Query psy6439
Match_columns 114
No_of_seqs 101 out of 522
Neff 5.8
Searched_HMMs 46136
Date Fri Aug 16 17:56:30 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6439.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6439hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR01101 V_ATP_synt_F vacuola 100.0 3E-35 6.4E-40 207.3 11.8 109 6-114 2-110 (115)
2 KOG3432|consensus 100.0 4.2E-33 9E-38 194.5 9.0 112 3-114 1-112 (121)
3 PRK01395 V-type ATP synthase s 99.9 2.4E-27 5.3E-32 164.2 9.4 93 9-114 3-96 (104)
4 PRK03957 V-type ATP synthase s 99.9 4.3E-27 9.4E-32 161.6 9.4 91 10-114 1-91 (100)
5 PF01990 ATP-synt_F: ATP synth 99.9 3.6E-26 7.9E-31 154.6 7.6 92 12-114 1-94 (95)
6 PRK01189 V-type ATP synthase s 99.9 1.4E-25 3.1E-30 155.4 8.6 90 10-114 3-94 (104)
7 PRK02228 V-type ATP synthase s 99.9 6.1E-25 1.3E-29 150.9 9.3 89 10-114 1-91 (100)
8 COG1436 NtpG Archaeal/vacuolar 99.9 2.7E-22 5.9E-27 139.2 7.5 94 9-113 2-98 (104)
9 COG4075 Uncharacterized conser 94.0 0.12 2.7E-06 35.9 4.5 74 21-98 28-103 (110)
10 PF10126 Nit_Regul_Hom: Unchar 88.9 1.1 2.3E-05 31.6 4.7 72 21-98 28-103 (110)
11 CHL00129 rpl1 ribosomal protei 81.2 7.8 0.00017 30.2 6.8 64 4-85 66-129 (229)
12 TIGR01169 rplA_bact ribosomal 80.5 7.8 0.00017 30.1 6.5 64 4-85 65-128 (227)
13 PLN00124 succinyl-CoA ligase [ 77.0 16 0.00034 31.0 7.8 62 38-99 319-388 (422)
14 PRK05424 rplA 50S ribosomal pr 74.8 14 0.0003 28.7 6.5 64 4-85 66-129 (230)
15 PF00549 Ligase_CoA: CoA-ligas 73.1 9 0.0002 28.1 4.8 51 49-99 58-119 (153)
16 TIGR01170 rplA_mito ribosomal 71.6 29 0.00063 25.1 7.1 64 4-85 47-112 (141)
17 PTZ00029 60S ribosomal protein 67.2 24 0.00053 27.0 6.3 73 4-93 56-137 (216)
18 cd02067 B12-binding B12 bindin 65.6 29 0.00062 23.2 5.8 66 21-99 20-90 (119)
19 PRK06555 pyrophosphate--fructo 65.6 19 0.00042 30.4 5.8 28 47-74 242-269 (403)
20 COG0045 SucC Succinyl-CoA synt 65.5 46 0.001 28.2 8.0 84 10-99 256-352 (387)
21 PRK08366 vorA 2-ketoisovalerat 63.0 27 0.00058 29.2 6.2 52 11-71 3-54 (390)
22 cd01575 PBP1_GntR Ligand-bindi 62.7 40 0.00087 24.5 6.5 83 8-90 115-204 (268)
23 PF07085 DRTGG: DRTGG domain; 62.4 20 0.00042 23.7 4.4 57 11-79 42-100 (105)
24 PRK04203 rpl1P 50S ribosomal p 62.2 55 0.0012 25.0 7.4 66 4-85 53-124 (215)
25 PF13458 Peripla_BP_6: Peripla 61.4 37 0.00081 25.9 6.4 52 40-93 45-98 (343)
26 cd06340 PBP1_ABC_ligand_bindin 60.0 74 0.0016 24.8 8.0 72 18-95 17-101 (347)
27 PF06506 PrpR_N: Propionate ca 54.9 9.5 0.00021 27.8 2.0 59 9-78 77-139 (176)
28 TIGR03336 IOR_alpha indolepyru 53.8 40 0.00086 29.4 5.9 54 11-73 2-55 (595)
29 PF09612 HtrL_YibB: Bacterial 53.3 57 0.0012 26.3 6.3 52 48-99 25-78 (271)
30 cd06366 PBP1_GABAb_receptor Li 53.1 1E+02 0.0023 23.8 8.1 54 40-95 42-97 (350)
31 COG0081 RplA Ribosomal protein 52.1 55 0.0012 25.8 5.9 64 4-84 67-130 (228)
32 PF00070 Pyr_redox: Pyridine n 52.0 51 0.0011 20.3 4.9 55 11-69 1-59 (80)
33 TIGR00706 SppA_dom signal pept 51.3 72 0.0016 23.8 6.3 52 48-99 14-72 (207)
34 PRK08367 porA pyruvate ferredo 51.3 47 0.001 27.7 5.8 83 10-101 3-112 (394)
35 PRK09622 porA pyruvate flavodo 49.6 38 0.00081 28.3 4.9 52 10-70 9-60 (407)
36 PRK00696 sucC succinyl-CoA syn 47.4 1.3E+02 0.0029 24.5 7.8 82 10-97 257-351 (388)
37 PLN03194 putative disease resi 46.8 34 0.00074 26.1 3.9 36 50-85 68-105 (187)
38 cd00403 Ribosomal_L1 Ribosomal 46.6 85 0.0018 23.2 6.1 74 4-92 47-126 (208)
39 cd02071 MM_CoA_mut_B12_BD meth 46.3 55 0.0012 22.3 4.7 56 20-88 19-77 (122)
40 TIGR03710 OAFO_sf 2-oxoacid:ac 46.3 82 0.0018 27.4 6.7 85 8-101 190-299 (562)
41 PTZ00225 60S ribosomal protein 46.2 77 0.0017 24.4 5.9 62 4-82 54-121 (214)
42 cd06332 PBP1_aromatic_compound 44.1 81 0.0017 23.9 5.7 54 40-95 41-96 (333)
43 TIGR01016 sucCoAbeta succinyl- 43.6 1.3E+02 0.0028 24.6 7.1 82 10-97 257-351 (386)
44 PRK09627 oorA 2-oxoglutarate-a 43.5 73 0.0016 26.4 5.7 54 11-73 3-56 (375)
45 PF04723 GRDA: Glycine reducta 42.9 39 0.00084 25.0 3.5 35 8-43 4-44 (150)
46 cd06286 PBP1_CcpB_like Ligand- 42.8 1.2E+02 0.0027 21.9 6.4 88 8-95 113-210 (260)
47 PRK15424 propionate catabolism 42.7 1.5E+02 0.0032 26.0 7.7 84 13-113 158-262 (538)
48 PF02844 GARS_N: Phosphoribosy 42.7 90 0.0019 21.3 5.2 69 10-84 1-84 (100)
49 cd06334 PBP1_ABC_ligand_bindin 42.2 1.7E+02 0.0037 23.1 7.9 72 18-95 17-97 (351)
50 PF13177 DNA_pol3_delta2: DNA 41.3 84 0.0018 22.4 5.2 36 50-85 116-153 (162)
51 PF05116 S6PP: Sucrose-6F-phos 41.3 76 0.0017 24.3 5.2 41 50-90 18-61 (247)
52 cd06294 PBP1_ycjW_transcriptio 41.0 1.4E+02 0.003 21.7 6.4 80 8-87 121-207 (270)
53 PRK06849 hypothetical protein; 40.8 1.5E+02 0.0033 23.9 7.1 67 7-73 2-85 (389)
54 PF13382 Adenine_deam_C: Adeni 40.3 57 0.0012 24.3 4.2 47 24-73 52-98 (171)
55 cd01841 NnaC_like NnaC (CMP-Ne 40.0 1.2E+02 0.0027 20.9 6.0 19 10-29 1-19 (174)
56 cd01833 XynB_like SGNH_hydrola 39.9 64 0.0014 22.0 4.2 38 50-87 26-75 (157)
57 cd06337 PBP1_ABC_ligand_bindin 39.6 1.1E+02 0.0024 24.1 6.0 53 40-94 45-99 (357)
58 PRK11041 DNA-binding transcrip 39.6 1E+02 0.0022 23.1 5.7 83 8-90 151-240 (309)
59 TIGR01481 ccpA catabolite cont 39.4 1.1E+02 0.0023 23.4 5.8 49 48-96 221-272 (329)
60 PF08747 DUF1788: Domain of un 39.2 1.2E+02 0.0027 21.3 5.6 51 50-100 47-104 (126)
61 cd06288 PBP1_sucrose_transcrip 39.2 1.2E+02 0.0026 22.0 5.8 79 8-86 115-200 (269)
62 cd07019 S49_SppA_1 Signal pept 39.2 1.3E+02 0.0028 22.4 6.1 51 48-98 22-80 (211)
63 cd06304 PBP1_BmpA_like Peripla 38.9 1.5E+02 0.0033 21.8 6.4 45 48-93 41-85 (260)
64 cd07014 S49_SppA Signal peptid 38.5 1.4E+02 0.0031 21.4 6.1 51 48-98 23-81 (177)
65 PRK14046 malate--CoA ligase su 38.3 1.7E+02 0.0036 24.3 7.1 59 39-97 285-351 (392)
66 cd06348 PBP1_ABC_ligand_bindin 38.2 1.6E+02 0.0036 22.6 6.7 73 18-96 17-99 (344)
67 TIGR01769 GGGP geranylgeranylg 38.1 1.1E+02 0.0023 23.4 5.5 64 42-108 4-72 (205)
68 PF07905 PucR: Purine cataboli 37.8 41 0.00089 23.1 2.9 48 49-97 58-107 (123)
69 cd06330 PBP1_Arsenic_SBP_like 37.8 1.7E+02 0.0037 22.5 6.8 56 40-97 43-100 (346)
70 PRK08659 2-oxoglutarate ferred 37.8 1.4E+02 0.003 24.7 6.5 51 10-71 3-53 (376)
71 PRK07119 2-ketoisovalerate fer 37.6 64 0.0014 26.4 4.5 49 11-70 4-52 (352)
72 PRK13265 glycine/sarcosine/bet 37.4 68 0.0015 23.7 4.1 35 8-43 5-45 (154)
73 cd06335 PBP1_ABC_ligand_bindin 37.1 1.6E+02 0.0034 23.0 6.5 56 40-97 43-100 (347)
74 PRK12702 mannosyl-3-phosphogly 36.9 86 0.0019 25.7 5.0 44 50-94 21-64 (302)
75 cd01829 SGNH_hydrolase_peri2 S 36.6 1.5E+02 0.0033 20.9 7.0 11 11-21 1-11 (200)
76 cd07022 S49_Sppa_36K_type Sign 36.3 1.6E+02 0.0034 22.0 6.2 51 48-98 26-83 (214)
77 cd06359 PBP1_Nba_like Type I p 36.1 1.3E+02 0.0027 23.2 5.8 53 40-94 41-95 (333)
78 PF08937 DUF1863: MTH538 TIR-l 35.4 60 0.0013 22.2 3.5 51 50-100 58-112 (130)
79 COG1478 GTP and metal dependen 35.3 60 0.0013 26.0 3.8 44 27-73 108-154 (257)
80 COG1609 PurR Transcriptional r 35.1 1.7E+02 0.0038 23.2 6.6 82 9-90 175-264 (333)
81 cd06328 PBP1_SBP_like_2 Peripl 35.0 1.6E+02 0.0036 22.7 6.3 54 40-95 44-99 (333)
82 cd06274 PBP1_FruR Ligand bindi 34.8 1.7E+02 0.0036 21.3 6.0 80 7-86 114-201 (264)
83 cd06356 PBP1_Amide_Urea_BP_lik 34.8 1.6E+02 0.0034 22.9 6.2 52 40-93 43-96 (334)
84 TIGR02329 propionate_PrpR prop 34.6 1.1E+02 0.0023 26.6 5.6 85 12-113 147-255 (526)
85 TIGR00824 EIIA-man PTS system, 34.4 79 0.0017 21.5 3.9 30 44-73 36-67 (116)
86 cd06353 PBP1_BmpA_Med_like Per 34.3 96 0.0021 23.7 4.8 61 8-72 119-187 (258)
87 cd01542 PBP1_TreR_like Ligand- 34.3 1.7E+02 0.0037 21.1 6.0 79 8-86 113-196 (259)
88 PF12163 HobA: DNA replication 33.5 1E+02 0.0023 23.4 4.7 44 52-97 33-82 (180)
89 cd01973 Nitrogenase_VFe_beta_l 33.2 2.1E+02 0.0046 24.2 7.0 25 8-32 304-332 (454)
90 cd01537 PBP1_Repressors_Sugar_ 33.0 1.4E+02 0.003 21.1 5.2 39 48-86 161-201 (264)
91 COG5623 CLP1 Predicted GTPase 32.9 74 0.0016 26.9 4.1 58 50-109 235-294 (424)
92 cd06280 PBP1_LacI_like_4 Ligan 31.9 1.5E+02 0.0033 21.6 5.4 81 8-90 114-199 (263)
93 cd06327 PBP1_SBP_like_1 Peripl 31.7 2E+02 0.0043 22.1 6.2 54 40-95 42-97 (334)
94 PRK10014 DNA-binding transcrip 31.6 1.9E+02 0.004 22.2 6.0 39 48-86 226-266 (342)
95 cd06270 PBP1_GalS_like Ligand 31.2 2.1E+02 0.0045 20.8 6.8 90 8-97 115-214 (268)
96 PRK12562 ornithine carbamoyltr 31.0 1.7E+02 0.0037 23.9 6.0 25 8-32 155-185 (334)
97 cd06357 PBP1_AmiC Periplasmic 30.9 2.1E+02 0.0046 22.5 6.4 71 18-94 17-97 (360)
98 cd07018 S49_SppA_67K_type Sign 30.9 1.8E+02 0.0038 21.9 5.7 51 47-97 29-87 (222)
99 COG0616 SppA Periplasmic serin 30.9 1.4E+02 0.0029 24.1 5.3 50 50-99 83-139 (317)
100 PF01297 TroA: Periplasmic sol 30.8 1.3E+02 0.0029 22.7 5.0 49 47-98 183-231 (256)
101 cd06343 PBP1_ABC_ligand_bindin 30.4 2.2E+02 0.0047 22.1 6.3 54 40-95 50-105 (362)
102 cd06344 PBP1_ABC_ligand_bindin 30.3 2.5E+02 0.0053 21.6 6.5 54 40-95 42-97 (332)
103 cd06312 PBP1_ABC_sugar_binding 30.1 1.5E+02 0.0033 21.8 5.2 79 8-86 124-206 (271)
104 CHL00076 chlB photochlorophyll 29.9 2.2E+02 0.0048 24.5 6.7 24 9-32 305-333 (513)
105 cd06287 PBP1_LacI_like_8 Ligan 29.8 1.9E+02 0.0042 21.6 5.8 43 48-90 161-205 (269)
106 TIGR02706 P_butyryltrans phosp 29.6 2.9E+02 0.0062 21.9 8.8 87 8-101 37-132 (294)
107 PRK07200 aspartate/ornithine c 29.3 1.9E+02 0.004 24.4 6.0 24 9-32 187-222 (395)
108 PF03808 Glyco_tran_WecB: Glyc 29.1 1.9E+02 0.004 20.9 5.4 18 6-23 45-62 (172)
109 TIGR01485 SPP_plant-cyano sucr 29.1 1.5E+02 0.0031 22.3 5.0 40 50-90 24-63 (249)
110 TIGR02483 PFK_mixed phosphofru 29.1 1.9E+02 0.004 23.6 5.8 28 47-74 197-225 (324)
111 TIGR02667 moaB_proteo molybden 28.9 1.2E+02 0.0027 21.9 4.4 26 48-73 47-72 (163)
112 PRK14805 ornithine carbamoyltr 28.9 2.2E+02 0.0047 22.9 6.2 27 8-34 146-177 (302)
113 TIGR02329 propionate_PrpR prop 28.8 99 0.0022 26.8 4.4 50 9-69 97-150 (526)
114 TIGR01481 ccpA catabolite cont 28.8 2.6E+02 0.0057 21.2 6.7 85 8-94 58-144 (329)
115 cd01542 PBP1_TreR_like Ligand- 28.8 2.2E+02 0.0049 20.4 6.0 49 44-94 36-84 (259)
116 cd06299 PBP1_LacI_like_13 Liga 28.8 2.1E+02 0.0046 20.7 5.7 38 49-86 161-198 (265)
117 PRK01018 50S ribosomal protein 28.6 1.1E+02 0.0023 20.5 3.8 38 61-98 29-68 (99)
118 PF11305 DUF3107: Protein of u 28.5 1.2E+02 0.0026 19.8 3.8 32 41-73 14-45 (74)
119 COG0561 Cof Predicted hydrolas 28.4 1.1E+02 0.0024 23.0 4.2 45 49-94 22-66 (264)
120 PF14532 Sigma54_activ_2: Sigm 28.4 83 0.0018 21.5 3.3 35 74-113 6-41 (138)
121 cd06301 PBP1_rhizopine_binding 28.3 1.9E+02 0.0042 21.0 5.4 50 44-94 37-87 (272)
122 PRK04220 2-phosphoglycerate ki 28.2 43 0.00094 27.2 2.0 23 87-112 89-111 (301)
123 PRK03202 6-phosphofructokinase 28.2 1.3E+02 0.0028 24.4 4.8 51 47-98 196-249 (320)
124 PRK14166 bifunctional 5,10-met 28.2 2.4E+02 0.0051 22.8 6.2 38 26-70 57-95 (282)
125 PLN02618 tryptophan synthase, 28.1 1.9E+02 0.0041 24.4 5.8 65 40-113 340-406 (410)
126 cd06355 PBP1_FmdD_like Peripla 28.1 2.1E+02 0.0046 22.3 5.9 53 40-94 43-97 (348)
127 TIGR00705 SppA_67K signal pept 27.9 2.2E+02 0.0047 25.0 6.4 50 49-98 331-388 (584)
128 cd06358 PBP1_NHase Type I peri 27.6 2.4E+02 0.0052 21.7 6.1 52 40-94 43-96 (333)
129 cd00363 PFK Phosphofructokinas 27.5 99 0.0021 25.2 4.0 51 48-99 205-265 (338)
130 PRK13780 phosphocarrier protei 27.5 1.1E+02 0.0024 20.0 3.6 45 16-65 42-86 (88)
131 PF03709 OKR_DC_1_N: Orn/Lys/A 27.4 2E+02 0.0043 19.4 5.3 44 50-96 27-75 (115)
132 cd06360 PBP1_alkylbenzenes_lik 27.1 2.1E+02 0.0045 21.7 5.6 53 40-94 41-95 (336)
133 cd01971 Nitrogenase_VnfN_like 27.0 3.5E+02 0.0076 22.4 7.3 24 9-32 293-321 (427)
134 PRK10792 bifunctional 5,10-met 26.9 1.4E+02 0.003 24.1 4.6 41 24-71 58-99 (285)
135 cd06271 PBP1_AglR_RafR_like Li 26.9 2.4E+02 0.0053 20.2 6.1 79 8-86 119-204 (268)
136 cd06292 PBP1_LacI_like_10 Liga 26.6 2.4E+02 0.0052 20.5 5.7 43 48-90 166-208 (273)
137 PRK10401 DNA-binding transcrip 26.6 2.2E+02 0.0048 21.9 5.7 48 48-95 220-272 (346)
138 cd06295 PBP1_CelR Ligand bindi 26.5 2.6E+02 0.0056 20.4 6.0 79 8-86 124-209 (275)
139 PLN02235 ATP citrate (pro-S)-l 26.2 3.9E+02 0.0084 22.9 7.4 62 38-99 299-380 (423)
140 cd06298 PBP1_CcpA_like Ligand- 26.1 2.6E+02 0.0055 20.2 6.0 45 48-94 40-84 (268)
141 cd06331 PBP1_AmiC_like Type I 26.1 3E+02 0.0066 21.0 7.1 54 40-95 43-98 (333)
142 TIGR03669 urea_ABC_arch urea A 26.1 2.3E+02 0.005 22.8 5.9 53 40-94 44-98 (374)
143 cd06322 PBP1_ABC_sugar_binding 26.0 2.6E+02 0.0057 20.3 7.0 78 8-86 120-202 (267)
144 PF13380 CoA_binding_2: CoA bi 25.9 82 0.0018 21.4 2.8 35 61-97 54-88 (116)
145 cd00886 MogA_MoaB MogA_MoaB fa 25.9 1.5E+02 0.0033 20.9 4.3 26 48-73 45-70 (152)
146 PLN02667 inositol polyphosphat 25.8 64 0.0014 25.9 2.6 42 21-63 128-173 (286)
147 cd01544 PBP1_GalR Ligand-bindi 25.7 2.7E+02 0.0059 20.4 6.3 83 7-90 110-206 (270)
148 COG0647 NagD Predicted sugar p 25.5 2.8E+02 0.0062 22.1 6.2 63 9-73 91-157 (269)
149 PF00532 Peripla_BP_1: Peripla 25.5 2.9E+02 0.0063 21.2 6.2 85 9-93 118-211 (279)
150 PRK04017 hypothetical protein; 25.5 2.6E+02 0.0057 20.1 5.7 24 61-84 62-91 (132)
151 cd06273 PBP1_GntR_like_1 This 25.4 2.7E+02 0.0058 20.2 5.8 49 44-94 36-84 (268)
152 PRK06696 uridine kinase; Valid 25.3 90 0.002 23.2 3.2 22 87-111 19-40 (223)
153 PF01886 DUF61: Protein of unk 25.1 1.9E+02 0.0041 20.7 4.7 46 53-98 20-76 (132)
154 cd06347 PBP1_ABC_ligand_bindin 25.1 3E+02 0.0065 20.7 6.5 56 40-97 43-100 (334)
155 PF02581 TMP-TENI: Thiamine mo 25.0 2.7E+02 0.0058 20.0 5.8 33 40-73 2-34 (180)
156 TIGR01286 nifK nitrogenase mol 25.0 4.3E+02 0.0094 22.9 7.6 59 8-75 362-427 (515)
157 cd06272 PBP1_hexuronate_repres 24.9 2.2E+02 0.0047 20.6 5.2 79 8-86 110-195 (261)
158 PF00185 OTCace: Aspartate/orn 24.9 1.4E+02 0.003 21.4 4.0 23 9-31 2-30 (158)
159 PF14639 YqgF: Holliday-juncti 24.7 1.1E+02 0.0024 22.1 3.4 37 49-85 48-90 (150)
160 PRK03515 ornithine carbamoyltr 24.7 2.6E+02 0.0056 22.9 5.9 25 8-32 155-185 (336)
161 TIGR02717 AcCoA-syn-alpha acet 24.6 3.6E+02 0.0077 22.7 6.9 58 39-97 345-411 (447)
162 cd02525 Succinoglycan_BP_ExoA 24.6 1.7E+02 0.0036 20.9 4.4 49 50-98 13-65 (249)
163 PF03770 IPK: Inositol polypho 24.5 58 0.0013 24.3 2.0 44 20-64 48-95 (197)
164 PRK13293 F420-0--gamma-glutamy 24.5 1.1E+02 0.0023 24.4 3.6 48 22-72 99-151 (245)
165 PRK15424 propionate catabolism 24.5 1.3E+02 0.0028 26.3 4.3 51 9-70 107-161 (538)
166 cd06305 PBP1_methylthioribose_ 24.4 2.3E+02 0.005 20.6 5.2 52 42-94 34-86 (273)
167 PF00578 AhpC-TSA: AhpC/TSA fa 24.4 2E+02 0.0044 18.4 5.4 43 51-94 47-89 (124)
168 PF08282 Hydrolase_3: haloacid 24.4 1.2E+02 0.0027 21.5 3.7 43 50-93 18-60 (254)
169 KOG4175|consensus 24.3 1.8E+02 0.0039 23.1 4.7 45 16-71 111-155 (268)
170 COG1618 Predicted nucleotide k 23.9 2E+02 0.0044 21.9 4.8 45 52-98 90-140 (179)
171 TIGR02482 PFKA_ATP 6-phosphofr 23.8 2.7E+02 0.0059 22.4 5.9 51 47-98 195-250 (301)
172 TIGR01487 SPP-like sucrose-pho 23.7 1.6E+02 0.0034 21.5 4.2 43 50-93 21-63 (215)
173 PRK02102 ornithine carbamoyltr 23.7 2.7E+02 0.0059 22.7 5.9 25 8-32 154-184 (331)
174 TIGR02405 trehalos_R_Ecol treh 23.7 3.3E+02 0.0072 20.6 7.5 89 8-96 171-262 (311)
175 cd01539 PBP1_GGBP Periplasmic 23.4 3.4E+02 0.0073 20.6 6.2 50 44-94 38-88 (303)
176 PRK05583 ribosomal protein L7A 23.4 1.6E+02 0.0035 19.9 3.9 34 61-94 30-65 (104)
177 cd06300 PBP1_ABC_sugar_binding 23.4 2.4E+02 0.0053 20.5 5.2 54 41-95 38-92 (272)
178 COG1609 PurR Transcriptional r 23.3 1.8E+02 0.0039 23.2 4.7 86 8-95 57-144 (333)
179 cd06319 PBP1_ABC_sugar_binding 23.2 3E+02 0.0065 20.0 6.1 52 42-94 34-86 (277)
180 cd02007 TPP_DXS Thiamine pyrop 23.2 55 0.0012 24.3 1.6 87 9-100 98-192 (195)
181 PRK10949 protease 4; Provision 23.1 2.7E+02 0.0058 24.9 6.1 50 49-98 349-406 (618)
182 PRK11148 cyclic 3',5'-adenosin 23.0 2.4E+02 0.0053 21.6 5.3 76 7-100 12-96 (275)
183 PF09580 Spore_YhcN_YlaJ: Spor 23.0 78 0.0017 22.7 2.4 61 12-86 94-156 (177)
184 cd04414 NDPk6 Nucleoside dipho 22.9 1.5E+02 0.0033 20.8 3.8 27 56-82 62-88 (135)
185 COG0447 MenB Dihydroxynaphthoi 22.9 1E+02 0.0022 24.8 3.1 25 48-72 47-71 (282)
186 PTZ00187 succinyl-CoA syntheta 22.8 2E+02 0.0044 23.5 4.9 87 9-101 169-265 (317)
187 PRK14987 gluconate operon tran 22.8 3.5E+02 0.0076 20.6 6.4 88 8-95 179-274 (331)
188 cd04195 GT2_AmsE_like GT2_AmsE 22.7 2.6E+02 0.0056 19.3 5.0 49 50-98 13-65 (201)
189 cd06298 PBP1_CcpA_like Ligand- 22.6 3E+02 0.0066 19.8 6.2 43 48-90 161-204 (268)
190 cd03466 Nitrogenase_NifN_2 Nit 22.5 4.5E+02 0.0098 21.8 7.4 56 8-72 299-358 (429)
191 PRK10653 D-ribose transporter 22.4 3.4E+02 0.0074 20.3 6.2 85 9-94 26-113 (295)
192 PRK15126 thiamin pyrimidine py 22.3 1.8E+02 0.0038 22.0 4.3 42 50-92 22-63 (272)
193 PRK07714 hypothetical protein; 22.2 1.3E+02 0.0028 20.0 3.2 37 61-98 31-69 (100)
194 PRK14071 6-phosphofructokinase 22.0 1.7E+02 0.0036 24.2 4.4 29 46-74 210-239 (360)
195 TIGR00099 Cof-subfamily Cof su 22.0 2E+02 0.0042 21.5 4.5 42 50-92 19-60 (256)
196 PF08712 Nfu_N: Scaffold prote 22.0 1.3E+02 0.0027 19.8 3.0 36 23-60 43-80 (87)
197 PF06348 DUF1059: Protein of u 21.9 1.3E+02 0.0029 18.2 2.9 42 40-84 15-56 (57)
198 COG3412 Uncharacterized protei 21.8 2E+02 0.0043 20.8 4.2 45 65-109 3-49 (129)
199 PRK14177 bifunctional 5,10-met 21.7 1.9E+02 0.0042 23.3 4.6 41 23-70 57-98 (284)
200 cd01019 ZnuA Zinc binding prot 21.7 1.6E+02 0.0035 23.0 4.1 38 47-85 212-249 (286)
201 TIGR02370 pyl_corrinoid methyl 21.6 2.3E+02 0.0051 20.9 4.8 53 21-86 105-160 (197)
202 cd06279 PBP1_LacI_like_3 Ligan 21.6 3.4E+02 0.0074 20.1 6.3 43 48-90 178-222 (283)
203 PLN02225 1-deoxy-D-xylulose-5- 21.6 74 0.0016 28.9 2.4 35 8-43 211-245 (701)
204 cd06346 PBP1_ABC_ligand_bindin 21.5 2.6E+02 0.0056 21.3 5.1 72 18-95 17-99 (312)
205 PRK14189 bifunctional 5,10-met 21.5 1.9E+02 0.0042 23.3 4.5 40 24-70 57-97 (285)
206 PF08731 AFT: Transcription fa 21.2 1.2E+02 0.0026 21.4 2.9 25 49-73 4-28 (111)
207 PRK01713 ornithine carbamoyltr 21.2 3.3E+02 0.0072 22.2 5.9 25 8-32 155-185 (334)
208 PLN03028 pyrophosphate--fructo 21.2 1.3E+02 0.0027 27.0 3.7 29 50-78 296-325 (610)
209 PRK14190 bifunctional 5,10-met 21.1 2.1E+02 0.0045 23.1 4.6 41 23-70 56-97 (284)
210 cd00763 Bacterial_PFK Phosphof 21.1 2.4E+02 0.0053 22.8 5.1 39 46-84 194-235 (317)
211 cd02012 TPP_TK Thiamine pyroph 21.0 3.8E+02 0.0083 20.4 6.7 89 8-100 127-229 (255)
212 PLN02251 pyrophosphate-depende 20.7 1.8E+02 0.0039 25.8 4.5 24 57-80 321-344 (568)
213 COG1219 ClpX ATP-dependent pro 20.6 1.7E+02 0.0038 24.8 4.2 58 50-109 141-221 (408)
214 TIGR01452 PGP_euk phosphoglyco 20.5 4E+02 0.0087 20.4 7.5 23 9-31 85-107 (279)
215 KOG1575|consensus 20.5 3.9E+02 0.0085 22.2 6.2 56 24-84 121-178 (336)
216 cd06310 PBP1_ABC_sugar_binding 20.5 3.5E+02 0.0075 19.7 5.9 46 48-94 42-88 (273)
217 PRK06091 membrane protein FdrA 20.3 6.2E+02 0.013 22.6 7.7 48 51-100 239-291 (555)
218 PRK06518 hypothetical protein; 20.3 94 0.002 23.2 2.4 57 10-68 26-94 (177)
219 PF07308 DUF1456: Protein of u 20.2 93 0.002 19.7 2.0 17 15-31 14-30 (68)
220 PRK10187 trehalose-6-phosphate 20.2 1.2E+02 0.0026 23.4 3.1 35 50-84 39-73 (266)
221 PRK02255 putrescine carbamoylt 20.2 4E+02 0.0087 21.8 6.2 25 8-32 153-182 (338)
222 TIGR01916 F420_cofE F420-0:gam 20.1 1.3E+02 0.0028 23.9 3.2 48 22-72 98-150 (243)
223 TIGR01484 HAD-SF-IIB HAD-super 20.1 2.2E+02 0.0047 20.3 4.3 34 50-84 20-53 (204)
224 KOG1621|consensus 20.1 39 0.00085 28.8 0.3 41 18-61 321-361 (458)
225 PRK14171 bifunctional 5,10-met 20.1 2.1E+02 0.0047 23.1 4.5 41 24-71 57-98 (288)
226 CHL00200 trpA tryptophan synth 20.1 4.4E+02 0.0095 20.7 6.7 75 16-102 107-183 (263)
No 1
>TIGR01101 V_ATP_synt_F vacuolar ATP synthase F subunit. This model describes the vacuolar ATP synthase F subunit (14 kDa subunit) in eukaryotes. In some archaeal species this protein subunit is referred as G subunit
Probab=100.00 E-value=3e-35 Score=207.27 Aligned_cols=109 Identities=79% Similarity=1.238 Sum_probs=104.4
Q ss_pred ccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc
Q psy6439 6 AVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH 85 (114)
Q Consensus 6 ~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~ 85 (114)
+....+||||||+||++||||||++.++..+++||++++++|+.+|++++|++++++++||||+||+.+++++++.|++|
T Consensus 2 ~~~~~~IaVIGD~Dtv~GF~LaGi~~~~~~~~~nf~~v~~~t~~eei~~~~~~~l~~~digIIlIte~~a~~i~~~I~~~ 81 (115)
T TIGR01101 2 AEKGKLIAVIGDEDTVVGFLLGGIGEINKNRHPNFLVVDKNTTVSEIEDCFNRFLKRDDIAIILINQHIAEMIRHAVDAH 81 (115)
T ss_pred CCCCcEEEEEecHHHHHHHHHhCCCccccccccceeeecCCCCHHHHHHHHHHHhhcCCeEEEEEcHHHHHHhHHHHHhc
Confidence 44578999999999999999999999999999999999999999999999999899999999999999999999999999
Q ss_pred CCCccEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 86 TQPIPAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 86 ~~~~P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
++..|+|++|||+.++|.+++|||++|++
T Consensus 82 ~~~~PaIieIP~k~~~y~~~~d~i~~~~~ 110 (115)
T TIGR01101 82 TRSIPAVLEIPSKDHPYDASKDSILRRAR 110 (115)
T ss_pred CCcCCEEEEECCCCCCCCCcccHHHHHHH
Confidence 99999999999999999999999999974
No 2
>KOG3432|consensus
Probab=100.00 E-value=4.2e-33 Score=194.48 Aligned_cols=112 Identities=68% Similarity=1.067 Sum_probs=108.8
Q ss_pred cccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHH
Q psy6439 3 LHSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCI 82 (114)
Q Consensus 3 ~~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i 82 (114)
.|++.+.+.||||||+||++||.|+|++.+.....+||++|+.+|+.++++++|+++.+|+|++||+|++.+|+++|+.|
T Consensus 1 ~~~a~~~~liavIgDEDT~tGfLlaGvg~v~~~r~~Nf~vv~~~Tt~~eiedaF~~f~~RdDIaIiLInq~~Ae~iR~~v 80 (121)
T KOG3432|consen 1 SHSADKRTLIAVIGDEDTVTGFLLAGVGEVNENREPNFLVVDSKTTVEEIEDAFKSFTARDDIAIILINQFIAEMIRDRV 80 (121)
T ss_pred CcccccCcEEEEeccccceeeeeeecccccccCCCCCEEEEeccCCHHHHHHHHHhhccccCeEEEEEhHHHHHHHHHHH
Confidence 48999999999999999999999999999998899999999999999999999999999999999999999999999999
Q ss_pred hhcCCCccEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 83 DDHTQPIPAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 83 ~~~~~~~P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
+.+++..|+|++|||++++|.+.||||++|.+
T Consensus 81 D~h~~~vPAvLeIpSKdhPYd~~kDSiL~R~r 112 (121)
T KOG3432|consen 81 DAHTQAVPAVLEIPSKDHPYDPSKDSILRRAR 112 (121)
T ss_pred HhccccCCeeEEecCCCCCCCchHHHHHHHHH
Confidence 99999999999999999999999999999864
No 3
>PRK01395 V-type ATP synthase subunit F; Provisional
Probab=99.95 E-value=2.4e-27 Score=164.19 Aligned_cols=93 Identities=28% Similarity=0.425 Sum_probs=84.0
Q ss_pred CcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-C
Q psy6439 9 GKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-Q 87 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~ 87 (114)
.+|||||||+||++||||+|++. |++.++ ++++++++++. +++||||++||++++.+++.+++++ +
T Consensus 3 ~~kIaVIGD~dtv~GFrLaGi~~--------~~v~~~----ee~~~~i~~l~-~~d~gII~Ite~~a~~i~~~i~~~~~~ 69 (104)
T PRK01395 3 MYKIGVVGDKDSILPFKALGIDV--------FPVIDE----QEAINTLRKLA-MEDYGIIYITEQIAADIPETIERYDNQ 69 (104)
T ss_pred ceeEEEEECHHHHHHHHHcCCee--------EEecCh----HHHHHHHHHHh-cCCcEEEEEcHHHHHHhHHHHHHhcCC
Confidence 47999999999999999999986 556555 89999999876 8999999999999999999999996 6
Q ss_pred CccEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 88 PIPAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 88 ~~P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
..|+|++|||++|+.+.+.++|.+|++
T Consensus 70 ~~P~Il~IP~~~g~~~~g~~~i~~~v~ 96 (104)
T PRK01395 70 VLPAIILIPSNQGSLGIGLSRIQDNVE 96 (104)
T ss_pred CCCEEEEeCCCCCCccccHHHHHHHHH
Confidence 899999999999998778899999874
No 4
>PRK03957 V-type ATP synthase subunit F; Provisional
Probab=99.94 E-value=4.3e-27 Score=161.63 Aligned_cols=91 Identities=31% Similarity=0.610 Sum_probs=81.5
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCc
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPI 89 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~ 89 (114)
+|||||||+||++||||+|++.++. + + +++|++++|++++++++||||++|+++++.+++.++ +..
T Consensus 1 mkIaVIgD~dtv~GFrLaGi~~~~~-------v-~---~~ee~~~~l~~l~~~~d~gII~ite~~~~~i~~~i~---~~~ 66 (100)
T PRK03957 1 MKIAVVGDRDTVTGFRLAGLTEVYE-------V-K---NPEEAKNAIKELVENDEIGIIIITERIAEEIRDLIS---VAL 66 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCCceEE-------e-C---CHHHHHHHHHHHhhCCCeEEEEEcHHHHHHHHHHHh---cCC
Confidence 4899999999999999999986432 2 2 239999999999999999999999999999999887 677
Q ss_pred cEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 90 PAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 90 P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
|+|++||+++|+++.++++|.++++
T Consensus 67 P~Ii~IP~~~g~~~~~~~~i~~~v~ 91 (100)
T PRK03957 67 PIIVEIPDKSGSIERENDPVKELVR 91 (100)
T ss_pred CEEEEECCCCCCCccchHHHHHHHH
Confidence 9999999999999999999999874
No 5
>PF01990 ATP-synt_F: ATP synthase (F/14-kDa) subunit; InterPro: IPR008218 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit F found in the V1 complex of V-ATPases (both eukaryotic and bacterial), as well as in the A1 complex of A-ATPases. Subunit F is a 16 kDa protein that is required for the assembly and activity of V-ATPase, and has a potential role in the differential targeting and regulation of the enzyme for specific organelles. This subunit is not necessary for the rotation of the ATPase V1 rotor, but it does promote catalysis []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 2D00_E 3A5C_P 3J0J_H 3A5D_H 2OV6_A 2QAI_B 3AON_B 2I4R_A.
Probab=99.93 E-value=3.6e-26 Score=154.57 Aligned_cols=92 Identities=40% Similarity=0.657 Sum_probs=83.4
Q ss_pred EEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc--CCCc
Q psy6439 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH--TQPI 89 (114)
Q Consensus 12 IaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~--~~~~ 89 (114)
||||||+|+++||||+|+++.++ . +++++++++|+++++++++|||++|+++++.+++.++++ ++..
