filling the region between two repeat clusters. Cas genes and CRISPRs are found on mobile genetic elements such as plasmids, and have undergone extensive horizontal transfer. Cas proteins are thought to be involved in the propagation and functioning of CRISPRs. Some Cas proteins show similarity to helicases and repair proteins, although the functions of most are unknown. Cas families can be divided into subtypes according to operon organisation and phylogeny. This entry represents Cas1, which is a metal-dependent DNA-specific endonuclease []. Cas1 may play a role in the recognition, cleavage, and/or integration of foreign nucleic acids into CRISPRs.; PDB: 2YZS_A 3LFX_D 3PV9_E 3NKE_C 3NKD_A 3GOD_D.
Probab=25.72 E-value=64 Score=22.88 Aligned_cols=21 Identities=19% Similarity=0.344 Sum_probs=16.3
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
.++.+|.++||||++.=..|.
T Consensus 49 ~ai~~l~~~gI~v~~~~~~G~ 69 (282)
T PF01867_consen 49 AAIRLLSKNGIPVVFLDRRGR 69 (282)
T ss_dssp HHHHHHHHTT-EEEEESTTSE
T ss_pred HHHHHHHHCCCcEEEeCCCCC
Confidence 368899999999998876664
No 326
>PF04413 Glycos_transf_N: 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); InterPro: IPR007507 This is a domain found in proteins that transfer activated sugars to a variety of substrates, including glycogen, fructose-6-phosphate and lipopolysaccharides. Proteins bearing this domain transfer UDP, ADP, GDP or CMP linked sugars. This region is flanked at the N terminus by a signal peptide and at the C terminus by a glycosyl transferase group 1 domain (IPR001296 from INTERPRO). The eukaryotic glycogen synthases may be distant members of this bacterial family [].; GO: 0005529 sugar binding, 0016740 transferase activity, 0005975 carbohydrate metabolic process; PDB: 2XCI_A 2XCU_B.
Probab=25.68 E-value=51 Score=22.39 Aligned_cols=17 Identities=24% Similarity=0.704 Sum_probs=8.1
Q ss_pred HHHHHHhCCCCEEEEec
Q psy8530 26 VFMKARERRVPIVMLTS 42 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g 42 (68)
.+..|+++|||++.+=|
T Consensus 110 ll~~a~~~~ip~~LvNa 126 (186)
T PF04413_consen 110 LLREAKRRGIPVVLVNA 126 (186)
T ss_dssp HHHH-----S-EEEEEE
T ss_pred HHHHHhhcCCCEEEEee
Confidence 57889999999987743
No 327
>PF00665 rve: Integrase core domain; InterPro: IPR001584 Integrase comprises three domains capable of folding independently and whose three-dimensional structures are known. However, the manner in which the N-terminal, catalytic, and C-terminal domains interact in the holoenzyme remains obscure. Numerous studies indicate that the enzyme functions as a multimer, minimally a dimer. The integrase proteins from Human immunodeficiency virus 1 (HIV-1) and Avian sarcoma virus (ASV) have been studied most carefully with respect to the structural basis of catalysis. Although the active site of ASV integrase does not undergo significant conformational changes on binding the required metal cofactor, that of HIV-1 does. This active site-mediated conformational change in HIV-1 reorganises the catalytic core and C-terminal domains and appears to promote an interaction that is favourable for catalysis []. Retroviral integrase is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. The presence of retrovirus integrase-related gene sequences in eukaryotes is known. Bacterial transposases involved in the transposition of the insertion sequence also belong to this group. HIV integrase catalyses the incorporation of virally derived DNA into the human genome. This unique step in the virus life cycle provides a variety of points for intervention and hence is an attractive target for the development of new therapeutics for the treatment of AIDS []. Substrate recognition by the retroviral integrase enzyme is critical for retroviral integration. To catalyse this recombination event, integrase must recognise and act on two types of substrates, viral DNA and host DNA, yet the necessary interactions exhibit markedly different degrees of specificity [].; GO: 0015074 DNA integration; PDB: 3AO3_A 3OVN_A 3AO5_A 3AO4_A 3AO1_A 1C6V_D 3HPG_A 3HPH_A 3OYD_A 3OYF_B ....
Probab=25.63 E-value=89 Score=18.20 Aligned_cols=47 Identities=11% Similarity=-0.054 Sum_probs=34.3
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
|+.|-.-....+-++|++++ +...+.--|++.....++++...+.++
T Consensus 73 tD~g~~f~~~~~~~~~~~~~--i~~~~~~~~~p~~ng~vEr~~~~l~~~ 119 (120)
T PF00665_consen 73 TDNGSEFTSHAFEAWCKHLG--IKHVFTPPYTPQQNGFVERFNRTLKRR 119 (120)
T ss_dssp EESCHHHHSHHHHHHHHHHT---EEEESSTSSTHHHHHHHHHHHHHHHH
T ss_pred cccccccccchhhhHHHHcC--ceEeeCCCCChhhccHHHHHHHHHHHh
Confidence 44444445557778888888 456677788888888999998888764
No 328
>cd05013 SIS_RpiR RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate isomerases that catalyze the reversible reactions of ribose 5-phosphate into ribulose 5-phosphate.
Probab=25.42 E-value=77 Score=18.74 Aligned_cols=20 Identities=20% Similarity=0.212 Sum_probs=16.1
Q ss_pred HHHHHHHHhCCCCEEEEecC
Q psy8530 24 ELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gG 43 (68)
....+.|+++|+|++.+.+-
T Consensus 77 ~~~~~~a~~~g~~iv~iT~~ 96 (139)
T cd05013 77 VEAAEIAKERGAKVIAITDS 96 (139)
T ss_pred HHHHHHHHHcCCeEEEEcCC
Confidence 44678999999999887763
No 329
>PRK15469 ghrA bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional
Probab=25.42 E-value=74 Score=23.39 Aligned_cols=34 Identities=18% Similarity=0.216 Sum_probs=25.5
Q ss_pred HHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 30 ARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 30 a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
+..++||+...-+||++...++.+-..|.++..+
T Consensus 80 ~~~~~i~v~~~~~~~~~~~vAE~~l~~~L~~~r~ 113 (312)
T PRK15469 80 MLDPSVPLFRLEDTGMGEQMQEYAVSQVLHWFRR 113 (312)
T ss_pred cCCCCceEEEecCCcccHHHHHHHHHHHHHHHcC
Confidence 4458999998888888888777777677766544
No 330
>cd05567 PTS_IIB_mannitol PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIA, IIB, and IIC domains are expressed from the mtlA gene as a single protein, also known as the mannitol PTS permease, the mtl transporter, or MtlA. MtlA is only functional as a dimer with the dimer contacts occuring between the IIC domains. MtlA takes up exogenous mannitol releasing the phosphate ester into the cytoplasm in preparation for oxidation to fructose-6-phosphate by the NAD-dependent mannitol-P dehydrogenase (MtlD). The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include mannitol, chitobiose/lichenan, ascorbate, lactose, galactitol, fructose, and a s
Probab=25.41 E-value=1.5e+02 Score=17.31 Aligned_cols=27 Identities=15% Similarity=0.044 Sum_probs=20.4
Q ss_pred EEEEecCCCccchHHHHHHHHHhHHHcCC
Q psy8530 37 IVMLTSGGYLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 37 va~v~gGGY~~d~~~~v~~si~~l~~~~~ 65 (68)
++++-|.|++. ..+++..|++.+++..
T Consensus 3 ilvvCg~G~gt--S~ml~~ki~~~~~~~~ 29 (87)
T cd05567 3 IVFACDAGMGS--SAMGASVLRKKLKKAG 29 (87)
T ss_pred EEEECCCCccH--HHHHHHHHHHHHHHCC
Confidence 56777899965 6678888988887643
No 331
>TIGR00506 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase. Several members of the family are bifunctional, involving both ribA and ribB function. In these cases, ribA tends to be on the C-terminal end of the protein and ribB tends to be on the N-terminal.
Probab=25.40 E-value=26 Score=24.87 Aligned_cols=25 Identities=12% Similarity=0.276 Sum_probs=18.8
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
+.+|=..|-....++|+++++|+..
T Consensus 167 ~~dG~m~~~~~~~~fA~~~~l~~is 191 (199)
T TIGR00506 167 NDDGTMARKPELMEYAKKHNLKLIS 191 (199)
T ss_pred CCCCCccCHHHHHHHHHHcCCcEEE
Confidence 3456566667788999999999864
No 332
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=25.40 E-value=2e+02 Score=18.71 Aligned_cols=39 Identities=18% Similarity=0.167 Sum_probs=25.5
Q ss_pred HHHHHHHhCCCCEEEEec---CCC-----ccchHHHHHHHHHhHHHc
Q psy8530 25 LVFMKARERRVPIVMLTS---GGY-----LKQTARIIADSILNLADL 63 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g---GGY-----~~d~~~~v~~si~~l~~~ 63 (68)
-.++.+++.++|++++-. +++ ..|.........++|.++
T Consensus 71 ~~l~~l~~~~ipvv~~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~ 117 (268)
T cd06323 71 PAVKAANEAGIPVFTIDREANGGEVVSQIASDNVAGGKMAAEYLVKL 117 (268)
T ss_pred HHHHHHHHCCCcEEEEccCCCCCceEEEEccCcHHHHHHHHHHHHHH
Confidence 467778889999998853 221 134455566677777765
No 333
>PRK11230 glycolate oxidase subunit GlcD; Provisional
Probab=25.40 E-value=83 Score=24.68 Aligned_cols=21 Identities=24% Similarity=0.343 Sum_probs=16.4
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++++|.++++|++ .-|||.+
T Consensus 70 ~iv~~a~~~~ipv~-~rG~Gt~ 90 (499)
T PRK11230 70 ALLAVCHRLRVPVV-ARGAGTG 90 (499)
T ss_pred HHHHHHHHcCCeEE-EECCCcC
Confidence 57899999999995 4666654
No 334
>PF05343 Peptidase_M42: M42 glutamyl aminopeptidase; InterPro: IPR008007 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M42 (glutamyl aminopeptidase family, clan MH). For members of this family and family M28 the predicted metal ligands occur in the same order in the sequence: H, D, E, D/E, H; and the active site residues occur in the motifs HXD and EE. ; PDB: 2WYR_C 2CF4_A 1VHO_A 3ISX_A 3KL9_G 1YLO_F 3CPX_C 1VHE_A 2GRE_F 1XFO_A ....
Probab=25.31 E-value=1.4e+02 Score=21.88 Aligned_cols=26 Identities=23% Similarity=0.267 Sum_probs=17.2
Q ss_pred HHHHHHHHhCCCCEEE-EecCCCccchH
Q psy8530 24 ELVFMKARERRVPIVM-LTSGGYLKQTA 50 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~-v~gGGY~~d~~ 50 (68)
+++.+.|++.+||.-. ++.+|. .|..
T Consensus 227 ~~l~~~A~~~~Ip~Q~~~~~~gg-TDa~ 253 (292)
T PF05343_consen 227 DKLREIAEENGIPYQREVFSGGG-TDAG 253 (292)
T ss_dssp HHHHHHHHHTT--EEEEEESSSS-STHH
T ss_pred HHHHHHHHHcCCCeEEEecCCcc-cHHH
Confidence 4688999999999998 555444 4544
No 335
>TIGR00287 cas1 CRISPR-associated endonuclease Cas1. This model identifies CRISPR-associated protein Cas1, the most universal CRISPR system protein. CRISPR is an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, a system for heritable host defense by prokaryotic cells against phage and other foreign DNA. Cas1 is a metal-dependent DNA-specific endonuclease.
Probab=25.30 E-value=71 Score=23.26 Aligned_cols=19 Identities=26% Similarity=0.442 Sum_probs=16.2
Q ss_pred HHHHHHhCCCCEEEEecCC
Q psy8530 26 VFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGG 44 (68)
++..|.++||||++.-+.|
T Consensus 50 ~l~~l~~~~I~v~f~~~~g 68 (323)
T TIGR00287 50 AIRELAKRGIDIVFLGGDG 68 (323)
T ss_pred HHHHHHHCCCeEEEECCCC
Confidence 6788999999999887666
No 336
>PRK07574 formate dehydrogenase; Provisional
Probab=25.24 E-value=73 Score=24.42 Aligned_cols=39 Identities=21% Similarity=0.260 Sum_probs=26.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|.+-++.|+++||+|+-+ .|..+...++.+-..+..+..
T Consensus 126 D~id~~aa~~~gI~V~n~-~g~~a~~VAE~al~l~L~l~R 164 (385)
T PRK07574 126 DHVDLQAASEHGITVAEV-TGSNSISVAEHVVMMILALVR 164 (385)
T ss_pred ccccHHHHHHCCcEEEcC-CCCchHHHHHHHHHHHHHHHc
Confidence 566788999999999887 455556666655555555443
No 337
>COG0528 PyrH Uridylate kinase [Nucleotide transport and metabolism]
Probab=25.21 E-value=1.2e+02 Score=22.27 Aligned_cols=24 Identities=17% Similarity=0.223 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 21 RRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+|=.-.+....+.++-|+.|+|||
T Consensus 31 ~~~a~~i~~~~~~g~eV~iVvGGG 54 (238)
T COG0528 31 DRIANEIKELVDLGVEVAVVVGGG 54 (238)
T ss_pred HHHHHHHHHHHhcCcEEEEEECCC
Confidence 444445566666799999999998
No 338
>PF01113 DapB_N: Dihydrodipicolinate reductase, N-terminus; InterPro: IPR000846 Dihydrodipicolinate reductase catalyzes the second step in the biosynthesis of diaminopimelic acid and lysine, the NAD or NADP-dependent reduction of 2,3-dihydrodipicolinate into 2,3,4,5-tetrahydrodipicolinate [, , ]. In Escherichia coli and Mycobacterium tuberculosis, dihydrodipicolinate reductase has equal specificity for NADH and NADPH, however in Thermotoga maritima there it has a greater affinity for NADPH []. In addition, the enzyme is inhibited by high concentrations of its substrate, which consequently acts as a feedback control on the lysine biosynthesis pathway. In T. maritima, the enzyme also lacks N-terminal and C-terminal loops which are present in enzyme of the former two organisms. This entry represents the N-terminal domain of dihydrodipicolinate reductase which binds the dinucleotide NAD(P)H.; GO: 0008839 dihydrodipicolinate reductase activity, 0009089 lysine biosynthetic process via diaminopimelate, 0055114 oxidation-reduction process; PDB: 3QY9_D 1VM6_C 1ARZ_A 1DIH_A 1DRW_A 1DRV_A 1DRU_A 2DAP_A 1DAP_B 3DAP_A ....
Probab=25.15 E-value=44 Score=21.00 Aligned_cols=25 Identities=28% Similarity=0.195 Sum_probs=16.0
Q ss_pred HHHHHHhCCCCEEEEecCCCccchH
Q psy8530 26 VFMKARERRVPIVMLTSGGYLKQTA 50 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~d~~ 50 (68)
.++.|.++++|+++-.-|-...+.+
T Consensus 83 ~~~~~~~~g~~~ViGTTG~~~~~~~ 107 (124)
T PF01113_consen 83 NLEYALKHGVPLVIGTTGFSDEQID 107 (124)
T ss_dssp HHHHHHHHT-EEEEE-SSSHHHHHH
T ss_pred HHHHHHhCCCCEEEECCCCCHHHHH
Confidence 5778888899999877665433333
No 339
>PRK12337 2-phosphoglycerate kinase; Provisional
Probab=25.14 E-value=1.6e+02 Score=23.74 Aligned_cols=40 Identities=15% Similarity=0.125 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 18 GIIRRDELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
-|+.=..+.++.|++++||+. .+.|.+.++...++.+.++
T Consensus 423 ~IR~IQdyLv~~A~~~~ipvI------~n~nid~tv~~~l~~i~~~ 462 (475)
T PRK12337 423 EIRLIQDHLLRLARQEGVPVL------PGEDLDESIDKALEVVLRR 462 (475)
T ss_pred HHHHHHHHHHHHHHHcCCCee------cCccHHHHHHHHHHHHHHH
Confidence 344445678899999999996 6778888888777766654
No 340
>PLN02743 nicotinamidase
Probab=25.14 E-value=1.3e+02 Score=21.51 Aligned_cols=25 Identities=12% Similarity=0.218 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
+.+..+=..+++.|+++++||+.+-
T Consensus 57 ~~iv~~i~~Ll~~aR~~g~pVI~~~ 81 (239)
T PLN02743 57 SKMVDESARLAREFCERKWPVLAFL 81 (239)
T ss_pred HHHHHHHHHHHHHHHHCCCeEEEEe
Confidence 4577788889999999999999873
No 341
>PRK10736 hypothetical protein; Provisional
Probab=25.12 E-value=1.9e+02 Score=22.38 Aligned_cols=31 Identities=16% Similarity=0.221 Sum_probs=23.0
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC----ccchHHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY----LKQTARII 53 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY----~~d~~~~v 53 (68)
|..--+.|.+.+-|+++|+|+|- .+++..+.
T Consensus 149 D~~AH~~aL~~~g~TIaVlg~Gld~~YP~~n~~L~ 183 (374)
T PRK10736 149 DGVAHRAALQAGGKTIAVLGNGLENIYPRRHARLA 183 (374)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCCccCCHhHHHHH
Confidence 66667778889899999999995 44444443
No 342
>cd03109 DTBS Dethiobiotin synthetase (DTBS) is the penultimate enzyme in the biotin biosynthesis pathway in Escherichia coli and other microorganisms. The enzyme catalyzes formation of the ureido ring of dethiobiotin from (7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon dioxide. The enzyme utilizes carbon dioxide instead of hydrogen carbonate as substrate and is dependent on ATP and divalent metal ions as cofactors.
Probab=25.11 E-value=1.3e+02 Score=18.90 Aligned_cols=21 Identities=10% Similarity=0.025 Sum_probs=9.4
Q ss_pred HHHHHHhCCCCEEEEecCCCc
Q psy8530 26 VFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~ 46 (68)
.++.++.+|+++..++.--|.
T Consensus 88 ~~~~l~~~g~~i~gvi~N~~~ 108 (134)
T cd03109 88 TIEAARIKGIILNGVLGNVIV 108 (134)
T ss_pred HHHHHHhcCCceeEEEEccCC
Confidence 334444444444444444433
No 343
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=24.90 E-value=72 Score=22.09 Aligned_cols=17 Identities=24% Similarity=0.684 Sum_probs=13.9
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
-+++.+++.+|||+++=
T Consensus 73 ~~~~~~~~~giPvV~~~ 89 (303)
T cd01539 73 TVINKAKQKNIPVIFFN 89 (303)
T ss_pred HHHHHHHHCCCCEEEeC
Confidence 46788889999998863
No 344
>TIGR03639 cas1_NMENI CRISPR-associated endonuclease Cas1, NMENI subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is a prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 variant of the NMENI subtype of CRISPR/Cas system.
Probab=24.85 E-value=74 Score=23.03 Aligned_cols=20 Identities=5% Similarity=0.174 Sum_probs=17.0
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.|.++||||+++-..|
T Consensus 50 ~~l~~l~~~~I~v~f~~~~G 69 (278)
T TIGR03639 50 ALLSALAENNIALIFCDEKH 69 (278)
T ss_pred HHHHHHHHCCCeEEEECCCC
Confidence 36889999999999887666
No 345
>KOG1706|consensus
Probab=24.81 E-value=49 Score=26.05 Aligned_cols=25 Identities=8% Similarity=0.199 Sum_probs=21.0
Q ss_pred HHHHHHHhCCCCEEEEecCCCccch
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
-.++.|+++||||..+---=|+.|.
