Query psy15923
Match_columns 68
No_of_seqs 102 out of 708
Neff 4.7
Searched_HMMs 46136
Date Fri Aug 16 16:37:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy15923.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/15923hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR02363 dhaK1 dihydroxyaceto 100.0 8.1E-32 1.8E-36 200.2 3.1 66 1-68 94-159 (329)
2 TIGR02362 dhaK1b probable dihy 100.0 1.3E-31 2.9E-36 198.8 3.3 66 1-68 90-155 (326)
3 PRK14481 dihydroxyacetone kina 100.0 1.4E-31 3.1E-36 199.0 3.1 66 1-68 93-158 (331)
4 PRK11468 dihydroxyacetone kina 100.0 2.1E-31 4.5E-36 199.8 3.0 66 1-68 93-158 (356)
5 PF02733 Dak1: Dak1 domain; I 100.0 1.8E-31 4E-36 197.9 2.3 66 1-68 77-143 (325)
6 PRK14483 DhaKLM operon coactiv 100.0 5.8E-31 1.3E-35 195.7 3.3 67 1-68 92-158 (329)
7 PRK14479 dihydroxyacetone kina 100.0 3.8E-30 8.3E-35 200.9 3.1 66 1-68 92-157 (568)
8 TIGR02361 dak_ATP dihydroxyace 100.0 1.2E-29 2.7E-34 198.2 3.1 66 2-68 92-158 (574)
9 PTZ00375 dihydroxyacetone kina 100.0 2.1E-29 4.5E-34 197.6 2.9 65 1-68 95-159 (584)
10 KOG2426|consensus 99.9 1.9E-26 4.1E-31 179.6 5.7 66 2-68 97-162 (582)
11 COG2376 DAK1 Dihydroxyacetone 99.8 1.8E-19 3.9E-24 134.1 4.1 65 2-68 93-158 (323)
12 TIGR03837 efp_adjacent_2 conse 86.4 0.86 1.9E-05 35.3 3.3 34 10-46 7-41 (371)
13 PF03793 PASTA: PASTA domain; 82.7 3.9 8.4E-05 22.5 4.2 29 10-40 2-30 (63)
14 PF10093 DUF2331: Uncharacteri 82.2 1.6 3.5E-05 33.7 3.2 34 10-46 7-41 (374)
15 PF07788 DUF1626: Protein of u 66.2 7 0.00015 23.7 2.5 23 7-34 48-70 (70)
16 TIGR00347 bioD dethiobiotin sy 66.1 22 0.00047 22.7 5.0 38 4-41 129-166 (166)
17 PF13500 AAA_26: AAA domain; P 65.5 20 0.00043 23.7 4.8 39 4-42 129-167 (199)
18 COG4394 Uncharacterized protei 64.7 5.4 0.00012 30.9 2.1 33 10-45 10-43 (370)
19 PF11195 DUF2829: Protein of u 62.5 8 0.00017 23.1 2.2 15 19-34 1-15 (75)
20 PF01921 tRNA-synt_1f: tRNA sy 60.9 6.1 0.00013 30.4 1.9 40 5-46 34-73 (360)
21 COG1384 LysS Lysyl-tRNA synthe 60.5 13 0.00028 30.2 3.6 41 4-46 29-69 (521)
22 cd06167 LabA_like LabA_like pr 58.6 22 0.00047 22.3 3.8 32 6-41 101-132 (149)
23 PF00975 Thioesterase: Thioest 58.2 18 0.00039 23.7 3.5 37 5-42 65-101 (229)
24 PRK06553 lipid A biosynthesis 54.7 29 0.00063 25.0 4.4 34 2-39 130-163 (308)
25 PF01380 SIS: SIS domain SIS d 54.1 33 0.00071 20.5 4.0 36 5-42 53-88 (131)
26 cd02958 UAS UAS family; UAS is 53.8 24 0.00052 21.4 3.4 26 20-45 5-30 (114)
27 PF00763 THF_DHG_CYH: Tetrahyd 53.0 44 0.00095 21.1 4.6 41 7-47 33-73 (117)
28 smart00740 PASTA PASTA domain. 52.9 33 0.00071 17.9 3.7 33 9-43 5-37 (66)
29 PF01936 NYN: NYN domain; Int 52.1 33 0.00072 21.0 3.9 31 6-40 97-127 (146)
30 PF09652 Cas_VVA1548: Putative 51.2 14 0.00029 23.7 2.0 28 9-43 1-28 (93)
31 cd00616 AHBA_syn 3-amino-5-hyd 50.6 31 0.00067 24.1 3.9 34 8-45 109-142 (352)
32 PF03279 Lip_A_acyltrans: Bact 48.9 28 0.0006 24.5 3.5 34 2-39 118-151 (295)
33 smart00460 TGc Transglutaminas 47.7 27 0.00059 18.8 2.7 28 13-40 4-32 (68)
34 cd07984 LPLAT_LABLAT-like Lyso 47.6 47 0.001 21.3 4.2 33 3-39 18-50 (192)
35 PF09413 DUF2007: Domain of un 47.5 20 0.00044 20.0 2.2 23 14-36 5-27 (67)
36 cd03818 GT1_ExpC_like This fam 46.1 48 0.001 23.8 4.4 36 7-45 2-37 (396)
37 PRK08419 lipid A biosynthesis 43.6 49 0.0011 23.5 4.1 33 2-38 110-142 (298)
38 PF03180 Lipoprotein_9: NLPA l 43.2 31 0.00067 24.7 3.0 29 16-46 11-39 (237)
39 PRK06895 putative anthranilate 42.8 55 0.0012 21.8 4.1 32 8-42 4-35 (190)
40 TIGR03588 PseC UDP-4-keto-6-de 42.5 56 0.0012 23.7 4.3 36 7-46 123-158 (380)
41 TIGR02530 flg_new flagellar op 42.2 27 0.00059 22.4 2.4 25 21-46 40-64 (96)
42 PRK07920 lipid A biosynthesis 41.4 57 0.0012 23.3 4.2 34 2-39 105-138 (298)
43 cd05013 SIS_RpiR RpiR-like pro 40.4 72 0.0016 18.9 4.0 39 5-45 60-98 (139)
44 PF09363 XFP_C: XFP C-terminal 40.1 63 0.0014 23.2 4.2 34 15-48 42-79 (203)
45 PF13899 Thioredoxin_7: Thiore 39.9 56 0.0012 18.6 3.3 27 20-46 5-31 (82)
46 cd03520 Link_domain_CSPGs_modu 39.0 33 0.00071 21.9 2.4 25 7-34 2-26 (96)
47 PF09383 NIL: NIL domain; Int 38.6 47 0.001 18.9 2.8 32 5-38 45-76 (76)
48 PRK13498 chemoreceptor glutami 37.1 32 0.0007 23.6 2.3 21 15-36 112-132 (167)
49 PRK08943 lipid A biosynthesis 36.9 65 0.0014 23.3 3.9 34 2-39 128-161 (314)
50 PRK00750 lysK lysyl-tRNA synth 36.6 47 0.001 26.2 3.4 39 5-45 34-72 (510)
51 PF00926 DHBP_synthase: 3,4-di 35.9 49 0.0011 23.3 3.1 33 4-36 153-185 (194)
52 cd00615 Orn_deC_like Ornithine 35.8 54 0.0012 23.0 3.3 35 7-45 158-192 (294)
53 cd03519 Link_domain_HAPLN_modu 35.5 43 0.00093 21.3 2.5 27 6-35 1-27 (91)
54 KOG1526|consensus 35.5 37 0.0008 26.7 2.6 40 2-42 270-309 (422)
55 TIGR02208 lipid_A_msbB lipid A 35.2 75 0.0016 22.8 4.0 34 2-39 119-152 (305)
56 cd05017 SIS_PGI_PMI_1 The memb 34.0 97 0.0021 18.9 3.9 35 4-38 42-76 (119)
57 TIGR00506 ribB 3,4-dihydroxy-2 33.8 68 0.0015 22.7 3.5 32 4-35 158-189 (199)
58 cd03808 GT1_cap1E_like This fa 33.6 1.2E+02 0.0025 19.9 4.4 38 7-44 2-39 (359)
59 cd01284 Riboflavin_deaminase-r 33.4 56 0.0012 20.8 2.8 21 22-42 2-28 (115)
60 PF02780 Transketolase_C: Tran 33.4 47 0.001 20.5 2.4 16 24-39 27-42 (124)
61 PRK12374 putative dithiobiotin 33.4 1.3E+02 0.0029 20.5 4.9 39 4-42 135-173 (231)
62 COG1560 HtrB Lauroyl/myristoyl 33.3 76 0.0017 23.7 3.9 32 2-37 120-151 (308)
63 PRK08857 para-aminobenzoate sy 33.3 79 0.0017 21.2 3.7 31 8-41 2-32 (193)
64 PF01841 Transglut_core: Trans 33.2 55 0.0012 19.1 2.6 18 23-40 60-77 (113)
65 PF13496 DUF4120: Domain of un 33.0 27 0.00059 22.4 1.3 48 20-67 22-74 (95)
66 TIGR02620 cas_VVA1548 putative 32.8 38 0.00083 21.7 1.9 29 9-44 1-29 (93)
67 PRK01792 ribB 3,4-dihydroxy-2- 32.8 73 0.0016 22.9 3.6 32 4-35 168-199 (214)
68 PRK13495 chemoreceptor glutami 32.5 43 0.00093 22.8 2.3 22 15-37 102-123 (159)
69 PRK06774 para-aminobenzoate sy 32.0 90 0.002 20.7 3.8 29 8-39 2-30 (191)
70 PRK06628 lipid A biosynthesis 31.8 1.1E+02 0.0025 21.7 4.4 31 3-37 112-142 (290)
71 PRK13490 chemoreceptor glutami 31.7 45 0.00097 22.7 2.3 22 15-37 109-130 (162)
72 cd05710 SIS_1 A subgroup of th 31.5 1.3E+02 0.0028 18.5 4.3 38 4-43 46-83 (120)
73 cd01453 vWA_transcription_fact 31.3 1.1E+02 0.0024 20.3 4.2 39 7-45 110-149 (183)
74 TIGR00467 lysS_arch lysyl-tRNA 31.2 70 0.0015 25.5 3.6 38 5-44 29-66 (515)
75 COG1654 BirA Biotin operon rep 31.1 45 0.00098 20.4 2.0 17 23-39 38-54 (79)
76 PRK13494 chemoreceptor glutami 31.0 47 0.001 22.8 2.3 22 15-37 111-132 (163)
77 PRK00014 ribB 3,4-dihydroxy-2- 30.8 82 0.0018 23.0 3.6 32 4-35 173-204 (230)
78 cd06577 PASTA_pknB PASTA domai 30.6 63 0.0014 16.3 2.3 24 11-36 2-25 (62)
79 COG0512 PabA Anthranilate/para 29.2 1E+02 0.0022 21.9 3.8 35 8-46 4-38 (191)
80 COG3603 Uncharacterized conser 29.0 73 0.0016 21.5 2.9 34 2-36 89-127 (128)
81 PF04230 PS_pyruv_trans: Polys 28.9 1.1E+02 0.0024 19.6 3.7 33 13-46 1-33 (286)
82 PRK14484 phosphotransferase ma 28.7 96 0.0021 20.3 3.4 26 5-31 58-83 (124)
83 PRK11706 TDP-4-oxo-6-deoxy-D-g 28.5 1.4E+02 0.0031 21.7 4.6 31 11-45 125-155 (375)
84 PF04755 PAP_fibrillin: PAP_fi 28.4 58 0.0013 21.5 2.3 25 34-68 174-198 (198)
85 cd01452 VWA_26S_proteasome_sub 28.4 2E+02 0.0044 19.8 5.1 41 6-46 109-150 (187)
86 smart00445 LINK Link (Hyaluron 28.3 85 0.0019 19.8 3.0 17 18-34 14-30 (94)
87 PF05014 Nuc_deoxyrib_tr: Nucl 28.1 67 0.0015 19.5 2.4 37 10-46 65-101 (113)
88 TIGR02364 dha_pts dihydroxyace 28.0 1.4E+02 0.0031 19.2 4.1 29 4-33 59-87 (125)
89 cd05014 SIS_Kpsf KpsF-like pro 27.9 1.4E+02 0.0031 17.9 4.2 37 5-43 47-83 (128)
90 PRK15407 lipopolysaccharide bi 27.3 1.2E+02 0.0027 23.1 4.2 35 8-46 162-196 (438)
91 PRK00090 bioD dithiobiotin syn 27.3 1.9E+02 0.0042 19.2 4.9 37 5-41 134-170 (222)
92 PF06534 RGM_C: Repulsive guid 27.3 40 0.00086 23.8 1.4 16 15-31 151-166 (179)
93 PRK02813 putative aminopeptida 27.3 1.5E+02 0.0032 23.1 4.6 42 4-45 331-375 (428)
94 cd05015 SIS_PGI_1 Phosphogluco 27.2 1.6E+02 0.0035 19.2 4.3 42 4-45 72-120 (158)
95 PRK13488 chemoreceptor glutami 26.9 62 0.0013 21.9 2.3 21 16-37 105-125 (157)
96 cd00674 LysRS_core_class_I cat 26.7 1E+02 0.0022 23.4 3.6 38 5-44 30-67 (353)
97 PRK14170 bifunctional 5,10-met 26.7 1.8E+02 0.0039 21.6 4.9 41 7-47 35-75 (284)
98 PF07745 Glyco_hydro_53: Glyco 26.6 34 0.00074 25.9 1.0 30 12-47 109-138 (332)
99 COG0216 PrfA Protein chain rel 26.4 69 0.0015 25.0 2.7 24 14-39 130-153 (363)
100 TIGR01465 cobM_cbiF precorrin- 26.1 81 0.0018 21.3 2.8 32 4-38 71-105 (229)
101 COG2815 Uncharacterized protei 25.9 67 0.0015 24.0 2.5 25 10-36 163-187 (303)
102 PRK09314 bifunctional 3,4-dihy 25.9 1E+02 0.0022 23.6 3.5 37 4-42 157-193 (339)
103 PRK14193 bifunctional 5,10-met 25.9 1.9E+02 0.0041 21.5 4.9 41 7-47 36-76 (284)
104 TIGR01822 2am3keto_CoA 2-amino 25.8 58 0.0013 23.3 2.1 30 12-45 180-209 (393)
105 TIGR03414 ABC_choline_bnd chol 25.7 1.4E+02 0.003 21.5 4.1 34 7-40 10-43 (290)
106 PRK13491 chemoreceptor glutami 25.6 65 0.0014 23.0 2.3 22 15-37 112-133 (199)
107 PF13670 PepSY_2: Peptidase pr 25.5 1.4E+02 0.003 17.4 3.4 27 17-43 27-53 (83)
108 PF11051 Mannosyl_trans3: Mann 25.3 2E+02 0.0043 20.5 4.7 41 4-46 1-44 (271)
109 PRK08674 bifunctional phosphog 25.1 1.6E+02 0.0035 21.4 4.4 38 4-43 77-114 (337)
110 PRK14174 bifunctional 5,10-met 25.0 2E+02 0.0043 21.4 4.8 41 7-47 35-75 (295)
111 KOG0204|consensus 24.9 50 0.0011 29.0 1.8 24 23-47 654-677 (1034)
112 PRK14167 bifunctional 5,10-met 24.8 2E+02 0.0044 21.5 4.9 41 7-47 35-75 (297)
113 PRK11377 dihydroxyacetone kina 24.7 1.2E+02 0.0027 23.9 3.8 29 2-31 60-88 (473)
114 PF12367 PFO_beta_C: Pyruvate 24.4 1.4E+02 0.0029 17.7 3.2 26 17-42 25-51 (67)
115 COG1432 Uncharacterized conser 24.3 88 0.0019 21.2 2.7 33 6-42 112-144 (181)
116 PRK06176 cystathionine gamma-s 24.2 2E+02 0.0044 21.3 4.8 38 6-47 136-175 (380)
117 PRK14178 bifunctional 5,10-met 24.2 2.1E+02 0.0046 21.2 4.8 41 7-47 30-70 (279)
118 cd03518 Link_domain_HAPLN_modu 24.1 57 0.0012 20.8 1.6 17 18-34 13-29 (95)
119 cd01482 vWA_collagen_alphaI-XI 24.0 2E+02 0.0043 18.2 5.0 37 5-42 104-140 (164)
120 PRK14173 bifunctional 5,10-met 23.8 2.2E+02 0.0048 21.2 4.9 41 7-47 33-73 (287)
121 cd03516 Link_domain_CD44_like 23.8 1.1E+02 0.0023 21.0 3.0 29 5-34 6-34 (144)
122 KOG4132|consensus 23.6 1.1E+02 0.0024 22.9 3.2 37 6-47 135-171 (260)
123 PF03975 CheD: CheD chemotacti 23.6 1.5E+02 0.0033 18.5 3.5 27 16-43 62-88 (114)
124 PRK11063 metQ DL-methionine tr 23.6 2.3E+02 0.0049 20.3 4.8 35 7-42 33-68 (271)
125 PF01582 TIR: TIR domain; Int 23.4 1.1E+02 0.0024 19.1 2.8 43 5-47 57-102 (141)
126 COG0108 RibB 3,4-dihydroxy-2-b 23.3 1.4E+02 0.003 21.5 3.6 33 4-36 157-189 (203)
127 TIGR01825 gly_Cac_T_rel pyrido 23.2 1.2E+02 0.0027 21.5 3.4 30 13-46 174-203 (385)
128 PRK14189 bifunctional 5,10-met 23.0 2.3E+02 0.005 21.0 4.8 41 7-47 36-76 (285)
129 PRK08905 lipid A biosynthesis 22.9 1.5E+02 0.0033 21.1 3.8 32 2-38 98-129 (289)
130 PRK14187 bifunctional 5,10-met 22.8 2.3E+02 0.005 21.2 4.8 41 7-47 36-76 (294)
131 PRK14184 bifunctional 5,10-met 22.8 2.3E+02 0.0051 21.0 4.8 41 7-47 35-75 (286)
132 cd00802 class_I_aaRS_core cata 22.7 1.3E+02 0.0028 18.9 3.1 35 12-47 15-49 (143)
133 PRK14179 bifunctional 5,10-met 22.7 2.4E+02 0.0052 20.9 4.9 41 7-47 36-76 (284)
134 TIGR00288 conserved hypothetic 22.5 1.8E+02 0.004 19.9 4.0 29 7-39 108-136 (160)
135 cd02960 AGR Anterior Gradient 22.5 1.5E+02 0.0033 19.4 3.5 27 20-46 11-37 (130)
136 PRK08007 para-aminobenzoate sy 22.4 1.9E+02 0.0041 19.3 4.0 30 8-40 2-31 (187)
137 TIGR00566 trpG_papA glutamine 22.2 1.9E+02 0.0042 19.3 4.0 29 8-39 2-30 (188)
138 PRK14190 bifunctional 5,10-met 22.1 2.5E+02 0.0054 20.8 4.9 41 7-47 36-76 (284)
139 PRK08734 lipid A biosynthesis 22.0 1.4E+02 0.0031 21.4 3.5 31 2-37 110-140 (305)
140 PRK09732 hypothetical protein; 22.0 1.1E+02 0.0025 20.1 2.8 19 24-42 19-37 (134)
141 PRK14181 bifunctional 5,10-met 21.9 2.5E+02 0.0055 20.9 4.9 41 7-47 30-70 (287)
142 PF00193 Xlink: Extracellular 21.6 1.2E+02 0.0025 18.8 2.7 18 18-35 13-30 (92)
143 cd05008 SIS_GlmS_GlmD_1 SIS (S 21.5 1.9E+02 0.0042 17.2 4.3 37 5-43 46-82 (126)
144 COG3193 GlcG Uncharacterized p 21.4 1.2E+02 0.0027 20.6 2.9 20 24-43 20-39 (141)
145 PRK14188 bifunctional 5,10-met 21.1 2.6E+02 0.0057 20.7 4.8 41 7-47 36-76 (296)
146 cd06575 PASTA_Pbp2x-like_2 PAS 21.0 1.3E+02 0.0028 14.9 2.8 26 11-38 2-27 (54)
147 PF00462 Glutaredoxin: Glutare 20.9 1.5E+02 0.0032 15.6 2.8 23 22-44 13-35 (60)
148 PRK13493 chemoreceptor glutami 20.8 91 0.002 22.3 2.3 22 15-37 136-157 (213)
149 COG0821 gcpE 1-hydroxy-2-methy 20.8 1.1E+02 0.0024 23.9 2.9 27 12-39 104-130 (361)
150 PRK13487 chemoreceptor glutami 20.8 93 0.002 22.0 2.3 23 15-38 124-146 (201)
151 PF11823 DUF3343: Protein of u 20.6 1.3E+02 0.0029 17.1 2.6 23 24-46 17-39 (73)
152 TIGR02610 PHA_gran_rgn putativ 20.5 19 0.00041 22.5 -1.1 11 12-22 36-46 (91)
153 PRK06860 lipid A biosynthesis 20.5 1.8E+02 0.0038 20.9 3.7 27 2-32 123-149 (309)
154 PRK14182 bifunctional 5,10-met 20.3 2.9E+02 0.0062 20.6 4.9 41 7-47 34-74 (282)
155 PHA02097 hypothetical protein 20.3 40 0.00086 19.9 0.3 21 2-23 17-37 (59)
156 PRK14171 bifunctional 5,10-met 20.3 2.8E+02 0.006 20.7 4.8 41 7-47 36-76 (288)
157 cd01102 Link_Domain The link d 20.2 78 0.0017 19.9 1.6 17 18-34 13-29 (92)
158 PRK13497 chemoreceptor glutami 20.1 98 0.0021 21.6 2.3 22 15-37 109-130 (184)
159 PRK07649 para-aminobenzoate/an 20.1 1.8E+02 0.0039 19.7 3.6 31 8-41 2-32 (195)
160 PRK15473 cbiF cobalt-precorrin 20.1 2E+02 0.0042 20.2 3.8 32 4-38 80-114 (257)
No 1
>TIGR02363 dhaK1 dihydroxyacetone kinase, DhaK subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form (EC 2.7.1.-) with a phosphoprotein donor related to PTS transport proteins. This family represents the DhaK subunit of the latter type of dihydroxyacetone kinase, but it specifically excludes the DhaK paralog DhaK2 (TIGR02362) found in the same operon as DhaK and DhaK in the Firmicutes.
