Query psy6650
Match_columns 156
No_of_seqs 158 out of 1065
Neff 8.0
Searched_HMMs 46136
Date Fri Aug 16 23:37:41 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6650.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6650hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00875 DNA_photolyase: DNA p 100.0 7.8E-41 1.7E-45 247.1 13.4 140 17-156 1-140 (165)
2 TIGR02765 crypto_DASH cryptoch 100.0 3E-36 6.5E-41 252.0 16.9 142 15-156 1-148 (429)
3 TIGR03556 photolyase_8HDF deox 100.0 1.7E-35 3.6E-40 250.2 17.1 141 16-156 2-142 (471)
4 TIGR02766 crypt_chrom_pln cryp 100.0 9E-35 1.9E-39 245.9 15.3 138 18-156 1-139 (475)
5 TIGR00591 phr2 photolyase PhrI 100.0 2.5E-33 5.3E-38 236.0 17.5 136 14-153 22-161 (454)
6 PRK10674 deoxyribodipyrimidine 100.0 1.8E-33 4E-38 237.8 16.4 138 17-156 4-146 (472)
7 COG0415 PhrB Deoxyribodipyrimi 100.0 1E-32 2.2E-37 229.9 15.6 140 15-156 2-142 (461)
8 KOG0133|consensus 99.9 7.2E-27 1.6E-31 197.0 8.3 143 14-156 4-146 (531)
9 PF04244 DPRP: Deoxyribodipyri 97.5 0.0014 3.1E-08 50.8 9.7 118 19-143 2-127 (224)
10 COG3046 Uncharacterized protei 96.2 0.091 2E-06 44.2 10.7 131 16-152 3-137 (505)
11 cd01994 Alpha_ANH_like_IV This 96.0 0.11 2.4E-06 39.3 9.8 97 31-138 14-119 (194)
12 TIGR00289 conserved hypothetic 95.9 0.1 2.2E-06 40.5 9.4 98 30-138 14-116 (222)
13 PRK12652 putative monovalent c 95.2 0.39 8.5E-06 39.9 10.9 106 31-138 20-148 (357)
14 TIGR00290 MJ0570_dom MJ0570-re 95.1 0.39 8.4E-06 37.3 10.0 98 30-138 14-116 (223)
15 cd00293 USP_Like Usp: Universa 94.5 0.72 1.6E-05 30.6 9.4 75 39-113 26-102 (130)
16 PRK09982 universal stress prot 94.4 1.2 2.5E-05 31.4 12.3 84 30-113 17-112 (142)
17 cd01989 STK_N The N-terminal d 94.4 0.85 1.9E-05 31.9 9.7 85 30-114 13-113 (146)
18 COG2102 Predicted ATPases of P 94.3 0.63 1.4E-05 36.1 9.4 99 30-138 14-117 (223)
19 cd01988 Na_H_Antiporter_C The 93.9 1.2 2.7E-05 30.1 9.6 84 31-114 14-104 (132)
20 PRK15005 universal stress prot 93.7 0.93 2E-05 31.5 8.9 83 31-113 19-116 (144)
21 TIGR03679 arCOG00187 arCOG0018 93.5 1.4 3E-05 33.9 10.1 97 31-138 12-117 (218)
22 PRK10116 universal stress prot 92.7 2.4 5.1E-05 29.4 12.0 111 28-139 15-137 (142)
23 PF01902 ATP_bind_4: ATP-bindi 92.7 0.37 8.1E-06 37.2 5.9 96 30-138 14-116 (218)
24 PRK15456 universal stress prot 92.6 1.3 2.8E-05 30.9 8.2 84 31-114 19-115 (142)
25 TIGR01088 aroQ 3-dehydroquinat 91.9 1.4 3E-05 31.8 7.5 73 78-154 37-112 (141)
26 cd01987 USP_OKCHK USP domain i 91.4 3.1 6.8E-05 28.0 9.6 78 30-114 13-95 (124)
27 TIGR01490 HAD-SF-IB-hyp1 HAD-s 89.7 4 8.6E-05 30.1 8.8 45 67-111 88-132 (202)
28 PF10087 DUF2325: Uncharacteri 88.4 4.2 9.1E-05 26.9 7.3 70 71-144 12-86 (97)
29 PF00582 Usp: Universal stress 87.8 3.4 7.4E-05 27.5 6.8 32 83-114 81-112 (140)
30 PF00702 Hydrolase: haloacid d 87.7 2.5 5.5E-05 31.1 6.5 74 67-142 128-204 (215)
31 PRK13015 3-dehydroquinate dehy 87.5 9.1 0.0002 27.8 9.3 73 78-154 39-114 (146)
32 PRK05395 3-dehydroquinate dehy 87.0 9.6 0.00021 27.7 9.4 73 78-154 39-114 (146)
33 cd00466 DHQase_II Dehydroquina 86.9 9.5 0.00021 27.5 9.1 73 78-154 37-112 (140)
34 PRK10490 sensor protein KdpD; 86.9 12 0.00026 34.8 11.6 112 17-140 253-373 (895)
35 PF01220 DHquinase_II: Dehydro 86.7 8.8 0.00019 27.7 8.4 80 70-153 26-112 (140)
36 PRK14719 bifunctional RNAse/5- 86.6 2.5 5.3E-05 35.2 6.4 62 76-137 36-99 (360)
37 COG0560 SerB Phosphoserine pho 86.0 3.2 7E-05 31.8 6.4 66 70-135 81-159 (212)
38 cd06294 PBP1_ycjW_transcriptio 85.3 8.9 0.00019 29.1 8.6 72 65-142 17-92 (270)
39 PRK05265 pyridoxine 5'-phospha 84.9 12 0.00027 29.3 9.1 75 68-143 112-194 (239)
40 COG0796 MurI Glutamate racemas 84.2 11 0.00024 30.2 8.7 63 45-110 33-97 (269)
41 COG2217 ZntA Cation transport 83.8 5.8 0.00013 36.0 7.8 65 72-141 543-607 (713)
42 COG2205 KdpD Osmosensitive K+ 83.3 27 0.00057 32.4 11.6 107 29-142 260-375 (890)
43 PF02571 CbiJ: Precorrin-6x re 83.0 10 0.00022 29.9 8.0 58 83-142 43-102 (249)
44 TIGR00067 glut_race glutamate 82.8 12 0.00025 29.4 8.4 62 45-109 26-90 (251)
45 cd06279 PBP1_LacI_like_3 Ligan 82.5 18 0.00039 27.9 9.4 72 65-142 17-88 (283)
46 cd01427 HAD_like Haloacid deha 81.8 7.9 0.00017 25.6 6.4 49 66-114 24-76 (139)
47 PRK11175 universal stress prot 81.4 20 0.00043 28.2 9.4 42 72-113 226-270 (305)
48 TIGR01497 kdpB K+-transporting 81.1 17 0.00037 32.9 9.6 66 69-139 449-514 (675)
49 PF03740 PdxJ: Pyridoxal phosp 80.6 17 0.00036 28.6 8.3 76 68-144 110-196 (239)
50 PRK14010 potassium-transportin 80.5 14 0.0003 33.4 8.9 66 69-139 444-509 (673)
51 PF05368 NmrA: NmrA-like famil 80.3 13 0.00029 28.0 7.8 63 75-139 37-100 (233)
52 TIGR01512 ATPase-IB2_Cd heavy 80.2 11 0.00024 32.8 8.0 46 67-112 363-409 (536)
53 PRK01122 potassium-transportin 80.1 12 0.00026 33.9 8.4 66 69-139 448-513 (679)
54 TIGR01525 ATPase-IB_hvy heavy 79.8 18 0.00038 31.7 9.2 46 67-112 385-431 (556)
55 cd06277 PBP1_LacI_like_1 Ligan 79.4 22 0.00048 26.9 8.9 71 65-142 15-89 (268)
56 COG1139 Uncharacterized conser 79.1 12 0.00027 31.9 7.6 70 67-140 63-134 (459)
57 TIGR00559 pdxJ pyridoxine 5'-p 78.9 27 0.00059 27.4 9.0 76 68-144 109-193 (237)
58 PF13407 Peripla_BP_4: Peripla 78.6 18 0.00039 27.3 8.1 73 65-142 11-89 (257)
59 TIGR01488 HAD-SF-IB Haloacid D 78.2 3.3 7.2E-05 29.7 3.7 43 69-111 76-118 (177)
60 PRK00865 glutamate racemase; P 77.7 21 0.00045 28.1 8.3 58 45-105 33-92 (261)
61 cd00003 PNPsynthase Pyridoxine 77.3 33 0.00072 26.9 9.0 76 67-143 108-192 (234)
62 PRK15118 universal stress glob 76.9 22 0.00047 24.6 11.9 65 73-139 69-137 (144)
63 cd06313 PBP1_ABC_sugar_binding 76.6 32 0.00069 26.4 9.7 73 65-142 12-89 (272)
64 PRK09484 3-deoxy-D-manno-octul 76.3 11 0.00025 27.8 6.2 56 69-134 55-110 (183)
65 TIGR01491 HAD-SF-IB-PSPlk HAD- 76.0 6.7 0.00014 28.7 4.9 43 69-111 83-125 (201)
66 PF12710 HAD: haloacid dehalog 75.9 9.1 0.0002 27.7 5.5 41 73-113 96-138 (192)
67 cd01545 PBP1_SalR Ligand-bindi 75.2 33 0.00071 25.9 9.3 73 65-142 12-89 (270)
68 cd06297 PBP1_LacI_like_12 Liga 74.5 36 0.00078 26.0 9.4 71 65-141 12-86 (269)
69 cd06295 PBP1_CelR Ligand bindi 73.7 37 0.00081 25.8 9.9 71 65-141 23-95 (275)
70 TIGR03674 fen_arch flap struct 73.5 15 0.00032 30.3 6.6 40 71-110 132-171 (338)
71 cd06271 PBP1_AglR_RafR_like Li 72.8 38 0.00082 25.4 8.6 71 65-141 16-90 (268)
72 PF13727 CoA_binding_3: CoA-bi 72.4 10 0.00022 26.9 4.9 45 93-139 130-174 (175)
73 PF13167 GTP-bdg_N: GTP-bindin 72.1 27 0.00058 23.4 7.6 62 68-136 7-83 (95)
74 PF08218 Citrate_ly_lig: Citra 71.9 40 0.00087 25.4 8.3 104 34-140 20-144 (182)
75 PRK08057 cobalt-precorrin-6x r 71.2 25 0.00054 27.7 7.2 56 84-141 43-100 (248)
76 TIGR02634 xylF D-xylose ABC tr 71.1 49 0.0011 26.0 9.9 74 64-142 10-88 (302)
77 PF13911 AhpC-TSA_2: AhpC/TSA 70.9 12 0.00025 25.3 4.7 42 71-114 2-46 (115)
78 TIGR01511 ATPase-IB1_Cu copper 70.6 37 0.0008 29.8 8.8 42 68-110 407-448 (562)
79 cd01542 PBP1_TreR_like Ligand- 70.5 43 0.00092 25.1 9.5 70 65-141 12-86 (259)
80 cd06267 PBP1_LacI_sugar_bindin 70.5 41 0.00089 24.9 9.4 71 65-142 12-87 (264)
81 PHA02588 cd deoxycytidylate de 70.3 15 0.00033 27.1 5.5 58 82-144 101-158 (168)
82 cd06287 PBP1_LacI_like_8 Ligan 69.3 36 0.00078 26.2 7.8 75 59-142 14-88 (269)
83 TIGR01670 YrbI-phosphatas 3-de 69.2 27 0.00059 24.9 6.6 39 74-112 36-74 (154)
84 PRK10355 xylF D-xylose transpo 69.0 59 0.0013 26.1 9.6 72 65-141 38-114 (330)
85 KOG0207|consensus 69.0 27 0.00058 32.7 7.7 61 75-140 732-792 (951)
86 PF13419 HAD_2: Haloacid dehal 69.0 36 0.00077 23.6 7.4 46 70-115 81-130 (176)
87 COG0589 UspA Universal stress 68.7 34 0.00073 23.2 9.1 47 67-113 72-122 (154)
88 PRK15408 autoinducer 2-binding 67.6 65 0.0014 26.1 9.3 73 65-142 36-114 (336)
89 TIGR00338 serB phosphoserine p 67.5 9.7 0.00021 28.4 4.1 43 69-111 88-130 (219)
90 TIGR00273 iron-sulfur cluster- 67.5 23 0.00049 30.3 6.7 69 66-138 48-118 (432)
91 COG1609 PurR Transcriptional r 67.5 37 0.00081 27.5 7.8 72 65-142 71-146 (333)
92 PRK15122 magnesium-transportin 67.2 42 0.00092 31.4 8.8 39 68-106 552-590 (903)
93 PRK10517 magnesium-transportin 66.9 50 0.0011 30.9 9.2 39 68-106 552-590 (902)
94 COG0742 N6-adenine-specific me 66.6 32 0.0007 26.0 6.6 74 69-142 77-157 (187)
95 PRK10530 pyridoxal phosphate ( 66.0 58 0.0013 25.0 9.7 66 77-142 31-110 (272)
96 PRK10671 copA copper exporting 65.8 61 0.0013 29.9 9.5 64 73-141 657-720 (834)
97 cd06305 PBP1_methylthioribose_ 65.7 56 0.0012 24.7 9.7 72 66-142 13-89 (273)
98 TIGR01544 HAD-SF-IE haloacid d 65.7 14 0.0003 29.7 4.8 38 69-106 124-161 (277)
99 cd06324 PBP1_ABC_sugar_binding 65.5 64 0.0014 25.3 10.0 73 65-142 13-91 (305)
100 cd01540 PBP1_arabinose_binding 65.5 59 0.0013 24.9 9.5 73 65-142 12-88 (289)
101 cd06273 PBP1_GntR_like_1 This 65.5 56 0.0012 24.6 9.6 70 65-141 12-86 (268)
102 TIGR01647 ATPase-IIIA_H plasma 65.2 48 0.001 30.3 8.6 39 69-107 445-483 (755)
103 TIGR01524 ATPase-IIIB_Mg magne 65.1 52 0.0011 30.6 9.0 39 68-106 517-555 (867)
104 TIGR02199 rfaE_dom_II rfaE bif 64.6 44 0.00095 23.7 6.9 102 29-141 26-129 (144)
105 PRK10826 2-deoxyglucose-6-phos 64.3 12 0.00027 28.0 4.2 38 70-107 96-133 (222)
106 cd06272 PBP1_hexuronate_repres 64.3 59 0.0013 24.4 9.7 72 65-142 12-83 (261)
107 KOG1615|consensus 63.9 12 0.00027 28.7 3.9 43 70-112 92-136 (227)
108 cd01541 PBP1_AraR Ligand-bindi 63.8 62 0.0013 24.5 9.1 76 65-142 12-92 (273)
109 TIGR01545 YfhB_g-proteo haloac 63.1 24 0.00052 26.7 5.6 43 70-112 99-144 (210)
110 TIGR01454 AHBA_synth_RP 3-amin 63.1 32 0.00068 25.4 6.1 45 69-113 78-126 (205)
111 PLN02954 phosphoserine phospha 63.0 14 0.00031 27.6 4.3 44 67-110 85-130 (224)
112 PLN02770 haloacid dehalogenase 62.7 44 0.00096 25.7 7.1 45 70-114 112-160 (248)
113 TIGR03333 salvage_mtnX 2-hydro 62.6 18 0.00039 27.2 4.8 45 67-111 71-116 (214)
114 PF08765 Mor: Mor transcriptio 62.4 27 0.00058 23.6 5.2 66 64-129 4-70 (108)
115 cd06318 PBP1_ABC_sugar_binding 62.2 68 0.0015 24.4 8.8 72 65-141 12-88 (282)
116 COG0546 Gph Predicted phosphat 61.7 23 0.00049 26.8 5.2 41 68-108 91-131 (220)
117 TIGR00099 Cof-subfamily Cof su 61.5 71 0.0015 24.4 9.2 69 76-144 26-107 (256)
118 PRK11590 hypothetical protein; 61.4 28 0.00061 26.1 5.6 42 71-112 101-145 (211)
119 cd06296 PBP1_CatR_like Ligand- 61.1 69 0.0015 24.1 9.2 71 65-142 12-87 (270)
120 COG0656 ARA1 Aldo/keto reducta 60.9 64 0.0014 26.0 7.7 31 108-140 160-190 (280)
121 PF03602 Cons_hypoth95: Conser 60.8 24 0.00052 26.3 5.1 50 69-118 76-128 (183)
122 COG4087 Soluble P-type ATPase 60.6 44 0.00095 24.2 6.0 69 68-140 32-100 (152)
123 COG1412 Uncharacterized protei 60.3 53 0.0012 23.5 6.5 50 89-148 83-132 (136)
124 PF08282 Hydrolase_3: haloacid 59.6 69 0.0015 23.6 10.1 77 69-146 19-108 (254)
125 cd01018 ZntC Metal binding pro 59.5 84 0.0018 24.6 8.7 71 66-140 149-224 (266)
126 COG2179 Predicted hydrolase of 59.4 72 0.0016 23.9 7.4 54 71-126 51-104 (175)
127 PRK13223 phosphoglycolate phos 59.4 34 0.00073 26.9 6.0 39 68-106 103-141 (272)
128 cd00384 ALAD_PBGS Porphobilino 59.3 99 0.0021 25.4 9.2 65 26-92 2-74 (314)
129 PF00532 Peripla_BP_1: Peripla 59.1 85 0.0019 24.6 9.2 71 65-142 14-88 (279)
130 PF06415 iPGM_N: BPG-independe 59.1 84 0.0018 24.5 8.1 97 27-130 10-122 (223)
131 PF00578 AhpC-TSA: AhpC/TSA fa 58.8 35 0.00075 22.6 5.3 46 66-111 43-89 (124)
132 PRK15126 thiamin pyrimidine py 58.6 84 0.0018 24.3 9.3 69 77-145 30-111 (272)
133 cd04185 GT_2_like_b Subfamily 58.4 67 0.0015 23.1 8.0 38 65-103 10-47 (202)
134 PF01053 Cys_Met_Meta_PP: Cys/ 58.4 25 0.00053 29.5 5.2 67 70-137 107-175 (386)
135 TIGR01522 ATPase-IIA2_Ca golgi 57.6 91 0.002 29.1 9.2 39 68-106 530-568 (884)
136 PRK08238 hypothetical protein; 57.5 56 0.0012 28.3 7.4 46 69-114 75-121 (479)
137 cd03018 PRX_AhpE_like Peroxire 57.3 55 0.0012 22.6 6.3 45 67-111 47-91 (149)
138 PF07085 DRTGG: DRTGG domain; 57.0 52 0.0011 21.8 5.8 54 83-142 41-94 (105)
139 COG0220 Predicted S-adenosylme 56.9 24 0.00052 27.4 4.6 46 69-114 83-129 (227)
140 TIGR02137 HSK-PSP phosphoserin 56.9 15 0.00032 27.8 3.4 42 69-111 71-112 (203)
141 TIGR00884 guaA_Cterm GMP synth 56.7 1.1E+02 0.0023 24.9 8.8 75 66-143 2-81 (311)
142 COG2131 ComEB Deoxycytidylate 56.7 75 0.0016 23.5 6.9 54 84-140 99-152 (164)
143 PRK08384 thiamine biosynthesis 56.5 1.1E+02 0.0024 25.6 8.8 67 63-129 20-96 (381)
144 cd03017 PRX_BCP Peroxiredoxin 56.3 61 0.0013 22.0 6.3 45 67-111 42-86 (140)
145 PF10111 Glyco_tranf_2_2: Glyc 55.6 72 0.0016 25.0 7.3 76 72-150 24-106 (281)
146 PF07476 MAAL_C: Methylasparta 55.5 1E+02 0.0022 24.3 7.9 84 45-137 106-193 (248)
147 PRK11033 zntA zinc/cadmium/mer 55.5 69 0.0015 29.2 7.9 38 69-106 571-608 (741)
148 cd06291 PBP1_Qymf_like Ligand 55.3 87 0.0019 23.5 8.6 69 65-142 12-84 (265)
149 COG1751 Uncharacterized conser 55.2 54 0.0012 24.3 5.8 69 69-138 14-88 (186)
150 PF06574 FAD_syn: FAD syntheta 55.1 11 0.00024 27.4 2.3 77 66-142 59-146 (157)
151 TIGR00715 precor6x_red precorr 55.0 69 0.0015 25.3 7.0 45 94-140 55-99 (256)
152 cd01538 PBP1_ABC_xylose_bindin 55.0 96 0.0021 23.9 9.2 73 65-142 12-89 (288)
153 cd06292 PBP1_LacI_like_10 Liga 54.7 91 0.002 23.5 9.1 75 65-142 12-92 (273)
154 cd04823 ALAD_PBGS_aspartate_ri 54.3 1.2E+02 0.0027 24.9 9.4 68 22-91 1-76 (320)
155 TIGR01370 cysRS possible cyste 54.3 86 0.0019 25.7 7.6 74 67-140 189-271 (315)
156 PF00535 Glycos_transf_2: Glyc 54.2 64 0.0014 21.7 6.2 81 64-149 10-95 (169)
157 PRK02090 phosphoadenosine phos 54.2 1E+02 0.0022 23.9 7.9 70 70-141 28-101 (241)
158 cd01539 PBP1_GGBP Periplasmic 54.1 1E+02 0.0023 24.0 9.7 73 65-142 12-91 (303)
159 cd06322 PBP1_ABC_sugar_binding 54.0 92 0.002 23.4 9.7 72 65-141 12-88 (267)
160 cd01537 PBP1_Repressors_Sugar_ 53.9 86 0.0019 23.0 9.5 72 65-142 12-88 (264)
161 TIGR00268 conserved hypothetic 53.4 1.1E+02 0.0023 23.9 8.8 71 72-144 3-76 (252)
162 TIGR02463 MPGP_rel mannosyl-3- 53.3 47 0.001 24.8 5.7 29 78-106 28-56 (221)
163 PF13277 YmdB: YmdB-like prote 53.3 16 0.00034 29.0 3.1 24 65-91 13-36 (253)
164 cd07939 DRE_TIM_NifV Streptomy 53.0 1.1E+02 0.0023 23.9 10.6 122 15-142 62-193 (259)
165 PLN02347 GMP synthetase 53.0 1.4E+02 0.0031 26.3 9.2 78 65-143 213-294 (536)
166 cd06299 PBP1_LacI_like_13 Liga 52.9 95 0.0021 23.2 9.7 71 66-142 13-87 (265)
167 COG0159 TrpA Tryptophan syntha 52.8 39 0.00085 27.0 5.2 101 3-117 53-160 (265)
168 cd06300 PBP1_ABC_sugar_binding 52.7 99 0.0021 23.4 9.6 73 65-142 12-94 (272)
169 TIGR03351 PhnX-like phosphonat 52.6 56 0.0012 24.2 6.0 48 67-114 88-141 (220)
170 cd06320 PBP1_allose_binding Pe 52.6 1E+02 0.0022 23.4 9.8 73 65-142 12-91 (275)
171 cd06323 PBP1_ribose_binding Pe 52.4 96 0.0021 23.2 9.4 73 65-142 12-89 (268)
172 PRK13384 delta-aminolevulinic 52.4 1.3E+02 0.0029 24.7 8.4 69 22-92 8-84 (322)
173 cd06309 PBP1_YtfQ_like Peripla 52.2 1E+02 0.0022 23.3 8.8 73 65-142 12-89 (273)
174 PRK11133 serB phosphoserine ph 52.0 38 0.00081 27.7 5.2 42 70-111 185-226 (322)
175 PF04900 Fcf1: Fcf1; InterPro 51.8 66 0.0014 21.2 5.6 45 90-144 51-96 (101)
176 PRK09552 mtnX 2-hydroxy-3-keto 51.8 29 0.00062 26.1 4.3 43 68-111 76-120 (219)
177 COG2099 CobK Precorrin-6x redu 51.6 64 0.0014 25.7 6.2 46 93-140 55-100 (257)
178 cd06284 PBP1_LacI_like_6 Ligan 51.6 99 0.0022 23.1 9.1 70 65-141 12-85 (267)
179 PRK03669 mannosyl-3-phosphogly 51.6 57 0.0012 25.4 6.1 31 76-106 34-64 (271)
180 PF08444 Gly_acyl_tr_C: Aralky 51.5 32 0.0007 22.8 3.9 47 62-108 32-78 (89)
181 PF02142 MGS: MGS-like domain 51.5 24 0.00051 23.1 3.3 42 96-137 52-94 (95)
182 COG0113 HemB Delta-aminolevuli 51.2 1.4E+02 0.003 24.6 8.2 74 19-94 5-86 (330)
183 PRK00109 Holliday junction res 50.8 88 0.0019 22.2 7.9 50 71-120 43-105 (138)
184 TIGR01489 DKMTPPase-SF 2,3-dik 50.7 24 0.00053 25.3 3.6 42 70-111 76-121 (188)
185 COG1778 Low specificity phosph 50.7 35 0.00075 25.3 4.3 35 78-112 47-81 (170)
186 PRK09590 celB cellobiose phosp 50.7 76 0.0017 21.5 8.3 68 65-140 15-82 (104)
187 COG1692 Calcineurin-like phosp 50.6 23 0.00049 28.2 3.5 50 95-144 21-70 (266)
188 cd06301 PBP1_rhizopine_binding 50.6 1.1E+02 0.0023 23.1 9.9 73 65-142 12-90 (272)
189 TIGR01517 ATPase-IIB_Ca plasma 50.6 1.1E+02 0.0023 28.8 8.5 38 69-106 582-619 (941)
190 cd01422 MGS Methylglyoxal synt 50.5 79 0.0017 21.6 6.6 58 81-138 44-106 (115)
191 cd01575 PBP1_GntR Ligand-bindi 50.3 1E+02 0.0023 22.9 9.9 70 65-141 12-86 (268)
192 TIGR01428 HAD_type_II 2-haloal 50.2 58 0.0013 23.8 5.7 47 69-115 95-145 (198)
193 PF08032 SpoU_sub_bind: RNA 2' 49.9 11 0.00025 23.2 1.5 48 97-147 10-57 (76)
194 COG0648 Nfo Endonuclease IV [D 49.8 95 0.0021 25.0 7.0 81 19-102 40-126 (280)
195 TIGR03191 benz_CoA_bzdO benzoy 49.7 51 0.0011 28.0 5.9 51 92-143 349-401 (430)
196 TIGR01422 phosphonatase phosph 49.6 35 0.00077 26.1 4.6 45 69-113 102-151 (253)
197 PRK11175 universal stress prot 49.5 1.2E+02 0.0027 23.6 13.0 114 28-141 15-146 (305)
198 PTZ00222 60S ribosomal protein 49.4 76 0.0016 25.3 6.3 54 84-141 130-183 (263)
199 cd01018 ZntC Metal binding pro 49.3 1E+02 0.0022 24.1 7.2 41 71-111 206-247 (266)
200 cd06270 PBP1_GalS_like Ligand 49.3 1.1E+02 0.0024 23.0 9.5 71 65-142 12-87 (268)
201 cd06302 PBP1_LsrB_Quorum_Sensi 49.2 1.2E+02 0.0027 23.5 10.0 73 65-142 12-90 (298)
202 cd01544 PBP1_GalR Ligand-bindi 49.2 1.2E+02 0.0025 23.1 8.3 67 65-142 17-83 (270)
203 TIGR00250 RNAse_H_YqgF RNAse H 49.2 90 0.002 21.9 7.8 49 71-119 37-98 (130)
204 TIGR01548 HAD-SF-IA-hyp1 haloa 49.0 1E+02 0.0022 22.5 7.6 35 73-107 113-147 (197)
205 cd00221 Vsr Very Short Patch R 48.9 57 0.0012 22.5 5.0 26 117-142 88-113 (115)
206 cd00128 XPG Xeroderma pigmento 48.5 42 0.00091 27.0 5.0 43 69-111 128-170 (316)
207 PRK10513 sugar phosphate phosp 48.5 1.2E+02 0.0027 23.2 9.7 69 77-145 31-116 (270)
208 cd01025 TOPRIM_recR TOPRIM_rec 48.3 89 0.0019 21.6 6.1 46 94-139 46-91 (112)
209 TIGR03025 EPS_sugtrans exopoly 48.3 62 0.0013 27.3 6.2 46 94-141 178-223 (445)
210 PF12683 DUF3798: Protein of u 48.1 72 0.0016 25.6 6.0 45 95-139 121-169 (275)
211 PRK00919 GMP synthase subunit 47.9 1.5E+02 0.0033 24.1 8.4 74 65-142 6-83 (307)
212 cd00532 MGS-like MGS-like doma 47.8 57 0.0012 22.0 4.9 59 79-138 39-104 (112)
213 PRK00074 guaA GMP synthase; Re 47.6 1.4E+02 0.0031 25.9 8.4 75 65-142 200-279 (511)
214 PLN02781 Probable caffeoyl-CoA 47.6 1.3E+02 0.0028 23.2 7.6 64 70-134 105-173 (234)
215 cd08185 Fe-ADH1 Iron-containin 47.6 1.6E+02 0.0035 24.3 8.9 23 69-91 12-34 (380)
216 cd06310 PBP1_ABC_sugar_binding 47.3 1.2E+02 0.0026 22.8 9.9 72 65-141 12-90 (273)
217 TIGR03190 benz_CoA_bzdN benzoy 47.2 62 0.0013 26.9 5.9 51 93-144 302-354 (377)
218 TIGR00282 metallophosphoestera 47.2 27 0.00058 27.8 3.6 42 65-110 16-65 (266)
219 KOG3167|consensus 47.1 33 0.00072 24.7 3.6 45 66-110 59-108 (153)
220 TIGR01449 PGP_bact 2-phosphogl 47.1 68 0.0015 23.5 5.7 44 70-113 89-136 (213)
221 cd01536 PBP1_ABC_sugar_binding 47.0 1.2E+02 0.0025 22.5 9.4 72 65-141 12-88 (267)
222 COG0757 AroQ 3-dehydroquinate 47.0 1.1E+02 0.0024 22.2 9.2 77 74-154 34-113 (146)
223 KOG0133|consensus 46.9 22 0.00047 31.3 3.2 94 17-112 169-269 (531)
224 cd00008 53EXOc 5'-3' exonuclea 46.8 1.3E+02 0.0029 23.2 8.9 77 38-114 46-134 (240)
225 TIGR00695 uxuA mannonate dehyd 46.7 52 0.0011 27.9 5.3 55 98-154 17-75 (394)
226 COG2242 CobL Precorrin-6B meth 46.5 70 0.0015 24.2 5.5 42 69-113 69-111 (187)
227 cd01574 PBP1_LacI Ligand-bindi 46.1 1.2E+02 0.0027 22.6 9.0 71 65-142 12-88 (264)
228 TIGR02726 phenyl_P_delta pheny 46.1 1.1E+02 0.0023 22.5 6.4 35 78-112 46-80 (169)
229 TIGR01494 ATPase_P-type ATPase 46.0 1.3E+02 0.0028 25.8 7.8 63 70-140 351-413 (499)
230 cd06281 PBP1_LacI_like_5 Ligan 45.7 1.3E+02 0.0028 22.7 9.4 71 66-142 13-88 (269)
231 KOG4498|consensus 45.6 47 0.001 25.3 4.4 55 64-118 66-121 (197)
232 COG2873 MET17 O-acetylhomoseri 45.4 77 0.0017 26.9 6.0 65 73-138 117-182 (426)
233 cd06442 DPM1_like DPM1_like re 45.3 1.2E+02 0.0025 22.1 8.5 24 66-89 11-34 (224)
234 cd06306 PBP1_TorT-like TorT-li 45.3 1.3E+02 0.0029 22.8 9.7 71 65-141 12-89 (268)
235 PF00289 CPSase_L_chain: Carba 45.3 96 0.0021 21.1 6.3 18 75-92 18-35 (110)
236 PRK13288 pyrophosphatase PpaX; 45.2 40 0.00086 25.0 4.1 39 69-107 85-123 (214)
237 PRK01372 ddl D-alanine--D-alan 45.2 93 0.002 24.5 6.5 42 68-111 22-63 (304)
238 PRK10660 tilS tRNA(Ile)-lysidi 45.1 1.3E+02 0.0029 25.6 7.7 33 106-138 48-80 (436)
239 PF02310 B12-binding: B12 bind 45.1 90 0.002 20.7 7.9 78 70-148 16-96 (121)
240 cd06321 PBP1_ABC_sugar_binding 45.0 1.3E+02 0.0029 22.6 8.9 73 65-142 12-91 (271)
241 cd08181 PPD-like 1,3-propanedi 44.9 1.7E+02 0.0038 23.9 9.2 66 69-135 12-85 (357)
242 PRK13602 putative ribosomal pr 44.9 83 0.0018 20.2 5.8 38 101-141 24-61 (82)
243 TIGR03590 PseG pseudaminic aci 44.8 1.3E+02 0.0028 23.7 7.2 62 75-142 46-112 (279)
244 KOG1014|consensus 44.4 1.3E+02 0.0029 24.6 7.1 62 73-136 64-129 (312)
245 TIGR01485 SPP_plant-cyano sucr 44.3 54 0.0012 25.1 4.9 38 67-104 22-59 (249)
246 TIGR01681 HAD-SF-IIIC HAD-supe 43.8 1E+02 0.0023 21.1 6.6 39 66-104 29-68 (128)
247 PF01297 TroA: Periplasmic sol 43.8 1.5E+02 0.0032 22.8 7.7 45 69-113 186-231 (256)
248 cd06274 PBP1_FruR Ligand bindi 43.6 1.4E+02 0.003 22.4 9.5 70 66-142 13-87 (264)
249 cd01543 PBP1_XylR Ligand-bindi 43.6 1.1E+02 0.0023 23.1 6.4 69 65-142 11-80 (265)
250 cd01017 AdcA Metal binding pro 43.5 1.6E+02 0.0035 23.1 8.7 13 68-80 152-164 (282)
251 cd06278 PBP1_LacI_like_2 Ligan 43.4 1.4E+02 0.0029 22.3 9.5 70 66-142 13-86 (266)
252 TIGR00632 vsr DNA mismatch end 43.3 70 0.0015 22.3 4.7 25 118-142 92-116 (117)
253 PRK05593 rplR 50S ribosomal pr 43.1 70 0.0015 22.2 4.8 41 95-136 77-117 (117)
254 PRK04017 hypothetical protein; 43.0 1.2E+02 0.0026 21.6 6.5 20 116-135 76-95 (132)
255 PRK01158 phosphoglycolate phos 43.0 1E+02 0.0022 23.0 6.1 30 77-106 31-60 (230)
256 cd06285 PBP1_LacI_like_7 Ligan 42.8 1.4E+02 0.0031 22.3 9.9 72 65-142 12-87 (265)
257 cd01424 MGS_CPS_II Methylglyox 42.6 1E+02 0.0022 20.5 6.6 44 94-138 57-100 (110)
258 COG1167 ARO8 Transcriptional r 42.6 1.7E+02 0.0037 24.9 8.0 67 76-142 194-269 (459)
259 TIGR01487 SPP-like sucrose-pho 42.6 72 0.0016 23.7 5.2 31 76-106 28-58 (215)
260 cd02970 PRX_like2 Peroxiredoxi 42.5 1.1E+02 0.0023 20.9 6.1 41 68-108 43-83 (149)
261 TIGR02990 ectoine_eutA ectoine 42.5 1.1E+02 0.0024 23.9 6.3 51 91-144 106-156 (239)
262 TIGR02432 lysidine_TilS_N tRNA 42.4 1E+02 0.0022 22.4 5.9 18 94-111 48-65 (189)
263 TIGR02461 osmo_MPG_phos mannos 42.4 65 0.0014 24.6 5.0 29 77-105 26-54 (225)
264 cd06312 PBP1_ABC_sugar_binding 42.4 1.5E+02 0.0032 22.4 10.2 73 65-142 13-91 (271)
265 PRK05234 mgsA methylglyoxal sy 42.3 1.3E+02 0.0027 21.6 6.4 63 76-138 43-111 (142)
266 PRK10976 putative hydrolase; P 42.3 86 0.0019 24.1 5.8 30 77-106 30-59 (266)
267 cd01391 Periplasmic_Binding_Pr 41.9 1.3E+02 0.0029 21.7 8.5 72 65-142 13-91 (269)
268 cd06314 PBP1_tmGBP Periplasmic 41.6 1.5E+02 0.0033 22.4 9.3 71 65-141 11-87 (271)
269 PRK09283 delta-aminolevulinic 41.3 2E+02 0.0044 23.7 8.4 70 21-92 5-82 (323)
270 COG1358 RPL8A Ribosomal protei 41.2 1.1E+02 0.0024 21.2 5.5 43 69-111 30-77 (116)
271 TIGR01662 HAD-SF-IIIA HAD-supe 41.2 83 0.0018 21.3 5.0 41 66-106 25-73 (132)
272 TIGR01684 viral_ppase viral ph 41.2 1.3E+02 0.0029 24.5 6.7 47 69-115 149-199 (301)
273 TIGR03023 WcaJ_sugtrans Undeca 41.0 98 0.0021 26.1 6.3 46 94-141 181-226 (451)
274 PRK14976 5'-3' exonuclease; Pr 41.0 1.9E+02 0.004 23.2 8.9 77 39-115 52-140 (281)
275 COG0561 Cof Predicted hydrolas 41.0 79 0.0017 24.3 5.4 41 67-107 21-61 (264)
276 TIGR02571 ComEB ComE operon pr 40.7 1.4E+02 0.003 21.6 7.2 53 82-140 87-139 (151)
277 PRK06683 hypothetical protein; 40.5 1E+02 0.0022 19.9 5.8 37 101-140 24-60 (82)
278 PRK13225 phosphoglycolate phos 40.2 78 0.0017 25.0 5.3 37 70-106 146-182 (273)
279 PRK09701 D-allose transporter 40.2 1.8E+02 0.0039 22.8 10.0 73 65-142 37-116 (311)
280 PRK10124 putative UDP-glucose 40.2 1.1E+02 0.0023 26.3 6.4 48 94-143 193-240 (463)
281 COG2241 CobL Precorrin-6B meth 40.2 68 0.0015 24.7 4.7 97 29-134 55-165 (210)
282 cd07948 DRE_TIM_HCS Saccharomy 40.2 1.8E+02 0.004 22.9 12.7 120 17-142 66-195 (262)
283 cd07945 DRE_TIM_CMS Leptospira 40.0 1.9E+02 0.0041 23.0 10.4 110 32-142 79-202 (280)
284 TIGR02263 benz_CoA_red_C benzo 40.0 87 0.0019 26.1 5.7 48 92-140 309-358 (380)
285 PF11987 IF-2: Translation-ini 39.9 1.2E+02 0.0026 20.6 5.6 65 69-140 27-97 (108)
286 PRK10703 DNA-binding transcrip 39.8 1.9E+02 0.0041 22.8 9.1 70 65-141 72-147 (341)
287 TIGR01486 HAD-SF-IIB-MPGP mann 39.6 91 0.002 23.9 5.5 31 76-106 26-56 (256)
288 PRK12344 putative alpha-isopro 39.6 2.6E+02 0.0057 24.5 12.4 126 16-142 71-212 (524)
289 cd08189 Fe-ADH5 Iron-containin 39.5 2.2E+02 0.0047 23.5 9.0 22 69-90 12-34 (374)
290 TIGR00365 monothiol glutaredox 39.3 98 0.0021 20.3 4.9 50 93-145 30-79 (97)
291 COG3053 CitC Citrate lyase syn 39.2 2.2E+02 0.0048 23.5 8.7 105 32-139 164-294 (352)
292 PLN03194 putative disease resi 39.2 1.7E+02 0.0037 22.2 7.0 78 72-153 44-127 (187)
293 cd06283 PBP1_RegR_EndR_KdgR_li 39.1 1.6E+02 0.0035 21.9 9.3 71 65-142 12-87 (267)
294 PRK09860 putative alcohol dehy 39.1 2.3E+02 0.0049 23.6 9.0 22 69-90 17-39 (383)
295 COG0529 CysC Adenylylsulfate k 39.1 82 0.0018 24.0 4.8 22 72-93 41-62 (197)
296 smart00475 53EXOc 5'-3' exonuc 38.9 1.4E+02 0.0029 23.6 6.4 48 67-114 82-133 (259)
297 PRK09860 putative alcohol dehy 38.6 1.2E+02 0.0027 25.1 6.4 56 86-141 11-67 (383)
298 PRK13844 recombination protein 38.3 1.8E+02 0.0039 22.3 6.7 44 95-139 129-172 (200)
299 PLN03243 haloacid dehalogenase 38.2 1.9E+02 0.0042 22.6 7.2 46 69-114 112-161 (260)
300 PF13778 DUF4174: Domain of un 37.9 1.1E+02 0.0025 20.9 5.2 34 60-93 21-54 (118)
301 smart00500 SFM Splicing Factor 37.9 79 0.0017 18.1 3.6 30 72-101 4-33 (44)
302 cd07941 DRE_TIM_LeuA3 Desulfob 37.7 2E+02 0.0044 22.6 12.7 126 16-142 64-206 (273)
303 TIGR01526 nadR_NMN_Atrans nico 37.6 1.9E+02 0.0042 23.4 7.3 73 17-91 234-319 (325)
304 cd06304 PBP1_BmpA_like Peripla 37.5 1.8E+02 0.0039 22.0 9.5 71 65-142 14-89 (260)
305 PF01171 ATP_bind_3: PP-loop f 37.4 99 0.0021 22.5 5.2 72 66-140 14-103 (182)
306 PRK13600 putative ribosomal pr 37.4 1.2E+02 0.0026 19.8 5.4 40 73-112 20-63 (84)
307 COG0626 MetC Cystathionine bet 37.3 1.3E+02 0.0028 25.5 6.3 69 74-145 119-189 (396)
308 TIGR00095 RNA methyltransferas 37.3 1.6E+02 0.0034 21.9 6.3 48 69-116 83-133 (189)
309 PRK14988 GMP/IMP nucleotidase; 36.9 84 0.0018 23.8 4.8 48 68-115 95-146 (224)
310 cd01453 vWA_transcription_fact 36.9 1.2E+02 0.0027 22.2 5.6 9 94-102 149-157 (183)
311 PTZ00217 flap endonuclease-1; 36.8 71 0.0015 26.9 4.7 42 69-110 138-179 (393)
312 cd06423 CESA_like CESA_like is 36.6 1.3E+02 0.0028 20.1 6.2 24 65-89 10-33 (180)
313 PRK14987 gluconate operon tran 36.6 2.1E+02 0.0045 22.5 9.9 70 65-141 76-150 (331)
314 cd03013 PRX5_like Peroxiredoxi 36.5 1.2E+02 0.0027 21.6 5.4 38 68-105 50-88 (155)
315 TIGR01664 DNA-3'-Pase DNA 3'-p 36.4 72 0.0016 23.2 4.2 47 60-106 36-94 (166)
316 PF03982 DAGAT: Diacylglycerol 36.3 91 0.002 25.2 5.1 57 29-91 167-226 (297)
317 cd06316 PBP1_ABC_sugar_binding 36.2 2E+02 0.0043 22.1 9.3 72 66-142 13-90 (294)
318 TIGR01261 hisB_Nterm histidino 36.1 1.3E+02 0.0029 21.6 5.6 40 67-106 30-84 (161)
319 PRK09437 bcp thioredoxin-depen 36.1 1.5E+02 0.0032 20.6 6.2 45 67-111 49-93 (154)
320 TIGR02260 benz_CoA_red_B benzo 36.1 1.2E+02 0.0027 25.6 6.1 49 93-142 339-390 (413)
321 TIGR01482 SPP-subfamily Sucros 35.8 1.1E+02 0.0024 22.6 5.4 30 76-105 25-54 (225)
322 CHL00139 rpl18 ribosomal prote 35.7 1E+02 0.0022 21.2 4.6 41 95-136 69-109 (109)
323 cd02064 FAD_synthetase_N FAD s 35.7 1.8E+02 0.0038 21.3 6.8 71 70-140 57-137 (180)
324 cd06280 PBP1_LacI_like_4 Ligan 35.7 1.9E+02 0.0041 21.7 9.4 71 65-142 12-86 (263)
325 PRK05627 bifunctional riboflav 35.6 2.2E+02 0.0048 23.1 7.3 73 68-140 69-152 (305)
326 TIGR02432 lysidine_TilS_N tRNA 35.6 1.7E+02 0.0037 21.2 8.8 45 69-113 45-108 (189)
327 PRK00192 mannosyl-3-phosphogly 35.5 1.3E+02 0.0028 23.4 5.8 34 73-106 28-61 (273)
328 TIGR01481 ccpA catabolite cont 35.2 2.2E+02 0.0047 22.3 10.0 70 65-141 72-146 (329)
329 PRK07810 O-succinylhomoserine 35.0 1.9E+02 0.0041 24.1 7.1 65 74-139 126-191 (403)
330 cd06282 PBP1_GntR_like_2 Ligan 35.0 1.9E+02 0.0041 21.5 9.7 71 65-141 12-87 (266)
331 PHA02530 pseT polynucleotide k 34.9 41 0.00089 26.5 2.9 44 67-110 188-231 (300)
332 TIGR00060 L18_bact ribosomal p 34.8 1.1E+02 0.0025 21.1 4.7 41 95-136 74-114 (114)
333 PRK03980 flap endonuclease-1; 34.7 82 0.0018 25.4 4.6 43 70-113 84-126 (292)
334 TIGR00615 recR recombination p 34.4 1.7E+02 0.0036 22.3 5.9 45 95-139 125-169 (195)
335 cd00614 CGS_like CGS_like: Cys 34.3 1.7E+02 0.0037 23.9 6.6 63 77-140 99-162 (369)
336 PRK08247 cystathionine gamma-s 34.1 2.6E+02 0.0056 22.8 8.5 64 75-139 108-172 (366)
337 cd06276 PBP1_FucR_like Ligand- 34.1 2.1E+02 0.0045 21.6 8.6 71 65-141 11-84 (247)
338 KOG0053|consensus 33.9 1.9E+02 0.0041 24.7 6.7 67 70-137 129-196 (409)
339 PRK08248 O-acetylhomoserine am 33.9 1.8E+02 0.004 24.6 6.8 63 75-138 121-184 (431)
340 cd02067 B12-binding B12 bindin 33.9 1.2E+02 0.0027 20.2 4.9 45 69-113 65-111 (119)
341 cd06319 PBP1_ABC_sugar_binding 33.8 2E+02 0.0044 21.5 9.7 72 65-141 12-88 (277)
342 PRK15454 ethanol dehydrogenase 33.8 1.7E+02 0.0036 24.6 6.5 56 86-141 29-85 (395)
343 cd06811 PLPDE_III_yhfX_like Ty 33.8 2.8E+02 0.006 23.1 9.0 48 27-87 7-58 (382)
344 TIGR01518 g3p_cytidyltrns glyc 33.6 61 0.0013 22.2 3.3 75 33-115 18-93 (125)
345 COG1810 Uncharacterized protei 33.5 2.1E+02 0.0046 22.3 6.4 66 81-149 54-122 (224)
346 PF02593 dTMP_synthase: Thymid 33.5 1.3E+02 0.0028 23.4 5.3 63 83-147 52-117 (217)
347 cd06433 GT_2_WfgS_like WfgS an 33.4 1.7E+02 0.0037 20.5 6.9 12 65-76 11-22 (202)
348 PRK12702 mannosyl-3-phosphogly 33.4 1.5E+02 0.0033 24.2 5.9 35 72-106 24-58 (302)
349 cd01019 ZnuA Zinc binding prot 33.4 2.4E+02 0.0053 22.3 8.5 72 65-141 157-236 (286)
350 PF10087 DUF2325: Uncharacteri 33.3 1.3E+02 0.0028 19.6 4.8 34 69-102 62-95 (97)
351 cd04188 DPG_synthase DPG_synth 33.3 1.9E+02 0.0041 21.0 9.2 84 64-150 9-100 (211)
352 cd03012 TlpA_like_DipZ_like Tl 33.0 1.1E+02 0.0023 20.6 4.5 41 68-108 42-88 (126)
353 PTZ00365 60S ribosomal protein 33.0 1.6E+02 0.0034 23.6 5.8 46 65-110 131-181 (266)
354 TIGR00977 LeuA_rel 2-isopropyl 32.9 3.4E+02 0.0074 23.8 12.6 128 15-143 66-210 (526)
355 PRK13222 phosphoglycolate phos 32.9 65 0.0014 23.8 3.6 38 69-106 96-133 (226)
356 KOG3076|consensus 32.8 2.3E+02 0.0049 21.7 7.8 105 14-140 36-148 (206)
357 TIGR02253 CTE7 HAD superfamily 32.6 1.8E+02 0.004 21.3 6.1 46 70-115 98-147 (221)
358 TIGR01685 MDP-1 magnesium-depe 32.5 2.1E+02 0.0045 21.2 8.1 40 67-106 46-86 (174)
359 PF01596 Methyltransf_3: O-met 32.2 1.9E+02 0.0041 21.9 6.1 50 84-134 98-150 (205)
360 PRK05967 cystathionine beta-ly 32.2 2E+02 0.0044 24.1 6.8 62 76-138 122-184 (395)
361 PF00867 XPG_I: XPG I-region; 32.1 70 0.0015 20.9 3.3 33 80-112 2-34 (94)
362 PRK09856 fructoselysine 3-epim 32.0 1.6E+02 0.0035 22.6 5.9 60 80-139 2-66 (275)
363 PRK10014 DNA-binding transcrip 31.8 2.5E+02 0.0055 22.0 9.8 71 65-141 77-152 (342)
364 PF09664 DUF2399: Protein of u 31.6 2E+02 0.0043 20.8 6.6 49 80-129 39-90 (152)
365 PRK10936 TMAO reductase system 31.5 2.7E+02 0.0059 22.3 9.8 72 65-142 59-137 (343)
366 PRK08745 ribulose-phosphate 3- 31.5 1.7E+02 0.0036 22.6 5.7 79 40-126 29-107 (223)
367 smart00775 LNS2 LNS2 domain. T 31.5 2E+02 0.0043 20.7 8.2 37 66-102 27-66 (157)
368 cd03423 SirA SirA (also known 31.4 1.3E+02 0.0027 18.4 5.3 44 71-114 13-60 (69)
369 PRK05031 tRNA (uracil-5-)-meth 31.4 2.8E+02 0.0062 22.8 7.4 73 69-144 239-325 (362)
370 cd08192 Fe-ADH7 Iron-containin 31.1 2E+02 0.0042 23.7 6.4 74 69-143 10-92 (370)
371 PF12813 XPG_I_2: XPG domain c 31.1 1.5E+02 0.0033 23.2 5.5 25 81-105 19-43 (246)
372 cd06315 PBP1_ABC_sugar_binding 31.0 2.4E+02 0.0052 21.5 9.7 72 65-141 13-89 (280)
373 PF00465 Fe-ADH: Iron-containi 31.0 2E+02 0.0044 23.5 6.5 12 71-82 11-22 (366)
374 smart00513 SAP Putative DNA-bi 30.9 80 0.0017 16.6 2.8 27 71-100 6-32 (35)
375 PF02037 SAP: SAP domain; Int 30.8 53 0.0012 17.5 2.1 28 70-100 5-32 (35)
376 TIGR03707 PPK2_P_aer polyphosp 30.8 2.6E+02 0.0056 21.8 7.2 71 63-133 10-89 (230)
377 PF01206 TusA: Sulfurtransfera 30.7 1.3E+02 0.0027 18.2 5.5 43 71-113 14-60 (70)
378 COG0854 PdxJ Pyridoxal phospha 30.7 2.7E+02 0.0058 21.9 9.6 81 62-143 102-196 (243)
379 TIGR01325 O_suc_HS_sulf O-succ 30.7 2.1E+02 0.0046 23.5 6.6 66 75-141 111-177 (380)
380 PRK03906 mannonate dehydratase 30.7 1.2E+02 0.0026 25.5 5.1 55 98-154 17-75 (385)
381 PRK14569 D-alanyl-alanine synt 30.6 2.7E+02 0.0059 22.0 7.3 10 96-105 74-83 (296)
382 TIGR02638 lactal_redase lactal 30.6 3.1E+02 0.0067 22.6 8.9 44 68-111 14-64 (379)
383 cd06288 PBP1_sucrose_transcrip 30.6 2.3E+02 0.005 21.1 8.1 69 66-142 14-87 (269)
384 PLN02476 O-methyltransferase 30.6 2.8E+02 0.0062 22.2 7.6 63 71-134 156-223 (278)
385 PRK10653 D-ribose transporter 30.5 2.5E+02 0.0055 21.6 10.3 72 65-141 39-115 (295)
386 PF14258 DUF4350: Domain of un 30.4 1.3E+02 0.0028 18.2 6.9 57 70-131 6-62 (70)
387 PRK11009 aphA acid phosphatase 30.3 2.6E+02 0.0057 21.7 8.7 36 70-105 118-157 (237)
388 cd02685 MIT_C MIT_C; domain fo 30.2 1.5E+02 0.0033 21.5 4.9 33 122-155 73-105 (148)
389 PLN02887 hydrolase family prot 30.2 4E+02 0.0087 23.8 9.3 30 76-105 335-364 (580)
390 PF12048 DUF3530: Protein of u 30.1 3E+02 0.0064 22.2 8.7 121 17-138 89-251 (310)
391 cd01020 TroA_b Metal binding p 30.0 2.4E+02 0.0052 22.0 6.5 41 70-110 194-238 (264)
392 PRK06176 cystathionine gamma-s 30.0 2.1E+02 0.0045 23.7 6.4 68 73-141 104-172 (380)
393 cd06298 PBP1_CcpA_like Ligand- 29.9 2.3E+02 0.0051 21.0 9.9 71 65-142 12-87 (268)
394 COG5310 Homospermidine synthas 29.8 1E+02 0.0022 25.9 4.3 44 65-111 170-213 (481)
395 cd08189 Fe-ADH5 Iron-containin 29.6 2.2E+02 0.0047 23.5 6.5 55 87-141 7-62 (374)
396 PRK09028 cystathionine beta-ly 29.5 2.9E+02 0.0062 23.2 7.2 65 74-139 117-182 (394)
397 cd08182 HEPD Hydroxyethylphosp 29.4 3.2E+02 0.0069 22.4 9.0 21 70-90 10-31 (367)
398 smart00851 MGS MGS-like domain 29.3 64 0.0014 20.7 2.7 41 96-136 47-88 (90)
399 cd01992 PP-ATPase N-terminal d 29.2 2.2E+02 0.0047 20.4 5.9 48 93-140 47-103 (185)
400 TIGR02417 fruct_sucro_rep D-fr 29.2 2.8E+02 0.0061 21.7 9.2 71 66-142 74-149 (327)
401 PRK08005 epimerase; Validated 29.1 1.8E+02 0.004 22.2 5.5 78 40-126 26-103 (210)
402 TIGR00715 precor6x_red precorr 29.1 2.9E+02 0.0062 21.8 7.5 64 77-144 166-234 (256)
403 TIGR03590 PseG pseudaminic aci 29.1 2.8E+02 0.0062 21.7 8.7 73 67-142 17-89 (279)
404 cd06293 PBP1_LacI_like_11 Liga 29.0 2.5E+02 0.0054 21.0 8.7 71 65-141 12-86 (269)
405 PF04392 ABC_sub_bind: ABC tra 29.0 1.2E+02 0.0027 23.8 4.8 70 69-140 147-218 (294)
406 COG0552 FtsY Signal recognitio 29.0 3.4E+02 0.0074 22.6 9.1 72 69-142 154-230 (340)
407 PRK05968 hypothetical protein; 28.8 3.4E+02 0.0073 22.5 8.9 66 74-141 119-185 (389)
408 PLN02575 haloacid dehalogenase 28.7 3.6E+02 0.0077 22.7 7.9 46 69-114 219-268 (381)
409 PLN02746 hydroxymethylglutaryl 28.6 3.4E+02 0.0074 22.5 10.7 111 31-142 125-252 (347)
410 COG1775 HgdB Benzoyl-CoA reduc 28.5 1E+02 0.0022 25.9 4.2 75 74-149 288-366 (379)
411 cd08190 HOT Hydroxyacid-oxoaci 28.5 2.2E+02 0.0048 23.9 6.4 76 69-145 9-93 (414)
412 smart00484 XPGI Xeroderma pigm 28.5 89 0.0019 19.7 3.1 34 80-113 2-35 (73)
413 PRK08133 O-succinylhomoserine 28.5 2.6E+02 0.0057 23.1 6.8 66 74-140 117-183 (390)
414 PRK12686 carbamate kinase; Rev 28.4 2.9E+02 0.0062 22.6 6.8 73 78-150 38-121 (312)
415 TIGR01484 HAD-SF-IIB HAD-super 28.1 2.2E+02 0.0048 20.7 5.8 29 76-104 27-55 (204)
416 PRK10824 glutaredoxin-4; Provi 28.0 1.8E+02 0.004 20.0 4.9 17 94-110 34-50 (115)
417 PF05872 DUF853: Bacterial pro 27.8 94 0.002 27.1 4.0 73 45-125 257-333 (502)
418 PRK10624 L-1,2-propanediol oxi 27.8 2.3E+02 0.0049 23.5 6.3 76 69-145 16-100 (382)
419 PRK08883 ribulose-phosphate 3- 27.7 2E+02 0.0044 22.0 5.6 85 40-136 25-109 (220)
420 cd07050 BMC_EutL_repeat2 ethan 27.7 90 0.002 20.4 3.0 27 68-94 26-52 (87)
421 cd08567 GDPD_SpGDE_like Glycer 27.7 1.9E+02 0.0041 22.1 5.5 12 76-87 225-236 (263)
422 PF13466 STAS_2: STAS domain 27.7 1.5E+02 0.0033 18.1 4.8 38 66-105 42-79 (80)
423 PTZ00222 60S ribosomal protein 27.6 1.4E+02 0.0031 23.8 4.7 47 65-111 131-182 (263)
424 cd08194 Fe-ADH6 Iron-containin 27.6 2.7E+02 0.0059 22.9 6.7 75 69-144 9-92 (375)
425 cd01137 PsaA Metal binding pro 27.4 3.1E+02 0.0068 21.7 8.8 13 67-79 155-167 (287)
426 PF06858 NOG1: Nucleolar GTP-b 27.4 1.4E+02 0.0031 18.1 3.7 40 42-88 14-53 (58)
427 cd03420 SirA_RHOD_Pry_redox Si 27.3 1.5E+02 0.0033 18.0 5.4 43 71-113 13-59 (69)
428 TIGR02955 TMAO_TorT TMAO reduc 27.3 2.9E+02 0.0064 21.3 9.5 72 65-142 12-90 (295)
429 cd03028 GRX_PICOT_like Glutare 27.3 1.2E+02 0.0027 19.4 3.8 53 92-147 25-77 (90)
430 TIGR01686 FkbH FkbH-like domai 27.3 2.3E+02 0.0049 22.8 6.1 36 67-102 32-67 (320)
431 PRK09248 putative hydrolase; V 27.2 2.9E+02 0.0062 21.2 7.2 12 95-106 176-187 (246)
432 PRK05939 hypothetical protein; 27.2 3.7E+02 0.008 22.4 7.5 62 78-140 106-168 (397)
433 cd06542 GH18_EndoS-like Endo-b 27.2 2.9E+02 0.0062 21.2 11.1 52 64-115 46-115 (255)
434 PF12692 Methyltransf_17: S-ad 27.2 2E+02 0.0044 21.1 5.1 42 88-130 76-117 (160)
435 PRK13226 phosphoglycolate phos 27.1 1.4E+02 0.0031 22.4 4.7 37 70-106 99-135 (229)
436 PTZ00032 60S ribosomal protein 27.1 1.5E+02 0.0032 22.9 4.6 40 96-136 172-211 (211)
437 PF09494 Slx4: Slx4 endonuclea 26.9 1.5E+02 0.0033 18.0 3.9 33 71-105 27-59 (64)
438 PRK11303 DNA-binding transcrip 26.9 3.1E+02 0.0066 21.4 9.8 70 66-141 75-149 (328)
439 PRK13703 conjugal pilus assemb 26.9 2.6E+02 0.0055 22.1 6.1 22 93-114 162-183 (248)
440 PF03786 UxuA: D-mannonate deh 26.8 1.2E+02 0.0027 25.2 4.4 29 65-93 41-69 (351)
441 TIGR02638 lactal_redase lactal 26.8 2.6E+02 0.0056 23.1 6.4 56 86-141 9-65 (379)
442 cd01017 AdcA Metal binding pro 26.7 3.1E+02 0.0068 21.5 8.7 42 70-111 208-250 (282)
443 PF00834 Ribul_P_3_epim: Ribul 26.6 1.1E+02 0.0024 23.2 3.9 85 39-136 24-108 (201)
444 cd04241 AAK_FomA-like AAK_FomA 26.6 2.3E+02 0.0049 21.8 5.8 40 66-106 20-60 (252)
445 cd08176 LPO Lactadehyde:propan 26.6 2.4E+02 0.0051 23.3 6.2 78 66-144 11-97 (377)
446 TIGR00129 fdhD_narQ formate de 26.5 1.1E+02 0.0025 23.8 4.0 48 85-139 173-220 (237)
447 COG1358 RPL8A Ribosomal protei 26.4 2.2E+02 0.0049 19.7 7.9 53 86-142 27-79 (116)
448 cd02971 PRX_family Peroxiredox 26.4 2.1E+02 0.0045 19.2 9.0 43 68-110 42-85 (140)
449 TIGR01369 CPSaseII_lrg carbamo 26.4 5.2E+02 0.011 24.8 9.0 39 74-112 32-89 (1050)
450 TIGR01502 B_methylAsp_ase meth 26.3 4E+02 0.0088 22.6 8.5 73 66-139 279-354 (408)
451 PRK08134 O-acetylhomoserine am 26.3 2.9E+02 0.0063 23.4 6.8 64 75-139 121-185 (433)
452 KOG0572|consensus 26.3 1.2E+02 0.0025 25.9 4.2 79 31-112 305-391 (474)
453 COG0313 Predicted methyltransf 26.2 3.5E+02 0.0076 21.8 6.9 67 73-141 97-164 (275)
454 PRK05994 O-acetylhomoserine am 26.0 3E+02 0.0065 23.2 6.8 66 76-142 121-187 (427)
455 TIGR01464 hemE uroporphyrinoge 26.0 3.5E+02 0.0076 21.8 7.7 66 45-114 196-264 (338)
456 PF02630 SCO1-SenC: SCO1/SenC; 25.9 2.6E+02 0.0057 20.3 7.8 64 40-111 52-121 (174)
457 PHA03398 viral phosphatase sup 25.9 3E+02 0.0066 22.5 6.4 46 66-115 152-201 (303)
458 cd01011 nicotinamidase Nicotin 25.9 2.8E+02 0.006 20.5 7.4 63 72-136 127-195 (196)
459 cd06354 PBP1_BmpA_PnrA_like Pe 25.7 3E+02 0.0065 20.9 9.9 71 64-141 14-89 (265)
460 TIGR01549 HAD-SF-IA-v1 haloaci 25.6 2.3E+02 0.0049 19.5 7.5 64 69-134 67-133 (154)
461 cd06844 STAS Sulphate Transpor 25.4 1.8E+02 0.0039 18.7 4.4 37 68-106 57-93 (100)
462 cd07382 MPP_DR1281 Deinococcus 25.4 1.2E+02 0.0025 24.0 3.9 47 64-113 14-67 (255)
463 PRK00724 formate dehydrogenase 25.4 1.9E+02 0.004 22.9 5.1 48 85-139 202-249 (263)
464 PRK06084 O-acetylhomoserine am 25.3 2.6E+02 0.0057 23.6 6.3 62 78-140 118-180 (425)
465 PRK11126 2-succinyl-6-hydroxy- 25.3 2.4E+02 0.0052 20.7 5.6 39 73-111 179-217 (242)
466 PRK13010 purU formyltetrahydro 25.3 3.6E+02 0.0078 21.7 8.1 42 98-140 135-176 (289)
467 PF09153 DUF1938: Domain of un 25.2 68 0.0015 21.1 2.1 38 104-141 23-60 (86)
468 PF01740 STAS: STAS domain; I 25.2 1.2E+02 0.0026 20.0 3.6 23 68-90 66-88 (117)
469 PF02120 Flg_hook: Flagellar h 25.2 95 0.0021 19.4 2.9 25 62-86 48-72 (85)
470 PF02579 Nitro_FeMo-Co: Dinitr 25.1 95 0.0021 19.6 2.9 32 78-110 49-80 (94)
471 PRK09456 ?-D-glucose-1-phospha 25.1 2.1E+02 0.0045 20.9 5.2 48 68-115 86-138 (199)
472 PRK07671 cystathionine beta-ly 25.0 3.3E+02 0.0071 22.5 6.7 66 74-140 105-171 (377)
473 cd02410 archeal_CPSF_KH The ar 24.9 2.7E+02 0.006 20.2 5.7 60 42-115 9-78 (145)
474 PTZ00056 glutathione peroxidas 24.9 2.1E+02 0.0046 21.4 5.2 43 68-110 58-108 (199)
475 PRK05692 hydroxymethylglutaryl 24.8 3.6E+02 0.0078 21.5 10.7 111 31-142 83-210 (287)
476 PTZ00372 endonuclease 4-like p 24.8 4.4E+02 0.0096 22.5 9.9 92 32-130 146-257 (413)
477 PRK09545 znuA high-affinity zi 24.8 2.3E+02 0.0051 22.8 5.7 39 71-109 241-280 (311)
478 PF10881 DUF2726: Protein of u 24.7 49 0.0011 22.7 1.5 35 116-150 84-118 (126)
479 cd08186 Fe-ADH8 Iron-containin 24.7 4E+02 0.0087 22.0 8.8 12 70-81 10-21 (383)
480 cd02985 TRX_CDSP32 TRX family, 24.6 2E+02 0.0044 18.6 8.1 66 32-107 5-71 (103)
481 cd01019 ZnuA Zinc binding prot 24.6 2.4E+02 0.0053 22.3 5.7 38 71-108 217-255 (286)
482 PHA02594 nadV nicotinamide pho 24.6 4.7E+02 0.01 22.8 8.8 59 72-133 282-359 (470)
483 cd08176 LPO Lactadehyde:propan 24.6 4E+02 0.0087 21.9 8.6 44 69-112 43-93 (377)
484 COG2454 Uncharacterized conser 24.5 1.4E+02 0.0031 23.0 4.0 41 95-135 118-159 (211)
485 cd06289 PBP1_MalI_like Ligand- 24.5 3E+02 0.0064 20.4 9.1 71 65-141 12-87 (268)
486 cd06311 PBP1_ABC_sugar_binding 24.4 3.1E+02 0.0067 20.6 9.3 73 65-141 12-93 (274)
487 PF03652 UPF0081: Uncharacteri 24.4 2.6E+02 0.0056 19.7 6.7 52 91-142 38-96 (135)
488 COG0299 PurN Folate-dependent 24.4 3.3E+02 0.0071 20.9 9.0 103 28-143 38-143 (200)
489 PRK07503 methionine gamma-lyas 24.3 3.2E+02 0.007 22.7 6.6 65 76-141 123-188 (403)
490 COG2265 TrmA SAM-dependent met 24.3 2.6E+02 0.0056 23.9 6.1 59 67-125 324-383 (432)
491 PF05822 UMPH-1: Pyrimidine 5' 24.2 70 0.0015 25.3 2.5 37 67-103 91-127 (246)
492 PF00248 Aldo_ket_red: Aldo/ke 24.2 3.3E+02 0.0072 20.9 8.5 92 41-142 98-190 (283)
493 cd07388 MPP_Tt1561 Thermus the 24.2 3.4E+02 0.0073 20.9 6.4 23 70-92 19-41 (224)
494 PLN02433 uroporphyrinogen deca 24.1 3.9E+02 0.0086 21.7 7.9 65 45-114 195-263 (345)
495 PRK10624 L-1,2-propanediol oxi 24.0 4.2E+02 0.009 21.9 9.0 41 71-111 47-94 (382)
496 PLN02412 probable glutathione 24.0 2.5E+02 0.0054 20.2 5.3 40 68-107 48-96 (167)
497 cd08556 GDPD Glycerophosphodie 24.0 2.5E+02 0.0055 19.9 5.4 38 73-111 151-188 (189)
498 PF04414 tRNA_deacylase: D-ami 23.9 2.6E+02 0.0056 21.5 5.5 42 94-137 171-212 (213)
499 cd08190 HOT Hydroxyacid-oxoaci 23.9 4.4E+02 0.0095 22.1 9.3 43 70-112 39-88 (414)
500 PF11111 CENP-M: Centromere pr 23.9 3.2E+02 0.0069 20.5 7.9 79 45-130 68-153 (176)
No 1
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=100.00 E-value=7.8e-41 Score=247.09 Aligned_cols=140 Identities=34% Similarity=0.600 Sum_probs=120.7
Q ss_pred EEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHH
Q psy6650 17 MVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADIL 96 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l 96 (156)
+|||||+|||++||+||++|++.+.+|+||||+||........|.+|++|++|||.+|+++|+++|++|+++.|++.++|
T Consensus 1 ~l~Wfr~DLRl~DN~aL~~A~~~~~~v~~vfv~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l 80 (165)
T PF00875_consen 1 VLVWFRRDLRLHDNPALHAAAQNGDPVLPVFVFDPEEFHPYRIGPRRRRFLLESLADLQESLRKLGIPLLVLRGDPEEVL 80 (165)
T ss_dssp EEEEESS--SSTT-HHHHHHHHTTSEEEEEEEE-HHGGTTCSSCHHHHHHHHHHHHHHHHHHHHTTS-EEEEESSHHHHH
T ss_pred CEEEEcCCCchhhhHHHHHHHHcCCCeEEEEEecccccccccCcchHHHHHHHHHHHHHHHHHhcCcceEEEecchHHHH
Confidence 59999999999999999999999999999999999733222459999999999999999999999999999999999999
Q ss_pred HHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 97 PKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 97 ~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
++|+++++|++||++++|++++++|+++|++.|++.||.++.+++++|++|+++.+++|+
T Consensus 81 ~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~L~~~~~i~~~~~~ 140 (165)
T PF00875_consen 81 PELAKEYGATAVYFNEEYTPYERRRDERVRKALKKHGIKVHTFDDHTLVPPDDIPKKDGE 140 (165)
T ss_dssp HHHHHHHTESEEEEE---SHHHHHHHHHHHHHHHHTTSEEEEE--SSSS-HHHCHSTTSS
T ss_pred HHHHHhcCcCeeEeccccCHHHHHHHHHHHHHHHhcceEEEEECCcEEEeccccccCCCC
Confidence 999999999999999999999999999999999999999999999999999999888764
No 2
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=100.00 E-value=3e-36 Score=252.01 Aligned_cols=142 Identities=32% Similarity=0.493 Sum_probs=133.4
Q ss_pred CeEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCC------CCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE
Q psy6650 15 KHMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGS------SNVGINKWRFLLQCLEDLDINLRKLNSRLFVI 88 (156)
Q Consensus 15 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~------~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 88 (156)
+++|||||+|||++||+||.+|++.+.+|+||||+||.++.. ...|++|++|+++||.+|+++|+++|++|+++
T Consensus 1 ~~~l~WfRrDLRl~DN~aL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~ 80 (429)
T TIGR02765 1 KVVLYWFRNDLRVHDNPALYKASSSSDTLIPLYCFDPRQFKLTHFFGFPKTGPARGKFLLESLKDLRTSLRKLGSDLLVR 80 (429)
T ss_pred CeEEEEeCCCCccccHHHHHHHHhcCCeEEEEEEECchHhccccccccCCCCHHHHHHHHHHHHHHHHHHHHcCCCeEEE
Confidence 367999999999999999999998878899999999987652 34789999999999999999999999999999
Q ss_pred EcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 89 RGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 89 ~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
.|++.++|++|+++++|++||++.+|++++++||++|++.|++.||.++.+++++|++|++++++.|+
T Consensus 81 ~G~~~~vl~~L~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~v~~~~~~ 148 (429)
T TIGR02765 81 SGKPEDVLPELIKELGVRTVFLHQEVGSEEKSVERLLQQALARLGIHVEQHWGSTLYHEDDLPFDLED 148 (429)
T ss_pred eCCHHHHHHHHHHHhCCCEEEEeccCCHHHHHHHHHHHHHHHhcCceEEEecCCEeECHHhcCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999987664
No 3
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=100.00 E-value=1.7e-35 Score=250.17 Aligned_cols=141 Identities=23% Similarity=0.500 Sum_probs=134.3
Q ss_pred eEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHH
Q psy6650 16 HMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADI 95 (156)
Q Consensus 16 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~ 95 (156)
.+|||||+|||++||+||.+|++.+.+|+||||+||.++.....|++|++|++|||.+|+++|+++|++|+++.|++.++
T Consensus 2 ~vl~WfRrDLRl~DN~AL~~A~~~~~~vl~vfi~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~G~~L~v~~G~p~~v 81 (471)
T TIGR03556 2 LILFWHRRDLRLSDNIGLAAARQQSAKVVGLFCLDPNILQADDMAPARVAYLIGCLQELQQRYQQAGSQLLILQGDPVQL 81 (471)
T ss_pred CEEEEeCCCCCcchHHHHHHHHhcCCCEEEEEEEchhhhccccCCHHHHHHHHHHHHHHHHHHHHCCCCeEEEECCHHHH
Confidence 47999999999999999999998778999999999988766667899999999999999999999999999999999999
Q ss_pred HHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 96 LPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 96 l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
|++|+++++|++||++.+|++++++||++|++.|++.||.++.+.+++|++|+++++++|+
T Consensus 82 l~~l~~~~~~~~V~~~~~~~~~~~~rd~~v~~~l~~~~i~~~~~~~~~l~~p~~i~~~~~~ 142 (471)
T TIGR03556 82 IPQLAQQLGAKAVYWNLDVEPYGRKRDRAVAAALKEAGIAVVTLWDQLLHSPDEILTGSGN 142 (471)
T ss_pred HHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHCCCEEEEeCCcEEECccccccCCCC
Confidence 9999999999999999999999999999999999999999999999999999999887763
No 4
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=100.00 E-value=9e-35 Score=245.94 Aligned_cols=138 Identities=27% Similarity=0.349 Sum_probs=128.5
Q ss_pred EEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE-cChHHHH
Q psy6650 18 VHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR-GQPADIL 96 (156)
Q Consensus 18 l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-g~~~~~l 96 (156)
|||||+|||++||+||.+|++.+ +|+||||+||.+++....+.++.+|+++||.+|+++|+++|++|+|+. |++.++|
T Consensus 1 l~WFRrDLRl~DN~aL~~A~~~~-~vlpvyi~dp~~~~~~~~~~~~~~fl~~sL~~L~~~L~~~G~~L~v~~~g~~~~~l 79 (475)
T TIGR02766 1 IVWFRRDLRVEDNPALAAAARAG-PVIPVFVWAPEEEGQYYPGRVSRWWLKQSLAHLDQSLRSLGTCLVTIRSTDTVAAL 79 (475)
T ss_pred CEecCCCCCcchHHHHHHHHhCC-CEEEEEEechHHhccccccHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCCHHHHH
Confidence 69999999999999999999765 899999999987755456778888999999999999999999999985 8999999
Q ss_pred HHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 97 PKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 97 ~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
++|+++++|+.||++.+|++++++||++|++.|++.||.++.+++++|++|+++.+++|+
T Consensus 80 ~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~~~gi~~~~~~~~~l~~p~~i~~~~~~ 139 (475)
T TIGR02766 80 LDCVRSTGATRLFFNHLYDPVSLVRDHRAKEVLTAQGISVQSFNADLLYEPWEVYDELGR 139 (475)
T ss_pred HHHHHHcCCCEEEEecccCHHHHHHHHHHHHHHHHcCCEEEEecCCEEEChhhhcccCCC
Confidence 999999999999999999999999999999999999999999999999999999987653
No 5
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.5e-33 Score=236.00 Aligned_cols=136 Identities=15% Similarity=0.237 Sum_probs=126.6
Q ss_pred CCeEEEEecCCCCccccHHHHHHHh--c--CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE
Q psy6650 14 EKHMVHWFRKGLRMHDNPSLREGLK--G--CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR 89 (156)
Q Consensus 14 ~~~~l~Wfr~DLRl~DN~aL~~A~~--~--~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~ 89 (156)
+..+|||||+|||++||+||.+|++ . +.+|+||||+||.++. .|.+|++|+++||.+|+++|+++|++|+|+.
T Consensus 22 ~~~vL~WFRrDLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~---~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~ 98 (454)
T TIGR00591 22 SGVVVYWMSRDQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA---ATRRHYFFMLGGLDEVANECERLIIPFHLLD 98 (454)
T ss_pred CCeEEEEecCchhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc---ccHHHHHHHHHHHHHHHHHHHHcCCceEEee
Confidence 4558999999999999999999975 2 5789999999998764 4889999999999999999999999999999
Q ss_pred cChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCC
Q psy6650 90 GQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPD 153 (156)
Q Consensus 90 g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~ 153 (156)
|++.++|++|+++++|++||++.+++++++++|++|++.|++ +|.++.+++++|++++.+.++
T Consensus 99 g~~~~~l~~l~~~~~i~~V~~~~~~~~~~~~rd~~v~~~l~~-~i~~~~~~~~~l~p~~~~~~~ 161 (454)
T TIGR00591 99 GPPKELLPYFVDLHAAAAVVTDFSPLRQPEQWDEAVGKLLPK-DVPFQQVDAHNVVPCWAASKK 161 (454)
T ss_pred cChHHHHHHHHHHcCCCEEEEecccCcHHHHHHHHHHHHhcC-CCcEEEECCceEeeCcccCCc
Confidence 999999999999999999999999999999999999999965 899999999999999888765
No 6
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=100.00 E-value=1.8e-33 Score=237.82 Aligned_cols=138 Identities=20% Similarity=0.258 Sum_probs=128.5
Q ss_pred EEEEecCCCCccccHHHHHHHhcC-CcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc----C
Q psy6650 17 MVHWFRKGLRMHDNPSLREGLKGC-TTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG----Q 91 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~~~~-~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g----~ 91 (156)
+|||||+|||++||+||.+|++.+ .+|+||||+||.++.....|.+|++|++|||.+|+++|+++|++|+|+.| +
T Consensus 4 ~l~WfRrDLRl~DN~aL~~A~~~~~~~vlpvyv~dp~~~~~~~~~~~r~~Fl~esL~~L~~~L~~~g~~L~v~~g~~~g~ 83 (472)
T PRK10674 4 HLVWFRNDLRLHDNLALAAACRDPSARVLALFIATPAQWAAHDMAPRQAAFINAQLNALQIALAEKGIPLLFHEVDDFAA 83 (472)
T ss_pred eEEEECCCCCcchHHHHHHHHhCCCCCEEEEEEECchhhccCCCCHHHHHHHHHHHHHHHHHHHHcCCceEEEecCCcCC
Confidence 599999999999999999999876 47999999999876655679999999999999999999999999999975 6
Q ss_pred hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 92 PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
+.++|++|+++++|+.||++.+|++++++||++|++.|. ||.++.+++++|++|+.+.+++|+
T Consensus 84 ~~~vl~~l~~~~~i~~v~~~~~~~~~~~~rd~~v~~~l~--~i~~~~~~~~~l~~~~~i~~~~~~ 146 (472)
T PRK10674 84 SVEWLKQFCQQHQVTHLFYNYQYEVNERQRDAAVERALR--NVVCQGFDDSVLLPPGSVMTGNHE 146 (472)
T ss_pred HHHHHHHHHHHcCCCEEEEecccCHHHHHHHHHHHHHcC--CCEEEEecCceEeCccccccCCCC
Confidence 999999999999999999999999999999999999995 899999999999999999987763
No 7
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=100.00 E-value=1e-32 Score=229.93 Aligned_cols=140 Identities=29% Similarity=0.459 Sum_probs=133.9
Q ss_pred CeEEEEecCCCCccccHHHHHHHhcCCc-ceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH
Q psy6650 15 KHMVHWFRKGLRMHDNPSLREGLKGCTT-FRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 15 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~-vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
+++|||||||||++||+||.+|++.+.+ +++|||++|.++. ..|+++.+|+.+||++|+++|+++|++|+|..|++.
T Consensus 2 ~~~l~WfrrDLR~~DN~aL~~A~~~~~~~~~~vfi~~~~~~~--~~~~~~~~Fl~~sL~~L~~~L~~~gi~L~v~~~~~~ 79 (461)
T COG0415 2 STVLVWFRRDLRLTDNAALAAACQSGQPVIIAVFILDPEQLG--HASPRHAAFLLQSLQALQQSLAELGIPLLVREGDPE 79 (461)
T ss_pred CeEEEEeccccccCChHHHHHHHhcCCCceEEEEEechhhcc--ccCHHHHHHHHHHHHHHHHHHHHcCCceEEEeCCHH
Confidence 5689999999999999999999998876 5699999999886 679999999999999999999999999999999999
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
+++++++++++++.||+|.+|++++++||.++++.|.+.||.++.|+|++|++|++++++.|+
T Consensus 80 ~~l~~~~~~~~~~~v~~n~~~~~~~~~rD~al~~~l~~~gi~~~~~~d~~l~~p~~~~t~~~~ 142 (461)
T COG0415 80 QVLPELAKQLAATTVFWNRDYEEWERQRDAALAQPLTEVGIAVHSFWDALLHEPGEVRTGSGE 142 (461)
T ss_pred HHHHHHHHHhCcceEEeeeeechhHHHHHHHHHHHHHhcCceEEEeccccccCHhhccCCCCC
Confidence 999999999999999999999999999999999999999999999999999999999999885
No 8
>KOG0133|consensus
Probab=99.94 E-value=7.2e-27 Score=196.97 Aligned_cols=143 Identities=55% Similarity=0.859 Sum_probs=135.0
Q ss_pred CCeEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH
Q psy6650 14 EKHMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 14 ~~~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
+..+++|||+|||++|||||.+|+...++++||||+||+..+....|..|++|+.|+|.+|+++|+++|++|.+++|.|.
T Consensus 4 ~~~~v~wfr~~lR~~dnpal~~a~~~~~~~~~v~i~d~~~~~~~~~g~~~~~~l~qsL~~ld~sl~~l~~~L~v~~~~p~ 83 (531)
T KOG0133|consen 4 GSKSVHWFRKGLRLHDNPALLAAAAGKEPVRPVFILDPEEAGSSNVGRNRWRFLLQSLEDLDQSLRELNSRLFVFRGHPI 83 (531)
T ss_pred ccceEEecccCcccccChhhHHHhccCCCceeEEEeCHhHhhccccchhHHHHHHHHHHHHHHHHHHhCCceEEEeCCch
Confidence 35579999999999999999888888889999999999988888889999999999999999999999999999999999
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCCCC
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSRG 156 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~~ 156 (156)
.+|..+.++.+++.|.++..+.|+.+.||..++..+.+.|+.+.+..+++++.|+.+...+++
T Consensus 84 ~vl~~~~~~~~~~~l~~~~~~~p~~~vrD~~~~~~a~~l~i~v~s~~s~~~~~~~~~i~~n~~ 146 (531)
T KOG0133|consen 84 AVLSRLLEQVGVQKLKFEYDMEPDGKVRDATIKSLATELGLSVVSPVSHTLYLPDKIIEANGG 146 (531)
T ss_pred HHHhhhhhccceeEEEEEEeccCccccccHHHHHHHHHhhhhhcccCchhhhcHHHHHHhcCC
Confidence 999999999999999999999999999999999999999999999999999999988877664
No 9
>PF04244 DPRP: Deoxyribodipyrimidine photo-lyase-related protein; InterPro: IPR007357 This family appears to be related to DNA photolyases.; PDB: 3ZXS_A.
Probab=97.47 E-value=0.0014 Score=50.79 Aligned_cols=118 Identities=17% Similarity=0.143 Sum_probs=63.8
Q ss_pred EEecCCCCccccHHHHHHHhcCCcceEEEEeCC-CCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC------
Q psy6650 19 HWFRKGLRMHDNPSLREGLKGCTTFRCVFILDP-WFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ------ 91 (156)
Q Consensus 19 ~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~-~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~------ 91 (156)
+|.=-|-=..++++|.. -..++ .|+.... ........-.+|..+++.+++...++|++.|.....+.-+
T Consensus 2 ~lIlgdQL~~~~~~l~~-~~~~~---~v~mvE~~~~~~~~~~HkqKl~l~~saMRhfa~~L~~~G~~V~Y~~~~~~~~~~ 77 (224)
T PF04244_consen 2 RLILGDQLFEDHPALRD-DPADD---RVLMVEVPEEFTYVPHHKQKLVLFFSAMRHFADELRAKGFRVHYIELDDPENTQ 77 (224)
T ss_dssp EE--TT---TT-HHHHT--TTT----EEEEE--HHHHHSS---HHHHHHHHHHHHHHHHHHHHTT--EEEE-TT-TT--S
T ss_pred eEeccCCCCCccccccc-CCCCC---EEEEEEchHHhCcCcccHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCCccccc
Confidence 34444555567777765 22222 3333332 2222223456789999999999999999999998877533
Q ss_pred -hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCe
Q psy6650 92 -PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHT 143 (156)
Q Consensus 92 -~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~ 143 (156)
-.+.|.+++++++++.|.+.+ |.+....+++.+++++.||.+..+++..