T Consensus 160 Dl~eYakq~giPvpvT~k~pwsmDe 184 (412)
T KOG1706|consen 160 DLLEYAKQHGIPVPVTPKNPWSMDE 184 (412)
T ss_pred HHHHHHHhcCCCccccCCCCccccc
Confidence 4679999999999998888887764
No 346
>PLN02587 L-galactose dehydrogenase
Probab=24.81 E-value=73 Score=22.74 Aligned_cols=22 Identities=14% Similarity=0.146 Sum_probs=17.5
Q ss_pred HHHHHHHHhCCCCEEE--EecCCC
Q psy8530 24 ELVFMKARERRVPIVM--LTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~--v~gGGY 45 (68)
+-++++|+++||++.+ .++||.
T Consensus 188 ~~ll~~~~~~gi~v~a~spl~~G~ 211 (314)
T PLN02587 188 EDLLPYLKSKGVGVISASPLAMGL 211 (314)
T ss_pred HHHHHHHHHcCceEEEechhhccc
Confidence 4699999999999985 456663
No 347
>cd00859 HisRS_anticodon HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is transferred to a ribose 3' OH group of the appropriate tRNA only.
Probab=24.71 E-value=91 Score=16.95 Aligned_cols=19 Identities=11% Similarity=0.076 Sum_probs=15.9
Q ss_pred HHHHHHHhCCCCEEEEecC
Q psy8530 25 LVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG 43 (68)
.-++.|...++|.+.++|.
T Consensus 42 ~~~~~a~~~~~~~~i~i~~ 60 (91)
T cd00859 42 KQFKYADRSGARFAVILGE 60 (91)
T ss_pred HHHHHHHHcCCCEEEEEcH
Confidence 4577889999999999984
No 348
>cd01293 Bact_CD Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi, but not mammalian cells. The bacterial enzymes, but not the fungal enzymes, are related to the adenosine deaminases (ADA). The bacterial enzymes are iron dependent and hexameric.
Probab=24.71 E-value=2.5e+02 Score=19.84 Aligned_cols=40 Identities=15% Similarity=0.122 Sum_probs=23.6
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADLGL 65 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~~ 65 (68)
.+++.|+++|+|+.+=++..-. +....++..+..+.+.++
T Consensus 193 ~~~~~A~~~g~~v~~H~~e~~~-~~~~~~~~~~~~~~~~g~ 232 (398)
T cd01293 193 TLFELAQEHGLDIDLHLDETDD-PGSRTLEELAEEAERRGM 232 (398)
T ss_pred HHHHHHHHhCCCCEEEeCCCCC-cchhHHHHHHHHHHHhCC
Confidence 4788899999999877753322 222334444555544443
No 349
>PF06293 Kdo: Lipopolysaccharide kinase (Kdo/WaaP) family; InterPro: IPR010440 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This entry represents lipopolysaccharide kinases which are related to protein kinases IPR000719 from INTERPRO. This family includes waaP (rfaP) gene product is required for the addition of phosphate to O-4 of the first heptose residue of the lipopolysaccharide (LPS) inner core region. It has previously been shown that WaaP is necessary for resistance to hydrophobic and polycationic antimicrobials in E. coli and that it is required for virulence in invasive strains of Salmonella enterica [].; GO: 0005524 ATP binding, 0016773 phosphotransferase activity, alcohol group as acceptor, 0009103 lipopolysaccharide biosynthetic process, 0016020 membrane
Probab=24.62 E-value=58 Score=21.86 Aligned_cols=27 Identities=19% Similarity=0.158 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
..|.-.-+..+++.|||+...++-|+.
T Consensus 58 a~~E~~~~~~L~~~Gi~tP~pva~~~~ 84 (206)
T PF06293_consen 58 AKREWRNLQRLREAGIPTPEPVAYGER 84 (206)
T ss_pred HHHHHHHHHHHHHcCCCCCcEEEEEEE
Confidence 467777888999999999888766655
No 350
>COG3981 Predicted acetyltransferase [General function prediction only]
Probab=24.58 E-value=1.7e+02 Score=20.70 Aligned_cols=22 Identities=32% Similarity=0.353 Sum_probs=18.4
Q ss_pred HHHHHHHHhCCCCEEEEecCCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY 45 (68)
++.++.|++.||+-|+|..=.=
T Consensus 120 kl~L~~ar~lgi~~Vlvtcd~d 141 (174)
T COG3981 120 KLALEKARELGIKKVLVTCDKD 141 (174)
T ss_pred HHHHHHHHHcCCCeEEEEeCCC
Confidence 5789999999999999986443
No 351
>PLN02928 oxidoreductase family protein
Probab=24.43 E-value=80 Score=23.51 Aligned_cols=40 Identities=15% Similarity=0.169 Sum_probs=26.6
Q ss_pred HHHHHHHHHhCCCCEEEEec--CCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTS--GGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~g--GGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|.++||+|+-+-| +|+....++.+-..+..+..
T Consensus 94 d~id~~~~~~~gi~v~n~~~~~~~~~~~vAE~av~l~L~~~R 135 (347)
T PLN02928 94 EGVDVDAATKHGIKVARIPSEGTGNAASCAEMAIYLMLGLLR 135 (347)
T ss_pred CcCcHHHHHhCCCEEEECCCCCCcChHHHHHHHHHHHHHHHh
Confidence 45667889999999988764 34666666655555555443
No 352
>PRK06932 glycerate dehydrogenase; Provisional
Probab=24.43 E-value=1e+02 Score=22.63 Aligned_cols=38 Identities=13% Similarity=0.210 Sum_probs=24.0
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLA 61 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~ 61 (68)
|..-++.|+++||+|+-+ .|.++...++.+-..+..+.
T Consensus 77 d~id~~~~~~~gI~v~n~-~g~~~~~vAE~~i~l~l~~~ 114 (314)
T PRK06932 77 NNVDLVAAKELGIAVKNV-TGYSSTTVPEHVLGMIFALK 114 (314)
T ss_pred cccCHHHHHhCCCEEEeC-CCCChhHHHHHHHHHHHHHH
Confidence 445677899999998665 45555666655544444443
No 353
>KOG1575|consensus
Probab=24.41 E-value=60 Score=24.88 Aligned_cols=22 Identities=23% Similarity=0.383 Sum_probs=17.3
Q ss_pred HHHHHHhCCCCEEE-------EecCCCcc
Q psy8530 26 VFMKARERRVPIVM-------LTSGGYLK 47 (68)
Q Consensus 26 V~~~a~~~~IPva~-------v~gGGY~~ 47 (68)
+..+|++.||++++ .+.|.|..
T Consensus 202 i~~~c~~~Gi~li~ysPL~~G~Ltgk~~~ 230 (336)
T KOG1575|consen 202 IIPLCRELGIGLIAWSPLGRGLLTGKYKL 230 (336)
T ss_pred HHHHHHHcCcceEEecccccceeccCccc
Confidence 89999999999985 35566653
No 354
>PF09021 HutP: HutP; InterPro: IPR015111 The HutP protein family regulates the expression of Bacillus 'hut' structural genes by an anti-termination complex, which recognises three UAG triplet units, separated by four non-conserved nucleotides on the RNA terminator region. L-histidine and Mg2+ ions are also required. These proteins exhibit the structural elements of alpha/beta proteins, arranged in the order: alpha-alpha-beta-alpha-alpha-beta-beta-beta in the primary structure, and the four antiparallel beta-strands form a beta-sheet in the order beta1-beta2-beta3-beta4, with two alpha-helices each on the front (alpha1 and alpha2) and at the back (alpha3 and alpha4) of the beta-sheet []. ; PDB: 2ZH0_J 1WPS_A 1VEA_B 1WPV_B 1WRQ_A 1WRN_A 1WPT_A 1WPU_B 3BOY_B 1WMQ_B ....
Probab=24.37 E-value=2.2e+02 Score=18.87 Aligned_cols=42 Identities=12% Similarity=0.376 Sum_probs=25.6
Q ss_pred HHHHHHhCCCCEEEEe-cCCCccchHHHHHHHHHhHHHcCCcC
Q psy8530 26 VFMKARERRVPIVMLT-SGGYLKQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 26 V~~~a~~~~IPva~v~-gGGY~~d~~~~v~~si~~l~~~~~~~ 67 (68)
+-+..++.|+..+++- ||=|.+....++++.+..=++.+.|+
T Consensus 21 lk~~~~~~g~k~~a~~vGG~~~~~~~Kiv~s~v~AA~r~gVI~ 63 (130)
T PF09021_consen 21 LKKKLKKKGIKVAAVDVGGMFIESIQKIVESAVVAAKRNGVIE 63 (130)
T ss_dssp HHHH-HHTTEEEEEEEEEES----HHHHHHHHHHHHHHTTSS-
T ss_pred HHHHHhhcCceEEEEEecccccccHHHHHHHHHHHHHHcCCcc
Confidence 3444578899999887 66666667777776666666667665
No 355
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=24.33 E-value=90 Score=20.29 Aligned_cols=18 Identities=22% Similarity=0.301 Sum_probs=14.7
Q ss_pred HHHHHHHHhCCCCEEEEe
Q psy8530 24 ELVFMKARERRVPIVMLT 41 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~ 41 (68)
..+-..|..++||++.|-
T Consensus 60 ~~l~~lc~~~~vpyv~V~ 77 (116)
T COG1358 60 KHLPALCEEKNVPYVYVG 77 (116)
T ss_pred HHHHHHHHhcCCCEEEeC
Confidence 356778999999999874
No 356
>COG4770 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]
Probab=24.31 E-value=69 Score=26.83 Aligned_cols=19 Identities=26% Similarity=0.188 Sum_probs=16.7
Q ss_pred HHHHHHHHhCCCCEEEEec
Q psy8530 24 ELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g 42 (68)
..|+.+|++.||+.++|.+
T Consensus 15 cRVIRtar~lGi~tVAVYS 33 (645)
T COG4770 15 CRVIRTARDLGIRTVAVYS 33 (645)
T ss_pred HHHHHHHHHcCCceEEEEe
Confidence 3599999999999999965
No 357
>PF03102 NeuB: NeuB family; InterPro: IPR013132 NeuB is the prokaryotic N-acetylneuraminic acid synthase (Neu5Ac). It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family []. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.; GO: 0016051 carbohydrate biosynthetic process; PDB: 3G8R_B 1XUU_A 1XUZ_A 3CM4_A 2ZDR_A 1VLI_A 2WQP_A.
Probab=24.30 E-value=96 Score=22.31 Aligned_cols=32 Identities=13% Similarity=0.151 Sum_probs=21.4
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccchHHHHHH
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQTARIIAD 55 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~ 55 (68)
.-.++.+.+.|.||....|+..-.++++.+..
T Consensus 103 ~~lL~~~A~tgkPvIlSTG~stl~EI~~Av~~ 134 (241)
T PF03102_consen 103 LPLLEYIAKTGKPVILSTGMSTLEEIERAVEV 134 (241)
T ss_dssp HHHHHHHHTT-S-EEEE-TT--HHHHHHHHHH
T ss_pred HHHHHHHHHhCCcEEEECCCCCHHHHHHHHHH
Confidence 44678888899999999999998888776554
No 358
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=24.30 E-value=69 Score=21.92 Aligned_cols=16 Identities=25% Similarity=0.360 Sum_probs=13.5
Q ss_pred HHHHHHhCCCCEEEEe
Q psy8530 26 VFMKARERRVPIVMLT 41 (68)
Q Consensus 26 V~~~a~~~~IPva~v~ 41 (68)
+++.+++.+||++++-
T Consensus 73 ~l~~~~~~giPvV~~~ 88 (302)
T TIGR02637 73 ALKKAMKRGIKVVTWD 88 (302)
T ss_pred HHHHHHHCCCEEEEeC
Confidence 5788899999999875
No 359
>PRK10949 protease 4; Provisional
Probab=24.28 E-value=51 Score=26.89 Aligned_cols=14 Identities=29% Similarity=0.401 Sum_probs=11.1
Q ss_pred HHHhCCCCEEEEec
Q psy8530 29 KARERRVPIVMLTS 42 (68)
Q Consensus 29 ~a~~~~IPva~v~g 42 (68)
.+++.+.||++.||
T Consensus 391 ~~r~~gKPVvas~~ 404 (618)
T PRK10949 391 AARAAGKPVVVSMG 404 (618)
T ss_pred HHHhcCCcEEEEEC
Confidence 35677899999886
No 360
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=24.27 E-value=2.2e+02 Score=20.79 Aligned_cols=36 Identities=14% Similarity=0.264 Sum_probs=22.5
Q ss_pred HHHHH-hCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 27 FMKAR-ERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 27 ~~~a~-~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
.+.++ +.++|+..+-..||..+...=.......|.+
T Consensus 97 ~~~~~~~~~~~vi~v~~~gf~~~~~~G~~~a~~~l~~ 133 (398)
T PF00148_consen 97 ARELQEEYGIPVIPVHTPGFSGSYSQGYDAALRALAE 133 (398)
T ss_dssp HHHHHHHHSSEEEEEE--TTSSSHHHHHHHHHHHHHH
T ss_pred HHHhhcccCCcEEEEECCCccCCccchHHHHHHHHHh
Confidence 33344 4589999999999977776655555555544
No 361
>cd01894 EngA1 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.
Probab=24.14 E-value=1.2e+02 Score=18.08 Aligned_cols=22 Identities=18% Similarity=0.397 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHhCCCCEEEEec
Q psy8530 21 RRDELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~g 42 (68)
..+..+++++++.++|+++++-
T Consensus 92 ~~~~~~~~~~~~~~~piiiv~n 113 (157)
T cd01894 92 PADEEIAKYLRKSKKPVILVVN 113 (157)
T ss_pred ccHHHHHHHHHhcCCCEEEEEE
Confidence 4456778888888999998873
No 362
>TIGR03640 cas1_DVULG CRISPR-associated endonuclease Cas1, DVULG subtype. The CRISPR-associated protein Cas1 is virtually universal to CRISPR systems. CRISPR, an acronym for Clustered Regularly Interspaced Short Palindromic Repeats, is prokaryotic immunity system for foreign DNA, mostly from phage. CRISPR systems belong to different subtypes, distinguished by both nature of the repeats, the makeup of the cohort of associated Cas proteins, and by molecular phylogeny within the more universal Cas proteins such as this one. This model is of type EXCEPTION and provides more specific information than the EQUIVALOG model TIGR00287. It describes the Cas1 protein particular to the DVULG subtype of CRISPR/Cas system.
Probab=24.13 E-value=74 Score=23.58 Aligned_cols=20 Identities=25% Similarity=0.531 Sum_probs=16.5
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-++.+|.++||||++.-..|
T Consensus 53 ~al~~l~~~~I~v~f~~~~G 72 (340)
T TIGR03640 53 FLMGRCAEDGISLVFLTENG 72 (340)
T ss_pred HHHHHHHHCCCEEEEECCCC
Confidence 36789999999999887555
No 363
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=24.11 E-value=32 Score=24.83 Aligned_cols=24 Identities=21% Similarity=0.246 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
++|=..|-..+.++|+++++|+..
T Consensus 167 ~dG~mar~~~~~~fa~~h~l~~it 190 (203)
T COG0108 167 DDGTMARLPELEEFAKEHGLPVIT 190 (203)
T ss_pred CCccccChHHHHHHHHHcCCcEEE
Confidence 356666777789999999999974
No 364
>cd04252 AAK_NAGK-fArgBP AAK_NAGK-fArgBP: N-Acetyl-L-glutamate kinase (NAGK) of the fungal arginine-biosynthetic pathway (fArgBP). The nuclear-encoded, mitochondrial polyprotein precursor with an N-terminal NAGK (ArgB) domain (this CD), a central DUF619 domain, and a C-terminal reductase domain (ArgC, N-Acetylglutamate Phosphate Reductase, NAGPR). The precursor is cleaved in the mitochondria into two distinct enzymes (NAGK-DUF619 and NAGPR). Native molecular weights of these proteins indicate that the kinase is an octamer whereas the reductase is a dimer. This CD also includes some gamma-proteobacteria (Xanthomonas and Xylella) NAG kinases with an N-terminal NAGK (ArgB) domain (this CD) and a C-terminal DUF619 domain. The DUF619 domain is described as a putative distant homolog of the acetyltransferase, ArgA, predicted to function in NAG synthase association in fungi. Eukaryotic sequences have an N-terminal mitochondrial transit peptide. Members of this NAG kinase domain CD belong to th
Probab=24.03 E-value=78 Score=22.27 Aligned_cols=51 Identities=12% Similarity=0.121 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEecC------------CCccchHHHHHHHHHhHHHcCCc
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLTSG------------GYLKQTARIIADSILNLADLGLI 66 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~gG------------GY~~d~~~~v~~si~~l~~~~~~ 66 (68)
.+-+.+-...+.+...++|+|...+.+| ||.-+...+=...|.++.+.|.+
T Consensus 70 ~~al~~vn~~iv~~l~~~g~~a~~l~~~~~~a~~~~~~d~g~~G~v~~i~~~~i~~~L~~g~I 132 (248)
T cd04252 70 RKVFLEENLKLVEALERNGARARPITSGVFEAEYLDKDKYGLVGKITGVNKAPIEAAIRAGYL 132 (248)
T ss_pred HHHHHHHHHHHHHHHHhCCCCcccccCceEEEEECcCccCCccCceeeECHHHHHHHHHCCCe
Confidence 3344455666778888899987766554 24444444456678888888765
No 365
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=23.97 E-value=28 Score=25.03 Aligned_cols=25 Identities=16% Similarity=0.175 Sum_probs=19.2
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
+++|=..|-....++|+++++|++.
T Consensus 177 ~~dG~ma~~~~~~~fA~~~~l~~is 201 (214)
T PRK01792 177 NDDGTMARTPEIVEFAKKFGYAVVT 201 (214)
T ss_pred cCCCCccCHHHHHHHHHHcCCcEEE
Confidence 4456566777789999999999963
No 366
>KOG2368|consensus
Probab=23.92 E-value=3.3e+02 Score=20.75 Aligned_cols=54 Identities=15% Similarity=0.188 Sum_probs=41.5
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCE----EEEecCCCccchH-HHHHHHHHhHHHcC
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPI----VMLTSGGYLKQTA-RIIADSILNLADLG 64 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPv----a~v~gGGY~~d~~-~~v~~si~~l~~~~ 64 (68)
..+.|.|--.+|=+.|+..|+++|||+ .|++|==|.-... .-|+.-.+.|.+-|
T Consensus 124 NiNctiees~~rf~~v~kaA~~~ni~vRGYVScvvGCPyeG~v~P~kVa~V~k~ly~mG 182 (316)
T KOG2368|consen 124 NINCTIEESLKRFMEVLKAAQEHNIRVRGYVSCVVGCPYEGAVQPSKVAEVVKKLYEMG 182 (316)
T ss_pred cCCccHHHHHHHHHHHHHHHHHcCCccceEEEEEecCCccCCcCHHHHHHHHHHHHhCC
Confidence 778899999999999999999999996 5888888865542 24555556665543
No 367
>PRK11172 dkgB 2,5-diketo-D-gluconate reductase B; Provisional
Probab=23.80 E-value=50 Score=23.12 Aligned_cols=23 Identities=17% Similarity=0.213 Sum_probs=18.2
Q ss_pred HHHHHHHHHHhCCCCEEE--EecCC
Q psy8530 22 RDELVFMKARERRVPIVM--LTSGG 44 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~--v~gGG 44 (68)
|+.-++++|+++||++.+ .+++|
T Consensus 160 ~~~~ll~~~~~~gi~v~a~spl~~G 184 (267)
T PRK11172 160 QNRKVVAFAKEHGIHVTSYMTLAYG 184 (267)
T ss_pred CcHHHHHHHHHCCCEEEEECCCCCC
Confidence 345799999999999985 45666
No 368
>PRK13494 chemoreceptor glutamine deamidase CheD; Provisional
Probab=23.74 E-value=1.1e+02 Score=20.92 Aligned_cols=30 Identities=10% Similarity=0.110 Sum_probs=22.1
Q ss_pred HHHHH-HHHHHHHHhCCCCEEE-EecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVM-LTSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~-v~gGGY~~d 48 (68)
|-+|. +++.+..++++||++. =+||=+++.