Probab=99.97 E-value=8.1e-32 Score=200.19 Aligned_cols=66 Identities=45% Similarity=0.763 Sum_probs=62.3
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +++..+|||+||++||||
T Consensus 94 v~~~~GvL~iv~NYtGD~lnF~mA~E~a~~eGi~v~~V~V~DDva~~~--~~~~~~RRGlAGtv~v~K 159 (329)
T TIGR02363 94 VDQGAGVLLIVKNYTGDVMNFEMAAELAEDEGIKVATVVVDDDIAVED--SLYTAGRRGVAGTVFVHK 159 (329)
T ss_pred ccCCCCEEEEeCCcHHHhccHHHHHHHHHHcCCcEEEEEECCcccCCC--CccCCCCcchhHHHHHHH
Confidence 468999999999999999999999999999999999999999999987 556789999999999998
No 2
>TIGR02362 dhaK1b probable dihydroxyacetone kinase DhaK1b subunit. Two types of dihydroxyacetone kinase (glycerone kinase) are described. In yeast and a few bacteria, e.g. Citrobacter freundii, the enzyme is a single chain that uses ATP as phosphoryl donor and is designated EC 2.7.1.29. By contract, E. coli and many other bacterial species have a multisubunit form with a phosphoprotein donor related to PTS transport proteins. This family represents a protein, unique to the Firmicutes (low GC Gram-positives), that appears to be a divergent second copy of the K subunit of that complex; its gene is always found in operons with the other three proteins of the complex.
Probab=99.97 E-value=1.3e-31 Score=198.85 Aligned_cols=66 Identities=29% Similarity=0.540 Sum_probs=61.2
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +++..+|||+||++|+||
T Consensus 90 v~~~~GvL~ivkNYtGD~lNF~mA~E~a~~eGi~v~~V~V~DDvA~~~--~~~~~~RRGlAGtv~v~K 155 (326)
T TIGR02362 90 VDRGKGVFVIIKNFEADLSEFSQAIQQARQEGRQIKYIIVHDDISVEH--ESFKQRRRGVAGTILVHK 155 (326)
T ss_pred hcCCCCEEEEeccCHHHHhhHHHHHHHHHHcCCcEEEEEECCcccCCC--CcccCCCCchhHHHHHHH
Confidence 478999999999999999999999999999999999999999999965 444569999999999998
No 3
>PRK14481 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=99.97 E-value=1.4e-31 Score=199.01 Aligned_cols=66 Identities=42% Similarity=0.745 Sum_probs=62.5
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +++..+|||+||++|+||
T Consensus 93 v~~~~GvL~iv~NYtGD~lnF~lA~E~a~~eGi~v~~V~v~DDva~~~--~~~~~~RRGlAG~vlv~K 158 (331)
T PRK14481 93 VDTGAGVLLIVKNYSGDVMNFEMAAELAEMEGIEVASVVVDDDVAVED--SLYTQGRRGVAGTVFVHK 158 (331)
T ss_pred ccCCCCEEEEeCCcHHHhccHHHHHHHHHhCCCCEEEEEeCCcccCCC--CccCCCCCchhHHHHHHH
Confidence 468999999999999999999999999999999999999999999987 557889999999999998
No 4
>PRK11468 dihydroxyacetone kinase subunit DhaK; Provisional
Probab=99.96 E-value=2.1e-31 Score=199.80 Aligned_cols=66 Identities=42% Similarity=0.696 Sum_probs=62.5
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +....+|||+||+|||||
T Consensus 93 v~~~~GvLlivkNYtGDvlNF~mAaE~a~~eGi~v~~V~V~DDva~~~--~~~~~gRRGlAGtvlv~K 158 (356)
T PRK11468 93 VDGGEGVLLIIKNYTGDVLNFETATELLHDSGVKVTTVLIDDDVAVKD--SLYTAGRRGVANTVLIEK 158 (356)
T ss_pred hcCCCCEEEEecccHHhhccHHHHHHHHHhCCCcEEEEEeCCcccCCC--CcCCCCCcchhHHHHHHH
Confidence 478999999999999999999999999999999999999999999987 557789999999999998
No 5
>PF02733 Dak1: Dak1 domain; InterPro: IPR004006 Dihydroxyacetone kinase (glycerone kinase) 2.7.1.29 from EC catalyses the phosphorylation of glycerone in the presence of ATP to glycerone phosphate in the glycerol utilization pathway. This is the kinase domain of the dihydroxyacetone kinase family.; GO: 0004371 glycerone kinase activity, 0006071 glycerol metabolic process; PDB: 1UN8_A 1UN9_B 3PNM_A 1UOD_B 3PNO_D 3PNK_A 3PNQ_B 1OI2_B 1OI3_A 3PNL_A ....
Probab=99.96 E-value=1.8e-31 Score=197.91 Aligned_cols=66 Identities=53% Similarity=0.866 Sum_probs=52.5
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCC-CCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISL-AGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~-~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +... .+|||+||++|+||
T Consensus 77 ~~~~~Gvl~iv~NYtGD~lNF~~A~E~a~~~Gi~v~~v~v~DDva~~~--~~~~~~gRRGlAG~v~v~K 143 (325)
T PF02733_consen 77 VDSGKGVLLIVKNYTGDVLNFGMAAEKARAEGIKVEMVIVGDDVASAP--SKNSLVGRRGLAGTVLVHK 143 (325)
T ss_dssp H-SSS-EEEEEESSHHHHHHHHHHHHHHHHTT--EEEEEE--B-SSSS--STTS-SSS---TTHHHHHH
T ss_pred ccCCCCEEEEEecchHHHhhHHHHHHHHHhCCCCEEEEEecCccccCC--ccccccccccccchhHHHH
Confidence 368999999999999999999999999999999999999999999998 5555 99999999999987
No 6
>PRK14483 DhaKLM operon coactivator DhaQ; Provisional
Probab=99.96 E-value=5.8e-31 Score=195.69 Aligned_cols=67 Identities=28% Similarity=0.496 Sum_probs=60.6
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ .+++..+|||+||+||+||
T Consensus 92 v~~~~GvL~ivkNYtGDvlnF~mA~E~a~~eGi~v~~VvV~DDva~~~-~~~~~~~RRGlAGtvlv~K 158 (329)
T PRK14483 92 VPKGKGVFFIIKNFEADVAEFSAAIQIARQEGRQIKYIIVHDDISVED-DASFNKRRRGVAGTVLLHK 158 (329)
T ss_pred hcCCCCEEEEecccHHHhhhHHHHHHHHHhCCCcEEEEEeCCcccCCC-ccccCCCCCchhHHHHHHH
Confidence 478999999999999999999999999999999999999999999964 0223569999999999998
No 7
>PRK14479 dihydroxyacetone kinase; Provisional
Probab=99.96 E-value=3.8e-30 Score=200.90 Aligned_cols=66 Identities=45% Similarity=0.749 Sum_probs=62.1
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ ++...+|||+||+|||||
T Consensus 92 v~~~~Gvl~iv~NYtGD~lnF~~A~e~a~~~g~~v~~v~v~DDva~~~--~~~~~~RRG~AG~v~v~K 157 (568)
T PRK14479 92 ADGGAGVLLIVGNYAGDVMNFGLAAELARAEGIDVRTVVVTDDVASAP--SGETAGRRGIAGTVLVFK 157 (568)
T ss_pred ccCCCCEEEEeCCcHHHHhhHHHHHHHHHhcCCcEEEEEeCCcccCCC--CCcCCCCcchhHHHHHHH
Confidence 478999999999999999999999999999999999999999999965 556789999999999998
No 8
>TIGR02361 dak_ATP dihydroxyacetone kinase, ATP-dependent. This family consists of examples of the form of dihydroxyacetone kinase (also called glycerone kinase) that uses ATP (2.7.1.29) as the phosphate donor, rather than a phosphoprotein as in E. coli. This form is composed of a single chain with separable domains homologous to the K and L subunits of the E. coli enzyme, and is found in yeasts and other eukaryotes and in some bacteria, including Citrobacter freundii. The member from tomato has been shown to phosphorylate dihydroxyacetone, 3,4-dihydroxy-2-butanone, and some other aldoses and ketoses (PubMed:11985845).
Probab=99.95 E-value=1.2e-29 Score=198.22 Aligned_cols=66 Identities=50% Similarity=0.813 Sum_probs=60.4
Q ss_pred CC-CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 2 DN-QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 2 ~~-~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
++ ++||||||+|||||+|||+||+|+|+++||+|++|+|+||||+++ +++...+|||+||++||||
T Consensus 92 ~~~~~Gvl~iv~NYtGD~lnF~~A~e~a~~eg~~v~~v~v~DDva~~~-~~~~~~~RRGlAGtv~v~K 158 (574)
T TIGR02361 92 VGSEAGTLLIVKNYTGDRLNFGLAAEKAKAEGYNVEMVIVGDDVSVGR-KKGGLVGRRGLAGTVLVHK 158 (574)
T ss_pred cCCCCcEEEEecccHHHhhhHHHHHHHHHhCCCcEEEEEeCCccCCCC-ccCCCCCCCchhHHHHHHH
Confidence 45 899999999999999999999999999999999999999999975 1234689999999999998
No 9
>PTZ00375 dihydroxyacetone kinase-like protein; Provisional
Probab=99.95 E-value=2.1e-29 Score=197.59 Aligned_cols=65 Identities=43% Similarity=0.748 Sum_probs=61.1
Q ss_pred CCCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 1 MDNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 1 ~~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
+++++|||+||+|||||+|||+||+|+|+++||+|++|+|+||||+++ ++..+|||+||+|||||
T Consensus 95 v~~~~Gvl~ivkNYtGD~lnF~lA~e~a~~eGi~v~~v~v~DDva~~~---~~~~~RRG~AGtv~v~K 159 (584)
T PTZ00375 95 VPNGPGCLLIVKNYTGDILNFELAVEQARARGIQVETVLVADDAAFGT---KDIANRRGIAGTVLLYK 159 (584)
T ss_pred hcCCCCEEEEecccHHHHhhHHHHHHHHHhCCCcEEEEEeCCccCCCC---CCCCCCcchhHHHHHHH
Confidence 478999999999999999999999999999999999999999999964 36789999999999998
No 10
>KOG2426|consensus
Probab=99.93 E-value=1.9e-26 Score=179.57 Aligned_cols=66 Identities=44% Similarity=0.788 Sum_probs=61.2
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
.+.+|+|+||+|||||+||||||+|+||++|+++|.|+|+||||+.+ .++.+.||||+|||||+||
T Consensus 97 ~~~~GtLlIVKNYTGD~LhFGLAaErara~G~~ve~v~vgDDvavg~-~kg~~vGRRGLagTVLvHK 162 (582)
T KOG2426|consen 97 EGEAGTLLIVKNYTGDRLHFGLAAERARAAGIKVELVAVGDDVAVGR-KKGGKVGRRGLAGTVLVHK 162 (582)
T ss_pred ccCCceEEEEeccccceeehhhhHHHHHhcCCceEEEEEccccccCC-ccccccccccccceeeeeh
Confidence 46789999999999999999999999999999999999999999987 2334799999999999998
No 11
>COG2376 DAK1 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]
Probab=99.77 E-value=1.8e-19 Score=134.08 Aligned_cols=65 Identities=38% Similarity=0.529 Sum_probs=61.2
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccccCCCC-CCCCCCeeeceEEEEEC
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALLNTGR-ISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~~~~~-~~~~~RRGvAG~vlv~K 68 (68)
+.++|++++++||+||+|||+||+|+++++|+++.++++.||+++.+ + +..++|||++|++|++|
T Consensus 93 ~~g~ggl~ig~nY~gd~mnf~~A~e~a~~~gi~v~~v~v~ddva~~~--~rg~~~~rrgtagdvlv~k 158 (323)
T COG2376 93 LLGKGGLASGPNYGGDFMNFGMAAEGADAEGIKVLTVVVNDDVAVIQ--SRGKAEGRRGTAGDVLVPK 158 (323)
T ss_pred hcCCeeEEEecchHHHHHHHHHHHhhhhhcCCceEEEEeeccccccc--cccccccCCceeeeehHHH
Confidence 57899999999999999999999999999999999999999999987 4 46899999999999987
No 12
>TIGR03837 efp_adjacent_2 conserved hypothetical protein, PP_1857 family. This model describes a conserved hypothetical protein that typically is encoded next to the gene efp for translation elongation factor P. The function is unknown.
Probab=86.40 E-value=0.86 Score=35.28 Aligned_cols=34 Identities=24% Similarity=0.588 Sum_probs=29.0
Q ss_pred EEccchhhh-hcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 10 IIANYTGDV-LNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 10 iv~NYtGDv-lnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
+|=|| ||+ .-.-+|.+++++.|++|+.-+ ||.++
T Consensus 7 VIDNy-GDIGV~WRLArqLa~e~g~~VrLwv--Ddl~a 41 (371)
T TIGR03837 7 VVDNY-GDIGVCWRLARQLAAEHGHQVRLWV--DDLSA 41 (371)
T ss_pred eecCC-cchHHHHHHHHHHHHHhCCEEEEEE--CCHHH
Confidence 67899 997 367799999999999999888 99875
No 13
>PF03793 PASTA: PASTA domain; InterPro: IPR005543 The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBP) and bacterial serine/threonine kinases. It binds the beta-lactam stem, which implicates it in sensing D-alanyl-D-alanine - the PBP transpeptidase substrate. In PknB of Mycobacterium tuberculosis (P71584 from SWISSPROT), all of the extracellular portion is predicted to be made up of four PASTA domains, which strongly suggests that it is a signal-binding sensor domain. The domain has also been found in proteins involved in cell wall biosynthesis, where it is implicated in localizing the biosynthesis complex to unlinked peptidoglycan. PASTA is a small globular fold consisting of 3 beta-sheets and an alpha-helix, with a loop region of variable length between the first and second beta-strands. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain [].; GO: 0008658 penicillin binding; PDB: 2ZC3_C 1QME_A 1RP5_B 2Z2M_C 2Z2L_F 2ZC4_C 1QMF_A 3M9G_A 3PY9_A 1K25_B ....
Probab=82.72 E-value=3.9 Score=22.54 Aligned_cols=29 Identities=17% Similarity=0.376 Sum_probs=23.2
Q ss_pred EEccchhhhhcHHHHHHHHHhcCCcEEEEEe
Q psy15923 10 IIANYTGDVLNFGIACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 10 iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v 40 (68)
.+.||+| |+..-|.+.+++.|+.+...-.
T Consensus 2 ~vPd~~g--~~~~~a~~~l~~~g~~~~~~~~ 30 (63)
T PF03793_consen 2 TVPDLVG--MTYDEAKSILEAAGLTVNVVEE 30 (63)
T ss_dssp EE-TTTT--SBHHHHHHHHHHTT-EEEEEEE
T ss_pred CCCCcCC--CcHHHHHHHHHHCCCEEEEEEE
Confidence 5789999 8999999999999997776664
No 14
>PF10093 DUF2331: Uncharacterized protein conserved in bacteria (DUF2331); InterPro: IPR016633 This entry describes a conserved hypothetical protein that typically is encoded next to the gene efp for translation elongation factor P. The function is unknown.
Probab=82.22 E-value=1.6 Score=33.66 Aligned_cols=34 Identities=24% Similarity=0.536 Sum_probs=28.5
Q ss_pred EEccchhhh-hcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 10 IIANYTGDV-LNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 10 iv~NYtGDv-lnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
+|=|| ||+ .-.-+|.+++++.|++|+..+ ||.++
T Consensus 7 VIDNf-GDIGVcWRLArqLa~e~g~~VrLwv--Ddl~a 41 (374)
T PF10093_consen 7 VIDNF-GDIGVCWRLARQLAAEHGQQVRLWV--DDLAA 41 (374)
T ss_pred eccCC-cchHHHHHHHHHHHHHhCCeEEEEE--CCHHH
Confidence 56799 887 367899999998899999888 88875
No 15
>PF07788 DUF1626: Protein of unknown function (DUF1626); InterPro: IPR012431 This is a family consisting of sequences from hypothetical proteins of unknown function expressed by certain species of archaea. One member (Q9YCN7 from SWISSPROT) is thought to be similar to tropomyosin [].
Probab=66.18 E-value=7 Score=23.67 Aligned_cols=23 Identities=26% Similarity=0.382 Sum_probs=18.0
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHA 34 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~ 34 (68)
=+++|+.|--|. |.++|++.||+
T Consensus 48 r~ivVtp~id~~-----a~~~A~~LGIe 70 (70)
T PF07788_consen 48 RLIVVTPYIDDR-----AKEMAEELGIE 70 (70)
T ss_pred eEEEEEeecCHH-----HHHHHHHhCCC
Confidence 367778888877 88888888874
No 16
>TIGR00347 bioD dethiobiotin synthase. Dethiobiotin synthase is involved in biotin biosynthesis and catalyses the reaction (CO2 + 7,8-diaminononanoate + ATP = dethiobiotin + phosphate + ADP). The enzyme binds ATP (see motif in first 12 residues of the SEED alignment) and requires magnesium as a co-factor.
Probab=66.15 E-value=22 Score=22.69 Aligned_cols=38 Identities=16% Similarity=0.249 Sum_probs=28.1
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEec
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVG 41 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~ 41 (68)
+..||+++..+-+..-.=-++.+.+++.|+++.-++++
T Consensus 129 ~~~vilV~~~~~~~~~~~~~~~~~l~~~~~~i~gvv~N 166 (166)
T TIGR00347 129 QLPVILVVRVKLGTINHTLLTVEHARQTGLTLAGVILN 166 (166)
T ss_pred CCCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEeC
Confidence 34688888777777656667788888888888777753
No 17
>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=65.48 E-value=20 Score=23.71 Aligned_cols=39 Identities=15% Similarity=0.223 Sum_probs=33.0
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
+.-|++++..+-|-.-+.-++.+.++.+|+++.-|+++.
T Consensus 129 ~a~vIlV~~~~~g~i~~~l~~~~~~~~~g~~v~GvI~N~ 167 (199)
T PF13500_consen 129 GAPVILVASGRLGTINHTLLTIEALKQRGIRVLGVILNR 167 (199)
T ss_dssp T-EEEEEEESSTTHHHHHHHHHHHHHCTTS-EEEEEEEE
T ss_pred CCCEEEEeCCCCCCHHHHHHHHHHHHhcCCCEEEEEEEC
Confidence 456899999999988888899999999999999999887
No 18
>COG4394 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=64.72 E-value=5.4 Score=30.91 Aligned_cols=33 Identities=24% Similarity=0.558 Sum_probs=26.0
Q ss_pred EEccchhhh-hcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 10 IIANYTGDV-LNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 10 iv~NYtGDv-lnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+|-|| ||+ ....+|.++.++.|..|+.-+ ||..