T Consensus 78 s~~~~L~~~~~~~~~~~~~~~~---P~d~~l~~~l~~~~~~~~i~~~~~~~~~ 127 (224)
T PF04244_consen 78 SFEDALARALKQHGIDRLHVME---PGDYRLEQRLESLAQQLGIPLEVLEDPH 127 (224)
T ss_dssp SHHHHHHHHHHHH----EEEE-----S-HHHHHHHHH----SSS-EEEE--TT
T ss_pred cHHHHHHHHHHHcCCCEEEEEC---CCCHHHHHHHHhhhcccCCceEEeCCCC
Confidence 357888899999999998886 4566667778888888899999887663
No 10
>COG3046 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]
Probab=96.18 E-value=0.091 Score=44.24 Aligned_cols=131 Identities=11% Similarity=0.086 Sum_probs=90.3
Q ss_pred eEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcCh---
Q psy6650 16 HMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQP--- 92 (156)
Q Consensus 16 ~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~--- 92 (156)
.+++|.=-|--.+++++|.. .. ++...+-|-+.........-.++.-+...+++.+.+.|+..|....-..-++
T Consensus 3 ~~~~lvLgdQL~~~~~al~~--d~-~~~~vllvE~~~~a~~~r~HkqKl~lv~aAMR~Fad~LraeG~~V~Y~~~~~~~~ 79 (505)
T COG3046 3 SSVVLVLGDQLSEDHSALGD--DR-SQDGVLLVESAAEARYRRHHKQKLVLVFAAMRHFADELRAEGLKVRYERADDNSF 79 (505)
T ss_pred ceEEEEeccccccccchhcc--Cc-ccCcEEEehhHhHhhhhhcchhhhHHHHHHHHHHHHHHhhCCceeEEEEcCCccc
Confidence 46888888888999998865 21 2332333332222222233456788999999999999999998766554333
Q ss_pred HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC-eeecCCCCCC
Q psy6650 93 ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH-TLYDLDQLKP 152 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~-~L~~~~~l~~ 152 (156)
...|.+.++.++.++|++.+.-......+-+.+.. +.||++..+++. .|.++.++..
T Consensus 80 ~~~l~~~l~~~~~d~~~~~~p~~~~l~~~m~~L~~---~~g~~i~~~~~~~Fl~s~a~f~~ 137 (505)
T COG3046 80 GGELRRALEAYPGDRVQVQEPGDHRLEARMKSLSM---ALGIEITEVENPHFLCSRAEFDA 137 (505)
T ss_pred chHHHHHHHhcCCCeEEEecCcchhHHHHHHhhhh---hcCceeEEecCcceecCHHHhhh
Confidence 45788899999999999998665555555444443 359999998766 7888777654
No 11
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=95.98 E-value=0.11 Score=39.28 Aligned_cols=97 Identities=20% Similarity=0.284 Sum_probs=61.6
Q ss_pred HHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE--cChH-------HHHHHHHH
Q psy6650 31 PSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR--GQPA-------DILPKLFK 101 (156)
Q Consensus 31 ~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~~~-------~~l~~l~~ 101 (156)
-+|+.|.+.+..++++++..|.... +..|-...+..+++..+.+|++++++. ++.. +.|.++.+
T Consensus 14 ~al~~a~~~G~~v~~l~~~~~~~~~-------~~~~h~~~~e~~~~~A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~ 86 (194)
T cd01994 14 YALYRALEEGHEVVALLNLTPEEGS-------SMMYHTVNHELLELQAEAMGIPLIRIEISGEEEDEVEDLKELLRKLKE 86 (194)
T ss_pred HHHHHHHHcCCEEEEEEEEecCCCC-------cccccccCHHHHHHHHHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHH
Confidence 4566777777788999988663221 111222356677778888999999886 2211 23344444
Q ss_pred HcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 102 EWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 102 ~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
+ +++.|++-.-..-+.+.|.+ +.|.+.|++...
T Consensus 87 ~-g~~~vv~G~i~sd~~~~~~e---~~~~~~gl~~~~ 119 (194)
T cd01994 87 E-GVDAVVFGAILSEYQRTRVE---RVCERLGLEPLA 119 (194)
T ss_pred c-CCCEEEECccccHHHHHHHH---HHHHHcCCEEEe
Confidence 4 68999888777777666655 455656776543
No 12
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=95.91 E-value=0.1 Score=40.47 Aligned_cols=98 Identities=18% Similarity=0.193 Sum_probs=66.0
Q ss_pred cHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE--cC---hHHHHHHHHHHcC
Q psy6650 30 NPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR--GQ---PADILPKLFKEWK 104 (156)
Q Consensus 30 N~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~---~~~~l~~l~~~~~ 104 (156)
.-|++.|.++ ..+.+++..-+... .+..|-...+..++.+.+.+|+||+... |. -.+.+.+..++.+
T Consensus 14 ~lAl~~~~~~-~~V~~L~~~~~~~~-------~s~~~h~~~~~~~~~qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~g 85 (222)
T TIGR00289 14 ILALYKALEE-HEVISLVGVFSENE-------ESYMFHSPNLHLTDLVAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELD 85 (222)
T ss_pred HHHHHHHHHc-CeeEEEEEEcCCCC-------CccccccCCHHHHHHHHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcC
Confidence 3577888776 57778888766421 1233433466777888889999998775 32 2334444456679
Q ss_pred cCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 105 TTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 105 ~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
++.|++-.-...+.+.|.+ +.|.+.|++...
T Consensus 86 v~~vv~GdI~s~~qr~~~e---~vc~~~gl~~~~ 116 (222)
T TIGR00289 86 VEALCIGAIESNYQKSRID---KVCRELGLKSIA 116 (222)
T ss_pred CCEEEECccccHHHHHHHH---HHHHHcCCEEec
Confidence 9999999888777766665 556666887654
No 13
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=95.16 E-value=0.39 Score=39.86 Aligned_cols=106 Identities=12% Similarity=0.065 Sum_probs=66.4
Q ss_pred HHHHHHHh---c---CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHh------CCCeEEEE--E-------
Q psy6650 31 PSLREGLK---G---CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRK------LNSRLFVI--R------- 89 (156)
Q Consensus 31 ~aL~~A~~---~---~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~------~g~~L~v~--~------- 89 (156)
.|+.+|++ . +..+..+||.++..... ....-..--.+-+....+.+++ .|+..... .
T Consensus 20 ~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~--~~~~~~~~~eelle~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~ 97 (357)
T PRK12652 20 QTVAYAVESAEEAAETPTVHLVAAASGRAVDP--EGQDELAAAEELLERVEVWATEDLGDDASSVTIETALLGTDEYLFG 97 (357)
T ss_pred HHHHHHHHHHHhcCCCCEEEEEEEecCccccc--chhHHHHHHHHHHHHHHHHHHHhhhcccCCCceEEEEEeccccccC
Confidence 45666653 1 25788999998643211 1100001112334455554443 47764443 3
Q ss_pred -cChHHHHHHHHHHcCcCeEEEcccCCchhH-HHHHHHHHHHHhCCceEEE
Q psy6650 90 -GQPADILPKLFKEWKTTCLTFEEDPEPFGK-VRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 90 -g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~ 138 (156)
|+|.+.|.+.+++.+++.|++..+|.|-.- ...+-+...|.+.|+.+..
T Consensus 98 ~G~pae~Iv~~Aee~~aDLIVm~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 148 (357)
T PRK12652 98 PGDYAEVLIAYAEEHGIDRVVLDPEYNPGGTAPMLQPLERELARAGITYEE 148 (357)
T ss_pred CCCHHHHHHHHHHHcCCCEEEECCCCCCCCCCcccchHHHHHHhcCCceec
Confidence 899999999999999999999999988643 3335556667777887765
No 14
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=95.07 E-value=0.39 Score=37.30 Aligned_cols=98 Identities=17% Similarity=0.229 Sum_probs=63.1
Q ss_pred cHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE--cC---hHHHHHHHHHHcC
Q psy6650 30 NPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR--GQ---PADILPKLFKEWK 104 (156)
Q Consensus 30 N~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g~---~~~~l~~l~~~~~ 104 (156)
+-||+.|.++ ..+.++...-|... .+..|-.-.+.-++.+-+.+|+||+... |. -.+.|.+..++.+
T Consensus 14 ~~al~~a~~~-~~v~~L~t~~~~~~-------~s~~~H~~~~~~~~~qA~algipl~~~~~~~~~e~~~e~l~~~l~~~g 85 (223)
T TIGR00290 14 CLALYHALKE-HEVISLVNIMPENE-------ESYMFHGVNAHLTDLQAESIGIPLIKLYTEGTEEDEVEELKGILHTLD 85 (223)
T ss_pred HHHHHHHHHh-CeeEEEEEEecCCC-------CcccccccCHHHHHHHHHHcCCCeEEeecCCCccHHHHHHHHHHHHcC
Confidence 4688888887 67777776655321 1222222244555666678899998754 22 3445666666779
Q ss_pred cCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 105 TTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 105 ~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
++.|++-.-...+.+.|.+ +.|++.|++...
T Consensus 86 v~~vv~GdI~s~~qr~~~e---~v~~~lgl~~~~ 116 (223)
T TIGR00290 86 VEAVVFGAIYSEYQKTRIE---RVCRELGLKSFA 116 (223)
T ss_pred CCEEEECCcccHHHHHHHH---HHHHhcCCEEec
Confidence 9999999888777666665 455556776543
No 15
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=94.52 E-value=0.72 Score=30.65 Aligned_cols=75 Identities=15% Similarity=0.154 Sum_probs=49.3
Q ss_pred cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeE--EEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 39 GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRL--FVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 39 ~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L--~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
.+.++..+|+.++..............-..+.|..+...+...|+++ .+..|++.+.|.+.+++.+++.|+....
T Consensus 26 ~~~~i~~l~v~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dlvvig~~ 102 (130)
T cd00293 26 LGAELVLLHVVDPPPSSAAELAELLEEEARALLEALREALAEAGVKVETVVLEGDPAEAILEAAEELGADLIVMGSR 102 (130)
T ss_pred cCCEEEEEEEecCCCCcchhHHHHHHHHHHHHHHHHHHHHhcCCCceEEEEecCCCHHHHHHHHHHcCCCEEEEcCC
Confidence 45789999998763221000011122334566667776666677776 4457888899999999999999988654
No 16
>PRK09982 universal stress protein UspD; Provisional
Probab=94.44 E-value=1.2 Score=31.42 Aligned_cols=84 Identities=13% Similarity=0.061 Sum_probs=52.1
Q ss_pred cHHHHHHHh----cCCcceEEEEeCCCCcCCCC-C-Cc--ch----HHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHH
Q psy6650 30 NPSLREGLK----GCTTFRCVFILDPWFAGSSN-V-GI--NK----WRFLLQCLEDLDINLRKLNSRLFVIRGQPADILP 97 (156)
Q Consensus 30 N~aL~~A~~----~~~~vi~vfi~d~~~~~~~~-~-~~--~r----~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~ 97 (156)
..||..|++ .+..+..+|+.++....... . .. .. .....+.|.++.+++...++...+..|+|.+.|.
T Consensus 17 ~~al~~A~~lA~~~~a~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~v~~G~p~~~I~ 96 (142)
T PRK09982 17 ALLVNKALELARHNDAHLTLIHIDDGLSELYPGIYFPATEDILQLLKNKSDNKLYKLTKNIQWPKTKLRIERGEMPETLL 96 (142)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEEccCcchhchhhhccchHHHHHHHHHHHHHHHHHHHHhcCCCcceEEEEecCHHHHHH
Confidence 456666653 34678889998763210000 0 00 11 1122223444454444445677888999999999
Q ss_pred HHHHHcCcCeEEEccc
Q psy6650 98 KLFKEWKTTCLTFEED 113 (156)
Q Consensus 98 ~l~~~~~~~~V~~~~~ 113 (156)
+.+++.+++-|++-..
T Consensus 97 ~~A~~~~aDLIVmG~~ 112 (142)
T PRK09982 97 EIMQKEQCDLLVCGHH 112 (142)
T ss_pred HHHHHcCCCEEEEeCC
Confidence 9999999999999865
No 17
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=94.36 E-value=0.85 Score=31.87 Aligned_cols=85 Identities=14% Similarity=0.048 Sum_probs=50.9
Q ss_pred cHHHHHHHh----cCCcceEEEEeCCCCcCCCCCCc--ch-------HHHHHHHHHHHHHHHHhCCCe--EEEEEc-ChH
Q psy6650 30 NPSLREGLK----GCTTFRCVFILDPWFAGSSNVGI--NK-------WRFLLQCLEDLDINLRKLNSR--LFVIRG-QPA 93 (156)
Q Consensus 30 N~aL~~A~~----~~~~vi~vfi~d~~~~~~~~~~~--~r-------~~Fl~~sL~~L~~~L~~~g~~--L~v~~g-~~~ 93 (156)
..||..|++ .+.++..+|+.++........+. .. ..-..+.|....+.+++.|.. ..+..| ++.
T Consensus 13 ~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~g~~~~ 92 (146)
T cd01989 13 KNALKWALDNLATKGQTIVLVHVHPPITSIPSSSGKLEVASAYKQEEDKEAKELLLPYRCFCSRKGVQCEDVVLEDDDVA 92 (146)
T ss_pred HHHHHHHHHhccCCCCcEEEEEeccCcccCCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCeEEEEEEeCCcHH
Confidence 356666664 25689899998863221110110 00 112233444455555556654 445565 899
Q ss_pred HHHHHHHHHcCcCeEEEcccC
Q psy6650 94 DILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~ 114 (156)
+.|.+.+++.+++.|++-..-
T Consensus 93 ~~I~~~a~~~~~dlIV~Gs~g 113 (146)
T cd01989 93 KAIVEYVADHGITKLVMGASS 113 (146)
T ss_pred HHHHHHHHHcCCCEEEEeccC
Confidence 999999999999999887653
No 18
>COG2102 Predicted ATPases of PP-loop superfamily [General function prediction only]
Probab=94.33 E-value=0.63 Score=36.09 Aligned_cols=99 Identities=17% Similarity=0.242 Sum_probs=68.0
Q ss_pred cHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE--c---ChHHHHHHHHHHcC
Q psy6650 30 NPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR--G---QPADILPKLFKEWK 104 (156)
Q Consensus 30 N~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~--g---~~~~~l~~l~~~~~ 104 (156)
+-|++.|.+.|..|.++.++-|.... ++.|-.-.+.-...+-+..|++++... | .-.+.|..+....+
T Consensus 14 ~~Al~~a~~~G~eV~~Ll~~~p~~~d-------S~m~H~~n~~~~~~~Ae~~gi~l~~~~~~g~~e~eve~L~~~l~~l~ 86 (223)
T COG2102 14 FYALYLALEEGHEVVYLLTVKPENGD-------SYMFHTPNLELAELQAEAMGIPLVTFDTSGEEEREVEELKEALRRLK 86 (223)
T ss_pred HHHHHHHHHcCCeeEEEEEEecCCCC-------eeeeeccchHHHHHHHHhcCCceEEEecCccchhhHHHHHHHHHhCc
Confidence 67899999988889999998774321 122222334444444456799988765 3 23456777788889
Q ss_pred cCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 105 TTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 105 ~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
++.|++-.-+..+.+.|.++| |.+.|+++..
T Consensus 87 ~d~iv~GaI~s~yqk~rve~l---c~~lGl~~~~ 117 (223)
T COG2102 87 VDGIVAGAIASEYQKERVERL---CEELGLKVYA 117 (223)
T ss_pred ccEEEEchhhhHHHHHHHHHH---HHHhCCEEee
Confidence 999999988888887776655 5556887654
No 19
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=93.88 E-value=1.2 Score=30.10 Aligned_cols=84 Identities=10% Similarity=-0.084 Sum_probs=54.4
Q ss_pred HHHHHHHh----cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE---EcChHHHHHHHHHHc
Q psy6650 31 PSLREGLK----GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI---RGQPADILPKLFKEW 103 (156)
Q Consensus 31 ~aL~~A~~----~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~---~g~~~~~l~~l~~~~ 103 (156)
.+|..|.. .+.++..++++++..............-..+.+..+.+.+++.|++.... .|++.+.|.+++++.
T Consensus 14 ~~l~~a~~la~~~~~~v~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~I~~~a~~~ 93 (132)
T cd01988 14 DLLELAAALARAQNGEIIPLNVIEVPNHSSPSQLEVNVQRARKLLRQAERIAASLGVPVHTIIRIDHDIASGILRTAKER 93 (132)
T ss_pred HHHHHHHHHhhcCCCeEEEEEEEecCCCCCcchhHHHHHHHHHHHHHHHHHhhhcCCceEEEEEecCCHHHHHHHHHHhc
Confidence 45555543 34678899998863211000011122345567777777788888875533 478989999999999
Q ss_pred CcCeEEEcccC
Q psy6650 104 KTTCLTFEEDP 114 (156)
Q Consensus 104 ~~~~V~~~~~~ 114 (156)
+++-|++-..-
T Consensus 94 ~~dlIV~G~~~ 104 (132)
T cd01988 94 QADLIIMGWHG 104 (132)
T ss_pred CCCEEEEecCC
Confidence 99999887653
No 20
>PRK15005 universal stress protein F; Provisional
Probab=93.73 E-value=0.93 Score=31.55 Aligned_cols=83 Identities=11% Similarity=0.086 Sum_probs=49.5
Q ss_pred HHHHHHHh----cCCcceEEEEeCCC-CcCCCCC-----CcchHHH---HHHHHHHHHHHHHhCC--CeEEEEEcChHHH
Q psy6650 31 PSLREGLK----GCTTFRCVFILDPW-FAGSSNV-----GINKWRF---LLQCLEDLDINLRKLN--SRLFVIRGQPADI 95 (156)
Q Consensus 31 ~aL~~A~~----~~~~vi~vfi~d~~-~~~~~~~-----~~~r~~F---l~~sL~~L~~~L~~~g--~~L~v~~g~~~~~ 95 (156)
.++..|.+ .+.++..++++++. ....... ....... ..+.|.++.+.+...| +..++..|+|.+.
T Consensus 19 ~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~G~p~~~ 98 (144)
T PRK15005 19 RVISHVEAEAKIDDAEVHFLTVIPSLPYYASLGLAYSAELPAMDDLKAEAKSQLEEIIKKFKLPTDRVHVHVEEGSPKDR 98 (144)
T ss_pred HHHHHHHHHHhccCCeEEEEEEEccCcccccccccccccchHHHHHHHHHHHHHHHHHHHhCCCCCceEEEEeCCCHHHH
Confidence 45555543 35678889998762 1110000 0011111 2234444444444444 3577888999999
Q ss_pred HHHHHHHcCcCeEEEccc
Q psy6650 96 LPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 96 l~~l~~~~~~~~V~~~~~ 113 (156)
|.+.+++.+++-|++...
T Consensus 99 I~~~a~~~~~DLIV~Gs~ 116 (144)
T PRK15005 99 ILELAKKIPADMIIIASH 116 (144)
T ss_pred HHHHHHHcCCCEEEEeCC
Confidence 999999999999988755
No 21
>TIGR03679 arCOG00187 arCOG00187 universal archaeal metal-binding-domain/4Fe-4S-binding-domain containing ABC transporter, ATP-binding protein. This model has the same scope as an archaeal COG (arCOG00187) and is found in all completely sequenced archaea and does not recognize any known non-archaeal genes.
Probab=93.54 E-value=1.4 Score=33.93 Aligned_cols=97 Identities=21% Similarity=0.258 Sum_probs=56.8
Q ss_pred HHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC-----hH----HHHHHHHH
Q psy6650 31 PSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ-----PA----DILPKLFK 101 (156)
Q Consensus 31 ~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~-----~~----~~l~~l~~ 101 (156)
.+++.|.+.+..+.+++.+.+.... .+. |-...+..+++..+.+|+++.++.-+ .. ..+.++.+
T Consensus 12 ~al~~a~~~G~~v~~l~~~~~~~~~--~~~-----~~~~~~~~~~~~A~~lgip~~~i~~~~~~~~~~~~l~~~l~~~~~ 84 (218)
T TIGR03679 12 YALYKALEEGHEVRCLITVVPENEE--SYM-----FHTPNIELTRLQAEALGIPLVKIETSGEKEKEVEDLKGALKELKR 84 (218)
T ss_pred HHHHHHHHcCCEEEEEEEeccCCCC--ccc-----cCCCCHHHHHHHHHHhCCCEEEEECCCCChHHHHHHHHHHHHHHH
Confidence 4566676777777667666553210 111 11124556677778889999888643 11 23344444
Q ss_pred HcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 102 EWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 102 ~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
+ +++.|++-.-...+.+.+.+ +.|.+.|+++..
T Consensus 85 ~-g~~~vv~G~i~sd~~~~~~e---~v~~~~gl~~~~ 117 (218)
T TIGR03679 85 E-GVEGIVTGAIASRYQKSRIE---RICEELGLKVFA 117 (218)
T ss_pred c-CCCEEEECCcccHhHHHHHH---HHHHhCCCeEEe
Confidence 4 89999987766655444444 556666776654
No 22
>PRK10116 universal stress protein UspC; Provisional
Probab=92.71 E-value=2.4 Score=29.43 Aligned_cols=111 Identities=6% Similarity=-0.030 Sum_probs=60.3
Q ss_pred cccHHHHHHHh----cCCcceEEEEeCCCCcCCCCCC----cchHHHHHHHHHHHHHHHHhCCCe---EEEEEcChHHHH
Q psy6650 28 HDNPSLREGLK----GCTTFRCVFILDPWFAGSSNVG----INKWRFLLQCLEDLDINLRKLNSR---LFVIRGQPADIL 96 (156)
Q Consensus 28 ~DN~aL~~A~~----~~~~vi~vfi~d~~~~~~~~~~----~~r~~Fl~~sL~~L~~~L~~~g~~---L~v~~g~~~~~l 96 (156)
+...+|..|+. .+.++..++++++......... ..+.....+....|++...+.|++ .++..|++.+.+
T Consensus 15 ~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~G~~~~~I 94 (142)
T PRK10116 15 ESQQLLAKAVSIARPVNGKISLITLASDPEMYNQFAAPMLEDLRSVMQEETQSFLDKLIQDADYPIEKTFIAYGELSEHI 94 (142)
T ss_pred chHHHHHHHHHHHHHhCCEEEEEEEccCcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCCHHHHH
Confidence 34678887764 2457888888765211000000 111111112223344334455653 456689999999
Q ss_pred HHHHHHcCcCeEEEcccCCchhHHHHHHHH-HHHHhCCceEEEe
Q psy6650 97 PKLFKEWKTTCLTFEEDPEPFGKVRDQNIM-TLCRELNIEVIAR 139 (156)
Q Consensus 97 ~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~-~~l~~~~i~~~~~ 139 (156)
.+.+++.+++-|+...... ....+.-.+. +.+...++.+-.+
T Consensus 95 ~~~a~~~~~DLiV~g~~~~-~~~~~~~s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 95 LEVCRKHHFDLVICGNHNH-SFFSRASCSAKRVIASSEVDVLLV 137 (142)
T ss_pred HHHHHHhCCCEEEEcCCcc-hHHHHHHHHHHHHHhcCCCCEEEE
Confidence 9999999999999866532 2222222332 3344446666544
No 23
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=92.70 E-value=0.37 Score=37.24 Aligned_cols=96 Identities=18% Similarity=0.325 Sum_probs=51.5
Q ss_pred cHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHH--HHHHHHHHHhCCCeEEEEE--c---ChHHHHHHHHHH
Q psy6650 30 NPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQC--LEDLDINLRKLNSRLFVIR--G---QPADILPKLFKE 102 (156)
Q Consensus 30 N~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~s--L~~L~~~L~~~g~~L~v~~--g---~~~~~l~~l~~~ 102 (156)
.-||+.|.++ .+|.++..+-|.... + +++++ +.-++.+-+.+|+||+... | +-.+.+.+.+++
T Consensus 14 ~lAl~~a~~~-~~v~~L~t~~~~~~~-------s--~~~H~~~~~~~~~qA~algipl~~~~~~g~~~~~~~~l~~~l~~ 83 (218)
T PF01902_consen 14 CLALYRALRQ-HEVVCLLTMVPEEED-------S--YMFHGVNIELIEAQAEALGIPLIEIPTSGDEEDYVEDLKEALKE 83 (218)
T ss_dssp HHHHHHHHHT--EEEEEEEEEESTTT----------SSS-STTGTCHHHHHHHHT--EEEEEE---CCCHHHHHHHHHCT
T ss_pred HHHHHHHHHh-CCccEEEEeccCCCC-------c--ccccccCHHHHHHHHHHCCCCEEEEEccCccchhhHHHHHHHHH
Confidence 3578888887 777777766553211 1 11121 2334444566799998764 2 223466677778
Q ss_pred cCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 103 WKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 103 ~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.+++.|++-.-...+-+.|.+ +.|.+.|++...
T Consensus 84 ~~v~~vv~GdI~~~~~r~~~e---~vc~~lGl~~~~ 116 (218)
T PF01902_consen 84 LKVEAVVFGDIDSEYQRNWVE---RVCERLGLEAVF 116 (218)
T ss_dssp C--SEEE--TTS-HHHHHHHH---HHHHHCT-EEE-
T ss_pred cCCCEEEECcCCcHHHHHHHH---HHHHHcCCEEEe
Confidence 899999998876666555544 566667886643
No 24
>PRK15456 universal stress protein UspG; Provisional
Probab=92.56 E-value=1.3 Score=30.94 Aligned_cols=84 Identities=11% Similarity=-0.016 Sum_probs=49.7
Q ss_pred HHHHHHHh---cCCcceEEEEeCCCCcC-CCC--CC--c---chHHHHHHHHHHHHHHHHhCCC--eEEEEEcChHHHHH
Q psy6650 31 PSLREGLK---GCTTFRCVFILDPWFAG-SSN--VG--I---NKWRFLLQCLEDLDINLRKLNS--RLFVIRGQPADILP 97 (156)
Q Consensus 31 ~aL~~A~~---~~~~vi~vfi~d~~~~~-~~~--~~--~---~r~~Fl~~sL~~L~~~L~~~g~--~L~v~~g~~~~~l~ 97 (156)
.+|.+|.+ ....+..++++++.... ... .. . ....-..+.|.++.+.+...|. ..++..|+|.+.|.
T Consensus 19 ~al~~A~~la~~~~~l~llhv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~v~~~v~~G~~~~~I~ 98 (142)
T PRK15456 19 KAVRHAEFLAQDDGVIHLLHVLPGSASLSLHRFAADVRRFEEHLQHEAEERLQTMVSHFTIDPSRIKQHVRFGSVRDEVN 98 (142)
T ss_pred HHHHHHHHHHhcCCeEEEEEEecCcccccccccccchhhHHHHHHHHHHHHHHHHHHHhCCCCcceEEEEcCCChHHHHH
Confidence 45555553 23468888998763211 000 00 0 0011222345555555543343 56677899999999
Q ss_pred HHHHHcCcCeEEEcccC
Q psy6650 98 KLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 98 ~l~~~~~~~~V~~~~~~ 114 (156)
+++++.+++-|++-..-
T Consensus 99 ~~a~~~~~DLIVmG~~g 115 (142)
T PRK15456 99 ELAEELGADVVVIGSRN 115 (142)
T ss_pred HHHhhcCCCEEEEcCCC
Confidence 99999999999987653
No 25
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II. This model specifies the type II enzyme. The type I enzyme, often found as part of a multifunctional protein, is described by TIGR01093.
Probab=91.93 E-value=1.4 Score=31.84 Aligned_cols=73 Identities=10% Similarity=0.075 Sum_probs=53.3
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEccc-CCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEED-PEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
.+++|+.+.+++.+.+..|.+.+.+. +++.|+.|.. |+.... .++++++..+++++.++-..++..++++..+
T Consensus 37 a~~~g~~v~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~vEVHiSNi~aRE~fR~~S 112 (141)
T TIGR01088 37 AAQLNVELEFFQSNSEGQLIDKIHEAEGQYDGIIINPGALTHTSV----ALRDALAAVSLPVVEVHLSNVHAREEFRHHS 112 (141)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHhccccCCEEEEcChHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccccccccc
Confidence 34569999999988887777776653 4677888853 343433 4556677779999999999999988887653
No 26
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=91.40 E-value=3.1 Score=28.05 Aligned_cols=78 Identities=10% Similarity=0.151 Sum_probs=50.8
Q ss_pred cHHHHHHHh----cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE-EcChHHHHHHHHHHcC
Q psy6650 30 NPSLREGLK----GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI-RGQPADILPKLFKEWK 104 (156)
Q Consensus 30 N~aL~~A~~----~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~-~g~~~~~l~~l~~~~~ 104 (156)
..++..|+. .+.++..+++.++.... .. ... .+.|..+.+.+++.|++..++ .|++.+.|.+.+++++
T Consensus 13 ~~al~~a~~la~~~~~~l~ll~v~~~~~~~---~~-~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~~~~I~~~~~~~~ 85 (124)
T cd01987 13 ERLIRRAARLADRLKAPWYVVYVETPRLNR---LS-EAE---RRRLAEALRLAEELGAEVVTLPGDDVAEAIVEFAREHN 85 (124)
T ss_pred HHHHHHHHHHHHHhCCCEEEEEEecCcccc---CC-HHH---HHHHHHHHHHHHHcCCEEEEEeCCcHHHHHHHHHHHcC
Confidence 345555543 35679899998864321 11 111 234555556666778776555 4678899999999999
Q ss_pred cCeEEEcccC
Q psy6650 105 TTCLTFEEDP 114 (156)
Q Consensus 105 ~~~V~~~~~~ 114 (156)
++.|++-..-
T Consensus 86 ~dllviG~~~ 95 (124)
T cd01987 86 VTQIVVGKSR 95 (124)
T ss_pred CCEEEeCCCC
Confidence 9999887653
No 27
>TIGR01490 HAD-SF-IB-hyp1 HAD-superfamily subfamily IB hydrolase, TIGR01490. A subset of these sequences, including the Caulobacter crescentus CicA protein, cluster together and may represent a separate equivalog.
Probab=89.73 E-value=4 Score=30.14 Aligned_cols=45 Identities=9% Similarity=-0.048 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
+.....++-+.+++.|..+.|+.+.+...+..+++..+++.++.+
T Consensus 88 ~~~~~~~~l~~l~~~g~~v~ivS~s~~~~v~~~~~~lg~~~~~~~ 132 (202)
T TIGR01490 88 LYPEARDLIRWHKAEGHTIVLVSASLTILVKPLARILGIDNAIGT 132 (202)
T ss_pred ccHHHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHcCCcceEec
Confidence 344666666778889999999999999999999999999887755
No 28
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=88.42 E-value=4.2 Score=26.94 Aligned_cols=70 Identities=16% Similarity=0.143 Sum_probs=46.5
Q ss_pred HHHHHHHHHhCCCeEEEE---EcChHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 71 LEDLDINLRKLNSRLFVI---RGQPAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~---~g~~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
...+++.+++.|..+... .|.... .|++.+.+ ++.|++-.++-... .-..+++.+++.|+++....+..+
T Consensus 12 ~~~~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~~--aD~VIv~t~~vsH~--~~~~vk~~akk~~ip~~~~~~~~~ 86 (97)
T PF10087_consen 12 ERRYKRILEKYGGKLIHHGRDGGDEKKASRLPSKIKK--ADLVIVFTDYVSHN--AMWKVKKAAKKYGIPIIYSRSRGV 86 (97)
T ss_pred HHHHHHHHHHcCCEEEEEecCCCCccchhHHHHhcCC--CCEEEEEeCCcChH--HHHHHHHHHHHcCCcEEEECCCCH
Confidence 456778888999999988 333333 37777765 67776555543332 224566888888999988775543
No 29
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=87.80 E-value=3.4 Score=27.50 Aligned_cols=32 Identities=13% Similarity=0.206 Sum_probs=27.2
Q ss_pred CeEEEEEcChHHHHHHHHHHcCcCeEEEcccC
Q psy6650 83 SRLFVIRGQPADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 83 ~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
....+..|++.+.+.+++++.+++.|++...-
T Consensus 81 ~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~ 112 (140)
T PF00582_consen 81 IEVVIESGDVADAIIEFAEEHNADLIVMGSRG 112 (140)
T ss_dssp EEEEEEESSHHHHHHHHHHHTTCSEEEEESSS
T ss_pred eEEEEEeeccchhhhhccccccceeEEEeccC
Confidence 34566789999999999999999999988765
No 30
>PF00702 Hydrolase: haloacid dehalogenase-like hydrolase; InterPro: IPR005834 This group of hydrolase enzymes is structurally different from the alpha/beta hydrolase family (abhydrolase). This group includes L-2-haloacid dehalogenase, epoxide hydrolases and phosphatases. The structure consists of two domains. One is an inserted four helix bundle, which is the least well conserved region of the alignment, between residues 16 and 96 of HAD1_PSESP. The rest of the fold is composed of the core alpha/beta domain.; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1TE2_A 3NAL_A 3NAM_A 3NAN_A 3A1D_B 3J09_A 3J08_A 2B8E_C 3A1E_A 2VOY_J ....
Probab=87.66 E-value=2.5 Score=31.11 Aligned_cols=74 Identities=12% Similarity=0.017 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe--EEEcccCCchhHHHHHHHHHHHH-hCCceEEEecCC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC--LTFEEDPEPFGKVRDQNIMTLCR-ELNIEVIARVSH 142 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~~~~~~~~~~d~~v~~~l~-~~~i~~~~~~~~ 142 (156)
+...+.++=++|++.|+.+.++.|+.......++++.++.. |+......|..+ .-.++.+.++ +.+ .+..+.|.
T Consensus 128 ~~~~~~~~l~~L~~~Gi~~~i~TGD~~~~a~~~~~~lgi~~~~v~a~~~~kP~~k-~~~~~i~~l~~~~~-~v~~vGDg 204 (215)
T PF00702_consen 128 LRPGAKEALQELKEAGIKVAILTGDNESTASAIAKQLGIFDSIVFARVIGKPEPK-IFLRIIKELQVKPG-EVAMVGDG 204 (215)
T ss_dssp BHTTHHHHHHHHHHTTEEEEEEESSEHHHHHHHHHHTTSCSEEEEESHETTTHHH-HHHHHHHHHTCTGG-GEEEEESS
T ss_pred chhhhhhhhhhhhccCcceeeeeccccccccccccccccccccccccccccccch-hHHHHHHHHhcCCC-EEEEEccC
Confidence 34556677777888899999999999999999999999965 444331134443 2233444454 233 55555443
No 31
>PRK13015 3-dehydroquinate dehydratase; Reviewed
Probab=87.45 E-value=9.1 Score=27.81 Aligned_cols=73 Identities=11% Similarity=0.039 Sum_probs=52.9
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEccc-CCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEED-PEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
.+++|+.+.+++.+.+..|.+.+.+. +++.|+.|.. |+.+.. .++++++..+++++.++-..++..++.+..+
T Consensus 39 a~~~g~~~~~~QSN~EGelId~i~~a~~~~dgiIINpga~THtSi----Al~DAl~~~~~P~VEVHiSNi~aRE~fR~~S 114 (146)
T PRK13015 39 AEALGLEVEFRQSNHEGELIDWIHEARGDVAGIVINPGAYTHTSV----AIRDALAALELPVIEVHISNVHAREAFRHHS 114 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhhcCCEEEEcchHHhhhHH----HHHHHHHcCCCCEEEEEcCCccccccccccc
Confidence 34568999999988777666666553 4678888853 334443 4556666679999999999999988887653
No 32
>PRK05395 3-dehydroquinate dehydratase; Provisional
Probab=87.04 E-value=9.6 Score=27.68 Aligned_cols=73 Identities=11% Similarity=0.058 Sum_probs=53.8
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEccc-CCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEED-PEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
.+++|+.+.+++.+.+..|.+.+.+. +++.|+.|.. |+.+. -.++++++..+++++.++-..++..++.+..+
T Consensus 39 a~~~g~~v~~~QSN~EGelId~I~~a~~~~dgiiINpga~THtS----iAl~DAl~~~~~P~VEVHiSNi~aRE~fR~~S 114 (146)
T PRK05395 39 AAELGVELEFFQSNHEGELIDRIHEARDGADGIIINPGAYTHTS----VALRDALAAVSIPVIEVHLSNIHAREEFRHHS 114 (146)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHhcccCCcEEEECchHHHHHH----HHHHHHHHcCCCCEEEEecCCccccccccccc
Confidence 34569999999988877776666653 5788888853 33343 34566677779999999999999988887653
No 33
>cd00466 DHQase_II Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway and the catabolic quinate pathway. There are two types of DHQases, which are distinct from each other in amino acid sequence and three-dimensional structure. Type I enzymes usually catalyze the biosynthetic reaction using a syn elimination mechanism. In contrast, type II enzymes, found in the quinate pathway of fungi and in the shikimate pathway of many bacteria, are dodecameric enzymes that employ an anti elimination reaction mechanism.
Probab=86.95 E-value=9.5 Score=27.51 Aligned_cols=73 Identities=10% Similarity=0.054 Sum_probs=53.2
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEccc-CCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEED-PEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
.+++|+.+.+++.+.+..|.+.+.+. +++.|+.|.. |+... -.++++++..+++++.++-...+..++++..+
T Consensus 37 a~~~g~~v~~~QSN~Egelid~I~~a~~~~dgiIINpga~THtS----vAi~DAl~~~~~P~VEVHiSNi~aRE~fR~~S 112 (140)
T cd00466 37 AAELGVEVEFFQSNHEGELIDWIHEARDGADGIIINPGAYTHTS----IALRDALAAVSIPVIEVHISNIHAREEFRHHS 112 (140)
T ss_pred HHHcCCEEEEEeeCcHHHHHHHHHHhhccCcEEEEcchHHHHHH----HHHHHHHHcCCCCEEEEecCCccccccccccc
Confidence 34569999999988777666666653 4778888853 33333 34566677678999999999999988887653
No 34
>PRK10490 sensor protein KdpD; Provisional
Probab=86.93 E-value=12 Score=34.80 Aligned_cols=112 Identities=10% Similarity=0.141 Sum_probs=66.0
Q ss_pred EEEEecCCCCccccHHHHHHH-----hcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc-
Q psy6650 17 MVHWFRKGLRMHDNPSLREGL-----KGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG- 90 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~-----~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g- 90 (156)
.|+=...+ ..+..|.... +.+.++++|||-++..- ..+.....-+.+.+. |. +++|...+++.|
T Consensus 253 iLV~v~~~---~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~---~~~~~~~~~l~~~~~-lA---~~lGa~~~~~~~~ 322 (895)
T PRK10490 253 ILLCIGHN---TGSEKLVRTAARLAARLGSVWHAVYVETPRLH---RLPEKKRRAILSALR-LA---QELGAETATLSDP 322 (895)
T ss_pred EEEEECCC---cchHHHHHHHHHHHHhcCCCEEEEEEecCCcC---cCCHHHHHHHHHHHH-HH---HHcCCEEEEEeCC
Confidence 45544443 3455554332 23468999999876321 112222223444442 33 456999888876
Q ss_pred ChHHHHHHHHHHcCcCeEEEcccCCchhH---HHHHHHHHHHHhCCceEEEec
Q psy6650 91 QPADILPKLFKEWKTTCLTFEEDPEPFGK---VRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 91 ~~~~~l~~l~~~~~~~~V~~~~~~~~~~~---~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+..+.|.+++++.+++.|++-+....... ...+++.+.. .++.++.+.
T Consensus 323 dva~~i~~~A~~~~vt~IViG~s~~~~~~~~~s~~~~l~r~~--~~idi~iv~ 373 (895)
T PRK10490 323 AEEKAVLRYAREHNLGKIIIGRRASRRWWRRESFADRLARLG--PDLDLVIVA 373 (895)
T ss_pred CHHHHHHHHHHHhCCCEEEECCCCCCCCccCCCHHHHHHHhC--CCCCEEEEe
Confidence 67889999999999999999887543221 1223333333 367777774
No 35
>PF01220 DHquinase_II: Dehydroquinase class II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales [, ] and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity; PDB: 3N8K_J 3N7A_I 3N87_F 3N8N_H 3N86_N 1H0S_A 3N59_J 1H05_A 1H0R_A 2Y71_A ....
Probab=86.68 E-value=8.8 Score=27.68 Aligned_cols=80 Identities=11% Similarity=0.129 Sum_probs=52.4
Q ss_pred HHHHHHHHH----HhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEccc-CCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 70 CLEDLDINL----RKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEED-PEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 70 sL~~L~~~L----~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~-~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
+|.++.+.| .++|+.+.+++.+-+..|.+.+.+. .++.|+.|.. |+.... .++++++..+++++.++-.
T Consensus 26 tl~~i~~~~~~~a~~~g~~v~~~QSN~EGelid~I~~a~~~~dgiIINpga~thtS~----Ai~DAl~~~~~P~vEVHiS 101 (140)
T PF01220_consen 26 TLEDIEQKCKETAAELGVEVEFFQSNHEGELIDWIHEARDDVDGIIINPGAYTHTSI----AIRDALKAISIPVVEVHIS 101 (140)
T ss_dssp HHHHHHHHHHHHHHHTTEEEEEEE-SSHHHHHHHHHHHTCTTSEEEEE-GGGGHT-H----HHHHHHHCCTS-EEEEESS
T ss_pred CHHHHHHHHHHHHHHCCCeEEEEecCCHHHHHHHHHHHHhhCCEEEEccchhccccH----HHHHHHHcCCCCEEEEEcC
Confidence 344444443 4669999999988887777777663 5788888853 334443 4556777779999999999
Q ss_pred eeecCCCCCCC
Q psy6650 143 TLYDLDQLKPD 153 (156)
Q Consensus 143 ~L~~~~~l~~~ 153 (156)
.++.+++.+..
T Consensus 102 Ni~~RE~fR~~ 112 (140)
T PF01220_consen 102 NIHAREEFRHH 112 (140)
T ss_dssp -GGGS-GGGG-
T ss_pred Ccccccccccc
Confidence 99988887654
No 36
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=86.64 E-value=2.5 Score=35.20 Aligned_cols=62 Identities=18% Similarity=0.232 Sum_probs=41.7
Q ss_pred HHHHhCCC--eEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 76 INLRKLNS--RLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 76 ~~L~~~g~--~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.+|+++|+ ..+.+.+.|.....+.+.+.++..|+.-.++.|..+.--.++.+.|++.||++.
T Consensus 36 ~~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~V~ 99 (360)
T PRK14719 36 LSLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIKVN 99 (360)
T ss_pred HHHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCEEE
Confidence 35778888 466666777554444445558888866667777555444566788888899884
No 37
>COG0560 SerB Phosphoserine phosphatase [Amino acid transport and metabolism]
Probab=86.05 E-value=3.2 Score=31.75 Aligned_cols=66 Identities=18% Similarity=0.248 Sum_probs=51.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccC------C-----c--hhHHHHHHHHHHHHhCCce
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDP------E-----P--FGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~------~-----~--~~~~~d~~v~~~l~~~~i~ 135 (156)
...+|-+.|++.|....|+.|.+......+++.++++.++.|.-. + + +.....+.+.+++++.|+.
T Consensus 81 ga~elv~~lk~~G~~v~iiSgg~~~lv~~ia~~lg~d~~~an~l~~~dG~ltG~v~g~~~~~~~K~~~l~~~~~~~g~~ 159 (212)
T COG0560 81 GAEELVAALKAAGAKVVIISGGFTFLVEPIAERLGIDYVVANELEIDDGKLTGRVVGPICDGEGKAKALRELAAELGIP 159 (212)
T ss_pred cHHHHHHHHHHCCCEEEEEcCChHHHHHHHHHHhCCchheeeEEEEeCCEEeceeeeeecCcchHHHHHHHHHHHcCCC
Confidence 377889999999999999999999999999999999887655321 1 1 2234556777888877887
No 38
>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=85.31 E-value=8.9 Score=29.06 Aligned_cols=72 Identities=10% Similarity=0.166 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC-h---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ-P---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+++.+++.|..+.+..++ + .+.+.+++...+++.|++...... ..+.+.+.+.|++++.++
T Consensus 17 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~------~~~~~~~~~~~ipvV~~~ 90 (270)
T cd06294 17 PFFIEVLRGISAVANENGYDISLATGKNEEELLEEVKKMIQQKRVDGFILLYSRED------DPIIDYLKEEKFPFVVIG 90 (270)
T ss_pred CCHHHHHHHHHHHHHHCCCEEEEecCCCcHHHHHHHHHHHHHcCcCEEEEecCcCC------cHHHHHHHhcCCCEEEEC
Confidence 466777788888899999998876543 2 234555666667898877532211 122344556799999887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 91 ~~ 92 (270)
T cd06294 91 KP 92 (270)
T ss_pred CC
Confidence 53
No 39
>PRK05265 pyridoxine 5'-phosphate synthase; Provisional
Probab=84.87 E-value=12 Score=29.33 Aligned_cols=75 Identities=12% Similarity=0.025 Sum_probs=48.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCc-------hhHHHHHHHHHHHHhCCceEEEe
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEP-------FGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~-------~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.+.|...-+.|++.||+.-++.....+.+ +.+++.|++.| +....|.- .|.++...-.+...+.|+.+..-
T Consensus 112 ~~~l~~~i~~L~~~gIrVSLFidP~~~qi-~~A~~~GAd~VELhTG~yA~a~~~~~~~el~~~~~aa~~a~~lGL~VnAG 190 (239)
T PRK05265 112 FDKLKPAIARLKDAGIRVSLFIDPDPEQI-EAAAEVGADRIELHTGPYADAKTEAEAAELERIAKAAKLAASLGLGVNAG 190 (239)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHH-HHHHHhCcCEEEEechhhhcCCCcchHHHHHHHHHHHHHHHHcCCEEecC
Confidence 46777888888899999888876555555 58889999988 44444422 12233333333445568888776
Q ss_pred cCCe
Q psy6650 140 VSHT 143 (156)
Q Consensus 140 ~~~~ 143 (156)
+|=+
T Consensus 191 HgLn 194 (239)
T PRK05265 191 HGLN 194 (239)
T ss_pred CCCC
Confidence 6543
No 40
>COG0796 MurI Glutamate racemase [Cell envelope biogenesis, outer membrane]
Probab=84.18 E-value=11 Score=30.17 Aligned_cols=63 Identities=13% Similarity=0.057 Sum_probs=52.0
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHH--HHHHHHHHcCcCeEEE
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPAD--ILPKLFKEWKTTCLTF 110 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~--~l~~l~~~~~~~~V~~ 110 (156)
-+|+.|...+ ++|.+.-.++.+-..++-..|.++|+.+.|+.++++. +|..|-+++++-.|.+
T Consensus 33 ~iY~~D~a~~---PYG~ks~e~I~~~~~~i~~~l~~~~ik~lVIACNTASa~al~~LR~~~~iPVvGv 97 (269)
T COG0796 33 IIYVGDTARF---PYGEKSEEEIRERTLEIVDFLLERGIKALVIACNTASAVALEDLREKFDIPVVGV 97 (269)
T ss_pred EEEEecCCCC---CCCCCCHHHHHHHHHHHHHHHHHcCCCEEEEecchHHHHHHHHHHHhCCCCEEEe
Confidence 5899987443 6899999999999999999999999999999998875 5778888887755543
No 41
>COG2217 ZntA Cation transport ATPase [Inorganic ion transport and metabolism]
Probab=83.79 E-value=5.8 Score=36.02 Aligned_cols=65 Identities=14% Similarity=0.084 Sum_probs=47.0
Q ss_pred HHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.+.-+.|+++|+..+++.||....-..++++.||+.++.+- .|.++.. .| +.+++.|-++-.+.|
T Consensus 543 ~~aI~~L~~~Gi~~~mLTGDn~~~A~~iA~~lGId~v~Ael--lPedK~~--~V-~~l~~~g~~VamVGD 607 (713)
T COG2217 543 KEAIAALKALGIKVVMLTGDNRRTAEAIAKELGIDEVRAEL--LPEDKAE--IV-RELQAEGRKVAMVGD 607 (713)
T ss_pred HHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcChHhheccC--CcHHHHH--HH-HHHHhcCCEEEEEeC
Confidence 34445667889999999999999999999999999999875 4555442 23 444556655555543
No 42
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=83.32 E-value=27 Score=32.43 Aligned_cols=107 Identities=12% Similarity=0.089 Sum_probs=65.7
Q ss_pred ccHHHHHHHh-----cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHH
Q psy6650 29 DNPSLREGLK-----GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKE 102 (156)
Q Consensus 29 DN~aL~~A~~-----~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~ 102 (156)
.|+.|...+. ...+..+|||-.|..... +.....-+ +....|.+ ++|..+.+++| +..+.+.++++.
T Consensus 260 ~~e~liR~a~RlA~~~~a~~~av~v~~~~~~~~---~~~~~~~l-~~~~~Lae---~lGae~~~l~~~dv~~~i~~ya~~ 332 (890)
T COG2205 260 GSEKLIRRAARLASRLHAKWTAVYVETPELHRL---SEKEARRL-HENLRLAE---ELGAEIVTLYGGDVAKAIARYARE 332 (890)
T ss_pred chHHHHHHHHHHHHHhCCCeEEEEEeccccccc---cHHHHHHH-HHHHHHHH---HhCCeEEEEeCCcHHHHHHHHHHH
Confidence 3666654432 346889999999875431 21222223 33334444 56999999985 566889999999
Q ss_pred cCcCeEEEcccCCchhHHH-HHHHHHHHHh--CCceEEEecCC
Q psy6650 103 WKTTCLTFEEDPEPFGKVR-DQNIMTLCRE--LNIEVIARVSH 142 (156)
Q Consensus 103 ~~~~~V~~~~~~~~~~~~~-d~~v~~~l~~--~~i~~~~~~~~ 142 (156)
++++.|+.-+.-....+.. ...+...+.. .++.++.+...
T Consensus 333 ~~~TkiViG~~~~~rw~~~~~~~l~~~L~~~~~~idv~ii~~~ 375 (890)
T COG2205 333 HNATKIVIGRSRRSRWRRLFKGSLADRLAREAPGIDVHIVALD 375 (890)
T ss_pred cCCeeEEeCCCcchHHHHHhcccHHHHHHhcCCCceEEEeeCC
Confidence 9999999987654433222 1333333322 37777766544
No 43
>PF02571 CbiJ: Precorrin-6x reductase CbiJ/CobK; InterPro: IPR003723 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt. Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. This entry represents CobK and CbiJ precorrin-6x reductase (1.3.1.54 from EC). In the aerobic pathway, CobK catalyses the reduction of the macrocycle of precorrin-6X to produce precorrin-6Y; while in the anaerobic pathway CbiJ catalyses the reduction of the macrocycle of cobalt-precorrin-6X into cobalt-precorrin-6Y [, ].; GO: 0016994 precorrin-6A reductase activity, 0009236 cobalamin biosynthetic process, 0055114 oxidation-reduction process
Probab=83.01 E-value=10 Score=29.91 Aligned_cols=58 Identities=24% Similarity=0.302 Sum_probs=46.9
Q ss_pred CeEEEEEcC--hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 83 SRLFVIRGQ--PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 83 ~~L~v~~g~--~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
..+.++.|. ..+.+.+++++.+++.|+=..+ ||..+.-+.+.+.|++.||++..|.=.
T Consensus 43 ~~~~v~~G~lg~~~~l~~~l~~~~i~~vIDATH--PfA~~is~na~~a~~~~~ipylR~eRp 102 (249)
T PF02571_consen 43 PGLEVRVGRLGDEEGLAEFLRENGIDAVIDATH--PFAAEISQNAIEACRELGIPYLRFERP 102 (249)
T ss_pred CCceEEECCCCCHHHHHHHHHhCCCcEEEECCC--chHHHHHHHHHHHHhhcCcceEEEEcC
Confidence 345677776 5788999999999988875544 888899999999999999999888543
No 44
>TIGR00067 glut_race glutamate racemase. The most closely related proteins differing in function are aspartate racemases.
Probab=82.79 E-value=12 Score=29.42 Aligned_cols=62 Identities=19% Similarity=0.271 Sum_probs=49.8
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHH-hCCCeEEEEEcChHH--HHHHHHHHcCcCeEE
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLR-KLNSRLFVIRGQPAD--ILPKLFKEWKTTCLT 109 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~-~~g~~L~v~~g~~~~--~l~~l~~~~~~~~V~ 109 (156)
.+|+-|.... ++|.+-..++.+-+.+.-+.|. +.|..++|+.+++.. .+.++-++.++.-|-
T Consensus 26 ~iy~~D~~~~---PYG~ks~~~i~~~~~~~~~~L~~~~g~d~ivIaCNTA~a~~~~~l~~~~~iPii~ 90 (251)
T TIGR00067 26 YIYVGDTKRF---PYGEKSPEFILEYVLELLTFLKERHNIKLLVVACNTASALALEDLQRNFDFPVVG 90 (251)
T ss_pred EEEEecCCCC---CCCCCCHHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHHCCCCEEe
Confidence 5888887543 6898989999999999999999 999999999999887 367776666554443
No 45
>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=82.49 E-value=18 Score=27.94 Aligned_cols=72 Identities=11% Similarity=0.023 Sum_probs=47.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
.|+.+-+..+.+.+++.|..+.+..........+.....+++.|++....... . ..+.+.+.|++++.++..
T Consensus 17 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~~~dgiii~~~~~~~-----~-~~~~~~~~~ipvV~~~~~ 88 (283)
T cd06279 17 PVASQFLAGVAEVLDAAGVNLLLLPASSEDSDSALVVSALVDGFIVYGVPRDD-----P-LVAALLRRGLPVVVVDQP 88 (283)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEecCccHHHHHHHHHhcCCCEEEEeCCCCCh-----H-HHHHHHHcCCCEEEEecC
Confidence 47777888889999999999998876543233334455789988875432111 1 223445679999988653
No 46
>cd01427 HAD_like Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others, all of which use a nucleophilic aspartate in their phosphoryl transfer reaction. All members possess a highly conserved alpha/beta core domain, and many also possess a small cap domain, the fold and function of which is variable. Members of this superfamily are sometimes referred to as belonging to the DDDD superfamily of phosphohydrolases.
Probab=81.84 E-value=7.9 Score=25.61 Aligned_cols=49 Identities=10% Similarity=0.079 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDP 114 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~ 114 (156)
-+.+.+.++-+.|++.|..+.++.|.+...+..+++..++ +.++.....
T Consensus 24 ~~~~~~~~~l~~l~~~g~~i~ivS~~~~~~~~~~~~~~~~~~~~~~i~~~~~~ 76 (139)
T cd01427 24 ELYPGVKEALKELKEKGIKLALATNKSRREVLELLEELGLDDYFDPVITSNGA 76 (139)
T ss_pred CcCcCHHHHHHHHHHCCCeEEEEeCchHHHHHHHHHHcCCchhhhheeccchh
Confidence 3445666666777788999999999998888888888776 556655444
No 47
>PRK11175 universal stress protein UspE; Provisional
Probab=81.36 E-value=20 Score=28.19 Aligned_cols=42 Identities=14% Similarity=0.237 Sum_probs=31.8
Q ss_pred HHHHHHHHhCCCe---EEEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 72 EDLDINLRKLNSR---LFVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 72 ~~L~~~L~~~g~~---L~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
..+++-+++.|++ .++..|++.+.|.+.+++.+++-|++...
T Consensus 226 ~~l~~~~~~~~~~~~~~~v~~G~~~~~I~~~a~~~~~DLIVmG~~ 270 (305)
T PRK11175 226 LAMKALRQKFGIDEEQTHVEEGLPEEVIPDLAEHLDAELVILGTV 270 (305)
T ss_pred HHHHHHHHHhCCChhheeeccCCHHHHHHHHHHHhCCCEEEECCC
Confidence 3444444555654 56778999999999999999999988654
No 48
>TIGR01497 kdpB K+-transporting ATPase, B subunit. One sequence is apparently mis-annotated in the primary literature, but properly annotated by TIGR.
Probab=81.07 E-value=17 Score=32.88 Aligned_cols=66 Identities=17% Similarity=0.097 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
....+.=++|++.|+...++.|+.......++++.|++.++.+- .|..+. +.+++. ++.|-.+-.+
T Consensus 449 p~a~eaI~~l~~~Gi~v~miTGD~~~ta~~iA~~lGI~~v~a~~--~PedK~--~~v~~l-q~~g~~Vamv 514 (675)
T TIGR01497 449 GGIKERFAQLRKMGIKTIMITGDNRLTAAAIAAEAGVDDFIAEA--TPEDKI--ALIRQE-QAEGKLVAMT 514 (675)
T ss_pred hHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCCEEEcCC--CHHHHH--HHHHHH-HHcCCeEEEE
Confidence 55566667778899999999999999999999999999988753 455443 234433 4444434333
No 49
>PF03740 PdxJ: Pyridoxal phosphate biosynthesis protein PdxJ; InterPro: IPR004569 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. In Escherichia coli, the pdx genes involved in vitamin B6 have been characterised [, , ]. This entry represents PdxJ, which catalyses the condensation of 1-amino-3-oxo-4-(phosphohydroxy)propan-2-one and 1-deoxy-D-xylulose-5-phosphate to form pyridoxine-5'-phosphate. The product of the PdxJ reaction is then oxidized by PdxH to pyridoxal 5'-phosphate.; GO: 0008615 pyridoxine biosynthetic process, 0005737 cytoplasm; PDB: 3F4N_B 3O6D_A 3O6C_A 1M5W_G 1IXQ_D 1IXP_B 1IXN_A 1HO4_C 1HO1_A 1IXO_D ....
Probab=80.62 E-value=17 Score=28.63 Aligned_cols=76 Identities=13% Similarity=0.022 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCchh----------HHHHHHHHHHHHhCCceE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEPFG----------KVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~~~----------~~~d~~v~~~l~~~~i~~ 136 (156)
.+.|.+.-+.|+..||...++-....+.+. .+++.|++.| +.+..|+-.. .++.....+...+.|+.+
T Consensus 110 ~~~l~~~i~~L~~~gIrvSLFiDP~~~qi~-~A~~~Gad~VELhTG~yA~a~~~~~~~~~ell~~l~~aa~~a~~lGL~V 188 (239)
T PF03740_consen 110 RDRLKPVIKRLKDAGIRVSLFIDPDPEQIE-AAKELGADRVELHTGPYANAFDDAEEAEEELLERLRDAARYAHELGLGV 188 (239)
T ss_dssp HHHHHHHHHHHHHTT-EEEEEE-S-HHHHH-HHHHTT-SEEEEETHHHHHHSSHHHHHHHHHHHHHHHHHHHHHHTT-EE
T ss_pred HHHHHHHHHHHHhCCCEEEEEeCCCHHHHH-HHHHcCCCEEEEehhHhhhhcCCHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 366777777888899999988876666664 8888999988 4444442211 122222233445579988
Q ss_pred EEecCCee
Q psy6650 137 IARVSHTL 144 (156)
Q Consensus 137 ~~~~~~~L 144 (156)
..-+|=++
T Consensus 189 nAGHgL~y 196 (239)
T PF03740_consen 189 NAGHGLNY 196 (239)
T ss_dssp EEETT--T
T ss_pred ecCCCCCH
Confidence 88766443
No 50
>PRK14010 potassium-transporting ATPase subunit B; Provisional
Probab=80.53 E-value=14 Score=33.38 Aligned_cols=66 Identities=15% Similarity=0.083 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
....+.=++|++.|+...++.||....-..++++.|++.+|..- .|..+.+ +-+.+++.|-.+-..
T Consensus 444 ~~a~e~I~~Lr~~GI~vvMiTGDn~~TA~aIA~elGI~~v~A~~--~PedK~~---iV~~lQ~~G~~VaMt 509 (673)
T PRK14010 444 DGLVERFRELREMGIETVMCTGDNELTAATIAKEAGVDRFVAEC--KPEDKIN---VIREEQAKGHIVAMT 509 (673)
T ss_pred HHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCceEEcCC--CHHHHHH---HHHHHHhCCCEEEEE
Confidence 44555556778899999999999999999999999999988754 5555442 334556666444433
No 51
>PF05368 NmrA: NmrA-like family; InterPro: IPR008030 NmrA is a negative transcriptional regulator involved in the post-translational modification of the transcription factor AreA. NmrA is part of a system controlling nitrogen metabolite repression in fungi []. This family only contains a few sequences as iteration results in significant matches to other Rossmann fold families.; PDB: 2ZCV_A 2ZCU_A 2R6J_B 3C3X_A 2QZZ_B 2QYS_A 2QX7_A 2QW8_A 2R2G_B 3E5M_B ....
Probab=80.33 E-value=13 Score=28.00 Aligned_cols=63 Identities=11% Similarity=0.159 Sum_probs=37.6
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCC-chhHHHHHHHHHHHHhCCceEEEe
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPE-PFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~-~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
-++|+..|.......-+..+.|.+..+ +++.|++.-... +.+......+.+++++.||+...+
T Consensus 37 ~~~l~~~g~~vv~~d~~~~~~l~~al~--g~d~v~~~~~~~~~~~~~~~~~li~Aa~~agVk~~v~ 100 (233)
T PF05368_consen 37 AQQLQALGAEVVEADYDDPESLVAALK--GVDAVFSVTPPSHPSELEQQKNLIDAAKAAGVKHFVP 100 (233)
T ss_dssp HHHHHHTTTEEEES-TT-HHHHHHHHT--TCSEEEEESSCSCCCHHHHHHHHHHHHHHHT-SEEEE
T ss_pred hhhhhcccceEeecccCCHHHHHHHHc--CCceEEeecCcchhhhhhhhhhHHHhhhccccceEEE
Confidence 344566677654333333455555555 688887776654 556666677777777778877654
No 52
>TIGR01512 ATPase-IB2_Cd heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase. .
Probab=80.18 E-value=11 Score=32.84 Aligned_cols=46 Identities=11% Similarity=0.122 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCCC-eEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 67 LLQCLEDLDINLRKLNS-RLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
+.....++=+.|++.|+ ++.++.|++......++++.+++.+|.+-
T Consensus 363 l~~~~~e~i~~L~~~Gi~~v~vvTgd~~~~a~~i~~~lgi~~~f~~~ 409 (536)
T TIGR01512 363 PRPDAAEAIAELKALGIEKVVMLTGDRRAVAERVARELGIDEVHAEL 409 (536)
T ss_pred chHHHHHHHHHHHHcCCCcEEEEcCCCHHHHHHHHHHcCChhhhhcc
Confidence 55777777888889999 99999999999999999999999887644
No 53
>PRK01122 potassium-transporting ATPase subunit B; Provisional
Probab=80.14 E-value=12 Score=33.86 Aligned_cols=66 Identities=15% Similarity=0.109 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
....+.=++|++.|+...++.||....-..++++.|++.++.+- .|..+.+ +-+.+++.|-.+-..
T Consensus 448 ~~~~eai~~Lr~~GI~vvMiTGDn~~TA~aIA~elGId~v~A~~--~PedK~~---iV~~lQ~~G~~VaMt 513 (679)
T PRK01122 448 PGIKERFAELRKMGIKTVMITGDNPLTAAAIAAEAGVDDFLAEA--TPEDKLA---LIRQEQAEGRLVAMT 513 (679)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCcEEEccC--CHHHHHH---HHHHHHHcCCeEEEE
Confidence 44555556778899999999999999999999999999988764 4555442 334455556434333
No 54
>TIGR01525 ATPase-IB_hvy heavy metal translocating P-type ATPase. This alignment encompasses two equivalog models for the copper and cadmium-type heavy metal transporting P-type ATPases (TIGR01511 and TIGR01512) as well as those species which score ambiguously between both models. For more comments and references, see the files on TIGR01511 and 01512.
Probab=79.78 E-value=18 Score=31.68 Aligned_cols=46 Identities=13% Similarity=0.103 Sum_probs=40.0
Q ss_pred HHHHHHHHHHHHHhCC-CeEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 67 LLQCLEDLDINLRKLN-SRLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
++....++=+.|++.| +++.+..|++......++++.+++.+|..-
T Consensus 385 ~~~g~~e~l~~L~~~g~i~v~ivTgd~~~~a~~i~~~lgi~~~f~~~ 431 (556)
T TIGR01525 385 LRPEAKEAIAALKRAGGIKLVMLTGDNRSAAEAVAAELGIDEVHAEL 431 (556)
T ss_pred chHhHHHHHHHHHHcCCCeEEEEeCCCHHHHHHHHHHhCCCeeeccC
Confidence 5577777778888899 999999999999999999999999888753
No 55
>cd06277 PBP1_LacI_like_1 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=79.39 E-value=22 Score=26.94 Aligned_cols=71 Identities=15% Similarity=0.152 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHH----HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPAD----ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~----~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+++.+++.|..+.+...+..+ .+.+...+.+++.|++.... ... .+ ..+.+.|+++..++
T Consensus 15 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~-~~~-----~~-~~l~~~~ipvV~~~ 87 (268)
T cd06277 15 AFYSEIYRAIEEEAKKYGYNLILKFVSDEDEEEFELPSFLEDGKVDGIILLGGI-STE-----YI-KEIKELGIPFVLVD 87 (268)
T ss_pred CcHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHHHHHCCCCEEEEeCCC-ChH-----HH-HHHhhcCCCEEEEc
Confidence 367777888899999999998887643221 22233345689999875432 211 13 33455689998886
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 88 ~~ 89 (268)
T cd06277 88 HY 89 (268)
T ss_pred cC
Confidence 43
No 56
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=79.06 E-value=12 Score=31.89 Aligned_cols=70 Identities=16% Similarity=0.147 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEE--cChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIR--GQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~--g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|-+=|..+.+++.++|+..++.. .+..+++.+++.+.++..|+.++....+|.. +.+.|++.|+.+..-|
T Consensus 63 Ld~~l~~~~~~v~~~Gg~vy~A~~aedA~~ii~~iv~~k~~k~vVKsKSmvseEIg----ln~~Le~~G~ev~ETD 134 (459)
T COG1139 63 LDEYLEQLEENVTRNGGHVYFAKDAEDAREIIGEIVGEKNGKKVVKSKSMVSEEIG----LNHYLEEKGIEVWETD 134 (459)
T ss_pred HHHHHHHHHHHHHHcCCEEEEeCCHHHHHHHHHHHHhhccCcEEEEecchhHHHhh----hHHHHHHcCCeEEEcc
Confidence 34445667778889999999876 3556789999999999999999998888755 5567777798876543
No 57
>TIGR00559 pdxJ pyridoxine 5'-phosphate synthase. PdxJ is required in the biosynthesis of pyridoxine (vitamin B6), a precursor to the enzyme cofactor pyridoxal phosphate. ECOCYC describes the predicted reaction equation as 1-amino-propan-2-one-3-phosphate + deoxyxylulose-5-phosphate = pyridoxine-5'-phosphate. The product of that reaction is oxidized by PdxH to pyridoxal 5'-phosphate.
Probab=78.88 E-value=27 Score=27.40 Aligned_cols=76 Identities=11% Similarity=-0.036 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCc--h------hHHHHHHHHHHHHhCCceEEE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEP--F------GKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~--~------~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.+.|...-+.|++.||+.-++-....+.+ +.+++.|++.| +.+..|+- . |..+.....+...+.|+.+..
T Consensus 109 ~~~l~~~i~~l~~~gI~VSLFiDP~~~qi-~~A~~~GAd~VELhTG~YA~a~~~~~~~~el~~i~~aa~~A~~lGL~VnA 187 (237)
T TIGR00559 109 KDKLCELVKRFHAAGIEVSLFIDADKDQI-SAAAEVGADRIEIHTGPYANAYNKKEMAEELQRIVKASVHAHSLGLKVNA 187 (237)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHH-HHHHHhCcCEEEEechhhhcCCCchhHHHHHHHHHHHHHHHHHcCCEEec
Confidence 46677777888889999988876666666 48889999988 44444432 1 222222222334456888877
Q ss_pred ecCCee
Q psy6650 139 RVSHTL 144 (156)
Q Consensus 139 ~~~~~L 144 (156)
-+|=++
T Consensus 188 GHgLny 193 (237)
T TIGR00559 188 GHGLNY 193 (237)
T ss_pred CCCCCH
Confidence 665443
No 58
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=78.64 E-value=18 Score=27.33 Aligned_cols=73 Identities=10% Similarity=0.110 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEE-Ec--ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVI-RG--QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~-~g--~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+-..-+++.++++|..+.+. .+ ++.. .+.++++ .+++.|++.-.-..... ..+ +.+.+.||++..
T Consensus 11 ~~~~~~~~g~~~~a~~~g~~~~~~~~~~~d~~~q~~~i~~~i~-~~~d~Iiv~~~~~~~~~---~~l-~~~~~~gIpvv~ 85 (257)
T PF13407_consen 11 PFWQQVIKGAKAAAKELGYEVEIVFDAQNDPEEQIEQIEQAIS-QGVDGIIVSPVDPDSLA---PFL-EKAKAAGIPVVT 85 (257)
T ss_dssp HHHHHHHHHHHHHHHHHTCEEEEEEESTTTHHHHHHHHHHHHH-TTESEEEEESSSTTTTH---HHH-HHHHHTTSEEEE
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEeCCCCCCHHHHHHHHHHHHH-hcCCEEEecCCCHHHHH---HHH-HHHhhcCceEEE
Confidence 388889999999999999999985 43 3332 3444444 37998886633222221 223 345567999999
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 86 ~d~~ 89 (257)
T PF13407_consen 86 VDSD 89 (257)
T ss_dssp ESST
T ss_pred Eecc
Confidence 8776
No 59
>TIGR01488 HAD-SF-IB Haloacid Dehalogenase superfamily, subfamily IB, phosphoserine phosphatase-like. Subfamily IA includes the enzyme phosphoserine phosphatase (TIGR00338) as well as three hypothetical equivalogs. Many members of these hypothetical equivalogs have been annotated as PSPase-like or PSPase-family proteins. In particular, the hypothetical equivalog which appears to be most closely related to PSPase contains only Archaea (while TIGR00338 contains only eukaryotes and bacteria) of which some are annotated as PSPases. Although this is a reasonable conjecture, none of these sequences has sufficient evidence for this assignment. If such should be found, this model should be retired while the PSPase model should be broadened to include these sequences.
Probab=78.25 E-value=3.3 Score=29.73 Aligned_cols=43 Identities=7% Similarity=-0.024 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
..+.++-+.|++.|.++.|+.|.....+..+++.+++..++.+
T Consensus 76 ~g~~~~l~~l~~~g~~~~ivS~~~~~~i~~~~~~~g~~~~~~~ 118 (177)
T TIGR01488 76 PGARELISWLKERGIDTVIVSGGFDFFVEPVAEKLGIDDVFAN 118 (177)
T ss_pred cCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCchheee
Confidence 4567777788899999999999998889999999888877654
No 60
>PRK00865 glutamate racemase; Provisional
Probab=77.71 E-value=21 Score=28.08 Aligned_cols=58 Identities=16% Similarity=0.148 Sum_probs=46.2
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHH--HHHHHHHHcCc
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPAD--ILPKLFKEWKT 105 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~--~l~~l~~~~~~ 105 (156)
.+|+.|.... ++|.+-..++.+-+.+.-+.|.+.|..++|+.+++.. .+..+-+.+++
T Consensus 33 ~iY~~D~~~~---PYG~ks~~~i~~~~~~~~~~L~~~g~d~iVIaCNTa~~~~l~~lr~~~~i 92 (261)
T PRK00865 33 IIYVGDTARF---PYGEKSEEEIRERTLEIVEFLLEYGVKMLVIACNTASAVALPDLRERYDI 92 (261)
T ss_pred EEEEecCCCC---CCCCCCHHHHHHHHHHHHHHHHhCCCCEEEEeCchHHHHHHHHHHHhCCC
Confidence 5888886433 6888888999999999999999999999999998765 45666665544
No 61
>cd00003 PNPsynthase Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the biosynthesis of vitamin B6. PNP synthase, a homooctameric enzyme, catalyzes the final step in PNP biosynthesis, the condensation of 1-amino-acetone 3-phosphate and 1-deoxy-D-xylulose 5-phosphate. PNP synthase adopts a TIM barrel topology, intersubunit contacts are mediated by three ''extra'' helices, generating a tetramer of symmetric dimers with shared active sites; the open state has been proposed to accept substrates and to release products, while most of the catalytic events are likely to occur in the closed state; a hydrophilic channel running through the center of the barrel was identified as the essential structural feature that enables PNP synthase to release water molecules produced during the reaction from the closed,
Probab=77.26 E-value=33 Score=26.90 Aligned_cols=76 Identities=16% Similarity=0.057 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCch--------hHHHHHHHHHHHHhCCceEE
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEPF--------GKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~~--------~~~~d~~v~~~l~~~~i~~~ 137 (156)
-.+.|...-+.|++.||...++.....+.+. .+++.|++.| ..+..|+-. +..+...-.+...+.|+.+.
T Consensus 108 ~~~~l~~~i~~l~~~gI~VSLFiDPd~~qi~-~A~~~GAd~VELhTG~Ya~a~~~~~~~~el~~i~~aa~~a~~~GL~Vn 186 (234)
T cd00003 108 QAEKLKPIIERLKDAGIRVSLFIDPDPEQIE-AAKEVGADRVELHTGPYANAYDKAEREAELERIAKAAKLARELGLGVN 186 (234)
T ss_pred CHHHHHHHHHHHHHCCCEEEEEeCCCHHHHH-HHHHhCcCEEEEechhhhcCCCchhHHHHHHHHHHHHHHHHHcCCEEe
Confidence 3467778888888999999888876666664 7888999988 444444211 22222222233445688887
Q ss_pred EecCCe
Q psy6650 138 ARVSHT 143 (156)
Q Consensus 138 ~~~~~~ 143 (156)
.-+|=+
T Consensus 187 AGHgLn 192 (234)
T cd00003 187 AGHGLN 192 (234)
T ss_pred cCCCCC
Confidence 766544
No 62
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=76.85 E-value=22 Score=24.57 Aligned_cols=65 Identities=8% Similarity=0.112 Sum_probs=39.7
Q ss_pred HHHHHHHhCCCeE---EEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHH-HHhCCceEEEe
Q psy6650 73 DLDINLRKLNSRL---FVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTL-CRELNIEVIAR 139 (156)
Q Consensus 73 ~L~~~L~~~g~~L---~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~-l~~~~i~~~~~ 139 (156)
.|++-++..|+.. ++..|+|.+.|.+.+++.+++-|+....-. ... +.-.+... +....|++-.+
T Consensus 69 ~l~~~~~~~~~~~~~~~~~~G~p~~~I~~~a~~~~~DLIV~Gs~~~-~~~-~lgSva~~v~~~a~~pVLvv 137 (144)
T PRK15118 69 ALTELSTNAGYPITETLSGSGDLGQVLVDAIKKYDMDLVVCGHHQD-FWS-KLMSSARQLINTVHVDMLIV 137 (144)
T ss_pred HHHHHHHhCCCCceEEEEEecCHHHHHHHHHHHhCCCEEEEeCccc-HHH-HHHHHHHHHHhhCCCCEEEe
Confidence 3444345556653 445799999999999999999999876633 222 22234333 33335555443
No 63
>cd06313 PBP1_ABC_sugar_binding_like_5 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=76.59 E-value=32 Score=26.40 Aligned_cols=73 Identities=10% Similarity=-0.010 Sum_probs=48.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
-|+.+-+..+++.+++.|..+.+... ++. +.+..+. ..+++.|++... .+ ......+ +.+.+.||++..+
T Consensus 12 ~f~~~~~~gi~~~~~~~G~~~~~~~~~~d~~~~~~~i~~~~-~~~vdgiii~~~-~~--~~~~~~i-~~~~~~~iPvV~~ 86 (272)
T cd06313 12 TWCAQGKQAADEAGKLLGVDVTWYGGALDAVKQVAAIENMA-SQGWDFIAVDPL-GI--GTLTEAV-QKAIARGIPVIDM 86 (272)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Ch--HHhHHHH-HHHHHCCCcEEEe
Confidence 48888889999999999999998864 333 3344444 468898888532 11 1122223 3445569999998
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (272)
T cd06313 87 GTL 89 (272)
T ss_pred CCC
Confidence 754
No 64
>PRK09484 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional
Probab=76.28 E-value=11 Score=27.75 Aligned_cols=56 Identities=14% Similarity=0.118 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
.++..|+ +.|+.+.|..|.+......++++.++..++..... ....+.+++++.|+
T Consensus 55 ~~i~~L~----~~Gi~v~I~T~~~~~~v~~~l~~lgl~~~f~g~~~------k~~~l~~~~~~~gl 110 (183)
T PRK09484 55 YGIRCLL----TSGIEVAIITGRKSKLVEDRMTTLGITHLYQGQSN------KLIAFSDLLEKLAI 110 (183)
T ss_pred HHHHHHH----HCCCEEEEEeCCCcHHHHHHHHHcCCceeecCCCc------HHHHHHHHHHHhCC
Confidence 3555554 57999999999998888999999999877653221 12455666666565
No 65
>TIGR01491 HAD-SF-IB-PSPlk HAD-superfamily, subfamily-IB PSPase-like hydrolase, archaeal. This hypothetical equivalog is a member of the IB subfamily (TIGR01488) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this alignment are all from archaeal species. The phylogenetically closest group of sequences to these are phosphoserine phosphatases (TIGR00338). There are no known archaeal phosphoserine phosphatases, and no archaea fall within TIGR00338. It is likely, then, that This model represents the archaeal branch of the PSPase equivalog.
Probab=76.01 E-value=6.7 Score=28.67 Aligned_cols=43 Identities=12% Similarity=0.101 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
..+.++=+.|++.|+++.|+.+.+...+..+++.++++.++.+
T Consensus 83 ~g~~e~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~g~~~~~~~ 125 (201)
T TIGR01491 83 DYAEELVRWLKEKGLKTAIVSGGIMCLAKKVAEKLNPDYVYSN 125 (201)
T ss_pred ccHHHHHHHHHHCCCEEEEEeCCcHHHHHHHHHHhCCCeEEEE
Confidence 4566777888889999999999998889999999998877643
No 66
>PF12710 HAD: haloacid dehalogenase-like hydrolase; PDB: 3P96_A 3N28_A 3FVV_A 1RKU_A 1RKV_A 1Y8A_A 2FEA_B 3KD3_B.
Probab=75.90 E-value=9.1 Score=27.66 Aligned_cols=41 Identities=15% Similarity=0.248 Sum_probs=35.5
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe--EEEccc
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC--LTFEED 113 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~~ 113 (156)
++=+.|++.|..++|+.|.+...+..+++..++.. |+.++.
T Consensus 96 e~i~~~~~~~~~v~IvS~~~~~~i~~~~~~~~i~~~~v~~~~~ 138 (192)
T PF12710_consen 96 ELIRELKDNGIKVVIVSGSPDEIIEPIAERLGIDDDNVIGNEL 138 (192)
T ss_dssp HHHHHHHHTTSEEEEEEEEEHHHHHHHHHHTTSSEGGEEEEEE
T ss_pred HHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEEEEEee
Confidence 55566788899999999999999999999999987 777766
No 67
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand bind
Probab=75.17 E-value=33 Score=25.85 Aligned_cols=73 Identities=8% Similarity=0.060 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--h---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--P---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+++.+++.|..+.+...+ . ...+.+++...+++.|+........ ....+.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiii~~~~~~~-----~~~~~~~~~~~ipvv~i 86 (270)
T cd01545 12 GYVSEIQLGALDACRDTGYQLVIEPCDSGSPDLAERVRALLQRSRVDGVILTPPLSDN-----PELLDLLDEAGVPYVRI 86 (270)
T ss_pred ccHHHHHHHHHHHHHhCCCeEEEEeCCCCchHHHHHHHHHHHHCCCCEEEEeCCCCCc-----cHHHHHHHhcCCCEEEE
Confidence 477777888888889999998887543 2 2234455556789998775322111 12223455578999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (270)
T cd01545 87 APG 89 (270)
T ss_pred ecC
Confidence 653
No 68
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=74.52 E-value=36 Score=25.98 Aligned_cols=71 Identities=13% Similarity=0.013 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChH----HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPA----DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+.+.++++|..+.+...+.. +.+.++....+++.|++... .+.. ...+.+++.|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~~~~~~~~~~l~~~~vdgvi~~~~-~~~~-----~~~~~l~~~~iPvv~~~ 85 (269)
T cd06297 12 EFYRRLLEGIEGALLEQRYDLALFPLLSLARLKRYLESTTLAYLTDGLLLASY-DLTE-----RLAERRLPTERPVVLVD 85 (269)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEEeCCCcHHHHHHHHHHHHhcCCCEEEEecC-ccCh-----HHHHHHhhcCCCEEEEc
Confidence 47788888999999999999998764322 33444455678999877642 2221 22344556799999887
Q ss_pred C
Q psy6650 141 S 141 (156)
Q Consensus 141 ~ 141 (156)
.
T Consensus 86 ~ 86 (269)
T cd06297 86 A 86 (269)
T ss_pred c
Confidence 5
No 69
>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=73.68 E-value=37 Score=25.79 Aligned_cols=71 Identities=11% Similarity=0.081 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcCh--HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQP--ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~--~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.|+.+-+..+++.+++.|..+.+...+. .+.+.+.+.+.+++.|++...... . ..+ +.+.+.|++++.++.
T Consensus 23 ~~~~~~~~gi~~~~~~~g~~~~v~~~~~~~~~~~~~~l~~~~~dgiii~~~~~~-~----~~~-~~~~~~~ipvV~~~~ 95 (275)
T cd06295 23 PFFLSLLGGIADALAERGYDLLLSFVSSPDRDWLARYLASGRADGVILIGQHDQ-D----PLP-ERLAETGLPFVVWGR 95 (275)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEEeCCchhHHHHHHHHHhCCCCEEEEeCCCCC-h----HHH-HHHHhCCCCEEEECC
Confidence 3666777777888999999988875432 334555555678998876432222 1 112 344557899988864
No 70
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=73.52 E-value=15 Score=30.26 Aligned_cols=40 Identities=8% Similarity=-0.061 Sum_probs=29.1
Q ss_pred HHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEE
Q psy6650 71 LEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 110 (156)
+..+++-|+..|++.++..|+....+..|++.-.++.|+.
T Consensus 132 ~~~~k~lL~~~Gip~i~AP~EAeaq~a~L~~~g~vd~v~S 171 (338)
T TIGR03674 132 VESSKKLLDLMGIPYVQAPSEGEAQAAYMAKKGDVDYVGS 171 (338)
T ss_pred HHHHHHHHHHcCCeEEECCccHHHHHHHHHHCCCeeEEec
Confidence 6677888889999999998877777766666533445544
No 71
>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=72.79 E-value=38 Score=25.44 Aligned_cols=71 Identities=13% Similarity=0.165 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC----hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ----PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|..+-+..+.+.+++.|..+.+...+ ..+.+.+++...+++.|+........ ..+ ..+.+.+++++.++
T Consensus 16 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~-----~~~-~~~~~~~ipvV~~~ 89 (268)
T cd06271 16 PFFAEFLSGLSEALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRTRPDD-----PRV-ALLLERGFPFVTHG 89 (268)
T ss_pred ccHHHHHHHHHHHHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecCCCCC-----hHH-HHHHhcCCCEEEEC
Confidence 466677778888889999998887643 23456667666779988775432111 112 33455689998885
Q ss_pred C
Q psy6650 141 S 141 (156)
Q Consensus 141 ~ 141 (156)
.
T Consensus 90 ~ 90 (268)
T cd06271 90 R 90 (268)
T ss_pred C
Confidence 4
No 72
>PF13727 CoA_binding_3: CoA-binding domain; PDB: 3NKL_B.
Probab=72.37 E-value=10 Score=26.93 Aligned_cols=45 Identities=16% Similarity=0.094 Sum_probs=30.2
Q ss_pred HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 93 ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.+.+.+++++.+++.|+..-+. .+.++.+++.+.|++.|++++..