T Consensus 111 IG~rNv~~a~~~L~~~gI~i~a~DvGG~~gR~ 142 (163)
T PRK13494 111 VGLENSEFAVNTLNKYGIPILAKDFDQSKSRK 142 (163)
T ss_pred hHHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 44565 5778888999999985 457777664
No 369
>PRK14571 D-alanyl-alanine synthetase A; Provisional
Probab=23.71 E-value=78 Score=22.31 Aligned_cols=13 Identities=31% Similarity=0.468 Sum_probs=10.3
Q ss_pred EEEecCCCccchH
Q psy8530 38 VMLTSGGYLKQTA 50 (68)
Q Consensus 38 a~v~gGGY~~d~~ 50 (68)
+.|+-||++++.+
T Consensus 3 v~v~~gg~s~e~~ 15 (299)
T PRK14571 3 VALLMGGVSRERE 15 (299)
T ss_pred EEEEeCCCCCCcc
Confidence 5677888998875
No 370
>COG1213 Predicted sugar nucleotidyltransferases [Cell envelope biogenesis, outer membrane]
Probab=23.70 E-value=57 Score=24.04 Aligned_cols=27 Identities=30% Similarity=0.498 Sum_probs=19.2
Q ss_pred EEecCCCccchH-------------HHHHHHHHhHHHcCC
Q psy8530 39 MLTSGGYLKQTA-------------RIIADSILNLADLGL 65 (68)
Q Consensus 39 ~v~gGGY~~d~~-------------~~v~~si~~l~~~~~ 65 (68)
.+++.||++... .++.+.|+||.+.|-
T Consensus 7 vILAAG~GsRlg~~~PK~Lvev~gr~ii~~~i~~L~~~gi 46 (239)
T COG1213 7 VILAAGFGSRLGPDIPKALVEVGGREIIYRTIENLAKAGI 46 (239)
T ss_pred EEEecccccccCCCCCchhhhcCCeEeHHHHHHHHHHcCC
Confidence 344666666544 489999999998763
No 371
>PRK08410 2-hydroxyacid dehydrogenase; Provisional
Probab=23.69 E-value=1.2e+02 Score=22.08 Aligned_cols=39 Identities=13% Similarity=0.181 Sum_probs=25.2
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|+++||+|+-+ .|..+...++.+-..+..+..
T Consensus 75 d~id~~~~~~~gI~v~n~-~g~~~~~VAE~a~~l~L~~~R 113 (311)
T PRK08410 75 NNVDIEYAKKKGIAVKNV-AGYSTESVAQHTFAMLLSLLG 113 (311)
T ss_pred ccccHHHHHhCCCEEEcC-CCCCChHHHHHHHHHHHHHHh
Confidence 456678899999999764 444555566655555555443
No 372
>PRK08942 D,D-heptose 1,7-bisphosphate phosphatase; Validated
Probab=23.65 E-value=2.1e+02 Score=18.45 Aligned_cols=20 Identities=10% Similarity=0.162 Sum_probs=16.6
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.+++.|++++.+..+.
T Consensus 36 e~L~~Lk~~g~~l~I~Tn~~ 55 (181)
T PRK08942 36 EAIARLKQAGYRVVVATNQS 55 (181)
T ss_pred HHHHHHHHCCCEEEEEeCCc
Confidence 47899999999999887653
No 373
>PRK09912 L-glyceraldehyde 3-phosphate reductase; Provisional
Probab=23.61 E-value=61 Score=23.68 Aligned_cols=21 Identities=10% Similarity=0.053 Sum_probs=16.9
Q ss_pred HHHHHHHhCCCCEEE--EecCCC
Q psy8530 25 LVFMKARERRVPIVM--LTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~--v~gGGY 45 (68)
-++..|+++||++.+ .++||.
T Consensus 207 ~ll~~~~~~gI~via~spl~~G~ 229 (346)
T PRK09912 207 GLLDTLQNNGVGCIAFTPLAQGL 229 (346)
T ss_pred hHHHHHHHcCceEEEehhhcCcc
Confidence 489999999999885 456664
No 374
>PRK13498 chemoreceptor glutamine deamidase CheD; Provisional
Probab=23.60 E-value=1.2e+02 Score=20.84 Aligned_cols=31 Identities=3% Similarity=0.051 Sum_probs=23.0
Q ss_pred HHHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 18 GIIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 18 Gi~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
.|=+|. +++.++.++.+||++.- +||=|++.
T Consensus 111 ~IG~rNi~~a~~~L~~~gi~i~a~DvGG~~gR~ 143 (167)
T PRK13498 111 NVADKNIHAALALAEQNGLHLKAQDLGSTGHRS 143 (167)
T ss_pred ChHHHHHHHHHHHHHHCCCcEEEEeCCCCCCcE
Confidence 355666 57888889999999954 57777664
No 375
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=23.60 E-value=2.7e+02 Score=20.96 Aligned_cols=37 Identities=8% Similarity=0.134 Sum_probs=23.2
Q ss_pred HHHHHHHh-----CCCCEEEEecCCCccchHHHHHHHHHhHH
Q psy8530 25 LVFMKARE-----RRVPIVMLTSGGYLKQTARIIADSILNLA 61 (68)
Q Consensus 25 ~V~~~a~~-----~~IPva~v~gGGY~~d~~~~v~~si~~l~ 61 (68)
.|.+.+++ .++||+.+...||..+...=.......|.
T Consensus 102 ~v~~~~~~~~~~~~~~~vi~v~tpgf~g~~~~G~~~a~~al~ 143 (428)
T cd01965 102 GFIKEFRAEGPEPADFPVVYASTPSFKGSHETGYDNAVKAII 143 (428)
T ss_pred HHHHHHHhhccCCCCCeEEEeeCCCCCCcHHHHHHHHHHHHH
Confidence 34455553 69999999999998765443333333333
No 376
>KOG0238|consensus
Probab=23.55 E-value=63 Score=27.01 Aligned_cols=18 Identities=22% Similarity=0.198 Sum_probs=16.3
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
.|+++|++.||+.++|.+
T Consensus 12 RVirTakkmGI~tVAV~S 29 (670)
T KOG0238|consen 12 RVIRTAKKMGIRTVAVYS 29 (670)
T ss_pred hhhhHHHHhCCeEEEEEc
Confidence 589999999999999975
No 377
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=23.54 E-value=96 Score=20.52 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 19 IIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
+-.+...+++.+++.|++++.+.|=.|.
T Consensus 19 i~~~~~~~i~~l~~~g~~~~~~TGR~~~ 46 (215)
T TIGR01487 19 ISERAIEAIRKAEKKGIPVSLVTGNTVP 46 (215)
T ss_pred cCHHHHHHHHHHHHCCCEEEEEcCCcch
Confidence 5567788999999999999999998885
No 378
>TIGR01112 mtrD N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit D. coenzyme M methyltransferase subunit D in methanogenic archaea. This methyltranferase is membrane-associated enzyme complex that uses methy-transfer reaction to drive sodium-ion pump. Archaea domain, have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=23.53 E-value=60 Score=23.75 Aligned_cols=28 Identities=21% Similarity=0.248 Sum_probs=19.0
Q ss_pred CCCCCCCcc--cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 2 VHTWMGDQV--DMLEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 2 vD~~~~D~L--~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
+||-.+|+- +..=-.|| |++|.+|.++|
T Consensus 112 ~DPITgd~Q~~YvtpGTeG--------------HGiPtvsfVsG 141 (223)
T TIGR01112 112 VDPITKYRQELYVTPGTEG--------------HGIPTVSFVSG 141 (223)
T ss_pred cCCCCCCCcccccCCCCcC--------------CCCceEeeehh
Confidence 466666666 44444455 99999998864
No 379
>PLN03139 formate dehydrogenase; Provisional
Probab=23.53 E-value=89 Score=24.01 Aligned_cols=39 Identities=18% Similarity=0.141 Sum_probs=27.0
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLAD 62 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~ 62 (68)
|..-++.|.++||+|+-+ .|.+....++.+-..|..+..
T Consensus 133 D~iDl~aa~~~gI~V~n~-~g~na~sVAE~al~liL~l~R 171 (386)
T PLN03139 133 DHIDLPAAAAAGLTVAEV-TGSNVVSVAEDELMRILILLR 171 (386)
T ss_pred cccCHHHHHHCCeEEEEC-CCcCcHHHHHHHHHHHHHHHc
Confidence 556778899999999876 456666666655555555544
No 380
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=23.51 E-value=1.3e+02 Score=19.33 Aligned_cols=24 Identities=21% Similarity=0.250 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 20 IRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 20 ~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
.+||+.|-++|.+.+|++..+=+-
T Consensus 103 ~~rd~~v~~~l~~~~i~~~~~~~~ 126 (165)
T PF00875_consen 103 RRRDERVRKALKKHGIKVHTFDDH 126 (165)
T ss_dssp HHHHHHHHHHHHHTTSEEEEE--S
T ss_pred HHHHHHHHHHHHhcceEEEEECCc
Confidence 589999999999999999766443
No 381
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=23.49 E-value=78 Score=22.10 Aligned_cols=31 Identities=16% Similarity=0.103 Sum_probs=17.6
Q ss_pred CCCCEEEEecCCCccchHH---HHHHHHHhHHHcC
Q psy8530 33 RRVPIVMLTSGGYLKQTAR---IIADSILNLADLG 64 (68)
Q Consensus 33 ~~IPva~v~gGGY~~d~~~---~v~~si~~l~~~~ 64 (68)
+.++|+ ++.||++++.+- ....-++.|.+.|
T Consensus 3 ~~~~v~-~~~g~~~~~~~~~~~s~~~i~~al~~~g 36 (304)
T PRK01372 3 MFGKVA-VLMGGTSAEREVSLNSGAAVLAALREAG 36 (304)
T ss_pred CCcEEE-EEeCCCCCCceEeHHhHHHHHHHHHHCC
Confidence 355665 555778888765 3344445554433
No 382
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=23.46 E-value=68 Score=23.03 Aligned_cols=15 Identities=27% Similarity=0.612 Sum_probs=13.1
Q ss_pred HHHHHhCCCCEEEEe
Q psy8530 27 FMKARERRVPIVMLT 41 (68)
Q Consensus 27 ~~~a~~~~IPva~v~ 41 (68)
++.|++.||||+++=
T Consensus 212 i~AA~~lgi~vivI~ 226 (249)
T PF02571_consen 212 IEAARELGIPVIVIK 226 (249)
T ss_pred HHHHHHcCCeEEEEe
Confidence 678999999999874
No 383
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=23.43 E-value=71 Score=23.24 Aligned_cols=18 Identities=22% Similarity=0.294 Sum_probs=15.2
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
-+++.|++.+|||+++=+
T Consensus 96 ~~l~~a~~~gIpVV~~d~ 113 (336)
T PRK15408 96 PALKRAMQRGVKVLTWDS 113 (336)
T ss_pred HHHHHHHHCCCeEEEeCC
Confidence 478889999999998754
No 384
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=23.40 E-value=82 Score=20.06 Aligned_cols=19 Identities=16% Similarity=0.340 Sum_probs=14.8
Q ss_pred HHHHHHHHhCCCCEEEEec
Q psy8530 24 ELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g 42 (68)
.-+++.++++||+++++.|
T Consensus 133 ~~~l~~L~~~Gi~~~i~TG 151 (215)
T PF00702_consen 133 KEALQELKEAGIKVAILTG 151 (215)
T ss_dssp HHHHHHHHHTTEEEEEEES
T ss_pred hhhhhhhhccCcceeeeec
Confidence 3478888899998888764
No 385
>TIGR03822 AblA_like_2 lysine-2,3-aminomutase-related protein. Members of this protein form a distinctive clade, homologous to lysine-2,3-aminomutase (of Bacillus, Clostridium, and methanogenic archaea) and likely similar in function. Members of this family are found in Rhodopseudomonas, Caulobacter crescentus, Bradyrhizobium, etc.
Probab=23.38 E-value=1.8e+02 Score=21.29 Aligned_cols=36 Identities=8% Similarity=0.074 Sum_probs=15.1
Q ss_pred HHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcC
Q psy8530 29 KARERRVPIVMLTSGGYLKQTARIIADSILNLADLG 64 (68)
Q Consensus 29 ~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~ 64 (68)
..++.+.++.+++=+...++..+-+..+|++|.+.|
T Consensus 192 ~L~~~g~~v~i~l~~~h~~el~~~~~~ai~~L~~~G 227 (321)
T TIGR03822 192 ALKTSGKTVYVALHANHARELTAEARAACARLIDAG 227 (321)
T ss_pred HHHHcCCcEEEEecCCChhhcCHHHHHHHHHHHHcC
Confidence 333344444444444433333333444444444433
No 386
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=23.36 E-value=70 Score=23.06 Aligned_cols=15 Identities=7% Similarity=0.180 Sum_probs=13.0
Q ss_pred HHHHHhCCCCEEEEe
Q psy8530 27 FMKARERRVPIVMLT 41 (68)
Q Consensus 27 ~~~a~~~~IPva~v~ 41 (68)
++.|++.||||.++=
T Consensus 216 i~AA~~lgi~vivI~ 230 (256)
T TIGR00715 216 VKAAEALGINVIRIA 230 (256)
T ss_pred HHHHHHcCCcEEEEe
Confidence 489999999999874
No 387
>TIGR02130 dapB_plant dihydrodipicolinate reductase. This narrow family includes genes from Arabidopsis and Fibrobacter succinogenes (which probably recieved the gene from a plant via lateral gene transfer). The sequences are distantly related to the dihydrodipicolinate reductases from archaea. In Fibrobacter this gene is the only candidate DHPR in the genome.
Probab=23.33 E-value=88 Score=23.23 Aligned_cols=28 Identities=25% Similarity=0.323 Sum_probs=22.6
Q ss_pred HHHHHHhCCCCEEEEecCCCccchHHHH
Q psy8530 26 VFMKARERRVPIVMLTSGGYLKQTARII 53 (68)
Q Consensus 26 V~~~a~~~~IPva~v~gGGY~~d~~~~v 53 (68)
.+++|.++++|+++-.-|....+.+.+.
T Consensus 85 n~~~~~~~gv~~ViGTTG~~~~~~~~l~ 112 (275)
T TIGR02130 85 NAAFYGKHGIPFVMGTTGGDREALAKLV 112 (275)
T ss_pred HHHHHHHCCCCEEEcCCCCCHHHHHHHH
Confidence 3789999999999999887776666553
No 388
>KOG2623|consensus
Probab=23.26 E-value=76 Score=25.57 Aligned_cols=21 Identities=14% Similarity=0.229 Sum_probs=18.8
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
.+|+-.|...|.|+++++||-
T Consensus 85 lm~L~hfqr~Gh~~ialIGgA 105 (467)
T KOG2623|consen 85 LMVLIHFQRAGHRPIALIGGA 105 (467)
T ss_pred HHHHHHHHHcCCCceEEeccc
Confidence 478899999999999999984
No 389
>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=23.25 E-value=1.8e+02 Score=17.49 Aligned_cols=24 Identities=13% Similarity=0.062 Sum_probs=19.5
Q ss_pred HHHHHHHhCCCCEEEEecCCCccch
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~ 49 (68)
.+++.+..+||++.++- ++|..+.
T Consensus 86 ~~~~~l~~~gi~l~~~~-~~~~~~~ 109 (137)
T cd00338 86 ELLELLEAHGVRVVTAD-GEIDLDS 109 (137)
T ss_pred HHHHHHHHCCCEEEEec-CCcccCC
Confidence 57788999999999988 7787543
No 390
>cd06543 GH18_PF-ChiA-like PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in archaea but also in eukaryotes and prokaryotes. PF-ChiA exhibits hydrolytic activity toward both colloidal and crystalline (beta/alpha) chitins at high temperature.
Probab=23.24 E-value=2.4e+02 Score=20.70 Aligned_cols=38 Identities=13% Similarity=0.082 Sum_probs=26.5
Q ss_pred HHHHHhCCCCEEEEecCCCccc------hHHHHHHHHHhHHHcC
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQ------TARIIADSILNLADLG 64 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d------~~~~v~~si~~l~~~~ 64 (68)
+..++++|..|...+||..... ..+-...++.++.++.
T Consensus 60 i~~lk~~G~kViiS~GG~~g~~~~~~~~~~~~~~~a~~~~i~~y 103 (294)
T cd06543 60 IAALRAAGGDVIVSFGGASGTPLATSCTSADQLAAAYQKVIDAY 103 (294)
T ss_pred HHHHHHcCCeEEEEecCCCCCccccCcccHHHHHHHHHHHHHHh
Confidence 6689999999999999866543 3344555666666653
No 391
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=23.23 E-value=1.1e+02 Score=20.28 Aligned_cols=41 Identities=12% Similarity=0.011 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCC----------ccchHHHHHHHHHhHHHc
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGY----------LKQTARIIADSILNLADL 63 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY----------~~d~~~~v~~si~~l~~~ 63 (68)
+..-+++.+++.+||++++-. .. ..|.........++|.++
T Consensus 69 ~~~~~~~~l~~~~iPvv~~~~-~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~ 119 (272)
T cd06301 69 ATAPIVKAANAAGIPLVYVNR-RPENAPKGVAYVGSDEVVAGRLQAEYVADK 119 (272)
T ss_pred hhHHHHHHHHHCCCeEEEecC-CCCCCCCeeEEEecChHHHHHHHHHHHHHH
Confidence 344567889999999997632 11 123455666777788776
No 392
>PF10609 ParA: ParA/MinD ATPase like; InterPro: IPR019591 This entry represents ATPases involved in plasmid partitioning []. It also contains cytosolic Fe-S cluster assembling factors, NBP35 and CFD1 which are required for biogenesis and export of both ribosomal subunits probably through assembling the ISCs in RLI1, a protein which performs rRNA processing and ribosome export [, , ].; PDB: 2PH1_A 3KB1_B.