T Consensus 1 IavIGd~~~v~gFrLaGv~~~~~--------~---~~~ee~~~~l~~l~~~~~~gIIii~e~~~~~~~~~l~~~~~~~~~ 69 (95)
T PF01990_consen 1 IAVIGDRDTVLGFRLAGVEGVYV--------N---TDPEEAEEALKELLKDEDVGIIIITEDLAEKIRDELDEYREESSL 69 (95)
T ss_dssp EEEEE-HHHHHHHHHTTSEEEEE--------S---HSHHHHHHHHHHHHHHTTEEEEEEEHHHHTTHHHHHHHHHHTSSS
T ss_pred CEEEeCHHHHHHHHHcCCCCccC--------C---CCHHHHHHHHHHHhcCCCccEEEeeHHHHHHHHHHHHHHHhccCC
Confidence 79999999999999999999543 2 134999999999999999999999999999999999999 5899
Q ss_pred cEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 90 PAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 90 P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
|+|++||++.++++.+.++|.++||
T Consensus 70 P~iv~IP~~~~~~~~~~~~i~~~v~ 94 (95)
T PF01990_consen 70 PLIVEIPSKEGSMGREKDSIRELVK 94 (95)
T ss_dssp SEEEEESTTCCCTSSCCHHHHHHHH
T ss_pred ceEEEcCCCCCCCCcchHHHHHHhc
Confidence 9999999999999999999998874
No 6
>PRK01189 V-type ATP synthase subunit F; Provisional
Probab=99.93 E-value=1.4e-25 Score=155.44 Aligned_cols=90 Identities=22% Similarity=0.380 Sum_probs=74.4
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHH-HHHhhcC-C
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIR-HCIDDHT-Q 87 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~-d~i~~~~-~ 87 (114)
+|||||||+||++||||+|++++|+++ + ++++++ +.+.+++++||||++||++++.++ +++++|+ +
T Consensus 3 ~kIaVvGd~DtilGFrlaGi~~v~~~~-------~----~e~~~~-~~~~l~~~~~gII~iTE~~a~~i~~~~i~~~~~~ 70 (104)
T PRK01189 3 SCITVIGERDVVLGFRLLGIGDTIEAE-------G----KDLVKK-FLEIFNNPKCKYIFVSESTKNMFDKNTLRSLESS 70 (104)
T ss_pred ceEEEEcCHHHHHHHHHcCCceEEEcC-------C----HHHHHH-HHHHHhcCCeEEEEEEHHHHhhCCHHHHHHHhcc
Confidence 689999999999999999999765432 2 266654 555667999999999999999999 7999995 8
Q ss_pred CccEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 88 PIPAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 88 ~~P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
..|+||+||.+ |.. ++++|.+|||
T Consensus 71 ~~P~II~Ipip-g~~--~~~~i~~~ik 94 (104)
T PRK01189 71 SKPLVVFIPLP-GIS--EEESIEEMAK 94 (104)
T ss_pred CCCeEEEEeCC-CCc--cchhHHHHHH
Confidence 99999988877 432 3789999985
No 7
>PRK02228 V-type ATP synthase subunit F; Provisional
Probab=99.92 E-value=6.1e-25 Score=150.87 Aligned_cols=89 Identities=22% Similarity=0.391 Sum_probs=76.8
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh-c-CC
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD-H-TQ 87 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~-~-~~ 87 (114)
+|||||||+||++||||+|++.++. + + +++|++++|++++++++||||++||++++.+.+.+.+ + ++
T Consensus 1 mkIaVIGD~dtv~GFrLaGi~~~~~-------~-~---~~ee~~~~l~~l~~~~d~gII~Ite~~~~~i~e~i~~~~~~~ 69 (100)
T PRK02228 1 MEIAVIGSPEFTTGFRLAGIRKVYE-------V-P---DDEKLDEAVEEVLEDDDVGILVMHDDDLEKLPRRLRRTLEES 69 (100)
T ss_pred CEEEEEeCHHHHHHHHHcCCceEEe-------e-C---CHHHHHHHHHHHhhCCCEEEEEEehhHhHhhHHHHHHHHhcC
Confidence 5899999999999999999998532 2 2 2489999999999999999999999999999999998 4 48
Q ss_pred CccEEEEcCCCCCCCCCCccchhhhcC
Q psy6439 88 PIPAVLEIPSKDHPYDASKDSILRRAK 114 (114)
Q Consensus 88 ~~P~Iv~IP~~~g~~~~~~d~i~~~~~ 114 (114)
..|+|++||+.+|+ ++|.++++
T Consensus 70 ~~P~ii~IP~~~~~-----~~i~~~v~ 91 (100)
T PRK02228 70 VEPTVVTLGGGGGS-----GGLREKIK 91 (100)
T ss_pred CCCEEEEECCCccc-----hHHHHHHH
Confidence 99999999986654 67877764
No 8
>COG1436 NtpG Archaeal/vacuolar-type H+-ATPase subunit F [Energy production and conversion]
Probab=99.87 E-value=2.7e-22 Score=139.23 Aligned_cols=94 Identities=36% Similarity=0.551 Sum_probs=76.2
Q ss_pred CcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc--C
Q psy6439 9 GKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH--T 86 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~--~ 86 (114)
.++||||||+||++||||+|++.++ ++++ ++++++++++.+.++ +||||++|+++++.+++.++++ .
T Consensus 2 ~~~I~VIGd~dtvtGFrLaGv~~~~--------v~~~--~~~~~~~~~~~l~~~-~~~iIiite~~a~~i~~~i~~~~~~ 70 (104)
T COG1436 2 MMKIAVIGDRDTVTGFRLAGVRVVY--------VADD--EEDELRAALRVLAED-DVGIILITEDLAEKIREEIRRIIRS 70 (104)
T ss_pred ceEEEEEEccchhhceeeecceeEE--------EecC--hhHHHHHHHHhhccC-CceEEEEeHHHHhhhHHHHHHHhhc
Confidence 4799999999999999999999963 2232 112688889988755 9999999999999999999999 4
Q ss_pred CCccEEEEcCC-CCCCCCCCccchhhhc
Q psy6439 87 QPIPAVLEIPS-KDHPYDASKDSILRRA 113 (114)
Q Consensus 87 ~~~P~Iv~IP~-~~g~~~~~~d~i~~~~ 113 (114)
+..|+|++||| ....+....+.|.|.+
T Consensus 71 ~~~P~iv~IPs~~~~~~~~~~~~I~k~v 98 (104)
T COG1436 71 SVLPAIVEIPSPGKEEEEPLRELIRRAV 98 (104)
T ss_pred cCccEEEEeCCCCCCccchHHHHHHHHH
Confidence 88999999999 4455556666666543
No 9
>COG4075 Uncharacterized conserved protein, homolog of nitrogen regulatory protein PII [Function unknown]
Probab=94.01 E-value=0.12 Score=35.94 Aligned_cols=74 Identities=18% Similarity=0.278 Sum_probs=48.1
Q ss_pred HHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEE-EEehHHHHHHHHHHhhc-CCCccEEEEcCCC
Q psy6439 21 CVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDII-LINQNVAELIRHCIDDH-TQPIPAVLEIPSK 98 (114)
Q Consensus 21 v~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII-~ite~~~~~i~d~i~~~-~~~~P~Iv~IP~~ 98 (114)
++||-|.--.|+.+.+-++|...+ ++|.+-++++++.+ +.+-|. ++.|...+++.+.+.+- .+..=+|++||=.
T Consensus 28 iTGFfl~eYrGvsPd~wkgf~~~E---DpE~aik~i~D~s~-~AVlI~tVV~Ee~vekie~~~~Ekla~eryTIi~ipI~ 103 (110)
T COG4075 28 ITGFFLHEYRGVSPDKWKGFSKEE---DPESAIKAIRDLSD-KAVLIGTVVKEEKVEKIEELLKEKLANERYTIIEIPIE 103 (110)
T ss_pred cceEEEEEecCcChhHhcCccccc---CHHHHHHHHHHhhh-ceEEEEEecCHHHHHHHHHHHHHHhcCCceEEEEeeee
Confidence 456655555555555556666643 45888888998864 333222 45688888888877764 4555689999854
No 10
>PF10126 Nit_Regul_Hom: Uncharacterized protein, homolog of nitrogen regulatory protein PII; InterPro: IPR019296 This family consists of various hypothetical archaeal proteins. It includes a putative nitrogen regulatory protein PII homolog.
Probab=88.87 E-value=1.1 Score=31.59 Aligned_cols=72 Identities=17% Similarity=0.296 Sum_probs=44.4
Q ss_pred HHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEE---EEehHHHHHHHHHHhhc-CCCccEEEEcC
Q psy6439 21 CVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDII---LINQNVAELIRHCIDDH-TQPIPAVLEIP 96 (114)
Q Consensus 21 v~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII---~ite~~~~~i~d~i~~~-~~~~P~Iv~IP 96 (114)
++||-|-=.+|..+.+-++|...+ +++.+-++++++.++ |++ +++++.++++.+.+.+- +...=+|+.||
T Consensus 28 ITGFyl~eYkGmSP~~wkgf~l~E---Dpe~ai~~I~d~s~~---aV~I~TVV~~~~~~~i~~~i~ekL~~eryTii~iP 101 (110)
T PF10126_consen 28 ITGFYLHEYKGMSPQDWKGFLLDE---DPEMAIKAINDLSEN---AVLIGTVVDEEKVEKIEKLIKEKLKNERYTIIEIP 101 (110)
T ss_pred ccEEEeEeecCCChHHhcCccccc---CHHHHHHHHHHhccC---cEEEEEEECHHHHHHHHHHHHHHhcCCceEEEEee
Confidence 445555444444444445564432 357787888877532 343 46688888888888774 45555888888
Q ss_pred CC
Q psy6439 97 SK 98 (114)
Q Consensus 97 ~~ 98 (114)
=.
T Consensus 102 i~ 103 (110)
T PF10126_consen 102 IL 103 (110)
T ss_pred EE
Confidence 43
No 11
>CHL00129 rpl1 ribosomal protein L1; Reviewed
Probab=81.24 E-value=7.8 Score=30.18 Aligned_cols=64 Identities=16% Similarity=0.178 Sum_probs=50.7
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHh
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCID 83 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~ 83 (114)
|.-.+..||+|+++.+...==+-+|++.+ . .+|+.+.+++.. .++-.++-|.++...+.. +.
T Consensus 66 ~~~gk~~kV~Vfa~~~~~~eAk~aGad~v-----------g----~edLi~~ik~~~--~~fd~~iAt~d~m~~l~k-Lg 127 (229)
T CHL00129 66 KGTGKTIRIAVLTNEEKITEAKNAGADIV-----------G----SDDLIEEITKGN--LDFDLLIATPDMMPKLAK-LG 127 (229)
T ss_pred CCCCCCcEEEEECChHhHHHHHHcCCCEe-----------C----HHHHHHHHHcCc--ccCCEEEECHHHHHHHHH-hc
Confidence 55567899999999888877789999842 2 288888888765 578899999999988876 66
Q ss_pred hc
Q psy6439 84 DH 85 (114)
Q Consensus 84 ~~ 85 (114)
+.
T Consensus 128 ri 129 (229)
T CHL00129 128 RV 129 (229)
T ss_pred Cc
Confidence 63
No 12
>TIGR01169 rplA_bact ribosomal protein L1, bacterial/chloroplast. This model describes bacterial (and chloroplast) ribosomal protein L1. The apparent mitochondrial L1 is sufficiently diverged to be the subject of a separate model.
Probab=80.55 E-value=7.8 Score=30.05 Aligned_cols=64 Identities=16% Similarity=0.205 Sum_probs=50.0
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHh
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCID 83 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~ 83 (114)
|.-.+..||+|++|.+...==+-+|++.+ . .+|+.+.+++.. .+|-.++-|.++...+. .+.
T Consensus 65 ~~~gk~~kV~Vfa~~~~~~~Ak~aGa~~v-----------g----~~eLi~~ik~~~--~~fd~~iat~~~m~~l~-~Lg 126 (227)
T TIGR01169 65 HGTGKTVRVAVFAKGEKAEEAKAAGADYV-----------G----SDDLIEKIKKGW--LDFDVVIATPDMMRVVG-KLG 126 (227)
T ss_pred CCCCCCcEEEEEcCchhHHHHHHcCCCEe-----------C----HHHHHHHHHcCC--ccCCEEEECHHHHHHHH-Hhc
Confidence 45567789999999888877789999843 2 288888888764 57888999999988887 566
Q ss_pred hc
Q psy6439 84 DH 85 (114)
Q Consensus 84 ~~ 85 (114)
+.
T Consensus 127 ~i 128 (227)
T TIGR01169 127 RI 128 (227)
T ss_pred cc
Confidence 53
No 13
>PLN00124 succinyl-CoA ligase [GDP-forming] subunit beta; Provisional
Probab=76.97 E-value=16 Score=30.96 Aligned_cols=62 Identities=27% Similarity=0.394 Sum_probs=51.1
Q ss_pred CceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--------ehHHHHHHHHHHhhcCCCccEEEEcCCCC
Q psy6439 38 PNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--------NQNVAELIRHCIDDHTQPIPAVLEIPSKD 99 (114)
Q Consensus 38 ~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i--------te~~~~~i~d~i~~~~~~~P~Iv~IP~~~ 99 (114)
-||.-+-...+.+.+.++|+-+++++++-.|+| ++.+++-+-+.+.++....|+||-+.+.+
T Consensus 319 ANFlD~GG~a~~~~v~~a~~ii~~d~~vk~iliNIfGGI~~cd~iA~gii~a~~~~~~~~pivvRl~Gtn 388 (422)
T PLN00124 319 ANFLDVGGNASEQQVVEAFKILTSDDKVKAILVNIFGGIMKCDVIASGIVNAAKQVGLKVPLVVRLEGTN 388 (422)
T ss_pred ceeeecCCCCCHHHHHHHHHHHhcCCCCcEEEEEecCCccchHHHHHHHHHHHHhcCCCCcEEEEcCCCC
Confidence 368888777788999999999999999999998 46678777777777766789999887765
No 14
>PRK05424 rplA 50S ribosomal protein L1; Validated
Probab=74.79 E-value=14 Score=28.71 Aligned_cols=64 Identities=14% Similarity=0.160 Sum_probs=47.9
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHh
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCID 83 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~ 83 (114)
|.-.+..||+|+||.+...==+-+|++.+ . .+|+.+.+++=. -+|-.++-|.++...+.. +.
T Consensus 66 ~~~gk~~kI~Vfa~~~~~~~Ak~aGa~~v-----------g----~eeLi~~ik~~~--~~fd~~iat~~~m~~l~~-Lg 127 (230)
T PRK05424 66 HGTGKTVRVAVFAKGEKAEEAKAAGADIV-----------G----GEDLIEKIKGGW--LDFDVVIATPDMMGKVGK-LG 127 (230)
T ss_pred CCCCCCcEEEEECChHhHHHHHHcCCCEe-----------C----HHHHHHHHhcCC--CcCCEEEECHHHHHHHHH-hc
Confidence 55567789999999988877889999842 2 277777665433 368889999999888775 65
Q ss_pred hc
Q psy6439 84 DH 85 (114)
Q Consensus 84 ~~ 85 (114)
++
T Consensus 128 ~i 129 (230)
T PRK05424 128 RI 129 (230)
T ss_pred cc
Confidence 53
No 15
>PF00549 Ligase_CoA: CoA-ligase; InterPro: IPR005811 This entry represents a domain found in both the alpha and beta chains of succinyl-CoA synthase (6.2.1.4 from EC (GDP-forming) and 6.2.1.5 from EC (ADP-forming)) [, ]. This domain can also be found in ATP citrate synthase (2.3.3.8 from EC) and malate-CoA ligase (6.2.1.9 from EC). Some members of the domain utilise ATP others use GTP.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3DMY_B 3MWE_B 3PFF_A 3MWD_B 2YV1_A 1EUC_A 2FP4_A 1EUD_A 2FPI_A 2FPG_A ....
Probab=73.07 E-value=9 Score=28.08 Aligned_cols=51 Identities=20% Similarity=0.265 Sum_probs=37.4
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEe--------hHHHHHHHHHHhhcC---CCccEEEEcCCCC
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILIN--------QNVAELIRHCIDDHT---QPIPAVLEIPSKD 99 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~it--------e~~~~~i~d~i~~~~---~~~P~Iv~IP~~~ 99 (114)
++...+.|..+.+++++++|++. ++.+..+-+.+.+.+ ...|+|+.+=+..
T Consensus 58 ~~~~~~~l~~~~~Dp~v~vIlvd~~~G~g~~~~~A~~l~~a~~~~~~~~~~~pvVa~v~GT~ 119 (153)
T PF00549_consen 58 PSTRNEALEIEAADPEVKVILVDIVGGIGSCEDPAAGLIPAIKEAKAEGRKKPVVARVCGTN 119 (153)
T ss_dssp SSHHHHHHHHHHTSTTESEEEEEEESSSSSHHHHHHHHHHHHSHCTHTTT-SEEEEEEESTT
T ss_pred HHHHHHHHHHHhcCCCccEEEEEeccccCchHHHHHHHHHHHHhccccCCCCcEEEEeeeec
Confidence 47888899999999999999997 334555555555544 5679999886654
No 16
>TIGR01170 rplA_mito ribosomal protein L1, mitochondrial. This model represents the mitochondrial homolog of bacterial ribosomal protein L1. Unlike chloroplast L1, this form was not sufficiently similar to bacterial forms to include in a single bacterial/organellar L1.
Probab=71.62 E-value=29 Score=25.07 Aligned_cols=64 Identities=11% Similarity=0.104 Sum_probs=46.0
Q ss_pred ccccCCcEEEEEcchhH-HHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCC-eEEEEEehHHHHHHHHH
Q psy6439 4 HSAVKGKLLAVIGDEDT-CVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDD-VDIILINQNVAELIRHC 81 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dt-v~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~d-igII~ite~~~~~i~d~ 81 (114)
|.-.+..||+|+++.+. ..--+-+|++.+ . .+|+.+.++. ...+ +-.++-|.++...+. .
T Consensus 47 ~~~~k~~kV~Vf~~~~~~~~~Ak~aGa~~v-----------g----~edLi~~i~~--g~~~~fd~~iA~~~~m~~l~-~ 108 (141)
T TIGR01170 47 HPFGKEPKIAVFTKGASEVEEAREAGADYV-----------G----GDDLIKKIED--GEIKPFDYLIAHPDIVPELA-Q 108 (141)
T ss_pred CCCCCCCEEEEECCChHHHHHHHHcCCCEe-----------C----HHHHHHHHhc--CCcccccEEEECHHHHHHHH-H
Confidence 55667889999999887 566888998842 2 2777554541 1234 677999999999988 6
Q ss_pred Hhhc
Q psy6439 82 IDDH 85 (114)
Q Consensus 82 i~~~ 85 (114)
+-+.
T Consensus 109 Lg~i 112 (141)
T TIGR01170 109 LRRL 112 (141)
T ss_pred hhcc
Confidence 7774
No 17
>PTZ00029 60S ribosomal protein L10a; Provisional
Probab=67.18 E-value=24 Score=27.03 Aligned_cols=73 Identities=16% Similarity=0.285 Sum_probs=49.7
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHH------HHHHhhcCCCeEEEEEehHHHHH
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEE------AFRKFIKRDDVDIILINQNVAEL 77 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~------~l~~l~~~~digII~ite~~~~~ 77 (114)
|.-.+..||+|+++.+...--+-+|++.+ . .+++.+ ..+.+. .+|-+.+-+.++...
T Consensus 56 ~~~gk~~~v~V~a~~~~~~~Ak~aGa~vv-----------g----~edL~~~~k~~k~~kkl~--~~fD~flA~~~im~~ 118 (216)
T PTZ00029 56 NVPKPNLKVCVLGDAVHCDEAKKLGLDFM-----------D----IEGLKKFNKNKKLVKKLA--KKYDAFLASQSLLPQ 118 (216)
T ss_pred CCCCCCcEEEEECCcHHHHHHHHcCCCEe-----------c----HHHHHHhhhhHHHHhccc--ccCCEEEECHHHHHH
Confidence 44557889999999999888899999742 1 277765 234443 368889999998887
Q ss_pred HHHHHhhc---CCCccEEE
Q psy6439 78 IRHCIDDH---TQPIPAVL 93 (114)
Q Consensus 78 i~d~i~~~---~~~~P~Iv 93 (114)
+...+-.. +...|.++
T Consensus 119 l~riLGp~l~p~~K~P~~v 137 (216)
T PTZ00029 119 IPRLLGPGLNKAGKFPTLI 137 (216)
T ss_pred HHHHhccccccCCCCCCcc
Confidence 76544442 24445443
No 18
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=65.57 E-value=29 Score=23.19 Aligned_cols=66 Identities=15% Similarity=0.146 Sum_probs=38.2
Q ss_pred HHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe---hHHHHHHHHHHhhcCCCcc--EEEEc
Q psy6439 21 CVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN---QNVAELIRHCIDDHTQPIP--AVLEI 95 (114)
Q Consensus 21 v~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it---e~~~~~i~d~i~~~~~~~P--~Iv~I 95 (114)
..-|+..|++.++. ..+++.+++.+.+.+. +..+|.++ ..-...+++.++.+++..| ..|-+
T Consensus 20 ~~~l~~~G~~V~~l---------g~~~~~~~l~~~~~~~----~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~v 86 (119)
T cd02067 20 ARALRDAGFEVIDL---------GVDVPPEEIVEAAKEE----DADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLV 86 (119)
T ss_pred HHHHHHCCCEEEEC---------CCCCCHHHHHHHHHHc----CCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEE
Confidence 34567788887543 2445678877766543 34444444 4445666666666654444 44556
Q ss_pred CCCC
Q psy6439 96 PSKD 99 (114)
Q Consensus 96 P~~~ 99 (114)
.+..
T Consensus 87 GG~~ 90 (119)
T cd02067 87 GGAI 90 (119)
T ss_pred ECCC
Confidence 6654
No 19
>PRK06555 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Validated
Probab=65.56 E-value=19 Score=30.42 Aligned_cols=28 Identities=7% Similarity=0.113 Sum_probs=23.3
Q ss_pred CCHHHHHHHHHHhhcCCCeEEEEEehHH
Q psy6439 47 TSVSDIEEAFRKFIKRDDVDIILINQNV 74 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~~digII~ite~~ 74 (114)
.+.+++.+.+++.+++++++||+++|.+
T Consensus 242 ~~~e~~~~~ik~~~~~k~~~iIvVaEG~ 269 (403)
T PRK06555 242 FDLEAEAERLKAVMDEVGNVNIFLSEGA 269 (403)
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEEeCCC
Confidence 4557777788888888999999999986
No 20
>COG0045 SucC Succinyl-CoA synthetase, beta subunit [Energy production and conversion]
Probab=65.53 E-value=46 Score=28.17 Aligned_cols=84 Identities=24% Similarity=0.313 Sum_probs=63.2
Q ss_pred cEEEEEcchh-----HHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--------hHHHH
Q psy6439 10 KLLAVIGDED-----TCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--------QNVAE 76 (114)
Q Consensus 10 ~kIaVIGD~d-----tv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--------e~~~~ 76 (114)
-.|++|++-. |.==.++.|-+. -||.=+--..+.+.+.++|+-+++++++-.|||+ +.+++
T Consensus 256 G~IG~ivNGAGLaMaTmDii~~~Gg~P------ANFLDvGGgA~~e~v~~a~~~il~d~~vk~IfVNIfGGI~rcD~vA~ 329 (387)
T COG0045 256 GNIGCIVNGAGLAMATMDIVKLYGGKP------ANFLDVGGGATAERVKEAFKLILSDPNVKAIFVNIFGGITRCDEVAE 329 (387)
T ss_pred CcEEEEecChhHHHHHHHHHHHcCCCC------cceeecCCCCCHHHHHHHHHHHhcCCCccEEEEEEccCcCccHHHHH
Confidence 4577887732 111223445443 3688887777889999999999999999999986 55788
Q ss_pred HHHHHHhhcCCCccEEEEcCCCC
Q psy6439 77 LIRHCIDDHTQPIPAVLEIPSKD 99 (114)
Q Consensus 77 ~i~d~i~~~~~~~P~Iv~IP~~~ 99 (114)
-+-..+.++....|+||-.-+.+
T Consensus 330 GIi~Al~e~~~~vPlVVRL~GtN 352 (387)
T COG0045 330 GIIAALKEVGVNVPLVVRLEGTN 352 (387)
T ss_pred HHHHHHHhcCCCCCEEEEcCCCC
Confidence 88888888888899999887764
No 21
>PRK08366 vorA 2-ketoisovalerate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=62.95 E-value=27 Score=29.16 Aligned_cols=52 Identities=19% Similarity=0.256 Sum_probs=42.6
Q ss_pred EEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe
Q psy6439 11 LLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71 (114)
Q Consensus 11 kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it 71 (114)
|+.+-|+.....|.+.+|++.... | |=|+.-++-+.|.+.+.+.++++.++.
T Consensus 3 ~~~l~GNeAiA~ga~~ag~~~~a~-----Y----PITPsTei~e~la~~~~~G~~~~~~~~ 54 (390)
T PRK08366 3 RKVVSGNYAAAYAALHARVQVVAA-----Y----PITPQTSIIEKIAEFIANGEADIQYVP 54 (390)
T ss_pred cEEeeHHHHHHHHHHHhCCCEEEE-----E----CCCChhHHHHHHHHHhhCCCCCeEEEE
Confidence 678999999999999999996433 4 446668999999999986678777776
No 22
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding,
Probab=62.71 E-value=40 Score=24.49 Aligned_cols=83 Identities=14% Similarity=0.108 Sum_probs=45.8
Q ss_pred CCcEEEEEcchh--HHHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDED--TCVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~d--tv~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d 80 (114)
...+|+++++.. ....-|..|+........ ..+.......+.++..+++++++++. + -||+..++.++..+-.
T Consensus 115 g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~ 194 (268)
T cd01575 115 GYRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALGALF 194 (268)
T ss_pred CCCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHH
Confidence 356899999854 234456666554322211 11222222334567788888888542 3 4666666667666655
Q ss_pred HHhhcCCCcc
Q psy6439 81 CIDDHTQPIP 90 (114)
Q Consensus 81 ~i~~~~~~~P 90 (114)
.+.+.....|
T Consensus 195 ~l~~~g~~~p 204 (268)
T cd01575 195 ECQRRGISVP 204 (268)
T ss_pred HHHHhCCCCC
Confidence 5655433334
No 23
>PF07085 DRTGG: DRTGG domain; InterPro: IPR010766 This presumed domain is about 120 amino acids in length. It is found associated with CBS domains IPR000644 from INTERPRO, as well as the CbiA domain IPR002586 from INTERPRO. The function of this domain is unknown. It is named the DRTGG domain after some of the most conserved residues. This domain may be very distantly related to a pair of CBS domains. There are no significant sequence similarities, but its length and association with CBS domains supports this idea. ; PDB: 3L31_B 3L2B_A 2IOJ_A.
Probab=62.36 E-value=20 Score=23.74 Aligned_cols=57 Identities=23% Similarity=0.224 Sum_probs=26.1
Q ss_pred EEEEE-cc-hhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHH
Q psy6439 11 LLAVI-GD-EDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIR 79 (114)
Q Consensus 11 kIaVI-GD-~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~ 79 (114)
.+.|+ || .|.+.....+|+.++.. ... .+..+.+.++++..++.||....+.++..+
T Consensus 42 ~lvIt~gdR~di~~~a~~~~i~~iIl--------tg~----~~~~~~v~~la~~~~i~vi~t~~dtf~ta~ 100 (105)
T PF07085_consen 42 DLVITPGDREDIQLAAIEAGIACIIL--------TGG----LEPSEEVLELAKELGIPVISTPYDTFETAR 100 (105)
T ss_dssp EEEEEETT-HHHHHHHCCTTECEEEE--------ETT--------HHHHHHHHHHT-EEEE-SS-HHHHHH
T ss_pred eEEEEeCCcHHHHHHHHHhCCCEEEE--------eCC----CCCCHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence 34444 66 66666666677666422 222 222233344444455666666666555443
No 24
>PRK04203 rpl1P 50S ribosomal protein L1P; Reviewed
Probab=62.20 E-value=55 Score=24.98 Aligned_cols=66 Identities=18% Similarity=0.253 Sum_probs=47.8
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHH------HHhhcCCCeEEEEEehHHHHH
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAF------RKFIKRDDVDIILINQNVAEL 77 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l------~~l~~~~digII~ite~~~~~ 77 (114)
|.-.+..+|+|+++.+...--+-+|++.+. ..+++++.. +++. .+|-+++.+.++...
T Consensus 53 ~~~~k~~~V~vf~~~~~~~~Ak~aGa~~v~--------------~~e~L~~i~~~~k~~rkl~--~~fD~~lA~~~im~~ 116 (215)
T PRK04203 53 HGRGKEVKIAVIAKGELALQAKEAGADYVI--------------TREELEELGGDKRAAKKLA--NEYDFFIAEADLMPL 116 (215)
T ss_pred CCCCCCcEEEEEcChHhHHHHHHcCCCEEe--------------CHHHHHHHhcChHHHhhhh--hcCCEEEECHHHHHH
Confidence 444567899999998888888899998421 125655432 2233 468899999999999
Q ss_pred HHHHHhhc
Q psy6439 78 IRHCIDDH 85 (114)
Q Consensus 78 i~d~i~~~ 85 (114)
+...+-+.
T Consensus 117 l~k~LGk~ 124 (215)
T PRK04203 117 IGRYLGPV 124 (215)
T ss_pred HHHHHhhh
Confidence 98877774
No 25
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=61.43 E-value=37 Score=25.86 Aligned_cols=52 Identities=25% Similarity=0.351 Sum_probs=38.8
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv 93 (114)
+++.|...+++...+..++++.++++-+|+- +......+.+.+++ ...|.|.
T Consensus 45 l~~~D~~~~~~~a~~~~~~l~~~~~v~~vvg~~~s~~~~~~~~~~~~--~~ip~i~ 98 (343)
T PF13458_consen 45 LVVYDDGGDPAQAVQAARKLIDDDGVDAVVGPLSSAQAEAVAPIAEE--AGIPYIS 98 (343)
T ss_dssp EEEEE-TT-HHHHHHHHHHHHHTSTESEEEESSSHHHHHHHHHHHHH--HT-EEEE
T ss_pred eeeccCCCChHHHHHHHHHhhhhcCcEEEEecCCcHHHHHHHHHHHh--cCcEEEE
Confidence 5666777778999999999998888877775 46677778887888 5578887
No 26
>cd06340 PBP1_ABC_ligand_binding_like_6 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=59.97 E-value=74 Score=24.82 Aligned_cols=72 Identities=13% Similarity=0.141 Sum_probs=47.6
Q ss_pred hhHHHHHhhc-----------cccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhh
Q psy6439 18 EDTCVGFLLG-----------GIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDD 84 (114)
Q Consensus 18 ~dtv~GFrLa-----------Gi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~ 84 (114)
.+...|++|+ |+.+.. -.+++.|...+++...+.++++++++++-.|+= +......+...+++
T Consensus 17 ~~~~~g~~lA~~~iN~~GGi~~i~G~~----v~lv~~D~~~~~~~a~~~~~~li~~~~v~aiiG~~~s~~~~a~~~~~~~ 92 (347)
T cd06340 17 QQCKAGAELAVEEINAAGGIKSLGGAK----LELVFGDSQGNPDIGATEAERLITEEGVVALVGAYQSAVTLAASQVAER 92 (347)
T ss_pred HHHHHHHHHHHHHHHhcCCccCCCCce----EEEEEecCCCCHHHHHHHHHHHhccCCceEEecccchHhHHHHHHHHHH
Confidence 4557788887 233311 115555777778889999999998877776663 34556667777777
Q ss_pred cCCCccEEEEc
Q psy6439 85 HTQPIPAVLEI 95 (114)
Q Consensus 85 ~~~~~P~Iv~I 95 (114)
...|.|.+-
T Consensus 93 --~~ip~i~~~ 101 (347)
T cd06340 93 --YGVPFVVDG 101 (347)
T ss_pred --hCCCEEecc
Confidence 458877543
No 27
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=54.93 E-value=9.5 Score=27.77 Aligned_cols=59 Identities=29% Similarity=0.368 Sum_probs=37.8
Q ss_pred CcEEEEEcchhHHHHH----hhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHH
Q psy6439 9 GKLLAVIGDEDTCVGF----LLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELI 78 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GF----rLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i 78 (114)
..|||++|-+..+.++ .+.|++-.. |.. + +++|++..++++. +.++.+|+=.....+..
T Consensus 77 ~~~Iavv~~~~~~~~~~~~~~ll~~~i~~------~~~-~---~~~e~~~~i~~~~-~~G~~viVGg~~~~~~A 139 (176)
T PF06506_consen 77 GPKIAVVGYPNIIPGLESIEELLGVDIKI------YPY-D---SEEEIEAAIKQAK-AEGVDVIVGGGVVCRLA 139 (176)
T ss_dssp TSEEEEEEESS-SCCHHHHHHHHT-EEEE------EEE-S---SHHHHHHHHHHHH-HTT--EEEESHHHHHHH
T ss_pred CCcEEEEecccccHHHHHHHHHhCCceEE------EEE-C---CHHHHHHHHHHHH-HcCCcEEECCHHHHHHH
Confidence 3799999998877654 455776431 333 2 3599999999987 56799888776554433
No 28
>TIGR03336 IOR_alpha indolepyruvate ferredoxin oxidoreductase, alpha subunit. Indolepyruvate ferredoxin oxidoreductase (IOR) is an alpha 2/beta 2 tetramer related to ketoacid oxidoreductases for pyruvate (1.2.7.1, POR), 2-ketoglutarate (1.2.7.3, KOR), and 2-oxoisovalerate (1.2.7.7, VOR). These multi-subunit enzymes typically are found in anaerobes and are inactiviated by oxygen. IOR in Pyrococcus acts in fermentation of all three aromatic amino acids, following removal of the amino group by transamination. In Methanococcus maripaludis, by contrast, IOR acts in the opposite direction, in pathways of amino acid biosynthesis from phenylacetate, indoleacetate, and p-hydroxyphenylacetate. In M. maripaludis and many other species, iorA and iorB are found next to an apparent phenylacetate-CoA ligase.
Probab=53.76 E-value=40 Score=29.38 Aligned_cols=54 Identities=24% Similarity=0.287 Sum_probs=42.5
Q ss_pred EEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 11 LLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 11 kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
|+.+-|++....|.+.+|++- +.-.|=|+.-++-+.|.+.+.+.++-.+...++
T Consensus 2 ~~~~~GneA~A~g~~~ag~~~---------~~~YPiTP~t~i~e~l~~~~~~~~~~~~~~~~E 55 (595)
T TIGR03336 2 KELLLGNEAIARGALEAGVGV---------AAAYPGTPSSEITDTLAKVAKRAGVYFEWSVNE 55 (595)
T ss_pred ceeecHHHHHHHHHHHcCCEE---------EEecCCCCHHHHHHHHHHhhhhccEEEEECcCH
Confidence 568899999999999999984 344555777999999999987766666666555
No 29
>PF09612 HtrL_YibB: Bacterial protein of unknown function (HtrL_YibB); InterPro: IPR011735 The protein from this rare, uncharacterised protein family is designated HtrL or YibB in Escherichia coli, where its gene is found in a region of LPS core biosynthesis genes []. Homologs are found in Shigella flexneri, Campylobacter jejuni, and Caenorhabditis elegans only. The htrL gene may represent an insertion to the LPS core biosynthesis region, rather than an LPS biosynthetic protein.
Probab=53.27 E-value=57 Score=26.28 Aligned_cols=52 Identities=19% Similarity=0.270 Sum_probs=42.1
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccE-EEEcCCCC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPA-VLEIPSKD 99 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~-Iv~IP~~~ 99 (114)
+.+.-.+-|+.++.=++.=||+.+++..+.+++.-.+++ ...|. |++++=+.
T Consensus 25 ~~~~Y~~yf~~la~L~N~mVIfTd~~~~e~I~~iR~~~~L~~Ktt~Ii~~dl~~ 78 (271)
T PF09612_consen 25 TNETYFEYFEFLAKLKNNMVIFTDESSKEFIKKIRKKHGLEDKTTVIITIDLKD 78 (271)
T ss_pred cHHHHHHHHHHHHhhcCCEEEEEChHHHHHHHHHHHhcCcCCCceEEEEecHHH
Confidence 347778889999988999999999999999999777775 56776 77776553
No 30
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=53.10 E-value=1e+02 Score=23.77 Aligned_cols=54 Identities=17% Similarity=0.193 Sum_probs=37.9
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
++..|...++....+..++++.++++-.|+= +......+.+..++ ...|.|-.-
T Consensus 42 ~~~~D~~~~~~~a~~~a~~l~~~~~v~~viG~~~s~~~~a~~~~~~~--~~ip~i~~~ 97 (350)
T cd06366 42 LHVRDSKCDPVQAASAALDLLENKPVVAIIGPQCSSVAEFVAEVANE--WNVPVLSFA 97 (350)
T ss_pred EEecCCCCCHHHHHHHHHHHhccCCceEEECCCcHHHHHHHHHHhhc--CCeeEEecc
Confidence 5566776778899999999998777777765 34455566666666 457776643
No 31
>COG0081 RplA Ribosomal protein L1 [Translation, ribosomal structure and biogenesis]
Probab=52.06 E-value=55 Score=25.80 Aligned_cols=64 Identities=16% Similarity=0.231 Sum_probs=47.7
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHh
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCID 83 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~ 83 (114)
|.-.+..||+|+++.+.+.-=+-||.+.+-. +|+.+.++.-- ..++-.++.|.++...++. +-
T Consensus 67 ~g~gk~vrV~Vfa~g~~~~~A~~AGad~Vg~---------------edl~e~ik~~r-~~~fD~~IAtpdmM~~v~~-LG 129 (228)
T COG0081 67 NGTGKTVRVAVFADGEKAEEAKAAGADYVGG---------------EDLIELIKNGR-AKDFDVFIATPDMMPLVGK-LG 129 (228)
T ss_pred CCCCCccEEEEEcChHhHHHHHHcCCCEecH---------------HHHHHHHhCcc-hhcCCEEEECchHHHHHHH-Hh
Confidence 4456789999999999999999999996421 66666555431 2478899999999888733 44
Q ss_pred h
Q psy6439 84 D 84 (114)
Q Consensus 84 ~ 84 (114)
.
T Consensus 130 ~ 130 (228)
T COG0081 130 K 130 (228)
T ss_pred h
Confidence 4
No 32
>PF00070 Pyr_redox: Pyridine nucleotide-disulphide oxidoreductase; InterPro: IPR001327 FAD flavoproteins belonging to the family of pyridine nucleotide-disulphide oxidoreductases (glutathione reductase, trypanothione reductase, lipoamide dehydrogenase, mercuric reductase, thioredoxin reductase, alkyl hydroperoxide reductase) share sequence similarity with a number of other flavoprotein oxidoreductases, in particular with ferredoxin-NAD+ reductases involved in oxidative metabolism of a variety of hydrocarbons (rubredoxin reductase, putidaredoxin reductase, terpredoxin reductase, ferredoxin-NAD+ reductase components of benzene 1,2-dioxygenase, toluene 1,2-dioxygenase, chlorobenzene dioxygenase, biphenyl dioxygenase), NADH oxidase and NADH peroxidase [, , ]. Comparison of the crystal structures of human glutathione reductase and Escherichia coli thioredoxin reductase reveals different locations of their active sites, suggesting that the enzymes diverged from an ancestral FAD/NAD(P)H reductase and acquired their disulphide reductase activities independently []. Despite functional similarities, oxidoreductases of this family show no sequence similarity with adrenodoxin reductases [] and flavoprotein pyridine nucleotide cytochrome reductases (FPNCR) []. Assuming that disulphide reductase activity emerged later, during divergent evolution, the family can be referred to as FAD-dependent pyridine nucleotide reductases, FADPNR. To date, 3D structures of glutathione reductase [], thioredoxin reductase [], mercuric reductase [], lipoamide dehydrogenase [], trypanothione reductase [] and NADH peroxidase [] have been solved. The enzymes share similar tertiary structures based on a doubly-wound alpha/beta fold, but the relative orientations of their FAD- and NAD(P)H-binding domains may vary significantly. By contrast with the FPNCR family, the folds of the FAD- and NAD(P)H-binding domains are similar, suggesting that the domains evolved by gene duplication []. This entry describes a small NADH binding domain within a larger FAD binding domain described by IPR023753 from INTERPRO. It is found in both class I and class II oxidoreductases. ; GO: 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0055114 oxidation-reduction process; PDB: 1ZKQ_A 3DGZ_A 1ZDL_A 2R9Z_B 2RAB_A 2A87_B 1M6I_A 2YVG_A 2GR1_A 2GQW_A ....