T Consensus 10 ViDNy-GDIGV~wRLARql~re~G~~VrLWv--Dd~~ 43 (370)
T COG4394 10 VIDNY-GDIGVAWRLARQLKREHGWQVRLWV--DDKK 43 (370)
T ss_pred hhccc-chhHHHHHHHHHHHHHhCceeeeec--CCHH
Confidence 46799 887 468899999999999998655 6654
No 19
>PF11195 DUF2829: Protein of unknown function (DUF2829) ; InterPro: IPR021361 This entry is represented by Bacteriophage 16-3, p046. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=62.45 E-value=8 Score=23.14 Aligned_cols=15 Identities=47% Similarity=0.722 Sum_probs=11.2
Q ss_pred hcHHHHHHHHHhcCCc
Q psy15923 19 LNFGIACEKVKAQGHA 34 (68)
Q Consensus 19 lnF~~A~e~a~~~Gi~ 34 (68)
|||+-|.+.+ ++|-+
T Consensus 1 M~F~eAl~al-K~Gkk 15 (75)
T PF11195_consen 1 MNFGEALEAL-KQGKK 15 (75)
T ss_pred CCHHHHHHHH-HcCCC
Confidence 8999999955 45544
No 20
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=60.94 E-value=6.1 Score=30.40 Aligned_cols=40 Identities=18% Similarity=0.450 Sum_probs=29.8
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
.|...| +|+ ++++-=.|-+..++..|.+++.+...||.-.
T Consensus 34 SG~~HI-Gn~-rEv~~~~~V~~al~~~g~~~r~i~~~DD~D~ 73 (360)
T PF01921_consen 34 SGLPHI-GNF-REVLRADMVARALRDRGKDVRLIYFSDDMDP 73 (360)
T ss_dssp SS---H-HHH-HHHHHHHHHHHHHHTTT-EEEEEEEE-TTSB
T ss_pred CCCccc-ccc-cchhhHHHHHHHHHHcCCCEEEEEEeecCCc
Confidence 344444 888 5899888999999999999999999999864
No 21
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=60.51 E-value=13 Score=30.20 Aligned_cols=41 Identities=17% Similarity=0.460 Sum_probs=35.2
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
..|.+.| +|+ ++++.-.|...-++..|.+++.|...||--.
T Consensus 29 PSG~~HI-Gn~-rEv~t~d~V~ralr~~g~~~r~I~~~DD~D~ 69 (521)
T COG1384 29 PSGLIHI-GNF-REVLTADAVRRALRDRGDEVRLIYISDDYDP 69 (521)
T ss_pred CCCCccc-ccH-HHHHHHHHHHHHHHHcCCceEEEEEccCCcc
Confidence 4566666 999 6999999999999999999999999999764
No 22
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=58.60 E-value=22 Score=22.29 Aligned_cols=32 Identities=19% Similarity=0.452 Sum_probs=24.6
Q ss_pred eEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEec
Q psy15923 6 GVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVG 41 (68)
Q Consensus 6 GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~ 41 (68)
.+++|++ ||- .|--+++++++.|.+|..+-..
T Consensus 101 d~ivLvS---gD~-Df~~~i~~lr~~G~~V~v~~~~ 132 (149)
T cd06167 101 DTIVLVS---GDS-DFVPLVERLRELGKRVIVVGFE 132 (149)
T ss_pred CEEEEEE---CCc-cHHHHHHHHHHcCCEEEEEccC
Confidence 3566654 777 8989999999999888877654
No 23
>PF00975 Thioesterase: Thioesterase domain; InterPro: IPR001031 Thioesterase domains often occur integrated in or associated with peptide synthetases which are involved in the non-ribosomal synthesis of peptide antibiotics []. Thioesterases are required for the addition of the last amino acid to the peptide antibiotic, thereby forming a cyclic antibiotic. Next to the operons encoding these enzymes, in almost all cases, are genes that encode proteins that have similarity to the type II fatty acid thioesterases of vertebrates.; GO: 0016788 hydrolase activity, acting on ester bonds, 0009058 biosynthetic process; PDB: 2RON_A 2K2Q_B 3LCR_B 2HFJ_B 1MNQ_A 1MN6_B 1MNA_B 2HFK_B 2H7Y_B 2H7X_A ....
Probab=58.18 E-value=18 Score=23.65 Aligned_cols=37 Identities=16% Similarity=0.316 Sum_probs=25.9
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
.|-++|++-=-|=.+-|+||.++ +++|.++..|++-|
T Consensus 65 ~gp~~L~G~S~Gg~lA~E~A~~L-e~~G~~v~~l~liD 101 (229)
T PF00975_consen 65 EGPYVLAGWSFGGILAFEMARQL-EEAGEEVSRLILID 101 (229)
T ss_dssp SSSEEEEEETHHHHHHHHHHHHH-HHTT-SESEEEEES
T ss_pred CCCeeehccCccHHHHHHHHHHH-HHhhhccCceEEec
Confidence 34455555434669999998776 45599999998877
No 24
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=54.70 E-value=29 Score=25.00 Aligned_cols=34 Identities=21% Similarity=0.308 Sum_probs=25.5
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+.++||+++.. |-| |++++...+...|.++..|.
T Consensus 130 a~gkgvIllt~-H~G---nWE~~~~~l~~~~~~~~~vy 163 (308)
T PRK06553 130 DDGKPALIFTA-HLG---NWELLAIAAAAFGLDVTVLF 163 (308)
T ss_pred hcCCCEEEEee-Cch---HHHHHHHHHHHcCCceEEEE
Confidence 46899998866 667 89998877777787765543
No 25
>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=54.07 E-value=33 Score=20.52 Aligned_cols=36 Identities=19% Similarity=0.321 Sum_probs=25.3
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
++.++|+--|+|.--..--+++.|++.|.++ |.+++
T Consensus 53 ~~d~vi~is~sg~~~~~~~~~~~ak~~g~~v--i~iT~ 88 (131)
T PF01380_consen 53 PDDLVIIISYSGETRELIELLRFAKERGAPV--ILITS 88 (131)
T ss_dssp TTEEEEEEESSSTTHHHHHHHHHHHHTTSEE--EEEES
T ss_pred ccceeEeeeccccchhhhhhhHHHHhcCCeE--EEEeC
Confidence 3444555558887777777888999999888 44444
No 26
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=53.83 E-value=24 Score=21.36 Aligned_cols=26 Identities=19% Similarity=0.116 Sum_probs=22.7
Q ss_pred cHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 20 NFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 20 nF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+|.-|.++|++++-.+-..+.+|++.
T Consensus 5 s~~~a~~~Ak~~~K~llv~~~~~~c~ 30 (114)
T cd02958 5 SFEDAKQEAKSEKKWLLVYLQSEDEF 30 (114)
T ss_pred CHHHHHHHHHhhCceEEEEEecCCcc
Confidence 68899999999998888888888884
No 27
>PF00763 THF_DHG_CYH: Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; InterPro: IPR020630 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the N-terminal catalytic domain of these enzymes. ; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 2C2X_B 2C2Y_A 1EDZ_A 1EE9_A 4A26_B 3NGL_C 3NGX_A 1B0A_A 1DIA_A 1A4I_B ....
Probab=52.98 E-value=44 Score=21.11 Aligned_cols=41 Identities=10% Similarity=0.199 Sum_probs=30.8
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
+++.++|-.+....-......|++-||.++.+...++++..
T Consensus 33 aii~vg~d~~S~~Y~~~k~k~~~~~Gi~~~~~~l~~~~~~~ 73 (117)
T PF00763_consen 33 AIILVGDDPASISYVRSKQKAAEKLGIEFELIELPEDISEE 73 (117)
T ss_dssp EEEEES--HHHHHHHHHHHHHHHHHT-EEEEEEE-TTSSHH
T ss_pred EEEecCCChhHHHHHHHHHHHHHHcCCceEEEECCCCcCHH
Confidence 45667888888888888889999999999999998887754
No 28
>smart00740 PASTA PASTA domain.
Probab=52.88 E-value=33 Score=17.86 Aligned_cols=33 Identities=24% Similarity=0.298 Sum_probs=24.7
Q ss_pred EEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 9 MIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 9 ~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
+-+.||.| +++.-|.+.+++.|+.+...-..|+
T Consensus 5 ~~vp~~~g--~~~~~a~~~l~~~g~~~~~~~~~~~ 37 (66)
T smart00740 5 VEVPDVIG--LSKEEAKKLLKALGLKVEVVEESSE 37 (66)
T ss_pred eeCCCcCC--CCHHHHHHHHHHCCCEEEEEeccCC
Confidence 34688988 6788899999999998776643333
No 29
>PF01936 NYN: NYN domain; InterPro: IPR021139 This highly conserved domain has no known function. However it contains many conserved aspartates, suggesting an enzymatic function such as an endonuclease or glycosyl hydrolase.; PDB: 2QIP_A.
Probab=52.10 E-value=33 Score=20.95 Aligned_cols=31 Identities=19% Similarity=0.520 Sum_probs=20.3
Q ss_pred eEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEe
Q psy15923 6 GVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 6 GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v 40 (68)
..++|++ ||- .|--+++.+++.|.+|..+..
T Consensus 97 d~ivLvS---gD~-Df~~~v~~l~~~g~~V~v~~~ 127 (146)
T PF01936_consen 97 DTIVLVS---GDS-DFAPLVRKLRERGKRVIVVGA 127 (146)
T ss_dssp SEEEEE------G-GGHHHHHHHHHH--EEEEEE-
T ss_pred CEEEEEE---CcH-HHHHHHHHHHHcCCEEEEEEe
Confidence 4566654 775 798999999999999888774
No 30
>PF09652 Cas_VVA1548: Putative CRISPR-associated protein (Cas_VVA1548); InterPro: IPR013443 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 a conserved region of about 95 amino acids found exclusively in species with CRISPR repeats. In all bacterial species that contain this entry, the genes encoding the proteins are in the midst of a cluster of cas genes.
Probab=51.18 E-value=14 Score=23.71 Aligned_cols=28 Identities=32% Similarity=0.292 Sum_probs=21.3
Q ss_pred EEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 9 MIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 9 ~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
|+|+-|.| |.|.++++|++++.++..=|
T Consensus 1 ~fIsRH~G-------AieW~~~qg~~iD~~v~Hld 28 (93)
T PF09652_consen 1 WFISRHPG-------AIEWAKQQGIQIDHFVDHLD 28 (93)
T ss_pred Ceeeeccc-------HHHHHHHhCCCcceeeccCC
Confidence 35566666 89999999999988885433
No 31
>cd00616 AHBA_syn 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary metabolites. Some well studied proteins in this CD are AHBA_synthase, protein product of pleiotropic regulatory gene degT, Arnb aminotransferase and pilin glycosylation protein. The prototype of this family, the AHBA_synthase, is a dimeric PLP dependent enzyme. AHBA_syn is the terminal enzyme of 3-amino-5-hydroxybenzoic acid (AHBA) formation which is involved in the biosynthesis of ansamycin antibiotics, including rifamycin B. Some members of this CD are involved in 4-amino-6-deoxy-monosaccharide D-perosamine synthesis. Perosamine is an important element in the glycosylation of several cell products, such as antibiotics and lipopolysaccharides of gram-positive and gram-negative bacteria. The pilin glycosylation protein
Probab=50.63 E-value=31 Score=24.06 Aligned_cols=34 Identities=12% Similarity=0.188 Sum_probs=24.4
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
++++.|++|...+..--.+.|++.|+ .++-|++.
T Consensus 109 ~v~~~~~~G~~~~~~~i~~l~~~~~i----~li~D~a~ 142 (352)
T cd00616 109 AIIPVHLYGNPADMDAIMAIAKRHGL----PVIEDAAQ 142 (352)
T ss_pred EEEEECCCCCcCCHHHHHHHHHHcCC----eEEEECCC
Confidence 34457899999888888888888774 34445554
No 32
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=48.89 E-value=28 Score=24.50 Aligned_cols=34 Identities=18% Similarity=0.445 Sum_probs=25.7
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+.++|++++ +-|.| ||+++.-.+...|.++-.+.
T Consensus 118 ~~g~gvIl~-t~H~G---nwE~~~~~l~~~~~~~~~i~ 151 (295)
T PF03279_consen 118 AEGRGVILL-TGHFG---NWELAGRALARRGPPVAVIY 151 (295)
T ss_pred hcCCCCEEe-CcCcC---hHHHHHHHHHhhCCceEEEe
Confidence 468899976 55778 99998888877787665544
No 33
>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=47.75 E-value=27 Score=18.81 Aligned_cols=28 Identities=14% Similarity=0.204 Sum_probs=19.4
Q ss_pred cchhhhhcHH-HHHHHHHhcCCcEEEEEe
Q psy15923 13 NYTGDVLNFG-IACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 13 NYtGDvlnF~-~A~e~a~~~Gi~v~~v~v 40 (68)
+..|+--+|- +++.++++.||+++.+.-
T Consensus 4 ~~~G~C~~~a~l~~~llr~~GIpar~v~g 32 (68)
T smart00460 4 TKYGTCGEFAALFVALLRSLGIPARVVSG 32 (68)
T ss_pred ccceeeHHHHHHHHHHHHHCCCCeEEEee
Confidence 4446655554 345688999999999863
No 34
>cd07984 LPLAT_LABLAT-like Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like. Lysophospholipid acyltransferase (LPLAT) superfamily member: acyltransferases of de novo and remodeling pathways of glycerophospholipid biosynthesis which catalyze the incorporation of an acyl group from either acylCoAs or acyl-acyl carrier proteins (acylACPs) into acceptors such as glycerol 3-phosphate, dihydroxyacetone phosphate or lyso-phosphatidic acid. Included in this subgroup are such LPLATs as lipid A biosynthesis lauroyl/myristoyl (LABLAT, HtrB) acyltransferases and similar proteins.
Probab=47.56 E-value=47 Score=21.33 Aligned_cols=33 Identities=21% Similarity=0.380 Sum_probs=21.2
Q ss_pred CCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 3 NQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 3 ~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+++|+++ +.||.| ||+++.-.+...+.++..+.
T Consensus 18 ~~~~~il-~~~H~g---~~e~~~~~~~~~~~~~~~v~ 50 (192)
T cd07984 18 KGKGVIL-LTAHFG---NWELAGLALALLGYPVTVVY 50 (192)
T ss_pred cCCCEEE-Ecccch---HHHHHHHHHHhcCCCeeEEE
Confidence 4567765 589988 77776655555455654443
No 35
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=47.53 E-value=20 Score=19.97 Aligned_cols=23 Identities=13% Similarity=0.130 Sum_probs=16.4
Q ss_pred chhhhhcHHHHHHHHHhcCCcEE
Q psy15923 14 YTGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 14 YtGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
+++|.+...|...+++++||++.
T Consensus 5 ~~~~~~ea~~i~~~L~~~gI~~~ 27 (67)
T PF09413_consen 5 TAGDPIEAELIKGLLEENGIPAF 27 (67)
T ss_dssp EE--HHHHHHHHHHHHHTT--EE
T ss_pred EcCCHHHHHHHHHHHHhCCCcEE
Confidence 35788999999999999998764
No 36
>cd03818 GT1_ExpC_like This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II).
Probab=46.10 E-value=48 Score=23.83 Aligned_cols=36 Identities=22% Similarity=0.429 Sum_probs=26.8
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+|+|.-||.|-- .. +|..+++ +|++|..+.-.++..
T Consensus 2 il~~~~~~p~~~-~~-la~~L~~-~G~~v~~~~~~~~~~ 37 (396)
T cd03818 2 ILFVHQNFPGQF-RH-LAPALAA-QGHEVVFLTEPNAAP 37 (396)
T ss_pred EEEECCCCchhH-HH-HHHHHHH-CCCEEEEEecCCCCC
Confidence 799999999952 22 5666655 599999988777754
No 37
>PRK08419 lipid A biosynthesis lauroyl acyltransferase; Reviewed
Probab=43.64 E-value=49 Score=23.51 Aligned_cols=33 Identities=12% Similarity=0.187 Sum_probs=22.3
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
+.++|||++ ++|-| |++++.-.+...+.++..+
T Consensus 110 ~~g~gvI~~-t~H~G---nwE~~~~~l~~~~~~~~~v 142 (298)
T PRK08419 110 KKKRPIIVT-TAHYG---YWELFSLALAAYYGAVSIV 142 (298)
T ss_pred HcCCCEEEE-eeCcc---HHHHHHHHHHhcCCCeEEE
Confidence 357899966 77888 8888776555555455443
No 38
>PF03180 Lipoprotein_9: NLPA lipoprotein; InterPro: IPR004872 This family of bacterial lipoproteins contains several antigenic members, that may be involved in bacterial virulence. Their precise function is unknown. However they are probably distantly related to IPR001638 from INTERPRO which are solute binding proteins.; PDB: 4EF2_A 4EF1_B 3GXA_C 3IR1_D 3TQW_A 3K2D_B 3UP9_A 1XS5_A 1P99_A.
Probab=43.16 E-value=31 Score=24.70 Aligned_cols=29 Identities=24% Similarity=0.394 Sum_probs=23.8
Q ss_pred hhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 16 GDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 16 GDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
.|.++ .+.+.++++||+++.+..+|-+..
T Consensus 11 ~~i~~--~v~~~~~~~Gi~vevv~f~D~~~~ 39 (237)
T PF03180_consen 11 AEILE--AVKEKLKKKGIDVEVVEFSDYVQP 39 (237)
T ss_dssp HHHHH--HHHHHHHHTTEEEEEEEESSTTHH
T ss_pred HHHHH--HHHHHHHhcCCeEEEEEecchhhc
Confidence 46666 589999999999999999986653
No 39
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=42.82 E-value=55 Score=21.81 Aligned_cols=32 Identities=28% Similarity=0.592 Sum_probs=24.5
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
++||-|| |-.+..+ ++.+++.|++++.+...|
T Consensus 4 iliid~~--dsf~~~i-~~~l~~~g~~~~v~~~~~ 35 (190)
T PRK06895 4 LLIINNH--DSFTFNL-VDLIRKLGVPMQVVNVED 35 (190)
T ss_pred EEEEeCC--CchHHHH-HHHHHHcCCcEEEEECCc
Confidence 5677888 8888874 677788899999887644
No 40
>TIGR03588 PseC UDP-4-keto-6-deoxy-N-acetylglucosamine 4-aminotransferase. This family of enzymes are aminotransferases of the pfam01041 family involved in the biosynthesis of pseudaminic acid. They convert UDP-4-keto-6-deoxy-N-acetylglucosamine into UDP-4-amino-4,6-dideoxy-N-acetylgalactose. Pseudaminic acid has a role in surface polysaccharide in Pseudomonas as well as in the modification of flagellin in Campylobacter and Helicobacter species.
Probab=42.50 E-value=56 Score=23.65 Aligned_cols=36 Identities=8% Similarity=0.232 Sum_probs=25.7
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
-++++.|++|-.....--++.|++.|+ +++-|.+-+
T Consensus 123 ~~v~~~~~~G~~~~~~~i~~l~~~~~~----~lI~D~a~a 158 (380)
T TIGR03588 123 KAIVPVDFAGKSVDMQAIAALAKKHGL----KIIEDASHA 158 (380)
T ss_pred eEEEEeCCCCccCCHHHHHHHHHHcCC----EEEEECCCc
Confidence 355668999988888877888888774 345455543
No 41
>TIGR02530 flg_new flagellar operon protein. Members of this family are found in a subset of bacterial flagellar operons, generally between genes designated flgD and flgE, in species as diverse as Bacillus halodurans and various other Firmicutes, Geobacter sulfurreducens, and Bdellovibrio bacteriovorus. The specific molecular function is unknown.
Probab=42.23 E-value=27 Score=22.38 Aligned_cols=25 Identities=24% Similarity=0.315 Sum_probs=21.0
Q ss_pred HHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 21 FGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 21 F~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
-+-|.++|++-|.+ +.+++-||.|.
T Consensus 40 i~~av~~A~~KG~k-esLvl~~d~Al 64 (96)
T TIGR02530 40 LLEAVEEAESKGVK-DSLILMNDAAL 64 (96)
T ss_pred HHHHHHHHHhcCCC-ceEEEeCCEEE
Confidence 35688889999988 88899999886
No 42
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=41.44 E-value=57 Score=23.31 Aligned_cols=34 Identities=18% Similarity=0.258 Sum_probs=23.9
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
..++|||++ +.|-| |++++.-.+...|.++..+.
T Consensus 105 ~~gkgvIll-t~H~G---nwE~~~~~l~~~~~~~~~vy 138 (298)
T PRK07920 105 AAGRGVVLA-LPHSG---NWDMAGAWLVQHHGPFTTVA 138 (298)
T ss_pred hcCCCeEEE-ecCCC---HHHHHHHHHHHcCCCeEEEE
Confidence 357899877 55778 89987766666677655443
No 43
>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=40.38 E-value=72 Score=18.88 Aligned_cols=39 Identities=18% Similarity=0.354 Sum_probs=27.7
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
.+-++|+-.++|.-...--++++|++.|++ .|.+++.-.