Probab=23.23 E-value=90 Score=19.19 Aligned_cols=17 Identities=24% Similarity=0.223 Sum_probs=13.0
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
.-.++|++.++|+..++
T Consensus 44 r~~~~~~~~~vpilGvV 60 (81)
T PF10609_consen 44 RAIDMFRKLNVPILGVV 60 (81)
T ss_dssp HHHHHHHCTT-EEEEEE
T ss_pred HHHHHHHhcCCCcEEEE
Confidence 35688999999999775
No 393
>PRK13489 chemoreceptor glutamine deamidase CheD; Provisional
Probab=23.04 E-value=1.1e+02 Score=22.29 Aligned_cols=31 Identities=19% Similarity=0.126 Sum_probs=23.5
Q ss_pred HHHHHH-HHHHHHHHhCCCCEEE-EecCCCccc
Q psy8530 18 GIIRRD-ELVFMKARERRVPIVM-LTSGGYLKQ 48 (68)
Q Consensus 18 Gi~~RD-~~V~~~a~~~~IPva~-v~gGGY~~d 48 (68)
.|-+|+ +++.+..++.+|||+. =+||=|++.
T Consensus 121 ~IG~RNieaa~~~L~~~gI~IvaeDvGG~~gRk 153 (233)
T PRK13489 121 NIGDRNADFVRRYLALERIRITAEDLQGVHPRK 153 (233)
T ss_pred ChhHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 355666 5788899999999985 468877765
No 394
>COG2405 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=23.00 E-value=1.5e+02 Score=20.68 Aligned_cols=42 Identities=19% Similarity=0.116 Sum_probs=27.3
Q ss_pred HHHHHHHHHhCCCCEEEEec-------CCCccchHHHHHHHHHhHHHc-CCcCC
Q psy8530 23 DELVFMKARERRVPIVMLTS-------GGYLKQTARIIADSILNLADL-GLISR 68 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~g-------GGY~~d~~~~v~~si~~l~~~-~~~~~ 68 (68)
|+.--+.|+..|.||..++| =||-....++ |.+|+++ |++||
T Consensus 95 dr~aR~~A~~lgL~V~GtlGvL~~ak~kgLisk~Kpi----ld~LI~~GF~iS~ 144 (157)
T COG2405 95 DRDARNVAKSLGLKVTGTLGVLALAKSKGLISKDKPI----LDELIEKGFRISR 144 (157)
T ss_pred cHHHHHHHHHcCCeeeehhHHHHHHHHcCcccchHHH----HHHHHHhcCcccH
Confidence 44556789999999998876 3444444444 4555555 67764
No 395
>PF06969 HemN_C: HemN C-terminal domain; InterPro: IPR010723 Proteins containing this domain are all oxygen-independent coproporphyrinogen-III oxidases (HemN). This enzyme catalyses the oxygen-independent conversion of coproporphyrinogen-III to protoporphyrinogen-IX [], one of the last steps in haem biosynthesis. The function of this domain is unclear, but comparison to other proteins containing a radical SAM domain suggest it may be a substrate binding domain.; GO: 0004109 coproporphyrinogen oxidase activity, 0006779 porphyrin-containing compound biosynthetic process, 0055114 oxidation-reduction process, 0005737 cytoplasm; PDB: 1OLT_A.
Probab=22.99 E-value=96 Score=16.94 Aligned_cols=21 Identities=19% Similarity=0.243 Sum_probs=14.1
Q ss_pred cchHHHHHHHHHhHHHcCCcC
Q psy8530 47 KQTARIIADSILNLADLGLIS 67 (68)
Q Consensus 47 ~d~~~~v~~si~~l~~~~~~~ 67 (68)
.+..+.....+..+.++|++.
T Consensus 32 ~~~~~~~~~~l~~l~~~Gll~ 52 (66)
T PF06969_consen 32 IDFAEEFQKELEELQEDGLLE 52 (66)
T ss_dssp --THHH-HHHHHHHHHTTSEE
T ss_pred cCHHHHHHHHHHHHHHCCCEE
Confidence 345666677889999998873
No 396
>PRK13243 glyoxylate reductase; Reviewed
Probab=22.93 E-value=1.1e+02 Score=22.66 Aligned_cols=40 Identities=20% Similarity=0.152 Sum_probs=25.9
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
|..-++.|+++||+|+-+ .|.++...++.+-..|..+..+
T Consensus 79 d~id~~~~~~~gI~v~n~-~g~~~~~vAE~~~~l~L~~~R~ 118 (333)
T PRK13243 79 DNIDVEEATRRGIYVTNT-PGVLTEATADFAWALLLATARR 118 (333)
T ss_pred cccCHHHHHHcCCEEEEC-CCCChHHHHHHHHHHHHHHHhC
Confidence 455678899999999765 3445556666555555555433
No 397
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=22.81 E-value=1e+02 Score=20.26 Aligned_cols=21 Identities=14% Similarity=0.419 Sum_probs=15.5
Q ss_pred HHHHHHHhCCCCEEEEecCCCc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~ 46 (68)
-+++.++++|++++.+. ||..
T Consensus 92 ~~l~~l~~~g~~~~IvS-~~~~ 112 (219)
T TIGR00338 92 ELVKTLKEKGYKVAVIS-GGFD 112 (219)
T ss_pred HHHHHHHHCCCEEEEEC-CCcH
Confidence 37888999999986555 5553
No 398
>PRK13491 chemoreceptor glutamine deamidase CheD; Provisional
Probab=22.80 E-value=1.2e+02 Score=21.67 Aligned_cols=30 Identities=10% Similarity=0.103 Sum_probs=22.5
Q ss_pred HHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
|-+|+ +++.++.++.+||++.- +||-|++.
T Consensus 112 IG~rNie~a~~~L~~~GI~ivaeDvGG~~gRk 143 (199)
T PRK13491 112 IGQANAAFARRYLRDEGIRCTAHSLGGNRARR 143 (199)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 44565 57888999999999965 57777664
No 399
>PRK13585 1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase; Provisional
Probab=22.78 E-value=86 Score=21.39 Aligned_cols=35 Identities=17% Similarity=0.190 Sum_probs=24.3
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
++.+.++-.+--..+-+.|+..++|+.. |||..+.
T Consensus 54 l~~~~~~~~~~~~~i~~i~~~~~~~l~v--~GGi~~~ 88 (241)
T PRK13585 54 LDGAFEGERKNAEAIEKIIEAVGVPVQL--GGGIRSA 88 (241)
T ss_pred chhhhcCCcccHHHHHHHHHHcCCcEEE--cCCcCCH
Confidence 3334445555567888889988888765 9999743
No 400
>PRK06487 glycerate dehydrogenase; Provisional
Probab=22.76 E-value=1.2e+02 Score=22.25 Aligned_cols=38 Identities=24% Similarity=0.242 Sum_probs=23.5
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLA 61 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~ 61 (68)
|..-++.|+++||+|.-+ .|..+...++.+-..+..+.
T Consensus 78 d~id~~~~~~~gI~v~n~-~g~~~~~vAE~~~~~~L~~~ 115 (317)
T PRK06487 78 NNVDLAAARERGITVCNC-QGYGTPSVAQHTLALLLALA 115 (317)
T ss_pred cccCHHHHHHCCCEEEeC-CCCCcchHHHHHHHHHHHHH
Confidence 445577889999998765 33344555555555555443
No 401
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=22.75 E-value=2.5e+02 Score=20.36 Aligned_cols=42 Identities=14% Similarity=0.141 Sum_probs=30.5
Q ss_pred HHHHHHHHHhCCCCEEEEec----CCC---ccchHHHHHHHHHhHHHcC
Q psy8530 23 DELVFMKARERRVPIVMLTS----GGY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~g----GGY---~~d~~~~v~~si~~l~~~~ 64 (68)
+....+.+.+.++|++.+-. .++ ..|...-.....++|.++|
T Consensus 126 ~~~~~~~l~~~~~P~V~i~~~~~~~~~~~V~~Dn~~~~~~a~~~L~~~G 174 (333)
T COG1609 126 NDSLLELLAAAGIPVVVIDRSPPGLGVPSVGIDNFAGAYLATEHLIELG 174 (333)
T ss_pred CHHHHHHHHhcCCCEEEEeCCCccCCCCEEEEChHHHHHHHHHHHHHCC
Confidence 44567778888999998874 222 2356777888899999986
No 402
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.73 E-value=1.2e+02 Score=20.44 Aligned_cols=40 Identities=15% Similarity=0.178 Sum_probs=28.5
Q ss_pred HHHHHHHHhCCCCEEEEec---C---C---C-ccchHHHHHHHHHhHHHc
Q psy8530 24 ELVFMKARERRVPIVMLTS---G---G---Y-LKQTARIIADSILNLADL 63 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~g---G---G---Y-~~d~~~~v~~si~~l~~~ 63 (68)
.-+++.+.+.+||++++-. . + | ..|.........++|.++
T Consensus 70 ~~~i~~~~~~~iPvV~~~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~ 119 (272)
T cd06313 70 TEAVQKAIARGIPVIDMGTLIAPLQINVHSFLAPDNYFMGASVAQALCNA 119 (272)
T ss_pred HHHHHHHHHCCCcEEEeCCCCCCCCCceEEEECCCcHHHHHHHHHHHHHH
Confidence 3456888889999998742 1 1 2 356677778888888876
No 403
>cd01492 Aos1_SUMO Ubiquitin activating enzyme (E1) subunit Aos1. Aos1 is part of the heterodimeric activating enzyme (E1), specific for the SUMO family of ubiquitin-like proteins (Ubls). E1 enzymes are part of a conjugation cascade to attach Ub or Ubls, covalently to substrate proteins consisting of activating (E1), conjugating (E2), and/or ligating (E3) enzymes. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and Ubls C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. Post-translational modification by SUMO family of ubiquitin-like proteins (Ublps) is involved in cell division, nuclear transport, the stress response and signal transduction. Aos1 contains part of the adenylation domain.
Probab=22.70 E-value=1.2e+02 Score=20.59 Aligned_cols=23 Identities=13% Similarity=0.016 Sum_probs=17.4
Q ss_pred HHHHHHHHhCCCCEEEEecCCCc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
..+-+.|++++||.+.....|+.
T Consensus 125 ~~ln~~c~~~~ip~i~~~~~G~~ 147 (197)
T cd01492 125 VKINELCRKLGVKFYATGVHGLF 147 (197)
T ss_pred HHHHHHHHHcCCCEEEEEecCCE
Confidence 34678999999999877655553
No 404
>TIGR01536 asn_synth_AEB asparagine synthase (glutamine-hydrolyzing). This model describes the glutamine-hydrolysing asparagine synthase. A poorly conserved C-terminal extension was removed from the model. Bacterial members of the family tend to have a long, poorly conserved insert lacking from archaeal and eukaryotic sequences. Multiple isozymes have been demonstrated, such as in Bacillus subtilis. Long-branch members of the phylogenetic tree (which typically were also second or third candidate members from their genomes) were removed from the seed alignment and score below trusted cutoff.
Probab=22.59 E-value=3e+02 Score=20.87 Aligned_cols=20 Identities=35% Similarity=0.594 Sum_probs=15.2
Q ss_pred CCCCEEEEecCCCccchHHHHH
Q psy8530 33 RRVPIVMLTSGGYLKQTARIIA 54 (68)
Q Consensus 33 ~~IPva~v~gGGY~~d~~~~v~ 54 (68)
...|+++.++||. |+.-+.+
T Consensus 252 ~~~~vg~~LSGGl--DSs~iaa 271 (467)
T TIGR01536 252 ADVPVGVLLSGGL--DSSLVAA 271 (467)
T ss_pred cCCceEEEecCCh--hHHHHHH
Confidence 4789999999998 5554433
No 405
>PRK11512 DNA-binding transcriptional repressor MarR; Provisional
Probab=22.57 E-value=77 Score=20.05 Aligned_cols=18 Identities=17% Similarity=0.219 Sum_probs=15.5
Q ss_pred HHHHHHHHhHHHcCCcCC
Q psy8530 51 RIIADSILNLADLGLISR 68 (68)
Q Consensus 51 ~~v~~si~~l~~~~~~~~ 68 (68)
.++.+.+..|.++|||.|
T Consensus 69 ~tvsr~l~~Le~~GlI~R 86 (144)
T PRK11512 69 GALTRMLDRLVCKGWVER 86 (144)
T ss_pred HHHHHHHHHHHHCCCEEe
Confidence 478889999999999875
No 406
>PRK07189 malonate decarboxylase subunit beta; Reviewed
Probab=22.56 E-value=93 Score=23.41 Aligned_cols=24 Identities=21% Similarity=0.302 Sum_probs=18.2
Q ss_pred HHHHHHHHHHHhCC-----CCEEEEe-cCC
Q psy8530 21 RRDELVFMKARERR-----VPIVMLT-SGG 44 (68)
Q Consensus 21 ~RD~~V~~~a~~~~-----IPva~v~-gGG 44 (68)
++=...++.|.+.+ +|++.++ |||
T Consensus 90 ~Ki~r~~e~A~~~~~~~~~~PvV~l~dSGG 119 (301)
T PRK07189 90 AKLAGALELAAEDNRNGIPTAVLLLFETGG 119 (301)
T ss_pred HHHHHHHHHHHHhCCCCCCCCEEEEecCCC
Confidence 44456788999999 9999888 444
No 407
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=22.56 E-value=95 Score=20.25 Aligned_cols=20 Identities=5% Similarity=0.052 Sum_probs=15.7
Q ss_pred HHHHHHHHhCCCCEEEEecC
Q psy8530 24 ELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gG 43 (68)
.-+++.+++.|+|++.+.++
T Consensus 112 ~~~L~~l~~~g~~~~i~T~~ 131 (197)
T TIGR01548 112 KGLLRELHRAPKGMAVVTGR 131 (197)
T ss_pred HHHHHHHHHcCCcEEEECCC
Confidence 56788899999999766544
No 408
>PRK00192 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=22.54 E-value=72 Score=22.20 Aligned_cols=28 Identities=14% Similarity=0.145 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 18 GIIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
.+..+..-+++.+++.|++++.+.|-.|
T Consensus 21 ~~~~~~~~ai~~l~~~Gi~~~iaTgR~~ 48 (273)
T PRK00192 21 YSYEPAKPALKALKEKGIPVIPCTSKTA 48 (273)
T ss_pred cCcHHHHHHHHHHHHCCCEEEEEcCCCH
Confidence 4556667788999999999988777654
No 409
>PRK11587 putative phosphatase; Provisional
Probab=22.54 E-value=91 Score=20.74 Aligned_cols=20 Identities=20% Similarity=0.386 Sum_probs=17.0
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
-+++.++++|+|++.+.++.
T Consensus 90 e~L~~L~~~g~~~~ivTn~~ 109 (218)
T PRK11587 90 ALLNHLNKLGIPWAIVTSGS 109 (218)
T ss_pred HHHHHHHHcCCcEEEEcCCC
Confidence 37889999999999888764
No 410
>COG0400 Predicted esterase [General function prediction only]
Probab=22.49 E-value=1.1e+02 Score=21.44 Aligned_cols=35 Identities=17% Similarity=0.064 Sum_probs=25.7
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIADSIL 58 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~ 58 (68)
.++|-+.+.+++||.-=++.+|||.-.. +...+..
T Consensus 84 ~~~l~~~~~~~gi~~~~ii~~GfSqGA~-ial~~~l 118 (207)
T COG0400 84 AEFLEELAEEYGIDSSRIILIGFSQGAN-IALSLGL 118 (207)
T ss_pred HHHHHHHHHHhCCChhheEEEecChHHH-HHHHHHH
Confidence 3577888999999999999999985443 3333333
No 411
>COG0825 AccA Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]
Probab=22.47 E-value=1.5e+02 Score=22.85 Aligned_cols=45 Identities=22% Similarity=0.338 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCCEEEEe--cCCCccc------hHHHHHHHHHhHH
Q psy8530 16 HLGIIRRDELVFMKARERRVPIVMLT--SGGYLKQ------TARIIADSILNLA 61 (68)
Q Consensus 16 ~~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY~~d------~~~~v~~si~~l~ 61 (68)
+||. +.-.-++++|.+.|.||++.+ .|-|.-- ....|+++...+.
T Consensus 133 PeGy-RKAlRlm~~AekF~lPiitfIDT~GAypG~~AEErGQ~eAIA~nL~em~ 185 (317)
T COG0825 133 PEGY-RKALRLMKLAEKFGLPIITFIDTPGAYPGIGAEERGQSEAIARNLREMA 185 (317)
T ss_pred chHH-HHHHHHHHHHHHhCCCEEEEecCCCCCCCcchhhcccHHHHHHHHHHHh
Confidence 5664 456678999999999999998 8999643 2335555554443
No 412
>cd05561 Peptidases_S8_4 Peptidase S8 family domain, uncharacterized subfamily 4. This family is a member of the Peptidases S8 or Subtilases serine endo- and exo-peptidase clan. They have an Asp/His/Ser catalytic triad similar to that found in trypsin-like proteases, but do not share their three-dimensional structure and are not homologous to trypsin. The stability of subtilases may be enhanced by calcium, some members have been shown to bind up to 4 ions via binding sites with different affinity. Some members of this clan contain disulfide bonds. These enzymes can be intra- and extracellular, some function at extreme temperatures and pH values.
Probab=22.46 E-value=2.2e+02 Score=19.60 Aligned_cols=37 Identities=19% Similarity=0.227 Sum_probs=24.9
Q ss_pred HHHHHHhCCCCEEE-EecCCCccchHHHHHHHHHhHHHcCCc
Q psy8530 26 VFMKARERRVPIVM-LTSGGYLKQTARIIADSILNLADLGLI 66 (68)
Q Consensus 26 V~~~a~~~~IPva~-v~gGGY~~d~~~~v~~si~~l~~~~~~ 66 (68)
-+++|.++++-|.- .+||-+ ...++..|+.+.+++.|
T Consensus 85 ai~~a~~~g~~VIn~S~g~~~----~~~l~~ai~~a~~~gil 122 (239)
T cd05561 85 ALDWLAEQGVRVVNISLAGPP----NALLAAAVAAAAARGMV 122 (239)
T ss_pred HHHHHHHCCCCEEEeCCCCCC----CHHHHHHHHHHHHCCCE
Confidence 47788889988873 334433 23567778888887754
No 413
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=22.42 E-value=1.1e+02 Score=22.73 Aligned_cols=28 Identities=18% Similarity=0.273 Sum_probs=21.0
Q ss_pred HHHHHHHHHHhCCCCEEEE------ecCCCccch
Q psy8530 22 RDELVFMKARERRVPIVML------TSGGYLKQT 49 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v------~gGGY~~d~ 49 (68)
+=..+.+.|++.|||++.. +-|||+.+.
T Consensus 148 ~~~~l~~~A~~~gi~~Il~G~~~dE~fgGy~~~~ 181 (343)
T TIGR03573 148 IFASVYQVALKFNIPLIIWGENIAEEYGGDSEEE 181 (343)
T ss_pred HHHHHHHHHHHhCCCEEEeCCCHHHhcCCccccc
Confidence 3467889999999998864 346688663
No 414
>TIGR02321 Pphn_pyruv_hyd phosphonopyruvate hydrolase. This family consists of phosphonopyruvate hydrolase, an enzyme closely related to phosphoenolpyruvate phosphomutase. It cleaves the direct C-P bond of phosphonopyruvate. The characterized example is from Variovorax sp. Pal2.