Probab=51.95 E-value=51 Score=20.34 Aligned_cols=55 Identities=15% Similarity=0.204 Sum_probs=33.9
Q ss_pred EEEEEcc----hhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEE
Q psy6439 11 LLAVIGD----EDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIIL 69 (114)
Q Consensus 11 kIaVIGD----~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ 69 (114)
||+|||. -|...-|+-.|.+.......+.+. +. -++++.+.+.+.+++.++-+..
T Consensus 1 ~vvViGgG~ig~E~A~~l~~~g~~vtli~~~~~~~---~~-~~~~~~~~~~~~l~~~gV~v~~ 59 (80)
T PF00070_consen 1 RVVVIGGGFIGIELAEALAELGKEVTLIERSDRLL---PG-FDPDAAKILEEYLRKRGVEVHT 59 (80)
T ss_dssp EEEEESSSHHHHHHHHHHHHTTSEEEEEESSSSSS---TT-SSHHHHHHHHHHHHHTTEEEEE
T ss_pred CEEEECcCHHHHHHHHHHHHhCcEEEEEeccchhh---hh-cCHHHHHHHHHHHHHCCCEEEe
Confidence 5788887 466667777787765544444322 11 1266777777777666666654
No 33
>TIGR00706 SppA_dom signal peptide peptidase SppA, 36K type. The member of this family from Bacillus subtilis was shown to have properties consistent with a role in degrading signal peptides after cleavage from precursor proteins, although it was not demonstrated conclusively.
Probab=51.34 E-value=72 Score=23.76 Aligned_cols=52 Identities=15% Similarity=0.266 Sum_probs=39.1
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcCCCccEEEEcCCCC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHTQPIPAVLEIPSKD 99 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~~~~P~Iv~IP~~~ 99 (114)
+.+++.+.|+++.+++++.-|+++-+ ..+.+.+.|.++++..|++..+.+..
T Consensus 14 s~~~l~~~l~~a~~d~~i~~vvl~~~s~Gg~~~~~~~l~~~i~~~~~~kpvia~v~g~a 72 (207)
T TIGR00706 14 SPEDFDKKIKRIKDDKSIKALLLRINSPGGTVVASEEIYEKLKKLKAKKPVVASMGGVA 72 (207)
T ss_pred CHHHHHHHHHHHhhCCCccEEEEEecCCCCCHHHHHHHHHHHHHhcCCCCEEEEECCcc
Confidence 34889999999998888876666533 34567777777766689999997754
No 34
>PRK08367 porA pyruvate ferredoxin oxidoreductase subunit alpha; Reviewed
Probab=51.30 E-value=47 Score=27.74 Aligned_cols=83 Identities=16% Similarity=0.216 Sum_probs=58.9
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHH------------
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVA------------ 75 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~------------ 75 (114)
.|+.+-|+.....|.+.||++.... |++ |+.-++-+.+.+++.+..++..++. ++.+
T Consensus 3 ~~~~~~GNeAvA~aa~~Ag~~v~a~-----YPI----TPsTei~e~la~~~~~g~~~~~~v~~EsE~aA~~~~~GAs~aG 73 (394)
T PRK08367 3 IRTVMKANEAAAWAAKLAKPKVIAA-----FPI----TPSTLVPEKISEFVANGELDAEFIKVESEHSAISACVGASAAG 73 (394)
T ss_pred eeEeccHHHHHHHHHHHhCCCEEEE-----ECC----CCccHHHHHHHHHhhcCCcCeEEEEeCCHHHHHHHHHHHHhhC
Confidence 4678999999999999999996433 444 6668999999999987778777777 3321
Q ss_pred ------------HHHHHHHhhcC-CCccEEEEcCCCCCC
Q psy6439 76 ------------ELIRHCIDDHT-QPIPAVLEIPSKDHP 101 (114)
Q Consensus 76 ------------~~i~d~i~~~~-~~~P~Iv~IP~~~g~ 101 (114)
..+.+.+-... ...|.|+.+..+..+
T Consensus 74 aRa~TaTS~~Gl~lm~E~l~~aag~~lP~V~vv~~R~~~ 112 (394)
T PRK08367 74 VRTFTATASQGLALMHEVLFIAAGMRLPIVMAIGNRALS 112 (394)
T ss_pred CCeEeeeccchHHHHhhHHHHHHHccCCEEEEECCCCCC
Confidence 11233333332 679999999666544
No 35
>PRK09622 porA pyruvate flavodoxin oxidoreductase subunit alpha; Reviewed
Probab=49.58 E-value=38 Score=28.30 Aligned_cols=52 Identities=13% Similarity=0.188 Sum_probs=41.0
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI 70 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i 70 (114)
.|+.+-|+.....|...||++.... |++ |+.-++-+.+.+++.+..++..++
T Consensus 9 ~~~~~~GNeAiA~ga~~Ag~~~~a~-----YPI----TPsTeI~e~la~~~~~g~~~~~~v 60 (407)
T PRK09622 9 EIEVWDGNTAASNALRQAQIDVVAA-----YPI----TPSTPIVQNYGSFKANGYVDGEFV 60 (407)
T ss_pred eeeecchHHHHHHHHHHhCCCEEEE-----ECC----CCccHHHHHHHHHhhCCCcCcEEE
Confidence 5678999999999999999996433 444 666899999999987665655554
No 36
>PRK00696 sucC succinyl-CoA synthetase subunit beta; Provisional
Probab=47.44 E-value=1.3e+02 Score=24.49 Aligned_cols=82 Identities=22% Similarity=0.309 Sum_probs=48.6
Q ss_pred cEEEEEcchh--HHH---HHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--------hHHHH
Q psy6439 10 KLLAVIGDED--TCV---GFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--------QNVAE 76 (114)
Q Consensus 10 ~kIaVIGD~d--tv~---GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--------e~~~~ 76 (114)
.+|++|++-- .++ .+...|... .|++=+-...+++.+.+.|+.+++++++..|++. +.+++
T Consensus 257 ~~i~ii~ng~G~~~~~~D~l~~~g~~~------~NPvDl~g~~~~e~~~~aL~~l~~d~~vd~vlv~~~~~~~~~~~va~ 330 (388)
T PRK00696 257 GNIGCMVNGAGLAMATMDIIKLYGGEP------ANFLDVGGGATAERVAEAFKIILSDPNVKAILVNIFGGITRCDVIAE 330 (388)
T ss_pred CcEEEEECCchHHHHHHHHHHHcCCCc------CCeEEecCCCCHHHHHHHHHHHhcCCCCCEEEEEeCCCCCCHHHHHH
Confidence 5788888741 111 122234321 2455554446779999999999999999877753 23444
Q ss_pred HHHHHHhhcCCCccEEEEcCC
Q psy6439 77 LIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 77 ~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
.+.+...+.+...|+++...+
T Consensus 331 ~i~~~~~~~~~~kPvv~~~~g 351 (388)
T PRK00696 331 GIIAAVKEVGVTVPLVVRLEG 351 (388)
T ss_pred HHHHHHHhcCCCCcEEEEeCC
Confidence 444433332245788777655
No 37
>PLN03194 putative disease resistance protein; Provisional
Probab=46.79 E-value=34 Score=26.11 Aligned_cols=36 Identities=11% Similarity=0.114 Sum_probs=26.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHH--HHHHHhhc
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAEL--IRHCIDDH 85 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~--i~d~i~~~ 85 (114)
+.+...+.+.++.-.++|+++++++++. ..+++..+
T Consensus 68 ~~i~~~L~~AIeeSri~IvVfS~~Ya~S~WCLdEL~~I 105 (187)
T PLN03194 68 DKLFDKINSAIRNCKVGVAVFSPRYCESYFCLHELALI 105 (187)
T ss_pred CcHHHHHHHHHHhCeEEEEEECCCcccchhHHHHHHHH
Confidence 5666677777888999999999997653 44445544
No 38
>cd00403 Ribosomal_L1 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds its own mRNA. Like several other large ribosomal subunit proteins, L1 displays RNA chaperone activity. L1 is one of the largest ribosomal proteins. It is composed of two domains that cycle between open and closed conformations via a hinge motion. The RNA-binding site of L1 is highly conserved, with both mRNA and rRNA binding the same binding site.
Probab=46.61 E-value=85 Score=23.20 Aligned_cols=74 Identities=14% Similarity=0.223 Sum_probs=49.6
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhc---CCCeEEEEEehHHHHHHHH
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIK---RDDVDIILINQNVAELIRH 80 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~---~~digII~ite~~~~~i~d 80 (114)
|.-.+..+|+|+++.+...-=+.+|.+.+ +-+++.+.++..-. ..++-+.+.+.++...+..
T Consensus 47 h~~~~~~~i~v~~~d~~~~~a~~~~a~vi---------------g~~~L~~~~~~~~~~~l~~~~D~fla~~~~~~~~~~ 111 (208)
T cd00403 47 HGLGKDVKVCVFAKDEQAKEAKAAGADVV---------------GGEDLKKKIKNGEAKKLAKDFDLFLADPRIMMLLPK 111 (208)
T ss_pred CCCCCCeEEEEEcChHhHHHHHHcCCCEE---------------cHHHHHHHhhcchhhhhhhcCCEEEECHHHHHHHHH
Confidence 33346799999999777666667777753 22777766655432 1678889999988888777
Q ss_pred HHhhc---CCCccEE
Q psy6439 81 CIDDH---TQPIPAV 92 (114)
Q Consensus 81 ~i~~~---~~~~P~I 92 (114)
.+-+. +...|..
T Consensus 112 ~lgk~~~~k~k~P~~ 126 (208)
T cd00403 112 LLGKVLGPRGKMPNP 126 (208)
T ss_pred HhccccccCCCCCcC
Confidence 67664 3444543
No 39
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=46.32 E-value=55 Score=22.28 Aligned_cols=56 Identities=20% Similarity=0.139 Sum_probs=34.7
Q ss_pred HHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe---hHHHHHHHHHHhhcCCC
Q psy6439 20 TCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN---QNVAELIRHCIDDHTQP 88 (114)
Q Consensus 20 tv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it---e~~~~~i~d~i~~~~~~ 88 (114)
...-|+..|++.++.. ++++.+++.++..+. +..+|.++ +...+.+++.++.+++.
T Consensus 19 ~~~~l~~~G~~vi~lG---------~~vp~e~~~~~a~~~----~~d~V~iS~~~~~~~~~~~~~~~~L~~~ 77 (122)
T cd02071 19 IARALRDAGFEVIYTG---------LRQTPEEIVEAAIQE----DVDVIGLSSLSGGHMTLFPEVIELLREL 77 (122)
T ss_pred HHHHHHHCCCEEEECC---------CCCCHHHHHHHHHHc----CCCEEEEcccchhhHHHHHHHHHHHHhc
Confidence 3456888999987553 334667766665533 44445444 55677777777777533
No 40
>TIGR03710 OAFO_sf 2-oxoacid:acceptor oxidoreductase, alpha subunit. The genes for this enzyme in Prevotella intermedia 17, Persephonella marina EX-H1 and Picrophilus torridus DSM 9790 are in close proximity to a variety of TCA cycle genes. Persephonella marina and P. torridus are believed to encode complete TCA cycles, and none of these contains the lipoate-based 2-oxoglutarate dehydrogenase (E1/E2/E3) system. That system is presumed to be replaced by this one. In fact, the lipoate system is absent in most organisms possessing a member of this family, providing additional circumstantial evidence that many of these enzymes are capable of acting as 2-oxoglutarate dehydrogenases and supporting flux through TCA cycles in either the forward or reverse directions.
Probab=46.26 E-value=82 Score=27.44 Aligned_cols=85 Identities=21% Similarity=0.351 Sum_probs=57.1
Q ss_pred CCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHH-----------
Q psy6439 8 KGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAE----------- 76 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~----------- 76 (114)
...++.+-|++....|.+.||++-... |++ |+.-++-+.|.+.+.+.++-++-..++.+.
T Consensus 190 ~~~~~~l~GNeAvA~ga~~ag~~~~~~-----YPi----TPsTei~e~la~~~~~~~~~~~q~E~E~aA~~~a~GAs~aG 260 (562)
T TIGR03710 190 DGDRILISGNEAIALGAIAAGLRFYAA-----YPI----TPASDILEFLAKHLKKFGVVVVQAEDEIAAINMAIGASYAG 260 (562)
T ss_pred CCcEEEeehHHHHHHHHHHhCCceecc-----cCC----CChhHHHHHHHHhhhhhCcEEEeeccHHHHHHHHHhHHhcC
Confidence 346799999999999999999995432 444 666889999998876655444444444211
Q ss_pred -------------HHHHHHhhc-CCCccEEEEcCCCCCC
Q psy6439 77 -------------LIRHCIDDH-TQPIPAVLEIPSKDHP 101 (114)
Q Consensus 77 -------------~i~d~i~~~-~~~~P~Iv~IP~~~g~ 101 (114)
.+.+.+.-. ....|+|+.+-.+.|+
T Consensus 261 ~Ra~taTSg~Gl~lm~E~l~~a~~~~~P~Vi~~~~R~gp 299 (562)
T TIGR03710 261 ARAMTATSGPGFALMTEALGLAGMTETPLVIVDVQRGGP 299 (562)
T ss_pred CceeecCCCCChhHhHHHHhHHHhccCCEEEEEcccCCC
Confidence 123333211 2567999999888754
No 41
>PTZ00225 60S ribosomal protein L10a; Provisional
Probab=46.20 E-value=77 Score=24.36 Aligned_cols=62 Identities=8% Similarity=0.111 Sum_probs=42.7
Q ss_pred ccccCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHH------HHhhcCCCeEEEEEehHHHHH
Q psy6439 4 HSAVKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAF------RKFIKRDDVDIILINQNVAEL 77 (114)
Q Consensus 4 ~~~~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l------~~l~~~~digII~ite~~~~~ 77 (114)
|.-.+..+|+|++|.+...--+-+|++.+ ..+++.+.. ++|. .+|-+.+-+.++...
T Consensus 54 hg~gk~~kV~v~~~~~~~~~Ak~aGad~v---------------~~e~l~~l~k~~~~~kkl~--~~fD~fiA~~~~m~~ 116 (214)
T PTZ00225 54 NVCRPRMTVCLLCDLVHEDIAKKEGVPTM---------------NQEELKKLNKNKKLVKKMC--NQYDAFLCSESIIKT 116 (214)
T ss_pred CCCCCCcEEEEECChHHHHHHHHCCCCEE---------------CHHHHHHHHhccHHHHHHH--hhCCEEEECHHHHHh
Confidence 55557789999999888877888999942 126664433 2333 468888899888877
Q ss_pred HHHHH
Q psy6439 78 IRHCI 82 (114)
Q Consensus 78 i~d~i 82 (114)
+...+
T Consensus 117 lgk~L 121 (214)
T PTZ00225 117 VPRLV 121 (214)
T ss_pred hhhhc
Confidence 54433
No 42
>cd06332 PBP1_aromatic_compounds_like Type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes. This group includes the type I periplasmic binding proteins of active transport systems that are predicted to be involved in transport of aromatic compounds such as 2-nitrobenzoic acid and alkylbenzenes; their substrate specificities are not well characterized, however. Members also exhibit close similarity to active transport systems for short chain amides and/or urea found in bacteria and archaea.
Probab=44.13 E-value=81 Score=23.87 Aligned_cols=54 Identities=22% Similarity=0.222 Sum_probs=36.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+.+.|...+++...+..+++++++++-.|+. +......+.+.+++ ...|.|.+-
T Consensus 41 l~~~d~~~~~~~~~~~~~~l~~~~~v~~iig~~~s~~~~~~~~~~~~--~~ip~v~~~ 96 (333)
T cd06332 41 VVVEDDELKPDVAVQAARKLIEQDKVDVVVGPVFSNVALAVVPSLTE--SGTFLISPN 96 (333)
T ss_pred EEEecCCCCHHHHHHHHHHHHHHcCCcEEEcCCccHHHHHHHHHHhh--cCCeEEecC
Confidence 4455666677888899999997767766666 34444455555666 557877754
No 43
>TIGR01016 sucCoAbeta succinyl-CoA synthetase, beta subunit. This family contains a split seen both in a maximum parsimony tree (which ignores gaps) and in the gap pattern near position 85 of the seed alignment. Eukaryotic and most bacterial sequences are longer and contain a region similar to TXQTXXXG. Sequences from Deinococcus radiodurans, Mycobacterium tuberculosis, Streptomyces coelicolor, and the Archaea are 6 amino acids shorter in that region and contain a motif resembling [KR]G
Probab=43.65 E-value=1.3e+02 Score=24.57 Aligned_cols=82 Identities=21% Similarity=0.281 Sum_probs=50.7
Q ss_pred cEEEEEcchh-----HHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--------hHHHH
Q psy6439 10 KLLAVIGDED-----TCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--------QNVAE 76 (114)
Q Consensus 10 ~kIaVIGD~d-----tv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--------e~~~~ 76 (114)
-+|++|++-- |.=-+...|... .||+=+-...+++.+.++|+.+++++++..|++. +.+++
T Consensus 257 G~i~~i~nG~Gl~~~t~D~~~~~g~~~------aNplDlgg~a~~~~~~~al~~l~~dp~vd~ilv~i~gg~~~~~~va~ 330 (386)
T TIGR01016 257 GNIGCMVNGAGLAMATMDIIKLYGGEP------ANFLDVGGGASAERVREALKLVLSDKSVKVVFINIFGGITRCDLVAK 330 (386)
T ss_pred CcEEEEECCccHHHHHHHHHHHcCCCC------CCcEEecCCCCHHHHHHHHHHHHcCCCCCEEEEECCCCCCCHHHHHH
Confidence 4677777621 111233445442 3566664446779999999999999999888863 22454
Q ss_pred HHHHHHhhcCCCccEEEEcCC
Q psy6439 77 LIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 77 ~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
.+-+...++....|+++.+.+
T Consensus 331 ~i~~a~~~~~~~kPvvv~~~g 351 (386)
T TIGR01016 331 GLVEALKEVGVNVPVVVRLEG 351 (386)
T ss_pred HHHHHHHhcCCCCcEEEEeCC
Confidence 444444443333798887754
No 44
>PRK09627 oorA 2-oxoglutarate-acceptor oxidoreductase subunit OorA; Reviewed
Probab=43.51 E-value=73 Score=26.42 Aligned_cols=54 Identities=13% Similarity=0.063 Sum_probs=40.0
Q ss_pred EEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 11 LLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 11 kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
++.+-|+.....|...+|++-. .-.|=|+.-++-+.|.+...+-+...+-..++
T Consensus 3 ~~~~~GNeAiA~ga~~ag~~~~---------a~YPITPsTeI~e~la~~~~~~g~~~vq~E~E 56 (375)
T PRK09627 3 EIISTGNELVAKAAIECGCRFF---------GGYPITPSSEIAHEMSVLLPKCGGTFIQMEDE 56 (375)
T ss_pred ceEechHHHHHHHHHHhCCCEE---------EEeCCCChhHHHHHHHHHHHHcCCEEEEcCCH
Confidence 6788999999999999999953 33455667899888888876544444444444
No 45
>PF04723 GRDA: Glycine reductase complex selenoprotein A; InterPro: IPR006812 Found in clostridia, this protein contains one active site selenocysteine and catalyses the reductive deamination of glycine, which is coupled to the esterification of orthophosphate resulting in the formation of ATP []. A member of this family may also exist in Treponema denticola [].; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=42.86 E-value=39 Score=24.97 Aligned_cols=35 Identities=26% Similarity=0.415 Sum_probs=24.4
Q ss_pred CCcEEEEEcchhHHHH------HhhccccceeccCCCceeee
Q psy6439 8 KGKLLAVIGDEDTCVG------FLLGGIGEINKHRQPNFLVV 43 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~G------FrLaGi~~~~~~~~~nf~vv 43 (114)
..+|+.+|||+|-+-| ++-+|.+.+|...+- |+|.
T Consensus 4 ~gkKviiiGdRDGiPgpAie~c~~~~gaevvfs~TeC-FVct 44 (150)
T PF04723_consen 4 EGKKVIIIGDRDGIPGPAIEECVKTAGAEVVFSSTEC-FVCT 44 (150)
T ss_pred CCcEEEEEecCCCCCcHHHHHHHHhcCceEEEEeeeE-EEec
Confidence 4789999999997655 566677766655442 5554
No 46
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=42.85 E-value=1.2e+02 Score=21.90 Aligned_cols=88 Identities=13% Similarity=0.023 Sum_probs=44.9
Q ss_pred CCcEEEEEcchh--HHHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcC-CC-eEEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDED--TCVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKR-DD-VDIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~d--tv~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~-~d-igII~ite~~~~~i~d 80 (114)
...+|++++... ...--|..|+........ .+..+.....+.++..+.++.+++. ++ -||+..++.++..+-.
T Consensus 113 g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~ 192 (260)
T cd06286 113 GYRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLLKMKDRPDAIFTGSDEVAAGIIT 192 (260)
T ss_pred CCceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCChHheEeCCCCHHHHHHHHHHHHcCCCCCCEEEEcchHHHHHHHH
Confidence 457899996532 233334444443221111 0111222223445667778888754 23 3666666667767766
Q ss_pred HHhhcCCCcc---EEEEc
Q psy6439 81 CIDDHTQPIP---AVLEI 95 (114)
Q Consensus 81 ~i~~~~~~~P---~Iv~I 95 (114)
.+.+.....| .|+-+
T Consensus 193 ~l~~~g~~ip~di~v~g~ 210 (260)
T cd06286 193 EAKKQGIRVPEDLAIIGF 210 (260)
T ss_pred HHHHcCCCCCcceEEEee
Confidence 6776543223 55554
No 47
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=42.73 E-value=1.5e+02 Score=25.97 Aligned_cols=84 Identities=15% Similarity=0.095 Sum_probs=53.9
Q ss_pred EEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhc-----CC---------C------eEEEEEeh
Q psy6439 13 AVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIK-----RD---------D------VDIILINQ 72 (114)
Q Consensus 13 aVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~-----~~---------d------igII~ite 72 (114)
+||||-=++--=+-+|..+++.. +.+.+..+|++.++ +. + ..=|+=..
T Consensus 158 ~vvG~~~~~~~A~~~g~~g~~~~------------s~e~i~~a~~~A~~~~~~~~~~~~~~~~~~~~~~~~~f~~iiG~S 225 (538)
T PRK15424 158 AVVGAGLITDLAEEAGMTGIFIY------------SAATVRQAFEDALDMTRMTLRHNTHYATRNALRTRYVLGDLLGQS 225 (538)
T ss_pred EEEcCchHHHHHHHhCCceEEec------------CHHHHHHHHHHHHHHHHHHhhhhhccchhhhhccccchhheeeCC
Confidence 57888777777777888886431 23788877776642 11 1 11134445
Q ss_pred HHHHHHHHHHhhc-CCCccEEEEcCCCCCCCCCCccchhhhc
Q psy6439 73 NVAELIRHCIDDH-TQPIPAVLEIPSKDHPYDASKDSILRRA 113 (114)
Q Consensus 73 ~~~~~i~d~i~~~-~~~~P~Iv~IP~~~g~~~~~~d~i~~~~ 113 (114)
...+.+++.+..+ ....|+.|. |..|-+|+.+++.|
T Consensus 226 ~~m~~~~~~i~~~A~s~~pVLI~-----GE~GTGKe~~A~~I 262 (538)
T PRK15424 226 PQMEQVRQTILLYARSSAAVLIQ-----GETGTGKELAAQAI 262 (538)
T ss_pred HHHHHHHHHHHHHhCCCCcEEEE-----CCCCCCHHHHHHHH
Confidence 5677788888887 466777765 55556888888765
No 48
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=42.72 E-value=90 Score=21.34 Aligned_cols=69 Identities=19% Similarity=0.399 Sum_probs=41.6
Q ss_pred cEEEEEcc--hhHHHHHhhc---cccceeccCC--------CceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH--H
Q psy6439 10 KLLAVIGD--EDTCVGFLLG---GIGEINKHRQ--------PNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN--V 74 (114)
Q Consensus 10 ~kIaVIGD--~dtv~GFrLa---Gi~~~~~~~~--------~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~--~ 74 (114)
+||.|||+ +|-.+..+|. -++.+|+.-. +++.+ +. .+... +.++.+++++.++++..+ +
T Consensus 1 MkVLviGsGgREHAia~~l~~s~~v~~v~~aPGN~G~~~~~~~~~~-~~----~d~~~-l~~~a~~~~idlvvvGPE~pL 74 (100)
T PF02844_consen 1 MKVLVIGSGGREHAIAWKLSQSPSVEEVYVAPGNPGTAELGKNVPI-DI----TDPEE-LADFAKENKIDLVVVGPEAPL 74 (100)
T ss_dssp EEEEEEESSHHHHHHHHHHTTCTTEEEEEEEE--TTGGGTSEEE-S--T----T-HHH-HHHHHHHTTESEEEESSHHHH
T ss_pred CEEEEECCCHHHHHHHHHHhcCCCCCEEEEeCCCHHHHhhceecCC-CC----CCHHH-HHHHHHHcCCCEEEECChHHH
Confidence 47889988 8999988885 3344443211 11111 22 33333 334556789999999877 5
Q ss_pred HHHHHHHHhh
Q psy6439 75 AELIRHCIDD 84 (114)
Q Consensus 75 ~~~i~d~i~~ 84 (114)
+.-+.|.+.+
T Consensus 75 ~~Gl~D~l~~ 84 (100)
T PF02844_consen 75 VAGLADALRA 84 (100)
T ss_dssp HTTHHHHHHH
T ss_pred HHHHHHHHHH
Confidence 6667777766
No 49
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=42.21 E-value=1.7e+02 Score=23.12 Aligned_cols=72 Identities=17% Similarity=0.162 Sum_probs=45.4
Q ss_pred hhHHHHHhhc--------cccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE-ehHHHHHHHHHHhhcCCC
Q psy6439 18 EDTCVGFLLG--------GIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI-NQNVAELIRHCIDDHTQP 88 (114)
Q Consensus 18 ~dtv~GFrLa--------Gi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i-te~~~~~i~d~i~~~~~~ 88 (114)
.....|++|+ ||.+... .+++.|...+++...+..++|+.++++.+|.- +......+.+.+++ ..
T Consensus 17 ~~~~~g~~la~~~iNa~GGI~Gr~i----elv~~D~~~~p~~a~~~a~~Li~~~~V~~i~~~~S~~~~a~~~~~~~--~~ 90 (351)
T cd06334 17 IPYAAGFADYFKYINEDGGINGVKL----EWEECDTGYEVPRGVECYERLKGEDGAVAFQGWSTGITEALIPKIAA--DK 90 (351)
T ss_pred hhHHHHHHHHHHHHHHcCCcCCeEE----EEEEecCCCCcHHHHHHHHHHhccCCcEEEecCcHHHHHHhhHHHhh--cC
Confidence 4566777765 6654211 15566777788999999999998777766542 12233345555665 56
Q ss_pred ccEEEEc
Q psy6439 89 IPAVLEI 95 (114)
Q Consensus 89 ~P~Iv~I 95 (114)
.|+|.+-
T Consensus 91 vp~i~~~ 97 (351)
T cd06334 91 IPLMSGS 97 (351)
T ss_pred CcEEecc
Confidence 7877753
No 50
>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A ....
Probab=41.30 E-value=84 Score=22.44 Aligned_cols=36 Identities=17% Similarity=0.273 Sum_probs=24.4
Q ss_pred HHHHHHHHHhhcCC--CeEEEEEehHHHHHHHHHHhhc
Q psy6439 50 SDIEEAFRKFIKRD--DVDIILINQNVAELIRHCIDDH 85 (114)
Q Consensus 50 ee~~~~l~~l~~~~--digII~ite~~~~~i~d~i~~~ 85 (114)
.++.++|.+.++.+ ++-+|++|++....+....+++
T Consensus 116 ~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc 153 (162)
T PF13177_consen 116 EEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRC 153 (162)
T ss_dssp HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTS
T ss_pred HHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhc
Confidence 67777888888776 6788888887766665555554
No 51
>PF05116 S6PP: Sucrose-6F-phosphate phosphohydrolase; InterPro: IPR006380 This family of sequences represent sucrose phosphate phosphohydrolase (SPP) from plants and cyanobacteria []. SPP is a member of the Class IIB subfamily of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. SPP catalyzes the final step in the biosynthesis of sucrose, a critically important molecule for plants. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.; PDB: 1TJ5_A 2B1Q_A 1TJ4_A 1S2O_A 1U2T_A 2D2V_A 1TJ3_A 1U2S_A 2B1R_A 3GYG_B ....
Probab=41.29 E-value=76 Score=24.29 Aligned_cols=41 Identities=10% Similarity=0.293 Sum_probs=28.3
Q ss_pred HHHHHHHHHhhc---CCCeEEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 50 SDIEEAFRKFIK---RDDVDIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 50 ee~~~~l~~l~~---~~digII~ite~~~~~i~d~i~~~~~~~P 90 (114)
....+.|.++++ +.++.++++|-+-.+.+++.+.++.-..|
T Consensus 18 ~~~~~~l~~~l~~~~~~~~~~v~~TGRs~~~~~~~~~~~~l~~P 61 (247)
T PF05116_consen 18 DEALARLEELLEQQARPEILFVYVTGRSLESVLRLLREYNLPQP 61 (247)
T ss_dssp HHHHHHHHHHHHHHHCCGEEEEEE-SS-HHHHHHHHHHCT-EE-
T ss_pred HHHHHHHHHHHHHhhCCCceEEEECCCCHHHHHHHHHhCCCCCC
Confidence 344455555655 99999999999999999998888654444
No 52
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=41.03 E-value=1.4e+02 Score=21.68 Aligned_cols=80 Identities=14% Similarity=0.138 Sum_probs=42.1
Q ss_pred CCcEEEEEcchhH--HHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcC-CCeEEEEE-ehHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDT--CVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKR-DDVDIILI-NQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~-~digII~i-te~~~~~i~d 80 (114)
...+|+++++... ..--|..|+........ .++.+...+.+.++..+.+.+++.. +++-.|+. ++..+..+-.
T Consensus 121 g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~ 200 (270)
T cd06294 121 GHKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVATDDLLALGVLK 200 (270)
T ss_pred CCccEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEecCCchHHHHHHHHHHHhCCCCCCEEEECChHHHHHHHH
Confidence 3578999976432 22335666654332211 1122222223446677788888753 34544444 4446766666
Q ss_pred HHhhcCC
Q psy6439 81 CIDDHTQ 87 (114)
Q Consensus 81 ~i~~~~~ 87 (114)
.+.+...
T Consensus 201 al~~~g~ 207 (270)
T cd06294 201 VLNELGL 207 (270)
T ss_pred HHHHcCC
Confidence 6666543
No 53
>PRK06849 hypothetical protein; Provisional
Probab=40.85 E-value=1.5e+02 Score=23.87 Aligned_cols=67 Identities=13% Similarity=0.191 Sum_probs=42.7
Q ss_pred cCCcEEEEEcchh-----HHHHHhhccccceeccCCC-----------ceeee-cCCCCHHHHHHHHHHhhcCCCeEEEE
Q psy6439 7 VKGKLLAVIGDED-----TCVGFLLGGIGEINKHRQP-----------NFLVV-DKNTSVSDIEEAFRKFIKRDDVDIIL 69 (114)
Q Consensus 7 ~~~~kIaVIGD~d-----tv~GFrLaGi~~~~~~~~~-----------nf~vv-~~~~~~ee~~~~l~~l~~~~digII~ 69 (114)
++.++|.|+|... .+--|+-+|.+.+.....+ .|+.+ .+..++++..+.|.++.+++++.+|+
T Consensus 2 ~~~~~VLI~G~~~~~~l~iar~l~~~G~~Vi~~d~~~~~~~~~s~~~d~~~~~p~p~~d~~~~~~~L~~i~~~~~id~vI 81 (389)
T PRK06849 2 NTKKTVLITGARAPAALELARLFHNAGHTVILADSLKYPLSRFSRAVDGFYTIPSPRWDPDAYIQALLSIVQRENIDLLI 81 (389)
T ss_pred CCCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEEeCCchHHHHHHHhhhheEEeCCCCCCHHHHHHHHHHHHHHcCCCEEE
Confidence 3457788888754 4555666677654443332 13334 24445677778888888888888887
Q ss_pred EehH
Q psy6439 70 INQN 73 (114)
Q Consensus 70 ite~ 73 (114)
-+.+
T Consensus 82 P~~e 85 (389)
T PRK06849 82 PTCE 85 (389)
T ss_pred ECCh
Confidence 7655
No 54
>PF13382 Adenine_deam_C: Adenine deaminase C-terminal domain; PDB: 3T8L_B 3T81_A 3NQB_A.
Probab=40.33 E-value=57 Score=24.31 Aligned_cols=47 Identities=19% Similarity=0.364 Sum_probs=33.2
Q ss_pred HhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 24 FLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 24 FrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
++..++-..+.|+--|.+++-. +++++..+++++.+..+ |++++.+.
T Consensus 52 ~~~GAiAsS~ahDshniiviG~--~~~dm~~A~n~l~~~gG-G~vvv~~g 98 (171)
T PF13382_consen 52 LKRGAIASSVAHDSHNIIVIGT--NDEDMALAANRLIEMGG-GIVVVDDG 98 (171)
T ss_dssp -BSSEEEES--TTT--EEEEES--SHHHHHHHHHHHHHTTS-EEEEEETT
T ss_pred ccCCeEEEEcccCCCCEEEEEC--CHHHHHHHHHHHHHhCC-CEEEEECC
Confidence 3557788888998889888865 56999999999997655 88877543
No 55
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=39.98 E-value=1.2e+02 Score=20.85 Aligned_cols=19 Identities=32% Similarity=0.279 Sum_probs=13.1
Q ss_pred cEEEEEcchhHHHHHhhccc
Q psy6439 10 KLLAVIGDEDTCVGFLLGGI 29 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi 29 (114)
++|.++||+-|- |+...+.
T Consensus 1 ~~iv~~GdS~t~-~~~~~~~ 19 (174)
T cd01841 1 KNIVFIGDSLFE-GWPLYEA 19 (174)
T ss_pred CCEEEEcchhhh-cCchhhh
Confidence 479999998764 5555443
No 56
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=39.92 E-value=64 Score=21.95 Aligned_cols=38 Identities=18% Similarity=0.371 Sum_probs=21.8
Q ss_pred HHHHHHHHHhhcCCCeEEEEEe------------hHHHHHHHHHHhhcCC
Q psy6439 50 SDIEEAFRKFIKRDDVDIILIN------------QNVAELIRHCIDDHTQ 87 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~it------------e~~~~~i~d~i~~~~~ 87 (114)
.++.+.+.+.+...+..+|++. +.+.+.++..|+.++.
T Consensus 26 ~~~~~~~~~~~~~~~pd~vvi~~G~ND~~~~~~~~~~~~~~~~~i~~i~~ 75 (157)
T cd01833 26 DQIAAAAADWVLAAKPDVVLLHLGTNDLVLNRDPDTAPDRLRALIDQMRA 75 (157)
T ss_pred HHHHHHhhhccccCCCCEEEEeccCcccccCCCHHHHHHHHHHHHHHHHH
Confidence 5566666556655555555552 2245666667776643
No 57
>cd06337 PBP1_ABC_ligand_binding_like_4 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=39.64 E-value=1.1e+02 Score=24.09 Aligned_cols=53 Identities=15% Similarity=0.303 Sum_probs=38.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh--HHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ--NVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~ite--~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+++.|...+++...+..++|++++++-+|+-+. .....+.+.+++ ...|.|.+
T Consensus 45 lv~~D~~~~p~~a~~~a~~li~~d~v~~iiG~~~s~~~~a~~~~~~~--~~ip~i~~ 99 (357)
T cd06337 45 IIVRDSQSNPNRAGLVAQELILTDKVDLLLAGGTPDTTNPVSDQCEA--NGVPCIST 99 (357)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCccEEEecCCcchhhHHHHHHHH--hCCCeEEe
Confidence 555577778899999999999888887777433 344455566666 56888764
No 58
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=39.59 E-value=1e+02 Score=23.11 Aligned_cols=83 Identities=10% Similarity=0.069 Sum_probs=42.5
Q ss_pred CCcEEEEEcchhH--HHHHhhccccceeccCCCce---eeecCCCCHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDT--CVGFLLGGIGEINKHRQPNF---LVVDKNTSVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~~nf---~vv~~~~~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d 80 (114)
...+|++++.... ..=.|..|+.......+-.+ .....+.+.++..+.+++++++. +. ||+..++.++..+-.
T Consensus 151 G~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~gv~~ 230 (309)
T PRK11041 151 GHKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARGDFTFEAGAKALKQLLDLPQPPTAVFCHSDVMALGALS 230 (309)
T ss_pred CCceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeCCCCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHH
Confidence 3578999964322 11234555443222111100 11122234577778888888654 34 666666666666666
Q ss_pred HHhhcCCCcc
Q psy6439 81 CIDDHTQPIP 90 (114)
Q Consensus 81 ~i~~~~~~~P 90 (114)
.+.+.....|
T Consensus 231 al~~~g~~ip 240 (309)
T PRK11041 231 QAKRMGLRVP 240 (309)
T ss_pred HHHHcCCCCC
Confidence 6666543334
No 59
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=39.44 E-value=1.1e+02 Score=23.39 Aligned_cols=49 Identities=16% Similarity=0.141 Sum_probs=30.5
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCcc---EEEEcC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIP---AVLEIP 96 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P---~Iv~IP 96 (114)
+.++..+.++++++..--||+..++.++-.+-..+.+..-..| .|+-+-
T Consensus 221 ~~~~~~~~~~~ll~~~p~ai~~~~d~~A~g~~~al~~~g~~vP~dvsvvgfd 272 (329)
T TIGR01481 221 SYDAGYKAFAELKGSLPTAVFVASDEMAAGILNAAMDAGIKVPEDLEVITSN 272 (329)
T ss_pred ChHHHHHHHHHHhCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 4466667788887654357777777777666666666543334 444443
No 60
>PF08747 DUF1788: Domain of unknown function (DUF1788); InterPro: IPR014858 This entry represents a putative uncharacterised protein of length around 200 amino acids.
Probab=39.21 E-value=1.2e+02 Score=21.33 Aligned_cols=51 Identities=16% Similarity=0.294 Sum_probs=34.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehH--HHH--HHHHHHhhcC---CCccEEEEcCCCCC
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQN--VAE--LIRHCIDDHT---QPIPAVLEIPSKDH 100 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~--~~~--~i~d~i~~~~---~~~P~Iv~IP~~~g 100 (114)
+.+.+.+.+-...++-.||++|.= ++. +..+.++++. ...|+|+.-|+...