T Consensus 60 ~~~~~i~iS~~g~~~~~~~~~~~a~~~g~~--iv~iT~~~~ 98 (139)
T cd05013 60 PGDVVIAISFSGETKETVEAAEIAKERGAK--VIAITDSAN 98 (139)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHcCCe--EEEEcCCCC
Confidence 445666667889887777788999998865 456666543
No 44
>PF09363 XFP_C: XFP C-terminal domain; InterPro: IPR018969 Phosphoketolases (PK) are key enzymes of the pentose phosphate pathway of heterofermentative and facultative homofermentative lactic acid bacteria and of the D-fructose 6-phosphate shunt of bifidobacteria. PK activity has been sporadically reported in other microorganisms including eukaryotic yeasts. Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase is a thiamine diphosphate (ThdP)-dependent enzyme found in bacteria such as Bifidobacterium sp [, ]. This enzyme has dual-specificity with the following catalytic activities: 4.1.2.9 from EC: xylose 5-P + Pi = acetyl-P + glyeraldehyde-3-P 4.1.2.22 from EC: fructose-6-P + Pi = acetyl-P + erythrose-4-P Phosphoketolases are distantly related to transketolases, e.g. IPR005475 from INTERPRO.; GO: 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3AI7_B 3AHC_A 3AHJ_A 3AHG_A 3AHE_A 3AHI_A 3AHD_A 3AHF_A 3AHH_A.
Probab=40.06 E-value=63 Score=23.24 Aligned_cols=34 Identities=24% Similarity=0.299 Sum_probs=26.6
Q ss_pred hhhhhcHHH--HHHHHHhc--CCcEEEEEecccccccC
Q psy15923 15 TGDVLNFGI--ACEKVKAQ--GHAIEMVTVGEDCALLN 48 (68)
Q Consensus 15 tGDvlnF~~--A~e~a~~~--Gi~v~~v~v~DDva~~~ 48 (68)
+||+.+++. |++++++. +++|+.|=|.|=....+
T Consensus 42 aGd~pT~E~lAA~~lLr~~~P~lkiRvVNVvDLm~L~~ 79 (203)
T PF09363_consen 42 AGDVPTLEVLAAASLLREHFPELKIRVVNVVDLMKLQP 79 (203)
T ss_dssp ESHHHHHHHHHHHHHHHHT--T--EEEEEESBGGGGS-
T ss_pred cCchhhHHHHHHHHHHHHhccCceEEEEEEeEccccCC
Confidence 599999995 67788877 89999999999888765
No 45
>PF13899 Thioredoxin_7: Thioredoxin-like; PDB: 2LST_A 3PH9_A 1UC7_A 2JU5_A 1VRS_D 2FWG_A 2FWF_A 2FWH_A 2FWE_A 3FK8_A ....
Probab=39.88 E-value=56 Score=18.60 Aligned_cols=27 Identities=15% Similarity=0.236 Sum_probs=22.8
Q ss_pred cHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 20 NFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 20 nF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
.|.-|.++|++++-++=..+-+|.|..
T Consensus 5 d~~~al~~A~~~~kpvlv~f~a~wC~~ 31 (82)
T PF13899_consen 5 DYEEALAEAKKEGKPVLVDFGADWCPP 31 (82)
T ss_dssp SHHHHHHHHHHHTSEEEEEEETTTTHH
T ss_pred hHHHHHHHHHHcCCCEEEEEECCCCHh
Confidence 478899999999999988888887764
No 46
>cd03520 Link_domain_CSPGs_modules_2_4 Link_domain_CSPGs_modules_2_4; this link domain is found in the second and fourth link modules of the chondroitin sulfate proteoglycan core protein (CSPG) aggrecan and, in the second link module of three other CSPGs: versican, neurocan, and brevican. The link domain is a hyaluronan (HA)-binding domain. CSPGs are characterized by an N-terminal globular domain (G1 domain) containing two contiguous link modules (modules 1 and 2). Both link modules of the G1 domain of aggrecan are involved in interaction with HA. Aggrecan in addition contains a second globular domain (G2) having link modules 3 and 4 which lack HA-binding activity. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates having other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HPLN (hyaluronan/HA and
Probab=39.01 E-value=33 Score=21.94 Aligned_cols=25 Identities=20% Similarity=0.218 Sum_probs=19.7
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHA 34 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~ 34 (68)
|+++-.+| .|||.-|.+.+++.|-.
T Consensus 2 VFh~~~~~---~l~f~eA~~aC~~~ga~ 26 (96)
T cd03520 2 VFYATAPE---KFTFQEARAECRSLGAV 26 (96)
T ss_pred eeeecCCC---CcCHHHHHHHHHHcCCE
Confidence 55665665 79999999999998853
No 47
>PF09383 NIL: NIL domain; InterPro: IPR018449 This domain is found at the C terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins. This domain is likely to act as a substrate binding domain. The domain has been named after a conserved sequence in some members of the family. ; PDB: 2QRR_A 3CED_A 2QSW_A 3TUZ_D 3TUJ_D 3DHX_B 3TUI_H 3DHW_D.
Probab=38.60 E-value=47 Score=18.94 Aligned_cols=32 Identities=25% Similarity=0.445 Sum_probs=24.5
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
-|.|++ ...||--.+.-|.+.+++.|+.|+.+
T Consensus 45 ~G~l~l--~l~g~~~~~~~a~~~L~~~~v~vEvl 76 (76)
T PF09383_consen 45 FGILIL--ELPGDDEEIEKAIAYLREQGVEVEVL 76 (76)
T ss_dssp EEEEEE--EEES-HHHHHHHHHHHHHTTEEEEEE
T ss_pred EEEEEE--EEECCHHHHHHHHHHHHHCCCeEEEC
Confidence 455555 35699989999999999999998754
No 48
>PRK13498 chemoreceptor glutamine deamidase CheD; Provisional
Probab=37.14 E-value=32 Score=23.55 Aligned_cols=21 Identities=19% Similarity=0.234 Sum_probs=18.0
Q ss_pred hhhhhcHHHHHHHHHhcCCcEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
-|++ |.+.|.+.++++||++.
T Consensus 112 IG~r-Ni~~a~~~L~~~gi~i~ 132 (167)
T PRK13498 112 VADK-NIHAALALAEQNGLHLK 132 (167)
T ss_pred hHHH-HHHHHHHHHHHCCCcEE
Confidence 4777 99999999999998854
No 49
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=36.87 E-value=65 Score=23.26 Aligned_cols=34 Identities=15% Similarity=0.261 Sum_probs=23.4
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
..++|+|++.. |-| |+++..-.+...|.++..|.
T Consensus 128 ~~gkgvI~~t~-H~g---nwE~~~~~~~~~~~~~~~vy 161 (314)
T PRK08943 128 ANGENVIFLVP-HGW---AIDIPAMLLASQGQPMAAMF 161 (314)
T ss_pred hCCCCEEEEEe-chh---HHHHHHHHHHhcCCCccEEE
Confidence 46899998877 545 78777666666677765443
No 50
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=36.63 E-value=47 Score=26.21 Aligned_cols=39 Identities=15% Similarity=0.330 Sum_probs=32.1
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
.|...| +|. +.++--.+-+.-++..|.+|+.+..+||--
T Consensus 34 sG~~Hi-G~~-~e~~~~d~v~r~lr~~G~~v~~i~~~Dd~d 72 (510)
T PRK00750 34 SGLPHI-GNF-REVARTDMVRRALRDLGIKTRLIFFSDDMD 72 (510)
T ss_pred CCCccc-ccc-cchhhHHHHHHHHHHcCCcEEEEEEEecCC
Confidence 455555 777 578888888888888999999999999985
No 51
>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=35.92 E-value=49 Score=23.27 Aligned_cols=33 Identities=24% Similarity=0.168 Sum_probs=27.9
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
+.+|+.=+-|=.|+.|+..-+.+.|++.|+++-
T Consensus 153 p~avi~eil~~dG~~~~~~~~~~fA~~~~l~~v 185 (194)
T PF00926_consen 153 PVAVICEILDDDGDMARRDELEEFAKKHGLPIV 185 (194)
T ss_dssp SBEEEEEBBETTSSBHCHHHHHHHHHHTT-EEE
T ss_pred CcEEEEEEeCCCCCcCCHHHHHHHHHHcCCcEE
Confidence 568888888889999999999999999987753
No 52
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=35.79 E-value=54 Score=23.01 Aligned_cols=35 Identities=14% Similarity=0.241 Sum_probs=25.4
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+++.-.||+|.+.+..--++.|++.|+ .++-|++-
T Consensus 158 v~l~~p~~~G~~~dl~~I~~~~~~~g~----~livDeA~ 192 (294)
T cd00615 158 AVITNPTYYGICYNLRKIVEEAHHRGL----PVLVDEAH 192 (294)
T ss_pred EEEECCCCCCEecCHHHHHHHHHhcCC----eEEEECcc
Confidence 333335899999999888899998874 34456664
No 53
>cd03519 Link_domain_HAPLN_module_2 Link_domain_HAPLN_module_2; this link domain is found in the second link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=35.46 E-value=43 Score=21.26 Aligned_cols=27 Identities=26% Similarity=0.454 Sum_probs=19.4
Q ss_pred eEEEEEccchhhhhcHHHHHHHHHhcCCcE
Q psy15923 6 GVLMIIANYTGDVLNFGIACEKVKAQGHAI 35 (68)
Q Consensus 6 GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v 35 (68)
||+++-.- ..|||.-|.+.++++|-.+
T Consensus 1 ~vf~~~~~---~~l~f~eA~~aC~~~ga~l 27 (91)
T cd03519 1 GVFYLLHP---GKLTFSEAVAACQRDGAQI 27 (91)
T ss_pred CeeEECCc---cccCHHHHHHHHHHcCCEe
Confidence 45555432 2899999999999988543
No 54
>KOG1526|consensus
Probab=35.46 E-value=37 Score=26.67 Aligned_cols=40 Identities=20% Similarity=0.338 Sum_probs=26.0
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
.+..|-++-.+||.|||..= +-++---+.|.-...++.-|
T Consensus 270 KS~GGfvwAcKNYDGDVqSD-~vAQg~GSLGlMTSVLv~pd 309 (422)
T KOG1526|consen 270 KSEGGFVWACKNYDGDVQSD-IVAQGYGSLGLMTSVLVCPD 309 (422)
T ss_pred hcCCceEEEeecCCCchhhh-HHHhcccchhhheeEEEcCC
Confidence 36778999999999999654 34443445565554444433
No 55
>TIGR02208 lipid_A_msbB lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase. This family consists of MsbB in E. coli and closely related proteins in other species. MsbB is homologous to HtrB (TIGR02207) and acts immediately after it in the biosynthesis of KDO-2 lipid A (also called Re LPS and Re endotoxin). These two enzymes act after creation of KDO-2 lipid IV-A by addition of the KDO sugars.
Probab=35.17 E-value=75 Score=22.79 Aligned_cols=34 Identities=12% Similarity=0.142 Sum_probs=24.2
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
..++|++++.. |-| |++++.-.+...|.++..|.
T Consensus 119 ~~gkgvi~~t~-H~g---nwE~~~~~~~~~~~~~~~v~ 152 (305)
T TIGR02208 119 AAGKPVIFLVP-HGW---AIDYAGLRLASQGLPMVTMF 152 (305)
T ss_pred hCCCCEEEEec-chh---HHHHHHHHHHhcCCCceEEe
Confidence 46899998877 546 88887777766777765443
No 56
>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=34.05 E-value=97 Score=18.91 Aligned_cols=35 Identities=26% Similarity=0.381 Sum_probs=24.5
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
.++-++|+--|+|.--.---+++.|++.|+++-.+
T Consensus 42 ~~~dl~I~iS~SG~t~e~i~~~~~a~~~g~~iI~I 76 (119)
T cd05017 42 DRKTLVIAVSYSGNTEETLSAVEQAKERGAKIVAI 76 (119)
T ss_pred CCCCEEEEEECCCCCHHHHHHHHHHHHCCCEEEEE
Confidence 34556666668887666667899999998765433
No 57
>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=33.82 E-value=68 Score=22.70 Aligned_cols=32 Identities=19% Similarity=0.164 Sum_probs=27.9
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAI 35 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v 35 (68)
+.||++=+.|=.|+.|.-.-+.+.|++.|+++
T Consensus 158 p~~vicEil~~dG~m~~~~~~~~fA~~~~l~~ 189 (199)
T TIGR00506 158 PAGVICEMMNDDGTMARKPELMEYAKKHNLKL 189 (199)
T ss_pred ceEEEEEEeCCCCCccCHHHHHHHHHHcCCcE
Confidence 46888888888899999999999999999887
No 58
>cd03808 GT1_cap1E_like This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides.
Probab=33.62 E-value=1.2e+02 Score=19.88 Aligned_cols=38 Identities=18% Similarity=0.087 Sum_probs=21.9
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDC 44 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDv 44 (68)
+|++..+..|.....-.-++.+++.|++|..+...++-
T Consensus 2 Il~i~~~~~g~~~~~~~l~~~L~~~g~~v~~~~~~~~~ 39 (359)
T cd03808 2 ILHIVTVDGGLYSFRLPLIKALRAAGYEVHVVAPPGDE 39 (359)
T ss_pred eeEEEecchhHHHHHHHHHHHHHhcCCeeEEEecCCCc
Confidence 45555554555544433344456679999877655443
No 59
>cd01284 Riboflavin_deaminase-reductase Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the biosynthesis of riboflavin.The ribG gene of Bacillus subtilis and the ribD gene of E. coli are bifunctional and contain this deaminase domain and a reductase domain which catalyzes the subsequent reduction of the ribosyl side chain.
Probab=33.39 E-value=56 Score=20.79 Aligned_cols=21 Identities=19% Similarity=0.143 Sum_probs=16.1
Q ss_pred HHHHHHHHhc------CCcEEEEEecc
Q psy15923 22 GIACEKVKAQ------GHAIEMVTVGE 42 (68)
Q Consensus 22 ~~A~e~a~~~------Gi~v~~v~v~D 42 (68)
.+|.++|++. +.+|..|+|.+
T Consensus 2 ~~al~~A~~~~~~~~~~~pvGaviv~~ 28 (115)
T cd01284 2 RRALELAEKGRGLTSPNPPVGCVIVDD 28 (115)
T ss_pred HHHHHHHHhcccccCCCCCEEEEEEeC
Confidence 4577777764 67899999966
No 60
>PF02780 Transketolase_C: Transketolase, C-terminal domain; InterPro: IPR005476 Transketolase 2.2.1.1 from EC (TK) catalyzes the reversible transfer of a two-carbon ketol unit from xylulose 5-phosphate to an aldose receptor, such as ribose 5-phosphate, to form sedoheptulose 7-phosphate and glyceraldehyde 3- phosphate. This enzyme, together with transaldolase, provides a link between the glycolytic and pentose-phosphate pathways. TK requires thiamine pyrophosphate as a cofactor. In most sources where TK has been purified, it is a homodimer of approximately 70 Kd subunits. TK sequences from a variety of eukaryotic and prokaryotic sources [, ] show that the enzyme has been evolutionarily conserved. In the peroxisomes of methylotrophic yeast Pichia angusta (Yeast) (Hansenula polymorpha), there is a highly related enzyme, dihydroxy-acetone synthase (DHAS) 2.2.1.3 from EC (also known as formaldehyde transketolase), which exhibits a very unusual specificity by including formaldehyde amongst its substrates. 1-deoxyxylulose-5-phosphate synthase (DXP synthase) [] is an enzyme so far found in bacteria (gene dxs) and plants (gene CLA1) which catalyzes the thiamine pyrophosphoate-dependent acyloin condensation reaction between carbon atoms 2 and 3 of pyruvate and glyceraldehyde 3-phosphate to yield 1-deoxy-D- xylulose-5-phosphate (dxp), a precursor in the biosynthetic pathway to isoprenoids, thiamine (vitamin B1), and pyridoxol (vitamin B6). DXP synthase is evolutionary related to TK. The N-terminal section, contains a histidine residue which appears to function in proton transfer during catalysis []. In the central section there are conserved acidic residues that are part of the active cleft and may participate in substrate-binding []. This family includes transketolase enzymes 2.2.1.1 from EC and also partially matches to 2-oxoisovalerate dehydrogenase beta subunit P37941 from SWISSPROT 1.2.4.4 from EC. Both these enzymes utilise thiamine pyrophosphate as a cofactor, suggesting there may be common aspects in their mechanism of catalysis.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1NGS_B 1TKA_A 1TRK_B 1TKB_A 1GPU_B 1AY0_B 1TKC_B 2E6K_A 3JU3_A 2R8P_B ....
Probab=33.36 E-value=47 Score=20.47 Aligned_cols=16 Identities=19% Similarity=0.408 Sum_probs=12.3
Q ss_pred HHHHHHhcCCcEEEEE
Q psy15923 24 ACEKVKAQGHAIEMVT 39 (68)
Q Consensus 24 A~e~a~~~Gi~v~~v~ 39 (68)
|++.++++||+++.+-
T Consensus 27 A~~~L~~~Gi~~~vi~ 42 (124)
T PF02780_consen 27 AAEELEEEGIKAGVID 42 (124)
T ss_dssp HHHHHHHTTCEEEEEE
T ss_pred HHHHHHHcCCceeEEe
Confidence 6777888999887653
No 61
>PRK12374 putative dithiobiotin synthetase; Provisional
Probab=33.35 E-value=1.3e+02 Score=20.51 Aligned_cols=39 Identities=15% Similarity=0.158 Sum_probs=31.6
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
+.-+++++..+-|.+-+=-++.+.++.+|+++.-++++.
T Consensus 135 ~~pvilV~~~~lg~in~~lLt~~~l~~~~~~~~gvV~N~ 173 (231)
T PRK12374 135 QLPVLMVVGIQEGCINHALLTAQAIANDGLPLIGWVANR 173 (231)
T ss_pred CCCEEEEECCCcChHHHHHHHHHHHHhCCCcEEEEEEeC
Confidence 456889999999986555577888888999999888875
No 62
>COG1560 HtrB Lauroyl/myristoyl acyltransferase [Cell envelope biogenesis, outer membrane]
Probab=33.31 E-value=76 Score=23.67 Aligned_cols=32 Identities=22% Similarity=0.445 Sum_probs=25.9
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
++++|||++.. |.| ||+++.-.+.+.+..+..
T Consensus 120 ~~~~gvIl~~~-H~g---n~E~~~~~l~~~~~~~~~ 151 (308)
T COG1560 120 ANGRGVILVTP-HFG---NWELGGRALAQQGPKVTA 151 (308)
T ss_pred HcCCCEEEEec-Ccc---hHHHHHHHHHHhCCCeeE
Confidence 46889999977 656 999999999988877633
No 63
>PRK08857 para-aminobenzoate synthase component II; Provisional
Probab=33.26 E-value=79 Score=21.15 Aligned_cols=31 Identities=23% Similarity=0.501 Sum_probs=23.9
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEec
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVG 41 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~ 41 (68)
+++|-|| |-..+.+ .+.+++.|+.++.+-..
T Consensus 2 il~id~~--dsft~~~-~~~l~~~g~~~~~~~~~ 32 (193)
T PRK08857 2 LLMIDNY--DSFTYNL-YQYFCELGAQVKVVRND 32 (193)
T ss_pred EEEEECC--CCcHHHH-HHHHHHCCCcEEEEECC
Confidence 5667888 8888865 56668889999888755
No 64
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=33.24 E-value=55 Score=19.08 Aligned_cols=18 Identities=17% Similarity=0.209 Sum_probs=12.8
Q ss_pred HHHHHHHhcCCcEEEEEe
Q psy15923 23 IACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 23 ~A~e~a~~~Gi~v~~v~v 40 (68)
+.+.++|+.||+++.|..