Probab=22.31 E-value=1.8e+02 Score=21.53 Aligned_cols=45 Identities=11% Similarity=0.166 Sum_probs=31.4
Q ss_pred HHHHHHHHHH---HHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHcC
Q psy8530 18 GIIRRDELVF---MKARERRVPIVMLTSGGYLKQTARIIADSILNLADLG 64 (68)
Q Consensus 18 Gi~~RD~~V~---~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~~ 64 (68)
|+...++++- +.+..-++||.+=+=.||+.... +.+.++.+.+-|
T Consensus 56 g~l~~~e~~~~~~~I~~~~~lPv~aD~d~GyG~~~~--v~~tV~~~~~aG 103 (290)
T TIGR02321 56 NILSMSTHLEMMRAIASTVSIPLIADIDTGFGNAVN--VHYVVPQYEAAG 103 (290)
T ss_pred ccCCHHHHHHHHHHHHhccCCCEEEECCCCCCCcHH--HHHHHHHHHHcC
Confidence 4444444433 33666799999999999998773 777777776654
No 415
>PRK12436 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional
Probab=22.31 E-value=1e+02 Score=22.65 Aligned_cols=22 Identities=18% Similarity=0.235 Sum_probs=17.1
Q ss_pred HHHHHHHhCCCCEEEEecCCCcc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
.++++|+++++|+.. +|||-+-
T Consensus 51 ~~l~~a~~~~ip~~v-~GgGSNl 72 (305)
T PRK12436 51 EVIKYANKYNIPVTF-LGNGSNV 72 (305)
T ss_pred HHHHHHHHcCCCEEE-EcCCeEE
Confidence 467899999999765 7877653
No 416
>PLN02522 ATP citrate (pro-S)-lyase
Probab=22.30 E-value=1.8e+02 Score=24.02 Aligned_cols=23 Identities=9% Similarity=0.192 Sum_probs=20.4
Q ss_pred HHHHHHHhCCCCEEEEecCCCcc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
-+++.|-+.||+.+++++.|+..
T Consensus 94 a~lEa~~a~GIk~~VIiteGfpe 116 (608)
T PLN02522 94 SSMEALKQPTIRVVAIIAEGVPE 116 (608)
T ss_pred HHHHHHhhCCCCEEEEECCCCCh
Confidence 46788888999999999999984
No 417
>PRK00968 tetrahydromethanopterin S-methyltransferase subunit D; Provisional
Probab=22.27 E-value=62 Score=23.95 Aligned_cols=28 Identities=25% Similarity=0.368 Sum_probs=19.2
Q ss_pred CCCCCCCcc--cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 2 VHTWMGDQV--DMLEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 2 vD~~~~D~L--~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
+||-.+|+- +..=-.|| |++|.+|.+||
T Consensus 116 ~DPITgd~Q~~YvtpGTeG--------------HGiPtvsfvsG 145 (240)
T PRK00968 116 KDPITGDRQDPYVTPGTEG--------------HGIPTVSFVSG 145 (240)
T ss_pred cCCCCCCCcccccCCCCCC--------------CCCceeeeehh
Confidence 467777766 44444455 99999998764
No 418
>cd01485 E1-1_like Ubiquitin activating enzyme (E1), repeat 1-like. E1, a highly conserved small protein present universally in eukaryotic cells, is part of cascade to attach ubiquitin (Ub) covalently to substrate proteins. This cascade consists of activating (E1), conjugating (E2), and/or ligating (E3) enzymes and then targets them for degradation by the 26S proteasome. E1 activates ubiquitin by C-terminal adenylation, and subsequently forms a highly reactive thioester bond between its catalytic cysteine and ubiquitin's C-terminus. The E1 also associates with E2 and promotes ubiquitin transfer to the E2's catalytic cysteine. A set of novel molecules with a structural similarity to Ub, called Ub-like proteins (Ubls), have similar conjugation cascades. In contrast to ubiquitin-E1, which is a single-chain protein with a weakly conserved two-fold repeat, many of the Ubls-E1are a heterodimer where each subunit corresponds to one half of a single-chain E1. This CD represents the family homol
Probab=22.23 E-value=1.2e+02 Score=20.59 Aligned_cols=22 Identities=18% Similarity=0.270 Sum_probs=16.7
Q ss_pred HHHHHHHHhCCCCEEEEecCCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY 45 (68)
..+-+.|++++||++..-.-|+
T Consensus 128 ~~ln~~c~~~~ip~i~~~~~G~ 149 (198)
T cd01485 128 AKVNDVCRKHHIPFISCATYGL 149 (198)
T ss_pred HHHHHHHHHcCCCEEEEEeecC
Confidence 4577999999999997654443
No 419
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=22.21 E-value=1.1e+02 Score=20.16 Aligned_cols=28 Identities=14% Similarity=0.198 Sum_probs=17.8
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHHHH
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTARII 53 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~~v 53 (68)
-++++++++|+|++.+.+ ++........
T Consensus 94 ~~L~~L~~~g~~~~ivT~-~~~~~~~~~l 121 (220)
T TIGR03351 94 EAFRSLRSSGIKVALTTG-FDRDTAERLL 121 (220)
T ss_pred HHHHHHHHCCCEEEEEeC-CchHHHHHHH
Confidence 367888889999866654 4444444433
No 420
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=22.19 E-value=90 Score=20.73 Aligned_cols=38 Identities=18% Similarity=0.062 Sum_probs=24.6
Q ss_pred HHHHHHhCCCCEEEEec---C--CC----ccchHHHHHHHHHhHHHc
Q psy8530 26 VFMKARERRVPIVMLTS---G--GY----LKQTARIIADSILNLADL 63 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g---G--GY----~~d~~~~v~~si~~l~~~ 63 (68)
.++.+++.+||++++-. + .+ ..|..........+|.++
T Consensus 72 ~i~~~~~~~iPvV~~~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~ 118 (282)
T cd06318 72 AVAAAKAAGVPVVVVDSSINLEAGVVTQVQSSNAKNGNLVGEWVVGE 118 (282)
T ss_pred HHHHHHHCCCCEEEecCCCCCCcCeEEEEecCcHHHHHHHHHHHHHH
Confidence 46788889999998753 1 11 124455566677777764
No 421
>TIGR00162 conserved hypothetical protein TIGR00162. This ortholog set includes MJ1210 from Methanococcus jannaschii and AF0525 from Archaeoglobus fulgidus, but not MJ0106 or AF1251.
Probab=22.15 E-value=2.2e+02 Score=19.52 Aligned_cols=31 Identities=10% Similarity=0.030 Sum_probs=25.5
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
.+++++.++==..|++++++.++--+.++||
T Consensus 26 ~~~p~~~~e~a~~vld~a~~~gv~~iitLgG 56 (188)
T TIGR00162 26 SLSPEGQYELVNAIIDVAKKYGARMIYTLGG 56 (188)
T ss_pred CCChhhHHHHHHHHHHHHHHcCCCEEEEecC
Confidence 3557777776778999999999988888877
No 422
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=22.14 E-value=2.7e+02 Score=18.98 Aligned_cols=39 Identities=13% Similarity=-0.001 Sum_probs=26.6
Q ss_pred HHHHHHhCCCCEEEEec---CCC--c---cchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS---GGY--L---KQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g---GGY--~---~d~~~~v~~si~~l~~~~ 64 (68)
.++.+++.++|++.+-. .++ . .|.........++|.+++
T Consensus 99 ~l~~~~~~~ipvV~~~~~~~~~~~~~~V~~D~~~~g~~~~~~l~~~~ 145 (295)
T PRK10653 99 AVKMANQANIPVITLDRGATKGEVVSHIASDNVAGGKMAGDFIAKKL 145 (295)
T ss_pred HHHHHHHCCCCEEEEccCCCCCceeeEEccChHHHHHHHHHHHHHHh
Confidence 56788889999998742 221 1 455666777888888763
No 423
>TIGR00393 kpsF KpsF/GutQ family protein. This model describes a number of closely related proteins with the phosphosugar-binding domain SIS (Sugar ISomerase) followed by two copies of the CBS (named after Cystathionine Beta Synthase) domain. One is GutQ, a protein of the glucitol operon. Another is KpsF, a virulence factor involved in capsular polysialic acid biosynthesis in some pathogenic strains of E. coli.
Probab=22.13 E-value=1.2e+02 Score=20.74 Aligned_cols=33 Identities=9% Similarity=-0.022 Sum_probs=23.3
Q ss_pred ccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 12 MLEDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 12 L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
+.+|..|=-+-=..+++.|+++|+|++++.+..
T Consensus 52 i~iS~sG~t~~~~~~~~~a~~~g~~ii~iT~~~ 84 (268)
T TIGR00393 52 LMISYSGESLELLNLIPHLKRLSHKIIAFTGSP 84 (268)
T ss_pred EEEeCCCCCHHHHHHHHHHHHcCCcEEEEECCC
Confidence 344444533444578899999999999998753
No 424
>cd01886 EF-G Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta
Probab=22.08 E-value=78 Score=22.65 Aligned_cols=25 Identities=24% Similarity=0.394 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEe
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLT 41 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~ 41 (68)
+|+-..++.+++.+++.++|+..++
T Consensus 99 ~g~~~~t~~~~~~~~~~~~p~ivvi 123 (270)
T cd01886 99 AGVEPQTETVWRQADRYNVPRIAFV 123 (270)
T ss_pred CCCCHHHHHHHHHHHHcCCCEEEEE
Confidence 3566778899999999999998766
No 425
>PRK12339 2-phosphoglycerate kinase; Provisional
Probab=22.04 E-value=1.1e+02 Score=20.94 Aligned_cols=25 Identities=8% Similarity=-0.002 Sum_probs=18.5
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
..+-|+.=..+..+.|++++||+.-
T Consensus 156 ~~~~ir~i~~~l~~~a~~~~i~~i~ 180 (197)
T PRK12339 156 HLPEYRTIMDYSIADARGYNIKVID 180 (197)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCeec
Confidence 3344555566788999999999974
No 426
>cd03174 DRE_TIM_metallolyase DRE-TIM metallolyase superfamily. The DRE-TIM metallolyase superfamily includes 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues that cap the core of the barrel. In addition, the catalytic site includes three invariant residues - an aspartate (D), an arginine (R), and a glutamate (E) - which is the basis for the domain name "DRE-TIM".
Probab=22.02 E-value=2.6e+02 Score=18.89 Aligned_cols=36 Identities=8% Similarity=0.038 Sum_probs=28.6
Q ss_pred cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 11 DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 11 ~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
+++-+.++..++=....+.|+++|+++.+.+..-+.
T Consensus 105 ~~~~~~~~~~~~~~~~i~~a~~~G~~v~~~~~~~~~ 140 (265)
T cd03174 105 NLNKSREEDLENAEEAIEAAKEAGLEVEGSLEDAFG 140 (265)
T ss_pred HhCCCHHHHHHHHHHHHHHHHHCCCeEEEEEEeecC
Confidence 345677888999999999999999999987744333
No 427
>PF13500 AAA_26: AAA domain; PDB: 3OF5_A 2IOJ_A 4A0G_B 4A0R_A 4A0H_B 4A0F_B 3FMI_C 3FPA_D 3FMF_C 3FGN_A ....
Probab=21.97 E-value=1.7e+02 Score=19.22 Aligned_cols=37 Identities=19% Similarity=0.159 Sum_probs=22.1
Q ss_pred HHHHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHHHc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQTARIIADSILNLADL 63 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~~~ 63 (68)
...+.|+..+.||+.|.+++=+ .+.++ ..+++.+.++
T Consensus 120 ~n~dia~~L~a~vIlV~~~~~g-~i~~~-l~~~~~~~~~ 156 (199)
T PF13500_consen 120 LNADIAKALGAPVILVASGRLG-TINHT-LLTIEALKQR 156 (199)
T ss_dssp EHHHHHHHHT-EEEEEEESSTT-HHHHH-HHHHHHHHCT
T ss_pred HHHHHHHHcCCCEEEEeCCCCC-CHHHH-HHHHHHHHhc
Confidence 4567888888898877765443 34433 3555555544
No 428
>PRK01221 putative deoxyhypusine synthase; Provisional
Probab=21.95 E-value=64 Score=24.42 Aligned_cols=17 Identities=24% Similarity=0.514 Sum_probs=14.2
Q ss_pred HHHHHHHHHhCCCCEEE
Q psy8530 23 DELVFMKARERRVPIVM 39 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~ 39 (68)
+.-++.+|.+++|||-|
T Consensus 173 e~Sil~~Ay~~~VPVf~ 189 (312)
T PRK01221 173 ENSILRAAYEKGVPVFV 189 (312)
T ss_pred cCcHHHHHHHcCCCEEC
Confidence 35688999999999975
No 429
>TIGR01496 DHPS dihydropteroate synthase. This model represents dihydropteroate synthase, the enzyme that catalyzes the second to last step in folic acid biosynthesis. The gene is usually designated folP (folic acid biosynthsis) or sul (sulfanilamide resistance). This model represents one branch of the family of pterin-binding enzymes (pfam00809) and of a cluster of dihydropteroate synthase and related enzymes (COG0294). Other members of pfam00809 and COG0294 are represented by TIGR00284.
Probab=21.92 E-value=2.7e+02 Score=19.85 Aligned_cols=23 Identities=30% Similarity=0.440 Sum_probs=18.6
Q ss_pred HHHHHHHHHhCCCCEEEEecCCC
Q psy8530 23 DELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY 45 (68)
|.-++..+++++.|++.+-..|-
T Consensus 107 ~~~~~~l~~~~~~~vV~m~~~g~ 129 (257)
T TIGR01496 107 DPAMLEVAAEYGVPLVLMHMRGT 129 (257)
T ss_pred CchhHHHHHHcCCcEEEEeCCCC
Confidence 67788899999999998766553
No 430
>PF00483 NTP_transferase: Nucleotidyl transferase This Prosite entry is only a sub-family of the Pfam entry.; InterPro: IPR005835 Nucleotidyl transferases transfer nucleotides from one compound to another. This domain is found in a number of enzymes that transfer nucleotides onto phosphosugars.; GO: 0016779 nucleotidyltransferase activity, 0009058 biosynthetic process; PDB: 1YP2_C 1YP4_D 1YP3_B 1H5S_D 1H5R_C 1H5T_C 2E3D_B 1JYL_C 1JYK_A 1MP5_C ....
Probab=21.90 E-value=84 Score=20.89 Aligned_cols=27 Identities=26% Similarity=0.375 Sum_probs=17.6
Q ss_pred EEEecCCCccchH-----------------HHHHHHHHhHHHcC
Q psy8530 38 VMLTSGGYLKQTA-----------------RIIADSILNLADLG 64 (68)
Q Consensus 38 a~v~gGGY~~d~~-----------------~~v~~si~~l~~~~ 64 (68)
+++++||+++... .++...|.+|.+.|
T Consensus 2 avIla~G~GtRl~plt~~~pK~ll~i~g~~pli~~~l~~l~~~g 45 (248)
T PF00483_consen 2 AVILAGGKGTRLRPLTDTIPKPLLPIGGKYPLIDYVLENLANAG 45 (248)
T ss_dssp EEEEEESCCGGGTTTTTTSSGGGSEETTEEEHHHHHHHHHHHTT
T ss_pred EEEECCCCCccCchhhhccccccceecCCCcchhhhhhhhcccC
Confidence 4667777777643 46777777776643
No 431
>TIGR00107 deoD purine-nucleoside phosphorylase, family 1 (deoD). Purine nucleoside phosphorylase (also called inosine phosphorylase) is a purine salvage enzyme. Purine nucleosides, such as guanosine, inosine, or xanthosine, plus orthophosphate, can be converted to their respective purine bases (guanine, hypoxanthine, or xanthine) plus ribose-1-phosphate. This family of purine nucleoside phosphorylase is restricted to the bacteria.
Probab=21.85 E-value=2.3e+02 Score=19.66 Aligned_cols=21 Identities=10% Similarity=0.126 Sum_probs=17.2
Q ss_pred HHHHHHHhCCCCEEEE-------ecCCC
Q psy8530 25 LVFMKARERRVPIVML-------TSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v-------~gGGY 45 (68)
.++..|..+|+|.+++ ..|++
T Consensus 181 al~~va~~~~~~~~~i~~vsd~~~~~~~ 208 (232)
T TIGR00107 181 ALYANAAELGAKALTILTVSDHLVTHEA 208 (232)
T ss_pred HHHHHHHHcCCcEEEEEEEEeecccCCC
Confidence 4788999999999986 45666
No 432
>TIGR00355 purH phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase. Involved in purine ribonucleotide biosynthesis. The IMP cyclohydrolase activity is in the N-terminal region.
Probab=21.80 E-value=57 Score=26.49 Aligned_cols=19 Identities=32% Similarity=0.352 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHhCCCCEEE
Q psy8530 21 RRDELVFMKARERRVPIVM 39 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~ 39 (68)
-||+-|.+.|-++||+.++
T Consensus 485 iRD~evI~aa~e~giaMvf 503 (511)
T TIGR00355 485 MRDEDSIWAADEHGIVMVF 503 (511)
T ss_pred CCcHHHHHHHHHhCCEEEE
Confidence 3999999999999976554
No 433
>PF10649 DUF2478: Protein of unknown function (DUF2478); InterPro: IPR018912 This is a family of hypothetical bacterial proteins encoded in the vicinity of molybdenum ABC transporter gene-products MobA, MobB and MobC. However the function could not be confirmed.
Probab=21.79 E-value=87 Score=21.44 Aligned_cols=24 Identities=13% Similarity=0.110 Sum_probs=18.4
Q ss_pred HHHHHHHhCCCCEEEEecCCCccc
Q psy8530 25 LVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
-++..|...+|||.+.+...|-..
T Consensus 114 ~~i~~A~~~giPVLt~V~~~~l~~ 137 (159)
T PF10649_consen 114 DEIAAALAAGIPVLTAVPPRNLEA 137 (159)
T ss_pred HHHHHHHHCCCCEEEEECHHHHHH
Confidence 456778899999999987666443
No 434
>PRK13896 cobyrinic acid a,c-diamide synthase; Provisional
Probab=21.75 E-value=1.3e+02 Score=23.59 Aligned_cols=31 Identities=29% Similarity=0.408 Sum_probs=19.1
Q ss_pred CCC--EEEEecCCCccchHHHHHH-----HHHhHHHcC
Q psy8530 34 RVP--IVMLTSGGYLKQTARIIAD-----SILNLADLG 64 (68)
Q Consensus 34 ~IP--va~v~gGGY~~d~~~~v~~-----si~~l~~~~ 64 (68)
.+| =+.++||||+.-.+..+.. +|.+..++|
T Consensus 271 ~lp~~D~l~lpGG~~e~~~~~L~~n~~~~~i~~~~~~G 308 (433)
T PRK13896 271 PLPDCDGVYLPGGYPELHADALADSPALDELADRAADG 308 (433)
T ss_pred CCCCCCEEEeCCCchhhHHHHHHhCCcHHHHHHHHHCC
Confidence 456 3577899997765554433 555555554
No 435
>cd01524 RHOD_Pyr_redox Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar rhodanese-like domains found C-terminal of the pyridine nucleotide-disulphide oxidoreductase (Pyr-redox) domain and the Pyr-redox dimerization domain.