T Consensus 130 ~~~l~~~~~~~~id~v~ial~~--~~~~~i~~ii~~~~~~~v~v~~v 174 (175)
T PF13727_consen 130 LDDLPELVREHDIDEVIIALPW--SEEEQIKRIIEELENHGVRVRVV 174 (175)
T ss_dssp GGGHHHHHHHHT--EEEE--TT--S-HHHHHHHHHHHHTTT-EEEE-
T ss_pred HHHHHHHHHhCCCCEEEEEcCc--cCHHHHHHHHHHHHhCCCEEEEe
Confidence 3567889999999999998654 34556788889999889988754
No 73
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=72.07 E-value=27 Score=23.42 Aligned_cols=62 Identities=16% Similarity=0.300 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHhCCCeEEE--E-------------EcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhC
Q psy6650 68 LQCLEDLDINLRKLNSRLFV--I-------------RGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCREL 132 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v--~-------------~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~ 132 (156)
-++|.+|..-++..|+...- . .|. .+.|..+++..+++.|+++.+.+|...+ .+.+.+
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK-~eei~~~~~~~~~d~vvfd~~Lsp~Q~r---NLe~~~--- 79 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGK-VEEIKELIEELDADLVVFDNELSPSQQR---NLEKAL--- 79 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhH-HHHHHHHHhhcCCCEEEECCCCCHHHHH---HHHHHH---
Confidence 47888888888888876432 1 122 3567788999999999999988776433 444554
Q ss_pred CceE
Q psy6650 133 NIEV 136 (156)
Q Consensus 133 ~i~~ 136 (156)
|+++
T Consensus 80 ~~~V 83 (95)
T PF13167_consen 80 GVKV 83 (95)
T ss_pred CCee
Confidence 5554
No 74
>PF08218 Citrate_ly_lig: Citrate lyase ligase C-terminal domain; InterPro: IPR013166 [Citrate (pro-3S)-lyase] ligase (6.2.1.22 from EC), also known as citrate lyase ligase, is responsible for acetylation of the prosthetic group (2-(5''-phosphoribosyl)-3'-dephosphocoenzyme-A) of the gamma subunit of citrate lyase. It converts the inactive thiol form of the enzyme to the active form. In Clostridium sphenoides, citrate lyase ligase actively degrades citrate. In Clostridium sporosphaeroides and Lactococcus lactis, however, the enzyme is under stringent regulatory control. The enzyme's activity in anaerobic bacteria is modulated by phosphorylation and dephosphorylation []. The proteins in this entry represent the C-terminal domain of citrate lyase ligase.; GO: 0008771 [citrate (pro-3S)-lyase] ligase activity
Probab=71.89 E-value=40 Score=25.38 Aligned_cols=104 Identities=15% Similarity=0.201 Sum_probs=63.3
Q ss_pred HHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE---------cCh----------HH
Q psy6650 34 REGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR---------GQP----------AD 94 (156)
Q Consensus 34 ~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~---------g~~----------~~ 94 (156)
..|+++++ .+-||+...+.... .-.-|.....++.++|..=----|.+..|-. .+. ..
T Consensus 20 E~Aa~~~d-~l~vFVV~eD~S~F--pf~~R~~LVk~G~~~L~NV~V~~~g~YiIS~aTFPsYFlK~~~~~~~~~~~lD~~ 96 (182)
T PF08218_consen 20 EQAAKECD-WLHVFVVSEDRSLF--PFADRYELVKEGTADLPNVTVHPGGDYIISSATFPSYFLKDEDDVIKAQAELDAT 96 (182)
T ss_pred HHHHHhCC-EEEEEEEccccCcC--CHHHHHHHHHHHhCcCCCEEEEcCCCeeeecccChhhhccchhHHHHHHHHHHHH
Confidence 45666654 55788887653221 1335778888998888642222233333321 111 11
Q ss_pred HHHH-HHHHcCcCeEEEcccC-CchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 95 ILPK-LFKEWKTTCLTFEEDP-EPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 95 ~l~~-l~~~~~~~~V~~~~~~-~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+|.+ ++...+|+.-|+-+++ ++-...=-+.++++|...||+++...
T Consensus 97 iF~~~IAp~L~It~RfVG~EP~~~vT~~YN~~M~~~Lp~~gi~v~ei~ 144 (182)
T PF08218_consen 97 IFKKYIAPALGITKRFVGEEPFSPVTRIYNEAMKEILPPYGIEVVEIP 144 (182)
T ss_pred HHHHHhhHhcCcccceeCCCCCCHHHHHHHHHHHHhccccCCEEEEEe
Confidence 3444 6777899999997665 45555555677788988899888664
No 75
>PRK08057 cobalt-precorrin-6x reductase; Reviewed
Probab=71.15 E-value=25 Score=27.69 Aligned_cols=56 Identities=20% Similarity=0.156 Sum_probs=43.7
Q ss_pred eEEEEEcCh--HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 84 RLFVIRGQP--ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 84 ~L~v~~g~~--~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
++.++.|.. .+.+.+++++.+++.|+=..+ ||..+.-+.+.+.|++.||++..|.=
T Consensus 43 ~~~v~~G~l~~~~~l~~~l~~~~i~~VIDATH--PfA~~is~~a~~ac~~~~ipyiR~eR 100 (248)
T PRK08057 43 PGPVRVGGFGGAEGLAAYLREEGIDLVIDATH--PYAAQISANAAAACRALGIPYLRLER 100 (248)
T ss_pred CceEEECCCCCHHHHHHHHHHCCCCEEEECCC--ccHHHHHHHHHHHHHHhCCcEEEEeC
Confidence 345566644 578899999999988875444 78888888899999999999988863
No 76
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=71.10 E-value=49 Score=26.02 Aligned_cols=74 Identities=15% Similarity=0.158 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-.|+.+....+++.+++.|..+.+...+ +. +.+..+.. .+++.|+..... ....+..+ +.+.+.|+++..
T Consensus 10 ~~~~~~~~~~i~~~a~~~g~~v~~~~~~~~~~~q~~~i~~l~~-~~vDgIIi~~~~---~~~~~~~l-~~~~~~~iPvV~ 84 (302)
T TIGR02634 10 LERWQKDRDIFVAAAESLGAKVFVQSANGNEAKQISQIENLIA-RGVDVLVIIPQN---GQVLSNAV-QEAKDEGIKVVA 84 (302)
T ss_pred hhhHHHHHHHHHHHHHhcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEeCCC---hhHHHHHH-HHHHHCCCeEEE
Confidence 3688899999999999999998887543 32 34444443 488988776422 11112223 345567999998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 85 ~d~~ 88 (302)
T TIGR02634 85 YDRL 88 (302)
T ss_pred ecCc
Confidence 8654
No 77
>PF13911 AhpC-TSA_2: AhpC/TSA antioxidant enzyme
Probab=70.88 E-value=12 Score=25.28 Aligned_cols=42 Identities=21% Similarity=0.339 Sum_probs=30.8
Q ss_pred HHHHHHHHHhCCCeEEEEE-cChHHHHHHHHHH--cCcCeEEEcccC
Q psy6650 71 LEDLDINLRKLNSRLFVIR-GQPADILPKLFKE--WKTTCLTFEEDP 114 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~--~~~~~V~~~~~~ 114 (156)
|.....+|++.|+.|+++- |++.. +.++++. ++.. ||++.+-
T Consensus 2 L~~~~~~l~~~gv~lv~I~~g~~~~-~~~f~~~~~~p~~-ly~D~~~ 46 (115)
T PF13911_consen 2 LSRRKPELEAAGVKLVVIGCGSPEG-IEKFCELTGFPFP-LYVDPER 46 (115)
T ss_pred hhHhHHHHHHcCCeEEEEEcCCHHH-HHHHHhccCCCCc-EEEeCcH
Confidence 5667888999999998875 55544 8888865 4555 8877653
No 78
>TIGR01511 ATPase-IB1_Cu copper-(or silver)-translocating P-type ATPase. One member from Halobacterium is annotated as "molybdenum-binding protein" although no evidence can be found for this classification.
Probab=70.58 E-value=37 Score=29.84 Aligned_cols=42 Identities=10% Similarity=0.071 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 110 (156)
.....++=+.|++.|+.+.++.|++......++++.+++ ++.
T Consensus 407 ~~~a~e~i~~Lk~~Gi~v~ilSgd~~~~a~~ia~~lgi~-~~~ 448 (562)
T TIGR01511 407 RPEAKEVIQALKRRGIEPVMLTGDNRKTAKAVAKELGIN-VRA 448 (562)
T ss_pred cHHHHHHHHHHHHcCCeEEEEcCCCHHHHHHHHHHcCCc-EEc
Confidence 345555666677889999999999999999999999997 443
No 79
>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=70.49 E-value=43 Score=25.10 Aligned_cols=70 Identities=10% Similarity=0.077 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+++.++++|..+.+...+ +. +.+.+++. .+++.|++...... ..+.+.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~~dgii~~~~~~~------~~~~~~~~~~~ipvv~~ 84 (259)
T cd01542 12 FSTSRTVKGILAALYENGYQMLLMNTNFSIEKEIEALELLAR-QKVDGIILLATTIT------DEHREAIKKLNVPVVVV 84 (259)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC------HHHHHHHhcCCCCEEEE
Confidence 366788888999999999998887543 33 23445443 58898877543211 12334455568888887
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 85 ~~ 86 (259)
T cd01542 85 GQ 86 (259)
T ss_pred ec
Confidence 64
No 80
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=70.46 E-value=41 Score=24.90 Aligned_cols=71 Identities=13% Similarity=0.165 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--h---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--P---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|..+-...+++.++++|..+.+...+ + .+.+..+++ .+++.|+.......... + +.+.+.|+++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~d~iii~~~~~~~~~-----~-~~~~~~~ipvv~~ 84 (264)
T cd06267 12 PFFAELLRGIEEAAREAGYSVLLCNSDEDPEKEREALELLLS-RRVDGIILAPSRLDDEL-----L-EELAALGIPVVLV 84 (264)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEecCCcchHH-----H-HHHHHcCCCEEEe
Confidence 466677777888888889999887654 2 244555554 47888877654332221 2 3345678999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 85 ~~~ 87 (264)
T cd06267 85 DRP 87 (264)
T ss_pred ccc
Confidence 654
No 81
>PHA02588 cd deoxycytidylate deaminase; Provisional
Probab=70.25 E-value=15 Score=27.12 Aligned_cols=58 Identities=19% Similarity=0.188 Sum_probs=39.8
Q ss_pred CCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 82 NSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 82 g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
|..|++-..........|+. .+|..|++...|.+... .-.+.|++.||+++.+++..+
T Consensus 101 g~tLYvTlePC~~Ca~aI~~-~gI~rVvy~~~~~~~~~----~~~~~L~~~Gi~v~~~~~~~~ 158 (168)
T PHA02588 101 GATMYVTASPCPDCAKAIAQ-SGIKKLVYCEKYDRNGP----GWDDILRKSGIEVIQIPKEEL 158 (168)
T ss_pred CcEEEEeCCCcHHHHHHHHH-hCCCEEEEeeccCCCcH----HHHHHHHHCCCEEEEeCHHHH
Confidence 66777776666666665554 69999998877655432 234577788999998765443
No 82
>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=69.31 E-value=36 Score=26.24 Aligned_cols=75 Identities=12% Similarity=0.092 Sum_probs=51.3
Q ss_pred CCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 59 VGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 59 ~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-|+.|--|+.+-+..+.+.+++.|..+.+...+..+ ......+++.|++.... ... ..+ +.+.+.+++++.
T Consensus 14 ~~~~~~~~~~~~~~~i~~~~~~~gy~~~~~~~~~~~---~~l~~~~vdgiIi~~~~-~~~----~~~-~~l~~~~iPvV~ 84 (269)
T cd06287 14 GGPSRLGFMMEVAAAAAESALERGLALCLVPPHEAD---SPLDALDIDGAILVEPM-ADD----PQV-ARLRQRGIPVVS 84 (269)
T ss_pred CCcccCccHHHHHHHHHHHHHHCCCEEEEEeCCCch---hhhhccCcCeEEEecCC-CCC----HHH-HHHHHcCCCEEE
Confidence 367788899999999999999999999887654221 23456789988764321 111 222 234456899988
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 85 i~~~ 88 (269)
T cd06287 85 IGRP 88 (269)
T ss_pred eCCC
Confidence 8653
No 83
>TIGR01670 YrbI-phosphatas 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase, YrbI family. The Methanosarcina sequence is distinctive in that it is linked to an N-terminal cytidylyltransferase domain (pfam02348) and is annotated as acylneuraminate cytidylyltransferase. This may give some clue as the function of these phosphatases. Several eukaryotic sequences scoring between trusted and noise are also closely related to this function such as the CMP-N-acetylneuraminic acid synthetase from mouse, but in these cases the phosphatase domain is clearly inactive as many of the active site residues are not conserved.
Probab=69.21 E-value=27 Score=24.93 Aligned_cols=39 Identities=18% Similarity=0.045 Sum_probs=31.6
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
.=+.|++.|+.+.|..+.+......++++++++..+...
T Consensus 36 ~i~~Lk~~G~~i~IvTn~~~~~~~~~l~~~gi~~~~~~~ 74 (154)
T TIGR01670 36 GIRCALKSGIEVAIITGRKAKLVEDRCKTLGITHLYQGQ 74 (154)
T ss_pred HHHHHHHCCCEEEEEECCCCHHHHHHHHHcCCCEEEecc
Confidence 345566789999999999988888899999998877643
No 84
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=69.02 E-value=59 Score=26.13 Aligned_cols=72 Identities=13% Similarity=0.078 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+.+..+++.+++.|..+.+..++ +. +.+..+.. .+++.|++...- .. ..+..+ +.+.+.|+++..+
T Consensus 38 ~f~~~~~~gi~~~a~~~g~~l~i~~~~~~~~~~~~~i~~l~~-~~vDGiIi~~~~-~~--~~~~~l-~~~~~~~iPvV~i 112 (330)
T PRK10355 38 ERWQKDRDIFVKKAESLGAKVFVQSANGNEETQMSQIENMIN-RGVDVLVIIPYN-GQ--VLSNVI-KEAKQEGIKVLAY 112 (330)
T ss_pred hHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEeCCC-hh--hHHHHH-HHHHHCCCeEEEE
Confidence 488899999999999999999988653 32 33444444 489999876321 11 112223 3445568999988
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 113 d~ 114 (330)
T PRK10355 113 DR 114 (330)
T ss_pred CC
Confidence 64
No 85
>KOG0207|consensus
Probab=69.02 E-value=27 Score=32.68 Aligned_cols=61 Identities=11% Similarity=0.055 Sum_probs=43.4
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-..|++.|+..+++.||....-...+++.|++.||++-- |.++. +.| +.+++.+-.+-.+.
T Consensus 732 v~~Lk~~Gi~v~mLTGDn~~aA~svA~~VGi~~V~aev~--P~~K~--~~I-k~lq~~~~~VaMVG 792 (951)
T KOG0207|consen 732 VAELKSMGIKVVMLTGDNDAAARSVAQQVGIDNVYAEVL--PEQKA--EKI-KEIQKNGGPVAMVG 792 (951)
T ss_pred HHHHHhcCceEEEEcCCCHHHHHHHHHhhCcceEEeccC--chhhH--HHH-HHHHhcCCcEEEEe
Confidence 345677899999999999999999999999999999864 44432 223 33444444444443
No 86
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=69.01 E-value=36 Score=23.60 Aligned_cols=46 Identities=9% Similarity=0.152 Sum_probs=34.9
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccCC
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDPE 115 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~~ 115 (156)
.+.++=++|++.|+++.++.+.+.+.+....+.+++ +.|++..+.+
T Consensus 81 ~~~~~L~~l~~~~~~~~i~Sn~~~~~~~~~l~~~~~~~~f~~i~~~~~~~ 130 (176)
T PF13419_consen 81 GVRELLERLKAKGIPLVIVSNGSRERIERVLERLGLDDYFDEIISSDDVG 130 (176)
T ss_dssp THHHHHHHHHHTTSEEEEEESSEHHHHHHHHHHTTHGGGCSEEEEGGGSS
T ss_pred hhhhhhhhcccccceeEEeecCCcccccccccccccccccccccccchhh
Confidence 345566667778999999998888888888887764 5788777665
No 87
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=68.66 E-value=34 Score=23.22 Aligned_cols=47 Identities=15% Similarity=0.133 Sum_probs=38.2
Q ss_pred HHHHHHHHHHHHHhCCCe---EEEEEcCh-HHHHHHHHHHcCcCeEEEccc
Q psy6650 67 LLQCLEDLDINLRKLNSR---LFVIRGQP-ADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~---L~v~~g~~-~~~l~~l~~~~~~~~V~~~~~ 113 (156)
..+.+..+.+.+.+.|+. ..+..|+| .+.+...+.+.+++.|++-..
T Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~ 122 (154)
T COG0589 72 AEELLAEAKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSR 122 (154)
T ss_pred HHHHHHHHHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCC
Confidence 357777888888888865 56778999 689999999999999988764
No 88
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=67.65 E-value=65 Score=26.13 Aligned_cols=73 Identities=5% Similarity=-0.041 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEE---cChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIR---GQPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~---g~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-|+.+-..-+++..+++|..+.+.. +++.. .+..+++ .+++.|++.. . .....+..++ .+.+.||++..
T Consensus 36 pf~~~~~~Gi~~aa~~~G~~v~~~~~~~~d~~~q~~~i~~li~-~~vdgIiv~~-~--d~~al~~~l~-~a~~~gIpVV~ 110 (336)
T PRK15408 36 GFFTSGGNGAKEAGKELGVDVTYDGPTEPSVSGQVQLINNFVN-QGYNAIIVSA-V--SPDGLCPALK-RAMQRGVKVLT 110 (336)
T ss_pred HHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-cCCCEEEEec-C--CHHHHHHHHH-HHHHCCCeEEE
Confidence 4777888888899999999988632 22332 3455554 5899998852 2 2222233343 34567999999
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 111 ~d~~ 114 (336)
T PRK15408 111 WDSD 114 (336)
T ss_pred eCCC
Confidence 9765
No 89
>TIGR00338 serB phosphoserine phosphatase SerB. Phosphoserine phosphatase catalyzes the reaction 3-phospho-serine + H2O = L-serine + phosphate. It catalyzes the last of three steps in the biosynthesis of serine from D-3-phosphoglycerate. Note that this enzyme acts on free phosphoserine, not on phosphoserine residues of phosphoproteins.
Probab=67.54 E-value=9.7 Score=28.44 Aligned_cols=43 Identities=14% Similarity=0.066 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
.+..++=+.|++.|..+.++.+.....+..+.+..++..++.+
T Consensus 88 ~g~~~~l~~l~~~g~~~~IvS~~~~~~~~~~l~~~~i~~~~~~ 130 (219)
T TIGR00338 88 EGAEELVKTLKEKGYKVAVISGGFDLFAEHVKDKLGLDAAFAN 130 (219)
T ss_pred CCHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHcCCCceEee
Confidence 4566677888889999999999888888889999998887653
No 90
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=67.50 E-value=23 Score=30.27 Aligned_cols=69 Identities=14% Similarity=0.125 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-+-+=|..+.+++++.|...+.... +..+.+.+++++.++..|....+....|.. +...|++.|+++..
T Consensus 48 ~ld~~l~~~~~~~~~~g~~v~~a~t~~eA~~~v~~i~~~~~~~~vv~~kS~~~eeig----l~~~L~~~g~~~~e 118 (432)
T TIGR00273 48 NLDFYLDQLKENVTQRGGHVYYAKTAEEARKIIGKVAQEKNGKKVVKSKSMVSEEIG----LNEVLEKIGIEVWE 118 (432)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHHHHHhCCCEEEEcCchHHHHhC----CHHHHHhCCCeeee
Confidence 3555667778888899998887753 455778899999999999999877666644 34556667877543
No 91
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=67.47 E-value=37 Score=27.53 Aligned_cols=72 Identities=13% Similarity=0.168 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcCh----HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQP----ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-|+.+-+..+.+.|++.|..+.+...+. +....+...+.+++.|++.. .... ....+.+.+.+++++.++
T Consensus 71 ~~~~~i~~gi~~~~~~~gy~~~l~~~~~~~~~e~~~~~~l~~~~vdGiIi~~-~~~~-----~~~~~~l~~~~~P~V~i~ 144 (333)
T COG1609 71 PFFAEILKGIEEAAREAGYSLLLANTDDDPEKEREYLETLLQKRVDGLILLG-ERPN-----DSLLELLAAAGIPVVVID 144 (333)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHHcCCCEEEEec-CCCC-----HHHHHHHHhcCCCEEEEe
Confidence 5888999999999999999999987553 22344556667899988776 2222 122344555689999887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 145 ~~ 146 (333)
T COG1609 145 RS 146 (333)
T ss_pred CC
Confidence 64
No 92
>PRK15122 magnesium-transporting ATPase; Provisional
Probab=67.16 E-value=42 Score=31.36 Aligned_cols=39 Identities=15% Similarity=0.118 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+...+.-++|++.|+...++.||....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~aIA~~lGI~ 590 (903)
T PRK15122 552 KESAAPAIAALRENGVAVKVLTGDNPIVTAKICREVGLE 590 (903)
T ss_pred HHHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 456667777888999999999999999999999999996
No 93
>PRK10517 magnesium-transporting ATPase MgtA; Provisional
Probab=66.85 E-value=50 Score=30.92 Aligned_cols=39 Identities=10% Similarity=0.059 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+...+.-++|++.|+...++.||....-..++++.|+.
T Consensus 552 R~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~ 590 (902)
T PRK10517 552 KETTAPALKALKASGVTVKILTGDSELVAAKVCHEVGLD 590 (902)
T ss_pred hhhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 456667777888999999999999999999999999996
No 94
>COG0742 N6-adenine-specific methylase [DNA replication, recombination, and repair]
Probab=66.62 E-value=32 Score=26.01 Aligned_cols=74 Identities=12% Similarity=0.058 Sum_probs=49.1
Q ss_pred HHHHHHHHHHHhCC--CeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHH-----HHHhCCceEEEecC
Q psy6650 69 QCLEDLDINLRKLN--SRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMT-----LCRELNIEVIARVS 141 (156)
Q Consensus 69 ~sL~~L~~~L~~~g--~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~-----~l~~~~i~~~~~~~ 141 (156)
++..-|+++++.+| ....++.++....|+++......+-||.+-.|...-......+.. +++..++-+...+.
T Consensus 77 ~a~~~l~~N~~~l~~~~~~~~~~~da~~~L~~~~~~~~FDlVflDPPy~~~l~~~~~~~~~~~~~~~L~~~~~iv~E~~~ 156 (187)
T COG0742 77 KAVKILKENLKALGLEGEARVLRNDALRALKQLGTREPFDLVFLDPPYAKGLLDKELALLLLEENGWLKPGALIVVEHDK 156 (187)
T ss_pred HHHHHHHHHHHHhCCccceEEEeecHHHHHHhcCCCCcccEEEeCCCCccchhhHHHHHHHHHhcCCcCCCcEEEEEeCC
Confidence 45666777777777 678888999888888887776688899999887444433333322 34444555555554
Q ss_pred C
Q psy6650 142 H 142 (156)
Q Consensus 142 ~ 142 (156)
.
T Consensus 157 ~ 157 (187)
T COG0742 157 D 157 (187)
T ss_pred C
Confidence 4
No 95
>PRK10530 pyridoxal phosphate (PLP) phosphatase; Provisional
Probab=66.01 E-value=58 Score=24.97 Aligned_cols=66 Identities=9% Similarity=0.224 Sum_probs=42.2
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcCe--EEEcccC------------CchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTTC--LTFEEDP------------EPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~~~------------~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
+|++.|+.+.+..|.+...+..++++.+++. |..|-.+ .+...+...++.+.+++.++.+..+.+.
T Consensus 31 ~~~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~i~d~~~~~~l~~~~l~~~~~~~i~~~~~~~~~~~~~~~~~ 110 (272)
T PRK10530 31 RAREAGYKVIIVTGRHHVAIHPFYQALALDTPAICCNGTYLYDYQAKKVLEADPLPVQQALQVIEMLDEHQIHGLMYVDD 110 (272)
T ss_pred HHHHCCCEEEEEcCCChHHHHHHHHhcCCCCCEEEcCCcEEEecCCCEEEEecCCCHHHHHHHHHHHHhCCcEEEEEcCC
Confidence 3667899999999999888888888876652 2222111 1233445556667777777766555433
No 96
>PRK10671 copA copper exporting ATPase; Provisional
Probab=65.76 E-value=61 Score=29.89 Aligned_cols=64 Identities=19% Similarity=0.095 Sum_probs=44.1
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+.-+.|++.|+.+.++.|+.......++++.+++.++..-. |..+ .+.+++ ++..+-.+..+.|
T Consensus 657 ~~i~~L~~~gi~v~~~Tgd~~~~a~~ia~~lgi~~~~~~~~--p~~K--~~~i~~-l~~~~~~v~~vGD 720 (834)
T PRK10671 657 AALQRLHKAGYRLVMLTGDNPTTANAIAKEAGIDEVIAGVL--PDGK--AEAIKR-LQSQGRQVAMVGD 720 (834)
T ss_pred HHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCCCEEEeCCC--HHHH--HHHHHH-HhhcCCEEEEEeC
Confidence 34466688899999999999999999999999999887643 4332 233433 3334444554543
No 97
>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=65.74 E-value=56 Score=24.66 Aligned_cols=72 Identities=17% Similarity=0.129 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|++... .+. .....+ +.+.+.|+++..++
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~l~~~~~-~~vdgii~~~~-~~~--~~~~~i-~~~~~~~ipvV~~~ 87 (273)
T cd06305 13 FDQAYLAGTKAEAEALGGDLRVYDAGGDDAKQADQIDQAIA-QKVDAIIIQHG-RAE--VLKPWV-KRALDAGIPVVAFD 87 (273)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHHH-cCCCEEEEecC-Chh--hhHHHH-HHHHHcCCCEEEec
Confidence 7778888889999999999888743 343 34444444 48999987532 111 111222 34556799999887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 88 ~~ 89 (273)
T cd06305 88 VD 89 (273)
T ss_pred CC
Confidence 64
No 98
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=65.66 E-value=14 Score=29.67 Aligned_cols=38 Identities=11% Similarity=0.214 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+..+|=+.|+++|+++.|+.|-....+..+.++.++.
T Consensus 124 pG~~efl~~L~~~GIpv~IvS~G~~~~Ie~vL~~lgl~ 161 (277)
T TIGR01544 124 DGYENFFDKLQQHSIPVFIFSAGIGNVLEEVLRQAGVY 161 (277)
T ss_pred cCHHHHHHHHHHCCCcEEEEeCCcHHHHHHHHHHcCCC
Confidence 35667888899999999999998888888888877763
No 99
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=65.55 E-value=64 Score=25.26 Aligned_cols=73 Identities=12% Similarity=0.150 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHH-cCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKE-WKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~-~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+.+..+++.++++|..+.+... +.. +.+..+.++ .+++.|++.... .. ...+.+.+.+.|+++..
T Consensus 13 ~~~~~~~~gi~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~~~~~~vdgiIi~~~~-~~----~~~~~~~~~~~giPvV~ 87 (305)
T cd06324 13 PFWNSVARFMQAAADDLGIELEVLYAERDRFLMLQQARTILQRPDKPDALIFTNEK-SV----APELLRLAEGAGVKLFL 87 (305)
T ss_pred cHHHHHHHHHHHHHHhcCCeEEEEeCCCCHHHHHHHHHHHHHhccCCCEEEEcCCc-cc----hHHHHHHHHhCCCeEEE
Confidence 47778888999999999999887754 232 234444443 189998875321 11 12223445567999998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 88 ~~~~ 91 (305)
T cd06324 88 VNSG 91 (305)
T ss_pred EecC
Confidence 8754
No 100
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=65.49 E-value=59 Score=24.86 Aligned_cols=73 Identities=8% Similarity=0.011 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC-hHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ-PAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+++.+++.|..+.+...+ +.+ .+..+. ..+++.|++...-... ...+.+.+.+.|++++.++
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~~dgiii~~~~~~~----~~~~~~~~~~~~iPvV~~~ 86 (289)
T cd01540 12 PWFQTEWKFAKKAAKEKGFTVVKIDVPDGEKVLSAIDNLG-AQGAKGFVICVPDVKL----GPAIVAKAKAYNMKVVAVD 86 (289)
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEccCCCHHHHHHHHHHHH-HcCCCEEEEccCchhh----hHHHHHHHHhCCCeEEEec
Confidence 366788888999999999998887553 322 233333 3678888875321111 1223344556799999886
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 87 ~~ 88 (289)
T cd01540 87 DR 88 (289)
T ss_pred CC
Confidence 53
No 101
>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=65.48 E-value=56 Score=24.58 Aligned_cols=70 Identities=11% Similarity=0.114 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|..+-+..+.+.+++.|..+.+...+ +. +.+..+.+ .+++.|++...... ..+.+.+++.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~~~------~~~~~~l~~~~iPvv~~ 84 (268)
T cd06273 12 AIFARVIQAFQETLAAHGYTLLVASSGYDLDREYAQARKLLE-RGVDGLALIGLDHS------PALLDLLARRGVPYVAT 84 (268)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEeCCCCC------HHHHHHHHhCCCCEEEE
Confidence 366777788899999999998887532 32 34445554 47888876432211 12223456678999887
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 85 ~~ 86 (268)
T cd06273 85 WN 86 (268)
T ss_pred cC
Confidence 64
No 102
>TIGR01647 ATPase-IIIA_H plasma-membrane proton-efflux P-type ATPase. This model describes the plasma membrane proton efflux P-type ATPase found in plants, fungi, protozoa, slime molds and archaea. The best studied representative is from yeast.
Probab=65.22 E-value=48 Score=30.32 Aligned_cols=39 Identities=10% Similarity=0.063 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
+...+.-++|++.|+...++.||....-..++++.|+..
T Consensus 445 ~~a~~aI~~l~~aGI~v~miTGD~~~tA~~IA~~lGI~~ 483 (755)
T TIGR01647 445 HDTKETIERARHLGVEVKMVTGDHLAIAKETARRLGLGT 483 (755)
T ss_pred hhHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCCC
Confidence 445566667788999999999999999999999999964
No 103
>TIGR01524 ATPase-IIIB_Mg magnesium-translocating P-type ATPase. The magnesium ATPases have been classified as type IIIB by a phylogenetic analysis.
Probab=65.14 E-value=52 Score=30.62 Aligned_cols=39 Identities=13% Similarity=0.096 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+...+.=++|++.|+...++.||....-..++++.|+.
T Consensus 517 R~~~~~aI~~l~~aGI~vvmiTGD~~~tA~aIA~~lGI~ 555 (867)
T TIGR01524 517 KESTKEAIAALFKNGINVKVLTGDNEIVTARICQEVGID 555 (867)
T ss_pred chhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 356666777788899999999999999999999999997
No 104
>TIGR02199 rfaE_dom_II rfaE bifunctional protein, domain II. RfaE is a protein involved in the biosynthesis of ADP-L-glycero-D-manno-heptose, a precursor for LPS inner core biosynthesis. RfaE is a bifunctional protein in E. coli, and separate proteins in some other genome. Domain I (TIGR02198) is suggested to act in D-glycero-D-manno-heptose 1-phosphate biosynthesis, while domain II (this family) adds ADP to yield ADP-D-glycero-D-manno-heptose.
Probab=64.60 E-value=44 Score=23.74 Aligned_cols=102 Identities=17% Similarity=-0.022 Sum_probs=59.1
Q ss_pred ccHHHH-HHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCC-CeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 29 DNPSLR-EGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLN-SRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 29 DN~aL~-~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
-|-.+. .|.+.++.++..+.+||.-.... +.. ..+-++.+=.+.|+++| +..++. .... .-.++++.++++
T Consensus 26 GH~~ll~~a~~~~~~~~v~v~~d~~~~~~k--~~~---~~l~~~eeR~~~l~~~~~VD~vi~-f~~~-~~~~fi~~l~~~ 98 (144)
T TIGR02199 26 GHVSYLQQARALGDRLVVGVNSDASVKRLK--GET---RPINPEEDRAEVLAALSSVDYVVI-FDED-TPEELIGELKPD 98 (144)
T ss_pred HHHHHHHHHHHhCCccEEEEECCcCHHHhC--CCC---CCcCCHHHHHHHHHhcCCCCEEEE-CCCC-CHHHHHHHhCCC
Confidence 344444 44455666777888887422100 111 11345555566677785 876555 3221 124566789999
Q ss_pred eEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 107 CLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 107 ~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.|++..++...... . .+.+++.|.++..+..
T Consensus 99 ~vv~G~d~~~~~~~-~---~~~~~~~g~~v~~~~~ 129 (144)
T TIGR02199 99 ILVKGGDYKVETLV-G---AELVESYGGQVVLLPF 129 (144)
T ss_pred EEEECCCCCCCcch-h---HHHHHHcCCEEEEEeC
Confidence 99999998764421 1 2456667877776654
No 105
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=64.26 E-value=12 Score=28.03 Aligned_cols=38 Identities=5% Similarity=0.063 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
.+.++=+.|++.|+++.++.+.+...+..+.+..++..
T Consensus 96 g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~ 133 (222)
T PRK10826 96 GVREALALCKAQGLKIGLASASPLHMLEAVLTMFDLRD 133 (222)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCcHHHHHHHHHhCcchh
Confidence 36667778889999999999988888887888777544
No 106
>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=64.26 E-value=59 Score=24.43 Aligned_cols=72 Identities=14% Similarity=0.051 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
.|+.+-+..+.+.+++.|..+.+......+...+.....+++.|++... .... ..+ ..+.+.|++++.++..
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~vdgii~~~~-~~~~----~~~-~~~~~~~ipvV~~~~~ 83 (261)
T cd06272 12 VALTELVTGINQAISKNGYNMNVSITPSLAEAEDLFKENRFDGVIIFGE-SASD----VEY-LYKIKLAIPVVSYGVD 83 (261)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEecccHHHHHHHHHHcCcCEEEEeCC-CCCh----HHH-HHHHHcCCCEEEEccc
Confidence 4778888899999999999988876432333334455568998876532 1111 112 3344568999888653
No 107
>KOG1615|consensus
Probab=63.90 E-value=12 Score=28.74 Aligned_cols=43 Identities=12% Similarity=0.222 Sum_probs=35.9
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe--EEEcc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC--LTFEE 112 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~ 112 (156)
++.+|-..|.++|..++++.|--...+.-.+.+.++.. +|+|.
T Consensus 92 Gi~eLv~~L~~~~~~v~liSGGF~~~i~~Va~~Lgi~~~n~yAN~ 136 (227)
T KOG1615|consen 92 GIRELVSRLHARGTQVYLISGGFRQLIEPVAEQLGIPKSNIYANE 136 (227)
T ss_pred CHHHHHHHHHHcCCeEEEEcCChHHHHHHHHHHhCCcHhhhhhhe
Confidence 67888899999999999999988877777888888877 66653
No 108
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=63.78 E-value=62 Score=24.51 Aligned_cols=76 Identities=11% Similarity=0.102 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.++++|..+.+... ++. +.+..+.+ .+++.|++..... .....+....+.+.+.|++++.+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgii~~~~~~-~~~~~~~~~~~~~~~~~ipvV~~ 89 (273)
T cd01541 12 YIFPSIIRGIESVLSEKGYSLLLASTNNDPERERKCLENMLS-QGIDGLIIEPTKS-ALPNPNIDLYLKLEKLGIPYVFI 89 (273)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHH-cCCCEEEEecccc-ccccccHHHHHHHHHCCCCEEEE
Confidence 47778888889999999999988753 332 34555544 5899987753211 00000111223345568999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 90 ~~~ 92 (273)
T cd01541 90 NAS 92 (273)
T ss_pred ecC
Confidence 643
No 109
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=63.13 E-value=24 Score=26.72 Aligned_cols=43 Identities=16% Similarity=0.315 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc---CcCeEEEcc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW---KTTCLTFEE 112 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~---~~~~V~~~~ 112 (156)
.++-|++.|++.|..+.|+.+.+...+..+++.. ++.+|++++
T Consensus 99 a~e~L~~~l~~~G~~v~IvSas~~~~~~~ia~~~~~~~~~~~i~t~ 144 (210)
T TIGR01545 99 VAERLRQYLESSDADIWLITGSPQPLVEAVYFDSNFIHRLNLIASQ 144 (210)
T ss_pred HHHHHHHHHHhCCCEEEEEcCCcHHHHHHHHHhccccccCcEEEEE
Confidence 3344445777789999999999999898898774 446666554
No 110
>TIGR01454 AHBA_synth_RP 3-amino-5-hydroxybenoic acid synthesis related protein. The most closely related enzyme below the noise cutoff is IndB which is involved in the biosynthesis of Indigoidine in Pectobacterium (Erwinia) chrysanthemi, a gamma proteobacter. This enzyme is similarly related to PGP. In this case, too it is unclear what role would be be played by a PGPase activity.
Probab=63.10 E-value=32 Score=25.40 Aligned_cols=45 Identities=11% Similarity=0.087 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEccc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~ 113 (156)
....++=+.|++.|+.+.++.+.....+....+..++ +.|+...+
T Consensus 78 ~g~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~~l~~~f~~i~~~~~ 126 (205)
T TIGR01454 78 PGVPELLAELRADGVGTAIATGKSGPRARSLLEALGLLPLFDHVIGSDE 126 (205)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCchHHHHHHHHHcCChhheeeEEecCc
Confidence 4556666778888999999998887777777777776 44555443
No 111
>PLN02954 phosphoserine phosphatase
Probab=62.95 E-value=14 Score=27.62 Aligned_cols=44 Identities=11% Similarity=0.165 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC--eEEE
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT--CLTF 110 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~--~V~~ 110 (156)
+..++.++-+.|++.|+++.|+.+.+...+..+++.+++. .++.
T Consensus 85 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~~l~~~gi~~~~~~~ 130 (224)
T PLN02954 85 LSPGIPELVKKLRARGTDVYLVSGGFRQMIAPVAAILGIPPENIFA 130 (224)
T ss_pred CCccHHHHHHHHHHCCCEEEEECCCcHHHHHHHHHHhCCChhhEEE
Confidence 3456677788888899999999999988899999998886 4553
No 112
>PLN02770 haloacid dehalogenase-like hydrolase family protein
Probab=62.75 E-value=44 Score=25.73 Aligned_cols=45 Identities=7% Similarity=0.022 Sum_probs=35.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccC
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDP 114 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~ 114 (156)
++.++=+.|++.|+++.|..+.+...+....+..++ +.|++..+.
T Consensus 112 gv~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~gl~~~Fd~iv~~~~~ 160 (248)
T PLN02770 112 GLYKLKKWIEDRGLKRAAVTNAPRENAELMISLLGLSDFFQAVIIGSEC 160 (248)
T ss_pred cHHHHHHHHHHcCCeEEEEeCCCHHHHHHHHHHcCChhhCcEEEecCcC
Confidence 466777788889999999999888888888887764 466666653
No 113
>TIGR03333 salvage_mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase. Members of this family are the methionine salvage enzyme MnxX, a member of the HAD-superfamily hydrolases, subfamily IB (see TIGR01488). Members are found in Bacillus subtilis and related species, paired with MtnW (TIGR03332). In most species that recycle methionine from methylthioadenosine, the single protein MtnC replaces the MtnW/MtnX pair. In B. subtilis, mtnX was first known as ykrX.
Probab=62.61 E-value=18 Score=27.16 Aligned_cols=45 Identities=9% Similarity=0.129 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc-CcCeEEEc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW-KTTCLTFE 111 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~V~~~ 111 (156)
+..++.++-+.|++.|+++.|+.+.....+..+++.+ ....|++|
T Consensus 71 l~pg~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~~~~~~i~~n 116 (214)
T TIGR03333 71 IREGFREFVAFINEHGIPFYVISGGMDFFVYPLLEGIVEKDRIYCN 116 (214)
T ss_pred ccccHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHhhCCcccEEec
Confidence 3456778888888999999999998888888777775 34556553
No 114
>PF08765 Mor: Mor transcription activator family; InterPro: IPR014875 Mor (Middle operon regulator) is a sequence specific DNA binding protein. It mediates transcription activation through its interactions with the C-terminal domains of the alpha and sigma subunits of bacterial RNA polymerase. The N-terminal region of Mor is the dimerisation region, and the C-terminal contains a helix-turn-helix motif which binds DNA []. ; PDB: 1RR7_A.
Probab=62.43 E-value=27 Score=23.62 Aligned_cols=66 Identities=11% Similarity=0.068 Sum_probs=39.9
Q ss_pred HHHHHHHHHHHHHHHHhCC-CeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHH
Q psy6650 64 WRFLLQCLEDLDINLRKLN-SRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLC 129 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l 129 (156)
..+|.+-...+...|.+.| +.=.+..--..++...|++.++-..||+-.........|+..|.+..
T Consensus 4 ~e~l~~l~~~i~~~l~~~g~i~~~~a~~ig~~~~~~L~~~~gG~~iyiP~~~~~~~~~R~~~I~~~f 70 (108)
T PF08765_consen 4 PELLSELADVIAAELERLGEIDAELAEIIGEEVALKLCRYFGGQQIYIPKCDRLLRALRNREIRREF 70 (108)
T ss_dssp HHHHHHHHHHHHHHHHHTS-S-----TTSHHHHHHHHHHHH-SS------SHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHHHHHHHCCEeEEeeCccHHHHHHHHHHHHHHh
Confidence 4556666666778888888 66445555567788899999999999998877667777887777655
No 115
>cd06318 PBP1_ABC_sugar_binding_like_9 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=62.15 E-value=68 Score=24.38 Aligned_cols=72 Identities=14% Similarity=0.152 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+. ..+++.|++.... +.. ....+ +.+.+.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~i~~~~-~~~~Dgiii~~~~-~~~--~~~~i-~~~~~~~iPvV~~ 86 (282)
T cd06318 12 PFFAALTEAAKAHAKALGYELISTDAQGDLTKQIADVEDLL-TRGVNVLIINPVD-PEG--LVPAV-AAAKAAGVPVVVV 86 (282)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHH-HcCCCEEEEecCC-ccc--hHHHH-HHHHHCCCCEEEe
Confidence 57888888999999999999888753 333 2344443 4588888875321 211 11223 3344579999988
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 87 ~~ 88 (282)
T cd06318 87 DS 88 (282)
T ss_pred cC
Confidence 75
No 116
>COG0546 Gph Predicted phosphatases [General function prediction only]
Probab=61.74 E-value=23 Score=26.83 Aligned_cols=41 Identities=17% Similarity=0.223 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL 108 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V 108 (156)
+.++.++=..|++.|+.|-|+.+.+...+..+++.+++...
T Consensus 91 ~~gv~e~L~~L~~~g~~l~i~T~k~~~~~~~~l~~~gl~~~ 131 (220)
T COG0546 91 FPGVKELLAALKSAGYKLGIVTNKPERELDILLKALGLADY 131 (220)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCCcHHHHHHHHHHhCCccc
Confidence 44556677788899999999999999999999998777653
No 117
>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=61.54 E-value=71 Score=24.43 Aligned_cols=69 Identities=16% Similarity=0.298 Sum_probs=44.6
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcC--eEEEcccC-----------CchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTT--CLTFEEDP-----------EPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~--~V~~~~~~-----------~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
++|++.|+.+.+..|.+...+..++++.+.+ .|..|-.+ .+......+++.+.+.+.++.+..+...
T Consensus 26 ~~l~~~G~~~~iaTGR~~~~~~~~~~~~~~~~~~I~~NGa~i~~~~~~~i~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~ 105 (256)
T TIGR00099 26 AKLREKGIKVVLATGRPYKEVKNILKELGLDTPFITANGAAVIDDQGEILYKKPLDLDLVEEILNFLKKHGLDVILYGDD 105 (256)
T ss_pred HHHHHCCCeEEEEeCCCHHHHHHHHHHcCCCCCEEEcCCcEEECCCCCEEeecCCCHHHHHHHHHHHHHcCcEEEEEeCC
Confidence 3456779999999999998888888887765 22222111 1233355566777777777766655444
Q ss_pred ee
Q psy6650 143 TL 144 (156)
Q Consensus 143 ~L 144 (156)
..
T Consensus 106 ~~ 107 (256)
T TIGR00099 106 SI 107 (256)
T ss_pred eE
Confidence 33
No 118
>PRK11590 hypothetical protein; Provisional
Probab=61.39 E-value=28 Score=26.12 Aligned_cols=42 Identities=17% Similarity=0.317 Sum_probs=32.5
Q ss_pred HHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcC---cCeEEEcc
Q psy6650 71 LEDLDINLRKLNSRLFVIRGQPADILPKLFKEWK---TTCLTFEE 112 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~---~~~V~~~~ 112 (156)
.+-|++.|++.|..+.|..+.+...+..+++..+ +++|++++
T Consensus 101 ~e~L~~~l~~~G~~l~IvSas~~~~~~~il~~l~~~~~~~~i~t~ 145 (211)
T PRK11590 101 QERLTTYLLSSDADVWLITGSPQPLVEQVYFDTPWLPRVNLIASQ 145 (211)
T ss_pred HHHHHHHHHhCCCEEEEEeCCcHHHHHHHHHHccccccCceEEEE
Confidence 3344466778899999999999988888888877 46776655
No 119
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=61.12 E-value=69 Score=24.12 Aligned_cols=71 Identities=7% Similarity=0.041 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+...+ .. +.+..+. +.+++.|++.... +.. ..+ +.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~~dgiii~~~~-~~~----~~~-~~~~~~~ipvV~i 84 (270)
T cd06296 12 PWASEVLRGVEEAAAAAGYDVVLSESGRRTSPERQWVERLS-ARRTDGVILVTPE-LTS----AQR-AALRRTGIPFVVV 84 (270)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCchHHHHHHHHHHH-HcCCCEEEEecCC-CCh----HHH-HHHhcCCCCEEEE
Confidence 366677777788888899998887643 22 2334433 4588988765322 111 122 3445578999988
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 85 ~~~ 87 (270)
T cd06296 85 DPA 87 (270)
T ss_pred ecc
Confidence 653
No 120
>COG0656 ARA1 Aldo/keto reductases, related to diketogulonate reductase [General function prediction only]
Probab=60.89 E-value=64 Score=25.99 Aligned_cols=31 Identities=16% Similarity=0.323 Sum_probs=21.1
Q ss_pred EEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 108 LTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 108 V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+.-+-+|.|+.++.+ +...|++.||.+..+.
T Consensus 160 ~~NQIe~hp~~~q~e--l~~~~~~~gI~v~Ays 190 (280)
T COG0656 160 AVNQIEYHPYLRQPE--LLPFCQRHGIAVEAYS 190 (280)
T ss_pred ceEEEEeccCCCcHH--HHHHHHHcCCEEEEEC
Confidence 344445566665554 8888988899888764
No 121
>PF03602 Cons_hypoth95: Conserved hypothetical protein 95; InterPro: IPR004398 This entry contains Ribosomal RNA small subunit methyltransferase D as well as the putative rRNA methyltransferase YlbH. They methylate the guanosine in position 966 of 16S rRNA in the assembled 30S particle [].; GO: 0008168 methyltransferase activity, 0031167 rRNA methylation; PDB: 3P9N_A 2ESR_B 2IFT_A 1WS6_A 2FPO_B 2FHP_A.
Probab=60.80 E-value=24 Score=26.27 Aligned_cols=50 Identities=24% Similarity=0.199 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhCCCe--EEEEEcChHHHHHHHHH-HcCcCeEEEcccCCchh
Q psy6650 69 QCLEDLDINLRKLNSR--LFVIRGQPADILPKLFK-EWKTTCLTFEEDPEPFG 118 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~--L~v~~g~~~~~l~~l~~-~~~~~~V~~~~~~~~~~ 118 (156)
+++..++++++.+|.. ..++.++....+.++.. ....+-||++-.|....
T Consensus 76 ~a~~~i~~N~~~l~~~~~~~v~~~d~~~~l~~~~~~~~~fDiIflDPPY~~~~ 128 (183)
T PF03602_consen 76 KAIKIIKKNLEKLGLEDKIRVIKGDAFKFLLKLAKKGEKFDIIFLDPPYAKGL 128 (183)
T ss_dssp HHHHHHHHHHHHHT-GGGEEEEESSHHHHHHHHHHCTS-EEEEEE--STTSCH
T ss_pred HHHHHHHHHHHHhCCCcceeeeccCHHHHHHhhcccCCCceEEEECCCcccch
Confidence 3445555555555543 78899999999988864 45678899998887654
No 122
>COG4087 Soluble P-type ATPase [General function prediction only]
Probab=60.58 E-value=44 Score=24.15 Aligned_cols=69 Identities=9% Similarity=0.027 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+..+.+--++|..+ +..++..|+....+.++++-.++..=+.-. ..++.+-..+-..|++++-++..+.
T Consensus 32 f~ev~e~iqeL~d~-V~i~IASgDr~gsl~~lae~~gi~~~rv~a---~a~~e~K~~ii~eLkk~~~k~vmVG 100 (152)
T COG4087 32 FSEVSETIQELHDM-VDIYIASGDRKGSLVQLAEFVGIPVERVFA---GADPEMKAKIIRELKKRYEKVVMVG 100 (152)
T ss_pred cHhhHHHHHHHHHh-heEEEecCCcchHHHHHHHHcCCceeeeec---ccCHHHHHHHHHHhcCCCcEEEEec
Confidence 45555566666677 889999999999999999987765433222 2233344455566665555666553
No 123
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=60.34 E-value=53 Score=23.52 Aligned_cols=50 Identities=14% Similarity=0.100 Sum_probs=36.0
Q ss_pred EcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCC
Q psy6650 89 RGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLD 148 (156)
Q Consensus 89 ~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~ 148 (156)
.+++.++|.+.+.+++-..|.+|. ..+++.+.+.||++..+.+..++-.+
T Consensus 83 ~~~aDe~i~~~a~~~~~~iVaTnD----------~eLk~rlr~~GIPvi~lr~r~~~~ie 132 (136)
T COG1412 83 GRYADECLLEAALKHGRYIVATND----------KELKRRLRENGIPVITLRQRKLLIIE 132 (136)
T ss_pred CCChHHHHHHHHHHcCCEEEEeCC----------HHHHHHHHHcCCCEEEEeCCeEEEee
Confidence 456788999999998833344443 56777777789999999866655433
No 124
>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=59.63 E-value=69 Score=23.65 Aligned_cols=77 Identities=18% Similarity=0.302 Sum_probs=51.2
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC-eE-EEcccC-----------CchhHHHHHHHHHHHHhCCce
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT-CL-TFEEDP-----------EPFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-~V-~~~~~~-----------~~~~~~~d~~v~~~l~~~~i~ 135 (156)
+.+..|+ +|++.|+.+.+..|.+...+..+..++++. -+ ++|-.+ .+........+.+.+.+.++.
T Consensus 19 ~~~~al~-~l~~~g~~~~i~TGR~~~~~~~~~~~~~~~~~~I~~nGa~i~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~ 97 (254)
T PF08282_consen 19 ETIEALK-ELQEKGIKLVIATGRSYSSIKRLLKELGIDDYFICSNGALIDDPKGKILYEKPIDSDDVKKILKYLKEHNIS 97 (254)
T ss_dssp HHHHHHH-HHHHTTCEEEEECSSTHHHHHHHHHHTTHCSEEEEGGGTEEEETTTEEEEEESB-HHHHHHHHHHHHHTTCE
T ss_pred HHHHHHH-hhcccceEEEEEccCcccccccccccccchhhhcccccceeeecccccchhhheeccchhheeehhhhcccc
Confidence 3444444 366689999999999999999999988775 22 222111 123455566777788888888
Q ss_pred EEEecCCeeec
Q psy6650 136 VIARVSHTLYD 146 (156)
Q Consensus 136 ~~~~~~~~L~~ 146 (156)
+..+.....+-
T Consensus 98 ~~~~~~~~~~~ 108 (254)
T PF08282_consen 98 FFFYTDDDIYI 108 (254)
T ss_dssp EEEEESSEEEE
T ss_pred cccccceeeec
Confidence 88776654443
No 125
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=59.46 E-value=84 Score=24.57 Aligned_cols=71 Identities=18% Similarity=0.283 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHhC-----CCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKL-----NSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~-----g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-+.+.|.+|.+.+++. +..+++.+ ..+.=|++.+|++.+.....-.....++..++.+.+++.+|++..++
T Consensus 149 ~~~~~L~~l~~~~~~~~~~~~~~~~v~~H----~af~Y~~~~ygl~~~~~~~~~~eps~~~l~~l~~~ik~~~v~~if~e 224 (266)
T cd01018 149 ALLAELDALDSEIRTILSKLKQRAFMVYH----PAWGYFARDYGLTQIPIEEEGKEPSPADLKRLIDLAKEKGVRVVFVQ 224 (266)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCeEEEEC----chhHHHHHHcCCEEEecCCCCCCCCHHHHHHHHHHHHHcCCCEEEEc
Confidence 3445566665555432 22333322 25566777777776544221122234445566666666677766554
No 126
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=59.43 E-value=72 Score=23.85 Aligned_cols=54 Identities=11% Similarity=0.236 Sum_probs=40.5
Q ss_pred HHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHH
Q psy6650 71 LEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIM 126 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~ 126 (156)
+.+.-.++++.|+.++|+..+.+.-+..+++..++.-|+...- |..+.-.++++
T Consensus 51 ~~~W~~e~k~~gi~v~vvSNn~e~RV~~~~~~l~v~fi~~A~K--P~~~~fr~Al~ 104 (175)
T COG2179 51 LRAWLAELKEAGIKVVVVSNNKESRVARAAEKLGVPFIYRAKK--PFGRAFRRALK 104 (175)
T ss_pred HHHHHHHHHhcCCEEEEEeCCCHHHHHhhhhhcCCceeecccC--ccHHHHHHHHH
Confidence 3344456788899999999999999999999999999988775 44444444443
No 127
>PRK13223 phosphoglycolate phosphatase; Provisional
Probab=59.42 E-value=34 Score=26.93 Aligned_cols=39 Identities=18% Similarity=0.244 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+.++.++=+.|++.|+++.++.+.+...+..++++.++.
T Consensus 103 ~~g~~e~L~~Lk~~g~~l~ivTn~~~~~~~~~l~~~~i~ 141 (272)
T PRK13223 103 YPGVRDTLKWLKKQGVEMALITNKPERFVAPLLDQMKIG 141 (272)
T ss_pred CCCHHHHHHHHHHCCCeEEEEECCcHHHHHHHHHHcCcH
Confidence 355566777788889999999998888777777776653
No 128
>cd00384 ALAD_PBGS Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. They either contain a cysteine-rich zinc binding site (consensus DXCXCX(Y/F)X3G(H/Q)CG) or an aspartate-rich magnesium binding site (consensus DXALDX(Y/F)X3G(H/Q)DG). The cyste
Probab=59.29 E-value=99 Score=25.36 Aligned_cols=65 Identities=22% Similarity=0.355 Sum_probs=45.4
Q ss_pred CccccHHHHHHHhcC-----CcceEEEEeCCCCcC---CCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcCh
Q psy6650 26 RMHDNPSLREGLKGC-----TTFRCVFILDPWFAG---SSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQP 92 (156)
Q Consensus 26 Rl~DN~aL~~A~~~~-----~~vi~vfi~d~~~~~---~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~ 92 (156)
|+.-|+++....++. +-+.|+||.+..... ..-.|..| |=.+.|.+.-+++.++|++-+++.|-+
T Consensus 2 RlR~~~~~R~lv~Et~L~~~dLI~PlFV~eg~~~~~~I~sMPG~~r--~s~d~l~~~~~~~~~~Gi~~v~LFgv~ 74 (314)
T cd00384 2 RLRRSPALRDLVRETRLSPDDLIYPLFVVEGIDEKEEISSMPGVYR--LSVDSLVEEAEELADLGIRAVILFGIP 74 (314)
T ss_pred CCCCChHHHHHHHcCCCCHHHceeeEEEecCCCCccccCCCCCcee--eCHHHHHHHHHHHHHCCCCEEEEECCC
Confidence 667788887776532 458999999763221 11234444 445788888888999999999998875
No 129
>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=59.13 E-value=85 Score=24.58 Aligned_cols=71 Identities=13% Similarity=0.253 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH--HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA--DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~--~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+ +.+.+.+++.|++.. .... ...+....+. |++++.++
T Consensus 14 pff~~ii~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i-~~l~~~~vDGiI~~s-~~~~----~~~l~~~~~~-~iPvV~~~ 86 (279)
T PF00532_consen 14 PFFAEIIRGIEQEAREHGYQLLLCNTGDDEEKEEYI-ELLLQRRVDGIILAS-SEND----DEELRRLIKS-GIPVVLID 86 (279)
T ss_dssp HHHHHHHHHHHHHHHHTTCEEEEEEETTTHHHHHHH-HHHHHTTSSEEEEES-SSCT----CHHHHHHHHT-TSEEEEES
T ss_pred cHHHHHHHHHHHHHHHcCCEEEEecCCCchHHHHHH-HHHHhcCCCEEEEec-ccCC----hHHHHHHHHc-CCCEEEEE
Confidence 58899999999999999999988753 222 233 345567899987763 2222 2334445444 89999887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 87 ~~ 88 (279)
T PF00532_consen 87 RY 88 (279)
T ss_dssp S-
T ss_pred ec
Confidence 54
No 130
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=59.11 E-value=84 Score=24.46 Aligned_cols=97 Identities=13% Similarity=0.115 Sum_probs=47.5
Q ss_pred ccccHHHHHHHhcCCc-ceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCe---EEEE-EcC---h------
Q psy6650 27 MHDNPSLREGLKGCTT-FRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSR---LFVI-RGQ---P------ 92 (156)
Q Consensus 27 l~DN~aL~~A~~~~~~-vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~---L~v~-~g~---~------ 92 (156)
+..||+|..+++.... ==.|.++- .+. .-|-+ --.+-|..|-+-+++.|++ ++.+ .|. |
T Consensus 10 ~~~n~~l~~~~~~~k~~~~~lHl~G--LlS--dGGVH---Sh~~Hl~al~~~a~~~gv~~V~vH~f~DGRDt~P~S~~~y 82 (223)
T PF06415_consen 10 FFKNPVLLEAIEHAKKNGGRLHLMG--LLS--DGGVH---SHIDHLFALIKLAKKQGVKKVYVHAFTDGRDTPPKSALKY 82 (223)
T ss_dssp GGTSHHHHHHHHHHCCTT--EEEEE--EES--S-SSS-----HHHHHHHHHHHHHTT-SEEEEEEEE-SSSS-TTTHHHH
T ss_pred cccCHHHHHHHHHHHhcCCeEEEEE--Eec--CCCcc---ccHHHHHHHHHHHHHcCCCEEEEEEecCCCCCCcchHHHH
Confidence 5678888888875321 12444432 111 11111 1235556666666777865 3333 232 1
Q ss_pred HHHHHHHHHHcCcCeE--EEcccCCchhHHHHHHHHHHHH
Q psy6650 93 ADILPKLFKEWKTTCL--TFEEDPEPFGKVRDQNIMTLCR 130 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V--~~~~~~~~~~~~~d~~v~~~l~ 130 (156)
.+.|.+.+++.+...| ++-+.|.-+--+|++++++...
T Consensus 83 l~~l~~~l~~~~~g~IAsv~GRyyaMDRD~rWeRv~~Ay~ 122 (223)
T PF06415_consen 83 LEELEEKLAEIGIGRIASVSGRYYAMDRDKRWERVEKAYD 122 (223)
T ss_dssp HHHHHHHHHHHTCTEEEEEEECCCCT--TS-HHHHHHHHH
T ss_pred HHHHHHHHHhhCCceEEEEeceeeeeccccCHHHHHHHHH
Confidence 2245555556666555 5667777666677777776543
No 131
>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=58.83 E-value=35 Score=22.63 Aligned_cols=46 Identities=11% Similarity=0.143 Sum_probs=37.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC-eEEEc
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT-CLTFE 111 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-~V~~~ 111 (156)
-.+..|.++..++++.|+.++.+.-++.+.+.++.++++.. .++.+
T Consensus 43 ~~l~~l~~~~~~~~~~~~~vi~is~d~~~~~~~~~~~~~~~~~~~~D 89 (124)
T PF00578_consen 43 AELPELNELYKKYKDKGVQVIGISTDDPEEIKQFLEEYGLPFPVLSD 89 (124)
T ss_dssp HHHHHHHHHHHHHHTTTEEEEEEESSSHHHHHHHHHHHTCSSEEEEE
T ss_pred cchhHHHHHhhhhccceEEeeecccccccchhhhhhhhccccccccC
Confidence 34466888888999999999999989988999999988765 34444
No 132
>PRK15126 thiamin pyrimidine pyrophosphate hydrolase; Provisional
Probab=58.59 E-value=84 Score=24.31 Aligned_cols=69 Identities=7% Similarity=0.042 Sum_probs=42.4
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcCe--EEEcccC-----------CchhHHHHHHHHHHHHhCCceEEEecCCe
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTTC--LTFEEDP-----------EPFGKVRDQNIMTLCRELNIEVIARVSHT 143 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~--V~~~~~~-----------~~~~~~~d~~v~~~l~~~~i~~~~~~~~~ 143 (156)
+|++.|+.+.+..|.+...+..++++.+++. |..|-.. .+.......++.+.+.+.++.+..+.+..
T Consensus 30 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~I~~NGa~I~~~~~~~l~~~~i~~~~~~~i~~~~~~~~~~~~~~~~~~ 109 (272)
T PRK15126 30 RLRERDITLTFATGRHVLEMQHILGALSLDAYLITGNGTRVHSLEGELLHRQDLPADVAELVLHQQWDTRASMHVFNDDG 109 (272)
T ss_pred HHHHCCCEEEEECCCCHHHHHHHHHHcCCCCcEEecCCcEEEcCCCCEEEeecCCHHHHHHHHHHhhhcCcEEEEEcCCe
Confidence 3567899999999999988888888877652 2222110 11223444455555555677666665544
Q ss_pred ee
Q psy6650 144 LY 145 (156)
Q Consensus 144 L~ 145 (156)
.+
T Consensus 110 ~~ 111 (272)
T PRK15126 110 WF 111 (272)
T ss_pred EE
Confidence 43
No 133
>cd04185 GT_2_like_b Subfamily of Glycosyltransferase Family GT2 of unknown function. GT-2 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. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=58.41 E-value=67 Score=23.14 Aligned_cols=38 Identities=21% Similarity=0.348 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW 103 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~ 103 (156)
.++.++|..|.++--. ...++|+.+.+.+...+++++.
T Consensus 10 ~~l~~~l~sl~~q~~~-~~eiiivD~~s~d~t~~~~~~~ 47 (202)
T cd04185 10 DLLKECLDALLAQTRP-PDHIIVIDNASTDGTAEWLTSL 47 (202)
T ss_pred HHHHHHHHHHHhccCC-CceEEEEECCCCcchHHHHHHh
Confidence 4666777777554221 3456666544333333444443
No 134
>PF01053 Cys_Met_Meta_PP: Cys/Met metabolism PLP-dependent enzyme; InterPro: IPR000277 Pyridoxal phosphate is the active form of vitamin B6 (pyridoxine or pyridoxal). Pyridoxal 5'-phosphate (PLP) is a versatile catalyst, acting as a coenzyme in a multitude of reactions, including decarboxylation, deamination and transamination [, , ]. PLP-dependent enzymes are primarily involved in the biosynthesis of amino acids and amino acid-derived metabolites, but they are also found in the biosynthetic pathways of amino sugars and in the synthesis or catabolism of neurotransmitters; pyridoxal phosphate can also inhibit DNA polymerases and several steroid receptors []. Inadequate levels of pyridoxal phosphate in the brain can cause neurological dysfunction, particularly epilepsy []. PLP enzymes exist in their resting state as a Schiff base, the aldehyde group of PLP forming a linkage with the epsilon-amino group of an active site lysine residue on the enzyme. The alpha-amino group of the substrate displaces the lysine epsilon-amino group, in the process forming a new aldimine with the substrate. This aldimine is the common central intermediate for all PLP-catalysed reactions, enzymatic and non-enzymatic []. A number of pyridoxal-dependent enzymes involved in the metabolism of cysteine, homocysteine and methionine have been shown [, ] to be evolutionary related. These enzymes are proteins of about 400 amino-acid residues. The pyridoxal-P group is attached to a lysine residue located in the central section of these enzymes.; GO: 0030170 pyridoxal phosphate binding, 0006520 cellular amino acid metabolic process; PDB: 1PFF_A 2NMP_A 3ELP_B 3COG_C 1CS1_A 1E5E_B 3RI6_A 1E5F_A 2FQ6_B 1CL2_B ....
Probab=58.41 E-value=25 Score=29.51 Aligned_cols=67 Identities=16% Similarity=0.191 Sum_probs=45.8
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCC-ceEE
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELN-IEVI 137 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~-i~~~ 137 (156)
+..-+++.|...|+...+......+.|.+.++. +...||++....|. +..-..++.+.+++.| +.+.
T Consensus 107 t~~~~~~~l~~~gv~v~~~d~~d~~~l~~~l~~-~t~~v~~EspsNP~l~v~Dl~~i~~~a~~~g~~~~v 175 (386)
T PF01053_consen 107 TYRLLEELLPRFGVEVTFVDPTDLEALEAALRP-NTKLVFLESPSNPTLEVPDLEAIAKLAKEHGDILVV 175 (386)
T ss_dssp HHHHHHHCHHHTTSEEEEESTTSHHHHHHHHCT-TEEEEEEESSBTTTTB---HHHHHHHHHHTTT-EEE
T ss_pred chhhhhhhhcccCcEEEEeCchhHHHHHhhccc-cceEEEEEcCCCcccccccHHHHHHHHHHhCCceEE
Confidence 444455668888999988877667778777776 67778888776665 3344477778888888 6543
No 135
>TIGR01522 ATPase-IIA2_Ca golgi membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIA based on a phylogenetic analysis which distinguishes this group from the Type IIB PMCA calcium pump modelled by TIGR01517. A separate analysis divides Type IIA into sub-types, SERCA and PMR1 the former of which is modelled by TIGR01116.
Probab=57.57 E-value=91 Score=29.06 Aligned_cols=39 Identities=10% Similarity=0.138 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+...+.=++|++.|+...++.|+....-..++++.|+.
T Consensus 530 r~~~~~~i~~l~~~Gi~v~miTGD~~~tA~~ia~~~Gi~ 568 (884)
T TIGR01522 530 RPGVKEAVTTLITGGVRIIMITGDSQETAVSIARRLGMP 568 (884)
T ss_pred hhHHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCCC
Confidence 356666677778899999999999999999999999986
No 136
>PRK08238 hypothetical protein; Validated
Probab=57.55 E-value=56 Score=28.29 Aligned_cols=46 Identities=7% Similarity=-0.002 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc-CeEEEcccC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT-TCLTFEEDP 114 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-~~V~~~~~~ 114 (156)
+...++=+++++.|.++.+..+.+......+++..++ +.|+..++.
T Consensus 75 pga~e~L~~lk~~G~~v~LaTas~~~~a~~i~~~lGlFd~Vigsd~~ 121 (479)
T PRK08238 75 EEVLDYLRAERAAGRKLVLATASDERLAQAVAAHLGLFDGVFASDGT 121 (479)
T ss_pred hhHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHHHcCCCCEEEeCCCc
Confidence 5566667778899999999999999999999999886 888887654
No 137
>cd03018 PRX_AhpE_like Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater similarity to 2-cys PRXs than 1-cys PRXs. PRXs are thiol-specific antioxidant (TSA) proteins that confer a protective role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. The first step of catalysis is the nucleophilic attack by the peroxidatic cysteine on the peroxide leading to the formation of a cysteine sulfenic acid intermediate. The absence of a resolving cysteine suggests that functional AhpE is regenerated by an external reductant. The solution behavior and crystal structure of AhpE show that it forms dimers and octamers.
Probab=57.34 E-value=55 Score=22.58 Aligned_cols=45 Identities=16% Similarity=-0.039 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
....|.++.+++++.|+.++.+..++.+.+.+++++++..-.+..
T Consensus 47 ~~~~l~~~~~~~~~~~v~vi~vs~d~~~~~~~~~~~~~~~~~~~~ 91 (149)
T cd03018 47 ELCALRDSLELFEAAGAEVLGISVDSPFSLRAWAEENGLTFPLLS 91 (149)
T ss_pred HHHHHHHHHHHHHhCCCEEEEecCCCHHHHHHHHHhcCCCceEec
Confidence 557788888888888999888888888889999998877655544
No 138
>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=56.97 E-value=52 Score=21.76 Aligned_cols=54 Identities=24% Similarity=0.410 Sum_probs=32.4
Q ss_pred CeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 83 SRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 83 ~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
..|+|..|+-.+++...+. .++..|+......+. +.+.+.+++.|+.+.....+
T Consensus 41 ~~lvIt~gdR~di~~~a~~-~~i~~iIltg~~~~~-----~~v~~la~~~~i~vi~t~~d 94 (105)
T PF07085_consen 41 GDLVITPGDREDIQLAAIE-AGIACIILTGGLEPS-----EEVLELAKELGIPVISTPYD 94 (105)
T ss_dssp TEEEEEETT-HHHHHHHCC-TTECEEEEETT---------HHHHHHHHHHT-EEEE-SS-
T ss_pred CeEEEEeCCcHHHHHHHHH-hCCCEEEEeCCCCCC-----HHHHHHHHHCCCEEEEECCC
Confidence 5788888998887765444 468888777655454 35566677778888766543
No 139
>COG0220 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]
Probab=56.94 E-value=24 Score=27.40 Aligned_cols=46 Identities=11% Similarity=0.130 Sum_probs=39.7
Q ss_pred HHHHHHHHHHHhCCC-eEEEEEcChHHHHHHHHHHcCcCeEEEcccC
Q psy6650 69 QCLEDLDINLRKLNS-RLFVIRGQPADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
.++..+-+...+.|+ .+.+..++..+++..+...-.++.||.+..-
T Consensus 83 ~~v~~~l~k~~~~~l~Nlri~~~DA~~~l~~~~~~~sl~~I~i~FPD 129 (227)
T COG0220 83 PGVAKALKKIKELGLKNLRLLCGDAVEVLDYLIPDGSLDKIYINFPD 129 (227)
T ss_pred HHHHHHHHHHHHcCCCcEEEEcCCHHHHHHhcCCCCCeeEEEEECCC
Confidence 577778888889999 9999999999999999988788999888653
No 140
>TIGR02137 HSK-PSP phosphoserine phosphatase/homoserine phosphotransferase bifunctional protein. This enzyme is a member of the haloacid dehalogenase (HAD) superfamily, specifically part of subfamily IB by virtue of the presence of an alpha helical domain in between motifs I and II of the HAD domain . The closest homologs to this family are monofunctional phosphoserine phosphatases (TIGR00338).
Probab=56.92 E-value=15 Score=27.83 Aligned_cols=42 Identities=10% Similarity=0.062 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
....++=+.|++.| ++.|+.|.....+..++++++++.+++|
T Consensus 71 pga~ell~~lk~~~-~~~IVS~~~~~~~~~il~~lgi~~~~an 112 (203)
T TIGR02137 71 EGAVEFVDWLRERF-QVVILSDTFYEFSQPLMRQLGFPTLLCH 112 (203)
T ss_pred ccHHHHHHHHHhCC-eEEEEeCChHHHHHHHHHHcCCchhhce
Confidence 34556777777764 8999999998899999999999988774
No 141
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=56.72 E-value=1.1e+02 Score=24.94 Aligned_cols=75 Identities=9% Similarity=0.218 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHH-c--CcCeEEEcccCCchhHHHHHHHHHHHH-hCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKE-W--KTTCLTFEEDPEPFGKVRDQNIMTLCR-ELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~-~--~~~~V~~~~~~~~~~~~~d~~v~~~l~-~~~i~~~~~~ 140 (156)
|+.+.+..+++.+.. +.-++.+.| -...++..++.+ . ++..|+++....+. ...+.+.+.+. ..|++++.++
T Consensus 2 ~~~~~~~~l~~~v~~-~kVvValSGGVDSsvla~ll~~~~G~~v~av~vd~G~~~~--~E~e~~~~~~~~~lgi~~~vvd 78 (311)
T TIGR00884 2 FIEEAVEEIREQVGD-AKVIIALSGGVDSSVAAVLAHRAIGDRLTCVFVDHGLLRK--GEAEQVVKTFGDRLGLNLVYVD 78 (311)
T ss_pred hHHHHHHHHHHHhCC-CcEEEEecCChHHHHHHHHHHHHhCCCEEEEEEeCCCCCh--HHHHHHHHHHHHHcCCcEEEEe
Confidence 778889999998875 333444555 334455555544 2 56667777655432 23344555554 5799988876
Q ss_pred CCe
Q psy6650 141 SHT 143 (156)
Q Consensus 141 ~~~ 143 (156)
-.-
T Consensus 79 ~~e 81 (311)
T TIGR00884 79 AKE 81 (311)
T ss_pred CcH
Confidence 553
No 142
>COG2131 ComEB Deoxycytidylate deaminase [Nucleotide transport and metabolism]
Probab=56.70 E-value=75 Score=23.55 Aligned_cols=54 Identities=11% Similarity=-0.001 Sum_probs=36.6
Q ss_pred eEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 84 RLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 84 ~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|++-.-.....-..+++ .+|..|++.++|..+. -.......+++.||++..|.
T Consensus 99 tlYvt~~PC~~Cak~Ii~-aGIk~Vvy~~~Y~~~~--~~~~s~~l~~~agv~~~~~~ 152 (164)
T COG2131 99 TLYVTHFPCSNCAKLIIQ-AGIKEVVYAEPYPTET--VAPYSQELLEEAGVKVRQFP 152 (164)
T ss_pred EEEEEecccHHHHHHHHH-hCceEEEeecCCCcch--hhHHHHHHHHhCCceEEecc
Confidence 366655555555544444 5799999999987665 23334456777899998876
No 143
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=56.53 E-value=1.1e+02 Score=25.64 Aligned_cols=67 Identities=9% Similarity=0.083 Sum_probs=43.2
Q ss_pred hHHHHHHHHHHHHHHHHhCCCe----------EEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHH
Q psy6650 63 KWRFLLQCLEDLDINLRKLNSR----------LFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLC 129 (156)
Q Consensus 63 r~~Fl~~sL~~L~~~L~~~g~~----------L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l 129 (156)
|.+|...-+.++++.|+..|+. ++|...++.+++..|..-.||..+.--..+........+.+.+.+
T Consensus 20 R~~fe~~L~~Ni~~~l~~~~~~~~~v~~~~~ri~v~~~~~~~~~~~l~~vfGI~~~s~~~~~~~~~~~i~~~~~~~~ 96 (381)
T PRK08384 20 RRWFENILMNNIREALVSEGIEFKKVEAKHGRILVKTNRAEEAVEVLTRVFGIVSLSPAMEIDAELEKINRTALKLF 96 (381)
T ss_pred HHHHHHHHHHHHHHHHHhcCCccceEEEECCEEEEEcCCHHHHHHHHhhCCCceeEEEEEEeCCCHHHHHHHHHHHH
Confidence 7789988899999999988733 444434444577777888899887544444444333333333333
No 144
>cd03017 PRX_BCP Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing and detoxifying hydroperoxides. The protein was named BCP based on its electrophoretic mobility before its function was known. BCP shows substrate selectivity toward fatty acid hydroperoxides rather than hydrogen peroxide or alkyl hydroperoxides. BCP contains the peroxidatic cysteine but appears not to possess a resolving cysteine (some sequences, not all, contain a second cysteine but its role is still unknown). Unlike other PRXs, BCP exists as a monomer. The plant homolog of BCP is PRX Q, which is expressed only in leaves and is cellularly localized in the chloroplasts and the guard cells of stomata. Also included in this subfamily is the fungal nuclear protein, Dot5p (for disrupter of telomere silencing protein 5), w
Probab=56.28 E-value=61 Score=22.01 Aligned_cols=45 Identities=9% Similarity=0.084 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
....|..+.+++++.|+.++.+.-++.+.+.+++++.++.-.+..
T Consensus 42 ~~~~l~~~~~~~~~~~~~vv~is~d~~~~~~~~~~~~~~~~~~l~ 86 (140)
T cd03017 42 EACDFRDLYEEFKALGAVVIGVSPDSVESHAKFAEKYGLPFPLLS 86 (140)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCceEEE
Confidence 456788888889888999888887788889999998877644443
No 145
>PF10111 Glyco_tranf_2_2: Glycosyltransferase like family 2; InterPro: IPR019290 This conserved domain is found in a set of prokaryotic proteins including putative glucosyltransferases, which are involved in bacterial capsule biosynthesis [, ].
Probab=55.56 E-value=72 Score=25.03 Aligned_cols=76 Identities=16% Similarity=0.051 Sum_probs=40.5
Q ss_pred HHHHHHHHhCCCeEEEEEcChH----HHHHHHHHHcCcCeEEEcccCC---chhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPA----DILPKLFKEWKTTCLTFEEDPE---PFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~V~~~~~~~---~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
..+++....-++.++|+.+... +.|.+++++.+...++.....+ .....|-..++.+ .+=-+...+..++
T Consensus 24 ~~l~~~~~~~~~eiIvvd~~s~~~~~~~l~~~~~~~~~~~~i~~~~~~~~f~~a~arN~g~~~A---~~d~l~flD~D~i 100 (281)
T PF10111_consen 24 ESLSQFQSDPDFEIIVVDDGSSDEFDEELKKLCEKNGFIRYIRHEDNGEPFSRAKARNIGAKYA---RGDYLIFLDADCI 100 (281)
T ss_pred HHHHhcCCCCCEEEEEEECCCchhHHHHHHHHHhccCceEEEEcCCCCCCcCHHHHHHHHHHHc---CCCEEEEEcCCee
Confidence 3333323345778888875443 4577888877766444444333 3333433333222 2333445577788
Q ss_pred ecCCCC
Q psy6650 145 YDLDQL 150 (156)
Q Consensus 145 ~~~~~l 150 (156)
++|+.+
T Consensus 101 ~~~~~i 106 (281)
T PF10111_consen 101 PSPDFI 106 (281)
T ss_pred eCHHHH
Confidence 887654
No 146
>PF07476 MAAL_C: Methylaspartate ammonia-lyase C-terminus; InterPro: IPR022662 Methylaspartate ammonia-lyase 4.3.1.2 from EC catalyses the second step of fermentation of glutamate. It is a homodimer. This domain represents the C-terminal region of methylaspartate ammonia-lyase and contains a TIM barrel fold similar to the PF01188 from PFAM. This domain represents the catalytic domain and contains a metal binding site []. ; PDB: 1KKO_B 1KKR_A 3ZVI_A 1KD0_B 1KCZ_B 3ZVH_A.
Probab=55.54 E-value=1e+02 Score=24.29 Aligned_cols=84 Identities=12% Similarity=0.184 Sum_probs=47.8
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE---cChHHHHHHHHHHcCcCeEEE-cccCCchhHH
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR---GQPADILPKLFKEWKTTCLTF-EEDPEPFGKV 120 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~---g~~~~~l~~l~~~~~~~~V~~-~~~~~~~~~~ 120 (156)
.++|-.|-.. + .| .=..+.|.+|++.|.++|+...++. .++.+-+..++....++-|-. .-+.+.--..
T Consensus 106 ~L~iEgP~d~-----g-~r-~~QI~~l~~Lr~~L~~~g~~v~iVADEWCNT~eDI~~F~da~A~dmVQIKtPDLGgi~nt 178 (248)
T PF07476_consen 106 KLRIEGPMDA-----G-SR-EAQIEALAELREELDRRGINVEIVADEWCNTLEDIREFADAKAADMVQIKTPDLGGINNT 178 (248)
T ss_dssp -EEEE-SB-------S-SH-HHHHHHHHHHHHHHHHCT--EEEEE-TT--SHHHHHHHHHTT-SSEEEE-GGGGSSTHHH
T ss_pred eeeeeCCcCC-----C-Ch-HHHHHHHHHHHHHHHhcCCCCeEEeehhcCCHHHHHHHHhcCCcCEEEecCCCccchhhH
Confidence 7888777432 2 22 3456999999999999999999886 678888888888755555533 2233322211
Q ss_pred HHHHHHHHHHhCCceEE
Q psy6650 121 RDQNIMTLCRELNIEVI 137 (156)
Q Consensus 121 ~d~~v~~~l~~~~i~~~ 137 (156)
.+++ -.|++.|+-..
T Consensus 179 -ieAv-lyCk~~gvgaY 193 (248)
T PF07476_consen 179 -IEAV-LYCKEHGVGAY 193 (248)
T ss_dssp -HHHH-HHHHHTT-EEE
T ss_pred -HHHH-HHHHhcCCcee
Confidence 1222 35777777554
No 147
>PRK11033 zntA zinc/cadmium/mercury/lead-transporting ATPase; Provisional
Probab=55.52 E-value=69 Score=29.24 Aligned_cols=38 Identities=11% Similarity=0.067 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
....+.=++|++.|+...++.|+.......++++.+++
T Consensus 571 ~~a~~~i~~L~~~gi~~~llTGd~~~~a~~ia~~lgi~ 608 (741)
T PRK11033 571 ADARQAISELKALGIKGVMLTGDNPRAAAAIAGELGID 608 (741)
T ss_pred hhHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 45556666777899999999999999999999999997
No 148
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group 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
Probab=55.33 E-value=87 Score=23.50 Aligned_cols=69 Identities=9% Similarity=0.140 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+++.+++.|..+.+..++ +.+ .+.+.+...+++.|++.... .. . +.+.+.|+++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~-~~-------~-~~~~~~gipvv~~~ 82 (265)
T cd06291 12 PFFSELARAVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTHN-LG-------I-EEYENIDLPIVSFD 82 (265)
T ss_pred hhHHHHHHHHHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecCC-cC-------H-HHHhcCCCCEEEEe
Confidence 366677777788899999998887543 322 22233445688888775431 11 1 13345689999887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 83 ~~ 84 (265)
T cd06291 83 RY 84 (265)
T ss_pred CC
Confidence 65
No 149
>COG1751 Uncharacterized conserved protein [Function unknown]
Probab=55.21 E-value=54 Score=24.27 Aligned_cols=69 Identities=13% Similarity=0.097 Sum_probs=46.9
Q ss_pred HHHHHHHHHHHhCCCeEEEE---EcChHHHHHHHHHHcCcCeEEEcccCCc---hhHHHHHHHHHHHHhCCceEEE
Q psy6650 69 QCLEDLDINLRKLNSRLFVI---RGQPADILPKLFKEWKTTCLTFEEDPEP---FGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~---~g~~~~~l~~l~~~~~~~~V~~~~~~~~---~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
+.|.-.-+.-+++||.-+|+ .|.+.--+.++++. +...|.++.++++ .+...+..+++.|+++|..+.+
T Consensus 14 ~tle~a~erA~elgik~~vVAS~tG~tA~k~lemveg-~lkvVvVthh~Gf~e~g~~e~~~E~~~~L~erGa~v~~ 88 (186)
T COG1751 14 ETLEIAVERAKELGIKHIVVASSTGYTALKALEMVEG-DLKVVVVTHHAGFEEKGTQEMDEEVRKELKERGAKVLT 88 (186)
T ss_pred HHHHHHHHHHHhcCcceEEEEecccHHHHHHHHhccc-CceEEEEEeecccccCCceecCHHHHHHHHHcCceeee
Confidence 45555566677889986665 36666555566665 2555666666554 4667889999999999987754
No 150
>PF06574 FAD_syn: FAD synthetase; InterPro: IPR015864 Riboflavin is converted into catalytically active cofactors (FAD and FMN) by the actions of riboflavin kinase (2.7.1.26 from EC), which converts it into FMN, and FAD synthetase (2.7.7.2 from EC), which adenylates FMN to FAD. Eukaryotes usually have two separate enzymes, while most prokaryotes have a single bifunctional protein that can carry out both catalyses, although exceptions occur in both cases. While eukaryotic monofunctional riboflavin kinase is orthologous to the bifunctional prokaryotic enzyme [], the monofunctional FAD synthetase differs from its prokaryotic counterpart, and is instead related to the PAPS-reductase family []. The bacterial FAD synthetase that is part of the bifunctional enzyme has remote similarity to nucleotidyl transferases and, hence, it may be involved in the adenylylation reaction of FAD synthetases []. This entry represents prokaryotic-type FAD synthetase, which occurs primarily as part of a bifunctional enzyme.; GO: 0003919 FMN adenylyltransferase activity, 0009231 riboflavin biosynthetic process; PDB: 2X0K_B 3OP1_B 1T6Z_A 2I1L_A 1T6Y_B 1T6X_B 1S4M_A 1MRZ_A.
Probab=55.06 E-value=11 Score=27.44 Aligned_cols=77 Identities=21% Similarity=0.170 Sum_probs=48.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE--------cChHHHHHHHHH-HcCcCeEEEcccCCc--hhHHHHHHHHHHHHhCCc
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIR--------GQPADILPKLFK-EWKTTCLTFEEDPEP--FGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~--------g~~~~~l~~l~~-~~~~~~V~~~~~~~~--~~~~~d~~v~~~l~~~~i 134 (156)
+.+-++.+=.+.|+++|+..++.. -++.+-+..++. +.++..|++-.++.. ...--.+.+++.+++.|+
T Consensus 59 ~~l~s~~ek~~~l~~~Gvd~~~~~~F~~~~~~ls~~~Fi~~iL~~~l~~~~ivvG~DfrFG~~~~G~~~~L~~~~~~~g~ 138 (157)
T PF06574_consen 59 KLLTSLEEKLELLESLGVDYVIVIPFTEEFANLSPEDFIEKILKEKLNVKHIVVGEDFRFGKNRSGDVELLKELGKEYGF 138 (157)
T ss_dssp GBSS-HHHHHHHHHHTTESEEEEE-CCCHHCCS-HHHHHHHHCCCHCTEEEEEEETT-EESGGGEEEHHHHHHCTTTT-S
T ss_pred cCCCCHHHHHHHHHHcCCCEEEEecchHHHHcCCHHHHHHHHHHhcCCccEEEEccCccCCCCCCCCHHHHHHhcccCce
Confidence 335677777788889999866553 245666777555 899999999888733 222223566677777788
Q ss_pred eEEEecCC
Q psy6650 135 EVIARVSH 142 (156)
Q Consensus 135 ~~~~~~~~ 142 (156)
.++.++..