T Consensus 60 l~~allr~~Gipar~v~g 77 (113)
T PF01841_consen 60 LFVALLRALGIPARVVSG 77 (113)
T ss_dssp HHHHHHHHHT--EEEEEE
T ss_pred HHHHHHhhCCCceEEEEE
Confidence 457788999999998864
No 65
>PF13496 DUF4120: Domain of unknown function (DUF4120)
Probab=32.99 E-value=27 Score=22.43 Aligned_cols=48 Identities=19% Similarity=0.207 Sum_probs=30.1
Q ss_pred cHHHHHHHHHh----cCCcEEEEEeccccccc-CCCCCCCCCCeeeceEEEEE
Q psy15923 20 NFGIACEKVKA----QGHAIEMVTVGEDCALL-NTGRISLAGRRGMCGIVFVI 67 (68)
Q Consensus 20 nF~~A~e~a~~----~Gi~v~~v~v~DDva~~-~~~~~~~~~RRGvAG~vlv~ 67 (68)
.|.--.|++++ .+.+.++-+-.|=.-.+ -|.....+||||+.|-+|.+
T Consensus 22 tl~~ClerLk~We~n~~~~ceIELY~DfApySFgF~e~ypdG~~givGGllyh 74 (95)
T PF13496_consen 22 TLQKCLERLKQWEKNPNHPCEIELYYDFAPYSFGFAERYPDGRRGIVGGLLYH 74 (95)
T ss_pred HHHHHHHHHHHHHhCCCCCeEEEEEeccCccccceeEEccCCCcceEEeEEec
Confidence 45666677764 24677777766643322 11122469999999998865
No 66
>TIGR02620 cas_VVA1548 putative CRISPR-associated protein, VVA1548 family. This model represents a conserved domain of about 95 amino acids exclusively in species with CRISPR (Clustered Regularly Interspaced Short Palidromic Repeats). In all bacterial species with members so far (Vibrio vulnificus YJ016, Mannheimia succiniciproducens MBEL55E, and Nitrosomonas europaea ATCC 19718) and but not in the archaeon Methanothermobacter thermautotrophicus str. Delta H, the gene for this protein is in the midst of a cluster of Cas protein gene near CRISPR repeats.
Probab=32.76 E-value=38 Score=21.69 Aligned_cols=29 Identities=28% Similarity=0.245 Sum_probs=22.0
Q ss_pred EEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccc
Q psy15923 9 MIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDC 44 (68)
Q Consensus 9 ~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDv 44 (68)
|+|+-|.| |.|.++++|++++.++..=|.
T Consensus 1 ~fVtRH~G-------a~eW~~~qG~~iD~~v~HLd~ 29 (93)
T TIGR02620 1 WLICRHSG-------AQEWLSQQGIQIDHFVDHLDP 29 (93)
T ss_pred Ceeeeccc-------HHHHHHhcCCccceeecccCH
Confidence 35566766 889999999999998854333
No 67
>PRK01792 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=32.76 E-value=73 Score=22.92 Aligned_cols=32 Identities=28% Similarity=0.280 Sum_probs=28.5
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAI 35 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v 35 (68)
+.||++=+.|=.|+.+...-+.+.|++.|+++
T Consensus 168 p~~vicEil~~dG~ma~~~~~~~fA~~~~l~~ 199 (214)
T PRK01792 168 EAGVICEITNDDGTMARTPEIVEFAKKFGYAV 199 (214)
T ss_pred ceEEEEEEecCCCCccCHHHHHHHHHHcCCcE
Confidence 56888888898899999999999999999887
No 68
>PRK13495 chemoreceptor glutamine deamidase CheD; Provisional
Probab=32.52 E-value=43 Score=22.81 Aligned_cols=22 Identities=18% Similarity=0.175 Sum_probs=18.2
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|++ |.+.|.+.++++||++..
T Consensus 102 IG~r-Ni~~a~~~L~~~gI~i~a 123 (159)
T PRK13495 102 IGAR-NVEAVKKHLKDFGIKLVA 123 (159)
T ss_pred hHHH-HHHHHHHHHHHcCCcEEE
Confidence 3666 999999999999988644
No 69
>PRK06774 para-aminobenzoate synthase component II; Provisional
Probab=31.96 E-value=90 Score=20.74 Aligned_cols=29 Identities=21% Similarity=0.363 Sum_probs=22.1
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+++|-|| |-.++.++... ++.|.++..+-
T Consensus 2 il~id~~--dsf~~nl~~~l-~~~~~~~~v~~ 30 (191)
T PRK06774 2 LLLIDNY--DSFTYNLYQYF-CELGTEVMVKR 30 (191)
T ss_pred EEEEECC--CchHHHHHHHH-HHCCCcEEEEe
Confidence 5778998 99999886655 55788887555
No 70
>PRK06628 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=31.76 E-value=1.1e+02 Score=21.75 Aligned_cols=31 Identities=10% Similarity=0.115 Sum_probs=21.0
Q ss_pred CCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 3 NQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 3 ~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
.++|||++.. |-| ||+++...+...+.++..
T Consensus 112 ~gkgvIl~t~-H~G---nwE~~~~~l~~~~~~~~~ 142 (290)
T PRK06628 112 EGQPFLLFSG-HFA---NWDISLKILHKFYPKVAV 142 (290)
T ss_pred cCCcEEEEEe-cch---HHHHHHHHHHHhCCCeeE
Confidence 4789997766 667 888876655555555543
No 71
>PRK13490 chemoreceptor glutamine deamidase CheD; Provisional
Probab=31.74 E-value=45 Score=22.71 Aligned_cols=22 Identities=23% Similarity=0.108 Sum_probs=17.9
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|++ |.+.|.+.++++||++..
T Consensus 109 IG~r-Nv~~a~~~L~~~gI~i~a 130 (162)
T PRK13490 109 IGNR-NGKAVKKKLKELSIPILA 130 (162)
T ss_pred hhHH-HHHHHHHHHHHcCCcEEE
Confidence 3655 999999999999988643
No 72
>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=31.53 E-value=1.3e+02 Score=18.50 Aligned_cols=38 Identities=18% Similarity=0.336 Sum_probs=27.2
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
+++-++|+--|+|.--+=-.|++.|++.|.++ +.+++.
T Consensus 46 ~~~dl~I~iS~SG~t~~~~~~~~~a~~~g~~v--i~iT~~ 83 (120)
T cd05710 46 TEKSVVILASHSGNTKETVAAAKFAKEKGATV--IGLTDD 83 (120)
T ss_pred CCCcEEEEEeCCCCChHHHHHHHHHHHcCCeE--EEEECC
Confidence 34556666678898777778999999998754 444443
No 73
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=31.34 E-value=1.1e+02 Score=20.33 Aligned_cols=39 Identities=21% Similarity=0.271 Sum_probs=25.0
Q ss_pred EEEEEcc-chhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 7 VLMIIAN-YTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 7 VL~iv~N-YtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+|+++.= -..|-....-++++++++||+|-+|-++.++.
T Consensus 110 iiil~sd~~~~~~~~~~~~~~~l~~~~I~v~~IgiG~~~~ 149 (183)
T cd01453 110 VLIIFSSLSTCDPGNIYETIDKLKKENIRVSVIGLSAEMH 149 (183)
T ss_pred EEEEEcCCCcCChhhHHHHHHHHHHcCcEEEEEEechHHH
Confidence 5666442 11222234456778888899999999987754
No 74
>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete. This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.
Probab=31.21 E-value=70 Score=25.54 Aligned_cols=38 Identities=13% Similarity=0.411 Sum_probs=30.5
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDC 44 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDv 44 (68)
.|.+.| +|. ++++-=.+-+...+..|++++.|..+||-
T Consensus 29 sG~~Hi-G~~-~e~~~~d~v~r~~r~~g~~~~~i~~~Dd~ 66 (515)
T TIGR00467 29 SGHIHI-GNF-REVITADAIARALRDSGSEARFIYIADNY 66 (515)
T ss_pred CCCccc-cch-hhhhHHHHHHHHHHHcCCCEEEEEEEcCC
Confidence 455555 777 46877777888888899999999999998
No 75
>COG1654 BirA Biotin operon repressor [Transcription]
Probab=31.06 E-value=45 Score=20.35 Aligned_cols=17 Identities=24% Similarity=0.376 Sum_probs=13.7
Q ss_pred HHHHHHHhcCCcEEEEE
Q psy15923 23 IACEKVKAQGHAIEMVT 39 (68)
Q Consensus 23 ~A~e~a~~~Gi~v~~v~ 39 (68)
-.++.+|++|++|+.+.
T Consensus 38 K~Iq~Lr~~G~~I~s~~ 54 (79)
T COG1654 38 KHIQQLREEGVDIESVR 54 (79)
T ss_pred HHHHHHHHhCCceEecC
Confidence 35788999999998764
No 76
>PRK13494 chemoreceptor glutamine deamidase CheD; Provisional
Probab=31.05 E-value=47 Score=22.82 Aligned_cols=22 Identities=23% Similarity=0.169 Sum_probs=18.1
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|++ |.+.|.+.++++||++..
T Consensus 111 IG~r-Nv~~a~~~L~~~gI~i~a 132 (163)
T PRK13494 111 VGLE-NSEFAVNTLNKYGIPILA 132 (163)
T ss_pred hHHH-HHHHHHHHHHHcCCcEEE
Confidence 4766 999999999999988643
No 77
>PRK00014 ribB 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional
Probab=30.78 E-value=82 Score=23.00 Aligned_cols=32 Identities=19% Similarity=0.184 Sum_probs=29.4
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAI 35 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v 35 (68)
..||++=+.|=.|+.|...-+.+.|++.|+++
T Consensus 173 P~~vicEil~~dG~ma~~~~l~~fA~~~~l~i 204 (230)
T PRK00014 173 PAGVLCELMNADGTMMRGASLERYAAKEGLVA 204 (230)
T ss_pred ceEEEEEEeCCCCCccCHHHHHHHHHHcCCcE
Confidence 57899999999999999999999999999887
No 78
>cd06577 PASTA_pknB PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis. PknB is a receptor-like transmembrane protein with an extracellular signal sensor domain (containing multiple PASTA domains) and an intracellular, eukaryotic serine/threonine kinase-like domain. The PASTA domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine kinase Associated domain.
Probab=30.58 E-value=63 Score=16.33 Aligned_cols=24 Identities=17% Similarity=0.346 Sum_probs=19.9
Q ss_pred EccchhhhhcHHHHHHHHHhcCCcEE
Q psy15923 11 IANYTGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 11 v~NYtGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
+.|+.| ++..-|.+.+++.|+.+.
T Consensus 2 vp~~~g--~~~~~a~~~l~~~g~~~~ 25 (62)
T cd06577 2 VPDVVG--MTLDEAKAALEAAGLKVG 25 (62)
T ss_pred CCCcCC--CCHHHHHHHHHHCCCcee
Confidence 457777 788889999999998876
No 79
>COG0512 PabA Anthranilate/para-aminobenzoate synthases component II [Amino acid transport and metabolism / Coenzyme metabolism]
Probab=29.22 E-value=1e+02 Score=21.89 Aligned_cols=35 Identities=23% Similarity=0.599 Sum_probs=23.3
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
+++|-|| |-..|.++ +..++.|.++. |+.+|+++.
T Consensus 4 IL~IDNy--DSFtyNLv-~yl~~lg~~v~-V~rnd~~~~ 38 (191)
T COG0512 4 ILLIDNY--DSFTYNLV-QYLRELGAEVT-VVRNDDISL 38 (191)
T ss_pred EEEEECc--cchHHHHH-HHHHHcCCceE-EEECCccCH
Confidence 6778999 99999875 45566775554 444554443
No 80
>COG3603 Uncharacterized conserved protein [Function unknown]
Probab=28.98 E-value=73 Score=21.53 Aligned_cols=34 Identities=24% Similarity=0.518 Sum_probs=25.1
Q ss_pred CCCCeEEEEEccchhhhh-----cHHHHHHHHHhcCCcEE
Q psy15923 2 DNQNGVLMIIANYTGDVL-----NFGIACEKVKAQGHAIE 36 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvl-----nF~~A~e~a~~~Gi~v~ 36 (68)
+++-|++.+ .-|.+|-+ +-+.|.+.+++.|..+.
T Consensus 89 d~gigIFav-StydtDhiLVr~~dLekAv~~L~eaGhev~ 127 (128)
T COG3603 89 DNGIGIFAV-STYDTDHILVREEDLEKAVKALEEAGHEVL 127 (128)
T ss_pred hCCccEEEE-EeccCceEEEehhhHHHHHHHHHHcCCccc
Confidence 455565554 66999964 67889999999998763
No 81
>PF04230 PS_pyruv_trans: Polysaccharide pyruvyl transferase; InterPro: IPR007345 Pyruvyl-transferases are involved in peptidoglycan-associated polymer biosynthesis. CsaB in Bacillus anthracis is necessary for the non-covalent anchoring of proteins containing an SLH (S-layer homology) domain to peptidoglycan-associated pyruvylated polysaccharides. WcaK and AmsJ are involved in the biosynthesis of colanic acid in Escherichia coli and of amylovoran in Erwinia amylovora [, ].
Probab=28.85 E-value=1.1e+02 Score=19.61 Aligned_cols=33 Identities=24% Similarity=0.272 Sum_probs=23.4
Q ss_pred cchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 13 NYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 13 NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
|+ ||.+=.....+.+++.+.+++.+....+-..
T Consensus 1 N~-GD~~i~~~~~~~l~~~~~~~~~~~~~~~~~~ 33 (286)
T PF04230_consen 1 NI-GDDLILEALLKLLKKHGPDAEIIIFSPDPDE 33 (286)
T ss_pred Cc-hHHHHHHHHHHHHHhcCCceEEEEeCCChHH
Confidence 55 7877555566777888888888887765444
No 82
>PRK14484 phosphotransferase mannnose-specific family component IIA; Provisional
Probab=28.74 E-value=96 Score=20.30 Aligned_cols=26 Identities=23% Similarity=0.367 Sum_probs=21.6
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQ 31 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~ 31 (68)
.|||+++== -|=.||=.+|.|+.+.+
T Consensus 58 dGVlVltDL-Gssp~n~~~a~e~~~~~ 83 (124)
T PRK14484 58 DGVLIFFDL-GSAEMNAEMAIEMLDGE 83 (124)
T ss_pred CCeEEEEeC-CChHHHHHHHHHhcCCC
Confidence 788888654 78899999999999755
No 83
>PRK11706 TDP-4-oxo-6-deoxy-D-glucose transaminase; Provisional
Probab=28.51 E-value=1.4e+02 Score=21.68 Aligned_cols=31 Identities=13% Similarity=0.170 Sum_probs=21.9
Q ss_pred EccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 11 IANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 11 v~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
+.|++|......--.+.|++.|+ .++-|++-
T Consensus 125 ~~~~~G~~~~~~~i~~la~~~~i----~vIeD~a~ 155 (375)
T PRK11706 125 PVHYAGVACEMDTIMALAKKHNL----FVVEDAAQ 155 (375)
T ss_pred EeCCCCCccCHHHHHHHHHHcCC----EEEEECcc
Confidence 45899988877766778888774 45556654
No 84
>PF04755 PAP_fibrillin: PAP_fibrillin; InterPro: IPR006843 This family identifies a conserved domain found in a number of plastid lipid-associated proteins (PAPs) that are thought to form together with other plastoglobulins a coat on the surface of the lipoprotein particle. The coat may contain receptors for attachment to the thylakoid membrane as well as regulatory proteins that may function in the transfer of lipids to and from the thylakoid membranes.). This entry also represents a number of putative fibrillin proteins.; GO: 0005198 structural molecule activity, 0009507 chloroplast
Probab=28.44 E-value=58 Score=21.52 Aligned_cols=25 Identities=28% Similarity=0.442 Sum_probs=19.7
Q ss_pred cEEEEEecccccccCCCCCCCCCCeeeceEEEEEC
Q psy15923 34 AIEMVTVGEDCALLNTGRISLAGRRGMCGIVFVIK 68 (68)
Q Consensus 34 ~v~~v~v~DDva~~~~~~~~~~~RRGvAG~vlv~K 68 (68)
..++..++||+-+.+ |-.|.+||+|
T Consensus 174 ~l~~tYLDedlRI~R----------g~~G~~fVl~ 198 (198)
T PF04755_consen 174 WLDTTYLDEDLRISR----------GNKGSLFVLK 198 (198)
T ss_pred EEEEEEECCCeEEEE----------cCCCCEEEeC
Confidence 578888899888863 5668899887
No 85
>cd01452 VWA_26S_proteasome_subunit 26S proteasome plays a major role in eukaryotic protein breakdown, especially for ubiquitin-tagged proteins. It is an ATP-dependent protease responsible for the bulk of non-lysosomal proteolysis in eukaryotes, often using covalent modification of proteins by ubiquitylation. It consists of a 20S proteolytic core particle (CP) and a 19S regulatory particle (RP). The CP is an ATP independent peptidase consisting of hydrolyzing activities. One or both ends of CP carry the RP that confers both ubiquitin and ATP dependence to the 26S proteosome. The RP's proposed functions include recognition of substrates and translocation of these to CP for proteolysis. The RP can dissociate into a stable lid and base subcomplexes. The base is composed of three non-ATPase subunits (Rpn 1, 2 and 10). A single residue in the vWA domain of Rpn10 has been implicated to be responsible for stabilizing the lid-base association.
Probab=28.37 E-value=2e+02 Score=19.82 Aligned_cols=41 Identities=10% Similarity=0.198 Sum_probs=28.1
Q ss_pred eEEEEEccc-hhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 6 GVLMIIANY-TGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 6 GVL~iv~NY-tGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
.++++++-= +=|--+..-++++++++||+|.+|-+++....
T Consensus 109 rivi~v~S~~~~d~~~i~~~~~~lkk~~I~v~vI~~G~~~~~ 150 (187)
T cd01452 109 RIVAFVGSPIEEDEKDLVKLAKRLKKNNVSVDIINFGEIDDN 150 (187)
T ss_pred eEEEEEecCCcCCHHHHHHHHHHHHHcCCeEEEEEeCCCCCC
Confidence 555555432 22334455677888889999999999988554
No 86
>smart00445 LINK Link (Hyaluronan-binding).
Probab=28.27 E-value=85 Score=19.84 Aligned_cols=17 Identities=41% Similarity=0.495 Sum_probs=15.0
Q ss_pred hhcHHHHHHHHHhcCCc
Q psy15923 18 VLNFGIACEKVKAQGHA 34 (68)
Q Consensus 18 vlnF~~A~e~a~~~Gi~ 34 (68)
.|||.-|.+.++++|-.
T Consensus 14 ~l~f~eA~~aC~~~ga~ 30 (94)
T smart00445 14 KLTFAEAREACRAQGAT 30 (94)
T ss_pred ccCHHHHHHHHHHcCCE
Confidence 69999999999998854
No 87
>PF05014 Nuc_deoxyrib_tr: Nucleoside 2-deoxyribosyltransferase; InterPro: IPR007710 Nucleoside 2-deoxyribosyltransferase (2.4.2.6 from EC) catalyses the cleavage of the glycosidic bonds of 2-deoxyribonucleosides. Nucleoside 2-deoxyribosyltransferases can be divided into two groups based on their substrate specificity: class I enzymes are specific for the transfer of deoxyribose between two purines, while class II enzymes will transfer the deoxyribose between either purines or pyrimidines. The structure of the class I [] and class II [] enzymes are very similar. In class I enzymes, the purine base shields the active site from solvent, which the smaller pyrimidine base cannot do, while in class II enzymes the active site is shielded by a loop (residues 48-62). Both classes of enzymes are found in various Lactobacillus species and participate in nucleoside recycling in these microorganisms. This entry represents both classes of enzymes.; GO: 0050144 nucleoside deoxyribosyltransferase activity, 0070694 deoxyribonucleoside 5'-monophosphate N-glycosidase activity, 0009159 deoxyribonucleoside monophosphate catabolic process; PDB: 1S2L_A 1S2D_C 1S2I_A 1S3F_B 1S2G_C 2A0K_A 2F67_A 2F64_B 2F62_A 2F2T_A ....
Probab=28.07 E-value=67 Score=19.51 Aligned_cols=37 Identities=27% Similarity=0.161 Sum_probs=20.5
Q ss_pred EEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 10 IIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 10 iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
+|.++++.....|-+.|..-+.......+.+..|...
T Consensus 65 via~l~~~~~d~Gt~~ElG~A~algkpv~~~~~d~~~ 101 (113)
T PF05014_consen 65 VIANLDGFRPDSGTAFELGYAYALGKPVILLTEDDRP 101 (113)
T ss_dssp EEEEECSSS--HHHHHHHHHHHHTTSEEEEEECCCCT
T ss_pred EEEECCCCCCCCcHHHHHHHHHHCCCEEEEEEcCCcc
Confidence 4455667668888888876654333344555555544
No 88
>TIGR02364 dha_pts dihydroxyacetone kinase, phosphotransfer subunit. In E. coli and many other bacteria, unlike the yeasts and a few bacteria such as Citrobacter freundii, the dihydroxyacetone kinase (also called glycerone kinase) transfers a phosphate from a phosphoprotein rather than from ATP and contains multiple subunits. This protein, which resembles proteins of PTS transport systems, is found with its gene adjacent to
Probab=28.01 E-value=1.4e+02 Score=19.25 Aligned_cols=29 Identities=24% Similarity=0.414 Sum_probs=22.1
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCC
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGH 33 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi 33 (68)
+.|||+++= --|=+||.++|.++.+.+..