T Consensus 47 ~~i~~~i~~~~~~~~~~vv~ltGvG~l~P~~R~h~lL~~l~~~~~~~plv~FyPG~y~ 104 (126)
T PF08747_consen 47 EKIAEYIQEELEDDDRDVVFLTGVGSLFPFIRSHELLNNLQPKFGNVPLVVFYPGEYD 104 (126)
T ss_pred HHHHHHHHHhccCCCCcEEEEeCcchhcchhhHHHHHHHHHHHhcCCeEEEECCceec
Confidence 666666666655677889999853 322 3344555552 56899999998753
No 61
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=39.19 E-value=1.2e+02 Score=22.00 Aligned_cols=79 Identities=20% Similarity=0.073 Sum_probs=41.6
Q ss_pred CCcEEEEEcchhH--HHHHhhccccceeccCCC---ceeeecCCCCHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDT--CVGFLLGGIGEINKHRQP---NFLVVDKNTSVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~~---nf~vv~~~~~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d 80 (114)
...+|+++++... ..--|..|+.......+. .+.+...+.+.++..+.+++++++. + -||+..++..+..+-+
T Consensus 115 g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~ 194 (269)
T cd06288 115 GHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWSADDGYEAAAALLDLDDRPTAIFCGNDRMAMGAYQ 194 (269)
T ss_pred CCceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCChHHHHHHHHHHHhCCCCCCEEEEeCcHHHHHHHH
Confidence 4578999976432 223355655543222110 1112222234466777788887543 3 4555555666666666
Q ss_pred HHhhcC
Q psy6439 81 CIDDHT 86 (114)
Q Consensus 81 ~i~~~~ 86 (114)
.+.+..
T Consensus 195 ~l~~~g 200 (269)
T cd06288 195 ALLERG 200 (269)
T ss_pred HHHHcC
Confidence 666654
No 62
>cd07019 S49_SppA_1 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppAs in this subfamily are found in all three domains of life and are involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members, the E. coli SppA contains an amino-te
Probab=39.19 E-value=1.3e+02 Score=22.42 Aligned_cols=51 Identities=18% Similarity=0.195 Sum_probs=38.4
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcC-CCccEEEEcCCC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHT-QPIPAVLEIPSK 98 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~-~~~P~Iv~IP~~ 98 (114)
+-+++.+.|+++.+++++..|+++-+ -.+.+++.+..++ ...|+|..+.+.
T Consensus 22 ~~~~l~~~l~~a~~d~~v~~ivL~~~s~Gg~~~~~~~~~~~l~~~~~~~kpVia~v~g~ 80 (211)
T cd07019 22 GGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSAGGA 80 (211)
T ss_pred CHHHHHHHHHHHhhCCCceEEEEEEcCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCe
Confidence 44899999999999999998888633 1345566666664 678999988765
No 63
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=38.86 E-value=1.5e+02 Score=21.85 Aligned_cols=45 Identities=9% Similarity=0.116 Sum_probs=24.1
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEE
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv 93 (114)
+++...+.++.+..+.==|||++.....+.+.+.+++. ...|+|+
T Consensus 41 ~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~-~~ipvv~ 85 (260)
T cd06304 41 EDADYEPNLRQLAAQGYDLIFGVGFGFMDAVEKVAKEY-PDVKFAI 85 (260)
T ss_pred CHHHHHHHHHHHHHcCCCEEEECCcchhHHHHHHHHHC-CCCEEEE
Confidence 44556677888776542367776544444444444431 1357444
No 64
>cd07014 S49_SppA Signal peptide peptidase A. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV): SppA is an intramembrane enzyme found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown these bacterial, archaeal and thylakoid SppAs to be ClpP-like serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain, cleaving peptide bonds in the plane of the lipid bilayer. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad (both residues absolutely conserved within bacteria, chloroplast and mitochondrial signal peptidase family members) and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases. In addition to the carboxyl-terminal p
Probab=38.53 E-value=1.4e+02 Score=21.39 Aligned_cols=51 Identities=20% Similarity=0.171 Sum_probs=38.2
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcC-CCccEEEEcCCC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHT-QPIPAVLEIPSK 98 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~-~~~P~Iv~IP~~ 98 (114)
+-+++.++|+++.+++++..|+++-+ ..+.+++.+..++ ...|+|-.+.+.
T Consensus 23 ~~~~l~~~l~~a~~d~~v~~vvl~~~~~gg~~~~~~~~~~~i~~~~~~~kpVia~v~G~ 81 (177)
T cd07014 23 SGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVASGGGN 81 (177)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEeeCCCcCHHHHHHHHHHHHHHHhCCCCEEEEECCc
Confidence 45899999999999999988877743 2345666666664 678999888643
No 65
>PRK14046 malate--CoA ligase subunit beta; Provisional
Probab=38.34 E-value=1.7e+02 Score=24.35 Aligned_cols=59 Identities=29% Similarity=0.420 Sum_probs=40.4
Q ss_pred ceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--------hHHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 39 NFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--------QNVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 39 nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--------e~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
||+=+-...+++.+.+.|+.+++++++..|++. ..+++.+.+...+.....|+++-+.+
T Consensus 285 NPlDlgg~a~~e~~~~aL~~ll~Dp~VdaVlv~i~ggi~~~~~vA~~Ii~a~~~~~~~kPvvv~l~G 351 (392)
T PRK14046 285 NFLDVGGGASPERVAKAFRLVLSDRNVKAILVNIFAGINRCDWVAEGVVQAAREVGIDVPLVVRLAG 351 (392)
T ss_pred CCEEecCCCCHHHHHHHHHHHHcCCCCCEEEEEcCCCCCCHHHHHHHHHHHHHhcCCCCcEEEEcCC
Confidence 566665556789999999999999999888863 12444444444332245798887754
No 66
>cd06348 PBP1_ABC_ligand_binding_like_13 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=38.17 E-value=1.6e+02 Score=22.61 Aligned_cols=73 Identities=18% Similarity=0.231 Sum_probs=47.3
Q ss_pred hhHHHHHhhc--------cccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCC
Q psy6439 18 EDTCVGFLLG--------GIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQ 87 (114)
Q Consensus 18 ~dtv~GFrLa--------Gi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~ 87 (114)
++...|++|+ |+.+.-. .+++.|...+++...++.++|+.++++-+|+= +......+....++ .
T Consensus 17 ~~~~~g~~~a~~~iNa~ggi~G~~v----~lv~~D~~~~p~~a~~~~~~li~~~~v~~iiG~~~s~~~~a~~~~~~~--~ 90 (344)
T cd06348 17 QEQLAGLKLAEDRFNQAGGVNGRPI----KLVIEDSGGDEAEAINAFQTLINKDRVLAIIGPTLSQQAFAADPIAER--A 90 (344)
T ss_pred HhHHHHHHHHHHHHhhcCCcCCcEE----EEEEecCCCChHHHHHHHHHHhhhcCceEEECCCCcHHHHhhhHHHHh--C
Confidence 4677787775 4554211 25666777788999999999998767766663 23344445555555 5
Q ss_pred CccEEEEcC
Q psy6439 88 PIPAVLEIP 96 (114)
Q Consensus 88 ~~P~Iv~IP 96 (114)
..|.|.+-+
T Consensus 91 ~ip~i~~~~ 99 (344)
T cd06348 91 GVPVVGPSN 99 (344)
T ss_pred CCCEEeccC
Confidence 588887544
No 67
>TIGR01769 GGGP geranylgeranylglyceryl phosphate synthase. This model represents geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The active enzyme is reported to be a homopentamer in Methanobacterium thermoautotrophicum but is reported to be a homodimer in Thermoplasma acidophilum.
Probab=38.14 E-value=1.1e+02 Score=23.43 Aligned_cols=64 Identities=17% Similarity=0.321 Sum_probs=35.9
Q ss_pred eecCCCCHHHHHHHHHHhhcCCCeEEEEEehH---HHHHHHHHHhhcC--CCccEEEEcCCCCCCCCCCccc
Q psy6439 42 VVDKNTSVSDIEEAFRKFIKRDDVDIILINQN---VAELIRHCIDDHT--QPIPAVLEIPSKDHPYDASKDS 108 (114)
Q Consensus 42 vv~~~~~~ee~~~~l~~l~~~~digII~ite~---~~~~i~d~i~~~~--~~~P~Iv~IP~~~g~~~~~~d~ 108 (114)
..||+-. +++.+..+++. .-+.-.|++.-. -.+.+.+.+..++ ...|+|++ |+......++-|.
T Consensus 4 ~iDP~k~-e~~~~ia~~v~-~~gtDaI~VGGS~gvt~~~~~~~v~~ik~~~~lPvilf-p~~~~~i~~~aD~ 72 (205)
T TIGR01769 4 LIDPEKS-DEIEKIAKNAK-DAGTDAIMVGGSLGIVESNLDQTVKKIKKITNLPVILF-PGNVNGLSRYADA 72 (205)
T ss_pred ccCCCcH-HHHHHHHHHHH-hcCCCEEEEcCcCCCCHHHHHHHHHHHHhhcCCCEEEE-CCCccccCcCCCE
Confidence 3466433 66666556665 444555666422 2455666666665 35899997 5444444455443
No 68
>PF07905 PucR: Purine catabolism regulatory protein-like family; InterPro: IPR012914 This domain is found in the purine catabolism regulatory protein expressed by Bacillus subtilis (PucR, O32138 from SWISSPROT). PucR is thought to be a transcriptional regulator of genes involved in the purine degradation pathway, and may contain a LysR-like DNA-binding domain. It is similar to LysR-type regulators in that it represses its own expression []. The other members of this family are also putative regulatory proteins.
Probab=37.84 E-value=41 Score=23.05 Aligned_cols=48 Identities=17% Similarity=0.254 Sum_probs=33.5
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc--CCCccEEEEcCC
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH--TQPIPAVLEIPS 97 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~--~~~~P~Iv~IP~ 97 (114)
++++.+.++++.+..--|+++-+......+.+++-++ +..+|++ ++|.
T Consensus 58 ~~~~~~~i~~L~~~~~agL~i~~~~~~~~iP~~~i~~A~~~~lPli-~ip~ 107 (123)
T PF07905_consen 58 EEELREFIRELAEKGAAGLGIKTGRYLDEIPEEIIELADELGLPLI-EIPW 107 (123)
T ss_pred HHHHHHHHHHHHHCCCeEEEEeccCccccCCHHHHHHHHHcCCCEE-EeCC
Confidence 3569999999998888888887775555555554444 2668864 5666
No 69
>cd06330 PBP1_Arsenic_SBP_like Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea that is predicted to be involved in the efflux of toxic compounds. Members of this subgroup include proteins from Herminiimonas arsenicoxydans, which is resistant to arsenic and various heavy metals such as cadmium and zinc. Moreover, they show significant sequence similarity to the cluster of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa.
Probab=37.81 E-value=1.7e+02 Score=22.46 Aligned_cols=56 Identities=16% Similarity=0.307 Sum_probs=39.6
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEE--EehHHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIIL--INQNVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~--ite~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
+.+.|...+++...+..++++.++++..|+ .+......+.+.+++ ...|+|..-++
T Consensus 43 ~~~~D~~~~~~~a~~~a~~li~~~~v~aiig~~~s~~~~~~~~~~~~--~~ip~i~~~s~ 100 (346)
T cd06330 43 LVVRDEAGKPDEAIREARELVENEGVDMLIGLISSGVALAVAPVAEE--LKVFFIATDPG 100 (346)
T ss_pred EEEecCCCCHHHHHHHHHHHHhccCCcEEEcccchHHHHHHHHHHHH--cCCeEEEcCCC
Confidence 555566667788889999999876776666 355566666676776 56888876543
No 70
>PRK08659 2-oxoglutarate ferredoxin oxidoreductase subunit alpha; Validated
Probab=37.80 E-value=1.4e+02 Score=24.74 Aligned_cols=51 Identities=20% Similarity=0.229 Sum_probs=39.7
Q ss_pred cEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe
Q psy6439 10 KLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71 (114)
Q Consensus 10 ~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it 71 (114)
+++.+-|++....|...+|++.. .-.|=|+..++-+.|.+...+ ++..++.
T Consensus 3 ~~~~~~GNeAiA~ga~~ag~~~~---------a~YPITPsTei~e~la~~~~~--~~~~~vq 53 (376)
T PRK08659 3 KVDFLQGNEACAEGAIAAGCRFF---------AGYPITPSTEIAEVMARELPK--VGGVFIQ 53 (376)
T ss_pred ceEEeehHHHHHHHHHHhCCCEE---------EEcCCCChHHHHHHHHHhhhh--hCCEEEE
Confidence 57889999999999999999954 335557779999999888754 5555554
No 71
>PRK07119 2-ketoisovalerate ferredoxin reductase; Validated
Probab=37.61 E-value=64 Score=26.41 Aligned_cols=49 Identities=16% Similarity=0.137 Sum_probs=37.5
Q ss_pred EEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE
Q psy6439 11 LLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI 70 (114)
Q Consensus 11 kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i 70 (114)
|+.+-|+.....|.+.+|++... -.|=|+.-++-+.|.+..+ +++.+++
T Consensus 4 ~~~~~GNeAiA~ga~~ag~~~~a---------~YPiTPsTeI~e~la~~~~--~~~~~~v 52 (352)
T PRK07119 4 KVLMKGNEAIAEAAIRAGCRCYF---------GYPITPQSEIPEYMSRRLP--EVGGVFV 52 (352)
T ss_pred eeeehHHHHHHHHHHHhCCCEEE---------EeCCCCchHHHHHHHHHHH--HhCCEEE
Confidence 67899999999999999999643 3444666888888888875 4545553
No 72
>PRK13265 glycine/sarcosine/betaine reductase complex protein A; Reviewed
Probab=37.36 E-value=68 Score=23.74 Aligned_cols=35 Identities=26% Similarity=0.399 Sum_probs=23.8
Q ss_pred CCcEEEEEcchhHHHH------HhhccccceeccCCCceeee
Q psy6439 8 KGKLLAVIGDEDTCVG------FLLGGIGEINKHRQPNFLVV 43 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~G------FrLaGi~~~~~~~~~nf~vv 43 (114)
..+|+.+|||+|-+-| ++-+|.+.+|....= |+|.
T Consensus 5 ~gKkviiiGdRDGiPgpAie~c~k~~gaevvfs~TEC-fVct 45 (154)
T PRK13265 5 EGKKVIIIGDRDGIPGPAIEECVKTTGAEVVFSSTEC-FVUT 45 (154)
T ss_pred cCcEEEEEecCCCCCcHHHHHHHhccCceEEEEeeeE-EEee
Confidence 4799999999997665 455677766554331 5554
No 73
>cd06335 PBP1_ABC_ligand_binding_like_2 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=37.13 E-value=1.6e+02 Score=22.99 Aligned_cols=56 Identities=14% Similarity=0.090 Sum_probs=40.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
+++.|...+++...+..++|++++++-.|+=. ......+.+.+++ ...|+|-+..+
T Consensus 43 lv~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~--~~vp~i~~~~~ 100 (347)
T cd06335 43 LVERDDRGNPARGLQNAQELAADEKVVAVLGGLHTPVALANLEFIQQ--NKIPLIGPWAA 100 (347)
T ss_pred EEeccCCCCcHHHHHHHHHHhccCCeEEEEcCCCCHHHHhhhHHHHh--cCCcEEecCCC
Confidence 66667777789999999999988788776653 3345556667777 56888875543
No 74
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=36.86 E-value=86 Score=25.66 Aligned_cols=44 Identities=14% Similarity=0.224 Sum_probs=35.5
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+...++++++. +.++-+|+.|.+.+..++...+++.-..|.|++
T Consensus 21 ~~a~~aL~~Lk-~~GI~vVlaTGRt~~ev~~l~~~Lgl~~p~I~e 64 (302)
T PRK12702 21 GAARQALAALE-RRSIPLVLYSLRTRAQLEHLCRQLRLEHPFICE 64 (302)
T ss_pred HHHHHHHHHHH-HCCCEEEEEcCCCHHHHHHHHHHhCCCCeEEEe
Confidence 66788899886 679999999999988888888887644576654
No 75
>cd01829 SGNH_hydrolase_peri2 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=36.57 E-value=1.5e+02 Score=20.86 Aligned_cols=11 Identities=36% Similarity=0.350 Sum_probs=8.6
Q ss_pred EEEEEcchhHH
Q psy6439 11 LLAVIGDEDTC 21 (114)
Q Consensus 11 kIaVIGD~dtv 21 (114)
||.++||+=+-
T Consensus 1 ril~iGDS~~~ 11 (200)
T cd01829 1 RVLVIGDSLAQ 11 (200)
T ss_pred CEEEEechHHH
Confidence 58899997663
No 76
>cd07022 S49_Sppa_36K_type Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 36K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily are all bacterial and include sohB peptidase and protein C. These are sometimes referred to as 36K type since they contain only one domain, unlike E. coli SppA that also contains an amino-terminal domain. Site-directed mutagenesis and sequence analysis have shown these SppAs to be serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys dyad and not the usual Ser-His-Asp catalytic triad found in the majority of serine proteases.
Probab=36.34 E-value=1.6e+02 Score=21.96 Aligned_cols=51 Identities=20% Similarity=0.182 Sum_probs=38.0
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcCCCccEEEEcCCC
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHTQPIPAVLEIPSK 98 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~~~~P~Iv~IP~~ 98 (114)
.-+++.+.|+++.+++++..|+++-+ -.+.+.+.+.++++..|+|..+.+.
T Consensus 26 ~~~~l~~~l~~a~~d~~i~~Vvl~~~s~gg~~~~~~~l~~~l~~~~~~KpViA~v~g~ 83 (214)
T cd07022 26 SYEGIAAAIRAALADPDVRAIVLDIDSPGGEVAGVFELADAIRAARAGKPIVAFVNGL 83 (214)
T ss_pred cHHHHHHHHHHHhhCCCCcEEEEEEeCCCCcHHHHHHHHHHHHHHhcCCCEEEEECCc
Confidence 34899999999999999977777422 2455677777775578999988764
No 77
>cd06359 PBP1_Nba_like Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway. This group includes the type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; their substrate specificities are not well characterized.
Probab=36.06 E-value=1.3e+02 Score=23.25 Aligned_cols=53 Identities=21% Similarity=0.160 Sum_probs=38.6
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
++..|...+++...+..++|+.++++-.|+= +......+.+.+++ ...|.|-+
T Consensus 41 l~~~D~~~~p~~a~~~~~~lv~~~~v~~viG~~~s~~~~a~~~~~~~--~~ip~i~~ 95 (333)
T cd06359 41 VVVEDDGLKPDVAKQAAERLIKRDKVDFVTGVVFSNVLLAVVPPVLE--SGTFYIST 95 (333)
T ss_pred EEecCCCCChHHHHHHHHHHHhhcCCcEEEccCCcHHHHHHHHHHHH--cCCeEEec
Confidence 5555666677889999999998778877773 45556666677777 56787765
No 78
>PF08937 DUF1863: MTH538 TIR-like domain (DUF1863); InterPro: IPR015032 This protein adopts the flavodoxin fold, that is, five parallel beta-strands and four helical segments. The structure is a three-layer sandwich with alpha-1 and alpha-4 on one side of the beta-sheet, and alpha-2 and alpha-3 on the other side. Probable role in signal transduction as a phosphorylation-independent conformational switch protein []. This domain is similar to the TIR domain [].; PDB: 3HYN_A.
Probab=35.43 E-value=60 Score=22.25 Aligned_cols=51 Identities=24% Similarity=0.339 Sum_probs=31.9
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHH--HHHHHHHHhhc-CCCccE-EEEcCCCCC
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNV--AELIRHCIDDH-TQPIPA-VLEIPSKDH 100 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~--~~~i~d~i~~~-~~~~P~-Iv~IP~~~g 100 (114)
+.+.+.|++.+++-++-||+++++. ..-++-||+.- +...|+ .|.+|+..+
T Consensus 58 ~~ik~~I~~~i~~s~~~IVLig~~T~~s~wV~~EI~~A~~~~~~Ii~V~~~~~~~ 112 (130)
T PF08937_consen 58 EYIKRKIRERIKNSSVTIVLIGPNTAKSKWVNWEIEYALKKGKPIIGVYLPGLKD 112 (130)
T ss_dssp TTHHHHHHHHHHTEEEEEEE--TT----HHHHHHHHHHTTT---EEEEETT--SG
T ss_pred HHHHHHHHHHHhcCCEEEEEeCCCcccCcHHHHHHHHHHHCCCCEEEEECCCCCC
Confidence 3788999999999999999999986 44477778775 477884 455555543
No 79
>COG1478 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]
Probab=35.27 E-value=60 Score=26.04 Aligned_cols=44 Identities=30% Similarity=0.544 Sum_probs=28.6
Q ss_pred ccccceeccCCCceeee---cCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 27 GGIGEINKHRQPNFLVV---DKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 27 aGi~~~~~~~~~nf~vv---~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
|||+..+.... |+.. ||+.|-+.+++-|++++. .++|+|+-...
T Consensus 108 AGIDeSNv~~g--~l~llP~dPd~Sa~~i~~~L~~~~g-~~vgVIItDt~ 154 (257)
T COG1478 108 AGIDESNVDEG--FLLLLPKDPDASAETIRERLRELLG-VKVGVIITDTH 154 (257)
T ss_pred cCcccccCCCc--eEeeCCCChHHHHHHHHHHHHHHhC-CceEEEEeCCC
Confidence 68887655433 5544 555555667777888884 55999886543
No 80
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=35.08 E-value=1.7e+02 Score=23.23 Aligned_cols=82 Identities=17% Similarity=0.152 Sum_probs=50.7
Q ss_pred CcEEEEEcch--hHHHHHhhccccceeccCCC---ceeeecCCCCHHHHHHHHHHhhcCCC---eEEEEEehHHHHHHHH
Q psy6439 9 GKLLAVIGDE--DTCVGFLLGGIGEINKHRQP---NFLVVDKNTSVSDIEEAFRKFIKRDD---VDIILINQNVAELIRH 80 (114)
Q Consensus 9 ~~kIaVIGD~--dtv~GFrLaGi~~~~~~~~~---nf~vv~~~~~~ee~~~~l~~l~~~~d---igII~ite~~~~~i~d 80 (114)
.++|+++|.+ ....--|+.|+.......+- ...+...+.+.++..+.+.+++.... -||+..++.++-.+-.
T Consensus 175 ~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~~~~~g~~~~~~ll~~~~~~ptAif~~nD~~Alg~l~ 254 (333)
T COG1609 175 HRRIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEGDFSEESGYEAAERLLARGEPRPTAIFCANDLMALGALR 254 (333)
T ss_pred CceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEecCCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHHH
Confidence 5789999997 34445566666432221110 12333333466888888888986553 4888888888877766
Q ss_pred HHhhcCCCcc
Q psy6439 81 CIDDHTQPIP 90 (114)
Q Consensus 81 ~i~~~~~~~P 90 (114)
.+.+.....|
T Consensus 255 ~~~~~g~~vP 264 (333)
T COG1609 255 ALRELGLRVP 264 (333)
T ss_pred HHHHcCCCCC
Confidence 6666543355
No 81
>cd06328 PBP1_SBP_like_2 Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Periplasmic solute-binding domain of active transport proteins found in gram-negative and gram-positive bacteria. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=35.00 E-value=1.6e+02 Score=22.75 Aligned_cols=54 Identities=20% Similarity=0.212 Sum_probs=40.6
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+++.|...+++...+..++|++++++-.|+= +......+.+.+++ ...|.|...
T Consensus 44 lv~~D~~~~p~~a~~~~~~li~~~~V~avvG~~~S~~~~a~~~~~~~--~~ip~i~~~ 99 (333)
T cd06328 44 VIVKDDAGNPEVAVSLARELIGDDGVDILVGSTSSGVALAVLPVAEE--NKKILIVEP 99 (333)
T ss_pred EEEecCCCChHHHHHHHHHHHHhcCCeEEEccCCcHHHHHHHHHHHH--hCCcEEecC
Confidence 5566777888999999999998888877773 45566666666776 568888754
No 82
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=34.82 E-value=1.7e+02 Score=21.34 Aligned_cols=80 Identities=8% Similarity=0.009 Sum_probs=41.9
Q ss_pred cCCcEEEEEcchhH--HHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcC--CCe-EEEEEehHHHHHH
Q psy6439 7 VKGKLLAVIGDEDT--CVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKR--DDV-DIILINQNVAELI 78 (114)
Q Consensus 7 ~~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~--~di-gII~ite~~~~~i 78 (114)
+..++|+++|+... ..-=|..|+........ ....+...+.+.++..+.+.+++.+ ++. ||+..+...+..+
T Consensus 114 ~g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~A~g~ 193 (264)
T cd06274 114 APPEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEGYSPESGYQLMAELLARLGRLPRALFTTSYTLLEGV 193 (264)
T ss_pred CCCCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCCCChHHHHHHHHHHHccCCCCCcEEEEcChHHHHHH
Confidence 44578999965322 11224444443222111 0111222334557778888888864 334 6665555667666
Q ss_pred HHHHhhcC
Q psy6439 79 RHCIDDHT 86 (114)
Q Consensus 79 ~d~i~~~~ 86 (114)
-..+.+..
T Consensus 194 ~~al~~~g 201 (264)
T cd06274 194 LRFLRERP 201 (264)
T ss_pred HHHHHHcC
Confidence 66666654
No 83
>cd06356 PBP1_Amide_Urea_BP_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the type I periplasmic-binding proteins that are predicted to have a function similar to that of an active transport system for short chain amides and/or urea in bacteria and Archaea, by sequence comparison and phylogenetic analysis.
Probab=34.79 E-value=1.6e+02 Score=22.86 Aligned_cols=52 Identities=15% Similarity=0.197 Sum_probs=38.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv 93 (114)
+++.|...+++...+..++|+.++++-.|+= +......+.+.+++ ...|.|.
T Consensus 43 lv~~D~~~~p~~a~~~~~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~--~~vp~i~ 96 (334)
T cd06356 43 LVDYDTQSDNERYQQYAQRLALQDKVDVVWGGISSASREAIRPIMDR--TKQLYFY 96 (334)
T ss_pred EEEECCCCCHHHHHHHHHHHHHhCCCCEEEeCcchHHHHHHHHHHHh--cCceEEe
Confidence 6677777788999999999998888877773 34455566777777 4467665
No 84
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=34.63 E-value=1.1e+02 Score=26.64 Aligned_cols=85 Identities=13% Similarity=0.090 Sum_probs=54.5
Q ss_pred EEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcC-----------------C------CeEEE
Q psy6439 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKR-----------------D------DVDII 68 (114)
Q Consensus 12 IaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~-----------------~------digII 68 (114)
=+||||.-++.=-+-.|+.++.. .+ .+.++++|++.++- . .+.=|
T Consensus 147 ~~viG~~~~~~~A~~~gl~~ili--------~s----~esi~~a~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~i 214 (526)
T TIGR02329 147 GAVVGAGLITDLAEQAGLHGVFL--------YS----ADSVRQAFDDALDVARATRLRQAATLRSATRNQLRTRYRLDDL 214 (526)
T ss_pred CEEECChHHHHHHHHcCCceEEE--------ec----HHHHHHHHHHHHHHHHHHHHHHHhHHHHHhhhhhccccchhhe
Confidence 36789988777778889998532 22 27777766665320 0 11114
Q ss_pred EEehHHHHHHHHHHhhc-CCCccEEEEcCCCCCCCCCCccchhhhc
Q psy6439 69 LINQNVAELIRHCIDDH-TQPIPAVLEIPSKDHPYDASKDSILRRA 113 (114)
Q Consensus 69 ~ite~~~~~i~d~i~~~-~~~~P~Iv~IP~~~g~~~~~~d~i~~~~ 113 (114)
+=.......+++.+..+ ....|+.|. |..|-+|+.++++|
T Consensus 215 iG~S~~m~~~~~~i~~~A~~~~pVLI~-----GE~GTGKe~lA~~I 255 (526)
T TIGR02329 215 LGASAPMEQVRALVRLYARSDATVLIL-----GESGTGKELVAQAI 255 (526)
T ss_pred eeCCHHHHHHHHHHHHHhCCCCcEEEE-----CCCCcCHHHHHHHH
Confidence 44455667778888777 466787765 55666888888765
No 85
>TIGR00824 EIIA-man PTS system, mannose/fructose/sorbose family, IIA component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Man family is unique in several respects among PTS permease families It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine, N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IIA components.
Probab=34.44 E-value=79 Score=21.53 Aligned_cols=30 Identities=3% Similarity=0.231 Sum_probs=22.5
Q ss_pred cCCCCHHHHHHHHHHhhcC--CCeEEEEEehH
Q psy6439 44 DKNTSVSDIEEAFRKFIKR--DDVDIILINQN 73 (114)
Q Consensus 44 ~~~~~~ee~~~~l~~l~~~--~digII~ite~ 73 (114)
.++.+.+++++.+++++++ ++-++|++|+=
T Consensus 36 ~~~~~~~~~~~~l~~~i~~~~~~~~vivltDl 67 (116)
T TIGR00824 36 VPGENAETLQEKYNAALADLDTEEEVLFLVDI 67 (116)
T ss_pred CCCcCHHHHHHHHHHHHHhcCCCCCEEEEEeC
Confidence 5566778888888888764 34689999865
No 86
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=34.31 E-value=96 Score=23.71 Aligned_cols=61 Identities=18% Similarity=0.195 Sum_probs=37.8
Q ss_pred CCcEEEEEcch------hHHHHHhhccccceeccCCCceeee--cCCCCHHHHHHHHHHhhcCCCeEEEEEeh
Q psy6439 8 KGKLLAVIGDE------DTCVGFLLGGIGEINKHRQPNFLVV--DKNTSVSDIEEAFRKFIKRDDVDIILINQ 72 (114)
Q Consensus 8 ~~~kIaVIGD~------dtv~GFrLaGi~~~~~~~~~nf~vv--~~~~~~ee~~~~l~~l~~~~digII~ite 72 (114)
+..+|++||.. +...||.. |++.+.+.- .+... ..-.+++...++-+.++ +.++.+|+-.-
T Consensus 119 ~t~kVG~I~g~~~~~~~~~~~gF~~-G~~~~~p~~--~v~~~~~g~~~D~~~a~~~a~~l~-~~G~DvI~~~~ 187 (258)
T cd06353 119 KTNKVGYVAAFPIPEVVRGINAFAL-GARSVNPDA--TVKVIWTGSWFDPAKEKEAALALI-DQGADVIYQHT 187 (258)
T ss_pred cCCcEEEEcCcccHHHHHHHHHHHH-HHHHHCCCc--EEEEEEecCCCCcHHHHHHHHHHH-HCCCcEEEecC
Confidence 45789999986 56678885 887543221 11111 11223466677777777 56888888775
No 87
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=34.26 E-value=1.7e+02 Score=21.08 Aligned_cols=79 Identities=14% Similarity=0.070 Sum_probs=39.2
Q ss_pred CCcEEEEEcchh--H-HHHHhhccccceeccCCC-ceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEEehHHHHHHHHHH
Q psy6439 8 KGKLLAVIGDED--T-CVGFLLGGIGEINKHRQP-NFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILINQNVAELIRHCI 82 (114)
Q Consensus 8 ~~~kIaVIGD~d--t-v~GFrLaGi~~~~~~~~~-nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~ite~~~~~i~d~i 82 (114)
...+|+++|... . ..--|+.|+......... ...+...+.+.+...+.+.+++++... ||+..++..+..+-+.+
T Consensus 113 g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~i~~~~d~~a~g~~~~l 192 (259)
T cd01542 113 GHKNIAYLGVSESDIAVGILRKQGYLDALKEHGICPPNIVETDFSYESAYEAAQELLEPQPPDAIVCATDTIALGAMKYL 192 (259)
T ss_pred CCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCCChHHeeeccCchhhHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHH
Confidence 457899997532 1 112344444332211110 001112222346677778888865433 55555556666666666
Q ss_pred hhcC
Q psy6439 83 DDHT 86 (114)
Q Consensus 83 ~~~~ 86 (114)
.+..
T Consensus 193 ~~~g 196 (259)
T cd01542 193 QELG 196 (259)
T ss_pred HHcC
Confidence 6654
No 88
>PF12163 HobA: DNA replication regulator; InterPro: IPR021011 This family of proteins is found exclusively in epsilon-proteobacteria. Proteins in this family are approximately 180 amino acids in length. The crystal structure of HobA from Helicobacter pylori has been reported at 1.7A resolution; HobA represents a modified Rossmann fold consisting of a five-stranded parallel beta-sheet (beta1-5) flanked on one side by alpha-2, alpha-3 and alpha-6 helices and alpha-4 and alpha-5 on the other. The alpha-1 helix is extended away from and has minimal interaction with the globular part of the protein. Four monomers interact to form a tetrameric molecule. Four calcium atoms bind to the tetramer and these binding sites may have functional relevance. The closest structural homologue of HobA is a sugar isomerase (SIS) domain containing protein, the phosphoheptose isomerase from Pseudomonas aeruginosa. The SIS proteins share strong sequence homology with DiaA from Escherichia coli; yet, HobA and DiaA share no sequence homology []. HobA is a novel protein essential for initiation of H. pylori chromosome replication. It interacts specifically via DnaA with the oriC-DnaA complex. It is possible that HobA is essential for the correct formation and stabilisation of the orisome by facilitating the spatial positioning of DnaA at oriC [].; PDB: 2UVP_D 2WP0_A.
Probab=33.46 E-value=1e+02 Score=23.42 Aligned_cols=44 Identities=20% Similarity=0.393 Sum_probs=25.9
Q ss_pred HHHHHHHhhcCCCeEEEEEehHHHHHHHH----HHhhcCCCcc--EEEEcCC
Q psy6439 52 IEEAFRKFIKRDDVDIILINQNVAELIRH----CIDDHTQPIP--AVLEIPS 97 (114)
Q Consensus 52 ~~~~l~~l~~~~digII~ite~~~~~i~d----~i~~~~~~~P--~Iv~IP~ 97 (114)
+.++++.++ ++..+|++|++-.+-+.+ .|.+.+..+| =|+.|++
T Consensus 33 ~a~~l~~il--~G~s~iliTD~~R~WF~~Yil~~IN~~~~~RP~lPi~~l~~ 82 (180)
T PF12163_consen 33 IASALSHIL--NGGSFILITDEEREWFEEYILSNINNSHKNRPLLPIFSLKS 82 (180)
T ss_dssp HHHHHHHHH--TT-EEEEEE-GGGHHHHHHHHHHHS-SSTTS----EEESTT
T ss_pred HHHHHHHHh--CCCeEEEEeCchhHHHHHHHHHhcCcccCCCCcceEEeccc
Confidence 567889898 478999999885444444 4444456778 3444555
No 89
>cd01973 Nitrogenase_VFe_beta_like Nitrogenase_VFe_beta -like: Nitrogenase VFe protein, beta subunit like. This group contains proteins similar to the beta subunits of the VFe protein of the vanadium-dependent (V-) nitrogenase. Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V-nitrogenase there is a molybdenum (Mo)-dependent nitrogenase and an iron only (Fe-) nitrogenase. The Mo-nitrogenase is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe p
Probab=33.18 E-value=2.1e+02 Score=24.19 Aligned_cols=25 Identities=20% Similarity=0.360 Sum_probs=20.8
Q ss_pred CCcEEEEEcchhHHHHHhh----ccccce
Q psy6439 8 KGKLLAVIGDEDTCVGFLL----GGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GFrL----aGi~~~ 32 (114)
..+|+++.||++.+.|+.= .|++.+
T Consensus 304 ~Gkrv~i~g~~~~~~~l~~fl~elGm~~~ 332 (454)
T cd01973 304 ANKKVAIFGHPDLVIGLAEFCLEVEMKPV 332 (454)
T ss_pred CCCeEEEEcCHHHHHHHHHHHHHCCCeEE
Confidence 4689999999999998776 688764
No 90
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=33.03 E-value=1.4e+02 Score=21.14 Aligned_cols=39 Identities=13% Similarity=0.112 Sum_probs=24.5
Q ss_pred CHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHHHHhhcC
Q psy6439 48 SVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRHCIDDHT 86 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d~i~~~~ 86 (114)
+.++..+.+.+++++. ++ +|+..+...+..+-..+.+..
T Consensus 161 ~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~~g 201 (264)
T cd01537 161 DAEKGYQAAEELLTAHPDPTAIFAANDDMALGALRALREAG 201 (264)
T ss_pred CHHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHhC
Confidence 4467777788888654 24 555555566666666676654
No 91
>COG5623 CLP1 Predicted GTPase subunit of the pre-mRNA cleavage complex [Translation, ribosomal structure and biogenesis]
Probab=32.94 E-value=74 Score=26.88 Aligned_cols=58 Identities=16% Similarity=0.280 Sum_probs=41.1
Q ss_pred HHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEcCCCCCCCCCCccch
Q psy6439 50 SDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEIPSKDHPYDASKDSI 109 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~IP~~~g~~~~~~d~i 109 (114)
|.+.+.++.++++-++.|+++ +|.++.+++-.-++.. .-.|+.||+.+|-...+++.+
T Consensus 235 Enla~~~htiI~~f~vnivvVlgsErLy~s~k~~~~~~~--~n~iffiskldG~~~ve~e~~ 294 (424)
T COG5623 235 ENLAAFYHTIIKRFEVNIVVVLGSERLYHSLKVIAEKLM--INRIFFISKLDGFVEVEKEVG 294 (424)
T ss_pred HHHHHHHHHHHHheeeeEEEEEcchHHHHHHHHHHhHHh--hhheeeecccCCeeehHHHHH
Confidence 566666777777777776665 6889988888666642 224999999988766566543
No 92
>cd06280 PBP1_LacI_like_4 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=31.91 E-value=1.5e+02 Score=21.58 Aligned_cols=81 Identities=10% Similarity=0.004 Sum_probs=40.7
Q ss_pred CCcEEEEEcch-hHHHHHhhccccceeccCCCcee--eecCCCCHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHHHH
Q psy6439 8 KGKLLAVIGDE-DTCVGFLLGGIGEINKHRQPNFL--VVDKNTSVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRHCI 82 (114)
Q Consensus 8 ~~~kIaVIGD~-dtv~GFrLaGi~~~~~~~~~nf~--vv~~~~~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d~i 82 (114)
...+|++++++ ....--|..|+.......+.++. ..+ .+.++..+.+++++... +. ||+..++..+..+-..+
T Consensus 114 g~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l 191 (263)
T cd06280 114 GYRRIGGLFGNASTTGAERRAGYEDAMRRHGLAPDARFVA--PTAEAAEAALAAWLAAPERPEALVASNGLLLLGALRAV 191 (263)
T ss_pred CCceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCCChhhcc--cCHHHHHHHHHHHhcCCCCCcEEEECCcHHHHHHHHHH
Confidence 34689988553 22223445554443321111111 112 23466677788887542 34 55555555676666666
Q ss_pred hhcCCCcc
Q psy6439 83 DDHTQPIP 90 (114)
Q Consensus 83 ~~~~~~~P 90 (114)
.+.....|
T Consensus 192 ~~~g~~~p 199 (263)
T cd06280 192 RAAGLRIP 199 (263)
T ss_pred HHcCCCCC
Confidence 66544445
No 93
>cd06327 PBP1_SBP_like_1 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family. Solute binding proteins are the primary specific receptors that initiate uptake of a broad range of solutes, including amino acids, peptides and inorganic ions. The members are predicted to have a similar function to an active transport system for short chain amides and urea by sequence comparison and phylogenetic analysis. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus may also be involved in transport of amino acids.