T Consensus 139 ~v~~v~~~ 146 (157)
T PF06574_consen 139 EVEVVPPV 146 (157)
T ss_dssp EEEEE---
T ss_pred EEEEECCE
Confidence 88877644
No 151
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=54.97 E-value=69 Score=25.28 Aligned_cols=45 Identities=22% Similarity=0.335 Sum_probs=32.6
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+.+.+++++.+++.|+-.. .|+..+.-+.+.+.|++.||++..|.
T Consensus 55 ~~l~~~l~~~~i~~VIDAt--HPfA~~is~~a~~a~~~~~ipylR~e 99 (256)
T TIGR00715 55 QELREFLKRHSIDILVDAT--HPFAAQITTNATAVCKELGIPYVRFE 99 (256)
T ss_pred HHHHHHHHhcCCCEEEEcC--CHHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 3466778877887766554 36777777778888888888888774
No 152
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the 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 a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein 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=54.97 E-value=96 Score=23.91 Aligned_cols=73 Identities=14% Similarity=0.150 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.++++|..+.+..+. +. +.+..+. ..+++.|++.... ... - ..+.+.+.+.|++++.+
T Consensus 12 ~~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~~~--~-~~~l~~l~~~~ipvV~~ 86 (288)
T cd01538 12 ERWIRDRPNFEAALKELGAEVIVQNANGDPAKQISQIENMI-AKGVDVLVIAPVD-GEA--L-ASAVEKAADAGIPVIAY 86 (288)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEECCCCCHHHHHHHHHHHH-HcCCCEEEEecCC-hhh--H-HHHHHHHHHCCCCEEEE
Confidence 577788888899999999999988653 33 2344444 4588988775321 111 1 12223455579999988
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (288)
T cd01538 87 DRL 89 (288)
T ss_pred CCC
Confidence 653
No 153
>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=54.75 E-value=91 Score=23.53 Aligned_cols=75 Identities=9% Similarity=0.080 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHH-HHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKV-RDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|++... .+.... ....+ +.+.+.|++++.
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~~~~~~~~~~i-~~~~~~~ipvV~ 88 (273)
T cd06292 12 PIFPAFAEAIEAALAQYGYTVLLCNTYRGGVSEADYVEDLLA-RGVRGVVFISS-LHADTHADHSHY-ERLAERGLPVVL 88 (273)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHHHHH-cCCCEEEEeCC-CCCcccchhHHH-HHHHhCCCCEEE
Confidence 36677778888888999999877653 222 33444444 57898876431 111111 11222 334456899998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 89 i~~~ 92 (273)
T cd06292 89 VNGR 92 (273)
T ss_pred EcCC
Confidence 8653
No 154
>cd04823 ALAD_PBGS_aspartate_rich Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the biosynthesis of tetrapyrroles, such as heme, vitamin B12 and chlorophyll. This reaction involves the formation of a Schiff base link between the substrate and the enzyme. PBGSs are metalloenzymes, some of which have a second, allosteric metal binding site, beside the metal ion binding site in their active site. Although PBGS is a family of homologous enzymes, its metal ion utilization at catalytic site varies between zinc and magnesium and/or potassium. PBGS can be classified into two groups based on differences in their active site metal binding site. All of PBGS_aspartate_rich contain an aspartate rich metal binding site with the general sequence DXALDX(Y/F)X3G(H/Q)DG. They also contain an allosteric magnesiu
Probab=54.33 E-value=1.2e+02 Score=24.91 Aligned_cols=68 Identities=12% Similarity=0.036 Sum_probs=47.3
Q ss_pred cCCCCccccHHHHHHHhcC-----CcceEEEEeCCCCcCC---CCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC
Q psy6650 22 RKGLRMHDNPSLREGLKGC-----TTFRCVFILDPWFAGS---SNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ 91 (156)
Q Consensus 22 r~DLRl~DN~aL~~A~~~~-----~~vi~vfi~d~~~~~~---~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~ 91 (156)
||-.|+.-|+++....++. +-++|+||.+...... .-.|..| |=.+.|.+.-+++.++|++=+++.|-
T Consensus 1 ~R~RRlR~~~~~R~lv~Et~l~~~dlI~PlFv~e~~~~~~~I~smPg~~r--~s~d~l~~~v~~~~~~Gi~~v~lFgv 76 (320)
T cd04823 1 TRPRRNRRTDALRRLVRETTLSPDDLILPLFVHEGENQREPIPSMPGVFR--LSIDELLKEAEEAVDLGIPAVALFPV 76 (320)
T ss_pred CCCcccCCCHHHHHHHhcCCCCHHHceeeEEEecCCCCccccCCCCCcee--eCHHHHHHHHHHHHHcCCCEEEEecC
Confidence 3456888899998887542 4589999987632211 1224444 44577887788899999998888875
No 155
>TIGR01370 cysRS possible cysteinyl-tRNA synthetase, Methanococcus type. Assignment of this protein family as cysteinyl-tRNA synthetase is controversial, supported by PubMed:11333988 but challenged by PubMed:14679218. Members of this family from Deinococcus radiodurans (bacterial) and Methanococcus jannaschii (archaeal), species lacking a conventional cysteinyl-tRNA synthetase (Cys--tRNA ligase), have been indicated to be a novel form of that enzyme, perhaps distantly related to class I tRNA ligases. The member from Thermotoga maritima is presumed to be a second isozyme of cysteinyl-tRNA synthetase. A number of homologous but more distantly related proteins are annotated as alpha-1,4 polygalactosaminidases.
Probab=54.32 E-value=86 Score=25.66 Aligned_cols=74 Identities=12% Similarity=0.204 Sum_probs=41.6
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHH-------HHHHHcCcCeEEEcccCCchhHHHHHHHH--HHHHhCCceEE
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILP-------KLFKEWKTTCLTFEEDPEPFGKVRDQNIM--TLCRELNIEVI 137 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~-------~l~~~~~~~~V~~~~~~~~~~~~~d~~v~--~~l~~~~i~~~ 137 (156)
+.+.+..|.+.+++++-++.|+--+..+.++ .++....++.||++..-...+..|+..+. +.+++.|+.|.
T Consensus 189 m~~~i~~Ia~~ar~~~P~~~II~NnG~eil~~~~g~~~~~idgV~~Eslf~~~~~~~~e~dr~~~l~~L~~~~~~G~~Vl 268 (315)
T TIGR01370 189 MIAFVCEIAAYARAQNPQFVIIPQNGEELLRDDHGGLAATVSGWAVEELFYYAANRPTEAERQRRLLALYRLWQQGKFVL 268 (315)
T ss_pred HHHHHHHHHHHHHHHCCCEEEEecCchhhhhccccchhhhceEEEecceEEcCCCCCCHHHHHHHHHHHHHHHHCCCcEE
Confidence 5556666666668888887776433344444 34555567788876433333333333332 23445588777
Q ss_pred Eec
Q psy6650 138 ARV 140 (156)
Q Consensus 138 ~~~ 140 (156)
..+
T Consensus 269 ~ID 271 (315)
T TIGR01370 269 TVD 271 (315)
T ss_pred EEE
Confidence 654
No 156
>PF00535 Glycos_transf_2: Glycosyl transferase family 2; InterPro: IPR001173 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. This domain is found in a diverse family of glycosyl transferases that transfer the sugar from UDP-glucose, UDP-N-acetyl-galactosamine, GDP-mannose or CDP-abequose, to a range of substrates including cellulose, dolichol phosphate and teichoic acids.; PDB: 2Z87_A 2Z86_B 2D7R_A 2D7I_A 3CKN_A 3CKQ_A 3CKJ_A 3CKV_A 3CKO_A 2FFU_A ....
Probab=54.23 E-value=64 Score=21.71 Aligned_cols=81 Identities=14% Similarity=0.126 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEcCh----HHHHHHHHHHcCcCeEEEc-ccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRGQP----ADILPKLFKEWKTTCLTFE-EDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~V~~~-~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
..++.++|..|.++ ......++|+...+ .+++.++.+ .+....+.. ..-......+...++..- +=-+..
T Consensus 10 ~~~l~~~l~sl~~q-~~~~~eiivvdd~s~d~~~~~~~~~~~-~~~~i~~i~~~~n~g~~~~~n~~~~~a~---~~~i~~ 84 (169)
T PF00535_consen 10 AEYLERTLESLLKQ-TDPDFEIIVVDDGSTDETEEILEEYAE-SDPNIRYIRNPENLGFSAARNRGIKHAK---GEYILF 84 (169)
T ss_dssp TTTHHHHHHHHHHH-SGCEEEEEEEECS-SSSHHHHHHHHHC-CSTTEEEEEHCCCSHHHHHHHHHHHH-----SSEEEE
T ss_pred HHHHHHHHHHHhhc-cCCCEEEEEeccccccccccccccccc-cccccccccccccccccccccccccccc---eeEEEE
Confidence 35788888888887 55556677776433 334444443 123333333 322244555555444332 334555
Q ss_pred ecCCeeecCCC
Q psy6650 139 RVSHTLYDLDQ 149 (156)
Q Consensus 139 ~~~~~L~~~~~ 149 (156)
.++...++++-
T Consensus 85 ld~D~~~~~~~ 95 (169)
T PF00535_consen 85 LDDDDIISPDW 95 (169)
T ss_dssp EETTEEE-TTH
T ss_pred eCCCceEcHHH
Confidence 67778877763
No 157
>PRK02090 phosphoadenosine phosphosulfate reductase; Provisional
Probab=54.17 E-value=1e+02 Score=23.85 Aligned_cols=70 Identities=16% Similarity=0.136 Sum_probs=42.7
Q ss_pred HHHHHHHHHHhCCCeEEEE--EcChHHHHHHHHHHc--CcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 70 CLEDLDINLRKLNSRLFVI--RGQPADILPKLFKEW--KTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~--~g~~~~~l~~l~~~~--~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
++.-++..+++.|-.+.|. -|....++..|+.+. .+..||++..+.. .+..+-+.+..+..|++++.+..
T Consensus 28 ~~e~i~~a~~~~~~~i~vs~SGGKDS~vlL~L~~~~~~~i~vvfiDTG~~~--pet~e~~~~~~~~~gl~l~v~~~ 101 (241)
T PRK02090 28 AQERLAWALENFGGRLALVSSFGAEDAVLLHLVAQVDPDIPVIFLDTGYLF--PETYRFIDELTERLLLNLKVYRP 101 (241)
T ss_pred HHHHHHHHHHHcCCCEEEEecCCHHHHHHHHHHHhcCCCCcEEEecCCCCC--HHHHHHHHHHHHHhCCCEEEECC
Confidence 4445566666666665554 366677888888875 4677788776643 33334444444555888776643
No 158
>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=54.09 E-value=1e+02 Score=24.04 Aligned_cols=73 Identities=12% Similarity=0.107 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHh--CCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRK--LNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~--~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+.+..+++.+++ .|..+.+..++ +. +.+..+.. .+++.|++... .+. .....+ +.+++.|++++
T Consensus 12 ~~~~~~~~gi~~~a~~~~~g~~~~~~~~~~~~~~q~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~~-~~~~~~giPvV 86 (303)
T cd01539 12 TFISLVRKNLEDIQKENGGKVEFTFYDAKNNQSTQNEQIDTALA-KGVDLLAVNLV-DPT--AAQTVI-NKAKQKNIPVI 86 (303)
T ss_pred hHHHHHHHHHHHHHHhhCCCeeEEEecCCCCHHHHHHHHHHHHH-cCCCEEEEecC-chh--hHHHHH-HHHHHCCCCEE
Confidence 4777778888888888 77777776543 33 34545444 48888876421 121 112223 44556799999
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.++..
T Consensus 87 ~~~~~ 91 (303)
T cd01539 87 FFNRE 91 (303)
T ss_pred EeCCC
Confidence 88754
No 159
>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=53.96 E-value=92 Score=23.39 Aligned_cols=72 Identities=13% Similarity=0.111 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+..+ ++. +.+..+. ..+++.|++... .+. .....+ +.+++.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~~~-~~~vdgiii~~~-~~~--~~~~~~-~~~~~~~ipvV~~ 86 (267)
T cd06322 12 PFYIELANAMKEEAKKQKVNLIVSIANQDLNKQLSDVEDFI-TKKVDAIVLSPV-DSK--GIRAAI-AKAKKAGIPVITV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEecCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Chh--hhHHHH-HHHHHCCCCEEEE
Confidence 58889999999999999999988764 332 3344444 458999887532 111 112223 3345578999988
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 87 ~~ 88 (267)
T cd06322 87 DI 88 (267)
T ss_pred cc
Confidence 64
No 160
>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=53.89 E-value=86 Score=23.04 Aligned_cols=72 Identities=15% Similarity=0.214 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--h---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--P---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|..+-...+++.++++|+.+.+.... + .+.+.++++. +++.|++........ . ....+...|+++..+
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~l~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~~~~~-~----~~~~l~~~~ip~v~~ 85 (264)
T cd01537 12 PFFAQVLKGIEEAAKAAGYQVLLANSQNDAEKQLSALENLIAR-GVDGIIIAPSDLTAP-T----IVKLARKAGIPVVLV 85 (264)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHHHc-CCCEEEEecCCCcch-h----HHHHhhhcCCCEEEe
Confidence 466777788888888899999887543 2 3445555554 788887754322221 1 234455578998887
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 86 ~~~ 88 (264)
T cd01537 86 DRD 88 (264)
T ss_pred ccC
Confidence 654
No 161
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=53.36 E-value=1.1e+02 Score=23.87 Aligned_cols=71 Identities=13% Similarity=0.176 Sum_probs=41.7
Q ss_pred HHHHHHHHhCCCeEEEEEcCh-HHHHHHHHHHcCc--CeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 72 EDLDINLRKLNSRLFVIRGQP-ADILPKLFKEWKT--TCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~-~~~l~~l~~~~~~--~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
..|++-|++.+.-++.+.|-. ..++..++.+.+. ..|+++....+ ..-.+.+++.++..|++.+.++...+
T Consensus 3 ~~l~~~l~~~~~vlVa~SGGvDSs~ll~la~~~g~~v~av~~~~~~~~--~~e~~~a~~~a~~lgi~~~ii~~~~~ 76 (252)
T TIGR00268 3 ENLRNFLKEFKKVLIAYSGGVDSSLLAAVCSDAGTEVLAITVVSPSIS--PRELEDAIIIAKEIGVNHEFVKIDKM 76 (252)
T ss_pred HHHHHHHHhcCCEEEEecCcHHHHHHHHHHHHhCCCEEEEEecCCCCC--HHHHHHHHHHHHHcCCCEEEEEcHHH
Confidence 456677777777677777644 3455556666544 44555432222 22234556677778998887765443
No 162
>TIGR02463 MPGP_rel mannosyl-3-phosphoglycerate phosphatase-related protein. This family consists of members of the HAD superfamily, subfamily IIB. All members are closely related to mannosyl-3-phosphoglycerate phosphatase, the second enzyme in a two-step pathway for biosynthesis of mannosylglycerate, a compatible solute present in some thermophiles and in Dehalococcoides ethenogenes. However, members of this family are separable in a neighbor-joining tree constructed from a multiple sequence alignment and are found only in mesophiles that lack the companion mannosyl-3-phosphoglycerate synthase (TIGR02460). Members of this family are like to act on a compound related to yet distinct from mannosyl-3-phosphoglycerate.
Probab=53.27 E-value=47 Score=24.78 Aligned_cols=29 Identities=17% Similarity=0.130 Sum_probs=25.3
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
|++.|+++.+..|.+...+..++++++..
T Consensus 28 l~~~gi~~~i~TgR~~~~~~~~~~~l~~~ 56 (221)
T TIGR02463 28 LQEAGIPVILCTSKTAAEVEYLQKALGLT 56 (221)
T ss_pred HHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 46689999999999999999899988765
No 163
>PF13277 YmdB: YmdB-like protein; PDB: 2CV9_B 2Z06_C.
Probab=53.26 E-value=16 Score=29.00 Aligned_cols=24 Identities=17% Similarity=0.317 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ 91 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~ 91 (156)
+.+.+.|..|++++ ++.|+|..|+
T Consensus 13 ~~v~~~Lp~L~~~~---~~DfVIaNgE 36 (253)
T PF13277_consen 13 RAVKEHLPELKEEY---GIDFVIANGE 36 (253)
T ss_dssp HHHHHHHHHHGG-----G-SEEEEE-T
T ss_pred HHHHHHHHHHHhhc---CCCEEEECCc
Confidence 34555555555433 5566666654
No 164
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=53.03 E-value=1.1e+02 Score=23.88 Aligned_cols=122 Identities=15% Similarity=0.113 Sum_probs=65.7
Q ss_pred CeEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc----
Q psy6650 15 KHMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG---- 90 (156)
Q Consensus 15 ~~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g---- 90 (156)
.....|-|-+. ..+..|.+.+-..+-+|+--.+.......+.- .....+.+.+.-+..++.|....+-..
T Consensus 62 ~~~~~~~r~~~-----~~v~~a~~~g~~~i~i~~~~s~~~~~~~~~~~-~~~~~~~~~~~i~~a~~~G~~v~~~~~~~~~ 135 (259)
T cd07939 62 ARLIVWCRAVK-----EDIEAALRCGVTAVHISIPVSDIHLAHKLGKD-RAWVLDQLRRLVGRAKDRGLFVSVGAEDASR 135 (259)
T ss_pred CEEEEeccCCH-----HHHHHHHhCCcCEEEEEEecCHHHHHHHhCCC-HHHHHHHHHHHHHHHHHCCCeEEEeeccCCC
Confidence 34556655332 23455665555555565532221111122222 345667777777888889986554321
Q ss_pred ChHHHHHHHHH---HcCcCeEEEcccCCchhHHHHHHHHHHHHhC---CceEEEecCC
Q psy6650 91 QPADILPKLFK---EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL---NIEVIARVSH 142 (156)
Q Consensus 91 ~~~~~l~~l~~---~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~---~i~~~~~~~~ 142 (156)
.+.+.+.++++ +.+++.|+....++.........+-..+++. .+.+|.+++.
T Consensus 136 ~~~~~~~~~~~~~~~~G~~~i~l~DT~G~~~P~~v~~lv~~l~~~~~~~l~~H~Hn~~ 193 (259)
T cd07939 136 ADPDFLIEFAEVAQEAGADRLRFADTVGILDPFTTYELIRRLRAATDLPLEFHAHNDL 193 (259)
T ss_pred CCHHHHHHHHHHHHHCCCCEEEeCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEecCCC
Confidence 23444554554 4689999998888765555554444444332 3555555544
No 165
>PLN02347 GMP synthetase
Probab=52.98 E-value=1.4e+02 Score=26.25 Aligned_cols=78 Identities=12% Similarity=0.212 Sum_probs=49.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHH-c--CcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKE-W--KTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~-~--~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+.+.++++.+.+.+.-++-+.| -...++..++.+ . ++..|+++....+.. +.++..+..+++.|++++.++
T Consensus 213 ~~~~~~i~~i~~~~~~~~~vvvalSGGVDSsvla~l~~~alG~~v~av~id~g~~~~~-E~~~~~~~~a~~lgi~~~vvd 291 (536)
T PLN02347 213 DVLEEQIELIKATVGPDEHVICALSGGVDSTVAATLVHKAIGDRLHCVFVDNGLLRYK-EQERVMETFKRDLHLPVTCVD 291 (536)
T ss_pred hHHHHHHHHHHHHhccCCeEEEEecCChhHHHHHHHHHHHhCCcEEEEEEeCCCCChh-HHHHHHHHHHHHcCCcEEEEe
Confidence 56778888888888766555555665 344566666666 3 566778876554443 233333445556799888876
Q ss_pred CCe
Q psy6650 141 SHT 143 (156)
Q Consensus 141 ~~~ 143 (156)
-.-
T Consensus 292 ~~e 294 (536)
T PLN02347 292 ASE 294 (536)
T ss_pred CcH
Confidence 553
No 166
>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=52.89 E-value=95 Score=23.23 Aligned_cols=71 Identities=4% Similarity=-0.029 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
|+.+-+..+.+.+++.|..+.++.. ++.. .+.+.....+++.|++.... ... ..+ +.+.+.|++++.++.
T Consensus 13 ~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vdgiIi~~~~-~~~----~~~-~~l~~~~ipvV~~~~ 86 (265)
T cd06299 13 YFASLATAIQDAASAAGYSTIIGNSDENPETENRYLDNLLSQRVDGIIVVPHE-QSA----EQL-EDLLKRGIPVVFVDR 86 (265)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHhcCCCEEEEcCCC-CCh----HHH-HHHHhCCCCEEEEec
Confidence 5566677777888889999888753 2322 12223445689988775321 111 123 344557899988865
Q ss_pred C
Q psy6650 142 H 142 (156)
Q Consensus 142 ~ 142 (156)
.
T Consensus 87 ~ 87 (265)
T cd06299 87 E 87 (265)
T ss_pred c
Confidence 3
No 167
>COG0159 TrpA Tryptophan synthase alpha chain [Amino acid transport and metabolism]
Probab=52.78 E-value=39 Score=27.00 Aligned_cols=101 Identities=16% Similarity=0.211 Sum_probs=54.6
Q ss_pred CCCCCCCCCCC-CCeEEEEecCCCCccccHHHHHHHhc---CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHH
Q psy6650 3 PLSTPTNPNST-EKHMVHWFRKGLRMHDNPSLREGLKG---CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINL 78 (156)
Q Consensus 3 ~~~~~~~~~~~-~~~~l~Wfr~DLRl~DN~aL~~A~~~---~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L 78 (156)
|+|-|++.... ......=+++-..+.++.-+....+. .-|++.+..++|-+ ..++..+-+.+
T Consensus 53 PfSDPvADGP~Iq~A~~rAL~~g~t~~~~lel~~~~r~~~~~~Pivlm~Y~Npi~--------------~~Gie~F~~~~ 118 (265)
T COG0159 53 PFSDPVADGPTIQAAHLRALAAGVTLEDTLELVEEIRAKGVKVPIVLMTYYNPIF--------------NYGIEKFLRRA 118 (265)
T ss_pred CCCCcCccCHHHHHHHHHHHHCCCCHHHHHHHHHHHHhcCCCCCEEEEEeccHHH--------------HhhHHHHHHHH
Confidence 67777777542 11123334556677777777777763 23566555566521 12334444555
Q ss_pred HhCCCeEEEEEcCh---HHHHHHHHHHcCcCeEEEcccCCch
Q psy6650 79 RKLNSRLFVIRGQP---ADILPKLFKEWKTTCLTFEEDPEPF 117 (156)
Q Consensus 79 ~~~g~~L~v~~g~~---~~~l~~l~~~~~~~~V~~~~~~~~~ 117 (156)
++.|+.=+++..=| .+.+...+++++++-|+.-...++.
T Consensus 119 ~~~GvdGlivpDLP~ee~~~~~~~~~~~gi~~I~lvaPtt~~ 160 (265)
T COG0159 119 KEAGVDGLLVPDLPPEESDELLKAAEKHGIDPIFLVAPTTPD 160 (265)
T ss_pred HHcCCCEEEeCCCChHHHHHHHHHHHHcCCcEEEEeCCCCCH
Confidence 66666644443222 2245556666677766665555444
No 168
>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=52.73 E-value=99 Score=23.35 Aligned_cols=73 Identities=15% Similarity=0.208 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhC---CC--eEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 65 RFLLQCLEDLDINLRKL---NS--RLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~---g~--~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
.|+.+-+..+.+.++++ |. .+.+..+ ++. +.+.++..+ +++.|+.... .... .+..+ +.+++.|+
T Consensus 12 ~~~~~~~~~i~~~~~~~~~~g~~~~l~i~~~~~~~~~~~~~~~~~~~~-~vdgiIi~~~-~~~~--~~~~l-~~~~~~~i 86 (272)
T cd06300 12 TWRAQMLDEFKAQAKELKKAGLISEFIVTSADGDVAQQIADIRNLIAQ-GVDAIIINPA-SPTA--LNPVI-EEACEAGI 86 (272)
T ss_pred hHHHHHHHHHHHHHHhhhccCCeeEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEEeCC-Chhh--hHHHH-HHHHHCCC
Confidence 57778888888888888 87 5666643 333 344554444 8999987542 1111 11223 34555799
Q ss_pred eEEEecCC
Q psy6650 135 EVIARVSH 142 (156)
Q Consensus 135 ~~~~~~~~ 142 (156)
++..++..
T Consensus 87 Pvv~~~~~ 94 (272)
T cd06300 87 PVVSFDGT 94 (272)
T ss_pred eEEEEecC
Confidence 99988753
No 169
>TIGR03351 PhnX-like phosphonatase-like hydrolase. This clade of sequences are the closest homologs to the PhnX enzyme, phosphonoacetaldehyde (Pald) hydrolase (phosphonatase, TIGR01422). This phosphonatase-like enzyme and PhnX itself are members of the haloacid dehalogenase (HAD) superfamily (pfam00702) having a a number of distinctive features that set them apart from typical HAD enzymes. The typical HAD N-terminal motif DxDx(T/V) here is DxAGT and the usual conserved lysine prior to the C-terminal motif is instead an arginine. Also distinctive of phosphonatase, and particular to its bi-catalytic mechanism is a conserved lysine in the variable "cap" domain. This lysine forms a Schiff base with the aldehyde of phosphonoacetaldehyde, providing, through the resulting positive charge, a polarization of the C-P bond necesary for cleavage as well as a route to the initial product of cleavage, an ene-amine. The conservation of these elements in this phosphonatase-like enzyme suggests that the
Probab=52.63 E-value=56 Score=24.23 Aligned_cols=48 Identities=17% Similarity=0.179 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcC------cCeEEEcccC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWK------TTCLTFEEDP 114 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~------~~~V~~~~~~ 114 (156)
++.++.++=+.|++.|+++.++.+.+.+.+..+.+..+ ++.|++..+.
T Consensus 88 l~~G~~~~L~~L~~~g~~~~ivT~~~~~~~~~~l~~~~l~~~~~f~~i~~~~~~ 141 (220)
T TIGR03351 88 ALPGAEEAFRSLRSSGIKVALTTGFDRDTAERLLEKLGWTVGDDVDAVVCPSDV 141 (220)
T ss_pred cCCCHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHHhhhhhhccCCEEEcCCcC
Confidence 44456677788888899999999888777766666655 4556666553
No 170
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=52.61 E-value=1e+02 Score=23.37 Aligned_cols=73 Identities=12% Similarity=0.092 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc----ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG----QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++.|..+.+... ++. +.+..+.. .+++.|++... ... ..+..+ +.+.+.|+++.
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~-~~~--~~~~~~-~~~~~~~iPvV 86 (275)
T cd06320 12 EFWRSLKEGYENEAKKLGVSVDIQAAPSEGDQQGQLSIAENMIN-KGYKGLLFSPI-SDV--NLVPAV-ERAKKKGIPVV 86 (275)
T ss_pred HHHHHHHHHHHHHHHHhCCeEEEEccCCCCCHHHHHHHHHHHHH-hCCCEEEECCC-ChH--HhHHHH-HHHHHCCCeEE
Confidence 46677778888899999999988742 333 23444444 48898876532 111 112223 34556799999
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.++..
T Consensus 87 ~~~~~ 91 (275)
T cd06320 87 NVNDK 91 (275)
T ss_pred EECCC
Confidence 88653
No 171
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=52.43 E-value=96 Score=23.15 Aligned_cols=73 Identities=12% Similarity=0.168 Sum_probs=45.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+.+..+.+.+++.|..+.+... ++. +.+.++. ..+++.|++.... .......+ +.+.+.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~v~~~~~~~~~~~~~~~~~~~~-~~~~dgii~~~~~---~~~~~~~l-~~l~~~~ipvv~~ 86 (268)
T cd06323 12 PFFVTLKDGAQKEAKELGYELTVLDAQNDAAKQLNDIEDLI-TRGVDAIIINPTD---SDAVVPAV-KAANEAGIPVFTI 86 (268)
T ss_pred HHHHHHHHHHHHHHHHcCceEEecCCCCCHHHHHHHHHHHH-HcCCCEEEEcCCC---hHHHHHHH-HHHHHCCCcEEEE
Confidence 48888889999999999999887743 333 2344433 3578887764221 11111222 3345578999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (268)
T cd06323 87 DRE 89 (268)
T ss_pred ccC
Confidence 653
No 172
>PRK13384 delta-aminolevulinic acid dehydratase; Provisional
Probab=52.38 E-value=1.3e+02 Score=24.72 Aligned_cols=69 Identities=19% Similarity=0.197 Sum_probs=48.8
Q ss_pred cCCCCccccHHHHHHHhcC-----CcceEEEEeCCCCcCC---CCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcCh
Q psy6650 22 RKGLRMHDNPSLREGLKGC-----TTFRCVFILDPWFAGS---SNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQP 92 (156)
Q Consensus 22 r~DLRl~DN~aL~~A~~~~-----~~vi~vfi~d~~~~~~---~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~ 92 (156)
+|--|+.-|+.+...+++. +-++|+||.+...... .-.|..| |=...|.+.-+++.++|++-+++.|-+
T Consensus 8 ~R~RRlR~~~~~R~lv~Et~l~~~dLI~PlFV~eg~~~~~~I~smPg~~r--~sid~l~~~~~~~~~~Gi~~v~lFgv~ 84 (322)
T PRK13384 8 RRLRRLRRSEAMRDLVRETEVSLSDLIYPIFIEEHITDAVPISTLPGISR--LPESALADEIERLYALGIRYVMPFGIS 84 (322)
T ss_pred cCCCcCCCCHHHHHHHhcCCCCHHHceeeEEEecCCCCceecCCCCCcce--ECHHHHHHHHHHHHHcCCCEEEEeCCC
Confidence 5667888899998887542 4589999987632211 1224444 445778888888999999999888864
No 173
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=52.20 E-value=1e+02 Score=23.34 Aligned_cols=73 Identities=8% Similarity=-0.022 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.++++|..+.+... +.. +.+..+.. .+++.|++.... .. .-+..+ +.+.+.|+++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgiIi~~~~-~~--~~~~~i-~~~~~~~iPvV~~ 86 (273)
T cd06309 12 PWRTAETKSIKDAAEKRGFDLKFADAQQKQENQISAIRSFIA-QGVDVIILAPVV-ET--GWDPVL-KEAKAAGIPVILV 86 (273)
T ss_pred HHHHHHHHHHHHHHHhcCCEEEEeCCCCCHHHHHHHHHHHHH-cCCCEEEEcCCc-cc--cchHHH-HHHHHCCCCEEEE
Confidence 58889999999999999999998754 232 23555544 478988774321 11 111223 3345678999988
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (273)
T cd06309 87 DRG 89 (273)
T ss_pred ecC
Confidence 753
No 174
>PRK11133 serB phosphoserine phosphatase; Provisional
Probab=52.00 E-value=38 Score=27.67 Aligned_cols=42 Identities=14% Similarity=0.141 Sum_probs=33.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
++.++=+.|++.|..+.|..|........+.++.+++.++.|
T Consensus 185 Ga~elL~~Lk~~G~~~aIvSgg~~~~~~~l~~~Lgld~~~an 226 (322)
T PRK11133 185 GLTELVLKLQALGWKVAIASGGFTYFADYLRDKLRLDAAVAN 226 (322)
T ss_pred hHHHHHHHHHHcCCEEEEEECCcchhHHHHHHHcCCCeEEEe
Confidence 455666788899999999998877667778888898887764
No 175
>PF04900 Fcf1: Fcf1; InterPro: IPR006984 This family is comprises of uncharacterised eukaryotic proteins.
Probab=51.84 E-value=66 Score=21.25 Aligned_cols=45 Identities=18% Similarity=0.188 Sum_probs=33.0
Q ss_pred cChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHH-hCCceEEEecCCee
Q psy6650 90 GQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCR-ELNIEVIARVSHTL 144 (156)
Q Consensus 90 g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~-~~~i~~~~~~~~~L 144 (156)
+.+.+.|.+++.+.+. .++++. |..+++.+. ..||++..+..+.+
T Consensus 51 ~~addci~~~~~~~~~-~~VaT~---------D~~Lr~~lr~~~GvPvi~l~~~~~ 96 (101)
T PF04900_consen 51 GSADDCILDLAGKNNK-YIVATQ---------DKELRRRLRKIPGVPVIYLRRNVL 96 (101)
T ss_pred cCHHHHHHHHhccCCe-EEEEec---------CHHHHHHHhcCCCCCEEEEECCEE
Confidence 5678899999987766 555554 356777776 67999998876654
No 176
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=51.79 E-value=29 Score=26.14 Aligned_cols=43 Identities=9% Similarity=0.121 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc--CeEEEc
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT--TCLTFE 111 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~--~~V~~~ 111 (156)
..++.++=+.|++.|+++.|+.+.....+..+.+.+ + +.|++|
T Consensus 76 ~pG~~e~l~~l~~~g~~~~IvS~~~~~~i~~il~~~-~~~~~i~~n 120 (219)
T PRK09552 76 REGFHEFVQFVKENNIPFYVVSGGMDFFVYPLLQGL-IPKEQIYCN 120 (219)
T ss_pred CcCHHHHHHHHHHcCCeEEEECCCcHHHHHHHHHHh-CCcCcEEEe
Confidence 456677788889999999999988888888888776 4 346644
No 177
>COG2099 CobK Precorrin-6x reductase [Coenzyme metabolism]
Probab=51.64 E-value=64 Score=25.68 Aligned_cols=46 Identities=20% Similarity=0.186 Sum_probs=33.8
Q ss_pred HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 93 ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.+.+.++.++.+++-|+=..+ ||.-+.-+...+.|++.||++..|.
T Consensus 55 ~e~l~~~l~e~~i~llIDATH--PyAa~iS~Na~~aake~gipy~r~e 100 (257)
T COG2099 55 AEGLAAFLREEGIDLLIDATH--PYAARISQNAARAAKETGIPYLRLE 100 (257)
T ss_pred HHHHHHHHHHcCCCEEEECCC--hHHHHHHHHHHHHHHHhCCcEEEEE
Confidence 356778888888877664443 6777777777788888888887775
No 178
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding.
Probab=51.60 E-value=99 Score=23.06 Aligned_cols=70 Identities=10% Similarity=0.140 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH--HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA--DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~--~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+++.+++.|..+.+... ++. ..+.+.+...+++.|+......+.. +.+.+. .|+++..++
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~------~~~~~~-~~ipvv~~~ 84 (267)
T cd06284 12 PFFSEILKGIEDEAREAGYGVLLGDTRSDPEREQEYLDLLRRKQADGIILLDGSLPPT------ALTALA-KLPPIVQAC 84 (267)
T ss_pred ccHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHHcCCCEEEEecCCCCHH------HHHHHh-cCCCEEEEe
Confidence 46677778888889999999887753 222 2233345556899887754322221 112333 488888775
Q ss_pred C
Q psy6650 141 S 141 (156)
Q Consensus 141 ~ 141 (156)
+
T Consensus 85 ~ 85 (267)
T cd06284 85 E 85 (267)
T ss_pred c
Confidence 4
No 179
>PRK03669 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=51.60 E-value=57 Score=25.41 Aligned_cols=31 Identities=13% Similarity=0.126 Sum_probs=26.5
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
++|++.|+.+.+..|.+...+..++++++++
T Consensus 34 ~~l~~~Gi~~viaTGR~~~~i~~~~~~l~~~ 64 (271)
T PRK03669 34 TRLREAQVPVILCSSKTAAEMLPLQQTLGLQ 64 (271)
T ss_pred HHHHHcCCeEEEEcCCCHHHHHHHHHHhCCC
Confidence 3466789999999999999999999998874
No 180
>PF08444 Gly_acyl_tr_C: Aralkyl acyl-CoA:amino acid N-acyltransferase, C-terminal region; InterPro: IPR013652 This entry represents mammalian-specific glycine N-acyltransferase (also called aralkyl acyl-CoA:amino acid N-acyltransferase; 2.3.1.13 from EC). Mitochondrial acyltransferases catalyse the transfer of an acyl group from acyl-CoA to the N terminus of glycine to produce N-acylglycine. These enzymes can conjugate a multitude of substrates to form a variety of N-acylglycines. The CoA derivatives of a number of aliphatic and aromatic acids, but not phenylacetyl-CoA or (indol-3-yl)acetyl-CoA, can act as donor [, ].
Probab=51.48 E-value=32 Score=22.81 Aligned_cols=47 Identities=15% Similarity=0.109 Sum_probs=38.4
Q ss_pred chHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE
Q psy6650 62 NKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL 108 (156)
Q Consensus 62 ~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V 108 (156)
|+..++..-...+.+.|.++|++++....+.-+...++....+...+
T Consensus 32 R~~G~~~~v~~~~~~~L~~~g~P~Y~hv~~~N~~~~r~~~~lg~~~~ 78 (89)
T PF08444_consen 32 RGQGLMSQVMYHLAQYLHKLGFPFYGHVDEDNEASQRLSKSLGFIFM 78 (89)
T ss_pred hcCCHHHHHHHHHHHHHHHCCCCeEeehHhccHHHHHHHHHCCCeec
Confidence 45668888889999999999999998887777788888888766443
No 181
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=51.46 E-value=24 Score=23.10 Aligned_cols=42 Identities=19% Similarity=0.094 Sum_probs=26.3
Q ss_pred HHHHHHHcCcCeEEEcccCCchhHH-HHHHHHHHHHhCCceEE
Q psy6650 96 LPKLFKEWKTTCLTFEEDPEPFGKV-RDQNIMTLCRELNIEVI 137 (156)
Q Consensus 96 l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~~i~~~ 137 (156)
+.+++++.+++-|+.+......... -...+++.+.+.+|++.
T Consensus 52 i~~~i~~~~IdlVIn~~~~~~~~~~~dg~~irr~a~~~~Ip~~ 94 (95)
T PF02142_consen 52 IMDLIKNGKIDLVINTPYPFSDQEHTDGYKIRRAAVEYNIPLF 94 (95)
T ss_dssp HHHHHHTTSEEEEEEE--THHHHHTHHHHHHHHHHHHTTSHEE
T ss_pred HHHHHHcCCeEEEEEeCCCCcccccCCcHHHHHHHHHcCCCCc
Confidence 6678888888866666544333332 45677777777788764
No 182
>COG0113 HemB Delta-aminolevulinic acid dehydratase [Coenzyme metabolism]
Probab=51.20 E-value=1.4e+02 Score=24.59 Aligned_cols=74 Identities=22% Similarity=0.317 Sum_probs=51.6
Q ss_pred EEecCCCCccccHHHHHHHhc-----CCcceEEEEeCCCCcC---CCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc
Q psy6650 19 HWFRKGLRMHDNPSLREGLKG-----CTTFRCVFILDPWFAG---SSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG 90 (156)
Q Consensus 19 ~Wfr~DLRl~DN~aL~~A~~~-----~~~vi~vfi~d~~~~~---~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g 90 (156)
+-++|=-|+.-|+.+...+++ .+-+.|+||.+-.-.. ..-.|-.| +=...|.+--+++..+|++-+++.|
T Consensus 5 ~~~~R~RRlRk~~~~R~lv~Et~L~~~dLI~PiFV~eg~~~~~~I~SMPgv~r--~s~d~l~~~~~~~~~lGi~av~LFg 82 (330)
T COG0113 5 FPFRRPRRLRKSPALRRLVRETRLTPNDLIYPIFVVEGENIKEEIPSMPGVYR--YSLDRLVEEAEELVDLGIPAVILFG 82 (330)
T ss_pred chhhhhhhccCCHHHHHHHHhcCCCHHHeeEeEEEecCCCCccccCCCCCcee--ccHHHHHHHHHHHHhcCCCEEEEeC
Confidence 345666788888888887764 2558999999753211 11234444 4467777777888999999999998
Q ss_pred ChHH
Q psy6650 91 QPAD 94 (156)
Q Consensus 91 ~~~~ 94 (156)
-|.+
T Consensus 83 vp~~ 86 (330)
T COG0113 83 VPDD 86 (330)
T ss_pred CCcc
Confidence 7754
No 183
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=50.76 E-value=88 Score=22.18 Aligned_cols=50 Identities=10% Similarity=0.179 Sum_probs=29.5
Q ss_pred HHHHHHHHHhCCCeEEEEE------cCh---HH----HHHHHHHHcCcCeEEEcccCCchhHH
Q psy6650 71 LEDLDINLRKLNSRLFVIR------GQP---AD----ILPKLFKEWKTTCLTFEEDPEPFGKV 120 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~------g~~---~~----~l~~l~~~~~~~~V~~~~~~~~~~~~ 120 (156)
+..|.+-+++.++..+|+= |.. .. ....|.+.+++..+++++.++..+-+
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~~v~~~DEr~TT~~A~ 105 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLPLNMDGTEGPRTERARKFANRLEGRFGLPVVLVDERLSTVEAE 105 (138)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCCCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHHHHH
Confidence 5556666666677766652 322 22 23344444578888899888765433
No 184
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=50.67 E-value=24 Score=25.25 Aligned_cols=42 Identities=5% Similarity=0.040 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC----eEEEc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT----CLTFE 111 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~V~~~ 111 (156)
.+.++-+.|++.|+++.+..+.....+..+++..++. .|+.+
T Consensus 76 g~~~ll~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~i~~~ 121 (188)
T TIGR01489 76 GFKEFIAFIKEHGIDFIVISDGNDFFIDPVLEGIGEKDVFIEIYSN 121 (188)
T ss_pred cHHHHHHHHHHcCCcEEEEeCCcHHHHHHHHHHcCChhheeEEecc
Confidence 3555667788889999999988888888888887765 45644
No 185
>COG1778 Low specificity phosphatase (HAD superfamily) [General function prediction only]
Probab=50.66 E-value=35 Score=25.33 Aligned_cols=35 Identities=23% Similarity=0.199 Sum_probs=30.4
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
|.+.|+..-|+.|....++..=+++.+|+.+|.-.
T Consensus 47 l~~~Gi~vAIITGr~s~ive~Ra~~LGI~~~~qG~ 81 (170)
T COG1778 47 LLKSGIKVAIITGRDSPIVEKRAKDLGIKHLYQGI 81 (170)
T ss_pred HHHcCCeEEEEeCCCCHHHHHHHHHcCCceeeech
Confidence 45679999999999999999999999999998754
No 186
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=50.65 E-value=76 Score=21.45 Aligned_cols=68 Identities=9% Similarity=-0.030 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.++.+.+ ++.++++|++..+-.....+ +.......+++.|+.. |.-+-+.+.+++.+...|+++...+
T Consensus 15 Slla~k~---k~~~~e~gi~~~i~a~~~~e-~~~~~~~~~~DvIll~----PQi~~~~~~i~~~~~~~~ipv~~I~ 82 (104)
T PRK09590 15 SMMAKKT---TEYLKEQGKDIEVDAITATE-GEKAIAAAEYDLYLVS----PQTKMYFKQFEEAGAKVGKPVVQIP 82 (104)
T ss_pred HHHHHHH---HHHHHHCCCceEEEEecHHH-HHHhhccCCCCEEEEC----hHHHHHHHHHHHHhhhcCCCEEEeC
Confidence 3565555 66678899998887776654 4444444456766665 4455566778888877889887654
No 187
>COG1692 Calcineurin-like phosphoesterase [General function prediction only]
Probab=50.65 E-value=23 Score=28.19 Aligned_cols=50 Identities=22% Similarity=0.205 Sum_probs=24.4
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
.|++|.++++++-|++|.+-....+-.-.++.+.+.+.|+.+.+...|+.
T Consensus 21 ~Lp~lk~kyk~dfvI~N~ENaa~G~Git~k~y~~l~~~G~dviT~GNH~w 70 (266)
T COG1692 21 HLPQLKSKYKIDFVIVNGENAAGGFGITEKIYKELLEAGADVITLGNHTW 70 (266)
T ss_pred HhHHHHHhhcCcEEEEcCccccCCcCCCHHHHHHHHHhCCCEEecccccc
Confidence 45555555555555555554444333334444444445555555444443
No 188
>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=50.61 E-value=1.1e+02 Score=23.12 Aligned_cols=73 Identities=8% Similarity=0.023 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHh-CCCeEEEEEc--ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRK-LNSRLFVIRG--QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~-~g~~L~v~~g--~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+-+..+.+.+++ .|..+.+..+ ++.. .+..+. ..+++.|++...- . .....+.+.+.+.|+++..
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~---~~~~~~~~~l~~~~iPvv~ 86 (272)
T cd06301 12 NFLTLLRNAMKEHAKVLGGVELQFEDAKNDVATQLSQVENFI-AQGVDAIIVVPVD-T---AATAPIVKAANAAGIPLVY 86 (272)
T ss_pred HHHHHHHHHHHHHHHHcCCcEEEEeCCCCCHHHHHHHHHHHH-HcCCCEEEEecCc-h---hhhHHHHHHHHHCCCeEEE
Confidence 4777777888888888 8999998754 3433 344443 3588988764321 1 1112333455667999998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 87 ~~~~ 90 (272)
T cd06301 87 VNRR 90 (272)
T ss_pred ecCC
Confidence 8653
No 189
>TIGR01517 ATPase-IIB_Ca plasma-membrane calcium-translocating P-type ATPase. The calcium P-type ATPases have been characterized as Type IIB based on a phylogenetic analysis which distinguishes this group from the Type IIA SERCA calcium pump. A separate analysis divides Type IIA into sub-types (SERCA and PMR1), which are modelled by the corresponding TIGR01116 and TIGR01522. This model is well separated from the two others.
Probab=50.59 E-value=1.1e+02 Score=28.84 Aligned_cols=38 Identities=5% Similarity=0.076 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+...+.-+.|++.|+...++.||....-..++++.|+.
T Consensus 582 ~~~~~aI~~l~~aGI~v~miTGD~~~tA~~iA~~~GI~ 619 (941)
T TIGR01517 582 PGVREAVQECQRAGITVRMVTGDNIDTAKAIARNCGIL 619 (941)
T ss_pred hhHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCC
Confidence 45566667778899999999999999999999999985
No 190
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=50.46 E-value=79 Score=21.58 Aligned_cols=58 Identities=16% Similarity=0.200 Sum_probs=36.1
Q ss_pred CCCeEEEEE---cChHHHHHHHHHHcCcCeEEEcccC-Cchh-HHHHHHHHHHHHhCCceEEE
Q psy6650 81 LNSRLFVIR---GQPADILPKLFKEWKTTCLTFEEDP-EPFG-KVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 81 ~g~~L~v~~---g~~~~~l~~l~~~~~~~~V~~~~~~-~~~~-~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|++...+. .+-...+.+++..-.++-|+...+. +... ..-...++..+-+.+|++.+
T Consensus 44 ~Gi~v~~vk~~~~~g~~~i~~~i~~g~i~~VInt~~~~~~~~~~~dg~~iRr~a~~~~Ip~~T 106 (115)
T cd01422 44 TGLTVNRMKSGPLGGDQQIGALIAEGEIDAVIFFRDPLTAQPHEPDVKALLRLCDVYNIPLAT 106 (115)
T ss_pred hCCcEEEEecCCCCchhHHHHHHHcCceeEEEEcCCCCCCCcccccHHHHHHHHHHcCCCEEE
Confidence 466654332 1112345667777788888777654 4444 33356788888888988865
No 191
>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=50.26 E-value=1e+02 Score=22.95 Aligned_cols=70 Identities=16% Similarity=0.233 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--h---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--P---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+...+ + .+.+..++ ..+++.|++...... + ...+.+.+.|+++..+
T Consensus 12 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~-~~~vdgiii~~~~~~-----~-~~~~~~~~~~ipvv~~ 84 (268)
T cd01575 12 SVFADVLQGISDVLEAAGYQLLLGNTGYSPEREEELLRTLL-SRRPAGLILTGLEHT-----E-RTRQLLRAAGIPVVEI 84 (268)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEecCCCCchhHHHHHHHHH-HcCCCEEEEeCCCCC-----H-HHHHHHHhcCCCEEEE
Confidence 366667778888999999998887542 2 23444444 457898877543222 1 1223445568998887
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 85 ~~ 86 (268)
T cd01575 85 MD 86 (268)
T ss_pred ec
Confidence 54
No 192
>TIGR01428 HAD_type_II 2-haloalkanoic acid dehalogenase, type II. Note that the Type I HAD enzymes have not yet been fully characterized, but clearly utilize a substantially different catalytic mechanism and are thus unlikely to be related.
Probab=50.17 E-value=58 Score=23.77 Aligned_cols=47 Identities=13% Similarity=0.070 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccCC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDPE 115 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~~ 115 (156)
..+.++=+.|++.|.++.++.+.+...+..+++..++ +.|++..+++
T Consensus 95 ~~~~~~L~~L~~~g~~~~i~Sn~~~~~~~~~l~~~gl~~~fd~i~~s~~~~ 145 (198)
T TIGR01428 95 PDVPAGLRALKERGYRLAILSNGSPAMLKSLVKHAGLDDPFDAVLSADAVR 145 (198)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHCCChhhhheeEehhhcC
Confidence 4555666678888999999998888888888887765 5677766654
No 193
>PF08032 SpoU_sub_bind: RNA 2'-O ribose methyltransferase substrate binding; InterPro: IPR013123 Most cellular RNAs undergo a number of post-transcriptional nucleoside modifications. While the biological role of many of these modifications is unknown, some have been shown to be necessary for cell growth or for resistance to antibiotics [, ]. One of the most common modifications is 2'O-ribose methylation catalysed by the RNA 2'O-ribose methyltransferases, a large enzyme family that transfer a methyl group from S-adenosyl-L-methionine (AdoMet) to the 2'-OH group of the backbone ribose []. This entry represents a substrate-binding domain found in a variety of bacterial and mitochondrial RNA 2'-O ribose methyltransferases. These include the bacterial enzyme RlmB, which specifically methylates the conserved nucleotide guanosine 2251 in 23S RNA, and PET56, which specifically methylates the equivalent guanosine in mitochondrial 21S RNA [, ]. This domain forms a four-stranded mixed beta sheet similar to that found in other RNA binding enzymes []. It shows considerable conformational flexibility which is thought to be important for its ability to bind RNA.; GO: 0008168 methyltransferase activity; PDB: 1GZ0_D 1IPA_A.
Probab=49.87 E-value=11 Score=23.19 Aligned_cols=48 Identities=21% Similarity=0.150 Sum_probs=26.0
Q ss_pred HHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecC
Q psy6650 97 PKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDL 147 (156)
Q Consensus 97 ~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~ 147 (156)
..|-....+..||+++... . .+.+.+.+.+.+.|+++..++...|-..
T Consensus 10 eaL~~~~~i~~l~~~~~~~-~--~~~~~i~~~~~~~~i~v~~v~~~~l~~l 57 (76)
T PF08032_consen 10 EALKSGPRIKKLFVTEEKA-D--KRIKEILKLAKKKGIPVYEVSKKVLDKL 57 (76)
T ss_dssp HHHHCTGGEEEEEEETT------CCTHHHHHHHHHCT-EEEEE-HHHHHHC
T ss_pred HHHcCCCCccEEEEEcCcc-c--hhHHHHHHHHHHcCCeEEEeCHHHHHHH
Confidence 3344444588888887711 1 1123455666667888888776654443
No 194
>COG0648 Nfo Endonuclease IV [DNA replication, recombination, and repair]
Probab=49.80 E-value=95 Score=25.02 Aligned_cols=81 Identities=17% Similarity=0.198 Sum_probs=47.2
Q ss_pred EEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE-----cC-h
Q psy6650 19 HWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR-----GQ-P 92 (156)
Q Consensus 19 ~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-----g~-~ 92 (156)
+|.+.+++=.+=..+..|++. ...+.+..|-++......+..+..=.+.|.+=-+.+..+|+.+++++ |. .
T Consensus 40 ~~~~~~~~~~~~~~~~~~~~~---~~~i~vHApYlINl~s~~~e~~ekS~~~l~~e~~r~~~lG~~~lv~HpG~~~~~~~ 116 (280)
T COG0648 40 VWISPPLAEDAIELFKAALKD---DVQLSVHAPYLINLASPEKEKVEKSIERLIDEIDRCEQLGAKLLVFHPGSYLGQGK 116 (280)
T ss_pred cccCCCchHHHHHHHHHhhcc---CceEEeecceeecCCCCCHHHHHHHHHHHHHHHHHHHHcCCcEEEECCccccCCCH
Confidence 788888886665666667652 33566666654432222222234444444444555678899999885 22 4
Q ss_pred HHHHHHHHHH
Q psy6650 93 ADILPKLFKE 102 (156)
Q Consensus 93 ~~~l~~l~~~ 102 (156)
.+.+.++++.
T Consensus 117 e~~l~~i~~~ 126 (280)
T COG0648 117 EEGLNRIAEA 126 (280)
T ss_pred HHHHHHHHHH
Confidence 4555555554
No 195
>TIGR03191 benz_CoA_bzdO benzoyl-CoA reductase, bzd-type, O subunit. Members of this family are the O subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=49.68 E-value=51 Score=28.05 Aligned_cols=51 Identities=6% Similarity=0.106 Sum_probs=36.8
Q ss_pred hHHHHHHHHHHcCcCeEEE--cccCCchhHHHHHHHHHHHHhCCceEEEecCCe
Q psy6650 92 PADILPKLFKEWKTTCLTF--EEDPEPFGKVRDQNIMTLCRELNIEVIARVSHT 143 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~--~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~ 143 (156)
-.+.+.+++++++++.|+. +....++....- .+++.+++.||++-.+++..
T Consensus 349 R~~~l~~li~e~~vDGVI~~~~~~C~~~s~e~~-~ik~~l~~~GIP~L~ietD~ 401 (430)
T TIGR03191 349 KSEMMLNIARDWNVDGCMLHLNRGCEGLSIGIM-ENRLAIAKAGIPIMTFEGNM 401 (430)
T ss_pred HHHHHHHHHHHHCCCEEEEcCCCCCccchHhHH-HHHHHHHHcCCCEEEEECCC
Confidence 4678889999999998854 444555544433 46677777899998887763
No 196
>TIGR01422 phosphonatase phosphonoacetaldehyde hydrolase. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases (pfam00702), and contains a modified version of the conserved catalytic motifs of that superfamily: the first motif is usually DxDx(T/V), here it is DxAxT, and in the third motif the normal conserved lysine is instead an arginine. Additionally, the enzyme contains a unique conserved catalytic lysine (B. cereus pos. 53) which is involved in the binding and activation of the substrate through the formation of a Schiff base. The substrate of this enzyme is the product of 2-aminoethylphosphonate (AEP) transaminase, phosphonoacetaldehyde. This degradation pathway for AEP may be related to its toxic properties which are utilized by microorganisms as a chemical warfare agent.
Probab=49.56 E-value=35 Score=26.13 Aligned_cols=45 Identities=11% Similarity=0.057 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc-----CeEEEccc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT-----TCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~-----~~V~~~~~ 113 (156)
.++.++=+.|++.|+++.|..+.+.+.+..+.+..++ +.|+...+
T Consensus 102 pg~~e~L~~L~~~g~~l~IvT~~~~~~~~~~l~~~gl~~~f~d~ii~~~~ 151 (253)
T TIGR01422 102 PGVIEVIAYLRARGIKIGSTTGYTREMMDVVAPEAALQGYRPDYNVTTDD 151 (253)
T ss_pred CCHHHHHHHHHHCCCeEEEECCCcHHHHHHHHHHHHhcCCCCceEEcccc
Confidence 3556777788889999999999988887777765433 44555544
No 197
>PRK11175 universal stress protein UspE; Provisional
Probab=49.53 E-value=1.2e+02 Score=23.59 Aligned_cols=114 Identities=8% Similarity=-0.003 Sum_probs=61.2
Q ss_pred cccHHHHHHHh----cCCcceEEEEeCCCCcCC-CCC-Ccc----hHHHH---HHHHHHHHHHHHhCCCeEE--EE-EcC
Q psy6650 28 HDNPSLREGLK----GCTTFRCVFILDPWFAGS-SNV-GIN----KWRFL---LQCLEDLDINLRKLNSRLF--VI-RGQ 91 (156)
Q Consensus 28 ~DN~aL~~A~~----~~~~vi~vfi~d~~~~~~-~~~-~~~----r~~Fl---~~sL~~L~~~L~~~g~~L~--v~-~g~ 91 (156)
....||..|.. .+..+..+++.++..... ... ... +.... .+.|.+..+.++..|+... +. .|+
T Consensus 15 ~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~v~~~g~ 94 (305)
T PRK11175 15 DDQPALRRAVYLAQRNGGKITAFLPIYDFSYEMTTLLSPDEREAMRQGVISQRTAWIREQAKPYLDAGIPIEIKVVWHNR 94 (305)
T ss_pred cccHHHHHHHHHHHhcCCCEEEEEeccCchhhhhcccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceEEEEecCCC
Confidence 45677877764 345677777764321100 000 011 11111 2234444445556676654 33 589
Q ss_pred hHHHHHHHHHHcCcCeEEEcccCCchhHHH-H-HHHHHHHHhCCceEEEecC
Q psy6650 92 PADILPKLFKEWKTTCLTFEEDPEPFGKVR-D-QNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~-d-~~v~~~l~~~~i~~~~~~~ 141 (156)
+.+.|.+.+++.+++-|++...-....... . ....+.+....+++-.+..
T Consensus 95 ~~~~i~~~a~~~~~DLiV~G~~~~~~~~~~~~gs~~~~l~~~~~~pvlvv~~ 146 (305)
T PRK11175 95 PFEAIIQEVIAGGHDLVVKMTHQHDKLESVIFTPTDWHLLRKCPCPVLMVKD 146 (305)
T ss_pred cHHHHHHHHHhcCCCEEEEeCCCCcHHHhhccChhHHHHHhcCCCCEEEecc
Confidence 999999999999999999986543221111 1 1112344445677776654
No 198
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=49.43 E-value=76 Score=25.32 Aligned_cols=54 Identities=17% Similarity=0.246 Sum_probs=35.3
Q ss_pred eEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 84 RLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 84 ~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+..+..|.. .+..++++-.+.-|+...+.+|.+.. ..+...|++.||++..+.+
T Consensus 130 p~~LvsG~n--~VtkaIekkKAkLVIIA~DVsPie~v--k~LpaLCrk~~VPY~iVkt 183 (263)
T PTZ00222 130 PLAVVTGLQ--EVTRAIEKKQARMVVIANNVDPVELV--LWMPNLCRANKIPYAIVKD 183 (263)
T ss_pred CCeeccCHH--HHHHHHHcCCceEEEEeCCCCHHHHH--HHHHHHHHhcCCCEEEECC
Confidence 456667743 34456666777777888777777653 2355677777887776654
No 199
>cd01018 ZntC Metal binding protein ZntC. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and bind their specific ligands in the cleft between these domains. In addition, many of these proteins possess a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=49.34 E-value=1e+02 Score=24.09 Aligned_cols=41 Identities=12% Similarity=0.134 Sum_probs=20.1
Q ss_pred HHHHHHHHHhCCCeEEEEE-cChHHHHHHHHHHcCcCeEEEc
Q psy6650 71 LEDLDINLRKLNSRLFVIR-GQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
|.++.+.+++.|+..++.. +.+...+..++++.|+..+..+
T Consensus 206 l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld 247 (266)
T cd01018 206 LKRLIDLAKEKGVRVVFVQPQFSTKSAEAIAREIGAKVVTID 247 (266)
T ss_pred HHHHHHHHHHcCCCEEEEcCCCCcHHHHHHHHHcCCeEEEeC
Confidence 4445555555555555543 2233444555555555544443
No 200
>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=49.29 E-value=1.1e+02 Score=22.98 Aligned_cols=71 Identities=13% Similarity=0.156 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.++++|..+.+..++ +. +.+..+.+ .+++.|++.... ... . .+ +.+.+.|++++.+
T Consensus 12 ~~~~~~~~g~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~-~~vdgii~~~~~-~~~-~---~~-~~~~~~~ipvV~~ 84 (268)
T cd06270 12 PFFGPLLSGVESVARKAGKHLIITAGHHSAEKEREAIEFLLE-RRCDALILHSKA-LSD-D---EL-IELAAQVPPLVLI 84 (268)
T ss_pred cchHHHHHHHHHHHHHCCCEEEEEeCCCchHHHHHHHHHHHH-cCCCEEEEecCC-CCH-H---HH-HHHhhCCCCEEEE
Confidence 477788888899999999998887543 22 24444444 589988775321 111 1 13 3344568999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 85 ~~~ 87 (268)
T cd06270 85 NRH 87 (268)
T ss_pred ecc
Confidence 653
No 201
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=49.21 E-value=1.2e+02 Score=23.49 Aligned_cols=73 Identities=14% Similarity=0.201 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEE-Ec--ChHHH---HHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVI-RG--QPADI---LPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~-~g--~~~~~---l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-|+.+-+..+++.+++.|..+.+. .. ++... +..+. ..+++.|++.. ..+ ...+..+ +.+.+.|+++..
T Consensus 12 ~f~~~i~~gi~~~a~~~g~~v~~~~~~~~d~~~~~~~i~~~~-~~~~DgiIi~~-~~~--~~~~~~~-~~~~~~~iPvV~ 86 (298)
T cd06302 12 PYFNRMEEGAKEAAKELGVDAIYVGPTTADAAGQVQIIEDLI-AQGVDAIAVVP-NDP--DALEPVL-KKAREAGIKVVT 86 (298)
T ss_pred hHHHHHHHHHHHHHHHhCCeEEEECCCCCCHHHHHHHHHHHH-hcCCCEEEEec-CCH--HHHHHHH-HHHHHCCCeEEE
Confidence 477788899999999999998875 33 34333 23332 34789998853 222 1122333 334567999998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 87 v~~~ 90 (298)
T cd06302 87 HDSD 90 (298)
T ss_pred EcCC
Confidence 8753
No 202
>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=49.16 E-value=1.2e+02 Score=23.08 Aligned_cols=67 Identities=9% Similarity=-0.037 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
.|+.+-+..+++.+++.|..+.+...+.... ....+++.|++.....+ . ..+.+.+.+++++.++..
T Consensus 17 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~----~~~~~vdgii~~~~~~~------~-~~~~~~~~~~pvV~~~~~ 83 (270)
T cd01544 17 PYYLSIRLGIEKRAQELGIELTKFFRDDDLL----EILEDVDGIIAIGKFSQ------E-QLAKLAKLNPNLVFVDSN 83 (270)
T ss_pred ccHHHHHHHHHHHHHHcCCEEEEEeccchhH----HhccCcCEEEEecCCCH------H-HHHHHHhhCCCEEEECCC
Confidence 3667777888888888999998877643221 13457888875432211 1 223345568888888653
No 203
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=49.15 E-value=90 Score=21.87 Aligned_cols=49 Identities=10% Similarity=0.195 Sum_probs=26.6
Q ss_pred HHHHHHHHHhCCCeEEEE------EcChHH-------HHHHHHHHcCcCeEEEcccCCchhH
Q psy6650 71 LEDLDINLRKLNSRLFVI------RGQPAD-------ILPKLFKEWKTTCLTFEEDPEPFGK 119 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~------~g~~~~-------~l~~l~~~~~~~~V~~~~~~~~~~~ 119 (156)
+..|.+-+++.++..+|+ .|...+ ....|.+.+++...++++.++..+-
T Consensus 37 ~~~l~~~i~~~~~~~iVvGlP~~~dG~~~~~a~~v~~f~~~L~~~~~~~v~~~DEr~TT~~A 98 (130)
T TIGR00250 37 WSRIEELLKEWTPDKIVVGLPLNMDGTEGPLTERAQKFANRLEGRFGVPVVLWDERLSTVEA 98 (130)
T ss_pred HHHHHHHHHHcCCCEEEEeccCCCCcCcCHHHHHHHHHHHHHHHHhCCCEEEEcCCcCHHHH
Confidence 344555555666665554 233222 2334444457777788877766543
No 204
>TIGR01548 HAD-SF-IA-hyp1 haloacid dehalogenase superfamily, subfamily IA hydrolase, TIGR01548. All but the Halobacterium sequence currently found are annotated as "Imidazoleglycerol-phosphate dehydratase", however, the source of the annotation could not be traced and significant homology could not be found between any of these sequences and known IGPD's.
Probab=49.04 E-value=1e+02 Score=22.50 Aligned_cols=35 Identities=17% Similarity=0.225 Sum_probs=27.4
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
++=+.|++.|+++.|..+.+...+..+.+..++..
T Consensus 113 ~~L~~l~~~g~~~~i~T~~~~~~~~~~l~~~gl~~ 147 (197)
T TIGR01548 113 GLLRELHRAPKGMAVVTGRPRKDAAKFLTTHGLEI 147 (197)
T ss_pred HHHHHHHHcCCcEEEECCCCHHHHHHHHHHcCchh
Confidence 33355667899999999999888888888877653
No 205
>cd00221 Vsr Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches.
Probab=48.86 E-value=57 Score=22.52 Aligned_cols=26 Identities=15% Similarity=0.111 Sum_probs=21.4
Q ss_pred hhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 117 FGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 117 ~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
....+|....+.|.+.|-.+..++..
T Consensus 88 ~~~~rD~~r~~~L~~~GW~ViRvw~~ 113 (115)
T cd00221 88 RNVERDRRVQAALERLGWRVLRVWEC 113 (115)
T ss_pred HHHHHHHHHHHHHHHCcCEEEEEeCC
Confidence 56688888888999999999888764
No 206
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=48.52 E-value=42 Score=27.05 Aligned_cols=43 Identities=19% Similarity=0.087 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
+.+..+++-|+..|++.++..++....+..|+++..++.|+.+
T Consensus 128 ~~~~~~~~lL~~~gi~~i~ap~EAdaq~a~l~~~g~v~~i~S~ 170 (316)
T cd00128 128 QMIEEAKELLRLMGIPYIVAPYEAEAQCAYLAKKGLVDAIITE 170 (316)
T ss_pred HHHHHHHHHHHHcCCCEEECCcCHHHHHHHHHhCCCeeEEEec
Confidence 3456677777888888888777777777777766555556553
No 207
>PRK10513 sugar phosphate phosphatase; Provisional
Probab=48.52 E-value=1.2e+02 Score=23.22 Aligned_cols=69 Identities=20% Similarity=0.270 Sum_probs=41.9
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcC-----eEEEcccC------------CchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTT-----CLTFEEDP------------EPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~-----~V~~~~~~------------~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+|++.|+.+.+..|.+...+..+.++.+.+ .|..|-.+ .+........+.+.+++.++.+..+
T Consensus 31 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~~~~~~~I~~NGa~i~~~~~~~~i~~~~l~~~~~~~i~~~~~~~~~~~~~~ 110 (270)
T PRK10513 31 AARAKGVNVVLTTGRPYAGVHRYLKELHMEQPGDYCITNNGALVQKAADGETVAQTALSYDDYLYLEKLSREVGVHFHAL 110 (270)
T ss_pred HHHHCCCEEEEecCCChHHHHHHHHHhCCCCCCCeEEEcCCeEEEECCCCCEEEecCCCHHHHHHHHHHHHHcCCcEEEE
Confidence 356789999999999998888888887764 22222111 0112233345556666667766665
Q ss_pred cCCeee
Q psy6650 140 VSHTLY 145 (156)
Q Consensus 140 ~~~~L~ 145 (156)
.....+
T Consensus 111 ~~~~~~ 116 (270)
T PRK10513 111 DRNTLY 116 (270)
T ss_pred ECCEEE
Confidence 544433
No 208
>cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a single-stranded DNA molecule coated with RecA to allow invasion of a homologous molecule. The RecFOR system directs the loading of RecA onto gapped DNA coated with SSB protein. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). In RecR sequences this glutamate in the first turn of the TOPRIM domain is semiconserved, the DXD motif is not conserved.
Probab=48.31 E-value=89 Score=21.56 Aligned_cols=46 Identities=15% Similarity=0.213 Sum_probs=34.7
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+.|.+.+++.++..|+..-.++.+....-.-+.+.++..++++...
T Consensus 46 ~~L~~ri~~~~i~EVIlA~~pt~EGe~Ta~yi~~~l~~~~~kvsRl 91 (112)
T cd01025 46 DKLLERIAKGQVKEVILATNPTVEGEATALYIAKLLKDFGVKVTRL 91 (112)
T ss_pred HHHHHHHhcCCCcEEEEecCCCchHHHHHHHHHHHHhHcCCCeEEE
Confidence 3455566666788898888888888888888888888777777654
No 209
>TIGR03025 EPS_sugtrans exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase. Certain closely related transferase enzymes such as Sinorhizobium ExoY and Lactococcus EpsD lack the N-terminal domain and are not found by this model.
Probab=48.27 E-value=62 Score=27.26 Aligned_cols=46 Identities=15% Similarity=0.166 Sum_probs=33.0
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+.+.+++++++++.|+...... ..++..++.+.|++.|+++....+
T Consensus 178 ~~l~~~i~~~~id~ViIa~p~~--~~~~~~~ll~~~~~~gv~V~~vP~ 223 (445)
T TIGR03025 178 DDLVELVRAHRVDEVIIALPLS--EEARILELLLQLRDLGVDVRLVPD 223 (445)
T ss_pred HHHHHHHHhCCCCEEEEecCcc--cHHHHHHHHHHHHhcCCEEEEeCc
Confidence 4578899999999998875432 233445667788888888876654
No 210
>PF12683 DUF3798: Protein of unknown function (DUF3798); InterPro: IPR024258 This entry represents functionally uncharacterised proteins that are found in bacteria. They are typically between 247 and 417 amino acids in length. Most of the proteins in this entry have an N-terminal lipoprotein attachment site. These proteins have distant similarity to periplasmic ligand binding families suggesting that this family has a similar role.; PDB: 3QI7_A.
Probab=48.05 E-value=72 Score=25.64 Aligned_cols=45 Identities=13% Similarity=0.138 Sum_probs=29.8
Q ss_pred HHHHHHHHcCcCeE---EEcccCCchhH-HHHHHHHHHHHhCCceEEEe
Q psy6650 95 ILPKLFKEWKTTCL---TFEEDPEPFGK-VRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 95 ~l~~l~~~~~~~~V---~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~~ 139 (156)
.+...+++.|++.. .+.++...... +|-+.+++.|++.|++|+..
T Consensus 121 ~i~~~Ak~mGAktFVh~sfprhms~~~l~~Rr~~M~~~C~~lGi~fv~~ 169 (275)
T PF12683_consen 121 TIVWAAKKMGAKTFVHYSFPRHMSYELLARRRDIMEEACKDLGIKFVEV 169 (275)
T ss_dssp HHHHHHHHTT-S-EEEEEETTGGGSHHHHHHHHHHHHHHHHCT--EEEE
T ss_pred HHHHHHHHcCCceEEEEechhhcchHHHHHHHHHHHHHHHHcCCeEEEE
Confidence 57788899998754 46777765544 44455677899999999876
No 211
>PRK00919 GMP synthase subunit B; Validated
Probab=47.94 E-value=1.5e+02 Score=24.10 Aligned_cols=74 Identities=9% Similarity=0.197 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC-hHHHHHHHHHH-c--CcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ-PADILPKLFKE-W--KTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~-~--~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+-+.+..|++.+.. +.-++.+.|- ...++..++.+ . ++..|+++...-+ ....+.+++.+++. +++..++
T Consensus 6 ~~~~~~~~~l~~~~~~-~kVlVa~SGGVDSsvla~la~~~lG~~v~aV~vD~G~~~--~~E~e~a~~~~~~~-i~~~vvd 81 (307)
T PRK00919 6 KFIEEAIEEIREEIGD-GKAIIALSGGVDSSVAAVLAHRAIGDRLTPVFVDTGLMR--KGETERIKETFSDM-LNLRIVD 81 (307)
T ss_pred HHHHHHHHHHHHHhCC-CCEEEEecCCHHHHHHHHHHHHHhCCeEEEEEEECCCCC--HHHHHHHHHHHhcc-CCcEEEE
Confidence 6899999999999976 5555556653 33455556654 3 4566677755432 23344566666654 5555554
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
-.
T Consensus 82 ~~ 83 (307)
T PRK00919 82 AK 83 (307)
T ss_pred CC
Confidence 33
No 212
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=47.76 E-value=57 Score=21.97 Aligned_cols=59 Identities=12% Similarity=0.049 Sum_probs=31.1
Q ss_pred HhCCCeEEEEE-cC--hHHHHHHHHHH-cCcCeEEEcccCCch---hHHHHHHHHHHHHhCCceEEE
Q psy6650 79 RKLNSRLFVIR-GQ--PADILPKLFKE-WKTTCLTFEEDPEPF---GKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 79 ~~~g~~L~v~~-g~--~~~~l~~l~~~-~~~~~V~~~~~~~~~---~~~~d~~v~~~l~~~~i~~~~ 138 (156)
++.|++...+. +. -...+.+++.+ .+++-|+.... +.. ...-...+++.+-+.||++.+
T Consensus 39 ~~~Gi~~~~v~~~~~~g~~~i~~~i~~~g~idlVIn~~~-~~~~~~~~~dg~~iRR~A~~~~Ip~~T 104 (112)
T cd00532 39 ADAGIPVRAVSKRHEDGEPTVDAAIAEKGKFDVVINLRD-PRRDRCTDEDGTALLRLARLYKIPVTT 104 (112)
T ss_pred HHcCCceEEEEecCCCCCcHHHHHHhCCCCEEEEEEcCC-CCcccccCCChHHHHHHHHHcCCCEEE
Confidence 34566655432 11 11234566666 67777765433 111 222245666777777887765
No 213
>PRK00074 guaA GMP synthase; Reviewed
Probab=47.63 E-value=1.4e+02 Score=25.93 Aligned_cols=75 Identities=11% Similarity=0.258 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHHc---CcCeEEEcccCCchhHHHHHHHHH-HHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKEW---KTTCLTFEEDPEPFGKVRDQNIMT-LCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~---~~~~V~~~~~~~~~~~~~d~~v~~-~l~~~~i~~~~~ 139 (156)
.|+.+.+..|++.++. +.-++-+.| -...++..++.+. ++..|+++....+. .+. +.+.+ .++..|++++.+
T Consensus 200 ~~~~~~~~~l~~~v~~-~~vlva~SGGvDS~vll~ll~~~lg~~v~av~vd~g~~~~-~e~-~~~~~~~a~~lgi~~~vv 276 (511)
T PRK00074 200 NFIEEAIEEIREQVGD-KKVILGLSGGVDSSVAAVLLHKAIGDQLTCVFVDHGLLRK-NEA-EQVMEMFREHFGLNLIHV 276 (511)
T ss_pred HHHHHHHHHHHHhcCC-CcEEEEeCCCccHHHHHHHHHHHhCCceEEEEEeCCCCCH-HHH-HHHHHHHHHHcCCcEEEE
Confidence 4667777888877775 222333444 4444555555543 56677777655332 233 33444 457779998877
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+-.
T Consensus 277 d~~ 279 (511)
T PRK00074 277 DAS 279 (511)
T ss_pred ccH
Confidence 654
No 214
>PLN02781 Probable caffeoyl-CoA O-methyltransferase
Probab=47.56 E-value=1.3e+02 Score=23.16 Aligned_cols=64 Identities=13% Similarity=0.136 Sum_probs=41.4
Q ss_pred HHHHHHHHHHhCCC--eEEEEEcChHHHHHHHHHH---cCcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 70 CLEDLDINLRKLNS--RLFVIRGQPADILPKLFKE---WKTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 70 sL~~L~~~L~~~g~--~L~v~~g~~~~~l~~l~~~---~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
.+...++.+++.|. ...++.|+..+.|++++.+ ...+-||++..-..+..-. ..+...++..|+
T Consensus 105 ~~~~A~~n~~~~gl~~~i~~~~gda~~~L~~l~~~~~~~~fD~VfiDa~k~~y~~~~-~~~~~ll~~GG~ 173 (234)
T PLN02781 105 AYEVGLEFIKKAGVDHKINFIQSDALSALDQLLNNDPKPEFDFAFVDADKPNYVHFH-EQLLKLVKVGGI 173 (234)
T ss_pred HHHHHHHHHHHcCCCCcEEEEEccHHHHHHHHHhCCCCCCCCEEEECCCHHHHHHHH-HHHHHhcCCCeE
Confidence 34455666666675 4788899999999998765 3688899986654444322 334445543344
No 215
>cd08185 Fe-ADH1 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenases-like (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase fold and is a member of the iron-containing alcohol dehydrogenase-like family. They are distinct from other alcohol dehydrogenases which contain different protein domains. Proteins of this family have not been characterized. Their specific function is unknown. They are present in bacteria and archaea.
Probab=47.56 E-value=1.6e+02 Score=24.30 Aligned_cols=23 Identities=17% Similarity=0.304 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQ 91 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~ 91 (156)
.++.+|.+.+++.|.+..|+.|.
T Consensus 12 g~l~~l~~~~~~~g~r~livt~~ 34 (380)
T cd08185 12 GKLNELGEEALKPGKKALIVTGN 34 (380)
T ss_pred CHHHHHHHHHHhcCCeEEEEeCC
Confidence 34555666666666555555543
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=47.30 E-value=1.2e+02 Score=22.81 Aligned_cols=72 Identities=11% Similarity=0.095 Sum_probs=46.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEE----cChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIR----GQPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~----g~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++.|..+.+.. +++.. .+..+.. .+++.|++... ........+ +.+.+.|++++
T Consensus 12 ~~~~~~~~g~~~~~~~~g~~~~~~~~~~~~~~~~~~~~i~~l~~-~~vdgvii~~~---~~~~~~~~l-~~~~~~~ipvV 86 (273)
T cd06310 12 DFWQAVKAGAEAAAKELGVKVTFQGPASETDVAGQVNLLENAIA-RGPDAILLAPT---DAKALVPPL-KEAKDAGIPVV 86 (273)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCccCCCHHHHHHHHHHHHH-hCCCEEEEcCC---ChhhhHHHH-HHHHHCCCCEE
Confidence 5778888889999999999999875 34433 2334433 58998887532 111112233 34455789998
Q ss_pred EecC
Q psy6650 138 ARVS 141 (156)
Q Consensus 138 ~~~~ 141 (156)
.++.
T Consensus 87 ~~~~ 90 (273)
T cd06310 87 LIDS 90 (273)
T ss_pred EecC
Confidence 8864
No 217
>TIGR03190 benz_CoA_bzdN benzoyl-CoA reductase, bzd-type, N subunit. Members of this family are the N subunit of one of two related types of four-subunit ATP-dependent benzoyl-CoA reductase. This enzyme system catalyzes the dearomatization of benzoyl-CoA, a common intermediate in pathways for the degradation for a number of different aromatic compounds, such as phenol and toluene.
Probab=47.23 E-value=62 Score=26.90 Aligned_cols=51 Identities=14% Similarity=0.051 Sum_probs=35.2
Q ss_pred HHHHHHHHHHcCcCeEEE--cccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 93 ADILPKLFKEWKTTCLTF--EEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~--~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
.+.|.+++++++++.|+. .....++.... ..+++.+++.||++..+++..-
T Consensus 302 ~~~i~~lv~~~~~DGVI~~~~kfC~~~~~e~-~~lk~~l~e~GIP~L~iE~D~~ 354 (377)
T TIGR03190 302 YDHVLGLAKEYNVQGAIFLQQKFCDPHEGDY-PDLKRHLEANGIPTLFLEFDIT 354 (377)
T ss_pred HHHHHHHHHHhCCCEEEEecccCCCcchhhh-HHHHHHHHHCCCCEEEEecCCC
Confidence 467888999999998854 34444544433 3466777888999988876643
No 218
>TIGR00282 metallophosphoesterase, MG_246/BB_0505 family. A member of this family from Mycoplasma Pneumoniae has been crystallized and described as a novel phosphatase.
Probab=47.15 E-value=27 Score=27.83 Aligned_cols=42 Identities=17% Similarity=0.319 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcCh--------HHHHHHHHHHcCcCeEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQP--------ADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~--------~~~l~~l~~~~~~~~V~~ 110 (156)
+.+.+.|.+|+++. ...|.|..|+. .+... ...+.+++.+..
T Consensus 16 ~~l~~~L~~lk~~~---~~D~vIaNgEn~~gG~Gi~~~~~~-~L~~~GvDviT~ 65 (266)
T TIGR00282 16 KIVKNNLPQLKSKY---QADLVIANGENTTHGKGLTLKIYE-FLKQSGVNYITM 65 (266)
T ss_pred HHHHHHHHHHHHhC---CCCEEEEcCcccCCCCCCCHHHHH-HHHhcCCCEEEc
Confidence 45556666666543 35566665432 22332 333456666644
No 219
>KOG3167|consensus
Probab=47.12 E-value=33 Score=24.73 Aligned_cols=45 Identities=22% Similarity=0.290 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcCh--HH---HHHHHHHHcCcCeEEE
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQP--AD---ILPKLFKEWKTTCLTF 110 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~--~~---~l~~l~~~~~~~~V~~ 110 (156)
=|..++.+.++.+++=--.|.|+.|+. .+ .|+.||+..++--||.
T Consensus 59 ~lrrGvKevqK~vrkGeKGl~VlAgd~sPiDvi~HlP~lCEd~~vPYvy~ 108 (153)
T KOG3167|consen 59 GLRRGVKEVQKRVRKGEKGLCVLAGDTSPIDVITHLPALCEDRGVPYVYT 108 (153)
T ss_pred hHHHHHHHHHHHHhcCCcceEEEecCCccHHHHhccchhhhccCCCcccc
Confidence 388999999999998767799999874 34 4688888877655554
No 220
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=47.06 E-value=68 Score=23.52 Aligned_cols=44 Identities=18% Similarity=0.143 Sum_probs=31.8
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEccc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEED 113 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~ 113 (156)
++.++=+.|++.|+++.|..+.+...+..+.+..++ +.|+...+
T Consensus 89 g~~~~L~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~~~f~~~~~~~~ 136 (213)
T TIGR01449 89 GVEATLGALRAKGLRLGLVTNKPTPLARPLLELLGLAKYFSVLIGGDS 136 (213)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCcHhhCcEEEecCC
Confidence 445555677788999999998887888888887765 44555544
No 221
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=47.05 E-value=1.2e+02 Score=22.53 Aligned_cols=72 Identities=13% Similarity=0.125 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|..+-+..+++.+++.|..+.+...+ +. ..+.+++.. +++.|+.......... ...+.+.+.++++..+
T Consensus 12 ~~~~~~~~~~~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~~-~vdgvi~~~~~~~~~~----~~~~~l~~~~ip~V~~ 86 (267)
T cd01536 12 PFWQAMNKGAEAAAKELGVELIVLDAQNDVSKQIQQIEDLIAQ-GVDGIIISPVDSAALT----PALKKANAAGIPVVTV 86 (267)
T ss_pred HHHHHHHHHHHHHHHhcCceEEEECCCCCHHHHHHHHHHHHHc-CCCEEEEeCCCchhHH----HHHHHHHHCCCcEEEe
Confidence 477778888888888899999988653 32 345555555 8898876532211111 1223445568888887
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 87 ~~ 88 (267)
T cd01536 87 DS 88 (267)
T ss_pred cC
Confidence 64
No 222
>COG0757 AroQ 3-dehydroquinate dehydratase II [Amino acid transport and metabolism]
Probab=46.96 E-value=1.1e+02 Score=22.18 Aligned_cols=77 Identities=10% Similarity=0.064 Sum_probs=52.5
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc--CeEEEcc-cCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCC
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKT--TCLTFEE-DPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQL 150 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~--~~V~~~~-~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l 150 (156)
+++.-+++|+.+.+++.+.+-.|.+++.+..- ..|+.|. .|+.... ++++++..-.++++.++=+.++..+++
T Consensus 34 ~~~~a~~~g~~v~~~QSN~Eg~Lid~Ihea~~~~~~IvINpga~THTSv----AlrDAi~av~iP~vEVHlSNihaRE~F 109 (146)
T COG0757 34 LEEEAAKLGVEVEFRQSNHEGELIDWIHEARGKAGDIVINPGAYTHTSV----ALRDAIAAVSIPVVEVHLSNIHAREEF 109 (146)
T ss_pred HHHHHHHcCceEEEEecCchHHHHHHHHHhhccCCeEEEcCccchhhHH----HHHHHHHhcCCCEEEEEecCchhcccc
Confidence 33344577999999998888777777665322 2266664 3444443 455666666899999998888888887
Q ss_pred CCCC
Q psy6650 151 KPDS 154 (156)
Q Consensus 151 ~~~~ 154 (156)
+..+
T Consensus 110 RhhS 113 (146)
T COG0757 110 RHHS 113 (146)
T ss_pred cccc
Confidence 7653
No 223
>KOG0133|consensus
Probab=46.85 E-value=22 Score=31.26 Aligned_cols=94 Identities=13% Similarity=-0.117 Sum_probs=63.4
Q ss_pred EEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCC-------CCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE
Q psy6650 17 MVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGS-------SNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR 89 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~-------~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~ 89 (156)
.++|+..+++.++|.....++...-+++..+.+++.-.+. .....+.-+|+... .+..++++.+....++.