T Consensus 59 ~dgVlvl~D-LGgs~~n~e~a~~~l~~~~~ 87 (125)
T TIGR02364 59 ADGVLIFYD-LGSAVMNAEMAVELLEDEDR 87 (125)
T ss_pred CCCEEEEEc-CCCcHhHHHHHHHHhccccc
Confidence 678888754 47889999999999876543
No 89
>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=27.85 E-value=1.4e+02 Score=17.85 Aligned_cols=37 Identities=16% Similarity=0.282 Sum_probs=25.5
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
++-++|+--|+|---..--+++.|++.|++| +.+++.
T Consensus 47 ~~d~vi~iS~sG~t~~~~~~~~~a~~~g~~v--i~iT~~ 83 (128)
T cd05014 47 PGDVVIAISNSGETDELLNLLPHLKRRGAPI--IAITGN 83 (128)
T ss_pred CCCEEEEEeCCCCCHHHHHHHHHHHHCCCeE--EEEeCC
Confidence 3444444568888878888899999998665 444454
No 90
>PRK15407 lipopolysaccharide biosynthesis protein RfbH; Provisional
Probab=27.35 E-value=1.2e+02 Score=23.07 Aligned_cols=35 Identities=11% Similarity=0.270 Sum_probs=24.2
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
++++.|..|-.....--.+.|++.|+ .++-|++-+
T Consensus 162 aVi~~~~~G~p~dl~~I~~la~~~gi----~vIeDaa~a 196 (438)
T PRK15407 162 AIMIAHTLGNPFDLAAVKAFCDKHNL----WLIEDNCDA 196 (438)
T ss_pred EEEEeCCCCChhhHHHHHHHHHHCCC----EEEEECccc
Confidence 45556788888777777888888873 455566544
No 91
>PRK00090 bioD dithiobiotin synthetase; Reviewed
Probab=27.32 E-value=1.9e+02 Score=19.20 Aligned_cols=37 Identities=14% Similarity=0.187 Sum_probs=26.7
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEec
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVG 41 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~ 41 (68)
..||++....-|.+-+.-++.+.++..|+++.-++++
T Consensus 134 ~pvilV~~~~~~~i~~~~~~i~~l~~~~~~i~gvIlN 170 (222)
T PRK00090 134 LPVILVVGVKLGCINHTLLTLEAIRARGLPLAGWVAN 170 (222)
T ss_pred CCEEEEECCCCcHHHHHHHHHHHHHHCCCCeEEEEEc
Confidence 3577777766676544667778788888888777766
No 92
>PF06534 RGM_C: Repulsive guidance molecule (RGM) C-terminus; InterPro: IPR009496 This entry contains of several mammalian and one bird sequence from Gallus gallus (Chicken) and represents the C-terminal region of several sequences, but in others it represents the full protein. All of the mammalian proteins are hypothetical and have no known function, but Q8JG54 from SWISSPROT from the chicken is annotated as being a repulsive guidance molecule (RGM). RGM is a GPI-linked axon guidance molecule of the retinotectal system. RGM is repulsive for a subset of axons, those from the temporal half of the retina. Temporal retinal axons invade the anterior optic tectum in a superficial layer, and encounter RGM expressed in a gradient with increasing concentration along the anterior-posterior axis. Temporal axons are able to receive posterior-dependent information by sensing gradients or concentrations of guidance cues. Thus, RGM is likely to provide positional information for temporal axons invading the optic tectum in the stratum opticum [].
Probab=27.27 E-value=40 Score=23.78 Aligned_cols=16 Identities=38% Similarity=0.459 Sum_probs=13.3
Q ss_pred hhhhhcHHHHHHHHHhc
Q psy15923 15 TGDVLNFGIACEKVKAQ 31 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~ 31 (68)
|||. ||-||+.-|.++
T Consensus 151 TGD~-nft~aA~~AleD 166 (179)
T PF06534_consen 151 TGDA-NFTAAAYSALED 166 (179)
T ss_pred cCCc-cHHHHHHHHHHH
Confidence 7997 999999888753
No 93
>PRK02813 putative aminopeptidase 2; Provisional
Probab=27.25 E-value=1.5e+02 Score=23.06 Aligned_cols=42 Identities=14% Similarity=0.158 Sum_probs=33.2
Q ss_pred CCeEEEEEc---cchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 4 QNGVLMIIA---NYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 4 ~~GVL~iv~---NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
++|+.+-+. .|+.|.....+-.+.|+++||++...+..=|..
T Consensus 331 g~GpvIk~~~~~~y~t~~~~~a~~~~ia~~~~Ip~Q~~v~~~d~~ 375 (428)
T PRK02813 331 NKGPVIKINANQRYATDAESAAVFKLLCEKAGVPYQEFVNRSDMP 375 (428)
T ss_pred CcCCeEEECCCCCcccCHHHHHHHHHHHHHcCCCEEEEEecCCCC
Confidence 577776554 588999988899999999999999877655543
No 94
>cd05015 SIS_PGI_1 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of glucose 6-phosphate to fructose 6-phosphate. As an extracellular protein, PGI also has functions equivalent to neuroleukin (NLK), autocrine motility factor (AMF), and maturation factor (MF). Evidence suggests that PGI, NLK, AMF, and MF are closely related or identical. NLK is a neurotrophic growth factor that promotes regeneration and survival of neurons. The dimeric form of NLK has isomerase function, whereas its monomeric form carries out neurotrophic activity. AMF is a cytokine that stimulates cell migration and metastasis. MF mediates the differentiation of human myeloid leukemic HL-60 cells to terminal monocytic cells.
Probab=27.23 E-value=1.6e+02 Score=19.15 Aligned_cols=42 Identities=21% Similarity=0.324 Sum_probs=29.9
Q ss_pred CCeEEEEEccchhhh----hcHHHHHHHHHhcC---CcEEEEEeccccc
Q psy15923 4 QNGVLMIIANYTGDV----LNFGIACEKVKAQG---HAIEMVTVGEDCA 45 (68)
Q Consensus 4 ~~GVL~iv~NYtGDv----lnF~~A~e~a~~~G---i~v~~v~v~DDva 45 (68)
.+..|+|+.-++|.- -+|..|.++.++++ ...++|.|+|.-+
T Consensus 72 ~~~tlvi~iSkSG~T~Et~~~~~~a~~~l~~~~~~~~~~~~vaiT~~~s 120 (158)
T cd05015 72 PETTLFIVISKSGTTLETLANARLAREWLEEAGGDDLAKHFVAITDNGS 120 (158)
T ss_pred cccEEEEEEECCcCCHHHHHHHHHHHHHHHHhccccccceEEEEcCCCh
Confidence 467888888999974 35777777666555 4568888888443
No 95
>PRK13488 chemoreceptor glutamine deamidase CheD; Provisional
Probab=26.87 E-value=62 Score=21.91 Aligned_cols=21 Identities=33% Similarity=0.335 Sum_probs=17.6
Q ss_pred hhhhcHHHHHHHHHhcCCcEEE
Q psy15923 16 GDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 16 GDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
|++ |.+.|.+.++++||++..
T Consensus 105 G~r-Ni~~a~~~L~~~gi~i~a 125 (157)
T PRK13488 105 GER-NIESAKETLKKLGIRIVA 125 (157)
T ss_pred HHH-HHHHHHHHHHHCCCcEEE
Confidence 666 999999999999988643
No 96
>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase. Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.
Probab=26.74 E-value=1e+02 Score=23.44 Aligned_cols=38 Identities=16% Similarity=0.433 Sum_probs=31.0
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDC 44 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDv 44 (68)
.|.+.| +|.- .++-..+-+.-++..|.+|..+..+||-
T Consensus 30 sG~~HI-G~~~-e~i~~D~i~R~lr~~G~~v~~v~~~Dd~ 67 (353)
T cd00674 30 SGHIHI-GNFR-EVITADLVARALRDLGFEVRLIYSWDDY 67 (353)
T ss_pred CCCccc-CccH-HHHHHHHHHHHHHHcCCCEEEEEEEcCC
Confidence 344444 7664 5888888888889999999999999998
No 97
>PRK14170 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.66 E-value=1.8e+02 Score=21.64 Aligned_cols=41 Identities=5% Similarity=0.111 Sum_probs=35.2
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...+++.+
T Consensus 35 aii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~ 75 (284)
T PRK14170 35 AVVLVGDNQASRTYVRNKQKRTEEAGMKSVLIELPENVTEE 75 (284)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 56677888889999999999999999999999998887643
No 98
>PF07745 Glyco_hydro_53: Glycosyl hydrolase family 53; InterPro: IPR011683 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. This domain is found in family 53 of the glycosyl hydrolase classification []. These enzymes are endo-1,4- beta-galactanases (3.2.1.89 from EC). The structure of this domain is known [] and has a TIM barrel fold.; GO: 0015926 glucosidase activity; PDB: 1HJQ_A 1HJS_A 1HJU_B 1FHL_A 1FOB_A 2GFT_A 1UR4_B 1UR0_A 1R8L_B 2CCR_A ....
Probab=26.58 E-value=34 Score=25.87 Aligned_cols=30 Identities=40% Similarity=0.498 Sum_probs=23.1
Q ss_pred ccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 12 ANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 12 ~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
-+||-|+|+. ++++|+..++|-|+-+|...
T Consensus 109 ~~yT~~vl~~------l~~~G~~pd~VQVGNEin~G 138 (332)
T PF07745_consen 109 YDYTKDVLQA------LKAAGVTPDMVQVGNEINNG 138 (332)
T ss_dssp HHHHHHHHHH------HHHTT--ESEEEESSSGGGE
T ss_pred HHHHHHHHHH------HHHCCCCccEEEeCcccccc
Confidence 4688887654 68899999999999999875
No 99
>COG0216 PrfA Protein chain release factor A [Translation, ribosomal structure and biogenesis]
Probab=26.44 E-value=69 Score=25.03 Aligned_cols=24 Identities=21% Similarity=0.630 Sum_probs=20.9
Q ss_pred chhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 14 YTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 14 YtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
|+||. |.|=..-|+..||+++++-
T Consensus 130 FagDL--frMY~rYAe~kgWk~ei~s 153 (363)
T COG0216 130 FAGDL--FRMYSRYAESKGWKVEILS 153 (363)
T ss_pred HHHHH--HHHHHHHHHhCCCEEEEee
Confidence 68888 8888999999999999864
No 100
>TIGR01465 cobM_cbiF precorrin-4 C11-methyltransferase. This model represents precorrin-4 C11-methyltransferase, one of two methyltransferases commonly referred to as precorrin-3 methylase (the other is precorrin-3B C17-methyltransferase, EC 2.1.1.131). This enzyme participates in the pathway toward the biosynthesis of cobalamin and related products.
Probab=26.14 E-value=81 Score=21.27 Aligned_cols=32 Identities=31% Similarity=0.367 Sum_probs=22.1
Q ss_pred CCeEEEEEccchhhhhcHHHHHH---HHHhcCCcEEEE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACE---KVKAQGHAIEMV 38 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e---~a~~~Gi~v~~v 38 (68)
++-|.++. +||-+=|+...+ .+++.|++++.+
T Consensus 71 g~~V~~L~---~GDP~~~~~~~~l~~~~~~~g~~vevi 105 (229)
T TIGR01465 71 GKLVVRLH---TGDPSIYGAIAEQMQLLEALGIPYEVV 105 (229)
T ss_pred CCeEEEEe---CcCccccccHHHHHHHHHHCCCCEEEE
Confidence 33466664 699999988775 445568877765
No 101
>COG2815 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.89 E-value=67 Score=24.02 Aligned_cols=25 Identities=20% Similarity=0.500 Sum_probs=22.4
Q ss_pred EEccchhhhhcHHHHHHHHHhcCCcEE
Q psy15923 10 IIANYTGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 10 iv~NYtGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
.+.||.| |||.-|...+++.|+++.
T Consensus 163 ~vpdl~G--~t~~~A~~~L~~~G~~~~ 187 (303)
T COG2815 163 TVPDLVG--MTYDEASSNLKAAGLTVN 187 (303)
T ss_pred ecccccc--ccHHHHHHHHHHhCCCcc
Confidence 3589999 899999999999999986
No 102
>PRK09314 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional
Probab=25.87 E-value=1e+02 Score=23.58 Aligned_cols=37 Identities=14% Similarity=0.093 Sum_probs=31.5
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
+.||++=+.|=.|+.+...-+.+.|++.|+++ +-+.|
T Consensus 157 p~~vicEil~~dG~ma~~~~l~~fA~~h~l~~--isi~d 193 (339)
T PRK09314 157 PVAVICEIMKEDGTMARRDDLEDFAKKHNLKM--IYVSD 193 (339)
T ss_pred ceEEEEEEecCCCCcccHHHHHHHHHHcCCcE--EEHHH
Confidence 57899989999999999999999999999887 44444
No 103
>PRK14193 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.86 E-value=1.9e+02 Score=21.49 Aligned_cols=41 Identities=7% Similarity=-0.028 Sum_probs=34.7
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-.+-...|++-||+++.+....|++.+
T Consensus 36 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~ 76 (284)
T PRK14193 36 GTVLVGDDPGSQAYVRGKHRDCAEVGITSIRRDLPADATQE 76 (284)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 45677888899999999999999999999999988887654
No 104
>TIGR01822 2am3keto_CoA 2-amino-3-ketobutyrate coenzyme A ligase. This model represents a narrowly defined clade of animal and bacterial (almost exclusively Proteobacterial) 2-amino-3-ketobutyrate--CoA ligase. This enzyme can act in threonine catabolism. The closest homolog from Bacillus subtilis, and sequences like it, may be functionally equivalent but were not included in the model because of difficulty in finding reports of function.
Probab=25.79 E-value=58 Score=23.32 Aligned_cols=30 Identities=10% Similarity=0.311 Sum_probs=24.3
Q ss_pred ccchhhhhcHHHHHHHHHhcCCcEEEEEeccccc
Q psy15923 12 ANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCA 45 (68)
Q Consensus 12 ~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva 45 (68)
.|.+|+++...--++.|++.| .+++-|++-
T Consensus 180 ~~~tG~~~~l~~i~~la~~~~----~~li~De~~ 209 (393)
T TIGR01822 180 FSMDGVIAPLDEICDLADKYD----ALVMVDECH 209 (393)
T ss_pred ccCCCCcCCHHHHHHHHHHcC----CEEEEECCc
Confidence 488999999887888898877 467778885
No 105
>TIGR03414 ABC_choline_bnd choline ABC transporter, periplasmic binding protein. Partial phylogenetic profiling (PubMed:16930487) vs. the genome property of glycine betaine biosynthesis from choline consistently reveals a member of this ABC transporter periplasmic binding protein as the best match, save for the betaine biosynthesis enzymes themselves. Genomes often carry several paralogs, one encoded together with the permease and ATP-binding components and another encoded next to a choline-sulfatase gene, suggesting that different members of this protein family interact with shared components and give some flexibility in substrate. Of two members from Sinorhizobium meliloti 1021, one designated ChoX has been shown experimentally to bind choline (though not various related compounds such as betaine) and to be required for about 60 % of choline uptake. Members of this protein have an invariant Cys residue near the N-terminus and likely are lipoproteins.
Probab=25.72 E-value=1.4e+02 Score=21.46 Aligned_cols=34 Identities=12% Similarity=0.074 Sum_probs=29.8
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEe
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v 40 (68)
|-+-.+|+++-...=.|+.+.+++.|++|+.+..
T Consensus 10 I~ig~~~w~~~~~~~~i~~~iLE~~Gy~Ve~~~~ 43 (290)
T TIGR03414 10 VRFADVGWTDITATTALASVLLEGLGYQPKVTLL 43 (290)
T ss_pred EEEeeCCcchHHHHHHHHHHHHHHcCCcceeEEc
Confidence 6677899999999899999999988999998654
No 106
>PRK13491 chemoreceptor glutamine deamidase CheD; Provisional
Probab=25.63 E-value=65 Score=22.99 Aligned_cols=22 Identities=18% Similarity=0.249 Sum_probs=18.3
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|.+ |...|.+.++++||++..
T Consensus 112 IG~r-Nie~a~~~L~~~GI~iva 133 (199)
T PRK13491 112 IGQA-NAAFARRYLRDEGIRCTA 133 (199)
T ss_pred HHHH-HHHHHHHHHHHcCCcEEE
Confidence 4766 999999999999987643
No 107
>PF13670 PepSY_2: Peptidase propeptide and YPEB domain This Prosite motif covers only the active site. This is family M4 in the peptidase classification.
Probab=25.47 E-value=1.4e+02 Score=17.36 Aligned_cols=27 Identities=33% Similarity=0.441 Sum_probs=22.9
Q ss_pred hhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 17 DVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 17 DvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
+-+....+..+++.+|++|..+=..||
T Consensus 27 ~~~~~~~~~~~l~~~G~~v~~ve~~~~ 53 (83)
T PF13670_consen 27 DWLSIEQAVAKLEAQGYQVREVEFDDD 53 (83)
T ss_pred ccCCHHHHHHHHHhcCCceEEEEEcCC
Confidence 345788889999999999999999777
No 108
>PF11051 Mannosyl_trans3: Mannosyltransferase putative; InterPro: IPR022751 Alpha-mannosyltransferase is responsible for the addition of residues to the outer chain of core N-linked polysaccharides and to O-linked mannotriose. It is implicated in late Golgi modifications [][][]. The proteins matching this entry are conserved in fungi and also found in some phototrophic organisms.; GO: 0006486 protein glycosylation
Probab=25.29 E-value=2e+02 Score=20.53 Aligned_cols=41 Identities=15% Similarity=0.192 Sum_probs=26.6
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcC--CcEEEEEec-ccccc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQG--HAIEMVTVG-EDCAL 46 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~G--i~v~~v~v~-DDva~ 46 (68)
++|+++.+++. .....-.....+|..| .+|+++.-+ ||.+.
T Consensus 1 grGIVi~~g~~--~~~~a~~lI~~LR~~g~~LPIEI~~~~~~dl~~ 44 (271)
T PF11051_consen 1 GRGIVITAGDK--YLWLALRLIRVLRRLGNTLPIEIIYPGDDDLSK 44 (271)
T ss_pred CCEEEEEecCc--cHHHHHHHHHHHHHhCCCCCEEEEeCCccccCH
Confidence 58988888763 2222223455666666 789999987 77754
No 109
>PRK08674 bifunctional phosphoglucose/phosphomannose isomerase; Validated
Probab=25.09 E-value=1.6e+02 Score=21.40 Aligned_cols=38 Identities=18% Similarity=0.356 Sum_probs=28.4
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
+++.++|+--|+|.-.+=--|++.|++.|. .+|.++++
T Consensus 77 ~~~dlvI~iS~SG~T~e~~~a~~~a~~~ga--~vIaIT~~ 114 (337)
T PRK08674 77 DEKTLVIAVSYSGNTEETLSAVEQALKRGA--KIIAITSG 114 (337)
T ss_pred CCCcEEEEEcCCCCCHHHHHHHHHHHHCCC--eEEEECCC
Confidence 455677777799998888788999999886 45556553
No 110
>PRK14174 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=25.01 E-value=2e+02 Score=21.43 Aligned_cols=41 Identities=10% Similarity=0.133 Sum_probs=34.6
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-..-...|++-||+++.+-...+++..