Probab=31.68 E-value=2e+02 Score=22.09 Aligned_cols=54 Identities=20% Similarity=0.289 Sum_probs=38.8
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+.+.|...+++...+..+++++++++.+|+=. ......+.+.+++ ...|+|.+-
T Consensus 42 l~~~D~~~~p~~a~~~~~~l~~~~~V~aviG~~~s~~~~a~~~~~~~--~~vp~i~~~ 97 (334)
T cd06327 42 LVVADHQNKADVAAAKAREWIDRDGVDMIVGGPNSAVALAVQEVARE--KKKIYIVTG 97 (334)
T ss_pred EEEecCCCCchHHHHHHHHHHhhcCceEEECCccHHHHHHHHHHHHH--hCceEEecC
Confidence 55667767788899999999987788777753 4455556666666 557877654
No 94
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=31.60 E-value=1.9e+02 Score=22.17 Aligned_cols=39 Identities=13% Similarity=0.152 Sum_probs=25.1
Q ss_pred CHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHHHHhhcC
Q psy6439 48 SVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRHCIDDHT 86 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d~i~~~~ 86 (114)
+.++..+.++++++.. + -||+..++.++-.+-..+.+..
T Consensus 226 ~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~~~~l~~~g 266 (342)
T PRK10014 226 SQKQAAEAITALLRHNPTISAVVCYNETIAMGAWFGLLRAG 266 (342)
T ss_pred ChHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHHHHHHcC
Confidence 4466777788887543 3 4666667777766666666653
No 95
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=31.17 E-value=2.1e+02 Score=20.84 Aligned_cols=90 Identities=11% Similarity=0.199 Sum_probs=49.4
Q ss_pred CCcEEEEEcch--hHHHHHhhccccceeccCCCce---eeecCCCCHHHHHHHHHHhhcC-CCeEEEEEe-hHHHHHHHH
Q psy6439 8 KGKLLAVIGDE--DTCVGFLLGGIGEINKHRQPNF---LVVDKNTSVSDIEEAFRKFIKR-DDVDIILIN-QNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~--dtv~GFrLaGi~~~~~~~~~nf---~vv~~~~~~ee~~~~l~~l~~~-~digII~it-e~~~~~i~d 80 (114)
..++|++++.. .+..--|..|+.........++ .+...+.+.++..+.++++++. +++..|+.+ ..++..+-.
T Consensus 115 g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~ 194 (268)
T cd06270 115 GHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIEGDFTEEGGYAAMQELLARGAPFTAVFCANDEMAAGAIS 194 (268)
T ss_pred CCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEECCCCHHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHH
Confidence 45789998652 3344557777665332221111 1222233456777888888754 455555554 556766766
Q ss_pred HHhhcCCCcc---EEEEcCC
Q psy6439 81 CIDDHTQPIP---AVLEIPS 97 (114)
Q Consensus 81 ~i~~~~~~~P---~Iv~IP~ 97 (114)
.+.+.....| .|+-+-+
T Consensus 195 ~l~~~g~~ip~di~v~g~d~ 214 (268)
T cd06270 195 ALREHGISVPQDVSIIGFDD 214 (268)
T ss_pred HHHHcCCCCCCceeEEEecC
Confidence 6666544445 3544443
No 96
>PRK12562 ornithine carbamoyltransferase subunit F; Provisional
Probab=30.96 E-value=1.7e+02 Score=23.95 Aligned_cols=25 Identities=20% Similarity=0.155 Sum_probs=18.7
Q ss_pred CCcEEEEEcch------hHHHHHhhccccce
Q psy6439 8 KGKLLAVIGDE------DTCVGFLLGGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD~------dtv~GFrLaGi~~~ 32 (114)
+..+|+++||- ..+.++...|++-.
T Consensus 155 ~gl~va~vGD~~~~v~~S~~~~~~~~G~~v~ 185 (334)
T PRK12562 155 NEMTLVYAGDARNNMGNSMLEAAALTGLDLR 185 (334)
T ss_pred CCcEEEEECCCCCCHHHHHHHHHHHcCCEEE
Confidence 45799999993 44677788888754
No 97
>cd06357 PBP1_AmiC Periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. This group includes the periplasmic binding domain of amidase (AmiC) that belongs to the type I periplasmic binding fold protein family. AmiC controls expression of the amidase operon by the ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon are induced.
Probab=30.95 E-value=2.1e+02 Score=22.49 Aligned_cols=71 Identities=11% Similarity=0.116 Sum_probs=45.9
Q ss_pred hhHHHHHhhc--------cccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHHHHHHhhcCC
Q psy6439 18 EDTCVGFLLG--------GIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELIRHCIDDHTQ 87 (114)
Q Consensus 18 ~dtv~GFrLa--------Gi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i~d~i~~~~~ 87 (114)
.+...|++|+ ||.+... .+++.|...+++...+..++|+.++++-.|+=+ ......+...+++ .
T Consensus 17 ~~~~~g~~la~~~iN~~GGi~G~~i----elv~~D~~~~p~~a~~~a~~li~~~~V~aiiG~~~s~~~~a~~~~~~~--~ 90 (360)
T cd06357 17 RSQRNGALLAIEEINAAGGVLGREL----EPVEYDPGGDPDAYRALAERLLREDGVRVIFGCYTSSSRKAVLPVVER--H 90 (360)
T ss_pred HHHHHHHHHHHHHHhhcCCCCCeEE----EEEEECCCCCHHHHHHHHHHHHhhCCCcEEEeCccHHHHHHHHHHHHh--c
Confidence 4566777753 3443211 255667777889999999999988888888743 3344556666666 3
Q ss_pred CccEEEE
Q psy6439 88 PIPAVLE 94 (114)
Q Consensus 88 ~~P~Iv~ 94 (114)
..|.+.+
T Consensus 91 ~~~~~~~ 97 (360)
T cd06357 91 DALLWYP 97 (360)
T ss_pred CceEEeC
Confidence 4566643
No 98
>cd07018 S49_SppA_67K_type Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad. Signal peptide peptidase A (SppA; Peptidase S49; Protease IV) 67K type: SppA is found in all three domains of life and is involved in the cleavage of signal peptides after their removal from the precursor proteins by signal peptidases. Members in this subfamily contain an amino-terminal domain in addition to the carboxyl-terminal protease domain that is conserved in all the S49 family members (sometimes referred to as 67K type), similar to E. coli and Arabidopsis thaliana SppA peptidases. Unlike the eukaryotic functional homologs that are proposed to be aspartic proteases, site-directed mutagenesis and sequence analysis have shown that members in this subfamily, mostly bacterial, are serine proteases. The predicted active site serine for members in this family occurs in a transmembrane domain. Mutagenesis studies also suggest that the catalytic center comprises a Ser-Lys
Probab=30.91 E-value=1.8e+02 Score=21.87 Aligned_cols=51 Identities=20% Similarity=0.301 Sum_probs=40.2
Q ss_pred CCHHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcC-CCccEEEEcCC
Q psy6439 47 TSVSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHT-QPIPAVLEIPS 97 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~-~~~P~Iv~IP~ 97 (114)
.+-+++.+.|+++.+++++.-|+++-+ -.+.+++.|.+++ ...|+|..+.+
T Consensus 29 ~~~~~l~~~l~~a~~d~~ik~vvL~~~s~gg~~~~~~el~~~i~~~~~~~kpVia~~~~ 87 (222)
T cd07018 29 LSLRDLLEALEKAAEDDRIKGIVLDLDGLSGGLAKLEELRQALERFRASGKPVIAYADG 87 (222)
T ss_pred ccHHHHHHHHHHHhcCCCeEEEEEECCCCCCCHHHHHHHHHHHHHHHHhCCeEEEEeCC
Confidence 456899999999999999999998844 3566777787775 67898877664
No 99
>COG0616 SppA Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]
Probab=30.87 E-value=1.4e+02 Score=24.12 Aligned_cols=50 Identities=24% Similarity=0.334 Sum_probs=36.5
Q ss_pred HHHHHHHHHhhcCCCe-EEEEEehH------HHHHHHHHHhhcCCCccEEEEcCCCC
Q psy6439 50 SDIEEAFRKFIKRDDV-DIILINQN------VAELIRHCIDDHTQPIPAVLEIPSKD 99 (114)
Q Consensus 50 ee~~~~l~~l~~~~di-gII~ite~------~~~~i~d~i~~~~~~~P~Iv~IP~~~ 99 (114)
+...+.|+.+..++++ ||++.=+. .++.+.+.|.+++...|+++.+|+.-
T Consensus 83 ~~~~~~l~~~~~~~~vk~vvL~inSPGG~v~as~~i~~~l~~l~~~~PV~v~v~~~A 139 (317)
T COG0616 83 DDIEEILRAARADPSVKAVVLRINSPGGSVVASELIARALKRLRAKKPVVVSVGGYA 139 (317)
T ss_pred HHHHHHHHHHhcCCCCceEEEEEECcCCchhHHHHHHHHHHHHhhcCCEEEEECCee
Confidence 7788888888877754 44443332 57888888888864449999999875
No 100
>PF01297 TroA: Periplasmic solute binding protein family; InterPro: IPR006127 This is a family of ABC transporter metal-binding lipoproteins. An example is the periplasmic zinc-binding protein TroA P96116 from SWISSPROT that interacts with an ATP-binding cassette transport system in Treponema pallidum and plays a role in the transport of zinc across the cytoplasmic membrane. Related proteins are found in both Gram-positive and Gram-negative bacteria. ; GO: 0046872 metal ion binding, 0030001 metal ion transport; PDB: 2PS9_A 2PS0_A 2OSV_A 2OGW_A 2PS3_A 2PRS_B 3MFQ_C 3GI1_B 2OV3_A 1PQ4_A ....
Probab=30.78 E-value=1.3e+02 Score=22.68 Aligned_cols=49 Identities=14% Similarity=0.290 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEEcCCC
Q psy6439 47 TSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLEIPSK 98 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~IP~~ 98 (114)
-++.++.+..+ .+++.++..||.......+.-+.|.+- ...|+ +.+...
T Consensus 183 ps~~~l~~l~~-~ik~~~v~~i~~e~~~~~~~~~~la~~-~g~~v-v~ld~l 231 (256)
T PF01297_consen 183 PSPKDLAELIK-LIKENKVKCIFTEPQFSSKLAEALAKE-TGVKV-VYLDPL 231 (256)
T ss_dssp S-HHHHHHHHH-HHHHTT-SEEEEETTS-THHHHHHHHC-CT-EE-EESSTT
T ss_pred CCHHHHHHHHH-HhhhcCCcEEEecCCCChHHHHHHHHH-cCCcE-EEeCCC
Confidence 36678877555 666889999999888777766666551 22444 555555
No 101
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=30.45 E-value=2.2e+02 Score=22.11 Aligned_cols=54 Identities=17% Similarity=0.315 Sum_probs=38.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+++.|...+++...+..++++.++++-.|+= +......+.+.+++ ...|+|-+-
T Consensus 50 l~~~D~~~~~~~a~~~a~~li~~~~v~avvG~~~s~~~~~~~~~~~~--~~ip~i~~~ 105 (362)
T cd06343 50 LIVEDDGYSPPKTVEQTRKLVESDEVFAMVGGLGTPTNLAVQKYLNE--KKVPQLFPA 105 (362)
T ss_pred EEEecCCCChHHHHHHHHHHHhhcCeEEEEecCCcHHHHHhHHHHHh--cCCceEecc
Confidence 5566776778888999999998777766663 34455566666777 558888754
No 102
>cd06344 PBP1_ABC_ligand_binding_like_9 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine/isoleucine/valine binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=30.29 E-value=2.5e+02 Score=21.60 Aligned_cols=54 Identities=2% Similarity=0.023 Sum_probs=38.4
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh--HHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ--NVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~ite--~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+++.|...+++...+..++|+.++++-.|+=.. .....+.+.+++ ...|.|.+-
T Consensus 42 lv~~D~~~~p~~a~~~a~~li~~~~v~aiiG~~~s~~~~a~~~~~~~--~~ip~i~~~ 97 (332)
T cd06344 42 VVIANDGNDPEIAKKVADELVKDPEILGVVGHYSSDATLAALDIYQK--AKLVLISPT 97 (332)
T ss_pred EEEECCCCChHHHHHHHHHHhcccCceEEEcCCCcHHHHHHHHHHhh--cCceEEccC
Confidence 666677778899999999999887876666433 344446666776 557777654
No 103
>cd06312 PBP1_ABC_sugar_binding_like_4 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=30.14 E-value=1.5e+02 Score=21.76 Aligned_cols=79 Identities=11% Similarity=0.105 Sum_probs=38.6
Q ss_pred CCcEEEEEcc-hhHHHH-HhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcC-CCeEEEEEe-hHHHHHHHHHHh
Q psy6439 8 KGKLLAVIGD-EDTCVG-FLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKR-DDVDIILIN-QNVAELIRHCID 83 (114)
Q Consensus 8 ~~~kIaVIGD-~dtv~G-FrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~-~digII~it-e~~~~~i~d~i~ 83 (114)
...+|++++. ++...+ -|+.|+........-.........+.++..+++++++++ +++..|+.+ +..+..+-..+.
T Consensus 124 g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~g~~~al~ 203 (271)
T cd06312 124 GGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGITEEVIETGADPTEVASRIAAYLRANPDVDAVLTLGAPSAAPAAKALK 203 (271)
T ss_pred CCCeEEEEecCCCCccHHHHHHHHHHHHHhcCceeeEeecCCCHHHHHHHHHHHHHhCCCccEEEEeCCccchHHHHHHH
Confidence 4578998853 332211 244444432211110011122223446677778887754 345555555 455666666666
Q ss_pred hcC
Q psy6439 84 DHT 86 (114)
Q Consensus 84 ~~~ 86 (114)
+..
T Consensus 204 ~~g 206 (271)
T cd06312 204 QAG 206 (271)
T ss_pred hcC
Confidence 653
No 104
>CHL00076 chlB photochlorophyllide reductase subunit B
Probab=29.88 E-value=2.2e+02 Score=24.52 Aligned_cols=24 Identities=33% Similarity=0.469 Sum_probs=19.9
Q ss_pred CcEEEEEcchhHHHHHh--hc---cccce
Q psy6439 9 GKLLAVIGDEDTCVGFL--LG---GIGEI 32 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFr--La---Gi~~~ 32 (114)
.+|++|+||+..+.|+. |. |++.+
T Consensus 305 Gkrv~I~gd~~~a~~l~~~L~~ELGm~vv 333 (513)
T CHL00076 305 GKKAVVFGDATHAASMTKILAREMGIRVS 333 (513)
T ss_pred CCEEEEEcCchHHHHHHHHHHHhCCCEEE
Confidence 48999999999999975 44 88875
No 105
>cd06287 PBP1_LacI_like_8 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=29.84 E-value=1.9e+02 Score=21.59 Aligned_cols=43 Identities=9% Similarity=0.054 Sum_probs=28.0
Q ss_pred CHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 48 SVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d~i~~~~~~~P 90 (114)
+.++..+.+++++++. + -||+..++.++-.+-..+.+..-..|
T Consensus 161 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~gvl~al~~~gl~vP 205 (269)
T cd06287 161 GEEAGYAACAQLLAQHPDLDALCVPVDAFAVGAVRAATELGRAVP 205 (269)
T ss_pred ChHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCC
Confidence 4466667788887653 3 36666667777777777777654456
No 106
>TIGR02706 P_butyryltrans phosphate butyryltransferase. Members of this family are phosphate butyryltransferase, also called phosphotransbutyrylase. In general, this enzyme is found in butyrate-producing anaerobic bacteria, encoded next to the gene for butyrate kinase. Together, these two enzymes represent what may be the less common of two pathways for butyrate production from butyryl-CoA. The alternative is transfer of the CoA group to acetate by butyryl-CoA:acetate CoA transferase. Cutoffs for this model are set such that the homolog from Thermotoga maritima, whose activity on butyryl-CoA is only 30 % of its activity with acetyl-CoA, scores in the zone between trusted and noice cutoffs.
Probab=29.59 E-value=2.9e+02 Score=21.94 Aligned_cols=87 Identities=16% Similarity=0.247 Sum_probs=53.5
Q ss_pred CCcEEEEEcchhHHHHH-hhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh-HHHHHHHHHHhhc
Q psy6439 8 KGKLLAVIGDEDTCVGF-LLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ-NVAELIRHCIDDH 85 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GF-rLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite-~~~~~i~d~i~~~ 85 (114)
...++.++||++.+.-. +-.|++. .+|-++++++..+.+...++ ++++.+...++=-- .....++..+.+.
T Consensus 37 ~~~~~iLvG~~~~I~~~~~~~~l~~------~~ieIi~~~~~~~s~~~a~~-lv~~G~aD~~vsg~~~T~a~l~~~l~~~ 109 (294)
T TIGR02706 37 GIARAILVGDEEKINEIAKKIGMNL------DDVEIVNAPSPKKAALLAVR-LVSTGKADMLMKGLVDTATFLRSVLNKE 109 (294)
T ss_pred CCceEEEECCHHHHHHHHHHcCCCc------cCcEEECCCCcHHHHHHHHH-HHHCCCCCEEEeCCcCHHHHHHHHhhhc
Confidence 34678899999987663 2234321 12667777777788888887 66666766665333 3566677766655
Q ss_pred C-CCccE------EEEcCCCCCC
Q psy6439 86 T-QPIPA------VLEIPSKDHP 101 (114)
Q Consensus 86 ~-~~~P~------Iv~IP~~~g~ 101 (114)
. -..|. ++++|+.++.
T Consensus 110 ~Gi~~~~~~s~~~~~~~P~~~~~ 132 (294)
T TIGR02706 110 VGLRTGKVLSHVAVFEVPGFDRL 132 (294)
T ss_pred cCCCCCCcceeeEEEEecCCCCc
Confidence 3 22332 4458877553
No 107
>PRK07200 aspartate/ornithine carbamoyltransferase family protein; Validated
Probab=29.30 E-value=1.9e+02 Score=24.41 Aligned_cols=24 Identities=17% Similarity=0.025 Sum_probs=17.5
Q ss_pred CcEEEEEcc------------hhHHHHHhhccccce
Q psy6439 9 GKLLAVIGD------------EDTCVGFLLGGIGEI 32 (114)
Q Consensus 9 ~~kIaVIGD------------~dtv~GFrLaGi~~~ 32 (114)
..||+++|| ...+.++...|++-.
T Consensus 187 g~kVaivg~~~~~~g~~~~Va~Sl~~~~~~lG~~v~ 222 (395)
T PRK07200 187 GKKIAMTWAYSPSYGKPLSVPQGIIGLMTRFGMDVT 222 (395)
T ss_pred CCEEEEEeccccccCCcchHHHHHHHHHHHcCCEEE
Confidence 469999986 345677788888754
No 108
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=29.15 E-value=1.9e+02 Score=20.92 Aligned_cols=18 Identities=17% Similarity=0.453 Sum_probs=13.3
Q ss_pred ccCCcEEEEEcchhHHHH
Q psy6439 6 AVKGKLLAVIGDEDTCVG 23 (114)
Q Consensus 6 ~~~~~kIaVIGD~dtv~G 23 (114)
+++.++|+++|+.+-++-
T Consensus 45 ~~~~~~ifllG~~~~~~~ 62 (172)
T PF03808_consen 45 EQRGKRIFLLGGSEEVLE 62 (172)
T ss_pred HHcCCeEEEEeCCHHHHH
Confidence 456789999999666543
No 109
>TIGR01485 SPP_plant-cyano sucrose-6F-phosphate phosphohydrolase. Sucrose phosphate synthase (SPS), the prior step in the biosynthesis of sucrose contains a domain which exhibits considerable similarity to SPP albeit without conservation of the catalytic residues. The catalytic machinery of the synthase resides in another domain. It seems likely that the phosphatase-like domain is involved in substrate binding, possibly binding both substrates in a "product-like" orientation prior to ligation by the synthase catalytic domain.
Probab=29.14 E-value=1.5e+02 Score=22.30 Aligned_cols=40 Identities=5% Similarity=0.066 Sum_probs=32.4
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P 90 (114)
+++.+.++++. +.++.+++.|.+-...++..+.++....|
T Consensus 24 ~~~~~~i~~~~-~~gi~fv~aTGR~~~~~~~~~~~~~~~~p 63 (249)
T TIGR01485 24 LRLNALLEDHR-GEDSLLVYSTGRSPHSYKELQKQKPLLTP 63 (249)
T ss_pred HHHHHHHHHhh-ccCceEEEEcCCCHHHHHHHHhcCCCCCC
Confidence 67777788765 67889999999999999988877765567
No 110
>TIGR02483 PFK_mixed phosphofructokinase. Members of this family that are characterized, save one, are phosphofructokinases dependent on pyrophosphate (EC 2.7.1.90) rather than ATP (EC 2.7.1.11). The exception is one of three phosphofructokinases from Streptomyces coelicolor. Family members are both bacterial and archaeal.
Probab=29.06 E-value=1.9e+02 Score=23.56 Aligned_cols=28 Identities=14% Similarity=0.331 Sum_probs=22.2
Q ss_pred CCHHHHHHHHHHhhcC-CCeEEEEEehHH
Q psy6439 47 TSVSDIEEAFRKFIKR-DDVDIILINQNV 74 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~-~digII~ite~~ 74 (114)
.+.+++.+.+++.+++ +++++|+++|.+
T Consensus 197 ~~~~~l~~~v~~~~~~g~~~~vvvvsEG~ 225 (324)
T TIGR02483 197 FDIDSVCEKVRERFARGKRFAIVVVAEGA 225 (324)
T ss_pred CCHHHHHHHHHHHHHhCCCceEEEEecCc
Confidence 4457777777777766 889999999886
No 111
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=28.90 E-value=1.2e+02 Score=21.88 Aligned_cols=26 Identities=27% Similarity=0.469 Sum_probs=20.9
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
+.++++++|+++++..++-+|++|-.
T Consensus 47 d~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 47 DIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred CHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 56889999999875567889999854
No 112
>PRK14805 ornithine carbamoyltransferase; Provisional
Probab=28.87 E-value=2.2e+02 Score=22.88 Aligned_cols=27 Identities=22% Similarity=0.148 Sum_probs=20.6
Q ss_pred CCcEEEEEcc-----hhHHHHHhhccccceec
Q psy6439 8 KGKLLAVIGD-----EDTCVGFLLGGIGEINK 34 (114)
Q Consensus 8 ~~~kIaVIGD-----~dtv~GFrLaGi~~~~~ 34 (114)
+..||+++|| ...+.++...|++-..+
T Consensus 146 ~g~kva~vGD~~~v~~S~~~~~~~~g~~v~~~ 177 (302)
T PRK14805 146 SKVKLAYVGDGNNVTHSLMYGAAILGATMTVI 177 (302)
T ss_pred CCcEEEEEcCCCccHHHHHHHHHHcCCEEEEE
Confidence 4579999999 55677888889886433
No 113
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=28.83 E-value=99 Score=26.84 Aligned_cols=50 Identities=10% Similarity=0.110 Sum_probs=36.3
Q ss_pred CcEEEEEcchhHHHHHhh----ccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEE
Q psy6439 9 GKLLAVIGDEDTCVGFLL----GGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIIL 69 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrL----aGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ 69 (114)
..||||||-+.++.|++. .|++-.. |...+ .+|++..++++. +.++.+|+
T Consensus 97 ~~~ia~vg~~~~~~~~~~~~~ll~~~i~~------~~~~~----~~e~~~~~~~l~-~~G~~~vi 150 (526)
T TIGR02329 97 ASSIGVVTHQDTPPALRRFQAAFNLDIVQ------RSYVT----EEDARSCVNDLR-ARGIGAVV 150 (526)
T ss_pred CCcEEEEecCcccHHHHHHHHHhCCceEE------EEecC----HHHHHHHHHHHH-HCCCCEEE
Confidence 479999999999999873 4555321 33333 399999999886 56777765
No 114
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=28.81 E-value=2.6e+02 Score=21.21 Aligned_cols=85 Identities=18% Similarity=0.313 Sum_probs=39.5
Q ss_pred CCcEEEEEcc--hhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc
Q psy6439 8 KGKLLAVIGD--EDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH 85 (114)
Q Consensus 8 ~~~kIaVIGD--~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~ 85 (114)
+...|+++-. .+.-..-.+.|++......+-++.+.+...+.+.-.+.++.+..+.==|||++.....+.+.+.+.+
T Consensus 58 ~~~~Igvv~~~~~~~f~~~l~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~l~~~~vdGiIi~~~~~~~~~~~~l~~- 136 (329)
T TIGR01481 58 RTTTVGVIIPDISNIYYAELARGIEDIATMYKYNIILSNSDEDPEKEVQVLNTLLSKQVDGIIFMGGTITEKLREEFSR- 136 (329)
T ss_pred CCCEEEEEeCCCCchhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCChHHHHHHHh-
Confidence 4567888753 1222222234554321111112223232233445556677776544447777654433333333444
Q ss_pred CCCccEEEE
Q psy6439 86 TQPIPAVLE 94 (114)
Q Consensus 86 ~~~~P~Iv~ 94 (114)
...|+|+.
T Consensus 137 -~~iPvV~~ 144 (329)
T TIGR01481 137 -SPVPVVLA 144 (329)
T ss_pred -cCCCEEEE
Confidence 45787653
No 115
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding wh
Probab=28.79 E-value=2.2e+02 Score=20.44 Aligned_cols=49 Identities=22% Similarity=0.339 Sum_probs=25.2
Q ss_pred cCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 44 DKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 44 ~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+...++++..+.++++....-=|||+........+...+.+ ...|+|..
T Consensus 36 ~~~~~~~~~~~~i~~l~~~~~dgii~~~~~~~~~~~~~~~~--~~ipvv~~ 84 (259)
T cd01542 36 NTNFSIEKEIEALELLARQKVDGIILLATTITDEHREAIKK--LNVPVVVV 84 (259)
T ss_pred eCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHhc--CCCCEEEE
Confidence 33334565667788877544446666544322222233333 45786654
No 116
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial trans
Probab=28.79 E-value=2.1e+02 Score=20.68 Aligned_cols=38 Identities=13% Similarity=0.022 Sum_probs=25.3
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT 86 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~ 86 (114)
.++..+.+.+++++.--||+..++..+..+-..+.+..
T Consensus 161 ~~~~~~~~~~~l~~~~~av~~~~d~~a~gv~~al~~~g 198 (265)
T cd06299 161 QESGYAGATKLLDQGATAIIAGDSMMTIGAIRAIHDAG 198 (265)
T ss_pred hHHHHHHHHHHHcCCCCEEEEcCcHHHHHHHHHHHHhC
Confidence 46667778888865323777777777767666676654
No 117
>PRK01018 50S ribosomal protein L30e; Reviewed
Probab=28.64 E-value=1.1e+02 Score=20.48 Aligned_cols=38 Identities=18% Similarity=0.188 Sum_probs=25.0
Q ss_pred cCCCeEEEEEehHHHHHHHHHHhhc--CCCccEEEEcCCC
Q psy6439 61 KRDDVDIILINQNVAELIRHCIDDH--TQPIPAVLEIPSK 98 (114)
Q Consensus 61 ~~~digII~ite~~~~~i~d~i~~~--~~~~P~Iv~IP~~ 98 (114)
++.....|++.+++.+..++.+..+ ....|.+...+++
T Consensus 29 ~~gkaklViiA~D~~~~~~~~i~~~c~~~~Ip~~~~~~tk 68 (99)
T PRK01018 29 KLGKAKLVIVASNCPKDIKEDIEYYAKLSGIPVYEYEGSS 68 (99)
T ss_pred HcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECCCH
Confidence 3567788888888777777766665 2456776655444
No 118
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=28.47 E-value=1.2e+02 Score=19.76 Aligned_cols=32 Identities=16% Similarity=0.425 Sum_probs=23.9
Q ss_pred eeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 41 LVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 41 ~vv~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
++++.+.+.+|+.+.+.+.+.... +++-++++
T Consensus 14 l~ies~~s~dev~~~v~~Al~~~~-~~l~LtD~ 45 (74)
T PF11305_consen 14 LVIESDQSADEVEAAVTDALADGS-GVLTLTDE 45 (74)
T ss_pred EEEecCCCHHHHHHHHHHHHhCCC-ceEEEEeC
Confidence 344556788999999999997654 77777654
No 119
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=28.42 E-value=1.1e+02 Score=23.01 Aligned_cols=45 Identities=11% Similarity=0.160 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
.++..++|+++. +.++-+++.|-+-...+++.+..+....|+|-.
T Consensus 22 ~~~~~~al~~~~-~~g~~v~iaTGR~~~~~~~~~~~l~~~~~~I~~ 66 (264)
T COG0561 22 SPETKEALARLR-EKGVKVVLATGRPLPDVLSILEELGLDGPLITF 66 (264)
T ss_pred CHHHHHHHHHHH-HCCCEEEEECCCChHHHHHHHHHcCCCccEEEe
Confidence 377788888665 789999999999889999989888755566654
No 120
>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H.
Probab=28.38 E-value=83 Score=21.46 Aligned_cols=35 Identities=11% Similarity=0.191 Sum_probs=21.8
Q ss_pred HHHHHHHHHhhc-CCCccEEEEcCCCCCCCCCCccchhhhc
Q psy6439 74 VAELIRHCIDDH-TQPIPAVLEIPSKDHPYDASKDSILRRA 113 (114)
Q Consensus 74 ~~~~i~d~i~~~-~~~~P~Iv~IP~~~g~~~~~~d~i~~~~ 113 (114)
..+++++.+.++ +...|+++. |..|-+|..++++|
T Consensus 6 ~~~~l~~~l~~~a~~~~pvli~-----GE~GtGK~~~A~~l 41 (138)
T PF14532_consen 6 AMRRLRRQLERLAKSSSPVLIT-----GEPGTGKSLLARAL 41 (138)
T ss_dssp HHHHHHHHHHHHHCSSS-EEEE-----CCTTSSHHHHHHCC
T ss_pred HHHHHHHHHHHHhCCCCcEEEE-----cCCCCCHHHHHHHH
Confidence 455666777776 466777663 45556777777765
No 121
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=28.32 E-value=1.9e+02 Score=21.05 Aligned_cols=50 Identities=18% Similarity=0.236 Sum_probs=26.1
Q ss_pred cCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc-CCCccEEEE
Q psy6439 44 DKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH-TQPIPAVLE 94 (114)
Q Consensus 44 ~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~-~~~~P~Iv~ 94 (114)
+...+.+...+.++.+++..-=|||+..-. .....+.+..+ +...|+|..
T Consensus 37 ~~~~~~~~~~~~i~~l~~~~vdgiii~~~~-~~~~~~~~~~l~~~~iPvv~~ 87 (272)
T cd06301 37 DAKNDVATQLSQVENFIAQGVDAIIVVPVD-TAATAPIVKAANAAGIPLVYV 87 (272)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEecCc-hhhhHHHHHHHHHCCCeEEEe
Confidence 333345666677888876543455554422 22223334443 266787753
No 122
>PRK04220 2-phosphoglycerate kinase; Provisional
Probab=28.24 E-value=43 Score=27.21 Aligned_cols=23 Identities=13% Similarity=0.132 Sum_probs=16.7
Q ss_pred CCccEEEEcCCCCCCCCCCccchhhh
Q psy6439 87 QPIPAVLEIPSKDHPYDASKDSILRR 112 (114)
Q Consensus 87 ~~~P~Iv~IP~~~g~~~~~~d~i~~~ 112 (114)
...|.+|.|-|.+|+ +|-+++..
T Consensus 89 ~~~p~iIlI~G~sgs---GKStlA~~ 111 (301)
T PRK04220 89 SKEPIIILIGGASGV---GTSTIAFE 111 (301)
T ss_pred CCCCEEEEEECCCCC---CHHHHHHH
Confidence 468999999888764 66666554
No 123
>PRK03202 6-phosphofructokinase; Provisional
Probab=28.17 E-value=1.3e+02 Score=24.43 Aligned_cols=51 Identities=16% Similarity=0.273 Sum_probs=32.5
Q ss_pred CCHHHHHHHHHHhhcC-CCeEEEEEehHHH--HHHHHHHhhcCCCccEEEEcCCC
Q psy6439 47 TSVSDIEEAFRKFIKR-DDVDIILINQNVA--ELIRHCIDDHTQPIPAVLEIPSK 98 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~-~digII~ite~~~--~~i~d~i~~~~~~~P~Iv~IP~~ 98 (114)
.+.+++.+.+++.+++ +++++|+++|.+. +.+.+.+++.-. ..+-..+|+.
T Consensus 196 ~~~~~l~~~i~~r~~~g~~~~vivvsEg~~~~~~l~~~i~~~~~-~~~r~~~lG~ 249 (320)
T PRK03202 196 FDIEELCAKIKKGRERGKKHAIIVVAEGVMPAEELAKEIEERTG-LETRVTVLGH 249 (320)
T ss_pred CCHHHHHHHHHHHHHhcCCcEEEEEeCCCCCHHHHHHHHHHHhC-CceEEcccch
Confidence 4567787878777766 8899999999953 335555554311 2344455554
No 124
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=28.16 E-value=2.4e+02 Score=22.76 Aligned_cols=38 Identities=18% Similarity=0.317 Sum_probs=25.5
Q ss_pred hccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEE
Q psy6439 26 LGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILI 70 (114)
Q Consensus 26 LaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~i 70 (114)
-.|++.. .+..+++++++++.+.++++=+++++ |||+-
T Consensus 57 ~~Gi~~~-------~~~l~~~~t~~~l~~~I~~lN~D~~V~GIivq 95 (282)
T PRK14166 57 ECGIKSL-------VYHLNENTTQNELLALINTLNHDDSVHGILVQ 95 (282)
T ss_pred HcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 3577753 12335567788899999988777777 65554
No 125
>PLN02618 tryptophan synthase, beta chain
Probab=28.10 E-value=1.9e+02 Score=24.44 Aligned_cols=65 Identities=11% Similarity=0.211 Sum_probs=36.9
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH--HHHHHHHHHhhcCCCccEEEEcCCCCCCCCCCccchhhhc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN--VAELIRHCIDDHTQPIPAVLEIPSKDHPYDASKDSILRRA 113 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~ite~--~~~~i~d~i~~~~~~~P~Iv~IP~~~g~~~~~~d~i~~~~ 113 (114)
|+.|++ +|+.++++.|.+++ ||+.=.+. ..........++....-+|+.++++.- .+.+.+.+++
T Consensus 340 ~v~VtD----~Eal~a~~~La~~e--GIi~~~sSa~a~a~a~~~a~~l~~~~~iVv~lsgrG~---Kd~~~v~~~~ 406 (410)
T PLN02618 340 YYSVTD----EEALEAFQRLSRLE--GIIPALETSHALAYLEKLCPTLPDGTKVVVNCSGRGD---KDVNTAIKYL 406 (410)
T ss_pred EEEECH----HHHHHHHHHHHHHc--CceEchhHHHHHHHHHHHhHhcCCCCEEEEEeCCCCc---CCHHHHHHHh
Confidence 555555 99999999998655 45544444 222233333333333347777777642 5555665543
No 126
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=28.08 E-value=2.1e+02 Score=22.32 Aligned_cols=53 Identities=13% Similarity=0.142 Sum_probs=35.7
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
++..|...++++..+..++|++++++-.|+= +......+.+.+++ ...|++.+
T Consensus 43 lv~~D~~~~p~~a~~~a~~Li~~~~V~~iiG~~~S~~~~a~~~~~~~--~~~~~i~~ 97 (348)
T cd06355 43 AVVEDGASDWPTFAEKARKLLTQDKVAAVFGCWTSASRKAVLPVFER--HNGLLFYP 97 (348)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhCCCcEEEeccchhhHHHHHHHHhc--cCCceecC
Confidence 4555666778999999999998777776663 33344455665655 44676654
No 127
>TIGR00705 SppA_67K signal peptide peptidase SppA, 67K type. E. coli SohB, which is most closely homologous to the C-terminal duplication of SppA, is predicted to perform a similar function of small peptide degradation, but in the periplasm. Many prokaryotes have a single SppA/SohB homolog that may perform the function of either or both.
Probab=27.92 E-value=2.2e+02 Score=25.04 Aligned_cols=50 Identities=12% Similarity=0.238 Sum_probs=39.9
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEeh-------HHHHHHHHHHhhcC-CCccEEEEcCCC
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQ-------NVAELIRHCIDDHT-QPIPAVLEIPSK 98 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite-------~~~~~i~d~i~~~~-~~~P~Iv~IP~~ 98 (114)
.+.+.+.|+++.+++++.-|++.= ...+.+++.|.+++ ...|+|+.+-+.
T Consensus 331 ~~~~~~~l~~a~~D~~VkaIVLrinSpGGs~~ase~i~~~i~~~~~~gKPVva~~~g~ 388 (584)
T TIGR00705 331 GDTVAALLRVARSDPDIKAVVLRINSPGGSVFASEIIRRELARAQARGKPVIVSMGAM 388 (584)
T ss_pred HHHHHHHHHHHhhCCCceEEEEEecCCCCCHHHHHHHHHHHHHHHhCCCcEEEEECCc
Confidence 478889999999999987777762 35788999998886 449999988664
No 128
>cd06358 PBP1_NHase Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides. This group includes the type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides, which are subsequently converted by amidases to yield free carboxylic acids and ammonia. NHases from bacteria and fungi have been purified and characterized. In Rhodococcus sp., the nitrile hydratase operon consists of six genes encoding NHase regulator 2, NHase regulator 1, amidase, NHase alpha subunit, NHase beta subunit, and NHase activator. The operon produces a constitutive hydratase that has a broad substrate spectrum: aliphatic and aromatic nitriles, mononitriles and dinitriles, hydroxynitriles and amino-nitriles, and a constitutive amidase of equally low substrate specificity. NHases are metalloenzymes containing either cobalt or iron, and therefore can be classified int
Probab=27.64 E-value=2.4e+02 Score=21.66 Aligned_cols=52 Identities=17% Similarity=0.362 Sum_probs=37.5
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEE--EehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIIL--INQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~--ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+.+.|...+++...+..++|+.++++-.|+ .+...+..+.+.++ ...|.|.+
T Consensus 43 l~~~D~~~~p~~a~~~a~~Li~~~~v~aviG~~~s~~a~a~~~~~~---~~vp~i~~ 96 (333)
T cd06358 43 LVIVDDGSPPAEAAAAAARLVDEGGVDAIIGWHTSAVRNAVAPVVA---GRVPYVYT 96 (333)
T ss_pred EEEECCCCChHHHHHHHHHHHHhCCCcEEEecCcHHHHHHHHHHHh---cCceEEeC
Confidence 445566667788889999999887877777 44566666777665 55787764
No 129
>cd00363 PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases. Some members evolved by gene duplication and thus have a large C-terminal/N-terminal extension comprising a second PFK domain. Generally, ATP-PFKs are allosteric homotetramers, and PPi-PFKs are dimeric and nonallosteric except for plant PPi-PFKs which are allosteric heterotetramers.