T Consensus 169 ~~v~~~~~~~~~~~~~~~~~~~~~v~~~e~l~~~~~~~~~~~~~~g~s~al~~l~~~l~~~--~~~an~~~~~~~~~~~~ 246 (531)
T KOG0133|consen 169 ALVLSGLAVEKHPNFLANSKASAVVPTLELLRFIPSNYGEVVWRGGESEALKRLDAHLKVP--LWVANLELRYSNANSRV 246 (531)
T ss_pred ccccccccCCCChhhhhhcccccccCCchhhccCcccccccccCCcccchhHHHHHHhhHH--HHHhhhhccccccchhc
Confidence 6899999999999987766665556677777777753321 11122333444444 45777888888888887
Q ss_pred cChHHHHHHHHHHcCcCeEEEcc
Q psy6650 90 GQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 90 g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
+.+...|...+....+...++..
T Consensus 247 ~~s~~~Ls~yL~fg~~svr~~~~ 269 (531)
T KOG0133|consen 247 KISTTVLSPYLKFGCLSVRYFYR 269 (531)
T ss_pred CCCccccccceeeccceeEeehh
Confidence 77777777777766666666654
No 224
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=46.85 E-value=1.3e+02 Score=23.22 Aligned_cols=77 Identities=16% Similarity=0.092 Sum_probs=49.0
Q ss_pred hcCCcceEEEEeCCC--CcCCC---CCCcc---hHHHHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHH---cCc
Q psy6650 38 KGCTTFRCVFILDPW--FAGSS---NVGIN---KWRFLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKE---WKT 105 (156)
Q Consensus 38 ~~~~~vi~vfi~d~~--~~~~~---~~~~~---r~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~---~~~ 105 (156)
+...+..++++||.. .+... .+-.. .-.-+.+.+..+++-|+..|++.+...| +..+++-.|+.+ .+.
T Consensus 46 ~~~~p~~~~~~fD~~~~~~R~~l~p~YK~~R~~~p~~l~~q~~~~~~~l~~~gi~~i~~~~~EADD~ia~la~~~~~~g~ 125 (240)
T cd00008 46 KEYKPTYVAVVFDAGGKTFRHELYPEYKANRKKMPEELREQIPLIKELLEALGIPVLEIEGYEADDVIGTLAKKAEAEGY 125 (240)
T ss_pred HhcCCCeEEEEEeCCCCcccccccHHHHcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHcCC
Confidence 334466678888863 23211 11111 1335678899999999999999988877 666777777754 344
Q ss_pred CeEEEcccC
Q psy6650 106 TCLTFEEDP 114 (156)
Q Consensus 106 ~~V~~~~~~ 114 (156)
..++++.+.
T Consensus 126 ~~~I~S~Dk 134 (240)
T cd00008 126 KVVIVSGDK 134 (240)
T ss_pred eEEEEeCCC
Confidence 556666654
No 225
>TIGR00695 uxuA mannonate dehydratase. This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.
Probab=46.66 E-value=52 Score=27.87 Aligned_cols=55 Identities=9% Similarity=0.003 Sum_probs=29.9
Q ss_pred HHHHHcCcCeEEEccc---C-CchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 98 KLFKEWKTTCLTFEED---P-EPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 98 ~l~~~~~~~~V~~~~~---~-~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
+.+++.|++.|+..-. . .+-......++++.+++.|+++..+++-.+. ++|+.+.
T Consensus 17 ~~irQ~G~~giV~al~~~p~gevW~~~~i~~~k~~ie~~GL~~~vvEs~pv~--e~Ik~g~ 75 (394)
T TIGR00695 17 EDVRQAGATGIVTALHHIPNGEVWEKEEIRKRKEYIESAGLHWSVVESVPVH--EAIKTGT 75 (394)
T ss_pred HHHhhcCCcceeecCCCCCCCCCCCHHHHHHHHHHHHHcCCeEEEEeCCCcc--HHHHcCC
Confidence 3444467777764421 1 1223444455556666677777777765444 3555443
No 226
>COG2242 CobL Precorrin-6B methylase 2 [Coenzyme metabolism]
Probab=46.47 E-value=70 Score=24.23 Aligned_cols=42 Identities=21% Similarity=0.357 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHhCCCe-EEEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 69 QCLEDLDINLRKLNSR-LFVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~-L~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
+.+.-.+++++++|.+ +.++.|+..+.|+.+. ..++||..-.
T Consensus 69 ~a~~~~~~N~~~fg~~n~~vv~g~Ap~~L~~~~---~~daiFIGGg 111 (187)
T COG2242 69 EALELIERNAARFGVDNLEVVEGDAPEALPDLP---SPDAIFIGGG 111 (187)
T ss_pred HHHHHHHHHHHHhCCCcEEEEeccchHhhcCCC---CCCEEEECCC
Confidence 4577788888888876 8899999988887544 4777887765
No 227
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=46.09 E-value=1.2e+02 Score=22.58 Aligned_cols=71 Identities=6% Similarity=-0.014 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC---hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ---PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~---~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+-+..+++.++++|..+.+...+ +. +.+..+ .+.+++.|++........ .+... .+.|+++..
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l-~~~~vdgiii~~~~~~~~-----~~~~~-~~~~ipvv~ 84 (264)
T cd01574 12 HGPSSTLAAIESAAREAGYAVTLSMLAEADEEALRAAVRRL-LAQRVDGVIVNAPLDDAD-----AALAA-APADVPVVF 84 (264)
T ss_pred ccHHHHHHHHHHHHHHCCCeEEEEeCCCCchHHHHHHHHHH-HhcCCCEEEEeCCCCChH-----HHHHH-HhcCCCEEE
Confidence 366777888888899999998887643 22 233343 345789887754322222 12222 346899998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 85 ~~~~ 88 (264)
T cd01574 85 VDGS 88 (264)
T ss_pred Eecc
Confidence 8754
No 228
>TIGR02726 phenyl_P_delta phenylphosphate carboxylase, delta subunit. Members of this protein family are the alpha subunit of phenylphosphate carboxylase. Phenol (methyl-benzene) is converted to phenylphosphate, then para-carboxylated by this four-subunit enzyme, with the release of phosphate, to 4-hydroxybenzoate. The enzyme contains neither biotin nor thiamin pyrophosphate. This delta subunit belongs to HAD family hydrolases.
Probab=46.06 E-value=1.1e+02 Score=22.51 Aligned_cols=35 Identities=11% Similarity=0.042 Sum_probs=29.7
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
|++.|+++.|+.+.+...+..+++.+++..++...
T Consensus 46 L~~~Gi~laIiT~k~~~~~~~~l~~lgi~~~f~~~ 80 (169)
T TIGR02726 46 LQLCGIDVAIITSKKSGAVRHRAEELKIKRFHEGI 80 (169)
T ss_pred HHHCCCEEEEEECCCcHHHHHHHHHCCCcEEEecC
Confidence 45679999999999999999999999998777543
No 229
>TIGR01494 ATPase_P-type ATPase, P-type (transporting), HAD superfamily, subfamily IC. The crystal structure of one calcium-pumping ATPase and an analysis of the fold of the catalytic domain of the P-type ATPases have been published. These reveal that the catalytic core of these enzymes is a haloacid dehalogenase(HAD)-type aspartate-nucleophile hydrolase. The location of the ATP-binding loop in between the first and second HAD conserved catalytic motifs defines these enzymes as members of subfamily I of the HAD superfamily (see also TIGR01493, TIGR01509, TIGR01549, TIGR01544 and TIGR01545). Based on these classifications, the P-type ATPase _superfamily_ corresponds to the IC subfamily of the HAD superfamily.
Probab=46.01 E-value=1.3e+02 Score=25.84 Aligned_cols=63 Identities=14% Similarity=0.072 Sum_probs=41.0
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
...+.-+.|++.|+...++.|+.......++++.++ +. ...|..+. ++-+.+++.|-.+-.+.
T Consensus 351 ~~~~~i~~l~~~gi~~~~ltGD~~~~a~~ia~~lgi---~~--~~~p~~K~---~~v~~l~~~g~~v~~vG 413 (499)
T TIGR01494 351 DAKETISELREAGIRVIMLTGDNVLTAKAIAKELGI---FA--RVTPEEKA---ALVEALQKKGRVVAMTG 413 (499)
T ss_pred hHHHHHHHHHHCCCeEEEEcCCCHHHHHHHHHHcCc---ee--ccCHHHHH---HHHHHHHHCCCEEEEEC
Confidence 344555566678999999999999999999999886 32 24455444 23334455564444443
No 230
>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=45.68 E-value=1.3e+02 Score=22.68 Aligned_cols=71 Identities=14% Similarity=0.267 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+.+.++++|..+.+... ++. +.+.. +.+.+++.|++.... ... ..+.+.+.+.|++++.++
T Consensus 13 ~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgii~~~~~-~~~----~~~~~~~~~~~ipvV~i~ 86 (269)
T cd06281 13 LLAQLFSGAEDRLRAAGYSLLIANSLNDPERELEILRS-FEQRRMDGIIIAPGD-ERD----PELVDALASLDLPIVLLD 86 (269)
T ss_pred cHHHHHHHHHHHHHHcCCEEEEEeCCCChHHHHHHHHH-HHHcCCCEEEEecCC-CCc----HHHHHHHHhCCCCEEEEe
Confidence 6667777778888899999887743 232 33444 444688988775322 111 122334555689888886
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 87 ~~ 88 (269)
T cd06281 87 RD 88 (269)
T ss_pred cc
Confidence 43
No 231
>KOG4498|consensus
Probab=45.65 E-value=47 Score=25.28 Aligned_cols=55 Identities=11% Similarity=0.071 Sum_probs=39.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHH-cCcCeEEEcccCCchh
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKE-WKTTCLTFEEDPEPFG 118 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~-~~~~~V~~~~~~~~~~ 118 (156)
.++..+.|.+++.=|.++|+.|+.+---....+..+..+ +-+..||.+.+-+.|.
T Consensus 66 CR~~aadLa~l~~~ld~~Gv~Li~vg~g~~~~~~~f~~q~~f~gevylD~~~~~Y~ 121 (197)
T KOG4498|consen 66 CREEAADLASLKDLLDELGVVLIAVGPGSHVQFEDFWDQTYFSGEVYLDPHRGFYK 121 (197)
T ss_pred eHHHHHHHHHHHHHHHHhCCEEEEEeccceeecchhhcccCcceeEEEcCccceec
Confidence 356778999998889999999997753233455556554 5667999988755543
No 232
>COG2873 MET17 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]
Probab=45.43 E-value=77 Score=26.89 Aligned_cols=65 Identities=14% Similarity=0.138 Sum_probs=46.3
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHH-HHHHHHHHHhCCceEEE
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVR-DQNIMTLCRELNIEVIA 138 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~-d~~v~~~l~~~~i~~~~ 138 (156)
-+...|+++|+...++.++..+.+.+.+++ +-..||++.--.|-..-- .++|.+.+.+.|+.+..
T Consensus 117 lf~~tl~~~Gi~v~fvd~~d~~~~~~aI~~-nTkavf~EtigNP~~~v~Die~ia~iAh~~gvpliV 182 (426)
T COG2873 117 LFSHTLKRLGIEVRFVDPDDPENFEAAIDE-NTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLIV 182 (426)
T ss_pred HHHHHHHhcCcEEEEeCCCCHHHHHHHhCc-ccceEEEEeccCCCccccCHHHHHHHHHHcCCcEEE
Confidence 455667889999999998888888877776 345677766555543222 25677788888998864
No 233
>cd06442 DPM1_like DPM1_like represents putative enzymes similar to eukaryotic DPM1. Proteins similar to eukaryotic DPM1, including enzymes from bacteria and archaea; DPM1 is the catalytic subunit of eukaryotic dolichol-phosphate mannose (DPM) synthase. DPM synthase is required for synthesis of the glycosylphosphatidylinositol (GPI) anchor, N-glycan precursor, protein O-mannose, and C-mannose. In higher eukaryotes,the enzyme has three subunits, DPM1, DPM2 and DPM3. DPM is synthesized from dolichol phosphate and GDP-Man on the cytosolic surface of the ER membrane by DPM synthase and then is flipped onto the luminal side and used as a donor substrate. In lower eukaryotes, such as Saccharomyces cerevisiae and Trypanosoma brucei, DPM synthase consists of a single component (Dpm1p and TbDpm1, respectively) that possesses one predicted transmembrane region near the C terminus for anchoring to the ER membrane. In contrast, the Dpm1 homologues of higher eukaryotes, namely fission yeast, fungi,
Probab=45.33 E-value=1.2e+02 Score=22.09 Aligned_cols=24 Identities=21% Similarity=0.423 Sum_probs=10.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIR 89 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~ 89 (156)
.+.++|..+.++......+++|+.
T Consensus 11 ~l~~~l~sl~~q~~~~~~eiiiVD 34 (224)
T cd06442 11 NIPELIERLDAALKGIDYEIIVVD 34 (224)
T ss_pred hHHHHHHHHHHhhcCCCeEEEEEe
Confidence 344555555544332334444443
No 234
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=45.31 E-value=1.3e+02 Score=22.76 Aligned_cols=71 Identities=20% Similarity=0.245 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC----hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ----PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~----~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++.|..+.++.++ .. +.+..+. ..+++.|+.... .... .+ .+. .+.+.|+++.
T Consensus 12 ~f~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiI~~~~-~~~~--~~-~~~-~~~~~giPvV 85 (268)
T cd06306 12 AYWLSVNYGMVEEAKRLGVSLKLLEAGGYPNLAKQIAQLEDCA-AWGADAILLGAV-SPDG--LN-EIL-QQVAASIPVI 85 (268)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHH-HcCCCEEEEcCC-Chhh--HH-HHH-HHHHCCCCEE
Confidence 477888889999999999999988532 22 2344444 458999877632 1211 11 232 3455799999
Q ss_pred EecC
Q psy6650 138 ARVS 141 (156)
Q Consensus 138 ~~~~ 141 (156)
.++.
T Consensus 86 ~~~~ 89 (268)
T cd06306 86 ALVN 89 (268)
T ss_pred Eecc
Confidence 8854
No 235
>PF00289 CPSase_L_chain: Carbamoyl-phosphate synthase L chain, N-terminal domain; InterPro: IPR005481 Carbamoyl phosphate synthase (CPSase) is a heterodimeric enzyme composed of a small and a large subunit (with the exception of CPSase III, see below). CPSase catalyses the synthesis of carbamoyl phosphate from biocarbonate, ATP and glutamine (6.3.5.5 from EC) or ammonia (6.3.4.16 from EC), and represents the first committed step in pyrimidine and arginine biosynthesis in prokaryotes and eukaryotes, and in the urea cycle in most terrestrial vertebrates [, ]. CPSase has three active sites, one in the small subunit and two in the large subunit. The small subunit contains the glutamine binding site and catalyses the hydrolysis of glutamine to glutamate and ammonia. The large subunit has two homologous carboxy phosphate domains, both of which have ATP-binding sites; however, the N-terminal carboxy phosphate domain catalyses the phosphorylation of biocarbonate, while the C-terminal domain catalyses the phosphorylation of the carbamate intermediate []. The carboxy phosphate domain found duplicated in the large subunit of CPSase is also present as a single copy in the biotin-dependent enzymes acetyl-CoA carboxylase (6.4.1.2 from EC) (ACC), propionyl-CoA carboxylase (6.4.1.3 from EC) (PCCase), pyruvate carboxylase (6.4.1.1 from EC) (PC) and urea carboxylase (6.3.4.6 from EC). Most prokaryotes carry one form of CPSase that participates in both arginine and pyrimidine biosynthesis, however certain bacteria can have separate forms. The large subunit in bacterial CPSase has four structural domains: the carboxy phosphate domain 1, the oligomerisation domain, the carbamoyl phosphate domain 2 and the allosteric domain []. CPSase heterodimers from Escherichia coli contain two molecular tunnels: an ammonia tunnel and a carbamate tunnel. These inter-domain tunnels connect the three distinct active sites, and function as conduits for the transport of unstable reaction intermediates (ammonia and carbamate) between successive active sites []. The catalytic mechanism of CPSase involves the diffusion of carbamate through the interior of the enzyme from the site of synthesis within the N-terminal domain of the large subunit to the site of phosphorylation within the C-terminal domain. Eukaryotes have two distinct forms of CPSase: a mitochondrial enzyme (CPSase I) that participates in both arginine biosynthesis and the urea cycle; and a cytosolic enzyme (CPSase II) involved in pyrimidine biosynthesis. CPSase II occurs as part of a multi-enzyme complex along with aspartate transcarbamoylase and dihydroorotase; this complex is referred to as the CAD protein []. The hepatic expression of CPSase is transcriptionally regulated by glucocorticoids and/or cAMP []. There is a third form of the enzyme, CPSase III, found in fish, which uses glutamine as a nitrogen source instead of ammonia []. CPSase III is closely related to CPSase I, and is composed of a single polypeptide that may have arisen from gene fusion of the glutaminase and synthetase domains []. This entry represents the N-terminal domain of the large subunit of carbamoyl phosphate synthase. This domain can also be found in certain other related proteins. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 3VA7_A 3OUU_A 3OUZ_B 1W96_B 1W93_A 1ULZ_A 3HB9_C 3HO8_A 3BG5_C 3HBL_A ....
Probab=45.29 E-value=96 Score=21.07 Aligned_cols=18 Identities=22% Similarity=0.324 Sum_probs=11.9
Q ss_pred HHHHHhCCCeEEEEEcCh
Q psy6650 75 DINLRKLNSRLFVIRGQP 92 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~ 92 (156)
-+.|+++|+.-++++.++
T Consensus 18 ~ra~r~~Gi~tv~v~s~~ 35 (110)
T PF00289_consen 18 IRALRELGIETVAVNSNP 35 (110)
T ss_dssp HHHHHHTTSEEEEEEEGG
T ss_pred HHHHHHhCCcceeccCch
Confidence 345667798877765544
No 236
>PRK13288 pyrophosphatase PpaX; Provisional
Probab=45.23 E-value=40 Score=25.04 Aligned_cols=39 Identities=13% Similarity=0.010 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
.++.++=+.|++.|+++.|+.+.+...+...++..++..
T Consensus 85 ~g~~~~l~~L~~~g~~~~i~S~~~~~~~~~~l~~~gl~~ 123 (214)
T PRK13288 85 ETVYETLKTLKKQGYKLGIVTTKMRDTVEMGLKLTGLDE 123 (214)
T ss_pred cCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCChh
Confidence 345667777888899999999988888888888877754
No 237
>PRK01372 ddl D-alanine--D-alanine ligase; Reviewed
Probab=45.20 E-value=93 Score=24.45 Aligned_cols=42 Identities=14% Similarity=-0.016 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
+++-..+.+.|+++|....++..+. .+.+++...+++.|+..
T Consensus 22 ~~s~~~i~~al~~~g~~v~~i~~~~--~~~~~~~~~~~D~v~~~ 63 (304)
T PRK01372 22 LNSGAAVLAALREAGYDAHPIDPGE--DIAAQLKELGFDRVFNA 63 (304)
T ss_pred HHhHHHHHHHHHHCCCEEEEEecCc--chHHHhccCCCCEEEEe
Confidence 4566788888888999988776543 22334445567777643
No 238
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=45.10 E-value=1.3e+02 Score=25.57 Aligned_cols=33 Identities=6% Similarity=0.258 Sum_probs=14.1
Q ss_pred CeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 106 TCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 106 ~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
..+++|....++..+..+.+++.|++.||+++.
T Consensus 48 ~a~hvnhglr~~s~~~~~~~~~~~~~l~i~~~~ 80 (436)
T PRK10660 48 RAIHVHHGLSPNADSWVKHCEQVCQQWQVPLVV 80 (436)
T ss_pred EEEEEeCCCCcchHHHHHHHHHHHHHcCCcEEE
Confidence 344444443333333334444455544554443
No 239
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=45.06 E-value=90 Score=20.69 Aligned_cols=78 Identities=15% Similarity=0.154 Sum_probs=51.2
Q ss_pred HHHHHHHHHHhCCCeEEEEEcCh-HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhC--CceEEEecCCeeec
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQP-ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCREL--NIEVIARVSHTLYD 146 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~-~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~--~i~~~~~~~~~L~~ 146 (156)
++.-+..-|++.|....++..+. .+.+.+.+.+.+.+.|.++-.+.+....- .++.+..++. ++.+..-..+.-+.
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~~~~-~~l~~~~k~~~p~~~iv~GG~~~t~~ 94 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVPPEELVEALRAERPDVVGISVSMTPNLPEA-KRLARAIKERNPNIPIVVGGPHATAD 94 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-HHHHHHHHHHTTCSEEEEEESSSTHHHHH-HHHHHHHHTTCTTSEEEEEESSSGHH
T ss_pred HHHHHHHHHHHCCCeEEEECCCCCHHHHHHHHhcCCCcEEEEEccCcCcHHHH-HHHHHHHHhcCCCCEEEEECCchhcC
Confidence 56677788888899988876554 46777777788999998887555554333 4444555543 67776665553333
Q ss_pred CC
Q psy6650 147 LD 148 (156)
Q Consensus 147 ~~ 148 (156)
|+
T Consensus 95 ~~ 96 (121)
T PF02310_consen 95 PE 96 (121)
T ss_dssp HH
T ss_pred hH
Confidence 33
No 240
>cd06321 PBP1_ABC_sugar_binding_like_11 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=44.99 E-value=1.3e+02 Score=22.61 Aligned_cols=73 Identities=11% Similarity=0.083 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHHHHHh--CCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRK--LNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~--~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++ .|..+.+..+ ++. +.+..+ ...+++.|++.. . .....+..++ .+.+.|++++
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~-~~~~~dgiIi~~-~--~~~~~~~~i~-~~~~~~ipvv 86 (271)
T cd06321 12 PFFVALAKGAEAAAKKLNPGVKVTVVSADYDLNKQVSQIDNF-IAAKVDLILLNA-V--DSKGIAPAVK-RAQAAGIVVV 86 (271)
T ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEccCCCCHHHHHHHHHHH-HHhCCCEEEEeC-C--ChhHhHHHHH-HHHHCCCeEE
Confidence 4677888888888888 5666655533 333 233333 345788887742 1 1111223343 3455789999
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.++..
T Consensus 87 ~~~~~ 91 (271)
T cd06321 87 AVDVA 91 (271)
T ss_pred EecCC
Confidence 88753
No 241
>cd08181 PPD-like 1,3-propanediol dehydrogenase-like (PPD). 1,3-propanediol dehydrogenase-like (PPD). This family is a member of the iron-containing alcohol dehydrogenase superfamily, and exhibits a dehydroquinate synthase-like fold. Protein sequence similarity search and other biochemical evidences suggest that they are close to the iron-containing 1,3-propanediol dehydrogenase (EC 1.1.1.202). 1,3-propanediol dehydrogenase catalyzes the oxidation of propane-1,3-diol to 3-hydroxypropanal with the simultaneous reduction of NADP+ to NADPH. The protein structure of Thermotoga maritima TM0920 gene contains one NADP+ and one iron ion.
Probab=44.89 E-value=1.7e+02 Score=23.92 Aligned_cols=66 Identities=18% Similarity=0.375 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChH-------HHHHHHHHHcCcCeEEEc-ccCCchhHHHHHHHHHHHHhCCce
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPA-------DILPKLFKEWKTTCLTFE-EDPEPFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~-------~~l~~l~~~~~~~~V~~~-~~~~~~~~~~d~~v~~~l~~~~i~ 135 (156)
.++.+|.+.++++|.+..|+.|... +.+.+..++.+++..+++ -...|..... .+..+.+++.++.
T Consensus 12 g~l~~l~~~~~~~g~r~lvVt~~~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v-~~~~~~~~~~~~D 85 (357)
T cd08181 12 NCVEKHGEELAALGKRALIVTGKSSAKKNGSLDDVTKALEELGIEYEIFDEVEENPSLETI-MEAVEIAKKFNAD 85 (357)
T ss_pred CHHHHHHHHHHHcCCEEEEEeCCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCcCHHHH-HHHHHHHHhcCCC
Confidence 3455566666666766666655332 234444445566555443 2333333222 3333444444443
No 242
>PRK13602 putative ribosomal protein L7Ae-like; Provisional
Probab=44.85 E-value=83 Score=20.21 Aligned_cols=38 Identities=21% Similarity=0.214 Sum_probs=21.8
Q ss_pred HHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 101 KEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 101 ~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
++-++.-|+...+.++. .-+.+...|+..+|++..+.+
T Consensus 24 ~~gkaklViiA~D~~~~---~~~~i~~~c~~~~Vp~~~~~s 61 (82)
T PRK13602 24 KRGSVKEVVVAEDADPR---LTEKVEALANEKGVPVSKVDS 61 (82)
T ss_pred HcCCeeEEEEECCCCHH---HHHHHHHHHHHcCCCEEEECC
Confidence 33456666666666553 233455666666677666653
No 243
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=44.79 E-value=1.3e+02 Score=23.70 Aligned_cols=62 Identities=15% Similarity=0.045 Sum_probs=36.6
Q ss_pred HHHHHhCCCeEEEEEcCh-----HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 75 DINLRKLNSRLFVIRGQP-----ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~-----~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
.+.+++.|.++..+.++. .+.+.+++++.+.+.|+++ .|...+. .. +.++..+.++..++|-
T Consensus 46 ~~~i~~~g~~v~~~~~~~~~~~d~~~~~~~l~~~~~d~vV~D-~y~~~~~-~~----~~~k~~~~~l~~iDD~ 112 (279)
T TIGR03590 46 IDLLLSAGFPVYELPDESSRYDDALELINLLEEEKFDILIVD-HYGLDAD-WE----KLIKEFGRKILVIDDL 112 (279)
T ss_pred HHHHHHcCCeEEEecCCCchhhhHHHHHHHHHhcCCCEEEEc-CCCCCHH-HH----HHHHHhCCeEEEEecC
Confidence 345667888888776532 3356677777777766666 4544332 12 2333346677777663
No 244
>KOG1014|consensus
Probab=44.40 E-value=1.3e+02 Score=24.63 Aligned_cols=62 Identities=11% Similarity=0.108 Sum_probs=35.4
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHH----HHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPK----LFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~----l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
+..++|+++|.. +++.+.+.+-|.+ +.+++++..=+...|++.... .-+++.+.|....|.+
T Consensus 64 ayA~eLAkrG~n-vvLIsRt~~KL~~v~kEI~~~~~vev~~i~~Dft~~~~-~ye~i~~~l~~~~VgI 129 (312)
T KOG1014|consen 64 AYARELAKRGFN-VVLISRTQEKLEAVAKEIEEKYKVEVRIIAIDFTKGDE-VYEKLLEKLAGLDVGI 129 (312)
T ss_pred HHHHHHHHcCCE-EEEEeCCHHHHHHHHHHHHHHhCcEEEEEEEecCCCch-hHHHHHHHhcCCceEE
Confidence 467889999999 4455555555554 445567544444445443322 3345666775444433
No 245
>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=44.31 E-value=54 Score=25.15 Aligned_cols=38 Identities=24% Similarity=0.137 Sum_probs=31.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWK 104 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~ 104 (156)
..+.+.++-+++.+.|+.|++..|.+...+.++.++++
T Consensus 22 ~~~~~~~~i~~~~~~gi~fv~aTGR~~~~~~~~~~~~~ 59 (249)
T TIGR01485 22 ALLRLNALLEDHRGEDSLLVYSTGRSPHSYKELQKQKP 59 (249)
T ss_pred HHHHHHHHHHHhhccCceEEEEcCCCHHHHHHHHhcCC
Confidence 45777788888899999999999999988888877654
No 246
>TIGR01681 HAD-SF-IIIC HAD-superfamily phosphatase, subfamily IIIC. No member of this subfamily is characterized with respect to function, however the MDP-1 protein is a characterized phosphatase. All of the characterized enzymes within subfamily III are phosphatases, and all of the active site residues characteristic of HAD-superfamily phosphatases are present in subfamily IIIC.
Probab=43.82 E-value=1e+02 Score=21.09 Aligned_cols=39 Identities=15% Similarity=0.116 Sum_probs=30.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcC-hHHHHHHHHHHcC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQ-PADILPKLFKEWK 104 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~ 104 (156)
-++.++.++=+.|++.|+.+.+..+. +.+....+.+..+
T Consensus 29 ~~~~gv~e~L~~Lk~~g~~l~i~Sn~~~~~~~~~~l~~~~ 68 (128)
T TIGR01681 29 VTIKEIRDKLQTLKKNGFLLALASYNDDPHVAYELLKIFE 68 (128)
T ss_pred HHHHHHHHHHHHHHHCCeEEEEEeCCCCHHHHHHHHHhcc
Confidence 36688888888889999999999887 6666666666555
No 247
>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=43.75 E-value=1.5e+02 Score=22.81 Aligned_cols=45 Identities=11% Similarity=0.068 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEE-cChHHHHHHHHHHcCcCeEEEccc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIR-GQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
+.|.++.+.+++.|+..++.. +.+...+..|+++.|+..|+.+.-
T Consensus 186 ~~l~~l~~~ik~~~v~~i~~e~~~~~~~~~~la~~~g~~vv~ld~l 231 (256)
T PF01297_consen 186 KDLAELIKLIKENKVKCIFTEPQFSSKLAEALAKETGVKVVYLDPL 231 (256)
T ss_dssp HHHHHHHHHHHHTT-SEEEEETTS-THHHHHHHHCCT-EEEESSTT
T ss_pred HHHHHHHHHhhhcCCcEEEecCCCChHHHHHHHHHcCCcEEEeCCC
Confidence 567777788888888877765 344556777778888777776654
No 248
>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=43.60 E-value=1.4e+02 Score=22.41 Aligned_cols=70 Identities=16% Similarity=0.219 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+++.+++.|..+.+... ++.. .+..+ ...+++.|++........ .++ .+.+.|++++.++
T Consensus 13 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l-~~~~vdgiii~~~~~~~~-----~~~-~~~~~~ipvV~~~ 85 (264)
T cd06274 13 SFARIAKRLEALARERGYQLLIACSDDDPETERETVETL-IARQVDALIVAGSLPPDD-----PYY-LCQKAGLPVVALD 85 (264)
T ss_pred hHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEcCCCCchH-----HHH-HHHhcCCCEEEec
Confidence 5556667777888889999888754 3332 33333 446899887654322111 122 3455789998886
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 86 ~~ 87 (264)
T cd06274 86 RP 87 (264)
T ss_pred Cc
Confidence 54
No 249
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.58 E-value=1.1e+02 Score=23.12 Aligned_cols=69 Identities=14% Similarity=0.148 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHh-CCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 65 RFLLQCLEDLDINLRK-LNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~-~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
.|+.+-+..+.+.+++ .|..+.+..++..+.+..| ...+++.|++... .. .+...+.+.+++++.++..
T Consensus 11 ~~~~~~~~gi~~~~~~~~g~~~~~~~~~~~~~~~~l-~~~~vdGiI~~~~---~~-----~~~~~l~~~~~PvV~~~~~ 80 (265)
T cd01543 11 SYGRGVLRGIARYAREHGPWSIYLEPRGLQEPLRWL-KDWQGDGIIARID---DP-----EMAEALQKLGIPVVDVSGS 80 (265)
T ss_pred hhhHHHHHHHHHHHHhcCCeEEEEecccchhhhhhc-cccccceEEEECC---CH-----HHHHHHhhCCCCEEEEeCc
Confidence 3667777788888888 6777777655444444443 4457888877521 11 1223345568888888643
No 250
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=43.52 E-value=1.6e+02 Score=23.14 Aligned_cols=13 Identities=38% Similarity=0.432 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHh
Q psy6650 68 LQCLEDLDINLRK 80 (156)
Q Consensus 68 ~~sL~~L~~~L~~ 80 (156)
.+.|.+|.+.+++
T Consensus 152 ~~~L~~l~~~~~~ 164 (282)
T cd01017 152 AKKLEALDQEYRA 164 (282)
T ss_pred HHHHHHHHHHHHH
Confidence 3445555555543
No 251
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=43.43 E-value=1.4e+02 Score=22.28 Aligned_cols=70 Identities=17% Similarity=0.242 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcCh----HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQP----ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~----~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
|+.+-+..+.+.+++.|..+.+...+. .+.+..+. ..+++.|++.... +.. .+.+.+.+.|++++.++.
T Consensus 13 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~-~~~vdgiii~~~~-~~~-----~~~~~~~~~~ipvV~~~~ 85 (266)
T cd06278 13 FYSELLEALSRALQARGYQPLLINTDDDEDLDAALRQLL-QYRVDGVIVTSGT-LSS-----ELAEECRRNGIPVVLINR 85 (266)
T ss_pred hHHHHHHHHHHHHHHCCCeEEEEcCCCCHHHHHHHHHHH-HcCCCEEEEecCC-CCH-----HHHHHHhhcCCCEEEECC
Confidence 555666667888899999988876442 23444444 4578888765321 111 113344556999998865
Q ss_pred C
Q psy6650 142 H 142 (156)
Q Consensus 142 ~ 142 (156)
.
T Consensus 86 ~ 86 (266)
T cd06278 86 Y 86 (266)
T ss_pred c
Confidence 3
No 252
>TIGR00632 vsr DNA mismatch endonuclease Vsr. All proteins in this family for which functions are known are G:T mismatch endonucleases that function in a specialized mismatch repair process used usually to repair G:T mismatches in specific sections of the genome. This family was based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). Members of this family typically are found near to a DNA cytosine methyltransferase.
Probab=43.28 E-value=70 Score=22.31 Aligned_cols=25 Identities=20% Similarity=0.198 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 118 GKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 118 ~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
..+||.+..+.|++.|..|..|+.+
T Consensus 92 n~~rD~~~~~~L~~~Gw~Vlr~We~ 116 (117)
T TIGR00632 92 NVERDRRVNSRLQELGWRVLRVWEC 116 (117)
T ss_pred HHHHHHHHHHHHHHCcCEEEEEeCC
Confidence 3588999999999999999888653
No 253
>PRK05593 rplR 50S ribosomal protein L18; Reviewed
Probab=43.13 E-value=70 Score=22.21 Aligned_cols=41 Identities=12% Similarity=0.195 Sum_probs=29.7
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
.|-+-+.+.+++.|+++...-.| .-+...+.+.+.+.|++|
T Consensus 77 ~la~ra~~~gi~~vvfDrg~~~y-hGrV~a~a~~are~Gl~f 117 (117)
T PRK05593 77 LIAERAKAKGIKQVVFDRGGYKY-HGRVKALADAAREAGLKF 117 (117)
T ss_pred HHHHHHHHCCCCEEEEcCCCCcc-cHHHHHHHHHHHHhCCCC
Confidence 34455566799999999864344 557788888888888864
No 254
>PRK04017 hypothetical protein; Provisional
Probab=43.03 E-value=1.2e+02 Score=21.59 Aligned_cols=20 Identities=10% Similarity=0.129 Sum_probs=8.1
Q ss_pred chhHHHHHHHHHHHHhCCce
Q psy6650 116 PFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 116 ~~~~~~d~~v~~~l~~~~i~ 135 (156)
....+.-+.+.+.++..|+.
T Consensus 76 ~~GekIr~~l~~~l~~~G~~ 95 (132)
T PRK04017 76 RKGEELAKKLSEYLQGYGIK 95 (132)
T ss_pred cchHHHHHHHHHHHHhCCCC
Confidence 33333334444444444443
No 255
>PRK01158 phosphoglycolate phosphatase; Provisional
Probab=43.03 E-value=1e+02 Score=22.96 Aligned_cols=30 Identities=17% Similarity=0.070 Sum_probs=25.0
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.|++.|+.+.+..|.+...+..+.+..+.+
T Consensus 31 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 60 (230)
T PRK01158 31 KAEKLGIPVILATGNVLCFARAAAKLIGTS 60 (230)
T ss_pred HHHHCCCEEEEEcCCchHHHHHHHHHhCCC
Confidence 356789999999999998888888887765
No 256
>cd06285 PBP1_LacI_like_7 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=42.79 E-value=1.4e+02 Score=22.34 Aligned_cols=72 Identities=8% Similarity=0.102 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+.+.+++.|..+.+..++ +.. ...+.+...+++.|++....... ..+ +.+.+.|+++..++
T Consensus 12 ~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~-----~~~-~~~~~~~iPvv~~~ 85 (265)
T cd06285 12 TVMATMYEGIEEAAAERGYSTFVANTGDNPDAQRRAIEMLLDRRVDGLILGDARSDD-----HFL-DELTRRGVPFVLVL 85 (265)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecCCCCh-----HHH-HHHHHcCCCEEEEc
Confidence 366777888888899999998776543 221 22233445689988775422111 123 33455789998887
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 86 ~~ 87 (265)
T cd06285 86 RH 87 (265)
T ss_pred cC
Confidence 53
No 257
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=42.57 E-value=1e+02 Score=20.50 Aligned_cols=44 Identities=9% Similarity=-0.022 Sum_probs=24.7
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
..+.+++++.+++-|+.... ......-...++..+-+.||++.+
T Consensus 57 ~~i~~~i~~~~id~vIn~~~-~~~~~~~~~~iRR~Av~~~ipl~T 100 (110)
T cd01424 57 PNIVDLIKNGEIQLVINTPS-GKRAIRDGFSIRRAALEYKVPYFT 100 (110)
T ss_pred hhHHHHHHcCCeEEEEECCC-CCccCccHHHHHHHHHHhCCCEEe
Confidence 34556666667776655422 212222245666666677888764
No 258
>COG1167 ARO8 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]
Probab=42.57 E-value=1.7e+02 Score=24.95 Aligned_cols=67 Identities=15% Similarity=0.295 Sum_probs=47.6
Q ss_pred HHHHhCCCeEEEE----EcChHHHHHHHHHHcCcCeEEEcccC-----CchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 76 INLRKLNSRLFVI----RGQPADILPKLFKEWKTTCLTFEEDP-----EPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 76 ~~L~~~g~~L~v~----~g~~~~~l~~l~~~~~~~~V~~~~~~-----~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
+.++..|..+.-+ .|-..+.|++.++++++..+|+.-.. .....+|-+++.+++++.++.++.-+-.
T Consensus 194 ~~~~~~g~~~~~vp~d~~G~~~e~le~~~~~~~~k~~y~~P~~qNPtG~tms~~rR~~Ll~lA~~~~~~IIEDD~y 269 (459)
T COG1167 194 QALEALGARVIPVPVDEDGIDPEALEEALAQWKPKAVYVTPTFQNPTGVTMSLERRKALLALAEKYDVLIIEDDYY 269 (459)
T ss_pred HHHHHcCCcEEecCCCCCCCCHHHHHHHHhhcCCcEEEECCCCCCCCCCccCHHHHHHHHHHHHHcCCeEEeeCcc
Confidence 3445556666544 47778899999999999999986543 2234556677888988889988765443
No 259
>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=42.55 E-value=72 Score=23.71 Aligned_cols=31 Identities=13% Similarity=0.042 Sum_probs=25.6
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+.|++.|+.+.+..|.+...+..+.+.++.+
T Consensus 28 ~~l~~~g~~~~~~TGR~~~~~~~~~~~l~~~ 58 (215)
T TIGR01487 28 RKAEKKGIPVSLVTGNTVPFARALAVLIGTS 58 (215)
T ss_pred HHHHHCCCEEEEEcCCcchhHHHHHHHhCCC
Confidence 4456689999999999988888888888776
No 260
>cd02970 PRX_like2 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these proteins do not contain the other two residues of the catalytic triad of PRX. PRXs confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either thioredoxin, glutathione, trypanothione and AhpF. TRXs alter the redox state of target proteins by catalyzing the reduction of their disulfide bonds via the CXXC motif using reducing equivalents derived from either NADPH or ferredoxins.
Probab=42.52 E-value=1.1e+02 Score=20.85 Aligned_cols=41 Identities=20% Similarity=0.130 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL 108 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V 108 (156)
...|.++.+++++.|+.++.+.-+..+....++++.+..--
T Consensus 43 ~~~l~~~~~~~~~~~v~vv~V~~~~~~~~~~~~~~~~~~~p 83 (149)
T cd02970 43 LRALSKLLPELDALGVELVAVGPESPEKLEAFDKGKFLPFP 83 (149)
T ss_pred HHHHHHHHHHHHhcCeEEEEEeCCCHHHHHHHHHhcCCCCe
Confidence 47788899999889999988877666666678887766533
No 261
>TIGR02990 ectoine_eutA ectoine utilization protein EutA. Members of this protein family are EutA, a predicted arylmalonate decarboxylase found in a conserved ectoine utilization operon of species that include Sinorhizobium meliloti 1021 (where it is known to be induced by ectoine), Mesorhizobium loti and Silicibacter pomeroyi. It is missing from two other species with the other ectoine transport and utilization genes: Pseudomonas putida and Agrobacterium tumefaciens.
Probab=42.48 E-value=1.1e+02 Score=23.89 Aligned_cols=51 Identities=8% Similarity=0.116 Sum_probs=38.7
Q ss_pred ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 91 QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 91 ~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
.+...+.+.++..|+..|..-. ||.....+.+++.+++.|+++..+.+..+
T Consensus 106 t~~~A~~~AL~alg~~RIalvT---PY~~~v~~~~~~~l~~~G~eV~~~~~~~~ 156 (239)
T TIGR02990 106 TPSSAAVDGLAALGVRRISLLT---PYTPETSRPMAQYFAVRGFEIVNFTCLGL 156 (239)
T ss_pred CHHHHHHHHHHHcCCCEEEEEC---CCcHHHHHHHHHHHHhCCcEEeeeeccCC
Confidence 4566777778888999997765 55666677888999999999988755444
No 262
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=42.42 E-value=1e+02 Score=22.41 Aligned_cols=18 Identities=6% Similarity=0.095 Sum_probs=9.9
Q ss_pred HHHHHHHHHcCcCeEEEc
Q psy6650 94 DILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~ 111 (156)
+.+..+++.+++...+.+
T Consensus 48 ~~~~~~~~~~gi~~~~~~ 65 (189)
T TIGR02432 48 EFVQQFCKKLNIPLEIKK 65 (189)
T ss_pred HHHHHHHHHcCCCEEEEE
Confidence 445556666666555444
No 263
>TIGR02461 osmo_MPG_phos mannosyl-3-phosphoglycerate phosphatase. Members of this family are mannosyl-3-phosphoglycerate phosphatase (EC 3.1.3.70). It acts sequentially after mannosyl-3-phosphoglycerate synthase (EC 2.4.1.217) in a two-step pathway of biosynthesis of the compatible solute mannosylglycerate, a typical osmolyte of thermophiles.
Probab=42.39 E-value=65 Score=24.59 Aligned_cols=29 Identities=10% Similarity=0.102 Sum_probs=24.8
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
+|++.|+++.+..|.+...+..+.++.++
T Consensus 26 ~l~~~G~~~vi~TgR~~~~~~~~~~~lg~ 54 (225)
T TIGR02461 26 ELKDLGFPIVFVSSKTRAEQEYYREELGV 54 (225)
T ss_pred HHHHCCCEEEEEeCCCHHHHHHHHHHcCC
Confidence 56778999999999998888888888775
No 264
>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=42.35 E-value=1.5e+02 Score=22.42 Aligned_cols=73 Identities=15% Similarity=0.080 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc---ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG---QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g---~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
.|+.+.+..+.+.+++.|..+.+... ++.. .+.++.. .+++.|+.... ... .....+ +.+.+.|+++..
T Consensus 13 ~~~~~~~~g~~~~~~~~g~~v~~~~~~~~~~~~~~~~i~~l~~-~~vdgiii~~~-~~~--~~~~~l-~~~~~~~ipvV~ 87 (271)
T cd06312 13 PFWTVVKNGAEDAAKDLGVDVEYRGPETFDVADMARLIEAAIA-AKPDGIVVTIP-DPD--ALDPAI-KRAVAAGIPVIS 87 (271)
T ss_pred cHHHHHHHHHHHHHHHhCCEEEEECCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChH--HhHHHH-HHHHHCCCeEEE
Confidence 58888999999999999999988764 3332 3334444 48998877542 111 112223 344567999998
Q ss_pred ecCC
Q psy6650 139 RVSH 142 (156)
Q Consensus 139 ~~~~ 142 (156)
++..
T Consensus 88 ~~~~ 91 (271)
T cd06312 88 FNAG 91 (271)
T ss_pred eCCC
Confidence 8753
No 265
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=42.31 E-value=1.3e+02 Score=21.56 Aligned_cols=63 Identities=16% Similarity=0.077 Sum_probs=37.4
Q ss_pred HHHHhC-CCeEEEEEcC---hHHHHHHHHHHcCcCeEEEccc-CCchhHHH-HHHHHHHHHhCCceEEE
Q psy6650 76 INLRKL-NSRLFVIRGQ---PADILPKLFKEWKTTCLTFEED-PEPFGKVR-DQNIMTLCRELNIEVIA 138 (156)
Q Consensus 76 ~~L~~~-g~~L~v~~g~---~~~~l~~l~~~~~~~~V~~~~~-~~~~~~~~-d~~v~~~l~~~~i~~~~ 138 (156)
+-|++. |++...+... ....+.+++++-.++-|+...+ .+...... ...+++.|-+.||++.+
T Consensus 43 ~~L~~~~Gi~v~~vi~~~~gg~~~i~~~I~~g~i~lVInt~dp~~~~~~~~D~~~IRR~Av~~~IP~~T 111 (142)
T PRK05234 43 GLIQEATGLDVTRLLSGPLGGDQQIGALIAEGKIDMLIFFRDPLTAQPHDPDVKALLRLADVWNIPVAT 111 (142)
T ss_pred HHHHhccCCeeEEEEcCCCCCchhHHHHHHcCceeEEEEecCCCCCCcccchHHHHHHHHHHcCCCEEc
Confidence 335555 7765443311 1134566777778888876553 34444233 34788888888888765
No 266
>PRK10976 putative hydrolase; Provisional
Probab=42.29 E-value=86 Score=24.07 Aligned_cols=30 Identities=7% Similarity=0.011 Sum_probs=25.2
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+|++.|+.+.+..|.+...+..++++.+.+
T Consensus 30 ~l~~~G~~~~iaTGR~~~~~~~~~~~l~~~ 59 (266)
T PRK10976 30 LLTARGIHFVFATGRHHVDVGQIRDNLEIK 59 (266)
T ss_pred HHHHCCCEEEEEcCCChHHHHHHHHhcCCC
Confidence 366789999999999998888888887765
No 267
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=41.94 E-value=1.3e+02 Score=21.71 Aligned_cols=72 Identities=11% Similarity=0.152 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHh--CCCeEEEEEc--C---hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRK--LNSRLFVIRG--Q---PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~--~g~~L~v~~g--~---~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|..+-+..++..+++ .|+.+.+... + ..+.+.+++.+ +++.|+..... .... .+...+.+.|+++.
T Consensus 13 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~d~ii~~~~~-~~~~----~~~~~~~~~~ip~v 86 (269)
T cd01391 13 PFGAQLLAGIELAAEEIGRGLEVILADSQSDPERALEALRDLIQQ-GVDGIIGPPSS-SSAL----AVVELAAAAGIPVV 86 (269)
T ss_pred HHHHHHHHHHHHHHHHhCCceEEEEecCCCCHHHHHHHHHHHHHc-CCCEEEecCCC-HHHH----HHHHHHHHcCCcEE
Confidence 3555666666666777 7888877754 2 23355566654 78888765432 1111 14455666789988
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.+...
T Consensus 87 ~~~~~ 91 (269)
T cd01391 87 SLDAT 91 (269)
T ss_pred EecCC
Confidence 87543
No 268
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=41.63 E-value=1.5e+02 Score=22.35 Aligned_cols=71 Identities=10% Similarity=0.052 Sum_probs=44.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEE-c--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIR-G--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~-g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~ 138 (156)
-|+.+-+..+.+.+++.|..+.+.. . ++. +.+.. +...+++.|++... .+. ..++.+.. +.+ |++++.
T Consensus 11 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~~--~~~~~l~~-~~~-~ipvV~ 84 (271)
T cd06314 11 PFWKIAEAGVKAAGKELGVDVEFVVPQQGTVNAQLRMLED-LIAEGVDGIAISPI-DPK--AVIPALNK-AAA-GIKLIT 84 (271)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEeCCCCCCHHHHHHHHHH-HHhcCCCEEEEecC-Chh--HhHHHHHH-Hhc-CCCEEE
Confidence 4788889999999999999988874 2 332 23333 34458998877632 111 11223333 345 899988
Q ss_pred ecC
Q psy6650 139 RVS 141 (156)
Q Consensus 139 ~~~ 141 (156)
++.
T Consensus 85 ~~~ 87 (271)
T cd06314 85 TDS 87 (271)
T ss_pred ecC
Confidence 864
No 269
>PRK09283 delta-aminolevulinic acid dehydratase; Validated
Probab=41.27 E-value=2e+02 Score=23.69 Aligned_cols=70 Identities=16% Similarity=0.219 Sum_probs=48.5
Q ss_pred ecCCCCccccHHHHHHHhcC-----CcceEEEEeCCCCcCC---CCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcCh
Q psy6650 21 FRKGLRMHDNPSLREGLKGC-----TTFRCVFILDPWFAGS---SNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQP 92 (156)
Q Consensus 21 fr~DLRl~DN~aL~~A~~~~-----~~vi~vfi~d~~~~~~---~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~ 92 (156)
++|=-|+.-|+.+....++. +-+.|+||.+...... .-.|..| |=...|.+.-+++.++|++-+++.|-+
T Consensus 5 ~~R~RRlR~~~~~R~lv~Et~l~~~dlI~PiFV~eg~~~~~~I~smPg~~r--~s~d~l~~~v~~~~~~Gi~av~LFgv~ 82 (323)
T PRK09283 5 FTRPRRLRKTAALRRLVRETRLTPNDLIYPLFVVEGENEREEIPSMPGVYR--LSIDLLVKEAEEAVELGIPAVALFGVP 82 (323)
T ss_pred CcCCcccCCCHHHHHHHhcCCCCHHHceeeEEEecCCCCccccCCCCCcee--eCHHHHHHHHHHHHHCCCCEEEEeCcC
Confidence 45667888899998876542 4589999997633211 1224444 445777888888899999988887763
No 270
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=41.21 E-value=1.1e+02 Score=21.21 Aligned_cols=43 Identities=16% Similarity=0.244 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChH-----HHHHHHHHHcCcCeEEEc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPA-----DILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~-----~~l~~l~~~~~~~~V~~~ 111 (156)
.++.+.-+.+++....|+++..|.. ..++.+|+++++.-||+.
T Consensus 30 ~G~~e~~Kai~~g~a~LVviA~Dv~P~~~~~~l~~lc~~~~vpyv~V~ 77 (116)
T COG1358 30 KGTNEVTKAIERGKAKLVVIAEDVSPEELVKHLPALCEEKNVPYVYVG 77 (116)
T ss_pred hhHHHHHHHHHcCCCcEEEEecCCCHHHHHHHHHHHHHhcCCCEEEeC
Confidence 3444444444444444555544322 234555555555555543
No 271
>TIGR01662 HAD-SF-IIIA HAD-superfamily hydrolase, subfamily IIIA. In the case of histidinol phosphatase and PNK-3'-phosphatase, this model represents a domain of a bifunctional system. In the histidinol phosphatase HisB, a C-terminal domain is an imidazoleglycerol-phosphate dehydratase which catalyzes a related step in histidine biosynthesis. In PNK-3'-phosphatase, N- and C-terminal domains constitute the polynucleotide kinase and DNA-binding components of the enzyme.
Probab=41.17 E-value=83 Score=21.29 Aligned_cols=41 Identities=12% Similarity=0.233 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcCh--------HHHHHHHHHHcCcC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQP--------ADILPKLFKEWKTT 106 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~--------~~~l~~l~~~~~~~ 106 (156)
-++..+.++=+.|++.|+.+.++.+.+ .+.+..+++..+..
T Consensus 25 ~~~~~v~~~l~~L~~~g~~l~i~Sn~~~~~~~~~~~~~~~~~l~~~~l~ 73 (132)
T TIGR01662 25 ILYPEVPDALAELKEAGYKVVIVTNQSGIGRGKFSSGRVARRLEELGVP 73 (132)
T ss_pred eeCCCHHHHHHHHHHCCCEEEEEECCccccccHHHHHHHHHHHHHCCCC
Confidence 345666667777888899999998877 67788888887775
No 272
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=41.16 E-value=1.3e+02 Score=24.46 Aligned_cols=47 Identities=13% Similarity=0.023 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC----eEEEcccCC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT----CLTFEEDPE 115 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~V~~~~~~~ 115 (156)
.++.++=++|++.|+.+.+..+...+......++.|++ .|+++.+..
T Consensus 149 PgV~EaL~~LkekGikLaIaTS~~Re~v~~~L~~lGLd~YFdvIIs~Gdv~ 199 (301)
T TIGR01684 149 PRIYDSLTELKKRGCILVLWSYGDRDHVVESMRKVKLDRYFDIIISGGHKA 199 (301)
T ss_pred HHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHcCCCcccCEEEECCccc
Confidence 44444555566789999999877777777888888887 456665553
No 273
>TIGR03023 WcaJ_sugtrans Undecaprenyl-phosphate glucose phosphotransferase. Colanic acid biosynthesis utilizes a glucose-undecaprenyl carrier, knockout of EpsB abolishes incorporation of UDP-glucose into the lipid phase and the C-terminal portion of GumD has been shown to be responsible for the glucosyl-1-transferase activity.
Probab=41.02 E-value=98 Score=26.13 Aligned_cols=46 Identities=15% Similarity=0.131 Sum_probs=33.9
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+.+.+++++++++.|+..-+... ..+..++.+.|++.|+++....+
T Consensus 181 ~dl~~~i~~~~vd~ViIA~p~~~--~~~~~~ll~~~~~~gv~V~vvP~ 226 (451)
T TIGR03023 181 DDLEELIREGEVDEVYIALPLAA--EDRILELLDALEDLTVDVRLVPD 226 (451)
T ss_pred HHHHHHHHhcCCCEEEEeeCccc--HHHHHHHHHHHHhcCCEEEEeCc
Confidence 45788999999999998865432 33446677788888888887654
No 274
>PRK14976 5'-3' exonuclease; Provisional
Probab=41.02 E-value=1.9e+02 Score=23.16 Aligned_cols=77 Identities=14% Similarity=0.102 Sum_probs=48.5
Q ss_pred cCCcceEEEEeCCC--CcCCC---CCCcch---HHHHHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHHc---CcC
Q psy6650 39 GCTTFRCVFILDPW--FAGSS---NVGINK---WRFLLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKEW---KTT 106 (156)
Q Consensus 39 ~~~~vi~vfi~d~~--~~~~~---~~~~~r---~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~---~~~ 106 (156)
...+-.++++||.. .|... .+-..| -.-+.+.+..+++-|+..|++.+...| +..+++-.++.+. +..
T Consensus 52 ~~~p~~~~v~fD~~~~~~R~~l~p~YKanR~~~p~~l~~q~~~i~~~l~~~gi~~~~~~g~EADDviatla~~~~~~g~~ 131 (281)
T PRK14976 52 KLNPSYILIAFDAGRKTFRHQLYDEYKQGRKKTPESLISQIPLLKKILKLAGIKWEEQPGYEADDLIGSLAKKLSKQNIT 131 (281)
T ss_pred hcCCCEEEEEEECCCCcccccccHHHhcCCCCCCHHHHHHHHHHHHHHHHCCCCEEecCCcCHHHHHHHHHHHHHHCCCe
Confidence 33455667888752 23210 111111 234667788888889999999999988 7777887777653 445
Q ss_pred eEEEcccCC
Q psy6650 107 CLTFEEDPE 115 (156)
Q Consensus 107 ~V~~~~~~~ 115 (156)
.++++.+..
T Consensus 132 v~IvS~DkD 140 (281)
T PRK14976 132 VLIYSSDKD 140 (281)
T ss_pred EEEEeCCCC
Confidence 566666543
No 275
>COG0561 Cof Predicted hydrolases of the HAD superfamily [General function prediction only]
Probab=40.99 E-value=79 Score=24.30 Aligned_cols=41 Identities=12% Similarity=0.174 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
+.+...+.-+++++.|+.+.+..|.+...+..+.++.+.+.
T Consensus 21 i~~~~~~al~~~~~~g~~v~iaTGR~~~~~~~~~~~l~~~~ 61 (264)
T COG0561 21 ISPETKEALARLREKGVKVVLATGRPLPDVLSILEELGLDG 61 (264)
T ss_pred cCHHHHHHHHHHHHCCCEEEEECCCChHHHHHHHHHcCCCc
Confidence 33444444447888999999999999999999999988873
No 276
>TIGR02571 ComEB ComE operon protein 2. This protein is found in the ComE operon for "late competence" as characterized in B. subtilis. Proteins in this family contain homology to a cytidine/deoxycytidine deaminase domain family (pfam00383), and may carry out this activity.
Probab=40.72 E-value=1.4e+02 Score=21.59 Aligned_cols=53 Identities=8% Similarity=0.083 Sum_probs=37.7
Q ss_pred CCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 82 NSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 82 g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|..|++-..........++. .+|..||+...|.... .-.+.+++.||++..+.
T Consensus 87 g~tlYvT~ePC~~Ca~ai~~-agI~~Vvy~~~~~~~~-----~~~~~l~~~gi~v~~~~ 139 (151)
T TIGR02571 87 GAEIYVTHFPCLQCTKSIIQ-AGIKKIYYAQDYHNHP-----YAIELFEQAGVELKKVP 139 (151)
T ss_pred CcEEEEeCCCcHHHHHHHHH-hCCCEEEEccCCCCcH-----HHHHHHHHCCCEEEEeC
Confidence 66677776666667665554 6999999987664432 23467888899999885
No 277
>PRK06683 hypothetical protein; Provisional
Probab=40.53 E-value=1e+02 Score=19.90 Aligned_cols=37 Identities=16% Similarity=0.064 Sum_probs=20.2
Q ss_pred HHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 101 KEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 101 ~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
++-.+.-|+...+.+++-. +.+...|+..+|++..+.
T Consensus 24 k~gkaklViiA~Da~~~~~---~~i~~~~~~~~Vpv~~~~ 60 (82)
T PRK06683 24 KNGIVKEVVIAEDADMRLT---HVIIRTALQHNIPITKVE 60 (82)
T ss_pred HcCCeeEEEEECCCCHHHH---HHHHHHHHhcCCCEEEEC
Confidence 3345666666666555422 234455555666666554
No 278
>PRK13225 phosphoglycolate phosphatase; Provisional
Probab=40.24 E-value=78 Score=25.01 Aligned_cols=37 Identities=14% Similarity=0.125 Sum_probs=30.2
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+.++=+.|++.|+.+.|+.+.....+..+.+..++.
T Consensus 146 g~~e~L~~L~~~gi~laIvSn~~~~~~~~~L~~~gl~ 182 (273)
T PRK13225 146 GVADLLAQLRSRSLCLGILSSNSRQNIEAFLQRQGLR 182 (273)
T ss_pred CHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCh
Confidence 5556667888889999999988888888888887764
No 279
>PRK09701 D-allose transporter subunit; Provisional
Probab=40.21 E-value=1.8e+02 Score=22.82 Aligned_cols=73 Identities=7% Similarity=0.045 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc----ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG----QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++.|..+.+..+ +.. +.+..+.. .+++.|+..... + ......+.+. .+.||++.
T Consensus 37 ~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~~-~~vDgiIi~~~~-~--~~~~~~l~~~-~~~giPvV 111 (311)
T PRK09701 37 PFWVDMKKGIEDEAKTLGVSVDIFASPSEGDFQSQLQLFEDLSN-KNYKGIAFAPLS-S--VNLVMPVARA-WKKGIYLV 111 (311)
T ss_pred HHHHHHHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH-cCCCEEEEeCCC-h--HHHHHHHHHH-HHCCCcEE
Confidence 57888888999999999999987632 222 23444443 478888775321 1 1112223333 45799999
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.++..
T Consensus 112 ~~~~~ 116 (311)
T PRK09701 112 NLDEK 116 (311)
T ss_pred EeCCC
Confidence 99754
No 280
>PRK10124 putative UDP-glucose lipid carrier transferase; Provisional
Probab=40.18 E-value=1.1e+02 Score=26.26 Aligned_cols=48 Identities=10% Similarity=-0.056 Sum_probs=35.6
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCe
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHT 143 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~ 143 (156)
+.+.+++++++++.|+..-+.. +.++.+++.+.|++.++++....+-.
T Consensus 193 ~dL~~~v~~~~IdeViIAip~~--~~~~l~ell~~~~~~~v~V~ivP~l~ 240 (463)
T PRK10124 193 QQLVEDAKAGKIHNVYIAMSMC--DGARVKKLVRQLADTTCSVLLIPDVF 240 (463)
T ss_pred HHHHHHHHhCCCCEEEEeCCCc--chHHHHHHHHHHHHcCCeEEEecchh
Confidence 5677889999999999986543 33445667778888899888776653
No 281
>COG2241 CobL Precorrin-6B methylase 1 [Coenzyme metabolism]
Probab=40.18 E-value=68 Score=24.69 Aligned_cols=97 Identities=22% Similarity=0.352 Sum_probs=56.3
Q ss_pred ccHHHHHHHhc--CCcceEEEEeCCCCcCCCCCCcchHHH------HHHHHHHHHHHHHhCCCe-----EEEEEcChHHH
Q psy6650 29 DNPSLREGLKG--CTTFRCVFILDPWFAGSSNVGINKWRF------LLQCLEDLDINLRKLNSR-----LFVIRGQPADI 95 (156)
Q Consensus 29 DN~aL~~A~~~--~~~vi~vfi~d~~~~~~~~~~~~r~~F------l~~sL~~L~~~L~~~g~~-----L~v~~g~~~~~ 95 (156)
|+..+..-.+. +.++..++-=||.+++.... .+..| +.-++..+|-.++++|.+ ++.++|.+.+.
T Consensus 55 ~~~~l~~i~~~~~g~~v~VLasGDP~f~G~g~~--l~~~~~~~~v~iIPgiSS~q~a~ARlg~~~~~~~~islHgr~~~~ 132 (210)
T COG2241 55 DAESLEEILAERKGRDVVVLASGDPLFSGVGRL--LRRKFSCEEVEIIPGISSVQLAAARLGWPLQDTEVISLHGRPVEL 132 (210)
T ss_pred chHHHHHHHHHhCCCCeEEEecCCcchhhhHHH--HHHhcCccceEEecChhHHHHHHHHhCCChHHeEEEEecCCCHHH
Confidence 45555544443 57788888889977642110 11111 223566777778888865 45567888888
Q ss_pred HHHHHHHcCcCeE-EEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 96 LPKLFKEWKTTCL-TFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 96 l~~l~~~~~~~~V-~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
+..+... +...| ......+|. ++.+.|.+.|+
T Consensus 133 l~~~~~~-~~~~vil~~~~~~P~------~IA~~L~~~G~ 165 (210)
T COG2241 133 LRPLLEN-GRRLVILTPDDFGPA------EIAKLLTENGI 165 (210)
T ss_pred HHHHHhC-CceEEEeCCCCCCHH------HHHHHHHhCCC
Confidence 7777733 33333 444444454 45566776765
No 282
>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain. Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th
Probab=40.16 E-value=1.8e+02 Score=22.86 Aligned_cols=120 Identities=7% Similarity=0.009 Sum_probs=65.2
Q ss_pred EEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE----cCh
Q psy6650 17 MVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR----GQP 92 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~----g~~ 92 (156)
...|.|-+.+ .+..|.+.+-..+-+|+--.+.......+ +......+.+.+.-+..++.|..+.+-- +.+
T Consensus 66 v~~~~r~~~~-----di~~a~~~g~~~i~i~~~~S~~~~~~~~~-~~~~e~~~~~~~~i~~a~~~G~~v~~~~eda~r~~ 139 (262)
T cd07948 66 ILTHIRCHMD-----DARIAVETGVDGVDLVFGTSPFLREASHG-KSITEIIESAVEVIEFVKSKGIEVRFSSEDSFRSD 139 (262)
T ss_pred EEEEecCCHH-----HHHHHHHcCcCEEEEEEecCHHHHHHHhC-CCHHHHHHHHHHHHHHHHHCCCeEEEEEEeeCCCC
Confidence 4556553322 46667766656656655322111111122 2234556666666677778887765542 345
Q ss_pred HHHHHHHHH---HcCcCeEEEcccCCchhHHHHHHHHHHHHhC-C--ceEEEecCC
Q psy6650 93 ADILPKLFK---EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL-N--IEVIARVSH 142 (156)
Q Consensus 93 ~~~l~~l~~---~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~-~--i~~~~~~~~ 142 (156)
.+.+.++++ +.+++.|+..+..+.-...+..++-+.+++. + +.+|.+++.
T Consensus 140 ~~~l~~~~~~~~~~g~~~i~l~Dt~G~~~P~~v~~~~~~~~~~~~~~i~~H~Hn~~ 195 (262)
T cd07948 140 LVDLLRVYRAVDKLGVNRVGIADTVGIATPRQVYELVRTLRGVVSCDIEFHGHNDT 195 (262)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCcCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence 555555554 4689999988887765555555444444432 3 445544443
No 283
>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain. Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con
Probab=40.05 E-value=1.9e+02 Score=23.02 Aligned_cols=110 Identities=5% Similarity=-0.069 Sum_probs=60.2
Q ss_pred HHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC-------hHHHHHHHHH---
Q psy6650 32 SLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ-------PADILPKLFK--- 101 (156)
Q Consensus 32 aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~-------~~~~l~~l~~--- 101 (156)
.+..|.+.+-..+.+++--.+.......+.- ....++-+.+.-+..++.|..+.+--.+ +.+.+.++++
T Consensus 79 ~~~~A~~~g~~~i~i~~~~S~~h~~~~~~~t-~~e~l~~~~~~i~~a~~~G~~v~~~~~d~~~~~r~~~~~~~~~~~~~~ 157 (280)
T cd07945 79 SVDWIKSAGAKVLNLLTKGSLKHCTEQLRKT-PEEHFADIREVIEYAIKNGIEVNIYLEDWSNGMRDSPDYVFQLVDFLS 157 (280)
T ss_pred HHHHHHHCCCCEEEEEEeCCHHHHHHHHCcC-HHHHHHHHHHHHHHHHhCCCEEEEEEEeCCCCCcCCHHHHHHHHHHHH
Confidence 5666666555555666532211111122222 3456666777777778888765544321 3455555554
Q ss_pred HcCcCeEEEcccCCchhHHHHHHHHHHHHhC--C--ceEEEecCC
Q psy6650 102 EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL--N--IEVIARVSH 142 (156)
Q Consensus 102 ~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~--~--i~~~~~~~~ 142 (156)
+.|++.|+..+..+.-...+..++-+.+++. + +.+|.+++.
T Consensus 158 ~~G~~~i~l~DT~G~~~P~~v~~l~~~l~~~~~~~~i~~H~Hnd~ 202 (280)
T cd07945 158 DLPIKRIMLPDTLGILSPFETYTYISDMVKRYPNLHFDFHAHNDY 202 (280)
T ss_pred HcCCCEEEecCCCCCCCHHHHHHHHHHHHhhCCCCeEEEEeCCCC
Confidence 4699999988887765554444444444332 2 455555543
No 284
>TIGR02263 benz_CoA_red_C benzoyl-CoA reductase, subunit C. This model describes C subunit of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA. This enzyme acts under anaerobic conditions.
Probab=40.05 E-value=87 Score=26.07 Aligned_cols=48 Identities=19% Similarity=0.150 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHcCcCeEEE--cccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 92 PADILPKLFKEWKTTCLTF--EEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~--~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-.+.|.+++++++++.|+. .....++.... -.+++.+++.||++..++
T Consensus 309 R~~~i~~lvke~~aDGVI~~~~~~C~~~~~e~-~~lk~~l~e~GIP~L~id 358 (380)
T TIGR02263 309 KGKYLLDQVRKNAAEGVIFAAPSFCDPALLER-PMLAARCKEHGIPQIAFK 358 (380)
T ss_pred HHHHHHHHHHHhCCCEEEEhHhhcCChhhhhH-HHHHHHHHHCCCCEEEEE
Confidence 4578889999999998854 34445554443 346778888899988773
No 285
>PF11987 IF-2: Translation-initiation factor 2; InterPro: IPR023115 Initiation factor 2 (IF-2) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-2 promotes the GTP-dependent binding of the initiator tRNA to the small subunit of the ribosome. IF-2 is a protein of about 70 to 95 kDa that contains a central GTP-binding domain flanked by a highly variable N-terminal domain and a more conserved C-terminal domain. Some members of this group undergo protein self splicing that involves a post-translational excision of the intein followed by peptide ligation. The function of IF-2 in facilitating the proper binding of initiator methionyl-tRNA to the ribosomal P site appears to be universally conserved, with an IF-2 homologue (aIF-2) present in archaea bacteria [] Methanopyrus kandleri. This entry represents the domain 3 of IF-2. It consists of a alpha/beta/alpha structure with a core formed by a parallel beta-sheet of 4 strands [].; PDB: 1Z9B_A 1ZO1_I 3IZY_P 1G7R_A 1G7S_A 1G7T_A.
Probab=39.91 E-value=1.2e+02 Score=20.60 Aligned_cols=65 Identities=17% Similarity=0.233 Sum_probs=40.6
Q ss_pred HHHHHHHHHHHhC---CCeEEEE---EcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 69 QCLEDLDINLRKL---NSRLFVI---RGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 69 ~sL~~L~~~L~~~---g~~L~v~---~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-||+.+...|.++ .+.+-++ .|+..+.=..++...++.-+.||-...+. +++..++.||++..++
T Consensus 27 GslEAi~~~l~~~~~~~v~i~Ii~~~VG~it~sDI~~A~~~~a~Ii~FNv~~~~~-------~~~~a~~~~V~I~~~~ 97 (108)
T PF11987_consen 27 GSLEAIKNSLEKLSNDEVKIKIIHAGVGPITESDIELASASNAIIIAFNVKVSPD-------AKDLAKKSGVKIRSHN 97 (108)
T ss_dssp HHHHHHHHHHCCTT-SSSCEEESEEEESSBHHHHHHHHHHHC-EEEESSS-B-HH-------HHHCHHSSTSEEEEST
T ss_pred hhHHHHHHHHHhcccccccccEEEeeCCCCCHHHHHHHHhhCCEEEEeeCCCCHH-------HHHHHHHcCCEEEEeC
Confidence 5777788888877 3455555 48877655567777776666777665443 3344556788887664
No 286
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=39.76 E-value=1.9e+02 Score=22.83 Aligned_cols=70 Identities=11% Similarity=0.138 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHh-CCceEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRE-LNIEVIA 138 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~-~~i~~~~ 138 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+.. +...+++.|++....... ...+.+.+ .|+++..
T Consensus 72 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~-l~~~~vdgiii~~~~~~~------~~~~~l~~~~~iPvV~ 144 (341)
T PRK10703 72 PYFAEIIEAVEKNCYQKGYTLILCNAWNNLEKQRAYLSM-LAQKRVDGLLVMCSEYPE------PLLAMLEEYRHIPMVV 144 (341)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEecCCCCH------HHHHHHHhcCCCCEEE
Confidence 46667777888889999999888753 233 23433 344678888764321111 11233444 5899988
Q ss_pred ecC
Q psy6650 139 RVS 141 (156)
Q Consensus 139 ~~~ 141 (156)
++.
T Consensus 145 ~d~ 147 (341)
T PRK10703 145 MDW 147 (341)
T ss_pred Eec
Confidence 864
No 287
>TIGR01486 HAD-SF-IIB-MPGP mannosyl-3-phosphoglycerate phosphatase family. This small group of proteins is a member of the IIB subfamily (TIGR01484) of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. Several members of this family from thermophiles (and from Dehalococcoides ethenogenes) are now known to act as mannosyl-3-phosphoglycerate (MPG) phosphatase. In these cases, the enzyme acts after MPG synthase to make the compatible solute mannosylglycerate. We propose that other mesophilic members of this family do not act as mannosyl-3-phosphoglycerate phosphatase. A member of this family is found in Escherichia coli, which appears to lack MPG synthase. Mannosylglycerate is imported in E. coli by phosphoenolpyruvate-dependent transporter (PubMed:14645248), but it appears the phosphorylation is not on the glycerate moiety, that the phosphorylated import is degraded by an alpha-mannosidase from an adjacent gene, and that E. coli would have no pathway to obta
Probab=39.63 E-value=91 Score=23.93 Aligned_cols=31 Identities=19% Similarity=0.117 Sum_probs=25.8
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+.|++.|+.+.+..|.+...+..+++++++.
T Consensus 26 ~~l~~~g~~~~~~TgR~~~~~~~~~~~~~~~ 56 (256)
T TIGR01486 26 ERLQELGIPVIPCTSKTAAEVEYLRKELGLE 56 (256)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHHHcCCC
Confidence 3456779999999999999888899988764
No 288
>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional
Probab=39.59 E-value=2.6e+02 Score=24.49 Aligned_cols=126 Identities=12% Similarity=0.073 Sum_probs=68.7
Q ss_pred eEEEEe---cCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE----
Q psy6650 16 HMVHWF---RKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI---- 88 (156)
Q Consensus 16 ~~l~Wf---r~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~---- 88 (156)
....|- |.|++..+...+..+...+-..+.+|+-..........+.- .....+.+.+.-+..++.|....+-
T Consensus 71 ~i~~~~~~~~~~i~~~~d~~~e~~~~~g~~~i~i~~~~Sd~h~~~~l~~s-~~e~l~~~~~~v~~ak~~G~~v~~~~e~~ 149 (524)
T PRK12344 71 KLAAFGSTRRAGVSAEEDPNLQALLDAGTPVVTIFGKSWDLHVTEALRTT-LEENLAMIRDSVAYLKAHGREVIFDAEHF 149 (524)
T ss_pred EEEEEeeccccCCCcccHHHHHHHHhCCCCEEEEEECCCHHHHHHHcCCC-HHHHHHHHHHHHHHHHHcCCeEEEccccc
Confidence 345555 45777655567766666666677777643221111111212 2456667777777778888765441
Q ss_pred -Ec--ChHHHHHHHH---HHcCcCeEEEcccCCchhHHHHHHHHHHHHhC---CceEEEecCC
Q psy6650 89 -RG--QPADILPKLF---KEWKTTCLTFEEDPEPFGKVRDQNIMTLCREL---NIEVIARVSH 142 (156)
Q Consensus 89 -~g--~~~~~l~~l~---~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~---~i~~~~~~~~ 142 (156)
.+ ...+.+.+++ .+.+++.|+.....+.-...+-.++-+.+.+. .+.+|+++|.
T Consensus 150 ~Da~r~d~~~l~~~~~~~~~~Gad~i~l~DTvG~~~P~~v~~li~~l~~~~~v~i~~H~HND~ 212 (524)
T PRK12344 150 FDGYKANPEYALATLKAAAEAGADWVVLCDTNGGTLPHEVAEIVAEVRAAPGVPLGIHAHNDS 212 (524)
T ss_pred cccccCCHHHHHHHHHHHHhCCCCeEEEccCCCCcCHHHHHHHHHHHHHhcCCeEEEEECCCC
Confidence 11 1234444444 45799999888777654444444444443322 3566666654
No 289
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=39.49 E-value=2.2e+02 Score=23.49 Aligned_cols=22 Identities=14% Similarity=0.416 Sum_probs=11.1
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEc
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRG 90 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g 90 (156)
.++.+|.+.++++| ....|+.|
T Consensus 12 g~l~~l~~~l~~~g~~~~lvvt~ 34 (374)
T cd08189 12 GSLAQLPAAISQLGVKKVLIVTD 34 (374)
T ss_pred CHHHHHHHHHHhcCCCeEEEEeC
Confidence 34555555566555 34444443
No 290
>TIGR00365 monothiol glutaredoxin, Grx4 family. The gene for the member of this glutaredoxin family in E. coli, originally designated ydhD, is now designated grxD. Its protein, Grx4, is a monothiol glutaredoxin similar to Grx5 of yeast, which is involved in iron-sulfur cluster formation.
Probab=39.27 E-value=98 Score=20.31 Aligned_cols=50 Identities=10% Similarity=-0.047 Sum_probs=26.2
Q ss_pred HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeee
Q psy6650 93 ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLY 145 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~ 145 (156)
.....++.++.+++-...+-.-.+. ..+.+.+.-....++...+++..+-
T Consensus 30 C~~ak~lL~~~~i~~~~~di~~~~~---~~~~l~~~tg~~tvP~vfi~g~~iG 79 (97)
T TIGR00365 30 SARAVQILKACGVPFAYVNVLEDPE---IRQGIKEYSNWPTIPQLYVKGEFVG 79 (97)
T ss_pred HHHHHHHHHHcCCCEEEEECCCCHH---HHHHHHHHhCCCCCCEEEECCEEEe
Confidence 3566778888888755554332221 1122333222235777777776643
No 291
>COG3053 CitC Citrate lyase synthetase [Energy production and conversion]
Probab=39.24 E-value=2.2e+02 Score=23.48 Aligned_cols=105 Identities=13% Similarity=0.112 Sum_probs=65.4
Q ss_pred HHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEc--------C-----------h
Q psy6650 32 SLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRG--------Q-----------P 92 (156)
Q Consensus 32 aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g--------~-----------~ 92 (156)
....|+++++. +-+|+...+-... ++ .-|+.-+.+++.+|..-.--.|++.+|-+. + .
T Consensus 164 LVEqAaaqcDw-lHLFvV~eD~S~f-~y-~~R~~Lv~~G~~~l~Nvt~HsgsdYiISrATFP~YFiKeq~vv~~s~t~iD 240 (352)
T COG3053 164 LVEQAAAQCDW-LHLFVVKEDSSLF-PY-EDRLDLVKKGTADLPNVTVHSGSDYIISRATFPAYFIKEQSVVNDSQTEID 240 (352)
T ss_pred HHHHHHhhCCE-EEEEEEecccccC-CH-HHHHHHHHHhhccCCceEEecCCCeEEEecccchhhhhhHHHHHHHHHHHH
Confidence 34567766654 5788886643221 22 356788999999987644444655555321 0 1
Q ss_pred HHHHHH-HHHHcCcCeEEEcccC-CchhHHHHHHHHHHHHhCC-----ceEEEe
Q psy6650 93 ADILPK-LFKEWKTTCLTFEEDP-EPFGKVRDQNIMTLCRELN-----IEVIAR 139 (156)
Q Consensus 93 ~~~l~~-l~~~~~~~~V~~~~~~-~~~~~~~d~~v~~~l~~~~-----i~~~~~ 139 (156)
..+|.+ ++...||++=|+..++ ++-...=-++++.+|.+++ |.++..
T Consensus 241 l~iFr~~iA~aLgIThRfVG~EP~c~vT~~YNq~M~~~L~~~~~~~p~I~vvei 294 (352)
T COG3053 241 LKIFRKYIAPALGITHRFVGTEPFCRVTAIYNQQMRYWLEDPTISAPPIEVVEI 294 (352)
T ss_pred HHHHHHHHHHHhCcceeeecCCCCcHHHHHHHHHHHHHHhccCCCCCceEEEEe
Confidence 124555 7778999999997665 4444455567788888766 666544
No 292
>PLN03194 putative disease resistance protein; Provisional
Probab=39.20 E-value=1.7e+02 Score=22.17 Aligned_cols=78 Identities=15% Similarity=0.036 Sum_probs=45.9
Q ss_pred HHHHHHHHhCCCeEEEE-----EcChH-HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeee
Q psy6650 72 EDLDINLRKLNSRLFVI-----RGQPA-DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLY 145 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~-----~g~~~-~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~ 145 (156)
..|...|.+.|+...+= .|+.. ..|.+-+++..+.-|+++..|.--. .-.+++.+.++...+-+-.| +=+
T Consensus 44 shL~~aL~~~GI~vF~D~~el~~G~~i~~~L~~AIeeSri~IvVfS~~Ya~S~-WCLdEL~~I~e~~~~ViPIF---Y~V 119 (187)
T PLN03194 44 TLLYDHLSRLNLRPFLDNKNMKPGDKLFDKINSAIRNCKVGVAVFSPRYCESY-FCLHELALIMESKKRVIPIF---CDV 119 (187)
T ss_pred HHHHHHHHHCCCEEEEcCccccCCCcHHHHHHHHHHhCeEEEEEECCCcccch-hHHHHHHHHHHcCCEEEEEE---ecC
Confidence 56777888889876542 35543 4566667778888889998886432 22334555554322212222 225
Q ss_pred cCCCCCCC
Q psy6650 146 DLDQLKPD 153 (156)
Q Consensus 146 ~~~~l~~~ 153 (156)
+|.+++++
T Consensus 120 dPsdVr~q 127 (187)
T PLN03194 120 KPSQLRVV 127 (187)
T ss_pred CHHHhhcc
Confidence 67777764
No 293
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA b
Probab=39.14 E-value=1.6e+02 Score=21.89 Aligned_cols=71 Identities=13% Similarity=0.104 Sum_probs=43.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+++.+++.|..+.+...+ +.. .+..+.. .+++.|+....- ... ..+ +.+.+.|++++.+
T Consensus 12 ~~~~~~~~~i~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~~dgiii~~~~-~~~----~~l-~~~~~~~ipvV~~ 84 (267)
T cd06283 12 PFSSLVLKGIEDVCRAHGYQVLVCNSDNDPEKEKEYLESLLA-YQVDGLIVNPTG-NNK----ELY-QRLAKNGKPVVLV 84 (267)
T ss_pred ccHHHHHHHHHHHHHHcCCEEEEEcCCCCHHHHHHHHHHHHH-cCcCEEEEeCCC-CCh----HHH-HHHhcCCCCEEEE
Confidence 356677778888888999988876543 322 2334333 578888765322 111 113 3345568999988
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 85 ~~~ 87 (267)
T cd06283 85 DRK 87 (267)
T ss_pred cCC
Confidence 754
No 294
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=39.10 E-value=2.3e+02 Score=23.58 Aligned_cols=22 Identities=14% Similarity=0.252 Sum_probs=11.6
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEc
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRG 90 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g 90 (156)
.++.+|.+.++++| ....|+.|
T Consensus 17 g~~~~l~~~~~~~g~~~~livt~ 39 (383)
T PRK09860 17 DSLTDAMNMMADYGFTRTLIVTD 39 (383)
T ss_pred CHHHHHHHHHHhcCCCEEEEEcC
Confidence 35555666666666 34444444
No 295
>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]
Probab=39.09 E-value=82 Score=24.00 Aligned_cols=22 Identities=14% Similarity=0.315 Sum_probs=18.0
Q ss_pred HHHHHHHHhCCCeEEEEEcChH
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
..|.+.|.+.|...+++.|+..
T Consensus 41 ~ale~~L~~~G~~~y~LDGDnv 62 (197)
T COG0529 41 NALEEKLFAKGYHVYLLDGDNV 62 (197)
T ss_pred HHHHHHHHHcCCeEEEecChhH
Confidence 3577889999999999988754
No 296
>smart00475 53EXOc 5'-3' exonuclease.
Probab=38.87 E-value=1.4e+02 Score=23.65 Aligned_cols=48 Identities=19% Similarity=0.232 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHHc---CcCeEEEcccC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRG-QPADILPKLFKEW---KTTCLTFEEDP 114 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~---~~~~V~~~~~~ 114 (156)
+.+.+..+++-|+..|++.+...| +..+++-.|+... +...++++.+.
T Consensus 82 L~~q~~~~~~~l~~~gi~~i~~~g~EADD~iatla~~~~~~g~~~~IvS~Dk 133 (259)
T smart00475 82 LLEQIPLIKELLDALGIPVLEVEGYEADDVIATLAKKAEAEGYEVRIVSGDK 133 (259)
T ss_pred HHHHHHHHHHHHHHCCCCEEeeCCcCHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence 556678889999999999988888 7778887777753 44556666554
No 297
>PRK09860 putative alcohol dehydrogenase; Provisional
Probab=38.64 E-value=1.2e+02 Score=25.15 Aligned_cols=56 Identities=11% Similarity=-0.027 Sum_probs=30.0
Q ss_pred EEEEc-ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 86 FVIRG-QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 86 ~v~~g-~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.|+.| ...+.|.+.+++++...+++-.+.........+++.+.|++.|+.+..|++
T Consensus 11 ~i~~G~g~~~~l~~~~~~~g~~~~livt~~~~~~~g~~~~v~~~L~~~~i~~~~f~~ 67 (383)
T PRK09860 11 VNVIGADSLTDAMNMMADYGFTRTLIVTDNMLTKLGMAGDVQKALEERNIFSVIYDG 67 (383)
T ss_pred eEEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCC
Confidence 44555 344566677777776555433222222222234566777766777666654
No 298
>PRK13844 recombination protein RecR; Provisional
Probab=38.34 E-value=1.8e+02 Score=22.28 Aligned_cols=44 Identities=16% Similarity=0.246 Sum_probs=35.6
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|.+.+++.++..|+..-.++.+....-.-+.+.++. ++++...