T Consensus 35 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 75 (295)
T PRK14174 35 TVIIVGEDPASQVYVRNKAKSCKEIGMNSTVIELPADTTEE 75 (295)
T ss_pred EEEEeCCChHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888888988888899999999999999988887643
No 111
>KOG0204|consensus
Probab=24.91 E-value=50 Score=28.98 Aligned_cols=24 Identities=21% Similarity=0.332 Sum_probs=19.9
Q ss_pred HHHHHHHhcCCcEEEEEeccccccc
Q psy15923 23 IACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 23 ~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
-|.++|+..||.|+|| .+|+|..+
T Consensus 654 ~AV~~Cq~AGItVRMV-TGDNI~TA 677 (1034)
T KOG0204|consen 654 EAVQLCQRAGITVRMV-TGDNINTA 677 (1034)
T ss_pred HHHHHHHHcCcEEEEE-eCCcHHHH
Confidence 5899999999999996 47887654
No 112
>PRK14167 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.82 E-value=2e+02 Score=21.48 Aligned_cols=41 Identities=7% Similarity=0.075 Sum_probs=34.5
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...+++.+
T Consensus 35 aiI~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 75 (297)
T PRK14167 35 ATVLMSDDPASETYVSMKQRDCEEVGIEAIDVEIDPDAPAE 75 (297)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888899988889999999999999999888777644
No 113
>PRK11377 dihydroxyacetone kinase subunit M; Provisional
Probab=24.72 E-value=1.2e+02 Score=23.94 Aligned_cols=29 Identities=17% Similarity=0.251 Sum_probs=22.7
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhc
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQ 31 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~ 31 (68)
+++.|||+++==.+. +||-+||.|++..+
T Consensus 60 ~~~~gv~v~~DlGSa-~~~~e~a~e~~~~~ 88 (473)
T PRK11377 60 ADADHVLVMMDMGSA-LLSAETALELLDPE 88 (473)
T ss_pred cCCCCEEEEEecchH-HhHHHHHHHhhccc
Confidence 457899998765544 99999999999643
No 114
>PF12367 PFO_beta_C: Pyruvate ferredoxin oxidoreductase beta subunit C terminal
Probab=24.41 E-value=1.4e+02 Score=17.69 Aligned_cols=26 Identities=19% Similarity=0.155 Sum_probs=21.7
Q ss_pred hhhcHHHHHHHHHh-cCCcEEEEEecc
Q psy15923 17 DVLNFGIACEKVKA-QGHAIEMVTVGE 42 (68)
Q Consensus 17 DvlnF~~A~e~a~~-~Gi~v~~v~v~D 42 (68)
|.-++..|.++|.+ +.|++.++...+
T Consensus 25 Dp~d~~~A~~~a~e~d~iplGIfY~~~ 51 (67)
T PF12367_consen 25 DPSDREAAMEKAREGDKIPLGIFYRNE 51 (67)
T ss_pred CchhHHHHHHHHHhcCCceEEEEEeCC
Confidence 78899999999997 568888887665
No 115
>COG1432 Uncharacterized conserved protein [Function unknown]
Probab=24.31 E-value=88 Score=21.20 Aligned_cols=33 Identities=18% Similarity=0.463 Sum_probs=25.6
Q ss_pred eEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 6 GVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 6 GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
-+++| .+||- .|--+.+.|+.+|.+|..+-+.-
T Consensus 112 D~ivl---~SgD~-DF~p~v~~~~~~G~rv~v~~~~~ 144 (181)
T COG1432 112 DTIVL---FSGDG-DFIPLVEAARDKGKRVEVAGIEP 144 (181)
T ss_pred CEEEE---EcCCc-cHHHHHHHHHHcCCEEEEEecCC
Confidence 35555 35887 89999999999999988776544
No 116
>PRK06176 cystathionine gamma-synthase/cystathionine beta-lyase; Validated
Probab=24.19 E-value=2e+02 Score=21.33 Aligned_cols=38 Identities=13% Similarity=0.145 Sum_probs=27.9
Q ss_pred eEEEE--EccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 6 GVLMI--IANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 6 GVL~i--v~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
.++++ ..|.+|-+++..--++.|++.|+ .++-|++...
T Consensus 136 ~lV~lesP~Nptg~~~di~~I~~la~~~gi----~vivD~t~a~ 175 (380)
T PRK06176 136 KALYLETPSNPLLKITDLAQCASVAKDHGL----LTIVDNTFAT 175 (380)
T ss_pred eEEEEECCCCCCceecCHHHHHHHHHHcCC----EEEEECCccc
Confidence 34554 68999999999888899998873 4455776543
No 117
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=24.19 E-value=2.1e+02 Score=21.17 Aligned_cols=41 Identities=7% Similarity=0.082 Sum_probs=34.9
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-.+-...|++-||+++.+....+++.+
T Consensus 30 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 70 (279)
T PRK14178 30 ATVIVGDDPASQMYVRMKHRACERVGIGSVGIELPGDATTR 70 (279)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888899988889999999999999999988887644
No 118
>cd03518 Link_domain_HAPLN_module_1 Link_domain_HAPLN_module_1; this link domain is found in the first link module of proteins similar to the vertebrate HAPLN (hyaluronan/HA and proteoglycan binding link) protein family which includes cartilage link protein. The link domain is a HA-binding domain. HAPLNs contain two contiguous link modules. Both link modules of cartilage link protein are involved in interaction with HA. In cartilage, a chondroitin sulfate proteoglycan core protein (CSPG) aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates with other CSPGs substituting for aggregan may contribute to the structural integrity of many different tissues. Members of the vertebrate HAPLN gene family are physically linked adjacent to CSPG genes.
Probab=24.06 E-value=57 Score=20.78 Aligned_cols=17 Identities=29% Similarity=0.268 Sum_probs=14.6
Q ss_pred hhcHHHHHHHHHhcCCc
Q psy15923 18 VLNFGIACEKVKAQGHA 34 (68)
Q Consensus 18 vlnF~~A~e~a~~~Gi~ 34 (68)
.|||..|.+.++++|-.
T Consensus 13 ~l~f~eA~~aC~~~ga~ 29 (95)
T cd03518 13 NLNFHEAQQACEEQDAT 29 (95)
T ss_pred ccCHHHHHHHHHHcCCe
Confidence 68999999999998853
No 119
>cd01482 vWA_collagen_alphaI-XII-like Collagen: 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=23.98 E-value=2e+02 Score=18.21 Aligned_cols=37 Identities=14% Similarity=0.229 Sum_probs=25.2
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEecc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~D 42 (68)
+.+++|++.-..+ ....-|++.+++.|+.+-.|-+++
T Consensus 104 ~k~iillTDG~~~-~~~~~~a~~lk~~gi~i~~ig~g~ 140 (164)
T cd01482 104 PKVVILITDGKSQ-DDVELPARVLRNLGVNVFAVGVKD 140 (164)
T ss_pred CEEEEEEcCCCCC-chHHHHHHHHHHCCCEEEEEecCc
Confidence 4577887764332 234567888888999888777755
No 120
>PRK14173 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=23.79 E-value=2.2e+02 Score=21.19 Aligned_cols=41 Identities=12% Similarity=0.083 Sum_probs=34.5
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-..-...|++-||+++.+....+++.+
T Consensus 33 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 73 (287)
T PRK14173 33 RVVRLGEDPASVSYVRLKDRQAKALGLRSQVEVLPESTSQE 73 (287)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 45677888899999999999999999999999888776543
No 121
>cd03516 Link_domain_CD44_like This domain is a hyaluronan (HA)-binding domain. It is found in CD44 receptor and mediates adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It also plays an important role in arteriogenesis. The functional HA-binding domain of CD44 is an extended domain comprised of a single link module flanked with N-and C- extensions. These extensions are essential for folding and for functional activity. This group also contains the cell surface retention sequence (CRS) binding protein-1 (CRSBP-1) and lymph vessel endothelial receptor-1 (LYVE-1). CRSBP-1 is a cell surface binding protein for the CRS motif of PDGF-BB (platelet-derived growth factor-BB) and is responsible for the cell surface retention of PDGF-BB in SSV-transformed cells. CRSBP-1 may play a role in autocrine regulation of cell growth mediated by CRS containing growth regulators. LYVE-1 is preferentially expressed on the lymphatic endothelium and is used as a molecular marke
Probab=23.76 E-value=1.1e+02 Score=20.95 Aligned_cols=29 Identities=34% Similarity=0.382 Sum_probs=22.7
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHA 34 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~ 34 (68)
+||+++-+| .-=.|||.-|.+.++++|-.
T Consensus 6 ~GVFh~~~~-grY~lnf~eA~~aC~~~ga~ 34 (144)
T cd03516 6 MGVFLVEKN-GRYSLNFTEAKEACRALGLT 34 (144)
T ss_pred EEEEEeccC-CcccCCHHHHHHHHHHcCCe
Confidence 689888876 11269999999999998854
No 122
>KOG4132|consensus
Probab=23.60 E-value=1.1e+02 Score=22.88 Aligned_cols=37 Identities=22% Similarity=0.261 Sum_probs=30.1
Q ss_pred eEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 6 GVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 6 GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
-.||.++|-.+|.|- .++.+.||+|+.+.|-.-.+.+
T Consensus 135 PLLfpcGn~~rdil~-----kkL~~~G~~Vds~~VY~T~~hp 171 (260)
T KOG4132|consen 135 PLLFPCGNLRRDILP-----KKLHDKGIRVDSCEVYETREHP 171 (260)
T ss_pred ceEEEcccchhHHHH-----HHHHhCCceeeEEEEEeeeecc
Confidence 478999999999863 4567789999999998776665
No 123
>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=23.58 E-value=1.5e+02 Score=18.53 Aligned_cols=27 Identities=30% Similarity=0.372 Sum_probs=18.1
Q ss_pred hhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 16 GDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 16 GDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
|++ |-..|.+.++++||++..-=|+..
T Consensus 62 G~r-Nv~~a~~~L~~~gi~I~a~dvGG~ 88 (114)
T PF03975_consen 62 GER-NVEAARELLAEEGIPIVAEDVGGN 88 (114)
T ss_dssp HHH-HHHHHHHHHHHTT--EEEEEE-SS
T ss_pred HHH-HHHHHHHHHHHCCCcEEEeeCCCC
Confidence 555 888999999999998765444443
No 124
>PRK11063 metQ DL-methionine transporter substrate-binding subunit; Provisional
Probab=23.56 E-value=2.3e+02 Score=20.34 Aligned_cols=35 Identities=17% Similarity=0.216 Sum_probs=25.5
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhc-CCcEEEEEecc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQ-GHAIEMVTVGE 42 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~-Gi~v~~v~v~D 42 (68)
+=+-+.+.+.-.+ ..++.+.++++ |++|+.+..+|
T Consensus 33 I~IG~~~~~~~~~-~~~~~~~l~~~~G~~Vel~~f~~ 68 (271)
T PRK11063 33 IKVGVIVGAEQQV-AEVAQKVAKEKYGLDVELVTFND 68 (271)
T ss_pred EEEEeCCCChHHH-HHHHHHHHHHhcCCeEEEEEecC
Confidence 4444556666554 67888888765 99999999876
No 125
>PF01582 TIR: TIR domain; InterPro: IPR000157 In Drosophila melanogaster the Toll protein is involved in establishment of dorso-ventral polarity in the embryo. In addition, members of the Toll family play a key role in innate antibacterial and antifungal immunity in insects as well as in mammals. These proteins are type-I transmembrane receptors that share an intracellular 200 residue domain with the interleukin-1 receptor (IL-1R), the Toll/IL-1R homologous region (TIR). The similarity between Toll-like receptors (LTRs) and IL-1R is not restricted to sequence homology since these proteins also share a similar signalling pathway. They both induce the activation of a Rel type transcription factor via an adaptor protein and a protein kinase []. Interestingly, MyD88, a cytoplasmic adaptor protein found in mammals, contains a TIR domain associated to a DEATH domain (see IPR000488 from INTERPRO) [, , ]. Besides the mammalian and Drosophila melanogaster proteins, a TIR domain is also found in a number of plant proteins implicated in host defence []. As MyD88, these proteins are cytoplasmic. Site directed mutagenesis and deletion analysis have shown that the TIR domain is essential for Toll and IL-1R activities. Sequence analysis have revealed the presence of three highly conserved regions among the different members of the family: box 1 (FDAFISY), box 2 (GYKLC-RD-PG), and box 3 (a conserved W surrounded by basic residues). It has been proposed that boxes 1 and 2 are involved in the binding of proteins involved in signalling, whereas box 3 is primarily involved in directing localization of receptor, perhaps through interactions with cytoskeletal elements [].; GO: 0005515 protein binding, 0007165 signal transduction, 0005622 intracellular; PDB: 3J0A_A 2J67_B 3JRN_A 1FYV_A 1O77_D 1FYX_A 1FYW_A 3OZI_B 1T3G_B 2JS7_A ....
Probab=23.44 E-value=1.1e+02 Score=19.11 Aligned_cols=43 Identities=16% Similarity=0.223 Sum_probs=31.3
Q ss_pred CeEEEEEccchhhh---hcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 5 NGVLMIIANYTGDV---LNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 5 ~GVL~iv~NYtGDv---lnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
.-|+++-.||.-+. ..|.+|.+.+.+.+-.--++++-.++...
T Consensus 57 ~~I~VlS~~y~~s~wc~~el~~a~~~~~~~~~~~~Il~v~~~v~~~ 102 (141)
T PF01582_consen 57 RTIVVLSRNYLSSEWCLFELQEALERLLEEGRDKLILPVFYDVSPS 102 (141)
T ss_dssp EEEEEESHHHHHHTHHHHHHHHHHHHHHCSTCTTEEEEESSSS-CH
T ss_pred eeEEEeecccccccchhhhhhhhhhhccccccccceeeEeccCChh
Confidence 44677778999884 78889999998877445566777777754
No 126
>COG0108 RibB 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]
Probab=23.28 E-value=1.4e+02 Score=21.54 Aligned_cols=33 Identities=24% Similarity=0.244 Sum_probs=28.3
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHHhcCCcEE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVKAQGHAIE 36 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~ 36 (68)
+.||++=+.|=.|-.++..-+.+.|++.|+++-
T Consensus 157 Pa~VicEi~~~dG~mar~~~~~~fa~~h~l~~i 189 (203)
T COG0108 157 PAGVICEIMNDDGTMARLPELEEFAKEHGLPVI 189 (203)
T ss_pred CcEEEEEEeCCCccccChHHHHHHHHHcCCcEE
Confidence 578999889989999999999999999888753
No 127
>TIGR01825 gly_Cac_T_rel pyridoxal phosphate-dependent acyltransferase, putative. This model represents an enzyme subfamily related to three known enzymes; it appears closest to glycine C-acteyltransferase, shows no overlap with it in species distribution, and may share that function. The three closely related enzymes are glycine C-acetyltransferase (2-amino-3-ketobutyrate coenzyme A ligase), 5-aminolevulinic acid synthase, and 8-amino-7-oxononanoate synthase. All transfer the R-group (acetyl, succinyl, or 6-carboxyhexanoyl) from coenzyme A to an amino acid (Gly, Gly, Ala, respectively), with release of CO2 for the latter two reactions.
Probab=23.20 E-value=1.2e+02 Score=21.50 Aligned_cols=30 Identities=27% Similarity=0.233 Sum_probs=24.0
Q ss_pred cchhhhhcHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 13 NYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 13 NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
|.+|.++.+.--.+.|++.| ..++-|++-.
T Consensus 174 ~~tG~~~~~~~i~~l~~~~~----~~li~De~~~ 203 (385)
T TIGR01825 174 SMDGDVAPLPEIVELAERYG----AVTYVDDAHG 203 (385)
T ss_pred cCCCCccCHHHHHHHHHHhC----CEEEEECccc
Confidence 78899999888888898877 5666788864
No 128
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.98 E-value=2.3e+02 Score=21.03 Aligned_cols=41 Identities=5% Similarity=0.036 Sum_probs=34.4
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-.+....|++-||+++.+-...|++..
T Consensus 36 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 76 (285)
T PRK14189 36 AVILVGDNPASQVYVRNKVKACEDNGFHSLKDRYPADLSEA 76 (285)
T ss_pred EEEEeCCCchHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 45667888888988899999999999999999988877654
No 129
>PRK08905 lipid A biosynthesis lauroyl acyltransferase; Validated
Probab=22.85 E-value=1.5e+02 Score=21.06 Aligned_cols=32 Identities=13% Similarity=0.371 Sum_probs=20.4
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
+.++|++++.. |-| |++++.-.+... .++-.|
T Consensus 98 ~~gkgvIllt~-H~G---nwE~~~~~~~~~-~~~~~v 129 (289)
T PRK08905 98 AEGRGILFLTP-HLG---CFEVTARYIAQR-FPLTAM 129 (289)
T ss_pred hcCCCEEEEec-ccc---hHHHHHHHHHhc-CCceEE
Confidence 46899998866 657 888865444333 555443
No 130
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.84 E-value=2.3e+02 Score=21.18 Aligned_cols=41 Identities=10% Similarity=0.117 Sum_probs=34.6
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...|++..
T Consensus 36 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~e~ 76 (294)
T PRK14187 36 IVILVGDDPASQLYVRNKQRKAEMLGLRSETILLPSTISES 76 (294)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888889988889999999999999999988777643
No 131
>PRK14184 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.77 E-value=2.3e+02 Score=21.05 Aligned_cols=41 Identities=7% Similarity=0.072 Sum_probs=34.3
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-..-...|++-||+++.+....|++.+
T Consensus 35 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 75 (286)
T PRK14184 35 AVILVGEDPASQVYVRNKERACEDAGIVSEAFRLPADTTQE 75 (286)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888888888888899999999999999888777654
No 132
>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase. Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=22.72 E-value=1.3e+02 Score=18.89 Aligned_cols=35 Identities=11% Similarity=0.284 Sum_probs=26.8
Q ss_pred ccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 12 ANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 12 ~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
+|..+ .+-...-+...+..|.+|..+...||.-..
T Consensus 15 Gh~~~-~~~~d~~~r~lr~~G~~v~~~~~~dd~~~~ 49 (143)
T cd00802 15 GHLRT-IVTFDFLAQAYRKLGYKVRCIALIDDAGGL 49 (143)
T ss_pred hHHHH-HHHHHHHHHHHHHcCCCeEEEeeeCCCchH
Confidence 66654 555566677778899999999999998754
No 133
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.71 E-value=2.4e+02 Score=20.94 Aligned_cols=41 Identities=15% Similarity=0.169 Sum_probs=34.2
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|=..+...-......|++-||+++.+-..++++..
T Consensus 36 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~~~~ 76 (284)
T PRK14179 36 VVILVGDNPASQVYVRNKERSALAAGFKSEVVRLPETISQE 76 (284)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 45667888888888888899999999999999998887654
No 134
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=22.52 E-value=1.8e+02 Score=19.89 Aligned_cols=29 Identities=21% Similarity=0.349 Sum_probs=20.9
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+++|+ |||- .|.-.++++++.|.+|..+=
T Consensus 108 ~~vLv---SgD~-DF~~Lv~~lre~G~~V~v~g 136 (160)
T TIGR00288 108 AVALV---TRDA-DFLPVINKAKENGKETIVIG 136 (160)
T ss_pred EEEEE---eccH-hHHHHHHHHHHCCCEEEEEe
Confidence 44554 4777 78888999998887776543
No 135
>cd02960 AGR Anterior Gradient (AGR) family; members of this family are similar to secreted proteins encoded by the cement gland-specific genes XAG-1 and XAG-2, expressed in the anterior region of dorsal ectoderm of Xenopus. They are implicated in the formation of the cement gland and the induction of forebrain fate. The human homologs, hAG-2 and hAG-3, are secreted proteins associated with estrogen-positive breast tumors. Yeast two-hybrid studies identified the metastasis-associated C4.4a protein and dystroglycan as binding partners, indicating possible roles in the development and progression of breast cancer. hAG-2 has also been implicated in prostate cancer. Its gene was cloned as an androgen-inducible gene and it was shown to be overexpressed in prostate cancer cells at the mRNA and protein levels. AGR proteins contain one conserved cysteine corresponding to the first cysteine in the CXXC motif of TRX. They show high sequence similarity to ERp19.
Probab=22.45 E-value=1.5e+02 Score=19.44 Aligned_cols=27 Identities=19% Similarity=0.286 Sum_probs=21.6
Q ss_pred cHHHHHHHHHhcCCcEEEEEecccccc
Q psy15923 20 NFGIACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 20 nF~~A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
.|+-|.+.|++++-+|-..+-+|.|..
T Consensus 11 ~~eeal~~Ak~~~Kpvmv~f~sdwC~~ 37 (130)
T cd02960 11 TYEEGLYKAKKSNKPLMVIHHLEDCPH 37 (130)
T ss_pred hHHHHHHHHHHCCCeEEEEEeCCcCHh
Confidence 467788888889988888888888763
No 136
>PRK08007 para-aminobenzoate synthase component II; Provisional
Probab=22.45 E-value=1.9e+02 Score=19.35 Aligned_cols=30 Identities=17% Similarity=0.317 Sum_probs=22.2
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEe
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTV 40 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v 40 (68)
+++|-|| |-..+.+... +++.|.++..+-.
T Consensus 2 il~idn~--Dsft~nl~~~-l~~~g~~v~v~~~ 31 (187)
T PRK08007 2 ILLIDNY--DSFTWNLYQY-FCELGADVLVKRN 31 (187)
T ss_pred EEEEECC--CccHHHHHHH-HHHCCCcEEEEeC
Confidence 5778999 8888977555 5667888877654
No 137
>TIGR00566 trpG_papA glutamine amidotransferase of anthranilate synthase or aminodeoxychorismate synthase. This model describes the glutamine amidotransferase domain or peptide of the tryptophan-biosynthetic pathway enzyme anthranilate synthase or of the folate biosynthetic pathway enzyme para-aminobenzoate synthase. In at least one case, a single polypeptide from Bacillus subtilis was shown to have both functions. This model covers a subset of the sequences described by the pfam model GATase.
Probab=22.22 E-value=1.9e+02 Score=19.28 Aligned_cols=29 Identities=17% Similarity=0.402 Sum_probs=20.4
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
++||-|| |-..+.++....+ .|..+..+.