Probab=27.55 E-value=99 Score=25.20 Aligned_cols=51 Identities=8% Similarity=0.197 Sum_probs=33.0
Q ss_pred CHHHHHHHHHHhhcC-CCeEEEEEehHHH---------HHHHHHHhhcCCCccEEEEcCCCC
Q psy6439 48 SVSDIEEAFRKFIKR-DDVDIILINQNVA---------ELIRHCIDDHTQPIPAVLEIPSKD 99 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~-~digII~ite~~~---------~~i~d~i~~~~~~~P~Iv~IP~~~ 99 (114)
..+++.+.+++-.++ +++++|+++|.+. +.+++.|++.- ...+-..+|+.-
T Consensus 205 ~~~~~~~~i~~r~~~~~~~~vivvsEG~~~~~~~~~~~~~l~~~i~~~~-~~~~r~~~lGy~ 265 (338)
T cd00363 205 WEEEMVDVIKKRRERGKRHGIVIVAEGAIDFIPKPITEKLLAKLVEERL-GFDTRATVLGHV 265 (338)
T ss_pred CHHHHHHHHHHHHHhcCCeEEEEEeCCCccccccCchHHHHHHHHHHHc-CCceEEeecCcc
Confidence 346666666655544 8899999999854 66777776642 234555666654
No 130
>PRK13780 phosphocarrier protein HPr; Provisional
Probab=27.55 E-value=1.1e+02 Score=20.04 Aligned_cols=45 Identities=13% Similarity=0.281 Sum_probs=30.5
Q ss_pred cchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe
Q psy6439 16 GDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV 65 (114)
Q Consensus 16 GD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di 65 (114)
.|-.+++|....|+..-.. ..+.-...+++++.+.|.+++++++.
T Consensus 42 vdakSil~lm~Lg~~~G~~-----v~i~a~G~De~~Al~~l~~~l~~~~l 86 (88)
T PRK13780 42 VNLKSIMGVMSLGVGQGAD-----ITISAEGADAADAIAAIEETMKKEGL 86 (88)
T ss_pred EechhHHHHHhcCCCCCCE-----EEEEEeCcCHHHHHHHHHHHHHhccc
Confidence 4678999999999985322 22332233568888899999866544
No 131
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=27.42 E-value=2e+02 Score=19.39 Aligned_cols=44 Identities=18% Similarity=0.212 Sum_probs=28.2
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehH-----HHHHHHHHHhhcCCCccEEEEcC
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQN-----VAELIRHCIDDHTQPIPAVLEIP 96 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~-----~~~~i~d~i~~~~~~~P~Iv~IP 96 (114)
+++...++ +..+++-|+++-+ ....+=+.+...+...|+.+...
T Consensus 27 dd~~~~i~---~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~~~iPVFl~~~ 75 (115)
T PF03709_consen 27 DDALAIIE---SFTDIAAVVISWDGEEEDEAQELLDKIRERNFGIPVFLLAE 75 (115)
T ss_dssp HHHHHHHH---CTTTEEEEEEECHHHHHHHHHHHHHHHHHHSTT-EEEEEES
T ss_pred HHHHHHHH---hCCCeeEEEEEcccccchhHHHHHHHHHHhCCCCCEEEEec
Confidence 66655555 6678999999933 33334344666678899887765
No 132
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=27.13 E-value=2.1e+02 Score=21.74 Aligned_cols=53 Identities=23% Similarity=0.320 Sum_probs=33.7
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+++.|...+++...+.+++++.++++..|+-. ......+.+.+++ ...|.|..
T Consensus 41 l~~~D~~~~~~~~~~~~~~lv~~~~v~~iig~~~s~~~~~~~~~~~~--~~ip~v~~ 95 (336)
T cd06360 41 FVVEDDEAKPDVAVEKARKLIEQDKVDVVVGPVHSGEALAMVKVLRE--PGTPLINP 95 (336)
T ss_pred EEEcCCCCChHHHHHHHHHHHHHhCCcEEEccCccHhHHHHHHHHHh--cCceEEec
Confidence 44446656678888899999877777666543 2233344455555 56787764
No 133
>cd01971 Nitrogenase_VnfN_like Nitrogenase_vnfN_like: VnfN subunit of the VnfEN complex-like. This group in addition to VnfN contains a subset of the beta subunit of the nitrogenase MoFe protein and NifN-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protien for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=27.02 E-value=3.5e+02 Score=22.41 Aligned_cols=24 Identities=25% Similarity=0.212 Sum_probs=19.6
Q ss_pred CcEEEEEcchhHHHHH-----hhccccce
Q psy6439 9 GKLLAVIGDEDTCVGF-----LLGGIGEI 32 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GF-----rLaGi~~~ 32 (114)
.+|++|.||++.+.|+ +=.|++.+
T Consensus 293 ~k~vai~~~~~~~~~l~~~L~~elGm~~~ 321 (427)
T cd01971 293 PRRFAVIADSTYALGLARFLVNELGWVPA 321 (427)
T ss_pred CceEEEECChHHHHHHHHHHHHhcCCceE
Confidence 4899999999999998 34788764
No 134
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=26.92 E-value=1.4e+02 Score=24.13 Aligned_cols=41 Identities=10% Similarity=0.015 Sum_probs=27.9
Q ss_pred HhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEEe
Q psy6439 24 FLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILIN 71 (114)
Q Consensus 24 FrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~it 71 (114)
+.-.|++.. .+..+++++++|+.+.++++=+++++ |||+-.
T Consensus 58 a~~~Gi~~~-------~~~l~~~~s~~el~~~I~~lN~d~~V~GIlvql 99 (285)
T PRK10792 58 CEEVGFVSR-------SYDLPETTSEAELLALIDELNADPTIDGILVQL 99 (285)
T ss_pred HHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEeC
Confidence 445688763 22335567888999999988777777 666543
No 135
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=26.86 E-value=2.4e+02 Score=20.24 Aligned_cols=79 Identities=9% Similarity=0.037 Sum_probs=40.2
Q ss_pred CCcEEEEEcchhH--HHHHhhccccceeccCCC---ceeeecCCCCHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDT--CVGFLLGGIGEINKHRQP---NFLVVDKNTSVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~~---nf~vv~~~~~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d 80 (114)
..++|++++.... ..--|+.|+......... ...+...+.+.++..+.+++++++. + -||+..+...+..+-.
T Consensus 119 g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~ 198 (268)
T cd06271 119 GHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSSELMALGVLA 198 (268)
T ss_pred CCCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHH
Confidence 3578999975322 112245555432211110 0112222334566777788887543 3 3666666656666666
Q ss_pred HHhhcC
Q psy6439 81 CIDDHT 86 (114)
Q Consensus 81 ~i~~~~ 86 (114)
.+.+..
T Consensus 199 al~~~g 204 (268)
T cd06271 199 ALAEAG 204 (268)
T ss_pred HHHHhC
Confidence 666654
No 136
>cd06292 PBP1_LacI_like_10 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=26.61 E-value=2.4e+02 Score=20.51 Aligned_cols=43 Identities=14% Similarity=0.079 Sum_probs=26.5
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P 90 (114)
+.+...+.+++++.+.--||+..++.++..+-..+.+.....|
T Consensus 166 ~~~~~~~~~~~~l~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip 208 (273)
T cd06292 166 SVEGGQAAAVELLGSGPTAIVAASDLMALGAIRAARRRGLRVP 208 (273)
T ss_pred CHHHHHHHHHHHhcCCCCEEEEcCcHHHHHHHHHHHHcCCCCC
Confidence 4466677788887554236666666676666666666543344
No 137
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=26.59 E-value=2.2e+02 Score=21.93 Aligned_cols=48 Identities=19% Similarity=0.340 Sum_probs=30.3
Q ss_pred CHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHHHHhhcCCCcc---EEEEc
Q psy6439 48 SVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRHCIDDHTQPIP---AVLEI 95 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d~i~~~~~~~P---~Iv~I 95 (114)
+.++..+.++++++.. + -||+..++.++-.+-..+.+.....| .|+-+
T Consensus 220 ~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~~~al~~~G~~vP~disvigf 272 (346)
T PRK10401 220 DMQGGEAAMVELLGRNLQLTAVFAYNDNMAAGALTALKDNGIAIPLHLSIIGF 272 (346)
T ss_pred ChHHHHHHHHHHHcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCceEEEEe
Confidence 4456667778887543 2 47777777777777777777654445 45544
No 138
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=26.54 E-value=2.6e+02 Score=20.43 Aligned_cols=79 Identities=15% Similarity=0.111 Sum_probs=39.9
Q ss_pred CCcEEEEEcchhH--HHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcC-CCe-EEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDT--CVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKR-DDV-DIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~dt--v~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~-~di-gII~ite~~~~~i~d 80 (114)
...+|+++++... ..-=|..|+........ ....+...+.+.++..+.+.+++.+ +++ ||+..+..++..+-+
T Consensus 124 g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~ 203 (275)
T cd06295 124 GRRRIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAASDLMALGALR 203 (275)
T ss_pred CCCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHH
Confidence 3568999987432 22234455544322111 0111222233446667778877754 334 555555556656656
Q ss_pred HHhhcC
Q psy6439 81 CIDDHT 86 (114)
Q Consensus 81 ~i~~~~ 86 (114)
.+.+..
T Consensus 204 ~l~~~g 209 (275)
T cd06295 204 ALREAG 209 (275)
T ss_pred HHHHhC
Confidence 566544
No 139
>PLN02235 ATP citrate (pro-S)-lyase
Probab=26.24 E-value=3.9e+02 Score=22.91 Aligned_cols=62 Identities=11% Similarity=0.088 Sum_probs=43.2
Q ss_pred CceeeecCCCCHHHHHHHHHHhh----cCCCeEEEEEe--------hHHH---HHHHHHHhhcC-----CCccEEEEcCC
Q psy6439 38 PNFLVVDKNTSVSDIEEAFRKFI----KRDDVDIILIN--------QNVA---ELIRHCIDDHT-----QPIPAVLEIPS 97 (114)
Q Consensus 38 ~nf~vv~~~~~~ee~~~~l~~l~----~~~digII~it--------e~~~---~~i~d~i~~~~-----~~~P~Iv~IP~ 97 (114)
-||.=+--..+.+.+.++++-++ +++++-.|+|+ ..++ +-+-+.+.++. ...|+||-+.+
T Consensus 299 ANFlDvGG~a~~e~v~~a~~iil~~~~~~~~vk~ilvnIfGGI~rcd~VA~tf~GIi~A~~e~~~kl~~~~vpivVRl~G 378 (423)
T PLN02235 299 GNYAEYSGAPNEEEVLQYARVVIDCATANPDGRKRALLIGGGIANFTDVAATFNGIIRALREKESKLKAARMHIFVRRGG 378 (423)
T ss_pred ceeeecCCCCCHHHHHHHHHHHHhhhhcCCCCcEEEEEEecccccchhhhhhhhHHHHHHHHhhhccccCCccEEEECCC
Confidence 36888877778899999999887 67776555443 4456 55555555543 35799998877
Q ss_pred CC
Q psy6439 98 KD 99 (114)
Q Consensus 98 ~~ 99 (114)
.+
T Consensus 379 tN 380 (423)
T PLN02235 379 PN 380 (423)
T ss_pred CC
Confidence 65
No 140
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=26.12 E-value=2.6e+02 Score=20.20 Aligned_cols=45 Identities=18% Similarity=0.311 Sum_probs=24.9
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+++...+.++.++...-=|||+......+.+-..+.+ ...|+|+.
T Consensus 40 ~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~--~~ipvV~~ 84 (268)
T cd06298 40 DKEKELKVLNNLLAKQVDGIIFMGGKISEEHREEFKR--SPTPVVLA 84 (268)
T ss_pred CHHHHHHHHHHHHHhcCCEEEEeCCCCcHHHHHHHhc--CCCCEEEE
Confidence 3455567777777544456666654433333333333 56787654
No 141
>cd06331 PBP1_AmiC_like Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF). This group includes the type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF), found in bacteria and Archaea. AmiC controls expression of the amidase operon by a ligand-triggered conformational switch. In the absence of ligand or presence of butyramide (repressor), AmiC (the ligand sensor and negative regulator) adopts an open conformation and inhibits the transcription antitermination function of AmiR by direct protein-protein interaction. In the presence of inducing ligands such as acetamide, AmiC adopts a closed conformation which disrupts a silencing AmiC-AmiR complex and the expression of amidase and other genes of the operon is induced. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two t
Probab=26.06 E-value=3e+02 Score=21.04 Aligned_cols=54 Identities=15% Similarity=0.164 Sum_probs=39.4
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHHHHHHhhcCCCccEEEEc
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELIRHCIDDHTQPIPAVLEI 95 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i~d~i~~~~~~~P~Iv~I 95 (114)
+.+.|...+++...+..++|+.++++.+|+=. ......+.+.+++ ...|+|.+.
T Consensus 43 l~~~D~~~~p~~a~~~a~~Li~~~~V~aiiG~~~s~~~~a~~~~~~~--~~vp~i~~~ 98 (333)
T cd06331 43 LVVEDPASDPAFAAKAARRLIRDDKVDAVFGCYTSASRKAVLPVVER--GRGLLFYPT 98 (333)
T ss_pred EEEECCCCCHHHHHHHHHHHHhccCCcEEEecccHHHHHHHHHHHHh--cCceEEeCC
Confidence 56667777889999999999987788777754 3344556666776 567887654
No 142
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=26.05 E-value=2.3e+02 Score=22.85 Aligned_cols=53 Identities=23% Similarity=0.308 Sum_probs=38.3
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEE--EehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIIL--INQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~--ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+++.|...+++...+..++|+.++++.+|+ .+......+.+.+++ ...|.|..
T Consensus 44 lv~~D~~~~p~~a~~~a~~li~~d~v~~viG~~~S~~~~A~~~~~~~--~~~~~i~~ 98 (374)
T TIGR03669 44 LIDPDPQSDNERYQELTRRLLNRDKVDALWAGYSSATREAIRPIIDR--NEQLYFYT 98 (374)
T ss_pred EEEeCCCCCHHHHHHHHHHHHHhCCCCEEEcCCchHHHHHHHHHHHh--cCceEEcC
Confidence 566677778899999999999888887776 345555566666666 55677653
No 143
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consist of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=25.95 E-value=2.6e+02 Score=20.26 Aligned_cols=78 Identities=17% Similarity=0.153 Sum_probs=38.9
Q ss_pred CCcEEEEEcchhHH-HHHhhccccceeccCCCceee--ecCCCCHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHHHH
Q psy6439 8 KGKLLAVIGDEDTC-VGFLLGGIGEINKHRQPNFLV--VDKNTSVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRHCI 82 (114)
Q Consensus 8 ~~~kIaVIGD~dtv-~GFrLaGi~~~~~~~~~nf~v--v~~~~~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d~i 82 (114)
...+|++++++++. .--|+.|+...... .+++.. .....+.++..+.+++++.+. +. +|+..++.++..+-+.+
T Consensus 120 g~~~i~~i~~~~~~~~~~R~~gf~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al 198 (267)
T cd06322 120 GKGQVAIIDYPTVQSVVDRVRGFKEALAD-YPNIKIVAVQPGITRAEALTAAQNILQANPDLDGIFAFGDDAALGAVSAI 198 (267)
T ss_pred CCceEEEEecCCCccHHHHHHHHHHHHHh-CCCcEEEEecCCCChHHHHHHHHHHHHhCCCCCEEEEcCCcHHHHHHHHH
Confidence 34689999875432 12245555442221 111111 111123366677777777542 33 55555566666665656
Q ss_pred hhcC
Q psy6439 83 DDHT 86 (114)
Q Consensus 83 ~~~~ 86 (114)
.+..
T Consensus 199 ~~~g 202 (267)
T cd06322 199 KAAG 202 (267)
T ss_pred HHCC
Confidence 6543
No 144
>PF13380 CoA_binding_2: CoA binding domain; PDB: 3FF4_A 2D5A_A 2D59_A 2E6U_X 1IUL_A 1IUK_A 1Y81_A 2DUW_A.
Probab=25.88 E-value=82 Score=21.40 Aligned_cols=35 Identities=14% Similarity=0.120 Sum_probs=17.6
Q ss_pred cCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 61 KRDDVDIILINQNVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 61 ~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
..-|+.+|++..+....+=+++.+ .....++..|+
T Consensus 54 ~~iDlavv~~~~~~~~~~v~~~~~--~g~~~v~~~~g 88 (116)
T PF13380_consen 54 EPIDLAVVCVPPDKVPEIVDEAAA--LGVKAVWLQPG 88 (116)
T ss_dssp ST-SEEEE-S-HHHHHHHHHHHHH--HT-SEEEE-TT
T ss_pred CCCCEEEEEcCHHHHHHHHHHHHH--cCCCEEEEEcc
Confidence 456788888876654333333333 23568888887
No 145
>cd00886 MogA_MoaB MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea, and eukaryotes. MoCF contains a tricyclic pyranopterin, termed molybdopterin (MPT). MogA, together with MoeA, is responsible for the metal incorporation into MPT, the third step in MoCF biosynthesis. The plant homolog Cnx1 is a MoeA-MogA fusion protein. The mammalian homolog gephyrin is a MogA-MoeA fusion protein, that plays a critical role in postsynaptic anchoring of inhibitory glycine receptors and major GABAa receptor subtypes. In contrast, MoaB shows high similarity to MogA, but little is known about its physiological role. All well studied members of this family form highly stable trimers.
Probab=25.87 E-value=1.5e+02 Score=20.89 Aligned_cols=26 Identities=31% Similarity=0.512 Sum_probs=20.2
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
+.++++++++++.+...+.+|+.|-.
T Consensus 45 d~~~i~~~l~~~~~~~~~DlVittGG 70 (152)
T cd00886 45 DKDEIREALIEWADEDGVDLILTTGG 70 (152)
T ss_pred CHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 46889999999886336888988854
No 146
>PLN02667 inositol polyphosphate multikinase
Probab=25.82 E-value=64 Score=25.95 Aligned_cols=42 Identities=21% Similarity=0.534 Sum_probs=28.3
Q ss_pred HHHHhhccccceeccCCCceeeecC----CCCHHHHHHHHHHhhcCC
Q psy6439 21 CVGFLLGGIGEINKHRQPNFLVVDK----NTSVSDIEEAFRKFIKRD 63 (114)
Q Consensus 21 v~GFrLaGi~~~~~~~~~nf~vv~~----~~~~ee~~~~l~~l~~~~ 63 (114)
-+|||+.|+... ..+...|...+. ..+.+++.++|+.++...
T Consensus 128 slGfRi~Gmkvy-~~~~~~~~~~dK~~Gr~lt~~~~~~~l~~F~~~~ 173 (286)
T PLN02667 128 SLGFRVSGFKVY-DHKESEFWKAERKLVKGLDADGVRLALRKFVSSN 173 (286)
T ss_pred cccEEEEEeEEE-ecCCCeeEEechHHhhcCCHHHHHHHHHHHhcCC
Confidence 689999999973 333223544432 234588999999999754
No 147
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=25.68 E-value=2.7e+02 Score=20.40 Aligned_cols=83 Identities=12% Similarity=0.135 Sum_probs=42.2
Q ss_pred cCCcEEEEEcchhH-------HHHHhhccccceeccC---CCceeeecCCCCHHHHHHHHHHhhcCC---C-eEEEEEeh
Q psy6439 7 VKGKLLAVIGDEDT-------CVGFLLGGIGEINKHR---QPNFLVVDKNTSVSDIEEAFRKFIKRD---D-VDIILINQ 72 (114)
Q Consensus 7 ~~~~kIaVIGD~dt-------v~GFrLaGi~~~~~~~---~~nf~vv~~~~~~ee~~~~l~~l~~~~---d-igII~ite 72 (114)
+...+|++++.... ..-.|..|+....... +..+ +...+.+.+...+.+++++++. . -||+..++
T Consensus 110 ~g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d 188 (270)
T cd01544 110 LGHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGLYDPEL-IYIGDFTVESGYQLMKEALKSLGDNLPTAFFIASD 188 (270)
T ss_pred cCCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcCCCChhe-EeeCCCCHHHHHHHHHHHHhccCCCCCCEEEEcCc
Confidence 34578999976431 2233444433321111 0111 2222234466667777777553 2 36666666
Q ss_pred HHHHHHHHHHhhcCCCcc
Q psy6439 73 NVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 73 ~~~~~i~d~i~~~~~~~P 90 (114)
.++..+-..+.+.....|
T Consensus 189 ~~a~g~~~~l~~~g~~vp 206 (270)
T cd01544 189 PMAIGALRALQEAGIKVP 206 (270)
T ss_pred HHHHHHHHHHHHcCCCCC
Confidence 667777666666543334
No 148
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=25.52 E-value=2.8e+02 Score=22.05 Aligned_cols=63 Identities=22% Similarity=0.304 Sum_probs=42.2
Q ss_pred CcEEEEEcchhHHHHHhhccccceeccCC--Cceeee--cCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 9 GKLLAVIGDEDTCVGFLLGGIGEINKHRQ--PNFLVV--DKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~--~nf~vv--~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
..||.++|......-+..+|++-+...+. ..|+++ ++...-+.+.+++..+.++ .-.|..+.+
T Consensus 91 ~~kv~viG~~~l~~~l~~~G~~~~~~~~~~~~d~Vv~g~d~~~~~e~l~~a~~~i~~g--~~fI~tNpD 157 (269)
T COG0647 91 GKKVYVIGEEGLKEELEGAGFELVDEEEPARVDAVVVGLDRTLTYEKLAEALLAIAAG--APFIATNPD 157 (269)
T ss_pred CCEEEEECCcchHHHHHhCCcEEeccCCCCcccEEEEecCCCCCHHHHHHHHHHHHcC--CcEEEeCCC
Confidence 37999999999999999999987653333 135555 5556667777777766543 444444333
No 149
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=25.51 E-value=2.9e+02 Score=21.17 Aligned_cols=85 Identities=18% Similarity=0.196 Sum_probs=49.0
Q ss_pred CcE-EEEEcchh--HHHHHhhccccceeccCC---CceeeecCCCCHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHH
Q psy6439 9 GKL-LAVIGDED--TCVGFLLGGIGEINKHRQ---PNFLVVDKNTSVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRH 80 (114)
Q Consensus 9 ~~k-IaVIGD~d--tv~GFrLaGi~~~~~~~~---~nf~vv~~~~~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d 80 (114)
.++ |+++|.+. +...-|+.|+........ +...+...+.+.+...+.+++++++. ++ ||+-.++.++..+-.
T Consensus 118 h~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~ 197 (279)
T PF00532_consen 118 HRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDFDYESGYEAARELLESHPDIDAIFCANDMMAIGAIR 197 (279)
T ss_dssp CCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSSSHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHH
T ss_pred cCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCCCHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHH
Confidence 467 99999843 333445544442211110 01223333446678888899998876 33 666666677777777
Q ss_pred HHhhcC-CCccEEE
Q psy6439 81 CIDDHT-QPIPAVL 93 (114)
Q Consensus 81 ~i~~~~-~~~P~Iv 93 (114)
.+.+.. ...|--|
T Consensus 198 ~l~~~gr~~ip~di 211 (279)
T PF00532_consen 198 ALRERGRLKIPEDI 211 (279)
T ss_dssp HHHHTT-TCTTTEE
T ss_pred HHHHcCCcccChhh
Confidence 777765 5567333
No 150
>PRK04017 hypothetical protein; Provisional
Probab=25.47 E-value=2.6e+02 Score=20.09 Aligned_cols=24 Identities=8% Similarity=0.346 Sum_probs=16.5
Q ss_pred cCCCeEEEEEeh------HHHHHHHHHHhh
Q psy6439 61 KRDDVDIILINQ------NVAELIRHCIDD 84 (114)
Q Consensus 61 ~~~digII~ite------~~~~~i~d~i~~ 84 (114)
..+.-+||++|+ +++..+.+.+..
T Consensus 62 a~~~r~VIILTD~D~~GekIr~~l~~~l~~ 91 (132)
T PRK04017 62 ASRGKEVIILTDFDRKGEELAKKLSEYLQG 91 (132)
T ss_pred HhcCCeEEEEECCCcchHHHHHHHHHHHHh
Confidence 356779999997 566666665554
No 151
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational
Probab=25.43 E-value=2.7e+02 Score=20.17 Aligned_cols=49 Identities=14% Similarity=0.188 Sum_probs=26.2
Q ss_pred cCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 44 DKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 44 ~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
+.+.++++..+.++.+..+.-=|||++.....+.....+.+ ...|+|..
T Consensus 36 ~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~l~~--~~iPvv~~ 84 (268)
T cd06273 36 SSGYDLDREYAQARKLLERGVDGLALIGLDHSPALLDLLAR--RGVPYVAT 84 (268)
T ss_pred cCCCCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHh--CCCCEEEE
Confidence 44344566667788887653337777654322222223333 56787764
No 152
>PRK06696 uridine kinase; Validated
Probab=25.29 E-value=90 Score=23.22 Aligned_cols=22 Identities=14% Similarity=0.125 Sum_probs=11.5
Q ss_pred CCccEEEEcCCCCCCCCCCccchhh
Q psy6439 87 QPIPAVLEIPSKDHPYDASKDSILR 111 (114)
Q Consensus 87 ~~~P~Iv~IP~~~g~~~~~~d~i~~ 111 (114)
...|.||-|-+.+|+ +|.++++
T Consensus 19 ~~~~~iI~I~G~sgs---GKSTlA~ 40 (223)
T PRK06696 19 LTRPLRVAIDGITAS---GKTTFAD 40 (223)
T ss_pred CCCceEEEEECCCCC---CHHHHHH
Confidence 445666666555543 4544444
No 153
>PF01886 DUF61: Protein of unknown function DUF61; InterPro: IPR002746 The proteins in this entry are functionally uncharacterised.
Probab=25.14 E-value=1.9e+02 Score=20.66 Aligned_cols=46 Identities=20% Similarity=0.450 Sum_probs=32.5
Q ss_pred HHHHHHhhcCCCeEEEEEe-------hHHHHHHHHHHhhc---CCCccEEEEc-CCC
Q psy6439 53 EEAFRKFIKRDDVDIILIN-------QNVAELIRHCIDDH---TQPIPAVLEI-PSK 98 (114)
Q Consensus 53 ~~~l~~l~~~~digII~it-------e~~~~~i~d~i~~~---~~~~P~Iv~I-P~~ 98 (114)
+..|.++++.+.-.|+.-+ .+--+.+.+.+..+ +-..|.|+++ |+.
T Consensus 20 rktL~eLL~ee~P~i~lrdG~~h~f~k~ELe~L~~~lp~~~~~~lrLPIile~~~~~ 76 (132)
T PF01886_consen 20 RKTLKELLEEEKPSIILRDGSRHRFDKEELERLAEILPEYEWSKLRLPIILEIDPTL 76 (132)
T ss_pred hhhHHHHHhCCCCeEEecCCCEEEEcHHHHHHHHHhCCHHHHhceeccEEEEEeccC
Confidence 4679999977777777633 33466667766665 3669999999 774
No 154
>cd06347 PBP1_ABC_ligand_binding_like_12 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=25.11 E-value=3e+02 Score=20.69 Aligned_cols=56 Identities=16% Similarity=0.261 Sum_probs=39.6
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEE--ehHHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILI--NQNVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~i--te~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
|.+.|..-+++...+..++++.++++-.|+= +......+.+..++ ...|+|.+-.+
T Consensus 43 ~~~~D~~~~~~~~~~~~~~li~~~~v~aiiG~~~s~~~~~v~~~~~~--~~ip~i~~~~~ 100 (334)
T cd06347 43 LVVEDNKSDKEEAANAATRLIDQDKVVAIIGPVTSGATLAAGPIAED--AKVPMITPSAT 100 (334)
T ss_pred EEEecCCCChHHHHHHHHHHhcccCeEEEEcCCccHhHHHhHHHHHH--CCCeEEcCCCC
Confidence 5666776778899999999998777777754 24456666666666 55788875543
No 155
>PF02581 TMP-TENI: Thiamine monophosphate synthase/TENI; InterPro: IPR003733 Thiamine monophosphate synthase (TMP) (2.5.1.3 from EC) catalyzes the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5- (beta-hydroxyethyl)thiazole phosphate to yield thiamine phosphate in the thiamine biosynthesis pathway []. TENI, a protein from Bacillus subtilis that regulates the production of several extracellular enzymes by reducing alkaline protease production belongs to this group [].; GO: 0004789 thiamine-phosphate diphosphorylase activity, 0009228 thiamine biosynthetic process; PDB: 3NL5_A 3NL2_A 3NM1_A 3NM3_C 3NL6_B 3NL3_A 3CEU_A 3O63_B 3QH2_C 1YAD_D ....
Probab=25.05 E-value=2.7e+02 Score=20.04 Aligned_cols=33 Identities=18% Similarity=0.390 Sum_probs=19.6
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~ite~ 73 (114)
|++.++....++..+.+.++++. ++..|.+.++
T Consensus 2 y~It~~~~~~~~~~~~l~~~~~~-gv~~v~lR~k 34 (180)
T PF02581_consen 2 YLITDPRLCGDDFLEQLEAALAA-GVDLVQLREK 34 (180)
T ss_dssp EEEE-STTSTCHHHHHHHHHHHT-T-SEEEEE-S
T ss_pred EEEeCCchhcchHHHHHHHHHHC-CCcEEEEcCC
Confidence 44555544446677778888854 5888888764
No 156
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=24.98 E-value=4.3e+02 Score=22.87 Aligned_cols=59 Identities=17% Similarity=0.330 Sum_probs=35.5
Q ss_pred CCcEEEEEcchhHHHHH----hhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe---EEEEEehHHH
Q psy6439 8 KGKLLAVIGDEDTCVGF----LLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV---DIILINQNVA 75 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GF----rLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di---gII~ite~~~ 75 (114)
..+|+||.||++.++|+ .=.|++.+.+ +... ...+.++.++.+++...+ +.|+...++.
T Consensus 362 ~GKrvaI~gdpd~~~~l~~fL~ElGmepv~v-------~~~~--~~~~~~~~l~~ll~~~~~~~~~~v~~~~Dl~ 427 (515)
T TIGR01286 362 HGKRFAIYGDPDFVMGLVRFVLELGCEPVHI-------LCTN--GTKRWKAEMKALLAASPYGQNATVWIGKDLW 427 (515)
T ss_pred cCceEEEECCHHHHHHHHHHHHHCCCEEEEE-------EeCC--CCHHHHHHHHHHHhcCCCCCccEEEeCCCHH
Confidence 46899999999999994 4456665321 2221 235666777777754333 3444444443
No 157
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor
Probab=24.91 E-value=2.2e+02 Score=20.64 Aligned_cols=79 Identities=18% Similarity=0.081 Sum_probs=39.3
Q ss_pred CCcEEEEEcchh--HHHHHhhccccceeccCCC--ce-eeecCCCCHHHHHHHHHHhhcCC-Ce-EEEEEehHHHHHHHH
Q psy6439 8 KGKLLAVIGDED--TCVGFLLGGIGEINKHRQP--NF-LVVDKNTSVSDIEEAFRKFIKRD-DV-DIILINQNVAELIRH 80 (114)
Q Consensus 8 ~~~kIaVIGD~d--tv~GFrLaGi~~~~~~~~~--nf-~vv~~~~~~ee~~~~l~~l~~~~-di-gII~ite~~~~~i~d 80 (114)
..++|++++... ...--|+.|+......... +. .+.....+.++..+.+.+++.+. +. ||+..++.++..+-.
T Consensus 110 g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~ 189 (261)
T cd06272 110 GHKKIAYIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLSAEGGDNAAKKLLKESDLPTAIICGSYDIALGVLS 189 (261)
T ss_pred CchhEEEeecccccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCCHHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHH
Confidence 357899997533 2333355555432211110 00 11112223466677788887653 34 444444555666656
Q ss_pred HHhhcC
Q psy6439 81 CIDDHT 86 (114)
Q Consensus 81 ~i~~~~ 86 (114)
.+.+..
T Consensus 190 ~l~~~g 195 (261)
T cd06272 190 ALNKQG 195 (261)
T ss_pred HHHHhC
Confidence 566554
No 158
>PF00185 OTCace: Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; InterPro: IPR006131 This family contains two related enzymes: Aspartate carbamoyltransferase (2.1.3.2 from EC) (ATCase) catalyzes the conversion of aspartate and carbamoyl phosphate to carbamoylaspartate, the second step in the de novo biosynthesis of pyrimidine nucleotides []. In prokaryotes ATCase consists of two subunits: a catalytic chain (gene pyrB) and a regulatory chain (gene pyrI), while in eukaryotes it is a domain in a multi- functional enzyme (called URA2 in yeast, rudimentary in Drosophila, and CAD in mammals []) that also catalyzes other steps of the biosynthesis of pyrimidines. Ornithine carbamoyltransferase (2.1.3.3 from EC) (OTCase) catalyzes the conversion of ornithine and carbamoyl phosphate to citrulline. In mammals this enzyme participates in the urea cycle [] and is located in the mitochondrial matrix. In prokaryotes and eukaryotic microorganisms it is involved in the biosynthesis of arginine. In some bacterial species it is also involved in the degradation of arginine [] (the arginine deaminase pathway). It has been shown [] that these two enzymes are evolutionary related. The predicted secondary structure of both enzymes are similar and there are some regions of sequence similarities. One of these regions includes three residues which have been shown, by crystallographic studies [], to be implicated in binding the phosphoryl group of carbamoyl phosphate and is described by IPR006132 from INTERPRO. The carboxyl-terminal, aspartate/ornithine-binding domain is connected to the amino-terminal domain by two alpha-helices, which comprise a hinge between domains [].; GO: 0016597 amino acid binding, 0016743 carboxyl- or carbamoyltransferase activity, 0006520 cellular amino acid metabolic process; PDB: 1ML4_A 4EP1_B 3Q98_A 3E2P_A 2RGW_E 4EKN_B 2G7M_E 3D6N_B 3M4J_A 3L06_A ....
Probab=24.89 E-value=1.4e+02 Score=21.39 Aligned_cols=23 Identities=22% Similarity=0.173 Sum_probs=17.0
Q ss_pred CcEEEEEcch------hHHHHHhhccccc
Q psy6439 9 GKLLAVIGDE------DTCVGFLLGGIGE 31 (114)
Q Consensus 9 ~~kIaVIGD~------dtv~GFrLaGi~~ 31 (114)
..+|+++||. ..+.++...|++-
T Consensus 2 gl~i~~vGD~~~rv~~Sl~~~~~~~g~~~ 30 (158)
T PF00185_consen 2 GLKIAYVGDGHNRVAHSLIELLAKFGMEV 30 (158)
T ss_dssp TEEEEEESSTTSHHHHHHHHHHHHTTSEE
T ss_pred CCEEEEECCCCChHHHHHHHHHHHcCCEE
Confidence 5789999993 3456777778773
No 159
>PF14639 YqgF: Holliday-junction resolvase-like of SPT6 ; PDB: 3PSI_A 3PSF_A.
Probab=24.74 E-value=1.1e+02 Score=22.13 Aligned_cols=37 Identities=19% Similarity=0.444 Sum_probs=27.0
Q ss_pred HHHHHHHHHHhhcCCCeEEEEE------ehHHHHHHHHHHhhc
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILI------NQNVAELIRHCIDDH 85 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~i------te~~~~~i~d~i~~~ 85 (114)
.++..+.|++++.+...-+|.| +..+.+.+++.+.+.
T Consensus 48 ~~~~~~~l~~~i~~~kP~vI~v~g~~~~s~~l~~~v~~~v~~~ 90 (150)
T PF14639_consen 48 KEEDMERLKKFIEKHKPDVIAVGGNSRESRKLYDDVRDIVEEL 90 (150)
T ss_dssp SHHHHHHHHHHHHHH--SEEEE--SSTHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHcCCeEEEEcCCChhHHHHHHHHHHHHHHh
Confidence 3566677888888888899999 556778888888775
No 160
>PRK03515 ornithine carbamoyltransferase subunit I; Provisional
Probab=24.68 E-value=2.6e+02 Score=22.93 Aligned_cols=25 Identities=24% Similarity=0.177 Sum_probs=18.0
Q ss_pred CCcEEEEEcch------hHHHHHhhccccce
Q psy6439 8 KGKLLAVIGDE------DTCVGFLLGGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD~------dtv~GFrLaGi~~~ 32 (114)
+..+||++||- ..+.++...|++-.
T Consensus 155 ~g~~ia~vGD~~~~v~~Sl~~~~~~~g~~v~ 185 (336)
T PRK03515 155 NEMTLAYAGDARNNMGNSLLEAAALTGLDLR 185 (336)
T ss_pred CCCEEEEeCCCcCcHHHHHHHHHHHcCCEEE
Confidence 45899999993 33667777788754
No 161
>TIGR02717 AcCoA-syn-alpha acetyl coenzyme A synthetase (ADP forming), alpha domain. Although technically reversible, it is believed that this group of ADP-dependent acetyl-CoA synthetases (ACS) act in the direction of acetate and ATP production in the organisms in which it has been characterized. In most species this protein exists as a fused alpha-beta domain polypeptide. In Pyrococcus and related species, however the domains exist as separate polypeptides. This model represents the alpha (N-terminal) domain. In Pyrococcus and related species there appears to have been the development of a paralogous family such that four other proteins are close relatives. In reference, one of these (along with its beta-domain partner) was characterized as ACS-II showing specificity for phenylacetyl-CoA. This model has been constructed to exclude these non-ACS-I paralogs. This may result in new, authentic ACS-I sequences falling below the trusted cutoff.
Probab=24.59 E-value=3.6e+02 Score=22.67 Aligned_cols=58 Identities=17% Similarity=0.174 Sum_probs=36.4
Q ss_pred ceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh---------HHHHHHHHHHhhcCCCccEEEEcCC
Q psy6439 39 NFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ---------NVAELIRHCIDDHTQPIPAVLEIPS 97 (114)
Q Consensus 39 nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite---------~~~~~i~d~i~~~~~~~P~Iv~IP~ 97 (114)
|.+-+....+++.+.++++.++++++++.|++.- .+++.+.+...+. ..+|+++..++
T Consensus 345 NPlDl~~~~~~~~~~~al~~l~~dp~vd~Vlv~~~~~~~~~~~~~a~~l~~~~~~~-~~KPvv~~~~g 411 (447)
T TIGR02717 345 NPVDVLGDATPERYAKALKTVAEDENVDGVVVVLTPTAMTDPEEVAKGIIEGAKKS-NEKPVVAGFMG 411 (447)
T ss_pred CCEecCCCCCHHHHHHHHHHHHcCCCCCEEEEEccCCccCCHHHHHHHHHHHHHhc-CCCcEEEEecC
Confidence 3333333356799999999999999998777532 2344444433332 26798777754
No 162
>cd02525 Succinoglycan_BP_ExoA ExoA is involved in the biosynthesis of succinoglycan. Succinoglycan Biosynthesis Protein ExoA catalyzes the formation of a beta-1,3 linkage of the second sugar (glucose) of the succinoglycan with the galactose on the lipid carrie. Succinoglycan is an acidic exopolysaccharide that is important for invasion of the nodules. Succinoglycan is a high-molecular-weight polymer composed of repeating octasaccharide units. These units are synthesized on membrane-bound isoprenoid lipid carriers, beginning with galactose followed by seven glucose molecules, and modified by the addition of acetate, succinate, and pyruvate. ExoA is a membrane protein with a transmembrance domain at c-terminus.
Probab=24.57 E-value=1.7e+02 Score=20.86 Aligned_cols=49 Identities=18% Similarity=0.331 Sum_probs=26.1
Q ss_pred HHHHHHHHHhhcC----CCeEEEEEehHHHHHHHHHHhhcCCCccEEEEcCCC
Q psy6439 50 SDIEEAFRKFIKR----DDVDIILINQNVAELIRHCIDDHTQPIPAVLEIPSK 98 (114)
Q Consensus 50 ee~~~~l~~l~~~----~digII~ite~~~~~i~d~i~~~~~~~P~Iv~IP~~ 98 (114)
+.+.+.|+.+.+. .++-||++...-.+...+.+..+....|-|..+...