T Consensus 129 ~L~~Ri~~~~v~EVIlAt~~t~EGe~Ta~yi~~~lk~-~vkvtRl 172 (200)
T PRK13844 129 ILQQIIADRKIDEVILAISPTVEGETTAHFISQMIAK-DIKISRI 172 (200)
T ss_pred HHHHHHhcCCCcEEEEeCCCCccHHHHHHHHHHHhcC-CCcEEee
Confidence 4555555567999999999999998888999999986 8887754
No 299
>PLN03243 haloacid dehalogenase-like hydrolase; Provisional
Probab=38.21 E-value=1.9e+02 Score=22.55 Aligned_cols=46 Identities=15% Similarity=0.149 Sum_probs=34.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDP 114 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~ 114 (156)
.++.++=+.|++.|+++.|..+.+...+..+++..++ +.|+...+.
T Consensus 112 pg~~e~L~~L~~~g~~l~I~Tn~~~~~~~~~l~~~gl~~~Fd~ii~~~d~ 161 (260)
T PLN03243 112 PGSREFVQALKKHEIPIAVASTRPRRYLERAIEAVGMEGFFSVVLAAEDV 161 (260)
T ss_pred CCHHHHHHHHHHCCCEEEEEeCcCHHHHHHHHHHcCCHhhCcEEEecccC
Confidence 4456677788889999999999888888888887765 456665554
No 300
>PF13778 DUF4174: Domain of unknown function (DUF4174)
Probab=37.89 E-value=1.1e+02 Score=20.91 Aligned_cols=34 Identities=21% Similarity=0.252 Sum_probs=27.2
Q ss_pred CcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH
Q psy6650 60 GINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 60 ~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
...++..+.+.|.+-+..|.++.+-++++.|+..
T Consensus 21 ~d~~~~~q~~~L~~~~~~l~eRdi~v~~i~~~~~ 54 (118)
T PF13778_consen 21 DDPRYQQQLEELQNNRCGLDERDIVVIVITGDGA 54 (118)
T ss_pred CCHHHHHHHHHHHhhhhccccCceEEEEEeCCcc
Confidence 3456778889999988899999999888876544
No 301
>smart00500 SFM Splicing Factor Motif, present in Prp18 and Pr04.
Probab=37.86 E-value=79 Score=18.06 Aligned_cols=30 Identities=13% Similarity=0.190 Sum_probs=21.1
Q ss_pred HHHHHHHHhCCCeEEEEEcChHHHHHHHHH
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPADILPKLFK 101 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~ 101 (156)
.++.+.|+++|.|..++-.+..+....|.+
T Consensus 4 ~eV~~~LR~lgePi~lFGE~~~~Rr~RL~~ 33 (44)
T smart00500 4 SEVIRRLRELGEPITLFGEDDQERRQRLRQ 33 (44)
T ss_pred HHHHHHHHHcCCCeeecCCChHHHHHHHHH
Confidence 467788999999988776555565555543
No 302
>cd07941 DRE_TIM_LeuA3 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain. Desulfobacterium autotrophicum LeuA3 is sequence-similar to alpha-isopropylmalate synthase (LeuA) but its exact function is unknown. Members of this family have an N-terminal TIM barrel domain that belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of in
Probab=37.75 E-value=2e+02 Score=22.63 Aligned_cols=126 Identities=13% Similarity=0.111 Sum_probs=68.1
Q ss_pred eEEEEec---CCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE----
Q psy6650 16 HMVHWFR---KGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI---- 88 (156)
Q Consensus 16 ~~l~Wfr---~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~---- 88 (156)
..+.|-| .|....+...+..|.+.+...+.+|+-..........+.- .....+.+.++-+..++.|....+-
T Consensus 64 ~~~~~~~~~~~~i~~~~~~~~~~a~~~g~~~i~i~~~~sd~~~~~~~~~~-~~~~~~~~~~~i~~ak~~G~~v~~~~~~~ 142 (273)
T cd07941 64 KLAAFGSTRRAGVKAEEDPNLQALLEAGTPVVTIFGKSWDLHVTEALGTT-LEENLAMIRDSVAYLKSHGREVIFDAEHF 142 (273)
T ss_pred EEEEEecccccCCCccchHHHHHHHhCCCCEEEEEEcCCHHHHHHHcCCC-HHHHHHHHHHHHHHHHHcCCeEEEeEEec
Confidence 3466663 3444433346666776665655555432221111112212 2345577777777788888765541
Q ss_pred -Ec--ChHHHHHHHH---HHcCcCeEEEcccCCchhHHHHHHHHHHHHh----CCceEEEecCC
Q psy6650 89 -RG--QPADILPKLF---KEWKTTCLTFEEDPEPFGKVRDQNIMTLCRE----LNIEVIARVSH 142 (156)
Q Consensus 89 -~g--~~~~~l~~l~---~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~----~~i~~~~~~~~ 142 (156)
.| .+.+.+.+++ .+.+++.|+..+..+.....+..++-+.+++ ..+.+|.+++.
T Consensus 143 ~d~~~~~~~~~~~~~~~~~~~g~~~i~l~DT~G~~~P~~v~~lv~~l~~~~~~~~l~~H~Hnd~ 206 (273)
T cd07941 143 FDGYKANPEYALATLKAAAEAGADWLVLCDTNGGTLPHEIAEIVKEVRERLPGVPLGIHAHNDS 206 (273)
T ss_pred cccCCCCHHHHHHHHHHHHhCCCCEEEEecCCCCCCHHHHHHHHHHHHHhCCCCeeEEEecCCC
Confidence 12 2344445555 4468999998888776655555555454433 23556655554
No 303
>TIGR01526 nadR_NMN_Atrans nicotinamide-nucleotide adenylyltransferase, NadR type. E. coli NadR has also been found to regulate the import of its substrate, nicotinamide ribonucleotide, but it is not known if the other members of this model share that activity.
Probab=37.61 E-value=1.9e+02 Score=23.45 Aligned_cols=73 Identities=15% Similarity=0.203 Sum_probs=41.9
Q ss_pred EEEEecCCCCc----------cccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHH--HHHHHH-HHHHHHHhCCC
Q psy6650 17 MVHWFRKGLRM----------HDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRF--LLQCLE-DLDINLRKLNS 83 (156)
Q Consensus 17 ~l~Wfr~DLRl----------~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~F--l~~sL~-~L~~~L~~~g~ 83 (156)
.++|+.+|... ...|.+..+++.. +--.+|+++|+.. -...|.|...| -.+... -|.+.|++.|.
T Consensus 234 ~iif~D~~~~~t~~y~~~~~~~~~~~~~~~~~~~-~ydl~~l~~p~~~-~~~D~~R~~~~~~~R~~~~~ll~~~l~~~G~ 311 (325)
T TIGR01526 234 KIAFIDTDFITTQVFAKQYEGREHPFLDSDIAEY-PFDLTLLLKPNTE-WVDDGLRSLGSQKQRQEFQQLLKKLLDEYGV 311 (325)
T ss_pred CeEEEcCChHHHHHHHHHHcCCCCHHHHHHHHhc-CCCEEEECCCCCC-CccCCcccCchHHHHHHHHHHHHHHHHHcCC
Confidence 36677665432 2234465565432 2225677777532 11234454445 344444 67777888999
Q ss_pred eEEEEEcC
Q psy6650 84 RLFVIRGQ 91 (156)
Q Consensus 84 ~L~v~~g~ 91 (156)
+++++.|+
T Consensus 312 ~~v~Vtgd 319 (325)
T TIGR01526 312 PFVVIESP 319 (325)
T ss_pred cEEEEeCC
Confidence 99999994
No 304
>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=37.48 E-value=1.8e+02 Score=21.97 Aligned_cols=71 Identities=10% Similarity=0.011 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC-hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhC-CceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ-PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCREL-NIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~-~i~~~~~ 139 (156)
-|+.+-+..+++.+++.|..+.+.... +. +.+.. +...+++.|++... .. ...+.+.+++. ++++..+
T Consensus 14 ~f~~~l~~gi~~~~~~~gy~~~~~~~~~~~~~~~~~~~-l~~~~vdgiii~~~-~~-----~~~~~~~~~~~~~ipvv~~ 86 (260)
T cd06304 14 SFNQSAYEGLEKAEKELGVEVKYVESVEDADYEPNLRQ-LAAQGYDLIFGVGF-GF-----MDAVEKVAKEYPDVKFAII 86 (260)
T ss_pred hHHHHHHHHHHHHHHhcCceEEEEecCCHHHHHHHHHH-HHHcCCCEEEECCc-ch-----hHHHHHHHHHCCCCEEEEe
Confidence 588888889999999999998887543 22 22333 33457888877421 11 12233334333 7888877
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 87 ~~~ 89 (260)
T cd06304 87 DGV 89 (260)
T ss_pred cCc
Confidence 653
No 305
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=37.41 E-value=99 Score=22.53 Aligned_cols=72 Identities=18% Similarity=0.226 Sum_probs=38.1
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEE---c---C---hHHHHHHHHHHcCcCeEEEcccC------CchhHHHH---HHHHH
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIR---G---Q---PADILPKLFKEWKTTCLTFEEDP------EPFGKVRD---QNIMT 127 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~---g---~---~~~~l~~l~~~~~~~~V~~~~~~------~~~~~~~d---~~v~~ 127 (156)
.|+..|.++.. ..|..+.++. | + ..+.+.++|+++++...+...+. ...+..|. +.+.+
T Consensus 14 ~Ll~~l~~~~~---~~~~~~~~~~vdh~~~~~s~~~~~~v~~~~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~ 90 (182)
T PF01171_consen 14 ALLHLLKELRR---RNGIKLIAVHVDHGLREESDEEAEFVEEICEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLRE 90 (182)
T ss_dssp HHHHHHHHHHT---TTTTEEEEEEEE-STSCCHHHHHHHHHHHHHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH---hcCCCeEEEEEecCCCcccchhHHHHHHHHHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHH
Confidence 44455555443 3456666654 2 2 34578899999999877765543 23333333 34555
Q ss_pred HHHhCCceEEEec
Q psy6650 128 LCRELNIEVIARV 140 (156)
Q Consensus 128 ~l~~~~i~~~~~~ 140 (156)
.+.+.|+......
T Consensus 91 ~a~~~g~~~i~~G 103 (182)
T PF01171_consen 91 IAKEEGCNKIALG 103 (182)
T ss_dssp HHHTTT-CEEE--
T ss_pred hhhcccccceeec
Confidence 6666777766443
No 306
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=37.35 E-value=1.2e+02 Score=19.82 Aligned_cols=40 Identities=10% Similarity=0.045 Sum_probs=20.1
Q ss_pred HHHHHHHhCCCeEEEEEcChH----HHHHHHHHHcCcCeEEEcc
Q psy6650 73 DLDINLRKLNSRLFVIRGQPA----DILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~V~~~~ 112 (156)
+..+.+++-...+.++-+|.. ..|+.+|++.++.-+|+..
T Consensus 20 qt~Kai~kg~~~~v~iA~Da~~~vv~~l~~lceek~Ip~v~V~s 63 (84)
T PRK13600 20 ETLKALKKDQVTSLIIAEDVEVYLMTRVLSQINQKNIPVSFFKS 63 (84)
T ss_pred HHHHHHhcCCceEEEEeCCCCHHHHHHHHHHHHHcCCCEEEECC
Confidence 333333333344555554432 3456666666666666554
No 307
>COG0626 MetC Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]
Probab=37.34 E-value=1.3e+02 Score=25.52 Aligned_cols=69 Identities=16% Similarity=0.211 Sum_probs=38.7
Q ss_pred HHHHHHhCCCeEEEEEcChH-HHHHHHHHHcCcCeEEEcccCCchhHHHH-HHHHHHHHhCCceEEEecCCeee
Q psy6650 74 LDINLRKLNSRLFVIRGQPA-DILPKLFKEWKTTCLTFEEDPEPFGKVRD-QNIMTLCRELNIEVIARVSHTLY 145 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~-~~l~~l~~~~~~~~V~~~~~~~~~~~~~d-~~v~~~l~~~~i~~~~~~~~~L~ 145 (156)
+..-|++.|+.......... +.+..+.. -+...||++....|--+-.| .+|.+..++.|+ ..+-|+|..
T Consensus 119 ~~~~l~~~gi~~~~~d~~~~~~~~~~~~~-~~tk~v~lEtPsNP~l~v~DI~~i~~~A~~~g~--~vvVDNTfa 189 (396)
T COG0626 119 FEKILQKFGVEVTFVDPGDDEALEAAIKE-PNTKLVFLETPSNPLLEVPDIPAIARLAKAYGA--LVVVDNTFA 189 (396)
T ss_pred HHHHHHhcCeEEEEECCCChHHHHHHhcc-cCceEEEEeCCCCcccccccHHHHHHHHHhcCC--EEEEECCcc
Confidence 44555667888776654443 44443332 34666777777666544333 566666666673 334444433
No 308
>TIGR00095 RNA methyltransferase, RsmD family. This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.
Probab=37.26 E-value=1.6e+02 Score=21.88 Aligned_cols=48 Identities=21% Similarity=0.130 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhCCC--eEEEEEcChHHHHHHHHHHcC-cCeEEEcccCCc
Q psy6650 69 QCLEDLDINLRKLNS--RLFVIRGQPADILPKLFKEWK-TTCLTFEEDPEP 116 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~--~L~v~~g~~~~~l~~l~~~~~-~~~V~~~~~~~~ 116 (156)
+++..++++++..|. ...++.++..+.+..+..... .+.|+.+-.|..
T Consensus 83 ~a~~~~~~N~~~~~~~~~~~~~~~D~~~~l~~~~~~~~~~dvv~~DPPy~~ 133 (189)
T TIGR00095 83 KANQTLKENLALLKSGEQAEVVRNSALRALKFLAKKPTFDNVIYLDPPFFN 133 (189)
T ss_pred HHHHHHHHHHHHhCCcccEEEEehhHHHHHHHhhccCCCceEEEECcCCCC
Confidence 566667777776665 367889988777766544332 455666666653
No 309
>PRK14988 GMP/IMP nucleotidase; Provisional
Probab=36.90 E-value=84 Score=23.80 Aligned_cols=48 Identities=8% Similarity=-0.071 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccCC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDPE 115 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~~ 115 (156)
+.++.++=+.|++.|+++.+....+.+.+....+..++ +.|++..+.+
T Consensus 95 ~~g~~e~L~~Lk~~g~~~~i~Tn~~~~~~~~~l~~~~l~~~fd~iv~s~~~~ 146 (224)
T PRK14988 95 REDTVPFLEALKASGKRRILLTNAHPHNLAVKLEHTGLDAHLDLLLSTHTFG 146 (224)
T ss_pred CCCHHHHHHHHHhCCCeEEEEeCcCHHHHHHHHHHCCcHHHCCEEEEeeeCC
Confidence 45777888888999999999987776666666666554 5677665543
No 310
>cd01453 vWA_transcription_factor_IIH_type Transcription factors IIH type: TFIIH is a multiprotein complex that is one of the five general transcription factors that binds RNA polymerase II holoenzyme. Orthologues of these genes are found in all completed eukaryotic genomes and all these proteins contain a VWA domain. The p44 subunit of TFIIH functions as a DNA helicase in RNA polymerase II transcription initiation and DNA repair, and its transcriptional activity is dependent on its C-terminal Zn-binding domains. The function of the vWA domain is unclear, but may be involved in complex assembly. The MIDAS motif is not conserved in this sub-group.
Probab=36.87 E-value=1.2e+02 Score=22.20 Aligned_cols=9 Identities=22% Similarity=0.324 Sum_probs=3.7
Q ss_pred HHHHHHHHH
Q psy6650 94 DILPKLFKE 102 (156)
Q Consensus 94 ~~l~~l~~~ 102 (156)
+.|.++++.
T Consensus 149 ~~L~~ia~~ 157 (183)
T cd01453 149 HICKEICKA 157 (183)
T ss_pred HHHHHHHHH
Confidence 334444443
No 311
>PTZ00217 flap endonuclease-1; Provisional
Probab=36.83 E-value=71 Score=26.93 Aligned_cols=42 Identities=17% Similarity=0.077 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEE
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 110 (156)
+-+.++++-|+..|++.++..|+....+-.|++.--++.|+.
T Consensus 138 ~~~~~~~~lL~~~Gip~i~AP~EAdaq~A~L~~~g~v~~ViS 179 (393)
T PTZ00217 138 EQNEDAKKLLRLMGIPVIEAPCEAEAQCAELVKKGKVYAVAT 179 (393)
T ss_pred HHHHHHHHHHHHcCCceEECCcCHHHHHHHHHHCCCeEEEeC
Confidence 445678888889999999888888777777776533443433
No 312
>cd06423 CESA_like CESA_like is the cellulose synthase superfamily. The cellulose synthase (CESA) superfamily includes a wide variety of glycosyltransferase family 2 enzymes that share the common characteristic of catalyzing the elongation of polysaccharide chains. The members include cellulose synthase catalytic subunit, chitin synthase, glucan biosynthesis protein and other families of CESA-like proteins. Cellulose synthase catalyzes the polymerization reaction of cellulose, an aggregate of unbranched polymers of beta-1,4-linked glucose residues in plants, most algae, some bacteria and fungi, and even some animals. In bacteria, algae and lower eukaryotes, there is a second unrelated type of cellulose synthase (Type II), which produces acylated cellulose, a derivative of cellulose. Chitin synthase catalyzes the incorporation of GlcNAc from substrate UDP-GlcNAc into chitin, which is a linear homopolymer of beta-(1,4)-linked GlcNAc residues and Glucan Biosynthesis protein catalyzes the
Probab=36.65 E-value=1.3e+02 Score=20.10 Aligned_cols=24 Identities=13% Similarity=0.052 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIR 89 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~ 89 (156)
..+.++|..+.++.. ....++|+.
T Consensus 10 ~~l~~~l~sl~~q~~-~~~~iivvd 33 (180)
T cd06423 10 AVIERTIESLLALDY-PKLEVIVVD 33 (180)
T ss_pred HHHHHHHHHHHhCCC-CceEEEEEe
Confidence 455555555554322 234455554
No 313
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=36.64 E-value=2.1e+02 Score=22.48 Aligned_cols=70 Identities=11% Similarity=0.231 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+.. ....+++.|++.... .. +..+ +.+.+.|+++..+
T Consensus 76 ~~~~~~~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-~~~~~vdgiI~~~~~-~~----~~~~-~~l~~~~iPvV~~ 148 (331)
T PRK14987 76 QVFAEVLRGIESVTDAHGYQTMLAHYGYKPEMEQERLES-MLSWNIDGLILTERT-HT----PRTL-KMIEVAGIPVVEL 148 (331)
T ss_pred hhHHHHHHHHHHHHHHCCCEEEEecCCCCHHHHHHHHHH-HHhcCCCEEEEcCCC-CC----HHHH-HHHHhCCCCEEEE
Confidence 47778888899999999999887643 332 23333 345689998875321 11 1222 3445568999876
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
++
T Consensus 149 ~~ 150 (331)
T PRK14987 149 MD 150 (331)
T ss_pred ec
Confidence 43
No 314
>cd03013 PRX5_like Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5 suggests that it may have an important antioxidant role in organelles that are major sources of reactive oxygen species (ROS), as well as a role in the control of signal transduction. PRX5 has been shown to reduce hydrogen peroxide, alkyl hydroperoxides and peroxynitrite. As with all other PRXs, the N-terminal peroxidatic cysteine of PRX5 is oxidized into a sulfenic acid intermediate upon reaction with peroxides. Human PRX5 is able to resolve this intermediate by forming an intramolecular disulfide bond with its C-terminal cysteine (the resolving cysteine), which can then be reduced by TRX, just like an atypical 2-cys PRX. This resolving cysteine, however, is not conserved in other members of the subfamily. In such cases
Probab=36.45 E-value=1.2e+02 Score=21.56 Aligned_cols=38 Identities=8% Similarity=-0.001 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHhCCC-eEEEEEcChHHHHHHHHHHcCc
Q psy6650 68 LQCLEDLDINLRKLNS-RLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
...+.+...+++++|. .++.+..++.....+++++.++
T Consensus 50 ~~~~~~~~~~f~~~g~~~V~~iS~D~~~~~~~~~~~~~~ 88 (155)
T cd03013 50 LPGYVENADELKAKGVDEVICVSVNDPFVMKAWGKALGA 88 (155)
T ss_pred HHHHHHhHHHHHHCCCCEEEEEECCCHHHHHHHHHhhCC
Confidence 4567788888899999 5888999999999999999887
No 315
>TIGR01664 DNA-3'-Pase DNA 3'-phosphatase. The central phosphatase domain is a member of the IIIA subfamily (TIGR01662) of the haloacid dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolases. As is common in this superfamily, the enzyme is magnesium dependent. A difference between this enzyme and other HAD-superfamily phosphatases is in the third conserved catalytic motif which usually contains two conserved aspartate residues believed to be involved in binding the magnesium ion. Here, the second aspartate is usually replaced by an arginine residue which may indicate an interaction with the phosphate backbone of the substrate. Alternatively, there is an additional conserved aspartate downstream of the ususal site which may indicate slightly different fold in this region.
Probab=36.44 E-value=72 Score=23.15 Aligned_cols=47 Identities=15% Similarity=0.335 Sum_probs=33.2
Q ss_pred CcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH------------HHHHHHHHHcCcC
Q psy6650 60 GINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA------------DILPKLFKEWKTT 106 (156)
Q Consensus 60 ~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~------------~~l~~l~~~~~~~ 106 (156)
.+.++++++..+.++=+.|++.|..+.|....+. ..+..+++..++.
T Consensus 36 ~~~~~~~~~pgv~e~L~~Lk~~G~~l~I~TN~~~~~~~~~~~~~~~~~i~~~l~~~gl~ 94 (166)
T TIGR01664 36 SASDWRFLYPEIPAKLQELDDEGYKIVIFTNQSGIGRGKLSAESFKNKIEAFLEKLKVP 94 (166)
T ss_pred ChHHeEEecCCHHHHHHHHHHCCCEEEEEeCCcccccCcccHHHHHHHHHHHHHHcCCC
Confidence 4455555667777777888889999999875443 2456777877765
No 316
>PF03982 DAGAT: Diacylglycerol acyltransferase ; InterPro: IPR007130 The terminal step of triacylglycerol (TAG) formation is catalysed by the enzyme diacylglycerol acyltransferase (DAGAT) [, ].; GO: 0016747 transferase activity, transferring acyl groups other than amino-acyl groups
Probab=36.35 E-value=91 Score=25.20 Aligned_cols=57 Identities=14% Similarity=0.078 Sum_probs=31.2
Q ss_pred ccHHHH-HHHhcCCcceEEEEeCCCCc-CCC-CCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC
Q psy6650 29 DNPSLR-EGLKGCTTFRCVFILDPWFA-GSS-NVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ 91 (156)
Q Consensus 29 DN~aL~-~A~~~~~~vi~vfi~d~~~~-~~~-~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~ 91 (156)
...++. -|++.|.+|+|||.|-.... ... .....+.+++.+.+. +..|+.+.++.|.
T Consensus 167 ~RkGFvklAl~~Ga~LVPv~~FGE~d~~~~~~~~~~~~~r~~q~~~~------~~~g~~~~~f~Gr 226 (297)
T PF03982_consen 167 NRKGFVKLALQHGAPLVPVYSFGENDLYDQVQNPPGSWLRRFQRWLK------KKFGFSLPLFWGR 226 (297)
T ss_pred CcchHHHhHHHcCCcEEeEEEeCChhheeeccCCchhHHHHHHHHHH------HHcCcceeeeecc
Confidence 445664 35677889999999987532 211 111122223333332 2357777777663
No 317
>cd06316 PBP1_ABC_sugar_binding_like_7 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=36.21 E-value=2e+02 Score=22.11 Aligned_cols=72 Identities=11% Similarity=0.071 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEE-Ec--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVI-RG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~-~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
|+.+-+..+.+.+++.|..+.++ .+ ++. +.+..+.+ .+++.|+... ... ..-+..+ +.+.+.|+++..+
T Consensus 13 ~~~~~~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~l~~~~~-~~~dgiii~~-~~~--~~~~~~i-~~~~~~~iPvV~~ 87 (294)
T cd06316 13 WSNAQVRGAKDEFAKLGIEVVATTDAQFDPAKQVADIETTIS-QKPDIIISIP-VDP--VSTAAAY-KKVAEAGIKLVFM 87 (294)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecCCCCCHHHHHHHHHHHHH-hCCCEEEEcC-CCc--hhhhHHH-HHHHHcCCcEEEe
Confidence 66677777888899999998754 33 343 23444443 4788887642 111 1112223 4455679999988
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 88 ~~~ 90 (294)
T cd06316 88 DNV 90 (294)
T ss_pred cCC
Confidence 754
No 318
>TIGR01261 hisB_Nterm histidinol-phosphatase. This model describes histidinol phosphatase. All known examples in the scope of this model are bifunctional proteins with a histidinol phosphatase domain followed by an imidazoleglycerol-phosphate dehydratase domain. These enzymatic domains catalyze the ninth and seventh steps, respectively, of histidine biosynthesis.
Probab=36.14 E-value=1.3e+02 Score=21.63 Aligned_cols=40 Identities=13% Similarity=0.306 Sum_probs=22.9
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcC---------------hHHHHHHHHHHcCcC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQ---------------PADILPKLFKEWKTT 106 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~---------------~~~~l~~l~~~~~~~ 106 (156)
++.++.++=+.|++.|..+.|+... +...+.++++..++.
T Consensus 30 ~~pgv~e~L~~L~~~g~~l~IvSN~~g~~~~~~~~~~~~~~~~~~~~~l~~~gl~ 84 (161)
T TIGR01261 30 FEKGVIPALLKLKKAGYKFVMVTNQDGLGTPSFPQADFDGPHNLMLQIFRSQGII 84 (161)
T ss_pred ECCCHHHHHHHHHHCCCeEEEEeCCccccCCcCCHHHHHHHHHHHHHHHHHCCCc
Confidence 3445555555566667777766543 334555666666555
No 319
>PRK09437 bcp thioredoxin-dependent thiol peroxidase; Reviewed
Probab=36.12 E-value=1.5e+02 Score=20.64 Aligned_cols=45 Identities=13% Similarity=0.034 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
....|..+.+++++.|..++-+.-++.+.+.+++++.+++-.+..
T Consensus 49 ~~~~l~~~~~~~~~~~v~vi~Is~d~~~~~~~~~~~~~~~~~~l~ 93 (154)
T PRK09437 49 QACGLRDNMDELKKAGVVVLGISTDKPEKLSRFAEKELLNFTLLS 93 (154)
T ss_pred HHHHHHHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCCCeEEE
Confidence 446788888889989998887777777888899999887655544
No 320
>TIGR02260 benz_CoA_red_B benzoyl-CoA reductase, bcr type, subunit B. This model describes B, or beta, subunit of the bcr type of benzoyl-CoA reductase, a 4-subunit enzyme. Many aromatic compounds are metabolized by way of benzoyl-CoA.
Probab=36.10 E-value=1.2e+02 Score=25.59 Aligned_cols=49 Identities=14% Similarity=0.142 Sum_probs=33.1
Q ss_pred HHHHHHHHHHcCcCeEEE--cccCCchhHHHHHHHHHHHHh-CCceEEEecCC
Q psy6650 93 ADILPKLFKEWKTTCLTF--EEDPEPFGKVRDQNIMTLCRE-LNIEVIARVSH 142 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~--~~~~~~~~~~~d~~v~~~l~~-~~i~~~~~~~~ 142 (156)
.+.|.+++++++++.|+. +....++.-.. ..+++.+.+ .||++..+++.
T Consensus 339 ~~~l~~l~ke~~aDGVI~~~~~~C~~~~~e~-~~~~~~l~e~~GIP~L~iE~D 390 (413)
T TIGR02260 339 VDLLEKYINEYEADGLLINSIKSCNSFSAGQ-LLMMREIEKRTGKPAAFIETD 390 (413)
T ss_pred HHHHHHHHHHhCCCEEEEeccCCCCcchhhh-HHHHHHHHHHcCCCEEEEEcC
Confidence 577899999999998854 34455555432 334445544 79998888665
No 321
>TIGR01482 SPP-subfamily Sucrose-phosphate phosphatase subfamily. catalyze the same reaction as SPP.
Probab=35.77 E-value=1.1e+02 Score=22.58 Aligned_cols=30 Identities=13% Similarity=0.143 Sum_probs=24.8
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
+.|++.|+.+.+..|.+...+..+.+.++.
T Consensus 25 ~~l~~~Gi~~~~aTGR~~~~~~~~~~~l~~ 54 (225)
T TIGR01482 25 RKAESVGIPVVLVTGNSVQFARALAKLIGT 54 (225)
T ss_pred HHHHHCCCEEEEEcCCchHHHHHHHHHhCC
Confidence 446678999999999999888888888764
No 322
>CHL00139 rpl18 ribosomal protein L18; Validated
Probab=35.73 E-value=1e+02 Score=21.15 Aligned_cols=41 Identities=17% Similarity=0.101 Sum_probs=28.6
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
.|-+-+.+.+++.|+++...-. -.-+...+.+.+.+.|++|
T Consensus 69 lla~ra~~~gi~~vvfDrgg~~-yhGrV~a~a~~are~GL~f 109 (109)
T CHL00139 69 KLAKKSLKKGITKVVFDRGGKL-YHGRIKALAEAAREAGLQF 109 (109)
T ss_pred HHHHHHHHCCCCEEEEcCCCCc-cchHHHHHHHHHHHhCCCC
Confidence 3445555679999999975323 3467778888888878764
No 323
>cd02064 FAD_synthetase_N FAD synthetase, N-terminal domain of the bifunctional enzyme. FAD synthetase_N. N-terminal domain of the bifunctional riboflavin biosynthesis protein riboflavin kinase/FAD synthetase. These enzymes have both ATP:riboflavin 5'-phosphotransferase and ATP:FMN-adenylyltransferase activities. The N-terminal domain is believed to play a role in the adenylylation reaction of FAD synthetases. The C-terminal domain is thought to have kinase activity. FAD synthetase is present among all kingdoms of life. However, the bifunctional enzyme is not found in mammals, which use separate enzymes for FMN and FAD formation.
Probab=35.72 E-value=1.8e+02 Score=21.33 Aligned_cols=71 Identities=13% Similarity=0.053 Sum_probs=43.0
Q ss_pred HHHHHHHHHHhCCCeEEEEE-c-------ChHHHHHHHHHHcCcCeEEEcccCCchh--HHHHHHHHHHHHhCCceEEEe
Q psy6650 70 CLEDLDINLRKLNSRLFVIR-G-------QPADILPKLFKEWKTTCLTFEEDPEPFG--KVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~-g-------~~~~~l~~l~~~~~~~~V~~~~~~~~~~--~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+..+=.+-|+++|+.-++.. - ++.+-+..++...+++.|++-.++..-. .--.+.+++.+++.|+.++..
T Consensus 57 ~~e~R~~~l~~l~vd~v~~~~f~~~~~~~s~~~Fi~~il~~~~~~~ivvG~Df~FG~~~~g~~~~L~~~~~~~g~~v~~v 136 (180)
T cd02064 57 TLEEKLELLESLGVDYLLVLPFDKEFASLSAEEFVEDLLVKLNAKHVVVGFDFRFGKGRSGDAELLKELGKKYGFEVTVV 136 (180)
T ss_pred CHHHHHHHHHHcCCCEEEEeCCCHHHHcCCHHHHHHHHHhhcCCeEEEEccCCCCCCCCCCCHHHHHHhhhhcCcEEEEe
Confidence 34444455667787655542 2 3455555666666899999998885311 111234566777778887765
Q ss_pred c
Q psy6650 140 V 140 (156)
Q Consensus 140 ~ 140 (156)
+
T Consensus 137 ~ 137 (180)
T cd02064 137 P 137 (180)
T ss_pred C
Confidence 5
No 324
>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=35.71 E-value=1.9e+02 Score=21.68 Aligned_cols=71 Identities=14% Similarity=0.171 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+.+.+++.|..+.+...+ +.. .+.+.+...+++.|++........ .. .+...|++++.++
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~--~~-----~~~~~~iPvV~~~ 84 (263)
T cd06280 12 PFFTAVSRAVEDAAYRAGLRVILCNTDEDPEKEAMYLELMEEERVTGVIFAPTRATLR--RL-----AELRLSFPVVLID 84 (263)
T ss_pred ccHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHhCCCCEEEEeCCCCCch--HH-----HHHhcCCCEEEEC
Confidence 366667777888899999999887543 322 233445566899887754322222 11 1234589998886
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 85 ~~ 86 (263)
T cd06280 85 RA 86 (263)
T ss_pred CC
Confidence 53
No 325
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=35.65 E-value=2.2e+02 Score=23.06 Aligned_cols=73 Identities=15% Similarity=0.058 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEc--------ChHHHHHH-HHHHcCcCeEEEcccCCch--hHHHHHHHHHHHHhCCceE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRG--------QPADILPK-LFKEWKTTCLTFEEDPEPF--GKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g--------~~~~~l~~-l~~~~~~~~V~~~~~~~~~--~~~~d~~v~~~l~~~~i~~ 136 (156)
+-++.+=.+.|+++|+...+..- .+.+-+.. |.+.++++.|++-.++..- ..--.+.+++.+++.|+++
T Consensus 69 l~t~eeR~~~l~~~gVD~~~~~~F~~~~~~ls~e~Fi~~~l~~~l~~~~iVvG~Df~FG~~~~G~~~~L~~~~~~~g~~v 148 (305)
T PRK05627 69 LTPLRDKAELLAELGVDYVLVLPFDEEFAKLSAEEFIEDLLVKGLNAKHVVVGFDFRFGKKRAGDFELLKEAGKEFGFEV 148 (305)
T ss_pred CCCHHHHHHHHHHcCCCEEEEecCCHHHhcCCHHHHHHHHHHhccCCCEEEECCCCCCCCCCCCCHHHHHHHHHHcCcEE
Confidence 44556666677888998666532 45555666 4566899999999988531 1111245666677778877
Q ss_pred EEec
Q psy6650 137 IARV 140 (156)
Q Consensus 137 ~~~~ 140 (156)
..++
T Consensus 149 ~~v~ 152 (305)
T PRK05627 149 TIVP 152 (305)
T ss_pred EEec
Confidence 7654
No 326
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=35.60 E-value=1.7e+02 Score=21.17 Aligned_cols=45 Identities=16% Similarity=0.113 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcCh-----------H--------HHHHHHHHHcCcCeEEEccc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQP-----------A--------DILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~-----------~--------~~l~~l~~~~~~~~V~~~~~ 113 (156)
+....+++-++.+|+++.+..-+. . ..+.+++.+.+++.|.....
T Consensus 45 ~~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~ 108 (189)
T TIGR02432 45 EEAEFVQQFCKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHH 108 (189)
T ss_pred HHHHHHHHHHHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCc
Confidence 345666666777899888765321 1 35667778888887776654
No 327
>PRK00192 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=35.47 E-value=1.3e+02 Score=23.43 Aligned_cols=34 Identities=15% Similarity=0.006 Sum_probs=27.1
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+.=+.|++.|+.+.+..|.+...+..++++.+.+
T Consensus 28 ~ai~~l~~~Gi~~~iaTgR~~~~~~~~~~~l~l~ 61 (273)
T PRK00192 28 PALKALKEKGIPVIPCTSKTAAEVEVLRKELGLE 61 (273)
T ss_pred HHHHHHHHCCCEEEEEcCCCHHHHHHHHHHcCCC
Confidence 3334566789999999999988888888887765
No 328
>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=35.23 E-value=2.2e+02 Score=22.26 Aligned_cols=70 Identities=6% Similarity=0.083 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+...+ +. +.+.. ....+++.|++.... .. ..+.+.+.+.|++++.+
T Consensus 72 ~f~~~l~~~i~~~~~~~g~~~~i~~~~~~~~~~~~~~~~-l~~~~vdGiIi~~~~-~~-----~~~~~~l~~~~iPvV~~ 144 (329)
T TIGR01481 72 IYYAELARGIEDIATMYKYNIILSNSDEDPEKEVQVLNT-LLSKQVDGIIFMGGT-IT-----EKLREEFSRSPVPVVLA 144 (329)
T ss_pred hhHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHH-HHhCCCCEEEEeCCC-CC-----hHHHHHHHhcCCCEEEE
Confidence 366777778888899999998887543 22 22333 344689988774321 11 12233455568998877
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 145 ~~ 146 (329)
T TIGR01481 145 GT 146 (329)
T ss_pred ec
Confidence 64
No 329
>PRK07810 O-succinylhomoserine sulfhydrylase; Provisional
Probab=35.03 E-value=1.9e+02 Score=24.15 Aligned_cols=65 Identities=12% Similarity=0.185 Sum_probs=40.4
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHH-HHHHHHHHHHhCCceEEEe
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKV-RDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~~i~~~~~ 139 (156)
+...++..|+.+.++.....+.+.+.++. +...|+++....|...- -.++|.+.+++.|+.+..-
T Consensus 126 ~~~~~~~~G~~v~~vd~~d~~~l~~ai~~-~tklV~~esp~Nptg~v~dl~~I~~la~~~g~~vivD 191 (403)
T PRK07810 126 CNEILPRWGVETVFVDGEDLSQWEEALSV-PTQAVFFETPSNPMQSLVDIAAVSELAHAAGAKVVLD 191 (403)
T ss_pred HHHHHHHcCcEEEEECCCCHHHHHHhcCc-CceEEEEECCCCCCCeecCHHHHHHHHHHcCCEEEEE
Confidence 34445667888888876655666666553 45567766555444322 2456777788788866543
No 330
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding
Probab=34.97 E-value=1.9e+02 Score=21.48 Aligned_cols=71 Identities=10% Similarity=0.196 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
-|+.+-+..+.+.+++.|..+.+... ++. +.+..+.. .+++.|+..... +... + ..+.+.+.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~-~~vdgiii~~~~-~~~~---~-~~~~~~~~~ipvV~~ 85 (266)
T cd06282 12 PVFAECVQGIQEEARAAGYSLLLATTDYDAEREADAVETLLR-QRVDGLILTVAD-AATS---P-ALDLLDAERVPYVLA 85 (266)
T ss_pred chHHHHHHHHHHHHHHCCCEEEEeeCCCCHHHHHHHHHHHHh-cCCCEEEEecCC-CCch---H-HHHHHhhCCCCEEEE
Confidence 35667777888888899999888753 233 23444443 578888875322 1111 1 234455678988777
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 86 ~~ 87 (266)
T cd06282 86 YN 87 (266)
T ss_pred ec
Confidence 54
No 331
>PHA02530 pseT polynucleotide kinase; Provisional
Probab=34.94 E-value=41 Score=26.45 Aligned_cols=44 Identities=11% Similarity=0.059 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEE
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 110 (156)
++....++=+.|++.|+.+.+..+.+......+++.++...+++
T Consensus 188 ~~~~~~~~l~~l~~~g~~i~i~T~r~~~~~~~~l~~l~~~~~~f 231 (300)
T PHA02530 188 PNPMVVELVKMYKAAGYEIIVVSGRDGVCEEDTVEWLRQTDIWF 231 (300)
T ss_pred CChhHHHHHHHHHhCCCEEEEEeCCChhhHHHHHHHHHHcCCch
Confidence 35667777778888999999999998877777777666655333
No 332
>TIGR00060 L18_bact ribosomal protein L18, bacterial type. The archaeal and eukaryotic type rpL18 is not detectable under this model.
Probab=34.79 E-value=1.1e+02 Score=21.12 Aligned_cols=41 Identities=15% Similarity=0.135 Sum_probs=29.4
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
.|-+-+.+.+++.|+++.. ++--.-+.+.+.+.+.+.|++|
T Consensus 74 ~la~ra~~~gi~~vvfDrg-g~~YhGrv~A~a~~aRe~Gl~F 114 (114)
T TIGR00060 74 LVAERLKEKGIKDVVFDRG-GYKYHGRVAALAEAAREAGLNF 114 (114)
T ss_pred HHHHHHHHCCCCEEEEeCC-CCcchHHHHHHHHHHHHhCCCC
Confidence 3444555679999999975 3444567788888888888764
No 333
>PRK03980 flap endonuclease-1; Provisional
Probab=34.71 E-value=82 Score=25.39 Aligned_cols=43 Identities=12% Similarity=-0.007 Sum_probs=29.7
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
-+.++++-|+.+|++.++..|+.+..+..|++.--++.| ++.+
T Consensus 84 ~~~~~k~lL~~~GIp~i~AP~EAEAq~A~L~~~g~vd~V-~S~D 126 (292)
T PRK03980 84 IVEDSKKLLDLMGIPYVQAPSEGEAQAAYMAKKGDAWAV-GSQD 126 (292)
T ss_pred HHHHHHHHHHHCCCCEEecCchHHHHHHHHHHCCCeEEE-ecCC
Confidence 466777888899999999988866666667755334444 3433
No 334
>TIGR00615 recR recombination protein RecR. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=34.42 E-value=1.7e+02 Score=22.35 Aligned_cols=45 Identities=18% Similarity=0.198 Sum_probs=35.9
Q ss_pred HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 95 ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 95 ~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|.+.+++.+++.|+..-.++.+....-.-+.+.++..++++...
T Consensus 125 ~L~~Ri~~~~v~EVIlAt~~tvEGe~Ta~yi~~~lk~~~ikvtRl 169 (195)
T TIGR00615 125 ALLKRLQEESVKEVILATNPTVEGEATALYIARLLQPFGVKVTRI 169 (195)
T ss_pred HHHHHHhcCCCcEEEEeCCCCchHHHHHHHHHHHhhhcCCcEEee
Confidence 344445556799999999999999888889999998778888754
No 335
>cd00614 CGS_like CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of antimicrobials and herbicides. This subgroup also includes cystathionine gamma-lyases (CGL), O-acetylhomoserine sulfhydrylases and O-acetylhomoserine thiol lyases. CGL's are very similar to CGS's. Members of this group are widely distributed among all three forms of life.
Probab=34.31 E-value=1.7e+02 Score=23.87 Aligned_cols=63 Identities=19% Similarity=0.165 Sum_probs=37.4
Q ss_pred HHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchh-HHHHHHHHHHHHhCCceEEEec
Q psy6650 77 NLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFG-KVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 77 ~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~-~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
-++..|+.+..+..+..+.+.+.++. +...|+++....|.. ..-.+++.+.+++.|+.+..-+
T Consensus 99 ~~~~~g~~~~~v~~~d~~~l~~~i~~-~~~~v~~e~~~np~g~~~dl~~i~~la~~~g~~livD~ 162 (369)
T cd00614 99 LLPKLGIEVTFVDPDDPEALEAAIKP-ETKLVYVESPTNPTLKVVDIEAIAELAHEHGALLVVDN 162 (369)
T ss_pred HHhhcCeEEEEeCCCCHHHHHHhcCC-CCeEEEEECCCCCCCeecCHHHHHHHHHHcCCEEEEEC
Confidence 34566888877766655666665543 455667654433321 1123567778888888776543
No 336
>PRK08247 cystathionine gamma-synthase; Reviewed
Probab=34.07 E-value=2.6e+02 Score=22.82 Aligned_cols=64 Identities=13% Similarity=0.250 Sum_probs=39.4
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCCceEEEe
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+..++..|+.+........+.+.+.+.. +...||++....|. .....++|.+.+++.|+.+..-
T Consensus 108 ~~~~~~~G~~v~~vd~~d~~~l~~~i~~-~tklv~le~P~NP~~~~~dl~~I~~la~~~g~~lIvD 172 (366)
T PRK08247 108 EEHWKKWNVRFVYVNTASLKAIEQAITP-NTKAIFIETPTNPLMQETDIAAIAKIAKKHGLLLIVD 172 (366)
T ss_pred HHHhhccCceEEEECCCCHHHHHHhccc-CceEEEEECCCCCCCcHHHHHHHHHHHHHcCCEEEEE
Confidence 4445567887766655445566666554 45677775555453 3344567778888888766543
No 337
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are 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 t
Probab=34.06 E-value=2.1e+02 Score=21.64 Aligned_cols=71 Identities=8% Similarity=-0.111 Sum_probs=43.9
Q ss_pred HHHHHHHHHHHHHHHhCC-CeEEEEEcCh--HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 65 RFLLQCLEDLDINLRKLN-SRLFVIRGQP--ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~--~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
-|+.+-+..+++.|++.| ..+++..... .+.+.... ..+++.|++.... ... ......+++.+++++.++.
T Consensus 11 ~~~~~~~~~i~~~l~~~g~~~l~~~~~~~~~~~~~~~~~-~~~vdGvIi~~~~-~~~----~~~~~~~~~~~~PvV~i~~ 84 (247)
T cd06276 11 SFKEIIYNSFVNTLGKNAQVDLYFHHYNEDLFKNIISNT-KGKYSGYVVMPHF-KNE----IQYFLLKKIPKEKLLILDH 84 (247)
T ss_pred hHHHHHHHHHHHHHHhcCcEEEEEEcCchHHHHHHHHHH-hcCCCEEEEecCC-CCc----HHHHHHhccCCCCEEEEcC
Confidence 477788899999999999 8777765432 22333343 5789988764321 111 1122344445788888774
No 338
>KOG0053|consensus
Probab=33.93 E-value=1.9e+02 Score=24.72 Aligned_cols=67 Identities=22% Similarity=0.240 Sum_probs=46.9
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHH-HHHHHHHHhCCceEE
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRD-QNIMTLCRELNIEVI 137 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d-~~v~~~l~~~~i~~~ 137 (156)
+..-+++-+.+.|+.-..+..+..+-+...+++ ++..||++....|.-.--| .++++.+.+.|+.++
T Consensus 129 T~~~l~~~~~~~gie~~~vd~~~~~~~~~~i~~-~t~~V~~ESPsNPll~v~DI~~l~~la~~~g~~vv 196 (409)
T KOG0053|consen 129 TLRILRKFLPKFGGEGDFVDVDDLKKILKAIKE-NTKAVFLESPSNPLLKVPDIEKLARLAHKYGFLVV 196 (409)
T ss_pred HHHHHHHHHHHhCceeeeechhhHHHHHHhhcc-CceEEEEECCCCCccccccHHHHHHHHhhCCCEEE
Confidence 344455556677888888887777777777777 7888999888877655444 566666667788664
No 339
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=33.91 E-value=1.8e+02 Score=24.58 Aligned_cols=63 Identities=21% Similarity=0.231 Sum_probs=38.3
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHH-HHHHHHHHHhCCceEEE
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVR-DQNIMTLCRELNIEVIA 138 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~-d~~v~~~l~~~~i~~~~ 138 (156)
...++..|+....+.....+.+.+.++. +...|+++....|..... .++|.+.+++.|+.+..
T Consensus 121 ~~~~~~~Gv~v~~vd~~d~e~l~~ai~~-~tklV~l~sp~NPtG~v~di~~I~~la~~~gi~vIv 184 (431)
T PRK08248 121 AHTLPKLGITVKFVDPSDPENFEAAITD-KTKALFAETIGNPKGDVLDIEAVAAIAHEHGIPLIV 184 (431)
T ss_pred HHHHHhCCEEEEEECCCCHHHHHHhcCC-CCeEEEEECCCCCCCcccCHHHHHHHHHHcCCEEEE
Confidence 3445677888877766555666666654 456677764433322221 35677788878876654
No 340
>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=33.88 E-value=1.2e+02 Score=20.22 Aligned_cols=45 Identities=11% Similarity=0.025 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHhCCC--eEEEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 69 QCLEDLDINLRKLNS--RLFVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~--~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
+.+.++-+.+++.+- ..+++-|.+....++..++.+++.++.+..
T Consensus 65 ~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~D~~~~~~~ 111 (119)
T cd02067 65 TLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGVDAYFGPAT 111 (119)
T ss_pred HHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCCeEEECCHH
Confidence 344555555555554 345566777666677889999988887543
No 341
>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=33.83 E-value=2e+02 Score=21.54 Aligned_cols=72 Identities=8% Similarity=0.046 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+..+ ++.+ .+..+.. .+++.|++.... .. ... ...+.+.+.|+++..+
T Consensus 12 ~~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~-~~~dgiii~~~~-~~--~~~-~~l~~~~~~~ipvV~~ 86 (277)
T cd06319 12 PFWQIMGRGVKSKAKALGYDAVELSAENSAKKELENLRTAID-KGVSGIIISPTN-SS--AAV-TLLKLAAQAKIPVVIA 86 (277)
T ss_pred hHHHHHHHHHHHHHHhcCCeEEEecCCCCHHHHHHHHHHHHh-cCCCEEEEcCCc-hh--hhH-HHHHHHHHCCCCEEEE
Confidence 47788888889999999999888754 3332 3444443 578888764321 11 111 2224455678999887
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 87 ~~ 88 (277)
T cd06319 87 DI 88 (277)
T ss_pred ec
Confidence 64
No 342
>PRK15454 ethanol dehydrogenase EutG; Provisional
Probab=33.78 E-value=1.7e+02 Score=24.56 Aligned_cols=56 Identities=7% Similarity=-0.096 Sum_probs=0.0
Q ss_pred EEEEc-ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 86 FVIRG-QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 86 ~v~~g-~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.++.| ...+.|.+++++++...+++-.+-.....-..+++.+.|++.|+.+..|++
T Consensus 29 ~i~fG~g~~~~l~~~~~~~g~~~~lvv~~~~~~~~g~~~~v~~~L~~~gi~~~~~~~ 85 (395)
T PRK15454 29 VTLCGPGAVSSCGQQAQTRGLKHLFVMADSFLHQAGMTAGLTRSLAVKGIAMTLWPC 85 (395)
T ss_pred eEEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhCccHHHHHHHHHHcCCeEEEECC
No 343
>cd06811 PLPDE_III_yhfX_like Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme yhfX. This subfamily is composed of the uncharacterized protein yhfX from Escherichia coli K-12 and similar bacterial proteins. These proteins are homologous to bacterial alanine racemases (AR), which are fold type III PLP-dependent enzymes containing an N-terminal PLP-binding TIM-barrel domain and a C-terminal beta-sandwich domain. AR exists as homodimers with active sites that lie at the interface between the TIM barrel domain of one subunit and the beta-sandwich domain of the other subunit. It catalyzes the interconversion between L- and D-alanine, which is an essential component of the peptidoglycan layer of bacterial cell walls. Members of this subfamily may act as PLP-dependent enzymes.
Probab=33.77 E-value=2.8e+02 Score=23.06 Aligned_cols=48 Identities=17% Similarity=0.150 Sum_probs=29.2
Q ss_pred ccccHHHHHHHh----cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEE
Q psy6650 27 MHDNPSLREGLK----GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFV 87 (156)
Q Consensus 27 l~DN~aL~~A~~----~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v 87 (156)
..-||+|..|+- +|.-.-..|++|.+ -+.+.++.+++.+.+.|+.+..
T Consensus 7 ~~~n~~~~~~a~~~~~~g~~~~~~yvIDl~-------------~I~~N~~~l~~~~~~~~~~l~~ 58 (382)
T cd06811 7 LKRNPALIEAALTLHQSGAIPPDTYVIDLD-------------QIEENARLLAETAEKYGIELYF 58 (382)
T ss_pred hhhCHHHHHHHHHHHHcCCCCCCEEEecHH-------------HHHHHHHHHHHHHhhCCCEEEE
Confidence 345999988873 44333456777743 3445666666666655665443
No 344
>TIGR01518 g3p_cytidyltrns glycerol-3-phosphate cytidylyltransferase. Glycerol-3-phosphate cytidyltransferase acts in pathways of teichoic acid biosynthesis. Teichoic acids are substituted polymers, linked by phosphodiester bonds, of glycerol, ribitol, etc. An example is poly(glycerol phosphate), the major teichoic acid of the Bacillus subtilis cell wall. Most but not all species encoding proteins in this family are Gram-positive bacteria.
Probab=33.56 E-value=61 Score=22.20 Aligned_cols=75 Identities=12% Similarity=0.089 Sum_probs=41.9
Q ss_pred HHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCC-CeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 33 LREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLN-SRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 33 L~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g-~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
|..|.+.++.++..+.+|+... ... + ..+-++.+=.+.|+++| +.-. +.+.+.+.+.+.+++++++.|++.
T Consensus 18 l~~a~~~~~~~iv~v~~d~~~~---~~~--~--~~i~~~eeR~~~l~~~~~Vd~v-i~~~~~~~f~~~l~~~~~~~vv~G 89 (125)
T TIGR01518 18 LERAKQLGDYLIVALSTDEFNL---QKQ--K--KAYHSYEHRKLILETIRYVDLV-IPEKSWEQKKQDIIDFNIDVFVMG 89 (125)
T ss_pred HHHHHHcCCEEEEEEechHHHh---hcC--C--CCCCCHHHHHHHHHcCCCccEE-ecCCCccchHHHHHHcCCCEEEEC
Confidence 4555555666666666665211 011 1 11223444445566665 6655 444554544444578999999999
Q ss_pred ccCC
Q psy6650 112 EDPE 115 (156)
Q Consensus 112 ~~~~ 115 (156)
.++.
T Consensus 90 ~D~~ 93 (125)
T TIGR01518 90 DDWE 93 (125)
T ss_pred CCcc
Confidence 8883
No 345
>COG1810 Uncharacterized protein conserved in archaea [Function unknown]
Probab=33.48 E-value=2.1e+02 Score=22.31 Aligned_cols=66 Identities=20% Similarity=0.284 Sum_probs=42.8
Q ss_pred CCCeEEEEEcChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecCCC
Q psy6650 81 LNSRLFVIRGQPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQ 149 (156)
Q Consensus 81 ~g~~L~v~~g~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~ 149 (156)
-...+.|.++--.+ .|+..+.+.++..|++...... ...+++++.+.+.|+.+..-.--|-++|..
T Consensus 54 ~e~Di~va~~lHPDl~~~L~e~~~~~~~~alIvp~~~~~---g~rkqL~~~~~~~g~e~~~p~p~C~Le~~~ 122 (224)
T COG1810 54 PEADIVVAYGLHPDLLLALPEKAAEGGVKALIVPAEPPE---GLRKQLKEFCEELGVEFEAPEPFCSLEPNE 122 (224)
T ss_pred CCCCEEEEeccCccHHHHHHHHHHhCCccEEEEecCCCh---hHHHHHHHHhhhcceeeecCCccccCCCCC
Confidence 35567777654444 4444445688888888766544 333567788887888887666666666654
No 346
>PF02593 dTMP_synthase: Thymidylate synthase; InterPro: IPR003745 This entry describes proteins of unknown function.
Probab=33.47 E-value=1.3e+02 Score=23.35 Aligned_cols=63 Identities=16% Similarity=0.151 Sum_probs=37.7
Q ss_pred CeEEEEEc---ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecC
Q psy6650 83 SRLFVIRG---QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDL 147 (156)
Q Consensus 83 ~~L~v~~g---~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~ 147 (156)
..|+|.++ |-.-.|..++++.++..|++..+.+. ....+++++.|++.|+.+..-.--|-+++
T Consensus 52 ~Dl~I~y~lHPDl~~~l~~~~~e~g~kavIvp~~~~~--~g~~~~lk~~~e~~gi~~~~P~~~CsL~~ 117 (217)
T PF02593_consen 52 ADLLIAYGLHPDLTYELPEIAKEAGVKAVIVPSESPK--PGLRRQLKKQLEEFGIEVEFPKPFCSLEE 117 (217)
T ss_pred CCEEEEeccCchhHHHHHHHHHHcCCCEEEEecCCCc--cchHHHHHHHHHhcCceeecCccccccCC
Confidence 45666543 44445566666678888877655433 33345677778777877765554444443
No 347
>cd06433 GT_2_WfgS_like WfgS and WfeV are involved in O-antigen biosynthesis. Escherichia coli WfgS and Shigella dysenteriae WfeV are glycosyltransferase 2 family enzymes involved in O-antigen biosynthesis. GT-2 enzymes have 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. Glycosyltransferases have been classified into more than 90 distinct sequence based families.
Probab=33.44 E-value=1.7e+02 Score=20.46 Aligned_cols=12 Identities=8% Similarity=0.075 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHH
Q psy6650 65 RFLLQCLEDLDI 76 (156)
Q Consensus 65 ~Fl~~sL~~L~~ 76 (156)
.++.++|..+.+
T Consensus 11 ~~l~~~l~sl~~ 22 (202)
T cd06433 11 ETLEETIDSVLS 22 (202)
T ss_pred HHHHHHHHHHHh
Confidence 455555555543
No 348
>PRK12702 mannosyl-3-phosphoglycerate phosphatase; Reviewed
Probab=33.37 E-value=1.5e+02 Score=24.18 Aligned_cols=35 Identities=11% Similarity=0.096 Sum_probs=28.1
Q ss_pred HHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+.-+.|++.|+++++..|.+...+..+.++.+++
T Consensus 24 ~~aL~~Lk~~GI~vVlaTGRt~~ev~~l~~~Lgl~ 58 (302)
T PRK12702 24 RQALAALERRSIPLVLYSLRTRAQLEHLCRQLRLE 58 (302)
T ss_pred HHHHHHHHHCCCEEEEEcCCCHHHHHHHHHHhCCC
Confidence 33344566789999999999998888899988775
No 349
>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=33.37 E-value=2.4e+02 Score=22.28 Aligned_cols=72 Identities=15% Similarity=0.094 Sum_probs=35.8
Q ss_pred HHHHHHHHHHHHHHHhC-----CCeEEEEEcChHHHHHHHHHHcCcCeEEEc---ccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 65 RFLLQCLEDLDINLRKL-----NSRLFVIRGQPADILPKLFKEWKTTCLTFE---EDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~-----g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~---~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
.-+.+.|.+|.+.+++. +..+++ +.+ .+.=|++.+|.+.+... .+-. ...+...++.+.+++.+|++
T Consensus 157 ~~~~~~L~~l~~~~~~~~~~~~~~~~v~--~H~--af~Yl~~~~gl~~~~~~~~~~~~e-ps~~~l~~l~~~ik~~~v~~ 231 (286)
T cd01019 157 EAFNARLAELDATIKERLAPVKTKPFFV--FHD--AYGYFEKRYGLTQAGVFTIDPEID-PGAKRLAKIRKEIKEKGATC 231 (286)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCeEEE--ecc--cHHHHHHHcCCceeeeecCCCCCC-CCHHHHHHHHHHHHHcCCcE
Confidence 34556666666665543 122332 222 45566677777655321 1212 22344455556666666666
Q ss_pred EEecC
Q psy6650 137 IARVS 141 (156)
Q Consensus 137 ~~~~~ 141 (156)
..++.
T Consensus 232 If~e~ 236 (286)
T cd01019 232 VFAEP 236 (286)
T ss_pred EEecC
Confidence 65543
No 350
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=33.28 E-value=1.3e+02 Score=19.58 Aligned_cols=34 Identities=9% Similarity=0.157 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHH
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKE 102 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~ 102 (156)
.+....++..++.|+|++...+.....|.+.+++
T Consensus 62 ~~~~~vk~~akk~~ip~~~~~~~~~~~l~~~l~~ 95 (97)
T PF10087_consen 62 NAMWKVKKAAKKYGIPIIYSRSRGVSSLERALER 95 (97)
T ss_pred HHHHHHHHHHHHcCCcEEEECCCCHHHHHHHHHh
Confidence 3455667777888888888886666666655543
No 351
>cd04188 DPG_synthase DPG_synthase is involved in protein N-linked glycosylation. UDP-glucose:dolichyl-phosphate glucosyltransferase (DPG_synthase) is a transmembrane-bound enzyme of the endoplasmic reticulum involved in protein N-linked glycosylation. This enzyme catalyzes the transfer of glucose from UDP-glucose to dolichyl phosphate.
Probab=33.28 E-value=1.9e+02 Score=20.99 Aligned_cols=84 Identities=12% Similarity=0.080 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHHHHh---CCCeEEEEEcCh----HHHHHHHHHHcCcC-eEEEcccCCchhHHHHHHHHHHHHhCCce
Q psy6650 64 WRFLLQCLEDLDINLRK---LNSRLFVIRGQP----ADILPKLFKEWKTT-CLTFEEDPEPFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~---~g~~L~v~~g~~----~~~l~~l~~~~~~~-~V~~~~~~~~~~~~~d~~v~~~l~~~~i~ 135 (156)
..++.++|..+.+++.+ .+..++|+.+.. .+++.++.++++.. .++.+..-..........++.. .|=-
T Consensus 9 ~~~l~~~l~~l~~~~~~~~~~~~eiivvdd~S~D~t~~~~~~~~~~~~~~i~~i~~~~n~G~~~a~~~g~~~a---~gd~ 85 (211)
T cd04188 9 EKRLPPTLEEAVEYLEERPSFSYEIIVVDDGSKDGTAEVARKLARKNPALIRVLTLPKNRGKGGAVRAGMLAA---RGDY 85 (211)
T ss_pred HHHHHHHHHHHHHHHhccCCCCEEEEEEeCCCCCchHHHHHHHHHhCCCcEEEEEcccCCCcHHHHHHHHHHh---cCCE
Confidence 35677788888777654 456677775332 34455555544433 3444332222333333333222 2333
Q ss_pred EEEecCCeeecCCCC
Q psy6650 136 VIARVSHTLYDLDQL 150 (156)
Q Consensus 136 ~~~~~~~~L~~~~~l 150 (156)
+...++...++|+.+
T Consensus 86 i~~ld~D~~~~~~~l 100 (211)
T cd04188 86 ILFADADLATPFEEL 100 (211)
T ss_pred EEEEeCCCCCCHHHH
Confidence 344455555555443
No 352
>cd03012 TlpA_like_DipZ_like TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA family belong to this subfamily. TlpA is a disulfide reductase known to have a crucial role in the biogenesis of cytochrome aa3.
Probab=33.02 E-value=1.1e+02 Score=20.63 Aligned_cols=41 Identities=12% Similarity=0.114 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEc------ChHHHHHHHHHHcCcCeE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRG------QPADILPKLFKEWKTTCL 108 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g------~~~~~l~~l~~~~~~~~V 108 (156)
+..|.+|.++++..|+.++.+.. +..+.+.++++++++.--
T Consensus 42 ~p~l~~l~~~~~~~~~~vi~i~~~~~~~~~~~~~~~~~~~~~~~~~p 88 (126)
T cd03012 42 LPYLTDLEQKYKDDGLVVIGVHSPEFAFERDLANVKSAVLRYGITYP 88 (126)
T ss_pred HHHHHHHHHHcCcCCeEEEEeccCccccccCHHHHHHHHHHcCCCCC
Confidence 57788999999888887776643 346678888998877643
No 353
>PTZ00365 60S ribosomal protein L7Ae-like; Provisional
Probab=33.00 E-value=1.6e+02 Score=23.60 Aligned_cols=46 Identities=17% Similarity=0.190 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChH--H---HHHHHHHHcCcCeEEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPA--D---ILPKLFKEWKTTCLTF 110 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~--~---~l~~l~~~~~~~~V~~ 110 (156)
-++..++.+.-..+++.-..|+|+.+|.. + .|+.+|+.++|.-+++
T Consensus 131 ~~vk~Gin~VtklIekkKAkLVIIA~DVsP~t~kk~LP~LC~k~~VPY~iv 181 (266)
T PTZ00365 131 FMLKYGLNHVTDLVEYKKAKLVVIAHDVDPIELVCFLPALCRKKEVPYCII 181 (266)
T ss_pred hHHHhhhHHHHHHHHhCCccEEEEeCCCCHHHHHHHHHHHHhccCCCEEEE
Confidence 47778888888888887788888876632 2 2468888877765543
No 354
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein. This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.
Probab=32.93 E-value=3.4e+02 Score=23.84 Aligned_cols=128 Identities=10% Similarity=0.021 Sum_probs=67.5
Q ss_pred CeEEEEec---CCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE---
Q psy6650 15 KHMVHWFR---KGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI--- 88 (156)
Q Consensus 15 ~~~l~Wfr---~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~--- 88 (156)
.....|.| .|++...-..+..+...+.+.+.+|+-..........+.. ....++-+.+.-+-+++.|....+.
T Consensus 66 ~~i~~~~r~~r~~~~~~~d~~~ea~~~~~~~~v~i~~~~Sd~h~~~~l~~s-~ee~l~~~~~~v~~ak~~g~~V~~~~e~ 144 (526)
T TIGR00977 66 AKIVAFCSTRRPHKKVEEDKMLQALIKAETPVVTIFGKSWDLHVLEALQTT-LEENLAMIYDTVAYLKRQGDEVIYDAEH 144 (526)
T ss_pred cEEEEEeeecCCCCCCchHHHHHHHhcCCCCEEEEEeCCCHHHHHHHhCCC-HHHHHHHHHHHHHHHHHcCCeEEEEeee
Confidence 45677774 4676444456666665556666777644321111112222 2455555566666667778665321
Q ss_pred --Ec--ChHHHHHHHHH---HcCcCeEEEcccCCchhHHHHHHHHHHHHhC----CceEEEecCCe
Q psy6650 89 --RG--QPADILPKLFK---EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL----NIEVIARVSHT 143 (156)
Q Consensus 89 --~g--~~~~~l~~l~~---~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~----~i~~~~~~~~~ 143 (156)
.| ...+.+.++++ +.+++.|+.....+.-....-..+-+.+.+. .+.+|+++|.-
T Consensus 145 f~D~~r~~~~~l~~~~~~a~~aGad~i~i~DTvG~~~P~~v~~li~~l~~~~~~~~i~vH~HND~G 210 (526)
T TIGR00977 145 FFDGYKANPEYALATLATAQQAGADWLVLCDTNGGTLPHEISEITTKVKRSLKQPQLGIHAHNDSG 210 (526)
T ss_pred eeecccCCHHHHHHHHHHHHhCCCCeEEEecCCCCcCHHHHHHHHHHHHHhCCCCEEEEEECCCCC
Confidence 12 22344444444 4689999887766544443333333443322 26677776653
No 355
>PRK13222 phosphoglycolate phosphatase; Provisional
Probab=32.92 E-value=65 Score=23.83 Aligned_cols=38 Identities=13% Similarity=0.222 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
..+.++=+.|++.|+.+.++.+.....+..+++..+..
T Consensus 96 ~g~~~~l~~l~~~g~~~~i~S~~~~~~~~~~l~~~~l~ 133 (226)
T PRK13222 96 PGVKETLAALKAAGYPLAVVTNKPTPFVAPLLEALGIA 133 (226)
T ss_pred CCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCc
Confidence 45666777788889999999988888787888876653
No 356
>KOG3076|consensus
Probab=32.75 E-value=2.3e+02 Score=21.74 Aligned_cols=105 Identities=10% Similarity=0.050 Sum_probs=58.9
Q ss_pred CCeEEEEecCCCCccccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH
Q psy6650 14 EKHMVHWFRKGLRMHDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 14 ~~~~l~Wfr~DLRl~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
...+++.=.+ .+=.+|+.|.+.+-|+ -+++...+. .|..+= .+|.+.|.++|..|+++.|-.-
T Consensus 36 a~VvlviSnk----~~~~GL~rA~~~gIPt---~vip~k~~a------~R~~~d----~eL~~~l~e~~~d~v~lAG~M~ 98 (206)
T KOG3076|consen 36 ADVVLVISNK----KGVYGLERAADAGIPT---LVIPHKRFA------SREKYD----NELAEVLLELGTDLVCLAGYMR 98 (206)
T ss_pred ceEEEEEecc----ccchhhhHHHHCCCCE---EEecccccc------ccccCc----HHHHHHHHHhCCCEEEehhhHH
Confidence 3444555444 5667899998887665 233221111 111111 7899999999999999988654
Q ss_pred HHHHHHHHHcCcCeEEEcccC----CchhHHHHHHHHHHHHh----CCceEEEec
Q psy6650 94 DILPKLFKEWKTTCLTFEEDP----EPFGKVRDQNIMTLCRE----LNIEVIARV 140 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~----~~~~~~~d~~v~~~l~~----~~i~~~~~~ 140 (156)
-.=..++++++-. +.|-++ .+.... .++++++. .|+.+|.+.
T Consensus 99 iLs~~fl~~~~~~--iiNIHPaLlpaFkG~~---a~k~Aleagv~~~GctvHfV~ 148 (206)
T KOG3076|consen 99 ILSGEFLSQLPKR--IINIHPALLPAFKGLH---AIKQALEAGVKLSGCTVHFVI 148 (206)
T ss_pred HcCHHHHhhcccc--eEecccccccccCCch---HHHHHHHhccccccceEEEeh
Confidence 3334567776554 444433 222222 33344432 377777654
No 357
>TIGR02253 CTE7 HAD superfamily (subfamily IA) hydrolase, TIGR02253. This family is a member of the haloacid dehalogenase (HAD) superfamily of hydrolases which are characterized by three conserved sequence motifs. By virtue of an alpha helical domain in-between the first and second conserved motif, this family is a member of subfamily IA (TIGR01549).
Probab=32.58 E-value=1.8e+02 Score=21.32 Aligned_cols=46 Identities=15% Similarity=0.081 Sum_probs=32.0
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccCC
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDPE 115 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~~ 115 (156)
.+.++=+.|++.|+.+.++.+.+...+...++..++ +.|++..+.+
T Consensus 98 g~~~~L~~L~~~g~~~~i~Tn~~~~~~~~~l~~~~l~~~f~~i~~~~~~~ 147 (221)
T TIGR02253 98 GVRDTLMELRESGYRLGIITDGLPVKQWEKLERLGVRDFFDAVITSEEEG 147 (221)
T ss_pred CHHHHHHHHHHCCCEEEEEeCCchHHHHHHHHhCChHHhccEEEEeccCC
Confidence 456677778888999999987776666666676655 3466655543
No 358
>TIGR01685 MDP-1 magnesium-dependent phosphatase-1. This model represents two closely related clades of sequences from eukaryotes and archaea. The mouse enzyme has been characterized as a phosphatase and has been positively identified as a member of the haloacid dehalogenase (HAD) superfamily by site-directed mutagenesis of the active site residues.
Probab=32.49 E-value=2.1e+02 Score=21.16 Aligned_cols=40 Identities=13% Similarity=0.158 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcC-hHHHHHHHHHHcCcC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQ-PADILPKLFKEWKTT 106 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~~~ 106 (156)
++..+.++=+.|++.|+.+.|..+. +...+..+.+..+++
T Consensus 46 l~pGv~elL~~Lk~~G~~l~I~Sn~~~~~~~~~~L~~~~l~ 86 (174)
T TIGR01685 46 LIKEVRDVLQTLKDAGTYLATASWNDVPEWAYEILGTFEIT 86 (174)
T ss_pred EcccHHHHHHHHHHCCCEEEEEeCCCChHHHHHHHHhCCcC
Confidence 4578888888899999999999876 777777777766654
No 359
>PF01596 Methyltransf_3: O-methyltransferase; InterPro: IPR002935 Members of this family are O-methyltransferases. The family includes also bacterial O-methyltransferases that may be involved in antibiotic production [].; GO: 0008171 O-methyltransferase activity; PDB: 1SUI_C 1SUS_D 3CBG_A 2GPY_B 3TR6_A 2AVD_A 3DUL_B 3DUW_B 2ZTH_A 1VID_A ....
Probab=32.24 E-value=1.9e+02 Score=21.91 Aligned_cols=50 Identities=20% Similarity=0.354 Sum_probs=34.6
Q ss_pred eEEEEEcChHHHHHHHHHHc---CcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 84 RLFVIRGQPADILPKLFKEW---KTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 84 ~L~v~~g~~~~~l~~l~~~~---~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
...++.|+..++|+++..+. ..+-||.+.+-..|..-.+. +.+.++..|+
T Consensus 98 ~I~~~~gda~~~l~~l~~~~~~~~fD~VFiDa~K~~y~~y~~~-~~~ll~~ggv 150 (205)
T PF01596_consen 98 RIEVIEGDALEVLPELANDGEEGQFDFVFIDADKRNYLEYFEK-ALPLLRPGGV 150 (205)
T ss_dssp GEEEEES-HHHHHHHHHHTTTTTSEEEEEEESTGGGHHHHHHH-HHHHEEEEEE
T ss_pred cEEEEEeccHhhHHHHHhccCCCceeEEEEcccccchhhHHHH-HhhhccCCeE
Confidence 58889999999999999875 48889999876655544443 3345543344
No 360
>PRK05967 cystathionine beta-lyase; Provisional
Probab=32.21 E-value=2e+02 Score=24.11 Aligned_cols=62 Identities=13% Similarity=0.056 Sum_probs=40.0
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCCceEEE
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELNIEVIA 138 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~i~~~~ 138 (156)
+-++..|+.+.++..+..+.+.+.++. +...|+++....|. ...-.++|.+.+.+.|+.+..
T Consensus 122 ~~l~~~Gi~v~~vd~~~~e~l~~al~~-~TklV~lesPsNP~l~v~dl~~I~~la~~~g~~vvV 184 (395)
T PRK05967 122 TMLKRLGVEVEYYDPEIGAGIAKLMRP-NTKVVHTEAPGSNTFEMQDIPAIAEAAHRHGAIVMM 184 (395)
T ss_pred HHHHhcCeEEEEeCCCCHHHHHHhcCc-CceEEEEECCCCCCCcHHHHHHHHHHHHHhCCEEEE
Confidence 446677998887765444666666654 34567777655544 334447788888888886654
No 361
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=32.07 E-value=70 Score=20.86 Aligned_cols=33 Identities=9% Similarity=-0.020 Sum_probs=22.1
Q ss_pred hCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcc
Q psy6650 80 KLNSRLFVIRGQPADILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 80 ~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~ 112 (156)
..|++.++..++....+-.|.+.--++.|+.+.
T Consensus 2 ~~gv~~i~AP~EAeAq~A~L~~~g~vd~V~t~D 34 (94)
T PF00867_consen 2 LMGVPYIVAPYEAEAQCAYLERNGLVDAVITED 34 (94)
T ss_dssp HHT-EEEE-SS-HHHHHHHHHHTTSSSEEE-SS
T ss_pred CCCCeEEEcCchHHHHHHHHHHhcceeEEEecC
Confidence 458888888888888888788776677777663
No 362
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=31.99 E-value=1.6e+02 Score=22.63 Aligned_cols=60 Identities=12% Similarity=0.059 Sum_probs=0.0
Q ss_pred hCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCc----hhHHHHHHHHHHHHhCCceEEEe
Q psy6650 80 KLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEP----FGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 80 ~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~----~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
++|+.-......+.+...+.+++.|++.| ++...... ......+++++.+++.|+++..+
T Consensus 2 ~lg~~t~~~~~~~l~~~l~~~~~~G~~~vEl~~~~~~~~~~~~~~~~~~~l~~~~~~~gl~v~s~ 66 (275)
T PRK09856 2 KTGMFTCGHQRLPIEHAFRDASELGYDGIEIWGGRPHAFAPDLKAGGIKQIKALAQTYQMPIIGY 66 (275)
T ss_pred ceeeeehhheeCCHHHHHHHHHHcCCCEEEEccCCccccccccCchHHHHHHHHHHHcCCeEEEe
No 363
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=31.77 E-value=2.5e+02 Score=22.01 Aligned_cols=71 Identities=13% Similarity=0.185 Sum_probs=43.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+ ...+++.|++....... ....+.+.+.|++++.+
T Consensus 77 ~~~~~i~~gi~~~a~~~g~~~~~~~~~~~~~~~~~~~~~l-~~~~vdgiIi~~~~~~~-----~~~~~~l~~~~iPvV~~ 150 (342)
T PRK10014 77 PFYAELTAGLTEALEAQGRMVFLLQGGKDGEQLAQRFSTL-LNQGVDGVVIAGAAGSS-----DDLREMAEEKGIPVVFA 150 (342)
T ss_pred chHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHH-HhCCCCEEEEeCCCCCc-----HHHHHHHhhcCCCEEEE
Confidence 36667777788889999988877653 222 223333 34578988775432111 12334455678999988
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 151 ~~ 152 (342)
T PRK10014 151 SR 152 (342)
T ss_pred ec
Confidence 64
No 364
>PF09664 DUF2399: Protein of unknown function C-terminus (DUF2399); InterPro: IPR024465 This domain is found in archaeal, bacterial and eukaryotic proteins. Its function is unknown.
Probab=31.65 E-value=2e+02 Score=20.77 Aligned_cols=49 Identities=18% Similarity=0.252 Sum_probs=29.6
Q ss_pred hCCCeEEEEEcChHHHHHHHHHHc---CcCeEEEcccCCchhHHHHHHHHHHH
Q psy6650 80 KLNSRLFVIRGQPADILPKLFKEW---KTTCLTFEEDPEPFGKVRDQNIMTLC 129 (156)
Q Consensus 80 ~~g~~L~v~~g~~~~~l~~l~~~~---~~~~V~~~~~~~~~~~~~d~~v~~~l 129 (156)
..+.+|++..|.|...-..|++.. + ..+++.-++.|...+.-+++.+..
T Consensus 39 ~~~~pLVCt~G~p~~A~~~LL~~L~~~g-~~l~y~GDfDp~Gl~IA~~l~~r~ 90 (152)
T PF09664_consen 39 ASCPPLVCTSGQPSAAARRLLDRLAAAG-ARLYYSGDFDPEGLRIANRLIQRY 90 (152)
T ss_pred CCCCeEEEcCCcHHHHHHHHHHHHHhCC-CEEEEecCCCHHHHHHHHHHHHHh
Confidence 355667777777765544444432 3 366777777777776666665543
No 365
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=31.53 E-value=2.7e+02 Score=22.27 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc----ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG----QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+.+..+++.+++.|..+.+..+ +.. +.+..+.+ .+++.|++... .+.. ....+ .+.+.|+++.
T Consensus 59 ~f~~~~~~gi~~aa~~~G~~l~i~~~~~~~~~~~q~~~i~~l~~-~~vdgIIl~~~-~~~~--~~~~l--~~~~~giPvV 132 (343)
T PRK10936 59 SYWLSVNYGMVEEAKRLGVDLKVLEAGGYYNLAKQQQQLEQCVA-WGADAILLGAV-TPDG--LNPDL--ELQAANIPVI 132 (343)
T ss_pred hHHHHHHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHH-hCCCEEEEeCC-ChHH--hHHHH--HHHHCCCCEE
Confidence 47778888899999999999998854 222 23444443 57998877532 1221 11223 3445799999
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.+++.
T Consensus 133 ~~~~~ 137 (343)
T PRK10936 133 ALVNG 137 (343)
T ss_pred EecCC
Confidence 87543
No 366
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=31.52 E-value=1.7e+02 Score=22.61 Aligned_cols=79 Identities=11% Similarity=0.119 Sum_probs=44.5
Q ss_pred CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH
Q psy6650 40 CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK 119 (156)
Q Consensus 40 ~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~ 119 (156)
+-..+-+=|.|-.+.-.-..| .+-++++++..-..-...++..-+|...++.+++. |++.|.++.+.+.+..
T Consensus 29 g~d~lHiDimDG~FVPN~tfg-------~~~i~~lr~~~~~~~~dvHLMv~~P~~~i~~~~~~-gad~I~~H~Ea~~~~~ 100 (223)
T PRK08745 29 GADWVHFDVMDNHYVPNLTIG-------PMVCQALRKHGITAPIDVHLMVEPVDRIVPDFADA-GATTISFHPEASRHVH 100 (223)
T ss_pred CCCEEEEecccCccCCCcccC-------HHHHHHHHhhCCCCCEEEEeccCCHHHHHHHHHHh-CCCEEEEcccCcccHH
Confidence 344556666665443211223 23445554321123355666778898888877774 8999999888655543
Q ss_pred HHHHHHH
Q psy6650 120 VRDQNIM 126 (156)
Q Consensus 120 ~~d~~v~ 126 (156)
+..+.++
T Consensus 101 ~~l~~Ir 107 (223)
T PRK08745 101 RTIQLIK 107 (223)
T ss_pred HHHHHHH
Confidence 3333333
No 367
>smart00775 LNS2 LNS2 domain. This domain is found in Saccharomyces cerevisiae protein SMP2, proteins with an N-terminal lipin domain and phosphatidylinositol transfer proteins. SMP2 is involved in plasmid maintenance and respiration. Lipin proteins are involved in adipose tissue development and insulin resistance.
Probab=31.52 E-value=2e+02 Score=20.65 Aligned_cols=37 Identities=5% Similarity=0.183 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcChHHHHH---HHHHH
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQPADILP---KLFKE 102 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~---~l~~~ 102 (156)
|+.....++=+.|++.|..+.+..|.+....+ .+..+
T Consensus 27 ~~~~~~~~a~~~l~~~G~~ivy~TGRp~~~~~~t~~~l~~ 66 (157)
T smart00775 27 WTHPGVAKLYRDIQNNGYKILYLTARPIGQADRTRSYLSQ 66 (157)
T ss_pred cCCHHHHHHHHHHHHcCCeEEEEcCCcHHHHHHHHHHHHH
Confidence 56778888888888899999999999876653 45555
No 368
>cd03423 SirA SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A variety of microorganisms have similar proteins, all of which contain a common CPxP sequence motif in the N-terminal region. YhhP is thought to be important for normal cell division and growth in rich nutrient medium. Moreover, despite a low primary sequence similarity, the YccP structure closely resembles the non-homologous C-terminal RNA-binding domain of E. coli translation initiation factor IF3. The signature CPxP motif serves to stabilize the N-terminal helix as part of the N-capping box and might be important in mRNA-binding.
Probab=31.45 E-value=1.3e+02 Score=18.38 Aligned_cols=44 Identities=23% Similarity=0.330 Sum_probs=29.6
Q ss_pred HHHHHHHHHhC--CCeEEEEEcCh--HHHHHHHHHHcCcCeEEEcccC
Q psy6650 71 LEDLDINLRKL--NSRLFVIRGQP--ADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 71 L~~L~~~L~~~--g~~L~v~~g~~--~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
+-.+++.|++. |..|.|+..++ .+-++.++++.|-+.+...++.
T Consensus 13 ~i~~k~~l~~l~~G~~l~V~~dd~~s~~di~~~~~~~g~~~~~~~~~~ 60 (69)
T cd03423 13 VMMLHKKVRKMKPGDTLLVLATDPSTTRDIPKFCTFLGHELLAQETED 60 (69)
T ss_pred HHHHHHHHHcCCCCCEEEEEeCCCchHHHHHHHHHHcCCEEEEEEEcC
Confidence 34566777766 55677776554 4578889998888776655543
No 369
>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated
Probab=31.37 E-value=2.8e+02 Score=22.81 Aligned_cols=73 Identities=10% Similarity=0.059 Sum_probs=43.1
Q ss_pred HHHHHHHHHHHhCCC-eEEEEEcChHHHHHHHHHH-------------cCcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 69 QCLEDLDINLRKLNS-RLFVIRGQPADILPKLFKE-------------WKTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~-~L~v~~g~~~~~l~~l~~~-------------~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
+++...+++++..|+ ...+..|+..+.+..+.++ ...+.|+++-.+........+.+.+ -.+|
T Consensus 239 ~ai~~a~~N~~~~~~~~v~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR~G~~~~~l~~l~~---~~~i 315 (362)
T PRK05031 239 PSVAAAQYNIAANGIDNVQIIRMSAEEFTQAMNGVREFNRLKGIDLKSYNFSTIFVDPPRAGLDDETLKLVQA---YERI 315 (362)
T ss_pred HHHHHHHHHHHHhCCCcEEEEECCHHHHHHHHhhcccccccccccccCCCCCEEEECCCCCCCcHHHHHHHHc---cCCE
Confidence 466777777777776 4778889988888776532 1357888887664433333333322 1345
Q ss_pred eEEEecCCee
Q psy6650 135 EVIARVSHTL 144 (156)
Q Consensus 135 ~~~~~~~~~L 144 (156)
-+.+.+-.+|
T Consensus 316 vyvSC~p~tl 325 (362)
T PRK05031 316 LYISCNPETL 325 (362)
T ss_pred EEEEeCHHHH
Confidence 5554444443
No 370
>cd08192 Fe-ADH7 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. NAD-dependent iron-containing alcohol dehydrogenase-like. Proteins in this family are NAD-dependent alcohol dehydrogenases which are involved in the linear alkylbenzenesulfonate (LAS) degradation pathway. They catalyze the oxidation of beta-hydroxy CoA ester to beta-oxo CoA ester, which then be subject to CoA-dependent thiolysis to yield acetyl-CoA and 6-C8-SPC-CoA. The major laundry surfactant in worldwide use is commercial linear alkylbenzenesulfonate (LAS) which contains 20 congeners of linear alkanes (C10 to C13). LAS is fully biodegradable in oxic environments. Degradation involves microbial communities. Parvibaculum lavamentivorans DS-1T is a representative member of many heterotrophic, LAS-degrading communities, in which it catalyzes the first steps of LAS degradation. Strain DS-1T is a small heterotrophic bacterium able to omega-oxygenate the comm
Probab=31.08 E-value=2e+02 Score=23.66 Aligned_cols=74 Identities=11% Similarity=0.154 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEcCh------HHHHHHHHHHcCcCeEEEc-ccCCchhHHHHHHHHHHHHhCCceEEE-e
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRGQP------ADILPKLFKEWKTTCLTFE-EDPEPFGKVRDQNIMTLCRELNIEVIA-R 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g~~------~~~l~~l~~~~~~~~V~~~-~~~~~~~~~~d~~v~~~l~~~~i~~~~-~ 139 (156)
.++.+|.+.++++| ....|+.|.. .+.+.+..++.+++...++ -...|.....++ ..+.+++.++.+.. +
T Consensus 10 g~~~~l~~~l~~~g~~~~liv~~~~~~~~~~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~-~~~~~~~~~~d~IIai 88 (370)
T cd08192 10 GAIKELPAECAELGIKRPLIVTDPGLAALGLVARVLALLEDAGLAAALFDEVPPNPTEAAVEA-GLAAYRAGGCDGVIAF 88 (370)
T ss_pred CHHHHHHHHHHHcCCCeEEEEcCcchhhCccHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHH-HHHHHHhcCCCEEEEe
Confidence 46777777888877 4555555432 2233344444566655443 233343333333 33444445554443 4
Q ss_pred cCCe
Q psy6650 140 VSHT 143 (156)
Q Consensus 140 ~~~~ 143 (156)
.+-+
T Consensus 89 GGGS 92 (370)
T cd08192 89 GGGS 92 (370)
T ss_pred CCch
Confidence 4433
No 371
>PF12813 XPG_I_2: XPG domain containing
Probab=31.07 E-value=1.5e+02 Score=23.19 Aligned_cols=25 Identities=12% Similarity=0.252 Sum_probs=21.5
Q ss_pred CCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 81 LNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 81 ~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
.|+...+..|+....+-.++++++.