T Consensus 2 il~id~~--dsft~~~~~~l~~-~g~~v~v~~ 30 (188)
T TIGR00566 2 VLMIDNY--DSFTYNLVQYFCE-LGAEVVVKR 30 (188)
T ss_pred EEEEECC--cCHHHHHHHHHHH-cCCceEEEE
Confidence 5777888 8888887666554 587775333
No 138
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=22.12 E-value=2.5e+02 Score=20.84 Aligned_cols=41 Identities=7% Similarity=0.003 Sum_probs=33.9
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...+++.+
T Consensus 36 aii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~ 76 (284)
T PRK14190 36 AVILVGDDPASHSYVRGKKKAAEKVGIYSELYEFPADITEE 76 (284)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 35667888888888888899999999999999988887654
No 139
>PRK08734 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=22.00 E-value=1.4e+02 Score=21.44 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=20.6
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
..++||+++.. |-| ||+++.-.+... .++..
T Consensus 110 ~~gkgvI~lt~-H~G---nwE~~~~~~~~~-~~~~~ 140 (305)
T PRK08734 110 ASGRGVIVAAP-HFG---NWELLNQWLSER-GPIAI 140 (305)
T ss_pred HcCCCEEEEcc-ccc---hHHHHHHHHHcc-CCceE
Confidence 36889998866 667 888877555543 45433
No 140
>PRK09732 hypothetical protein; Provisional
Probab=21.97 E-value=1.1e+02 Score=20.14 Aligned_cols=19 Identities=5% Similarity=0.253 Sum_probs=14.6
Q ss_pred HHHHHHhcCCcEEEEEecc
Q psy15923 24 ACEKVKAQGHAIEMVTVGE 42 (68)
Q Consensus 24 A~e~a~~~Gi~v~~v~v~D 42 (68)
|.+.|++.|+++-..+|+.
T Consensus 19 A~~~A~~~g~~v~iaVvD~ 37 (134)
T PRK09732 19 GQEEAQKNNWSVSIAVADD 37 (134)
T ss_pred HHHHHHHhCCCEEEEEEcC
Confidence 5567777899998888764
No 141
>PRK14181 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.91 E-value=2.5e+02 Score=20.90 Aligned_cols=41 Identities=17% Similarity=0.269 Sum_probs=34.7
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-.+....|++-||+++.+-...+++.+
T Consensus 30 aiI~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~t~~ 70 (287)
T PRK14181 30 AVVLIGNDPASEVYVGMKVKKATDLGMVSKAHRLPSDATLS 70 (287)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888889989999999999999999999988887643
No 142
>PF00193 Xlink: Extracellular link domain; InterPro: IPR000538 The link domain [] is a hyaluronan(HA)-binding region found in proteins of vertebrates that are involved in the assembly of extracellular matrix, cell adhesion, and migration. The structure has been shown [] to consist of two alpha helices and two antiparallel beta sheets arranged around a large hydrophobic core similar to that of C-type lectin. This domain contains four conserved cysteines involved in two disulphide bonds. The link domain has also been termed HABM [] (HA binding module) and PTR [] (proteoglycan tandem repeat). Proteins with such a domain include the proteoglycans aggrecan, brevican, neurocan and versican, which are expressed in the CNS; the cartilage link protein (LP), a proteoglycan that together with HA and aggrecan forms multimolecular aggregates; Tumour necrosis factor-inducible protein TSG-6, which may be involved in cell-cell and cell-matrix interactions during inflammation and tumourgenesis; and CD44 antigen, the main cell surface receptor for HA.; GO: 0005540 hyaluronic acid binding, 0007155 cell adhesion; PDB: 1O7B_T 2PF5_C 1O7C_T 2JCQ_A 2JCR_A 2JCP_A 1UUH_B 1POZ_A 2I83_A.
Probab=21.64 E-value=1.2e+02 Score=18.76 Aligned_cols=18 Identities=28% Similarity=0.350 Sum_probs=14.4
Q ss_pred hhcHHHHHHHHHhcCCcE
Q psy15923 18 VLNFGIACEKVKAQGHAI 35 (68)
Q Consensus 18 vlnF~~A~e~a~~~Gi~v 35 (68)
.|||..|.+.+++.|-.+
T Consensus 13 ~l~f~eA~~~C~~~ga~L 30 (92)
T PF00193_consen 13 KLTFTEAQQACRALGARL 30 (92)
T ss_dssp SB-HHHHHHHHHHTTCBE
T ss_pred cCcHHHHHHHHHHcCCee
Confidence 799999999999988544
No 143
>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=21.53 E-value=1.9e+02 Score=17.19 Aligned_cols=37 Identities=19% Similarity=0.231 Sum_probs=24.4
Q ss_pred CeEEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccc
Q psy15923 5 NGVLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 5 ~GVL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DD 43 (68)
++-++|+--|+|.--+---+++.|++.|.+ .|.+++.
T Consensus 46 ~~d~~I~iS~sG~t~e~~~~~~~a~~~g~~--vi~iT~~ 82 (126)
T cd05008 46 EDTLVIAISQSGETADTLAALRLAKEKGAK--TVAITNV 82 (126)
T ss_pred CCcEEEEEeCCcCCHHHHHHHHHHHHcCCe--EEEEECC
Confidence 444555566888765555688999998865 4445554
No 144
>COG3193 GlcG Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]
Probab=21.42 E-value=1.2e+02 Score=20.58 Aligned_cols=20 Identities=15% Similarity=0.278 Sum_probs=15.3
Q ss_pred HHHHHHhcCCcEEEEEeccc
Q psy15923 24 ACEKVKAQGHAIEMVTVGED 43 (68)
Q Consensus 24 A~e~a~~~Gi~v~~v~v~DD 43 (68)
|.+.|++.|++|..-+|++.
T Consensus 20 A~a~a~~~g~~VtvaVVD~~ 39 (141)
T COG3193 20 AVAEAQQLGVPVTVAVVDAG 39 (141)
T ss_pred HHHHHHHhCCceEEEEECCC
Confidence 45667778999998888764
No 145
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.11 E-value=2.6e+02 Score=20.73 Aligned_cols=41 Identities=10% Similarity=0.079 Sum_probs=33.5
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...+++.+
T Consensus 36 a~i~vg~~~~s~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~ 76 (296)
T PRK14188 36 AVVLVGEDPASQVYVRSKGKQTKEAGMASFEHKLPADTSQA 76 (296)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888888888888999999999999998877776643
No 146
>cd06575 PASTA_Pbp2x-like_2 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by acylating the active site serine. PBPs catalyze key steps in the synthesis of the peptidoglycan, such as the interconnecting of glycan chains (polymers of N-glucosamine and N-acetylmuramic acid residues) and the cross-linking (transpeptidation) of short stem peptides, which are attached to glycan chains. Peptidoglycan is essential in cell division and protects bacteria from osmotic shock and lysis. PBP2x is one of the two monofunctional high molecular mass PBPs in Streptococcus pneumoniae and has been seen as the primary PBP target in beta-lactam-resistant strains. The PASTA domain is found at the C-termini of several PBPs and bacterial serine/threonine kinases. The name PASTA is derived from PBP and Serine/Threonine
Probab=21.01 E-value=1.3e+02 Score=14.88 Aligned_cols=26 Identities=15% Similarity=0.202 Sum_probs=19.4
Q ss_pred EccchhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 11 IANYTGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 11 v~NYtGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
+.||.| ++..-|.+.+++.|+.+...
T Consensus 2 vp~~~g--~~~~~a~~~l~~~g~~~~~~ 27 (54)
T cd06575 2 MPDLTG--WSKRDALKLLELLGLKVKFS 27 (54)
T ss_pred CCCcCC--CCHHHHHHHHHHCCCeEEEe
Confidence 356777 67788888898889887554
No 147
>PF00462 Glutaredoxin: Glutaredoxin; InterPro: IPR002109 Glutaredoxins [, , ], also known as thioltransferases (disulphide reductases, are small proteins of approximately one hundred amino-acid residues which utilise glutathione and NADPH as cofactors. Oxidized glutathione is regenerated by glutathione reductase. Together these components compose the glutathione system []. Glutaredoxin functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase. Like thioredoxin, which functions in a similar way, glutaredoxin possesses an active centre disulphide bond []. It exists in either a reduced or an oxidized form where the two cysteine residues are linked in an intramolecular disulphide bond. Glutaredoxin has been sequenced in a variety of species. On the basis of extensive sequence similarity, it has been proposed [] that Vaccinia virus protein O2L is most probably a glutaredoxin. Finally, it must be noted that Bacteriophage T4 thioredoxin seems also to be evolutionary related. In position 5 of the pattern T4 thioredoxin has Val instead of Pro. This entry represents Glutaredoxin.; GO: 0009055 electron carrier activity, 0015035 protein disulfide oxidoreductase activity, 0045454 cell redox homeostasis; PDB: 1QFN_A 1GRX_A 1EGO_A 1EGR_A 3RHC_A 3RHB_A 3IPZ_A 1NHO_A 3GX8_A 3D5J_A ....
Probab=20.90 E-value=1.5e+02 Score=15.64 Aligned_cols=23 Identities=35% Similarity=0.267 Sum_probs=18.6
Q ss_pred HHHHHHHHhcCCcEEEEEecccc
Q psy15923 22 GIACEKVKAQGHAIEMVTVGEDC 44 (68)
Q Consensus 22 ~~A~e~a~~~Gi~v~~v~v~DDv 44 (68)
..|.+.+++.|++.+.+=+.+|=
T Consensus 13 ~~~~~~L~~~~i~y~~~dv~~~~ 35 (60)
T PF00462_consen 13 KKAKEFLDEKGIPYEEVDVDEDE 35 (60)
T ss_dssp HHHHHHHHHTTBEEEEEEGGGSH
T ss_pred HHHHHHHHHcCCeeeEcccccch
Confidence 35778888899999999888873
No 148
>PRK13493 chemoreceptor glutamine deamidase CheD; Provisional
Probab=20.85 E-value=91 Score=22.29 Aligned_cols=22 Identities=18% Similarity=0.205 Sum_probs=18.4
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|.+ |...|.+.++++||++..
T Consensus 136 IG~r-Ni~~a~~~L~~~gI~Iva 157 (213)
T PRK13493 136 VGEK-NVEFVLEYAKREKLNVVA 157 (213)
T ss_pred HhHH-HHHHHHHHHHHcCCcEEE
Confidence 4766 999999999999998654
No 149
>COG0821 gcpE 1-hydroxy-2-methyl-2-(e)-butenyl 4-diphosphate synthase [Lipid metabolism]
Probab=20.77 E-value=1.1e+02 Score=23.91 Aligned_cols=27 Identities=22% Similarity=0.160 Sum_probs=21.6
Q ss_pred ccchhhhhcHHHHHHHHHhcCCcEEEEE
Q psy15923 12 ANYTGDVLNFGIACEKVKAQGHAIEMVT 39 (68)
Q Consensus 12 ~NYtGDvlnF~~A~e~a~~~Gi~v~~v~ 39 (68)
+|| |..-+|..-.|.|++.|+++++=+
T Consensus 104 GNi-g~~~~v~~vVe~Ak~~g~piRIGV 130 (361)
T COG0821 104 GNI-GFKDRVREVVEAAKDKGIPIRIGV 130 (361)
T ss_pred ccc-CcHHHHHHHHHHHHHcCCCEEEec
Confidence 466 555589999999999999998643
No 150
>PRK13487 chemoreceptor glutamine deamidase CheD; Provisional
Probab=20.75 E-value=93 Score=22.03 Aligned_cols=23 Identities=13% Similarity=0.143 Sum_probs=18.7
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEMV 38 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~v 38 (68)
-|++ |...|.+.++++||++..-
T Consensus 124 IG~r-Ni~~a~~~L~~~gI~iva~ 146 (201)
T PRK13487 124 VGER-NAEFVRDYLQTERIPIVAE 146 (201)
T ss_pred chHH-HHHHHHHHHHHcCCcEEEE
Confidence 4766 9999999999999986543
No 151
>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised. This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.
Probab=20.60 E-value=1.3e+02 Score=17.15 Aligned_cols=23 Identities=13% Similarity=0.267 Sum_probs=16.3
Q ss_pred HHHHHHhcCCcEEEEEecccccc
Q psy15923 24 ACEKVKAQGHAIEMVTVGEDCAL 46 (68)
Q Consensus 24 A~e~a~~~Gi~v~~v~v~DDva~ 46 (68)
|.+.+++.|++++.+-+-..+++
T Consensus 17 ~ek~lk~~gi~~~liP~P~~i~~ 39 (73)
T PF11823_consen 17 AEKLLKKNGIPVRLIPTPREISA 39 (73)
T ss_pred HHHHHHHCCCcEEEeCCChhccC
Confidence 34567788999999876555543
No 152
>TIGR02610 PHA_gran_rgn putative polyhydroxyalkanoic acid system protein. All members of this family are encoded by genes polyhydroxyalkanoic acid (PHA) biosynthesis and utilization genes, including proteins at found at the surface of PHA granules. Examples so far are found in the Pseudomonales, Xanthomonadales, and Vibrionales, all of which belong to the Gammaproteobacteria.
Probab=20.53 E-value=19 Score=22.46 Aligned_cols=11 Identities=27% Similarity=0.709 Sum_probs=9.1
Q ss_pred ccchhhhhcHH
Q psy15923 12 ANYTGDVLNFG 22 (68)
Q Consensus 12 ~NYtGDvlnF~ 22 (68)
..|+||+|+|.
T Consensus 36 ~~W~GD~l~F~ 46 (91)
T TIGR02610 36 SHWEGDTLRIA 46 (91)
T ss_pred eEEeCCEEEEE
Confidence 46889999995
No 153
>PRK06860 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=20.46 E-value=1.8e+02 Score=20.91 Aligned_cols=27 Identities=11% Similarity=0.127 Sum_probs=19.1
Q ss_pred CCCCeEEEEEccchhhhhcHHHHHHHHHhcC
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGIACEKVKAQG 32 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~A~e~a~~~G 32 (68)
.+++|++++.. |-| |+++....+...+
T Consensus 123 ~~gkgvI~lt~-H~G---nwE~~~~~~~~~~ 149 (309)
T PRK06860 123 AQGRGVLLVGV-HFL---TLELGARIFGMHN 149 (309)
T ss_pred hCCCCEEEEec-chh---HHHHHHHHHHccC
Confidence 46899998877 657 8888665554444
No 154
>PRK14182 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.29 E-value=2.9e+02 Score=20.56 Aligned_cols=41 Identities=2% Similarity=-0.042 Sum_probs=33.9
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-......|++-||+++.+-...+++.+
T Consensus 34 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~t~~ 74 (282)
T PRK14182 34 TVVRVGDDPASAIYVRGKRKDCEEVGITSVEHHLPATTTQA 74 (282)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 46677888888888888899999999999999887777643
No 155
>PHA02097 hypothetical protein
Probab=20.27 E-value=40 Score=19.85 Aligned_cols=21 Identities=38% Similarity=0.469 Sum_probs=16.2
Q ss_pred CCCCeEEEEEccchhhhhcHHH
Q psy15923 2 DNQNGVLMIIANYTGDVLNFGI 23 (68)
Q Consensus 2 ~~~~GVL~iv~NYtGDvlnF~~ 23 (68)
+.+.|||.= -|||=|+-||.|
T Consensus 17 ntp~gv~ir-i~~tf~~~~f~~ 37 (59)
T PHA02097 17 NTPGGVIIR-IAHTFDVSNFKI 37 (59)
T ss_pred eCCCcEEEE-EEeEEeeccceE
Confidence 567788766 569999999975
No 156
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.26 E-value=2.8e+02 Score=20.72 Aligned_cols=41 Identities=5% Similarity=0.130 Sum_probs=34.1
Q ss_pred EEEEEccchhhhhcHHHHHHHHHhcCCcEEEEEeccccccc
Q psy15923 7 VLMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVGEDCALL 47 (68)
Q Consensus 7 VL~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~DDva~~ 47 (68)
++++++|-..+...-..-...|++-||+++.+-...+++.+
T Consensus 36 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~~~~ 76 (288)
T PRK14171 36 AIVLVGDNPASIIYVKNKIKNAHKIGIDTLLVNLSTTIHTN 76 (288)
T ss_pred EEEEeCCCccHHHHHHHHHHHHHHcCCEEEEEECCCCCCHH
Confidence 45677888888988888899999999999999887777644
No 157
>cd01102 Link_Domain The link domain is a hyaluronan (HA)-binding domain. It functions to mediate adhesive interactions during inflammatory leukocyte homing and tumor metastasis. It is found in the CD44 receptor and in human TSG-6. TSG-6 is the protein product of the tumor necrosis factor-stimulated gene-6. TSG-6 has a strong anti-inflammatory effect in models of acute inflammation and autoimmune arthritis and plays an essential role in female fertility. This group also contains the link domains of the chondroitin sulfate proteoglycan core proteins (CSPG) including aggrecan, versican, neurocan, and brevican and the link domains of the vertebrate HAPLN (HA and proteoglycan binding link) protein family. In cartilage, aggrecan forms cartilage link protein stabilized aggregates with HA. These aggregates contribute to the tissue's load bearing properties. Aggregates in which other CSPGs substitute for aggregan might contribute to the structural integrity of many different tissues. Members of
Probab=20.20 E-value=78 Score=19.91 Aligned_cols=17 Identities=35% Similarity=0.382 Sum_probs=14.9
Q ss_pred hhcHHHHHHHHHhcCCc
Q psy15923 18 VLNFGIACEKVKAQGHA 34 (68)
Q Consensus 18 vlnF~~A~e~a~~~Gi~ 34 (68)
.|||.-|.+.++++|-.
T Consensus 13 ~l~f~eA~~aC~~~ga~ 29 (92)
T cd01102 13 KLTFAEAALACKARGAH 29 (92)
T ss_pred ccCHHHHHHHHHHcCCE
Confidence 79999999999998853
No 158
>PRK13497 chemoreceptor glutamine deamidase CheD; Provisional
Probab=20.13 E-value=98 Score=21.60 Aligned_cols=22 Identities=18% Similarity=0.289 Sum_probs=18.1
Q ss_pred hhhhhcHHHHHHHHHhcCCcEEE
Q psy15923 15 TGDVLNFGIACEKVKAQGHAIEM 37 (68)
Q Consensus 15 tGDvlnF~~A~e~a~~~Gi~v~~ 37 (68)
-|.+ |...|.+.++++||++..
T Consensus 109 IG~r-Ni~~a~~~L~~~gI~i~a 130 (184)
T PRK13497 109 VGEQ-NAAFAMQFLRDEGIPVVG 130 (184)
T ss_pred HHHH-HHHHHHHHHHHcCCcEEE
Confidence 3666 899999999999988654
No 159
>PRK07649 para-aminobenzoate/anthranilate synthase glutamine amidotransferase component II; Validated
Probab=20.11 E-value=1.8e+02 Score=19.72 Aligned_cols=31 Identities=19% Similarity=0.420 Sum_probs=22.8
Q ss_pred EEEEccchhhhhcHHHHHHHHHhcCCcEEEEEec
Q psy15923 8 LMIIANYTGDVLNFGIACEKVKAQGHAIEMVTVG 41 (68)
Q Consensus 8 L~iv~NYtGDvlnF~~A~e~a~~~Gi~v~~v~v~ 41 (68)
++||-|| |-....+... +++.|+++.++...
T Consensus 2 il~idn~--dsft~nl~~~-l~~~g~~v~v~~~~ 32 (195)
T PRK07649 2 ILMIDNY--DSFTFNLVQF-LGELGQELVVKRND 32 (195)
T ss_pred EEEEeCC--CccHHHHHHH-HHHCCCcEEEEeCC
Confidence 5788999 8888876544 55668888777743
No 160
>PRK15473 cbiF cobalt-precorrin-4 C(11)-methyltransferase; Provisional
Probab=20.05 E-value=2e+02 Score=20.24 Aligned_cols=32 Identities=28% Similarity=0.397 Sum_probs=22.8
Q ss_pred CCeEEEEEccchhhhhcHHHHHHHHH---hcCCcEEEE
Q psy15923 4 QNGVLMIIANYTGDVLNFGIACEKVK---AQGHAIEMV 38 (68)
Q Consensus 4 ~~GVL~iv~NYtGDvlnF~~A~e~a~---~~Gi~v~~v 38 (68)
++-|.++. +||-+=|+.+.++++ ++|++++++
T Consensus 80 g~~Vv~L~---sGDP~~yg~~~~l~~~l~~~~i~veii 114 (257)
T PRK15473 80 GKTVVRLQ---TGDVSLYGSIREQGEELTKRGIDFQVV 114 (257)
T ss_pred CCeEEEEe---CcCchhhhhHHHHHHHHHHCCCCEEEe
Confidence 33466664 799999998887766 457777665
Done!