T Consensus 13 ~~l~~~l~sl~~q~~~~~~~evivvd~~s~d~~~~~~~~~~~~~~~v~~i~~~ 65 (249)
T cd02525 13 KYIEELLESLLNQSYPKDLIEIIVVDGGSTDGTREIVQEYAAKDPRIRLIDNP 65 (249)
T ss_pred hhHHHHHHHHHhccCCCCccEEEEEeCCCCccHHHHHHHHHhcCCeEEEEeCC
Confidence 5666677776543 345677776554444444444443335545555443
No 163
>PF03770 IPK: Inositol polyphosphate kinase ; InterPro: IPR005522 ArgRIII has been demonstrated to be an inositol polyphosphate kinase [] which catalyses the reaction ATP + 1D-myo-inositol 1,4,5-trisphosphate = ADP + 1D-myo-inositol 1,3,4,5-tetrakisphosphate .; GO: 0008440 inositol trisphosphate 3-kinase activity; PDB: 2IF8_B 2IEW_B 1W2C_A 1W2F_A 1W2D_A 2A98_A 2AQX_A 1TZD_A.
Probab=24.53 E-value=58 Score=24.26 Aligned_cols=44 Identities=16% Similarity=0.468 Sum_probs=27.8
Q ss_pred HHHHHhhccccceeccCCCceeeec----CCCCHHHHHHHHHHhhcCCC
Q psy6439 20 TCVGFLLGGIGEINKHRQPNFLVVD----KNTSVSDIEEAFRKFIKRDD 64 (114)
Q Consensus 20 tv~GFrLaGi~~~~~~~~~nf~vv~----~~~~~ee~~~~l~~l~~~~d 64 (114)
.-+|||+.|+...... ...|...+ ...+.+++.++|..++....
T Consensus 48 ~~lGfRi~G~~~~~~~-~~~~~~~~K~~Gr~l~~~~~~~~l~~Ff~~~~ 95 (197)
T PF03770_consen 48 ASLGFRICGMQVYDPD-SGEYVKYDKYYGRSLTPEEVRDALKKFFNNGS 95 (197)
T ss_dssp HHHSEEEEEEEE-E-S-TTSEEEEEHHHTTH-SHHHHHHHHHHHHT-TT
T ss_pred cccCeEEEEEEEeccC-CCceEEEecHHhhhcCHHHHHHHHHHHhcCCC
Confidence 4589999999973332 22344442 22455899999999997554
No 164
>PRK13293 F420-0--gamma-glutamyl ligase; Reviewed
Probab=24.52 E-value=1.1e+02 Score=24.36 Aligned_cols=48 Identities=23% Similarity=0.393 Sum_probs=29.9
Q ss_pred HHHhh--ccccceeccCCCceeee---cCCCCHHHHHHHHHHhhcCCCeEEEEEeh
Q psy6439 22 VGFLL--GGIGEINKHRQPNFLVV---DKNTSVSDIEEAFRKFIKRDDVDIILINQ 72 (114)
Q Consensus 22 ~GFrL--aGi~~~~~~~~~nf~vv---~~~~~~ee~~~~l~~l~~~~digII~ite 72 (114)
.||.+ |||+..+... .+++. ||+.+-..+++.|++.. ..++|||+...
T Consensus 99 ~G~v~anAGID~SNv~~--g~~~LLP~DPd~SA~~ir~~l~~~~-g~~v~VIItDt 151 (245)
T PRK13293 99 HGHVCANAGIDESNVPD--GDLLLLPENPDESAERIREGLEELT-GKKVGVIITDT 151 (245)
T ss_pred cceEEeccccccccCCC--CeEEecCCCHHHHHHHHHHHHHHHH-CCCEEEEEEcC
Confidence 55554 6888655432 24544 44444556667777776 56999888765
No 165
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=24.50 E-value=1.3e+02 Score=26.35 Aligned_cols=51 Identities=8% Similarity=0.070 Sum_probs=36.9
Q ss_pred CcEEEEEcchhHHHHHhh----ccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEE
Q psy6439 9 GKLLAVIGDEDTCVGFLL----GGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILI 70 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrL----aGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~i 70 (114)
..||||||-+.++.|++. .|++-.. |...+ .+|++..++++. +.+|.+|+=
T Consensus 107 ~~~iavv~~~~~~~~~~~~~~~l~~~i~~------~~~~~----~~e~~~~v~~lk-~~G~~~vvG 161 (538)
T PRK15424 107 TSSIGVVTYQETIPALVAFQKTFNLRIEQ------RSYVT----EEDARGQINELK-ANGIEAVVG 161 (538)
T ss_pred CCcEEEEecCcccHHHHHHHHHhCCceEE------EEecC----HHHHHHHHHHHH-HCCCCEEEc
Confidence 479999999999999873 4555321 33333 399999999886 577877763
No 166
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=24.42 E-value=2.3e+02 Score=20.57 Aligned_cols=52 Identities=19% Similarity=0.227 Sum_probs=25.4
Q ss_pred eecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccEEEE
Q psy6439 42 VVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPAVLE 94 (114)
Q Consensus 42 vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~Iv~ 94 (114)
+.+...+++...+.++.++...==|||+...+ .....+.+.+++ ...|+|..
T Consensus 34 ~~~~~~~~~~~~~~l~~~~~~~vdgii~~~~~-~~~~~~~i~~~~~~~ipvV~~ 86 (273)
T cd06305 34 VYDAGGDDAKQADQIDQAIAQKVDAIIIQHGR-AEVLKPWVKRALDAGIPVVAF 86 (273)
T ss_pred EECCCCCHHHHHHHHHHHHHcCCCEEEEecCC-hhhhHHHHHHHHHcCCCEEEe
Confidence 33333345556677887776543455554322 111222233332 55786655
No 167
>PF00578 AhpC-TSA: AhpC/TSA family; InterPro: IPR000866 Peroxiredoxins (Prxs) are a ubiquitous family of antioxidant enzymes that also control cytokine-induced peroxide levels which mediate signal transduction in mammalian cells. Prxs can be regulated by changes to phosphorylation, redox and possibly oligomerisation states. Prxs are divided into three classes: typical 2-Cys Prxs; atypical 2-Cys Prxs; and 1-Cys Prxs. All Prxs share the same basic catalytic mechanism, in which an active-site cysteine (the peroxidatic cysteine) is oxidised to a sulphenic acid by the peroxide substrate. The recycling of the sulphenic acid back to a thiol is what distinguishes the three enzyme classes. Using crystal structures, a detailed catalytic cycle has been derived for typical 2-Cys Prxs, including a model for the redox-regulated oligomeric state proposed to control enzyme activity []. Alkyl hydroperoxide reductase (AhpC) is responsible for directly reducing organic hyperoxides in its reduced dithiol form. Thiol specific antioxidant (TSA) is a physiologically important antioxidant which constitutes an enzymatic defence against sulphur-containing radicals. This family contains AhpC and TSA, as well as related proteins.; GO: 0016209 antioxidant activity, 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QMV_A 1PRX_B 3HJP_C 3HA9_A 2V41_G 2V32_C 2V2G_C 3LWA_A 3IA1_B 1ZYE_G ....
Probab=24.41 E-value=2e+02 Score=18.41 Aligned_cols=43 Identities=23% Similarity=0.497 Sum_probs=31.6
Q ss_pred HHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEEE
Q psy6439 51 DIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVLE 94 (114)
Q Consensus 51 e~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv~ 94 (114)
++.+...+ +++.++.+|.|+.+-.+.+++.+++++-..|++.-
T Consensus 47 ~l~~~~~~-~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 47 ELNELYKK-YKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHH-HHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred HHHHHhhh-hccceEEeeecccccccchhhhhhhhccccccccC
Confidence 33444433 35779999999999888888888887766777664
No 168
>PF08282 Hydrolase_3: haloacid dehalogenase-like hydrolase; InterPro: IPR013200 The Haloacid Dehydrogenase (HAD) superfamily includes phosphatases, phosphonatases, P-type ATPases, beta-phosphoglucomutases, phosphomannomutases, and dehalogenases, which are involved in a variety of cellular processes ranging from amino acid biosynthesis to detoxification []. This HAD domain is found in several distinct enzymes including: Phospholipid-transporting ATPase 1 (3.6.3.1 from EC), a putative lipid-flipping enzyme involved in cold tolerance in Arabidopsis [] 3-deoxy-D-manno-octulosonate (KDO) 8-phosphate phosphatase (3.1.3.45 from EC), which catalyses the final step in the biosynthesis of KDO - a component of lipopolysaccharide in Gram-negative bacteria [] Mannosyl-3-phosphoglycerate phosphatase (3.1.3.70 from EC), which hydrolyzes mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate [] Phosphoglycolate phopshatase (3.1.3.18 from EC), which catalyses the dephosphorylation of 2-phosphoglycolate [] ; PDB: 2B30_B 3R4C_A 1XVI_B 3IJ5_B 3MMZ_C 3L7Y_A 1XPJ_C 1RLT_B 1RLM_B 2HF2_A ....
Probab=24.36 E-value=1.2e+02 Score=21.53 Aligned_cols=43 Identities=7% Similarity=0.139 Sum_probs=34.6
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEE
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv 93 (114)
++..++|+++. +.++=+++.|.+....++..+..+.-..|.|.
T Consensus 18 ~~~~~al~~l~-~~g~~~~i~TGR~~~~~~~~~~~~~~~~~~I~ 60 (254)
T PF08282_consen 18 PETIEALKELQ-EKGIKLVIATGRSYSSIKRLLKELGIDDYFIC 60 (254)
T ss_dssp HHHHHHHHHHH-HTTCEEEEECSSTHHHHHHHHHHTTHCSEEEE
T ss_pred HHHHHHHHhhc-ccceEEEEEccCcccccccccccccchhhhcc
Confidence 78888999887 47999999999999889998887753355554
No 169
>KOG4175|consensus
Probab=24.26 E-value=1.8e+02 Score=23.11 Aligned_cols=45 Identities=18% Similarity=0.296 Sum_probs=31.1
Q ss_pred cchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe
Q psy6439 16 GDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN 71 (114)
Q Consensus 16 GD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it 71 (114)
|+..++.--+=+|+.+ |.++|- ++||++. |+...++.++..|.++
T Consensus 111 G~e~~iq~ak~aGanG--------fiivDl--PpEEa~~-~Rne~~k~gislvpLv 155 (268)
T KOG4175|consen 111 GVENYIQVAKNAGANG--------FIIVDL--PPEEAET-LRNEARKHGISLVPLV 155 (268)
T ss_pred hHHHHHHHHHhcCCCc--------eEeccC--ChHHHHH-HHHHHHhcCceEEEee
Confidence 4555666667788887 778775 6687764 5555567788877765
No 170
>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]
Probab=23.91 E-value=2e+02 Score=21.90 Aligned_cols=45 Identities=16% Similarity=0.374 Sum_probs=31.9
Q ss_pred HHHHHHHhhcCCCeEEEEEehH-----HHHHHHHHHhhc-CCCccEEEEcCCC
Q psy6439 52 IEEAFRKFIKRDDVDIILINQN-----VAELIRHCIDDH-TQPIPAVLEIPSK 98 (114)
Q Consensus 52 ~~~~l~~l~~~~digII~ite~-----~~~~i~d~i~~~-~~~~P~Iv~IP~~ 98 (114)
+..++++.++. --+|+|.|= ...++++.+++. ++..|+|..++-+
T Consensus 90 ~~~al~rA~~~--aDvIIIDEIGpMElks~~f~~~ve~vl~~~kpliatlHrr 140 (179)
T COG1618 90 AIPALRRALEE--ADVIIIDEIGPMELKSKKFREAVEEVLKSGKPLIATLHRR 140 (179)
T ss_pred hHHHHHHHhhc--CCEEEEecccchhhccHHHHHHHHHHhcCCCcEEEEEecc
Confidence 44566666643 457777753 577788888887 6889999999855
No 171
>TIGR02482 PFKA_ATP 6-phosphofructokinase. 6-phosphofructokinase (EC 2.7.1.11) catalyzes the addition of phosphate from ATP to fructose 6-phosphate to give fructose 1,6-bisphosphate. This represents a key control step in glycolysis. This model hits bacterial ATP-dependent 6-phosphofructokinases which lack a beta-hairpin loop present in TIGR02483 family members. TIGR02483 contains members that are ATP-dependent as well as members that are pyrophosphate-dependent. TIGR02477 represents the pyrophosphate-dependent phosphofructokinase, diphosphate--fructose-6-phosphate 1-phosphotransferase (EC 2.7.1.90).
Probab=23.76 E-value=2.7e+02 Score=22.41 Aligned_cols=51 Identities=14% Similarity=0.280 Sum_probs=31.9
Q ss_pred CCHHHHHHHHHHhhcC-CCeEEEEEehH--H--HHHHHHHHhhcCCCccEEEEcCCC
Q psy6439 47 TSVSDIEEAFRKFIKR-DDVDIILINQN--V--AELIRHCIDDHTQPIPAVLEIPSK 98 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~-~digII~ite~--~--~~~i~d~i~~~~~~~P~Iv~IP~~ 98 (114)
.+.+++.+.+++-.++ +.++||+++|. . ...+.+.+++.. ...+-+.+|+.
T Consensus 195 ~~~~~l~~~i~~r~~~g~~~~iIvvaEG~~~~~~~~l~~~l~~~~-g~~~r~~~lG~ 250 (301)
T TIGR02482 195 YDIDELIQRLKEQHEAGKKHSIIIVAEGNIVGSAKEVAKKIEEAT-GIETRVTVLGH 250 (301)
T ss_pred CCHHHHHHHHHHHHHcCCCeEEEEEeCCCcCCcHHHHHHHHHHhc-CCeeEEeecCh
Confidence 4557777777766555 88999999999 3 445666665531 12333455544
No 172
>TIGR01487 SPP-like sucrose-phosphate phosphatase-like hydrolase, Archaeal. TIGR01482, in turn, is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases.
Probab=23.73 E-value=1.6e+02 Score=21.45 Aligned_cols=43 Identities=21% Similarity=0.170 Sum_probs=32.8
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEEE
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~Iv 93 (114)
++..++++++. +.++-+++.|-+-+..++...+.+.-..|+|.
T Consensus 21 ~~~~~~i~~l~-~~g~~~~~~TGR~~~~~~~~~~~l~~~~~~i~ 63 (215)
T TIGR01487 21 ERAIEAIRKAE-KKGIPVSLVTGNTVPFARALAVLIGTSGPVVA 63 (215)
T ss_pred HHHHHHHHHHH-HCCCEEEEEcCCcchhHHHHHHHhCCCCcEEE
Confidence 56678899885 57899999999988888887777654445543
No 173
>PRK02102 ornithine carbamoyltransferase; Validated
Probab=23.72 E-value=2.7e+02 Score=22.75 Aligned_cols=25 Identities=36% Similarity=0.332 Sum_probs=17.4
Q ss_pred CCcEEEEEcch------hHHHHHhhccccce
Q psy6439 8 KGKLLAVIGDE------DTCVGFLLGGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD~------dtv~GFrLaGi~~~ 32 (114)
+..+||++||- ..+.++...|++-.
T Consensus 154 ~g~~va~vGd~~~~v~~Sl~~~~~~~g~~v~ 184 (331)
T PRK02102 154 KGLKLAYVGDGRNNMANSLMVGGAKLGMDVR 184 (331)
T ss_pred CCCEEEEECCCcccHHHHHHHHHHHcCCEEE
Confidence 45899999993 34556666777653
No 174
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=23.65 E-value=3.3e+02 Score=20.65 Aligned_cols=89 Identities=9% Similarity=0.008 Sum_probs=45.7
Q ss_pred CCcEEEEEc-ch-hHH-HHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh
Q psy6439 8 KGKLLAVIG-DE-DTC-VGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD 84 (114)
Q Consensus 8 ~~~kIaVIG-D~-dtv-~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~ 84 (114)
..++|+++| +. +.. .--|+.|+.......+-.......+.+.++..+.++++++.+--||+..++.++-.+-..+.+
T Consensus 171 Ghr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~~~~~~~~~~~~~~~~~~~~l~~~~tAi~~~~D~~A~g~~~~l~~ 250 (311)
T TIGR02405 171 GHRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEPIYQTGQLSHESGYVLTDKVLKPETTALVCATDTLALGAAKYLQE 250 (311)
T ss_pred CCCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCceeeeCCCCHHHHHHHHHHHHhcCCCEEEECCcHHHHHHHHHHHH
Confidence 457899997 33 221 123555544321111100011122234466677788877544468888888887777666666
Q ss_pred cCCCccEEEEcC
Q psy6439 85 HTQPIPAVLEIP 96 (114)
Q Consensus 85 ~~~~~P~Iv~IP 96 (114)
..-....|+-+-
T Consensus 251 ~g~~dvsvvgfd 262 (311)
T TIGR02405 251 LDRSDVQVSSVG 262 (311)
T ss_pred cCCCCeEEEeeC
Confidence 432223444433
No 175
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=23.42 E-value=3.4e+02 Score=20.63 Aligned_cols=50 Identities=12% Similarity=0.143 Sum_probs=26.1
Q ss_pred cCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccEEEE
Q psy6439 44 DKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPAVLE 94 (114)
Q Consensus 44 ~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~Iv~ 94 (114)
+.+.+++.-.+.++.++...==|||+..-+ .+.+.+.+.+++ ...|+|+.
T Consensus 38 ~~~~~~~~q~~~i~~l~~~~vdgiii~~~~-~~~~~~~~~~~~~~giPvV~~ 88 (303)
T cd01539 38 DAKNNQSTQNEQIDTALAKGVDLLAVNLVD-PTAAQTVINKAKQKNIPVIFF 88 (303)
T ss_pred cCCCCHHHHHHHHHHHHHcCCCEEEEecCc-hhhHHHHHHHHHHCCCCEEEe
Confidence 333344555567887776544456665422 222334444442 56797653
No 176
>PRK05583 ribosomal protein L7Ae family protein; Provisional
Probab=23.41 E-value=1.6e+02 Score=19.95 Aligned_cols=34 Identities=21% Similarity=0.367 Sum_probs=24.4
Q ss_pred cCCCeEEEEEehHHHHHHHHHHhhc-C-CCccEEEE
Q psy6439 61 KRDDVDIILINQNVAELIRHCIDDH-T-QPIPAVLE 94 (114)
Q Consensus 61 ~~~digII~ite~~~~~i~d~i~~~-~-~~~P~Iv~ 94 (114)
++.....|++.+++++..++.+..+ + ...|.+..
T Consensus 30 k~gk~~lVI~A~D~s~~~kkki~~~~~~~~vp~~~~ 65 (104)
T PRK05583 30 KKKKVYLIIISNDISENSKNKFKNYCNKYNIPYIEG 65 (104)
T ss_pred HcCCceEEEEeCCCCHhHHHHHHHHHHHcCCCEEEe
Confidence 3567888888888888888877765 2 45676555
No 177
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=23.36 E-value=2.4e+02 Score=20.54 Aligned_cols=54 Identities=19% Similarity=0.226 Sum_probs=30.3
Q ss_pred eeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccEEEEc
Q psy6439 41 LVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPAVLEI 95 (114)
Q Consensus 41 ~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~Iv~I 95 (114)
.+.+...+.+...+.+++++.++==|||+..-+ ...+.+.+..++ ...|+|..-
T Consensus 38 ~i~~~~~~~~~~~~~~~~~~~~~vdgiIi~~~~-~~~~~~~l~~~~~~~iPvv~~~ 92 (272)
T cd06300 38 IVTSADGDVAQQIADIRNLIAQGVDAIIINPAS-PTALNPVIEEACEAGIPVVSFD 92 (272)
T ss_pred EEecCCCCHHHHHHHHHHHHHcCCCEEEEeCCC-hhhhHHHHHHHHHCCCeEEEEe
Confidence 444554456777788998886644466665432 121222333332 567977754
No 178
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=23.30 E-value=1.8e+02 Score=23.17 Aligned_cols=86 Identities=14% Similarity=0.262 Sum_probs=45.4
Q ss_pred CCcEEEEEcch--hHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc
Q psy6439 8 KGKLLAVIGDE--DTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH 85 (114)
Q Consensus 8 ~~~kIaVIGD~--dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~ 85 (114)
++.-|+++-.. .-..+=-+.|++......+-+..+.+-+.++++-++.++.+..+.==|||+.....-+...+.+.+
T Consensus 57 ~s~~Ig~i~p~~~~~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~~~~~~~~~~~l~~- 135 (333)
T COG1609 57 RTKTIGLVVPDITNPFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLGERPNDSLLELLAA- 135 (333)
T ss_pred CCCEEEEEeCCCCCchHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHHh-
Confidence 45667776441 112222345565533322222333333335566777777777655568888873444444444555
Q ss_pred CCCccEEEEc
Q psy6439 86 TQPIPAVLEI 95 (114)
Q Consensus 86 ~~~~P~Iv~I 95 (114)
...|.|+.=
T Consensus 136 -~~~P~V~i~ 144 (333)
T COG1609 136 -AGIPVVVID 144 (333)
T ss_pred -cCCCEEEEe
Confidence 568876654
No 179
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=23.23 E-value=3e+02 Score=20.00 Aligned_cols=52 Identities=19% Similarity=0.218 Sum_probs=26.8
Q ss_pred eecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccEEEE
Q psy6439 42 VVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPAVLE 94 (114)
Q Consensus 42 vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~Iv~ 94 (114)
+.+...++++-.+.++.++.+.--|||+..-. .+...+.+..+. ...|+|+.
T Consensus 34 ~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~-~~~~~~~l~~~~~~~ipvV~~ 86 (277)
T cd06319 34 ELSAENSAKKELENLRTAIDKGVSGIIISPTN-SSAAVTLLKLAAQAKIPVVIA 86 (277)
T ss_pred EecCCCCHHHHHHHHHHHHhcCCCEEEEcCCc-hhhhHHHHHHHHHCCCCEEEE
Confidence 33333344555677888876544566555422 222233344442 56787754
No 180
>cd02007 TPP_DXS Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products with important pharmaceutical activity. DXS catalyzes a transketolase-type condensation of pyruvate with D-glyceraldehyde-3-phosphate to form 1-deoxy-D-xylulose-5-phosphate (DXP) and carbon dioxide. The formation of DXP leads to the formation of the terpene precursor IPP (isopentyl diphosphate) and to the formation of thiamine (vitamin B1) and pyridoxal (vitamin B6).
Probab=23.17 E-value=55 Score=24.34 Aligned_cols=87 Identities=18% Similarity=0.283 Sum_probs=43.5
Q ss_pred CcEEEEEcchhHHHHHhhccccceeccCCCc-eeeecCCCC-----HHHHHHHHHHhhcCCCeEEEE-EehHHHHHHHHH
Q psy6439 9 GKLLAVIGDEDTCVGFLLGGIGEINKHRQPN-FLVVDKNTS-----VSDIEEAFRKFIKRDDVDIIL-INQNVAELIRHC 81 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n-f~vv~~~~~-----~ee~~~~l~~l~~~~digII~-ite~~~~~i~d~ 81 (114)
..-++++||-++--|.-..++...... ..| .++++.|.- -+...+.++ .-++.++. +.-.-.+.+.+.
T Consensus 98 ~~vv~~~GDG~~~eG~~~Eal~~A~~~-~~~li~vvdnN~~~~~~~~~~~~~~~~----a~G~~~~~~vdG~d~~~l~~a 172 (195)
T cd02007 98 RKVIAVIGDGALTGGMAFEALNNAGYL-KSNMIVILNDNEMSISPNVGTPGNLFE----ELGFRYIGPVDGHNIEALIKV 172 (195)
T ss_pred CeEEEEEcccccccChHHHHHHHHHHh-CCCEEEEEECCCcccCCCCCCHHHHHH----hcCCCccceECCCCHHHHHHH
Confidence 455999999887644433333322122 223 223333211 012333333 34566664 444344555555
Q ss_pred HhhcC-CCccEEEEcCCCCC
Q psy6439 82 IDDHT-QPIPAVLEIPSKDH 100 (114)
Q Consensus 82 i~~~~-~~~P~Iv~IP~~~g 100 (114)
+++.+ ...|.+|.+-+..|
T Consensus 173 ~~~a~~~~~P~~I~~~T~kg 192 (195)
T cd02007 173 LKEVKDLKGPVLLHVVTKKG 192 (195)
T ss_pred HHHHHhCCCCEEEEEEEecc
Confidence 55542 45798888766654
No 181
>PRK10949 protease 4; Provisional
Probab=23.12 E-value=2.7e+02 Score=24.86 Aligned_cols=50 Identities=18% Similarity=0.211 Sum_probs=40.5
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEehH-------HHHHHHHHHhhcC-CCccEEEEcCCC
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQN-------VAELIRHCIDDHT-QPIPAVLEIPSK 98 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite~-------~~~~i~d~i~~~~-~~~P~Iv~IP~~ 98 (114)
.+.+.+.|+++.+++++.-|++.=+ ..+.++++|.+++ +.+|+|+.+.+.
T Consensus 349 ~~~~~~~l~~a~~D~~vkaVvLrInSpGGs~~ase~i~~~i~~~r~~gKPVvas~~~~ 406 (618)
T PRK10949 349 GDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVSMGGM 406 (618)
T ss_pred HHHHHHHHHHHHhCCCCcEEEEEecCCCCcHHHHHHHHHHHHHHHhcCCcEEEEECCC
Confidence 3788899999999999988887643 4788999998885 568999987654
No 182
>PRK11148 cyclic 3',5'-adenosine monophosphate phosphodiesterase; Provisional
Probab=23.04 E-value=2.4e+02 Score=21.56 Aligned_cols=76 Identities=13% Similarity=0.156 Sum_probs=42.7
Q ss_pred cCCcEEEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcC-CCeEEEEEehHH--------HHH
Q psy6439 7 VKGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKR-DDVDIILINQNV--------AEL 77 (114)
Q Consensus 7 ~~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~-~digII~ite~~--------~~~ 77 (114)
.+..||+.|+|-... ..-++.. .-++ +.+.++++++.+.+. .+...|++|-++ ++.
T Consensus 12 ~~~~~i~~iSD~Hl~-----~~~~~~~-------~~~~---~~~~l~~~i~~i~~~~~~~D~vvitGDl~~~~~~~~~~~ 76 (275)
T PRK11148 12 EARVRILQITDTHLF-----ADEHETL-------LGVN---TWESYQAVLEAIRAQQHEFDLIVATGDLAQDHSSEAYQH 76 (275)
T ss_pred CCCEEEEEEcCcccC-----CCCCCce-------eccC---HHHHHHHHHHHHHhhCCCCCEEEECCCCCCCCCHHHHHH
Confidence 356889999996631 1111100 0001 236777778777543 467888888775 334
Q ss_pred HHHHHhhcCCCccEEEEcCCCCC
Q psy6439 78 IRHCIDDHTQPIPAVLEIPSKDH 100 (114)
Q Consensus 78 i~d~i~~~~~~~P~Iv~IP~~~g 100 (114)
+.+.+.++ ..| +..+|+-+-
T Consensus 77 ~~~~l~~l--~~P-v~~v~GNHD 96 (275)
T PRK11148 77 FAEGIAPL--RKP-CVWLPGNHD 96 (275)
T ss_pred HHHHHhhc--CCc-EEEeCCCCC
Confidence 44455553 356 566777654
No 183
>PF09580 Spore_YhcN_YlaJ: Sporulation lipoprotein YhcN/YlaJ (Spore_YhcN_YlaJ); InterPro: IPR019076 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain.
Probab=22.96 E-value=78 Score=22.74 Aligned_cols=61 Identities=13% Similarity=0.182 Sum_probs=32.0
Q ss_pred EEEEcchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehH--HHHHHHHHHhhcC
Q psy6439 12 LAVIGDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQN--VAELIRHCIDDHT 86 (114)
Q Consensus 12 IaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~--~~~~i~d~i~~~~ 86 (114)
.+|+.|.+.++|..+.+= +. ..+.-..++++++++.. +++-=|+||.+ ++.++++.=++++
T Consensus 94 ~vvv~~~~a~Vav~~~~~-~~-----------~~~~i~~~V~~~v~~~~--p~~~~V~Vs~D~~~~~ri~~~~~~~~ 156 (177)
T PF09580_consen 94 TVVVTDDNAYVAVDLDFN-RF-----------NTKKIKKKVEKAVKSAD--PRIYNVYVSTDPDIFDRIRNLANRIR 156 (177)
T ss_pred EEEEECCEEEEEEEeccc-cc-----------chhHHHHHHHHHHHHhC--CCccEEEEEcCHHHHHHHHHHHHHHH
Confidence 456666666666666621 10 00011244555555443 56556666655 6777777555543
No 184
>cd04414 NDPk6 Nucleoside diphosphate kinase 6 (NDP kinase 6, NDPk6, NM23-H6; NME6; Inhibitor of p53-induced apoptosis-alpha, IPIA-alpha): The nm23-H6 gene encoding NDPk6 is expressed mainly in mitochondria, but also found at a lower level in most tissues. NDPk6 has all nine residues considered crucial for enzyme structure and activity, and has been found to have NDP kinase activity. It may play a role in cell growth and cell cycle progression. The nm23-H6 gene locus has been implicated in a variety of malignant tumors.
Probab=22.88 E-value=1.5e+02 Score=20.84 Aligned_cols=27 Identities=15% Similarity=0.158 Sum_probs=20.6
Q ss_pred HHHhhcCCCeEEEEEehHHHHHHHHHH
Q psy6439 56 FRKFIKRDDVDIILINQNVAELIRHCI 82 (114)
Q Consensus 56 l~~l~~~~digII~ite~~~~~i~d~i 82 (114)
+..+...+-+++++..++..+..|+.+
T Consensus 62 v~~m~sgp~val~l~~~naV~~~r~l~ 88 (135)
T cd04414 62 VSFMTSGPSWALILAHENAIKTWRALM 88 (135)
T ss_pred HHHHhcCCeEEEEEEcCCHHHHHHHHh
Confidence 333556677899999999998888865
No 185
>COG0447 MenB Dihydroxynaphthoic acid synthase [Coenzyme metabolism]
Probab=22.85 E-value=1e+02 Score=24.77 Aligned_cols=25 Identities=24% Similarity=0.452 Sum_probs=22.0
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEeh
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQ 72 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite 72 (114)
+..|+-++|.....+.++|+|++|-
T Consensus 47 TV~Em~~Af~~Ar~d~~vGvi~lTG 71 (282)
T COG0447 47 TVDEMIDAFADARDDPNVGVILLTG 71 (282)
T ss_pred cHHHHHHHHHhhhcCCCccEEEEec
Confidence 3488889999999999999999994
No 186
>PTZ00187 succinyl-CoA synthetase alpha subunit; Provisional
Probab=22.83 E-value=2e+02 Score=23.55 Aligned_cols=87 Identities=14% Similarity=0.214 Sum_probs=48.1
Q ss_pred CcEEEEEcchhHHHHHhh-----ccccceeccCCCceeee-cCCCCHHHHHHHHHHhhcCCCeEEEEEehHH---H-HHH
Q psy6439 9 GKLLAVIGDEDTCVGFLL-----GGIGEINKHRQPNFLVV-DKNTSVSDIEEAFRKFIKRDDVDIILINQNV---A-ELI 78 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrL-----aGi~~~~~~~~~nf~vv-~~~~~~ee~~~~l~~l~~~~digII~ite~~---~-~~i 78 (114)
.-+|++|+-+-+++.--+ .|+.-.. ++-. ++....-++.+.|+-+.+|++.-.|++--+. . +..
T Consensus 169 ~G~VgiVSqSGtl~~ei~~~~~~~GlG~S~------~VsiGnd~~~g~~~~D~L~~~~~Dp~T~~Ivl~~E~gG~~e~~a 242 (317)
T PTZ00187 169 KGKIGIVSRSGTLTYEAVAQTTAVGLGQST------CVGIGGDPFNGTNFIDCLKLFLNDPETEGIILIGEIGGTAEEEA 242 (317)
T ss_pred CCCEEEEeCCHHHHHHHHHHHHHcCCCEEE------EEEeCCCCCCCCCHHHHHHHHhhCCCccEEEEEEecCCchhHHH
Confidence 356999988776554433 3443221 1111 1100013455667777788887665554332 1 333
Q ss_pred HHHHhhcCCCccEEEEcCCCCCC
Q psy6439 79 RHCIDDHTQPIPAVLEIPSKDHP 101 (114)
Q Consensus 79 ~d~i~~~~~~~P~Iv~IP~~~g~ 101 (114)
++.++.....+|+|+.+.+++.+
T Consensus 243 a~fi~~~~~~KPVVa~~aGrsap 265 (317)
T PTZ00187 243 AEWIKNNPIKKPVVSFIAGITAP 265 (317)
T ss_pred HHHHHhhcCCCcEEEEEecCCCC
Confidence 44454433568999999999753
No 187
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=22.83 E-value=3.5e+02 Score=20.62 Aligned_cols=88 Identities=14% Similarity=0.098 Sum_probs=43.8
Q ss_pred CCcEEEEEcchh-HHHHHhhccccceeccCC-Cce-eeecCCCCHHHHHHHHHHhhcCC-C-eEEEEEehHHHHHHHHHH
Q psy6439 8 KGKLLAVIGDED-TCVGFLLGGIGEINKHRQ-PNF-LVVDKNTSVSDIEEAFRKFIKRD-D-VDIILINQNVAELIRHCI 82 (114)
Q Consensus 8 ~~~kIaVIGD~d-tv~GFrLaGi~~~~~~~~-~nf-~vv~~~~~~ee~~~~l~~l~~~~-d-igII~ite~~~~~i~d~i 82 (114)
..++||++|.+. ...--|+.|+........ ... .+.+...+.++..+.+++++... + -||+..++.++-.+-..+
T Consensus 179 Gh~~I~~i~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~~~al 258 (331)
T PRK14987 179 GHRHIAYLGARLDERTIIKQKGYEQAMLDAGLVPYSVMVEQSSSYSSGIELIRQARREYPQLDGVFCTNDDLAVGAAFEC 258 (331)
T ss_pred CCceEEEEcCCCcccHHHHHHHHHHHHHHcCCCccceeecCCCChhhHHHHHHHHHhcCCCCCEEEECCcHHHHHHHHHH
Confidence 347899997632 111234555443211110 000 12222233455666777777543 3 366666666776666666
Q ss_pred hhcCCCcc---EEEEc
Q psy6439 83 DDHTQPIP---AVLEI 95 (114)
Q Consensus 83 ~~~~~~~P---~Iv~I 95 (114)
.+..-..| .|+-+
T Consensus 259 ~~~g~~vP~disvigf 274 (331)
T PRK14987 259 QRLGLKVPDDMAIAGF 274 (331)
T ss_pred HHcCCCCCCccEEEee
Confidence 66544444 45544
No 188
>cd04195 GT2_AmsE_like GT2_AmsE_like is involved in exopolysaccharide amylovora biosynthesis. AmsE is a glycosyltransferase involved in exopolysaccharide amylovora biosynthesis in Erwinia amylovora. Amylovara is one of the three exopolysaccharide produced by E. amylovora. Amylovara-deficient mutants are non-pathogenic. It is a subfamily of Glycosyltransferase Family GT2, which includes diverse families of glycosyltransferases with a common GT-A type structural fold, which has two tightly associated beta/alpha/beta domains that tend to form a continuous central sheet of at least eight beta-strands. These are enzymes that catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds.
Probab=22.65 E-value=2.6e+02 Score=19.31 Aligned_cols=49 Identities=12% Similarity=0.405 Sum_probs=25.6
Q ss_pred HHHHHHHHHhhcCC--CeEEEEEehHH-HHHHHHHHhhcCCCcc-EEEEcCCC
Q psy6439 50 SDIEEAFRKFIKRD--DVDIILINQNV-AELIRHCIDDHTQPIP-AVLEIPSK 98 (114)
Q Consensus 50 ee~~~~l~~l~~~~--digII~ite~~-~~~i~d~i~~~~~~~P-~Iv~IP~~ 98 (114)
+-+++.|..+++.. +.-||++.+.- -+...+.++.+....| .++..+..
T Consensus 13 ~~l~~~l~Sl~~q~~~~~eiiivdd~ss~d~t~~~~~~~~~~~~i~~i~~~~n 65 (201)
T cd04195 13 EFLREALESILKQTLPPDEVVLVKDGPVTQSLNEVLEEFKRKLPLKVVPLEKN 65 (201)
T ss_pred HHHHHHHHHHHhcCCCCcEEEEEECCCCchhHHHHHHHHHhcCCeEEEEcCcc
Confidence 46777777776543 35677775443 3344444555533334 34444443
No 189
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=22.58 E-value=3e+02 Score=19.81 Aligned_cols=43 Identities=12% Similarity=0.135 Sum_probs=25.6
Q ss_pred CHHHHHHHHHHhhcCCCe-EEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 48 SVSDIEEAFRKFIKRDDV-DIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~di-gII~ite~~~~~i~d~i~~~~~~~P 90 (114)
+.+...+.+++++.+..+ ||+..+...+..+-..+.+.....|
T Consensus 161 ~~~~~~~~~~~~l~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp 204 (268)
T cd06298 161 TYESGYELAEELLEDGKPTAAFVTDDELAIGILNAAQDAGLKVP 204 (268)
T ss_pred ChhHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHcCCCCc
Confidence 346666778888765435 4554455566666666766543333
No 190
>cd03466 Nitrogenase_NifN_2 Nitrogenase_nifN_2: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco). This group also contains the Clostidium fused NifN-NifB protein.
Probab=22.50 E-value=4.5e+02 Score=21.81 Aligned_cols=56 Identities=14% Similarity=0.259 Sum_probs=31.4
Q ss_pred CCcEEEEEcchhHHHHHh----hccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh
Q psy6439 8 KGKLLAVIGDEDTCVGFL----LGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ 72 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GFr----LaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite 72 (114)
..+|++|.|+++.+.|+. -.|++.+. +..+ +..++.++.++++.++....++++.+
T Consensus 299 ~gkrv~v~g~~~~~~~l~~~L~elG~~~~~--------v~~~-~~~~~~~~~l~~~~~~~~~~~~v~~~ 358 (429)
T cd03466 299 FGRKAAIYGEPDFVVAITRFVLENGMVPVL--------IATG-SESKKLKEKLEEDLKEYVEKCVILDG 358 (429)
T ss_pred CCCEEEEEcCHHHHHHHHHHHHHCCCEEEE--------EEeC-CCChHHHHHHHHHHHhcCCceEEEeC
Confidence 468999999998886543 23555421 1111 23355566666665443444555553
No 191
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=22.43 E-value=3.4e+02 Score=20.34 Aligned_cols=85 Identities=11% Similarity=0.139 Sum_probs=39.0
Q ss_pred CcEEEEEcc--hhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC
Q psy6439 9 GKLLAVIGD--EDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT 86 (114)
Q Consensus 9 ~~kIaVIGD--~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~ 86 (114)
...|+++-. .+.-..--+.|++......+-+..+.+...++++..+.++.+..+.--|||+.. .-.+...+.+..++
T Consensus 26 ~~~I~vi~~~~~~~f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l~~~~~dgiii~~-~~~~~~~~~l~~~~ 104 (295)
T PRK10653 26 KDTIALVVSTLNNPFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDLTVRGTKILLINP-TDSDAVGNAVKMAN 104 (295)
T ss_pred CCeEEEEecCCCChHHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHHHHcCCCEEEEcC-CChHHHHHHHHHHH
Confidence 467887664 222222333344432222222222333333456666778777654333565543 22333333444443
Q ss_pred -CCccEEEE
Q psy6439 87 -QPIPAVLE 94 (114)
Q Consensus 87 -~~~P~Iv~ 94 (114)
...|+|+.