T Consensus 19 ~~~~~~~~~~EAD~~~A~~A~~~~~ 43 (246)
T PF12813_consen 19 YGVPVVQCPGEADRECAALARKWGC 43 (246)
T ss_pred cCCcEEEcCccchHHHHHHHHHcCC
Confidence 4999999999988888888988877
No 372
>cd06315 PBP1_ABC_sugar_binding_like_6 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=30.99 E-value=2.4e+02 Score=21.51 Aligned_cols=72 Identities=14% Similarity=0.129 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
-|+.+-+..+.+.+++.|..+.+..++ +. +.+. .....+++.|+.... .+. ..+..+ +.+.+.|+++..+
T Consensus 13 ~~~~~~~~gi~~~a~~~gy~~~~~~~~~~~~~~~~~i~-~l~~~~vdgiil~~~-~~~--~~~~~~-~~~~~~~iPvV~~ 87 (280)
T cd06315 13 GGILGVGEGVREAAKAIGWNLRILDGRGSEAGQAAALN-QAIALKPDGIVLGGV-DAA--ELQAEL-ELAQKAGIPVVGW 87 (280)
T ss_pred cHHHHHHHHHHHHHHHcCcEEEEECCCCCHHHHHHHHH-HHHHcCCCEEEEcCC-CHH--HHHHHH-HHHHHCCCCEEEe
Confidence 477888999999999999998887553 32 2333 344568999988632 111 112233 3344568999888
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 88 d~ 89 (280)
T cd06315 88 HA 89 (280)
T ss_pred cC
Confidence 65
No 373
>PF00465 Fe-ADH: Iron-containing alcohol dehydrogenase ; InterPro: IPR001670 Alcohol dehydrogenase (1.1.1.1 from EC) (ADH) catalyzes the reversible oxidation of ethanol to acetaldehyde with the concomitant reduction of NAD. Currently three, structurally and catalytically, different types of alcohol dehydrogenases are known: Zinc-containing 'long-chain' alcohol dehydrogenases. Insect-type, or 'short-chain' alcohol dehydrogenases. Iron-containing alcohol dehydrogenases. Iron-containing ADH's have been found in yeast (gene ADH4) [], as well as in Zymomonas mobilis (gene adhB) []. These two iron-containing ADH's are closely related to the following enzymes: Escherichia coli propanediol oxidoreductase (1.1.1.77 from EC) (gene fucO) [], an enzyme involved in the metabolism of fucose and which also seems to contain ferrous ion(s). Clostridium acetobutylicum NADPH- and NADH-dependent butanol dehydrogenases (1.1.1 from EC) (genes adh1, bdhA and bdhB) [], an enzyme which has activity using butanol and ethanol as substrates. E. coli adhE [], an iron-dependent enzyme which harbor three different activities: alcohol dehydrogenase, acetaldehyde dehydrogenase (acetylating) (1.2.1.10 from EC) and pyruvate-formate-lyase deactivase. Bacterial glycerol dehydrogenase (1.1.1.6 from EC) (gene gldA or dhaD) []. Clostridium kluyveri NAD-dependent 4-hydroxybutyrate dehydrogenase (4hbd) (1.1.1.61 from EC). Citrobacter freundii and Klebsiella pneumoniae 1,3-propanediol dehydrogenase (1.1.1.202 from EC) (gene dhaT). Bacillus methanolicus NAD-dependent methanol dehydrogenase (1.1.1.244 from EC) []. E. coli and Salmonella typhimurium ethanolamine utilization protein eutG. E. coli hypothetical protein yiaY. ; GO: 0016491 oxidoreductase activity, 0046872 metal ion binding, 0055114 oxidation-reduction process; PDB: 1RRM_A 2BL4_A 2BI4_A 3BFJ_R 1KQ3_A 1JQ5_A 1JPU_A 1JQA_A 3JZD_A 3UHJ_A ....
Probab=30.95 E-value=2e+02 Score=23.49 Aligned_cols=12 Identities=42% Similarity=0.733 Sum_probs=6.2
Q ss_pred HHHHHHHHHhCC
Q psy6650 71 LEDLDINLRKLN 82 (156)
Q Consensus 71 L~~L~~~L~~~g 82 (156)
+.+|...|++.|
T Consensus 11 l~~l~~~l~~~g 22 (366)
T PF00465_consen 11 LEELGEELKRLG 22 (366)
T ss_dssp GGGHHHHHHCTT
T ss_pred HHHHHHHHHhcC
Confidence 444555555555
No 374
>smart00513 SAP Putative DNA-binding (bihelical) motif predicted to be involved in chromosomal organisation.
Probab=30.91 E-value=80 Score=16.59 Aligned_cols=27 Identities=22% Similarity=0.433 Sum_probs=18.7
Q ss_pred HHHHHHHHHhCCCeEEEEEcChHHHHHHHH
Q psy6650 71 LEDLDINLRKLNSRLFVIRGQPADILPKLF 100 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~ 100 (156)
..+|++.|+++|.+ ..|.-.+.+.++.
T Consensus 6 ~~~Lk~~l~~~gl~---~~G~K~~Lv~Rl~ 32 (35)
T smart00513 6 VSELKDELKKRGLS---TSGTKAELVDRLL 32 (35)
T ss_pred HHHHHHHHHHcCCC---CCCCHHHHHHHHH
Confidence 56888889988887 3566555555544
No 375
>PF02037 SAP: SAP domain; InterPro: IPR003034 The SAP (after SAF-A/B, Acinus and PIAS) motif is a putative DNA binding domain found in diverse nuclear proteins involved in chromosomal organisation [], including in apoptosis []. In yeast, SAP is found in the most distal N-terminal region of E3 SUMO-protein ligase SIZ1, where it is involved in nuclear localization [].; GO: 0003676 nucleic acid binding; PDB: 2RNN_A 1JEQ_A 2KW9_A 2KVU_A 2DO1_A 1ZBU_B 1ZBH_A 2DO5_A 2RNO_A 1H1J_S ....
Probab=30.84 E-value=53 Score=17.45 Aligned_cols=28 Identities=18% Similarity=0.360 Sum_probs=18.0
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHH
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLF 100 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~ 100 (156)
.+.+|++.|+++|.+- .|.-.+.+.++.
T Consensus 5 ~v~eLk~~l~~~gL~~---~G~K~~Li~Rl~ 32 (35)
T PF02037_consen 5 TVAELKEELKERGLST---SGKKAELIERLK 32 (35)
T ss_dssp HHHHHHHHHHHTTS-S---TSSHHHHHHHHH
T ss_pred cHHHHHHHHHHCCCCC---CCCHHHHHHHHH
Confidence 4678999999998763 355555554443
No 376
>TIGR03707 PPK2_P_aer polyphosphate kinase 2, PA0141 family. Members of this protein family are designated polyphosphate kinase 2 (PPK2) after the characterized protein in Pseudomonas aeruginosa. This family comprises one of three well-separated clades in the larger family described by Pfam model pfam03976. PA0141 from this family has been shown capable of operating in reverse, with GDP preferred (over ADP) as a substrate, producing GTP (or ATP) by transfer of a phosphate residue from polyphosphate. Most species with a member of this family also encode a polyphosphate kinase 1 (PPK1).
Probab=30.83 E-value=2.6e+02 Score=21.77 Aligned_cols=71 Identities=10% Similarity=0.117 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHHHHHHHhCCCeEEEE-EcCh----HHHHHHHHHHcCcCeE--EEcccCCchhHHHH--HHHHHHHHhCC
Q psy6650 63 KWRFLLQCLEDLDINLRKLNSRLFVI-RGQP----ADILPKLFKEWKTTCL--TFEEDPEPFGKVRD--QNIMTLCRELN 133 (156)
Q Consensus 63 r~~Fl~~sL~~L~~~L~~~g~~L~v~-~g~~----~~~l~~l~~~~~~~~V--~~~~~~~~~~~~~d--~~v~~~l~~~~ 133 (156)
+..=+...|.+||..|.+.|++++|+ .|-. -.++..|+...+...+ +.-..++..|.+++ -+..+.++..|
T Consensus 10 ~l~~L~~~L~~lQ~~l~~~~~~vlIv~eG~DaAGKg~~I~~l~~~lDPRg~~v~~~~~pt~eE~~~p~lwRfw~~lP~~G 89 (230)
T TIGR03707 10 ELERLQIELVKLQAWVKETGARVVIVFEGRDAAGKGGTIKRITEHLNPRGARVVALPKPSDRERTQWYFQRYVQHLPAAG 89 (230)
T ss_pred HHHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCCCchHHHHHHHHhcCCCeeEEEeCCCCCHHHHcChHHHHHHHhCCCCC
Confidence 34457788999999999999997765 4422 2467778887766655 33344445555544 34455666555
No 377
>PF01206 TusA: Sulfurtransferase TusA; InterPro: IPR001455 SirA functions as a response regulator as part of a two-component system, where BarA is the sensor kinase. This system increases the expression of virulence genes and decreases the expression of motility genes []. BarA phosphorylates SirA, thereby activating the protein. Phosphorylated SirA directly activates virulence expression by interacting with hilA and hilC promoters, while repressing the flagellar regulon indirectly by binding to the csrB promoter, which in turn affects flagellar gene expression. Orthologues of SirA from Salmonella spp. can be found throughout proteobacteria, such as GacA in Psuedomonas spp., VarA in Vibrio cholerae, ExpA in Erwinia carotovora, LetA in Legionella pneumophila, and UvrY in Escherichia coli []. A sensor kinase for SirA is present in each of these organisms as well; the sensor kinase is known as BarA in E. coli and Salmonella spp., but has different names in other genera. In different species, SirA/BarA orthologues are required for virulence gene expression, exoenzyme and antibiotic production, motility, and biofilm formation. The structure of SirA consists of an alpha/beta sandwich with a beta-alpha-beta-alpha-beta(2) fold, comprising a mixed four-stranded beta-sheet stacked against two alpha-helices, both of which are nearly parallel to the strands of the beta-sheet []. Several uncharacterised bacterial proteins (73 to 81 amino-acid residues in length) that contain a well-conserved region in their N-terminal region show structural similarity to the SirA protein, including the E. coli protein YedF (P0AA31 from SWISSPROT), and other members of the UPF0033 family.; GO: 0016783 sulfurtransferase activity, 0008033 tRNA processing, 0005737 cytoplasm; PDB: 3LVJ_D 3LVK_B 1DCJ_A 3HZ7_A 1JDQ_A 1JE3_A 1PAV_A.
Probab=30.75 E-value=1.3e+02 Score=18.16 Aligned_cols=43 Identities=26% Similarity=0.348 Sum_probs=29.3
Q ss_pred HHHHHHHHHhC--CCeEEEEEcChH--HHHHHHHHHcCcCeEEEccc
Q psy6650 71 LEDLDINLRKL--NSRLFVIRGQPA--DILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 71 L~~L~~~L~~~--g~~L~v~~g~~~--~~l~~l~~~~~~~~V~~~~~ 113 (156)
|-.+++.|+++ |..|.|+..++. +-++.++++.|.+.+-.++.
T Consensus 14 ll~~~~~l~~l~~G~~l~v~~d~~~~~~di~~~~~~~g~~~~~~~~~ 60 (70)
T PF01206_consen 14 LLKAKKALKELPPGEVLEVLVDDPAAVEDIPRWCEENGYEVVEVEEE 60 (70)
T ss_dssp HHHHHHHHHTSGTT-EEEEEESSTTHHHHHHHHHHHHTEEEEEEEES
T ss_pred HHHHHHHHHhcCCCCEEEEEECCccHHHHHHHHHHHCCCEEEEEEEe
Confidence 44566667764 777888876654 56899999988866655443
No 378
>COG0854 PdxJ Pyridoxal phosphate biosynthesis protein [Coenzyme metabolism]
Probab=30.71 E-value=2.7e+02 Score=21.92 Aligned_cols=81 Identities=17% Similarity=0.130 Sum_probs=51.2
Q ss_pred chHHHH--HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeE-EEcccCCc--h--hHHH-H---HHHHH---
Q psy6650 62 NKWRFL--LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCL-TFEEDPEP--F--GKVR-D---QNIMT--- 127 (156)
Q Consensus 62 ~r~~Fl--~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V-~~~~~~~~--~--~~~~-d---~~v~~--- 127 (156)
.=+.|. ..-|.+.-+.|+..|++..++.....+.+. .+.+.++..| +.+-.|+- . +.++ + .++.+
T Consensus 102 gGlD~~~~~~~l~~~v~~L~~~GirVSLFiD~d~~qi~-aa~~~gA~~IELhTG~Ya~~~~~~~~~~~~~el~rl~~~a~ 180 (243)
T COG0854 102 GGLDVAGQLDKLRDAVRRLKNAGIRVSLFIDPDPEQIE-AAAEVGAPRIELHTGPYADAHDAAEQARADAELERLAKAAK 180 (243)
T ss_pred cchhhhhhhhhHHHHHHHHHhCCCeEEEEeCCCHHHHH-HHHHhCCCEEEEecccccccCChHHHHHHHHHHHHHHHHHH
Confidence 345666 677888888999999999888765555654 7888899988 44444432 1 2222 1 12332
Q ss_pred HHHhCCceEEEecCCe
Q psy6650 128 LCRELNIEVIARVSHT 143 (156)
Q Consensus 128 ~l~~~~i~~~~~~~~~ 143 (156)
...+.|+.+..-++=+
T Consensus 181 ~A~~lGL~VnAGHgLt 196 (243)
T COG0854 181 LAAELGLKVNAGHGLT 196 (243)
T ss_pred HHHHcCceEecCCCcc
Confidence 2234588887665544
No 379
>TIGR01325 O_suc_HS_sulf O-succinylhomoserine sulfhydrylase. This model describes O-succinylhomoserine sulfhydrylase, one of several related pyridoxal phosphate-dependent enzymes of cysteine and methionine metabolism. This enzyme is part of an alternative pathway of homocysteine biosynthesis, a step in methionine biosynthesis.
Probab=30.68 E-value=2.1e+02 Score=23.54 Aligned_cols=66 Identities=11% Similarity=0.108 Sum_probs=37.2
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCCceEEEecC
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
...++..|+.+..+..+..+.+.+.+.. +...|+++....|. ...-.+++.+.|++.|+.+..-+.
T Consensus 111 ~~~~~~~g~~v~~v~~~d~~~l~~~i~~-~tklV~le~p~np~g~~~dl~~I~~la~~~gi~livD~a 177 (380)
T TIGR01325 111 SEILPRFGIEVSFVDPTDLNAWEAAVKP-NTKLVFVETPSNPLGELVDIAALAELAHAIGALLVVDNV 177 (380)
T ss_pred HHHHHHhCCEEEEECCCCHHHHHHhcCC-CceEEEEECCCCCCCeeeCHHHHHHHHHHcCCEEEEECC
Confidence 3445567888776665544555554433 44566765443332 112246677888888887765443
No 380
>PRK03906 mannonate dehydratase; Provisional
Probab=30.67 E-value=1.2e+02 Score=25.54 Aligned_cols=55 Identities=9% Similarity=-0.053 Sum_probs=30.7
Q ss_pred HHHHHcCcCeEEEccc---C-CchhHHHHHHHHHHHHhCCceEEEecCCeeecCCCCCCCC
Q psy6650 98 KLFKEWKTTCLTFEED---P-EPFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQLKPDS 154 (156)
Q Consensus 98 ~l~~~~~~~~V~~~~~---~-~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~ 154 (156)
+.+++.|++.|+..-. . .+-......++++.+++.|+++..+++-... ++|+.+.
T Consensus 17 ~~~rQ~G~~~iv~~l~~~~~g~~W~~~~i~~~~~~ie~~Gl~~~vvEs~pv~--~~Ik~g~ 75 (385)
T PRK03906 17 EDIRQPGATGIVTALHDIPVGEVWPVEEILARKAEIEAAGLEWSVVESVPVH--EDIKTGT 75 (385)
T ss_pred HHHhcCCCCceeecCCCCCCCCCCCHHHHHHHHHHHHHcCCeEEEEeCCCcc--HHHHcCC
Confidence 3444477777764421 1 2233444555666677778888777765544 3555443
No 381
>PRK14569 D-alanyl-alanine synthetase A; Provisional
Probab=30.63 E-value=2.7e+02 Score=22.00 Aligned_cols=10 Identities=10% Similarity=0.232 Sum_probs=4.8
Q ss_pred HHHHHHHcCc
Q psy6650 96 LPKLFKEWKT 105 (156)
Q Consensus 96 l~~l~~~~~~ 105 (156)
++.+++..++
T Consensus 74 i~~~le~~gi 83 (296)
T PRK14569 74 VSALLEMLEI 83 (296)
T ss_pred HHHHHHHcCC
Confidence 4445554444
No 382
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=30.62 E-value=3.1e+02 Score=22.64 Aligned_cols=44 Identities=16% Similarity=0.281 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHhCC-CeEEEEEcChH------HHHHHHHHHcCcCeEEEc
Q psy6650 68 LQCLEDLDINLRKLN-SRLFVIRGQPA------DILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g-~~L~v~~g~~~------~~l~~l~~~~~~~~V~~~ 111 (156)
..++.++.+.++++| ....|+.|... +.+....++.++...+++
T Consensus 14 ~g~l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~ 64 (379)
T TIGR02638 14 AGAIEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFD 64 (379)
T ss_pred cCHHHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEEC
Confidence 345666666666666 34444444321 223334444455544443
No 383
>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=30.61 E-value=2.3e+02 Score=21.11 Aligned_cols=69 Identities=9% Similarity=0.039 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+.+.+++.|..+.+...+ .. +.+..+ ...+++.|++........ . ..+...|+++..++
T Consensus 14 ~~~~~~~~i~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l-~~~~~dgiii~~~~~~~~-~------~~~~~~~ipvv~~~ 85 (269)
T cd06288 14 FAVEIILGAQDAAREHGYLLLVVNTGGDDELEAEAVEAL-LDHRVDGIIYATMYHREV-T------LPPELLSVPTVLLN 85 (269)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHH-HHcCCCEEEEecCCCChh-H------HHHHhcCCCEEEEe
Confidence 66666777778888899998887643 21 223333 446888887764322211 1 11233588888776
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 86 ~~ 87 (269)
T cd06288 86 CY 87 (269)
T ss_pred cc
Confidence 43
No 384
>PLN02476 O-methyltransferase
Probab=30.56 E-value=2.8e+02 Score=22.19 Aligned_cols=63 Identities=14% Similarity=0.121 Sum_probs=41.0
Q ss_pred HHHHHHHHHhCCCe--EEEEEcChHHHHHHHHHH---cCcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 71 LEDLDINLRKLNSR--LFVIRGQPADILPKLFKE---WKTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 71 L~~L~~~L~~~g~~--L~v~~g~~~~~l~~l~~~---~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
+..-++.+++.|.. ..++.|+..+.|+++.++ -..+-||.+.+-..|..-.+ .+.+.++..|+
T Consensus 156 ~~~Ar~n~~~aGl~~~I~li~GdA~e~L~~l~~~~~~~~FD~VFIDa~K~~Y~~y~e-~~l~lL~~GGv 223 (278)
T PLN02476 156 LEVAKRYYELAGVSHKVNVKHGLAAESLKSMIQNGEGSSYDFAFVDADKRMYQDYFE-LLLQLVRVGGV 223 (278)
T ss_pred HHHHHHHHHHcCCCCcEEEEEcCHHHHHHHHHhcccCCCCCEEEECCCHHHHHHHHH-HHHHhcCCCcE
Confidence 44455566677764 788899999999998753 35888999877544443333 33345544454
No 385
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=30.52 E-value=2.5e+02 Score=21.60 Aligned_cols=72 Identities=19% Similarity=0.232 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+... ++.. .+..+ ...+++.|+..... ... ....+ +.+++.|++++.+
T Consensus 39 ~f~~~~~~~i~~~~~~~G~~~~~~~~~~d~~~~~~~~~~l-~~~~~dgiii~~~~-~~~--~~~~l-~~~~~~~ipvV~~ 113 (295)
T PRK10653 39 PFFVSLKDGAQKEADKLGYNLVVLDSQNNPAKELANVQDL-TVRGTKILLINPTD-SDA--VGNAV-KMANQANIPVITL 113 (295)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEecCCCCHHHHHHHHHHH-HHcCCCEEEEcCCC-hHH--HHHHH-HHHHHCCCCEEEE
Confidence 47788899999999999999988642 3432 23333 33578877665321 111 11222 4455578999988
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 114 ~~ 115 (295)
T PRK10653 114 DR 115 (295)
T ss_pred cc
Confidence 64
No 386
>PF14258 DUF4350: Domain of unknown function (DUF4350)
Probab=30.43 E-value=1.3e+02 Score=18.16 Aligned_cols=57 Identities=14% Similarity=0.029 Sum_probs=36.3
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHh
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRE 131 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~ 131 (156)
+...|.+-|++.|+....... +.+.+. ..+.+-|+.+......+....+++.++.++
T Consensus 6 G~~a~~~~L~~~g~~v~~~~~-~~~~l~----~~~~tll~i~~~~~~~~~~~~~~l~~~v~~ 62 (70)
T PF14258_consen 6 GTYALYQLLEEQGVKVERWRK-PYEALE----ADDGTLLVIGPDLRLSEPEEAEALLEWVEA 62 (70)
T ss_pred HHHHHHHHHHHCCCeeEEecc-cHHHhC----CCCCEEEEEeCCCCCCchHHHHHHHHHHHc
Confidence 456777888889999887666 344443 245666677766444433444577788764
No 387
>PRK11009 aphA acid phosphatase/phosphotransferase; Provisional
Probab=30.26 E-value=2.6e+02 Score=21.72 Aligned_cols=36 Identities=14% Similarity=0.197 Sum_probs=28.6
Q ss_pred HHHHHHHHHHhCCCeEEEEEcC----hHHHHHHHHHHcCc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQ----PADILPKLFKEWKT 105 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~~~ 105 (156)
+..++=+.|+++|+.+.++.+. .......|.+.+++
T Consensus 118 Ga~elL~~L~~~G~~I~iVTnR~~~k~~~t~~~Llk~~gi 157 (237)
T PRK11009 118 VARQLIDMHVKRGDSIYFITGRTATKTETVSKTLADDFHI 157 (237)
T ss_pred HHHHHHHHHHHCCCeEEEEeCCCCcccHHHHHHHHHHcCC
Confidence 4788888899999999999884 34566777777888
No 388
>cd02685 MIT_C MIT_C; domain found C-terminal to MIT (contained within Microtubule Interacting and Trafficking molecules) domains, as well as in some bacterial proteins. The function of this domain is unknown.
Probab=30.22 E-value=1.5e+02 Score=21.52 Aligned_cols=33 Identities=18% Similarity=0.193 Sum_probs=24.7
Q ss_pred HHHHHHHHHhCCceEEEecCCeeecCCCCCCCCC
Q psy6650 122 DQNIMTLCRELNIEVIARVSHTLYDLDQLKPDSR 155 (156)
Q Consensus 122 d~~v~~~l~~~~i~~~~~~~~~L~~~~~l~~~~~ 155 (156)
-.++++.|.+.||.+.---+.++++. +|..++|
T Consensus 73 l~~i~~sl~~~gI~~~~~f~~tiHDR-~I~~~nG 105 (148)
T cd02685 73 LEEIKQSLASHGVEFTWEFSDTIHDR-EIRTDNG 105 (148)
T ss_pred HHHHHHHHHhCCcEEEEEECCCccce-EEEecCC
Confidence 46788888888999887777788774 5655555
No 389
>PLN02887 hydrolase family protein
Probab=30.22 E-value=4e+02 Score=23.79 Aligned_cols=30 Identities=7% Similarity=0.091 Sum_probs=24.3
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
++|++.|+.+.+..|.+...+..++++.++
T Consensus 335 ~kl~ekGi~~vIATGR~~~~i~~~l~~L~l 364 (580)
T PLN02887 335 KEALSRGVKVVIATGKARPAVIDILKMVDL 364 (580)
T ss_pred HHHHHCCCeEEEEcCCCHHHHHHHHHHhCc
Confidence 345678999999999998888888887654
No 390
>PF12048 DUF3530: Protein of unknown function (DUF3530); InterPro: IPR022529 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 272 to 336 amino acids in length. These proteins are distantly related to alpa/beta hydrolases so they may act as enzymes.
Probab=30.07 E-value=3e+02 Score=22.24 Aligned_cols=121 Identities=15% Similarity=0.068 Sum_probs=75.4
Q ss_pred EEEEecCCCCccccHHHHHHHhc-----CCcceEEEEeCCC------C------c-C----C-CC--------------C
Q psy6650 17 MVHWFRKGLRMHDNPSLREGLKG-----CTTFRCVFILDPW------F------A-G----S-SN--------------V 59 (156)
Q Consensus 17 ~l~Wfr~DLRl~DN~aL~~A~~~-----~~~vi~vfi~d~~------~------~-~----~-~~--------------~ 59 (156)
.++.+..+=.-.|+|.+..-.+. |=..+.+-.-++. . . . . .. .
T Consensus 89 ~vIilp~~g~~~d~p~~i~~LR~~L~~~GW~Tlsit~P~~~~~~~p~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~ 168 (310)
T PF12048_consen 89 AVIILPDWGEHPDWPGLIAPLRRELPDHGWATLSITLPDPAPPASPNRATEAEEVPSAGDQQLSQPSDEPSPASAQEAEA 168 (310)
T ss_pred EEEEecCCCCCCCcHhHHHHHHHHhhhcCceEEEecCCCcccccCCccCCCCCCCCCCCCCCcCCCCCCCccccccHhHH
Confidence 57777778888899988777653 2223344333311 0 0 0 0 00 0
Q ss_pred CcchHHHHHHHHHHHHHHHHhCCCe--EEEEEcChHHHHHHHHHHcC---cCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 60 GINKWRFLLQCLEDLDINLRKLNSR--LFVIRGQPADILPKLFKEWK---TTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 60 ~~~r~~Fl~~sL~~L~~~L~~~g~~--L~v~~g~~~~~l~~l~~~~~---~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
-.....++...|..+..-+++.|.. .+|-+|.....+.++..+.+ ++.+++=..|.+.... ...+.+.+.+..+
T Consensus 169 ~~~~~~~~~ari~Aa~~~~~~~~~~~ivlIg~G~gA~~~~~~la~~~~~~~daLV~I~a~~p~~~~-n~~l~~~la~l~i 247 (310)
T PF12048_consen 169 REAYEERLFARIEAAIAFAQQQGGKNIVLIGHGTGAGWAARYLAEKPPPMPDALVLINAYWPQPDR-NPALAEQLAQLKI 247 (310)
T ss_pred hHHHHHHHHHHHHHHHHHHHhcCCceEEEEEeChhHHHHHHHHhcCCCcccCeEEEEeCCCCcchh-hhhHHHHhhccCC
Confidence 1133578999999999999999987 55668999888888888765 4466555555444333 3456666665566
Q ss_pred eEEE
Q psy6650 135 EVIA 138 (156)
Q Consensus 135 ~~~~ 138 (156)
++-=
T Consensus 248 PvLD 251 (310)
T PF12048_consen 248 PVLD 251 (310)
T ss_pred CEEE
Confidence 6543
No 391
>cd01020 TroA_b Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. 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=30.05 E-value=2.4e+02 Score=21.96 Aligned_cols=41 Identities=7% Similarity=0.107 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhCCCeEEEEEcC----hHHHHHHHHHHcCcCeEEE
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQ----PADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~----~~~~l~~l~~~~~~~~V~~ 110 (156)
.|.+|.+.+++.+++.++..-. ..+.|..++++.++..+..
T Consensus 194 ~l~~l~~~ik~~~v~~if~e~~~~~k~~~~l~~la~~~~~~v~~l 238 (264)
T cd01020 194 DIAAFQNAIKNRQIDALIVNPQQASSATTNITGLAKRSGVPVVEV 238 (264)
T ss_pred HHHHHHHHHHhCCCCEEEeCCCCCcHHHHHHHHHHHHcCCCEEee
Confidence 3556666666666666655321 2233435566666665554
No 392
>PRK06176 cystathionine gamma-synthase/cystathionine beta-lyase; Validated
Probab=29.98 E-value=2.1e+02 Score=23.70 Aligned_cols=68 Identities=18% Similarity=0.170 Sum_probs=40.0
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHH-HHHHHHHHHHhCCceEEEecC
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKV-RDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~~i~~~~~~~ 141 (156)
-+...++..|+.+........+.+.+.++. +...|+++....|.... -.++|.+.+++.|+.+..-+.
T Consensus 104 ~~~~~~~~~gi~v~~vd~~d~e~l~~ai~~-~t~lV~lesP~Nptg~~~di~~I~~la~~~gi~vivD~t 172 (380)
T PRK06176 104 LFDKVLVKNGLSCTIIDTSDLSQIKKAIKP-NTKALYLETPSNPLLKITDLAQCASVAKDHGLLTIVDNT 172 (380)
T ss_pred HHHHHHHhcCeEEEEcCCCCHHHHHHhcCc-CceEEEEECCCCCCceecCHHHHHHHHHHcCCEEEEECC
Confidence 334446677888777666555566665543 45567765444332221 235677788888886655433
No 393
>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=29.92 E-value=2.3e+02 Score=21.03 Aligned_cols=71 Identities=8% Similarity=0.051 Sum_probs=43.8
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+.+.+++.|..+.+... ++. +.+..+. +.+++.|++.... ... .+.+.+++.|+++..+
T Consensus 12 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~-~~~vdgiii~~~~-~~~-----~~~~~l~~~~ipvV~~ 84 (268)
T cd06298 12 SYFAELARGIDDIATMYKYNIILSNSDNDKEKELKVLNNLL-AKQVDGIIFMGGK-ISE-----EHREEFKRSPTPVVLA 84 (268)
T ss_pred hHHHHHHHHHHHHHHHcCCeEEEEeCCCCHHHHHHHHHHHH-HhcCCEEEEeCCC-CcH-----HHHHHHhcCCCCEEEE
Confidence 35666666777788889999887754 233 2344444 4689998875321 111 2334455568999888
Q ss_pred cCC
Q psy6650 140 VSH 142 (156)
Q Consensus 140 ~~~ 142 (156)
+..
T Consensus 85 ~~~ 87 (268)
T cd06298 85 GSV 87 (268)
T ss_pred ccc
Confidence 643
No 394
>COG5310 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=29.84 E-value=1e+02 Score=25.94 Aligned_cols=44 Identities=20% Similarity=0.166 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
+|..|+|.+|...| |..+..-..+.-+-+.+|+++.++..|.+.
T Consensus 170 wFVKqaLvdlAad~---~ld~~ep~~ddr~gwAkLmkK~GVkgiHia 213 (481)
T COG5310 170 WFVKQALVDLAADL---GLDFEEPAQDDREGWAKLMKKAGVKGIHIA 213 (481)
T ss_pred HHHHHHHHHHHHHh---CcCccCCcchhhHHHHHHHHHcCCceEEEE
Confidence 46666666665543 333333333333445555566555555443
No 395
>cd08189 Fe-ADH5 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contains different protein domain. Proteins of this family have not been characterized. Their specific function is unknown.
Probab=29.65 E-value=2.2e+02 Score=23.50 Aligned_cols=55 Identities=11% Similarity=0.031 Sum_probs=30.1
Q ss_pred EEEc-ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 87 VIRG-QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 87 v~~g-~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
++.| ...+.|.+.+++++...+++-.+.........+++.+.|++.|+.+..|++
T Consensus 7 i~~G~g~l~~l~~~l~~~g~~~~lvvt~~~~~~~g~~~~v~~~L~~~g~~~~~~~~ 62 (374)
T cd08189 7 LFVGSGSLAQLPAAISQLGVKKVLIVTDKGLVKLGLLDKVLEALEGAGIEYAVYDG 62 (374)
T ss_pred EEECcCHHHHHHHHHHhcCCCeEEEEeCcchhhcccHHHHHHHHHhcCCeEEEeCC
Confidence 4445 345667777777776555333222222212234566777777777776653
No 396
>PRK09028 cystathionine beta-lyase; Provisional
Probab=29.50 E-value=2.9e+02 Score=23.20 Aligned_cols=65 Identities=14% Similarity=0.069 Sum_probs=41.1
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchh-HHHHHHHHHHHHhCCceEEEe
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFG-KVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~-~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+...+++.|+.+..+.....+.+.+.+.. +...|+++....|.. ..-.++|.+.+++.|+.+..-
T Consensus 117 ~~~~l~~~Gi~v~~v~~~~~e~l~~~l~~-~TklV~lespsNPtg~v~dl~~I~~la~~~g~~lvvD 182 (394)
T PRK09028 117 CDKILKGFGIETTYYDPMIGEGIRELIRP-NTKVLFLESPGSITMEVQDVPTLSRIAHEHDIVVMLD 182 (394)
T ss_pred HHHhhhhcceEEEEECCCCHHHHHHhcCc-CceEEEEECCCCCCCcHHHHHHHHHHHHHcCCEEEEE
Confidence 34456678888876654445566666543 455677776665643 344477778888888866543
No 397
>cd08182 HEPD Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP). Hydroxyethylphosphoate dehydrogenase (HEPD) catalyzes the reduction of phosphonoacetaldehyde (PnAA) to hydroxyethylphosphoate (HEP) with either NADH or NADPH as a cofactor. NADH is the preferred cofactor. PnAA is a biosynthetic intermediate for several phosphonates such as the antibiotic fosfomycin, phosphinothricin tripeptide (PTT), and 2-aminoethylphosphonate (AEP). This enzyme is named PhpC in PTT biosynthesis pathway in Streptomyces hygroscopicus and S. viridochromogenes. Members of this family are only found in bacteria.
Probab=29.35 E-value=3.2e+02 Score=22.37 Aligned_cols=21 Identities=24% Similarity=0.517 Sum_probs=9.8
Q ss_pred HHHHHHHHHHhCCC-eEEEEEc
Q psy6650 70 CLEDLDINLRKLNS-RLFVIRG 90 (156)
Q Consensus 70 sL~~L~~~L~~~g~-~L~v~~g 90 (156)
++.+|.+.++++|. ...|+.|
T Consensus 10 ~l~~l~~~~~~~g~~~~livtd 31 (367)
T cd08182 10 AIAKLPSLLKGLGGKRVLLVTG 31 (367)
T ss_pred HHHHHHHHHHhcCCCeEEEEeC
Confidence 44455555555552 3444443
No 398
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=29.26 E-value=64 Score=20.66 Aligned_cols=41 Identities=10% Similarity=0.058 Sum_probs=19.7
Q ss_pred HHHHHHHcCcCeEEEcccC-CchhHHHHHHHHHHHHhCCceE
Q psy6650 96 LPKLFKEWKTTCLTFEEDP-EPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 96 l~~l~~~~~~~~V~~~~~~-~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
+.++++.-+++-|+..... +.....-...+++.+.+.||.+
T Consensus 47 i~~~i~~g~id~VIn~~~~~~~~~~~d~~~iRr~A~~~~Ip~ 88 (90)
T smart00851 47 ILDLIKNGEIDLVINTLYPLGAQPHEDGKALRRAAENIDIPG 88 (90)
T ss_pred HHHHhcCCCeEEEEECCCcCcceeccCcHHHHHHHHHcCCCe
Confidence 4445555566666554432 2222222345555555556654
No 399
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=29.22 E-value=2.2e+02 Score=20.41 Aligned_cols=48 Identities=13% Similarity=0.151 Sum_probs=25.5
Q ss_pred HHHHHHHHHHcCcCeEEE--cccC----CchhH---HHHHHHHHHHHhCCceEEEec
Q psy6650 93 ADILPKLFKEWKTTCLTF--EEDP----EPFGK---VRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~--~~~~----~~~~~---~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.+.+.++++.+++..... .... .+... .|-..+.+.+++.|+......
T Consensus 47 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~G 103 (185)
T cd01992 47 AAFVADLCAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTA 103 (185)
T ss_pred HHHHHHHHHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 456778888888876655 1111 11111 222334455566677765443
No 400
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=29.16 E-value=2.8e+02 Score=21.65 Aligned_cols=71 Identities=13% Similarity=0.151 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+.+.+++.|..+.+... ++. +.+.. ....+++.|++....... +..+ +.+.+.|++++.++
T Consensus 74 ~~~~~~~~i~~~~~~~gy~~~i~~~~~~~~~~~~~~~~-l~~~~vdgiIi~~~~~~~----~~~~-~~l~~~~iPvV~~~ 147 (327)
T TIGR02417 74 SYARIAKELEQQCREAGYQLLIACSDDNPDQEKVVIEN-LLARQVDALIVASCMPPE----DAYY-QKLQNEGLPVVALD 147 (327)
T ss_pred cHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEeCCCCCC----hHHH-HHHHhcCCCEEEEc
Confidence 5566677888889999999988754 232 23333 345689988765322111 1222 33455689998876
Q ss_pred CC
Q psy6650 141 SH 142 (156)
Q Consensus 141 ~~ 142 (156)
..
T Consensus 148 ~~ 149 (327)
T TIGR02417 148 RS 149 (327)
T ss_pred cc
Confidence 43
No 401
>PRK08005 epimerase; Validated
Probab=29.14 E-value=1.8e+02 Score=22.24 Aligned_cols=78 Identities=12% Similarity=0.066 Sum_probs=45.1
Q ss_pred CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH
Q psy6650 40 CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK 119 (156)
Q Consensus 40 ~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~ 119 (156)
+-..+-+=|.|-.+.-.- .|=.+-++.+++. -..-...++..-+|...++.+++ .+++.|.++.+.+.+..
T Consensus 26 g~d~lHiDvMDG~FVPN~-------tfG~~~i~~l~~~-t~~~~DvHLMv~~P~~~i~~~~~-~gad~It~H~Ea~~~~~ 96 (210)
T PRK08005 26 PLGSLHLDIEDTSFINNI-------TFGMKTIQAVAQQ-TRHPLSFHLMVSSPQRWLPWLAA-IRPGWIFIHAESVQNPS 96 (210)
T ss_pred CCCEEEEeccCCCcCCcc-------ccCHHHHHHHHhc-CCCCeEEEeccCCHHHHHHHHHH-hCCCEEEEcccCccCHH
Confidence 444556666665443211 2322334444432 23345667778889988887776 48999999888665544
Q ss_pred HHHHHHH
Q psy6650 120 VRDQNIM 126 (156)
Q Consensus 120 ~~d~~v~ 126 (156)
+..+.++
T Consensus 97 ~~l~~Ik 103 (210)
T PRK08005 97 EILADIR 103 (210)
T ss_pred HHHHHHH
Confidence 4334343
No 402
>TIGR00715 precor6x_red precorrin-6x reductase. This enzyme was found to be a monomer by gel filtration.
Probab=29.13 E-value=2.9e+02 Score=21.77 Aligned_cols=64 Identities=19% Similarity=0.260 Sum_probs=39.9
Q ss_pred HHHhCCCe---EEEEEcChHHHH-HHHHHHcCcCeEEEcccCCc-hhHHHHHHHHHHHHhCCceEEEecCCee
Q psy6650 77 NLRKLNSR---LFVIRGQPADIL-PKLFKEWKTTCLTFEEDPEP-FGKVRDQNIMTLCRELNIEVIARVSHTL 144 (156)
Q Consensus 77 ~L~~~g~~---L~v~~g~~~~~l-~~l~~~~~~~~V~~~~~~~~-~~~~~d~~v~~~l~~~~i~~~~~~~~~L 144 (156)
.+.++|.+ ++..+|.-...+ ..|+++++|+.|++-+.-+. -.. .++ +++.+.||++....=-.+
T Consensus 166 ~~~~~G~~~~~iia~~gPfs~e~n~al~~~~~i~~lVtK~SG~~Gg~~---eKi-~AA~~lgi~vivI~RP~~ 234 (256)
T TIGR00715 166 QALKLGFPSDRIIAMRGPFSEELEKALLREYRIDAVVTKASGEQGGEL---EKV-KAAEALGINVIRIARPQT 234 (256)
T ss_pred HHHHcCCChhcEEEEeCCCCHHHHHHHHHHcCCCEEEEcCCCCccchH---HHH-HHHHHcCCcEEEEeCCCC
Confidence 34455665 777777554443 46999999999988776442 111 233 344557999987764443
No 403
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=29.08 E-value=2.8e+02 Score=21.71 Aligned_cols=73 Identities=11% Similarity=0.162 Sum_probs=43.3
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
++.|| .|.+.|++.|....++.-+....+.+.+++.+...+.......+. +-..++.+.+++.+..+...+..
T Consensus 17 v~Rcl-~LA~~l~~~g~~v~f~~~~~~~~~~~~i~~~g~~v~~~~~~~~~~--~d~~~~~~~l~~~~~d~vV~D~y 89 (279)
T TIGR03590 17 VMRCL-TLARALHAQGAEVAFACKPLPGDLIDLLLSAGFPVYELPDESSRY--DDALELINLLEEEKFDILIVDHY 89 (279)
T ss_pred HHHHH-HHHHHHHHCCCEEEEEeCCCCHHHHHHHHHcCCeEEEecCCCchh--hhHHHHHHHHHhcCCCEEEEcCC
Confidence 44554 467788888988777765555555667788888765555443221 11233556666555556655554
No 404
>cd06293 PBP1_LacI_like_11 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=29.02 E-value=2.5e+02 Score=21.03 Aligned_cols=71 Identities=8% Similarity=0.057 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH--HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA--DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~--~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
.|+.+-+..+.+.+++.|..+.+...+ +. ..+.+.+.+.+++.|+........ ..+.+.. +.+++++.++
T Consensus 12 ~~~~~~~~gi~~~~~~~gy~v~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~~~~~-----~~~~~~~-~~~~pvV~i~ 85 (269)
T cd06293 12 PFFAELADAVEEEADARGLSLVLCATRNRPERELTYLRWLDTNHVDGLIFVTNRPDD-----GALAKLI-NSYGNIVLVD 85 (269)
T ss_pred CcHHHHHHHHHHHHHHCCCEEEEEeCCCCHHHHHHHHHHHHHCCCCEEEEeCCCCCH-----HHHHHHH-hcCCCEEEEC
Confidence 366777888888899999998887542 32 233344556789998875422111 1233332 3578888886
Q ss_pred C
Q psy6650 141 S 141 (156)
Q Consensus 141 ~ 141 (156)
.
T Consensus 86 ~ 86 (269)
T cd06293 86 E 86 (269)
T ss_pred C
Confidence 4
No 405
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=29.01 E-value=1.2e+02 Score=23.80 Aligned_cols=70 Identities=21% Similarity=0.207 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc--CcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW--KTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~--~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
..+..+++..++.|+.+....-+..+.+.+..+.. +.+.+|.-.+.. -......+...+.+.++++..++
T Consensus 147 ~~~~~~~~~a~~~g~~l~~~~v~~~~~~~~~~~~l~~~~da~~~~~~~~--~~~~~~~i~~~~~~~~iPv~~~~ 218 (294)
T PF04392_consen 147 AQIEQLRKAAKKLGIELVEIPVPSSEDLEQALEALAEKVDALYLLPDNL--VDSNFEAILQLANEAKIPVFGSS 218 (294)
T ss_dssp HHHHHHHHHHHHTT-EEEEEEESSGGGHHHHHHHHCTT-SEEEE-S-HH--HHHTHHHHHHHCCCTT--EEESS
T ss_pred HHHHHHHHHHHHcCCEEEEEecCcHhHHHHHHHHhhccCCEEEEECCcc--hHhHHHHHHHHHHhcCCCEEECC
Confidence 34555666666778887765533333334444432 456676654322 12222235555555677776654
No 406
>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]
Probab=28.98 E-value=3.4e+02 Score=22.59 Aligned_cols=72 Identities=14% Similarity=0.198 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcCh-----HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQP-----ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~-----~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
-++..|...|.+.|-...+..||+ .+.|..+.++.++..|-....-.|....-| .+++ .+++|+.+...++.
T Consensus 154 TTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafD-Ai~~-Akar~~DvvliDTA 230 (340)
T COG0552 154 TTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFD-AIQA-AKARGIDVVLIDTA 230 (340)
T ss_pred hHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHH-HHHH-HHHcCCCEEEEeCc
Confidence 466777777777787777777764 356667777777766654433334333332 2333 34456666665543
No 407
>PRK05968 hypothetical protein; Provisional
Probab=28.76 E-value=3.4e+02 Score=22.47 Aligned_cols=66 Identities=11% Similarity=0.159 Sum_probs=42.0
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCCceEEEecC
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+...++..|+...+..+...+.+.+.+. +...|+++...++. .....+++.+.+++.|+.+..-+.
T Consensus 119 ~~~~~~~~G~~v~~vd~~d~~~l~~~i~--~tklV~ie~pt~~~~~~~dl~~i~~la~~~gi~vivD~a 185 (389)
T PRK05968 119 FETILKRMGVEVDYVDGRDEEAVAKALP--GAKLLYLESPTSWVFELQDVAALAALAKRHGVVTMIDNS 185 (389)
T ss_pred HHHHHHHcCceEEEeCCCCHHHHHHhcc--cCCEEEEECCCCCCCcHHHHHHHHHHHHHcCCEEEEECC
Confidence 3345667799888877765566666553 34556766554443 335556788888888887765443
No 408
>PLN02575 haloacid dehalogenase-like hydrolase
Probab=28.69 E-value=3.6e+02 Score=22.73 Aligned_cols=46 Identities=11% Similarity=0.120 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc----CeEEEcccC
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT----TCLTFEEDP 114 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~----~~V~~~~~~ 114 (156)
.++.++=+.|++.|+++.|..+.+.+.+..+.+..++ +.|+...+.
T Consensus 219 pGa~ElL~~Lk~~GiklaIaSn~~~~~~~~~L~~lgL~~yFd~Iv~sddv 268 (381)
T PLN02575 219 TGSQEFVNVLMNYKIPMALVSTRPRKTLENAIGSIGIRGFFSVIVAAEDV 268 (381)
T ss_pred cCHHHHHHHHHHCCCeEEEEeCCCHHHHHHHHHHcCCHHHceEEEecCcC
Confidence 4667788888999999999999998888888888765 456666654
No 409
>PLN02746 hydroxymethylglutaryl-CoA lyase
Probab=28.58 E-value=3.4e+02 Score=22.50 Aligned_cols=111 Identities=10% Similarity=0.025 Sum_probs=59.9
Q ss_pred HHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEE--EE--E-----cC-hHHHHHHHH
Q psy6650 31 PSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLF--VI--R-----GQ-PADILPKLF 100 (156)
Q Consensus 31 ~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~--v~--~-----g~-~~~~l~~l~ 100 (156)
..+..|.+.+-..+.+|+--.+.....+.+.- .....+.+.+.-+..++.|..+. +- . |. +.+.+.+++
T Consensus 125 ~die~A~~~g~~~v~i~~s~Sd~h~~~n~~~t-~~e~l~~~~~~v~~Ak~~Gl~v~~~is~~fg~p~~~r~~~~~l~~~~ 203 (347)
T PLN02746 125 KGFEAAIAAGAKEVAVFASASESFSKSNINCS-IEESLVRYREVALAAKKHSIPVRGYVSCVVGCPIEGPVPPSKVAYVA 203 (347)
T ss_pred HHHHHHHHcCcCEEEEEEecCHHHHHHHhCCC-HHHHHHHHHHHHHHHHHcCCeEEEEEEeeecCCccCCCCHHHHHHHH
Confidence 34566666555555666532222111122222 34556666677777778887764 21 1 22 234444444
Q ss_pred H---HcCcCeEEEcccCCchhHHHHHHHHHHHHhC----CceEEEecCC
Q psy6650 101 K---EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL----NIEVIARVSH 142 (156)
Q Consensus 101 ~---~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~----~i~~~~~~~~ 142 (156)
+ +.|++.|+..+..+.-...+..++-+.+.+. .+.+|.+++.
T Consensus 204 ~~~~~~Gad~I~l~DT~G~a~P~~v~~lv~~l~~~~~~~~i~~H~Hnd~ 252 (347)
T PLN02746 204 KELYDMGCYEISLGDTIGVGTPGTVVPMLEAVMAVVPVDKLAVHFHDTY 252 (347)
T ss_pred HHHHHcCCCEEEecCCcCCcCHHHHHHHHHHHHHhCCCCeEEEEECCCC
Confidence 4 4699999988887765555554454544332 2556666654
No 410
>COG1775 HgdB Benzoyl-CoA reductase/2-hydroxyglutaryl-CoA dehydratase subunit, BcrC/BadD/HgdB [Amino acid transport and metabolism]
Probab=28.55 E-value=1e+02 Score=25.91 Aligned_cols=75 Identities=16% Similarity=0.202 Sum_probs=45.5
Q ss_pred HHHHHHhCCCeEEEEEcC-hHHHHHHHHHHcCcCeE--EEcccCCchhHHHHHHHHHHHHhCCceEEEecCC-eeecCCC
Q psy6650 74 LDINLRKLNSRLFVIRGQ-PADILPKLFKEWKTTCL--TFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH-TLYDLDQ 149 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~-~~~~l~~l~~~~~~~~V--~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~-~L~~~~~ 149 (156)
+.++.-+..-.++--.-+ -.+.+.+++++++++-| |.++...|++..+- .+++.+++.+|++...++. .-++.++
T Consensus 288 lAd~Y~~~~~~~~~pn~e~r~k~i~~mvkE~~vDGvv~~~l~fC~p~~~e~~-~lk~~~kE~~iPvi~~e~D~~~~d~eQ 366 (379)
T COG1775 288 LADQYFKIPCACYSPNDEFRVKYISRMVKEYNVDGVVLYTLRFCKPYSVEYP-ELKRRLKEEGIPVIAIEGDYSNFDVEQ 366 (379)
T ss_pred HHHHHhccccccCCccHHHHHHHHHHHHHHcCCCeEeehhhhccCccccccH-HHHHHHHhcCCcEEEeccccccccHHH
Confidence 555555443222222222 45778899999999976 44556666655543 3666777788999988655 3333333
No 411
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=28.54 E-value=2.2e+02 Score=23.93 Aligned_cols=76 Identities=8% Similarity=0.226 Sum_probs=39.6
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEcCh------HHHHHHHHHHcCcCeEEEcc-cCCchhHHHHHHHHHHHHhCCceEE-Ee
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRGQP------ADILPKLFKEWKTTCLTFEE-DPEPFGKVRDQNIMTLCRELNIEVI-AR 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g~~------~~~l~~l~~~~~~~~V~~~~-~~~~~~~~~d~~v~~~l~~~~i~~~-~~ 139 (156)
.++.+|.+.++++| ....|+.|.. .+.+.+..++.+++..+++. ...|..... .++.+.+++.++.+. .+
T Consensus 9 g~~~~l~~~l~~~g~~~vlivt~~~~~~~g~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v-~~~~~~~~~~~~D~IIai 87 (414)
T cd08190 9 GVTAEVGMDLKNLGARRVCLVTDPNLAQLPPVKVVLDSLEAAGINFEVYDDVRVEPTDESF-KDAIAFAKKGQFDAFVAV 87 (414)
T ss_pred CHHHHHHHHHHHcCCCeEEEEECcchhhcchHHHHHHHHHHcCCcEEEeCCCCCCcCHHHH-HHHHHHHHhcCCCEEEEe
Confidence 46777777888887 4555665542 23344445556777666543 333433333 334445555554433 34
Q ss_pred cCCeee
Q psy6650 140 VSHTLY 145 (156)
Q Consensus 140 ~~~~L~ 145 (156)
.+-+.+
T Consensus 88 GGGSvi 93 (414)
T cd08190 88 GGGSVI 93 (414)
T ss_pred CCccHH
Confidence 444444
No 412
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=28.53 E-value=89 Score=19.70 Aligned_cols=34 Identities=12% Similarity=0.002 Sum_probs=24.6
Q ss_pred hCCCeEEEEEcChHHHHHHHHHHcCcCeEEEccc
Q psy6650 80 KLNSRLFVIRGQPADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 80 ~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~ 113 (156)
.+|++.++..++.+..+..|.++--++.|+.+..
T Consensus 2 ~~gi~~i~AP~eAeAq~A~L~~~g~vdav~s~D~ 35 (73)
T smart00484 2 LMGIPYIVAPYEAEAQCAYLAKSGLVDAIITEDS 35 (73)
T ss_pred cCCCeEEEcCCcHHHHHHHHHhCCCeeEEEcCcc
Confidence 3688888888888888877777655666666543
No 413
>PRK08133 O-succinylhomoserine sulfhydrylase; Validated
Probab=28.51 E-value=2.6e+02 Score=23.14 Aligned_cols=66 Identities=6% Similarity=0.093 Sum_probs=39.0
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH-HHHHHHHHHHHhCCceEEEec
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK-VRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+...++..|+.+..+..+..+.+.+.+.. +...|+++....|... .-.++|.+.+++.|+.+..-+
T Consensus 117 ~~~~~~~~G~~v~~vd~~d~~~l~~~i~~-~tklV~ie~p~NptG~v~dl~~I~~la~~~gi~livD~ 183 (390)
T PRK08133 117 FEKIFARFGIETTFVDLTDLDAWRAAVRP-NTKLFFLETPSNPLTELADIAALAEIAHAAGALLVVDN 183 (390)
T ss_pred HHHHHHHcCcEEEEECCCCHHHHHHhcCc-CCeEEEEECCCCCCCCcCCHHHHHHHHHHcCCEEEEEC
Confidence 33445667888877765555666666543 3455665443333222 123677778888888776544
No 414
>PRK12686 carbamate kinase; Reviewed
Probab=28.44 E-value=2.9e+02 Score=22.63 Aligned_cols=73 Identities=14% Similarity=0.107 Sum_probs=45.3
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEE---------EcccCCchhHHHHHHHHHHHHhCC--ceEEEecCCeeec
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLT---------FEEDPEPFGKVRDQNIMTLCRELN--IEVIARVSHTLYD 146 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~---------~~~~~~~~~~~~d~~v~~~l~~~~--i~~~~~~~~~L~~ 146 (156)
|.+.|..++|.+|+-.++=.-+.++..+...+ ....-+....-..+++++.|.+++ ..+.++-++++++
T Consensus 38 l~~~g~~~vi~HGnGPQVg~~~~~~~~~~~~~~~~~pl~~~~a~sqg~iGy~~~q~l~~~l~~r~~~~~v~~vvtqv~Vd 117 (312)
T PRK12686 38 LIEAGHDIVITHGNGPQVGNLLLQQAESNSNKVPAMPLDTCVAMSQGMIGYWLQNALNNELTERGIDKPVITLVTQVEVD 117 (312)
T ss_pred HHHCCCEEEEEeCCcHHHHHHHHHHHhccccCCCCCChhhhhhhccchhhHHHHHHHHHHHHhcCCCCCceEEEEEEEEC
Confidence 44669999999999876542333333333331 111223445556677888887654 4567777888998
Q ss_pred CCCC
Q psy6650 147 LDQL 150 (156)
Q Consensus 147 ~~~l 150 (156)
+++-
T Consensus 118 ~~d~ 121 (312)
T PRK12686 118 KDDP 121 (312)
T ss_pred CCCh
Confidence 8765
No 415
>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=28.06 E-value=2.2e+02 Score=20.71 Aligned_cols=29 Identities=17% Similarity=0.373 Sum_probs=22.8
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWK 104 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~ 104 (156)
++|.+.|+.+.+..|.+...+..+++..+
T Consensus 27 ~~l~~~g~~~~i~TGR~~~~~~~~~~~~~ 55 (204)
T TIGR01484 27 ERLREAGVKVVLVTGRSLAEIKELLKQLP 55 (204)
T ss_pred HHHHHCCCEEEEECCCCHHHHHHHHHhCC
Confidence 34556789999999999988888887643
No 416
>PRK10824 glutaredoxin-4; Provisional
Probab=27.98 E-value=1.8e+02 Score=19.99 Aligned_cols=17 Identities=0% Similarity=-0.173 Sum_probs=8.3
Q ss_pred HHHHHHHHHcCcCeEEE
Q psy6650 94 DILPKLFKEWKTTCLTF 110 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~ 110 (156)
....++.++.++.--++
T Consensus 34 ~~ak~lL~~~~i~~~~i 50 (115)
T PRK10824 34 AQAVQALSACGERFAYV 50 (115)
T ss_pred HHHHHHHHHcCCCceEE
Confidence 34445555555543333
No 417
>PF05872 DUF853: Bacterial protein of unknown function (DUF853); InterPro: IPR008571 Members of this family have a P-loop containing nucleotide triphosphate hydrolases fold. This family is restricted to bacterial proteins, none of which have currently been characterised.
Probab=27.80 E-value=94 Score=27.10 Aligned_cols=73 Identities=16% Similarity=0.176 Sum_probs=43.7
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChH----HHHHHHHHHcCcCeEEEcccCCchhHH
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPA----DILPKLFKEWKTTCLTFEEDPEPFGKV 120 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~----~~l~~l~~~~~~~~V~~~~~~~~~~~~ 120 (156)
-||+||...+-... .- .-+++.+...-+-.+..|+.++++.-+|. ++|.+|-++ |. ..=+.|+|.++.
T Consensus 257 lVfFfDEAHLLF~d---a~-kall~~ieqvvrLIRSKGVGv~fvTQ~P~DiP~~VL~QLGnr--IQ--HaLRAfTP~DqK 328 (502)
T PF05872_consen 257 LVFFFDEAHLLFND---AP-KALLDKIEQVVRLIRSKGVGVYFVTQNPTDIPDDVLGQLGNR--IQ--HALRAFTPKDQK 328 (502)
T ss_pred EEEEEechhhhhcC---CC-HHHHHHHHHHHHHhhccCceEEEEeCCCCCCCHHHHHhhhhH--HH--HHHhcCCHhHHH
Confidence 47778875432211 22 24557888888899999999999976654 456665554 21 222345555554
Q ss_pred HHHHH
Q psy6650 121 RDQNI 125 (156)
Q Consensus 121 ~d~~v 125 (156)
-.+..
T Consensus 329 avk~a 333 (502)
T PF05872_consen 329 AVKAA 333 (502)
T ss_pred HHHHH
Confidence 44433
No 418
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=27.77 E-value=2.3e+02 Score=23.47 Aligned_cols=76 Identities=5% Similarity=0.119 Sum_probs=40.7
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEcCh------HHHHHHHHHHcCcCeEEEc-ccCCchhHHHHHHHHHHHHhCCceEEE-e
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRGQP------ADILPKLFKEWKTTCLTFE-EDPEPFGKVRDQNIMTLCRELNIEVIA-R 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g~~------~~~l~~l~~~~~~~~V~~~-~~~~~~~~~~d~~v~~~l~~~~i~~~~-~ 139 (156)
.++.+|.+.++++| ....|+.|.. .+.+...+++.+++..+++ -...|.... ..+..+.+++.++.+.. +
T Consensus 16 g~l~~l~~~~~~~g~~~~lvvtd~~~~~~g~~~~v~~~L~~~g~~~~~~~~v~~~p~~~~-v~~~~~~~~~~~~D~IIai 94 (382)
T PRK10624 16 GAIGALTDEVKRRGFKKALIVTDKTLVKCGVVAKVTDVLDAAGLAYEIYDGVKPNPTIEV-VKEGVEVFKASGADYLIAI 94 (382)
T ss_pred CHHHHHHHHHHhcCCCEEEEEeCcchhhCcchHHHHHHHHHCCCeEEEeCCCCCCcCHHH-HHHHHHHHHhcCCCEEEEe
Confidence 46778888888887 4666665542 2334555666677655554 333333322 23334455555665544 4
Q ss_pred cCCeee
Q psy6650 140 VSHTLY 145 (156)
Q Consensus 140 ~~~~L~ 145 (156)
.+-+.+
T Consensus 95 GGGS~i 100 (382)
T PRK10624 95 GGGSPQ 100 (382)
T ss_pred CChHHH
Confidence 443433
No 419
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=27.72 E-value=2e+02 Score=22.00 Aligned_cols=85 Identities=12% Similarity=0.086 Sum_probs=46.8
Q ss_pred CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH
Q psy6650 40 CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK 119 (156)
Q Consensus 40 ~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~ 119 (156)
+-..+-+=|.|-.+.-.-..| .+-++++++..-..-...++..-+|...++.+++ .|++.|.++.+....-.
T Consensus 25 g~~~lH~DvmDG~Fvpn~tfg-------~~~i~~i~~~~~~~~~dvHLMv~~p~~~i~~~~~-~gad~i~~H~Ea~~~~~ 96 (220)
T PRK08883 25 GADVVHFDVMDNHYVPNLTFG-------APICKALRDYGITAPIDVHLMVKPVDRIIPDFAK-AGASMITFHVEASEHVD 96 (220)
T ss_pred CCCEEEEecccCcccCccccC-------HHHHHHHHHhCCCCCEEEEeccCCHHHHHHHHHH-hCCCEEEEcccCcccHH
Confidence 344555666665443211223 2344445432112335566677889888887776 48999998888655433
Q ss_pred HHHHHHHHHHHhCCceE
Q psy6650 120 VRDQNIMTLCRELNIEV 136 (156)
Q Consensus 120 ~~d~~v~~~l~~~~i~~ 136 (156)
+.. +.+++.|++.
T Consensus 97 ~~l----~~ik~~g~k~ 109 (220)
T PRK08883 97 RTL----QLIKEHGCQA 109 (220)
T ss_pred HHH----HHHHHcCCcE
Confidence 333 3444456544
No 420
>cd07050 BMC_EutL_repeat2 ethanolamine utilization protein S (EutS), Bacterial Micro-Compartment (BMC) domain repeat 2. EutL proteins are homologs of the carboxysome shell protein. They are encoded within the eut operon and might be required for the formation of the outer shell of the bacterial eut polyhedral organelles which are involved in the cobalamin-dependent degradation of ethanolamine. Although it has been suggested that EutL might form hexamers and further assemble into the flat facets of the polyhedral outer shell of eut organelles at present no experimental evidence directly supports this view. EutL proteins contain two tandem BMC domains. This CD includes domain 2 (the second BMC domain of EutL).
Probab=27.71 E-value=90 Score=20.44 Aligned_cols=27 Identities=22% Similarity=0.369 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHH
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPAD 94 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~ 94 (156)
+|++-.|+..|+...+.+.++.|.|.+
T Consensus 26 lEa~y~lDaALKAAdV~~~~~~~PPSe 52 (87)
T cd07050 26 LEAMYGLDAALKAADVELATFFPPPSE 52 (87)
T ss_pred HHHHHHHHHHHHhhceeeEeeeCCCcc
Confidence 478889999999999999999998875
No 421
>cd08567 GDPD_SpGDE_like Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) and similar proteins. The prototype of this CD is a putative GP-GDE from Silicibacter pomeroyi (SpGDE). It shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=27.70 E-value=1.9e+02 Score=22.12 Aligned_cols=12 Identities=8% Similarity=0.036 Sum_probs=4.7
Q ss_pred HHHHhCCCeEEE
Q psy6650 76 INLRKLNSRLFV 87 (156)
Q Consensus 76 ~~L~~~g~~L~v 87 (156)
+.++++|+.+.+
T Consensus 225 ~~~~~~G~~v~v 236 (263)
T cd08567 225 DEAHALGLKVVP 236 (263)
T ss_pred HHHHHCCCEEEE
Confidence 333344444433
No 422
>PF13466 STAS_2: STAS domain
Probab=27.69 E-value=1.5e+02 Score=18.07 Aligned_cols=38 Identities=18% Similarity=0.048 Sum_probs=26.2
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
--.+.|..+.+.+++.|..+.+.. .+ ..+.++++..++
T Consensus 42 agl~lL~~~~~~~~~~g~~~~l~~-~~-~~~~~ll~~~gl 79 (80)
T PF13466_consen 42 AGLQLLLAAARRARARGRQLRLTG-PS-PALRRLLELLGL 79 (80)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEEc-CC-HHHHHHHHHhCc
Confidence 345777888888888999998755 22 346667766554
No 423
>PTZ00222 60S ribosomal protein L7a; Provisional
Probab=27.58 E-value=1.4e+02 Score=23.81 Aligned_cols=47 Identities=19% Similarity=0.388 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hHHH---HHHHHHHcCcCeEEEc
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PADI---LPKLFKEWKTTCLTFE 111 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~~~---l~~l~~~~~~~~V~~~ 111 (156)
-++..++...-..+++.-..|+|+.+| |.+. |+.+|++++|--+++.
T Consensus 131 ~~LvsG~n~VtkaIekkKAkLVIIA~DVsPie~vk~LpaLCrk~~VPY~iVk 182 (263)
T PTZ00222 131 LAVVTGLQEVTRAIEKKQARMVVIANNVDPVELVLWMPNLCRANKIPYAIVK 182 (263)
T ss_pred CeeccCHHHHHHHHHcCCceEEEEeCCCCHHHHHHHHHHHHHhcCCCEEEEC
Confidence 477788888888888888889998766 3332 7899999887665543
No 424
>cd08194 Fe-ADH6 Iron-containing alcohol dehydrogenases-like. Iron-containing alcohol dehydrogenase-like. Proteins of this family have not been characterized. Their specific function is unknown. The protein structure represents a dehydroquinate synthase-like fold and belongs to the alcohol dehydrogenase-like superfamily. They are distinct from other alcohol dehydrogenases which contain different protein domains. Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. Its activity requires iron ions.
Probab=27.57 E-value=2.7e+02 Score=22.91 Aligned_cols=75 Identities=17% Similarity=0.222 Sum_probs=37.5
Q ss_pred HHHHHHHHHHHhCC-CeEEEEEcCh------HHHHHHHHHHcCcCeEEEcc-cCCchhHHHHHHHHHHHHhCCceEEE-e
Q psy6650 69 QCLEDLDINLRKLN-SRLFVIRGQP------ADILPKLFKEWKTTCLTFEE-DPEPFGKVRDQNIMTLCRELNIEVIA-R 139 (156)
Q Consensus 69 ~sL~~L~~~L~~~g-~~L~v~~g~~------~~~l~~l~~~~~~~~V~~~~-~~~~~~~~~d~~v~~~l~~~~i~~~~-~ 139 (156)
.++.++.+.+++.| .+..|+.|.. .+.+.+..++.+++..+++. ...|..... .++.+.+++.++.+.. +
T Consensus 9 g~~~~l~~~~~~~~~~r~livt~~~~~~~g~~~~v~~~L~~~gi~~~~~~~v~~~p~~~~v-~~~~~~~~~~~~D~IIai 87 (375)
T cd08194 9 GAVDETGAVLADLGGKRPLIVTDKVMVKLGLVDKLTDSLKKEGIESAIFDDVVSEPTDESV-EEGVKLAKEGGCDVIIAL 87 (375)
T ss_pred CHHHHHHHHHHHcCCCeEEEEcCcchhhcchHHHHHHHHHHCCCeEEEECCCCCCcCHHHH-HHHHHHHHhcCCCEEEEe
Confidence 45677777777665 3455555432 23344555556776555543 233333333 3344455545554443 4
Q ss_pred cCCee
Q psy6650 140 VSHTL 144 (156)
Q Consensus 140 ~~~~L 144 (156)
.+-+.
T Consensus 88 GGGS~ 92 (375)
T cd08194 88 GGGSP 92 (375)
T ss_pred CCchH
Confidence 44333
No 425
>cd01137 PsaA Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism. A typical TroA protein is comprised of two globular subdomains connected by a single helix and can bind the metal ion in the cleft between these domains. In addition, these proteins sometimes have a low complexity region containing a metal-binding histidine-rich motif (repetitive HDH sequence).
Probab=27.45 E-value=3.1e+02 Score=21.68 Aligned_cols=13 Identities=23% Similarity=0.097 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHH
Q psy6650 67 LLQCLEDLDINLR 79 (156)
Q Consensus 67 l~~sL~~L~~~L~ 79 (156)
+.+.|.+|+++++
T Consensus 155 ~~~~L~~l~~~~~ 167 (287)
T cd01137 155 YKAKLKALDEWAK 167 (287)
T ss_pred HHHHHHHHHHHHH
Confidence 4455666666444
No 426
>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1). The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.
Probab=27.42 E-value=1.4e+02 Score=18.09 Aligned_cols=40 Identities=23% Similarity=0.281 Sum_probs=19.4
Q ss_pred cceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEE
Q psy6650 42 TFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVI 88 (156)
Q Consensus 42 ~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~ 88 (156)
+-..+|++|+. +.+.++...+.-|+++++.+=. +.|++++
T Consensus 14 ~~~ilfi~D~S--e~CGysie~Q~~L~~~ik~~F~-----~~P~i~V 53 (58)
T PF06858_consen 14 ADAILFIIDPS--EQCGYSIEEQLSLFKEIKPLFP-----NKPVIVV 53 (58)
T ss_dssp -SEEEEEE-TT---TTSS-HHHHHHHHHHHHHHTT-----TS-EEEE
T ss_pred cceEEEEEcCC--CCCCCCHHHHHHHHHHHHHHcC-----CCCEEEE
Confidence 44579999984 3334555555455555544311 5566554
No 427
>cd03420 SirA_RHOD_Pry_redox SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that corresponds to COG2210. This fold is referred to as a two-layered alpha/beta sandwich, structurally similar to that of translation initiation factor 3.
Probab=27.31 E-value=1.5e+02 Score=18.02 Aligned_cols=43 Identities=23% Similarity=0.258 Sum_probs=29.4
Q ss_pred HHHHHHHHHhC--CCeEEEEEcCh--HHHHHHHHHHcCcCeEEEccc
Q psy6650 71 LEDLDINLRKL--NSRLFVIRGQP--ADILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 71 L~~L~~~L~~~--g~~L~v~~g~~--~~~l~~l~~~~~~~~V~~~~~ 113 (156)
+-.+++.|+++ |..|.|+..++ .+-++.+|++.|-+-+..+..
T Consensus 13 vl~~kkal~~l~~G~~l~V~~d~~~a~~di~~~~~~~G~~~~~~~~~ 59 (69)
T cd03420 13 ILKLKKEIDKLQDGEQLEVKASDPGFARDAQAWCKSTGNTLISLETE 59 (69)
T ss_pred HHHHHHHHHcCCCCCEEEEEECCccHHHHHHHHHHHcCCEEEEEEec
Confidence 34566667665 56688887655 357889999888877755543
No 428
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=27.29 E-value=2.9e+02 Score=21.30 Aligned_cols=72 Identities=15% Similarity=0.236 Sum_probs=44.4
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEc----ChHH---HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRG----QPAD---ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g----~~~~---~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
.|+.+-+..+++.+++.|..+++... +... .+.. +...+++.|++... ... .....+.. +. .|++++
T Consensus 12 ~f~~~~~~gi~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~-l~~~~vDgiIi~~~-~~~--~~~~~l~~-~~-~~iPvV 85 (295)
T TIGR02955 12 SYWLSINYGMVEQAKHLGVELKVLEAGGYPNLDKQLAQIEQ-CKSWGADAILLGTV-SPE--ALNHDLAQ-LT-KSIPVF 85 (295)
T ss_pred HHHHHHHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHH-HHHcCCCEEEEecC-Chh--hhhHHHHH-Hh-cCCCEE
Confidence 47778888888999999999998754 2222 3333 33568999987532 111 11223333 33 489988
Q ss_pred EecCC
Q psy6650 138 ARVSH 142 (156)
Q Consensus 138 ~~~~~ 142 (156)
.+++.
T Consensus 86 ~~~~~ 90 (295)
T TIGR02955 86 ALVNQ 90 (295)
T ss_pred EEecC
Confidence 87544
No 429
>cd03028 GRX_PICOT_like Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain followed by one to three GRX-like domains. It is interesting to note that PICOT from plants contain three repeats of the GRX-like domain, metazoan proteins (except for insect) have two repeats, while fungal sequences contain only one copy of the domain. PICOT is a protein that interacts with protein kinase C (PKC) theta, a calcium independent PKC isoform selectively expressed in skeletal muscle and T lymphocytes. PICOT inhibits the activation of c-Jun N-terminal kinase and the transcription factors, AP-1 and NF-kB, induced by PKC theta or T-cell activating stimuli. Both GRX and TRX domains of PICOT are required for its activity. Characterized non-PICOT members of this family include CXIP1, a CAX-interacting protein
Probab=27.27 E-value=1.2e+02 Score=19.35 Aligned_cols=53 Identities=6% Similarity=-0.075 Sum_probs=25.7
Q ss_pred hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCCeeecC
Q psy6650 92 PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSHTLYDL 147 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~ 147 (156)
......++.++.++.--..+-.-.+. ..+.+.+.-....++...+++..+-.-
T Consensus 25 ~C~~ak~~L~~~~i~y~~idv~~~~~---~~~~l~~~~g~~tvP~vfi~g~~iGG~ 77 (90)
T cd03028 25 FSRKVVQILNQLGVDFGTFDILEDEE---VRQGLKEYSNWPTFPQLYVNGELVGGC 77 (90)
T ss_pred HHHHHHHHHHHcCCCeEEEEcCCCHH---HHHHHHHHhCCCCCCEEEECCEEEeCH
Confidence 34566677788777644444322211 112222222223467776666655443
No 430
>TIGR01686 FkbH FkbH-like domain. The C-terminal portion of this domain is unique to this family (by BLAST).
Probab=27.27 E-value=2.3e+02 Score=22.79 Aligned_cols=36 Identities=22% Similarity=0.204 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHH
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKE 102 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~ 102 (156)
.+..+.++=+.|++.|+.+.|...++.+....+.+.
T Consensus 32 ~~~~~~e~L~~L~~~Gi~lai~S~n~~~~a~~~l~~ 67 (320)
T TIGR01686 32 LHKTLQEKIKTLKKQGFLLALASKNDEDDAKKVFER 67 (320)
T ss_pred cHHHHHHHHHHHHhCCCEEEEEcCCCHHHHHHHHHh
Confidence 366777777888889999999988777766666666
No 431
>PRK09248 putative hydrolase; Validated
Probab=27.23 E-value=2.9e+02 Score=21.16 Aligned_cols=12 Identities=17% Similarity=0.039 Sum_probs=5.2
Q ss_pred HHHHHHHHcCcC
Q psy6650 95 ILPKLFKEWKTT 106 (156)
Q Consensus 95 ~l~~l~~~~~~~ 106 (156)
.+.+++.+.++.
T Consensus 176 ~~~~~~~~~g~~ 187 (246)
T PRK09248 176 AIAALCKKAGVW 187 (246)
T ss_pred HHHHHHHHcCCe
Confidence 344444444443
No 432
>PRK05939 hypothetical protein; Provisional
Probab=27.22 E-value=3.7e+02 Score=22.41 Aligned_cols=62 Identities=18% Similarity=0.224 Sum_probs=39.3
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH-HHHHHHHHHHHhCCceEEEec
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK-VRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~~~ 140 (156)
++..|+.+.++.-...+.|.+.+.. +...|+++....|... .-.++|.+.+++.|+.+..-.
T Consensus 106 l~~~G~~v~~v~~~d~e~l~~~l~~-~tklV~vesp~NptG~v~dl~~I~~la~~~gi~livD~ 168 (397)
T PRK05939 106 LRGLGVEVTMVDATDVQNVAAAIRP-NTRMVFVETIANPGTQVADLAGIGALCRERGLLYVVDN 168 (397)
T ss_pred HHhcCCEEEEECCCCHHHHHHhCCC-CCeEEEEECCCCCCCCHHhHHHHHHHHHHcCCEEEEEC
Confidence 5567888887765545666666643 4456777655445433 334778888888898766543
No 433
>cd06542 GH18_EndoS-like Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain. Some members also have an additional C-terminal glycosyl hydrolase family 20 (GH20) domain while others have an N-terminal domain of unknown function (pfam08522). Members of this family include endo-beta-N-acetylglucosaminidase S (EndoS) from Streptococcus pyogenes, EndoF1, EndoF2, EndoF3, and EndoH from Flavobacterium meningosepticum, and EndoE from Enterococcus faecalis. EndoS is a secreted endoglycosidase from Streptococcus pyogenes that specifically hydrolyzes the glycan on human IgG between two core N-acetylglucosamine residues. EndoE is a secreted endoglycosidase, encoded by the ndoE gene in Enterococcus faecalis, that hydrolyzes the glycan on human RNase B.
Probab=27.21 E-value=2.9e+02 Score=21.16 Aligned_cols=52 Identities=13% Similarity=0.194 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEc-C----------h-------HHHHHHHHHHcCcCeEEEcccCC
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRG-Q----------P-------ADILPKLFKEWKTTCLTFEEDPE 115 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g-~----------~-------~~~l~~l~~~~~~~~V~~~~~~~ 115 (156)
..|+.+...+..+.|++.|+.+++..| . . ...+..++.+++.+-|-++-++.
T Consensus 46 ~~~~~~~~~~~i~~l~~kG~KVl~sigg~~~~~~~~~~~~~~~~~~fa~~l~~~v~~yglDGiDiD~E~~ 115 (255)
T cd06542 46 VQFLLTNKETYIRPLQAKGTKVLLSILGNHLGAGFANNLSDAAAKAYAKAIVDTVDKYGLDGVDFDDEYS 115 (255)
T ss_pred hhhhhHHHHHHHHHHhhCCCEEEEEECCCCCCCCccccCCHHHHHHHHHHHHHHHHHhCCCceEEeeeec
Confidence 567778888888888889988776432 1 1 23456677788888887766553
No 434
>PF12692 Methyltransf_17: S-adenosyl-L-methionine methyltransferase; PDB: 3IHT_B.
Probab=27.16 E-value=2e+02 Score=21.15 Aligned_cols=42 Identities=17% Similarity=0.177 Sum_probs=28.5
Q ss_pred EEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHH
Q psy6650 88 IRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCR 130 (156)
Q Consensus 88 ~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~ 130 (156)
+.|+..+.++. ....++.+.+++.+.+..-++.|.....++.
T Consensus 76 ilGdi~~tl~~-~~~~g~~a~laHaD~G~g~~~~d~a~a~~ls 117 (160)
T PF12692_consen 76 ILGDIRETLPA-LARFGAGAALAHADIGTGDKEKDDATAAWLS 117 (160)
T ss_dssp EES-HHHHHHH-HHHH-S-EEEEEE----S-HHHHHHHHHHHH
T ss_pred eeccHHHHhHH-HHhcCCceEEEEeecCCCCcchhHHHHHhhh
Confidence 46888889998 7788999999999999888888888887775
No 435
>PRK13226 phosphoglycolate phosphatase; Provisional
Probab=27.15 E-value=1.4e+02 Score=22.43 Aligned_cols=37 Identities=8% Similarity=0.052 Sum_probs=27.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
.+.++=+.|++.|+.+.+..+.+......+.+..++.
T Consensus 99 g~~~~L~~L~~~g~~l~i~Tn~~~~~~~~~l~~~~l~ 135 (229)
T PRK13226 99 GVEGMLQRLECAGCVWGIVTNKPEYLARLILPQLGWE 135 (229)
T ss_pred CHHHHHHHHHHCCCeEEEECCCCHHHHHHHHHHcCch
Confidence 3455667888889999888887777666677766654
No 436
>PTZ00032 60S ribosomal protein L18; Provisional
Probab=27.14 E-value=1.5e+02 Score=22.86 Aligned_cols=40 Identities=5% Similarity=-0.013 Sum_probs=28.2
Q ss_pred HHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceE
Q psy6650 96 LPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 96 l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~ 136 (156)
|-+-+.+.||+.|++++.- .--.-|.+++++.+.+.|+.|
T Consensus 172 IAerAl~kGI~kVvFDRgG-y~YHGRVkALAdaARe~GLkF 211 (211)
T PTZ00032 172 IGRKALSKGISKVRFDRAH-YKYAGKVEALAEGARAVGLQF 211 (211)
T ss_pred HHHHHHHCCCCEEEEeCCC-CeehhHHHHHHHHHHHcCCCC
Confidence 4444555799999999753 333457788888888888754
No 437
>PF09494 Slx4: Slx4 endonuclease; InterPro: IPR018574 The Slx4 protein is a heteromeric structure-specific endonuclease found in fungi. Slx4 with Slx1 acts as a nuclease on branched DNA substrates, particularly simple-Y, 5'-flap, or replication fork structures by cleaving the strand bearing the 5' non-homologous arm at the branch junction and thus generating ligatable nicked products from 5'-flap or replication fork substrates [].
Probab=26.92 E-value=1.5e+02 Score=17.96 Aligned_cols=33 Identities=15% Similarity=0.048 Sum_probs=16.3
Q ss_pred HHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCc
Q psy6650 71 LEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKT 105 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~ 105 (156)
|.+|...|+..|++..-..+ ...|.+++...+|
T Consensus 27 L~el~~~L~~~g~~~~~~~~--~~~l~~~lD~~gI 59 (64)
T PF09494_consen 27 LEELHAWLKASGIGFDRKVD--PSKLKEWLDSQGI 59 (64)
T ss_pred HHHHHHHHHHcCCCccceeC--HHHHHHHHHHCCc
Confidence 45566666655554332222 2345556665555
No 438
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=26.90 E-value=3.1e+02 Score=21.39 Aligned_cols=70 Identities=13% Similarity=0.091 Sum_probs=42.6
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEc--ChH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRG--QPA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g--~~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
|+.+-+..+.+.+++.|..+.+... ++. +.+.. +...+++.|++........ ..+ +.+.+.|++++.++
T Consensus 75 ~~~~l~~gi~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-l~~~~vdgiIi~~~~~~~~----~~~-~~l~~~~iPvV~v~ 148 (328)
T PRK11303 75 SYARIAKYLERQARQRGYQLLIACSDDQPDNEMRCAEH-LLQRQVDALIVSTSLPPEH----PFY-QRLQNDGLPIIALD 148 (328)
T ss_pred hHHHHHHHHHHHHHHcCCEEEEEeCCCCHHHHHHHHHH-HHHcCCCEEEEcCCCCCCh----HHH-HHHHhcCCCEEEEC
Confidence 6667778888899999999888753 232 23333 3445899887743211111 122 23345689998886
Q ss_pred C
Q psy6650 141 S 141 (156)
Q Consensus 141 ~ 141 (156)
.
T Consensus 149 ~ 149 (328)
T PRK11303 149 R 149 (328)
T ss_pred C
Confidence 4
No 439
>PRK13703 conjugal pilus assembly protein TraF; Provisional
Probab=26.87 E-value=2.6e+02 Score=22.11 Aligned_cols=22 Identities=9% Similarity=0.238 Sum_probs=17.1
Q ss_pred HHHHHHHHHHcCcCeEEEcccC
Q psy6650 93 ADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 93 ~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
..+|..+++++|+..+-++-+-
T Consensus 162 aPil~~fa~~yg~~v~~VS~DG 183 (248)
T PRK13703 162 AQVINDFRDTYGLSVIPVSVDG 183 (248)
T ss_pred HHHHHHHHHHhCCeEEEEecCC
Confidence 4578899999999887776553
No 440
>PF03786 UxuA: D-mannonate dehydratase (UxuA); InterPro: IPR004628 This Fe2+-requiring enzyme plays a role in D-glucuronate catabolism in Escherichia coli. Mannonate dehydratase converts D-mannonate to 2-dehydro-3-deoxy-D-gluconate. An apparent equivalog is found in a glucuronate utilization operon in Bacillus stearothermophilus T-6.; GO: 0008927 mannonate dehydratase activity, 0006064 glucuronate catabolic process; PDB: 1TZ9_A 3FVM_A 3BDK_B 3BAN_B 3DBN_B.
Probab=26.80 E-value=1.2e+02 Score=25.23 Aligned_cols=29 Identities=17% Similarity=0.193 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcChH
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQPA 93 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~ 93 (156)
.|=.+.|..+++..++.|..+.++.+-|.