Probab=21.75 E-value=1.2e+02 Score=17.33 Aligned_cols=14 Identities=29% Similarity=0.430 Sum_probs=5.6
Q ss_pred HhCCCCEEEEecCCC
Q psy8530 31 RERRVPIVMLTSGGY 45 (68)
Q Consensus 31 ~~~~IPva~v~gGGY 45 (68)
++.|. -+.++-|||
T Consensus 72 ~~~G~-~v~~l~GG~ 85 (90)
T cd01524 72 TQNGF-KVKNLDGGY 85 (90)
T ss_pred HHCCC-CEEEecCCH
Confidence 33444 333444443
No 436
>PRK05690 molybdopterin biosynthesis protein MoeB; Provisional
Probab=21.69 E-value=1e+02 Score=21.66 Aligned_cols=22 Identities=9% Similarity=-0.034 Sum_probs=16.8
Q ss_pred HHHHHHHHhCCCCEEEEecCCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY 45 (68)
.++-+.|+++++|++..-..|+
T Consensus 137 ~~ln~~~~~~~ip~v~~~~~g~ 158 (245)
T PRK05690 137 NQLNRACFAAKKPLVSGAAIRM 158 (245)
T ss_pred HHHHHHHHHhCCEEEEeeeccC
Confidence 4688899999999987554443
No 437
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=21.68 E-value=1.3e+02 Score=19.41 Aligned_cols=21 Identities=14% Similarity=0.183 Sum_probs=16.4
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
.-+++.++++|+|++.+.++.
T Consensus 91 ~~~L~~l~~~g~~~~i~S~~~ 111 (213)
T TIGR01449 91 EATLGALRAKGLRLGLVTNKP 111 (213)
T ss_pred HHHHHHHHHCCCeEEEEeCCC
Confidence 347788999999999777653
No 438
>COG2129 Predicted phosphoesterases, related to the Icc protein [General function prediction only]
Probab=21.67 E-value=86 Score=22.91 Aligned_cols=35 Identities=9% Similarity=0.220 Sum_probs=25.6
Q ss_pred HHHHHhCCCCEEEEecCCCccchHHHHHHHHHhHH
Q psy8530 27 FMKARERRVPIVMLTSGGYLKQTARIIADSILNLA 61 (68)
Q Consensus 27 ~~~a~~~~IPva~v~gGGY~~d~~~~v~~si~~l~ 61 (68)
++..+..++||.+|+|=.=.+...++...+..|+.
T Consensus 57 ~e~l~~~~~~v~avpGNcD~~~v~~~l~~~~~~v~ 91 (226)
T COG2129 57 LEALKELGIPVLAVPGNCDPPEVIDVLKNAGVNVH 91 (226)
T ss_pred HHHHHhcCCeEEEEcCCCChHHHHHHHHhcccccc
Confidence 77888899999999998665555555555555544
No 439
>TIGR02647 DNA conserved hypothetical protein TIGR02647. Members of this family are found, so far, only in the Gammaproteobacteria. The function is unknown. The location on the chromosome usually is not far from housekeeping genes rather than in what is clearly, say, a prophage region. Some members have been annotated in public databases as DNA-binding protein inhibitor Id-2-related protein, putative transcriptional regulator, or hypothetical DNA binding protein.
Probab=21.66 E-value=87 Score=19.48 Aligned_cols=22 Identities=14% Similarity=0.234 Sum_probs=16.1
Q ss_pred cchHHHHHHHHHhHHHcCCcCC
Q psy8530 47 KQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 47 ~d~~~~v~~si~~l~~~~~~~~ 68 (68)
.+.+.-+-.....|++||+|+.
T Consensus 30 ~dA~p~~i~a~~RLheKGLI~~ 51 (77)
T TIGR02647 30 STASPAAVAAAARLHEKGLTTQ 51 (77)
T ss_pred ccCCHHHHHHHHHHHHcCCccC
Confidence 3445556667889999999863
No 440
>TIGR03664 fut_nucase futalosine nucleosidase. This enzyme catalyzes the conversion of futalosine to de-hypoxanthine futalosine in a pathway for the biosynthesis of menaquinone distinct from the pathway observed in E. coli.
Probab=21.65 E-value=86 Score=21.66 Aligned_cols=27 Identities=26% Similarity=0.220 Sum_probs=19.7
Q ss_pred HHHHHHHhCCCCEEEEe-----cCCCccchHH
Q psy8530 25 LVFMKARERRVPIVMLT-----SGGYLKQTAR 51 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~-----gGGY~~d~~~ 51 (68)
-|++.|+.++||.+++- .|...++.++
T Consensus 175 ava~va~~~~vP~~~IR~ISD~~~~~~~~~w~ 206 (222)
T TIGR03664 175 AVALAALRYGVPFLELRGISNLVGPRDRSRWR 206 (222)
T ss_pred HHHHHHHHhCCCEEEEEeeccCCCCcchhhcC
Confidence 47889999999999862 4555555554
No 441
>cd02115 AAK Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that phosphorylate a variety of amino acid substrates. These kinases catalyze the formation of phosphoric anhydrides, generally with a carboxylate, and use ATP as the source of the phosphoryl group; are involved in amino acid biosynthesis. Some of these kinases control the process via allosteric feed-back inhibition.
Probab=21.61 E-value=2.6e+02 Score=18.74 Aligned_cols=18 Identities=11% Similarity=0.108 Sum_probs=14.4
Q ss_pred hCCCCEEEEecCCCccch
Q psy8530 32 ERRVPIVMLTSGGYLKQT 49 (68)
Q Consensus 32 ~~~IPva~v~gGGY~~d~ 49 (68)
+.+.|++.|.|||..-..
T Consensus 27 ~~~~~~viV~ggg~~~~~ 44 (248)
T cd02115 27 SEGGRVVVVHGAGPQITD 44 (248)
T ss_pred hcCCCEEEEECCCCCcCH
Confidence 468999999999876544
No 442
>TIGR03468 HpnG hopanoid-associated phosphorylase. The sequences in this family are members of the pfam01048 family of phosphorylases typically acting on nucleotide-sugar substrates. The genes of the family modeled here are generally in the same locus with genes involved in the biosynthesis and elaboration of hopene, the cyclization product of the polyisoprenoid squalene. This gene is adjacent to the genes PhnA-E and squalene-hopene cyclase (which would be HpnF) in Zymomonas mobilis and their association with hopene biosynthesis has been noted in the literature. Extending the gene symbol sequence, we suggest the symbol HpnG for the product of this gene. Hopanoids are known to be components of the plasma membrane and to have polar sugar head groups in Z. mobilis and other species.
Probab=21.60 E-value=93 Score=21.35 Aligned_cols=16 Identities=19% Similarity=0.264 Sum_probs=13.9
Q ss_pred HHHHHHHhCCCCEEEE
Q psy8530 25 LVFMKARERRVPIVML 40 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v 40 (68)
-+.+.|+.+|||.+++
T Consensus 136 ava~va~~~gip~~~i 151 (212)
T TIGR03468 136 AVAAVAAAAGLPFAVI 151 (212)
T ss_pred HHHHHHHHcCCCEEEE
Confidence 3788999999999985
No 443
>PRK00912 ribonuclease P protein component 3; Provisional
Probab=21.57 E-value=2.4e+02 Score=19.44 Aligned_cols=17 Identities=24% Similarity=0.233 Sum_probs=13.2
Q ss_pred HHHHHHHHHhCCCCEEE
Q psy8530 23 DELVFMKARERRVPIVM 39 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~ 39 (68)
.+..++.|++.|+|++.
T Consensus 156 ~~~~~~~~~~~g~piii 172 (237)
T PRK00912 156 FRDNLALARKYDFPLVL 172 (237)
T ss_pred HHHHHHHHHhcCCCEEE
Confidence 35688999999999843
No 444
>cd02006 TPP_Gcl Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the condensation of two molecules of glyoxylate to give tartronic semialdehyde and carbon dioxide. This enzyme requires TPP, magnesium ion and FAD as cofactors.
Probab=21.57 E-value=73 Score=21.38 Aligned_cols=30 Identities=7% Similarity=-0.120 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEe--cCCCc
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLT--SGGYL 46 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~--gGGY~ 46 (68)
+|=+.=.-.-|.+|.++++|+.+++ =|||+
T Consensus 84 DG~f~m~~~eL~Ta~~~~lpviivV~NN~~yg 115 (202)
T cd02006 84 DYDFQFMIEELAVGAQHRIPYIHVLVNNAYLG 115 (202)
T ss_pred ChHhhccHHHHHHHHHhCCCeEEEEEeCchHH
Confidence 3333333455889999999999777 67786
No 445
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=21.55 E-value=1.3e+02 Score=19.75 Aligned_cols=21 Identities=5% Similarity=0.001 Sum_probs=16.3
Q ss_pred HHHHHHHHhCCCCEEEEecCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGG 44 (68)
+-+++.++++|+|++.+.++.
T Consensus 88 ~~~l~~L~~~g~~~~i~S~~~ 108 (214)
T PRK13288 88 YETLKTLKKQGYKLGIVTTKM 108 (214)
T ss_pred HHHHHHHHHCCCeEEEEeCCC
Confidence 347888899999988777654
No 446
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=21.51 E-value=92 Score=19.60 Aligned_cols=18 Identities=22% Similarity=0.241 Sum_probs=15.1
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
.++++|++.|++++++-.
T Consensus 16 r~~ra~r~~Gi~tv~v~s 33 (110)
T PF00289_consen 16 RIIRALRELGIETVAVNS 33 (110)
T ss_dssp HHHHHHHHTTSEEEEEEE
T ss_pred HHHHHHHHhCCcceeccC
Confidence 478899999999998854
No 447
>smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element. iron dependent repressor
Probab=21.47 E-value=74 Score=18.42 Aligned_cols=18 Identities=17% Similarity=0.294 Sum_probs=14.9
Q ss_pred HHHHHHHHhHHHcCCcCC
Q psy8530 51 RIIADSILNLADLGLISR 68 (68)
Q Consensus 51 ~~v~~si~~l~~~~~~~~ 68 (68)
.++.+.+..|.++|+|.|
T Consensus 14 stvs~~l~~L~~~glI~r 31 (96)
T smart00529 14 PTVTQMLKKLEKDGLVEY 31 (96)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 468889999999998864
No 448
>PF13471 Transglut_core3: Transglutaminase-like superfamily
Probab=21.46 E-value=1.7e+02 Score=18.01 Aligned_cols=25 Identities=16% Similarity=0.234 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHhCCCCEEEEec
Q psy8530 18 GIIRRDELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 18 Gi~~RD~~V~~~a~~~~IPva~v~g 42 (68)
.+..|=.....+++.+|||...++|
T Consensus 57 ~CL~~ala~~~~L~~~gi~~~l~iG 81 (117)
T PF13471_consen 57 KCLPRALALQRLLRRRGIPATLVIG 81 (117)
T ss_pred ChHHHHHHHHHHHHhcCCCcEEEEE
Confidence 5677778888899999999998886
No 449
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.37 E-value=95 Score=20.26 Aligned_cols=39 Identities=18% Similarity=0.287 Sum_probs=25.2
Q ss_pred HHHHHHhCCCCEEEEec----CCC---ccchHHHHHHHHHhHHHcC
Q psy8530 26 VFMKARERRVPIVMLTS----GGY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 26 V~~~a~~~~IPva~v~g----GGY---~~d~~~~v~~si~~l~~~~ 64 (68)
+++.+++.+||++.+-. ..+ ..|.........+.|.++|
T Consensus 71 ~~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~~~~~~~~l~~~g 116 (268)
T cd06289 71 LLKRLAESGIPVVLVAREVAGAPFDYVGPDNAAGARLATEHLISLG 116 (268)
T ss_pred HHHHHHhcCCCEEEEeccCCCCCCCEEeecchHHHHHHHHHHHHCC
Confidence 67888899999998742 121 2334455666666777664
No 450
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=21.34 E-value=2.2e+02 Score=18.73 Aligned_cols=21 Identities=19% Similarity=0.235 Sum_probs=12.6
Q ss_pred HHHHHHHhCCC-CEEEEecCCC
Q psy8530 25 LVFMKARERRV-PIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~I-Pva~v~gGGY 45 (68)
.+.+.+++.++ .+.+++||+.
T Consensus 69 ~~~~~l~~~gl~~v~vivGG~~ 90 (128)
T cd02072 69 GLREKCDEAGLKDILLYVGGNL 90 (128)
T ss_pred HHHHHHHHCCCCCCeEEEECCC
Confidence 56677788887 4334445544
No 451
>cd07384 MPP_Cdc1_like Saccharomyces cerevisiae CDC1 and related proteins, metallophosphatase domain. Cdc1 (also known as XlCdc1 in Xenopus laevis) is an endoplasmic reticulum-localized transmembrane lipid phosphatase with a metallophosphatase domain facing the ER lumen. In budding yeast, the gene encoding CDC1 is essential while nonlethal mutations cause defects in Golgi inheritance and actin polarization. Cdc1 mutant cells accumulate an unidentified phospholipid, suggesting that Cdc1 is a lipid phosphatase. Cdc1 mutant cells also have highly elevated intracellular calcium levels suggesting a possible role for Cdc1 in calcium regulation. The 5' flanking region of Cdc1 is a regulatory region with conserved binding site motifs for AP1, AP2, Sp1, NF-1 and CREB. DNA polymerase delta consists of at least four subunits - Pol3, Cdc1, Cdc27, and Cdm1. This group also contains Saccharomyces cerevisiae TED1 (Trafficking of Emp24p/Erv25p-dependent cargo disrupted 1), which acts together wit
Probab=21.32 E-value=2.2e+02 Score=18.77 Aligned_cols=44 Identities=18% Similarity=0.057 Sum_probs=29.5
Q ss_pred CCCCCCCCcc---ccc-----CCHHHHHHHHHHHHHHHHhCCCCEEEEecCC
Q psy8530 1 MVHTWMGDQV---DML-----EDHLGIIRRDELVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 1 ~vD~~~~D~L---~L~-----lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGG 44 (68)
++|||-++.- +.. +.+.+.-..++..++.+.+..=|=.+++.|=
T Consensus 3 vaDpql~~~~~~~~~~~~~~~~~p~~~d~~~~~~~~~~i~~~~pd~vi~lGD 54 (171)
T cd07384 3 VADPQILDETSYPPRPKIALRLTRFYTDAYMRRAFKTALQRLKPDVVLFLGD 54 (171)
T ss_pred ccCccccCCCCCCCCchhhhHHHHHhHHHHHHHHHHHHHHhcCCCEEEEecc
Confidence 4799998865 322 5666666777777888776666666655553
No 452
>PRK13497 chemoreceptor glutamine deamidase CheD; Provisional
Probab=21.30 E-value=1.4e+02 Score=20.93 Aligned_cols=30 Identities=17% Similarity=0.286 Sum_probs=22.0
Q ss_pred HHHHH-HHHHHHHHhCCCCEEEE-ecCCCccc
Q psy8530 19 IIRRD-ELVFMKARERRVPIVML-TSGGYLKQ 48 (68)
Q Consensus 19 i~~RD-~~V~~~a~~~~IPva~v-~gGGY~~d 48 (68)
|-+|+ +++.+..++.+|||+.- +||=+++.
T Consensus 109 IG~rNi~~a~~~L~~~gI~i~a~DvGG~~gR~ 140 (184)
T PRK13497 109 VGEQNAAFAMQFLRDEGIPVVGSSTGGEHGRK 140 (184)
T ss_pred HHHHHHHHHHHHHHHcCCcEEEEeCCCCCCcE
Confidence 44555 57888999999999965 46666654
No 453
>TIGR02404 trehalos_R_Bsub trehalose operon repressor, B. subtilis-type. This family consists of repressors of the GntR family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gram-positive lineages and does not include the TreR from E. coli.
Probab=21.26 E-value=61 Score=22.00 Aligned_cols=19 Identities=16% Similarity=0.347 Sum_probs=16.2
Q ss_pred HHHHHHHHHhHHHcCCcCC
Q psy8530 50 ARIIADSILNLADLGLISR 68 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~~ 68 (68)
-.+|..++..|.+.|+|.|
T Consensus 38 R~TVR~Al~~L~~eGli~r 56 (233)
T TIGR02404 38 RETVRKALNLLTEAGYIQK 56 (233)
T ss_pred HHHHHHHHHHHHHCCCEEE
Confidence 3489999999999999865
No 454
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=21.24 E-value=2.7e+02 Score=21.53 Aligned_cols=16 Identities=19% Similarity=0.380 Sum_probs=13.7
Q ss_pred CCCEEEEecCCCccch
Q psy8530 34 RVPIVMLTSGGYLKQT 49 (68)
Q Consensus 34 ~IPva~v~gGGY~~d~ 49 (68)
++||+.+...||..+.
T Consensus 127 ~~pvi~v~tpgF~g~~ 142 (455)
T PRK14476 127 DTPIVYVSTPDFKGAL 142 (455)
T ss_pred CCeEEEecCCCCCCcH
Confidence 8999999999997554
No 455
>PRK06683 hypothetical protein; Provisional
Probab=21.24 E-value=1.3e+02 Score=18.15 Aligned_cols=17 Identities=18% Similarity=0.434 Sum_probs=13.4
Q ss_pred HHHHHHHhCCCCEEEEe
Q psy8530 25 LVFMKARERRVPIVMLT 41 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~ 41 (68)
-+.+.|...+||+..+.
T Consensus 44 ~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 44 VIIRTALQHNIPITKVE 60 (82)
T ss_pred HHHHHHHhcCCCEEEEC
Confidence 35678999999997653
No 456
>TIGR02325 C_P_lyase_phnF phosphonates metabolism transcriptional regulator PhnF. All members of the seed alignment for this family are predicted helix-turn-helix transcriptional regulatory proteins of the broader gntR and are found associated with genes for the import and degradation of phosphonates and/or related compounds (e.g. phosphonites) with a direct C-P bond.
Probab=21.22 E-value=61 Score=21.83 Aligned_cols=18 Identities=22% Similarity=0.427 Sum_probs=15.7
Q ss_pred HHHHHHHHhHHHcCCcCC
Q psy8530 51 RIIADSILNLADLGLISR 68 (68)
Q Consensus 51 ~~v~~si~~l~~~~~~~~ 68 (68)
.+|..++..|.+.|+|.|
T Consensus 47 ~TvR~Al~~L~~eGli~r 64 (238)
T TIGR02325 47 HTVRRAIAALVERGLLRA 64 (238)
T ss_pred HHHHHHHHHHHHCCCEEE
Confidence 489999999999999864
No 457
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=21.16 E-value=2.2e+02 Score=21.57 Aligned_cols=23 Identities=30% Similarity=0.437 Sum_probs=17.9
Q ss_pred HHhCCCCEEEEecCCCccchHHH
Q psy8530 30 ARERRVPIVMLTSGGYLKQTARI 52 (68)
Q Consensus 30 a~~~~IPva~v~gGGY~~d~~~~ 52 (68)
+++.++||+.+-..||..+...=
T Consensus 112 ~~~~~~~vi~v~t~gf~g~~~~G 134 (427)
T cd01971 112 FQEGGAPIVYLETGGFKGNNYAG 134 (427)
T ss_pred hhhcCCCEEEEECCCcCcccccH
Confidence 35679999999999998765443
No 458
>PRK08227 autoinducer 2 aldolase; Validated
Probab=21.11 E-value=3.1e+02 Score=20.11 Aligned_cols=35 Identities=14% Similarity=0.135 Sum_probs=22.5
Q ss_pred HHHHHHHHHHhCCCCEEEEe-cCCCccchHHHHHHH
Q psy8530 22 RDELVFMKARERRVPIVMLT-SGGYLKQTARIIADS 56 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~-gGGY~~d~~~~v~~s 56 (68)
.=..|.+.|.+.|+|+..+. =|++-++..++|+-+
T Consensus 128 ~l~~v~~ea~~~G~Plla~~prG~~~~~~~~~ia~a 163 (264)
T PRK08227 128 NIIQLVDAGLRYGMPVMAVTAVGKDMVRDARYFSLA 163 (264)
T ss_pred HHHHHHHHHHHhCCcEEEEecCCCCcCchHHHHHHH
Confidence 33457789999999998855 344434444455444
No 459
>smart00419 HTH_CRP helix_turn_helix, cAMP Regulatory protein.