T Consensus 105 ~~~ipvV~~ 113 (295)
T PRK10653 105 QANIPVITL 113 (295)
T ss_pred HCCCCEEEE
Confidence 45687665
No 192
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=22.27 E-value=1.8e+02 Score=22.02 Aligned_cols=42 Identities=5% Similarity=0.099 Sum_probs=32.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEE
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAV 92 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~I 92 (114)
++..++++++. +.++-+++.|-+-...++..++++.-..|+|
T Consensus 22 ~~~~~ai~~l~-~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I 63 (272)
T PRK15126 22 EKTLSTLARLR-ERDITLTFATGRHVLEMQHILGALSLDAYLI 63 (272)
T ss_pred HHHHHHHHHHH-HCCCEEEEECCCCHHHHHHHHHHcCCCCcEE
Confidence 55678899876 5789999999998888888888765334543
No 193
>PRK07714 hypothetical protein; Provisional
Probab=22.21 E-value=1.3e+02 Score=19.97 Aligned_cols=37 Identities=14% Similarity=0.324 Sum_probs=25.5
Q ss_pred cCCCeEEEEEehHHHHHHHHHHhhc-C-CCccEEEEcCCC
Q psy6439 61 KRDDVDIILINQNVAELIRHCIDDH-T-QPIPAVLEIPSK 98 (114)
Q Consensus 61 ~~~digII~ite~~~~~i~d~i~~~-~-~~~P~Iv~IP~~ 98 (114)
++....++++.+++.+..++.+..+ . ...|.+. .+++
T Consensus 31 ~~g~~~lViiA~D~s~~~~~ki~~~~~~~~vp~~~-~~sk 69 (100)
T PRK07714 31 RSGKAKLVLLSEDASVNTTKKITDKCTYYNVPMRK-VENR 69 (100)
T ss_pred HhCCceEEEEeCCCCHHHHHHHHHHHHhcCCCEEE-eCCH
Confidence 3567888999998888887777664 2 4567654 3544
No 194
>PRK14071 6-phosphofructokinase; Provisional
Probab=22.03 E-value=1.7e+02 Score=24.20 Aligned_cols=29 Identities=7% Similarity=0.269 Sum_probs=22.5
Q ss_pred CCCHHHHHHHHHHhhcC-CCeEEEEEehHH
Q psy6439 46 NTSVSDIEEAFRKFIKR-DDVDIILINQNV 74 (114)
Q Consensus 46 ~~~~ee~~~~l~~l~~~-~digII~ite~~ 74 (114)
..+.+++.+.+++.+++ ++++||+++|.+
T Consensus 210 ~~~~~~l~~~i~~~~~~~~~~~iivvsEG~ 239 (360)
T PRK14071 210 PYTLENVCKKIRERQEEGKNFCLVVVSEAV 239 (360)
T ss_pred CCCHHHHHHHHHHHHHcCCCeEEEEEcCCC
Confidence 34567787777777765 889999999986
No 195
>TIGR00099 Cof-subfamily Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily. The members of this subfamily are restricted almost exclusively to bacteria (one sequences from S. pombe scores above trusted, while another is between trusted and noise). It is notable that no archaea are found in this group, the closest relations to the archaea found here being two Deinococcus sequences.
Probab=21.97 E-value=2e+02 Score=21.49 Aligned_cols=42 Identities=12% Similarity=0.274 Sum_probs=32.1
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcCCCccEE
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHTQPIPAV 92 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~~~~P~I 92 (114)
++..++|+++. +.++-+++.|.+-...++..+.++.-..|.|
T Consensus 19 ~~~~~~i~~l~-~~G~~~~iaTGR~~~~~~~~~~~~~~~~~~I 60 (256)
T TIGR00099 19 PSTKEALAKLR-EKGIKVVLATGRPYKEVKNILKELGLDTPFI 60 (256)
T ss_pred HHHHHHHHHHH-HCCCeEEEEeCCCHHHHHHHHHHcCCCCCEE
Confidence 56678899887 4589999999998888888887765333554
No 196
>PF08712 Nfu_N: Scaffold protein Nfu/NifU N terminal; InterPro: IPR014824 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This domain is found at the N terminus of NifU (from NIF system) and NifU related proteins, and in the human Nfu protein. Both of these proteins are thought to be involved in the assembly of iron-sulphur clusters, functioning as scaffolds [, ]. ; GO: 0005506 iron ion binding; PDB: 2FFM_A 1PQX_A 2K1H_A.
Probab=21.96 E-value=1.3e+02 Score=19.77 Aligned_cols=36 Identities=19% Similarity=0.383 Sum_probs=18.7
Q ss_pred HHhhccccceeccCCCceeeec--CCCCHHHHHHHHHHhh
Q psy6439 23 GFLLGGIGEINKHRQPNFLVVD--KNTSVSDIEEAFRKFI 60 (114)
Q Consensus 23 GFrLaGi~~~~~~~~~nf~vv~--~~~~~ee~~~~l~~l~ 60 (114)
=|.+-||+.++...+ |+.|+ ++.+=++++..+.+.+
T Consensus 43 Lf~i~gV~~Vf~~~d--fItVtK~~~~~W~~l~~~I~~~I 80 (87)
T PF08712_consen 43 LFAIPGVKSVFIGDD--FITVTKNPDADWEDLKPEIREVI 80 (87)
T ss_dssp HHTSTTEEEEEEETT--EEEEEE-TTS-HHHHHHHHHHHT
T ss_pred hcCCCCEeEEEEECC--EEEEeeCCCCCHHHHHHHHHHHH
Confidence 356667777666543 67663 3334444444444443
No 197
>PF06348 DUF1059: Protein of unknown function (DUF1059); InterPro: IPR009409 This entry consists of short hypothetical archaeal and bacterial proteins of unknown function.
Probab=21.87 E-value=1.3e+02 Score=18.18 Aligned_cols=42 Identities=24% Similarity=0.358 Sum_probs=31.1
Q ss_pred eeeecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh
Q psy6439 40 FLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD 84 (114)
Q Consensus 40 f~vv~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~ 84 (114)
|.+.. .+++|+.+.+..=+ +..-|+--+++++.+.+|..|.+
T Consensus 15 ~~~~a--~tedEll~~~~~Ha-~~~Hg~~~~~~el~~~ir~~I~~ 56 (57)
T PF06348_consen 15 FVIRA--ETEDELLEAVVEHA-REVHGMTEIPEELREKIRSAIKD 56 (57)
T ss_pred eEEee--CCHHHHHHHHHHHH-HHhcCCccCCHHHHHHHHHHhhc
Confidence 44543 25688888888776 45668888999999999987754
No 198
>COG3412 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=21.78 E-value=2e+02 Score=20.82 Aligned_cols=45 Identities=20% Similarity=0.321 Sum_probs=21.9
Q ss_pred eEEEEEe--hHHHHHHHHHHhhcCCCccEEEEcCCCCCCCCCCccch
Q psy6439 65 VDIILIN--QNVAELIRHCIDDHTQPIPAVLEIPSKDHPYDASKDSI 109 (114)
Q Consensus 65 igII~it--e~~~~~i~d~i~~~~~~~P~Iv~IP~~~g~~~~~~d~i 109 (114)
+||++++ .++++-+.+.+.+.....|++--=...+|..+-+-+.|
T Consensus 3 vgiVIVSHS~~lAeGv~~li~em~~dv~i~~~gGtddg~iGTs~~~I 49 (129)
T COG3412 3 VGIVIVSHSKELAEGVAELIREMAGDVPITYAGGTDDGQIGTSFEKI 49 (129)
T ss_pred ceEEEEeCCHHHHHHHHHHHHHHhCCCceEEecCCCCCCcCcCHHHH
Confidence 5666665 33566666655555444454443333334443333333
No 199
>PRK14177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.74 E-value=1.9e+02 Score=23.28 Aligned_cols=41 Identities=17% Similarity=0.270 Sum_probs=26.8
Q ss_pred HHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEE
Q psy6439 23 GFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILI 70 (114)
Q Consensus 23 GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~i 70 (114)
-+.-.|++.. ....+++.+++++.+.++++=+++++ ||++-
T Consensus 57 ~~~~~Gi~~~-------~~~l~~~~s~~el~~~I~~lN~D~~V~GIlvq 98 (284)
T PRK14177 57 ACHKVGMGSE-------MIRLKEQTTTEELLGVIDKLNLDPNVDGILLQ 98 (284)
T ss_pred HHHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCeEEEc
Confidence 3455677753 22335556778888888888777776 66654
No 200
>cd01019 ZnuA Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a single helix and bind their specific ligands in the cleft between these domains. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=21.73 E-value=1.6e+02 Score=22.97 Aligned_cols=38 Identities=8% Similarity=0.142 Sum_probs=27.8
Q ss_pred CCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhc
Q psy6439 47 TSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDH 85 (114)
Q Consensus 47 ~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~ 85 (114)
.++.++.+.++ .+++.++..||.......+.-+.|.+-
T Consensus 212 ps~~~l~~l~~-~ik~~~v~~If~e~~~~~~~~~~ia~~ 249 (286)
T cd01019 212 PGAKRLAKIRK-EIKEKGATCVFAEPQFHPKIAETLAEG 249 (286)
T ss_pred CCHHHHHHHHH-HHHHcCCcEEEecCCCChHHHHHHHHh
Confidence 46788877666 567899999999877766666666653
No 201
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=21.64 E-value=2.3e+02 Score=20.95 Aligned_cols=53 Identities=9% Similarity=0.092 Sum_probs=32.8
Q ss_pred HHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEeh---HHHHHHHHHHhhcC
Q psy6439 21 CVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILINQ---NVAELIRHCIDDHT 86 (114)
Q Consensus 21 v~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~ite---~~~~~i~d~i~~~~ 86 (114)
..=|+..|++.++.. .+++.+++.+++++ .+.-+|.++- .-...+++.++.++
T Consensus 105 ~~~l~~~G~~vi~LG---------~~vp~e~~v~~~~~----~~pd~v~lS~~~~~~~~~~~~~i~~l~ 160 (197)
T TIGR02370 105 VTMLRANGFDVIDLG---------RDVPIDTVVEKVKK----EKPLMLTGSALMTTTMYGQKDINDKLK 160 (197)
T ss_pred HHHHHhCCcEEEECC---------CCCCHHHHHHHHHH----cCCCEEEEccccccCHHHHHHHHHHHH
Confidence 345788899987653 34567887776664 4445555553 33555666666664
No 202
>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=21.59 E-value=3.4e+02 Score=20.08 Aligned_cols=43 Identities=16% Similarity=0.155 Sum_probs=26.1
Q ss_pred CHHHHHHHHHHhhcC-CCe-EEEEEehHHHHHHHHHHhhcCCCcc
Q psy6439 48 SVSDIEEAFRKFIKR-DDV-DIILINQNVAELIRHCIDDHTQPIP 90 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~-~di-gII~ite~~~~~i~d~i~~~~~~~P 90 (114)
+.++..+.++++++. +++ ||+..++.++..+-..+.+.....|
T Consensus 178 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~gv~~al~~~g~~ip 222 (283)
T cd06279 178 DRASGEEAARELLDASPRPTAILCMSDVLALGALQVARELGLRVP 222 (283)
T ss_pred chHHHHHHHHHHHcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCC
Confidence 446777788888753 345 4444445677777676776543333
No 203
>PLN02225 1-deoxy-D-xylulose-5-phosphate synthase
Probab=21.57 E-value=74 Score=28.93 Aligned_cols=35 Identities=17% Similarity=0.361 Sum_probs=26.7
Q ss_pred CCcEEEEEcchhHHHHHhhccccceeccCCCceeee
Q psy6439 8 KGKLLAVIGDEDTCVGFLLGGIGEINKHRQPNFLVV 43 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~nf~vv 43 (114)
+..-||||||-...-|+-+-|....-. -++|+.++
T Consensus 211 ~~~vvaVIGDGaltgGma~EaLN~~g~-~~~~livI 245 (701)
T PLN02225 211 RDRVVAVIDNATITAGQAYEAMSNAGY-LDSNMIVI 245 (701)
T ss_pred CCcEEEEEcCcchhhhhHHHHHhhhhc-cCCCEEEE
Confidence 446699999999999999999987433 24465555
No 204
>cd06346 PBP1_ABC_ligand_binding_like_11 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=21.49 E-value=2.6e+02 Score=21.33 Aligned_cols=72 Identities=14% Similarity=0.025 Sum_probs=45.1
Q ss_pred hhHHHHHhhc--------cccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEEEEe--hHHHHHH-HHHHhhcC
Q psy6439 18 EDTCVGFLLG--------GIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDIILIN--QNVAELI-RHCIDDHT 86 (114)
Q Consensus 18 ~dtv~GFrLa--------Gi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII~it--e~~~~~i-~d~i~~~~ 86 (114)
.+...|++|+ |+.+... .+.+.|...+++...+..++|+.++++-.|+-. ......+ .+..++
T Consensus 17 ~~~~~g~~lA~~~iN~~ggi~G~~i----el~~~D~~~~p~~a~~~a~~li~~~~v~~viG~~~s~~~~a~~~~~~~~-- 90 (312)
T cd06346 17 PPMADAAELAVKEVNAAGGVLGEPV----TLVTADTQTDPAAGVAAATKLVNVDGVPGIVGAACSGVTIAALTSVAVP-- 90 (312)
T ss_pred hhHHHHHHHHHHHHHHhCCCCCceE----EEEECCCCCCHHHHHHHHHHHHhhcCCCEEEccccchhhHhhhhhhhcc--
Confidence 4456677765 4433111 156667777889999999999987777777643 3344444 554555
Q ss_pred CCccEEEEc
Q psy6439 87 QPIPAVLEI 95 (114)
Q Consensus 87 ~~~P~Iv~I 95 (114)
...|.|.+-
T Consensus 91 ~~vp~i~~~ 99 (312)
T cd06346 91 NGVVMISPS 99 (312)
T ss_pred CCcEEEecC
Confidence 457777544
No 205
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.46 E-value=1.9e+02 Score=23.25 Aligned_cols=40 Identities=8% Similarity=0.070 Sum_probs=26.0
Q ss_pred HhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEE
Q psy6439 24 FLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILI 70 (114)
Q Consensus 24 FrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~i 70 (114)
+.-.|++.. -+..+++.+++++.+.++++=+++++ |||+-
T Consensus 57 ~~~~Gi~~~-------~~~l~~~~~~~~l~~~I~~lN~d~~V~GIlvq 97 (285)
T PRK14189 57 CEDNGFHSL-------KDRYPADLSEAELLARIDELNRDPKIHGILVQ 97 (285)
T ss_pred HHHcCCEEE-------EEECCCCCCHHHHHHHHHHHcCCCCCCeEEEe
Confidence 344577763 12335567788888888888777776 55554
No 206
>PF08731 AFT: Transcription factor AFT; InterPro: IPR014842 AFT (activator of iron transcription) is an iron regulated transcriptional activator that regulates the expression of genes involved in iron homeostasis. This entry includes the paralogous pair of transcription factors AFT1 and AFT2.
Probab=21.23 E-value=1.2e+02 Score=21.39 Aligned_cols=25 Identities=12% Similarity=0.300 Sum_probs=22.0
Q ss_pred HHHHHHHHHHhhcCCCeEEEEEehH
Q psy6439 49 VSDIEEAFRKFIKRDDVDIILINQN 73 (114)
Q Consensus 49 ~ee~~~~l~~l~~~~digII~ite~ 73 (114)
.+|+..-|++++...+++|++-..+
T Consensus 4 k~~ikpwlq~~~~~~Gi~iVIerSd 28 (111)
T PF08731_consen 4 KDEIKPWLQKIFYPQGIGIVIERSD 28 (111)
T ss_pred hHHHHHHHHHHhhhcCceEEEEecC
Confidence 4899999999999999999987765
No 207
>PRK01713 ornithine carbamoyltransferase; Provisional
Probab=21.23 E-value=3.3e+02 Score=22.16 Aligned_cols=25 Identities=16% Similarity=-0.045 Sum_probs=17.8
Q ss_pred CCcEEEEEcch------hHHHHHhhccccce
Q psy6439 8 KGKLLAVIGDE------DTCVGFLLGGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD~------dtv~GFrLaGi~~~ 32 (114)
+..+|+++||- ..+.++...|++-.
T Consensus 155 ~gl~ia~vGD~~~~v~~Sl~~~~~~~g~~v~ 185 (334)
T PRK01713 155 SEISYVYIGDARNNMGNSLLLIGAKLGMDVR 185 (334)
T ss_pred CCcEEEEECCCccCHHHHHHHHHHHcCCEEE
Confidence 45799999993 23566667788754
No 208
>PLN03028 pyrophosphate--fructose-6-phosphate 1-phosphotransferase; Provisional
Probab=21.19 E-value=1.3e+02 Score=27.02 Aligned_cols=29 Identities=24% Similarity=0.336 Sum_probs=21.4
Q ss_pred HHHHHHHHHhh-cCCCeEEEEEehHHHHHH
Q psy6439 50 SDIEEAFRKFI-KRDDVDIILINQNVAELI 78 (114)
Q Consensus 50 ee~~~~l~~l~-~~~digII~ite~~~~~i 78 (114)
+.+.+.+.+-. ..+++|||+++|.+.+.+
T Consensus 296 ~~i~~~I~~r~~~gk~~gvIvVsEGlie~i 325 (610)
T PLN03028 296 KQICDAVQARAEQDKNHGVILIPEGLIESI 325 (610)
T ss_pred HHHHHHHHHHHHcCCCcEEEEEeCCccccC
Confidence 55656565555 568899999999987663
No 209
>PRK14190 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=21.09 E-value=2.1e+02 Score=23.06 Aligned_cols=41 Identities=7% Similarity=0.058 Sum_probs=26.4
Q ss_pred HHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEE
Q psy6439 23 GFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILI 70 (114)
Q Consensus 23 GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~i 70 (114)
-+.-.|++.. .+..+++.+++|+.+.++++=+++++ |||+-
T Consensus 56 ~a~~~Gi~~~-------~~~l~~~~~~~el~~~I~~lN~D~~V~GIlvq 97 (284)
T PRK14190 56 AAEKVGIYSE-------LYEFPADITEEELLALIDRLNADPRINGILVQ 97 (284)
T ss_pred HHHHcCCEEE-------EEECCCCCCHHHHHHHHHHHhCCCCCCEEEEe
Confidence 3445577763 22335567778888888888777776 55554
No 210
>cd00763 Bacterial_PFK Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent phosphofructokinases. These are allosrterically regulated homotetramers; the subunits are of about 320 amino acids.
Probab=21.06 E-value=2.4e+02 Score=22.83 Aligned_cols=39 Identities=13% Similarity=0.314 Sum_probs=27.8
Q ss_pred CCCHHHHHHHHHHhhcC-CCeEEEEEehHH--HHHHHHHHhh
Q psy6439 46 NTSVSDIEEAFRKFIKR-DDVDIILINQNV--AELIRHCIDD 84 (114)
Q Consensus 46 ~~~~ee~~~~l~~l~~~-~digII~ite~~--~~~i~d~i~~ 84 (114)
..+.+++.+.+++.+++ ++++||+++|.+ .+.+.+.+++
T Consensus 194 ~~~~~~~~~~i~~~~~~g~~~~vivvaEG~~~~~~l~~~l~~ 235 (317)
T cd00763 194 EFDREEVANRIKAGIERGKKHAIVVVAEGVYDVDELAKEIEE 235 (317)
T ss_pred CCCHHHHHHHHHHHHHcCCCcEEEEEeCCCCCHHHHHHHHHH
Confidence 34568887778777665 889999999985 3445555554
No 211
>cd02012 TPP_TK Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the pentose phosphate pathway and provides precursors for nucleotide, aromatic amino acid and vitamin biosynthesis. In addition, the enzyme plays a central role in the Calvin cycle in plants. Typically, TKs are homodimers. They require TPP and divalent cations, such as magnesium ions, for activity.
Probab=20.98 E-value=3.8e+02 Score=20.40 Aligned_cols=89 Identities=15% Similarity=0.227 Sum_probs=41.9
Q ss_pred CCcEEEEEcchhHHHHHhhccccceeccCCCc-eeeecCCC-----------CHHHHHHHHHHhhcCCCeEEEEEehHHH
Q psy6439 8 KGKLLAVIGDEDTCVGFLLGGIGEINKHRQPN-FLVVDKNT-----------SVSDIEEAFRKFIKRDDVDIILINQNVA 75 (114)
Q Consensus 8 ~~~kIaVIGD~dtv~GFrLaGi~~~~~~~~~n-f~vv~~~~-----------~~ee~~~~l~~l~~~~digII~ite~~~ 75 (114)
+.+-++++||-+.-.|+-...+......+-+| .++++.+. +.+++.+.++ .-+.-.+-++..-.
T Consensus 127 ~~~v~~i~GDG~~~~G~~~eal~~a~~~~l~~li~vvdnN~~~~~~~~~~~~~~~~~~~~~~----a~G~~~~~v~G~d~ 202 (255)
T cd02012 127 DYRVYVLLGDGELQEGSVWEAASFAGHYKLDNLIAIVDSNRIQIDGPTDDILFTEDLAKKFE----AFGWNVIEVDGHDV 202 (255)
T ss_pred CCEEEEEECcccccccHHHHHHHHHHHcCCCcEEEEEECCCccccCcHhhccCchhHHHHHH----HcCCeEEEECCCCH
Confidence 34568999998887764332222211112233 33334321 1233333333 33455666662223
Q ss_pred HHHHHHHhhcC--CCccEEEEcCCCCC
Q psy6439 76 ELIRHCIDDHT--QPIPAVLEIPSKDH 100 (114)
Q Consensus 76 ~~i~d~i~~~~--~~~P~Iv~IP~~~g 100 (114)
+.+.+.+.+.. ...|.+|.+-...|
T Consensus 203 ~~l~~al~~a~~~~~~P~~I~~~t~kg 229 (255)
T cd02012 203 EEILAALEEAKKSKGKPTLIIAKTIKG 229 (255)
T ss_pred HHHHHHHHHHHHcCCCCEEEEEEeecc
Confidence 33333333331 26798887655543
No 212
>PLN02251 pyrophosphate-dependent phosphofructokinase
Probab=20.67 E-value=1.8e+02 Score=25.83 Aligned_cols=24 Identities=17% Similarity=0.296 Sum_probs=18.2
Q ss_pred HHhhcCCCeEEEEEehHHHHHHHH
Q psy6439 57 RKFIKRDDVDIILINQNVAELIRH 80 (114)
Q Consensus 57 ~~l~~~~digII~ite~~~~~i~d 80 (114)
++....+++|||+|+|.+.+.+.+
T Consensus 321 ~R~~~gk~~gvIlVsEGlie~ipe 344 (568)
T PLN02251 321 KRAELGYNYGVILIPEGLIDFIPE 344 (568)
T ss_pred HHHHcCCCcEEEEEeCCchhhCch
Confidence 345567899999999998655543
No 213
>COG1219 ClpX ATP-dependent protease Clp, ATPase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=20.58 E-value=1.7e+02 Score=24.83 Aligned_cols=58 Identities=19% Similarity=0.306 Sum_probs=37.8
Q ss_pred HHHHHHHHHhhcCCC-------eEEEEEehH--H--------------HHHHHHHHhhcCCCccEEEEcCCCCCCCCCCc
Q psy6439 50 SDIEEAFRKFIKRDD-------VDIILINQN--V--------------AELIRHCIDDHTQPIPAVLEIPSKDHPYDASK 106 (114)
Q Consensus 50 ee~~~~l~~l~~~~d-------igII~ite~--~--------------~~~i~d~i~~~~~~~P~Iv~IP~~~g~~~~~~ 106 (114)
|++++.+.+|+..-| -|||+|.|= + -+-+++.+-++ ..-++..+|-..|---+.+
T Consensus 141 EDVENillkLlqaadydV~rAerGIIyIDEIDKIarkSeN~SITRDVSGEGVQQALLKi--iEGTvasVPPqGGRKHP~Q 218 (408)
T COG1219 141 EDVENILLKLLQAADYDVERAERGIIYIDEIDKIARKSENPSITRDVSGEGVQQALLKI--IEGTVASVPPQGGRKHPQQ 218 (408)
T ss_pred hhHHHHHHHHHHHcccCHHHHhCCeEEEechhhhhccCCCCCcccccCchHHHHHHHHH--HcCceeccCCCCCCCCCcc
Confidence 788889999876655 489999863 2 22344444442 1336778888777666677
Q ss_pred cch
Q psy6439 107 DSI 109 (114)
Q Consensus 107 d~i 109 (114)
++|
T Consensus 219 e~i 221 (408)
T COG1219 219 EFI 221 (408)
T ss_pred ceE
Confidence 765
No 214
>TIGR01452 PGP_euk phosphoglycolate/pyridoxal phosphate phosphatase family. This model is closely related to a family of bacterial sequences including the E. coli NagD and B. subtilus AraL genes which are characterized by the ability to hydrolyze para-nitrophenylphosphate (pNPPases or NPPases). The chlamydomonas PGPase does not catalyze this reaction and so presumably these two groups have different functions and substrate specificities. Many of the genes in this alignment have been annotated as pNPPases due to this association.
Probab=20.51 E-value=4e+02 Score=20.43 Aligned_cols=23 Identities=30% Similarity=0.296 Sum_probs=19.5
Q ss_pred CcEEEEEcchhHHHHHhhccccc
Q psy6439 9 GKLLAVIGDEDTCVGFLLGGIGE 31 (114)
Q Consensus 9 ~~kIaVIGD~dtv~GFrLaGi~~ 31 (114)
..++.++|++...--|+-.|++.
T Consensus 85 ~~~v~~iG~~~~~~~l~~~g~~~ 107 (279)
T TIGR01452 85 PKAVYVIGEEGLRAELDAAGIRL 107 (279)
T ss_pred CCEEEEEcCHHHHHHHHHCCCEE
Confidence 46899999998888888888875
No 215
>KOG1575|consensus
Probab=20.49 E-value=3.9e+02 Score=22.17 Aligned_cols=56 Identities=14% Similarity=0.107 Sum_probs=42.9
Q ss_pred HhhccccceeccCCCceee--ecCCCCHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh
Q psy6439 24 FLLGGIGEINKHRQPNFLV--VDKNTSVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD 84 (114)
Q Consensus 24 FrLaGi~~~~~~~~~nf~v--v~~~~~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~ 84 (114)
.|+.|++.+.. |.+ .|+.++-||.-++|+.+++...+.-|=++|--++.|++.-..
T Consensus 121 ~~rl~~~~IDl-----~q~Hr~D~~~piee~m~aL~~lve~Gki~yiGlSe~sa~~I~~a~~~ 178 (336)
T KOG1575|consen 121 LRRLQTDYIDL-----LQVHRWDPMVPIEETMRALTDLVEQGKIRYWGLSEWSAEEIREAHAV 178 (336)
T ss_pred HHhcCCCeeEE-----EEEcccCCCCCHHHHHHHHHHHHhcCceEEEEeccCCHHHHHHHHHh
Confidence 35555655433 222 378889999999999999999999999999988888886554
No 216
>cd06310 PBP1_ABC_sugar_binding_like_2 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=20.49 E-value=3.5e+02 Score=19.67 Aligned_cols=46 Identities=22% Similarity=0.267 Sum_probs=24.6
Q ss_pred CHHHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhhcC-CCccEEEE
Q psy6439 48 SVSDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDDHT-QPIPAVLE 94 (114)
Q Consensus 48 ~~ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~~~-~~~P~Iv~ 94 (114)
+.++..+.++.++...==|||+..-+ .....+.+..+. ...|+|+.
T Consensus 42 ~~~~~~~~i~~l~~~~vdgvii~~~~-~~~~~~~l~~~~~~~ipvV~~ 88 (273)
T cd06310 42 DVAGQVNLLENAIARGPDAILLAPTD-AKALVPPLKEAKDAGIPVVLI 88 (273)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcCCC-hhhhHHHHHHHHHCCCCEEEe
Confidence 44566677877775443456655432 222233344442 56787765
No 217
>PRK06091 membrane protein FdrA; Validated
Probab=20.35 E-value=6.2e+02 Score=22.56 Aligned_cols=48 Identities=13% Similarity=0.099 Sum_probs=35.9
Q ss_pred HHHHHHHHhhcCCCeEEEEEe-----hHHHHHHHHHHhhcCCCccEEEEcCCCCC
Q psy6439 51 DIEEAFRKFIKRDDVDIILIN-----QNVAELIRHCIDDHTQPIPAVLEIPSKDH 100 (114)
Q Consensus 51 e~~~~l~~l~~~~digII~it-----e~~~~~i~d~i~~~~~~~P~Iv~IP~~~g 100 (114)
.+.+.|+.+.++++..+|++- |.+.+++-+...+ ..+|+|+.-.+++.
T Consensus 239 ~~~D~L~~L~~DP~TkvIvly~kppaE~v~~~fl~aar~--~~KPVVvlk~Grs~ 291 (555)
T PRK06091 239 SALTALEMLSADEKSEVIAFVSKPPAEAVRLKIINAMKA--TGKPVVALFLGYTP 291 (555)
T ss_pred CHHHHHHHHhhCCCCcEEEEEEecCchHHHHHHHHHHhh--CCCCEEEEEecCCc
Confidence 466788888889998877665 6777666665555 46899999888864
No 218
>PRK06518 hypothetical protein; Provisional
Probab=20.27 E-value=94 Score=23.23 Aligned_cols=57 Identities=5% Similarity=-0.111 Sum_probs=30.3
Q ss_pred cEEEEEcchhHH-H-----------HHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEE
Q psy6439 10 KLLAVIGDEDTC-V-----------GFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDII 68 (114)
Q Consensus 10 ~kIaVIGD~dtv-~-----------GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII 68 (114)
.++ .|-|-||+ + =+||+||+.-.....-.+ --..-.=-+++++.|..++....+-+-
T Consensus 26 G~v-~V~DGDTl~l~~~~~~~~~~~~VRL~GIDAPE~~Q~c~~-~~~~wp~G~~A~~~L~~li~gk~V~~~ 94 (177)
T PRK06518 26 GRA-QVTSGVTFKLIADGWRKEITRDIRLYGVDTCAPRQKARL-GDQEWPCGAVATAWLVTKTLNKWLSCR 94 (177)
T ss_pred ceE-EEEcCCEEEEeeccccCCCCeEEEEEEEcCCCCCCcccC-CCCCCcHHHHHHHHHHHHHCCCeEEEE
Confidence 344 45577775 2 289999997433210000 000000026788889998876655443
No 219
>PF07308 DUF1456: Protein of unknown function (DUF1456); InterPro: IPR009921 This domain occurs in several hypothetical bacterial proteins of around 150 residues in length. The function of this domain is unknown.
Probab=20.25 E-value=93 Score=19.73 Aligned_cols=17 Identities=29% Similarity=0.411 Sum_probs=14.5
Q ss_pred EcchhHHHHHhhccccc
Q psy6439 15 IGDEDTCVGFLLGGIGE 31 (114)
Q Consensus 15 IGD~dtv~GFrLaGi~~ 31 (114)
+-|.+.+-=|+|+|++-
T Consensus 14 l~d~~m~~if~l~~~~v 30 (68)
T PF07308_consen 14 LKDDDMIEIFALAGFEV 30 (68)
T ss_pred CChHHHHHHHHHcCCcc
Confidence 45789999999999985
No 220
>PRK10187 trehalose-6-phosphate phosphatase; Provisional
Probab=20.21 E-value=1.2e+02 Score=23.44 Aligned_cols=35 Identities=11% Similarity=0.140 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD 84 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~ 84 (114)
++..++|+++.++.++-++++|-+-.+.+...+..
T Consensus 39 ~~~~~~L~~L~~~~g~~v~i~SGR~~~~~~~~~~~ 73 (266)
T PRK10187 39 DNILQGLQLLATANDGALALISGRSMVELDALAKP 73 (266)
T ss_pred HHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHhcCc
Confidence 67888999998778899999999988888776654
No 221
>PRK02255 putrescine carbamoyltransferase; Provisional
Probab=20.21 E-value=4e+02 Score=21.78 Aligned_cols=25 Identities=12% Similarity=0.056 Sum_probs=18.5
Q ss_pred CCcEEEEEcc-----hhHHHHHhhccccce
Q psy6439 8 KGKLLAVIGD-----EDTCVGFLLGGIGEI 32 (114)
Q Consensus 8 ~~~kIaVIGD-----~dtv~GFrLaGi~~~ 32 (114)
+..+|+++|| +..+.++...|++-.
T Consensus 153 ~glkv~~vGD~~~v~~Sl~~~~~~~g~~v~ 182 (338)
T PRK02255 153 EDCKVVFVGDATQVCVSLMFIATKMGMDFV 182 (338)
T ss_pred CCCEEEEECCCchHHHHHHHHHHhCCCEEE
Confidence 4579999999 344667777788754
No 222
>TIGR01916 F420_cofE F420-0:gamma-glutamyl ligase. This model represents an enzyme of coenzyme F(420) biosynthesis, as catalyzed by MJ0768 of Methanococcus jannaschii and by the N-terminal half of FbiB of Mycobacterium bovis strain BCG. Note that only two glutamates are ligated in M. jannaschii, but five to six in the Mycobacterium lineage. In M. jannaschii, CofE catalyzes the GTP-dependent addition of two L-glutamates.
Probab=20.14 E-value=1.3e+02 Score=23.86 Aligned_cols=48 Identities=27% Similarity=0.430 Sum_probs=28.3
Q ss_pred HHHhh--ccccceeccCCCceeee---cCCCCHHHHHHHHHHhhcCCCeEEEEEeh
Q psy6439 22 VGFLL--GGIGEINKHRQPNFLVV---DKNTSVSDIEEAFRKFIKRDDVDIILINQ 72 (114)
Q Consensus 22 ~GFrL--aGi~~~~~~~~~nf~vv---~~~~~~ee~~~~l~~l~~~~digII~ite 72 (114)
.||.+ |||+..+.... ++.. ||+.+-+++++.|++.. ..++|||+...
T Consensus 98 ~G~v~anAGID~SN~~~g--~v~LLP~DPd~sA~~ir~~l~~~~-g~~v~VIItDt 150 (243)
T TIGR01916 98 HGHVCANAGIDESNVGNG--ELLLLPEDPDASAEKIRRGLRELT-GVDVGVIITDT 150 (243)
T ss_pred CceEEeccccccccCCCC--eEEecCCChHHHHHHHHHHHHHHH-CCCEEEEEECC
Confidence 44544 57776544222 4444 44444556666677666 46899888764
No 223
>TIGR01484 HAD-SF-IIB HAD-superfamily hydrolase, subfamily IIB. The IIB subfamily consists of Trehalose-6-phosphatase (TIGR00685), plant and cyanobacterial Sucrose-phosphatase and a closely related group of bacterial and archaeal sequences, eukaryotic phosphomannomutase (pfam03332), a large subfamily ("Cof-like hydrolases", TIGR00099) containing many closely related bacterial sequences, a hypothetical equivalog containing the E. coli YedP protein, as well as two small clusters containing sequences whose relationship to the other groups is unclear.
Probab=20.12 E-value=2.2e+02 Score=20.33 Aligned_cols=34 Identities=15% Similarity=0.325 Sum_probs=28.1
Q ss_pred HHHHHHHHHhhcCCCeEEEEEehHHHHHHHHHHhh
Q psy6439 50 SDIEEAFRKFIKRDDVDIILINQNVAELIRHCIDD 84 (114)
Q Consensus 50 ee~~~~l~~l~~~~digII~ite~~~~~i~d~i~~ 84 (114)
+++.++|+++.++. +-++++|.+-...++..+..
T Consensus 20 ~~~~~~l~~l~~~g-~~~~i~TGR~~~~~~~~~~~ 53 (204)
T TIGR01484 20 PETIEALERLREAG-VKVVLVTGRSLAEIKELLKQ 53 (204)
T ss_pred HHHHHHHHHHHHCC-CEEEEECCCCHHHHHHHHHh
Confidence 77889999998654 99999999988888776665
No 224
>KOG1621|consensus
Probab=20.09 E-value=39 Score=28.83 Aligned_cols=41 Identities=22% Similarity=0.465 Sum_probs=33.6
Q ss_pred hhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhc
Q psy6439 18 EDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIK 61 (114)
Q Consensus 18 ~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~ 61 (114)
+-+.+|||.-|++......++||--+- +.|++-.+|.++..
T Consensus 321 STatLGFRIEgiKk~dG~~~~nFKktr---t~EqVt~~f~dF~~ 361 (458)
T KOG1621|consen 321 STATLGFRIEGIKKLDGALEKNFKKTR---TVEQVTTTFMDFFG 361 (458)
T ss_pred ccceeeeeeeehhhhcchhhhcchhhh---hHHHHHHHHHHHhc
Confidence 346799999999998888888887654 35889999999984
No 225
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=20.06 E-value=2.1e+02 Score=23.08 Aligned_cols=41 Identities=12% Similarity=0.198 Sum_probs=26.6
Q ss_pred HhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCe-EEEEEe
Q psy6439 24 FLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDV-DIILIN 71 (114)
Q Consensus 24 FrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~di-gII~it 71 (114)
+.-.|++.. .+..+++.+++++.+.++++=+++++ |||+-.
T Consensus 57 a~~~Gi~~~-------~~~l~~~~~~~~l~~~I~~LN~D~~V~GIlvql 98 (288)
T PRK14171 57 AHKIGIDTL-------LVNLSTTIHTNDLISKINELNLDNEISGIIVQL 98 (288)
T ss_pred HHHcCCEEE-------EEECCCCCCHHHHHHHHHHHcCCCCCCEEEEeC
Confidence 344577753 22335567778888888888777776 666543
No 226
>CHL00200 trpA tryptophan synthase alpha subunit; Provisional
Probab=20.06 E-value=4.4e+02 Score=20.72 Aligned_cols=75 Identities=8% Similarity=0.006 Sum_probs=41.2
Q ss_pred cchhHHHHHhhccccceeccCCCceeeecCCCCHHHHHHHHHHhhcCCCeEEE-EEehHH-HHHHHHHHhhcCCCccEEE
Q psy6439 16 GDEDTCVGFLLGGIGEINKHRQPNFLVVDKNTSVSDIEEAFRKFIKRDDVDII-LINQNV-AELIRHCIDDHTQPIPAVL 93 (114)
Q Consensus 16 GD~dtv~GFrLaGi~~~~~~~~~nf~vv~~~~~~ee~~~~l~~l~~~~digII-~ite~~-~~~i~d~i~~~~~~~P~Iv 93 (114)
|-..++-=+.-+|++++..++ .+.+|..+.++.+. +.++..| +++... .++++...+. ...+=-+|
T Consensus 107 G~e~F~~~~~~aGvdgviipD----------LP~ee~~~~~~~~~-~~gi~~I~lv~PtT~~eri~~i~~~-a~gFIY~v 174 (263)
T CHL00200 107 GINKFIKKISQAGVKGLIIPD----------LPYEESDYLISVCN-LYNIELILLIAPTSSKSRIQKIARA-APGCIYLV 174 (263)
T ss_pred CHHHHHHHHHHcCCeEEEecC----------CCHHHHHHHHHHHH-HcCCCEEEEECCCCCHHHHHHHHHh-CCCcEEEE
Confidence 334566667889999954332 35577777666554 5555544 445444 4566553333 21122444
Q ss_pred EcCCCCCCC
Q psy6439 94 EIPSKDHPY 102 (114)
Q Consensus 94 ~IP~~~g~~ 102 (114)
..|+..|..
T Consensus 175 S~~GvTG~~ 183 (263)
T CHL00200 175 STTGVTGLK 183 (263)
T ss_pred cCCCCCCCC
Confidence 556665553
Done!