T Consensus 41 ~W~~e~i~~~k~~ie~~GL~~~vIEsvpv 69 (351)
T PF03786_consen 41 VWDYEEIRALKERIEAAGLTLSVIESVPV 69 (351)
T ss_dssp ---HHHHHHHHHHHHCTT-EEEEEES---
T ss_pred CCCHHHHHHHHHHHHHcCCeEEEEecCCh
Confidence 48889999999999999999999987654
No 441
>TIGR02638 lactal_redase lactaldehyde reductase. This clade of genes encoding iron-containing alcohol dehydrogenase (pfam00465) proteins is generally found in apparent operons for the catabolism of rhamnose or fucose. Catabolism of both of these monosaccharides results in lactaldehyde which is reduced by this enzyme to 1,2 propanediol. This protein is alternatively known by the name 1,2 propanediol oxidoreductase. This enzyme is active under anaerobic conditions in E. coli while being inactivated by reactive oxygen species under aerobic conditions. Under aerobic conditions the lactaldehyde product of rhamnose and fucose catabolism is believed to be oxidized to lactate by a separate enzyme, lactaldehyde dehydrogenase.
Probab=26.75 E-value=2.6e+02 Score=23.13 Aligned_cols=56 Identities=11% Similarity=-0.086 Sum_probs=35.9
Q ss_pred EEEEc-ChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 86 FVIRG-QPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 86 ~v~~g-~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.++.| ...+.+.+.+++++..++++-.+.........+++.+.|++.|+.+..|++
T Consensus 9 ~i~fG~g~l~~l~~~l~~~g~~r~lvvt~~~~~~~g~~~~v~~~L~~~~i~~~~~~~ 65 (379)
T TIGR02638 9 TSYFGAGAIEDIVDEVKRRGFKKALVVTDKDLIKFGVADKVTDLLDEAGIAYELFDE 65 (379)
T ss_pred eEEECcCHHHHHHHHHHhcCCCEEEEEcCcchhhccchHHHHHHHHHCCCeEEEECC
Confidence 45566 445677788888887766544333332222456788888888998887754
No 442
>cd01017 AdcA Metal binding protein AcdA. These proteins have been shown to function in the ABC uptake of Zn2+ and Mn2+ and in competence for genetic transformation and adhesion. The AcdA proteins belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding mechanism. They are comprised of two globular subdomains connected by a long alpha helix and they bind their ligand in the cleft between these domains. In addition, many of these proteins have a low complexity region containing metal binding histidine-rich motif (repetitive HDH sequence).
Probab=26.73 E-value=3.1e+02 Score=21.46 Aligned_cols=42 Identities=19% Similarity=0.210 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCCeEEEEE-cChHHHHHHHHHHcCcCeEEEc
Q psy6650 70 CLEDLDINLRKLNSRLFVIR-GQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
.|.++.+.+++.|+..++.. +.+...+..++++.++..+..+
T Consensus 208 ~l~~l~~~ik~~~v~~if~e~~~~~~~~~~la~~~g~~v~~ld 250 (282)
T cd01017 208 QLAELVEFVKKSDVKYIFFEENASSKIAETLAKETGAKLLVLN 250 (282)
T ss_pred HHHHHHHHHHHcCCCEEEEeCCCChHHHHHHHHHcCCcEEEec
Confidence 45555555666666655554 2333455556666666555443
No 443
>PF00834 Ribul_P_3_epim: Ribulose-phosphate 3 epimerase family; InterPro: IPR000056 Ribulose-phosphate 3-epimerase (5.1.3.1 from EC) (also known as pentose-5-phosphate 3-epimerase or PPE) is the enzyme that converts D-ribulose 5-phosphate into D-xylulose 5-phosphate in Calvin's reductive pentose phosphate cycle. In Ralstonia eutropha (Alcaligenes eutrophus) two copies of the gene coding for PPE are known [], one is chromosomally encoded P40117 from SWISSPROT, the other one is on a plasmid Q04539 from SWISSPROT. PPE has been found in a wide range of bacteria, archaebacteria, fungi and plants. All the proteins have from 209 to 241 amino acid residues. The enzyme has a TIM barrel structure.; GO: 0004750 ribulose-phosphate 3-epimerase activity, 0005975 carbohydrate metabolic process; PDB: 3CTL_A 3CT7_D 3CU2_A 1RPX_A 3OVR_A 3OVP_A 3OVQ_B 3QC3_B 3INP_A 1TQJ_D ....
Probab=26.60 E-value=1.1e+02 Score=23.18 Aligned_cols=85 Identities=14% Similarity=0.193 Sum_probs=48.8
Q ss_pred cCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchh
Q psy6650 39 GCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFG 118 (156)
Q Consensus 39 ~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~ 118 (156)
.+-..+-+=|.|-.+... . .|=.+-++++++. -..-...++...+|...++++++ .+++.|.++-+.....
T Consensus 24 ~g~d~lHiDiMDg~fvpn--~-----~~g~~~i~~i~~~-~~~~~DvHLMv~~P~~~i~~~~~-~g~~~i~~H~E~~~~~ 94 (201)
T PF00834_consen 24 AGADWLHIDIMDGHFVPN--L-----TFGPDIIKAIRKI-TDLPLDVHLMVENPERYIEEFAE-AGADYITFHAEATEDP 94 (201)
T ss_dssp TT-SEEEEEEEBSSSSSS--B------B-HHHHHHHHTT-SSSEEEEEEESSSGGGHHHHHHH-HT-SEEEEEGGGTTTH
T ss_pred cCCCEEEEeecccccCCc--c-----cCCHHHHHHHhhc-CCCcEEEEeeeccHHHHHHHHHh-cCCCEEEEcccchhCH
Confidence 344566777777654321 1 2333445555443 33345567778899988887665 4899998888866555
Q ss_pred HHHHHHHHHHHHhCCceE
Q psy6650 119 KVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 119 ~~~d~~v~~~l~~~~i~~ 136 (156)
.+..+.+ ++.|+++
T Consensus 95 ~~~i~~i----k~~g~k~ 108 (201)
T PF00834_consen 95 KETIKYI----KEAGIKA 108 (201)
T ss_dssp HHHHHHH----HHTTSEE
T ss_pred HHHHHHH----HHhCCCE
Confidence 4444444 4445553
No 444
>cd04241 AAK_FomA-like AAK_FomA-like: This CD includes a fosfomycin biosynthetic gene product, FomA, and similar proteins found in a wide range of organisms. Together, the fomA and fomB genes in the fosfomycin biosynthetic gene cluster of Streptomyces wedmorensis confer high-level fosfomycin resistance. FomA and FomB proteins converted fosfomycin to fosfomycin monophosphate and fosfomycin diphosphate in the presence of ATP and a magnesium ion, indicating that FomA and FomB catalyzed phosphorylations of fosfomycin and fosfomycin monophosphate, respectively. FomA and related sequences in this CD are members of the Amino Acid Kinase Superfamily (AAK).
Probab=26.57 E-value=2.3e+02 Score=21.81 Aligned_cols=40 Identities=18% Similarity=0.223 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHhC-CCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 66 FLLQCLEDLDINLRKL-NSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~-g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
+-.+.+.++.++|+++ |.++++++|--. .....++++++.
T Consensus 20 ~~~~~l~~l~~~l~~l~g~~vvlVhGgg~-~~~~~~~~~g~~ 60 (252)
T cd04241 20 IREENLERIARELAEAIDEKLVLVHGGGS-FGHPKAKEYGLP 60 (252)
T ss_pred cCHHHHHHHHHHHHhccCCCEEEEECCCc-ccCHHHHHhCCC
Confidence 4456677788888877 999999987432 333455666665
No 445
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=26.56 E-value=2.4e+02 Score=23.29 Aligned_cols=78 Identities=9% Similarity=0.201 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHhCCC-eEEEEEcChH------HHHHHHHHHcCcCeEEEcc-cCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 66 FLLQCLEDLDINLRKLNS-RLFVIRGQPA------DILPKLFKEWKTTCLTFEE-DPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~-~L~v~~g~~~------~~l~~l~~~~~~~~V~~~~-~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
|=..++.+|...++++|. ...|+.|... +.+....++.+++..+++. ...|..... +++.+.+++.++.+.
T Consensus 11 ~G~g~l~~l~~~l~~~g~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v-~~~~~~~~~~~~D~I 89 (377)
T cd08176 11 FGAGAIKEIGDELKNLGFKKALIVTDKGLVKIGVVEKVTDVLDEAGIDYVIYDGVKPNPTITNV-KDGLAVFKKEGCDFI 89 (377)
T ss_pred ECcCHHHHHHHHHHHhCCCeEEEECCchHhhcCcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHH-HHHHHHHHhcCCCEE
Confidence 444577788888888884 5666655432 2344555555776665653 223433333 334455555555544
Q ss_pred E-ecCCee
Q psy6650 138 A-RVSHTL 144 (156)
Q Consensus 138 ~-~~~~~L 144 (156)
. +.+-+.
T Consensus 90 IavGGGS~ 97 (377)
T cd08176 90 ISIGGGSP 97 (377)
T ss_pred EEeCCcHH
Confidence 3 444443
No 446
>TIGR00129 fdhD_narQ formate dehydrogenase family accessory protein FdhD. FdhD in E. coli and NarQ in B. subtilis are required for the activity of formate dehydrogenase. The gene name in B. subtilis reflects the requirement of the neighboring gene narA for nitrate assimilation, for which NarQ is not required. In some species, the gene is associated not with a known formate dehydrogenase but with a related putative molybdopterin-binding oxidoreductase. A reasonable hypothesis is that this protein helps prepare a required cofactor for assembly into the holoenzyme.
Probab=26.54 E-value=1.1e+02 Score=23.76 Aligned_cols=48 Identities=13% Similarity=0.178 Sum_probs=24.2
Q ss_pred EEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 85 LFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 85 L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+.+..|.....+-.-+...+|..|..-..++-...+ ..++.|+++.-|
T Consensus 173 ~l~~SGRis~emv~Ka~~aGIpvlvS~sapT~lave-------lA~~~giTLigf 220 (237)
T TIGR00129 173 FILYSGRISSEMVQKAARCGVPIIASKSAPTDLAIE-------VAEESNITLIGF 220 (237)
T ss_pred EEEEeCCCcHHHHHHHHHcCCCEEEEcccchHHHHH-------HHHHhCCEEEEE
Confidence 555666655444444555566666555544333221 223346666655
No 447
>COG1358 RPL8A Ribosomal protein HS6-type (S12/L30/L7a) [Translation, ribosomal structure and biogenesis]
Probab=26.44 E-value=2.2e+02 Score=19.67 Aligned_cols=53 Identities=23% Similarity=0.288 Sum_probs=38.5
Q ss_pred EEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecCC
Q psy6650 86 FVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 86 ~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
-+..|.. .....+++-.+.-|+..++.+|.+.. ..+...|++.||++..+.+.
T Consensus 27 ki~~G~~--e~~Kai~~g~a~LVviA~Dv~P~~~~--~~l~~lc~~~~vpyv~V~sk 79 (116)
T COG1358 27 KLKKGTN--EVTKAIERGKAKLVVIAEDVSPEELV--KHLPALCEEKNVPYVYVGSK 79 (116)
T ss_pred CchhhHH--HHHHHHHcCCCcEEEEecCCCHHHHH--HHHHHHHHhcCCCEEEeCCH
Confidence 4556633 33355666678899999999877654 56778898899999988764
No 448
>cd02971 PRX_family Peroxiredoxin (PRX) family; composed of the different classes of PRXs including many proteins originally known as bacterioferritin comigratory proteins (BCP), based on their electrophoretic mobility before their function was identified. PRXs are thiol-specific antioxidant (TSA) proteins also known as TRX peroxidases and alkyl hydroperoxide reductase C22 (AhpC) proteins. They confer a protective antioxidant role in cells through their peroxidase activity in which hydrogen peroxide, peroxynitrate, and organic hydroperoxides are reduced and detoxified using reducing equivalents derived from either TRX, glutathione, trypanothione and AhpF. They are distinct from other peroxidases in that they have no cofactors such as metals or prosthetic groups. The first step of catalysis, common to all PRXs, is the nucleophilic attack by the catalytic cysteine (also known as the peroxidatic cysteine) on the peroxide leading to cleavage of the oxygen-oxygen bond and the formation of a
Probab=26.44 E-value=2.1e+02 Score=19.23 Aligned_cols=43 Identities=9% Similarity=-0.024 Sum_probs=33.9
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc-CcCeEEE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW-KTTCLTF 110 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-~~~~V~~ 110 (156)
...|..+.++|++.|+.++.+..+..+.+.+++++. +..--+.
T Consensus 42 ~~~l~~~~~~~~~~~~~~i~is~d~~~~~~~~~~~~~~~~~~~l 85 (140)
T cd02971 42 LCAFRDLAEEFAKGGAEVLGVSVDSPFSHKAWAEKEGGLNFPLL 85 (140)
T ss_pred HHHHHHHHHHHHHCCCEEEEEeCCCHHHHHHHHhcccCCCceEE
Confidence 677888888888889999999888888888999887 5443333
No 449
>TIGR01369 CPSaseII_lrg carbamoyl-phosphate synthase, large subunit. In several thermophilic species (Methanobacterium thermoautotrophicum, Methanococcus jannaschii, Aquifex aeolicus), the large subunit appears split, at different points, into two separate genes.
Probab=26.36 E-value=5.2e+02 Score=24.76 Aligned_cols=39 Identities=13% Similarity=0.223 Sum_probs=26.4
Q ss_pred HHHHHHhCCCeEEEEEcChH-------------------HHHHHHHHHcCcCeEEEcc
Q psy6650 74 LDINLRKLNSRLFVIRGQPA-------------------DILPKLFKEWKTTCLTFEE 112 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~-------------------~~l~~l~~~~~~~~V~~~~ 112 (156)
+-+.|++.|+..+++..+|. +.+.+++++.+++.|+..-
T Consensus 32 ~~kalke~G~~vi~v~~np~~~~~~~~~aD~~y~~p~~~~~v~~ii~~e~~DaIlp~~ 89 (1050)
T TIGR01369 32 ACKALKEEGYRVILVNSNPATIMTDPEMADKVYIEPLTPEAVEKIIEKERPDAILPTF 89 (1050)
T ss_pred HHHHHHHcCCEEEEEecchhhccCChhcCCEEEECCCCHHHHHHHHHHhCCCEEEECC
Confidence 34556677888777766552 3566777777888877643
No 450
>TIGR01502 B_methylAsp_ase methylaspartate ammonia-lyase. This model describes methylaspartate ammonia-lyase, also called beta-methylaspartase (EC 4.3.1.2). It follows methylaspartate mutase (composed of S and E subunits) in one of several possible pathways of glutamate fermentation.
Probab=26.32 E-value=4e+02 Score=22.59 Aligned_cols=73 Identities=8% Similarity=0.092 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcCh---HHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQP---ADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~---~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.-++++..|++.+++.|...-|.-++. .+-+.++++.-.++.|-. +-...-....-.++...++..|+.+...
T Consensus 279 ~~~e~la~Lr~~~~~~~~~vPI~aDEs~~t~~d~~~~i~~~a~d~v~i-K~~k~GGIt~a~kia~lA~~~Gi~~~~g 354 (408)
T TIGR01502 279 AQIEAMADLRAELDGRGVDAEIVADEWCNTVEDVKFFTDAKAGHMVQI-KTPDVGGVNNIARAIMYCKANGMGAYVG 354 (408)
T ss_pred hhHHHHHHHHHHhhcCCCCceEEecCCCCCHHHHHHHHHhCCCCEEEe-CccccCCHHHHHHHHHHHHHcCCEEEEe
Confidence 346888899999988888888887765 345566666543433332 2222233444456677788889888754
No 451
>PRK08134 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=26.31 E-value=2.9e+02 Score=23.42 Aligned_cols=64 Identities=13% Similarity=0.120 Sum_probs=37.8
Q ss_pred HHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCch-hHHHHHHHHHHHHhCCceEEEe
Q psy6650 75 DINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPF-GKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 75 ~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~-~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
...|.+.|+...++..+..+.+.+.+.. +...|+++....|- ...-.++|.+.+++.|+.+..-
T Consensus 121 ~~~l~~~Gi~v~~vd~~d~~~l~~~i~~-~TklV~~e~~~np~g~v~Di~~I~~la~~~gi~livD 185 (433)
T PRK08134 121 HYTLRRFGIETTFVKPGDIDGWRAAIRP-NTRLLFGETLGNPGLEVLDIPTVAAIAHEAGVPLLVD 185 (433)
T ss_pred HHHHhhCCeEEEEECCCCHHHHHHhcCC-CCeEEEEECCCcccCcccCHHHHHHHHHHcCCEEEEE
Confidence 3346678988887765555666666653 33455555433231 2223466778888888877653
No 452
>KOG0572|consensus
Probab=26.31 E-value=1.2e+02 Score=25.94 Aligned_cols=79 Identities=16% Similarity=0.167 Sum_probs=44.6
Q ss_pred HHHHHHHhcCCcceEEEEeCCC---CcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEE-----EEcChHHHHHHHHHH
Q psy6650 31 PSLREGLKGCTTFRCVFILDPW---FAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFV-----IRGQPADILPKLFKE 102 (156)
Q Consensus 31 ~aL~~A~~~~~~vi~vfi~d~~---~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v-----~~g~~~~~l~~l~~~ 102 (156)
.||-+|.+.+-|...++|-+.- -+-++. ..-|..=...-|.-|.+++. |-++++ ++|.+...|.+++++
T Consensus 305 aAlgyA~~sG~py~e~l~rnrYvGRTFI~P~-q~iR~~~V~~Kl~~l~~~~~--GKrvvlVDDSIVRGtTs~~IVkmlre 381 (474)
T KOG0572|consen 305 AALGYAAKSGLPYQEVLIRNRYVGRTFIEPN-QRIRQLGVKKKLGPLRQNFE--GKRVVLVDDSIVRGTTSSPIVKMLRE 381 (474)
T ss_pred HHHHHHHHhCCchhhhhhhcccccceecCcc-HHHHHhhhhhhcccchhhcC--CceEEEEecceeccCchHHHHHHHHH
Confidence 4566666666665556654431 011111 11122123333444555554 444443 579999999999999
Q ss_pred cCcCeEEEcc
Q psy6650 103 WKTTCLTFEE 112 (156)
Q Consensus 103 ~~~~~V~~~~ 112 (156)
.|++.|++--
T Consensus 382 aGAkeVh~ri 391 (474)
T KOG0572|consen 382 AGAKEVHIRI 391 (474)
T ss_pred cCCcEEEEEe
Confidence 9999998643
No 453
>COG0313 Predicted methyltransferases [General function prediction only]
Probab=26.25 E-value=3.5e+02 Score=21.81 Aligned_cols=67 Identities=21% Similarity=0.156 Sum_probs=43.4
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHH-HcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFK-EWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~-~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
.|-+...+.|++..++.|..+- +..|+. ...-+..+|.--......+|.+.+++..++ .-.++.|++
T Consensus 97 ~LV~~a~~~gi~V~~lPG~sA~-~tAL~~SGl~~~~F~F~GFLP~k~~~R~~~l~~l~~~-~~t~IfyEs 164 (275)
T COG0313 97 ELVRAAREAGIRVVPLPGPSAL-ITALSASGLPSQRFLFEGFLPRKSKERRKRLEALANE-PRTLIFYES 164 (275)
T ss_pred HHHHHHHHcCCcEEecCCccHH-HHHHHHcCCCCCCeeEeccCCCCccHHHHHHHHHHhc-CCeEEEEec
Confidence 3556677889999999997754 344444 456666777766555677777777766543 333555554
No 454
>PRK05994 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=26.04 E-value=3e+02 Score=23.16 Aligned_cols=66 Identities=9% Similarity=0.125 Sum_probs=38.0
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH-HHHHHHHHHHHhCCceEEEecCC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK-VRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
..+...|+.+..+.....+.+.+.+.. +...|+++....|... .-.++|.+.+++.|+.+..-+.+
T Consensus 121 ~~~~~~G~~v~~vd~~d~~~l~~ai~~-~tklV~vesp~NptG~v~dl~~I~~la~~~gi~livD~a~ 187 (427)
T PRK05994 121 HAFKSFGWQVRWADADDPASFERAITP-RTKAIFIESIANPGGTVTDIAAIAEVAHRAGLPLIVDNTL 187 (427)
T ss_pred HHHHhcCcEEEEECCCCHHHHHHhcCc-CCeEEEEECCCCCCCeecCHHHHHHHHHHcCCEEEEECCc
Confidence 335567887777665545556655543 4556777544333221 12357778888888866654433
No 455
>TIGR01464 hemE uroporphyrinogen decarboxylase. This model represents uroporphyrinogen decarboxylase (HemE), which converts uroporphyrinogen III to coproporphyrinogen III. This step takes the pathway toward protoporphyrin IX, a common precursor of both heme and chlorophyll, rather than toward precorrin 2 and its products.
Probab=25.97 E-value=3.5e+02 Score=21.76 Aligned_cols=66 Identities=15% Similarity=0.255 Sum_probs=45.3
Q ss_pred EEEEeCCCCcCCCCCCcch-HHHHHHHHHHHHHHHHhC--CCeEEEEEcChHHHHHHHHHHcCcCeEEEcccC
Q psy6650 45 CVFILDPWFAGSSNVGINK-WRFLLQCLEDLDINLRKL--NSRLFVIRGQPADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r-~~Fl~~sL~~L~~~L~~~--g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
.+.++|+.- ...++.. .+|....++.+-+.+++. +.+++...|+....++.+++ ++++.+.++...
T Consensus 196 ~i~i~d~~~---~~lsp~~f~ef~~p~~k~i~~~i~~~~~~~~ilh~cg~~~~~~~~~~~-~~~~~~s~d~~~ 264 (338)
T TIGR01464 196 AVQIFDSWA---GALSPEDFEEFVLPYLKKIIEEVKARLPNVPVILFAKGAGHLLEELAE-TGADVVGLDWTV 264 (338)
T ss_pred EEEEECCcc---ccCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEeCCcHHHHHHHHh-cCCCEEEeCCCC
Confidence 467778721 1234433 468888999999999887 56666677888777766555 588888777654
No 456
>PF02630 SCO1-SenC: SCO1/SenC; InterPro: IPR003782 This family is involved in biogenesis of respiratory and photosynthetic systems. In yeast the SCO1 protein is specifically required for a post-translational step in the accumulation of subunits 1 and 2 of cytochrome c oxidase (COXI and COX-II) []. It is a mitochondrion-associated cytochrome c oxidase assembly factor. The purple nonsulphur photosynthetic eubacterium Rhodobacter capsulatus is a versatile organism that can obtain cellular energy by several means, including the capture of light energy for photosynthesis as well as the use of light-independent respiration, in which molecular oxygen serves as a terminal electron acceptor. The SenC protein is required for optimal cytochrome c oxidase activity in aerobically grown R. capsulatus cells and is involved in the induction of structural polypeptides of the light-harvesting and reaction centre complexes [].; PDB: 2K6V_A 3ME8_A 3ME7_A 2GT6_A 2GQL_A 2GQK_A 2GGT_B 1WP0_C 2HRN_A 2GQM_A ....
Probab=25.94 E-value=2.6e+02 Score=20.28 Aligned_cols=64 Identities=14% Similarity=0.143 Sum_probs=39.1
Q ss_pred CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCe--EEEEE----cChHHHHHHHHHHcCcCeEEEc
Q psy6650 40 CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSR--LFVIR----GQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 40 ~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~--L~v~~----g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
|..++..|++..- . --.--....|..++++|.+.|.. ++.+. -|+.++|.+.++.++.+-..+.
T Consensus 52 Gk~~lv~F~yT~C-p-------dvCp~~l~~l~~~~~~l~~~~~~v~~v~ISvDP~~DTp~~L~~Y~~~~~~~~~~lt 121 (174)
T PF02630_consen 52 GKWVLVFFGYTRC-P-------DVCPTTLANLSQLQKQLGEEGKDVQFVFISVDPERDTPEVLKKYAKKFGPDFIGLT 121 (174)
T ss_dssp TSEEEEEEE-TTS-S-------SHHHHHHHHHHHHHHHHHHTTTTEEEEEEESSTTTC-HHHHHHHHHCHTTTCEEEE
T ss_pred CCeEEEEEEEcCC-C-------ccCHHHHHHHHHHHHHhhhccCceEEEEEEeCCCCCCHHHHHHHHHhcCCCcceeE
Confidence 5566666776531 1 11234456677777777766544 44443 3567899999999988777664
No 457
>PHA03398 viral phosphatase superfamily protein; Provisional
Probab=25.91 E-value=3e+02 Score=22.49 Aligned_cols=46 Identities=15% Similarity=0.181 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC----eEEEcccCC
Q psy6650 66 FLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT----CLTFEEDPE 115 (156)
Q Consensus 66 Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~----~V~~~~~~~ 115 (156)
...++|..| ++.|+.+.+..+.+.+....+.+..++. .|+++.+..
T Consensus 152 ~V~EtL~eL----kekGikLaIvTNg~Re~v~~~Le~lgL~~yFDvII~~g~i~ 201 (303)
T PHA03398 152 FVYDSLDEL----KERGCVLVLWSYGNREHVVHSLKETKLEGYFDIIICGGRKA 201 (303)
T ss_pred hHHHHHHHH----HHCCCEEEEEcCCChHHHHHHHHHcCCCccccEEEECCCcc
Confidence 445555554 5689999999865556667788887776 455555543
No 458
>cd01011 nicotinamidase Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is also called pyrazinamidase, because in converts the tuberculosis drug pyrazinamide (PZA) into its active form pyrazinoic acid (POA).
Probab=25.85 E-value=2.8e+02 Score=20.51 Aligned_cols=63 Identities=13% Similarity=0.070 Sum_probs=35.1
Q ss_pred HHHHHHHHhCCCeEEEEEcChHH-H----HHHHHHHcCcCeEEEcccCCc-hhHHHHHHHHHHHHhCCceE
Q psy6650 72 EDLDINLRKLNSRLFVIRGQPAD-I----LPKLFKEWKTTCLTFEEDPEP-FGKVRDQNIMTLCRELNIEV 136 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~~g~~~~-~----l~~l~~~~~~~~V~~~~~~~~-~~~~~d~~v~~~l~~~~i~~ 136 (156)
.+|...|+++|+.=+++.|-..+ + ...+. ..+...++....... .....+..+.. ++..|+++
T Consensus 127 t~L~~~L~~~~i~~lii~G~~t~~CV~~T~~~a~-~~g~~v~v~~Da~~~~~~~~~~~al~~-~~~~G~~i 195 (196)
T cd01011 127 TGLAEYLRERGIDRVDVVGLATDYCVKATALDAL-KAGFEVRVLEDACRAVDPETIERAIEE-MKEAGVVL 195 (196)
T ss_pred hhHHHHHHHCCCCEEEEEEecccHHHHHHHHHHH-HCCCEEEEeccccCCCCHHHHHHHHHH-HHHccCEE
Confidence 47788889999987777774432 1 22222 236655555544443 34444455544 44457755
No 459
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=25.66 E-value=3e+02 Score=20.88 Aligned_cols=71 Identities=10% Similarity=0.047 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEcC-hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhC-CceEEE
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRGQ-PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCREL-NIEVIA 138 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~-~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~-~i~~~~ 138 (156)
.-|+.+-+..+++.+++.|..+.+.... +. +.+..+ ...+++.|+..... .. ..+.+.+++. ++++..
T Consensus 14 ~~f~~~~~~gi~~~~~~~gy~~~i~~~~~~~~~~~~i~~l-~~~~vdgiI~~~~~--~~----~~~~~~~~~~~~~PiV~ 86 (265)
T cd06354 14 KSFNQSAWEGLERAAKELGIEYKYVESKSDADYEPNLEQL-ADAGYDLIVGVGFL--LA----DALKEVAKQYPDQKFAI 86 (265)
T ss_pred hhHHHHHHHHHHHHHHHcCCeEEEEecCCHHHHHHHHHHH-HhCCCCEEEEcCcc--hH----HHHHHHHHHCCCCEEEE
Confidence 3588899999999999999998887542 22 233333 34588998875321 11 1233344433 788887
Q ss_pred ecC
Q psy6650 139 RVS 141 (156)
Q Consensus 139 ~~~ 141 (156)
++.
T Consensus 87 i~~ 89 (265)
T cd06354 87 IDA 89 (265)
T ss_pred Eec
Confidence 754
No 460
>TIGR01549 HAD-SF-IA-v1 haloacid dehalogenase superfamily, subfamily IA, variant 1 with third motif having Dx(3-4)D or Dx(3-4)E. HAD subfamilies caused by an overly broad single model.
Probab=25.57 E-value=2.3e+02 Score=19.45 Aligned_cols=64 Identities=13% Similarity=0.100 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc---CcCeEEEcccCCchhHHHHHHHHHHHHhCCc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW---KTTCLTFEEDPEPFGKVRDQNIMTLCRELNI 134 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~---~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i 134 (156)
.++.++=+.|++.|+++.++.+.+......+.+.. -.+.|++..++. .+---+-+...+++.|+
T Consensus 67 ~g~~e~l~~L~~~g~~~~i~T~~~~~~~~~~~~~~l~~~f~~i~~~~~~~--~Kp~~~~~~~~~~~~~~ 133 (154)
T TIGR01549 67 RGAADLLKRLKEAGIKLGIISNGSLRAQKLLLRKHLGDYFDLILGSDEFG--AKPEPEIFLAALESLGL 133 (154)
T ss_pred cCHHHHHHHHHHCcCeEEEEeCCchHHHHHHHHHHHHhcCcEEEecCCCC--CCcCHHHHHHHHHHcCC
Confidence 45677777788889999998876655554444431 245566665543 11112334445555555
No 461
>cd06844 STAS Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors. The STAS (Sulphate Transporter and Anti-Sigma factor antagonist) domain is found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors, like anti-anti-sigma factors and "stressosome" components. The sigma factor regulators are involved in protein-protein interaction which is regulated by phosphorylation.
Probab=25.39 E-value=1.8e+02 Score=18.70 Aligned_cols=37 Identities=8% Similarity=-0.000 Sum_probs=21.0
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTT 106 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~ 106 (156)
...|..+.+.+++.|+.+.+..-++ .+.++.+..++.
T Consensus 57 l~~L~~l~~~~~~~g~~l~l~~~~~--~v~~~l~~~gl~ 93 (100)
T cd06844 57 TGVLLERSRLAEAVGGQFVLTGISP--AVRITLTESGLD 93 (100)
T ss_pred HHHHHHHHHHHHHcCCEEEEECCCH--HHHHHHHHhCch
Confidence 3566677777777787777664332 223344444443
No 462
>cd07382 MPP_DR1281 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain. DR1281 is an uncharacterized Deinococcus radiodurans protein with a domain that belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets. This domain is thought to allow for productive metal coordination.
Probab=25.37 E-value=1.2e+02 Score=24.01 Aligned_cols=47 Identities=13% Similarity=0.164 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHhCCCeEEEEEcChH-------HHHHHHHHHcCcCeEEEccc
Q psy6650 64 WRFLLQCLEDLDINLRKLNSRLFVIRGQPA-------DILPKLFKEWKTTCLTFEED 113 (156)
Q Consensus 64 ~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~-------~~l~~l~~~~~~~~V~~~~~ 113 (156)
...+.+.|.+|+++ .+..+.+..|+.. +...+.....+++.+....+
T Consensus 14 ~~~~~~~l~~lk~~---~~~D~vi~NgEn~~gg~gl~~~~~~~L~~~G~D~iTlGNH 67 (255)
T cd07382 14 RKAVKEHLPKLKKE---YKIDFVIANGENAAGGKGITPKIAKELLSAGVDVITMGNH 67 (255)
T ss_pred HHHHHHHHHHHHHH---CCCCEEEECCccccCCCCCCHHHHHHHHhcCCCEEEeccc
Confidence 34667777777754 3567888765432 23345666678888866443
No 463
>PRK00724 formate dehydrogenase accessory protein; Reviewed
Probab=25.37 E-value=1.9e+02 Score=22.90 Aligned_cols=48 Identities=13% Similarity=0.186 Sum_probs=27.7
Q ss_pred EEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 85 LFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 85 L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
+.+..|.....+-+-+...||..|..-..++-...+ ..++.|+++.-|
T Consensus 202 ~l~~SGR~s~emv~Ka~~aGipvivS~saPT~lAVe-------lA~~~giTLiGf 249 (263)
T PRK00724 202 ALLVSGRASSEMVQKAAMAGIPILVAVSAPTSLAVE-------LAEELGLTLVGF 249 (263)
T ss_pred EEEEeCCchHHHHHHHHHcCCcEEEEcccchHHHHH-------HHHHhCCEEEEE
Confidence 566677766555555555677777666655433322 223457777665
No 464
>PRK06084 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=25.33 E-value=2.6e+02 Score=23.57 Aligned_cols=62 Identities=16% Similarity=0.194 Sum_probs=36.9
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHH-HHHHHHHHHHhCCceEEEec
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKV-RDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~-~d~~v~~~l~~~~i~~~~~~ 140 (156)
+...|+......+...+.+.+.+++ +...||++....|.... -.+++.+.+++.|+.+..-+
T Consensus 118 l~~~gi~v~~~d~~d~e~le~ai~~-~tklV~lesp~NPtG~v~dl~~I~~la~~~~i~vVvD~ 180 (425)
T PRK06084 118 LPRIGIETRFAAHDDIAALEALIDE-RTKAVFCESIGNPAGNIIDIQALADAAHRHGVPLIVDN 180 (425)
T ss_pred cccceeEEEEECCCCHHHHHHHhcc-CCcEEEEeCCCCCCCeecCHHHHHHHHHHcCCEEEEEC
Confidence 4556777766665555667766654 45667776443343221 13667777887888766533
No 465
>PRK11126 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase; Provisional
Probab=25.32 E-value=2.4e+02 Score=20.70 Aligned_cols=39 Identities=15% Similarity=0.212 Sum_probs=26.6
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
++...|++..+|..++.|+....+..+++..+++.+.+.
T Consensus 179 ~~~~~l~~i~~P~lii~G~~D~~~~~~~~~~~~~~~~i~ 217 (242)
T PRK11126 179 DLRPALQALTFPFYYLCGERDSKFQALAQQLALPLHVIP 217 (242)
T ss_pred cHHHHhhccCCCeEEEEeCCcchHHHHHHHhcCeEEEeC
Confidence 455677788889999988766666666666555555543
No 466
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=25.30 E-value=3.6e+02 Score=21.67 Aligned_cols=42 Identities=12% Similarity=0.139 Sum_probs=18.8
Q ss_pred HHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEec
Q psy6650 98 KLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 98 ~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+++++.++...+++... ......+.++.+++++.++.+...-
T Consensus 135 ~~A~~~gIp~~~~~~~~-~~~~~~~~~~~~~l~~~~~Dlivla 176 (289)
T PRK13010 135 PLAVQHDIPFHHLPVTP-DTKAQQEAQILDLIETSGAELVVLA 176 (289)
T ss_pred HHHHHcCCCEEEeCCCc-ccccchHHHHHHHHHHhCCCEEEEe
Confidence 55566666555544322 1111223344455555455544443
No 467
>PF09153 DUF1938: Domain of unknown function (DUF1938); InterPro: IPR015236 This domain, which is predominantly found in the archaeal protein O6-alkylguanine-DNA alkyltransferase, adopts a secondary structure consisting of a three stranded antiparallel beta-sheet and three alpha helices. The exact function has not, as yet, been defined, though it has been postulated that this domain may confer thermostability to the protein []. ; GO: 0005737 cytoplasm; PDB: 1MGT_A.
Probab=25.21 E-value=68 Score=21.05 Aligned_cols=38 Identities=21% Similarity=0.272 Sum_probs=24.1
Q ss_pred CcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEecC
Q psy6650 104 KTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 104 ~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
+|.-|.++-+-+.+.+.|..++...|+++|+++..-..
T Consensus 23 kIqGItfslDg~efl~eri~~L~~~L~kRgv~v~L~~~ 60 (86)
T PF09153_consen 23 KIQGITFSLDGEEFLRERISRLIEFLKKRGVSVSLDEE 60 (86)
T ss_dssp SEEEEEEESSHHHHHH-HHHHHHHHHHHTT------B-
T ss_pred ceeeEEEEeccHHHHHHHHHHHHHHHHhcCceeEEeec
Confidence 56677777776677777999999999999988765433
No 468
>PF01740 STAS: STAS domain; InterPro: IPR002645 The STAS (Sulphate Transporter and AntiSigma factor antagonist) domain is found in the C-terminal region of sulphate transporters and bacterial anti-sigma factor antagonists. It has been suggested that this domain may have a general NTP binding function. The establishment of differential gene expression in sporulating Bacillus subtilis involves four protein components one of which is SpoIIAA (P10727 from SWISSPROT). The four components regulate the sporulation sigma factor F. Early in sporulation, SpoIIAA is in the phosphorylated state (SpoIIAA-P), as a result of the activity of the ATP-dependent protein kinase SpoIIAB (P10728 from SWISSPROT). The site at which this protein is a conserved serine. SpoIIAB is an anti-sigma factor that in its free form inhibits F by binding to it. Competition by SpoIIAA (the anti-anti-sigma factor) for binding to SpoIIAB releases Sigma F activity []. The STAS domain is found in the anti-sigma factor antagonist SpoIIAA.; PDB: 3T6O_B 3LKL_B 1H4Z_A 1H4Y_B 1H4X_B 3NY7_A 3OIZ_A 1T6R_A 1VC1_B 1SBO_A ....
Probab=25.18 E-value=1.2e+02 Score=19.97 Aligned_cols=23 Identities=26% Similarity=0.354 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEc
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRG 90 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g 90 (156)
.++|.++.+.|+++|+.+++..-
T Consensus 66 i~~L~~~~~~~~~~g~~~~l~~~ 88 (117)
T PF01740_consen 66 IQALVDIIKELRRRGVQLVLVGL 88 (117)
T ss_dssp HHHHHHHHHHHHHTTCEEEEESH
T ss_pred HHHHHHHHHHHHHCCCEEEEEEC
Confidence 46888999999999999997754
No 469
>PF02120 Flg_hook: Flagellar hook-length control protein FliK; InterPro: IPR021136 This entry represents the C-terminal domain of the flagellar hook-length control protein FliK. This entry also includes YscP of the Yersinia type III secretion system, and equivalent proteins in other pathogenic bacterial type III secretion systems. During flagellar morphogenesis in Salmonella typhimurium and Escherichia coli, flagellar hook-length control protein (FliK) controls the length of the hook by directly measuring the hook length [, ]. It is considered unlikely that FliK functions as a molecular ruler for determining hook length, but that it is more likely to be employing a novel mechanism. The deduced amino acid sequences of FliK proteins from S. typhimurium and E. coli have molecular masses of 41,748 and 39,246 Da, respectively, and are fairly hydrophilic []. Sequence comparison reveals around 50% identity, with greatest conservation in the C-terminal region, with 71% identity in the last 154 amino acids - mutagenesis of this conserved region completely abolishes motility. The central and C-terminal regions are rich in proline and glutamine respectively; it is thought that they may constitute distinct domains [].; PDB: 2RRL_A.
Probab=25.15 E-value=95 Score=19.39 Aligned_cols=25 Identities=20% Similarity=0.202 Sum_probs=20.9
Q ss_pred chHHHHHHHHHHHHHHHHhCCCeEE
Q psy6650 62 NKWRFLLQCLEDLDINLRKLNSRLF 86 (156)
Q Consensus 62 ~r~~Fl~~sL~~L~~~L~~~g~~L~ 86 (156)
.-...|.+.+.+|++.|++.|+.+.
T Consensus 48 ~~~~~L~~~~~~L~~~L~~~G~~~~ 72 (85)
T PF02120_consen 48 ETKELLRQNLPELKERLQAQGLEVV 72 (85)
T ss_dssp HHHHHHHHTHHHHHHHHHTTT-EEE
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCeE
Confidence 4467899999999999999998865
No 470
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=25.08 E-value=95 Score=19.58 Aligned_cols=32 Identities=13% Similarity=0.106 Sum_probs=16.9
Q ss_pred HHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEE
Q psy6650 78 LRKLNSRLFVIRGQPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 78 L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~ 110 (156)
|...|...+|..+=....+ ...++.++..+..
T Consensus 49 l~~~~v~~li~~~iG~~~~-~~L~~~gI~v~~~ 80 (94)
T PF02579_consen 49 LAEEGVDVLICGGIGEGAF-RALKEAGIKVYQG 80 (94)
T ss_dssp HHHTTESEEEESCSCHHHH-HHHHHTTSEEEES
T ss_pred HHHcCCCEEEEeCCCHHHH-HHHHHCCCEEEEc
Confidence 3445677666654333333 3444557755554
No 471
>PRK09456 ?-D-glucose-1-phosphatase; Provisional
Probab=25.08 E-value=2.1e+02 Score=20.89 Aligned_cols=48 Identities=13% Similarity=0.077 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc-----CcCeEEEcccCC
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW-----KTTCLTFEEDPE 115 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~-----~~~~V~~~~~~~ 115 (156)
+..+.++=+.|++.|.++.+....+...+..+.... -++.|+...+.+
T Consensus 86 ~~g~~e~L~~l~~~g~~~~i~Sn~~~~~~~~~~~~~~~l~~~fd~v~~s~~~~ 138 (199)
T PRK09456 86 RPEVIAIMHKLREQGHRVVVLSNTNRLHTTFWPEEYPEVRAAADHIYLSQDLG 138 (199)
T ss_pred CHHHHHHHHHHHhCCCcEEEEcCCchhhHHHHHhhchhHHHhcCEEEEecccC
Confidence 456777778888899999999876655443322221 256777776653
No 472
>PRK07671 cystathionine beta-lyase; Provisional
Probab=24.98 E-value=3.3e+02 Score=22.47 Aligned_cols=66 Identities=12% Similarity=0.161 Sum_probs=38.6
Q ss_pred HHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchh-HHHHHHHHHHHHhCCceEEEec
Q psy6650 74 LDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFG-KVRDQNIMTLCRELNIEVIARV 140 (156)
Q Consensus 74 L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~-~~~d~~v~~~l~~~~i~~~~~~ 140 (156)
+.+.++..|+.+..+.....+.+.+.+.. +...|+++....|.. ..-.++|.+.+++.|+.+..-+
T Consensus 105 ~~~~~~~~G~~v~~v~~~d~~~l~~ai~~-~tklV~le~P~NPtg~~~dl~~I~~la~~~g~~lvvD~ 171 (377)
T PRK07671 105 MTKVLNRFGIEHTFVDTSNLEEVEEAIRP-NTKAIYVETPTNPLLKITDIKKISTIAKEKGLLTIVDN 171 (377)
T ss_pred HHHHHhcCCeEEEEECCCCHHHHHHhcCC-CCeEEEEECCCCCCCcccCHHHHHHHHHHcCCEEEEEC
Confidence 33445667888777765555556665543 445667654444432 2234567777777787665433
No 473
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=24.92 E-value=2.7e+02 Score=20.16 Aligned_cols=60 Identities=23% Similarity=0.366 Sum_probs=36.1
Q ss_pred cceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcC------hHH---HHHHHHH-HcCcCeEEEc
Q psy6650 42 TFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQ------PAD---ILPKLFK-EWKTTCLTFE 111 (156)
Q Consensus 42 ~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~------~~~---~l~~l~~-~~~~~~V~~~ 111 (156)
|-+++|.-||..+... -+-+.+|.+.|+++ +.| +.+ +.+ .+.+++- +-+++.++|+
T Consensus 9 PelviYtk~P~~~~~~----------~dli~~lAk~lrKR---Ivv-R~dps~l~~~e~A~~~I~~ivP~ea~i~di~Fd 74 (145)
T cd02410 9 PELVVYTKNPELFAED----------GDLVKDLAKDLRKR---IVI-RPDPSVLKPPEEAIKIILEIVPEEAGITDIYFD 74 (145)
T ss_pred CeEEEEECCHHHHhcc----------cHHHHHHHHHHhce---EEE-cCChhhcCCHHHHHHHHHHhCCCccCceeeEec
Confidence 6678999988543211 13467788888875 444 333 233 3333332 2488999998
Q ss_pred ccCC
Q psy6650 112 EDPE 115 (156)
Q Consensus 112 ~~~~ 115 (156)
.+.+
T Consensus 75 ~~tG 78 (145)
T cd02410 75 DDTG 78 (145)
T ss_pred CCCc
Confidence 8753
No 474
>PTZ00056 glutathione peroxidase; Provisional
Probab=24.90 E-value=2.1e+02 Score=21.36 Aligned_cols=43 Identities=12% Similarity=0.116 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEc--------ChHHHHHHHHHHcCcCeEEE
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRG--------QPADILPKLFKEWKTTCLTF 110 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g--------~~~~~l~~l~~~~~~~~V~~ 110 (156)
+..|.+|.++++..|..++-+.. +..+.+.+++++++++--++
T Consensus 58 ~p~L~~l~~~~~~~g~~vvgv~~~~~~~~e~d~~e~~~~f~~~~~~~fpvl 108 (199)
T PTZ00056 58 VDQMNRLHSVFNPLGLEILAFPTSQFLNQEFPNTKDIRKFNDKNKIKYNFF 108 (199)
T ss_pred HHHHHHHHHHHhcCceEEEEecchhccCCCCCCHHHHHHHHHHcCCCceee
Confidence 47789999999988988776642 34567888999988765443
No 475
>PRK05692 hydroxymethylglutaryl-CoA lyase; Provisional
Probab=24.83 E-value=3.6e+02 Score=21.51 Aligned_cols=111 Identities=9% Similarity=-0.002 Sum_probs=58.8
Q ss_pred HHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEE--E--EcC------hHHHHHHHH
Q psy6650 31 PSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFV--I--RGQ------PADILPKLF 100 (156)
Q Consensus 31 ~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v--~--~g~------~~~~l~~l~ 100 (156)
..+..|.+.+-..+.+|+--.+.....+.+..+ ....+.+.+.-+..++.|..... . .|. +.+.+.+++
T Consensus 83 ~~ie~A~~~g~~~v~i~~~~s~~~~~~n~~~~~-~e~l~~~~~~v~~ak~~g~~v~~~i~~~~~~~~~~~~~~~~~~~~~ 161 (287)
T PRK05692 83 KGLEAALAAGADEVAVFASASEAFSQKNINCSI-AESLERFEPVAEAAKQAGVRVRGYVSCVLGCPYEGEVPPEAVADVA 161 (287)
T ss_pred HHHHHHHHcCCCEEEEEEecCHHHHHHHhCCCH-HHHHHHHHHHHHHHHHcCCEEEEEEEEEecCCCCCCCCHHHHHHHH
Confidence 346677766655555664322111111223223 34445566666667778876532 1 121 234444454
Q ss_pred H---HcCcCeEEEcccCCchhHHHHHHHHHHHHhC----CceEEEecCC
Q psy6650 101 K---EWKTTCLTFEEDPEPFGKVRDQNIMTLCREL----NIEVIARVSH 142 (156)
Q Consensus 101 ~---~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~----~i~~~~~~~~ 142 (156)
+ +.|++.|+..+..+.-...+..++-+.+++. .+.+|.+++.
T Consensus 162 ~~~~~~G~d~i~l~DT~G~~~P~~v~~lv~~l~~~~~~~~i~~H~Hn~~ 210 (287)
T PRK05692 162 ERLFALGCYEISLGDTIGVGTPGQVRAVLEAVLAEFPAERLAGHFHDTY 210 (287)
T ss_pred HHHHHcCCcEEEeccccCccCHHHHHHHHHHHHHhCCCCeEEEEecCCC
Confidence 4 4799999998888766555555454444332 3555655554
No 476
>PTZ00372 endonuclease 4-like protein; Provisional
Probab=24.81 E-value=4.4e+02 Score=22.50 Aligned_cols=92 Identities=10% Similarity=0.012 Sum_probs=0.0
Q ss_pred HHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeE--EEEEcC------------------
Q psy6650 32 SLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRL--FVIRGQ------------------ 91 (156)
Q Consensus 32 aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L--~v~~g~------------------ 91 (156)
|+.+|.+-+...+-+|.-+|..|.....++... ..+++.+++.|+.+ ++.++.
T Consensus 146 a~~~a~~~g~~afqiF~~npr~w~~~~~~~~~~-------~~f~~~~~~~gi~~~~i~~HapYlINLASpd~e~rekSv~ 218 (413)
T PTZ00372 146 SPINAYNIAGQAFALFLKNQRTWNSPPLSDETI-------DKFKENCKKYNYDPKFILPHGSYLINLANPDKEKREKSYD 218 (413)
T ss_pred HHHHHHHcCCCEEEEEcCCCccCCCCCCCHHHH-------HHHHHHHHHcCCCcceEEeecCceecCCCCCHHHHHHHHH
Q ss_pred hHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHH
Q psy6650 92 PADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCR 130 (156)
Q Consensus 92 ~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~ 130 (156)
....-.+.|++.|+..|+++-.+......+++.+....+
T Consensus 219 ~~~~eL~rA~~LGa~~VV~HPGs~~~~~~~ee~i~~i~e 257 (413)
T PTZ00372 219 AFLDDLQRCEQLGIKLYNFHPGSTVGQCSKEEGIKNIAD 257 (413)
T ss_pred HHHHHHHHHHHcCCCEEEECCCcCCCCCCHHHHHHHHHH
No 477
>PRK09545 znuA high-affinity zinc transporter periplasmic component; Reviewed
Probab=24.77 E-value=2.3e+02 Score=22.80 Aligned_cols=39 Identities=10% Similarity=0.069 Sum_probs=18.5
Q ss_pred HHHHHHHHHhCCCeEEEEE-cChHHHHHHHHHHcCcCeEE
Q psy6650 71 LEDLDINLRKLNSRLFVIR-GQPADILPKLFKEWKTTCLT 109 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~-g~~~~~l~~l~~~~~~~~V~ 109 (156)
|.++.+.+++.|++.++.. ..+......|+++.++..++
T Consensus 241 l~~l~~~ik~~~v~~If~e~~~~~~~~~~la~e~g~~v~~ 280 (311)
T PRK09545 241 LHEIRTQLVEQKATCVFAEPQFRPAVIESVAKGTSVRMGT 280 (311)
T ss_pred HHHHHHHHHHcCCCEEEecCCCChHHHHHHHHhcCCeEEE
Confidence 4444455555555555443 22334445555555554433
No 478
>PF10881 DUF2726: Protein of unknown function (DUF2726); InterPro: IPR024402 This domain found in bacterial proteins has no known function.
Probab=24.72 E-value=49 Score=22.68 Aligned_cols=35 Identities=17% Similarity=0.227 Sum_probs=26.5
Q ss_pred chhHHHHHHHHHHHHhCCceEEEecCCeeecCCCC
Q psy6650 116 PFGKVRDQNIMTLCRELNIEVIARVSHTLYDLDQL 150 (156)
Q Consensus 116 ~~~~~~d~~v~~~l~~~~i~~~~~~~~~L~~~~~l 150 (156)
+....||.-..+.|+..||++..+.........+|
T Consensus 84 ~~~~~rD~~k~~~l~~agiplir~~~~~~~~~~~l 118 (126)
T PF10881_consen 84 EKRQERDEFKDRVLKKAGIPLIRISPKDSYSVEEL 118 (126)
T ss_pred hhhHHHHHHHHHHHHHCCCCEEEEeCCCCCCHHHH
Confidence 35678888888899999999999977666555443
No 479
>cd08186 Fe-ADH8 Iron-containing alcohol dehydrogenase. Type III Iron-containing alcohol dehydrogenases (ADH). Alcohol dehydrogenase catalyzes the reduction of acetaldehyde to alcohol with NADP as cofactor. The ADH of hyperthermophilic archaeon Thermococcus hydrothermalis oxidizes a series of primary aliphatic and aromatic alcohols preferentially from C2 to C8 but is also active towards methanol and glycerol and stereospecific for monoterpenes. It was suggested that the type III ADHs in microorganisms are involved in acetaldehyde detoxication rather than in alcohol turnover.
Probab=24.68 E-value=4e+02 Score=22.00 Aligned_cols=12 Identities=25% Similarity=0.445 Sum_probs=5.9
Q ss_pred HHHHHHHHHHhC
Q psy6650 70 CLEDLDINLRKL 81 (156)
Q Consensus 70 sL~~L~~~L~~~ 81 (156)
++.+|.+.|+++
T Consensus 10 ~~~~l~~~l~~~ 21 (383)
T cd08186 10 AIEKIGEILKDL 21 (383)
T ss_pred HHHHHHHHHHHh
Confidence 344555555544
No 480
>cd02985 TRX_CDSP32 TRX family, chloroplastic drought-induced stress protein of 32 kD (CDSP32); CDSP32 is composed of two TRX domains, a C-terminal TRX domain which contains a redox active CXXC motif and an N-terminal TRX-like domain which contains an SXXS sequence instead of the redox active motif. CDSP32 is a stress-inducible TRX, i.e., it acts as a TRX by reducing protein disulfides and is induced by environmental and oxidative stress conditions. It plays a critical role in plastid defense against oxidative damage, a role related to its function as a physiological electron donor to BAS1, a plastidic 2-cys peroxiredoxin. Plants lacking CDSP32 exhibit decreased photosystem II photochemical efficiencies and chlorophyll retention compared to WT controls, as well as an increased proportion of BAS1 in its overoxidized monomeric form.
Probab=24.64 E-value=2e+02 Score=18.59 Aligned_cols=66 Identities=15% Similarity=0.100 Sum_probs=39.0
Q ss_pred HHHHHHhc-CCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 32 SLREGLKG-CTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 32 aL~~A~~~-~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
-|..++.. ...++.|+++-++ .++-+ -+...|.+|.+++ -++.+..+.++..+....+++++++..
T Consensus 5 ~~~~~i~~~~~k~vvv~F~a~w------C~~C~--~~~p~l~~la~~~--~~v~~~~vd~d~~~~~~~l~~~~~V~~ 71 (103)
T cd02985 5 ELDEALKKAKGRLVVLEFALKH------SGPSV--KIYPTMVKLSRTC--NDVVFLLVNGDENDSTMELCRREKIIE 71 (103)
T ss_pred HHHHHHHHcCCCEEEEEEECCC------CHhHH--HHhHHHHHHHHHC--CCCEEEEEECCCChHHHHHHHHcCCCc
Confidence 34444432 2456667777653 22222 3457777787776 356666666665555567888887764
No 481
>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=24.58 E-value=2.4e+02 Score=22.28 Aligned_cols=38 Identities=8% Similarity=0.017 Sum_probs=16.6
Q ss_pred HHHHHHHHHhCCCeEEEEEc-ChHHHHHHHHHHcCcCeE
Q psy6650 71 LEDLDINLRKLNSRLFVIRG-QPADILPKLFKEWKTTCL 108 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g-~~~~~l~~l~~~~~~~~V 108 (156)
|..+.+.+++.|++.++... .+......|+++.++..+
T Consensus 217 l~~l~~~ik~~~v~~If~e~~~~~~~~~~ia~~~g~~v~ 255 (286)
T cd01019 217 LAKIRKEIKEKGATCVFAEPQFHPKIAETLAEGTGAKVG 255 (286)
T ss_pred HHHHHHHHHHcCCcEEEecCCCChHHHHHHHHhcCceEE
Confidence 33444444444555444432 233444445545444333
No 482
>PHA02594 nadV nicotinamide phosphoribosyl transferase; Provisional
Probab=24.56 E-value=4.7e+02 Score=22.77 Aligned_cols=59 Identities=19% Similarity=0.219 Sum_probs=36.1
Q ss_pred HHHHHHHHhCCCeEEEE--EcChHHHHHHHHHHc-----------------CcCeEEEcccCCchhHHHHHHHHHHHHhC
Q psy6650 72 EDLDINLRKLNSRLFVI--RGQPADILPKLFKEW-----------------KTTCLTFEEDPEPFGKVRDQNIMTLCREL 132 (156)
Q Consensus 72 ~~L~~~L~~~g~~L~v~--~g~~~~~l~~l~~~~-----------------~~~~V~~~~~~~~~~~~~d~~v~~~l~~~ 132 (156)
-+|+.++.++|..+.|+ .||+.+...+..+.. .-..|+...+...+ +.+++.+.+++.
T Consensus 282 ~~l~~~i~~~~~~l~IR~DSGD~~~l~~~~~~~L~~~FG~~ln~~G~kvL~~~v~Ii~gd~ide~---~i~~il~~L~~~ 358 (470)
T PHA02594 282 PELKDEIMARGGKLVIRPDSGDPVDIICGALETLGEIFGGTVNSKGYKVLDEHVRLIQGDGITLE---RINRILTRMKEN 358 (470)
T ss_pred HHHHHHHHhCCCcEEEeCCCCCHHHHHHHHHHHHHHhcCCcccCccccccCCCeEEEEcCCCCHH---HHHHHHHHHHHC
Confidence 38888888888888666 499988755433332 22345666655433 334555556666
Q ss_pred C
Q psy6650 133 N 133 (156)
Q Consensus 133 ~ 133 (156)
|
T Consensus 359 G 359 (470)
T PHA02594 359 G 359 (470)
T ss_pred C
Confidence 6
No 483
>cd08176 LPO Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. Lactadehyde:propanediol oxidoreductase (LPO) is a member of the group III iron-activated dehydrogenases which catalyze the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria. L-Fucose and L-rhamnose is used by Escherichia coli through an inducible pathway mediated by the fucose regulon comprising four linked oeprons fucO, fucA, fucPIK, and fucR. The fucA-encoded aldolase catalyzes the formation of dihydroxyacetone phosphate and L-lactaldehyde. Under anaerobic conditions, with NADH as a cofactor, lactaldehyde is converted by a fucO-encoded Lactadehyde:propanediol oxidoreductase (LPO) to L-1,2-propanediol, which is excreted as a fermentation product. In mutant strains, E. coli adapted to grow on L-1,2-propanediol, FucO catalyzes the oxidation of the polyol to
Probab=24.55 E-value=4e+02 Score=21.93 Aligned_cols=44 Identities=14% Similarity=0.136 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHhCCCeEEEEEc---Ch-HHHH---HHHHHHcCcCeEEEcc
Q psy6650 69 QCLEDLDINLRKLNSRLFVIRG---QP-ADIL---PKLFKEWKTTCLTFEE 112 (156)
Q Consensus 69 ~sL~~L~~~L~~~g~~L~v~~g---~~-~~~l---~~l~~~~~~~~V~~~~ 112 (156)
..+..+.+.|++.|+...++.| +| .+.+ .+.+++.+++.|+.=-
T Consensus 43 ~~~~~v~~~L~~~~~~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIavG 93 (377)
T cd08176 43 GVVEKVTDVLDEAGIDYVIYDGVKPNPTITNVKDGLAVFKKEGCDFIISIG 93 (377)
T ss_pred CcHHHHHHHHHHcCCeEEEeCCCCCCCCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 3567788889888998877755 33 2333 3455567888887543
No 484
>COG2454 Uncharacterized conserved protein [Function unknown]
Probab=24.51 E-value=1.4e+02 Score=22.97 Aligned_cols=41 Identities=15% Similarity=0.175 Sum_probs=16.4
Q ss_pred HHHHHHHHcCcCeE-EEcccCCchhHHHHHHHHHHHHhCCce
Q psy6650 95 ILPKLFKEWKTTCL-TFEEDPEPFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 95 ~l~~l~~~~~~~~V-~~~~~~~~~~~~~d~~v~~~l~~~~i~ 135 (156)
.+..+++++++..+ |.-....+..-+.-..+++.+++.+|+
T Consensus 118 lil~~lk~~~~k~vi~L~d~~vs~SGel~~~i~~~mK~~~I~ 159 (211)
T COG2454 118 LLLEFLKDVEPKSVIFLFDAPVSKSGELAGRIEEKMKSLGIP 159 (211)
T ss_pred HHHHHHHHcCCceEEEEeCCCCCccHHHHHHHHHHHHhcCCC
Confidence 34444555555444 222222222222333444444444444
No 485
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=24.51 E-value=3e+02 Score=20.41 Aligned_cols=71 Identities=11% Similarity=0.147 Sum_probs=43.0
Q ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEcC--hH---HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEEEe
Q psy6650 65 RFLLQCLEDLDINLRKLNSRLFVIRGQ--PA---DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVIAR 139 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~g~~L~v~~g~--~~---~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~~~ 139 (156)
.|+.+-+..+++.+++.|..+.+..+. +. +.+..+.+ .+++.|++.... .... ..+ +.+.+.|++++.+
T Consensus 12 ~~~~~~~~g~~~~a~~~g~~~~~~~~~~~~~~~~~~i~~~~~-~~vdgiii~~~~-~~~~---~~~-~~~~~~~ipvV~~ 85 (268)
T cd06289 12 PFFAELAAGLEEVLEEAGYTVFLANSGEDVERQEQLLSTMLE-HGVAGIILCPAA-GTSP---DLL-KRLAESGIPVVLV 85 (268)
T ss_pred chHHHHHHHHHHHHHHcCCeEEEecCCCChHHHHHHHHHHHH-cCCCEEEEeCCC-CccH---HHH-HHHHhcCCCEEEE
Confidence 366667777778888899998877532 32 23444443 578888776432 2111 122 3445578999888
Q ss_pred cC
Q psy6650 140 VS 141 (156)
Q Consensus 140 ~~ 141 (156)
+.
T Consensus 86 ~~ 87 (268)
T cd06289 86 AR 87 (268)
T ss_pred ec
Confidence 64
No 486
>cd06311 PBP1_ABC_sugar_binding_like_3 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=24.39 E-value=3.1e+02 Score=20.60 Aligned_cols=73 Identities=12% Similarity=0.110 Sum_probs=41.8
Q ss_pred HHHHHHHHHHHHHHHhC-----CCeEEEEEc--ChHH--HHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCce
Q psy6650 65 RFLLQCLEDLDINLRKL-----NSRLFVIRG--QPAD--ILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIE 135 (156)
Q Consensus 65 ~Fl~~sL~~L~~~L~~~-----g~~L~v~~g--~~~~--~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~ 135 (156)
.|+.+-+..+++.++++ |..+.+..+ ++.. .+.+.+...+++.|++... .+.. ....+.+ +.+.||+
T Consensus 12 ~f~~~~~~gi~~~a~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~l~~~~vDgiii~~~-~~~~--~~~~i~~-~~~~gIp 87 (274)
T cd06311 12 GWTAGIVWHAQAAAKKLEAAYPDVEFILVTASNDTEQQNAQQDLLINRKIDALVILPF-ESAP--LTQPVAK-AKKAGIF 87 (274)
T ss_pred cHHHHHHHHHHHHHHHhhhhCCCeEEEEEcCCCCHHHHHHHHHHHHHcCCCEEEEeCC-Cchh--hHHHHHH-HHHCCCe
Confidence 36767777777777775 577777654 2221 2233233457888877532 1221 1123333 3457999
Q ss_pred EEEecC
Q psy6650 136 VIARVS 141 (156)
Q Consensus 136 ~~~~~~ 141 (156)
+..++.
T Consensus 88 vV~~d~ 93 (274)
T cd06311 88 VVVVDR 93 (274)
T ss_pred EEEEcC
Confidence 998875
No 487
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=24.38 E-value=2.6e+02 Score=19.66 Aligned_cols=52 Identities=15% Similarity=0.096 Sum_probs=27.1
Q ss_pred ChHHHHHHHHHHcCcCeEEEcccCCc-----hhHHHHHHHHHHHHhC--CceEEEecCC
Q psy6650 91 QPADILPKLFKEWKTTCLTFEEDPEP-----FGKVRDQNIMTLCREL--NIEVIARVSH 142 (156)
Q Consensus 91 ~~~~~l~~l~~~~~~~~V~~~~~~~~-----~~~~~d~~v~~~l~~~--~i~~~~~~~~ 142 (156)
...+.|.+++++++++.|++--.... ...++.++..+.|++. +++++.++.+
T Consensus 38 ~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~~~~~~v~~f~~~L~~~~~~ipV~~~DEr 96 (135)
T PF03652_consen 38 KDIEELKKLIEEYQIDGIVVGLPLNMDGSESEQARRVRKFAEELKKRFPGIPVILVDER 96 (135)
T ss_dssp CCHHHHHHHHHHCCECEEEEEEEBBCTSSC-CCHHHHHHHHHHHHHHH-TSEEEEEECS
T ss_pred hHHHHHHHHHHHhCCCEEEEeCCcccCCCccHHHHHHHHHHHHHHHhcCCCcEEEECCC
Confidence 45567777777777777776443311 1112222333333332 7777766544
No 488
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=24.36 E-value=3.3e+02 Score=20.88 Aligned_cols=103 Identities=16% Similarity=0.102 Sum_probs=0.0
Q ss_pred cccHHHHHHHhcCCcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCe
Q psy6650 28 HDNPSLREGLKGCTTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTC 107 (156)
Q Consensus 28 ~DN~aL~~A~~~~~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~ 107 (156)
.|-.+|..|.+.+ + +.+++++..+. .|..|= .++-+.|++.+..|+++.|-.--.=+.+++.+.-.-
T Consensus 38 ~~A~~lerA~~~g--I-pt~~~~~k~~~------~r~~~d----~~l~~~l~~~~~dlvvLAGyMrIL~~~fl~~~~grI 104 (200)
T COG0299 38 ADAYALERAAKAG--I-PTVVLDRKEFP------SREAFD----RALVEALDEYGPDLVVLAGYMRILGPEFLSRFEGRI 104 (200)
T ss_pred CCCHHHHHHHHcC--C-CEEEeccccCC------CHHHHH----HHHHHHHHhcCCCEEEEcchHHHcCHHHHHHhhcce
Q ss_pred EEEcccCCch---hHHHHHHHHHHHHhCCceEEEecCCe
Q psy6650 108 LTFEEDPEPF---GKVRDQNIMTLCRELNIEVIARVSHT 143 (156)
Q Consensus 108 V~~~~~~~~~---~~~~d~~v~~~l~~~~i~~~~~~~~~ 143 (156)
|-.+-..-|. -....+.+..-.+..|+++|.++...
T Consensus 105 lNIHPSLLP~f~G~h~~~~A~~aG~k~sG~TVH~V~e~v 143 (200)
T COG0299 105 LNIHPSLLPAFPGLHAHEQALEAGVKVSGCTVHFVTEGV 143 (200)
T ss_pred EecCcccccCCCCchHHHHHHHcCCCccCcEEEEEccCC
No 489
>PRK07503 methionine gamma-lyase; Provisional
Probab=24.31 E-value=3.2e+02 Score=22.74 Aligned_cols=65 Identities=14% Similarity=0.163 Sum_probs=36.9
Q ss_pred HHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhH-HHHHHHHHHHHhCCceEEEecC
Q psy6650 76 INLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGK-VRDQNIMTLCRELNIEVIARVS 141 (156)
Q Consensus 76 ~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~-~~d~~v~~~l~~~~i~~~~~~~ 141 (156)
..++..|+.+..+.....+.+.+.+.. +...|+++....|... .-.++|.+.+++.|+.+..-+.
T Consensus 123 ~~~~~~G~~v~~vd~~d~~~l~~~i~~-~tklV~le~p~NPtG~~~di~~I~~la~~~gi~lIvD~a 188 (403)
T PRK07503 123 HGLGEFGVTVRHVDLTDPAALKAAISD-KTRMVYFETPANPNMRLVDIAAVAEIAHGAGAKVVVDNT 188 (403)
T ss_pred HHHhhCCEEEEEeCCCCHHHHHHhcCc-cCcEEEEeCCCCCCCeeeCHHHHHHHHHHcCCEEEEECC
Confidence 345567887776655444556555543 4556776433333222 1235677778778887665443
No 490
>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=24.30 E-value=2.6e+02 Score=23.93 Aligned_cols=59 Identities=10% Similarity=0.142 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHhCCCe-EEEEEcChHHHHHHHHHHcCcCeEEEcccCCchhHHHHHHH
Q psy6650 67 LLQCLEDLDINLRKLNSR-LFVIRGQPADILPKLFKEWKTTCLTFEEDPEPFGKVRDQNI 125 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~-L~v~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v 125 (156)
.-+++.+.+++.+..|+. ..+..|+..+.+++.-+.+..+.|+++-.=..-.....+.+
T Consensus 324 ~~~aV~~A~~NA~~n~i~N~~f~~~~ae~~~~~~~~~~~~d~VvvDPPR~G~~~~~lk~l 383 (432)
T COG2265 324 SPEAVEAAQENAAANGIDNVEFIAGDAEEFTPAWWEGYKPDVVVVDPPRAGADREVLKQL 383 (432)
T ss_pred CHHHHHHHHHHHHHcCCCcEEEEeCCHHHHhhhccccCCCCEEEECCCCCCCCHHHHHHH
Confidence 457888888888888877 77788888888777766667888888755444443333333
No 491
>PF05822 UMPH-1: Pyrimidine 5'-nucleotidase (UMPH-1); InterPro: IPR006434 This family is a small group of metazoan sequences with sequences from Arabidopsis thaliana (Mouse-ear cress) and rice. The sequences represent pyrimidine 5-nucleotidases, apparently in reference to HSPC233, the Homo sapiens (Human) homologue []. The structure of mouse sequence has been reported []. This group of sequences was originally found during searches for members of the haloacid dehalogenase (HAD) superfamily (IPR005834 from INTERPRO). All of the conserved catalytic motifs [] are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches of that subfamily (IA-ID) as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.; GO: 0000287 magnesium ion binding, 0008253 5'-nucleotidase activity, 0005737 cytoplasm; PDB: 2BDU_B 2G07_A 2G06_A 2G0A_A 2Q4T_A 2G09_A 2G08_A 2VKQ_A 2CN1_A 2JGA_A.
Probab=24.24 E-value=70 Score=25.27 Aligned_cols=37 Identities=16% Similarity=0.286 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHHhCCCeEEEEEcChHHHHHHHHHHc
Q psy6650 67 LLQCLEDLDINLRKLNSRLFVIRGQPADILPKLFKEW 103 (156)
Q Consensus 67 l~~sL~~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~ 103 (156)
|.++..++=+.|.+.++|++|+.+--.++|....++.
T Consensus 91 LRdg~~~~f~~L~~~~IP~lIFSAGlgdvI~~vL~q~ 127 (246)
T PF05822_consen 91 LRDGVEEFFDKLEEHNIPLLIFSAGLGDVIEEVLRQA 127 (246)
T ss_dssp B-BTHHHHHHHHHCTT--EEEEEEEEHHHHHHHHHHT
T ss_pred hhcCHHHHHHHHHhcCCCEEEEeCCcHHHHHHHHHHc
Confidence 4456677778899999999999866667777777664
No 492
>PF00248 Aldo_ket_red: Aldo/keto reductase family; InterPro: IPR023210 The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others []. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins []. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones []. Binding of the NADPH coenzyme causes a massive conformational change, reorienting a loop, effectively locking the coenzyme in place. This binding is more similar to FAD- than to NAD(P)-binding oxidoreductases []. Some proteins of this entry contain a K+ ion channel beta chain regulatory domain; these are reported to have oxidoreductase activity []. This entry represents the NADP-dependent oxidoreductase domain found in these proteins.; PDB: 1C9W_A 4F40_B 1VBJ_A 1XGD_A 1X97_A 2ACS_A 1EF3_A 2ACU_A 1PWM_A 2NVD_A ....
Probab=24.22 E-value=3.3e+02 Score=20.88 Aligned_cols=92 Identities=15% Similarity=0.174 Sum_probs=49.8
Q ss_pred CcceEEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEE-EEcChHHHHHHHHHHcCcCeEEEcccCCchhH
Q psy6650 41 TTFRCVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFV-IRGQPADILPKLFKEWKTTCLTFEEDPEPFGK 119 (156)
Q Consensus 41 ~~vi~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v-~~g~~~~~l~~l~~~~~~~~V~~~~~~~~~~~ 119 (156)
+.+=.+++..|.... ....=..+.|.+| ++.|.--.+ +.+...+.+..+.+...+.-++..-.|.+..+
T Consensus 98 d~iDl~~lH~~~~~~------~~~~~~~~~l~~l----~~~G~ir~iGvs~~~~~~l~~~~~~~~~~~~~~q~~~n~~~~ 167 (283)
T PF00248_consen 98 DYIDLLLLHWPDPSE------DALEEVWEALEEL----KKEGKIRHIGVSNFSPEQLEAALKIGSIPPDVVQINYNLLNR 167 (283)
T ss_dssp SSEEEEEESSSSTTS------SHHHHHHHHHHHH----HHTTSEEEEEEES--HHHHHHHHTCTSS-ESEEEEE-BTTBH
T ss_pred cchhccccccccccc------cccchhhhhhhhc----cccccccccccccccccccccccccccccccccccccccccc
Confidence 566666766654321 1122223444444 345644333 44556777777744444444455566666655
Q ss_pred HHHHHHHHHHHhCCceEEEecCC
Q psy6650 120 VRDQNIMTLCRELNIEVIARVSH 142 (156)
Q Consensus 120 ~~d~~v~~~l~~~~i~~~~~~~~ 142 (156)
..++.+...|.+.||.+..+..-
T Consensus 168 ~~~~~l~~~~~~~gi~v~a~~~l 190 (283)
T PF00248_consen 168 REEEGLLEFCREHGIGVIAYSPL 190 (283)
T ss_dssp BGGHHHHHHHHHTT-EEEEESTT
T ss_pred ccccccccccccccccccccccc
Confidence 66677888898899999877543
No 493
>cd07388 MPP_Tt1561 Thermus thermophilus Tt1561 and related proteins, metallophosphatase domain. This family includes bacterial proteins related to Tt1561 (also known as Aq1956 in Aquifex aeolicus), an uncharacterized Thermus thermophilus protein. The conserved domain present in members of this family belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal active site made up of residues located at the C-terminal side of the sheets,
Probab=24.17 E-value=3.4e+02 Score=20.91 Aligned_cols=23 Identities=22% Similarity=0.144 Sum_probs=15.1
Q ss_pred HHHHHHHHHHhCCCeEEEEEcCh
Q psy6650 70 CLEDLDINLRKLNSRLFVIRGQP 92 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g~~ 92 (156)
.++.+-+.+++.+..++|..||-
T Consensus 19 ~le~l~~~~~~~~~D~vv~~GDl 41 (224)
T cd07388 19 ALEKLVGLAPETGADAIVLIGNL 41 (224)
T ss_pred HHHHHHHHHhhcCCCEEEECCCC
Confidence 33444444556789999998764
No 494
>PLN02433 uroporphyrinogen decarboxylase
Probab=24.09 E-value=3.9e+02 Score=21.69 Aligned_cols=65 Identities=15% Similarity=0.252 Sum_probs=39.6
Q ss_pred EEEEeCCCCcCCCCCCcch-HHHHHHHHHHHHHHHHhC--CCeEEEE-EcChHHHHHHHHHHcCcCeEEEcccC
Q psy6650 45 CVFILDPWFAGSSNVGINK-WRFLLQCLEDLDINLRKL--NSRLFVI-RGQPADILPKLFKEWKTTCLTFEEDP 114 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r-~~Fl~~sL~~L~~~L~~~--g~~L~v~-~g~~~~~l~~l~~~~~~~~V~~~~~~ 114 (156)
.+.++|+. .. ..++.. .+|..-.++.+-+.+++. |++..+. .|.. ..++. ..+++++.+.++...
T Consensus 195 ~i~i~d~~--~~-~lsp~~f~ef~~P~~k~i~~~i~~~~~~~~~ilh~cG~~-~~~~~-~~~~~~~~i~~d~~~ 263 (345)
T PLN02433 195 VVQIFDSW--AG-HLSPVDFEEFSKPYLEKIVDEVKARHPDVPLILYANGSG-GLLER-LAGTGVDVIGLDWTV 263 (345)
T ss_pred EEEEecCc--cc-cCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEeCCCH-HHHHH-HHhcCCCEEEcCCCC
Confidence 56677772 11 233332 457788888888888876 4554444 5654 45554 455688877665554
No 495
>PRK10624 L-1,2-propanediol oxidoreductase; Provisional
Probab=24.02 E-value=4.2e+02 Score=21.92 Aligned_cols=41 Identities=15% Similarity=0.201 Sum_probs=26.8
Q ss_pred HHHHHHHHHhCCCeEEEEEc---Ch-HHHHH---HHHHHcCcCeEEEc
Q psy6650 71 LEDLDINLRKLNSRLFVIRG---QP-ADILP---KLFKEWKTTCLTFE 111 (156)
Q Consensus 71 L~~L~~~L~~~g~~L~v~~g---~~-~~~l~---~l~~~~~~~~V~~~ 111 (156)
+..+...|++.|+...++.+ +| .+.+. +++++.+++.|+.=
T Consensus 47 ~~~v~~~L~~~g~~~~~~~~v~~~p~~~~v~~~~~~~~~~~~D~IIai 94 (382)
T PRK10624 47 VAKVTDVLDAAGLAYEIYDGVKPNPTIEVVKEGVEVFKASGADYLIAI 94 (382)
T ss_pred hHHHHHHHHHCCCeEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEe
Confidence 55678888888988877643 22 33333 45566788877743
No 496
>PLN02412 probable glutathione peroxidase
Probab=24.01 E-value=2.5e+02 Score=20.18 Aligned_cols=40 Identities=10% Similarity=0.130 Sum_probs=28.3
Q ss_pred HHHHHHHHHHHHhCCCeEEEEEc---------ChHHHHHHHHHHcCcCe
Q psy6650 68 LQCLEDLDINLRKLNSRLFVIRG---------QPADILPKLFKEWKTTC 107 (156)
Q Consensus 68 ~~sL~~L~~~L~~~g~~L~v~~g---------~~~~~l~~l~~~~~~~~ 107 (156)
+..|.+|.++++..|..++-+.. ++.+....++++++++-
T Consensus 48 ~~~l~~l~~~~~~~g~~vvgv~~~~~~~~~~~~~~~~~~~~~~~~~~~f 96 (167)
T PLN02412 48 YKELNVLYEKYKEQGFEILAFPCNQFLGQEPGSNEEIQQTVCTRFKAEF 96 (167)
T ss_pred HHHHHHHHHHHhhCCcEEEEecccccccCCCCCHHHHHHHHHHccCCCC
Confidence 46789999999999988887752 23344555567777653
No 497
>cd08556 GDPD Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins. The typical glycerophosphodiester phosphodiesterase domain (GDPD) consists of a TIM barrel and a small insertion domain named the GDPD-insertion (GDPD-I) domain, which is specific for GDPD proteins. This family corresponds to both typical GDPD domain and GDPD-like domain which lacks the GDPD-I region. Members in this family mainly consist of a large family of prokaryotic and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), and a number of uncharacterized homologs. Sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria are also included in this family. GDPD plays an essential role in glycerol metabolism and catalyzes the hydrolysis of glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcoho
Probab=23.97 E-value=2.5e+02 Score=19.88 Aligned_cols=38 Identities=8% Similarity=0.087 Sum_probs=17.1
Q ss_pred HHHHHHHhCCCeEEEEEcChHHHHHHHHHHcCcCeEEEc
Q psy6650 73 DLDINLRKLNSRLFVIRGQPADILPKLFKEWKTTCLTFE 111 (156)
Q Consensus 73 ~L~~~L~~~g~~L~v~~g~~~~~l~~l~~~~~~~~V~~~ 111 (156)
.+-+.+++.|.++.+..-+..+.+..+. +.|++.|+++
T Consensus 151 ~~i~~~~~~g~~v~~wtvn~~~~~~~~~-~~GVdgI~TD 188 (189)
T cd08556 151 ELVRAAHAAGLKVYVWTVNDPEDARRLL-ALGVDGIITD 188 (189)
T ss_pred HHHHHHHHcCCEEEEEcCCCHHHHHHHH-HCCCCEEecC
Confidence 3344445555555554444444444332 2355555443
No 498
>PF04414 tRNA_deacylase: D-aminoacyl-tRNA deacylase; InterPro: IPR007508 D-aminoacyl-tRNA deacylases hydrolyse the ester bond between the polynucleotide and the D-amino acid, thereby preventing the accumulation of such mis-acylated and metabolically inactive tRNA molecules. Several aminoacyl-tRNA synthetases have the ability to transfer the D-isomer of their amino acid onto their cognate tRNA. ; GO: 0016788 hydrolase activity, acting on ester bonds; PDB: 1YQE_A 2GFQ_B.
Probab=23.94 E-value=2.6e+02 Score=21.55 Aligned_cols=42 Identities=24% Similarity=0.243 Sum_probs=20.1
Q ss_pred HHHHHHHHHcCcCeEEEcccCCchhHHHHHHHHHHHHhCCceEE
Q psy6650 94 DILPKLFKEWKTTCLTFEEDPEPFGKVRDQNIMTLCRELNIEVI 137 (156)
Q Consensus 94 ~~l~~l~~~~~~~~V~~~~~~~~~~~~~d~~v~~~l~~~~i~~~ 137 (156)
++|.+.+++.+++.++++.--...+.+ +++.+.+++.|+++.
T Consensus 171 ~~l~~a~~~s~~~~a~id~K~l~~~~r--~~i~~~l~~~gi~v~ 212 (213)
T PF04414_consen 171 DVLRQAIEKSGADVAIIDWKSLKSEDR--RRIEELLEELGIEVI 212 (213)
T ss_dssp HHHHHHHCHCT-SEEEEETTTS-HHHH--HHHHHHHHHHT-EEE
T ss_pred HHHHHHHHhCCCcEEEEecCCCCHHHH--HHHHHHHHHcCCeee
Confidence 456666666666666665432222211 234455555666654
No 499
>cd08190 HOT Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism. Hydroxyacid-oxoacid transhydrogenase (HOT), also known as D-2-hydroxyglutarate transhydrogenase. It catalyzes the conversion of gamma-hydroxybutyrate (GHB) to succinic semialdehyde (SSA), coupled to the stoichiometric conversion of alpha-ketoglutarate to D-2-hydroxyglutarate in gamma-Hydroxybutyrate catabolism. Unlike many other alcohols, which are oxidized by NAD-linked dehydrogenases, gamma-hydroxybutyrate is metabolized to succinate semialdehyde by hydroxyacid-oxoacid transhydrogenase which does not require free NAD or NADP, but instead using alpha -ketoglutarate as an acceptor, converting it to d-2-hydroxyglutarate. Alpha-ketoglutarate serves as an intermediate acceptor to regenerate NAD(P) required for the oxidation of GHB. HOT also catalyzes the reversible oxidation of a hydroxyacid obligatorily coupled to the reduction of an oxoacid, and requires no cofactor. In mammals, the HOT
Probab=23.90 E-value=4.4e+02 Score=22.13 Aligned_cols=43 Identities=9% Similarity=0.002 Sum_probs=27.6
Q ss_pred HHHHHHHHHHhCCCeEEEEEc---Ch-HHHH---HHHHHHcCcCeEEEcc
Q psy6650 70 CLEDLDINLRKLNSRLFVIRG---QP-ADIL---PKLFKEWKTTCLTFEE 112 (156)
Q Consensus 70 sL~~L~~~L~~~g~~L~v~~g---~~-~~~l---~~l~~~~~~~~V~~~~ 112 (156)
.+..+.+.|++.|+...++.+ +| .+.+ .+++++.+++.|+.=-
T Consensus 39 ~~~~v~~~L~~~gi~~~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIaiG 88 (414)
T cd08190 39 PVKVVLDSLEAAGINFEVYDDVRVEPTDESFKDAIAFAKKGQFDAFVAVG 88 (414)
T ss_pred hHHHHHHHHHHcCCcEEEeCCCCCCcCHHHHHHHHHHHHhcCCCEEEEeC
Confidence 356677778888988877643 32 2333 3455667888886544
No 500
>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []. CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].
Probab=23.87 E-value=3.2e+02 Score=20.51 Aligned_cols=79 Identities=11% Similarity=0.108 Sum_probs=44.3
Q ss_pred EEEEeCCCCcCCCCCCcchHHHHHHHHHHHHHHHHhCCCeEEEEE-------cChHHHHHHHHHHcCcCeEEEcccCCch
Q psy6650 45 CVFILDPWFAGSSNVGINKWRFLLQCLEDLDINLRKLNSRLFVIR-------GQPADILPKLFKEWKTTCLTFEEDPEPF 117 (156)
Q Consensus 45 ~vfi~d~~~~~~~~~~~~r~~Fl~~sL~~L~~~L~~~g~~L~v~~-------g~~~~~l~~l~~~~~~~~V~~~~~~~~~ 117 (156)
.||++|.. +....+....||..++..+----+-|.... +-....+.+|+.+|+..-++++-+.+..
T Consensus 68 IVFvinl~-------sk~SL~~ve~SL~~vd~~fflGKVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~ 140 (176)
T PF11111_consen 68 IVFVINLH-------SKYSLQSVEASLSHVDPSFFLGKVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEG 140 (176)
T ss_pred EEEEEecC-------CcccHHHHHHHHhhCChhhhccceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchH
Confidence 46666642 223445555555555555433112233222 2234567889999999999999877655
Q ss_pred hHHHHHHHHHHHH
Q psy6650 118 GKVRDQNIMTLCR 130 (156)
Q Consensus 118 ~~~~d~~v~~~l~ 130 (156)
-...-+++-+.++
T Consensus 141 ~~~lAqRLL~~lq 153 (176)
T PF11111_consen 141 RTSLAQRLLRMLQ 153 (176)
T ss_pred HHHHHHHHHHHHH
Confidence 4444455544443
Done!