Probab=21.06 E-value=89 Score=15.51 Aligned_cols=18 Identities=28% Similarity=0.447 Sum_probs=13.9
Q ss_pred HHHHHHHHHhHHHcCCcC
Q psy8530 50 ARIIADSILNLADLGLIS 67 (68)
Q Consensus 50 ~~~v~~si~~l~~~~~~~ 67 (68)
...+.+.+..|.++|+|.
T Consensus 22 ~~tv~~~l~~L~~~g~l~ 39 (48)
T smart00419 22 RETVSRTLKRLEKEGLIS 39 (48)
T ss_pred HHHHHHHHHHHHHCCCEE
Confidence 346788888888888875
No 460
>COG1619 LdcA Uncharacterized proteins, homologs of microcin C7 resistance protein MccF [Defense mechanisms]
Probab=21.05 E-value=1.5e+02 Score=22.37 Aligned_cols=42 Identities=14% Similarity=0.154 Sum_probs=33.9
Q ss_pred CCCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 4 TWMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 4 ~~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
-|..++. +++-|. .+|=+-+.++...-+|-+++-+-|||+..
T Consensus 46 ~~i~~~~~~~a~s~---~~R~~dL~~af~d~~vk~Il~~rGGygs~ 88 (313)
T COG1619 46 EHILRRDQYFAGSD---EERAEDLMSAFSDPDVKAILCVRGGYGSN 88 (313)
T ss_pred hhhhhccccccCCH---HHHHHHHHHHhcCCCCeEEEEcccCCChh
Confidence 3555666 777777 68888899999999999999999999643
No 461
>PRK05773 3,4-dihydroxy-2-butanone 4-phosphate synthase; Validated
Probab=21.01 E-value=38 Score=24.40 Aligned_cols=22 Identities=14% Similarity=0.087 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEE
Q psy8530 17 LGIIRRDELVFMKARERRVPIVM 39 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~ 39 (68)
.+...++ ...++|+++++|++.
T Consensus 188 ~~~~~~~-~~~~fA~~~~l~~is 209 (219)
T PRK05773 188 KLSLSKE-KAKKIAKNLGFPLVE 209 (219)
T ss_pred CCCcCHH-HHHHHHHHcCCcEEE
Confidence 3444444 458999999999853
No 462
>cd04892 ACT_AK-like_2 ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). This CD includes the second of two ACT domains C-terminal to the catalytic domain of aspartokinase (AK; 4-L-aspartate-4-phosphotransferase). The exception in this group, is the inclusion of the first ACT domain of the bifunctional aspartokinase - homoserine dehydrogenase-like enzyme group (ACT_AKi-HSDH-ThrA-like_1) which includes the monofunctional, threonine-sensitive, aspartokinase found in Methanococcus jannaschii and other related archaeal species. AK catalyzes the conversion of aspartate and ATP to aspartylphosphate and ADP. AK is the first enzyme in the pathway of the biosynthesis of the aspartate family of amino acids (lysine, threonine, methionine, and isoleucine) and the bacterial cell wall component, meso-diaminopimelate. One mechanism for the regulation of this pathway is by the production of several isoenzymes of AK with different repressors an
Probab=21.01 E-value=1.2e+02 Score=15.20 Aligned_cols=20 Identities=25% Similarity=0.524 Sum_probs=16.7
Q ss_pred HHHHHHHhCCCCEEEEecCC
Q psy8530 25 LVFMKARERRVPIVMLTSGG 44 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGG 44 (68)
.+|+.+.+.+||+.++.-+.
T Consensus 19 ~i~~~l~~~~i~v~~i~~~~ 38 (65)
T cd04892 19 RIFSALAEAGINIIMISQGS 38 (65)
T ss_pred HHHHHHHHCCCcEEEEEcCC
Confidence 48999999999999887544
No 463
>KOG1432|consensus
Probab=21.00 E-value=1.3e+02 Score=23.66 Aligned_cols=37 Identities=14% Similarity=0.223 Sum_probs=22.3
Q ss_pred CCCCcc-cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 5 WMGDQV-DMLEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 5 ~~~D~L-~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
+.||-+ .-+.++ -..-=..++.=+.+++||-|+++|-
T Consensus 106 fTGD~i~g~~t~D--a~~sl~kAvaP~I~~~IPwA~~lGN 143 (379)
T KOG1432|consen 106 FTGDNIFGHSTQD--AATSLMKAVAPAIDRKIPWAAVLGN 143 (379)
T ss_pred EeCCcccccccHh--HHHHHHHHhhhHhhcCCCeEEEecc
Confidence 455665 522222 2222234566678899999999983
No 464
>COG4948 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]
Probab=20.97 E-value=55 Score=24.05 Aligned_cols=48 Identities=21% Similarity=0.290 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHH-HHhCCCCEEEEecCCCc------------cchHHHHHHHHHhHHHcC
Q psy8530 17 LGIIRRDELVFMK-ARERRVPIVMLTSGGYL------------KQTARIIADSILNLADLG 64 (68)
Q Consensus 17 ~Gi~~RD~~V~~~-a~~~~IPva~v~gGGY~------------~d~~~~v~~si~~l~~~~ 64 (68)
..+.+=|-..++. +|..|.|+.-++||+.. .+..+.......++.+.|
T Consensus 98 ~a~sAvd~ALwDl~gK~~g~Pv~~LLGg~~r~~v~~y~~~~~~~~~~e~~~~~~~~~~~~G 158 (372)
T COG4948 98 AAISAVDIALWDLAGKALGVPVYKLLGGKVRDEVRAYASGGGGEDPEEMAAEAARALVELG 158 (372)
T ss_pred HHHHHHHHHHHHHHHhHcCCcHHHHcCCceeeeEEEEEecCCCCCCHHHHHHHHHHHHhcC
Confidence 3444445555553 56789999999998864 234555555555555543
No 465
>PRK11557 putative DNA-binding transcriptional regulator; Provisional
Probab=20.97 E-value=63 Score=22.50 Aligned_cols=31 Identities=16% Similarity=-0.023 Sum_probs=21.6
Q ss_pred cCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 13 LEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 13 ~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
-+|..|--+.=..+.+.|+++|+||+++.+.
T Consensus 181 ~iS~sg~~~~~~~~~~~ak~~ga~iI~IT~~ 211 (278)
T PRK11557 181 AISYSGERRELNLAADEALRVGAKVLAITGF 211 (278)
T ss_pred EEcCCCCCHHHHHHHHHHHHcCCCEEEEcCC
Confidence 3444454444456788999999999988764
No 466
>PRK03971 putative deoxyhypusine synthase; Provisional
Probab=20.97 E-value=71 Score=24.42 Aligned_cols=17 Identities=18% Similarity=0.384 Sum_probs=14.5
Q ss_pred HHHHHHHHHhCCCCEEE
Q psy8530 23 DELVFMKARERRVPIVM 39 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~ 39 (68)
+.-++.+|.+++|||-|
T Consensus 193 e~Sil~~Ayk~~VPIf~ 209 (334)
T PRK03971 193 EKSILYWAYKNNIPIFC 209 (334)
T ss_pred cchHHHHHHHcCCCEEc
Confidence 36789999999999975
No 467
>cd00757 ThiF_MoeB_HesA_family ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD and ThiS, respectively, on the alpha-phosphate of an ATP molecule bound at the active site of the activating enzymes, leading to the formation of a high-energy acyladenylate intermediate and subsequently to the formation of a thiocarboxylate at the C termini of MoaD and ThiS. MoeB, as the MPT synthase (MoaE/MoaD complex) sulfurase, is involved in the biosynthesis of the molybdenum cofactor, a derivative of the tricyclic pterin, molybdopterin (MPT). ThiF catalyzes the adenylation of ThiS, as part of the biosynthesis pathway of thiamin pyrophosphate (vitamin B1).
Probab=20.96 E-value=1.3e+02 Score=20.59 Aligned_cols=22 Identities=18% Similarity=0.117 Sum_probs=17.0
Q ss_pred HHHHHHHHhCCCCEEEEecCCC
Q psy8530 24 ELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY 45 (68)
.++-++|+++++|.+..-..|+
T Consensus 126 ~~l~~~~~~~~ip~i~~g~~g~ 147 (228)
T cd00757 126 YLINDACVKLGKPLVSGAVLGF 147 (228)
T ss_pred HHHHHHHHHcCCCEEEEEeccC
Confidence 5788999999999987654443
No 468
>PRK07077 hypothetical protein; Provisional
Probab=20.96 E-value=95 Score=22.34 Aligned_cols=15 Identities=20% Similarity=0.266 Sum_probs=13.5
Q ss_pred HHHHHHHhCCCCEEE
Q psy8530 25 LVFMKARERRVPIVM 39 (68)
Q Consensus 25 ~V~~~a~~~~IPva~ 39 (68)
.|.+.|.+++||.++
T Consensus 147 AvA~va~~~giPf~v 161 (238)
T PRK07077 147 IAAAFAAARGLPFAA 161 (238)
T ss_pred HHHHHHHHcCCCEEE
Confidence 578999999999998
No 469
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=20.94 E-value=1.4e+02 Score=19.22 Aligned_cols=21 Identities=10% Similarity=0.052 Sum_probs=18.0
Q ss_pred HHHHHHHhCCCCEEEEecCCC
Q psy8530 25 LVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gGGY 45 (68)
.+++.++++|+.++.+.++..
T Consensus 35 ~~i~~Lk~~G~~i~IvTn~~~ 55 (154)
T TIGR01670 35 YGIRCALKSGIEVAIITGRKA 55 (154)
T ss_pred HHHHHHHHCCCEEEEEECCCC
Confidence 389999999999998888664
No 470
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=20.87 E-value=95 Score=20.23 Aligned_cols=40 Identities=15% Similarity=0.129 Sum_probs=26.3
Q ss_pred HHHHHHHhCCCCEEEEecC----CC---ccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSG----GY---LKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG----GY---~~d~~~~v~~si~~l~~~~ 64 (68)
.+++.+.+.+||++.+-.. .+ ..|.........+.|.++|
T Consensus 68 ~~~~~~~~~~ipvV~~~~~~~~~~~~~v~~d~~~~g~~~~~~l~~~g 114 (266)
T cd06278 68 ELAEECRRNGIPVVLINRYVDGPGVDAVCSDNYEAGRLAAELLLAKG 114 (266)
T ss_pred HHHHHHhhcCCCEEEECCccCCCCCCEEEEChHHHHHHHHHHHHHCC
Confidence 3488888899999988421 11 2345566666777777764
No 471
>cd06810 PLPDE_III_ODC_DapDC_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Ornithine and Diaminopimelate Decarboxylases, and Related Enzymes. This family includes eukaryotic ornithine decarboxylase (ODC, EC 4.1.1.17), diaminopimelate decarboxylase (DapDC, EC 4.1.1.20), plant and prokaryotic biosynthetic arginine decarboxylase (ADC, EC 4.1.1.19), carboxynorspermidine decarboxylase (CANSDC), and ODC-like enzymes from diverse bacterial species. These proteins are fold type III PLP-dependent enzymes that catalyze essential steps in the biosynthesis of polyamine and lysine. ODC and ADC participate in alternative pathways of the biosynthesis of putrescine, which is the precursor of aliphatic polyamines in many organisms. ODC catalyzes the direct synthesis of putrescine from L-ornithine, while ADC converts L-arginine to agmatine, which is hydrolysed to putrescine by agmatinase in a pathway that exists only in plants and bacteria. DapDC converts meso-2,6-diaminoheptanedioate to
Probab=20.86 E-value=3.1e+02 Score=19.66 Aligned_cols=39 Identities=18% Similarity=0.037 Sum_probs=24.0
Q ss_pred HHHHHHHhCCCCEE-EEecCCCccch------HHHHHHHHHhHHHc
Q psy8530 25 LVFMKARERRVPIV-MLTSGGYLKQT------ARIIADSILNLADL 63 (68)
Q Consensus 25 ~V~~~a~~~~IPva-~v~gGGY~~d~------~~~v~~si~~l~~~ 63 (68)
..++.+++.+.++- .-+|||++-+. .+-....|.++.++
T Consensus 190 ~~~~~l~~~g~~~~~id~GGG~~~~y~~~~~~~~~~~~~i~~~~~~ 235 (368)
T cd06810 190 ELIEELVEMGFPLEMLDLGGGLGIPYDEQPLDFEEYAALINPLLKK 235 (368)
T ss_pred HHHHHHHhcCCCCCEEEeCCCcccccCCCCCCHHHHHHHHHHHHHH
Confidence 34555556677765 46699997662 24456666666654
No 472
>smart00344 HTH_ASNC helix_turn_helix ASNC type. AsnC: an autogenously regulated activator of asparagine synthetase A transcription in Escherichia coli
Probab=20.76 E-value=99 Score=18.33 Aligned_cols=44 Identities=11% Similarity=0.286 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHhCC-CCEEEEecC--CCccchHHHHHHHHHhHHHcCCcCC
Q psy8530 21 RRDELVFMKARERR-VPIVMLTSG--GYLKQTARIIADSILNLADLGLISR 68 (68)
Q Consensus 21 ~RD~~V~~~a~~~~-IPva~v~gG--GY~~d~~~~v~~si~~l~~~~~~~~ 68 (68)
+.|+.++....+.+ +|..- ++- |. ...++.+-+..|.++|+|.|
T Consensus 3 ~~D~~il~~L~~~~~~~~~~-la~~l~~---s~~tv~~~l~~L~~~g~i~~ 49 (108)
T smart00344 3 EIDRKILEELQKDARISLAE-LAKKVGL---SPSTVHNRVKRLEEEGVIKG 49 (108)
T ss_pred HHHHHHHHHHHHhCCCCHHH-HHHHHCc---CHHHHHHHHHHHHHCCCeec
Confidence 35777777776642 22100 000 11 24578899999999998864
No 473
>PF04207 MtrD: Tetrahydromethanopterin S-methyltransferase, subunit D ; InterPro: IPR005779 This model describes N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit D in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. 5-methyl-5,6,7,8-tetrahydromethanopterin + 2-mercaptoethanesulphonate = 5,6,7,8-tetrahydromethanopterin + 2-(methylthio)ethanesulphonate. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase (encoded by subunit A) is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of methyl-coenzyme M by another enzyme, methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0006814 sodium ion transport, 0005737 cytoplasm, 0012506 vesicle membrane
Probab=20.73 E-value=72 Score=23.39 Aligned_cols=28 Identities=25% Similarity=0.368 Sum_probs=18.7
Q ss_pred CCCCCCCcc--cccCCHHHHHHHHHHHHHHHHhCCCCEEEEecC
Q psy8530 2 VHTWMGDQV--DMLEDHLGIIRRDELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 2 vD~~~~D~L--~L~lS~~Gi~~RD~~V~~~a~~~~IPva~v~gG 43 (68)
.||-.+|+- +..=-.|| |++|.+|.+||
T Consensus 112 ~DPITgd~Q~~Yvt~GTeG--------------HGiPtv~fvsG 141 (223)
T PF04207_consen 112 KDPITGDRQEEYVTPGTEG--------------HGIPTVSFVSG 141 (223)
T ss_pred cCCCCCCCcccccCCCCCC--------------CCCceeeeehh
Confidence 366666665 44444455 99999998764
No 474
>TIGR03104 trio_amidotrans asparagine synthase family amidotransferase. Members of this protein family are closely related to several isoforms of asparagine synthetase (glutamine amidotransferase) and typically have been given this name in genome annotation to date. Each is part of a conserved three-gene cassette sparsely distributed across at least twenty different species known so far, including alpha, beta, and gamma Proteobacteria, Mycobacterium, and Prosthecochloris, which is a member of the Chlorobi. The other two members of the cassette are a probable protease and a member of the GNAT family of acetyltransferases.
Probab=20.71 E-value=3.2e+02 Score=21.79 Aligned_cols=19 Identities=37% Similarity=0.580 Sum_probs=15.0
Q ss_pred hCCCCEEEEecCCCccchHHH
Q psy8530 32 ERRVPIVMLTSGGYLKQTARI 52 (68)
Q Consensus 32 ~~~IPva~v~gGGY~~d~~~~ 52 (68)
....||++.++||. |+.-+
T Consensus 258 ~sd~pvg~~LSGGl--DSs~I 276 (589)
T TIGR03104 258 VADVPVGVLLSGGL--DSSLI 276 (589)
T ss_pred hcCCceeEEecCCc--cHHHH
Confidence 35899999999999 55533
No 475
>PF01916 DS: Deoxyhypusine synthase; InterPro: IPR002773 Eukaryotic initiation factor 5A (eIF-5A), now considered to be an elongation factor (see IPR001884 from INTERPRO), contains an unusual amino acid, hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The first step in the post-translational formation of hypusine is catalysed by the enzyme deoxyhypusine synthase (DS) 2.5.1.46 from EC. The enzyme catalyses the following reaction: Spermidine + [eIF-5A]-lysine = 1,3-diaminopropane + [eIF-5A]-deoxyhypusine The modified version of eIF-5A, and DS, are required for eukaryotic cell proliferation []. The structure is known for this enzyme [] in complex with its NAD+ cofactor.; GO: 0008612 peptidyl-lysine modification to hypusine; PDB: 1RQD_A 1RLZ_A 1DHS_A 1ROZ_B.
Probab=20.71 E-value=72 Score=23.85 Aligned_cols=22 Identities=14% Similarity=0.280 Sum_probs=13.2
Q ss_pred HHHHHHHHhCCCCEEEEecCCCccc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLKQ 48 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~d 48 (68)
.-++.+|.+++|||-| -|+...
T Consensus 159 ~Sil~~A~~~~vPVf~---Pa~~Ds 180 (299)
T PF01916_consen 159 DSILYAAYKNNVPVFC---PAITDS 180 (299)
T ss_dssp T-HHHHHHHTT--EE----TTTTSS
T ss_pred CcHHHHHHHcCCCEEC---CCCcch
Confidence 4678899999999875 455443
No 476
>PF14370 Topo_C_assoc: C-terminal topoisomerase domain; PDB: 1TL8_A 1K4T_A 1A36_A 1RR8_C 1T8I_A 1SC7_A 1EJ9_A 1LPQ_A 1RRJ_A 1A31_A ....
Probab=20.69 E-value=68 Score=19.58 Aligned_cols=17 Identities=18% Similarity=0.358 Sum_probs=11.6
Q ss_pred HHHHHHHHhCCCCEEEE
Q psy8530 24 ELVFMKARERRVPIVML 40 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v 40 (68)
|....+|+.+++|+--+
T Consensus 34 RItvAWck~~~VPieKi 50 (71)
T PF14370_consen 34 RITVAWCKRHEVPIEKI 50 (71)
T ss_dssp HHHHHHHHHTT--GGGT
T ss_pred HHHHHHHHHhCCcHHHH
Confidence 56788999999998543
No 477
>COG1335 PncA Amidases related to nicotinamidase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=20.67 E-value=1.5e+02 Score=19.51 Aligned_cols=31 Identities=16% Similarity=0.053 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 17 LGIIRRDELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
.-+..+=..+.+.|++.|+||+.+-=..+..
T Consensus 32 ~~i~~~i~~l~~~ar~~~~~vi~t~~~~~~~ 62 (205)
T COG1335 32 RKIIPNIAALVDAARAAGQPVIATQDWHPAD 62 (205)
T ss_pred hhhHHHHHHHHHHHHHcCCeEEEecccCCCc
Confidence 3488899999999999999999987655543
No 478
>cd02875 GH18_chitobiase Chitobiase (also known as di-N-acetylchitobiase) is a lysosomal glycosidase that hydrolyzes the reducing-end N-acetylglucosamine from the chitobiose core of oligosaccharides during the ordered degradation of asparagine-linked glycoproteins in eukaryotes. Chitobiase can only do so if the asparagine that joins the oligosaccharide to protein is previously removed by a glycosylasparaginase. Chitobiase is therefore the final step in the lysosomal degradation of the protein/carbohydrate linkage component of asparagine-linked glycoproteins. The catalytic domain of chitobiase is an eight-stranded alpha/beta barrel fold similar to that of other family 18 glycosyl hydrolases such as hevamine and chitotriosidase.
Probab=20.61 E-value=2.2e+02 Score=21.25 Aligned_cols=42 Identities=17% Similarity=0.179 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHhCCCCEEEEecCCCccch------HHHHHHHHHhHHHcC
Q psy8530 21 RRDELVFMKARERRVPIVMLTSGGYLKQT------ARIIADSILNLADLG 64 (68)
Q Consensus 21 ~RD~~V~~~a~~~~IPva~v~gGGY~~d~------~~~v~~si~~l~~~~ 64 (68)
+.|.-++..|+++|+.|.. .|++..+. .+....||.++.++.
T Consensus 64 ~~~~~~~~~A~~~~v~v~~--~~~~~~~~l~~~~~R~~fi~siv~~~~~~ 111 (358)
T cd02875 64 DIDDELLCYAHSKGVRLVL--KGDVPLEQISNPTYRTQWIQQKVELAKSQ 111 (358)
T ss_pred CCCHHHHHHHHHcCCEEEE--ECccCHHHcCCHHHHHHHHHHHHHHHHHh
Confidence 4577888999999999874 36654331 223445666666653
No 479
>PRK02301 putative deoxyhypusine synthase; Provisional
Probab=20.54 E-value=73 Score=24.19 Aligned_cols=17 Identities=29% Similarity=0.360 Sum_probs=14.1
Q ss_pred HHHHHHHHHhCCCCEEE
Q psy8530 23 DELVFMKARERRVPIVM 39 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~ 39 (68)
+.-++.+|.+++|||-|
T Consensus 174 e~Sil~~Ay~~~VPIf~ 190 (316)
T PRK02301 174 DSGILAAAYECDVPVYC 190 (316)
T ss_pred CCcHHHHHHHcCCCEEC
Confidence 35688999999999975
No 480
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=20.53 E-value=88 Score=20.52 Aligned_cols=27 Identities=22% Similarity=0.279 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEecCCC
Q psy8530 19 IIRRDELVFMKARERRVPIVMLTSGGY 45 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~gGGY 45 (68)
+-.+....++.+++.||+++.+.|=.|
T Consensus 16 i~~~~~~al~~l~~~Gi~~~~aTGR~~ 42 (225)
T TIGR01482 16 INESALEAIRKAESVGIPVVLVTGNSV 42 (225)
T ss_pred cCHHHHHHHHHHHHCCCEEEEEcCCch
Confidence 445666778888889999988887554
No 481
>cd01533 4RHOD_Repeat_2 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic Cys residue.
Probab=20.53 E-value=1.3e+02 Score=17.81 Aligned_cols=13 Identities=38% Similarity=0.524 Sum_probs=7.3
Q ss_pred CCCEEEEecCCCc
Q psy8530 34 RVPIVMLTSGGYL 46 (68)
Q Consensus 34 ~IPva~v~gGGY~ 46 (68)
+-|++..-.+|+.
T Consensus 66 ~~~ivv~C~~G~r 78 (109)
T cd01533 66 RTPIVVNCAGRTR 78 (109)
T ss_pred CCeEEEECCCCch
Confidence 4456665555554
No 482
>COG1846 MarR Transcriptional regulators [Transcription]
Probab=20.51 E-value=1e+02 Score=17.71 Aligned_cols=18 Identities=33% Similarity=0.512 Sum_probs=15.0
Q ss_pred HHHHHHHHhHHHcCCcCC
Q psy8530 51 RIIADSILNLADLGLISR 68 (68)
Q Consensus 51 ~~v~~si~~l~~~~~~~~ 68 (68)
..+...+..|-++|++.|
T Consensus 51 ~~vt~~l~~Le~~glv~r 68 (126)
T COG1846 51 STVTRLLKRLEDKGLIER 68 (126)
T ss_pred HHHHHHHHHHHHCCCeee
Confidence 367888999999999875
No 483
>PRK10076 pyruvate formate lyase II activase; Provisional
Probab=20.45 E-value=1.6e+02 Score=20.51 Aligned_cols=24 Identities=17% Similarity=0.106 Sum_probs=19.5
Q ss_pred HHHHHHHHhCCCCEEEEecCCCcc
Q psy8530 24 ELVFMKARERRVPIVMLTSGGYLK 47 (68)
Q Consensus 24 ~~V~~~a~~~~IPva~v~gGGY~~ 47 (68)
.-+++.|++.||++++...|=+..
T Consensus 57 ~~l~~~~k~~gi~~~leTnG~~~~ 80 (213)
T PRK10076 57 TRFLQRLRLWGVSCAIETAGDAPA 80 (213)
T ss_pred HHHHHHHHHcCCCEEEECCCCCCH
Confidence 357888999999999999886643
No 484
>PRK00358 pyrH uridylate kinase; Provisional
Probab=20.44 E-value=1.2e+02 Score=20.80 Aligned_cols=16 Identities=25% Similarity=0.495 Sum_probs=12.5
Q ss_pred HHHhCCCCEEEEecCC
Q psy8530 29 KARERRVPIVMLTSGG 44 (68)
Q Consensus 29 ~a~~~~IPva~v~gGG 44 (68)
..++.+.+++.|.|||
T Consensus 34 ~~~~~g~~vvlV~gGG 49 (231)
T PRK00358 34 EVVELGVEVAIVVGGG 49 (231)
T ss_pred HHHHCCCeEEEEECCC
Confidence 3446789999999987
No 485
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=20.33 E-value=93 Score=21.63 Aligned_cols=40 Identities=5% Similarity=0.015 Sum_probs=27.3
Q ss_pred HHHHHHHhCCCCEEEEecC--C--C----ccchHHHHHHHHHhHHHcC
Q psy8530 25 LVFMKARERRVPIVMLTSG--G--Y----LKQTARIIADSILNLADLG 64 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~gG--G--Y----~~d~~~~v~~si~~l~~~~ 64 (68)
-+++.+++.+|||+.+-.. + . ..|.........++|.+++
T Consensus 70 ~~l~~~~~~~iPvV~~d~~~~~~~~~~~V~~d~~~~g~~~~~~L~~~g 117 (302)
T TIGR02634 70 NAVQEAKDEGIKVVAYDRLINDADIDFYLSFDNEKVGEMQARAVLEAA 117 (302)
T ss_pred HHHHHHHHCCCeEEEecCcCCCCCccEEEecCHHHHHHHHHHHHHhhC
Confidence 4678899999999987532 1 1 1355666777778887764
No 486
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=20.32 E-value=1.1e+02 Score=20.45 Aligned_cols=21 Identities=24% Similarity=0.450 Sum_probs=13.9
Q ss_pred HHHHHHHHHhCCCCEEEEecC
Q psy8530 23 DELVFMKARERRVPIVMLTSG 43 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gG 43 (68)
|+-.=+.+++.|||++.+=+|
T Consensus 106 D~eLk~rlr~~GIPvi~lr~r 126 (136)
T COG1412 106 DKELKRRLRENGIPVITLRQR 126 (136)
T ss_pred CHHHHHHHHHcCCCEEEEeCC
Confidence 444455667778998877654
No 487
>smart00022 PLAc Cytoplasmic phospholipase A2, catalytic subunit. Cytosolic phospholipases A2 hydrolyse arachidonyl phospholipids. Family includes phospholipases B isoforms.
Probab=20.32 E-value=1.4e+02 Score=24.30 Aligned_cols=30 Identities=17% Similarity=0.412 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHHHHh-----------------CCCCEEEE--ecCCCc
Q psy8530 17 LGIIRRDELVFMKARE-----------------RRVPIVML--TSGGYL 46 (68)
Q Consensus 17 ~Gi~~RD~~V~~~a~~-----------------~~IPva~v--~gGGY~ 46 (68)
+-+.+|...+-+..++ .++|++.+ -||||+
T Consensus 40 ~~l~~R~~~t~~aL~~fL~~~~~~~~~~~~~~~~~~P~Igia~SGGGyR 88 (549)
T smart00022 40 EFLQKRKDYTNEAMKSFLGRANSNFLDSSLLNSSDVPVIAIAGSGGGFR 88 (549)
T ss_pred HHHHHHHHHHHHHHHHHHhhccccccchhhcccccCceEEEEecCCCHH
Confidence 4566777766555333 25686644 499995
No 488
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=20.31 E-value=1.1e+02 Score=20.09 Aligned_cols=28 Identities=14% Similarity=0.203 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHHhCCCCEEEEecCCCc
Q psy8530 19 IIRRDELVFMKARERRVPIVMLTSGGYL 46 (68)
Q Consensus 19 i~~RD~~V~~~a~~~~IPva~v~gGGY~ 46 (68)
+-.+....++.++++|++++.+.|=.|.
T Consensus 21 i~~~~~~al~~l~~~G~~~~iaTGR~~~ 48 (230)
T PRK01158 21 LSLKAVEAIRKAEKLGIPVILATGNVLC 48 (230)
T ss_pred cCHHHHHHHHHHHHCCCEEEEEcCCchH
Confidence 5566777888999999999988887764
No 489
>PRK11778 putative inner membrane peptidase; Provisional
Probab=20.29 E-value=63 Score=24.55 Aligned_cols=19 Identities=32% Similarity=0.796 Sum_probs=13.9
Q ss_pred HHHHHhCCCCEEEEe-----cCCC
Q psy8530 27 FMKARERRVPIVMLT-----SGGY 45 (68)
Q Consensus 27 ~~~a~~~~IPva~v~-----gGGY 45 (68)
+...++.++||++.+ +|||
T Consensus 147 l~~lr~~~kpVva~v~~~AASggY 170 (330)
T PRK11778 147 LQRLRDAGIPLTVAVDKVAASGGY 170 (330)
T ss_pred HHHHHhcCCCEEEEECCchhhHHH
Confidence 445677899999865 5676
No 490
>COG0726 CDA1 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]
Probab=20.27 E-value=1.2e+02 Score=19.74 Aligned_cols=36 Identities=3% Similarity=0.206 Sum_probs=28.1
Q ss_pred HHHHHHHHHHhCCCCEEEEecCCCccchHHHHHHHH
Q psy8530 22 RDELVFMKARERRVPIVMLTSGGYLKQTARIIADSI 57 (68)
Q Consensus 22 RD~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~~si 57 (68)
-...++...+++++|-.+-+-|.+..+..+++.+-.
T Consensus 79 ~~~~il~iL~k~~i~ATfFv~g~~i~~~p~~~~~~~ 114 (267)
T COG0726 79 NTPRILPLLKKYGIKATFFVVGSWIERNPDLVKRIA 114 (267)
T ss_pred CcHHHHHHHHHcCCceEEEEehHhhHHCHHHHHHHH
Confidence 467899999999999777778888877666666544
No 491
>PRK00132 rpsI 30S ribosomal protein S9; Reviewed
Probab=20.26 E-value=1.5e+02 Score=19.70 Aligned_cols=23 Identities=30% Similarity=0.397 Sum_probs=13.4
Q ss_pred EEEEecCCCccchHH---HHHHHHHh
Q psy8530 37 IVMLTSGGYLKQTAR---IIADSILN 59 (68)
Q Consensus 37 va~v~gGGY~~d~~~---~v~~si~~ 59 (68)
.+.|-|||.+-+... -|++++.+
T Consensus 64 ~i~V~GGG~sgQa~Air~aiaraLv~ 89 (130)
T PRK00132 64 YVTVKGGGISGQAGAIRHGIARALLE 89 (130)
T ss_pred EEEEEcCCHHHHHHHHHHHHHHHHHH
Confidence 345569999877543 34444443
No 492
>PRK12408 glucokinase; Provisional
Probab=20.22 E-value=58 Score=23.86 Aligned_cols=29 Identities=28% Similarity=0.373 Sum_probs=19.8
Q ss_pred CEE-EEecCCCccchHHHHHHH--HHhHHHcC
Q psy8530 36 PIV-MLTSGGYLKQTARIIADS--ILNLADLG 64 (68)
Q Consensus 36 Pva-~v~gGGY~~d~~~~v~~s--i~~l~~~~ 64 (68)
|=+ .++|||.+....+.+..+ ++...+++
T Consensus 272 Pe~GIvIGGGIs~~~~~~l~~~~f~~~~~~~~ 303 (336)
T PRK12408 272 ARGGVYLAGGILPQIADFLARSDFVERFLNKG 303 (336)
T ss_pred CCceEEEECchhHhHHhhhcCHHHHHHHhccC
Confidence 766 899999987644444444 66666664
No 493
>PRK00910 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=20.16 E-value=36 Score=24.60 Aligned_cols=24 Identities=8% Similarity=0.278 Sum_probs=18.2
Q ss_pred CHHHHHHHHHHHHHHHHhCCCCEE
Q psy8530 15 DHLGIIRRDELVFMKARERRVPIV 38 (68)
Q Consensus 15 S~~Gi~~RD~~V~~~a~~~~IPva 38 (68)
+.+|=..|-..+.++|+++++|++
T Consensus 178 ~~dG~ma~~~~l~~fA~~h~l~~i 201 (218)
T PRK00910 178 NPDGTMAKTPEIIAFGKLHNMPVL 201 (218)
T ss_pred cCCCCcCCHHHHHHHHHHcCCcEE
Confidence 344555667778899999999985
No 494
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=20.15 E-value=1.3e+02 Score=18.46 Aligned_cols=20 Identities=15% Similarity=0.277 Sum_probs=15.8
Q ss_pred HHHHHHHHHhCCCCEEEEec
Q psy8530 23 DELVFMKARERRVPIVMLTS 42 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~g 42 (68)
.....+.|.+++||+++.+.
T Consensus 88 g~~iRR~A~~~~Ip~~T~~~ 107 (112)
T cd00532 88 GTALLRLARLYKIPVTTPNA 107 (112)
T ss_pred hHHHHHHHHHcCCCEEECHH
Confidence 45677889999999998653
No 495
>cd01991 Asn_Synthase_B_C The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the assembly of asparagine from aspartate, Mg(2+)ATP, and glutamine. The three-dimensional architecture of the N-terminal domain of asparagine synthetase B is similar to that observed for glutamine phosphoribosylpyrophosphate amidotransferase while the molecular motif of the C-domain is reminiscent to that observed for GMP synthetase .
Probab=20.10 E-value=1.8e+02 Score=19.70 Aligned_cols=23 Identities=30% Similarity=0.439 Sum_probs=16.6
Q ss_pred HhCCCCEEEEecCCCccchHHHHHH
Q psy8530 31 RERRVPIVMLTSGGYLKQTARIIAD 55 (68)
Q Consensus 31 ~~~~IPva~v~gGGY~~d~~~~v~~ 55 (68)
...+.||++.++||- |+.-+...
T Consensus 12 ~~~~~~v~~~LSGGl--DSs~va~~ 34 (269)
T cd01991 12 LRSDVPVGVLLSGGL--DSSLVAAL 34 (269)
T ss_pred hccCCceEEeecccH--HHHHHHHH
Confidence 346899999999998 55544433
No 496
>cd01481 vWA_collagen_alpha3-VI-like VWA_collagen alpha 3(VI) like: The extracellular matrix represents a complex alloy of variable members of diverse protein families defining structural integrity and various physiological functions. The most abundant family is the collagens with more than 20 different collagen types identified thus far. Collagens are centrally involved in the formation of fibrillar and microfibrillar networks of the extracellular matrix, basement membranes as well as other structures of the extracellular matrix. Some collagens have about 15-18 vWA domains in them. The VWA domains present in these collagens mediate protein-protein interactions.
Probab=20.06 E-value=2.1e+02 Score=18.68 Aligned_cols=29 Identities=24% Similarity=0.503 Sum_probs=17.9
Q ss_pred CCCC-EEEEecCCCccchHHHHHHHHHhHHHcC
Q psy8530 33 RRVP-IVMLTSGGYLKQTARIIADSILNLADLG 64 (68)
Q Consensus 33 ~~IP-va~v~gGGY~~d~~~~v~~si~~l~~~~ 64 (68)
.++| +++++..|.+.+. +....+.|.+.|
T Consensus 104 ~~~~kv~vviTdG~s~d~---~~~~a~~lr~~g 133 (165)
T cd01481 104 EGVPQFLVLITGGKSQDD---VERPAVALKRAG 133 (165)
T ss_pred CCCCeEEEEEeCCCCcch---HHHHHHHHHHCC
Confidence 4789 5677788887753 233345555544
No 497
>TIGR02884 spore_pdaA delta-lactam-biosynthetic de-N-acetylase. Muramic delta-lactam is an unusual constituent of peptidoglycan, found only in bacterial spores in the peptidoglycan wall, or spore cortex. The proteins in this family are PdaA (yfjS), a member of a larger family of polysaccharide deacetylases, and are specificially involved in delta-lactam biosynthesis. PdaA acts immediately after CwlD, an N-acetylmuramoyl-L-alanine amidase and performs a de-N-acetylation. PdaA may also perform the following transpeptidation for lactam ring formation, as heterologous expression in E. coli of CwlD and PdaA together is sufficient for delta-lactam production.
Probab=20.06 E-value=2e+02 Score=19.75 Aligned_cols=32 Identities=22% Similarity=0.512 Sum_probs=24.7
Q ss_pred HHHHHHHHHhCCCCEEEEecCCCccchHHHHH
Q psy8530 23 DELVFMKARERRVPIVMLTSGGYLKQTARIIA 54 (68)
Q Consensus 23 D~~V~~~a~~~~IPva~v~gGGY~~d~~~~v~ 54 (68)
...+++..+++++|..+-+-|.|..+..+++.
T Consensus 52 t~~lL~~L~~~~vkATFFv~G~~~~~~p~~ir 83 (224)
T TIGR02884 52 TPKILDVLKEKKVPAAFFVTGHYIKTQPDLIK 83 (224)
T ss_pred hHHHHHHHHHcCCCeEEEeechhhHHCHHHHH
Confidence 45689999999999998888888765544443
No 498
>PRK00945 acetyl-CoA decarbonylase/synthase complex subunit epsilon; Provisional
Probab=20.01 E-value=1e+02 Score=21.25 Aligned_cols=18 Identities=11% Similarity=0.218 Sum_probs=15.1
Q ss_pred HHHHHHHhCCCCEEEEec
Q psy8530 25 LVFMKARERRVPIVMLTS 42 (68)
Q Consensus 25 ~V~~~a~~~~IPva~v~g 42 (68)
.+.+++++.+||+++...
T Consensus 54 ~l~elaEkl~iPVvtT~~ 71 (171)
T PRK00945 54 RAVKIAKKANIPVAATGG 71 (171)
T ss_pred HHHHHHHHHCCCEEEccc
Confidence 478889999999997765
Done!